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_024450.1 Length=204054 Score E Sequences producing significant alignments: (Bits) Value seq108018 107 2e-18 seq117011 105 9e-18 seq78627 104 3e-17 seq75927 104 3e-17 seq27479 104 3e-17 seq7994 104 3e-17 seq35323 95.1 2e-14 >seq108018 Length=242351 Score = 107 bits (118), Expect = 2e-18 Identities = 68/74 (92%), Gaps = 0/74 (0%) Strand=Plus/Plus Query 8656 ATTCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGAT 8715 ||||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||| Sbjct 191614 ATTCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGAT 191673 Query 8716 TCCCCGACGAGGAG 8729 ||||||||| |||| Sbjct 191674 TCCCCGACGGGGAG 191687 Score = 102 bits (112), Expect = 1e-16 Identities = 67/73 (92%), Gaps = 1/73 (1%) Strand=Plus/Plus Query 11730 TCCTCGTTAGTATAGTGGT-AGTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 11788 ||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 191616 TCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 191675 Query 11789 CCCGACGAGGAGG 11801 ||||||| ||||| Sbjct 191676 CCCGACGGGGAGG 191688 Score = 95.1 bits (104), Expect = 2e-14 Identities = 66/75 (88%), Gaps = 0/75 (0%) Strand=Plus/Minus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 191687 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 191628 Query 139413 TACTAACGAGGATTT 139427 |||||||||||| || Sbjct 191627 TACTAACGAGGAATT 191613 >seq117011 Length=451335 Score = 105 bits (116), Expect = 9e-18 Identities = 67/73 (92%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 8657 TTCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATT 8716 |||||||||||||||||||| ||||| |||| ||||| | |||||||||||||||||||| Sbjct 277594 TTCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATT 277535 Query 8717 CCCCGACGAGGAG 8729 |||||||| |||| Sbjct 277534 CCCCGACGGGGAG 277522 Score = 104 bits (114), Expect = 3e-17 Identities = 66/72 (92%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 235986 TCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 236045 Query 8718 CCCGACGAGGAG 8729 ||||||| |||| Sbjct 236046 CCCGACGGGGAG 236057 Score = 100 bits (110), Expect = 4e-16 Identities = 66/72 (92%), Gaps = 1/72 (1%) Strand=Plus/Plus Query 11730 TCCTCGTTAGTATAGTGGT-AGTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 11788 ||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 235986 TCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 236045 Query 11789 CCCGACGAGGAG 11800 ||||||| |||| Sbjct 236046 CCCGACGGGGAG 236057 Score = 100 bits (110), Expect = 4e-16 Identities = 71/80 (89%), Gaps = 1/80 (1%) Strand=Plus/Minus Query 11730 TCCTCGTTAGTATAGTGGT-AGTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 11788 ||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 277593 TCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 277534 Query 11789 CCCGACGAGGAGGGAGGTTA 11808 ||||||| |||| | |||| Sbjct 277533 CCCGACGGGGAGAGTTGTTA 277514 Score = 96.9 bits (106), Expect = 5e-15 Identities = 65/73 (89%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 139352 ACTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACT 139411 ||||| ||||||||| |||||||||||||||||| | |||| |||||||| | |||||| Sbjct 236058 ACTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 235999 Query 139412 ATACTAACGAGGA 139424 ||||||||||||| Sbjct 235998 ATACTAACGAGGA 235986 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 277522 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 277581 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 277582 TACTAACGAGGA 277593 >seq78627 Length=1950313 Score = 104 bits (114), Expect = 3e-17 Identities = 68/75 (91%), Gaps = 0/75 (0%) Strand=Plus/Minus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 538571 TCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 538512 Query 8718 CCCGACGAGGAGCAG 8732 ||||||| |||| || Sbjct 538511 CCCGACGGGGAGAAG 538497 Score = 100 bits (110), Expect = 4e-16 Identities = 68/75 (91%), Gaps = 1/75 (1%) Strand=Plus/Minus Query 11727 CAGTCCTCGTTAGTATAGTGGT-AGTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGA 11785 || ||||||||||||||||||| ||||| |||| ||||| | |||||||||||||||||| Sbjct 538574 CACTCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGA 538515 Query 11786 TTCCCCGACGAGGAG 11800 |||||||||| |||| Sbjct 538514 TTCCCCGACGGGGAG 538500 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 538500 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 538559 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 538560 TACTAACGAGGA 538571 >seq75927 Length=353701 Score = 104 bits (114), Expect = 3e-17 Identities = 66/72 (92%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||||||||||||||||||||||||| |||| ||||| | |||||||||||||||| |||| Sbjct 159012 TCCTCGTTAGTATAGTGGTTAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCAATTC 158953 Query 8718 CCCGACGAGGAG 8729 ||||||| |||| Sbjct 158952 CCCGACGGGGAG 158941 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| | |||||||||||||||| | |||| |||||||| ||||||||| Sbjct 158941 CTCCCCGTCGGGGAATTGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTAACCACTA 159000 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 159001 TACTAACGAGGA 159012 Score = 95.1 bits (104), Expect = 2e-14 Identities = 65/72 (90%), Gaps = 1/72 (1%) Strand=Plus/Minus Query 11730 TCCTCGTTAGTATAGTGGT-AGTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 11788 ||||||||||||||||||| ||||| |||| ||||| | |||||||||||||||| |||| Sbjct 159012 TCCTCGTTAGTATAGTGGTTAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCAATTC 158953 Query 11789 CCCGACGAGGAG 11800 ||||||| |||| Sbjct 158952 CCCGACGGGGAG 158941 >seq27479 Length=274127 Score = 104 bits (114), Expect = 3e-17 Identities = 66/72 (92%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 32396 TCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 32455 Query 8718 CCCGACGAGGAG 8729 ||||||| |||| Sbjct 32456 CCCGACGGGGAG 32467 Score = 102 bits (112), Expect = 1e-16 Identities = 67/73 (92%), Gaps = 1/73 (1%) Strand=Plus/Plus Query 11729 GTCCTCGTTAGTATAGTGGT-AGTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATT 11787 |||||||||||||||||||| ||||| |||| ||||| | |||||||||||||||||||| Sbjct 32395 GTCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATT 32454 Query 11788 CCCCGACGAGGAG 11800 |||||||| |||| Sbjct 32455 CCCCGACGGGGAG 32467 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 32467 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 32408 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 32407 TACTAACGAGGA 32396 >seq7994 Length=453558 Score = 104 bits (114), Expect = 3e-17 Identities = 66/72 (92%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||| ||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 9146 TCCCCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 9205 Query 8718 CCCGACGAGGAG 8729 |||||||||||| Sbjct 9206 CCCGACGAGGAG 9217 Score = 100 bits (110), Expect = 4e-16 Identities = 66/72 (92%), Gaps = 1/72 (1%) Strand=Plus/Plus Query 11730 TCCTCGTTAGTATAGTGGT-AGTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 11788 ||| ||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 9146 TCCCCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 9205 Query 11789 CCCGACGAGGAG 11800 |||||||||||| Sbjct 9206 CCCGACGAGGAG 9217 Score = 96.9 bits (106), Expect = 5e-15 Identities = 65/73 (89%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||||||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 9217 CTCCTCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 9158 Query 139413 TACTAACGAGGAT 139425 |||||||| |||| Sbjct 9157 TACTAACGGGGAT 9145 >seq35323 Length=73809 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||| || |||||||||||| ||||| |||| ||||| | ||||| ||||||||||||||| Sbjct 136 TCCCCGCTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGANACCGGGGTTCGATTC 77 Query 8718 CCCGACGAGGAG 8729 |||||||||||| Sbjct 76 CCCGACGAGGAG 65 Score = 91.5 bits (100), Expect = 2e-13 Identities = 64/72 (89%), Gaps = 1/72 (1%) Strand=Plus/Minus Query 11730 TCCTCGTTAGTATAGTGGT-AGTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 11788 ||| || |||||||||||| ||||| |||| ||||| | ||||| ||||||||||||||| Sbjct 136 TCCCCGCTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGANACCGGGGTTCGATTC 77 Query 11789 CCCGACGAGGAG 11800 |||||||||||| Sbjct 76 CCCGACGAGGAG 65 Score = 87.8 bits (96), Expect = 2e-12 Identities = 63/73 (86%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||||||||||||| |||||||||||| ||||| | |||| |||||||| | ||||||| Sbjct 65 CTCCTCGTCGGGGAATCGAACCCCGGTNTCCCGCGTGACAGGCGGGGATACTCACCACTA 124 Query 139413 TACTAACGAGGAT 139425 ||||| || |||| Sbjct 125 TACTAGCGGGGAT 137 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 651870649471120