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OsSHA1_out.txt
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OsSHA1_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= EF203244.1 Oryza sativa (indica cultivar-group) shattering 1 (SHA1)
mRNA, complete cds
Length=1173
Score E
Sequences producing significant alignments: (Bits) Value
Scaffold_453;HRSCAF=2583 702 0.0
Scaffold_18;HRSCAF=1069 654 0.0
> Scaffold_453;HRSCAF=2583
Length=4333358
Score = 702 bits (380), Expect = 0.0
Identities = 620/728 (85%), Gaps = 48/728 (7%)
Strand=Plus/Minus
Query 126 ggcgacggggccggcgccgccgccgccgtcgccggcgtcggggtcggcgccgcgggACTA 185
||||||||| || || ||||||||||||||||| | || ||||||||||||||||||
Sbjct 3281318 GGCGACGGGACCCGCTCCGCCGCCGCCGTCGCC-G-GT----GTCGGCGCCGCGGGACTA 3281265
Query 186 CCGCAAGGGGAACTGGACGCTGCACGAGACGCTCATCCTCATCACCGCCAATCGTCTGGA 245
||||||||| ||||||||||| ||||||||||||||||||||||||||||| || || ||
Sbjct 3281264 CCGCAAGGGCAACTGGACGCTCCACGAGACGCTCATCCTCATCACCGCCAAGCGCCTCGA 3281205
Query 246 CGACGAccgccgcgccgg-cgt--t-g-gg-gg-cgcggcg--gctggt---ggc--ggc 291
|||||||||||| || || || | | || || | || | |||||| ||| |||
Sbjct 3281204 CGACGACCGCCGTGCTGGTGGTGGTGGTGGTGGTGGTGGGGTTGCTGGTGCCGGCGTGGC 3281145
Query 292 ggc-gccgggtcgccgccgacgccgAGGTCGGCGGAGCAGCGGTGGAAGTGGGTGGAGAA 350
||| | |||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct 3281144 GGCGGTGGGGTCGCCGCCGACGCCGCGGTCGGCGGAGCAGCGGTGGAAGTGGGTGGAGAA 3281085
Query 351 CTACTGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAATGACAAGTGGGACAA 410
||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 3281084 CTACTGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAACGACAAGTGGGACAA 3281025
Query 411 CCTCCTCCGCGACTACAAGAAGGTCCGCGACTACGAGTCccgcgtcgccgccgccgccgc 470
|||||||||||||||||||||||||||||||||||||||||| |||||||||| |||||
Sbjct 3281024 CCTCCTCCGCGACTACAAGAAGGTCCGCGACTACGAGTCCCGTATCGCCGCCGCGGCCGC 3280965
Query 471 caccggcggcgcggccgccgccaactccgcccccctcccgTCGTACTGGACGATGGAGCG 530
|| || || ||||||| |||||| | ||| |||||||||| |||||||| |||||||
Sbjct 3280964 CAGCGCCGCCGCGGCC-CCGCCACAT--GCCGCCCTCCCGTCCTACTGGACATTGGAGCG 3280908
Query 531 GCACGAGCGCAAGGACTGCAACCTCCCCACCAACCTGGCGCCGGAGGTCTACGACGCGCT 590
|||||||||||||||| ||||||| ||||| ||||| ||||| |||||| ||||||||||
Sbjct 3280907 GCACGAGCGCAAGGACCGCAACCTACCCACAAACCTCGCGCCCGAGGTCCACGACGCGCT 3280848
Query 591 CTCCGAGGTGCTCTcccgccgcgcggcgcgacgcggcggcgccacgatcgcgcccacccc 650
||||||||| || ||||||||||| ||||| || || ||||||||||||||||||||| |
Sbjct 3280847 CTCCGAGGTTCTATCCCGCCGCGCCGCGCGGCGGGGAGGCGCCACGATCGCGCCCACCTC 3280788
Query 651 gccgccaccaccgctcgcgctgccgctgccgccgccgccgccgcc-ctcgccgc-c-gAA 707
|| | || ||||| |||||||||| ||||||||||||||||| ||| || | | |||
Sbjct 3280787 TCC-CG-CC-CCGCTGGCGCTGCCGCCACCGCCGCCGCCGCCGCCACTCTCCCCTCCGAA 3280731
Query 708 GCCTCTCGTCGCGCAGCAGCAGCACCACCATCACGGCCATCACCACCACCCACCTCCTCC 767
||||||| || ||||||| |||||||| ||||| | |||| ||||||| |||| |||
Sbjct 3280730 GCCTCTCATCACGCAGCACCAGCACCAGCATCAT--C-ATCATCACCACCATCCTCATCC 3280674
Query 768 TCAGCCGCCGCCGTCGTCGCTGCAGCTCCCTCCGGCGGTCGTGGCTCCGCCGCCGGCGTC 827
|| | ||||||| | |||| ||| ||||| ||||| ||||||||||||||||
Sbjct 3280673 TC--C-GCCGCCG-C--CGCT-----TCC-TCCGGTGGTCG---CTCCGCCGCCGGCGTC 3280629
Query 828 CGTTTCCG 835
||||||||
Sbjct 3280628 CGTTTCCG 3280621
Score = 697 bits (377), Expect = 0.0
Identities = 620/729 (85%), Gaps = 49/729 (7%)
Strand=Plus/Minus
Query 126 ggcgacggggccggcgccgccgccgccgtcgccggcgtcggggtcggcgccgcgggACTA 185
||||||||| || || ||||||||||||||||| | || ||||||||||||||||||
Sbjct 3349187 GGCGACGGGACCCGCTCCGCCGCCGCCGTCGCC-G-GT----GTCGGCGCCGCGGGACTA 3349134
Query 186 CCGCAAGGGGAACTGGACGCTGCACGAGACGCTCATCCTCATCACCGCCAATCGTCTGGA 245
||||||||| ||||||||||| ||||||||||||||||||||||||||||| || || ||
Sbjct 3349133 CCGCAAGGGCAACTGGACGCTCCACGAGACGCTCATCCTCATCACCGCCAAGCGCCTCGA 3349074
Query 246 CGACGAccgccgcgccgg-cgt--t-g-gg-gg-cgcggcg--gctggt---ggc--ggc 291
|||||||||||| || || || | | || || | || | |||||| ||| |||
Sbjct 3349073 CGACGACCGCCGTGCTGGTGGTGGTGGTGGTGGTGGTGGGGTTGCTGGTGCCGGCGTGGC 3349014
Query 292 ggc-gccgggtcgccgccgacgccgAGGTCGGCGGAGCAGCGGTGGAAGTGGGTGGAGAA 350
||| | |||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct 3349013 GGCGGTGGGGTCGCCGCCGACGCCGCGGTCGGCGGAGCAGCGGTGGAAGTGGGTGGAGAA 3348954
Query 351 CTACTGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAATGACAAGTGGGACAA 410
||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 3348953 CTACTGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAACGACAAGTGGGACAA 3348894
Query 411 CCTCCTCCGCGACTACAAGAAGGTCCGCGACTACGAGTCccgcgtcgccgccgccg-ccg 469
|||||||||||||||||||||||||||||||||||||||||| |||||||||||| |||
Sbjct 3348893 CCTCCTCCGCGACTACAAGAAGGTCCGCGACTACGAGTCCCGTATCGCCGCCGCCGGCCG 3348834
Query 470 ccaccggcggcgcggccgccgccaactccgcccccctcccgTCGTACTGGACGATGGAGC 529
||| || || ||||||| |||||| | ||| |||||||||| |||||||| ||||||
Sbjct 3348833 CCAGCGCCGCCGCGGCC-CCGCCACAT--GCCGCCCTCCCGTCCTACTGGACATTGGAGC 3348777
Query 530 GGCACGAGCGCAAGGACTGCAACCTCCCCACCAACCTGGCGCCGGAGGTCTACGACGCGC 589
||||||||||||||||| ||||||| ||||| ||||| ||||| |||||| |||||||||
Sbjct 3348776 GGCACGAGCGCAAGGACCGCAACCTACCCACAAACCTCGCGCCCGAGGTCCACGACGCGC 3348717
Query 590 TCTCCGAGGTGCTCTcccgccgcgcggcgcgacgcggcggcgccacgatcgcgcccaccc 649
|||||||||| || ||||||||||| ||||| || || |||||||||||||||||||||
Sbjct 3348716 TCTCCGAGGTTCTATCCCGCCGCGCCGCGCGGCGGGGAGGCGCCACGATCGCGCCCACCT 3348657
Query 650 cgccgccaccaccgctcgcgctgccgctgccgccgccgccgccgcc-ctcgccgc-c-gA 706
| || | || ||||| |||||||||| ||||||||||||||||| ||| || | | ||
Sbjct 3348656 CTCC-CG-CC-CCGCTGGCGCTGCCGCCACCGCCGCCGCCGCCGCCACTCTCCCCTCCGA 3348600
Query 707 AGCCTCTCGTCGCGCAGCAGCAGCACCACCATCACGGCCATCACCACCACCCACCTCCTC 766
|||||||| || ||||||| |||||||| ||||| | |||| || |||| |||| ||
Sbjct 3348599 AGCCTCTCATCACGCAGCACCAGCACCAGCATCAT--C-ATCATCATCACCATCCTCATC 3348543
Query 767 CTCAGCCGCCGCCGTCGTCGCTGCAGCTCCCTCCGGCGGTCGTGGCTCCGCCGCCGGCGT 826
||| | ||||||| | |||| ||| ||||| ||||| |||||||||||||||
Sbjct 3348542 CTC--C-GCCGCCG-C--CGCT-----TCC-TCCGGTGGTCG---CTCCGCCGCCGGCGT 3348498
Query 827 CCGTTTCCG 835
|||||||||
Sbjct 3348497 CCGTTTCCG 3348489
Score = 468 bits (253), Expect = 2e-129
Identities = 305/330 (92%), Gaps = 3/330 (1%)
Strand=Plus/Minus
Query 835 Gcggaggaggagatgtcggggtcgtcggagtcgggggaggaggaggaggggtcgggcggg 894
||||||||||||||||||| |||||||||||| |||||||||||| |||||||| ||
Sbjct 3279909 GCGGAGGAGGAGATGTCGGTGTCGTCGGAGTC---GGAGGAGGAGGATGGGTCGGGAGGC 3279853
Query 895 gagccggaggcgaagcggcggcggctgagccggcTGGGGTCGAGCGTGGTGAGGAGCGCG 954
|||||||||||||||||||||||||||| |||||||||||||||||||||| | ||||||
Sbjct 3279852 GAGCCGGAGGCGAAGCGGCGGCGGCTGAACCGGCTGGGGTCGAGCGTGGTGCGCAGCGCG 3279793
Query 955 ACGGTGGTGGCGAGGACGCTGGTGGCGTGCGAGGAGAAGCGGGAGCGCCGGCACCGGGAG 1014
|||||||||||| | |||||||||||||||||||||||||||||||| ||||||||||||
Sbjct 3279792 ACGGTGGTGGCGCGCACGCTGGTGGCGTGCGAGGAGAAGCGGGAGCGGCGGCACCGGGAG 3279733
Query 1015 CTGCTGCAGCTGGAGGAGCGGCGGCTGCGCCTCGAGGAGGAGCGCACCGAGGTCCGCCGC 1074
|||||||||||||||||||||||||||| || |||||||||||||| ||||| || |||
Sbjct 3279732 TTGCTGCAGCTGGAGGAGCGGCGGCTGCGGCTGGAGGAGGAGCGCACGGAGGTGCGGCGC 3279673
Query 1075 CAGGGCTTCGCCGGCCTCATCGCCGCCGTCAACAGCCTCTCCTCCGCCATCCACGCCCTC 1134
|||||||||||||||||| || ||||||||||||||||||| |||||||||||| |||
Sbjct 3279672 CAGGGCTTCGCCGGCCTCGTCTCCGCCGTCAACAGCCTCTCGAGCGCCATCCACGCGCTC 3279613
Query 1135 GTCTCCGACCACCGCAGCGGCGACTCCTCC 1164
||||||||||||||||||||||||||||||
Sbjct 3279612 GTCTCCGACCACCGCAGCGGCGACTCCTCC 3279583
Score = 468 bits (253), Expect = 2e-129
Identities = 305/330 (92%), Gaps = 3/330 (1%)
Strand=Plus/Minus
Query 835 Gcggaggaggagatgtcggggtcgtcggagtcgggggaggaggaggaggggtcgggcggg 894
||||||||||||||||||| |||||||||||| |||||||||||| |||||||| ||
Sbjct 3347560 GCGGAGGAGGAGATGTCGGTGTCGTCGGAGTC---GGAGGAGGAGGATGGGTCGGGAGGC 3347504
Query 895 gagccggaggcgaagcggcggcggctgagccggcTGGGGTCGAGCGTGGTGAGGAGCGCG 954
|||||||||||||||||||||||||||| |||||||||||||||||||||| | ||||||
Sbjct 3347503 GAGCCGGAGGCGAAGCGGCGGCGGCTGAACCGGCTGGGGTCGAGCGTGGTGCGCAGCGCG 3347444
Query 955 ACGGTGGTGGCGAGGACGCTGGTGGCGTGCGAGGAGAAGCGGGAGCGCCGGCACCGGGAG 1014
|||||||||||| | |||||||||||||||||||||||||||||||| ||||||||||||
Sbjct 3347443 ACGGTGGTGGCGCGCACGCTGGTGGCGTGCGAGGAGAAGCGGGAGCGGCGGCACCGGGAG 3347384
Query 1015 CTGCTGCAGCTGGAGGAGCGGCGGCTGCGCCTCGAGGAGGAGCGCACCGAGGTCCGCCGC 1074
|||||||||||||||||||||||||||| || |||||||||||||| ||||| || |||
Sbjct 3347383 TTGCTGCAGCTGGAGGAGCGGCGGCTGCGGCTGGAGGAGGAGCGCACGGAGGTGCGGCGC 3347324
Query 1075 CAGGGCTTCGCCGGCCTCATCGCCGCCGTCAACAGCCTCTCCTCCGCCATCCACGCCCTC 1134
|||||||||||||||||| || ||||||||||||||||||| |||||||||||| |||
Sbjct 3347323 CAGGGCTTCGCCGGCCTCGTCTCCGCCGTCAACAGCCTCTCGAGCGCCATCCACGCGCTC 3347264
Query 1135 GTCTCCGACCACCGCAGCGGCGACTCCTCC 1164
||||||||||||||||||||||||||||||
Sbjct 3347263 GTCTCCGACCACCGCAGCGGCGACTCCTCC 3347234
> Scaffold_18;HRSCAF=1069
Length=98769966
Score = 654 bits (354), Expect = 0.0
Identities = 633/759 (83%), Gaps = 53/759 (7%)
Strand=Plus/Minus
Query 1 ATGTCGGGCTCCTCTGCCGACCCCTCGCCATCCGCCTCGACCGCGGGGGCGGCGGTCTCG 60
||||||| || | || ||||||||||||||| || || || | ||||||| ||||
Sbjct 97797959 ATGTCGGCCT-C-CT-CCGACCCCTCGCCAT-CG--TCCTCCTC---TGCGGCGGCCTCG 97797909
Query 61 CCGCTCGCGCTGCTCCGCGCGCACGGCCACGGCCACGGGCACCTG-ACTGCTAcgccgcc 119
||||| ||||| ||||||||||| | | |||| ||||| | || | ||||| |
Sbjct 97797908 CCGCTGGCGCTCATCCGCGCGCAC--ACTC-ACCACCCGCACCCGCAC-GTCACGCCTCT 97797853
Query 120 gtcgggggcgacggggccggcgccgccgccgccgtcgccggcgtcggggtcggcgccgcg 179
|||| | |||||||||| |||||||||||||||||||| | || ||||||||||||
Sbjct 97797852 GTCGCCGTCGACGGGGCCCGCGCCGCCGCCGCCGTCGCC-G-GT----GTCGGCGCCGCG 97797799
Query 180 ggACTACCGCAAGGGGAACTGGACGCTGCACGAGACGCTCATCCTCATCACCGCCAATCG 239
||||||||||||||| ||||||||||| |||||||||||| |||||||||||||||| ||
Sbjct 97797798 GGACTACCGCAAGGGCAACTGGACGCTCCACGAGACGCTCGTCCTCATCACCGCCAAGCG 97797739
Query 240 TCTGGACGACGAccgccgcgccggcgttgggggcgc-ggcggctggtggcggcggc-gcc 297
|| |||||||||||||| || || | || || || ||| || || ||||| || ||
Sbjct 97797738 CCTCGACGACGACCGCCGTGCTGGTGGTGCTGGTGCTGGC-GCCGG-CGCGGCAGCGGCG 97797681
Query 298 gggt---cgccgccgacgccgAGGTCGGCGGAGCAGCGGTGGAAGTGGGTGGAGAACTAC 354
|||| |||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct 97797680 GGGTCGCCGCCGCCGACGCCGCGGTCGGCGGAGCAGCGGTGGAAGTGGGTGGAGAACTAC 97797621
Query 355 TGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAATGACAAGTGGGACAACCTC 414
||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct 97797620 TGCTGGAAGAACGGCTGCCTCCGCAGCCAGAACCAGTGCAACGACAAGTGGGACAACCTC 97797561
Query 415 CTCCGCGACTACAAGAAGGTCCGCGACTACGAGTCccgcgtcgccgccgccgccgccac- 473
|||||||||||||||||||||||||||||||||||||||||||||||| | |||| | |
Sbjct 97797560 CTCCGCGACTACAAGAAGGTCCGCGACTACGAGTCCCGCGTCGCCGCCACGGCCGGCGCG 97797501
Query 474 -cggc----ggcgcg-gc-c-g-c-c-gcca-actccgcc-c----c-cctcccgTCGTA 515
|||| ||||| || | | | | |||| |||| ||| | | ||||||||| ||
Sbjct 97797500 GCGGCCTCTGGCGCCAGCACCGGCGCCGCCACACTC-GCCGCAGTACTCCTCCCGTCCTA 97797442
Query 516 CTGGACGATGGAGCGGCACGAGCGCAAGGACTGCAACCTCCCCACCAACCTGGCGCCGGA 575
|||||| || ||||||||||| ||||||||| ||||||||||||||||||| ||||||||
Sbjct 97797441 CTGGACCATCGAGCGGCACGACCGCAAGGACCGCAACCTCCCCACCAACCTCGCGCCGGA 97797382
Query 576 GGTCTACGACGCGCTCTCCGAGGTGCTCTcccgccgcgcggcgcgacgcggcggcgccac 635
|||||||||||||||||| ||||| |||||||||||||| |||||||| ||||||| |||
Sbjct 97797381 GGTCTACGACGCGCTCTCGGAGGTCCTCTCCCGCCGCGCCGCGCGACGGGGCGGCGTCAC 97797322
Query 636 gatcgcgcccaccccgccgccaccaccgctcgcgctgccgctgccgccgccgccgccgcc 695
|||||| |||||||| || || || | |||||| ||||||| ||| || || || || ||
Sbjct 97797321 GATCGCACCCACCCCTCCACC-CC-C-GCTCGCTCTGCCGCCGCCACCACCCCCACCTCC 97797265
Query 696 -c--tcgccgccgAAGCCTCTCGTCGCGCAGCAGCAGCA 731
| || || |||||||||||| || | |||||||||||
Sbjct 97797264 ACCCTCCCCTCCGAAGCCTCTCATCACCCAGCAGCAGCA 97797226
Score = 392 bits (212), Expect = 1e-106
Identities = 296/334 (89%), Gaps = 15/334 (4%)
Strand=Plus/Minus
Query 837 ggaggaggagatgtc-gggg-tc-gtcgga-gtcg-gg-ggaggaggaggaggggtcggg 890
||||||||||||||| |||| | | ||| | | || |||||||||||||||||||||
Sbjct 97796644 GGAGGAGGAGATGTCGGGGGAGCAGGAGGAGGGGGAGGAGGAGGAGGAGGAGGGGTCGGG 97796585
Query 891 cggggagccggaggcgaagcggcggcggctgagccggcTGGGGTCGAGCGTGGTGAGGAG 950
|| ||||||||| |||| |||| | || ||||||| |||||||||||| ||||
Sbjct 97796584 AGGCGAGCCGGAGTCGAA---GCGG-AG--GA---GGCTGGGATCGAGCGTGGTGCGGAG 97796534
Query 951 CGCGACGGTGGTGGCGAGGACGCTGGTGGCGTGCGAGGAGAAGCGGGAGCGCCGGCACCG 1010
|||||||||||||||| |||||||||||||||||||||||||||||||||| ||||||||
Sbjct 97796533 CGCGACGGTGGTGGCGCGGACGCTGGTGGCGTGCGAGGAGAAGCGGGAGCGGCGGCACCG 97796474
Query 1011 GGAGCTGCTGCAGCTGGAGGAGCGGCGGCTGCGCCTCGAGGAGGAGCGCACCGAGGTCCG 1070
||||||||||||||||||||||||||||||||| || |||||||||||||| ||||| ||
Sbjct 97796473 GGAGCTGCTGCAGCTGGAGGAGCGGCGGCTGCGGCTGGAGGAGGAGCGCACGGAGGTGCG 97796414
Query 1071 CCGCCAGGGCTTCGCCGGCCTCATCGCCGCCGTCAACAGCCTCTCCTCCGCCATCCACGC 1130
|||||||||||||||||||||||| ||||| |||||| ||||||| ||||||||||||
Sbjct 97796413 GCGCCAGGGCTTCGCCGGCCTCATCTCCGCCATCAACAACCTCTCCGGCGCCATCCACGC 97796354
Query 1131 CCTCGTCTCCGACCACCGCAGCGGCGACTCCTCC 1164
||||||||||||||||||||||||||||||||||
Sbjct 97796353 CCTCGTCTCCGACCACCGCAGCGGCGACTCCTCC 97796320
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 1474279212120
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