Tracembler Examples
These represent additional datafiles for the published paper:
- Dong, Q., Wilkerson, M.D. & Brendel, V. (2007) Tracembler - software for in silico chromosome walking in unassembled genomes. BMC Bioinformatics 8, 151. [PubMed ID: 17490482] [online abstract]
The following examples were produced using the Tracembler Web Server (http://www.plantgdb.org/tool/tracembler/) on Jan 2, 2007.
Example 1. Recovering rat chrm2 gene and its 5' and 3' upstream regions
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A. chrm2 gene sequence used as query
>ref|NC_005103.2|NC_005103:63911288-63913359 Rattus norvegicus cholinergic receptor, muscarinic 2 (Chrm2) CCCTACAGGTTTAAATGTTTCTTTGGCCACTTGACTACTGAACACAAAATGAATAACTCAACAAACTCCT CGAACAATGGCTTGGCTATTACCAGTCCTTACAAGACATTTGAAGTGGTATTTATTGTCCTTGTGGCTGG ATCCCTCAGTCTGGTGACCATCATTGGGAACATTCTGGTCATGGTTTCCATTAAAGTCAACCGCCACCTT CAGACTGTCAACAATTACTTCTTGTTCAGCCTGGCCTGTGCTGACCTCATCATAGGTGTTTTCTCCATGA ACTTGTATACCCTCTACACTGTGATTGGTTACTGGCCTTTGGGACCTGTAGTATGTGACCTTTGGCTAGC ATTGGACTATGTTGTCAGCAATGCCTCCGTTATGAATCTCCTCATCATCAGCTTTGATAGATACTTCTGT GTCACGAAACCTCTGACCTACCCAGTTAAGCGGACCACAAAAATGGCAGGCATGATGATTGCAGCTGCGT GGGTCCTTTCCTTCATCCTCTGGGCCCCAGCCATTCTCTTCTGGCAGTTCATCGTAGGGGTGAGGACTGT GGAGGATGGGGAGTGCTATATTCAGTTCTTTTCCAATGCGGCCGTCACCTTCGGCACTGCCATTGCAGCT TTCTATCTGCCTGTCATCATCATGACTGTGCTCTATTGGCATATATCCCGGGCAAGCAAGAGTAGAATAA AGAAGGAAAAGAAGGAACCTGTGGCCAACCAAGACCCAGTATCTCCAAGTCTGGTGCAAGGAAGAATTGT AAAGCCAAACAATAACAATATGCCTGGTGGTGATGGCGGCCTGGAACACAACAAGATCCAGAATGGCAAG GCTCCACGGGACGGCGTGACTGAAAACTGTGTTCAGGGGGAGGAGAAAGAGAGCTCCAATGATTCGACGT CAGTCAGTGCTGTGGCCTCCAATATGAGAGATGATGAGATAACCCAGGATGAAAACACAGTTTCCACTTC GCTGGGCCACTCCAGAGATGACAACTCTAAGCAAACATGCATCAAAATTGTCACCAAGGCCCAAAAGGGT GATGTGTGCACCCCAACGAGTACCACTGTAGAACTAGTTGGGTCGTCGGGTCAGAATGGGGATGAAAAGC AGAACATTGTAGCCCGCAAAATCGTGAAGATGACCAAGCAGCCTGCCAAAAAGAAGCCTCCACCATCCCG GGAAAAGAAAGTGACCAGGACAATCTTGGCTATCCTGTTGGCTTTCATCATAACGTGGGCGCCATACAAT GTCATGGTGCTCATCAATACTTTCTGTGCACCCTGCATCCCCAATACAGTATGGACAATTGGCTACTGGC TCTGTTACATCAATAGCACCATCAATCCGGCCTGCTATGCGCTTTGTAATGCCACCTTCAAAAAGACTTT TAAGCACCTCCTCATGTGTCATTACAAGAACATAGGCGCTACACGGTGAAAAGACCATCAAAAGAAGAAA TGTGGTCGAGTGTGTCTTGGGGAAGAACAGAGACAAGAAAGCTGTGTTTATAGTGACCTGCCATTTCACT TTACAGTCTTACTGCAACATGAAAGTAAGGAGTTTTAGAGAGACACTATCATTGTGCCCATGCTCCATTT TGGGAAAAATAAATTAATAAACCTTCACCTTATAAACCCTGTCAGTTTAGGAGCACCGAGAAAATGAAAG AGGCATGCTGAAACTGCAGATCTAAGGAAAAATCTCTACTGTCTCCTGCTCTCTTGAAGAAGGGCGTCAG AGTCTACAATTTCATGTCTCTGCACAAGAAGAATAACCTAGTCTATTTGTTGTTTCTTTCTGTTGTTCCC CTGTGTGGCGGTGAGAAAGAAATGACACATTCCATGCTAACACAGAGACCTACATGGAAAGAAGCAGGCA CTGTACAATGAGAGAGAAGAAGAAAGAAAATCAAATAGGATGCAGAGATGGTCTGCAGAGCAGCGAGCAT ATCCTCGGCTGTGCTGTGCTCTGATCTGAAGGATTTCAACACAACAACTGCTTATTTCTTCTCTCTTCCC CTTTCCCGTCATGGAAAGCAAGAAAGCAAAACAACAAAAGCC[Back to the top]
Database: Rattus_norvegicus_WGS Initial E-value: 1e-100 Round E-value: 1e-60 Round Limit: 3 Max Queries: 50 Initial BLAST Percent Identity: none Filters: Low Complexity, Mask for lookup table only Recursive BLAST Word Size: 32 Percent Identity: none Filters: Low Complexity, Rodents Repeats, Mask for lookup table only GenomeThreader Species: rat[Back to the top]
C. The contig sequence assembled by Tracembler
>Contig AAGCTGGTGGAAGCCAGCTACTATCTCTCATAAAAAAGGAACAGCCTTCACATAATGTGT GCATCCCCTTGGAAGATGGGATGTCCCTGCTTCGAATACTTGCGCTTGCTTCTAAATGGC ATGTTTCCCATTGTCACACCAGTACTGCCACAGACCAGTAGGGCGTCTCTAAAGATTCTG AGCTGCAATAGTCAATATAGTTCCCGTCCCATAGAGTTTTCAGTGTTCAATATGGATAAG GATCCCAGGTGCATAAACTCTCCGTTTTGACTAGCAACGTCTGCACATAAGGCATCATCA TGTTGCTCCTCGGGAATCTCTCATTAAGTGCAACCCTTCAATGGAAAAGGGAGGCAGAGG GAGATTTTCTTAAAACAAAACAAAACAAACAAAACAAAACAAAAGGCCTGCAGTAAAATG CTGGTTTTAGTTATAAATTATTTACTCACTGTCCTAGCGATAAGTTCCTTAAACTCTTTT ATTATCTCAGCTTTCTTCTTTCTGCAAGGGAGCTGATATAATATATTGCAAAGACTTTCT ATCACCCTTAATACTTACTGAGGAAAAATTGTGCATCTGAGAGACCTAAAGCTGCATATG CTTTTATGATTTTTTTATTGAAAAATAAATCATACCATTTGTAAAGAAGAAAAGGAAAGG AACGAATTGTAGCCTGCCTAGTCACTGATTTGAAAGTGATGCTAGATTGTGTTCTGTAAC TTTCTGGGCCAGAGCTACCTCTTCTGCAAAACTAAAGGTTTGTCAAAGAAGAGTGAAACA ATAGATTTAATAGTGGCTTGAAACAAAGAAAACATTTGGAAAATTATTTCCACATAATCA AATCAGTCATATCAATAGCAAATGATGGTGCTTTTATAAGGTATGGGATTTTGGAAATTC TACTGCCAAATGAAGATGGACTGCAATTGTAAAACAAAATTGAGGAAAAACAAATTTATT TTGGGTGCATTGGTTAGTATATTGTCTTTTTTATCACCACACTCATTGCCTTTAATAAGG GAAAGGCTCAACCTACCATAAAGGTGTTACTGACTATAAACATCACCATTCAGTTTTATG TCCTGTTCTAACATTTTTTCTGCCTGGCTTATTAATTTTTTTAAATACAGAAGTTTATGG TTGTTTTGAAAATGTTTTTACTATATATTTGGTTTAGTCATTTCAACTCATAAAGACATA AGCAAGCAGGCAGATAGACAGACACGTCTGTATGTGGTGACACTCATTGTGTTAATAAAT CATGAATTCATCATCAGCCATTAAGAAACATTTCAATCTTCCATCTAGAGTTTTTGCCTC TTGCCTGGTCAGACAGGGAACAGTATATATTCAGGATACAGAAGAAGGACTGGGAAGTTT CTCAAAAGGAAGAAATCTGATGTGTTTTAAGATAATATTTATATTACATTCATTAACTTC ATTCTATTTCCCTACAGGTTTAAATGTTTCTTTGGCCACTTGACTACTGAACACAAAATG AATAACTCAACAAACTCCTCGAACAATGGCTTGGCTATTACCAGTCCTTACAAGACATTT GAAGTGGTATTTATTGTCCTTGTGGCTGGATCCCTCAGTCTGGTGACCATCATTGGGAAC ATTCTGGTCATGGTTTCCATTAAAGTCAACCGCCACCTTCAGACTGTCAACAATTACTTC TTGTTCAGCCTGGCCTGTGCTGACCTCATCATAGGTGTTTTCTCCATGAACTTGTATACC CTCTACACTGTGATTGGTTACTGGCCTTTGGGACCTGTAGTATGTGACCTTTGGCTAGCA TTGGACTATGTTGTCAGCAATGCCTCCGTTATGAATCTCCTCATCATCAGCTTTGATAGA TACTTCTGTGTCACGAAACCTCTGACCTACCCAGTTAAGCGGACCACAAAAATGGCAGGC ATGATGATTGCAGCTGCGTGGGTCCTTTCCTTCATCCTCTGGGCCCCAGCCATTCTCTTC TGGCAGTTCATCGTAGGGGTGAGGACTGTGGAGGATGGGGAGTGCTATATTCAGTTCTTT TCCAATGCGGCCGTCACCTTCGGCACTGCCATTGCAGCTTTCTATCTGCCTGTCATCATC ATGACTGTGCTCTATTGGCATATATCCCGGGCAAGCAAGAGTAGAATAAAGAAGGAAAAG AAGGAACCTGTGGCCAACCAAGACCCAGTATCTCCAAGTCTGGTGCAAGGAAGAATTGTA AAGCCAAACAATAACAATATGCCTGGTGGTGATGGCGGCCTGGAACACAACAAGATCCAG AATGGCAAGGCTCCACGGGACGGCGTGACTGAAAACTGTGTTCAGGGGGAGGAGAAAGAG AGCTCCAATGATTCGACGTCAGTCAGTGCTGTGGCCTCCAATATGAGAGATGATGAGATA ACCCAGGATGAAAACACAGTTTCCACTTCGCTGGGCCACTCCAGAGATGACAACTCTAAG CAAACATGCATCAAAATTGTCACCAAGGCCCAAAAGGGTGATGTGTGCACCCCAACGAGT ACCACTGTAGAACTAGTTGGGTCGTCGGGTCAGAATGGGGATGAAAAGCAGAACATTGTA GCCCGCAAAATCGTGAAGATGACCAAGCAGCCTGCCAAAAAGAAGCCTCCACCATCCCGG GAAAAGAAAGTGACCAGGACAATCTTGGCTATCCTGTTGGCTTTCATCATAACGTGGGCG CCATACAATGTCATGGTGCTCATCAATACTTTCTGTGCACCCTGCATCCCCAATACAGTA TGGACAATTGGCTACTGGCTCTGTTACATCAATAGCACCATCAATCCGGCCTGCTATGCG CTTTGTAATGCCACCTTCAAAAAGACTTTTAAGCACCTCCTCATGTGTCATTACAAGAAC ATAGGCGCTACACGGTGAAAAGACCATCAAAAGAAGAAATGTGGTCGAGTGTGTCTTGGG GAAGAACAGAGACAAGAAAGCTGTGTTTATAGTGACCTGCCATTTCACTTTACAGTCTTA CTGCAACATGAAAGTAAGGAGTTTTAGAGAGACACTATCATTGTGCCCATGCTCCATTTT GGGAAAAATAAATTAATAAACCTTCACCTTATAAACCCTGTCAGTTTAGGAGCACCGAGA AAATGAAAGAGGCATGCTGAAACTGCAGATCTAAGGAAAAATCTCTACTGTCTCCTGCTC TCTTGAAGAAGGGCGTCAGAGTCTACAATTTCATGTCTCTGCACAAGAAGAATAACCTAG TCTATTTGTTGTTTCTTTCTGTTGTTCCCCTGTGTGGCGGTGAGAAAGAAATGACACATT CCATGCTAACACAGAGACCTACATGGAAAGAAGCAGGCACTGTACAATGAGAGAGAAGAA GAAAGAAAATCAAATAGGATGCAGAGATGGTCTGCAGAGCAGCGAGCATATCCTCGGCTG TGCTGTGCTCTGATCTGAAGGATTTCAACACAACAACTGCTTATTTCTTCTCTCTTCCCC TTTCCCGTCATGGAAAGCAAGAAAGCAAAACAACAAAAGCCCAACTAGGCCATACTATTT TTTTCTACTATTTTTGTAGTTTCTGGTTTTATATTATATATGGATAGTATCTGCAGGACT TCTAAATCTGGCCAGAGTCACCCATGAAAATGGACACTCTGCCACTCCCCACTGTGTTGT TGCATTCTTTGATGGTGTACAGACCTGTAAGGATTTCATTCACTTGAGTTCCTCTGTGTG GGAAATTTTTACCCACCTGATTTTCTTCTCAACAAACCCATTTTAACAATGTTGTCTGCC TAAGACATAAATACGCTTGGGAAACCAAAGTCATTTAAACTTAATTTTTAATCACATTAG AAAATGGTCAGTCTAGTTGGAGAGAGTTCACCGAGGCCAGACGAAATTTGAGATGAGAAG ACAGAAGGTCAGAAGAGCGATCTGTTTGAACTTGAACCTGCCTGACCTATGTGCACAATG TTAACGTGTACAACATGAACTCCTGACATTGTCAGCAGGAATATGATGTTGCTTTGCTCA TTTGAGTCTCAATTAGTTCACTGTGACATTACTATCCAATGTCTGTTAGCAGATGGTACT CAAATTATACTCAAATGAAGTTTTCTATAATCATATTAAGACACAGGGGTGGGGAAATGG GTCATGCAAAAATATTTACTAATACTACCTGTTCCATGTTCTTCCAGTTGTCTTCAAATC TCTGTAAGATTATATTGCTTCAAAATTCTTTGTGGCTTCAACATAGTGGATAACCAAAAA GAGGCAAAATATGCCCACAGAACCTGATGGAAGAGTACATGTGATTCTCGCCATGCCATT TCCCACAGACTAATCTAACCACGAATAGCTGTCACAGAAAGGATTGTTAAACGGTAACAC TAAACACAAAAGGTCAATGTAGAAAAATCCATACTGGACACTCTAAAATAATGCGGAATC ATACCAATCTACATTAACTAGTTATTTTTGTCTTCACATAATTTCTTCTATTATACATTA CAGTATTATGGTCAGATTTTTCCAAGTCTGGGCCTAATGGATAGAAATTGAAGTTCTAAA TTCTTCTATAAAGTTCAGATATTCGCTGATGCACTTTGATTCCCTCTCTGCCATTCCACG AGTATCACAAGGCAGGTTCGTCAGCGTAAAGTCCTAAGAGTTATCAGAACCATTTTGTCT GACTGCATGGCAGTAACGTCTCAGCAAGTGGGCGATAAAGGATAGAACGGCAGCAACAGC AACATTGTAAGCTAAAAAGAAACAAGTTGCTAATAATATATTTAACCTTTATGAACAGAA CTTATTGTTTGAGCAATTTCAGTCGGTTTTAACCTCAAAAACTCCTATCTATAAGACATA GAATCGGTTCAGATTAGTTTAGTCTATAATTAGTTGACTGAGTTCCCTTAGTTCAGAATT ACTAAAATGTAAATTCACTTTATGTTGTTTCTTCGAGTAATTGAGTGGAGAAGACTTCGA TCCAATGGATTTCTTGGTTTCCTGTAGGAATGTTAACAATCTGTGTTATACACTATTAGA TGCAGACGGGCTTCCCTTTCCAGCACAC[Back to the top]
D. Pairwise alignment between the original chrm2 (Query) sequence and the above contig (Sbjct)
Score = 4107 bits (2072), Expect = 0.0 Identities = 2072/2072 (100%) Strand = Plus / Plus Query: 1 ccctacaggtttaaatgtttctttggccacttgactactgaacacaaaatgaataactca 60 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1450 ccctacaggtttaaatgtttctttggccacttgactactgaacacaaaatgaataactca 1509 Query: 61 acaaactcctcgaacaatggcttggctattaccagtccttacaagacatttgaagtggta 120 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1510 acaaactcctcgaacaatggcttggctattaccagtccttacaagacatttgaagtggta 1569 Query: 121 tttattgtccttgtggctggatccctcagtctggtgaccatcattgggaacattctggtc 180 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1570 tttattgtccttgtggctggatccctcagtctggtgaccatcattgggaacattctggtc 1629 Query: 181 atggtttccattaaagtcaaccgccaccttcagactgtcaacaattacttcttgttcagc 240 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1630 atggtttccattaaagtcaaccgccaccttcagactgtcaacaattacttcttgttcagc 1689 Query: 241 ctggcctgtgctgacctcatcataggtgttttctccatgaacttgtataccctctacact 300 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1690 ctggcctgtgctgacctcatcataggtgttttctccatgaacttgtataccctctacact 1749 Query: 301 gtgattggttactggcctttgggacctgtagtatgtgacctttggctagcattggactat 360 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1750 gtgattggttactggcctttgggacctgtagtatgtgacctttggctagcattggactat 1809 Query: 361 gttgtcagcaatgcctccgttatgaatctcctcatcatcagctttgatagatacttctgt 420 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1810 gttgtcagcaatgcctccgttatgaatctcctcatcatcagctttgatagatacttctgt 1869 Query: 421 gtcacgaaacctctgacctacccagttaagcggaccacaaaaatggcaggcatgatgatt 480 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1870 gtcacgaaacctctgacctacccagttaagcggaccacaaaaatggcaggcatgatgatt 1929 Query: 481 gcagctgcgtgggtcctttccttcatcctctgggccccagccattctcttctggcagttc 540 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1930 gcagctgcgtgggtcctttccttcatcctctgggccccagccattctcttctggcagttc 1989 Query: 541 atcgtaggggtgaggactgtggaggatggggagtgctatattcagttcttttccaatgcg 600 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1990 atcgtaggggtgaggactgtggaggatggggagtgctatattcagttcttttccaatgcg 2049 Query: 601 gccgtcaccttcggcactgccattgcagctttctatctgcctgtcatcatcatgactgtg 660 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2050 gccgtcaccttcggcactgccattgcagctttctatctgcctgtcatcatcatgactgtg 2109 Query: 661 ctctattggcatatatcccgggcaagcaagagtagaataaagaaggaaaagaaggaacct 720 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2110 ctctattggcatatatcccgggcaagcaagagtagaataaagaaggaaaagaaggaacct 2169 Query: 721 gtggccaaccaagacccagtatctccaagtctggtgcaaggaagaattgtaaagccaaac 780 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2170 gtggccaaccaagacccagtatctccaagtctggtgcaaggaagaattgtaaagccaaac 2229 Query: 781 aataacaatatgcctggtggtgatggcggcctggaacacaacaagatccagaatggcaag 840 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2230 aataacaatatgcctggtggtgatggcggcctggaacacaacaagatccagaatggcaag 2289 Query: 841 gctccacgggacggcgtgactgaaaactgtgttcagggggaggagaaagagagctccaat 900 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2290 gctccacgggacggcgtgactgaaaactgtgttcagggggaggagaaagagagctccaat 2349 Query: 901 gattcgacgtcagtcagtgctgtggcctccaatatgagagatgatgagataacccaggat 960 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2350 gattcgacgtcagtcagtgctgtggcctccaatatgagagatgatgagataacccaggat 2409 Query: 961 gaaaacacagtttccacttcgctgggccactccagagatgacaactctaagcaaacatgc 1020 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2410 gaaaacacagtttccacttcgctgggccactccagagatgacaactctaagcaaacatgc 2469 Query: 1021 atcaaaattgtcaccaaggcccaaaagggtgatgtgtgcaccccaacgagtaccactgta 1080 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2470 atcaaaattgtcaccaaggcccaaaagggtgatgtgtgcaccccaacgagtaccactgta 2529 Query: 1081 gaactagttgggtcgtcgggtcagaatggggatgaaaagcagaacattgtagcccgcaaa 1140 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2530 gaactagttgggtcgtcgggtcagaatggggatgaaaagcagaacattgtagcccgcaaa 2589 Query: 1141 atcgtgaagatgaccaagcagcctgccaaaaagaagcctccaccatcccgggaaaagaaa 1200 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2590 atcgtgaagatgaccaagcagcctgccaaaaagaagcctccaccatcccgggaaaagaaa 2649 Query: 1201 gtgaccaggacaatcttggctatcctgttggctttcatcataacgtgggcgccatacaat 1260 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2650 gtgaccaggacaatcttggctatcctgttggctttcatcataacgtgggcgccatacaat 2709 Query: 1261 gtcatggtgctcatcaatactttctgtgcaccctgcatccccaatacagtatggacaatt 1320 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2710 gtcatggtgctcatcaatactttctgtgcaccctgcatccccaatacagtatggacaatt 2769 Query: 1321 ggctactggctctgttacatcaatagcaccatcaatccggcctgctatgcgctttgtaat 1380 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2770 ggctactggctctgttacatcaatagcaccatcaatccggcctgctatgcgctttgtaat 2829 Query: 1381 gccaccttcaaaaagacttttaagcacctcctcatgtgtcattacaagaacataggcgct 1440 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2830 gccaccttcaaaaagacttttaagcacctcctcatgtgtcattacaagaacataggcgct 2889 Query: 1441 acacggtgaaaagaccatcaaaagaagaaatgtggtcgagtgtgtcttggggaagaacag 1500 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2890 acacggtgaaaagaccatcaaaagaagaaatgtggtcgagtgtgtcttggggaagaacag 2949 Query: 1501 agacaagaaagctgtgtttatagtgacctgccatttcactttacagtcttactgcaacat 1560 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 2950 agacaagaaagctgtgtttatagtgacctgccatttcactttacagtcttactgcaacat 3009 Query: 1561 gaaagtaaggagttttagagagacactatcattgtgcccatgctccattttgggaaaaat 1620 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 3010 gaaagtaaggagttttagagagacactatcattgtgcccatgctccattttgggaaaaat 3069 Query: 1621 aaattaataaaccttcaccttataaaccctgtcagtttaggagcaccgagaaaatgaaag 1680 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 3070 aaattaataaaccttcaccttataaaccctgtcagtttaggagcaccgagaaaatgaaag 3129 Query: 1681 aggcatgctgaaactgcagatctaaggaaaaatctctactgtctcctgctctcttgaaga 1740 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 3130 aggcatgctgaaactgcagatctaaggaaaaatctctactgtctcctgctctcttgaaga 3189 Query: 1741 agggcgtcagagtctacaatttcatgtctctgcacaagaagaataacctagtctatttgt 1800 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 3190 agggcgtcagagtctacaatttcatgtctctgcacaagaagaataacctagtctatttgt 3249 Query: 1801 tgtttctttctgttgttcccctgtgtggcggtgagaaagaaatgacacattccatgctaa 1860 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 3250 tgtttctttctgttgttcccctgtgtggcggtgagaaagaaatgacacattccatgctaa 3309 Query: 1861 cacagagacctacatggaaagaagcaggcactgtacaatgagagagaagaagaaagaaaa 1920 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 3310 cacagagacctacatggaaagaagcaggcactgtacaatgagagagaagaagaaagaaaa 3369 Query: 1921 tcaaataggatgcagagatggtctgcagagcagcgagcatatcctcggctgtgctgtgct 1980 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 3370 tcaaataggatgcagagatggtctgcagagcagcgagcatatcctcggctgtgctgtgct 3429 Query: 1981 ctgatctgaaggatttcaacacaacaactgcttatttcttctctcttcccctttcccgtc 2040 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 3430 ctgatctgaaggatttcaacacaacaactgcttatttcttctctcttcccctttcccgtc 3489 Query: 2041 atggaaagcaagaaagcaaaacaacaaaagcc 2072 |||||||||||||||||||||||||||||||| Sbjct: 3490 atggaaagcaagaaagcaaaacaacaaaagcc 3521[Back to the top]
The alignment was performed with the BLAST2 web server at NCBI (http://www.ncbi.nlm.nih.gov/blast/bl2seq/wblast2.cgi) with its 'Filter' option un-checked.
Score = 9662 bits (5025), Expect = 0.0 Identities = 5045/5050 (99%), Gaps = 2/5050 (0%) Strand=Plus/Plus Query 1 AAGCTGGTGGAAGCCAGCTACTATCTCTCATAAAAAAGGAACAGCCTTCACATAATGTGT 60 |||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||| Sbjct 63909839 AAGCTGGTGGAAGCCAGCTACTATCTCTCATAAAAAAGGAACGGCCTTCACATAATGTGT 63909898 Query 61 GCATCCCCTTGGAAGATGGGATGTCCCTGCTTCGAATACTTGCGCTTGCTTCTAAATGGC 120 || ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||| Sbjct 63909899 GCCTCCCCTTGGAAGATGGGATATCCCTGCTTCGAATACTTGCGCTTGCTTCTAAATGGC 63909958 Query 121 ATGTTTCCCATTGTCACACCAGTACTGCCACAGACCAGTAGGGCGTCTCTAAAGATTCTG 180 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63909959 ATGTTTCCCATTGTCACACCAGTACTGCCACAGACCAGTAGGGCGTCTCTAAAGATTCTG 63910018 Query 181 AGCTGCAATAGTCAATATAGTTCCCGTCCCATAGAGTTTTCAGTGTTCAATATGGATAAG 240 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910019 AGCTGCAATAGTCAATATAGTTCCCGTCCCATAGAGTTTTCAGTGTTCAATATGGATAAG 63910078 Query 241 GATCCCAGGTGCATAAACTCTCCGTTTTGACTAGCAACGTCTGCACATAAGGCATCATCA 300 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910079 GATCCCAGGTGCATAAACTCTCCGTTTTGACTAGCAACGTCTGCACATAAGGCATCATCA 63910138 Query 301 TGTTGCTCCTCGGGAATCTCTCATTAAGTGCAACCCTTCAATGGAAAAGGGAGGCAGAGG 360 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910139 TGTTGCTCCTCGGGAATCTCTCATTAAGTGCAACCCTTCAATGGAAAAGGGAGGCAGAGG 63910198 Query 361 GAGATTTTCTTAAAACAAAACAAAACAAACAAAACAAAACAAAAGGCCTGCAGTAAAATG 420 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910199 GAGATTTTCTTAAAACAAAACAAAACAAACAAAACAAAACAAAAGGCCTGCAGTAAAATG 63910258 Query 421 CTGGTTTTAGTTATAAATTATTTACTCACTGTCCTAGCGATAAGTTCCTTAAACTCTTTT 480 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910259 CTGGTTTTAGTTATAAATTATTTACTCACTGTCCTAGCGATAAGTTCCTTAAACTCTTTT 63910318 Query 481 ATTATCTCAGCTTTCTTCTTTCTGCAAGGGAGCTGATATAATATATTGCAAAGACTTTCT 540 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910319 ATTATCTCAGCTTTCTTCTTTCTGCAAGGGAGCTGATATAATATATTGCAAAGACTTTCT 63910378 Query 541 ATCACCCTTAATACTTACTGAGGAAAAATTGTGCATCTGAGAGACCTAAAGCTGCATATG 600 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910379 ATCACCCTTAATACTTACTGAGGAAAAATTGTGCATCTGAGAGACCTAAAGCTGCATATG 63910438 Query 601 CTTTTATGATTTTTTTATTGAAAAATAAATCATACCATTTGTAAAGAAGAAAAGGAAAGG 660 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910439 CTTTTATGATTTTTTTATTGAAAAATAAATCATACCATTTGTAAAGAAGAAAAGGAAAGG 63910498 Query 661 AACGAATTGTAGCCTGCCTAGTCACTGATTTGAAAGTGATGCTAGATTGTGTTCTGTAAC 720 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910499 AACGAATTGTAGCCTGCCTAGTCACTGATTTGAAAGTGATGCTAGATTGTGTTCTGTAAC 63910558 Query 721 TTTCTGGGCCAGAGCTACCTCTTCTGCAAAACTAAAGGTTTGTCAAAGAAGAGTGAAACA 780 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910559 TTTCTGGGCCAGAGCTACCTCTTCTGCAAAACTAAAGGTTTGTCAAAGAAGAGTGAAACA 63910618 Query 781 ATAGATTTAATAGTGGCTTGAAACAAAGAAAACATTTGGAAAATTATTTCCACATAATCA 840 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910619 ATAGATTTAATAGTGGCTTGAAACAAAGAAAACATTTGGAAAATTATTTCCACATAATCA 63910678 Query 841 AATCAGTCATATCAATAGCAAATGATGGTGCTTTTATAAGGTATGGGATTTTGGAAATTC 900 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910679 AATCAGTCATATCAATAGCAAATGATGGTGCTTTTATAAGGTATGGGATTTTGGAAATTC 63910738 Query 901 TACTGCCAAATGAAGATGGACTGCAATTGTAAAACAAAATTGAGGAAAAACAAATTTATT 960 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910739 TACTGCCAAATGAAGATGGACTGCAATTGTAAAACAAAATTGAGGAAAAACAAATTTATT 63910798 Query 961 TTGGGTGCATTGGTTAGTATATTGTCTTTTTTATCACCACACTCATTGCCTTTAATAAGG 1020 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910799 TTGGGTGCATTGGTTAGTATATTGTCTTTTTTATCACCACACTCATTGCCTTTAATAAGG 63910858 Query 1021 GAAAGGCTCAACCTACCATAAAGGTGTTACTGACTATAAACATCACCATTCAGTTTTATG 1080 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910859 GAAAGGCTCAACCTACCATAAAGGTGTTACTGACTATAAACATCACCATTCAGTTTTATG 63910918 Query 1081 TCCTGTTCTAACATTTTTTCTGCCTGGCTTATTAATTTTTTTAAATACAGAAGTTTATGG 1140 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910919 TCCTGTTCTAACATTTTTTCTGCCTGGCTTATTAATTTTTTTAAATACAGAAGTTTATGG 63910978 Query 1141 TTGTTTTGAAAATGTTTTTACTATATATTTGGTTTAGTCATTTCAACTCATAAAGACATA 1200 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63910979 TTGTTTTGAAAATGTTTTTACTATATATTTGGTTTAGTCATTTCAACTCATAAAGACATA 63911038 Query 1201 AGCAAGCAGGCAGATAGACAGACACGTCTGTATGTGGTGACACTCATTGTGTTAATAAAT 1260 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911039 AGCAAGCAGGCAGATAGACAGACACGTCTGTATGTGGTGACACTCATTGTGTTAATAAAT 63911098 Query 1261 CATGAATTCATCATCAGCCATTAAGAAACATTTCAATCTTCCATCTAGAGTTTTTGCCTC 1320 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911099 CATGAATTCATCATCAGCCATTAAGAAACATTTCAATCTTCCATCTAGAGTTTTTGCCTC 63911158 Query 1321 TTGCCTGGTCAGACAGGGAACAGTATATATTCAGGATACAGAAGAAGGACTGGGAAGTTT 1380 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911159 TTGCCTGGTCAGACAGGGAACAGTATATATTCAGGATACAGAAGAAGGACTGGGAAGTTT 63911218 Query 1381 CTCAAAAGGAAGAAATCTGATGTGTTTTAAGATAATATTTATATTACATTCATTAACTTC 1440 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911219 CTCAAAAGGAAGAAATCTGATGTGTTTTAAGATAATATTTATATTACATTCATTAACTTC 63911278 Query 1441 ATTCTATTTCCCTACAGGTTTAAATGTTTCTTTGGCCACTTGACTACTGAACACAAAATG 1500 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911279 ATTCTATTTCCCTACAGGTTTAAATGTTTCTTTGGCCACTTGACTACTGAACACAAAATG 63911338 Query 1501 AATAACTCAACAAACTCCTCGAACAATGGCTTGGCTATTACCAGTCCTTACAAGACATTT 1560 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911339 AATAACTCAACAAACTCCTCGAACAATGGCTTGGCTATTACCAGTCCTTACAAGACATTT 63911398 Query 1561 GAAGTGGTATTTATTGTCCTTGTGGCTGGATCCCTCAGTCTGGTGACCATCATTGGGAAC 1620 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911399 GAAGTGGTATTTATTGTCCTTGTGGCTGGATCCCTCAGTCTGGTGACCATCATTGGGAAC 63911458 Query 1621 ATTCTGGTCATGGTTTCCATTAAAGTCAACCGCCACCTTCAGACTGTCAACAATTACTTC 1680 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911459 ATTCTGGTCATGGTTTCCATTAAAGTCAACCGCCACCTTCAGACTGTCAACAATTACTTC 63911518 Query 1681 TTGTTCAGCCTGGCCTGTGCTGACCTCATCATAGGTGTTTTCTCCATGAACTTGTATACC 1740 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911519 TTGTTCAGCCTGGCCTGTGCTGACCTCATCATAGGTGTTTTCTCCATGAACTTGTATACC 63911578 Query 1741 CTCTACACTGTGATTGGTTACTGGCCTTTGGGACCTGTAGTATGTGACCTTTGGCTAGCA 1800 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911579 CTCTACACTGTGATTGGTTACTGGCCTTTGGGACCTGTAGTATGTGACCTTTGGCTAGCA 63911638 Query 1801 TTGGACTATGTTGTCAGCAATGCCTCCGTTATGAATCTCCTCATCATCAGCTTTGATAGA 1860 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911639 TTGGACTATGTTGTCAGCAATGCCTCCGTTATGAATCTCCTCATCATCAGCTTTGATAGA 63911698 Query 1861 TACTTCTGTGTCACGAAACCTCTGACCTACCCAGTTAAGCGGACCACAAAAATGGCAGGC 1920 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911699 TACTTCTGTGTCACGAAACCTCTGACCTACCCAGTTAAGCGGACCACAAAAATGGCAGGC 63911758 Query 1921 ATGATGATTGCAGCTGCGTGGGTCCTTTCCTTCATCCTCTGGGCCCCAGCCATTCTCTTC 1980 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911759 ATGATGATTGCAGCTGCGTGGGTCCTTTCCTTCATCCTCTGGGCCCCAGCCATTCTCTTC 63911818 Query 1981 TGGCAGTTCATCGTAGGGGTGAGGACTGTGGAGGATGGGGAGTGCTATATTCAGTTCTTT 2040 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911819 TGGCAGTTCATCGTAGGGGTGAGGACTGTGGAGGATGGGGAGTGCTATATTCAGTTCTTT 63911878 Query 2041 TCCAATGCGGCCGTCACCTTCGGCACTGCCATTGCAGCTTTCTATCTGCCTGTCATCATC 2100 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911879 TCCAATGCGGCCGTCACCTTCGGCACTGCCATTGCAGCTTTCTATCTGCCTGTCATCATC 63911938 Query 2101 ATGACTGTGCTCTATTGGCATATATCCCGGGCAAGCAAGAGTAGAATAAAGAAGGAAAAG 2160 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911939 ATGACTGTGCTCTATTGGCATATATCCCGGGCAAGCAAGAGTAGAATAAAGAAGGAAAAG 63911998 Query 2161 AAGGAACCTGTGGCCAACCAAGACCCAGTATCTCCAAGTCTGGTGCAAGGAAGAATTGTA 2220 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63911999 AAGGAACCTGTGGCCAACCAAGACCCAGTATCTCCAAGTCTGGTGCAAGGAAGAATTGTA 63912058 Query 2221 AAGCCAAACAATAACAATATGCCTGGTGGTGATGGCGGCCTGGAACACAACAAGATCCAG 2280 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912059 AAGCCAAACAATAACAATATGCCTGGTGGTGATGGCGGCCTGGAACACAACAAGATCCAG 63912118 Query 2281 AATGGCAAGGCTCCACGGGACGGCGTGACTGAAAACTGTGTTCAGGGGGAGGAGAAAGAG 2340 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912119 AATGGCAAGGCTCCACGGGACGGCGTGACTGAAAACTGTGTTCAGGGGGAGGAGAAAGAG 63912178 Query 2341 AGCTCCAATGATTCGACGTCAGTCAGTGCTGTGGCCTCCAATATGAGAGATGATGAGATA 2400 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912179 AGCTCCAATGATTCGACGTCAGTCAGTGCTGTGGCCTCCAATATGAGAGATGATGAGATA 63912238 Query 2401 ACCCAGGATGAAAACACAGTTTCCACTTCGCTGGGCCACTCCAGAGATGACAACTCTAAG 2460 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912239 ACCCAGGATGAAAACACAGTTTCCACTTCGCTGGGCCACTCCAGAGATGACAACTCTAAG 63912298 Query 2461 CAAACATGCATCAAAATTGTCACCAAGGCCCAAAAGGGTGATGTGTGCACCCCAACGAGT 2520 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912299 CAAACATGCATCAAAATTGTCACCAAGGCCCAAAAGGGTGATGTGTGCACCCCAACGAGT 63912358 Query 2521 ACCACTGTAGAACTAGTTGGGTCGTCGGGTCAGAATGGGGATGAAAAGCAGAACATTGTA 2580 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912359 ACCACTGTAGAACTAGTTGGGTCGTCGGGTCAGAATGGGGATGAAAAGCAGAACATTGTA 63912418 Query 2581 GCCCGCAAAATCGTGAAGATGACCAAGCAGCCTGCCAAAAAGAAGCCTCCACCATCCCGG 2640 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912419 GCCCGCAAAATCGTGAAGATGACCAAGCAGCCTGCCAAAAAGAAGCCTCCACCATCCCGG 63912478 Query 2641 GAAAAGAAAGTGACCAGGACAATCTTGGCTATCCTGTTGGCTTTCATCATAACGTGGGCG 2700 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912479 GAAAAGAAAGTGACCAGGACAATCTTGGCTATCCTGTTGGCTTTCATCATAACGTGGGCG 63912538 Query 2701 CCATACAATGTCATGGTGCTCATCAATACTTTCTGTGCACCCTGCATCCCCAATACAGTA 2760 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912539 CCATACAATGTCATGGTGCTCATCAATACTTTCTGTGCACCCTGCATCCCCAATACAGTA 63912598 Query 2761 TGGACAATTGGCTACTGGCTCTGTTACATCAATAGCACCATCAATCCGGCCTGCTATGCG 2820 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912599 TGGACAATTGGCTACTGGCTCTGTTACATCAATAGCACCATCAATCCGGCCTGCTATGCG 63912658 Query 2821 CTTTGTAATGCCACCTTCAAAAAGACTTTTAAGCACCTCCTCATGTGTCATTACAAGAAC 2880 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912659 CTTTGTAATGCCACCTTCAAAAAGACTTTTAAGCACCTCCTCATGTGTCATTACAAGAAC 63912718 Query 2881 ATAGGCGCTACACGGTGAAAAGACCATCAAAAGAAGAAATGTGGTCGAGTGTGTCTTGGG 2940 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912719 ATAGGCGCTACACGGTGAAAAGACCATCAAAAGAAGAAATGTGGTCGAGTGTGTCTTGGG 63912778 Query 2941 GAAGAACAGAGACAAGAAAGCTGTGTTTATAGTGACCTGCCATTTCACTTTACAGTCTTA 3000 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912779 GAAGAACAGAGACAAGAAAGCTGTGTTTATAGTGACCTGCCATTTCACTTTACAGTCTTA 63912838 Query 3001 CTGCAACATGAAAGTAAGGAGTTTTAGAGAGACACTATCATTGTGCCCATGCTCCATTTT 3060 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912839 CTGCAACATGAAAGTAAGGAGTTTTAGAGAGACACTATCATTGTGCCCATGCTCCATTTT 63912898 Query 3061 GGGAAAAATAAATTAATAAACCTTCACCTTATAAACCCTGTCAGTTTAGGAGCACCGAGA 3120 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912899 GGGAAAAATAAATTAATAAACCTTCACCTTATAAACCCTGTCAGTTTAGGAGCACCGAGA 63912958 Query 3121 AAATGAAAGAGGCATGCTGAAACTGCAGATCTAAGGAAAAATCTCTACTGTCTCCTGCTC 3180 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63912959 AAATGAAAGAGGCATGCTGAAACTGCAGATCTAAGGAAAAATCTCTACTGTCTCCTGCTC 63913018 Query 3181 TCTTGAAGAAGGGCGTCAGAGTCTACAATTTCATGTCTCTGCACAAGAAGAATAACCTAG 3240 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913019 TCTTGAAGAAGGGCGTCAGAGTCTACAATTTCATGTCTCTGCACAAGAAGAATAACCTAG 63913078 Query 3241 TCTATTTGTTGTTTCTTTCTGTTGTTCCCCTGTGTGGCGGTGAGAAAGAAATGACACATT 3300 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913079 TCTATTTGTTGTTTCTTTCTGTTGTTCCCCTGTGTGGCGGTGAGAAAGAAATGACACATT 63913138 Query 3301 CCATGCTAACACAGAGACCTACATGGAAAGAAGCAGGCACTGTACAATGAGAGAGAAGAA 3360 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913139 CCATGCTAACACAGAGACCTACATGGAAAGAAGCAGGCACTGTACAATGAGAGAGAAGAA 63913198 Query 3361 GAAAGAAAATCAAATAGGATGCAGAGATGGTCTGCAGAGCAGCGAGCATATCCTCGGCTG 3420 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913199 GAAAGAAAATCAAATAGGATGCAGAGATGGTCTGCAGAGCAGCGAGCATATCCTCGGCTG 63913258 Query 3421 TGCTGTGCTCTGATCTGAAGGATTTCAACACAACAACTGCTTATTTCTTCTCTCTTCCCC 3480 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913259 TGCTGTGCTCTGATCTGAAGGATTTCAACACAACAACTGCTTATTTCTTCTCTCTTCCCC 63913318 Query 3481 TTTCCCGTCATGGAAAGCAAGAAAGCAAAACAACAAAAGCCCAACTAGGCCATACTATTT 3540 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913319 TTTCCCGTCATGGAAAGCAAGAAAGCAAAACAACAAAAGCCCAACTAGGCCATACTATTT 63913378 Query 3541 TTTTCTACTATTTTTGTAGTTTCTGGTTTTATATTATATATGGATAGTATCTGCAGGACT 3600 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913379 TTTTCTACTATTTTTGTAGTTTCTGGTTTTATATTATATATGGATAGTATCTGCAGGACT 63913438 Query 3601 TCTAAATCTGGCCAGAGTCACCCATGAAAATGGACACTCTGCCACTCCCCACTGTGTTGT 3660 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913439 TCTAAATCTGGCCAGAGTCACCCATGAAAATGGACACTCTGCCACTCCCCACTGTGTTGT 63913498 Query 3661 TGCATTCTTTGATGGTGTACAGACCTGTAAGGATTTCATTCACTTGAGTTCCTCTGTGTG 3720 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913499 TGCATTCTTTGATGGTGTACAGACCTGTAAGGATTTCATTCACTTGAGTTCCTCTGTGTG 63913558 Query 3721 GGAAATTTTTACCCACCTGATTTTCTTCTCAACAAACCCATTTTAACAATGTTGTCTGCC 3780 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913559 GGAAATTTTTACCCACCTGATTTTCTTCTCAACAAACCCATTTTAACAATGTTGTCTGCC 63913618 Query 3781 TAAGACATAAATACGCTTGGGAAACCAAAGTCATTTAAACTTAATTTTTAATCACATTAG 3840 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913619 TAAGACATAAATACGCTTGGGAAACCAAAGTCATTTAAACTTAATTTTTAATCACATTAG 63913678 Query 3841 AAAATGGTCAGTCTAGTTGGAGAGAGTTCACCGAGGCCAGACGAAATTTGAGATGAGAAG 3900 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913679 AAAATGGTCAGTCTAGTTGGAGAGAGTTCACCGAGGCCAGACGAAATTTGAGATGAGAAG 63913738 Query 3901 ACAGAAGGTCAGAAGAGCGATCTGTTTGAACTTGAACCTGCCTGACCTATGTGCACAATG 3960 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913739 ACAGAAGGTCAGAAGAGCGATCTGTTTGAACTTGAACCTGCCTGACCTATGTGCACAATG 63913798 Query 3961 TTAACGTGTACAACATGAACTCCTGACATTGTCAGCAGGAATATGATGTTGCTTTGCTCA 4020 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913799 TTAACGTGTACAACATGAACTCCTGACATTGTCAGCAGGAATATGATGTTGCTTTGCTCA 63913858 Query 4021 TTTGAGTCTCAATTAGTTCACTGTGACATTACTATCCAATGTCTGTTAGCAGATGGTACT 4080 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913859 TTTGAGTCTCAATTAGTTCACTGTGACATTACTATCCAATGTCTGTTAGCAGATGGTACT 63913918 Query 4081 CAAATTATACTCAAATGAAGTTTTCTATAATCATATTAAGACACAGGGGTGGGGAAATGG 4140 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913919 CAAATTATACTCAAATGAAGTTTTCTATAATCATATTAAGACACAGGGGTGGGGAAATGG 63913978 Query 4141 GTCATGCAAAAATATTTACTAATACTACCTGTTCCATGTTCTTCCAGTTGTCTTCAAATC 4200 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63913979 GTCATGCAAAAATATTTACTAATACTACCTGTTCCATGTTCTTCCAGTTGTCTTCAAATC 63914038 Query 4201 TCTGTAAGATTATATTGCTTCAAAATTCTTTGTGGCTTCAACATAGTGGATAACCAAAAA 4260 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914039 TCTGTAAGATTATATTGCTTCAAAATTCTTTGTGGCTTCAACATAGTGGATAACCAAAAA 63914098 Query 4261 GAGGCAAAATATGCCCACAGAACCTGATGGAAGAGTACATGTGATTCTCGCCATGCCATT 4320 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914099 GAGGCAAAATATGCCCACAGAACCTGATGGAAGAGTACATGTGATTCTCGCCATGCCATT 63914158 Query 4321 TCCCACAGACTAATCTAACCACGAATAGCTGTCACAGAAAGGATTGTTAAACGGTAACAC 4380 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914159 TCCCACAGACTAATCTAACCACGAATAGCTGTCACAGAAAGGATTGTTAAACGGTAACAC 63914218 Query 4381 TAAACACAAAAGGTCAATGTAGAAAAATCCATACTGGACACTCTAAAATAATGCGGAATC 4440 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914219 TAAACACAAAAGGTCAATGTAGAAAAATCCATACTGGACACTCTAAAATAATGCGGAATC 63914278 Query 4441 ATACCAATCTACATTAACTAGTTATTTTTGTCTTCACATAATTTCTTCTATTATACATTA 4500 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914279 ATACCAATCTACATTAACTAGTTATTTTTGTCTTCACATAATTTCTTCTATTATACATTA 63914338 Query 4501 CAGTATTATGGTCAGATTTTTCCAAGTCTGGGCCTAATGGATAGAAATTGAAGTTCTAAA 4560 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914339 CAGTATTATGGTCAGATTTTTCCAAGTCTGGGCCTAATGGATAGAAATTGAAGTTCTAAA 63914398 Query 4561 TTCTTCTATAAAGTTCAGATATTCGCTGATGCACTTTGATTCCCTCTCTGCCATTCCACG 4620 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914399 TTCTTCTATAAAGTTCAGATATTCGCTGATGCACTTTGATTCCCTCTCTGCCATTCCACG 63914458 Query 4621 AGTATCACAAGGCAGGTTCGTCAGCGTAAAGTCCTAAGAGTTATCAGAACCATTTTGTCT 4680 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914459 AGTATCACAAGGCAGGTTCGTCAGCGTAAAGTCCTAAGAGTTATCAGAACCATTTTGTCT 63914518 Query 4681 GACTGCATGGCAGTAACGTCTCAGCAAGTGGGCGATAAAGGATAGAACGGCAGCAACAGC 4740 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914519 GACTGCATGGCAGTAACGTCTCAGCAAGTGGGCGATAAAGGATAGAACGGCAGCAACAGC 63914578 Query 4741 AACATTGTAAGCTAAAAAGAAACAAGTTGCTAATAATATATTTAACCTTTATGAACAGAA 4800 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914579 AACATTGTAAGCTAAAAAGAAACAAGTTGCTAATAATATATTTAACCTTTATGAACAGAA 63914638 Query 4801 CTTATTGTTTGAGCAATTTCAGTCGGTTTTAACCTCAAAAACTCCTATCTATAAGACATA 4860 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914639 CTTATTGTTTGAGCAATTTCAGTCGGTTTTAACCTCAAAAACTCCTATCTATAAGACATA 63914698 Query 4861 GAATCGGTTCAGATTAGTTTAGTCTATAATTAGTTGACTGAGTTCCCTTAGTTCAGAATT 4920 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914699 GAATCGGTTCAGATTAGTTTAGTCTATAATTAGTTGACTGAGTTCCCTTAGTTCAGAATT 63914758 Query 4921 ACTAAAATGTAAATTCACTTTATGTTGTTTCTTCGAGTAATTGAGTGGAGAAGACTTCGA 4980 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 63914759 ACTAAAATGTAAATTCACTTTATGTTGTTTCTTCGAGTAATTGAGTGGAGAAGACTTCGA 63914818 Query 4981 TCCAATGGATTTCTTGGTTTCCTGTA-GGAATGTTAACAATCTGTGTTATACACTATT-A 5038 |||||||||||||||||||||||||| ||||||||||||||||||||||||||||||| | Sbjct 63914819 TCCAATGGATTTCTTGGTTTCCTGTATGGAATGTTAACAATCTGTGTTATACACTATTGA 63914878 Query 5039 GATGCAGACG 5048 |||||||||| Sbjct 63914879 GATGCAGACG 63914888[Back to the top]
Example 2. Micro-synteny of two genes between Medicago truncatula and soybean
[Back to the top]
A. Two Medicago truncatula proteins used as query
IMGA|AC146590_10.2 AC146590.25 50435-49430 H EGN_Mt050401 20050623 SWIM zinc finger, putative MKLMSPLQEQAHSDLTRFSFQKFQEEFVRSSQYSIDHENGNVFVVRFYKDVNSRKHVVFW DGKVATCSCKLFEFWGILCRHILSIFLHKDCHEIPSNYLPSRWLLQVSYDDNDVESQVNV VGEEQLLDCNNEPQPQHVVYCPPKSKPKGRPKRRRLKGGKELSHNMNTCGLCRGL >IMGA|AC146590_11.2 AC146590.25 52557-50736 H EGN_Mt050401 20050623 hypothetical protein MYVHVLSISRIKSPKETFPPLKNWKKKRKNCLLPNMGQEHIFWSSASCFDWYQKYGDVVV FDTTYKVNSYEMPFGIFVDMNNYGKTILFGCALLRNEMVSAFRWLMKKPPTTILTNQDPW MKEAISKEFPSKKHSFWIWHITFKFTSWFNALLRDKYAKWCSEFYELYKLETCEEFEHQW PCC[Back to the top]
Database: Glycine_max_WGS Initial E-value: 1e-60 Round E-value: 1e-60 Round Limit: 4 Max Queries: 50 Initial BLAST Percent Identity: none Filters: Low Complexity, Mask for lookup table only Recursive BLAST Word Size: 32 Percent Identity: none Filters: Low Complexity, Rodents Repeats, Mask for lookup table only GenomeThreader Species: arabidopsis[Back to the top]
C. The produced contig that covers the soybean homologs of the above two Medicago proteins
>Contig AGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCCCTTTAATTTAATGAGGTACATATT ATCCAATCATATAATCGTTTGATTCACATATTTTATTGTACATCATTTCTTTTATTTTGA ACAATATCAAATAATATATAATATTAACACGTTATTTTAAAATCATACTTTATTAACTAC ATGTACATGTAGTTCTATATTAATTATTCAAACTTTTCAATCAACTAGGAATATCAGCAC GGGCATCTCACTAGGGTGTTTTTAAATGTGAATACTTGTTATTTTCAATAGTCATTATTT TGAATGTATGACCGACACATATACTTAAACAGTACAATATATTTGATTAAGATTTTTGTG CATATTTAAATATTAAAAACTTATAAATATAAAATAGTATTTTATTTTTAGATCATTATT GTTTTAAAGTTATAATATTGTATTTTAAAATATTTTTATTATGCATTATTTAGTTATTAT TATTATTATTATTATTATTATTATTTTAATATTATTGTTGTTATGTATTAGAAGTTTTCA TTTATCTATTTATGTTAAAAATATCAAATAATATGAACAGGCTCAAGACTGAAGACAAAT GGTTTAACATAATTGATAAATAATTATATTTACTAAGCATATTGACAGGTATTTGATTTC TTGATATGGGTGCTGTTAACATGTGCCCTTAGGGCACATGTTAATGTGTAATAAATGATG GTTGGTCCCCACTTATTATACTTTGGAAAAAACAGCATCATAAATGTGTCTCATAAAAAA TTTAAAGACAAAATTACCCTCAACTATATGACACACATAGTGTGCTTTTGAACTTCCTAC TTTAAATACACGCGCCTCAAAATTGCTAAATTGAAGAGTTTCTTTTTTTCTGACTTTTTT GTCTCTTTACTGAGTATGAAGCACCTGCGTAGCATCTTTTGCAAAATAAAAGTATTTTTT CATCCCTTCATTAACATTGCTGGAATTTTTTAATTTAAATAAATAATAAAAACTAATTCA AAATATATTAGCAATTCAAATGAAATAATACCATTCCAATACAAAAAATATCCAAAAAGA GGTTCAAATGTTTAATTAAAATAAAAAACTCATAAAAAATAGATCCAGGGCCTTCATGCC TATGCCAACATCAGCTTTCTTTTCTAAACTCTGAAGTATCATTCCACATGCTACATTGCC AACATATTCCTGTTAGAAACAAAGGGTAGAAACAAACAAAATATTATTAATTATCGGATA TACATAATCCTACAAAAGTATATTAAACTAGAAATCTAAAGAATTTAATAAATGAAATGA AAAAATATGTACCTAAACTTTTGGAAGAAGAATTGGATTTAAATTTGCATCTTTACAAAT TTTTTTCTTCTTGTTTGTGTGACCAGAAAATTGAGTATTTTCTTTTAGAGGACATGTAAC AATATTATGTCCTACATCTTTGCACAATCCACAAGTATTCATGTTATGTGATAGCTCTTT TCCACCTTTAAGACGTCTTCGTTTGGGACGACCTTTTGTTTTGGAAGGTGGAGGACAGTG AACAACATCGACTTGTTCCTCAAAGACAACATTGACTTGTTGGGGATCTACTTCATCATC GTCATGTGATGTTTGAAGCCGCCATCGTGACGGCAAGTAGTTAGAAGGGATTTCATGACA ATCTTTATGAAGAAAAATACTGAGAATGTGACGACATAATATACCCCAAAACTCAAAATA CTTGCAACTACATGTAGCTATTTTACCATCCCAAAAGACCATGTGTTTTCTACTATTAGC ATCTTTATAATACCGCAACACAAATTCATTACCATTTTCATGATGAATTGAATATTGGGT GGACCTTTCAAACTCCTCTTGAAACTTCTGAAAAGCAAATCTTGTAAGAACACCATGAGC TTGCTCTTGCAAGGGTGACATAAGCTTCAAGTTAATTCTTTTGCACTTTTCTAACATTAT GTCATGGTCTTCTTTTTGCTTAATATCATCAATCGCTACATCAACCTGAAATTAATTTAA ATTAATCAACGTATAAGATTAGAAGTGAAAAGTACTAATATATTGGCAATTACACCATAC CTGCTTTGTAAAGTCACTTAAACTTGTGTGAGAATTTATAAATCTTTTAATAAATGCATT AATACTCTCTGATCTTCCGGTAGTTGTCATCCCACCAAAGAAATGGTCACGAAGATAAGC GAGTGCCCAGTAATTCCTGATTTCATACAATCCTTTCACATGTTTATTTGACTGCAAGTT ATACTTAGCAACAACTTTTGGCCATTGATGCTCAAATTCTTCACATGTCTCCAATTTATA CAACTCGTAAAAATCAGAACACCATTTTGAATATTTGTCCCGAAGTATAGCATTAAACCA ACTACTAAACTTAAAAGTGATGTGCCATATGCAAAAACTATGTTTTGTTGATGGCAAGTC TTTTGAAATTGCTTCTTTCATCCATGGATCTTGATCCGTTAGTATAGTCTTTGGTGGCTT CTTCATCAAAGATATAAAAGTCTAAAGAAAATTTAGAAGCGTTAAAAAAAGTATTAATTA GAAACTAAGATACCATCATTAAAGAAACAATAATAATAAGCTTAGAAGTTACCTTCATTA ACCAACGAAATGCAGATATTGTTTCATTTCGTAAGAGTGCACAACCAAAAAGTACAGTCT TCCCATGACTATTCATACCCACAAAAATCCCAAATGGCATTTCATAAGAATTGACCTTGT ATGTAGTATCAAACACAACAACATCACCATATTTTTGGTACCAATCAGAGCAAGAAGCAG GAGACCAAAAAATATGCTCTAACCTTCTCTCTTCATCAAGTGTATATGCATACTGAAATT TAGAGCAACTCTTTTTTGCATCCTCACAGTACTTGAGAAGATCTTTGGCATCATTTCTTT CAACTTTTTTCTTGGTTTTCACAAAAAGATTACGAATGTCCCTTTCAATAAATGGAAGAT AACCATGCTTCACATTTTTCTCTAATTCTATGACACGCATCAATTGTCTAACTGAAAGCC CCCCTTCTTTTAACAAGAAAATGCGTTCAATATCATCTTCAGAGATAGTTCGGTTAGCCG GTAAAAAACGCACTTCTGATTGGGTTAGCAAAACATGGTTATGTTCAACAACAAACTTTG TAACTCGCCACTCACTTGGAAATATATCATGAGACTTCTGCAATGAAATTCTTAAATAAG CTTTACATTCACACCTTGTTGATTCTCTGTTTCTCTGTTCTTTTAATGGTTCTATGATTT TCAACGAGCTTCTACCTTCACGATGGCAAAAAAAATCACGCCTCCTCATAATTCCATTTC GTTTGATGAATCTACCTTTTCGAACAGAGAACCCATGCTGATATGCATACCTCTTATAAA ATGCAAATGCTTCTTCCTCGCTAAGAAAAATTTGACCAACAAAAGGAACAATATTTGTCT CATTATAAGTTTCATCTCTATCAACTTCTTCTGCAAATTCATTTATCTCAATATTCTGAC TAGAAGACACAATATTTTCTTTCTCATAAGTTTCAATTTCCTCAACTTCTAATACATCAT TTGCCACAATATCATGATCAAAATGTTCACTAACTGTTCCTGAATAACCATTCTCTAAAG AAATATCTTCAATTGGATATTCATTTAAATCAACATTTATTTTATCGGTGCTCATATCTC TAGTACTAGTACTACCTTCCCCCATTGTGTTATTTATGGTGCTCATATCTCTAGTACTAG TATTACCTTCACCCATTGTGTTATTTATCATCTACAAATAAAAATAATAAATAGAAAAAT ATATTACAAAACTCTATATATATATATATATATATATATATATATATATTTTGCAAGTGT CCAAAAAACACATGTGATTGGCAAGAGCAATGGAGAAAAAAAAAGCTTGATAAAAGTACC TGATATTGTGCCTTTGAGCTACGAAGAAAAGACTGTGCATGTGGGCTTTGAAGAAAAGAC AAATCCATGGTTAATAATTCAATCTATCAATGTGTTTTTCATAAGAGCATATGGTGGTAG AGAGGAATTGAAAAGAAATGTGCAAAGTGGTGGGAGTAGTACAGACTCTCGAACAAATTA GCGGGAAACTAACAAAATCTAGGAAGAAAATA[Back to the top]
D. Pairwise alignment between the original Medicago query sequences and the above contig
Query= IMGA|AC146590_10.2 H EGN_Mt050401 20050623 SWIM zinc finger, putative (175 letters) Score = 283 bits (725), Expect = 2e-78 Identities = 135/174 (77%), Positives = 149/174 (85%), Gaps = 1/174 (0%) Frame = -3 Query: 1 MKLMSPLQEQAHSDLTRFSFQKFQEEFVRSSQYSIDHENGNVFVVRFYKDVNSRKHVVFW 60 +KLMSPLQEQAH LTRF+FQKFQEEF RS+QYSI HENGN FV+R+YKD NSRKH+VFW Sbjct: 1950 LKLMSPLQEQAHGVLTRFAFQKFQEEFERSTQYSIHHENGNEFVLRYYKDANSRKHMVFW 1771 Query: 61 DGKVATCSCKLFEFWGILCRHILSIFLHKDCHEIPSNYLPSRWLLQVSYDDNDVE-SQVN 119 DGK+ATCSCK FEFWGILCRHILSIFLHKDCHEIPSNYLPSRW LQ S+DD++V+ QVN Sbjct: 1770 DGKIATCSCKYFEFWGILCRHILSIFLHKDCHEIPSNYLPSRWRLQTSHDDDEVDPQQVN 1591 Query: 120 VVGEEQLLDCNNEPQPQHVVYCPPKSKPKGRPKRRRLKGGKELSHNMNTCGLCR 173 VV EEQ+ VV+CPP SK KGRPKRRRLKGGKELSHNMNTCGLC+ Sbjct: 1590 VVFEEQV----------DVVHCPPPSKTKGRPKRRRLKGGKELSHNMNTCGLCK 1459 Query= IMGA|AC146590_11.2 H EGN_Mt050401 20050623 hypothetical protein (183 letters) Score = 157 bits (396), Expect(2) = 4e-75 Identities = 67/77 (87%), Positives = 73/77 (94%) Frame = -3 Query: 105 LMKKPPTTILTNQDPWMKEAISKEFPSKKHSFWIWHITFKFTSWFNALLRDKYAKWCSEF 164 LMKKPP TILT+QDPWMKEAISK+ PS KHSF IWHITFKF+SWFNA+LRDKY+KWCS+F Sbjct: 2529 LMKKPPKTILTDQDPWMKEAISKDLPSTKHSFCIWHITFKFSSWFNAILRDKYSKWCSDF 2350 Query: 165 YELYKLETCEEFEHQWP 181 YELYKLETCEEFEHQWP Sbjct: 2349 YELYKLETCEEFEHQWP 2299 Score = 137 bits (346), Expect(2) = 4e-75 Identities = 61/69 (88%), Positives = 65/69 (94%) Frame = -2 Query: 39 EHIFWSSASCFDWYQKYGDVVVFDTTYKVNSYEMPFGIFVDMNNYGKTILFGCALLRNEM 98 EHIFWS ASC DWYQKYGDVVVFDTTYKVNSYEMPFGIFV MN++GKT+LFGCALLRNE Sbjct: 2839 EHIFWSPASCSDWYQKYGDVVVFDTTYKVNSYEMPFGIFVGMNSHGKTVLFGCALLRNET 2660 Query: 99 VSAFRWLMK 107 +SAFRWLMK Sbjct: 2659 ISAFRWLMK 2633[Back to the top]
E. Spliced alignment between the above contig and the two query protein sequences
******************************************************************************** Protein Sequence: file=/PlantGDB/html/tmp/tracembler-1167778359/QRY.fsa, description=IMGA|AC146590_10.2 H EGN_Mt050401 20050623 SWIM zinc finger, putative 1 MKLMSPLQEQ AHSDLTRFSF QKFQEEFVRS SQYSIDHENG NVFVVRFYKD VNSRKHVVFW 61 DGKVATCSCK LFEFWGILCR HILSIFLHKD CHEIPSNYLP SRWLLQVSYD DNDVESQVNV 121 VGEEQLLDCN NEPQPQHVVY CPPKSKPKGR PKRRRLKGGK ELSHNMNTCG LCRGL Genomic Template: file=/PlantGDB/html/tmp/tracembler-1167778359/reads.cap.contigs, strand=-, from=2247, to=1162, description=Contig Predicted gene structure: Exon 1 1950 1453 ( 498 n) Protein 1 175 ( 175 aa) score: 0.637 MATCH Contig- IMGA+ 0.637 498 0.949 P PGS_Contig-_IMGA+ (1950 1453) Alignment (genomic DNA sequence = upper lines): TTGAAGCTTA TGTCACCCTT GCAAGAGCAA GCTCATGGTG TTCTTACAAG ATTTGCTTTT 1891 L K L M S P L Q E Q A H G V L T R F A F + | | | | | | | | | | | . | | | | + | M K L M S P L Q E Q A H S D L T R F S F 20 CAGAAGTTTC AAGAGGAGTT TGAAAGGTCC ACCCAATATT CAATTCATCA TGAAAATGGT 1831 Q K F Q E E F E R S T Q Y S I H H E N G | | | | | | | | | + | | | | | | | | Q K F Q E E F V R S S Q Y S I D H E N G 40 AATGAATTTG TGTTGCGGTA TTATAAAGAT GCTAATAGTA GAAAACACAT GGTCTTTTGG 1771 N E F V L R Y Y K D A N S R K H M V F W | | | + | + | | | . | | | | | + | | | N V F V V R F Y K D V N S R K H V V F W 60 GATGGTAAAA TAGCTACATG TAGTTGCAAG TATTTTGAGT TTTGGGGTAT ATTATGTCGT 1711 D G K I A T C S C K Y F E F W G I L C R | | | + | | | | | | | | | | | | | | | D G K V A T C S C K L F E F W G I L C R 80 CACATTCTCA GTATTTTTCT TCATAAAGAT TGTCATGAAA TCCCTTCTAA CTACTTGCCG 1651 H I L S I F L H K D C H E I P S N Y L P | | | | | | | | | | | | | | | | | | | | H I L S I F L H K D C H E I P S N Y L P 100 TCACGATGGC GGCTTCAAAC ATCACATGAC GATGATGAAG TAGATCCCCA ACAAGTCAAT 1591 S R W R L Q T S H D D D E V D P Q Q V | | | | | . | + | | + + | + | S R W L L Q V S Y D D N D V E S Q V N 120 GTTGTCTTTG AGGAACAAGT C---GAT--- ---------- ---------- ----GTTGTT 1561 N V V F E E Q V D V | | + | V V G E E Q L L D C N N E P Q P Q H V V 140 CACTGTCCTC CACCTTCCAA AACAAAAGGT CGTCCCAAAC GAAGACGTCT TAAAGGTGGA 1501 V H C P P P S K T K G R P K R R R L K G | . + | | | Y C P P K S K P K G R P K R R R L K G G 160 AAAGAGCTAT CACATAACAT GAATACTTGT GGATTGTGCA AAGATGTA 1453 G K E L S H N M N T C G L C K D + + . K E L S H N M N T C G L C R G L 176 ******************************************************************************** Protein Sequence: file=/PlantGDB/html/tmp/tracembler-1167778359/QRY.fsa, description=IMGA|AC146590_11.2 H EGN_Mt050401 20050623 hypothetical protein 1 MYVHVLSISR IKSPKETFPP LKNWKKKRKN CLLPNMGQEH IFWSSASCFD WYQKYGDVVV 61 FDTTYKVNSY EMPFGIFVDM NNYGKTILFG CALLRNEMVS AFRWLMKKPP TTILTNQDPW 121 MKEAISKEFP SKKHSFWIWH ITFKFTSWFN ALLRDKYAKW CSEFYELYKL ETCEEFEHQW 181 PCC Genomic Template: file=/PlantGDB/html/tmp/tracembler-1167778359/reads.cap.contigs, strand=-, from=3106, to=1999, description=Contig Predicted gene structure: Exon 1 3105 3053 ( 53 n) Protein 23 39 ( 17 aa) score: 0.211 Intron 1 3052 2837 ( 216 n) Pd: 0.050 Pa: 0.050 Exon 2 2836 2633 ( 204 n) Protein 40 107 ( 68 aa) score: 0.886 Intron 2 2632 2521 ( 112 n) Pd: 0.050 Pa: 0.050 Exon 3 2520 2291 ( 230 n) Protein 108 183 ( 76 aa) score: 0.832 MATCH Contig- IMGA+ 0.790 487 0.887 P PGS_Contig-_IMGA+ (3105 3053,2836 2633,2520 2291) Alignment (genomic DNA sequence = upper lines): TCTCTGAAGA TGA-TATTGA ACGCATTTTC TTGTTAAAAG AAGGGGGGCT TTCAGTTAGA 3047 S L K M I E R I F L L K E G G L S + | . + | | . | . N W K K K R K N C L L P N M G Q E ...... 40 CAATTGATGC GTGTCATAGA ATTAGAGAAA AATGTGAAGC ATGGTTATCT TCCATTTATT 2987 .......... .......... .......... .......... .......... .......... 40 GAAAGGGACA TTCGTAATCT TTTTGTGAAA ACCAAGAAAA AAGTTGAAAG AAATGATGCC 2927 .......... .......... .......... .......... .......... .......... 40 AAAGATCTTC TCAAGTACTG TGAGGATGCA AAAAAGAGTT GCTCTAAATT TCAGTATGCA 2867 .......... .......... .......... .......... .......... .......... 40 TATACACTTG ATGAAGAGAG AAGGTTAGAG CATATTTTTT GGTCTCCTGC TTCTTGCTCT 2807 H I F W S P A S C S | | | | | | | | .......... .......... .......... H I F W S S A S C F 50 GATTGGTACC AAAAATATGG TGATGTTGTT GTGTTTGATA CTACATACAA GGTCAATTCT 2747 D W Y Q K Y G D V V V F D T T Y K V N S | | | | | | | | | | | | | | | | | | | | D W Y Q K Y G D V V V F D T T Y K V N S 70 TATGAAATGC CATTTGGGAT TTTTGTGGGT ATGAATAGTC ATGGGAAGAC TGTACTTTTT 2687 Y E M P F G I F V G M N S H G K T V L F | | | | | | | | | | | + + | | | + | | Y E M P F G I F V D M N N Y G K T I L F 90 GGTTGTGCAC TCTTACGAAA TGAAACAATA TCTGCATTTC GTTGGTTAAT GAAGGTAACT 2627 G C A L L R N E T I S A F R W L M K | | | | | | | | + | | | | | | | | G C A L L R N E M V S A F R W L M K ...... 108 TCTAAGCTTA TTATTATTGT TTCTTTAATG ATGGTATCTT AGTTTCTAAT TAATACTTTT 2567 .......... .......... .......... .......... .......... .......... 108 TTTAACGCTT CTAAATTTTC TTTAGACTTT TATATCTTTG ATGAAGAAGC CACCAAAGAC 2507 K P P K T | | | | .......... .......... .......... .......... ...... K P P T T 113 TATACTAACG GATCAAGATC CATGGATGAA AGAAGCAATT TCAAAAGACT TGCCATCAAC 2447 I L T D Q D P W M K E A I S K D L P S T | | | + | | | | | | | | | | | + . | | I L T N Q D P W M K E A I S K E F P S K 133 AAAACATAGT TTTTGCATAT GGCACATCAC TTTTAAGTTT AGTAGTTGGT TTAATGCTAT 2387 K H S F C I W H I T F K F S S W F N A I | | | | | | | | | | | | + | | | | | + K H S F W I W H I T F K F T S W F N A L 153 ACTTCGGGAC AAATATTCAA AATGGTGTTC TGATTTTTAC GAGTTGTATA AATTGGAGAC 2327 L R D K Y S K W C S D F Y E L Y K L E T | | | | | + | | | | + | | | | | | | | | L R D K Y A K W C S E F Y E L Y K L E T 173 ATGTGAAGAA TTTGAGCATC AATGGCCAA- AAGTTGT 2291 C E E F E H Q W P S C | | | | | | | | | | C E E F E H Q W P C C 185 --------------------------------------------------------------------------------