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_003389.1 Length=146454 Score E Sequences producing significant alignments: (Bits) Value seq297 277 2e-69 seq232 188 7e-43 seq117 107 2e-18 seq129 105 6e-18 seq1 87.8 2e-12 >seq297 Length=62275575 Score = 277 bits (306), Expect = 2e-69 Identities = 593/884 (67%), Gaps = 3/884 (0%) Strand=Plus/Minus Query 11330 ACCCCCATCTTTTGATATTCACTAACTCGTCGTTCGAAAAAATTAGTCTTACCTTCTAGT 11389 || |||||| | || || || | ||||| || || || || || || ||||||||| Sbjct 25392874 ACTCCCATCCTCTGGTACTCGCCTACTCGCTTCTCAAAGAAGTTTGTTTTTCCTTCTAGT 25392815 Query 11390 GATATATACTCCATAAAGCTAAAAGGATTATATACATTGAAGACTTTTTCACAACCTAAC 11449 || |||| |||||| ||| ||| ||||| | ||| ||||| | || | | |||| | | Sbjct 25392814 GAAATATTCTCCATGAAGTCAAATGGATTTTCTACTTTGAAAATCTTGTTAAAACCCAGC 25392755 Query 11450 TCTGTTAATAATCTATCTGCGACGAATTCTATATACTGAGACATTAAACAACAATTCATA 11509 || | | || || || || || || || ||||| ||| || |||||||| Sbjct 25392754 TCCAGCATAAGCCTGTCGGCCACAAACTCGATGTACTGCTTCATCAAGGTGCAATTCATC 25392695 Query 11510 CCTATAAGATCCACCGGAATAGCAACTGTCAAAAACTCCTTTTCTATATTAACCGCATCA 11569 || || || | ||| || | || |||| | ||||||| ||||| | ||||| | Sbjct 25392694 CCGATGAGCTTCACAGGCAGGGCCTCTGTGAGGAACTCCTGCTCTATCCTGACCGCGTTG 25392635 Query 11570 ATGATTATCGACGTTATAACTTCCTTAGATGGTGGATGTAATAAATGTTTAAACATTAAA 11629 | ||||| ||| | || || || |||| | || || ||||| | Sbjct 25392634 GTAATTATTTCTTTTACTCTCTGCTCCGAGGGCTTGTGTACCAGGTGCTTGAACATCAGG 25392575 Query 11630 CACGCAAAATCACAATGTAAACCTTCGTCTCTACTTATTAGTTCATTAGAAAATGTTAAT 11689 || ||||| ||||| || | ||| || ||||| || || |||||||| |||||||| | Sbjct 25392574 CAGGCAAAGTCACAGTGCAGACCCTCATCTCTGCTAATAAGTTCATTGGAAAATGTAAGG 25392515 Query 11690 CCGGGCATCAATCCTCGtttttttATCCAAAATATAGCAGCAAATGAACCAGAAAAGAAT 11749 || ||||||| ||| ||||| || | ||| ||||| | ||||| |||||||||||||| Sbjct 25392514 CCCGGCATCAGTCCCCGTTTCTTGAGCCAGAATATTGATGCAAAAGAACCAGAAAAGAAG 25392455 Query 11750 ATTCCCTCCACAGCTGCAAATGCTACTACTCTTTCTCCATA--TA-CCTTGTTGCTAGAT 11806 ||||| || || || || || || || |||| ||||||||| || ||| ||| Sbjct 25392454 ATTCCTTCTACCGCAGCGAAGGCCACAACTCGTTCTCCATACGTAGCCTCTTTGTCCCCA 25392395 Query 11807 ATCCATTTTCTGGCCCAATCAGCTTTCTTTTTTACGCATTCCATTGTTTCTATAGCGTTA 11866 ||||| |||||| ||||| ||||| || || || |||||| || || ||||| Sbjct 25392394 ATCCAACGCAAGGCCCAGTCAGCCTTCTTCTTCACACAAGGCATTGTCTCAATGGCGTTG 25392335 Query 11867 AATAAATGCATTTTTTCTATATTATCTCTTACATATGTATCTATTAATAAACTATACATT 11926 || | || | ||||| | |||| | | || || || || | | ||| |||||| Sbjct 25392334 AAGAGATATTCTCTTTCTTTGGAATCTTTAATGTAAGTGTCAATAAGGAGACTGTACATT 25392275 Query 11927 TCTGAATGAATATTTTCCATAGCTATTTGAAATCCATAGAAACATCGTGCCTCTGAACAC 11986 || || || || || ||||| || ||||| || ||||||||||| || ||||||| Sbjct 25392274 TCGGAGTGTATGTTCTCCATGGCAATTTGGAAGCCATAGAAACAGCGGGCCTCTGTGACT 25392215 Query 11987 TGTACATCCACATAAAATCTTTCCGCTAAATTCTCATTTACAATACCATCACTAGATGCA 12046 || || || ||||| ||| | || |||||||| || || |||||||| | ||| Sbjct 25392214 TGAACTTCTTGGCTAAATCGCTCCACCAAGTTCTCATTGACTATGCCATCACTCGCCGCA 25392155 Query 12047 AAAAATGCTAGTATATGTTTTATAAAGTATTTTTCGTCTTTAGTTAATTTATCCCAATCA 12106 || || || || | ||| |||||| | | | || ||| | | ||||| | Sbjct 25392154 AAGAAGGCCAGAACATGAGATATAAAATGTCTCTCATCTGGTTTCAGAGCTTCCCAGTGC 25392095 Query 12107 TCTAAATCTTTTGATAAATCTACTTCTTCAACGGTCCAAAAACTTGCCACTGATTGTTTA 12166 | | ||| || || | || || || || | |||||||| ||| | | || || Sbjct 25392094 TGAATATCCTTGGAAAGGTCCACCTCCTCGGCAGTCCAAAAGGAGGCCTCAGCTTTCTTG 25392035 Query 12167 TACATTTTCCAGATATCATGATACTTAATAGGGAAAATAACGAA 12210 ||||| | |||||||||||| || | || || || | |||||| Sbjct 25392034 TACATCTGCCAGATATCATGGTATTCGATGGGAAAGACAACGAA 25391991 >seq232 Length=115493446 Score = 188 bits (208), Expect = 7e-43 Identities = 467/699 (67%), Gaps = 11/699 (2%) Strand=Plus/Minus Query 36796 GTGAATTTTATAGGATTTGATGCCGATTTTGTTCTCATATAATACATTCCAGTTTTTAGC 36855 ||||| | || ||||| || | | |||| || | ||||||||| | ||| |||| Sbjct 76911765 GTGAAGTGGATTGGATTAACAGCGGGTCTTGTCCTTAAATAATACATCCGAGTCTTTAAA 76911706 Query 36856 CCCAATCTCCATCCGTAAAAATGCATACTGGTCAGTTTTGCGTATGTAGGATTATCTATA 36915 ||| |||| || ||||| |||||||| || ||||| |||| | || | | | ||| Sbjct 76911705 CCCTGCTTCCAACCATAAAAGTGCATACTAGTTAGTTTGCCGTAGTTGGGCTCAGCAATA 76911646 Query 36916 TATATTGTCATTGATTGACTTTGATCTATAAACGCACCTCTGTCGGCTGCCATTTCTAAA 36975 | || | | || || ||||||| | || | ||||| || |||||||| | | | Sbjct 76911645 TGGATGTTTAAAGACTGGCTTTGATTGACGAAAACGCCTCTCTCAGCTGCCATCTTGAGA 76911586 Query 36976 ATACATTTTTGAGATATCTCCCAAACCGTTTTATATATTTGTTTTATATTATCTGGTAAA 37035 | | || ||||| || ||||| | || ||| | | ||| || | ||||| || | Sbjct 76911585 ACAGTCTTCTGAGAGATTTCCCACATGGTCTTACAGAGTTGCTTCAGGTTATCAGGAATT 76911526 Query 37036 TCTA--AATGT-TGAATAGAACCATTAT-GTAACACAATTGTATTCTTTATGTCATTATT 37091 ||| || | ||||| || ||||| | | | || ||| || || || | ||| Sbjct 76911525 TCTGGTAAGCTCTGAATGGAGCCATTGCAGGCAGTGATCTG-ATTTTTCATCTCTTCATT 76911467 Query 37092 CCACATATTTCTACTTATTA-GTTCTCTCAATAGGTGTGGATTTACAACCTGAAAATCTC 37150 ||||| | || || | || | ||| ||| || | | ||||| |||| |||||| |||| Sbjct 76911466 CCACAAACC-CTGCTCAGTAAGATCTTTCAGTAAGCGAGGATTCACAATCTGAAATTCTC 76911408 Query 37151 CAGATAATACTCTTCTTGTATATATATTGCTAGTATATGGTTCAATGGACTCATTATTAC 37210 | || || ||||| | || || || | || || || | |||||||||| |||||| | Sbjct 76911407 CTGACAAGACTCTGCAAGTGTAGATGCTACTGGTGTAAGCCTCAATGGACTGATTATTCC 76911348 Query 37211 TTAATATTTGAGATGTAGATGCAGTAGGCATTGGTGCTATTAGAAGGCTATTTCTCAATC 37270 | | || |||| || | |||||||||||||| || || || | || ||||| | | Sbjct 76911347 TCAGAATCTGAGCAGTTAAAGCAGTAGGCATTGGGGCAATAAGTAAACTGTTTCTTATAC 76911288 Query 37271 CATGTGTATTAATTCTCTTTTTTAGTTCATTCCAATCCCATAAATCTGTTGGGTT--CTT 37328 | | | ||| || || || ||||| ||||| | ||||| || | | | Sbjct 76911287 CGTACTTTGCAATCTTCCCCTTGAGAAGCTTCCAGTCCCACAGGTCTGTAGGAATAACAT 76911228 Query 37329 TAACCACATATCATATTGTAGAATACCTTTACTCGCTGGAGAATCGTTATATGTCTCATA 37388 | |||||||||||| || ||||||||||| || ||||||| | | ||| || | | Sbjct 76911227 T--CCACATATCATACTGAAGAATACCTTTGCTGACTGGAGATCCCTCATACGTTTTGTC 76911170 Query 37389 AGGTCCGTAAATTTTAGCTAGTTCGCAACTAGATTCTAGTGCGGCATAATATATTGTTTC 37448 || || || || ||||| || || || | ||| || || ||||||| || ||||| Sbjct 76911169 GGGGCCATATTCCTTGGCTAGGTCACAGCTGGCTTCCAGGGCTCCATAATAAATGGTTTC 76911110 Query 37449 GAAAATTTGTATATTTAATATTTTTGCTTCTTCGCTATC 37487 || ||||| ||||||||| | |||||| ||| || Sbjct 76911109 AAAGATTTGCTTATTTAATAACTGGGCTTCTGGGCTCTC 76911071 Score = 86.0 bits (94), Expect = 6e-12 Identities = 239/358 (67%), Gaps = 8/358 (2%) Strand=Plus/Minus Query 38195 CTGTGTTATTATATATTCTTAACATAGGTACTATACCATTAGATTTGCCGTTTATACCGG 38254 ||||||| |||| || ||| | | | | || | || |||||| |||| ||| | || | Sbjct 76910371 CTGTGTTGTTATGTACTCTCAGCGTTGACACAAGACAATTAGAATTGCTGTTAGTCCCAG 76910312 Query 38255 ATATATAAGTACCCTTAGCTCGTATATTACTTATCGACAATCCT-ATTCCACCTGCATGT 38313 || || |||| | || || ||| | | | || ||| || ||||| || ||| Sbjct 76910311 CAATGTAGCTACCAATGGCCCGAATACAATTCA-CG-CAACACTGATTCCCCCAGCAGAC 76910254 Query 38314 TTTGATATTAAAGCGCATTGTTTTAACGTATCAAATATACCTTCTATACTGTCATCCTTT 38373 || || || || | | || || | |||||| | || || || || |||||| | || Sbjct 76910253 TTAGAAATCAAGGAATACTGCTTCAGAGTATCATAAATTCCCTCAATGCTGTCACCTTTC 76910194 Query 38374 ATTGGTAGTATAAAACAACTAGACATTTGAGG-CAATGGAGTTCCGGCGTTAAATAATGT 38432 || | | ||||| | ||||| || || || ||| | || || || || | | Sbjct 76910193 ATACTCAAGAGGAAACAGCGAGACAGCTGTGGGCAGTGG--TCCCAGCATTGAAGAGAAT 76910136 Query 38433 AGGAGATGCATGTATGAACCATTTTTCCGACAAATA-ATTATATGTTTCTATTACATCAT 38491 ||||| || || | || || || || || || || ||| |||||||| ||| || ||| Sbjct 76910135 CGGAGAGGCTTGAGTAAATCACTTCTCAGA-AAGTAGATTGTATGTTTCAATTGCAGCAT 76910077 Query 38492 CTATATCACCGCCGTGAATACCTAGAGATACCCTCATTAGCATATGTTGTGGTCTTTC 38549 | ||||| | |||||| || | |||||||||||| | |||||| || |||| ||| Sbjct 76910076 CAATATCTTCTTTGTGAATCCCCACAGATACCCTCATCAACATATGCTGCGGTCGTTC 76910019 >seq117 Length=147991367 Score = 107 bits (118), Expect = 2e-18 Identities = 104/134 (78%), Gaps = 0/134 (0%) Strand=Plus/Minus Query 11654 TCGTCTCTACTTATTAGTTCATTAGAAAATGTTAATCCGGGCATCAATCCTCGttttttt 11713 || ||||| || || || ||||| |||||||| | || ||||||| ||| ||||| || Sbjct 43887777 TCATCTCTGCTAATAAGCTCATTGGAAAATGTAAGGCCCGGCATCAGTCCCCGTTTCTTG 43887718 Query 11714 ATCCAAAATATAGCAGCAAATGAACCAGAAAAGAATATTCCCTCCACAGCTGCAAATGCT 11773 | ||| ||||| | ||||| |||||||||||||| ||||| || || || || || || Sbjct 43887717 AGCCAGAATATTGATGCAAAAGAACCAGAAAAGAAGATTCCTTCTACCGCAGCGAAGGCC 43887658 Query 11774 ACTACTCTTTCTCC 11787 || |||| |||||| Sbjct 43887657 ACAACTCGTTCTCC 43887644 >seq129 Length=145729302 Score = 105 bits (116), Expect = 6e-18 Identities = 105/136 (77%), Gaps = 0/136 (0%) Strand=Plus/Plus Query 11652 CTTCGTCTCTACTTATTAGTTCATTAGAAAATGTTAATCCGGGCATCAATCCTCGttttt 11711 |||| || || || || |||||||| ||||| || | || ||||| | |||| || | Sbjct 76759204 CTTCATCCCTGCTGATCAGTTCATTTGAAAAAGTCAGCCCAGGCATGAGGCCTCTCTTCT 76759263 Query 11712 ttATCCAAAATATAGCAGCAAATGAACCAGAAAAGAATATTCCCTCCACAGCTGCAAATG 11771 ||| ||| ||||||||||||||||| ||||| ||||| || || || ||||| || || | Sbjct 76759264 TTAGCCAGAATATAGCAGCAAATGATCCAGAGAAGAAAATCCCTTCTACAGCAGCGAAGG 76759323 Query 11772 CTACTACTCTTTCTCC 11787 | || |||||||| || Sbjct 76759324 CCACCACTCTTTCCCC 76759339 >seq1 Length=282763074 Score = 87.8 bits (96), Expect = 2e-12 Identities = 96/128 (75%), Gaps = 0/128 (0%) Strand=Plus/Minus Query 37138 ACCTGAAAATCTCCAGATAATACTCTTCTTGTATATATATTGCTAGTATATGGTTCAATG 37197 |||||||| ||||| || || ||||| | || || || || || || || || |||||| Sbjct 167557814 ACCTGAAATTCTCCTGACAAGACTCTGCGAGTGTAGATGTTACTGGTGTAAGGCTCAATG 167557755 Query 37198 GACTCATTATTACTTAATATTTGAGATGTAGATGCAGTAGGCATTGGTGCTATTAGAAGG 37257 ||||||||||| | | || |||| || || |||||||||||||| || || || | Sbjct 167557754 GACTCATTATTCCCCAGAATCTGAGCAGTTGAAGCAGTAGGCATTGGGGCAATAAGTAAA 167557695 Query 37258 CTATTTCT 37265 || ||||| Sbjct 167557694 CTGTTTCT 167557687 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 468519206985200