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_009898.1 Length=368683 Score E Sequences producing significant alignments: (Bits) Value seq97 140 8e-28 seq174 123 6e-23 seq1 116 9e-21 seq219 114 3e-20 seq301 113 1e-19 seq271 104 6e-17 seq258 102 2e-16 seq129 98.7 2e-15 seq312 96.9 8e-15 seq232 93.3 1e-13 seq55 91.5 3e-13 >seq97 Length=173707219 Score = 140 bits (154), Expect = 8e-28 Identities = 167/227 (74%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 288247 CCACCGCGGAGTCTAAGTACGAGATGAATCGTGCTTTCTTTTTGGATATTATAGTCGGCG 288306 ||||| || ||||| || |||||||| | ||| || ||||| || || ||||| | Sbjct 138628758 CCACCACGAAGTCTCAGCACGAGATGGAGAGTGGACTCCTTTTGAATGTTGTAGTCAGAC 138628817 Query 288307 AGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAGATCAGACGCTGTTGAGAATCTGGG 288366 | || || || ||||| || || || || || ||||||| | ||| ||| | || Sbjct 138628818 AAAGTACGGCCATCTTCCAACTGCTTACCAGCAAAGATCAACCTCTGCTGATCAGGAGGA 138628877 Query 288367 ATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTTTCTATAGAATCGCTCGATTCTACT 288426 |||||||| ||||||||||| || || || || |||||||||| || | ||| || Sbjct 138628878 ATTCCTTCCTTATCCTGGATCTTGGCCTTTACATTTTCTATAGTGTCCGAGGGTTCAACC 138628937 Query 288427 TCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACGAATATCTGCAT 288473 ||||||||||| |||||||| || || ||||| || || |||||||| Sbjct 138628938 TCGAGCGTGATGGTCTTCCCTGTAAGGGTCTTCACAAAAATCTGCAT 138628984 Score = 122 bits (134), Expect = 2e-22 Identities = 144/195 (74%), Gaps = 0/195 (0%) Strand=Plus/Minus Query 288283 TCTTTTTGGATATTATAGTCGGCGAGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAG 288342 ||||| ||||| || || || | ||| ||||| || ||||| | || || || || ||| Sbjct 138042920 TCTTTCTGGATGTTGTAATCAGAGAGGGTGCGGCCATCTTCCAGCTGCTTGCCGGCAAAG 138042861 Query 288343 ATCAGACGCTGTTGAGAATCTGGGATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTT 288402 || || | ||| || | ||||| || |||||||||||||| || || |||||||| Sbjct 138042860 ATGAGCCTCTGCTGGTCAGGGGGGATGCCCTCTTTATCCTGGATCTTGGCCTTCACGTTC 138042801 Query 288403 TCTATAGAATCGCTCGATTCTACTTCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACG 288462 || || | || || | || || || || ||||| ||||| |||||||| ||||| ||| Sbjct 138042800 TCGATGGTGTCACTGGGCTCCACCTCCAGGGTGATGGTCTTGCCGGTCAGGGTCTTCACG 138042741 Query 288463 AATATCTGCATTATG 288477 || || |||||| || Sbjct 138042740 AAGATTTGCATTTTG 138042726 >seq174 Length=112626471 Score = 123 bits (136), Expect = 6e-23 Identities = 142/191 (74%), Gaps = 0/191 (0%) Strand=Plus/Minus Query 288283 TCTTTTTGGATATTATAGTCGGCGAGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAG 288342 || || ||||| || ||||| | ||| ||||| || ||||| | || || || || ||| Sbjct 48881476 TCCTTCTGGATGTTGTAGTCAGAGAGGGTGCGGCCATCTTCCAGCTGCTTGCCGGCAAAG 48881417 Query 288343 ATCAGACGCTGTTGAGAATCTGGGATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTT 288402 || || | ||| || | ||||| || |||||||||||||| || || |||||||| Sbjct 48881416 ATGAGCCTCTGCTGGTCAGGGGGGATGCCCTCTTTATCCTGGATCTTGGCCTTCACGTTC 48881357 Query 288403 TCTATAGAATCGCTCGATTCTACTTCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACG 288462 || || | || || | || || || || ||||| ||||| |||||||| ||||| ||| Sbjct 48881356 TCGATGGTGTCACTGGGCTCCACCTCTAGGGTGATGGTCTTGCCGGTCAGGGTCTTCACG 48881297 Query 288463 AATATCTGCAT 288473 || |||||||| Sbjct 48881296 AAGATCTGCAT 48881286 Score = 123 bits (136), Expect = 6e-23 Identities = 142/191 (74%), Gaps = 0/191 (0%) Strand=Plus/Minus Query 288283 TCTTTTTGGATATTATAGTCGGCGAGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAG 288342 ||||| ||||| || || || | ||| ||||| || ||||| | || || || || ||| Sbjct 48881704 TCTTTCTGGATGTTGTAATCAGAGAGGGTGCGGCCATCTTCCAGCTGCTTGCCGGCAAAG 48881645 Query 288343 ATCAGACGCTGTTGAGAATCTGGGATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTT 288402 || || | ||| || | ||||| || |||||||||||||| || || |||||||| Sbjct 48881644 ATGAGCCTCTGCTGGTCAGGGGGGATGCCCTCTTTATCCTGGATCTTGGCCTTCACGTTC 48881585 Query 288403 TCTATAGAATCGCTCGATTCTACTTCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACG 288462 || || | || || | || || || || ||||| ||||| |||||||| ||||| ||| Sbjct 48881584 TCGATGGTGTCACTGGGCTCCACCTCCAGGGTGATGGTCTTGCCGGTCAGGGTCTTCACG 48881525 Query 288463 AATATCTGCAT 288473 || |||||||| Sbjct 48881524 AAGATCTGCAT 48881514 Score = 109 bits (120), Expect = 1e-18 Identities = 141/195 (72%), Gaps = 0/195 (0%) Strand=Plus/Plus Query 288283 TCTTTTTGGATATTATAGTCGGCGAGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAG 288342 ||||| ||||| || || || | ||| ||||| || ||||| | || || || || ||| Sbjct 49699232 TCTTTCTGGATGTTGTAATCAGAGAGGGTGCGGCCATCTTCCAGCTGCTTGCCGGCAAAG 49699291 Query 288343 ATCAGACGCTGTTGAGAATCTGGGATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTT 288402 || || | ||| || | ||||| || |||||||||||||| || || |||||||| Sbjct 49699292 ATGAGCCTCTGCTGGTCAGGGGGGATGCCCTCTTTATCCTGGATCTTGGCCTTCACGTTC 49699351 Query 288403 TCTATAGAATCGCTCGATTCTACTTCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACG 288462 || || | || || | || || || || ||||| ||||| |||||||| ||||| || Sbjct 49699352 TCGATGGTGTCACTGGGCTCCACCTCCAGGGTGATGGTCTTGCCGGTCAGGGTCTTCACA 49699411 Query 288463 AATATCTGCATTATG 288477 | | |||||| || Sbjct 49699412 GAGAATTGCATTTTG 49699426 >seq1 Length=282763074 Score = 116 bits (128), Expect = 9e-21 Identities = 162/227 (71%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 288247 CCACCGCGGAGTCTAAGTACGAGATGAATCGTGCTTTCTTTTTGGATATTATAGTCGGCG 288306 ||||| | ||||| || |||||||| | ||| || ||||| || || ||||| | Sbjct 255573151 CCACCATGAAGTCTCAGCACGAGATGGAGAGTGGACTCCTTTTGAATGTTGTAGTCAGAC 255573210 Query 288307 AGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAGATCAGACGCTGTTGAGAATCTGGG 288366 | || || || |||| | || || || || |||| || | ||| ||| | || Sbjct 255573211 AAAGTACGGCCACCTTCCAGCTGCTTACCAGCAAAGACCAACCTCTGCTGATCAGGAGGA 255573270 Query 288367 ATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTTTCTATAGAATCGCTCGATTCTACT 288426 || |||| ||||||||||| || || || || |||||||||| || | ||| ||| Sbjct 255573271 GTTTCTTCCTTATCCTGGATCTTGGCCTTTACATTTTCTATAGTGTCCGAGGGTTCAACT 255573330 Query 288427 TCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACGAATATCTGCAT 288473 ||||||||||| |||||||| || || ||||| || || |||||||| Sbjct 255573331 TCGAGCGTGATGGTCTTCCCTGTAAGGGTCTTCACAAAAATCTGCAT 255573377 >seq219 Length=114033958 Score = 114 bits (126), Expect = 3e-20 Identities = 141/193 (73%), Gaps = 0/193 (0%) Strand=Plus/Plus Query 288285 TTTTTGGATATTATAGTCGGCGAGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAGAT 288344 ||| ||||| || ||||| | ||| ||||| || ||||| | || || || || ||||| Sbjct 14315744 TTTCTGGATGTTGTAGTCAGAGAGGGTGCGGCCATCTTCCAGCTGCTTGCCGGCAAAGAT 14315803 Query 288345 CAGACGCTGTTGAGAATCTGGGATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTTTC 288404 || | ||| || | ||||| || || ||||||||||| || || |||||||| | Sbjct 14315804 GAGCCTCTGCTGGTCAGGGGGGATGCCCTCCTTATCCTGGATCTTGGCCTTCACGTTCTT 14315863 Query 288405 TATAGAATCGCTCGATTCTACTTCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACGAA 288464 || | || || | || || || || ||||| ||||| |||||||| ||||| ||||| Sbjct 14315864 GATGGTGTCACTGGGCTCCACCTCCAGGGTGATGGTCTTGCCGGTCAGGGTCTTCACGAA 14315923 Query 288465 TATCTGCATTATG 288477 || |||||| || Sbjct 14315924 GATTTGCATTTTG 14315936 >seq301 Length=56205956 Score = 113 bits (124), Expect = 1e-19 Identities = 162/227 (71%), Gaps = 1/227 (0%) Strand=Plus/Minus Query 288247 CCACCGCGGAGTCTAAGTACGAGATGAATCGTGCTTTCTTTTTGGATATTATAGTCGGCG 288306 ||||| || ||||| || |||||| | ||| || ||||| || || |||| | Sbjct 23716602 CCACCACGAAGTCTCAGCCGGAGATGGAGAGTGGACTCCTTTTG-ATGTTGCAGTCAGAC 23716544 Query 288307 AGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAGATCAGACGCTGTTGAGAATCTGGG 288366 | || || || ||||||| ||| || || || ||||||| | ||| || | || Sbjct 23716543 AAAGTACGGCCATCTTCTAGTTGCTTACCAGCCAAGATCAACCTCTGCAGATCAGGAGGA 23716484 Query 288367 ATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTTTCTATAGAATCGCTCGATTCTACT 288426 |||||||| ||||||||||| || || || || |||||||||| || | ||| || Sbjct 23716483 ATTCCTTCCTTATCCTGGATCTTGGCCTTTACATTTTCTATAGTGTCCGAGGGTTCAACC 23716424 Query 288427 TCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACGAATATCTGCAT 288473 ||||||||||| ||||| || || || ||||| | || |||||||| Sbjct 23716423 TCGAGCGTGATAGTCTTTCCTGTAAGGGTCTTCTCAAAAATCTGCAT 23716377 >seq271 Length=90843779 Score = 104 bits (114), Expect = 6e-17 Identities = 152/214 (71%), Gaps = 1/214 (0%) Strand=Plus/Plus Query 288265 ACGAGATGAATCGTGCTTTCTTTTTGGATATTATAGTCGGCGAGCGTGCGTCCGTCTTCT 288324 |||||||| | ||||| |||||||| || || ||||| | | || || | |||||| Sbjct 33023831 ACGAGATGGAGCGTGCACTCTTTTTGAATGTTGTAGTCAGACAAAGTACGGCTGTCTTCC 33023890 Query 288325 AATTGTTTTCCTGCGAAGATCAGACGCTGTTGAGAATCTGGGATTCCTTCTTTATCCTGG 288384 | || || || || |||| || | ||| | | | || ||||||| |||| |||| Sbjct 33023891 AGCTGCTTACCAGCAAAGACCAACCTCTGCTCACCAGGAGGAGTTCCTTCCTTATTCTGG 33023950 Query 288385 ATT-TTCGCTTTCACGTTTTCTATAGAATCGCTCGATTCTACTTCGAGCGTGATCGTCTT 288443 ||| || || || || | |||| ||| || | ||| | ||||||||||| ||||| Sbjct 33023951 ATTCTTGGCCTTTACATGTTCTGTAGTGTCCGAGGGTTCACCCTCGAGCGTGATGGTCTT 33024010 Query 288444 CCCGGTCAGAGTCTTGACGAATATCTGCATTATG 288477 ||| || || ||||| || || |||||||| ||| Sbjct 33024011 CCCCGTAAGGGTCTTCACAAAAATCTGCATCATG 33024044 >seq258 Length=90668790 Score = 102 bits (112), Expect = 2e-16 Identities = 159/227 (70%), Gaps = 4/227 (2%) Strand=Plus/Minus Query 288247 CCACCGCGGAGTCTAAGTACGAGATGAATCGTGCTTTCTTTTTGGATATTATAGTCGGCG 288306 ||||| || ||||| || | |||||| | |||| || | ||| || || ||||| Sbjct 35200691 CCACCACGAAGTCTCAGCATGAGATGGAGCGTGGACTCCTCTTGAATGTTGTAGTC---- 35200636 Query 288307 AGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAGATCAGACGCTGTTGAGAATCTGGG 288366 | || || || ||||||| || || | || ||||||| | ||| ||| | || Sbjct 35200635 AAAGTACGGCCATCTTCTAGCTGCTTATCAGCAAAGATCAACCTCTGCTGACCAGGGGGA 35200576 Query 288367 ATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTTTCTATAGAATCGCTCGATTCTACT 288426 |||| || ||||||||||| || || || ||||||||||||| || | ||| || Sbjct 35200575 ATTCTTTTCTTATCCTGGATCTTGGCCTTTACGTTTTCTATAGTGTCCGAAGGTTCAACC 35200516 Query 288427 TCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACGAATATCTGCAT 288473 |||||| |||| |||||||| | || |||| || || ||||||| Sbjct 35200515 TCGAGCATGATGGTCTTCCCTCTAAGGCTCTTCACAAAACTCTGCAT 35200469 >seq129 Length=145729302 Score = 98.7 bits (108), Expect = 2e-15 Identities = 161/232 (69%), Gaps = 0/232 (0%) Strand=Plus/Plus Query 288247 CCACCGCGGAGTCTAAGTACGAGATGAATCGTGCTTTCTTTTTGGATATTATAGTCGGCG 288306 ||||| || |||| || |||||||| | |||| || | ||| || || ||||| | Sbjct 97787209 CCACCACGACGTCTCAGCACGAGATGGAACGTGGACTCCTGTTGAATGTTGTAGTCAGAC 97787268 Query 288307 AGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAGATCAGACGCTGTTGAGAATCTGGG 288366 | || || || ||||| | | || || || |||| ||| | ||| ||| | || Sbjct 97787269 AAAGTACGGCCATCTTCCAGCCGCTTACCAGCAAAGACCAGCCTCTGCTGACCAGGAGGA 97787328 Query 288367 ATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTTTCTATAGAATCGCTCGATTCTACT 288426 | ||||| | ||||||||| || || | ||| |||||||||| || | ||| | Sbjct 97787329 ACACCTTCCTCATCCTGGATCTTGGCCTACACATTTTCTATAGTGTCCGAGGGTTCAGCC 97787388 Query 288427 TCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACGAATATCTGCATTATGT 288478 ||||||||||| ||||| || || || ||||| || || ||||| || ||| Sbjct 97787389 TCGAGCGTGATGGTCTTTCCTGTAAGGGTCTTCACAAAAATCTGTGTTGTGT 97787440 Score = 84.2 bits (92), Expect = 5e-11 Identities = 89/116 (77%), Gaps = 5/116 (4%) Strand=Plus/Plus Query 288366 GATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTTTCTATAGAATCGCTCGATTCTAC 288425 ||| || |||||||||||||| || || ||||| || || || | ||||| | ||| || Sbjct 132017463 GATGCCCTCTTTATCCTGGATCTTGGCCTTCACATTCTCGAT-GGTTCGCTGGGTTCCAC 132017521 Query 288426 TTCGAGCG----TGATCGTCTTCCCGGTCAGAGTCTTGACGAATATCTGCATTATG 288477 ||| || | |||| ||||| |||||||| ||||| ||||| || |||||| || Sbjct 132017522 TTCTAGGGCGATTGATGGTCTTGCCGGTCAGGGTCTTCACGAAGATTTGCATTTTG 132017577 >seq312 Length=159970021 Score = 96.9 bits (106), Expect = 8e-15 Identities = 142/200 (71%), Gaps = 1/200 (1%) Strand=Plus/Plus Query 288283 TCTTTTTGGATATTATAGTCGGCGAGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAG 288342 ||||| ||||| || || || | ||| ||| | || ||||| | || || ||||| ||| Sbjct 54028856 TCTTTCTGGATGTTGTAATCAGAGAGGGTGTGGCCATCTTCCAGCTGCTTGCCTGCAAAG 54028915 Query 288343 ATCAGACGCTGTTGAGAATCTGGGATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTT 288402 || || | ||| || | ||||| || |||||||||||||| || || |||| ||| Sbjct 54028916 ATGAGCCTCTGCTGGTCAGG-GGGATACCCTCTTTATCCTGGATCTTGGCATTCATGTTC 54028974 Query 288403 TCTATAGAATCGCTCGATTCTACTTCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACG 288462 || || | || | | || || || || ||||| |||| | |||||| ||||| | | Sbjct 54028975 TCGATGGTGTCATTGGGCTCCACCTCCAGGGTGATGATCTTGCTGGTCAGGGTCTTCAAG 54029034 Query 288463 AATATCTGCATTATGTTATT 288482 || ||||| || |||| || Sbjct 54029035 AAGATCTGTTTTTTGTTTTT 54029054 >seq232 Length=115493446 Score = 93.3 bits (102), Expect = 1e-13 Identities = 134/189 (71%), Gaps = 0/189 (0%) Strand=Plus/Minus Query 288289 TGGATATTATAGTCGGCGAGCGTGCGTCCGTCTTCTAATTGTTTTCCTGCGAAGATCAGA 288348 ||||| | || || | ||| ||||| || ||||| | || || || || || || || Sbjct 36865994 TGGATGCTGTAATCAGAGAGGGTGCGGCCATCTTCCAGCTGCTTGCCGGCAAAAATGAGC 36865935 Query 288349 CGCTGTTGAGAATCTGGGATTCCTTCTTTATCCTGGATTTTCGCTTTCACGTTTTCTATA 288408 | ||| || | ||||| | || ||||||||||| || || ||||| || || || Sbjct 36865934 CTCTGCTGGTCAGGGGGGATGCTCTCCTTATCCTGGATCTTGGCCTTCACATTCTCGATG 36865875 Query 288409 GAATCGCTCGATTCTACTTCGAGCGTGATCGTCTTCCCGGTCAGAGTCTTGACGAATATC 288468 | || || | || || || || ||||| ||||| |||||||| ||||| ||||| || Sbjct 36865874 GTGTCACTGGGCTCCACCTCTAGGGTGATGGTCTTGCCGGTCAGGGTCTTCACGAAGATT 36865815 Query 288469 TGCATTATG 288477 |||||| || Sbjct 36865814 TGCATTTTG 36865806 >seq55 Length=177699992 Score = 91.5 bits (100), Expect = 3e-13 Identities = 149/214 (70%), Gaps = 2/214 (1%) Strand=Plus/Plus Query 288259 CTAAGTACGAGATGAATCGTGCTTTCTTTTTGGATATTATAGTCGGCGAGCGTGCGTCCG 288318 || || |||||||| | ||| || ||||| || || ||||| | | | || || Sbjct 38853847 CTCAGCACGAGATGGAGAGTGGACTCCTTTTGAATGTTGTAGTCTGACAA--TACGGCCA 38853904 Query 288319 TCTTCTAATTGTTTTCCTGCGAAGATCAGACGCTGTTGAGAATCTGGGATTCCTTCTTTA 288378 |||||| || || || || ||||||| | || ||| | || |||||||| ||| Sbjct 38853905 TCTTCTGGCTGCTTACCAGCAAAGATCAACCTTTGCTGATCAGGAGGAATTCCTTCCTTA 38853964 Query 288379 TCCTGGATTTTCGCTTTCACGTTTTCTATAGAATCGCTCGATTCTACTTCGAGCGTGATC 288438 |||||||| || || || || | |||||||| || | ||| || |||||| |||| Sbjct 38853965 TCCTGGATCTTGGCCTTTACATCTTCTATAGTGTCCGAGGGTTCAACCTCGAGCATGATG 38854024 Query 288439 GTCTTCCCGGTCAGAGTCTTGACGAATATCTGCA 288472 |||||||| | || | ||| || || ||||||| Sbjct 38854025 GTCTTCCCTGGAAGGGCCTTCACAAAAATCTGCA 38854058 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 1179639965822490