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_001350.1 Length=112930 Score E Sequences producing significant alignments: (Bits) Value seq27450 266 2e-66 seq55113 131 1e-25 >seq27450 Length=349427 Score = 266 bits (294), Expect = 2e-66 Identities = 313/423 (74%), Gaps = 2/423 (0%) Strand=Plus/Plus Query 3978 CTTCTCATATACTTCAAATTTGTACTTAATACTTTTCTCTTCTTGCACATTAGAAAGAAC 4037 ||||||||| |||||| || ||||| || | ||| || || || || | |||||| || Sbjct 71481 CTTCTCATAGACTTCAGCTTCATACTTGATGCCTTTTTCCTCCTGAACCTCAGAAAGGAC 71540 Query 4038 ACTTGGATATTCTATCAAAAGTTTGTATTTCTCTAGATCAAATTCTGGAAAAAAGGTGTC 4097 || ||| |||||| | ||||||||| || | | ||||| |||||| |||| |||| Sbjct 71541 ACCTGGGTATTCTGAGAGAAGTTTGTAGCTCCCCAAATCAATTTCTGGGAAAACCATGTC 71600 Query 4098 ACATTCAAAGTCTTGCATGATCCTAGTCACAAACAGTTTAAGATCGCATGGATAACTCAT 4157 || |||| | | ||||||||||| |||||||||||||| || | || ||| | | |||| Sbjct 71601 ACTTTCAGATTTCTGCATGATCCTTGTCACAAACAGTTTGAGGTGGCCTGGCTGATTCAT 71660 Query 4158 AGCTTCTTTATACACAGAACTACCTCCAATTATCCAGACCATGTCTACTTTATTTGCTAA 4217 ||| | ||||| ||||||| |||| | |||| ||| || |||||||||||| ||| Sbjct 71661 GGCTCCCTTATAAGCAGAACTGCCTCTGGCTGTCCAAACCTTGCCTACTTTATTTGATAA 71720 Query 4218 TTCTGGCTGTTCGGTAAGTTTTAAAGCATCATCTAAACTCTTAGCTAAAAAATGAGCTCT 4277 ||| | ||||| |||||||||| ||||| || | ||| || || | |||||||||||| Sbjct 71721 TTCCAGTTGTTCAATAAGTTTTAAGGCATCGTCCAGACTTTTGGCAAGAAAATGAGCTCT 71780 Query 4278 --ATGTGGAAGCTCCTTTAGTTCCTTGCTGAGAACAACATTAATTCTGCCTTTTAAAGGC 4335 ||||| ||||| || || || ||||||| | |||||||| | ||||| || Sbjct 71781 CCTTGTGGTGATTCCTTGAGGTCTCTGTTGAGAACTATGTTAATTCTATCCTTTAACAGC 71840 Query 4336 CGGTTCTTCTCAGGAATTGAGAACCAAGTCTTTTTACCCATAATCACTAAATTCTGTTTA 4395 | ||| |||||||||| |||| ||| || || | || ||| || | ||||||||| Sbjct 71841 CCGTTTTTCTCAGGAANGGAGATCCACGTTTTCCTGCCTGTAACTACCAGTTTCTGTTTA 71900 Query 4396 TCT 4398 || Sbjct 71901 CCT 71903 >seq55113 Length=492985 Score = 131 bits (144), Expect = 1e-25 Identities = 100/119 (84%), Gaps = 0/119 (0%) Strand=Plus/Minus Query 4165 TTATACACAGAACTACCTCCAATTATCCAGACCATGTCTACTTTATTTGCTAATTCTGGC 4224 || || |||||||| ||||| | |||||| ||||||||||||||||||||||| ||||| Sbjct 337338 TTGTAAACAGAACTGCCTCCNACTATCCAAACCATGTCTACTTTATTTGCTAACTCTGGT 337279 Query 4225 TGTTCGGTAAGTTTTAAAGCATCATCTAAACTCTTAGCTAAAAAATGAGCTCTATGTGG 4283 ||||| |||||||||| |||||||| | ||| || || | ||||||||||| ||||| Sbjct 337278 TGTTCAATAAGTTTTAAGGCATCATCCAGACTTTTGGCAAGAAAATGAGCTCCTTGTGG 337220 Score = 129 bits (142), Expect = 4e-25 Identities = 100/119 (84%), Gaps = 0/119 (0%) Strand=Plus/Minus Query 4165 TTATACACAGAACTACCTCCAATTATCCAGACCATGTCTACTTTATTTGCTAATTCTGGC 4224 || || |||||||| ||||| | |||||| ||||||||||||||||||||||| ||||| Sbjct 334761 TTGTAAACAGAACTGCCTCCGACTATCCAAACCATGTCTACTTTATTTGCTAACTCTGGT 334702 Query 4225 TGTTCGGTAAGTTTTAAAGCATCATCTAAACTCTTAGCTAAAAAATGAGCTCTATGTGG 4283 ||||| |||||||||| |||||||| | ||| || || | ||||||||||| ||||| Sbjct 334701 TGTTCAATAAGTTTTAAGGCATCATCCAGACTTTTGGCAAGAAAATGAGCTCCTTGTGG 334643 Score = 122 bits (134), Expect = 6e-23 Identities = 98/117 (84%), Gaps = 1/117 (1%) Strand=Plus/Minus Query 4056 AAGTTTGTATTTCTCTAGATCAAATTCTGGAAAAAAGGTGTCACATTCAAAGTCTTGCAT 4115 ||||||||||||||| | ||||| ||| || ||||| ||||||| |||||| |||||||| Sbjct 340197 AAGTTTGTATTTCTCCAAATCAATTTCCGGGAAAAACGTGTCACTTTCAAATTCTTGCAT 340138 Query 4116 GATCCTAGTCACAAACAGTTTAAGATCGCATGGATAACTCATAGCTT-CTTTATACA 4171 |||||| |||||||||||| | |||| || ||| | | |||| |||| ||||| ||| Sbjct 340137 GATCCTTGTCACAAACAGTCTGAGATGGCCTGGCTGATTCATGGCTTCCTTTAAACA 340081 Score = 102 bits (112), Expect = 6e-17 Identities = 88/109 (81%), Gaps = 0/109 (0%) Strand=Plus/Minus Query 4290 CTTTAGTTCCTTGCTGAGAACAACATTAATTCTGCCTTTTAAAGGCCGGTTCTTCTCAGG 4349 ||| || || | |||||||| | |||||||||| | |||||||| || ||||||||||| Sbjct 325369 CTTGAGCTCTCTACTGAGAACTATATTAATTCTGTCCTTTAAAGGTCGATTCTTCTCAGG 325310 Query 4350 AATTGAGAACCAAGTCTTTTTACCCATAATCACTAAATTCTGTTTATCT 4398 ||| |||||||| || || ||||||||||| | |||||||||| || Sbjct 325309 AATGGAGAACCAGGTTTTCCGGCCCATAATCACCAGATTCTGTTTACCT 325261 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 360725630643623