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_001461.1 Length=12573 Score E Sequences producing significant alignments: (Bits) Value seq66261 259 4e-65 seq116960 190 2e-44 seq44413 168 5e-38 seq36086 163 2e-36 seq87275 129 5e-26 >seq66261 Length=1077998 Score = 259 bits (286), Expect = 4e-65 Identities = 155/163 (95%), Gaps = 0/163 (0%) Strand=Plus/Plus Query 5021 AGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCCAGATACTGTGCTGAGTGTAATAGG 5080 ||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||| Sbjct 841903 AGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCCAGATATTGTGCTGAGTGTAATAGG 841962 Query 5081 CTGCATCCTGCTGAGGAAGGTGACTTTTGGGCAGAGTCGAGCATGTTGGGCCTCAAAATC 5140 |||||||||||||| ||||| ||||||||||||||||| |||||||| |||||||| ||| Sbjct 841963 CTGCATCCTGCTGAAGAAGGAGACTTTTGGGCAGAGTCAAGCATGTTAGGCCTCAAGATC 842022 Query 5141 ACCTACTTTGCGCTGATGGATGGAAAGGTGTATGATATCACAG 5183 ||||||||||| ||||||||||||||||| ||||||||||||| Sbjct 842023 ACCTACTTTGCACTGATGGATGGAAAGGTCTATGATATCACAG 842065 Score = 118 bits (130), Expect = 8e-23 Identities = 74/80 (93%), Gaps = 0/80 (0%) Strand=Plus/Plus Query 5181 CAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAGAGTCCCTTGTC 5240 |||||||||||||||||||||||||||||||||| |||||||| |||||||| |||| | Sbjct 842162 CAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCTCCAGATACTCACAGAGTTCCTTACC 842221 Query 5241 ACATCTCATTTGGTTCACGG 5260 |||||||||||||||| ||| Sbjct 842222 ACATCTCATTTGGTTCTCGG 842241 >seq116960 Length=1040990 Score = 190 bits (210), Expect = 2e-44 Identities = 197/256 (77%), Gaps = 3/256 (1%) Strand=Plus/Minus Query 5000 AGCCGATGCCAGGGAAAGCATAGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCCAGA 5059 |||||||||| ||||| || | |||| ||| | | ||| | || ||||| ||| ||| Sbjct 28914 AGCCGATGCCGAGGAAAACACAAGAGGGTTGCTACGAACCAGAAATCTAAG--TGCAAGA 28857 Query 5060 TACTGTGCTGAGTGTAATAGGCTGCATCCTGCTGAGGAAGGTGACTTTTGGGCAGAGTCG 5119 |||| || | | |||||| ||||| | ||||| |||| |||||||||||||| | Sbjct 28856 TACTATGTGAAATATAATAG-CTGCAAGCCACTGAGAAAGGAAACTTTTGGGCAGAGGCA 28798 Query 5120 AGCATGTTGGGCCTCAAAATCACCTACTTTGCGCTGATGGATGGAAAGGTGTATGATATC 5179 ||| ||||||||||||| | ||||||||| | || ||||||||||||| || ||| Sbjct 28797 AGCCTGTTGGGCCTCAAGGTTACCTACTTTACATTGGTGGATGGAAAGGTCTACTGCATC 28738 Query 5180 ACAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAGAGTCCCTTGT 5239 |||| | |||||||| ||| | ||||||||||||| ||| ||| |||||| |||| | Sbjct 28737 ACAGCGAGGGCTGGACTCCACTGCGTGGGAATCTCCCTAGACTCCCTCAGAGTTCCTTAT 28678 Query 5240 CACATCTCATTTGGTT 5255 ||||| |||||||||| Sbjct 28677 CACATTTCATTTGGTT 28662 >seq44413 Length=628612 Score = 168 bits (186), Expect = 5e-38 Identities = 204/273 (75%), Gaps = 9/273 (3%) Strand=Plus/Plus Query 4994 ATGTGCAGCCGATGCCAGGGAAAGCATAGGAG----GTTTGAAATGGACCGGGAACCTAA 5049 ||| | ||| ||||||| |||| | || || | ||| || ||| | | |||| | Sbjct 310347 ATGGGTAGCTGATGCCAAAGAAAACCTAACAGACAGGCTTGGAACAGACTGAGGACCTCA 310406 Query 5050 GAGTGCCAGATACTGTGCTGAGTGTAATAGGCTGCATCCTGCTGAGGAAGGTGACTTTTG 5109 ||||| ||| | ||||||||| |||||||| | | ||||| |||| || ||| | | Sbjct 310407 GAGTGTG-GATGCCATGCTGAGTGCAATAGGCTACCTTCTGCTCAGGACGGAGACCTA-G 310464 Query 5110 GGCAGAGTCGA-GCATGTTGGGCCTCAAAATCACCTACTTTGCGCTGATGGATGGAAAGG 5168 |||||| || | ||| | || |||||| |||| | ||| || | |||||||||||| Sbjct 310465 GGCAGAATCAAAGCACGCTGAACCTCAAGATCATGTGCTTGGCATGGGTGGATGGAAAGG 310524 Query 5169 TGTATGATATCACAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACA 5228 | ||||| || | || ||||||||||||||||||||||||||||||| || | || || Sbjct 310525 TCTATGACATAATGGANTGGGCTGGATGCCAGCGTGTGGGAATCTCCCAAGTTGCC--CA 310582 Query 5229 GAGTCCCTTGTCACATCTCATTTGGTTCACGGA 5261 ||| || | |||||||||||||||||||| || Sbjct 310583 GAGCTCCATATCACATCTCATTTGGTTCACAGA 310615 >seq36086 Length=27116 Score = 163 bits (180), Expect = 2e-36 Identities = 180/236 (76%), Gaps = 13/236 (6%) Strand=Plus/Minus Query 4994 ATGTGCAGCCGATGCCAGGGAAAGCATAGGAGGTTTGAAATGGACCGGGAACCTAAGAGT 5053 ||||||||| ||||| || ||| |||||| ||||| || |||| ||| ||||||||| Sbjct 26306 ATGTGCAGCTAATGCCTAGGGAAGTGTAGGAGATTTGAGATAGACCAGGAGCCTAAGAGT 26247 Query 5054 GCCAGATACTGTGCTGAGTGTAATAGGCTGCATCCTGCTGAGGAAGGTGACTTTTGGGCA 5113 ||||| ||||| ||| |||||||||| | | ||||||||| |||| |||| |||| Sbjct 26246 TCCAGACACTGTACTG-GTGTAATAGGTTACCCCCTGCTGAGAAAGGAGACTCA--GGCA 26190 Query 5114 GAGTCGAGCATGTTGGGCCTCAAAATCACCTACTTTGCGCTGATGGATGGAAAGGTGTAT 5173 || | |||||| |||||||| |||| || ||| ||||||| ||| | ||| Sbjct 26189 GATCCAAGCATGGCAGGCCTCAAGATCA--------GCACTGGTGGATGGGAAGAT-TAT 26139 Query 5174 GATATCACAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAG 5229 || |||||||||||||||||| |||| |||||| |||| | ||||||||||| Sbjct 26138 GACGTCACAGAGTGGGCTGGATCGCAGCATGTGGGCATCT-TCTGGATACCCACAG 26084 >seq87275 Length=228649 Score = 129 bits (142), Expect = 5e-26 Identities = 179/247 (72%), Gaps = 18/247 (7%) Strand=Plus/Minus Query 5012 GGAAAGCATAGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCCAGATACTGTGCTGAG 5071 ||||||| | |||| |||| ||| ||| || || ||||||||| | ||||||| || Sbjct 16395 GGAAAGCTTCAGAGGCTTGAGATGCACCAGGCACTTAAGAGTGCTGGGCACTGTGCCAAG 16336 Query 5072 TGTAATAGGCTGCATCCTGCTGAGGAAGGTGACTTTTGGGCAGAGTCGAGCATGTTGGGC 5131 ||| ||| ||| |||||||||||||| || ||| || | ||| |||||| || || Sbjct 16335 AGTATTAGATGGCACCCTGCTGAGGAAGGAGA--TTTTGGAATAGTAAAGCATGCTGAGC 16278 Query 5132 CTCAAAATCACCTACTTTGCGCTGATGGATGGAAAGGTGTATGATATCACAGAGTGGGCT 5191 || | ||||| | |||||| |||| ||||| ||||| || ||||| ||| Sbjct 16277 CT--------CTTACTTAGTACTGATGAATGGCAAGGTCTATGACAT--CAGAGAGGGAC 16228 Query 5192 GGATGCCAGCGTGTGGGAATCT--CCCCAGATACCCACAGAGTCCCTTGTCACATCTCAT 5249 ||||||||| | |||||| ||||||||||| ||| || || | |||||| ||| Sbjct 16227 AGATGCCAGC--ATAAGAATCTCCCCCCAGATACC--CAGGGTTCCATATCACATGACAT 16172 Query 5250 TTGGTTC 5256 ||||||| Sbjct 16171 TTGGTTC 16165 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 40064523145164