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_027778.1 Length=124244 Score E Sequences producing significant alignments: (Bits) Value seq14694 102 6e-17 seq73029 100 2e-16 seq17284 98.7 8e-16 seq44856 93.3 3e-14 >seq14694 Length=1798513 Score = 102 bits (112), Expect = 6e-17 Identities = 87/108 (81%), Gaps = 0/108 (0%) Strand=Plus/Minus Query 43913 CAAGAAGTTCAATTACCAGAAGCACGATGTTTTTATGGGTTTCAAATTGCCATAGAAAAT 43972 |||||||||||| | |||| || || ||||| ||||| || || |||||||| ||||| Sbjct 775651 CAAGAAGTTCAAGTCACAGAGGCCCGTTGTTTCTATGGCTTCCAGATTGCCATGGAAAAC 775592 Query 43973 ATTCATTCGGAAATGTACAGTCTTCTGATAGATACGTACATCAAAGAT 44020 || ||||| || ||||||||||| || || || || ||||| |||||| Sbjct 775591 ATACATTCTGANATGTACAGTCTCCTTATTGACACTTACATTAAAGAT 775544 Score = 95.1 bits (104), Expect = 1e-14 Identities = 110/148 (74%), Gaps = 3/148 (2%) Strand=Plus/Minus Query 44489 GTACAAAACCCGTTTGATTTTATGGAAAATATTTCGTTGGAAGGCAAAACAAACTTTTTT 44548 ||| |||| || ||||| || |||||||||||||| | ||||| || |||||||| ||| Sbjct 772244 GTAGAAAATCCATTTGACTTCATGGAAAATATTTCACTAGAAGGAAAGACAAACTTCTTT 772185 Query 44549 GAAAAACGCGTTGGAGAATATCAGCGAATGGGCGTCAT---GATAACAAGTGACAATAAA 44605 || || || || |||||||| ||| | ||||| || || || ||| || ||| Sbjct 772184 GAGAAGCGAGTGGGAGAATACCAGAGGATGGGGGTGATGTCGAGTTCAACAGAGAATTCT 772125 Query 44606 TTTACTACGGATGAAGATTTCTAATTAA 44633 ||||| ||||| ||||||||| ||| Sbjct 772124 TTTACCTTGGATGCTGATTTCTAAGTAA 772097 >seq73029 Length=1854 Score = 100 bits (110), Expect = 2e-16 Identities = 113/152 (74%), Gaps = 0/152 (0%) Strand=Plus/Plus Query 41047 TGATGGCATTGCCACCTTGTCATTTGTTATGTCAGTTTTACGTTTGCAATGGTGAACTGT 41106 |||||||| |||| ||||| ||| | ||||| || || || ||||| || |||| Sbjct 1387 TGATGGCACTGCCTCCTTGCCATGCCCTCTGTCAATTCTATGTGGTGAATGGGGAGCTGT 1446 Query 41107 CATGTCAATTGTATCAAAGATCAGGTGACATGGGACTAGGGGTCCCGTTTAACATAGCGA 41166 | || || | || || || ||||| || ||||| || || || || || ||||| || | Sbjct 1447 CTTGCCAGCTTTACCAGAGGTCAGGAGATATGGGCCTGGGCGTGCCCTTCAACATTGCCA 1506 Query 41167 GTTATGCTCTGCTCACGTATATGATTGCACAC 41198 | ||||| |||||||| || |||||||||||| Sbjct 1507 GCTATGCCCTGCTCACNTACATGATTGCACAC 1538 >seq17284 Length=1446028 Score = 98.7 bits (108), Expect = 8e-16 Identities = 177/257 (69%), Gaps = 5/257 (2%) Strand=Plus/Plus Query 47229 TAGGACTTTATGAAAAATCAGGGAAAATATTATTTCTCGGGTTAGACAATGCAGGAAAAA 47288 ||||||| ||| | ||||| || ||| | |||| | || || ||||||||||| |||| Sbjct 514821 TAGGACTCTATAAGAAATCTGGAAAACTTGTATTCTTGGGTTTGGACAATGCAGGCAAAA 514880 Query 47289 CGGCATTACTCCACA-TGCTCAAATACAATTGCATGAAAGAGCATAACCCTACATTACAT 47347 | | | || |||| |||| ||| | | | | |||| || ||| ||||| Sbjct 514881 CCACTCTTCTTCACAATGCTGAAAGATGACAGACTAGGCCAGCACGTACCAACACTACAT 514940 Query 47348 CCGACCTCTGAACAACTAACAATTGCTGGCATAACATTTAGCACATTTGATTTAGGAGGA 47407 || ||||| ||| || ||||||||||| || || |||| ||| |||||| | || ||| Sbjct 514941 CCTACCTCAGAAGAATCGACAATTGCTGGAATGACTTTTACCACTTTTGATCTTGGTGGA 515000 Query 47408 CACATTCAAGCGCGTAGAATGTGGCAAAATTATTTTCATGTCGTTGATGCTATAGTTTAT 47467 || ||| ||| | | ||| |||||||| | | | || ||| ||||||| | Sbjct 515001 CA----TGAGCACGTCGGGTTTGGAAAAATTATCTCCCAGCGATTAATGGGATAGTTTTT 515056 Query 47468 ATTGTAGACTGTGCAGA 47484 | || ||||||||||| Sbjct 515057 CTGGTGGACTGTGCAGA 515073 >seq44856 Length=74269 Score = 93.3 bits (102), Expect = 3e-14 Identities = 101/134 (75%), Gaps = 0/134 (0%) Strand=Plus/Plus Query 44123 GGAGAACGACTTGTCGCGTTTGCAGTTGTGGAAGGCATTTTCTTTTCAGGATCGTTTGCG 44182 || ||| || | || || || || | |||||||||| ||||||| || || |||||||| Sbjct 50617 GGGGAAAGAGTGGTGGCCTTCGCTGCTGTGGAAGGCGTTTTCTTCTCTGGGTCGTTTGCT 50676 Query 44183 GCCATATTTTGGTTAAAGAAACGAGGTTTGATGCCTGGGTTGACGTTTTCAAATGAGTTA 44242 || ||||| ||| | ||||| |||| | |||||||| | || |||||||||||| | Sbjct 50677 GCTATATTCTGGCTGAAGAAGAGAGGCCTCATGCCTGGACTCACCTTTTCAAATGAGCTC 50736 Query 44243 ATAAGTCGTGATGA 44256 || || | ||||| Sbjct 50737 ATCAGCAGGGATGA 50750 Score = 91.5 bits (100), Expect = 1e-13 Identities = 77/95 (81%), Gaps = 0/95 (0%) Strand=Plus/Plus Query 44493 AAAACCCGTTTGATTTTATGGAAAATATTTCGTTGGAAGGCAAAACAAACTTTTTTGAAA 44552 |||| || ||||||||||||||||| |||||||| ||||| |||||||| || ||||| | Sbjct 57989 AAAATCCCTTTGATTTTATGGAAAACATTTCGTTAGAAGGGAAAACAAATTTCTTTGAGA 58048 Query 44553 AACGCGTTGGAGAATATCAGCGAATGGGCGTCATG 44587 |||| ||| || |||||||| | | |||||| Sbjct 58049 AACGAGTTTCTGAGTATCAGCGTTTTGCAGTCATG 58083 Score = 86.0 bits (94), Expect = 5e-12 Identities = 70/85 (82%), Gaps = 0/85 (0%) Strand=Plus/Plus Query 43698 GGTTTGTCGTGTTTCCAATTCAATATCATGACATATGGCAAATGTACAAAAAAGCACAGG 43757 |||||||| | |||||||| || || | |||||| ||| ||||||| ||| | ||||||| Sbjct 36824 GGTTTGTCATCTTTCCAATCCAGTACCCTGACATTTGGAAAATGTATAAACAGGCACAGG 36883 Query 43758 CGTCATTTTGGACAGCAGAAGAAGT 43782 | || || |||||||||||||| || Sbjct 36884 CATCTTTCTGGACAGCAGAAGAGGT 36908 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 396877757784865