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: Alligator_20mississippiensis_20[refseq_20GCF_5F000281125.3_202016- 03-28] 7,094 sequences; 2,161,730,208 total letters Query= NC_024450.1 Length=204054 Score E Sequences producing significant alignments: (Bits) Value seq4154 107 3e-18 seq2185 107 3e-18 seq7000 104 3e-17 seq6231 95.1 2e-14 seq5173 86.0 8e-12 >seq4154 Length=19707572 Score = 107 bits (118), Expect = 3e-18 Identities = 68/74 (92%), Gaps = 0/74 (0%) Strand=Plus/Minus Query 8656 ATTCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGAT 8715 ||||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||| Sbjct 906862 ATTCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGAT 906803 Query 8716 TCCCCGACGAGGAG 8729 ||||||||| |||| Sbjct 906802 TCCCCGACGGGGAG 906789 Score = 102 bits (112), Expect = 1e-16 Identities = 69/76 (91%), Gaps = 1/76 (1%) Strand=Plus/Minus Query 11727 CAGTCCTCGTTAGTATAGTGGTA-GTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGA 11785 || |||||||||||||||||||| |||| |||| ||||| | |||||||||||||||||| Sbjct 906863 CATTCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGA 906804 Query 11786 TTCCCCGACGAGGAGG 11801 |||||||||| ||||| Sbjct 906803 TTCCCCGACGGGGAGG 906788 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 906789 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACTA 906848 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 906849 TACTAACGAGGA 906860 >seq2185 Length=13751209 Score = 107 bits (118), Expect = 3e-18 Identities = 68/74 (92%), Gaps = 0/74 (0%) Strand=Plus/Plus Query 8656 ATTCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGAT 8715 ||||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||| Sbjct 4291514 ATTCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGAT 4291573 Query 8716 TCCCCGACGAGGAG 8729 ||||||||| |||| Sbjct 4291574 TCCCCGACGGGGAG 4291587 Score = 104 bits (114), Expect = 3e-17 Identities = 66/72 (92%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 8322502 TCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 8322561 Query 8718 CCCGACGAGGAG 8729 ||||||| |||| Sbjct 8322562 CCCGACGGGGAG 8322573 Score = 104 bits (114), Expect = 3e-17 Identities = 66/72 (92%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 8325429 TCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 8325488 Query 8718 CCCGACGAGGAG 8729 ||||||| |||| Sbjct 8325489 CCCGACGGGGAG 8325500 Score = 102 bits (112), Expect = 1e-16 Identities = 69/76 (91%), Gaps = 1/76 (1%) Strand=Plus/Plus Query 11726 CCAGTCCTCGTTAGTATAGTGGTA-GTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCG 11784 ||| |||||||||||||||||||| |||| |||| ||||| | ||||||||||||||||| Sbjct 8322498 CCACTCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCG 8322557 Query 11785 ATTCCCCGACGAGGAG 11800 ||||||||||| |||| Sbjct 8322558 ATTCCCCGACGGGGAG 8322573 Score = 100 bits (110), Expect = 4e-16 Identities = 68/75 (91%), Gaps = 1/75 (1%) Strand=Plus/Plus Query 11727 CAGTCCTCGTTAGTATAGTGGTA-GTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGA 11785 || |||||||||||||||||||| |||| |||| ||||| | |||||||||||||||||| Sbjct 4291513 CATTCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGA 4291572 Query 11786 TTCCCCGACGAGGAG 11800 |||||||||| |||| Sbjct 4291573 TTCCCCGACGGGGAG 4291587 Score = 100 bits (110), Expect = 4e-16 Identities = 66/72 (92%), Gaps = 1/72 (1%) Strand=Plus/Plus Query 11730 TCCTCGTTAGTATAGTGGTA-GTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 11788 |||||||||||||||||||| |||| |||| ||||| | ||||||||||||||||||||| Sbjct 8325429 TCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 8325488 Query 11789 CCCGACGAGGAG 11800 ||||||| |||| Sbjct 8325489 CCCGACGGGGAG 8325500 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 4291587 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACTA 4291528 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 4291527 TACTAACGAGGA 4291516 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 8322573 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACTA 8322514 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 8322513 TACTAACGAGGA 8322502 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 8325500 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACTA 8325441 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 8325440 TACTAACGAGGA 8325429 >seq7000 Length=13710731 Score = 104 bits (114), Expect = 3e-17 Identities = 66/72 (92%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||||||||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 12215269 TCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 12215328 Query 8718 CCCGACGAGGAG 8729 ||||||| |||| Sbjct 12215329 CCCGACGGGGAG 12215340 Score = 100 bits (110), Expect = 4e-16 Identities = 66/72 (92%), Gaps = 1/72 (1%) Strand=Plus/Plus Query 11730 TCCTCGTTAGTATAGTGGTA-GTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 11788 |||||||||||||||||||| |||| |||| ||||| | ||||||||||||||||||||| Sbjct 12215269 TCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 12215328 Query 11789 CCCGACGAGGAG 11800 ||||||| |||| Sbjct 12215329 CCCGACGGGGAG 12215340 Score = 100 bits (110), Expect = 4e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 8657 TTCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATT 8716 |||||||||||||||||||| ||||| |||| ||||| | |||||||||||||||| ||| Sbjct 12215823 TTCCTCGTTAGTATAGTGGTCAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCAATT 12215764 Query 8717 CCCCGACGAGGAG 8729 |||||||| |||| Sbjct 12215763 CCCCGACGGGGAG 12215751 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 12215340 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACTA 12215281 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 12215280 TACTAACGAGGA 12215269 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 12215822 TCCTCGTTAGTATAGTGGTCAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCAATTC 12215763 Query 11789 CCCGACGAGGAG 11800 ||||||| |||| Sbjct 12215762 CCCGACGGGGAG 12215751 Score = 89.7 bits (98), Expect = 7e-13 Identities = 63/72 (88%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| | |||||||||||||||| | |||| |||||||| | ||||||| Sbjct 12215751 CTCCCCGTCGGGGAATTGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTGACCACTA 12215810 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 12215811 TACTAACGAGGA 12215822 >seq6231 Length=55547322 Score = 95.1 bits (104), Expect = 2e-14 Identities = 66/75 (88%), Gaps = 0/75 (0%) Strand=Plus/Minus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 |||| ||||||||||||| ||||| |||| ||||| | ||||||||||||||||||||| Sbjct 4421802 TCCTTATTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATTC 4421743 Query 8718 CCCGACGAGGAGCAG 8732 ||||||| |||| || Sbjct 4421742 CCCGACGGGGAGGAG 4421728 Score = 95.1 bits (104), Expect = 2e-14 Identities = 66/74 (89%), Gaps = 1/74 (1%) Strand=Plus/Minus Query 11729 GTCCTCGTTAGTATAGTGGT-AGTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATT 11787 ||||| ||||||||||||| ||||| |||| ||||| | |||||||||||||||||||| Sbjct 4421803 GTCCTTATTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCGGGGTTCGATT 4421744 Query 11788 CCCCGACGAGGAGG 11801 |||||||| ||||| Sbjct 4421743 CCCCGACGGGGAGG 4421730 Score = 95.1 bits (104), Expect = 2e-14 Identities = 64/72 (89%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||||||||||||||||||| ||||| |||| ||||| | ||||||||| ||||||||||| Sbjct 4427884 TCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCAGGGTTCGATTC 4427943 Query 8718 CCCGACGAGGAG 8729 || |||||| || Sbjct 4427944 CCTGACGAGAAG 4427955 Score = 93.3 bits (102), Expect = 6e-14 Identities = 65/73 (89%), Gaps = 1/73 (1%) Strand=Plus/Plus Query 11730 TCCTCGTTAGTATAGTGGT-AGTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 11788 ||||||||||||||||||| ||||| |||| ||||| | ||||||||| ||||||||||| Sbjct 4427884 TCCTCGTTAGTATAGTGGTGAGTATCCCCGCCTGTCACGCGGGAGACCAGGGTTCGATTC 4427943 Query 11789 CCCGACGAGGAGG 11801 || |||||| ||| Sbjct 4427944 CCTGACGAGAAGG 4427956 Score = 86.0 bits (94), Expect = 8e-12 Identities = 62/72 (86%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 |||| ||||||||| |||||||||||||||||| | |||| |||||||| | ||||||| Sbjct 4421731 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 4421790 Query 139413 TACTAACGAGGA 139424 |||||| |||| Sbjct 4421791 TACTAATAAGGA 4421802 Score = 86.0 bits (94), Expect = 8e-12 Identities = 62/72 (86%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 139353 CTCCTCGTCGGGGATTCGAACCCCGGTCTCCCGTGCGACAAACGGGGATATTAACCACTA 139412 || |||||| |||| |||||||| ||||||||| | |||| |||||||| | ||||||| Sbjct 4427955 CTTCTCGTCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 4427896 Query 139413 TACTAACGAGGA 139424 |||||||||||| Sbjct 4427895 TACTAACGAGGA 4427884 >seq5173 Length=4809444 Score = 86.0 bits (94), Expect = 8e-12 Identities = 63/72 (88%), Gaps = 1/72 (1%) Strand=Plus/Plus Query 8658 TCCTCGTTAGTATAGTGGTTAGTATTCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 8717 ||||||||||||||||||| ||||| |||| ||||| |||||| |||||||||||||| Sbjct 4809319 TCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCATGCGGGAG-CCGGGGTTCGATTC 4809377 Query 8718 CCCGACGAGGAG 8729 ||||| | |||| Sbjct 4809378 CCCGATGGGGAG 4809389 Score = 82.4 bits (90), Expect = 1e-10 Identities = 63/72 (88%), Gaps = 2/72 (3%) Strand=Plus/Plus Query 11730 TCCTCGTTAGTATAGTGGTA-GTATGCCCGTCTGTCGCACGGGAGACCGGGGTTCGATTC 11788 |||||||||||||||||||| |||| |||| ||||| |||||| |||||||||||||| Sbjct 4809319 TCCTCGTTAGTATAGTGGTAAGTATCCCCGCCTGTCATGCGGGAG-CCGGGGTTCGATTC 4809377 Query 11789 CCCGACGAGGAG 11800 ||||| | |||| Sbjct 4809378 CCCGATGGGGAG 4809389 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 652786908987360