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_003663.2 Length=224499 Score E Sequences producing significant alignments: (Bits) Value seq44403 122 1e-22 seq14694 120 4e-22 seq116961 118 2e-21 >seq44403 Length=740699 Score = 122 bits (134), Expect = 1e-22 Identities = 109/137 (80%), Gaps = 0/137 (0%) Strand=Plus/Minus Query 79060 ACTTGAAATTCTCCAGACAATACTCTCCGAGTGTAAATATTACTGGTATATGGTTCCACC 79119 || ||||||||||| ||||| || || |||||||| || |||||||| || ||||| | Sbjct 631769 ACCTGAAATTCTCCTGACAAGACCCTGCGAGTGTAGATGTTACTGGTGTAAGGTTCAATG 631710 Query 79120 GATTCATTATTTCCCAAAATTTGAGCAGTTGATGCCGTTGGCATAGGTGCCACCAATAAA 79179 ||||||||||| |||| ||| ||||||||||| || || ||||| || || | | |||| Sbjct 631709 GATTCATTATTCCCCAGAATCTGAGCAGTTGAGGCAGTAGGCATTGGGGCAATAAGTAAA 631650 Query 79180 CTATTTCTAAGACCGTA 79196 || ||||| | ||| || Sbjct 631649 CTGTTTCTTACACCATA 631633 Score = 102 bits (112), Expect = 1e-16 Identities = 125/171 (73%), Gaps = 0/171 (0%) Strand=Plus/Minus Query 78785 TCCATCCGTAGAAATGCATACTCGTTAGTTTGGAATAACTCGGATCTGCTATATGGATAT 78844 |||| |||||||| |||||||| || |||||| ||| | || || || || ||||| | Sbjct 634851 TCCAGCCGTAGAAGTGCATACTAGTGAGTTTGCCATAGTTAGGCTCAGCAATGTGGATGT 634792 Query 78845 TCATAGATTGACTTTGATCGATGAAGGCTCCCCTGTCTGCAGCCATTTTTATGATCGTCT 78904 | | ||| || |||||||||||||| || || || || || ||||| || | | |||| Sbjct 634791 TTAAAGACTGGCTTTGATCGATGAAAGCACCTCTCTCGGCTGCCATCTTGAGAACAGTCT 634732 Query 78905 TTTGTGGAATTTCCCAAATAGTTTTATAAACTCGCTTAATATCTTCTGGAA 78955 | || | |||||||| | ||| ||||| | |||| | || || |||| Sbjct 634731 TCTGAGAGATTTCCCACACAGTCTTATAGAGCTGCTTTAGGTCATCAGGAA 634681 Score = 96.9 bits (106), Expect = 5e-15 Identities = 134/188 (71%), Gaps = 0/188 (0%) Strand=Plus/Minus Query 79300 TATGTTTCATAAGGTCCTTCCTTTTCGGCTAATTCACAACTCGCCTCTAATGCTCCGTAA 79359 || ||||||||||| || | || | |||| ||||| || || || || ||||| ||| Sbjct 627706 TACGTTTCATAAGGGCCATACTCCTTTGCTAGGTCACAGCTAGCTTCCAAAGCTCCATAA 627647 Query 79360 TAAATGGTTTCGAAAATCTTCTTATTGAGATCTTGTGCTTCTAGGCTATCAAATGGATAA 79419 ||||| ||||| || || | |||||| | || |||||| |||| ||||| || || Sbjct 627646 TAAATAGTTTCAAAGATTTGCTTATTCAATAACTGGGCTTCTGGGCTCTCAAAGGGGTAT 627587 Query 79420 TTTAAGAGAATAAACGCGTCTGCTAATCCTTGAACACCAATACCGATAGGTCTATGTCTC 79479 | | || || || || ||||||| ||||| || ||||| || || || | ||| | Sbjct 627586 CTCATCAGGATGAAAGCATCTGCTAGACCTTGTACCCCAATTCCAATGGGCCGATGGCGT 627527 Query 79480 TTATTAGA 79487 ||||| || Sbjct 627526 TTATTTGA 627519 Score = 89.7 bits (98), Expect = 7e-13 Identities = 100/134 (75%), Gaps = 0/134 (0%) Strand=Plus/Minus Query 79939 ACTCGTTTCATAAAGAGATCAGGAATCCAAAGAGCTATAAATAGATCTCTGGTTCTATGC 79998 ||||| ||||| |||||||| ||||||||||| || | || ||||| | || || ||| Sbjct 624562 ACTCGCTTCATGAAGAGATCTGGAATCCAAAGTGCAAAGAAGAGATCCCGGGCTCGCTGC 624503 Query 79999 TCCTCGTTTCCTGTATTCTTTTTAAGATCGAGGAACGCCATAATATCAGAATGCCACGGT 80058 || || || ||||| ||||| || | || |||||| | | || || | ||||| || Sbjct 624502 TCTTCCTTCCCTGTGTTCTTCTTCAAGTCAAGGAACTCAAAGATGTCTAAGTGCCAAGGC 624443 Query 80059 TCCAAGTATATGGC 80072 |||| ||| ||||| Sbjct 624442 TCCAGGTAAATGGC 624429 >seq14694 Length=1798513 Score = 120 bits (132), Expect = 4e-22 Identities = 101/124 (81%), Gaps = 0/124 (0%) Strand=Plus/Plus Query 49982 CCTCGTCTCTACTAATTAGTTCGTTGGAAAACGTGAGTCCGGGCATTAGGCCACGCTTTT 50041 |||||||||| ||||| || || ||||||||||| || || ||||| || || || || | Sbjct 774096 CCTCGTCTCTGCTAATAAGCTCATTGGAAAACGTAAGGCCAGGCATCAGTCCCCGTTTCT 774155 Query 50042 TAAGCCAAAATATGGACGCAAATGACCCAGAAAAGAAGATTCCTTCTACTGCGGCAAAGG 50101 | ||||| ||||| || ||||| || ||||| |||||||| ||||| || |||||||||| Sbjct 774156 TGAGCCAGAATATTGATGCAAAAGAGCCAGAGAAGAAGATCCCTTCCACGGCGGCAAAGG 774215 Query 50102 CAAC 50105 | || Sbjct 774216 CCAC 774219 Score = 91.5 bits (100), Expect = 2e-13 Identities = 108/145 (74%), Gaps = 5/145 (3%) Strand=Plus/Plus Query 49608 GTTTCTTTAAAAGTCAACATCTAGAGAAAAATGATTATCTTCTTGA----GACATAACTC 49663 |||| ||| || ||| |||| | | |||| ||| ||| |||| ||||| || | Sbjct 772095 GTTTACTTAGAAATCAGCATCCAAGGTAAAAGAATTCTCTG-TTGAACTCGACATCACCC 772153 Query 49664 CCATTTTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTTTTTCCTTCCAATGATA 49723 |||| | |||||||| ||||| || || || || || || || |||||||| | ||| | Sbjct 772154 CCATCCTCTGGTATTCTCCCACTCGCTTCTCAAAGAAGTTTGTCTTTCCTTCTAGTGAAA 772213 Query 49724 TATTTTCCATGAAATCAAACGGATT 49748 ||||||||||||| ||||| ||||| Sbjct 772214 TATTTTCCATGAAGTCAAATGGATT 772238 >seq116961 Length=993603 Score = 118 bits (130), Expect = 2e-21 Identities = 206/297 (69%), Gaps = 7/297 (2%) Strand=Plus/Minus Query 47767 TCTGGATAATATATACGTTGATAGATTAGCTGAGCTATTCTATCTCCCGTATTTACATTG 47826 ||||||||| | || |||| | | || ||||| || || | ||| || | || || | Sbjct 255538 TCTGGATAAAAGATCCGTTCAGAAATGAGCTGTGCAATCCGATCACCTTTTTTCACTTCA 255479 Query 47827 AACGTACATTTTCCATTATTAATAAGAATGACTCCTATGTTTCCCCTATAATCTTCGTCT 47886 ||| | ||||||| ||||| || | || || | ||||| ||||||||||| ||| Sbjct 255478 AACTTCTCTTTTCCAAAATTAAACAGCACAACACCAACATTTCCTCTATAATCTTCATCT 255419 Query 47887 ATTACACCACCTCCTATATCAAT---GCCTTTTAGTGACAGTCCAGACCTAGGAGCTATT 47943 || |||||| |||||| ||| || | ||||| || || ||||| | ||||||| | Sbjct 255418 ATGACACCAGCTCCTACATCTATGAAGGGTTTTACTGCCAAGCCAGAACCTGGAGCTACT 255359 Query 47944 CTACCATAGCAGAACTTAGGCATGGACATACTAATATCTGTCTTAATTAACTGTCTTTCT 48003 || |||||||| ||| | | || ||| ||||| || | | || |||||| Sbjct 255358 CTTCCATAGCATCCAGAAGGAACAGCTATCTGAATGTCTGTTTTCA--CAATGGCTTTCT 255301 Query 48004 CC--TGGAGGGATAGTATAATCGTAAGCGCTATACAAATCATATCCGGCAGCACCCG 48058 || || ||||| |||||||| || || || |||| || || || ||||||| || Sbjct 255300 CCATGGGTGGGATTGTATAATCATAGGCACTGTACAGGTCGTAGCCCGCAGCACGCG 255244 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 717197026231720