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_001350.1 Length=112930 Score E Sequences producing significant alignments: (Bits) Value seq80 374 6e-99 seq154 116 3e-21 seq31 116 3e-21 seq166 114 9e-21 >seq80 Length=184226339 Score = 374 bits (414), Expect = 6e-99 Identities = 397/523 (76%), Gaps = 4/523 (1%) Strand=Plus/Plus Query 3976 TTCTTCTCATATACTTCAAATTTGTACTTAATACTTTTCTCTTCTTGCACATTAGAAAGA 4035 ||||| ||||| ||||||| |||||||| || | ||| || || || | | ||| || Sbjct 3087238 TTCTTTTCATAGGCTTCAAACTTGTACTTGATGCCTTTTTCCTCCTGGATCTCAGAGAGG 3087297 Query 4036 ACACTTGGATATTCTATCAAAAGTTTGTATTTCTCTAGATCAAATTCTGGAAAAAAGGTG 4095 |||| ||| |||||| | |||||| |||| ||| | ||||| |||||| ||||| ||| Sbjct 3087298 ACACCTGGGTATTCTGGGAGAAGTTTATATTACTCCAAATCAACTTCTGGGAAAAATGTG 3087357 Query 4096 TCACATTCAAAGTCTTGCATGATCCTAGTCACAAACAGTTTAAGATCGCATGGATAACTC 4155 |||| |||||| || ||||||||||| |||||||| ||| | || | || ||| | | || Sbjct 3087358 TCACTTTCAAACTCCTGCATGATCCTTGTCACAAAAAGTCTGAGGTGGCCTGGCTGATTC 3087417 Query 4156 ATAGCTTCTTTATACACAGAACTACCTCCAATTATCCAGACCATGTCTACTTTATTTGCT 4215 | ||||| | || ||||| || |||| |||||||| || ||||| |||||||||||| Sbjct 3087418 GTGGCTTCCTGGTAAACAGAGCTGCCTCTGATTATCCAAACTATGTCCACTTTATTTGCT 3087477 Query 4216 AATTCTGGCTGTTCGGTAAGTTTTAAAGCATCATCTAAACTCTTAGCTAAAAAATGAGCT 4275 | |||| ||||| ||| ||||||| ||||||| | ||| || || | |||||||||| Sbjct 3087478 AGCCCTGGTTGTTCAATAAATTTTAAAACATCATCCAGACTTTTGGCAAGAAAATGAGCT 3087537 Query 4276 CTATGTGGAAGCTCCTTTAGTTCCTTGCTGAGAACAACATTAATTCTGCCTTTTAAAGGC 4335 | ||||| | ||||| | || |||||||| | ||||||||| | |||||||| Sbjct 3087538 CCTTGTGGTGGTTCCTTGA----ATTACTGAGAACTATATTAATTCTATCCTTTAAAGGT 3087593 Query 4336 CGGTTCTTCTCAGGAATTGAGAACCAAGTCTTTTTACCCATAATCACTAAATTCTGTTTA 4395 | || ||||||||||| |||||||| || || ||||||||||||| | |||||||||| Sbjct 3087594 TGATTTTTCTCAGGAATGGAGAACCAGGTTTTCCTACCCATAATCACCAGATTCTGTTTA 3087653 Query 4396 TCTGGTACAGAAGATGTAGTAGTCATTCTTTGGAAATGTTTAAAATCATTCATAAGTCTT 4455 || ||| ||||| || || |||||||| ||||| | || | |||||| | || Sbjct 3087654 CCTTCTACTGAAGAGGTTGTGGTCATTCTCTGGAAGTACTTGAGCTCATTCCTGAGCAGA 3087713 Query 4456 GGCCAAGGCAAGTTACCTTGTTTGCCAATGCCCATGTTTTGAG 4498 ||||| || |||| || | ||||||||| |||| ||||||| Sbjct 3087714 GGCCAGGGTAAGTCTCCATTCTTGCCAATGACCATATTTTGAG 3087756 >seq154 Length=133307652 Score = 116 bits (128), Expect = 3e-21 Identities = 251/371 (68%), Gaps = 17/371 (5%) Strand=Plus/Plus Query 4058 GTTTGTATTTCTCTAGATCAAATTCTGGAAAAAAGGTGTCACATTCAAAGTCTTGCATGA 4117 |||| ||| || | | || ||||| || |||| |||| || |||| | || | |||| Sbjct 32703760 GTTTATATCTCCCCAAAT-AAATT---GAGAAAATGTGTTACTTTCAGATTCCAGTATGA 32703815 Query 4118 TCCTAGTCACAAACAGTTTAAGATCGCATGGATAACTCATAGCTTCTTTATACACAGAAC 4177 |||| ||||||| | | || | || ||| | | |||| ||| || || ||||||| Sbjct 32703816 TCCTTGTCACAA----TGTGAGGTGGCCTGGGTGATTCATCGCTCTCTTGTAAACAGAAC 32703871 Query 4178 TACCTCCAATTATCCAGACCATGTCTACTT-TATTTGCTAATTCTG-------GCTGTTC 4229 |||||| | |||| |||||| ||| || | ||||||||||||| | ||| Sbjct 32703872 TACCTCTGGCTGTCCAAACCATGGCTAATTATTTTTGCTAATTCTGTTTTTTTTTTTTTC 32703931 Query 4230 GGTAAGTTTTAAAGCATCATCTAAACTCTTAGCTAAAAAATGAGCTCTATGTGGAAGCTC 4289 | ||||||||| ||| ||| ||| || | | |||| | ||| |||| || Sbjct 32703932 AGCAAGTTTTAAGGCACTGTCTGGACTTTTGGGAAGGAAATAACCTCCTGGTGGTGCTTC 32703991 Query 4290 CTTTAGTTCCTTGCTGAGAACAACATTAATTCTGCCTTTTAAAGGCCGGTTCTTCTCAGG 4349 ||| ||||| || |||||||| | |||||||| | || ||||| | ||| |||| Sbjct 32703992 CTTGAGTTCTTTTCTGAGAACTATGTTAATTCTTTCCTTCAAAGGTTCATACTTTTCAGC 32704051 Query 4350 AATTGAGAACCAAGTCTTTTTACCCATAATCACTAAATTCTGTTTATCTGGTACAGAAGA 4409 ||| |||| ||| || || |||| || ||| | | ||||||| || || ||||| Sbjct 32704052 AATGGAGAGCCAGGT-TTCCCACCCCAAACCACCAGGTCCTGTTTACCTTCCACTGAAGA 32704110 Query 4410 TGTAGTAGTCA 4420 | || |||| Sbjct 32704111 GATTGTGGTCA 32704121 >seq31 Length=266435125 Score = 116 bits (128), Expect = 3e-21 Identities = 91/109 (83%), Gaps = 0/109 (0%) Strand=Plus/Minus Query 4290 CTTTAGTTCCTTGCTGAGAACAACATTAATTCTGCCTTTTAAAGGCCGGTTCTTCTCAGG 4349 ||| ||||| | |||||||| | |||||||||| | |||||||| || ||||||||||| Sbjct 21934641 CTTGAGTTCTCTACTGAGAACTATATTAATTCTGTCCTTTAAAGGTCGATTCTTCTCAGG 21934582 Query 4350 AATTGAGAACCAAGTCTTTTTACCCATAATCACTAAATTCTGTTTATCT 4398 ||| |||||||| || || ||||||||||||| | |||||||||| || Sbjct 21934581 AATGGAGAACCAGGTTTTCCTACCCATAATCACCAGATTCTGTTTACCT 21934533 Score = 111 bits (122), Expect = 1e-19 Identities = 94/116 (81%), Gaps = 0/116 (0%) Strand=Plus/Minus Query 4168 TACACAGAACTACCTCCAATTATCCAGACCATGTCTACTTTATTTGCTAATTCTGGCTGT 4227 || ||||| || ||||| | || |||||||||||| |||||| |||||| ||||| ||| Sbjct 21940768 TAGACAGAGCTGCCTCCGACTACCCAGACCATGTCCACTTTACTTGCTAGCTCTGGTTGT 21940709 Query 4228 TCGGTAAGTTTTAAAGCATCATCTAAACTCTTAGCTAAAAAATGAGCTCTATGTGG 4283 || |||||||||| |||||||| | ||| || || | ||||||||||| ||||| Sbjct 21940708 TCAATAAGTTTTAAGGCATCATCCAGACTTTTGGCAAGAAAATGAGCTCCTTGTGG 21940653 Score = 104 bits (114), Expect = 2e-17 Identities = 96/122 (79%), Gaps = 0/122 (0%) Strand=Plus/Minus Query 4056 AAGTTTGTATTTCTCTAGATCAAATTCTGGAAAAAAGGTGTCACATTCAAAGTCTTGCAT 4115 |||||| |||||||| | ||||| |||||| || || ||||||| |||||| || ||||| Sbjct 21943509 AAGTTTATATTTCTCCAAATCAATTTCTGGGAAGAATGTGTCACTTTCAAACTCCTGCAT 21943450 Query 4116 GATCCTAGTCACAAACAGTTTAAGATCGCATGGATAACTCATAGCTTCTTTATACACAGA 4175 |||||| |||||||| ||| | || | || ||| | | |||| ||||| || | ||| | Sbjct 21943449 GATCCTTGTCACAAAGAGTCTGAGGTGGCCTGGCTGATTCATGGCTTCCTTTAAAACAAA 21943390 Query 4176 AC 4177 || Sbjct 21943389 AC 21943388 >seq166 Length=122095297 Score = 114 bits (126), Expect = 9e-21 Identities = 165/231 (71%), Gaps = 4/231 (2%) Strand=Plus/Minus Query 26944 CATTGTGAACAATGGGAGTAACGCATGTGCAGCCTACAGTCACTAGCATCTTCTCTAGCC 27003 ||| | | ||||| | | |||||| |||||||| || ||| ||||||||||| | || Sbjct 26844169 CATGGCGGACAATAGAGGAAACGCAGGTGCAGCCCACGCCCACCAGCATCTTCTCCACCC 26844110 Query 27004 TAAA--TGAATTAGGGCAGGGTTGATGCCCTTTGCGCACCACTAGAATCTCTTGTTGGAT 27061 || |||| ||||| | | || | | || || || |||||||| ||||| Sbjct 26844109 GGAAAGTGAAG--GGGCACTTCTCAGGCTCCCTCTTCAGGACCAGGATCTCTTGCTGGAT 26844052 Query 27062 AGGGACTGAGTTCATGTGGTAGTCTACATTCCCATCAGCATTAACACATCCTAAGTAGCG 27121 | || || |||||||||| ||| | ||||| ||||| || ||||| | || ||| Sbjct 26844051 GAGAACAGAATTCATGTGGTGGTCCAACTTCCCCTCAGCGTTGACACAGCGCTGGTGGCG 26843992 Query 27122 ACACTTTGCTTCCCAAATCACAGAGGGATATCTATCTTGATCTTCATTGCG 27172 |||| ||| ||||| |||||||| ||||||||||| | || |||||||| Sbjct 26843991 GCACTGTGCCTCCCAGATCACAGAAGGATATCTATCAGGGTCCTCATTGCG 26843941 Score = 91.5 bits (100), Expect = 1e-13 Identities = 111/149 (74%), Gaps = 2/149 (1%) Strand=Plus/Plus Query 101753 GTGACATGAGCAATCATGCAAGTTAAAAGAGAATAGCTAGCAATGTTAAATGGCACTCCT 101812 |||| ||| ||||||||| | || | |||| |||||| |||||||| || ||||| || Sbjct 121921530 GTGATATGTGCAATCATGTAGGTCAGCAGAGCATAGCTGGCAATGTTGAAGGGCACACCC 121921589 Query 101813 AACCCCATATCAGCTGATCTTTGATACAGTTGACAGGAAAGCTTTCCAT-CACAGACATA 101871 | |||||||| |||| | || || || || || || |||| |||| ||| ||||| Sbjct 121921590 AGACCCATATCTCCTGACCGCTGGTAAAGCTGGCAAGACAGCTCCCCATTCACC-ACATA 121921648 Query 101872 AAATTGACTTAATACATGACAAGGCGGCA 101900 |||||||| | |||| ||||| |||| Sbjct 121921649 AAATTGACAGAGGGCATGGCAAGGAGGCA 121921677 Score = 84.2 bits (92), Expect = 2e-11 Identities = 91/121 (75%), Gaps = 0/121 (0%) Strand=Plus/Plus Query 102033 CTTTATATTCTGCTCCGAAATGCCTCCACTGAAATCCATACACAGGTCCAAGATCTCCTT 102092 |||| || |||||||| ||||| |||||||| |||||||| || || || || ||||||| Sbjct 121928290 CTTTGTAGTCTGCTCCAAAATGTCTCCACTGGAATCCATAAACTGGGCCCAGGTCTCCTT 121928349 Query 102093 CATCTCTGTCATAAAAACCAAGTTTATCTAAAAATGATCTAGATCCATTCGCATCCCAAA 102152 | | || | || | || || | | || ||||| || || ||||| |||||||||| Sbjct 121928350 CCTGTCGGGCAGAGAATCCCAAGCTGTCCAAAAAGTCTCGGGACCCATTGGCATCCCAAA 121928409 Query 102153 T 102153 | Sbjct 121928410 T 121928410 Score = 82.4 bits (90), Expect = 6e-11 Identities = 120/170 (71%), Gaps = 0/170 (0%) Strand=Plus/Plus Query 26948 GTGAACAATGGGAGTAACGCATGTGCAGCCTACAGTCACTAGCATCTTCTCTAGCCTAAA 27007 ||| || ||||| || ||||| |||||||| || | | ||||||||||| | ||| || Sbjct 26886330 GTGGACGATGGGCGTGACGCAAGTGCAGCCAACTTTTATGAGCATCTTCTCCAACCTGAA 26886389 Query 27008 TGAATTAGGGCAGGGTTGATGCCCTTTGCGCACCACTAGAATCTCTTGTTGGATAGGGAC 27067 ||||||| ||| || || | | || | || || || ||||| ||||| ||||| Sbjct 26886390 GGAATTAGAACAGCCCTGGGGCTCCCTCCGAAGGACCAGGATTTCTTGCTGGATGGGGAC 26886449 Query 27068 TGAGTTCATGTGGTAGTCTACATTCCCATCAGCATTAACACATCCTAAGT 27117 ||||||||| | |||| | | ||| | || || | ||| ||| ||| Sbjct 26886450 GGAGTTCATGGAGCCGTCTTCCTGCCCCTGGGCGTTGATACAGCCTGAGT 26886499 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 361246995374705