Genome Data
| Genome Type: | Scaffold |
| Genome Source: | Glyma0/Glyma0/Gbk |
| Genome Assembly Version: | GMGDB163 |
| Total Genome Segments: | 3423 |
| Masking Datasets: | |
Transcript Alignments
| EST- Total cognate alignments: | 626,932 |
| EST Version: | 163 |
| cDNA- Total cognate alignments: | 2,980 |
| cDNA Version: | 163 |
| PUT- Total alignments: | 149,932 |
| PUT Version: | 161 |
Alignment Methods
GeneSeqer
GeneSeqer is a gene identification tool based on spliced alignment or "spliced threading" of cDNAs/ESTs into a genomic DNA sequence template.
Splicing Model: Medicago
Parameters: -m 999999999 -x 30 -y 45 -z 60
m - maxnest
x - wordsize
y - minqHSP
z - minqHSPc
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Gene Models
| Total gene annotations: | 62,442 | | Gene Model Version: | Glyma0.1b | | Total yrGATE Community Annotations: | 0 |
Protein Alignments
| Protein 1: Arabidopsis thaliana (AtPEP) total count: | 14,945 | | Protein 1 Version: | AtPEP | | Protein 2: Medicago truncatula (MtPEP) total count: | 43,302 | | Protein 2 Version: | MtPEP |
Alignment Methods
GenomeThreader, Version 1.0.8
GenomeThreader is a gene identification tool based on spliced alignment or "spliced threading" of cDNAs/ESTs or proteins into a genomic DNA sequence template
Splicing Model: Medicago
Parameters: Default
Probe
| Soybean: | Total alignments: 671,762 |
Alignment Methods
VMatch, Version 1.9
BLAST, Version 2.2.15
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