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_015960.1 Length=175699 Score E Sequences producing significant alignments: (Bits) Value seq297 419 3e-112 seq232 374 1e-98 seq129 120 3e-22 seq117 111 2e-19 seq1 89.7 6e-13 >seq297 Length=62275575 Score = 419 bits (464), Expect = 3e-112 Identities = 657/939 (70%), Gaps = 6/939 (1%) Strand=Plus/Minus Query 18609 TGGTTAAAAATCAACATCCAAAGAAAAAGAATTCTCTTCATTAGAATT---CATTACTCC 18665 || ||| || ||| ||||||| | |||||||| ||| | ||||| ||||||||| Sbjct 25392926 TGCTTAGAAGTCAGCATCCAAGGTGAAAGAATTTTCTG---TCGAATTTGACATTACTCC 25392870 Query 18666 CATTTTTTGATATTCGGCAACTCTTTTTTCAAAGAAATTAGTTTTTCCCTCTAATGATAT 18725 ||| | || || ||| | |||| || |||||||| || |||||||| |||| ||| || Sbjct 25392869 CATCCTCTGGTACTCGCCTACTCGCTTCTCAAAGAAGTTTGTTTTTCCTTCTAGTGAAAT 25392810 Query 18726 ACATTCCATAAAATCAAATGGATTTTTTACATTATATAtttttttGAATCCTAATTCTAA 18785 | ||||| || ||||||||||||| ||| || | || || || || || | || | Sbjct 25392809 ATTCTCCATGAAGTCAAATGGATTTTCTACTTTGAAAATCTTGTTAAAACCCAGCTCCAG 25392750 Query 18786 TAGTAGTCTATCCGCTACAAATTTAATATATGTGTTCATCATATCACAATTCATTCCTAT 18845 | || || || || ||||| | || || ||||||| |||||||| || || Sbjct 25392749 CATAAGCCTGTCGGCCACAAACTCGATGTACTGCTTCATCAAGGTGCAATTCATCCCGAT 25392690 Query 18846 TAATTTAACAGGTAGTGCATCTGTAAGAAATTCTTGTTCTATATTTACTGCCTCTGATAT 18905 | || ||||| || || ||||| || || || || ||||| | || || | | || Sbjct 25392689 GAGCTTCACAGGCAGGGCCTCTGTGAGGAACTCCTGCTCTATCCTGACCGCGTTGGTAAT 25392630 Query 18906 AATAGATACAACTCTATCTTCATTAGGAGGGTATAGAAGATGTTTAAACATCAAACATGC 18965 || | ||||| | || || || || || || || ||||||| || || Sbjct 25392629 TATTTCTTTTACTCTCTGCTCCGAGGGCTTGTGTACCAGGTGCTTGAACATCAGGCAGGC 25392570 Query 18966 AAAATCACAATGTAGTCCCTCGTCTCTACTTATCAATTCATTAGAAAATGTTAAACCAGG 19025 ||| ||||| || || ||||| ||||| || || | |||||| |||||||| | || || Sbjct 25392569 AAAGTCACAGTGCAGACCCTCATCTCTGCTAATAAGTTCATTGGAAAATGTAAGGCCCGG 25392510 Query 19026 CATCAGTCCTCttttttttAACCAGAATATAGAAGCAAATGATCCAGAAAAGAATATACC 19085 ||||||||| | ||| || | ||||||||| || ||||| || ||||||||||| || || Sbjct 25392509 CATCAGTCCCCGTTTCTTGAGCCAGAATATTGATGCAAAAGAACCAGAAAAGAAGATTCC 25392450 Query 19086 TTCTACTGCTGCAAAAGCAACTAGTCTTTCTCCATAACTAGCATCATTATTATGAATCCA 19145 |||||| || || || || || | || ||||||||| |||| || || | |||||| Sbjct 25392449 TTCTACCGCAGCGAAGGCCACAACTCGTTCTCCATACGTAGCCTCTTTGTCCCCAATCCA 25392390 Query 19146 TTTCAGTGCCCAATCAGCCTTCTTTTTTACACATGGCATTGTCTCTATAGAATTAAATAG 19205 || ||||| ||||||||||| || ||||| ||||||||||| || | || || || Sbjct 25392389 ACGCAAGGCCCAGTCAGCCTTCTTCTTCACACAAGGCATTGTCTCAATGGCGTTGAAGAG 25392330 Query 19206 ATACATACGCTCATCTGTATCTTTAACATATGCATCTATCAATAAACTGTACATTTCTGA 19265 ||| | || | | |||||||| || | || || | | |||||||||||| || Sbjct 25392329 ATATTCTCTTTCTTTGGAATCTTTAATGTAAGTGTCAATAAGGAGACTGTACATTTCGGA 25392270 Query 19266 ATGAATATTTTCTATAGCCATCTGAAATCCGTAAAAACATCTTGCTTCTGTTATCTGTAC 19325 || || || || || || || || || || || ||||| | || ||||| | || || Sbjct 25392269 GTGTATGTTCTCCATGGCAATTTGGAAGCCATAGAAACAGCGGGCCTCTGTGACTTGAAC 25392210 Query 19326 TTCACTACAAAATCTTTCGACCAAATTTTCATTAACTATTCCATCACTAGCTGCAAAAAA 19385 ||| | ||||| || ||||| || ||||| ||||| |||||||| || ||||| || Sbjct 25392209 TTCTTGGCTAAATCGCTCCACCAAGTTCTCATTGACTATGCCATCACTCGCCGCAAAGAA 25392150 Query 19386 TGCTAATACATGTTTAATAAAATGTTTTTCATCTGAGGTTAATGTATTCCAATCATTAAT 19445 || | ||||| ||||||||| | ||||||| | | | | ||| | | ||| Sbjct 25392149 GGCCAGAACATGAGATATAAAATGTCTCTCATCTGGTTTCAGAGCTTCCCAGTGCTGAAT 25392090 Query 19446 ATCTTTAGATAAATCTACTTCTTCAACTGTCCAAAAAGAAGCCTCTGCTTTTTTATACAT 19505 ||| || || | || || || || | |||||||| || ||||| ||||| || ||||| Sbjct 25392089 ATCCTTGGAAAGGTCCACCTCCTCGGCAGTCCAAAAGGAGGCCTCAGCTTTCTTGTACAT 25392030 Query 19506 GTTCCATATATCACGATATTGTATAGGAAATATAACAAA 19544 | ||| |||||| | |||| || ||||| | ||| || Sbjct 25392029 CTGCCAGATATCATGGTATTCGATGGGAAAGACAACGAA 25391991 >seq232 Length=115493446 Score = 374 bits (414), Expect = 1e-98 Identities = 1202/1857 (65%), Gaps = 50/1857 (3%) Strand=Plus/Minus Query 46967 TTTGTCTTTTTCCACAGTAAACTTAATTGGATTACTCGCTGATTTTGTTCGTAAATAATA 47026 ||| |||| ||| | ||| || | ||||||||| || | | |||| | ||||||||| Sbjct 76911780 TTTTTCTTGTTC-AGAGTGAAGTGGATTGGATTAACAGCGGGTCTTGTCCTTAAATAATA 76911722 Query 47027 CATACCAGTCTTTAAACCTAAACTCCATCCATAGAAATGCATACTAGTTAATTTAGAATA 47086 ||| | |||||||||||| |||| ||||| || ||||||||||||| ||| || Sbjct 76911721 CATCCGAGTCTTTAAACCCTGCTTCCAACCATAAAAGTGCATACTAGTTAGTTTGCCGTA 76911662 Query 47087 ACTAGGTTCTGAAATATGAATATTAAGAGATTGACTCTGATCAATAAATGCACCTCTATC 47146 | || || | |||||| || || | ||| || || |||| | || | ||||| || Sbjct 76911661 GTTGGGCTCAGCAATATGGATGTTTAAAGACTGGCTTTGATTGACGAAAACGCCTCTCTC 76911602 Query 47147 AGCTGCCATATCTAAAATAACCCTTTGTGGTATCTCCCATACTGTTTTATAAATTTGTTT 47206 ||||||||| | | || | | | || | || ||||| | || ||| | | ||| || Sbjct 76911601 AGCTGCCATCTTGAGAACAGTCTTCTGAGAGATTTCCCACATGGTCTTACAGAGTTGCTT 76911542 Query 47207 AATGTCTTCTGGGAGAT-TAGTAT--TTTGAATAGATCCTCCgttttctataattttgtt 47263 | || || || | | | ||| | ||||| || || | | | || | || Sbjct 76911541 CAGGTTATCAGGAATTTCTGGTAAGCTCTGAATGGAGCCATTGCAGGCAGTGATCTGATT 76911482 Query 47264 ttttaa---ttcatttgaccaaagttttcgttcagtta-atgtttttaaAAGATGAGGAT 47319 ||| | |||||| || || | | ||||| | || ||| ||| |||||| Sbjct 76911481 TTTCATCTCTTCATTCCACAAACCCT---GCTCAGTAAGATCTTTCAGTAAGC-GAGGAT 76911426 Query 47320 TAACAATTTGAAATTCTCCAGATAGTACTCTACGGCTATATATATTACTTGTATATGGTT 47379 | ||||| ||||||||||| || | ||||| | | || || |||| || || | | Sbjct 76911425 TCACAATCTGAAATTCTCCTGACAAGACTCTGCAAGTGTAGATGCTACTGGTGTAAGCCT 76911366 Query 47380 CTATAGATTCATTATTTCCAAAAATTTGAGCAGTTGATGCTGTAGGCATGGATGCAACTA 47439 | || || | |||||| | | ||| ||||||||| | || |||||||| | |||| | Sbjct 76911365 CAATGGACTGATTATTCCTCAGAATCTGAGCAGTTAAAGCAGTAGGCATTGGGGCAATAA 76911306 Query 47440 ATAAGCTATTTCTTACTCCATATTTTTGTATCTNNNNNNNNNNNNGTTTCCAATCCCAAA 47499 ||| || ||||||| || || ||| |||| | ||||| ||||| | Sbjct 76911305 GTAAACTGTTTCTTATACCGTACTTTGCAATCTTCCCCTTGAGAAGCTTCCAGTCCCACA 76911246 Query 47500 GATCTGATGGAACAACATTCCAAAAATCATATTGAAGAATTCCTTTACTTATCGGAGAAC 47559 | |||| |||| ||||||||| | |||||| |||||||| ||||| || | ||||| | Sbjct 76911245 GGTCTGTAGGAATAACATTCCACATATCATACTGAAGAATACCTTTGCTGACTGGAGATC 76911186 Query 47560 CATTATATGTTTTATAAGGACCGTATAGTTTAGCGAGTTCACAACTTGCTTCCAATGCAC 47619 | | ||| ||||| | || || ||| || || || ||||| || ||||||| || | Sbjct 76911185 CCTCATACGTTTTGTCGGGGCCATATTCCTTGGCTAGGTCACAGCTGGCTTCCAGGGCTC 76911126 Query 47620 TATAATATATTGTTTCAAATATTTTTATGTTTAGATTCCTTG-CTTCTGATGATTCAAAA 47678 |||||| || |||||||| |||| | |||| || || | |||||| ||| Sbjct 76911125 CATAATAAATGGTTTCAAAGATTTGCTTATTTA-ATAACTGGGCTTCTGGGCTCTCA--- 76911070 Query 47679 GGATANNNNNNNNNNNNNAATGTATCTGCCAATCCTTGAACACCAATACCAATTGGTCTA 47738 |||| || | |||||| | ||||| || ||||| ||||| || | | Sbjct 76911069 GGAT-------------GAAAGCATCTGCTAGACCTTGTACCCCAATTCCAATGGGCCGA 76911023 Query 47739 TGAGTTTTATTAGAAAACTCAGCTTCTGGTAATGGATATTTGTTTATATCTATAATTTTA 47798 || |||||| || || | || ||||| | || || | ||||||||| || |||||| Sbjct 76911022 TGGTGTTTATTTGATAAGTGTGCCTCTGGAATAGGGTAGTAGTTTATATCAATTATTTTA 76910963 Query 47799 TTTAGANNNNNNNNNNNNNNNNNNACAATTTCTCTTAATTTATTAAAATCAAACTT--GT 47856 || || | |||| | ||| | ||| ||| || | || Sbjct 76910962 TTCGGATTTTGGACAATGACTTTAGTGACTTCTGCCAGTTTCTCAAAGTCATACGTATGT 76910903 Query 47857 TATT-TATAACAAACCTATTAAGTGCTATAGATGCTAGATTACATACAGCTACCTCATTT 47915 | | | | || || | || || || | ||| || | ||||| | || ||||||| | Sbjct 76910902 TCTGGTGTGACCTACATGTTGAGAGCCAGAGAAGCCAAGTTACAAATTGCAACCTCATCT 76910843 Query 47916 GGATTAGTATATTGTATTATTTCAGCACATAGATTACCACATTTGATAGTACCCAAATTT 47975 | | || | ||| || | ||| || | | |||||||| || |||| || Sbjct 76910842 TCACTGGTGCAACTC--TATCTCCGTACACAGGTGGCTGCATTTGATGGTTCCCAGGTTC 76910785 Query 47976 TGATGATTATTNNNNTTGTTACATGCGTCCTTGTAAAGCATAAAAGGTGTTCCAGTTTCT 48035 || || | | || ||| ||| ||||| ||||| | || || || || ||| Sbjct 76910784 TGTTGGCTGCTCTTCGGGTCACAGAAGTCTTTGTAGAGCATGTATGGGGTACCCGTCTCT 76910725 Query 48036 ATCTGAGATTCAATGATAGATTTCCAAACAGTCCTAGCCTTTATAACAGCTCTAGCTTTA 48095 |||||| ||||||| | | ||||| | || |||| | ||| || | | Sbjct 76910724 GCCTGAGACCCAATGATGGCGTACCAAAGC-TGCTGAACTTT-TCACAACTTTTCAGACA 76910667 Query 48096 TTATCATGTT---CGTATTTAGTATATAACTTCTCAAATTCATCCCCATACACATTATCT 48152 | | || | |||| | |||||||||||| || || || || || || | || Sbjct 76910666 CGACCCTGCTTCTCGTAACTTTCATATAACTTCTCGAACTCCTCTCCCTAAACCTCGTCC 76910607 Query 48153 AACCCAGGACATTCATTAGGACACATCAATGACCAATCCTCATCATTTTTTACTCTAGTC 48212 | |||||||| ||||| |||||||||| ||||| |||| | | | | ||||| || Sbjct 76910606 AGACCAGGACACTCATTGGGACACATCAGTGACCGGTCCTGGTTAGTCTCTACTCGCTTC 76910547 Query 48213 ATAAATATATCTGGTATCCAAAGAGCTATAAATAAATCCCTAGTTCTTAGTTCTTCATTG 48272 || || | || ||| |||| ||| || | || | ||||| | | ||||||| ||| Sbjct 76910546 ATGAAGAGATTTGGGATCCGAAGTGCGAAGAAGAGATCCCACGCTTGCTGTTCTTCCTTG 76910487 Query 48273 CCACTATTCCTTTTAAGTTCAAGAAAGTCCATTATATC-AGCA------TGCCATGGTTC 48325 || | ||| | || | ||||| || || | || || || ||||| || | Sbjct 76910486 CCTGTGTTCTTCTTCAAGTCAAGGAACTCAAAGATGTCTAGGTGGTTGGTGCCAAGGCTT 76910427 Query 48326 TAAATATATTGCCATTACACCTGGTCGTTTATTACCTCCTTGATCTATATATCTGGCAGT 48385 | || || || | | | || || || || || || |||||||| | || | | | || Sbjct 76910426 CAGGTAAATAGCAAATGCCCCCGGGCGCTTGTTTCCACCTTGATCCACGTAACAG-CTGT 76910368 Query 48386 ATTGTTATAAACTCTTAACATTGGGACAATACCATTTGATATACCATTGGTTCCCGAAAT 48445 ||||||| ||||| | | ||| |||| || ||| || | | || || || | ||| Sbjct 76910367 GTTGTTATGTACTCTCAGCGTTGACACAAGACAATTAGAATTGCTGTTAGTCCCAGCAAT 76910308 Query 48446 ATAACTTCCACTAGCTCTTATATTACTAATTGAAATACCTATACCACCTGCCATTTTAGA 48505 || || ||| | || | ||| | | | | || || || || || || ||||| Sbjct 76910307 GTAGCTACCAATGGCCCGAATACAATTCAC-GCAACACTGATTCCCCCAGCAGACTTAGA 76910249 Query 48506 TATTAGAGCACACCGTTTAAGGGTATCATAAATTCCTTCTATACTATCATCTATCATATT 48565 || | | | || | || || |||||||||||||| || || || ||| || ||||| | Sbjct 76910248 AATCAAGGAATACTGCTTCAGAGTATCATAAATTCCCTCAATGCTGTCACCTTTCATACT 76910189 Query 48566 TAATAGAAAACAACTAGACATTTGCGGATGACAAGTTCCTGAATTAAATAATGTTGGAGA 48625 || || ||||| | ||||| || || | || || | ||| || | | ||||| Sbjct 76910188 CAAGAGGAAACAGCGAGACAGCTGTGGGC-AGTGGTCCCAGCATTGAAGAGAATCGGAGA 76910130 Query 48626 TGCATGAATAAACCATTTCTCTGATAACAATTTATATGTTTCAATAACAGAATCTATATC 48685 || ||| |||| || ||||| || | | || ||||||||||| ||| ||| ||||| Sbjct 76910129 GGCTTGAGTAAATCACTTCTCAGAAAGTAGATTGTATGTTTCAATTGCAGCATCAATATC 76910070 Query 48686 CCATTGATGTATACCTATAGATACACGCATTAACATATATTGAGGTCTTTCAACAATTTT 48745 || || || || | |||||| | ||| ||||||| || |||| |||| | | ||| Sbjct 76910069 TTCTTTGTGAATCCCCACAGATACCCTCATCAACATATGCTGCGGTCGTTCAGCCACTTT 76910010 Query 48746 GTTATTTATTTTCAAAAGATATGATTTTTCCAATGTTTTAAAACCAAAATAGTTGTA 48802 | | || ||||| | |||||| ||||| ||| ||||||||||| |||||||| Sbjct 76910009 TCCACTGATCTTCAACAAATATGACCGTTCCAGTGTCTTAAAACCAAAGTAGTTGTA 76909953 >seq129 Length=145729302 Score = 120 bits (132), Expect = 3e-22 Identities = 107/134 (80%), Gaps = 0/134 (0%) Strand=Plus/Plus Query 18985 TCGTCTCTACTTATCAATTCATTAGAAAATGTTAAACCAGGCATCAGTCCTCtttttttt 19044 || || || || |||| |||||| ||||| || | |||||||| || ||||| || ||| Sbjct 76759206 TCATCCCTGCTGATCAGTTCATTTGAAAAAGTCAGCCCAGGCATGAGGCCTCTCTTCTTT 76759265 Query 19045 AACCAGAATATAGAAGCAAATGATCCAGAAAAGAATATACCTTCTACTGCTGCAAAAGCA 19104 | ||||||||||| ||||||||||||||| ||||| || |||||||| || || || || Sbjct 76759266 AGCCAGAATATAGCAGCAAATGATCCAGAGAAGAAAATCCCTTCTACAGCAGCGAAGGCC 76759325 Query 19105 ACTAGTCTTTCTCC 19118 || | |||||| || Sbjct 76759326 ACCACTCTTTCCCC 76759339 >seq117 Length=147991367 Score = 111 bits (122), Expect = 2e-19 Identities = 106/136 (78%), Gaps = 0/136 (0%) Strand=Plus/Minus Query 18983 CCTCGTCTCTACTTATCAATTCATTAGAAAATGTTAAACCAGGCATCAGTCCTCtttttt 19042 |||| ||||| || || | ||||| |||||||| | || ||||||||||| | ||| | Sbjct 43887779 CCTCATCTCTGCTAATAAGCTCATTGGAAAATGTAAGGCCCGGCATCAGTCCCCGTTTCT 43887720 Query 19043 ttAACCAGAATATAGAAGCAAATGATCCAGAAAAGAATATACCTTCTACTGCTGCAAAAG 19102 | | ||||||||| || ||||| || ||||||||||| || |||||||| || || || | Sbjct 43887719 TGAGCCAGAATATTGATGCAAAAGAACCAGAAAAGAAGATTCCTTCTACCGCAGCGAAGG 43887660 Query 19103 CAACTAGTCTTTCTCC 19118 | || | || |||||| Sbjct 43887659 CCACAACTCGTTCTCC 43887644 Score = 102 bits (112), Expect = 9e-17 Identities = 115/153 (75%), Gaps = 6/153 (4%) Strand=Plus/Minus Query 18609 TGGTTAAAAATCAACATCCAAAGAAAAAGAATTCTCTTCATTAGAATT---CATTACTCC 18665 || ||| || ||| ||||||| | |||||||| ||| | ||||| ||||||||| Sbjct 43889518 TGCTTAGAAGTCAGCATCCAAGGTGAAAGAATTTTCTG---TCGAATTTGACATTACTCC 43889462 Query 18666 CATTTTTTGATATTCGGCAACTCTTTTTTCAAAGAAATTAGTTTTTCCCTCTAATGATAT 18725 ||| | || || ||| | |||| || |||||||| || |||||||| |||| ||| || Sbjct 43889461 CATCCTCTGGTACTCGCCTACTCGCTTCTCAAAGAAGTTTGTTTTTCCTTCTAGTGAAAT 43889402 Query 18726 ACATTCCATAAAATCAAATGGATTTTTTACATT 18758 | ||||| || ||||||||||||| ||| || Sbjct 43889401 ATTCTCCATGAAGTCAAATGGATTTTCTACTTT 43889369 >seq1 Length=282763074 Score = 89.7 bits (98), Expect = 6e-13 Identities = 96/127 (76%), Gaps = 0/127 (0%) Strand=Plus/Minus Query 47328 TGAAATTCTCCAGATAGTACTCTACGGCTATATATATTACTTGTATATGGTTCTATAGAT 47387 ||||||||||| || | ||||| || | || || ||||| || || || || || || Sbjct 167557811 TGAAATTCTCCTGACAAGACTCTGCGAGTGTAGATGTTACTGGTGTAAGGCTCAATGGAC 167557752 Query 47388 TCATTATTTCCAAAAATTTGAGCAGTTGATGCTGTAGGCATGGATGCAACTAATAAGCTA 47447 |||||||| || | ||| ||||||||||| || |||||||| | |||| | ||| || Sbjct 167557751 TCATTATTCCCCAGAATCTGAGCAGTTGAAGCAGTAGGCATTGGGGCAATAAGTAAACTG 167557692 Query 47448 TTTCTTA 47454 ||||||| Sbjct 167557691 TTTCTTA 167557685 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 562102089826200