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_002665.1 Length=108873 Score E Sequences producing significant alignments: (Bits) Value seq34769 1200 0.0 seq87223 127 1e-24 seq7953 123 2e-23 >seq34769 Length=1374272 Score = 1200 bits (1330), Expect = 0.0 Identities = 1053/1307 (81%), Gaps = 6/1307 (0%) Strand=Plus/Minus Query 107333 GAAGAAGCTTTGCCGGGGACATCATCTGTGGGCCCTGGGCTGCTATATGCTGCTGGCCGT 107392 || |||||| || || | ||||| ||||| | ||||||||||| ||||||||||| || Sbjct 613987 GAGGAAGCTCTGTTGGCGCTATCATGTGTGGACTCTGGGCTGCTACATGCTGCTGGCTGT 613928 Query 107393 TGTTTCTCTGAGACTTTCCCTCAGGTTTAAATGTGATGTAGATTCCTTGGATCTGGAGTC 107452 || | |||| ||| || ||||| | | |||||| | ||| | |||||||||| || Sbjct 613927 CATTGCCCTGAAACTGTCTCTCAGACTGAGATGTGACTTCGATGTCATGGATCTGGACTC 613868 Query 107453 CAGGGACTTCCAGAGTCAGCACTGTAGGGACATGTTGTACAATAGCCTGAAGCTGCCAGC 107512 | ||| || | || ||| |||| |||||| | ||||||| | ||||||||||||||| Sbjct 613867 GAAGGAATTTCGAAGCCAGTACTGCAGGGACTTCCTGTACAAGACCCTGAAGCTGCCAGC 613808 Query 107513 AAAGAGATCCATCAACTGTTCTGGGATCACGCGAGGGGACCAGGAAGCAGTGGTCCAGGC 107572 |||||| |||||||||||||||||| |||| |||||||| ||| |||||||| ||||||| Sbjct 613807 AAAGAGGTCCATCAACTGTTCTGGGGTCACTCGAGGGGAGCAGAAAGCAGTGATCCAGGC 613748 Query 107573 CCTCCTAGACAACCTGGAAGTGAAGAAAAAGCGGTCGCCTCTCACTGGCACCTATTACCT 107632 || || |||||||||| | ||||| |||||| ||| |||| | | | ||| | Sbjct 613747 ACTGCTCAACAACCTGGAGATTAAGAAGAAGCGGCAGCCCTTCACAGAGGCTGACTACTT 613688 Query 107633 CAACATAACCAGAGACTGTGAGCGCTTCAAGGCCCAAAGGAAGTTCATACAGTTCCCACT 107692 | ||| || ||||||||||| |||||| || |||||||||||||||||||||| || Sbjct 613687 TAGCATGACAGCAGACTGTGAGCAATTCAAGACCAAAAGGAAGTTCATACAGTTCCCGCT 613628 Query 107693 GAGTAAAGAAGAGCTAGACTTCCCCATTGCCTACTCGATGGTGGTCCATGAGAAGATTGA 107752 ||| ||||||||| || ||||||||||| || || |||||||| || |||||||| || Sbjct 613627 GAGCAAAGAAGAGGCTGATTTCCCCATTGCGTATTCCATGGTGGTTCACGAGAAGATCGA 613568 Query 107753 AAACTTTGAACGGCTGCTGCGAGCCGTGTATGCCCCTCAGAACATATACTGTGTCCACGT 107812 ||||||||| ||||||||||||| || || ||||||||||||||||||||||||| || Sbjct 613567 GAACTTTGAAAGGCTGCTGCGAGCTGTATACACCCCTCAGAACATATACTGTGTCCATGT 613508 Query 107813 GGATGTGAAGTCCCCAGAGACTTTCAAAGAGGCGGTCAAGGCCATTATTTCCTGCTTCCC 107872 |||| ||||||||||||||||||||| |||| |||| ||||||| | || |||||||| Sbjct 613507 GGATCAGAAGTCCCCAGAGACTTTCAAGCAGGCAGTCAGGGCCATTGTGTCATGCTTCCC 613448 Query 107873 CAATGTCTTCATGGCCAGTAAGTTGGTCCCGGTGGTTTATGCCTCCTGGTCCAGAGTGCA 107932 ||||||||| | || |||||| |||| | ||||| || || ||||||||||| ||||| Sbjct 613447 AAATGTCTTCTTAGCTAGTAAGCTGGTGTCAGTGGTCTACGCTTCCTGGTCCAGGGTGCA 613388 Query 107933 AGCTGACCTGAACTGTATGGAAGACTTGCTCCAGAGCTCAGTGCCATGGAAGTACTTACT 107992 |||||||||||||| ||||||||||||||||||||||| ||||||||||| ||| | || Sbjct 613387 GGCTGACCTGAACTGCATGGAAGACTTGCTCCAGAGCTCTGTGCCATGGAAATACCTCCT 613328 Query 107993 GAATACATGCGGGACAGACTTCCCCATAAAGACCAATGCCGAGATGGTCCTGGCCCTCAA 108052 ||| || || ||||||||||| ||||| ||||||||||| |||||||||| ||||||||| Sbjct 613327 GAACACCTGTGGGACAGACTTTCCCATTAAGACCAATGCTGAGATGGTCCAGGCCCTCAA 613268 Query 108053 GATGTTGAAGGGTAAGAACAGTATGGAGTCTGAGGTACCTTCTGAGTCCaaaaaaaaTC- 108111 | | ||||| || ||||||| |||||||| |||||||| ||| || ||||| || Sbjct 613267 GCTATTGAATGGGCAGAACAGCATGGAGTCAGAGGTACCACCTGCA--CATAAAAAGTCC 613210 Query 108112 -GCTGGAAATACCGCTATGAGGTGACAGACACACTGTACCCTACCAGCAAGATGAAGGAC 108170 |||||| ||| | ||||||||||| |||| | ||||| |||||||||| |||| | Sbjct 613209 CGCTGGAGATATCACTATGAGGTGAAAGACGCGTTGTACATAACCAGCAAGAGGAAGACC 613150 Query 108171 CCTCCCCCTGATAATTTACCCATGTTCACAGGGAATGCCTATTTTGTGGCCTCTCGAGCC 108230 ||||| ||| |||| || |||||||||||||||||||||| | || || ||||||| | Sbjct 613149 CCTCCACCTAATAACATAACCATGTTCACAGGGAATGCCTACATGGTAGCTTCTCGAGAC 613090 Query 108231 TTTGTCCAACATGTCTTAGACAACCCTAAATCCCAAAGACTGGTTGAATGGGTCAAAGAC 108290 || || ||||||| ||| |||| | ||| ||||| ||| | |||||||| |||||| Sbjct 613089 TTCATCGAACATGTATTAAGCAACTCCAAAGCCCAACAACTAATCGAATGGGTAAAAGAC 613030 Query 108291 ACCTATAGCCCCGACGAACACCTCTGGGCCACCCTTCAGCGTGCTCCGTGGATGCCTGGC 108350 |||||||| || || |||||||| ||||||||||| |||||||| | ||||||||||| Sbjct 613029 ACCTATAGTCCTGATGAACACCTTTGGGCCACCCTCCAGCGTGCCTCATGGATGCCTGGA 612970 Query 108351 TCTGTTCCTAGCCACCCCAAGTATCACATCTCAGACATGACTGCCATCGCCAGGCTCGTC 108410 || ||||| |||| ||| | | || |||||||||||| | || || ||||| || Sbjct 612969 TCAGTTCCCTTGCACCACAAATTTGACCTCTCAGACATGAGATCTATTGCAAGGCTAATC 612910 Query 108411 AAGTGGCAGTACCACGAGGGAGA-TGTCAGCATGGGGGCGCCTTATGCACCCTGCTCTGG 108469 ||||||||| ||||||||||||| | || || |||||||| || |||| ||||| || Sbjct 612909 AAGTGGCAGGACCACGAGGGAGACATTGAGGAT-GGGGCGCCCTACACACCTTGCTCAGG 612851 Query 108470 AATCCATCGGAGGGCCATCTGCATTTACGGGGCCGGGGACCTGTACTGGATTCTCCAGAA 108529 |||||| | | ||||| |||| ||||| ||| | ||||||||| ||||||| || |||| Sbjct 612850 AATCCACCAGCGGGCCGTCTGTATTTATGGGTCTGGGGACCTGCACTGGATACTGAAGAA 612791 Query 108530 CCATCACCTCTTGGCAAACAAGTTTGACCCGAGGGTGGATGATAACGTCCTGCAGTGCTT 108589 ||||||||||||||| |||||||||||||| | |||||||||||| || || ||||| || Sbjct 612790 CCATCACCTCTTGGCCAACAAGTTTGACCCAAAGGTGGATGATAATGTTCTTCAGTGTTT 612731 Query 108590 AGAAGAGTACCTACGTCATAAGGCCATCTATGGGACTGAACTTTGAG 108636 |||||| || ||||||| || |||||||| ||||||||||| |||| Sbjct 612730 AGAAGAATATTTACGTCACAAAGCCATCTACGGGACTGAACTGTGAG 612684 >seq87223 Length=339319 Score = 127 bits (140), Expect = 1e-24 Identities = 570/886 (64%), Gaps = 29/886 (3%) Strand=Plus/Plus Query 107688 CCACTGAGTAAAGAAGAGCTAGACTTCCCCATTGCCTACTCGATGGTGGTCCATGAGAAG 107747 || || |||||||||||| ||||||| || ||||| || || || ||||| ||| | ||| Sbjct 189345 CCCCTTAGTAAAGAAGAGGTAGACTTTCCAATTGCATATTCCATAGTGGTTCATCACAAG 189404 Query 107748 ATTGAAAACTTTGAACGGCTGCTGCGAGCCGTGTATGCCCCTCAGAACATATACTGTGTC 107807 ||||||| |||| |||| ||| | ||| | ||| |||||||| | ||||| | Sbjct 189405 ATTGAAATGCTTGATAGGCTCCTGAGGGCCATCTATATGCCTCAGAATTTCTACTGCATT 189464 Query 107808 CACGTGGATGTGAAGTCCCCAGAGACTTTCAAAGAGGCGGTCAAGGCCATTATTTCCTGC 107867 || ||||| || | || | || || || || | || |||| |||||| Sbjct 189465 CATGTGGACAAAAAAGCAGAGGAATCCTTTTTAGCTGCAGTGATGGGCATTGCATCCTGC 189524 Query 107868 TTCCCCAATGTCTTCATGGCCAGTAAGTTGGTCCCGGTGGTTTATGCCTCCTGGTCCAGA 107927 || |||||||| ||||||| |||||| || |||||||| |||||| | Sbjct 189525 TTTGATAATGTCTTTGTGGCCAGCCAGTTGGAGAATGTTGTTTATGCATCCTGGAGTCGG 189584 Query 107928 GTGCAAGCTGACCTGAACTGTATGGAAGACTTGCTCCAGAGCTCAGTGCCA--TGGAAGT 107985 || || |||||||| ||||||||| | ||| || | ||| | ||||| | ||||||| Sbjct 189585 GTTCAGGCTGACCTCAACTGTATGAAGGACCTG-TATAGAA-TGAGTGCAAACTGGAAGT 189642 Query 107986 ACTTACTGAATACATGCGGGACAGACTTCCCCATAAAGACCAATGCCGAGATGGTCCTGG 108045 |||| | ||| || || | || ||||| || || ||||| || || ||| | Sbjct 189643 ACTTGATCAATCTTTGTGGTATGGATTTCCCTATCAAAACCAACCTAGAAATTGTCAGGA 189702 Query 108046 CCCTCAAGATGTTGAAGGGTAAGAACAGTATGGAGTCTGAGGTACCTTCTGAGTCCaaaa 108105 |||||| | |||| |||||| | || ||||| || || ||| Sbjct 189703 AGCTCAAGTCACTCTCGGGTGAGAACAACCTAGAAACTGAGAAGATGCCTCAGAACAAGG 189762 Query 108106 aaaaTCGCTGGAAATACCGCTATGA----GGTGACAGACACACTGTACCCTACCA----G 108157 | | | |||||| | || || | | |||| | | ||| ||| | || | Sbjct 189763 AGGAAAGATGGAAAAAACGGTACGCCATCGTTGACGGGAAG-CTG-ACC--AACACGGGG 189818 Query 108158 CAAGATGAAGGACCCTCCCC-CTGATAATTTACCCATGTTCACAGGGAATGCCTATTTTG 108216 || ||| || | || || | || | || | || |||| | |||||| |||| Sbjct 189819 GTAGTCAAAGCGCCACCTCCACTCAAAACT--CCTCTTTTTTCAGGCAGTGCCTACTTTG 189876 Query 108217 TGGCCTCTCGAGCCTTTGTCCAACATGTCTTAGACAACCCTAA-ATCCCAAAGACTGGTT 108275 | | | | | | | | | |||| |||| || || |||| |||| | | Sbjct 189877 TAGTCAGTAGGGAATATATAGGCTATGTGCTAGAAAATGAAAATATCCAAAAGT-TCATG 189935 Query 108276 GAATGGGTCAAAGACACCTATAGCCCCGACGAACACCTCTGGGCCACCCTTCAGCGTGCT 108335 || |||| | ||||| || ||||| || || ||||||||||||| | ||| | | | Sbjct 189936 GAGTGGGCACAGGACACATACAGCCCGGATGAGTACCTCTGGGCCACTATCCAGAG-GAT 189994 Query 108336 CCGTGGA-TGCCTGGCTCTGTTCCT---AGCCACCCCAAGTATCACATCTCAGACATGAC 108391 || | | | ||||| ||| | || ||||| |||||| || | || ||||||| Sbjct 189995 CCCCGAAGTCCCTGGTTCTCTCCCCTCAAGCCAT---AAGTATGACTTGTCTGACATGAA 190051 Query 108392 TGCCATCGCCAGGCTCGTCAAGTGGCAGTACCACGAGGGAGATGTCAGCATGGGGGCGCC 108451 ||| | || ||| | ||||||||||||||| || || ||||| || || || || Sbjct 190052 TGCTGTTGCTAGGTTTGTCAAGTGGCAGTACTTTGAAGGTGATGTTTCCAAAGGCGCTCC 190111 Query 108452 TTATGCACCCTGCTCTGGAATCCATCGGAGGGCCATCTGCATTTACGGGGCCGGGGACCT 108511 ||| |||| ||| || ||||| | | || |||| ||| ||| || || ||| | Sbjct 190112 TTACCCACCGTGCAGCGGGGTCCATGTGCGCTCCGTCTGTGTTTTCGGAGCTGGTGACTT 190171 Query 108512 GTACTGGATTCTCCAGAACCATCACCTCTTGGCAAACAAGTTTGAC 108557 | ||||| || | | || ||| | || || || ||||||||| Sbjct 190172 GCGGTGGATGCTTCGCACACACCACTTTTTCGCCAATAAGTTTGAC 190217 >seq7953 Length=820998 Score = 123 bits (136), Expect = 2e-23 Identities = 182/253 (72%), Gaps = 14/253 (6%) Strand=Plus/Plus Query 107782 ATGCCCCTCAGAACATATACTGTGTCCACGTGGATGTGAAGTCCCCAGAGACTTTCAAAG 107841 ||||||| ||||||| |||||||| || |||||| |||| | ||||||| ||||||| Sbjct 484636 ATGCCCC--AGAACATCTACTGTGTGCATGTGGATAGGAAGGCAACAGAGACCTTCAAAG 484693 Query 107842 AGGCGGTCAAGGCCATTATTTC-CTGCTTCCCCAATGTCTTCATGGCCAGTAAGTTGGTC 107900 | || ||| || | ||| | ||| |||||||||| |||| ||||| |||| ||| Sbjct 484694 ATGCTGTCCAG-CAGTTACTAAGCTGTTTCCCCAATGCCTTCCTGGCCTCTAAGATGGAA 484752 Query 107901 CCGGTGGTTTATGCCTCCTGGTCCAGAGTGCAAGCTGACCTGAACTGTATGGAAGACTTG 107960 || || || |||| || ||| | | || |||||||||||||| ||| |||| || Sbjct 484753 CCCGTCGTCTATGGTGGCTTCTCCCGCCTCCAGGCTGACCTGAACTGCATGAAAGATNTG 484812 Query 107961 -----CTCCAGAGCTCAGTGCCATGGAAGTACTTACTGAATACATGCGGGACAGACTTCC 108015 ||||| || || ||||||||||| | || || || || ||| ||||||| Sbjct 484813 GTGGCCTCCA-AG----GTCCCATGGAAGTATGTTCTCAACACCTGTGGGCAGGACTTCC 484867 Query 108016 CCATAAAGACCAA 108028 || | || ||||| Sbjct 484868 CCCTGAAAACCAA 484880 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 347762118197802