Alignment viewer

BLASTN 2.6.0+ Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Database: Oryza_20rufipogon_20[genbank_20GCA_5F000817225.1_202015-01-05] 3,818 sequences; 339,177,042 total letters Query= NC_006884.2 Length=178249 Score E Sequences producing significant alignments: (Bits) Value seq8 443 2e-119 seq2 322 5e-83 seq10 320 2e-82 seq12 143 3e-29 seq6 96.9 4e-15 >seq8 Length=25958679 Score = 443 bits (490), Expect = 2e-119 Identities = 600/834 (72%), Gaps = 2/834 (0%) Strand=Plus/Plus Query 170816 GTTGCGGGTTCTTTCTTATATGGTAACAACATCATCTCTGGTGCTGTAGTTCCATCTTCA 170875 ||| | |||| ||| | || || ||||| || ||||||||||| | |||| |||| Sbjct 20127943 GTTTCTGGTTTTTTACTTTACGGAAACAATATTATCTCTGGTGCCATTATTCCTACTTCT 20128002 Query 170876 AACGCAATAGGATTACACTTCTATCCCATCTGGGAAGCAGCCACTATGGACGAGTGGTTG 170935 || || ||||| ||||| || || || |||||||| || || | || |||||||| Sbjct 20128003 GCGGCGATCGGATTGCACTTTTACCCAATTTGGGAAGCTGCATCTGTTGATGAGTGGTTA 20128062 Query 170936 TACAACGGAGGTCCTTACCAGTTAGTTATTTTCCACTTCCTTATTGGAATCTCTGCCTAC 170995 ||||| || |||||||| || || || || | |||||| | |||| | || | Sbjct 20128063 TACAATGGCGGTCCTTATGAGCTAATTGTTCTACACTTCTTACTTGGTGTAGCTTGTCAT 20128122 Query 170996 ATGGGTAGACAGTGGGAACTATCATACAGACTAGGAATGAGACCTTGGATATGTGTAGCA 171055 |||||| | |||||||||| | | | || || ||| | |||||||| ||| ||| Sbjct 20128123 ATGGGTCGTGAGTGGGAACTGAGTTTCCGTCTGGGTATGCGTCCTTGGATTGCTGTTGCA 20128182 Query 171056 TACTCAGCACCTGTATCTGCAGCATTTGCAGTATTCCTTGTGTATCCATTCGGTCAGGGT 171115 || ||||| ||||| | || || ||| || ||| | || || | ||||| || Sbjct 20128183 TATTCAGCTCCTGTTGCGGCTGCTACTGCTGTTTTCTTGAATTACCCTATTGGTCAAGGA 20128242 Query 171116 TCATTCTCTGATGGTATGCCACTAGGTATCTCAGGTACGTTCAACTTCATGTTCGTGTTC 171175 ||||||||||||||||| |||| || || ||||| |||||||| ||| | || ||| Sbjct 20128243 AGTTTCTCTGATGGTATGCCTTTAGGAATATCTGGTACTTTCAACTTTATGATTGTATTC 20128302 Query 171176 CAAGCAGAACACAACATACTAATGCACCCCTTCCATATGGCAGGTGTAGCAGGTATGTTC 171235 || ||||| || ||||| || ||||| || || || ||| ||||||||| ||| | ||| Sbjct 20128303 CAGGCAGAGCATAACATCCTTATGCATCCATTTCACATGTTAGGTGTAGCTGGTGTATTC 20128362 Query 171236 GGTGGTAGTCTCTTCAGTGCAATGCACGGTTCTCTAGTGACATCTTCTCTAATCAGAGAG 171295 || ||| || |||||||| ||||| ||||| | || || ||| | | ||||| || Sbjct 20128363 GGCGGTTCCCTATTCAGTGCTATGCATGGTTCCTTGGTAACCTCTAGTTTGATCAGGGAA 20128422 Query 171296 ACAACTGAGAACGAGAGTCAAAACTACGGCTATAAGTTCGGACAAGAAGAAGAAACATAT 171355 || ||||| ||||| | || | || || | || || ||||| ||||| || ||| Sbjct 20128423 ACCACTGAAAACGAATCTGCTAATGAGGGTTACAGATTTGGTCAAGAGGAAGAGACTTAT 20128482 Query 171356 AACATTGTTGCTGCTCATGGATACTTCGGTAGATTAATCTTCCAGTATGCATCATTCAAC 171415 || ||||| || |||||||| || || || ||||||||||||| ||||| || ||| Sbjct 20128483 AATATTGTGGCCGCTCATGGTTATTTTGGCCGATTAATCTTCCAATATGCTAGTTTTAAC 20128542 Query 171416 AACTCTCGTTCATTACACTTCTTCCTCGCTGTATTCCCTGTAGTCTGTGTATGGTTAACC 171475 ||||||||||| |||||||||||| | | | | |||||||| | | ||||| || Sbjct 20128543 AACTCTCGTTCGTTACACTTCTTCTTGGTAGCTTGGCCTGTAGTAGGGATTTGGTTCACT 20128602 Query 171476 TCTATGGGTATCTGTACAATGGCATTCAACCTTAACGGATTCAACTTCAACCAATCAGTT 171535 || | ||||| |||| ||||| ||||| || ||||||||||| ||||||||||| || Sbjct 20128603 GCTTTAGGTATTAGTACTATGGCTTTCAATCTAAACGGATTCAATTTCAACCAATCTGTA 20128662 Query 171536 GTAGAT-GCAAACGGAAAGATTGTACCAACATGGGGAGATGTTCTTAACAGAGCAAACCT 171594 || ||| || || || || | || |||| ||| | | ||| | || || || Sbjct 20128663 GTTGATAGCCAA-GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 20128721 Query 171595 TGGAATGGAAGTTATGCATGAAAGAAATGCACACAACTTCCCACTAGACCTAGC 171648 ||| |||||||| ||||| ||| | ||||| ||||||||||| ||||||||||| Sbjct 20128722 TGGTATGGAAGTAATGCACGAACGTAATGCTCACAACTTCCCTCTAGACCTAGC 20128775 >seq2 Length=33962743 Score = 322 bits (356), Expect = 5e-83 Identities = 694/1038 (67%), Gaps = 21/1038 (2%) Strand=Plus/Minus Query 171795 TTTGACGTTCTTGATGATTGGTTAAAGAGAGATCGTTTCGTATTCATCGGATGGTCTGGT 171854 ||||| || | || || |||||| || || ||||| || || | ||||||||||| Sbjct 13366837 TTTGATATTATGGACGACTGGTTACGAAGGGACCGTTTTGTTTTTGTAGGATGGTCTGGC 13366778 Query 171855 CTTTTACTTTTACCTTGTGCTTACCTAGCAATCGGAGGTTGGTTCGTAGGAACTACTTTC 171914 || || ||||| ||||||||||| | || | ||||||||||| ||| || ||||| Sbjct 13366777 CTATTGCTTTTTCCTTGTGCTTATTTCGCTTTAGGAGGTTGGTTTACAGGGACAACTTTT 13366718 Query 171915 GTGACCTCATGGTACACACATGGTATTGCATCCTCATATCTTGAGGGAGCAAACTTTTTA 171974 || || || ||||| || ||||| | || || ||| | || || || || ||| Sbjct 13366717 GTAACTTCTTGGTATACCCATGGATTGGCGAGTTCCTATTTGGAAGGTTGCAATTTCTTA 13366658 Query 171975 ACTGCAGCAGTATCAACACCTGGTGATGCTATGGGTCATAGTCTATTGTTCCTATGGGGA 172034 || | |||||| || | |||| || | | | || | | ||| | |||||||| Sbjct 13366657 ACCGTAGCAGTTTCCCCCCCTGCCAATAGTTTAGCACACTCTTTGTTGCTACTATGGGGC 13366598 Query 172035 CCTGAGGCACAAGGAGATCTTGTACGATGGTTTCAATTAGGTGGACTATGGAACTTTGTA 172094 || || |||||||| ||| || || |||| |||||||||||| ||||||| ||||| Sbjct 13366597 CCGGAAGCACAAGGGGATTTTACTCGTTGGTGTCAATTAGGTGGTCTATGGACTTTTGTT 13366538 Query 172095 GCATTACATGGAGTCTTTGGACTCATAGGTTTCATGCTTAGACAGTTTGAGATTGCAGGA 172154 || | ||||| | |||| ||| |||||||||||| | | || ||||| |||| || Sbjct 13366537 GCTCTCCATGGGGCTTTTGCACTAATAGGTTTCATGTTACGTCAATTTGAACTTGCTCGA 13366478 Query 172155 CTTGTTGGGATACGTCCTTACAACGCACTAGCATTCTCAGCAGTTATTGCAGTATTCACG 172214 |||| | | ||||| || ||| | ||||||| | ||||| || || Sbjct 13366477 TCTGTTCAATTGTGGCCTTATAATGCAATTTCATTCTCTGGCCCAATTGCTGTTTTTGTT 13366418 Query 172215 AGCATCTTTCTAATATATCCATTAGGTCAGCATAGTTGGTTCTTCGCACCTTCATTTGGT 172274 | | || | || |||||| | || || |||||||||| || || ||||| Sbjct 13366417 TCCGTATTCCCGATTTATCCACTGGGGCAATCCGGTTGGTTCTTTGCGCCGAGTTTTGGC 13366358 Query 172275 GTCGCAGCAATCTTTCGTTATATTTTATTCATACAGGGTTTCCACAATATAACTCTTAAT 172334 || ||||| || ||||| | || | ||| | || || || || ||| || | || Sbjct 13366357 GTAGCAGCGATATTTCGATTCATCCTCTTCTTCCAAGGATTTCATAATTGGACGTTGAAC 13366298 Query 172335 CCATTTCATATGATGGGTGTAGCAGGTATACTTGGTGGAGCATTACTATGTGCCATACAT 172394 ||||||||||||||||| || || || || | || | || | ||||| || || ||| Sbjct 13366297 CCATTTCATATGATGGGAGTTGCCGGAGTATTAGGCGCGGCTCTGCTATGCGCTATTCAT 13366238 Query 172395 GGTGCAACAGTACAGAACACATTGTATGAAGACACATCACAATACACTGAAGGTAAGATT 172454 || ||||| || | ||||| | | ||| | || ||| |||| Sbjct 13366237 GGGGCAACCGTGGAAAACACTCTATTTGAGG------------ACGGTGATGGTA----- 13366195 Query 172455 CAATCTACAACTTTCAGAGCATTCGATCCTACACAGGAAGAAGAAACTTATAGTATGATT 172514 ||| | | ||||| | | || | || || || | ||||| |||||| ||| | Sbjct 13366194 CAA---ATACCTTTC-GCACTTTTAACCCAACTCAAGCTGAAGACACTTATTCAATGGTC 13366139 Query 172515 ACTGCTAACAGATTCTGGTCACAGATATTTGGTATAGCATTTTCAAACAAAAGATTCTTA 172574 || ||||| | || ||||| || || |||||| | || ||||| || ||| | | ||| Sbjct 13366138 ACCGCTAATCGCTTTTGGTCCCAAATCTTTGGTGTTGCTTTTTCCAATAAACGTTGGTTA 13366079 Query 172575 CACTTCCTTATGTTGTTCGTACCTGTCATGGGTATGTGGACATCATCTATAGGTATCGTA 172634 || ||| ||||| | || ||||| |||| ||| | |||| |||| || | || Sbjct 13366078 CATTTCTTTATGCTATTTGTACCGGTCACCGGTTTATGGATGAGTGCTATTGGCGTAGTC 13366019 Query 172635 GGTCTTGCACTTAACCTCAGAGCATACGACTTTGTATCTCAAGAGATAAGAGCAGCAGAA 172694 || || || || ||||| || || ||||| || || || || || | ||||| ||| Sbjct 13366018 GGCCTGGCTCTGAACCTACTTGCCTATGACTTCGTTTCCCAGGAAATCCGTGCAGCGGAA 13365959 Query 172695 GACCCAGAGTTTGAAACCTTCTACACTAAGAACATTCTTCTTAATGAAGGTATGAGAGCA 172754 || || || ||||| || |||||||| || || |||||| | || | ||||| | || Sbjct 13365958 GATCCTGAATTTGAGACTTTCTACACCAAAAATATTCTTTTAAACAAGGGTATTCGTGCG 13365899 Query 172755 TGGATGTCATCTGTCGATCAACCCCATGAGAACTTTGTGTTCCCAGAAGAAGTCTTGCCA 172814 |||||| || || ||||| || ||||| || || | ||||| || || || ||| Sbjct 13365898 TGGATGGCAGCTCAGGATCAGCCTCATGAAAATCTTATATTCCCTGAGGAGGTTCAACCA 13365839 Query 172815 CGAGGCAACGCACTATAA 172832 || || ||||| || ||| Sbjct 13365838 CGTGGAAACGCTCTTTAA 13365821 >seq10 Length=20731201 Score = 320 bits (354), Expect = 2e-82 Identities = 431/600 (72%), Gaps = 10/600 (2%) Strand=Plus/Plus Query 171049 TGTAGCATACTCAGCACCTGTATCTGCAGCATTTGCAGTATTCCTTGTGTATCCATTCGG 171108 ||| ||||| ||||| ||||| | || || ||| || ||| | | || || | || Sbjct 18975651 TGTTGCATATTCAGCTCCTGTTGCAGCTGCTACTGCTGTTTTCTTGATTTACCCTATTGG 18975710 Query 171109 TCAGGGTTCATTCTCTGATGGTATGCCACTAGGTATCTCAGGTACGTTCAACTTCATGTT 171168 ||| || |||| |||||||||||| |||| || || ||||| |||||||| ||| | Sbjct 18975711 TCAAGGAAGTTTCTTTGATGGTATGCCTTTAGGAATATCTGGTACTTTCAACTTTATGAT 18975770 Query 171169 CGTGTTCCAAGCAGAACACAACATACTAATGCACCCCTTCCATATGGCAGGTGTAGCAGG 171228 || ||||| ||||| || ||||| || ||||| | || || ||| ||||||||| || Sbjct 18975771 TGTATTCCAGGCAGATCATAACATCCTTATGCATCTATTTCACATGTTAGGTGTAGCTGG 18975830 Query 171229 TATGTTCGGTGGTAGTCTCTTCAGTGCAATGCACGGTTCTCTAGTGACATCTTCTCTAAT 171288 | | ||||| ||| || || ||||| ||||| ||||| | || || ||| | | || Sbjct 18975831 TGTATTCGGCGGTTCCCTATTTAGTGCTATGCATGGTTCCTTGGTAACCTCTAGTTTGAT 18975890 Query 171289 CAGAGAGACAACTGAGAACGAGAGTCAAAACTACGGCTATAAGTTCGGACAAGAAGAAGA 171348 | | || || ||||| ||||| | || | || || | || || ||||| ||||| Sbjct 18975891 CGGGGAAACCACTGAAAACGAATCTGCTAATGAGGGTTACAGATTTGGTCAAGAGGAAGA 18975950 Query 171349 AACATATAACATTGTTGCTGCTCATGGATACTTCGGTAGATTAATCTTCCAGTATGCATC 171408 || ||||| ||||| || |||||||| || || || ||||||||||||| ||||| Sbjct 18975951 GACTTATAATATTGTGGCCGCTCATGGTTATTTTGGCCGATTAATCTTCCAATATGCTAG 18976010 Query 171409 ATTCAACAACTCTCGTTCATTACACTTCTTCCTCGCTGTATTCCCTGTAGTCTGTGTATG 171468 || ||||||||||| || |||||||||||| | |||| | |||||||| | | || Sbjct 18976011 TTTTAACAACTCTCGATCTTTACACTTCTTCTTGGCTGCTTGGCCTGTAGTAGGGATTTG 18976070 Query 171469 GTTAACCTCTATGGGTATCTGTACAATGGCATTCAACCTTAACGGATTCAACTTCAACCA 171528 ||| | || | ||||| |||| ||||| ||||| || ||||||||||| |||||||| Sbjct 18976071 GTTCATTGCTTTAGGTATTAGTACTATGGCTTTCAATCTAAACGGATTCAATTTCAACCA 18976130 Query 171529 ATCAGTTGTAGATGCAAACGGAAAGATTGTACCAACATGGGGAGATGTTCTTAACAGAGC 171588 || ||||| || | | | || || |||| ||| | | ||| | || Sbjct 18976131 AT---ATGTAGTTGATAGCCAATTAAT-------ACTTGGGCTGATATCATCAACCGTGC 18976180 Query 171589 AAACCTTGGAATGGAAGTTATGCATGAAAGAAATGCACACAACTTCCCACTAGACCTAGC 171648 || ||||| |||||||| ||||| ||| | ||||| ||||||||||| ||||||||||| Sbjct 18976181 TAATCTTGGTATGGAAGTAATGCACGAACGTAATGCTCACAACTTCCCTCTAGACCTAGC 18976240 Score = 147 bits (162), Expect = 2e-30 Identities = 147/191 (77%), Gaps = 0/191 (0%) Strand=Plus/Minus Query 171119 TTCTCTGATGGTATGCCACTAGGTATCTCAGGTACGTTCAACTTCATGTTCGTGTTCCAA 171178 ||||||||||||||||| |||| || || ||||| |||||||| ||| | || ||||| Sbjct 9553635 TTCTCTGATGGTATGCCTTTAGGAATATCTGGTACTTTCAACTTTATGATTGTATTCCAG 9553576 Query 171179 GCAGAACACAACATACTAATGCACCCCTTCCATATGGCAGGTGTAGCAGGTATGTTCGGT 171238 ||||| || ||||| || ||||| || || || ||| ||||||||| ||| | ||||| Sbjct 9553575 GCAGAGCATAACATCCTTATGCATCCATTTCACATGTTAGGTGTAGCTGGTGTATTCGGC 9553516 Query 171239 GGTAGTCTCTTCAGTGCAATGCACGGTTCTCTAGTGACATCTTCTCTAATCAGAGAGACA 171298 ||| || |||||||| ||||| ||||| | || || ||| | | ||||| || || Sbjct 9553515 GGTTCCCTATTCAGTGCTATGCATGGTTCCTTGGTAACCTCTAGTTTGATCAGGGAAACC 9553456 Query 171299 ACTGAGAACGA 171309 ||||| ||||| Sbjct 9553455 ACTGAAAACGA 9553445 >seq12 Length=23561512 Score = 143 bits (158), Expect = 3e-29 Identities = 214/301 (71%), Gaps = 2/301 (1%) Strand=Plus/Plus Query 170675 TGGGTAACATCCACTGACAATCGCATCTACGTTGGTTGGTTTGGTGTCTTAATGATCCCA 170734 ||| |||| ||| || || || | ||| |||| ||||||||||| || |||||||| Sbjct 9700324 TGGATAACTAGCACCGAAAACCGTCTTTACATTGGATGGTTTGGTGTTTTGATGATCCC- 9700382 Query 170735 TGTCTTCTA-ACTGCTGCTGCTTGTTTCATTGTAGCATTCATCGCTGCTCCTCCAGTCGA 170793 | ||| | || || || || || ||| | || ||||||||||| ||||||| || Sbjct 9700383 TACCTTATTGACCGCAACTTCTGTATTTATTATCGCCTTCATCGCTGCCCCTCCAGCAGA 9700442 Query 170794 TATCGACGGAATCAGAGAACCAGTTGCGGGTTCTTTCTTATATGGTAACAACATCATCTC 170853 ||| || || || | || | ||| | |||| ||| | || || ||||| || ||||| Sbjct 9700443 TATTGATGGTATTCGTGAGCATGTTTCTGGTTTTTTACTTTACGGAAACAATATTATCTC 9700502 Query 170854 TGGTGCTGTAGTTCCATCTTCAAACGCAATAGGATTACACTTCTATCCCATCTGGGAAGC 170913 |||| | | |||| |||| | || || ||||| ||||| || | || |||||||| Sbjct 9700503 TGGTACCATTATTCCTACTTCTACTGCGATCGGATTGCACTTTTACTCAATTTGGGAAGC 9700562 Query 170914 AGCCACTATGGACGAGTGGTTGTACAACGGAGGTCCTTACCAGTTAGTTATTTTCCACTT 170973 || || | || |||||||| ||||| || |||||||| || || || || | ||||| Sbjct 9700563 TGCATCTGTTGATGAGTGGTTATACAATGGCGGTCCTTATGAGCTAATTGTTCTACACTT 9700622 Query 170974 C 170974 | Sbjct 9700623 C 9700623 Score = 98.7 bits (108), Expect = 1e-15 Identities = 142/198 (72%), Gaps = 2/198 (1%) Strand=Plus/Plus Query 171452 CCTGTAGTCTGTGTATGGTTAACCTCTATGGGTATCTGTACAATGGCATTCAACCTTAAC 171511 |||||||| | | ||||| || || | ||||| |||| ||||| ||||| || ||| Sbjct 9700737 CCTGTAGTAGGGATTTGGTTCACTGCTTTAGGTATTAGTACTATGGCTTTCAATCTAAAC 9700796 Query 171512 GGATTCAACTTCAACCAATCAGTTGTAGAT-GCAAACGGAAAGATTGTACCAACATGGGG 171570 |||||||| |||||| |||| || || ||| || || || || | || |||| Sbjct 9700797 GGATTCAATTTCAACTAATCTGTAGTTGATAGCCAA-GGTCGCGTTATTAATACTTGGGC 9700855 Query 171571 AGATGTTCTTAACAGAGCAAACCTTGGAATGGAAGTTATGCATGAAAGAAATGCACACAA 171630 ||| | | || | || || ||||| |||| ||| || || ||| | ||| | ||||| Sbjct 9700856 TGATATCATCAATCGTGCTAATCTTGGTATGGGAGTAATACACGAACGTAATACTCACAA 9700915 Query 171631 CTTCCCACTAGACCTAGC 171648 |||||| ||||||||||| Sbjct 9700916 CTTCCCTCTAGACCTAGC 9700933 >seq6 Length=27870862 Score = 96.9 bits (106), Expect = 4e-15 Identities = 104/138 (75%), Gaps = 0/138 (0%) Strand=Plus/Minus Query 171373 TGGATACTTCGGTAGATTAATCTTCCAGTATGCATCATTCAACAACTCTCGTTCATTACA 171432 ||| || || || ||||||||||||| ||||| || |||||||||||||| ||||| Sbjct 8615184 TGGTTATTTGGGCCGATTAATCTTCCAATATGCTAGTTTTAACAACTCTCGTTCTTTACA 8615125 Query 171433 CTTCTTCCTCGCTGTATTCCCTGTAGTCTGTGTATGGTTAACCTCTATGGGTATCTGTAC 171492 ||||||| | |||| | |||||||| | | ||||| || || | ||||| |||| Sbjct 8615124 CTTCTTCTTGGCTGCTTGGCCTGTAGTAGGGATTTGGTTCACTGCTTTAGGTATTAGTAC 8615065 Query 171493 AATGGCATTCAACCTTAA 171510 ||||| ||||| || || Sbjct 8615064 TATGGCTTTCAATCTAAA 8615047 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 570241583921520