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: Neotoma_20lepida_20[genbank_20GCA_5F001675575.1_202016-06-23] 119,373 sequences; 2,353,855,022 total letters Query= NC_014637.1 Length=617453 Score E Sequences producing significant alignments: (Bits) Value seq27438 176 2e-38 seq76224 125 3e-23 seq87143 107 8e-18 seq97228 105 3e-17 seq7954 100 1e-15 seq55092 87.8 7e-12 >seq27438 Length=395273 Score = 176 bits (194), Expect = 2e-38 Identities = 472/712 (66%), Gaps = 21/712 (3%) Strand=Plus/Plus Query 450914 GCAATTGGAATTGATCTTGGAACCACCTTTTCATGTGTAGGTGTTTACCAAAATGGAAAT 450973 ||| |||| ||||||||||| ||||| | || ||||| ||||||| || ||||||| Sbjct 214075 GCAGTTGGCATTGATCTTGGCACCACTTACTCCTGTGTGGGTGTTTTTCAGCATGGAAAG 214134 Query 450974 GTAGAAATTATAGCAAATGACCAAG-GATCACGAACTACTCCTTCATGGGTAAGTTTTAC 451032 || || || || || |||||||| | || | ||||| || || | || |||||| Sbjct 214135 GTGGAGATAATTGCCAATGACCAGGCGAAC-CGAACCACACCAAGCTATGTTGCTTTTAC 214193 Query 451033 GGATTCAGAAAGACTTTTAGGGCAAGCTGCTAA--ATCAATGGTA--AATTCAAATGCCA 451088 || |||| |||| | ||| | | | || |||| ||| ||| || ||| Sbjct 214194 TGACAAAGAATGACTAATTGGGGATACCTCGAAGAATCA--GGTTGCAATG--AACCCCA 214249 Query 451089 AAAACACAGTATATGATGCTAAACGTTTAATTGGCCGTATGTATGATGATGATACTGTAC 451148 |||||||| | |||||| |||| | | ||||| ||| || ||||||| | ||| | Sbjct 214250 CCAACACAGTTTTTGATGCCAAACATCTGATTGGATGTAGGTTTGATGATTCTGTTGTTC 214309 Query 451149 AAAAAGAGAAAAAATTCTTTTC--TTATGATGTAGTAAAT----CAAAAAGGAAAGCCCT 451202 | || | | || | ||||| || || ||| || | ||| || || Sbjct 214310 AGTCTGATATGTAGCACTGGCCCTTTATGGTG--GTGAATGATGCAGACAGGCCAGGCCA 214367 Query 451203 ATATTCAAGTAAATTATAAAGGTGAAACTAAAACTTTTGCTCCTGAAGAAATTTCATCTA 451262 | | |||||| | || ||||| || || |||| ||| || || || | || ||| Sbjct 214368 AGGTCCAAGTAGAGTACAAAGGAGAGACAAAAAGTTTCCACCCGGAGGAGGTGTCCTCTG 214427 Query 451263 TGGTTCTTACTAAAATGAAAGAAACAGCAGAACAATATATTGGTTCTCCAGTTACTGATG 451322 ||||||| | || ||| | |||| |||||| ||| |||| | ||||| ||| Sbjct 214428 TGGTTCTAATAAAGATGGAGGAAATTGCAGAAGCCTATCTTGGGAAGACGGTTACCAATG 214487 Query 451323 CAGTAATTACTGTTCCCGCTTATTTCAATGATGCACAACGGCAAGCAACTAAAGATGCAG 451382 | || | || || | |||| |||| |||| | || |||||||||| |||||||| | Sbjct 214488 CTGTGGTCACAGTGTCAGCTTGCTTCAGTGATTCTCAGTGGCAAGCAACAAAAGATGCTG 214547 Query 451383 GACATATTGCTGGTTTAAATGTTCTTCGAATTATTAATGAACCTACAGCAGCTGCTCTAG 451442 || ||||||||| | ||||| ||| ||||||| |||||||| || || |||||| | | Sbjct 214548 GAACTATTGCTGGCCTCAATGTGCTTTGAATTATCAATGAACCAACTGCTGCTGCTATTG 214607 Query 451443 CATATGGACTAGGAAAATCAAAAGAAACAGAAGaaaaaaaTATTTTAGTATTTGATTTTG 451502 | ||||| ||| || || | || |||| ||| | | | ||||| || | Sbjct 214608 CTTATGGGTTAGATAAG---AAGGTTGGAGCTGAAAGGAATGTGCTGATTTTTGACTTGG 214664 Query 451503 GTGGAGGAACTCATGATACTTCTGTACTTTCAATTGAAGATGGGGTATTTGAAGTAAAGG 451562 | || || ||| | || || | || | ||||| ||||| | ||||||||||| Sbjct 214665 GAGGTGGTACTTTTAATGTGTCAATCCTCACTATTGAGGATGGAATTTTTGAAGTAAAAT 214724 Query 451563 CAACCAATGGTGATACTCATCTAGGAGGTGAAGATATTGATAATGCAATTGT 451614 |||| ||| || || || | || || ||||| ||||||| |||| || Sbjct 214725 CAACAGCTGGAGACACCCACTTGGGTGGAGAAGACTTTGATAACCCAATAGT 214776 Score = 107 bits (118), Expect = 8e-18 Identities = 269/402 (67%), Gaps = 10/402 (2%) Strand=Plus/Plus Query 451967 GGAAAACAACTATGTAAGAGCGTAAATCCTGATGAAGCTGTTGCATATGGTGCTGCAGTT 452026 |||||| |||| ||||||| | || || ||||||||||||| |||||||| || || Sbjct 215117 GGAAAAGAACTGAATAAGAGCATTAACCCCAATGAAGCTGTTGCTTATGGTGCAGCTGTC 215176 Query 452027 CAAGCAGCTATTCTAACAGGTTCAGATGA---TGA-AAAATTAGGAGATATTCTGTTAGT 452082 || ||||| |||||| | || ||| | ||| || ||| | ||| | ||| | | Sbjct 215177 CAGGCAGCCATTCTATCTGG---AGACAAGTCTGAGAACATTCAG-GATTTGCTGCTCTT 215232 Query 452083 AGATGTAACACCTCTATCTCTTGGAGTTGAAACAGCTGGTGGAATGATGACTAATTTAAT 452142 ||||| || ||||| || ||||| |||| | ||||||||| | |||||| | || Sbjct 215233 GGATGTCACTCCTCTCTCCCTTGGTACTGAAGCTGCTGGTGGAGTCATGACTGTCCTCAT 215292 Query 452143 TAAACGAGGAACTTCTATTCCTTGTAAAAAGAGTCAAACATTTAGTACAGCAAGTGATAA 452202 | || || | || ||| || ||| || || || | | | ||| || Sbjct 215293 CAGGCGCAATACCACCATCCCTACCAAGCAGACACAGACTTTCACCATATACTCTGACAA 215352 Query 452203 CCAACCAGGTGTAACTATTCAAGTGTTTGAAGGAGAACGTGCAATGACACGAGATAATAA 452262 | | || ||||| | ||||| |||| |||||| ||| | || ||||| | |||||| || Sbjct 215353 CTAGCCTGGTGTCTC-ATTCAGGTGTATGAAGGTGAAAGGGCCATGAC-CAAGATAACAA 215410 Query 452263 TAAACTAGGAGAATTTACTCTTTCAAACATTCCTCCTATGCCAAGGGGAACTCCTCAAAT 452322 || ||| | ||| ||| || ||| |||| | | | || |||||| || Sbjct 215411 CCTGCTTGGAAAGTTTGACCTTACAGGCATACCTCTTGCACACCGTGGTGTTCCTCAGAT 215470 Query 452323 TGAAATTACCTATGATGTTGATGCAAATGGTATTCTTAATGT 452364 |||| | || | ||| |||||||||| || || || ||||| Sbjct 215471 TGAAGTCACTTTTGACATTGATGCAAAAGGCATCCTCAATGT 215512 >seq76224 Length=91619 Score = 125 bits (138), Expect = 3e-23 Identities = 277/414 (67%), Gaps = 4/414 (1%) Strand=Plus/Minus Query 451192 AGGAAAGCCCTATATTCAAGTAAATTATAAAGGTGAAACTAAAACTTTTGCTCCTGAAGA 451251 ||| | |||| | | |||||| | || ||||| || || |||| ||| || || || Sbjct 6281 AGGCAGGCCCAAGGTCCAAGTAGAGTAAAAAGGAGAGAC-AAAAGTTTCTANCCAGAGGA 6223 Query 451252 AATTTCATCTATGGTTCTTACTAAAATGAAAGAAACAGCAGAACAATATATTGGTTCTCC 451311 | || ||||||||||| | || ||||| |||| |||||| ||| |||| Sbjct 6222 GGTGTCTTCTATGGTTCTGATGAAGATGAAGGAAATTGCAGAAGCCTATCTTGGGAAGAT 6163 Query 451312 AGTTACTGATGCAGTAATTACTGTTCCCGCTTATTTCAATGATGCACAACGGCAAGCAAC 451371 ||||| |||| || | || || || ||||| |||||| | | || || || ||||| Sbjct 6162 GGTTACCAATGCTGTGGTCACAGTGCCAGCTTACTTCAATAAGTCTCAGCGACAGGCAAC 6103 Query 451372 TAAAGATGCAGGACATATTGCTGGTTTAAATGTTCTTCGAATTATTAATGAACCTACAGC 451431 |||| ||| ||| ||||||| | ||||| ||||||||||| |||||||| || || Sbjct 6102 AAAAGTTGCTGGAACTATTGCTAACCTCAATGTGCTTCGAATTATCAATGAACCAACTGC 6043 Query 451432 AGCTGCTCTAGCATATGGACTAGGAAAATCAAAAGAAACAGAAGaaaaaaaTATTTTAGT 451491 |||||| | || |||| ||| || || | || |||| ||| | | | Sbjct 6042 TGCTGCTATTGCTTATGTGTTAGATAA---GAAGGTTGGAGCTGAAAGGAATGTACTGAT 5986 Query 451492 ATTTGATTTTGGTGGAGGAACTCATGATACTTCTGTACTTTCAATTGAAGATGGGGTATT 451551 ||||| | || || || ||| |||| || | || | ||||| ||||| | || Sbjct 5985 TTTTGACTAGGGAGGTGGTACTTTTGATGTGTCAATCCTCACTATTGAGGATGGAATTTT 5926 Query 451552 TGAAGTAAAGGCAACCAATGGTGATACTCATCTAGGAGGTGAAGATATTGATAA 451605 |||||| || |||| ||| || || ||| | || || ||||| |||| || Sbjct 5925 TGAAGTCAAATCAACTGCTGGAGACACCCATTTGGGTGGAGAAGACTTTGACAA 5872 >seq87143 Length=1077445 Score = 107 bits (118), Expect = 8e-18 Identities = 106/137 (77%), Gaps = 0/137 (0%) Strand=Plus/Plus Query 451313 GTTACTGATGCAGTAATTACTGTTCCCGCTTATTTCAATGATGCACAACGGCAAGCAACT 451372 ||||| |||| || | || || || ||||| ||||||||| | || || || ||||| Sbjct 611613 GTTACCAATGCTGTGGTCACAGTGCCAGCTTACTTCAATGATTCTCAGCGACAGGCAACA 611672 Query 451373 AAAGATGCAGGACATATTGCTGGTTTAAATGTTCTTCGAATTATTAATGAACCTACAGCA 451432 |||||||| ||| ||||||||| | ||||| ||||||||||| ||||| || || || Sbjct 611673 AAAGATGCTGGAACTATTGCTGGCCTCAATGTGCTTCGAATTATCAATGAGCCAACTGCT 611732 Query 451433 GCTGCTCTAGCATATGG 451449 |||||| | || ||||| Sbjct 611733 GCTGCTATTGCTTATGG 611749 >seq97228 Length=228612 Score = 105 bits (116), Expect = 3e-17 Identities = 154/218 (71%), Gaps = 0/218 (0%) Strand=Plus/Plus Query 391050 ATGAATATTTTCGTTAAAACACTGACTGGTAAAACTATTACTCTTGATGTTGAATCATCT 391109 ||| | |||||||| || || || | || ||||| || || || || |||||| | || Sbjct 211566 ATGCAGATTTTCGTGAAGACCCTTATGGGGAAAACCATCACGCTCGAGGTTGAACCCTCG 211625 Query 391110 GATAACATTGAAGCTATTAAACAAAAAATTCAAGATAAGGAAGGAATTCCTCCTGATCAA 391169 || | || ||| | | || || || || ||||| |||||||||||||||||||| Sbjct 211626 GACACTATAGAAAATGTAAAGGCCAAGATCCAGGATAAAGAAGGAATTCCTCCTGATCAG 211685 Query 391170 CAACGTTTAATTTTCTCAGGGAAACAACTTGAAGATGGAAGAACTTTGGCGGATTATAAT 391229 ||| | | || ||| | || || || || |||||||| | |||||| | || || || Sbjct 211686 CAAAGGCTGATCTTCGCTGGTAAGCAGCTGGAAGATGGCCGTACTTTGTCTGACTACAAC 211745 Query 391230 ATTGATAAGGATGCAACACTTCACTTAGTATTAAGACT 391267 ||| | ||||| | || ||||| | || || ||||| Sbjct 211746 ATTCAAAAGGAGTCCACCCTTCATCTTGTGTTGAGACT 211783 >seq7954 Length=808569 Score = 100 bits (110), Expect = 1e-15 Identities = 153/218 (70%), Gaps = 0/218 (0%) Strand=Plus/Plus Query 391050 ATGAATATTTTCGTTAAAACACTGACTGGTAAAACTATTACTCTTGATGTTGAATCATCT 391109 ||| | ||||| || || || | || || ||||| || || || || |||||| | || Sbjct 793642 ATGGAGATTTTTGTGAAGACCTTTACAGGGAAAACCATCACGCTCGAGGTTGAACCCTCA 793701 Query 391110 GATAACATTGAAGCTATTAAACAAAAAATTCAAGATAAGGAAGGAATTCCTCCTGATCAA 391169 || | || ||| | | || || || || |||||||||||||||||||||||||| Sbjct 793702 GACACTATAGAAAATTTGAAGGCCAAGATCCAGGATAAGGAAGGAATTCCTCCTGATCAG 793761 Query 391170 CAACGTTTAATTTTCTCAGGGAAACAACTTGAAGATGGAAGAACTTTGGCGGATTATAAT 391229 ||| | | || ||| | || || || || |||||||| | |||||| | || || | Sbjct 793762 CAAAGGCTGATCTTCGCTGGTAAGCAGCTGGAAGATGGCCGTACTTTGTCTGACTACAGC 793821 Query 391230 ATTGATAAGGATGCAACACTTCACTTAGTATTAAGACT 391267 ||| | ||||| | || ||||| | || || ||||| Sbjct 793822 ATTCAAAAGGAGTCCACCCTTCATCTTGTGTTGAGACT 793859 >seq55092 Length=657151 Score = 87.8 bits (96), Expect = 7e-12 Identities = 87/113 (77%), Gaps = 0/113 (0%) Strand=Plus/Plus Query 451313 GTTACTGATGCAGTAATTACTGTTCCCGCTTATTTCAATGATGCACAACGGCAAGCAACT 451372 ||||| ||||||| ||||||| || ||||| ||||||||||| || ||||||||||| Sbjct 237020 GTTACCCATGCAGTTGTTACTGTACCAGCTTACTTCAATGATGCCCAGCGGCAAGCAACC 237079 Query 451373 AAAGATGCAGGACATATTGCTGGTTTAAATGTTCTTCGAATTATTAATGAACC 451425 |||||||| || |||||||| | ||||| | | || || ||||| || Sbjct 237080 AAAGATGCTGGCACCATTGCTGGACTGAATGTCATGAGGATCATCAATGAGCC 237132 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 1972696604770284