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_001461.1 Length=12573 Score E Sequences producing significant alignments: (Bits) Value seq219 244 8e-61 seq129 244 8e-61 seq166 235 4e-58 seq1 183 2e-42 seq31 179 3e-41 seq243 138 9e-29 seq312 123 2e-24 >seq219 Length=114033958 Score = 244 bits (270), Expect = 8e-61 Identities = 152/163 (93%), Gaps = 0/163 (0%) Strand=Plus/Plus Query 5021 AGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCCAGATACTGTGCTGAGTGTAATAGG 5080 |||||||||||||||||||||||||| |||||||||||||||||||| |||||||| ||| Sbjct 21032635 AGGAGGTTTGAAATGGACCGGGAACCCAAGAGTGCCAGATACTGTGCCGAGTGTAACAGG 21032694 Query 5081 CTGCATCCTGCTGAGGAAGGTGACTTTTGGGCAGAGTCGAGCATGTTGGGCCTCAAAATC 5140 ||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| ||| Sbjct 21032695 TTGCATCCTGCTGAGGAAGGAGACTTCTGGGCAGAGTCAAGCATGTTGGGCCTCAAGATC 21032754 Query 5141 ACCTACTTTGCGCTGATGGATGGAAAGGTGTATGATATCACAG 5183 ||||||||||| ||||||||||| ||||||||||| ||||||| Sbjct 21032755 ACCTACTTTGCACTGATGGATGGGAAGGTGTATGACATCACAG 21032797 Score = 118 bits (130), Expect = 9e-23 Identities = 74/80 (93%), Gaps = 0/80 (0%) Strand=Plus/Plus Query 5181 CAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAGAGTCCCTTGTC 5240 |||||||||||||||||||||||||||| |||||||||||||||||| |||| |||| | Sbjct 21032883 CAGAGTGGGCTGGATGCCAGCGTGTGGGCATCTCCCCAGATACCCACCGAGTTCCTTACC 21032942 Query 5241 ACATCTCATTTGGTTCACGG 5260 |||||||||||||||| ||| Sbjct 21032943 ACATCTCATTTGGTTCTCGG 21032962 >seq129 Length=145729302 Score = 244 bits (270), Expect = 8e-61 Identities = 152/163 (93%), Gaps = 0/163 (0%) Strand=Plus/Plus Query 5021 AGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCCAGATACTGTGCTGAGTGTAATAGG 5080 |||||||||||||||||||||||||| |||||||||||||||||||| |||||||| ||| Sbjct 3240837 AGGAGGTTTGAAATGGACCGGGAACCCAAGAGTGCCAGATACTGTGCCGAGTGTAACAGG 3240896 Query 5081 CTGCATCCTGCTGAGGAAGGTGACTTTTGGGCAGAGTCGAGCATGTTGGGCCTCAAAATC 5140 ||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| ||| Sbjct 3240897 TTGCATCCTGCTGAGGAAGGAGACTTCTGGGCAGAGTCAAGCATGTTGGGCCTCAAGATC 3240956 Query 5141 ACCTACTTTGCGCTGATGGATGGAAAGGTGTATGATATCACAG 5183 ||||||||||| ||||||||||| ||||||||||| ||||||| Sbjct 3240957 ACCTACTTTGCACTGATGGATGGGAAGGTGTATGACATCACAG 3240999 Score = 118 bits (130), Expect = 9e-23 Identities = 74/80 (93%), Gaps = 0/80 (0%) Strand=Plus/Plus Query 5181 CAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAGAGTCCCTTGTC 5240 |||||||||||||||||||||||||||| |||||||||||||||||| |||| |||| | Sbjct 3241085 CAGAGTGGGCTGGATGCCAGCGTGTGGGCATCTCCCCAGATACCCACCGAGTTCCTTACC 3241144 Query 5241 ACATCTCATTTGGTTCACGG 5260 |||||||||||||||| ||| Sbjct 3241145 ACATCTCATTTGGTTCTCGG 3241164 >seq166 Length=122095297 Score = 235 bits (260), Expect = 4e-58 Identities = 208/263 (79%), Gaps = 14/263 (5%) Strand=Plus/Plus Query 4994 ATGTGCAGCCGATGCCAGGGAAAGCATAGGAGGTTTGAAATGGACCGGGAACCTAAGAGT 5053 || ||||| ||||||| |||||| ||||| ||||||||| |||| ||||||| |||||| Sbjct 50795659 ATATGCAGTAGATGCCAAGGAAAGAATAGGGGGTTTGAAAAGGACTGGGAACCCAAGAGT 50795718 Query 5054 GCCAGATACTGTGCTGAGTGTAATAGGCTGCATCCTGCTGAGGAAGGTGACTTTTGGGCA 5113 ||||||||||||||||| ||||| ||||| ||||||||||||||| | | ||| |||| | Sbjct 50795719 GCCAGATACTGTGCTGACTGTAACAGGCTTCATCCTGCTGAGGAAAGAGTCTTCTGGGTA 50795778 Query 5114 GAGTCGAGCATGTTGGGCCTCAAAATCACCTACTTTGCGCTGATGGATGGAAAGGTGTAT 5173 ||||| || |||||||||||||| ||| ||| ||||| ||||| || ||| ||||||| Sbjct 50795779 GAGTCAAGGATGTTGGGCCTCAAGATCTCCTGTTTTGCACTGATCGACTGAACGGTGTAT 50795838 Query 5174 GATATCACAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAGAGTC 5233 | |||||||||||| ||||||| ||| |||||||| ||||| | Sbjct 50795839 GTCATCACAGAGTGGCCTGGATGTCAG--------------TCCAGATACTCACAGGATT 50795884 Query 5234 CCTTGTCACATCTCATTTGGTTC 5256 |||| ||| ||||||||| ||| Sbjct 50795885 CCTTACCACTTCTCATTTGTTTC 50795907 >seq1 Length=282763074 Score = 183 bits (202), Expect = 2e-42 Identities = 202/266 (76%), Gaps = 5/266 (2%) Strand=Plus/Minus Query 4991 GGTATGTGCAGCCGATGCCAGGGAAAGCATAGGAGGTTTGAAATGGACCGGGAACCTAAG 5050 || ||||| |||| || | | |||||| | ||| | |||| || |||| |||| ||||| Sbjct 153043108 GGCATGTGTAGCCAATACAAAGGAAAGTAC-GGAAGATTGAGATAGACCAGGAAACTAAG 153043050 Query 5051 AGTGCCAGATACTGTGCTGAGTGTAATAGGCTGCATCCTGCTGAGGAAGGTGACTTTTGG 5110 || |||||||||| |||| |||||||||||| | ||||||||||||||| ||||| | Sbjct 153043049 AGATCCAGATACTGCGCTGTGTGTAATAGGCTACGTCCTGCTGAGGAAGGAGACTT---G 153042993 Query 5111 GCAGAGTCGAGCATGTTGGGCCTCAAAATCACCTACTTTGCGCTGATGGATGGAAAGGTG 5170 | || || ||| |||||| ||||||| ||| ||| || ||||||||||| ||| Sbjct 153042992 GGTGATTCAAGCCTGTTGGACCTCAAAGTCAGTTACACTGTACTGATGGATGGTAAGAGC 153042933 Query 5171 TATGATATCACAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAGA 5230 ||||| |||||||||||||| ||| ||||| || | || || | ||||||| || Sbjct 153042932 TATGACATCACAGAGTGGGCGGGACTCCAGCATGAAGCAACCT-CTTGGATACCCGTGGA 153042874 Query 5231 GTCCCTTGTCACATCTCATTTGGTTC 5256 || || |||||| |||| |||| || Sbjct 153042873 GTTCCACGTCACACCTCACTTGGCTC 153042848 >seq31 Length=266435125 Score = 179 bits (198), Expect = 3e-41 Identities = 198/259 (76%), Gaps = 6/259 (2%) Strand=Plus/Plus Query 5000 AGCCGATGCCAGGGAAAGCATAGGAGGTTTGAAATGGACCGGGAACCTAAGA--GTGCCA 5057 ||| ||||| |||||||| |||||| ||||| | |||| ||||||||| | | ||| Sbjct 31414380 AGCAGATGCAAGGGAAAGTGTAGGAGATTTGAGTTAGACCAGGAACCTAACACAGGGCCT 31414439 Query 5058 GATACTGTGCTGAGTGTAATAGGCTGCATCCTGCTGAGGAAGGTGACTTTTGGGCAGAGT 5117 |||| | |||||||||| |||||||||| ||| |||||||||| |||| |||||| | Sbjct 31414440 GATATTCTGCTGAGTGTGATAGGCTGCACCCTACTGAGGAAGGAGACTCA--GGCAGATT 31414497 Query 5118 CGAGCATGTTGGGCCTCAAAATCACCTACTTTGCGCTGATGGATGGAAAGGTGTATGATA 5177 | |||||||| ||||||| |||| |||||||| | || ||||| | ||||| | Sbjct 31414498 CATGCATGTTGAGCCTCAAGATCAGTTACTTTGCTCCAGCAGACAGAAAGAT-TATGACA 31414556 Query 5178 TCACAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAGAGTCCCTT 5237 |||||||||||| ||| |||| || | | ||||| |||||||||||||| || | Sbjct 31414557 TCACAGAGTGGGTGAGATTCCAGTATGCGAGCCTCTCCTG-GATACCCACAGAGTTCCAT 31414615 Query 5238 GTCACATCTCATTTGGTTC 5256 ||| |||||| |||||| Sbjct 31414616 ATCATATCTCAGGTGGTTC 31414634 >seq243 Length=111246239 Score = 138 bits (152), Expect = 9e-29 Identities = 190/261 (73%), Gaps = 6/261 (2%) Strand=Plus/Minus Query 4997 TGCAGCCGATGCCAGGGAAAGCATAGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCC 5056 || ||| |||||||| ||||| ||| || | || | | || |||||||||| || Sbjct 103491348 TGTAGCTGATGCCAG--AAAGCCTAGCGGGCTCGAGGTTGCCCAAGAACCTAAGAATGTG 103491291 Query 5057 AGATACTGTGCTGAGTGTAATAGGCTGCATCCTGCTGAGGAAGGTGACTTTTGGGCAGAG 5116 | ||| |||||||| ||||||||| ||||| ||||||| || | | |||| Sbjct 103491290 GTCT-CTGAGCTGAGTGCAATAGGCTGGGCTCTGCTCAGGAAGGAGAACCTGGATCAGAA 103491232 Query 5117 TCGA-GCATGTTGGGCCTCAAAATCACCTACTTTGCGCTGATGGATGGAAAGGTGTATGA 5175 | | || || || || | | ||||| |||| |||| |||||| |||||||| | ||| Sbjct 103491231 ACTAAGCCTGCTGAACCCCGAGATCACTCACTTGGCGCAGATGGACGGAAAGGTCTGTGA 103491172 Query 5176 TATCACAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAGAGTCCC 5235 |||| ||||| |||||||||||||| ||||||||||||| || |||| |||||| || Sbjct 103491171 CATCATAGAGTAGGCTGGATGCCAGCACGTGGGAATCTCCCAAGTTACC--CAGAGTTCC 103491114 Query 5236 TTGTCACATCTCATTTGGTTC 5256 | || ||||||| |||| Sbjct 103491113 CTATCGAGCCTCATTTAGTTC 103491093 >seq312 Length=159970021 Score = 123 bits (136), Expect = 2e-24 Identities = 128/165 (78%), Gaps = 2/165 (1%) Strand=Plus/Plus Query 5091 CTGAGGAAGGTGACTTTTGGGCAGAGTCGAGCATGTTGGGCCTCAAAATCACCTACTTTG 5150 |||| |||| | |||||||||||||| |||||||||||| |||| | |||||| | Sbjct 99351606 CTGAAAAAGGAGGCTTTTGGGCAGAGTT-AGCATGTTGGGC-TCAAGGTACCCTACTCCG 99351663 Query 5151 CGCTGATGGATGGAAAGGTGTATGATATCACAGAGTGGGCTGGATGCCAGCGTGTGGGAA 5210 | |||||| ||| |||| | || | |||| || |||| ||||| | | ||||||||| Sbjct 99351664 CACTGATGAATGAAAAGCTCTACGGCATCAGGGAATGGGTTGGATTCTACTGTGTGGGAA 99351723 Query 5211 TCTCCCCAGATACCCACAGAGTCCCTTGTCACATCTCATTTGGTT 5255 |||||| ||| || | ||||| |||| |||||| |||||||||| Sbjct 99351724 TCTCCCTAGACACTGAGAGAGTTCCTTATCACATTTCATTTGGTT 99351768 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 40117968977940