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: Ictidomys_20tridecemlineatus_20[refseq_20GCF_5F000236235.1_202011- 11-29] 12,483 sequences; 2,478,393,770 total letters Query= NC_001266.1 Length=159857 Score E Sequences producing significant alignments: (Bits) Value seq536 208 8e-49 seq299 165 8e-36 seq260 165 8e-36 seq59 113 5e-20 seq64 107 2e-18 seq2 102 8e-17 >seq536 Length=337149 Score = 208 bits (230), Expect = 8e-49 Identities = 584/888 (66%), Gaps = 40/888 (5%) Strand=Plus/Plus Query 15902 ACACCCATTCTTTGGTAATCACTAACGCGTTTTTCGAAGAAGTTAGTTTTTCCCTCTAAA 15961 || |||||| | || || || | || | || || |||||||||||||| || |||| Sbjct 201780 ACTCCCATTTTCTGATACTCGCCTACTCCCTTCTCAAAGAAGTTAGTTTTCCCTTCTAGT 201839 Query 15962 GATATATTTTCCATAAAATCAAAGGGATTAGTAGCT--GAAAATATC-TTAGAGTACCCC 16018 || ||||| |||||||| | ||| ||||| || |||||| | ||| || ||| Sbjct 201840 GAAATATTCTCCATAAAGTTAAATGGATTTTCTACTTTGAAAATCTTGTTAAAG---CCC 201896 Query 16019 AG-TTCCGTAACTAATC-TATCTGCTACAAATTCTATATATTGACACATTAAGTCGCAAT 16076 || ||| | | ||| | ||||||| |||||||| || || || ||| || ||||| Sbjct 201897 AGCTTCAGCA--TAAGCCTATCTGCCACAAATTCAATGTACTGCTTCATCAAAGTGCAAT 201954 Query 16077 TAATTCCTATAAGTCGTACCGGAAGAGCTTTTGTTAAAAATTGTTGTTCTATCACAACCG 16136 | || || || || | || | |||| ||| | || | || |||||| | | Sbjct 201955 TCATCCCAATTAGCTTCTCAGGCAAGGCTTCTGTGAGGAACTCCTGATCTATCTTGAAGG 202014 Query 16137 CTTCTTTAATGATATCGGTGGCTCGTGTTTCAGACGGTGTATGGTTTAGGTGTTTAAACA 16196 | | |||| | || | ||| || || ||| | || |||||||| | || Sbjct 202015 CATTGATAATTGTTTCTTTTACTCTCTGCTCTGATGGTTTGTGAAGCAGGTGTTTGAGCA 202074 Query 16197 TTAGACACGCGAAGTCGCAATGTAGTCCTTCGTCTCTGCTGATAAGTTCGTTGGAAAAAG 16256 | || || || ||||| || |||| || || |||||||| |||||||| |||||||| | Sbjct 202075 TCAGGCAGGCAAAGTCACAGTGTAAACCCTCATCTCTGCTAATAAGTTCATTGGAAAATG 202134 Query 16257 TTAACCCTGGCATTTTTCCTCGTTTCTTTAACCAGAATATCGCAGCAAATGACCCCGAAA 16316 | | || ||||| ||||||||||| ||| || |||| Sbjct 202135 TGAGGCCAGGCATCAGTCCTCGTTTCT----------------------TGAGCCAGAAA 202172 Query 16317 AGAATATACCCTCAACAGATGCAAAAGCGATTAATCGTTCCGCGTACGTAGCATCTTTAT 16376 |||| || | || | || ||||| || | | ||||| | || ||||| ||||| | Sbjct 202173 AGAAGATTCTGTCCATAGCAGCAAAGGCTACAACACGTTCTCCATAGGTAGCCTCTTTGT 202232 Query 16377 TACGAATCCATTTCTGTACCCATTCGGCTTTTTGTTTTATACAATCCATCGTTTCTATGG 16436 | |||| | | | ||||| |||||| | || | |||| ||| ||||| ||| Sbjct 202233 CCCCAATCAAATGCAAGGCCCAT--GGCTTTCTTCTTCACACAAGGCATTGTTTCAGTGG 202290 Query 16437 CCTT--AAACAATTTCTCTTTTTCCTGAATATCGATTATATACGTATCAATCAGTAAACT 16494 | || | | || ||| |||| | |||| || | ||||| || ||||| || | ||| Sbjct 202291 CATTGAAGAGAAATTCCCTTTCT-TTGAA-GTCTTTAATATAAGTGTCAATAAGAAGACT 202348 Query 16495 GTACATTTCTGAGTGTATGTTCTCTATGGCTATCTGAAATCCATAGAAGCATCGAGCCTC 16554 |||||||| || |||||||| || ||||| || || || |||||||| | || || || Sbjct 202349 ATACATTTCAGAATGTATGTTTTCCATGGCAATTTGGAAGCCATAGAAACTGCGGGCTTC 202408 Query 16555 CGCTATTTGTACTTCCACGTAAAATCGTTCCGCCAGGTTCTCATTCACGATACCGTCACT 16614 | ||||| ||||| | |||| | ||| ||| ||||| || || || | |||| Sbjct 202409 TGTAATTTGAACTTCTTGGCTAAATGGCTCCACCAAATTCTCCTTTACTATGCTATCACC 202468 Query 16615 TGCAGCAAAAAACGCCAATATGTGCTTAATGAAATATTTTTCGTCAGATGTAAGAATATG 16674 ||| ||| | || |||| ||||| | || ||||||| ||| |||| | || | Sbjct 202469 TGCCGCAGAGAAAGCCAGAATGTGGAT-ATAAAATATTGTTCCTCAGGCTTCAGGGCTTC 202527 Query 16675 CCAATCTTTTAAATCTTTGGATATATCCACTTCTTCTGGCGTCCAAAAGCTAGCCACTGC 16734 ||| | | | || |||| | | |||| || || | ||||||||| |||| | || Sbjct 202528 CCAGTGCTGAATGTCCCTGGA-AGAGCCACCTCCTCAGCTGTCCAAAAGGAAGCCTCAGC 202586 Query 16735 CTTTTTATACATTTTCCAAATATCATTGTATTGTATGGGAAATACGAC 16782 || ||| |||| | || ||| ||| || || || ||||| | ||| Sbjct 202587 TTTCTTACACATCTGCCGGATACCATGGTGTTCCATAGGAAAGATGAC 202634 >seq299 Length=1791600 Score = 165 bits (182), Expect = 8e-36 Identities = 284/407 (70%), Gaps = 4/407 (1%) Strand=Plus/Minus Query 15931 TTTTTCGAAGAAGTTAGTTTTTCCCTCTAAAGATATATTTTCCATAAAATCAAAGGGA-T 15989 ||| || ||||| || ||||| || |||||||| || ||||||||||||||||||||| | Sbjct 1083411 TTTCTCAAAGAAATTTGTTTTCCCTTCTAAAGAAATGTTTTCCATAAAATCAAAGGGATT 1083352 Query 15990 TAGTAGCTGAAAATATCTTAGAGTACCCCAGTTCCGTAACTAATCTATCTGCTACAAATT 16049 | | ||||||| | ||| ||| | || |||||| ||| |||||| || |||| ||||| Sbjct 1083351 TTCTGCCTGAAAA-ACCTTTGAGAATCCAAGTTCCATAAGTAATCTTTCAGCTATAAATT 1083293 Query 16050 CTATATATTGACACATTAAGTCGCAATTAATTCCTATAAGTCGTACCGGAAGAGCTTTTG 16109 | ||||| || | ||| || | || || || | || || | || || | ||| || Sbjct 1083292 CAATATACTGGCTCATCAAAACACAGTTCATCCTAATGAGGCCAACTGGCAAGTCTTCTG 1083233 Query 16110 TTAAAAATTGTTGTTCTATCACAACCGCTTCTTTAATGATATCGGTGGCTCGTGT-TTCA 16168 ||||||| | || || || || || | |||||| || | | | | | ||| Sbjct 1083232 TTAAAAACTCCTGCTCAATTTTGACAGCATTAACAATGATCTCCCTCACCCTTTTCTTCT 1083173 Query 16169 GACGGTGTATGGTTTAGGTGTTTAAACATTAGACACGCGAAGTCGCAATGTAGTCCTTCG 16228 || | ||| || || | ||||| ||| || || ||||| | | ||| |||| Sbjct 1083172 GAAGTCTTATTTACTAAGTACTGAAACACTAGGCAAGCAAAGTCATAGAGAAGTTCTTCA 1083113 Query 16229 TCTCTGCTGATAAGTTCGTTGGAAAAAGTTAACCCTGGCATTTTTCCTCGTTTCTTTAAC 16288 |||||| |||| || || |||||||| || | || || || |||| ||||||||| Sbjct 1083112 TCTCTGTTGATCAGCTCATTGGAAAATGTGAGTCCAGGGATGGGACCTCTCTTCTTTAAC 1083053 Query 16289 CAGAATATCGCAGCAAATGACCCCGAAAAGAATATACCCTCAACAGA 16335 ||||| || | |||||| || || | ||||| || || || ||||| Sbjct 1083052 CAGAAAATAGTAGCAAA-GATCCTCAGAAGAAAATTCCTTCCACAGA 1083007 Score = 82.4 bits (90), Expect = 8e-11 Identities = 208/308 (68%), Gaps = 9/308 (3%) Strand=Plus/Minus Query 16237 GATAAGTTCGTTGGAAAAAGTTAACCCTGGCATTTTTCCTCGTTTCTTTAACCAGAATAT 16296 |||||| || |||||||| || | || || || |||| |||||||||||||| || Sbjct 1082837 GATAAGCTCATTGGAAAATGTAAGTCCAGGGATGGGACCTCTCTTCTTTAACCAGAAAAT 1082778 Query 16297 CGCAGCAAATGACCCCGAAAAGAATATACCCTCAACAGATGCAAAAGCGATTAATCGTTC 16356 |||||||| || || || ||||| || || || ||||| | || | | || ||| Sbjct 1082777 AGCAGCAAAAGATCCTGAGAAGAAAATTCCTTCCACAGAACTGATGGCCACCACTCTTTC 1082718 Query 16357 CGCGTACGTAGCATCTTTAT-TACGAATCCATTTCTGTACCCATTCGGCTTTTTGTTTTA 16415 | | | |||| | | ||| ||| |||||| | | |||| || ||||||| | ||| Sbjct 1082717 CCCAAAAGTAGACTTTCTATCTAC-TATCCATCACAGGGCCCAGTCTGCTTTTTTTCTTA 1082659 Query 16416 TACAAT-CCATCGTTTCTATGGCCTTAA--ACAATTTCTCTTTTTCCTGAATATCGATTA 16472 || ||| |||| || || |||| | || ||| | |||| || | ||| | | Sbjct 1082658 ACGTATGGCATTGTTTTAATTGCATTAAATAAAAATTC-CCCTTTCTTGGA-ATCTCTGA 1082601 Query 16473 TATACGTATCAATCAGTAAACTGTACATTTCTGAGTGTATGTTCTCTATGGCTATCTGAA 16532 | | ||||| || || |||| || || | |||||| | |||| |||| || |||| Sbjct 1082600 TTCAAGTATCTATTAGCAAAC--TATATCTTTGAGTGAACATTCTTTATGAGAATTTGAA 1082543 Query 16533 ATCCATAG 16540 | ||| || Sbjct 1082542 AACCACAG 1082535 >seq260 Length=2306558 Score = 165 bits (182), Expect = 8e-36 Identities = 400/601 (67%), Gaps = 11/601 (2%) Strand=Plus/Plus Query 16184 AGGTGTTTAAACATTAGACACGCGAAGTCGCAATGTAGTCCTTCGTCTCTGCTGATAAGT 16243 |||||||| ||||| || || || |||| || ||| || || |||||||| |||||| Sbjct 2180266 AGGTGTTTGAACATCAGGCAAGCAGAGTCATAAAGTAAACCCTCATCTCTGCTAATAAGT 2180325 Query 16244 TCGTTGGAAAAAGTTAACCCTGGCATTTTTCCTCGTTTCTTTAACCAGAATATCGCAGCA 16303 || |||||| ||| || ||||| ||| ||||||| ||| ||||||| | || Sbjct 2180326 TCACTGGAAAC--TTAGGCCAGGCATCAATCCCTGTTTCTTGAACTAGAATATTGATTCA 2180383 Query 16304 AATGACCCCGAAAAGAATATACCCTCAACAGATGCAAAAGCGATTAATCGTTCCGCGTAC 16363 || || | | ||||| | || || |||| |||| || | | | ||| ||| Sbjct 2180384 AAAGAAACATAGAAGAAGTTTCCTTCCACAGCCACAAAGGCTACAACACATTCTCTGTAG 2180443 Query 16364 GTAGCATCTTTATTACGAATCCATTTCTGTACCCATTCGGCTTTTTGTTTTATACAATCC 16423 ||||| ||||| | | |||||| | | ||| | | ||||||| |||| | || | Sbjct 2180444 GTAGCTTCTTTGTCCCCAATCCAATGCAAGACCTAATTTGCTTTTTTCTTTACATAAGGC 2180503 Query 16424 ATCGTTTCTATGGCCTTAAACA--ATTTCTCTTTTTCCTGAATATCGATTATATACGTAT 16481 || ||||| ||||| || || | | ||| |||| | |||| || | || || | Sbjct 2180504 ATTGTTTCAATGGCATTGAAGAGAAATTCCCTTTCTT-TGAA-----ATCTTTTAAGTGT 2180557 Query 16482 CAATCAGTAAACTGTACATTTCTGAGTGTATGTTCTCTATGGCTATCTGAAATCCATAGA 16541 |||| || | ||| |||||||| | |||| || || ||||| || || || |||||| Sbjct 2180558 CAATAAGGAGACTATACATTTCACAATGTAGTTTTTC-ATGGCAATTTGGAAGTCATAGA 2180616 Query 16542 AGCATCGAGCCTCCGCTATTTGTACTTCCACGTAAAATCGTTCCGCCAGGTTCTCATTCA 16601 | || || | || | ||||| |||||| | |||| ||| ||| || ||||| | Sbjct 2180617 AACAGTGAACTTCTGTAATTTGAACTTCCTGGCTTAATCACTCCACCAAATTTTCATTTA 2180676 Query 16602 CGATACCGTCACTTGCAGCAAAAAACGCCAATATGTGCTTAATGAAATATTTTTCGTCAG 16661 | || || |||||||| ||||| || || || || || |||||| ||| |||| Sbjct 2180677 CTATGCCATCACTTGCTGCAAAGAAATTCATAATATGAGACATAAAATATCATTCCTCAG 2180736 Query 16662 ATGTAAGAATATGCCAATCTTTTAAATCTTTGGATATATCCACTTCTTCTGGCGTCCAAA 16721 || | || | | | | | || ||||| ||| |||| || | ||| ||| Sbjct 2180737 ATTTCAGGGCTTCCTAGTGCAGAATGTCCTTGGAAATAGCCACCTCCCCATATGTCAAAA 2180796 Query 16722 AGCTAGCCACTGCCTTTTTATACATTTTCCAAATATCATTGTATTGTATGGGAAATACGA 16781 || | | | ||||| ||| | || | ||||||||||| |||| || ||||| | || Sbjct 2180797 AGGAACCTTCAGCCTTCTTAGAAATCTGCCAAATATCATGGTATCTGATAGGAAAGAAGA 2180856 Query 16782 C 16782 | Sbjct 2180857 C 2180857 >seq59 Length=10161055 Score = 113 bits (124), Expect = 5e-20 Identities = 363/558 (65%), Gaps = 18/558 (3%) Strand=Plus/Minus Query 16217 TGTAGTCCTTCGTCTCTGCTGATAAGTTCGTTGGAAAAAGTTAACCCTGGCATTTTTCCT 16276 |||| || |||||||||||||||||||| |||||||| || | || ||||| Sbjct 9902956 TGTAAACCCTCGTCTCTGCTGATAAGTTCATTGGAAAATGTGAGGCCAGGCAT------- 9902904 Query 16277 CGTTTCTTT--AACCAGAATATCGCAGCAAATGACCCCGAAAAGAATATACCCTCAACAG 16334 | ||||| | ||| ||||| | |||||||| || |||||||| || | | || Sbjct 9902903 CAGTTCTTATGAGCCAAAATATTGATGCAAATGAGCCAGAAAAGAAGATTTCTCCCGTAG 9902844 Query 16335 ATGCAAAAGCGATTAATCGTTCCGCGTACGTAGCATCTTTATTACGAATCCATTTCTGTA 16394 || || | | | |||| ||| ||||| ||||| | | | |||| | Sbjct 9902843 TGGCCAAGACTACAACACGTTTTCTGTAGGTAGCTTCTTTGTCCCCAGTCCAACACAAGG 9902784 Query 16395 CCCATTCGGCTTTTTGTTTTATACAATCCATCGTTTCTATGGCCTT--AAACAATTTCTC 16452 | || || ||||| | || | ||| |||| |||| ||||| | | | || ||| | Sbjct 9902783 CACAGTCTGCTTTCTTCTTCACCCAAGGCATCATTTCAATGGCACTGGAGAGAAATTCCC 9902724 Query 16453 TTTTTCCTGAATATCGATTATATACGTATCAATCAGTAAACTGTACATTTCTGAGTGTAT 16512 | | | |||| | | | || | || |||| || | || || ||||| || ||||| Sbjct 9902723 TGTCTTAGGAATTTTTAATGTAAATGT--CAATAAGGAGACCATATATTTCAGAATGTAT 9902666 Query 16513 GTTCTCTATGGCTATCTGAAATCCATAGAAGCATCGAGCCTCCGCTATTTGTACTTCCAC 16572 ||| || || || | || || ||| |||| || | || || ||||| || || Sbjct 9902665 GTTTTCCATAGCAACTTGGAAGCCACAGAAACAGCCGGCTTCTATAATTTGAACCTCTTG 9902606 Query 16573 GTAAAATCGTTCCGCCAGGTTCTCATTCACGATACCGTCACTTGCAGCAAAAAACGCCA- 16631 | |||||| | | |||| || ||| | | || || |||| ||| |||| || || | Sbjct 9902605 GCTAAATCGCTGCACCAGATTTTCACTTGCTATGCCATCACGTGCTTCAAAGAAAGCTAG 9902546 Query 16632 -ATATGTGCTTAATGAAATATTTTTCGTCAGATGTAAGAATATGCCAATCTTTTAAATCT 16690 | ||||| | || |||||| ||| |||| | || |||| | | || Sbjct 9902545 AACATGTGAT--ATAAAATATCATTCCTCAGGCTTCAGGGCCTGCCGGTGCTGACTGTCC 9902488 Query 16691 TTGGATATATCCACTTCTTCTGGCGTCCAAAAGCTAGCCACTGCCTTTTTATACATTTTC 16750 ||||| | |||||| || || | ||||| ||| ||| | || || |||||||||| | Sbjct 9902487 TTGGAAAGATCCACCTCCTCCGCTGTCCAGAAGGACGCCTCGGCTTTCTTATACATTTGC 9902428 Query 16751 CAAATATCATTGT-ATTG 16767 |||||||||| || |||| Sbjct 9902427 CAAATATCATGGTGATTG 9902410 >seq64 Length=9676502 Score = 107 bits (118), Expect = 2e-18 Identities = 95/119 (80%), Gaps = 0/119 (0%) Strand=Plus/Minus Query 16226 TCGTCTCTGCTGATAAGTTCGTTGGAAAAAGTTAACCCTGGCATTTTTCCTCGTTTCTTT 16285 || |||||||| |||||||| |||||||| || | || ||||| |||||||||||| Sbjct 6351545 TCATCTCTGCTAATAAGTTCATTGGAAAATGTGAGGCCAGGCATCAGTCCTCGTTTCTTG 6351486 Query 16286 AACCAGAATATCGCAGCAAATGACCCCGAAAAGAATATACCCTCAACAGATGCAAAAGC 16344 | ||||||||| | |||||| || || |||||||| || ||||| |||| ||||| || Sbjct 6351485 AGCCAGAATATTGAAGCAAAAGAACCAGAAAAGAAGATTCCCTCCACAGCAGCAAAGGC 6351427 >seq2 Length=46620681 Score = 102 bits (112), Expect = 8e-17 Identities = 103/134 (77%), Gaps = 0/134 (0%) Strand=Plus/Minus Query 16224 CTTCGTCTCTGCTGATAAGTTCGTTGGAAAAAGTTAACCCTGGCATTTTTCCTCGTTTCT 16283 |||| ||||||||||| ||||| |||||||| || | ||| ||||| |||| |||| Sbjct 41377777 CTTCATCTCTGCTGATCAGTTCATTGGAAAATGTGAGCCCAGGCATGAGACCTCTCTTCT 41377718 Query 16284 TTAACCAGAATATCGCAGCAAATGACCCCGAAAAGAATATACCCTCAACAGATGCAAAAG 16343 ||| ||||||||| |||||||| || || || ||||| || || || |||| ||||| | Sbjct 41377717 TTAGCCAGAATATAGCAGCAAAAGATCCTGAGAAGAAAATTCCTTCCACAGCAGCAAAGG 41377658 Query 16344 CGATTAATCGTTCC 16357 | | | || |||| Sbjct 41377657 CCACCACTCTTTCC 41377644 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 511334600175560