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_005179.1 Length=134721 Score E Sequences producing significant alignments: (Bits) Value seq297 340 2e-88 seq129 87.8 2e-12 seq117 84.2 2e-11 >seq297 Length=62275575 Score = 340 bits (376), Expect = 2e-88 Identities = 619/900 (69%), Gaps = 16/900 (2%) Strand=Plus/Minus Query 12841 ATTTGACATAACAGACATTTTTTGATATTCGCTAACTCTTTTTTCAAAAAAGTTTGTTTT 12900 ||||||||| || ||| | || || |||| |||| || ||||| ||||||||||| Sbjct 25392884 ATTTGACATTACTCCCATCCTCTGGTACTCGCCTACTCGCTTCTCAAAGAAGTTTGTTTT 25392825 Query 12901 TCCTTCTAACGAAATATTTTCCATAAAATCGAAAGGATTT-----TTCGAACAATAGTAT 12955 |||||||| |||||||| ||||| || || || |||||| || ||| ||| Sbjct 25392824 TCCTTCTAGTGAAATATTCTCCATGAAGTCAAATGGATTTTCTACTTTGAA-AAT----C 25392770 Query 12956 TTTTTACACCCTAATTCTAGTAACAATCTGTCAGCAACAAACTCTATGTACTGTTTCATT 13015 || ||| | || | || || | | ||||| || |||||||| |||||||| ||||| Sbjct 25392769 TTGTTAAAACCCAGCTCCAGCATAAGCCTGTCGGCCACAAACTCGATGTACTGCTTCATC 25392710 Query 13016 AAATCACAGTTCATTCCTATTAATTTTACAGGCATAGCTTCTGTTAAAAAGtttttttCT 13075 || || ||||| || || | || ||||||| || ||||| | || | | ||| Sbjct 25392709 AAGGTGCAATTCATCCCGATGAGCTTCACAGGCAGGGCCTCTGTGAGGAACTCCTGCTCT 25392650 Query 13076 ATATCAACTGCTTCGATAACTATGTCTCTTATTACGTTCTCTAATGGAGGATTTGATAGA 13135 || || || | | ||| ||| ||| ||| | | ||| | || | | || Sbjct 25392649 ATCCTGACCGCGTTGGTAATTATTTCTTTTACTCTCTGCTCCGAGGGCTTGTGTACCAGG 25392590 Query 13136 TGCTTAAACATCATACATGCAAAATCACAGTGCAATCCTTCATCTCTACTTATTAGCTCG 13195 ||||| ||||||| || ||||| |||||||||| || |||||||| || || || || Sbjct 25392589 TGCTTGAACATCAGGCAGGCAAAGTCACAGTGCAGACCCTCATCTCTGCTAATAAGTTCA 25392530 Query 13196 TTTGAAAATGTTAGACCCGGCATAAGCCCTCGTTTTTTAATCCAAAATATAGCAGCAAAC 13255 || |||||||| || |||||||| || || ||||| || | ||| ||||| | ||||| Sbjct 25392529 TTGGAAAATGTAAGGCCCGGCATCAGTCCCCGTTTCTTGAGCCAGAATATTGATGCAAAA 25392470 Query 13256 GAACCCGaaaaaaaTATTCCTTCAACTGCTGCAAACGCTATCAAC-CTTTCACCATACGT 13314 ||||| ||||| || |||||||| || || || || || | |||| | ||| |||||||| Sbjct 25392469 GAACCAGAAAAGAAGATTCCTTCTACCGCAGCGAAGGCCA-CAACTCGTTCTCCATACGT 25392411 Query 13315 ACTATTTTTACTCTCTATCCACTTTCTGGCCCAGTTTGCTTTTTGTTTAACGCAGTTCAT 13374 | | ||| | | ||||| |||||||| || || | || || || ||| Sbjct 25392410 AGCCTCTTTGTCCCCAATCCAACGCAAGGCCCAGTCAGCCTTCTTCTTCACACAAGGCAT 25392351 Query 13375 ATTTTCTATTGCGTTAAATAAATAAtttttttCCTTACTGTCTAAAATATAAGTATCTAT 13434 | || || ||||| || | ||| | | |||| || ||| ||| ||||| || || Sbjct 25392350 TGTCTCAATGGCGTTGAAGAGATATTCTCTTTCTTTGGAATCTTTAATGTAAGTGTCAAT 25392291 Query 13435 CAATAAGCTATACATTTCTGAATGAATATTTTCCATCGCTATTTGGAAACCATAAAAACA 13494 | | || |||||||| || || || || ||||| || |||||||| ||||| ||||| Sbjct 25392290 AAGGAGACTGTACATTTCGGAGTGTATGTTCTCCATGGCAATTTGGAAGCCATAGAAACA 25392231 Query 13495 TCTAGCCTCTGATACCTGAACTTCGGAGTAAAATCTTTCTGCTAAGTTTTCGTTAACTAT 13554 | ||||||| || |||||||| | ||||| || | ||||| || || ||||| Sbjct 25392230 GCGGGCCTCTGTGACTTGAACTTCTTGGCTAAATCGCTCCACCAAGTTCTCATTGACTAT 25392171 Query 13555 CCCGTCACTAGCAGCaaaaaaaGCAAGTATGTGCTTAATAAAttttttttCGTTT--TCT 13612 || ||||| || ||||| || || || | || ||||| | | | || | | | | Sbjct 25392170 GCCATCACTCGCCGCAAAGAAGGCCAGAACATGAGATATAAAATGTCTCTCATCTGGTTT 25392111 Query 13613 GACAACTTTAACCAATCTGGAAAATCTTTTGATAAATCTACCTCCTCAACGGTCCAAAAA 13672 | | ||| ||| | ||| ||| || || | || |||||||| | |||||||| Sbjct 25392110 CAGAGCTT--CCCAGTGCTGAATATCCTTGGAAAGGTCCACCTCCTCGGCAGTCCAAAAG 25392053 Query 13673 GAAGCAACAGCCTTCTTATACATCATCCATATATCCTTATAAACAATGGGAAACACAACG 13732 || || |||| ||||| |||||| ||| ||||| | || | |||||||| |||||| Sbjct 25392052 GAGGCCTCAGCTTTCTTGTACATCTGCCAGATATCATGGTATTCGATGGGAAAGACAACG 25391993 >seq129 Length=145729302 Score = 87.8 bits (96), Expect = 2e-12 Identities = 71/86 (83%), Gaps = 0/86 (0%) Strand=Plus/Plus Query 12980 AATCTGTCAGCAACAAACTCTATGTACTGTTTCATTAAATCACAGTTCATTCCTATTAAT 13039 ||||||||||| |||||||| || || |||||||| ||| ||||||||||||| || | Sbjct 76751108 AATCTGTCAGCTACAAACTCAATATATTGTTTCATCAAAACACAGTTCATTCCAATGAGG 76751167 Query 13040 TTTACAGGCATAGCTTCTGTTAAAAA 13065 ||||||| |||||||||||||| Sbjct 76751168 CCAACAGGCAAGGCTTCTGTTAAAAA 76751193 Score = 87.8 bits (96), Expect = 2e-12 Identities = 101/136 (74%), Gaps = 0/136 (0%) Strand=Plus/Plus Query 13173 CTTCATCTCTACTTATTAGCTCGTTTGAAAATGTTAGACCCGGCATAAGCCCTCGTTTTT 13232 ||||||| || || || || || |||||||| || || || ||||| || |||| || | Sbjct 76759204 CTTCATCCCTGCTGATCAGTTCATTTGAAAAAGTCAGCCCAGGCATGAGGCCTCTCTTCT 76759263 Query 13233 TAATCCAAAATATAGCAGCAAACGAACCCGaaaaaaaTATTCCTTCAACTGCTGCAAACG 13292 | | ||| |||||||||||||| || || || || || || ||||| || || || || | Sbjct 76759264 TTAGCCAGAATATAGCAGCAAATGATCCAGAGAAGAAAATCCCTTCTACAGCAGCGAAGG 76759323 Query 13293 CTATCAACCTTTCACC 13308 | | || ||||| || Sbjct 76759324 CCACCACTCTTTCCCC 76759339 Score = 84.2 bits (92), Expect = 2e-11 Identities = 66/79 (84%), Gaps = 0/79 (0%) Strand=Plus/Plus Query 12863 TGATATTCGCTAACTCTTTTTTCAAAAAAGTTTGTTTTTCCTTCTAACGAAATATTTTCC 12922 ||||| || ||||| ||| ||||| || |||||||| |||||||||||||| || ||| Sbjct 76750123 TGATACTCAGAAACTCGTTTCTCAAAGAAATTTGTTTTCCCTTCTAACGAAATGTTCTCC 76750182 Query 12923 ATAAAATCGAAAGGATTTT 12941 |||||||| || ||||||| Sbjct 76750183 ATAAAATCAAAGGGATTTT 76750201 >seq117 Length=147991367 Score = 84.2 bits (92), Expect = 2e-11 Identities = 79/101 (78%), Gaps = 0/101 (0%) Strand=Plus/Minus Query 12841 ATTTGACATAACAGACATTTTTTGATATTCGCTAACTCTTTTTTCAAAAAAGTTTGTTTT 12900 ||||||||| || ||| | || || |||| |||| || ||||| ||||||||||| Sbjct 43889476 ATTTGACATTACTCCCATCCTCTGGTACTCGCCTACTCGCTTCTCAAAGAAGTTTGTTTT 43889417 Query 12901 TCCTTCTAACGAAATATTTTCCATAAAATCGAAAGGATTTT 12941 |||||||| |||||||| ||||| || || || ||||||| Sbjct 43889416 TCCTTCTAGTGAAATATTCTCCATGAAGTCAAATGGATTTT 43889376 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 430977383768910