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_002331.1 Length=178733 Score E Sequences producing significant alignments: (Bits) Value seq2185 136 5e-27 seq6231 107 2e-18 seq7000 96.9 4e-15 seq4154 95.1 1e-14 >seq2185 Length=13751209 Score = 136 bits (150), Expect = 5e-27 Identities = 159/215 (74%), Gaps = 0/215 (0%) Strand=Plus/Minus Query 42969 CGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCG 43028 |||| ||||| |||| ||| |||||| |||||||||||||||| ||| || || | Sbjct 8329420 CGCAGCACCAGGTGCAGGGTGGACTCCTTCTGAATATTGTAATCAGACAGGGTGCGGCCA 8329361 Query 43029 TCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTG 43088 || || |||||||| ||||| || ||||| | ||||||||| | || | || ||||||| Sbjct 8329360 TCTTCCAGCTGCTTGCCAGCAAAGATGAGCCTCTGCTGGTCAGGGGGAATGCCCTCCTTG 8329301 Query 43089 TCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATG 43148 ||| ||| || || | || | | ||||| || | || || |||| |||||| Sbjct 8329300 TCCTGGATCTTGGCCTTCACGTTCTCGATAGTGTCACTGGGCTCAACCTCGAGAGTGATG 8329241 Query 43149 GTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 || |||||||| || ||||| || ||||| ||||| Sbjct 8329240 GTCTTGCCCGTCAGGGTCTTCACGAAGATCTGCAT 8329206 Score = 132 bits (146), Expect = 6e-26 Identities = 162/221 (73%), Gaps = 0/221 (0%) Strand=Plus/Minus Query 42969 CGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCG 43028 |||| ||||| |||| ||| |||||| || || ||||| |||| ||| || || | Sbjct 8329192 CGCAGCACCAGGTGCAGGGTGGACTCCTTCTGGATGTTGTAGTCAGACAGGGTGCGTCCA 8329133 Query 43029 TCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTG 43088 || || |||||||||||||| || ||||| | ||||||||||| || | || || ||| Sbjct 8329132 TCTTCCAGCTGCTTACCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTG 8329073 Query 43089 TCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATG 43148 ||| ||| || || | || | | ||||| || | ||||| |||| |||||| Sbjct 8329072 TCCTGGATCTTGGCCTTCACATTCTCAATGGTGTCACTGGGCTCCACCTCGAGAGTGATG 8329013 Query 43149 GTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCATTTTTAC 43189 || |||||||| || ||||| || ||||| ||||| ||||| Sbjct 8329012 GTCTTGCCCGTCAGGGTCTTCACGAAGATCTGCATGTTTAC 8328972 Score = 122 bits (134), Expect = 1e-22 Identities = 156/215 (73%), Gaps = 0/215 (0%) Strand=Plus/Minus Query 42969 CGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCG 43028 |||| ||||| |||| ||| |||||| || || ||||| || | |||||| || | Sbjct 8330104 CGCAGCACCAGGTGCAGGGTGGACTCCTTCTGGATGTTGTAGTCGGACAGAGTGCGGCCA 8330045 Query 43029 TCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTG 43088 || |||||||| || ||||| || ||||| | ||||||||||| || | || || ||| Sbjct 8330044 TCTTCTAGCTGTTTCCCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTG 8329985 Query 43089 TCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATG 43148 ||| ||| || || | || | | ||||| || | ||||| |||| |||||| Sbjct 8329984 TCCTGGATCTTGGCCTTCACGTTCTCGATAGTGTCACTGGGCTCCACCTCGAGAGTGATG 8329925 Query 43149 GTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 || ||||| || || ||||| |||||||| ||||| Sbjct 8329924 GTCTTGCCAGTCAGGGTCTTCACAAAGATCTGCAT 8329890 Score = 118 bits (130), Expect = 1e-21 Identities = 155/215 (72%), Gaps = 0/215 (0%) Strand=Plus/Minus Query 42969 CGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCG 43028 |||| ||||| |||| ||| |||||| || || ||||| || | ||| || || | Sbjct 8329876 CGCAGCACCAGGTGCAGGGTGGACTCCTTCTGGATGTTGTAGTCGGACAGGGTGCGTCCA 8329817 Query 43029 TCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTG 43088 || || |||||||| ||||| || ||||| | ||||||||||| || | || || ||| Sbjct 8329816 TCTTCCAGCTGCTTGCCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTG 8329757 Query 43089 TCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATG 43148 ||| ||| || || | || | | ||||| || | ||||| |||| |||||| Sbjct 8329756 TCCTGGATCTTGGCCTTCACGTTCTCAATGGTGTCACTGGGCTCCACCTCGAGAGTGATG 8329697 Query 43149 GTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 || |||||||| || ||||| || ||||| ||||| Sbjct 8329696 GTCTTGCCCGTCAGGGTCTTCACGAAGATCTGCAT 8329662 Score = 100 bits (110), Expect = 3e-16 Identities = 151/215 (70%), Gaps = 0/215 (0%) Strand=Plus/Minus Query 42969 CGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCG 43028 |||| ||||| |||| || |||||| || || ||||| || | ||| || || | Sbjct 8330332 CGCAGCACCAGGTGCAGGGTAGACTCCTTCTGGATGTTGTAGTCGGACAGGGTGCGGCCA 8330273 Query 43029 TCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTG 43088 || || |||||||| ||||| || ||||| | ||||||||||| || | || || ||| Sbjct 8330272 TCTTCCAGCTGCTTGCCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTG 8330213 Query 43089 TCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATG 43148 ||| ||| || || | || | | ||||| || | ||||| || | || ||| Sbjct 8330212 TCCTGGATCTTGGCCTTCACGTTCTCAATGGTGTCACTGGGCTCCACCTCCAGGGTAATG 8330153 Query 43149 GTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 || ||||| || || ||||| || ||||| ||||| Sbjct 8330152 GTCTTGCCGGTCAGGGTCTTCACGAAGATCTGCAT 8330118 Score = 98.7 bits (108), Expect = 1e-15 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 42957 CCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCC 43016 || ||||| || |||| ||||| |||| ||| |||||| ||||||||||| || | | Sbjct 8329660 CCACCTCTCAAGCGCAGCACCAGGTGCAGGGTGGACTCCTTCTGAATATTGTAGTCGGAC 8329601 Query 43017 AGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGC 43076 || || || | || || ||||| || ||||| || ||||| | ||||||||| | || Sbjct 8329600 AGGGTGCGGCCATCTTCCAGCTGTTTCCCAGCAAAGATGAGCCTCTGCTGGTCAGGGGGA 8329541 Query 43077 ACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACA 43136 | | || |||||| ||| || || | | | | ||||| || | || || Sbjct 8329540 ATACCTTCTTTGTCCTGGATCTTGGCCTTCACGTTTTCGATGGTGTCACTGGGCTCAACC 8329481 Query 43137 TCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 || | |||||||| ||||| || || ||||| || || || ||||| Sbjct 8329480 TCCAAGGTGATGGTCTTGCCAGTCAGGGTCTTCACGAAAATCTGCAT 8329434 Score = 96.9 bits (106), Expect = 4e-15 Identities = 67/76 (88%), Gaps = 0/76 (0%) Strand=Plus/Minus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| ||||| |||||| Sbjct 4291588 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACT 4291529 Query 60125 ATACTACCGAGGATTG 60140 |||||| |||||| || Sbjct 4291528 ATACTAACGAGGAATG 4291513 Score = 96.9 bits (106), Expect = 4e-15 Identities = 67/76 (88%), Gaps = 0/76 (0%) Strand=Plus/Minus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| ||||| |||||| Sbjct 8322574 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACT 8322515 Query 60125 ATACTACCGAGGATTG 60140 |||||| |||||| || Sbjct 8322514 ATACTAACGAGGAGTG 8322499 Score = 96.9 bits (106), Expect = 4e-15 Identities = 65/73 (89%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| ||||| |||||| Sbjct 8325501 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACT 8325442 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 8325441 ATACTAACGAGGA 8325429 >seq6231 Length=55547322 Score = 107 bits (118), Expect = 2e-18 Identities = 67/72 (93%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 60066 CTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 60125 || |||| ||||||||||||||||||||||||||||||||||||| ||||||||||||| Sbjct 4427955 CTTCTCGTCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 4427896 Query 60126 TACTACCGAGGA 60137 ||||| |||||| Sbjct 4427895 TACTAACGAGGA 4427884 Score = 91.5 bits (100), Expect = 2e-13 Identities = 59/65 (91%), Gaps = 0/65 (0%) Strand=Plus/Plus Query 60066 CTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 60125 |||| || | ||||||||||||| ||||||||||||||||||||| ||||||||||||| Sbjct 4421731 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 4421790 Query 60126 TACTA 60130 ||||| Sbjct 4421791 TACTA 4421795 >seq7000 Length=13710731 Score = 96.9 bits (106), Expect = 4e-15 Identities = 65/73 (89%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| ||||| |||||| Sbjct 12215341 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACT 12215282 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 12215281 ATACTAACGAGGA 12215269 Score = 91.5 bits (100), Expect = 2e-13 Identities = 64/73 (88%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | |||||| |||||| ||||||||||||||||||||| ||||| |||||| Sbjct 12215750 TCTCCCCGTCGGGGAATTGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTGACCACT 12215809 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 12215810 ATACTAACGAGGA 12215822 >seq4154 Length=19707572 Score = 95.1 bits (104), Expect = 1e-14 Identities = 66/75 (88%), Gaps = 0/75 (0%) Strand=Plus/Plus Query 60066 CTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 60125 |||| || | ||||||||||||| ||||||||||||||||||||| ||||| ||||||| Sbjct 906789 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACTA 906848 Query 60126 TACTACCGAGGATTG 60140 ||||| |||||| || Sbjct 906849 TACTAACGAGGAATG 906863 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 571766894074320