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OgGL4_out.txt
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OgGL4_out.txt
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BLASTN 2.2.28+
Reference: Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb
Miller (2000), "A greedy algorithm for aligning DNA sequences", J
Comput Biol 2000; 7(1-2):203-14.
Database: zizania_palustris_13Nov2018_okGsv.fasta
2,183 sequences; 1,288,768,912 total letters
Query= KY427263.1 Oryza glaberrima cultivar irgc102305 truncated grain
length 4 (gl4) mRNA, complete cds
Length=2006
Score E
Sequences producing significant alignments: (Bits) Value
Scaffold_453;HRSCAF=2583 773 0.0
Scaffold_18;HRSCAF=1069 664 0.0
> Scaffold_453;HRSCAF=2583
Length=4333358
Score = 773 bits (418), Expect = 0.0
Identities = 712/845 (84%), Gaps = 55/845 (7%)
Strand=Plus/Minus
Query 55 GCGGCCTCGCCGCTCGCGCTGCTccgcgcgcacgggcacgggcacctcacgccgccgtcg 114
||| |||||||||||||||| |||||||| || | | |||||||||||||||||||
Sbjct 3281380 GCGTCCTCGCCGCTCGCGCTCATCCGCGCGAAC---C-C--GCACCTCACGCCGCCGTCG 3281327
Query 115 gcggcgacgg-ggccggcgccgccgccgccgtcgccggcgtcggggtcggcgccgcgggA 173
||| | ||| | | || ||| | |||||| ||||| || ||| |||||||||||||||
Sbjct 3281326 CCGGTGCCGGCGACGGGACCCG-CTCCGCCGCCGCCGTCGCCGGTGTCGGCGCCGCGGGA 3281268
Query 174 CTACCGCAAGGGGAACTGGACGCTCCACGAGACGCTCATCCTCATCACCGCCAAGCGTCT 233
|||||||||||| |||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 3281267 CTACCGCAAGGGCAACTGGACGCTCCACGAGACGCTCATCCTCATCACCGCCAAGCGCCT 3281208
Query 234 CGACGACGACCGCCGCGCCGG-CGT--T-G-GG-GGTGGCGCGGCGGCTGGTGGC-G-GT 285
||||||||||||||| || || || | | || ||||| | || ||||||| | | ||
Sbjct 3281207 CGACGACGACCGCCGTGCTGGTGGTGGTGGTGGTGGTGGTGGGGTTGCTGGTGCCGGCGT 3281148
Query 286 GGC-GC---CGGATCGCCGCCGACGCCGAGGTCGGCGGAGCAGCGGTGGAAGTGGGTGGA 341
||| || || ||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct 3281147 GGCGGCGGTGGGGTCGCCGCCGACGCCGCGGTCGGCGGAGCAGCGGTGGAAGTGGGTGGA 3281088
Query 342 GAACTACTGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAATGACAAGTGGGA 401
|||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct 3281087 GAACTACTGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAACGACAAGTGGGA 3281028
Query 402 CAACCTCCTCCGCGACTACAAGAAGGTCCGCGACTACGAGTcccgcgtcgccgccgccgc 461
||||||||||||||||||||||||||||||||||||||||||||| |||||||||| ||
Sbjct 3281027 CAACCTCCTCCGCGACTACAAGAAGGTCCGCGACTACGAGTCCCGTATCGCCGCCGCGGC 3280968
Query 462 cgtcaccggcggcgcggccgccgccaactccgcccccctcccgTCGTACTGGACGATGGA 521
|| || || || ||||||| |||||| | ||| |||||||||| |||||||| ||||
Sbjct 3280967 CGCCAGCGCCGCCGCGGCC-CCGCCACAT--GCCGCCCTCCCGTCCTACTGGACATTGGA 3280911
Query 522 GCGGCACGAGCGCAAGGACTGCAACCTCCCCACCAACCTGGCGCCGGAGGTCTACGACGC 581
||||||||||||||||||| ||||||| ||||| ||||| ||||| |||||| |||||||
Sbjct 3280910 GCGGCACGAGCGCAAGGACCGCAACCTACCCACAAACCTCGCGCCCGAGGTCCACGACGC 3280851
Query 582 GCTCTCCGAGGTGCTCTcccgccgcgcggcgcgacgcggcggcgccacgatcgcgcccac 641
|||||||||||| || ||||||||||| ||||| || || ||||||||||||||||||||
Sbjct 3280850 GCTCTCCGAGGTTCTATCCCGCCGCGCCGCGCGGCGGGGAGGCGCCACGATCGCGCCCAC 3280791
Query 642 cccgccgccaccaccgctcgcgctgccgcc---gccgccgccgccgcc-ctcgccgc-c- 695
| | || | || ||||| ||||||||||| ||||||||||||||| ||| || | |
Sbjct 3280790 CTCTCC-CG-CC-CCGCTGGCGCTGCCGCCACCGCCGCCGCCGCCGCCACTCTCCCCTCC 3280734
Query 696 gAAGCCTCTCGTCGCGCAGCAGcaccaccaccatcacggccatcaccaccacccaccTCC 755
|||||||||| || ||||||| || ||||| ||||| | |||| ||||||| ||||
Sbjct 3280733 GAAGCCTCTCATCACGCAGCACCAGCACCAGCATCAT--C-ATCATCACCACCATCCTCA 3280677
Query 756 TCCTTAGCCGCCGCCGTCGTCGCTGCAGCTCCCTCCGGCGGTCGTGGCTCCGCCGCCGGC 815
|||| ||||||||| | |||| ||| ||||| ||||| |||||||||||||
Sbjct 3280676 TCCT---CCGCCGCCG-C--CGCT-----TCC-TCCGGTGGTCG---CTCCGCCGCCGGC 3280632
Query 816 GTCCGTTTCCGGTAATGGTCGGTGCGCGCACCGTACACTTAATACTCGTAGTAGCTGTTA 875
|||||||||||||| ||||||||||||||| ||| ||| ||||||||| ||||||
Sbjct 3280631 GTCCGTTTCCGGTA-TGGTCGGTGCGCGCAAA-TACTTTTATTACTCGTAG---CTGTTA 3280577
Query 876 CATCC 880
||||
Sbjct 3280576 TATCC 3280572
Score = 769 bits (416), Expect = 0.0
Identities = 712/846 (84%), Gaps = 56/846 (7%)
Strand=Plus/Minus
Query 55 GCGGCCTCGCCGCTCGCGCTGCTccgcgcgcacgggcacgggcacctcacgccgccgtcg 114
||| |||||||||||||||| |||||||| || | | |||||||||||||||||||
Sbjct 3349249 GCGTCCTCGCCGCTCGCGCTCATCCGCGCGAAC---C-C--GCACCTCACGCCGCCGTCG 3349196
Query 115 gcggcgacgg-ggccggcgccgccgccgccgtcgccggcgtcggggtcggcgccgcgggA 173
||| | ||| | | || ||| | |||||| ||||| || ||| |||||||||||||||
Sbjct 3349195 CCGGTGCCGGCGACGGGACCCG-CTCCGCCGCCGCCGTCGCCGGTGTCGGCGCCGCGGGA 3349137
Query 174 CTACCGCAAGGGGAACTGGACGCTCCACGAGACGCTCATCCTCATCACCGCCAAGCGTCT 233
|||||||||||| |||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 3349136 CTACCGCAAGGGCAACTGGACGCTCCACGAGACGCTCATCCTCATCACCGCCAAGCGCCT 3349077
Query 234 CGACGACGACCGCCGCGCCGG-CGT--T-G-GG-GGTGGCGCGGCGGCTGGTGGC-G-GT 285
||||||||||||||| || || || | | || ||||| | || ||||||| | | ||
Sbjct 3349076 CGACGACGACCGCCGTGCTGGTGGTGGTGGTGGTGGTGGTGGGGTTGCTGGTGCCGGCGT 3349017
Query 286 GGC-GC---CGGATCGCCGCCGACGCCGAGGTCGGCGGAGCAGCGGTGGAAGTGGGTGGA 341
||| || || ||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct 3349016 GGCGGCGGTGGGGTCGCCGCCGACGCCGCGGTCGGCGGAGCAGCGGTGGAAGTGGGTGGA 3348957
Query 342 GAACTACTGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAATGACAAGTGGGA 401
|||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct 3348956 GAACTACTGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAACGACAAGTGGGA 3348897
Query 402 CAACCTCCTCCGCGACTACAAGAAGGTCCGCGACTACGAGTcccgcgtcgccgccgccg- 460
||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct 3348896 CAACCTCCTCCGCGACTACAAGAAGGTCCGCGACTACGAGTCCCGTATCGCCGCCGCCGG 3348837
Query 461 ccgtcaccggcggcgcggccgccgccaactccgcccccctcccgTCGTACTGGACGATGG 520
||| || || || ||||||| |||||| | ||| |||||||||| |||||||| |||
Sbjct 3348836 CCGCCAGCGCCGCCGCGGCC-CCGCCACAT--GCCGCCCTCCCGTCCTACTGGACATTGG 3348780
Query 521 AGCGGCACGAGCGCAAGGACTGCAACCTCCCCACCAACCTGGCGCCGGAGGTCTACGACG 580
|||||||||||||||||||| ||||||| ||||| ||||| ||||| |||||| ||||||
Sbjct 3348779 AGCGGCACGAGCGCAAGGACCGCAACCTACCCACAAACCTCGCGCCCGAGGTCCACGACG 3348720
Query 581 CGCTCTCCGAGGTGCTCTcccgccgcgcggcgcgacgcggcggcgccacgatcgcgccca 640
||||||||||||| || ||||||||||| ||||| || || |||||||||||||||||||
Sbjct 3348719 CGCTCTCCGAGGTTCTATCCCGCCGCGCCGCGCGGCGGGGAGGCGCCACGATCGCGCCCA 3348660
Query 641 ccccgccgccaccaccgctcgcgctgccgcc---gccgccgccgccgcc-ctcgccgc-c 695
|| | || | || ||||| ||||||||||| ||||||||||||||| ||| || | |
Sbjct 3348659 CCTCTCC-CG-CC-CCGCTGGCGCTGCCGCCACCGCCGCCGCCGCCGCCACTCTCCCCTC 3348603
Query 696 -gAAGCCTCTCGTCGCGCAGCAGcaccaccaccatcacggccatcaccaccacccaccTC 754
|||||||||| || ||||||| || ||||| ||||| | |||| || |||| ||||
Sbjct 3348602 CGAAGCCTCTCATCACGCAGCACCAGCACCAGCATCAT--C-ATCATCATCACCATCCTC 3348546
Query 755 CTCCTTAGCCGCCGCCGTCGTCGCTGCAGCTCCCTCCGGCGGTCGTGGCTCCGCCGCCGG 814
|||| ||||||||| | |||| ||| ||||| ||||| ||||||||||||
Sbjct 3348545 ATCCT---CCGCCGCCG-C--CGCT-----TCC-TCCGGTGGTCG---CTCCGCCGCCGG 3348501
Query 815 CGTCCGTTTCCGGTAATGGTCGGTGCGCGCACCGTACACTTAATACTCGTAGTAGCTGTT 874
||||||||||||||| ||||||||||||||| ||| ||| ||||||||| |||||
Sbjct 3348500 CGTCCGTTTCCGGTA-TGGTCGGTGCGCGCAAA-TACTTTTATTACTCGTAG---CTGTT 3348446
Query 875 ACATCC 880
| ||||
Sbjct 3348445 ATATCC 3348440
Score = 473 bits (256), Expect = 6e-131
Identities = 308/333 (92%), Gaps = 3/333 (1%)
Strand=Plus/Minus
Query 1665 GTAGcggaggaggagatgtcggggtcgtcggagtcgggggaggaggaggaggggtcgggc 1724
|||||||||||||||||||||| |||||||||||| |||||||||||| ||||||||
Sbjct 3279912 GTAGCGGAGGAGGAGATGTCGGTGTCGTCGGAGTC---GGAGGAGGAGGATGGGTCGGGA 3279856
Query 1725 ggggagccggaggcgaagcggcggcggctgagccggcTGGGGTCGAGCGTGGTGAGGAGC 1784
|| |||||||||||||||||||||||||||| |||||||||||||||||||||| | |||
Sbjct 3279855 GGCGAGCCGGAGGCGAAGCGGCGGCGGCTGAACCGGCTGGGGTCGAGCGTGGTGCGCAGC 3279796
Query 1785 GCGACGGTGGTGGCGAGGACGCTGGTGGCGTGCGAGGAGAAGCGGGAGCGCCGGCACCGG 1844
||||||||||||||| | |||||||||||||||||||||||||||||||| |||||||||
Sbjct 3279795 GCGACGGTGGTGGCGCGCACGCTGGTGGCGTGCGAGGAGAAGCGGGAGCGGCGGCACCGG 3279736
Query 1845 GAGCTGCTGCAGCTGGAGGAGCGGCGGCTGCGCCTCGAGGAGGAGCGCACCGAGGTCCGC 1904
||| |||||||||||||||||||||||||||| || |||||||||||||| ||||| ||
Sbjct 3279735 GAGTTGCTGCAGCTGGAGGAGCGGCGGCTGCGGCTGGAGGAGGAGCGCACGGAGGTGCGG 3279676
Query 1905 CGCCAGGGCTTCGCCGGCCTCATCGCCGCCGTCAACAGCCTCTCCTCCGCCATCCACGCC 1964
||||||||||||||||||||| || ||||||||||||||||||| ||||||||||||
Sbjct 3279675 CGCCAGGGCTTCGCCGGCCTCGTCTCCGCCGTCAACAGCCTCTCGAGCGCCATCCACGCG 3279616
Query 1965 CTCGTCTCCGACCACCGCAGCGGCGACTCCTCC 1997
|||||||||||||||||||||||||||||||||
Sbjct 3279615 CTCGTCTCCGACCACCGCAGCGGCGACTCCTCC 3279583
Score = 473 bits (256), Expect = 6e-131
Identities = 308/333 (92%), Gaps = 3/333 (1%)
Strand=Plus/Minus
Query 1665 GTAGcggaggaggagatgtcggggtcgtcggagtcgggggaggaggaggaggggtcgggc 1724
|||||||||||||||||||||| |||||||||||| |||||||||||| ||||||||
Sbjct 3347563 GTAGCGGAGGAGGAGATGTCGGTGTCGTCGGAGTC---GGAGGAGGAGGATGGGTCGGGA 3347507
Query 1725 ggggagccggaggcgaagcggcggcggctgagccggcTGGGGTCGAGCGTGGTGAGGAGC 1784
|| |||||||||||||||||||||||||||| |||||||||||||||||||||| | |||
Sbjct 3347506 GGCGAGCCGGAGGCGAAGCGGCGGCGGCTGAACCGGCTGGGGTCGAGCGTGGTGCGCAGC 3347447
Query 1785 GCGACGGTGGTGGCGAGGACGCTGGTGGCGTGCGAGGAGAAGCGGGAGCGCCGGCACCGG 1844
||||||||||||||| | |||||||||||||||||||||||||||||||| |||||||||
Sbjct 3347446 GCGACGGTGGTGGCGCGCACGCTGGTGGCGTGCGAGGAGAAGCGGGAGCGGCGGCACCGG 3347387
Query 1845 GAGCTGCTGCAGCTGGAGGAGCGGCGGCTGCGCCTCGAGGAGGAGCGCACCGAGGTCCGC 1904
||| |||||||||||||||||||||||||||| || |||||||||||||| ||||| ||
Sbjct 3347386 GAGTTGCTGCAGCTGGAGGAGCGGCGGCTGCGGCTGGAGGAGGAGCGCACGGAGGTGCGG 3347327
Query 1905 CGCCAGGGCTTCGCCGGCCTCATCGCCGCCGTCAACAGCCTCTCCTCCGCCATCCACGCC 1964
||||||||||||||||||||| || ||||||||||||||||||| ||||||||||||
Sbjct 3347326 CGCCAGGGCTTCGCCGGCCTCGTCTCCGCCGTCAACAGCCTCTCGAGCGCCATCCACGCG 3347267
Query 1965 CTCGTCTCCGACCACCGCAGCGGCGACTCCTCC 1997
|||||||||||||||||||||||||||||||||
Sbjct 3347266 CTCGTCTCCGACCACCGCAGCGGCGACTCCTCC 3347234
> Scaffold_18;HRSCAF=1069
Length=98769966
Score = 664 bits (359), Expect = 0.0
Identities = 596/703 (85%), Gaps = 46/703 (7%)
Strand=Plus/Minus
Query 52 GCGGCGGCCTCGCCGCTCGCGCTGCTccgcgcg--cac-gggcacgggca-cctcacg-c 106
||||||||||||||||| ||||| |||||||| ||| ||| ||| || |||| |
Sbjct 97797920 GCGGCGGCCTCGCCGCTGGCGCTCATCCGCGCGCACACTCACCACCCGCACCCGCACGTC 97797861
Query 107 -cg-c-c-gtcggcggcgacggggccggcgccgccgccgccgtcgccggcgtcggggtcg 162
|| | | |||| || |||||||||| |||||||||||||||||||| | || ||||
Sbjct 97797860 ACGCCTCTGTCGCCGTCGACGGGGCCCGCGCCGCCGCCGCCGTCGCC-G-GT----GTCG 97797807
Query 163 gcgccgcgggACTACCGCAAGGGGAACTGGACGCTCCACGAGACGCTCATCCTCATCACC 222
||||||||||||||||||||||| |||||||||||||||||||||||| |||||||||||
Sbjct 97797806 GCGCCGCGGGACTACCGCAAGGGCAACTGGACGCTCCACGAGACGCTCGTCCTCATCACC 97797747
Query 223 GCCAAGCGTCTCGACGACGACCGCCGCGCCGG-CGT--TGGGGGTGGCG-CGGCGGCTGG 278
|||||||| ||||||||||||||||| || || || ||| | ||||| |||| || ||
Sbjct 97797746 GCCAAGCGCCTCGACGACGACCGCCGTGCTGGTGGTGCTGGTGCTGGCGCCGGC-GC-GG 97797689
Query 279 TGGCGGTGGCGCCGGATCGCCGCCGACGCCGAGGTCGGCGGAGCAGCGGTGGAAGTGGGT 338
|||| || | | | |||||||||||||| ||||||||||||||||||||||||||||
Sbjct 97797688 CAGCGGCGGGGTC-G-CCGCCGCCGACGCCGCGGTCGGCGGAGCAGCGGTGGAAGTGGGT 97797631
Query 339 GGAGAACTACTGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAATGACAAGTG 398
||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct 97797630 GGAGAACTACTGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAACGACAAGTG 97797571
Query 399 GGACAACCTCCTCCGCGACTACAAGAAGGTCCGCGACTACGAGTcccgcgtcgccgccgc 458
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 97797570 GGACAACCTCCTCCGCGACTACAAGAAGGTCCGCGACTACGAGTCCCGCGTCGCCGCCAC 97797511
Query 459 cgccgtcac--cggc----ggcgcg-gc-c-g-c-c-gcca-actccgcc-c----c-cc 499
|||| | | |||| ||||| || | | | | |||| |||| ||| | | ||
Sbjct 97797510 GGCCGGCGCGGCGGCCTCTGGCGCCAGCACCGGCGCCGCCACACTC-GCCGCAGTACTCC 97797452
Query 500 tcccgTCGTACTGGACGATGGAGCGGCACGAGCGCAAGGACTGCAACCTCCCCACCAACC 559
||||||| |||||||| || ||||||||||| ||||||||| ||||||||||||||||||
Sbjct 97797451 TCCCGTCCTACTGGACCATCGAGCGGCACGACCGCAAGGACCGCAACCTCCCCACCAACC 97797392
Query 560 TGGCGCCGGAGGTCTACGACGCGCTCTCCGAGGTGCTCTcccgccgcgcggcgcgacgcg 619
| |||||||||||||||||||||||||| ||||| |||||||||||||| |||||||| |
Sbjct 97797391 TCGCGCCGGAGGTCTACGACGCGCTCTCGGAGGTCCTCTCCCGCCGCGCCGCGCGACGGG 97797332
Query 620 gcggcgccacgatcgcgcccaccccgccgccaccac-cgctc-gc-gctgccgccgccgc 676
|||||| ||||||||| |||||||| || || || | ||||| || || ||| || || |
Sbjct 97797331 GCGGCGTCACGATCGCACCCACCCCTCCACCCCCGCTCGCTCTGCCGCCGCCACCACCCC 97797272
Query 677 cgccgccgccctcgccgccgAAGCCTCTCGTCGCGCAGCAGca 719
| || || ||||| || |||||||||||| || | ||||||||
Sbjct 97797271 CACCTCCACCCTCCCCTCCGAAGCCTCTCATCACCCAGCAGCA 97797229
Score = 394 bits (213), Expect = 5e-107
Identities = 304/345 (88%), Gaps = 18/345 (5%)
Strand=Plus/Minus
Query 1662 TGTGTAGc---ggaggaggagatgtc-gggg-tc-gtcgga-gtcg-gg-ggaggaggag 1712
|||||||| ||||||||||||||| |||| | | ||| | | || ||||||||||
Sbjct 97796655 TGTGTAGCGGAGGAGGAGGAGATGTCGGGGGAGCAGGAGGAGGGGGAGGAGGAGGAGGAG 97796596
Query 1713 gaggggtcgggcggggagccggaggcgaagcggcggcggctgagccggcTGGGGTCGAGC 1772
||||||||||| || ||||||||| |||| |||| | || ||||||| ||||||
Sbjct 97796595 GAGGGGTCGGGAGGCGAGCCGGAGTCGAA---GCGG-AG--GA---GGCTGGGATCGAGC 97796545
Query 1773 GTGGTGAGGAGCGCGACGGTGGTGGCGAGGACGCTGGTGGCGTGCGAGGAGAAGCGGGAG 1832
|||||| |||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct 97796544 GTGGTGCGGAGCGCGACGGTGGTGGCGCGGACGCTGGTGGCGTGCGAGGAGAAGCGGGAG 97796485
Query 1833 CGCCGGCACCGGGAGCTGCTGCAGCTGGAGGAGCGGCGGCTGCGCCTCGAGGAGGAGCGC 1892
|| ||||||||||||||||||||||||||||||||||||||||| || ||||||||||||
Sbjct 97796484 CGGCGGCACCGGGAGCTGCTGCAGCTGGAGGAGCGGCGGCTGCGGCTGGAGGAGGAGCGC 97796425
Query 1893 ACCGAGGTCCGCCGCCAGGGCTTCGCCGGCCTCATCGCCGCCGTCAACAGCCTCTCCTCC 1952
|| ||||| || |||||||||||||||||||||||| ||||| |||||| ||||||| |
Sbjct 97796424 ACGGAGGTGCGGCGCCAGGGCTTCGCCGGCCTCATCTCCGCCATCAACAACCTCTCCGGC 97796365
Query 1953 GCCATCCACGCCCTCGTCTCCGACCACCGCAGCGGCGACTCCTCC 1997
|||||||||||||||||||||||||||||||||||||||||||||
Sbjct 97796364 GCCATCCACGCCCTCGTCTCCGACCACCGCAGCGGCGACTCCTCC 97796320
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 2546477961872
Database: zizania_palustris_13Nov2018_okGsv.fasta
Posted date: Jul 9, 2019 4:10 PM
Number of letters in database: 1,288,768,912
Number of sequences in database: 2,183
Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5