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_001731.1 Length=190289 Score E Sequences producing significant alignments: (Bits) Value seq154 194 2e-44 seq31 102 1e-16 seq301 100 3e-16 >seq154 Length=133307652 Score = 194 bits (214), Expect = 2e-44 Identities = 245/337 (73%), Gaps = 0/337 (0%) Strand=Plus/Minus Query 83057 AGCAGGGCCTCGATGTCGGGCTCCACGGCCAGGGTCTGGCAGCGGTGGCTGTACCTGCGC 83116 |||||||| || || ||||| || | | | | ||| | |||| |||||| |||||| Sbjct 117118293 AGCAGGGCTTCTATATCGGGTTCGATGTCGATGGTGCGAAAGCGCCTGCTGTATCTGCGC 117118234 Query 83117 ACGGGCGTGCCGTCAGCACCCACCAAGAACTTCTCGAAGTTCCAGGCCACGTCGTTGCGG 83176 || || ||||| | ||| |||| ||||||||| |||||||||| | |||||||||| Sbjct 117118233 ACTGGAACACCGTCTGGACCTACCAGGAACTTCTCAAAGTTCCAGGAAATGTCGTTGCGG 117118174 Query 83177 CACACTGGAGACCAGGCAATGAGCTGGGGGTCGCTCACGAGCGTGCTCATGTCGTCGCTA 83236 ||||| || ||||| ||| || ||||||| ||| ||||| | ||||| || Sbjct 117118173 CACACCGGGGACCAAATGATGTACTTGGGGTCGGTCATGAGCGCAGTGGGATCGTCACTG 117118114 Query 83237 GGCGCCGGCAGGGCCTCTCGTAGGAAGGCGAAGAGCGGATGTGCCCTTGCACCGTTGACC 83296 || || |||| ||| | || ||||||| |||||||| || ||| | |||| || ||| Sbjct 117118113 GGTGCTGGCAAGGCATTCCGCAGGAAGGTAAAGAGCGGGTGAGCCTTCTCACCATTCACC 117118054 Query 83297 TCGCACTTCTCGAAGAGCATAAAGTTCGGCTCGAAGCCGTTCCCAGGACGGACGTGCTTC 83356 ||||||||||| || | ||||||| |||||||| || || || ||||| | ||| Sbjct 117118053 TCGCACTTCTCAAACAATGTAAAGTTGGGCTCGAACCCACCACCGGGTCGGACATACTTG 117117994 Query 83357 AGGGAAGGCAAGATCTCGGCATTCTGGGCGTTTTCCT 83393 |||||| || ||||| |||||| | | || |||| Sbjct 117117993 AGGGAATTCAGAATCTCTTCATTCTTGCCATTCTCCT 117117957 Score = 159 bits (176), Expect = 4e-34 Identities = 160/208 (77%), Gaps = 0/208 (0%) Strand=Plus/Minus Query 83391 CCTGGTGACCGAACTGGTTACACGGGAACCCAAGCACTACCAGCCCCCGAGCTCCTAGGC 83450 |||| || |||||||| || |||||||| || ||||| ||||| || |||| || || | Sbjct 117117742 CCTGATGTCCGAACTGATTGCACGGGAAACCGAGCACCACCAGGCCACGAGGCCCCAGAC 117117683 Query 83451 GCCGCTGCAGCTCGTTCATCTGAGTGTACTCCCGGACCGTGCTACCTCAGAGGGACGCTA 83510 || |||||| || ||||| | ||||| |||||| |||| | |||||||||||||| | Sbjct 117117682 GCTTCTGCAGATCATTCATTTCGGTGTAGTCCCGGGTCGTGGTGCCTCAGAGGGACGCGA 117117623 Query 83511 CGTTCTCGATGAGCAAGACCCGGCCCCGTAAGAAGCCTAAGCTCACAGGTTCTCCTCCGG 83570 | ||||| ||||||| ||| |||||| | | |||| | |||||| || || || || | Sbjct 117117622 CATTCTCAATGAGCAGCACCTTGCCCCGCAGGGAGCCCAGGCTCACGGGCTCCCCGCCCG 117117563 Query 83571 TAATCGGGCGTGCTGAGAAGGCGTACAC 83598 | |||||| || |||||||| ||||| Sbjct 117117562 CCAGCGGGCGCGCGGAGAAGGCATACAC 117117535 >seq31 Length=266435125 Score = 102 bits (112), Expect = 1e-16 Identities = 268/404 (66%), Gaps = 9/404 (2%) Strand=Plus/Plus Query 83141 AAGAACTTCTCGAAGTTCCAGGCCACGTCGTTGCGGCACACTGGAGACCAGGCAATGAGC 83200 ||||||||||| |||||||||| ||| || || |||||||||| | | |||||| Sbjct 116264145 AAGAACTTCTCAAAGTTCCAGGACACATCTGAGCAGCACACTGGACTCAATATGATGAGC 116264204 Query 83201 TGGGGGTCGCTCACGAGCGTGCTCATGTCGTCGCTAGGCGCCGGCAG--GGCCTCTCGTA 83258 | ||| | ||| ||| | | |||||| ||| ||||| | || ||| Sbjct 116264205 TTGGGATTAGTCATGAGGGAGAATGGGTCGTCATAAGGGTAGGGCAGCTTGTCTTTCG-- 116264262 Query 83259 GGAAGGCGAAGAGCGGATG-TGCCCTTGCACCGTTGACCTCGCACTTCTCGAAGAGCATA 83317 || |||| |||| ||||| || ||| || ||||| || |||| | | || | Sbjct 116264263 GGTAGGCAAAGACAGGATGCTGATTCTGC-CCATTGACATCAAACTTTTGGTTAAGACTG 116264321 Query 83318 AAGTTCGGCTCGAAGCCGTTCCCAGGACGGACGTGCTTCAGGGAAGGCAAGATCTCGGCA 83377 ||| | |||| ||| || ||| || ||||| | ||| ||| || |||||| || Sbjct 116264322 AAGGTGGGCTGGAACCCACCCCCGGGGCGGACATACTTGAGGCTGTTCAGGATCTCCTCA 116264381 Query 83378 TTCTGGGCGTTTTCCTGGTGACCGAACTGGTTACACGGGAACCCAAGCACTACCAGCCCC 83437 ||||| ||| ||||| || || |||||||| || ||||| || || || || || | | Sbjct 116264382 TTCTGACAGTTCTCCTGATGTCCAAACTGGTTGCAAGGGAAGCCGAGAACCACTAGGCAC 116264441 Query 83438 CGAGCTCCTAGGCGCCGCTGCAGCTCGTTCATCTGAGTGTACTCCCGGACCGTGCTACCT 83497 | | | | | ||||| ||| || | ||| ||||| ||| || || | ||| Sbjct 116264442 CTGG---GAAAGTGATACTGCAACTCATTGAGCTGGGTGTAGTCCTGGGTAGTTGTTCCT 116264498 Query 83498 CAGAGGGACGCTACGTTCTCGATGAGCAAGACCCGGCCCCGTAA 83541 ||||| || | || ||||| || |||| | ||| ||| || || Sbjct 116264499 CAGAGCGATGTCACATTCTCAATCAGCATGGCCCTGCCTCGGAA 116264542 >seq301 Length=56205956 Score = 100 bits (110), Expect = 3e-16 Identities = 186/265 (70%), Gaps = 6/265 (2%) Strand=Plus/Plus Query 50410 GCACCTGCGCAAGATGTACG-GCGCAAGCAGGTCTATCTACAACTTCGCTGTGCGTATGC 50468 ||| || |||| || |||| | ||| || ||| || ||||||||| || ||| Sbjct 48266704 GCAGCTTCGCAGCATCTACGAGAGCA-GCCTGTCCATTGGCAACTTCGCCTCCCGCCTGC 48266762 Query 50469 TCGTGTACATGTTTCCAGAGCTCTTTACTGCGGAGAACCTGCACACGCACTTCAACTGCT 50528 | ||| || | || || |||||||| || |||||||||| || ||| | ||||||| Sbjct 48266763 TGGTGCACCTCTTCCCCGAGCTCTTCACGCACGAGAACCTGCGCAAGCAGTACAACTGCA 48266822 Query 50529 ACGGCTCCATGGGCAAGC-GCAGGCTCGA-CCCGCTACGCCTGCGCTTGCTCCGGCACTA 50586 ||||||| |||||||| |||| || || ||||| ||| | | || |||| ||||| Sbjct 48266823 GCGGCTCCCTGGGCAAGAAGCAG-CTGGATCCCGCC-CGCATCAGGCTGATCCGCCACTA 48266880 Query 50587 TGTGCAGTTGCTGCACCCGGCGGCGCGCAACGAGCGCGTGTGGATCACAAAGTTCCTGGC 50646 |||||| | || |||| || ||||| |||||||||| | |||| ||| Sbjct 48266881 CGTGCAGCTCCTCTACCCCAGAGCCAAGAACGACCGCGTGTGGACCCTGGAGTTTGTGGG 48266940 Query 50647 GTGCCTGGACGAGCGCTGCCGGCGC 50671 |||||||||||||| |||||| Sbjct 48266941 CAAGCTGGACGAGCGCTGTCGGCGC 48266965 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 608789532488200