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_028094.1 Length=473558 Score E Sequences producing significant alignments: (Bits) Value seq2395 208 2e-48 seq2185 132 1e-25 seq4379 113 1e-19 >seq2395 Length=5449122 Score = 208 bits (230), Expect = 2e-48 Identities = 377/544 (69%), Gaps = 8/544 (1%) Strand=Plus/Plus Query 349765 AAATATTCTTATTTTTGATTTAGGTGGTGGTACTTTTGATGTATCACTACTAACACTTGA 349824 |||| || | || ||||| | |||||||| ||||| ||||| || | || ||| |||| Sbjct 3519415 AAATGTTTTGATCTTTGACCTGGGTGGTGGCACTTTCGATGTGTCTATTCTCACAATTGA 3519474 Query 349825 AGAGGGAATTTTTGAAGTTAAAGCAACTGCTGGTGATACACATCTTGGTGGAGAAGATTT 349884 ||| || || |||||||| || | ||||| |||||||| || || ||||||||||| || Sbjct 3519475 AGACGGTATCTTTGAAGTGAAGTCTACTGCAGGTGATACCCACCTGGGTGGAGAAGACTT 3519534 Query 349885 TGATAATCGTCTCGTTTCGCATTTTGTTAAAGAATTTAAGCGTCAAGC-TAAAATTGATA 349943 |||||| | | || || || || ||||| || || ||||| || | || | Sbjct 3519535 TGATAACAGAATGGTCAACCACTTCATTGCTGAATTCAAACG-CAAGCACAAGAAAGACA 3519593 Query 349944 TTGGAGATAATCCTAGAGCAATGCGTCGCCTAAGAACTGCGTGTGAACGTGCTAAGCGTT 350003 | | || || |||||| | || || || | || || ||||||||||| |||||| Sbjct 3519594 TCAGTGAAAACAAGAGAGCAGTTCGCCGTCTCCGCACAGCATGTGAACGTGCAAAGCGTA 3519653 Query 350004 CCTTATCATCTACTACCCAAACCTCTATTGAAATTGATTCTCTTGCTGATGGCAAAGATT 350063 || | || || | || || || |||||| ||||||||||| ||| |||| || | Sbjct 3519654 CCCTCTCCTCCAGCACGCAGGCCAGTATTGAGATTGATTCTCTCTATGAGGGCATTGACT 3519713 Query 350064 TCTTTTCATCTATTACACGTGCTCGGTTTGAAGAATTATGTATG--GATCTTTTTAGAGC 350121 ||| | || || ||||| ||||| |||||||| | || | | ||||| || | | Sbjct 3519714 TCTACACCTCAATCACACGAGCTCGCTTTGAAGAGT--TGAACGCTGATCTGTTCCGTGG 3519771 Query 350122 AACAATGGATCCTGTGGAAAAAGTATTAAAAGATGCAAAAATGTCCAAAAATCAGATTGA 350181 || |||| |||||||| || | || ||||| || | |||| ||||| | Sbjct 3519772 TACGCTGGACCCTGTGGAGAAGGCCTTGCGGGATGCCAAGCTCGACAAATCCCAGATCCA 3519831 Query 350182 TGAAGTAGTTTTAGTTGGTGGTTCTACACGTATTCCAAAAGTTCAACAGTTACTATCTGA 350241 || |||| || |||||||| || || || || ||||| |||| | | ||| || Sbjct 3519832 CGACATAGTATTGGTTGGTGGATCCACTCGCATCCCAAAGATTCAGAAACTCCTACAAGA 3519891 Query 350242 GTTTTTTAATGGCAAAGAAC-CTTCTAGATCAATTAATCCAGATGAAGCTGTTGCATATG 350300 || || ||||||||||||| | ||| | || ||||| ||||||||||| || || | Sbjct 3519892 CTTCTTCAATGGCAAAGAACTGAACAAGAGC-ATCAATCCTGATGAAGCTGTAGCTTACG 3519950 Query 350301 GTGC 350304 |||| Sbjct 3519951 GTGC 3519954 Score = 159 bits (176), Expect = 1e-33 Identities = 357/531 (67%), Gaps = 4/531 (1%) Strand=Plus/Minus Query 183262 CTGCACCATATGCAACAGCTTCATCTGGGTTAATTGAACGAGATAA-TTCTTTGCCATTA 183320 ||||||| || || ||||||||||| || || || | | | | | |||||||||||| Sbjct 3519956 CTGCACCGTAAGCTACAGCTTCATCAGGATTGAT-GCTCTTGTTCAGTTCTTTGCCATTG 3519898 Query 183321 AAAAATTCTGAAAGCATTTGTTGAATTTTTGGAATTCTAGTTGAACCACCGACTAATACT 183380 || || ||| || | || ||||| ||||| || | ||| || ||||| || |||||| Sbjct 3519897 AAGAAGTCTTGTAGGAGTTTCTGAATCTTTGGGATGCGAGTGGATCCACCAACCAATACT 3519838 Query 183381 ACTTCATCGATATTACTTTTA-CTAATTTGTGAATCTTTTAAAACTTTTTCAACAGGGTC 183439 | || | ||| | ||| | | ||| | ||| || | || || |||||||| Sbjct 3519837 ATGTCGTGGATCTGGGATTTGTCGAGCTTG-GCATCCCGCAAGGCCTTCTCCACAGGGTC 3519779 Query 183440 CATAGTTTTTCTAAATAAATCTATACATAACTCTTCTAATCTTGCTCTAGTTAAAGATGa 183499 || || | || | ||| |||||||| || | |||| || | || | Sbjct 3519778 CAGCGTACCACGGAACAGATCAGCGTTCAACTCTTCAAAGCGAGCTCGTGTGATTGAGGT 3519719 Query 183500 aaaaaaGTCAATACCATTATATAAGGAATCAATTTCAATCGATGTTTGTGTAGATGATGA 183559 | |||||||| || | ||| | |||||||| ||||| | || || || || Sbjct 3519718 GTAGAAGTCAATGCCCTCATAGAGAGAATCAATCTCAATACTGGCCTGCGTGCTGGAGGA 3519659 Query 183560 TAATGTTCTTTTAGCTCGTTCACATGCTGTTCTTAGTCGACGTAATGATCTTGGATTATC 183619 | || | || || |||||||||||||| | || || || | || ||| || || Sbjct 3519658 GAGGGTACGCTTTGCACGTTCACATGCTGTGCGGAGACGGCGAACTGCTCTCTTGTTTTC 3519599 Query 183620 TGTAATATCTTGTTTATGTTTTCTTTTAAATTCAGTAATAAAATGTTGAAGTAATCTTGT 183679 | || |||| || || || | ||| ||||||| ||| || || | | | ||| | Sbjct 3519598 ACTGATGTCTTTCTTGTGCTTGCGTTTGAATTCAGCAATGAAGTGGTTGACCATTCTGTT 3519539 Query 183680 ATCAAAATCTTCACCACCTAAATGTGTATCGCCAGCAGTAGCTTTAACTTCAAATATTCC 183739 |||||| ||||| ||||| | || ||||| || ||||||| || |||||||| || || Sbjct 3519538 ATCAAAGTCTTCTCCACCCAGGTGGGTATCACCTGCAGTAGACTTCACTTCAAAGATACC 3519479 Query 183740 GTCTTCAATATTTAAAATTGATACATCAAATGTACCACCACCCAAATCAAA 183790 ||||||||| | | ||| || ||||| || || |||||||||| ||||| Sbjct 3519478 GTCTTCAATTGTGAGAATAGACACATCGAAAGTGCCACCACCCAGGTCAAA 3519428 Score = 102 bits (112), Expect = 2e-16 Identities = 107/141 (76%), Gaps = 0/141 (0%) Strand=Plus/Plus Query 349608 ATGCTGTTATTACTGTACCAGCCTATTTTAATGATGCCCAGCGTTCTGCAACAAAAGATG 349667 ||||||| | |||||||||||||| || ||||| ||||||| || |||||||||| Sbjct 3519135 ATGCTGTGGTCACTGTACCAGCCTACTTCAATGACTCCCAGCGCCAGGCCACAAAAGATG 3519194 Query 349668 CTGGCAGCATTGCGGGGTTAAATGTTCTAAGAATGATTAATGAACCCACTGCTGCAGCAA 349727 |||| | ||||| || | || || || |||| || |||||||| || ||||| || | Sbjct 3519195 CTGGTACTATTGCAGGTCTCAACGTACTCCGAATCATCAATGAACCAACAGCTGCTGCTA 3519254 Query 349728 TTGCATATGGGCTTGATAAAA 349748 |||| ||||| | || |||| Sbjct 3519255 TTGCTTATGGTTTAGACAAAA 3519275 >seq2185 Length=13751209 Score = 132 bits (146), Expect = 1e-25 Identities = 168/231 (73%), Gaps = 0/231 (0%) Strand=Plus/Minus Query 140507 CATACCACCACGTAATCTTAGAACAAGATGAAGAGTAGACTCTTTTTGAATATTATAATC 140566 ||| ||||| | || | || || || || || || ||||| || |||||||| || || Sbjct 8329664 CATGCCACCTCTCAAGCGCAGCACCAGGTGCAGGGTGGACTCCTTCTGAATATTGTAGTC 8329605 Query 140567 AGATAATGTTCGCCCATCTTCAAGTTGTTTTCCAGCAAAGATTAGACGTTGCTGATCAGG 140626 || | || || |||||||| || ||||| ||||||||||| || | ||||| ||||| Sbjct 8329604 GGACAGGGTGCGGCCATCTTCCAGCTGTTTCCCAGCAAAGATGAGCCTCTGCTGGTCAGG 8329545 Query 140627 AGGAATTCCTTCTTTATCCTGAATTTTAGCTTTTACATTATCAATCGAATCAGATGGTTC 140686 ||||| |||||||| ||||| || || || || || || || || | ||| || || Sbjct 8329544 GGGAATACCTTCTTTGTCCTGGATCTTGGCCTTCACGTTTTCGATGGTGTCACTGGGCTC 8329485 Query 140687 AACTTCAAGTGTAACTGTCTTTCCGGTTAGTGTTTTTACAAAAATCTGCAT 140737 ||| || | || | ||||| || || || || || || ||||||||||| Sbjct 8329484 AACCTCCAAGGTGATGGTCTTGCCAGTCAGGGTCTTCACGAAAATCTGCAT 8329434 Score = 125 bits (138), Expect = 2e-23 Identities = 155/212 (73%), Gaps = 0/212 (0%) Strand=Plus/Minus Query 140526 AGAACAAGATGAAGAGTAGACTCTTTTTGAATATTATAATCAGATAATGTTCGCCCATCT 140585 || || || || || || ||||| || |||||||| |||||||| | || || |||||| Sbjct 8329417 AGCACCAGGTGCAGGGTGGACTCCTTCTGAATATTGTAATCAGACAGGGTGCGGCCATCT 8329358 Query 140586 TCAAGTTGTTTTCCAGCAAAGATTAGACGTTGCTGATCAGGAGGAATTCCTTCTTTATCC 140645 || || || || ||||||||||| || | ||||| ||||| ||||| || || || ||| Sbjct 8329357 TCCAGCTGCTTGCCAGCAAAGATGAGCCTCTGCTGGTCAGGGGGAATGCCCTCCTTGTCC 8329298 Query 140646 TGAATTTTAGCTTTTACATTATCAATCGAATCAGATGGTTCAACTTCAAGTGTAACTGTC 140705 || || || || || || || || || | ||| || ||||| || || || | ||| Sbjct 8329297 TGGATCTTGGCCTTCACGTTCTCGATAGTGTCACTGGGCTCAACCTCGAGAGTGATGGTC 8329238 Query 140706 TTTCCGGTTAGTGTTTTTACAAAAATCTGCAT 140737 || || || || || || || || |||||||| Sbjct 8329237 TTGCCCGTCAGGGTCTTCACGAAGATCTGCAT 8329206 Score = 125 bits (138), Expect = 2e-23 Identities = 155/212 (73%), Gaps = 0/212 (0%) Strand=Plus/Minus Query 140526 AGAACAAGATGAAGAGTAGACTCTTTTTGAATATTATAATCAGATAATGTTCGCCCATCT 140585 || || || || || |||||||| || || || || || || || | || || |||||| Sbjct 8330329 AGCACCAGGTGCAGGGTAGACTCCTTCTGGATGTTGTAGTCGGACAGGGTGCGGCCATCT 8330270 Query 140586 TCAAGTTGTTTTCCAGCAAAGATTAGACGTTGCTGATCAGGAGGAATTCCTTCTTTATCC 140645 || || || || ||||||||||| || | ||||| || || ||||| |||||||| ||| Sbjct 8330269 TCCAGCTGCTTGCCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTGTCC 8330210 Query 140646 TGAATTTTAGCTTTTACATTATCAATCGAATCAGATGGTTCAACTTCAAGTGTAACTGTC 140705 || || || || || || || ||||| | ||| || || || || || |||| ||| Sbjct 8330209 TGGATCTTGGCCTTCACGTTCTCAATGGTGTCACTGGGCTCCACCTCCAGGGTAATGGTC 8330150 Query 140706 TTTCCGGTTAGTGTTTTTACAAAAATCTGCAT 140737 || ||||| || || || || || |||||||| Sbjct 8330149 TTGCCGGTCAGGGTCTTCACGAAGATCTGCAT 8330118 Score = 122 bits (134), Expect = 3e-22 Identities = 154/212 (73%), Gaps = 0/212 (0%) Strand=Plus/Minus Query 140526 AGAACAAGATGAAGAGTAGACTCTTTTTGAATATTATAATCAGATAATGTTCGCCCATCT 140585 || || || || || || ||||| || || || || || ||||| | || || |||||| Sbjct 8329189 AGCACCAGGTGCAGGGTGGACTCCTTCTGGATGTTGTAGTCAGACAGGGTGCGTCCATCT 8329130 Query 140586 TCAAGTTGTTTTCCAGCAAAGATTAGACGTTGCTGATCAGGAGGAATTCCTTCTTTATCC 140645 || || || || ||||||||||| || | ||||| || || ||||| |||||||| ||| Sbjct 8329129 TCCAGCTGCTTACCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTGTCC 8329070 Query 140646 TGAATTTTAGCTTTTACATTATCAATCGAATCAGATGGTTCAACTTCAAGTGTAACTGTC 140705 || || || || || ||||| ||||| | ||| || || || || || || | ||| Sbjct 8329069 TGGATCTTGGCCTTCACATTCTCAATGGTGTCACTGGGCTCCACCTCGAGAGTGATGGTC 8329010 Query 140706 TTTCCGGTTAGTGTTTTTACAAAAATCTGCAT 140737 || || || || || || || || |||||||| Sbjct 8329009 TTGCCCGTCAGGGTCTTCACGAAGATCTGCAT 8328978 Score = 116 bits (128), Expect = 1e-20 Identities = 153/212 (72%), Gaps = 0/212 (0%) Strand=Plus/Minus Query 140526 AGAACAAGATGAAGAGTAGACTCTTTTTGAATATTATAATCAGATAATGTTCGCCCATCT 140585 || || || || || || ||||| || || || || || || || | || || |||||| Sbjct 8330101 AGCACCAGGTGCAGGGTGGACTCCTTCTGGATGTTGTAGTCGGACAGAGTGCGGCCATCT 8330042 Query 140586 TCAAGTTGTTTTCCAGCAAAGATTAGACGTTGCTGATCAGGAGGAATTCCTTCTTTATCC 140645 || || ||||| ||||||||||| || | ||||| || || ||||| |||||||| ||| Sbjct 8330041 TCTAGCTGTTTCCCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTGTCC 8329982 Query 140646 TGAATTTTAGCTTTTACATTATCAATCGAATCAGATGGTTCAACTTCAAGTGTAACTGTC 140705 || || || || || || || || || | ||| || || || || || || | ||| Sbjct 8329981 TGGATCTTGGCCTTCACGTTCTCGATAGTGTCACTGGGCTCCACCTCGAGAGTGATGGTC 8329922 Query 140706 TTTCCGGTTAGTGTTTTTACAAAAATCTGCAT 140737 || || || || || || ||||| |||||||| Sbjct 8329921 TTGCCAGTCAGGGTCTTCACAAAGATCTGCAT 8329890 Score = 113 bits (124), Expect = 1e-19 Identities = 152/212 (72%), Gaps = 0/212 (0%) Strand=Plus/Minus Query 140526 AGAACAAGATGAAGAGTAGACTCTTTTTGAATATTATAATCAGATAATGTTCGCCCATCT 140585 || || || || || || ||||| || || || || || || || | || || |||||| Sbjct 8329873 AGCACCAGGTGCAGGGTGGACTCCTTCTGGATGTTGTAGTCGGACAGGGTGCGTCCATCT 8329814 Query 140586 TCAAGTTGTTTTCCAGCAAAGATTAGACGTTGCTGATCAGGAGGAATTCCTTCTTTATCC 140645 || || || || ||||||||||| || | ||||| || || ||||| |||||||| ||| Sbjct 8329813 TCCAGCTGCTTGCCAGCAAAGATGAGCCTCTGCTGGTCGGGGGGAATGCCTTCTTTGTCC 8329754 Query 140646 TGAATTTTAGCTTTTACATTATCAATCGAATCAGATGGTTCAACTTCAAGTGTAACTGTC 140705 || || || || || || || ||||| | ||| || || || || || || | ||| Sbjct 8329753 TGGATCTTGGCCTTCACGTTCTCAATGGTGTCACTGGGCTCCACCTCGAGAGTGATGGTC 8329694 Query 140706 TTTCCGGTTAGTGTTTTTACAAAAATCTGCAT 140737 || || || || || || || || |||||||| Sbjct 8329693 TTGCCCGTCAGGGTCTTCACGAAGATCTGCAT 8329662 >seq4379 Length=1760551 Score = 113 bits (124), Expect = 1e-19 Identities = 109/140 (78%), Gaps = 0/140 (0%) Strand=Plus/Minus Query 350177 ATTGATGAAGTAGTTTTAGTTGGTGGTTCTACACGTATTCCAAAAGTTCAACAGTTACTA 350236 ||||||||| |||| | |||||||| || ||| | || || || | || ||| | | Sbjct 337977 ATTGATGAAATAGTCCTTGTTGGTGGCTCCACAAGAATCCCCAAGATACAGCAGCTGGTG 337918 Query 350237 TCTGAGTTTTTTAATGGCAAAGAACCTTCTAGATCAATTAATCCAGATGAAGCTGTTGCA 350296 ||||| || ||||||||||| |||||| | |||||||||||||| |||||||| Sbjct 337917 AAGGAGTTCTTCAATGGCAAAGAGCCTTCTCGTGGCATTAATCCAGATGAGGCTGTTGCC 337858 Query 350297 TATGGTGCTGCTGTTCAGGC 350316 |||||||||||||||||||| Sbjct 337857 TATGGTGCTGCTGTTCAGGC 337838 Score = 105 bits (116), Expect = 2e-17 Identities = 141/196 (72%), Gaps = 0/196 (0%) Strand=Plus/Plus Query 183250 CAGCTTGAACAGCTGCACCATATGCAACAGCTTCATCTGGGTTAATTGAACGAGATAATT 183309 |||| |||||||| |||||||| |||||||| |||||||| ||||| |||||| | Sbjct 337836 CAGCCTGAACAGCAGCACCATAGGCAACAGCCTCATCTGGATTAATGCCACGAGAAGGCT 337895 Query 183310 CTTTGCCATTAAAAAATTCTGAAAGCATTTGTTGAATTTTTGGAATTCTAGTTGAACCAC 183369 |||||||||| || || || | || || || || || || ||||| || || |||| Sbjct 337896 CTTTGCCATTGAAGAACTCCTTCACCAGCTGCTGTATCTTGGGGATTCTTGTGGAGCCAC 337955 Query 183370 CGACTAATACTACTTCATCGATATTACTTTTACTAATTTGTGAATCTTTTAAAACTTTTT 183429 | || | |||| |||||| |||| | ||| | | | || |||| || ||||| | Sbjct 337956 CAACAAGGACTATTTCATCAATATCAGATTTCTTCAGATCAGAGTCTTCTAGCACTTTCT 338015 Query 183430 CAACAGGGTCCATAGT 183445 ||||| | |||||| Sbjct 338016 GGACAGGCTTCATAGT 338031 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 1515116675686482