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_006639.1 Length=24748 Score E Sequences producing significant alignments: (Bits) Value seq31 167 4e-37 seq271 163 4e-36 seq80 156 7e-34 >seq31 Length=266435125 Score = 167 bits (184), Expect = 4e-37 Identities = 185/244 (76%), Gaps = 2/244 (1%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTT-CGAGATAACATCCAAGGAATCACCAAGCCAGCTA 16490 ||| |||||||| |||| | |||| || ||||||||||| || ||||||||||| || | Sbjct 198412277 CGCCAAGCGTCACCGCA-AGGTCTTGCGGGATAACATCCAGGGGATCACCAAGCCCGCCA 198412219 Query 16491 TCCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGA 16550 ||||||| || ||||| ||||| || |||||||| |||| || | ||||||| |||| Sbjct 198412218 TCCGTCGCCTAGCTCGGCGTGGCGGTGTCAAGCGCATCTCCGGCCTCATCTATGAGGAGA 198412159 Query 16551 TTCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCG 16610 |||| ||| ||||| | ||||| ||| ||| |||| || || || ||| || | Sbjct 198412158 CCCGTGGTGTACTGAAGGTGTTCCTGGAGAACGTGATCCGCGACGCAGTCACCTACACTG 198412099 Query 16611 AGCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAG 16670 ||||||| || || ||||| |||||| |||||||| | || || || | || || || | Sbjct 198412098 AGCACGCCAAGCGCAAGACCGTCACCGCCATGGATGTGGTGTACGCTCTCAAGCGCCAGG 198412039 Query 16671 GCCG 16674 |||| Sbjct 198412038 GCCG 198412035 >seq271 Length=90843779 Score = 163 bits (180), Expect = 4e-36 Identities = 197/268 (74%), Gaps = 0/268 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||||||||||||||||| | ||| || || |||||||| || ||||| ||||| || || Sbjct 43821492 CGCTAAGCGTCATCGCAAAGTTCTGCGCGACAACATCCAGGGCATCACTAAGCCCGCCAT 43821433 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| || ||||| || || || ||||| ||||| |||| || | |||| || |||| Sbjct 43821432 CCGCCGCCTGGCCCGGCGCGGAGGAGTGAAGCGCATCTCCGGTCTCATCTACGAGGAGAC 43821373 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 || | ||| ||||| | ||||| ||| ||| |||| || || || ||| || || Sbjct 43821372 CCGCGGTGTGCTGAAGGTGTTCCTGGAGAACGTGATCCGCGACGCGGTCACCTACACGGA 43821313 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| ||||| |||||||| | ||||| || | ||||| || || Sbjct 43821312 GCACGCCAAGCGCAAGACCGTCACTGCCATGGATGTGGTCTACGCGCTCAAACGGCAGGG 43821253 Query 16672 CCGTAAGATTTATGGTTTTGGAAGTTAA 16699 ||| | | || || ||||| ||||| Sbjct 43821252 CCGCACCCTCTACGGCTTTGGCGGTTAA 43821225 Score = 156 bits (172), Expect = 7e-34 Identities = 191/261 (73%), Gaps = 0/261 (0%) Strand=Plus/Plus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||||||||| || |||| | || || || |||||||| || ||||||||||| || || Sbjct 44522207 CGCTAAGCGCCACCGCAAAGTCCTGCGCGACAACATCCAGGGCATCACCAAGCCCGCCAT 44522266 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 || || ||||| || || || ||||| ||||| |||| || | |||| || |||| Sbjct 44522267 TCGCCGCCTGGCCCGGCGCGGAGGAGTGAAGCGCATCTCCGGCCTCATCTACGAGGAGAC 44522326 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 || | ||| ||||| | ||||| ||| ||| |||| || || || ||| || || Sbjct 44522327 CCGCGGTGTGCTGAAGGTGTTCCTGGAGAACGTGATCCGCGACGCCGTCACCTACACGGA 44522386 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| |||||| ||||||| | ||||| ||| | ||||| || || Sbjct 44522387 GCACGCCAAGCGCAAGACCGTCACCGCCATGGACGTGGTCTACGCACTCAAACGCCAGGG 44522446 Query 16672 CCGTAAGATTTATGGTTTTGG 16692 ||||| | ||||| || || Sbjct 44522447 CCGTACCCTCTATGGCTTCGG 44522467 Score = 149 bits (164), Expect = 1e-31 Identities = 199/277 (72%), Gaps = 0/277 (0%) Strand=Plus/Plus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||||||||||||||||| | || || || || ||||| || ||||| ||||| || || Sbjct 43673338 CGCTAAGCGTCATCGCAAAGTCCTGCGCGACAATATCCAGGGCATCACAAAGCCCGCCAT 43673397 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| || ||||| || || || ||||| ||||| |||| || | |||| || || | Sbjct 43673398 CCGCCGCCTGGCCCGGCGCGGAGGAGTGAAGCGCATCTCCGGCCTCATCTACGAGGAAAC 43673457 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 || | ||| ||||| | ||||| ||| ||| |||| || || || ||| || || Sbjct 43673458 CCGCGGTGTGCTGAAGGTGTTCCTGGAGAACGTGATCCGCGACGCCGTCACCTACACGGA 43673517 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| ||||| ||||||| | ||||| || | ||||| || || Sbjct 43673518 GCACGCCAAGCGCAAGACGGTCACTGCCATGGACGTGGTCTACGCGCTTAAACGCCAGGG 43673577 Query 16672 CCGTAAGATTTATGGTTTTGGAAGTTAATCTTCTAAT 16708 ||| | | || || || || ||||| || ||||| Sbjct 43673578 CCGCACACTCTACGGCTTCGGTGGTTAAACTGCTAAT 43673614 Score = 147 bits (162), Expect = 3e-31 Identities = 189/261 (72%), Gaps = 0/261 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||||||||| || |||| | || || || |||||||| || ||||||||||| || || Sbjct 44815951 CGCTAAGCGCCACCGCAAAGTCCTGCGCGACAACATCCAGGGCATCACCAAGCCCGCCAT 44815892 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| || ||||| || || || ||||| ||||| |||| || | |||| || |||| Sbjct 44815891 CCGCCGCCTGGCCCGGCGGGGAGGAGTGAAGCGCATCTCCGGCCTCATCTACGAGGAGAC 44815832 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 || | ||| ||||| | ||||| | | ||| |||| || || || ||| || || Sbjct 44815831 CCGCGGTGTGCTGAAGGTGTTCCTGGAAAACGTGATCCGCGACGCCGTCACCTACACGGA 44815772 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| |||||| ||||||| | ||||| || | || || || || Sbjct 44815771 GCACGCCAAGCGCAAGACCGTCACCGCCATGGACGTGGTCTACGCGCTCAAGCGCCAGGG 44815712 Query 16672 CCGTAAGATTTATGGTTTTGG 16692 ||||| | ||||| || || Sbjct 44815711 CCGTACCCTCTATGGCTTCGG 44815691 Score = 100 bits (110), Expect = 4e-17 Identities = 183/263 (70%), Gaps = 10/263 (4%) Strand=Plus/Minus Query 16433 GCTAAGCGTC-ATCGCAGATCTCTT-CGAGATAACATCCAAGGAATCACCAAGCCAGCTA 16490 |||||||| | | |||| | |||| || || || ||||| || ||||||||||| || | Sbjct 43621611 GCTAAGCGCCCACCGCAAAG-TCTTGCGCGACAATATCCAGGGCATCACCAAGCCCGCCA 43621553 Query 16491 TCCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGA 16550 |||| || |||||||| | || || || ||||| ||||||| | |||| | |||| Sbjct 43621552 TCCGCCGCCTGGCTCGGTGCGGAGGGGTGAAGCGCATCTCTGGCCTCATCTACAAGGAGA 43621493 Query 16551 TTCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATAC-C 16609 || | | | ||||| | ||||| ||| ||| |||| || || || ||| || Sbjct 43621492 CCCGCGGTATGCTGAAGGTGTTCCTGGAGAACGTGATCCGCGACGCCGTCACCTACACTT 43621433 Query 16610 GAGCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAA 16669 ||||| || || || ||||||| |||||||| | |||||| | | || || || Sbjct 43621432 GAGCAAGCCAATCGCAAGACTG------CCATGGATGTGGTCTATACTCTCAAGCGCCAG 43621379 Query 16670 GGCCGTAAGATTTATGGTTTTGG 16692 ||||| | | ||||| || || Sbjct 43621378 GGCCGCACTCTCTATGGCTTCGG 43621356 >seq80 Length=184226339 Score = 156 bits (172), Expect = 7e-34 Identities = 191/261 (73%), Gaps = 0/261 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| ||||||| ||| ||||| |||||||| || || |||||||| ||||| Sbjct 170763872 CGCCAAGCGACATCGCAAGGTTCTCCGAGACAACATCCAGGGCATTACCAAGCCCGCTAT 170763813 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| ||| ||||||| || || || ||||||||| |||| || | |||| || |||| Sbjct 170763812 CCGGCGTTTGGCTCGGCGCGGCGGTGTCAAGCGTATCTCGGGTCTTATCTACGAGGAGAC 170763753 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 ||| | || ||||| | ||||| | | || || | |||||| || ||| ||||| Sbjct 170763752 TCGCGGCGTCCTGAAGGTTTTCCTTGAAAATGTGATTCGCGATGCTGTCACCTACACCGA 170763693 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| ||||| | ||||| | || ||||| | || || || || Sbjct 170763692 GCACGCCAAGCGCAAGACGGTCACGGCTATGGACGTGGTGTATGCGCTCAAGCGCCAGGG 170763633 Query 16672 CCGTAAGATTTATGGTTTTGG 16692 ||| | | | ||||| || || Sbjct 170763632 CCGCACGCTCTATGGCTTCGG 170763612 Score = 150 bits (166), Expect = 3e-32 Identities = 190/261 (73%), Gaps = 0/261 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| || |||| ||| |||||||||||||| || || |||||||| ||||| Sbjct 170092804 CGCCAAGCGACACCGCAAGGTTCTCCGAGATAACATCCAGGGCATTACCAAGCCCGCTAT 170092745 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| ||| ||||||| || || || ||||||||| |||| || | |||| || |||| Sbjct 170092744 CCGGCGTTTGGCTCGGCGCGGCGGTGTCAAGCGTATCTCAGGTCTTATCTACGAGGAGAC 170092685 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 ||| | || ||||| | ||||| | | || || | |||||| || ||| ||||| Sbjct 170092684 TCGCGGCGTCCTGAAGGTTTTCCTTGAAAATGTGATTCGCGATGCTGTCACCTACACCGA 170092625 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| ||||| | ||||| | || || || | || || || || Sbjct 170092624 GCACGCCAAGCGCAAGACGGTCACGGCTATGGACGTGGTGTACGCGCTCAAGCGCCAGGG 170092565 Query 16672 CCGTAAGATTTATGGTTTTGG 16692 ||| | | | ||||| || || Sbjct 170092564 CCGCACGCTCTATGGCTTCGG 170092544 Score = 150 bits (166), Expect = 3e-32 Identities = 190/261 (73%), Gaps = 0/261 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| || |||| ||| |||||||||||||| || || |||||||| ||||| Sbjct 170117281 CGCCAAGCGACACCGCAAGGTTCTCCGAGATAACATCCAGGGCATTACCAAGCCCGCTAT 170117222 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| ||| ||||||| || || || ||||||||| |||| || | |||| || |||| Sbjct 170117221 CCGGCGTTTGGCTCGGCGCGGCGGTGTCAAGCGTATCTCAGGTCTTATCTACGAGGAGAC 170117162 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 ||| | || ||||| | ||||| | | || || | |||||| || ||| ||||| Sbjct 170117161 TCGCGGCGTCCTGAAGGTTTTCCTTGAAAATGTGATTCGCGATGCTGTCACCTACACCGA 170117102 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| ||||| | ||||| | || || || | || || || || Sbjct 170117101 GCACGCCAAGCGCAAGACGGTCACGGCTATGGACGTGGTGTACGCGCTCAAGCGCCAGGG 170117042 Query 16672 CCGTAAGATTTATGGTTTTGG 16692 ||| | | | ||||| || || Sbjct 170117041 CCGCACGCTCTATGGCTTCGG 170117021 Score = 150 bits (166), Expect = 3e-32 Identities = 190/261 (73%), Gaps = 0/261 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| || |||| ||| |||||||||||||| || || |||||||| ||||| Sbjct 170145218 CGCCAAGCGACACCGCAAGGTTCTCCGAGATAACATCCAGGGCATTACCAAGCCCGCTAT 170145159 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| ||| ||||||| || || || ||||||||| |||| || | |||| || |||| Sbjct 170145158 CCGGCGTTTGGCTCGGCGCGGCGGTGTCAAGCGTATCTCAGGTCTTATCTACGAGGAGAC 170145099 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 ||| | || ||||| | ||||| | | || || | |||||| || ||| ||||| Sbjct 170145098 TCGCGGCGTCCTGAAGGTTTTCCTTGAAAATGTGATTCGCGATGCTGTCACCTACACCGA 170145039 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| ||||| | ||||| | || || || | || || || || Sbjct 170145038 GCACGCCAAGCGCAAGACGGTCACGGCTATGGACGTGGTGTACGCGCTCAAGCGCCAGGG 170144979 Query 16672 CCGTAAGATTTATGGTTTTGG 16692 ||| | | | ||||| || || Sbjct 170144978 CCGCACGCTCTATGGCTTCGG 170144958 Score = 150 bits (166), Expect = 3e-32 Identities = 190/261 (73%), Gaps = 0/261 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| || |||| ||| |||||||||||||| || || |||||||| ||||| Sbjct 170182981 CGCCAAGCGACACCGCAAGGTTCTCCGAGATAACATCCAGGGCATTACCAAGCCCGCTAT 170182922 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| ||| ||||||| || || || ||||||||| |||| || | |||| || |||| Sbjct 170182921 CCGGCGTTTGGCTCGGCGCGGCGGTGTCAAGCGTATCTCAGGTCTTATCTACGAGGAGAC 170182862 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 ||| | || ||||| | ||||| | | || || | |||||| || ||| ||||| Sbjct 170182861 TCGCGGCGTCCTGAAGGTTTTCCTTGAAAATGTGATTCGCGATGCTGTCACCTACACCGA 170182802 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| ||||| | ||||| | || || || | || || || || Sbjct 170182801 GCACGCCAAGCGCAAGACGGTCACGGCTATGGACGTGGTGTACGCGCTCAAGCGCCAGGG 170182742 Query 16672 CCGTAAGATTTATGGTTTTGG 16692 ||| | | | ||||| || || Sbjct 170182741 CCGCACGCTCTATGGCTTCGG 170182721 Score = 150 bits (166), Expect = 3e-32 Identities = 190/261 (73%), Gaps = 0/261 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| || |||| ||| |||||||||||||| || || |||||||| ||||| Sbjct 170800886 CGCCAAGCGACACCGCAAGGTTCTCCGAGATAACATCCAGGGCATTACCAAGCCCGCTAT 170800827 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| ||| ||||||| || || || ||||||||| |||| || | |||| || |||| Sbjct 170800826 CCGGCGTTTGGCTCGGCGCGGCGGTGTCAAGCGTATCTCAGGTCTTATCTACGAGGAGAC 170800767 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 ||| | || ||||| | ||||| | | || || | |||||| || ||| ||||| Sbjct 170800766 TCGCGGCGTCCTGAAGGTTTTCCTTGAAAATGTGATTCGCGATGCTGTCACCTACACCGA 170800707 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| ||||| | ||||| | || || || | || || || || Sbjct 170800706 GCACGCCAAGCGCAAGACGGTCACGGCTATGGACGTGGTGTACGCGCTCAAGCGCCAGGG 170800647 Query 16672 CCGTAAGATTTATGGTTTTGG 16692 ||| | | | ||||| || || Sbjct 170800646 CCGCACGCTCTATGGCTTCGG 170800626 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 79074326836815