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_010240.1 Length=169794 Score E Sequences producing significant alignments: (Bits) Value seq2185 136 4e-27 seq6231 98.7 1e-15 seq7000 87.8 2e-12 seq4154 86.0 7e-12 >seq2185 Length=13751209 Score = 136 bits (150), Expect = 4e-27 Identities = 159/215 (74%), Gaps = 0/215 (0%) Strand=Plus/Minus Query 41994 CGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCG 42053 |||| ||||| |||| ||| |||||| |||||||||||||||| ||| || || | Sbjct 8329420 CGCAGCACCAGGTGCAGGGTGGACTCCTTCTGAATATTGTAATCAGACAGGGTGCGGCCA 8329361 Query 42054 TCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTG 42113 || || |||||||| ||||| || ||||| | ||||||||| | || | || ||||||| Sbjct 8329360 TCTTCCAGCTGCTTGCCAGCAAAGATGAGCCTCTGCTGGTCAGGGGGAATGCCCTCCTTG 8329301 Query 42114 TCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATG 42173 ||| ||| || || | || | | ||||| || | || || |||| |||||| Sbjct 8329300 TCCTGGATCTTGGCCTTCACGTTCTCGATAGTGTCACTGGGCTCAACCTCGAGAGTGATG 8329241 Query 42174 GTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 || |||||||| || ||||| || ||||| ||||| Sbjct 8329240 GTCTTGCCCGTCAGGGTCTTCACGAAGATCTGCAT 8329206 Score = 129 bits (142), Expect = 6e-25 Identities = 161/221 (73%), Gaps = 0/221 (0%) Strand=Plus/Minus Query 41994 CGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCG 42053 |||| ||||| |||| ||| |||||| || || ||||| |||| ||| || || | Sbjct 8329192 CGCAGCACCAGGTGCAGGGTGGACTCCTTCTGGATGTTGTAGTCAGACAGGGTGCGTCCA 8329133 Query 42054 TCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTG 42113 || || |||||||||||||| || ||||| | ||||||||||| || | || || ||| Sbjct 8329132 TCTTCCAGCTGCTTACCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTG 8329073 Query 42114 TCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATG 42173 ||| ||| || || | || | | ||||| || | ||||| |||| |||||| Sbjct 8329072 TCCTGGATCTTGGCCTTCACATTCTCAATGGTGTCACTGGGCTCCACCTCGAGAGTGATG 8329013 Query 42174 GTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCATTTTCAC 42214 || |||||||| || ||||| || ||||| ||||| || || Sbjct 8329012 GTCTTGCCCGTCAGGGTCTTCACGAAGATCTGCATGTTTAC 8328972 Score = 122 bits (134), Expect = 9e-23 Identities = 156/215 (73%), Gaps = 0/215 (0%) Strand=Plus/Minus Query 41994 CGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCG 42053 |||| ||||| |||| ||| |||||| || || ||||| || | |||||| || | Sbjct 8330104 CGCAGCACCAGGTGCAGGGTGGACTCCTTCTGGATGTTGTAGTCGGACAGAGTGCGGCCA 8330045 Query 42054 TCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTG 42113 || |||||||| || ||||| || ||||| | ||||||||||| || | || || ||| Sbjct 8330044 TCTTCTAGCTGTTTCCCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTG 8329985 Query 42114 TCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATG 42173 ||| ||| || || | || | | ||||| || | ||||| |||| |||||| Sbjct 8329984 TCCTGGATCTTGGCCTTCACGTTCTCGATAGTGTCACTGGGCTCCACCTCGAGAGTGATG 8329925 Query 42174 GTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 || ||||| || || ||||| |||||||| ||||| Sbjct 8329924 GTCTTGCCAGTCAGGGTCTTCACAAAGATCTGCAT 8329890 Score = 118 bits (130), Expect = 1e-21 Identities = 155/215 (72%), Gaps = 0/215 (0%) Strand=Plus/Minus Query 41994 CGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCG 42053 |||| ||||| |||| ||| |||||| || || ||||| || | ||| || || | Sbjct 8329876 CGCAGCACCAGGTGCAGGGTGGACTCCTTCTGGATGTTGTAGTCGGACAGGGTGCGTCCA 8329817 Query 42054 TCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTG 42113 || || |||||||| ||||| || ||||| | ||||||||||| || | || || ||| Sbjct 8329816 TCTTCCAGCTGCTTGCCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTG 8329757 Query 42114 TCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATG 42173 ||| ||| || || | || | | ||||| || | ||||| |||| |||||| Sbjct 8329756 TCCTGGATCTTGGCCTTCACGTTCTCAATGGTGTCACTGGGCTCCACCTCGAGAGTGATG 8329697 Query 42174 GTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 || |||||||| || ||||| || ||||| ||||| Sbjct 8329696 GTCTTGCCCGTCAGGGTCTTCACGAAGATCTGCAT 8329662 Score = 100 bits (110), Expect = 3e-16 Identities = 159/228 (70%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 41981 ACCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGC 42040 ||| || || | |||| ||||| |||| || |||||| || || ||||| || | Sbjct 8330345 ACCACCCCTCAGGCGCAGCACCAGGTGCAGGGTAGACTCCTTCTGGATGTTGTAGTCGGA 8330286 Query 42041 CAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGG 42100 ||| || || | || || |||||||| ||||| || ||||| | ||||||||||| || Sbjct 8330285 CAGGGTGCGGCCATCTTCCAGCTGCTTGCCAGCAAAGATGAGCCTCTGCTGGTCGGGGGG 8330226 Query 42101 CACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCAC 42160 | || || |||||| ||| || || | || | | ||||| || | ||||| Sbjct 8330225 AATGCCTTCTTTGTCCTGGATCTTGGCCTTCACGTTCTCAATGGTGTCACTGGGCTCCAC 8330166 Query 42161 ATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 || | || ||||| ||||| || || ||||| || ||||| ||||| Sbjct 8330165 CTCCAGGGTAATGGTCTTGCCGGTCAGGGTCTTCACGAAGATCTGCAT 8330118 Score = 98.7 bits (108), Expect = 1e-15 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 41982 CCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCC 42041 || ||||| || |||| ||||| |||| ||| |||||| ||||||||||| || | | Sbjct 8329660 CCACCTCTCAAGCGCAGCACCAGGTGCAGGGTGGACTCCTTCTGAATATTGTAGTCGGAC 8329601 Query 42042 AGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGC 42101 || || || | || || ||||| || ||||| || ||||| | ||||||||| | || Sbjct 8329600 AGGGTGCGGCCATCTTCCAGCTGTTTCCCAGCAAAGATGAGCCTCTGCTGGTCAGGGGGA 8329541 Query 42102 ACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACA 42161 | | || |||||| ||| || || | | | | ||||| || | || || Sbjct 8329540 ATACCTTCTTTGTCCTGGATCTTGGCCTTCACGTTTTCGATGGTGTCACTGGGCTCAACC 8329481 Query 42162 TCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 || | |||||||| ||||| || || ||||| || || || ||||| Sbjct 8329480 TCCAAGGTGATGGTCTTGCCAGTCAGGGTCTTCACGAAAATCTGCAT 8329434 Score = 87.8 bits (96), Expect = 2e-12 Identities = 65/76 (86%), Gaps = 0/76 (0%) Strand=Plus/Minus Query 57006 TCTCCTCGGCAAGAAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 57065 ||||| || | | |||||||||| ||||||||||||||||||||| ||||| |||||| Sbjct 4291588 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACT 4291529 Query 57066 ATACTACCGAGGATTG 57081 |||||| |||||| || Sbjct 4291528 ATACTAACGAGGAATG 4291513 Score = 87.8 bits (96), Expect = 2e-12 Identities = 65/76 (86%), Gaps = 0/76 (0%) Strand=Plus/Minus Query 57006 TCTCCTCGGCAAGAAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 57065 ||||| || | | |||||||||| ||||||||||||||||||||| ||||| |||||| Sbjct 8322574 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACT 8322515 Query 57066 ATACTACCGAGGATTG 57081 |||||| |||||| || Sbjct 8322514 ATACTAACGAGGAGTG 8322499 Score = 87.8 bits (96), Expect = 2e-12 Identities = 63/73 (86%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 57006 TCTCCTCGGCAAGAAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 57065 ||||| || | | |||||||||| ||||||||||||||||||||| ||||| |||||| Sbjct 8325501 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACT 8325442 Query 57066 ATACTACCGAGGA 57078 |||||| |||||| Sbjct 8325441 ATACTAACGAGGA 8325429 >seq6231 Length=55547322 Score = 98.7 bits (108), Expect = 1e-15 Identities = 65/72 (90%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 57007 CTCCTCGGCAAGAAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 57066 || |||| || | |||||||||||||||||||||||||||||||| ||||||||||||| Sbjct 4427955 CTTCTCGTCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 4427896 Query 57067 TACTACCGAGGA 57078 ||||| |||||| Sbjct 4427895 TACTAACGAGGA 4427884 Score = 82.4 bits (90), Expect = 8e-11 Identities = 57/65 (88%), Gaps = 0/65 (0%) Strand=Plus/Plus Query 57007 CTCCTCGGCAAGAAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 57066 |||| || | | |||||||||| ||||||||||||||||||||| ||||||||||||| Sbjct 4421731 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 4421790 Query 57067 TACTA 57071 ||||| Sbjct 4421791 TACTA 4421795 >seq7000 Length=13710731 Score = 87.8 bits (96), Expect = 2e-12 Identities = 63/73 (86%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 57006 TCTCCTCGGCAAGAAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 57065 ||||| || | | |||||||||| ||||||||||||||||||||| ||||| |||||| Sbjct 12215341 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACT 12215282 Query 57066 ATACTACCGAGGA 57078 |||||| |||||| Sbjct 12215281 ATACTAACGAGGA 12215269 Score = 82.4 bits (90), Expect = 8e-11 Identities = 62/73 (85%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 57006 TCTCCTCGGCAAGAAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 57065 ||||| || | | ||| |||||| ||||||||||||||||||||| ||||| |||||| Sbjct 12215750 TCTCCCCGTCGGGGAATTGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTGACCACT 12215809 Query 57066 ATACTACCGAGGA 57078 |||||| |||||| Sbjct 12215810 ATACTAACGAGGA 12215822 >seq4154 Length=19707572 Score = 86.0 bits (94), Expect = 7e-12 Identities = 64/75 (85%), Gaps = 0/75 (0%) Strand=Plus/Plus Query 57007 CTCCTCGGCAAGAAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 57066 |||| || | | |||||||||| ||||||||||||||||||||| ||||| ||||||| Sbjct 906789 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTTACCACTA 906848 Query 57067 TACTACCGAGGATTG 57081 ||||| |||||| || 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: 543164630604960