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_016448.1 Length=196691 Score E Sequences producing significant alignments: (Bits) Value seq35690 113 6e-20 seq34919 113 6e-20 seq18173 104 3e-17 seq107976 100 4e-16 seq117652 82.4 1e-10 >seq35690 Length=42660 Score = 113 bits (124), Expect = 6e-20 Identities = 139/190 (73%), Gaps = 0/190 (0%) Strand=Plus/Minus Query 14178 CCTTCATGTTGAACGTCACATGTGTATCTAGTCTCTTCTCCAGAAGGGACGACGATAGCT 14237 ||||||||||| || | |||||||||||| ||||||||||||||| || || | |||| Sbjct 31519 CCTTCATGTTGCACATGACATGTGTATCTCTGCTCTTCTCCAGAAGGCACCACCACAGCT 31460 Query 14238 ACCCATTTTTGAAACGTCCCATCTCCAGCTGGACGTGTATCTATCTGCTCTGTATCTTGA 14297 |||| || || || ||||||||||| | || | ||| || | |||| |||| ||| Sbjct 31459 GCCCACTTCTGGAAGGTCCCATCTCCTGAAGGCCTTGTCTCCACAAGCTCCATATCCTGA 31400 Query 14298 CTTTGATCTTCTCCGTCTCGATACCACGTAATTTTTATATCAGCCGGATAAAAACCCAAA 14357 | ||||| || || || | ||| | | ||| ||||| ||||| || || || Sbjct 31399 GTCCAGTCTTCCCCATCCCGCTGCCAGATCAGGGATATCTCAGCAGGATAGAAGCCTAAG 31340 Query 14358 GCCCAGCACC 14367 |||||||||| Sbjct 31339 GCCCAGCACC 31330 >seq34919 Length=380059 Score = 113 bits (124), Expect = 6e-20 Identities = 149/207 (72%), Gaps = 0/207 (0%) Strand=Plus/Minus Query 2248 AGAATCGGATCTGCGAGATCCATCTGACCTGTTCTGTCGAGGATCCCAATGACAACATCT 2307 ||||| | | ||| |||||||| ||||||||| ||| ||| || | ||| | || ||| Sbjct 305740 AGAATGGAACCTGTGAGATCCACCTGACCTGTATTGTGGAGAATACAAATCATAATGTCT 305681 Query 2308 CCTTCAAATGGGAGGCCTTGGGCAAGACGCTTCTACGCGAGCCCAACCTCACGACCTCCT 2367 | | ||| |||||| || | || || || | || || || ||||| ||||| Sbjct 305680 CAGTTGGGTGGCAGGCCTCAGGAATCACCTTTTTAAGGGAACCAAATCTCACTGTCTCCT 305621 Query 2368 GGGACCCCAGGAACAGCAGTGAGCAGAACTACACGTGCATCGCCGAAAACGCTGTGAGCA 2427 ||||||| | ||| |||||| ||||| || || ||| || || |||||||| |||| Sbjct 305620 GGGACCCGAAGAATTCCAGTGACCAGAATTATACCTGCCAAGCTGAGAACGCTGTCAGCA 305561 Query 2428 ATCTCTCTTTCACGGTCTCGGCCCAGA 2454 |||| ||| || | ||||| ||||||| Sbjct 305560 ATCTGTCTGTCTCTGTCTCTGCCCAGA 305534 >seq18173 Length=40700 Score = 104 bits (114), Expect = 3e-17 Identities = 141/197 (72%), Gaps = 0/197 (0%) Strand=Plus/Minus Query 14178 CCTTCATGTTGAACGTCACATGTGTATCTAGTCTCTTCTCCAGAAGGGACGACGATAGCT 14237 ||||||||||| || | ||||| ||||| ||| ||||||||||| || || | ||| Sbjct 26923 CCTTCATGTTGCACATGACATGCATATCTCTGCTCCTCTCCAGAAGGTACCACCACTGCT 26864 Query 14238 ACCCATTTTTGAAACGTCCCATCTCCAGCTGGACGTGTATCTATCTGCTCTGTATCTTGA 14297 |||| || || || || |||||||| || || | || || ||| |||| | |||||| Sbjct 26863 GCCCACTTCTGGAAGGTTCCATCTCCTGCAGGCCTGGTGTCCATCAGCTCCATGTCTTGA 26804 Query 14298 CTTTGATCTTCTCCGTCTCGATACCACGTAATTTTTATATCAGCCGGATAAAAACCCAAA 14357 | || ||||| || || | | ||| || | |||| ||||| || ||||| | Sbjct 26803 GTCTGGTCTTCCCCATCCCTCTGCCAGGTCAGGGTTATCTCAGCTGGGTAAAATTTGAGG 26744 Query 14358 GCCCAGCACCGTAAAGT 14374 |||||||||| ||| || Sbjct 26743 GCCCAGCACCTTAAGGT 26727 Score = 98.7 bits (108), Expect = 1e-15 Identities = 140/197 (71%), Gaps = 0/197 (0%) Strand=Plus/Minus Query 14178 CCTTCATGTTGAACGTCACATGTGTATCTAGTCTCTTCTCCAGAAGGGACGACGATAGCT 14237 ||||||||||| || | |||||||| ||| ||| ||||||||||| || || | |||| Sbjct 3800 CCTTCATGTTGCACATGACATGTGTGTCTCTGCTCCTCTCCAGAAGGTACTACCACAGCT 3741 Query 14238 ACCCATTTTTGAAACGTCCCATCTCCAGCTGGACGTGTATCTATCTGCTCTGTATCTTGA 14297 |||| || || || || |||||||| || || | || | | |||| | || ||| Sbjct 3740 GCCCACTTCTGGAAGGTTCCATCTCCTGCAGGCCTGGTGTTCACTAGCTCCATGTCCTGA 3681 Query 14298 CTTTGATCTTCTCCGTCTCGATACCACGTAATTTTTATATCAGCCGGATAAAAACCCAAA 14357 | || ||||| || || | | ||| || | |||| ||||| ||||| || | | Sbjct 3680 GTCTGGTCTTCCCCATCCCTCTGCCAGGTCAGGGTTATCTCAGCTGGATAGAATCTGAGG 3621 Query 14358 GCCCAGCACCGTAAAGT 14374 |||||||||| ||| || Sbjct 3620 GCCCAGCACCTTAAGGT 3604 >seq107976 Length=334363 Score = 100 bits (110), Expect = 4e-16 Identities = 136/190 (72%), Gaps = 0/190 (0%) Strand=Plus/Minus Query 14178 CCTTCATGTTGAACGTCACATGTGTATCTAGTCTCTTCTCCAGAAGGGACGACGATAGCT 14237 ||||||||||| || | |||||| ||||| ||| ||||||||||| || || | |||| Sbjct 35880 CCTTCATGTTGCACATGACATGTATATCTCTGCTCCTCTCCAGAAGGTACTACCACAGCT 35821 Query 14238 ACCCATTTTTGAAACGTCCCATCTCCAGCTGGACGTGTATCTATCTGCTCTGTATCTTGA 14297 |||| || || || || |||||||| || || | || | | | |||| | || ||| Sbjct 35820 GCCCACTTCTGGAAGGTTCCATCTCCTGCAGGCCTGGTGTTCACCAGCTCCATGTCCTGA 35761 Query 14298 CTTTGATCTTCTCCGTCTCGATACCACGTAATTTTTATATCAGCCGGATAAAAACCCAAA 14357 | || ||||| || || | | ||| || | | |||||||| || || || || | Sbjct 35760 GTCTGGTCTTCCCCATCCCTCTGCCAGGTCAGGGTGATATCAGCAGGGTAGAATCCGAGG 35701 Query 14358 GCCCAGCACC 14367 |||||||||| Sbjct 35700 GCCCAGCACC 35691 Score = 100 bits (110), Expect = 4e-16 Identities = 136/190 (72%), Gaps = 0/190 (0%) Strand=Plus/Minus Query 14178 CCTTCATGTTGAACGTCACATGTGTATCTAGTCTCTTCTCCAGAAGGGACGACGATAGCT 14237 ||||||||||| || | |||||| ||||| ||| ||||||||||| || || | |||| Sbjct 62755 CCTTCATGTTGCACATGACATGTATATCTCTGCTCCTCTCCAGAAGGTACTACCACAGCT 62696 Query 14238 ACCCATTTTTGAAACGTCCCATCTCCAGCTGGACGTGTATCTATCTGCTCTGTATCTTGA 14297 |||| || || || || |||||||| || || | || || | | |||| | || || Sbjct 62695 GCCCACTTCTGGAAGGTTCCATCTCCTGCAGGCCTGGTGTCCACCAGCTCCATGTCCTGG 62636 Query 14298 CTTTGATCTTCTCCGTCTCGATACCACGTAATTTTTATATCAGCCGGATAAAAACCCAAA 14357 | | |||||| || || | | ||| || | | || ||||| || || || |||| Sbjct 62635 GTCTTATCTTCCCCATCCCTCTGCCAGGTCAGGGTGATGTCAGCAGGGTAGAATCCCAGG 62576 Query 14358 GCCCAGCACC 14367 |||||||||| Sbjct 62575 GCCCAGCACC 62566 Score = 91.5 bits (100), Expect = 2e-13 Identities = 138/197 (70%), Gaps = 0/197 (0%) Strand=Plus/Plus Query 14178 CCTTCATGTTGAACGTCACATGTGTATCTAGTCTCTTCTCCAGAAGGGACGACGATAGCT 14237 ||||||||||| || | ||||| ||||| ||| ||||||||||| || || | ||| Sbjct 78830 CCTTCATGTTGCACATGACATGNATATCTCTGCTCCTCTCCAGAAGGCACCACCACTGCT 78889 Query 14238 ACCCATTTTTGAAACGTCCCATCTCCAGCTGGACGTGTATCTATCTGCTCTGTATCTTGA 14297 ||||||| || || || |||||||| || || | || || | | |||| | || ||| Sbjct 78890 GCCCATTTCTGGAAGGTTCCATCTCCTGCAGGCCTGGTGTCCACCAGCTCCATGTCCTGA 78949 Query 14298 CTTTGATCTTCTCCGTCTCGATACCACGTAATTTTTATATCAGCCGGATAAAAACCCAAA 14357 | || ||||| || || | | ||| || | || ||||| || || || | | Sbjct 78950 GTCTGGTCTTCCCCATCCCTCTGCCAGGTCAGGGAGATCTCAGCAGGGTAGAATCTGAGG 79009 Query 14358 GCCCAGCACCGTAAAGT 14374 |||||||||| ||| || Sbjct 79010 GCCCAGCACCTTAAGGT 79026 >seq117652 Length=51985 Score = 82.4 bits (90), Expect = 1e-10 Identities = 131/188 (70%), Gaps = 0/188 (0%) Strand=Plus/Plus Query 14178 CCTTCATGTTGAACGTCACATGTGTATCTAGTCTCTTCTCCAGAAGGGACGACGATAGCT 14237 || ||||| || || |||||||||||| ||| ||||||||||| || || | || Sbjct 12886 CCCTCATGATGCACAAGACATGTGTATCTTTGCTCCTCTCCAGAAGGTACCACCACAGAC 12945 Query 14238 ACCCATTTTTGAAACGTCCCATCTCCAGCTGGACGTGTATCTATCTGCTCTGTATCTTGA 14297 |||| || || ||||| ||||| || || || | || || | |||| | || ||| Sbjct 12946 GCCCACTTCTGGAACGTTCCATCCCCTGCAGGCCTAGTTTCCACTAGCTCCATGTCCTGA 13005 Query 14298 CTTTGATCTTCTCCGTCTCGATACCACGTAATTTTTATATCAGCCGGATAAAAACCCAAA 14357 | || || ||||| || || | ||| || | | || ||| | ||||| || |||| Sbjct 13006 ATCTGGTCCTCTCCATCACGTTGCCAGGTCAGGGTGATCTCAACTGGATAGAAGCCCAGG 13065 Query 14358 GCCCAGCA 14365 |||||||| Sbjct 13066 GCCCAGCA 13073 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 628344207207080