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: Rattus_20norvegicus_20[refseq_20GCF_5F000001895.5_202014-07-01] 955 sequences; 2,870,184,193 total letters Query= NC_001266.1 Length=159857 Score E Sequences producing significant alignments: (Bits) Value seq297 338 6e-88 seq129 98.7 1e-15 seq117 89.7 5e-13 >seq297 Length=62275575 Score = 338 bits (374), Expect = 6e-88 Identities = 610/886 (69%), Gaps = 8/886 (1%) Strand=Plus/Minus Query 15902 ACACCCATTCTTTGGTAATCACTAACGCGTTTTTCGAAGAAGTTAGTTTTTCCCTCTAAA 15961 || ||||| || ||||| || | || || || || |||||||| |||||||| |||| Sbjct 25392874 ACTCCCATCCTCTGGTACTCGCCTACTCGCTTCTCAAAGAAGTTTGTTTTTCCTTCTAGT 25392815 Query 15962 GATATATTTTCCATAAAATCAAAGGGATTAGTAGCTGAAAATATCTTAGAGTACCCCAGT 16021 || ||||| ||||| || ||||| ||||| || || ||||| | ||||| Sbjct 25392814 GAAATATTCTCCATGAAGTCAAATGGATTTTCTACTTTGAAAATCTTGTTAAAACCCAGC 25392755 Query 16022 TCCGTAACTAATCTATCTGCTACAAATTCTATATATTGACACATTAAGTCGCAATTAATT 16081 ||| | | || || || ||||| || || || || ||| ||| |||||| || Sbjct 25392754 TCCAGCATAAGCCTGTCGGCCACAAACTCGATGTACTGCTTCATCAAGGTGCAATTCATC 25392695 Query 16082 CCTATAAGTCGTACCGGAAGAGCTTTTGTTAAAAATTGTTGTTCTATCACAACCGCTTCT 16141 || || || || || || || | ||| | || | || |||||| ||||| | Sbjct 25392694 CCGATGAGCTTCACAGGCAGGGCCTCTGTGAGGAACTCCTGCTCTATCCTGACCGCGTTG 25392635 Query 16142 TTAATGATATCGGTGGCTCGTGTTTCAGACGGTGTATGGTTTAGGTGTTTAAACATTAGA 16201 |||| || || | ||| || || || | || ||||| || ||||| || Sbjct 25392634 GTAATTATTTCTTTTACTCTCTGCTCCGAGGGCTTGTGTACCAGGTGCTTGAACATCAGG 25392575 Query 16202 CACGCGAAGTCGCAATGTAGTCCTTCGTCTCTGCTGATAAGTTCGTTGGAAAAAGTTAAC 16261 || || ||||| || || || || || |||||||| |||||||| |||||||| || | Sbjct 25392574 CAGGCAAAGTCACAGTGCAGACCCTCATCTCTGCTAATAAGTTCATTGGAAAATGTAAGG 25392515 Query 16262 CCTGGCATTTTTCCTCGTTTCTTTAACCAGAATATCGCAGCAAATGACCCCGAAAAGAAT 16321 || ||||| ||| |||||||| | ||||||||| | ||||| || || |||||||| Sbjct 25392514 CCCGGCATCAGTCCCCGTTTCTTGAGCCAGAATATTGATGCAAAAGAACCAGAAAAGAAG 25392455 Query 16322 ATACCCTCAACAGATGCAAAAGCGATTAATCGTTCCGCGTACGTAGCATCTTTATTACGA 16381 || || || || | || || || | | |||||| | |||||||| ||||| | | | Sbjct 25392454 ATTCCTTCTACCGCAGCGAAGGCCACAACTCGTTCTCCATACGTAGCCTCTTTGTCCCCA 25392395 Query 16382 ATCCATTTCTGTACCCATTCGGCTTTTTGTTTTATACAATCCATCGTTTCTATGGCCTTA 16441 ||||| | |||| || || || | || | |||| ||| || || ||||| || Sbjct 25392394 ATCCAACGCAAGGCCCAGTCAGCCTTCTTCTTCACACAAGGCATTGTCTCAATGGCGTTG 25392335 Query 16442 AACA-AT-TTCTCTTTTTCCTGAATATCGATTATATACGTATCAATCAGTAAACTGTACA 16499 || | || |||||||| | |||| | | || || || ||||| || | |||||||| Sbjct 25392334 AAGAGATATTCTCTTTCTTTGGAATCTTTA--ATGTAAGTGTCAATAAGGAGACTGTACA 25392277 Query 16500 TTTCTGAGTGTATGTTCTCTATGGCTATCTGAAATCCATAGAAGCATCGAGCCTCCGCTA 16559 |||| |||||||||||||| ||||| || || || |||||||| || || ||||| | | Sbjct 25392276 TTTCGGAGTGTATGTTCTCCATGGCAATTTGGAAGCCATAGAAACAGCGGGCCTCTGTGA 25392217 Query 16560 TTTGTACTTCCACGTAAAATCGTTCCGCCAGGTTCTCATTCACGATACCGTCACTTGCAG 16619 ||| ||||| | |||||| ||| ||| ||||||||| || || || ||||| || | Sbjct 25392216 CTTGAACTTCTTGGCTAAATCGCTCCACCAAGTTCTCATTGACTATGCCATCACTCGCCG 25392157 Query 16620 CAAAAAACGCC--AATATGTGCTTAATGAAATATTTTTCGTCAGATGTAAGAATATGCCA 16677 |||| || ||| || ||| | | || |||| | | || || | | | ||| | ||| Sbjct 25392156 CAAAGAAGGCCAGAACATGAGAT--ATAAAATGTCTCTCATCTGGTTTCAGAGCTTCCCA 25392099 Query 16678 ATCTTTTAAATCTTTGGATATATCCACTTCTTCTGGCGTCCAAAAGCTAGCCACTGCCTT 16737 | | | ||| ||||| | ||||| || || | ||||||||| ||| | || || Sbjct 25392098 GTGCTGAATATCCTTGGAAAGGTCCACCTCCTCGGCAGTCCAAAAGGAGGCCTCAGCTTT 25392039 Query 16738 TTTATACATTTTCCAAATATCATTGTATTGTATGGGAAATACGACG 16783 || ||||| | ||| ||||||| ||||| |||||||| || ||| Sbjct 25392038 CTTGTACATCTGCCAGATATCATGGTATTCGATGGGAAAGACAACG 25391993 >seq129 Length=145729302 Score = 98.7 bits (108), Expect = 1e-15 Identities = 102/134 (76%), Gaps = 0/134 (0%) Strand=Plus/Plus Query 16224 CTTCGTCTCTGCTGATAAGTTCGTTGGAAAAAGTTAACCCTGGCATTTTTCCTCGTTTCT 16283 |||| || |||||||| ||||| || |||||||| | ||| ||||| |||| |||| Sbjct 76759204 CTTCATCCCTGCTGATCAGTTCATTTGAAAAAGTCAGCCCAGGCATGAGGCCTCTCTTCT 76759263 Query 16284 TTAACCAGAATATCGCAGCAAATGACCCCGAAAAGAATATACCCTCAACAGATGCAAAAG 16343 ||| ||||||||| ||||||||||| || || ||||| || || || |||| || || | Sbjct 76759264 TTAGCCAGAATATAGCAGCAAATGATCCAGAGAAGAAAATCCCTTCTACAGCAGCGAAGG 76759323 Query 16344 CGATTAATCGTTCC 16357 | | | || |||| Sbjct 76759324 CCACCACTCTTTCC 76759337 Score = 82.4 bits (90), Expect = 8e-11 Identities = 68/83 (82%), Gaps = 0/83 (0%) Strand=Plus/Plus Query 16472 ATATACGTATCAATCAGTAAACTGTACATTTCTGAGTGTATGTTCTCTATGGCTATCTGA 16531 || || || || || |||||||||||||| |||||||| | ||||| ||| |||||| Sbjct 76761148 ATGTAAGTGTCTATTAGTAAACTGTACATCTCTGAGTGAACATTCTCGATGAGAATCTGA 76761207 Query 16532 AATCCATAGAAGCATCGAGCCTC 16554 || ||||||||||| |||||||| Sbjct 76761208 AAGCCATAGAAGCAGCGAGCCTC 76761230 >seq117 Length=147991367 Score = 89.7 bits (98), Expect = 5e-13 Identities = 90/117 (77%), Gaps = 0/117 (0%) Strand=Plus/Minus Query 16472 ATATACGTATCAATCAGTAAACTGTACATTTCTGAGTGTATGTTCTCTATGGCTATCTGA 16531 || || || ||||| || | |||||||||||| |||||||||||||| ||||| || || Sbjct 43886762 ATGTAAGTGTCAATAAGGAGACTGTACATTTCGGAGTGTATGTTCTCCATGGCAATTTGG 43886703 Query 16532 AATCCATAGAAGCATCGAGCCTCCGCTATTTGTACTTCCACGTAAAATCGTTCCGCC 16588 || |||||||| || || ||||| | | ||| ||||| | |||||| ||| || Sbjct 43886702 AAGCCATAGAAACAGCGGGCCTCTGTGACTTGAACTTCTTGGCTAAATCGCTCCACC 43886646 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 511408294990600