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_005179.1 Length=134721 Score E Sequences producing significant alignments: (Bits) Value seq536 226 2e-54 seq299 140 3e-28 seq260 122 7e-23 seq2 102 7e-17 seq64 82.4 7e-11 >seq536 Length=337149 Score = 226 bits (250), Expect = 2e-54 Identities = 576/868 (66%), Gaps = 50/868 (6%) Strand=Plus/Plus Query 12841 ATTTGACATAACAGACATTTTTTGATATTCGCTAACTCTTTTTTCAAAAAAGTTTGTTTT 12900 ||| ||||| || |||||| ||||| |||| |||| || ||||| ||||| ||||| Sbjct 201770 ATTCGACATCACTCCCATTTTCTGATACTCGCCTACTCCCTTCTCAAAGAAGTTAGTTTT 201829 Query 12901 TCCTTCTAACGAAATATTTTCCATAAAATCGAAAGGATTTT-----TCGAACAATAGTAT 12955 ||||||| |||||||| |||||||| | || ||||||| | ||| | | | Sbjct 201830 CCCTTCTAGTGAAATATTCTCCATAAAGTTAAATGGATTTTCTACTTTGAAAA----TCT 201885 Query 12956 TTTTTACACCCTAATTCTAGTAACAATCTGTCAGCAACAAACTCTATGTACTGTTTCATT 13015 | || | ||| ||| || | | || || || ||||| || |||||||| ||||| Sbjct 201886 TGTTAAAGCCCAGCTTC-AGCATAAGCCTATCTGCCACAAATTCAATGTACTGCTTCATC 201944 Query 13016 AAATCACAGTTCATTCCTATTAATTTTACAGGCATAGCTTCTGTTAAAAAGtttttttCT 13075 ||| || ||||| || |||| || |||||| |||||||| | || | | ||| Sbjct 201945 AAAGTGCAATTCATCCCAATTAGCTTCTCAGGCAAGGCTTCTGTGAGGAACTCCTGATCT 202004 Query 13076 ATATCAACTGCTTCGATAACTATGTCTCTTATTACGTTCTCTAATGGAGGATTTGAT--A 13133 || | | || | ||||| | | ||| ||| | | |||| |||| | ||| | Sbjct 202005 ATCTTGAAGGCATTGATAATTGTTTCTTTTACTCTCTGCTCTGATGGTT--TGTGAAGCA 202062 Query 13134 GATGCTTAAACATCATACATGCAAAATCACAGTGCAATCCTTCATCTCTACTTATTAGCT 13193 | || || | ||||| || ||||| |||||||| || || |||||||| || || || | Sbjct 202063 GGTGTTTGAGCATCAGGCAGGCAAAGTCACAGTGTAAACCCTCATCTCTGCTAATAAGTT 202122 Query 13194 CGTTTGAAAATGTTAGACCCGGCATAAGCCCTCGTTTTTTAATCCAAAATATAGCAGCAA 13253 | || |||||||| || || ||||| || |||||||| || | ||| Sbjct 202123 CATTGGAAAATGTGAGGCCAGGCATCAGTCCTCGTTTCTTGAGCCA-------------- 202168 Query 13254 ACGAACCCGaaaaaaaTATTCCTTCAACTGCTGCAAACGCTATCAAC-CTTTCACCATAC 13312 ||||| || |||| || | || ||||| |||| |||| | ||| ||||| Sbjct 202169 --------GAAAAGAAGATTCTGTCCATAGCAGCAAAGGCTA-CAACACGTTCTCCATAG 202219 Query 13313 GTACTATTTTTACTCTCTATCCACTTTCTGGCCCAGTTTGCTTTTTGTTTAACGCAGTTC 13372 ||| | ||| | | ||| | | |||||| | ||||| | || || || | Sbjct 202220 GTAGCCTCTTTGTCCCCAATCAAATGCAAGGCCCA--TGGCTTTCTTCTTCACACAAGGC 202277 Query 13373 ATATTTTCTATTGCGTTAAATAAATAAtttttttCCTTACTGTCTAAAATATAAGTATCT 13432 || |||| | || || || | | | | |||| || |||| ||||||||| || Sbjct 202278 ATTGTTTCAGTGGCATTGAAGAGAAATTCCCTTTCTTTGAAGTCTTTAATATAAGTGTCA 202337 Query 13433 ATCAATAAG-CTATACATTTCTGAATGAATATTTTCCATCGCTATTTGGAAACCATAAAA 13491 || || ||| ||||||||||| ||||| || |||||||| || |||||||| ||||| || Sbjct 202338 AT-AAGAAGACTATACATTTCAGAATGTATGTTTTCCATGGCAATTTGGAAGCCATAGAA 202396 Query 13492 ACATCTAGCCTCTGATACCTGAACTTCGGAGTAAAATCTTTCTGCTAAGTTTTCGTTAAC 13551 || | || |||| | |||||||| | |||| || | || || || || || Sbjct 202397 ACTGCGGGCTTCTGTAATTTGAACTTCTTGGCTAAATGGCTCCACCAAATTCTCCTTTAC 202456 Query 13552 TATCCCGTCACTAGCAGCaaaaaaaGCAAGTATGTGCTTAATAAAttttttttC---GTT 13608 ||| | |||| || ||| | ||||| || ||||| || |||| || || | | Sbjct 202457 TATGCTATCACCTGCCGCAGAGAAAGCCAGAATGTGGATATAAAATATTGTTCCTCAGGC 202516 Query 13609 TTCTGACAACTTTAACCAATCTGGAAAATCTTTTGATAAATCTACCTCCTCAACGGTCCA 13668 ||| | ||| ||| | ||| || | || | | | ||||||||| | ||||| Sbjct 202517 TTC--AGGGCTT--CCCAGTGCTGAATGTCCCTGGA-AGAGCCACCTCCTCAGCTGTCCA 202571 Query 13669 AAAAGAAGCAACAGCCTTCTTATACATC 13696 ||| ||||| |||| |||||| ||||| Sbjct 202572 AAAGGAAGCCTCAGCTTTCTTACACATC 202599 >seq299 Length=1791600 Score = 140 bits (154), Expect = 3e-28 Identities = 286/422 (68%), Gaps = 6/422 (1%) Strand=Plus/Minus Query 12863 TGATATTCGCTAACTCTTTTTTCAAAAAAGTTTGTTTTTCCTTCTAACGAAATATTTTCC 12922 ||||| || |||| |||| ||||| || |||||||| |||||||| ||||| |||||| Sbjct 1083428 TGATACTCTGAAACTTTTTTCTCAAAGAAATTTGTTTTCCCTTCTAAAGAAATGTTTTCC 1083369 Query 12923 ATAAAATCGAAAGGATTTTTCGAACAATAGTATTTTTTACACCCTAATTCTAGTAACAAT 12982 |||||||| || ||||||| | | | ||| | || | ||| | | ||| Sbjct 1083368 ATAAAATCAAAGGGATTTTCTGCCTGAAAAACCTTTGAGAATCCAAGTTCCATAAGTAAT 1083309 Query 12983 CTGTCAGCAACAAACTCTATGTACTGTTTCATTAAATCACAGTTCATTCCTATTAATTTT 13042 || ||||| | ||| || || ||||| |||| ||| |||||||||| | || | Sbjct 1083308 CTTTCAGCTATAAATTCAATATACTGGCTCATCAAAACACAGTTCATCCTAATGAGGCCA 1083249 Query 13043 ACAGGCATAGCTTCTGTTAAAAAGtttttttCTATATCAACTGCTTCGATAACTATGTCT 13102 || |||| ||||||||||||| | | || || | || || | | || || || Sbjct 1083248 ACTGGCAAGTCTTCTGTTAAAAACTCCTGCTCAATTTTGACAGCATTAACAATGATCTCC 1083189 Query 13103 CTTATTACGTTCTCTAATGGAG---GATTTGATAGATGCTTAAACATCATACATGCAAAA 13159 || | | || ||| || || |||| || | || ||||| | || ||||| Sbjct 1083188 CTCA--CCCTTTTCTTCTGAAGTCTTATTTACTAAGTACTGAAACACTAGGCAAGCAAAG 1083131 Query 13160 TCACAGTGCAATCCTTCATCTCTACTTATTAGCTCGTTTGAAAATGTTAGACCCGGCATA 13219 ||| || | | | |||||||||| | || ||||| || |||||||| || || || || Sbjct 1083130 TCATAGAGAAGTTCTTCATCTCTGTTGATCAGCTCATTGGAAAATGTGAGTCCAGGGATG 1083071 Query 13220 AGCCCTCGTTTTTTAATCCAAAATATAGCAGCAAACGAACCCGaaaaaaaTATTCCTTCA 13279 | |||| || || | ||| || |||| |||||| || || | || || |||||||| Sbjct 1083070 GGACCTCTCTTCTTTAACCAGAAAATAGTAGCAAA-GATCCTCAGAAGAAAATTCCTTCC 1083012 Query 13280 AC 13281 || Sbjct 1083011 AC 1083010 Score = 96.9 bits (106), Expect = 3e-15 Identities = 208/304 (68%), Gaps = 9/304 (3%) Strand=Plus/Minus Query 13187 ATTAGCTCGTTTGAAAATGTTAGACCCGGCATAAGCCCTCGTTTTTTAATCCAAAATATA 13246 || ||||| || |||||||| || || || || | |||| || || | ||| || ||| Sbjct 1082836 ATAAGCTCATTGGAAAATGTAAGTCCAGGGATGGGACCTCTCTTCTTTAACCAGAAAATA 1082777 Query 13247 GCAGCAAACGAACCCGaaaaaaaTATTCCTTCAACTG--CTGCAAACGCTATCAACCTTT 13304 |||||||| || || || || || |||||||| || | ||| | || | || |||| Sbjct 1082776 GCAGCAAAAGATCCTGAGAAGAAAATTCCTTCCACAGAACTG--ATGGCCACCACTCTTT 1082719 Query 13305 CACCATACGTACTATTTTTACTCT-CTATCCACTTTCTGGCCCAGTTTGCTTTTTGT-TT 13362 | ||| | ||| ||| || ||| ||||||| |||||||| |||||||| | || Sbjct 1082718 CCCCAAAAGTAGACTTTCTA-TCTACTATCCATCACAGGGCCCAGTCTGCTTTTTTTCTT 1082660 Query 13363 AACGCAGTTCATATTTTCTATTGCGTTAAATAAATAAtttttttCCTTACTGTCTAAAAT 13422 |||| | ||| ||| ||||| ||||||||| | | || ||| ||| || Sbjct 1082659 AACGTATGGCATTGTTTTAATTGCATTAAATAAAAATTCCCCTTTCTTGGAATCTCTGAT 1082600 Query 13423 ATAAGTATCTATCAATAAGCTATACATTTCTGAATGAATATTTTCCATCGCTATTTGGAA 13482 |||||||||| | || |||| || | ||| |||| ||| | || ||||| || Sbjct 1082599 TCAAGTATCTATTAGCAAACTAT--ATCTTTGAGTGAACATTCTTTATGAGAATTTGAAA 1082542 Query 13483 ACCA 13486 |||| Sbjct 1082541 ACCA 1082538 >seq260 Length=2306558 Score = 122 bits (134), Expect = 7e-23 Identities = 391/599 (65%), Gaps = 11/599 (2%) Strand=Plus/Plus Query 12980 AATCTGTCAGCAACAAACTCTATGTACTGTTTCATTAAATCACAGTTCATTCCTATTAAT 13039 || |||| || || || || || ||||| ||||| ||| ||||| || || | || Sbjct 2180113 AACCTGTGTGCCACGAATTCAATATACTGCTTCATCAAAGTGCAGTTTATCCCAGTGAAC 2180172 Query 13040 TTTACAGGCATAGCTTCTGTTAAAAAGtttttttCTATATCAACTGCTTCGATAACTATG 13099 || ||||||| ||| || | | || | | ||||| || || | ||||| ||| Sbjct 2180173 TTCACAGGCAAAGCCTCCATGATGAACTCCTGTTCTAAGCTGACAGCATTGATAAATATT 2180232 Query 13100 TCTCTTATTACGTTCTCTAATGGAGGATTTGATAGATGCTTAAACATCATACATGCAAAA 13159 ||| ||| | | ||| ||||| | | || || || ||||||| || ||| | Sbjct 2180233 TCTTTTACTCTCTGCTCCAATGGTTTGTGTAGCAGGTGTTTGAACATCAGGCAAGCAGAG 2180292 Query 13160 TCACAGTGCAATCCTTCATCTCTACTTATTAGCTCGTTTGAAAATGTTAGACCCGGCAT- 13218 ||| | | || || |||||||| || || || || | |||| | ||| || ||||| Sbjct 2180293 TCATAAAGTAAACCCTCATCTCTGCTAATAAGTTCACTGGAAACT--TAGGCCAGGCATC 2180350 Query 13219 AAGCCCTCGTTTTTTAATCCAAAATATAGCAGCAAACGAACCCGaaaaaaaTATTCCTTC 13278 || |||| |||| || | | | ||||| | |||| ||| | | || || ||||||| Sbjct 2180351 AATCCCT-GTTTCTTGAACTAGAATATTGATTCAAAAGAAACATAGAAGAAGTTTCCTTC 2180409 Query 13279 AACTGCTGCAAACGCTATCAAC-CTTTCACCATACGTACTATTTTTACTCTCTATCCACT 13337 || || |||| |||| |||| | ||| | || ||| | ||| | | ||||| | Sbjct 2180410 CACAGCCACAAAGGCTA-CAACACATTCTCTGTAGGTAGCTTCTTTGTCCCCAATCCAAT 2180468 Query 13338 TTCTGGCCCAGTTTGCTTTTTGTTTAACGCAGTTCATATTTTCTATTGCGTTAAATAAAT 13397 | || | |||||||||| || || | ||| |||| || || || || | | Sbjct 2180469 GCAAGACCTAATTTGCTTTTTTCTTTACATAAGGCATTGTTTCAATGGCATTGAAGAGAA 2180528 Query 13398 AAtttttttCCTTACTGTCTAAAATATAAGTATCTATCAATAAGCTATACATTTCTGAAT 13457 | | |||| || ||| | ||||| || || | | ||||||||||| ||| Sbjct 2180529 ATTCCCTTTCTTTGAAATCT----TTTAAGTGTCAATAAGGAGACTATACATTTCACAAT 2180584 Query 13458 GAATATTTTCCATCGCTATTTGGAAACCATAAAAACATCTAGCCTCTGATACCTGAACTT 13517 | | |||| ||| || |||||||| |||| ||||| | | |||| | ||||||| Sbjct 2180585 GTA-GTTTTTCATGGCAATTTGGAAGTCATAGAAACAGTGAACTTCTGTAATTTGAACTT 2180643 Query 13518 CGGAGTAAAATCTTTCTGCTAAGTTTTCGTTAACTATCCCGTCACTAGCAGCaaaaaaa 13576 | | |||| || | || ||||| || ||||| || ||||| || ||||| ||| Sbjct 2180644 CCTGGCTTAATCACTCCACCAAATTTTCATTTACTATGCCATCACTTGCTGCAAAGAAA 2180702 >seq2 Length=46620681 Score = 102 bits (112), Expect = 7e-17 Identities = 104/136 (76%), Gaps = 0/136 (0%) Strand=Plus/Minus Query 13173 CTTCATCTCTACTTATTAGCTCGTTTGAAAATGTTAGACCCGGCATAAGCCCTCGTTTTT 13232 |||||||||| || || || || || |||||||| || || ||||| || |||| || | Sbjct 41377777 CTTCATCTCTGCTGATCAGTTCATTGGAAAATGTGAGCCCAGGCATGAGACCTCTCTTCT 41377718 Query 13233 TAATCCAAAATATAGCAGCAAACGAACCCGaaaaaaaTATTCCTTCAACTGCTGCAAACG 13292 | | ||| |||||||||||||| || || || || || |||||||| || || ||||| | Sbjct 41377717 TTAGCCAGAATATAGCAGCAAAAGATCCTGAGAAGAAAATTCCTTCCACAGCAGCAAAGG 41377658 Query 13293 CTATCAACCTTTCACC 13308 | | || ||||| || Sbjct 41377657 CCACCACTCTTTCCCC 41377642 Score = 84.2 bits (92), Expect = 2e-11 Identities = 70/86 (81%), Gaps = 0/86 (0%) Strand=Plus/Minus Query 12980 AATCTGTCAGCAACAAACTCTATGTACTGTTTCATTAAATCACAGTTCATTCCTATTAAT 13039 ||||||||||| |||||||| || ||||||||||| ||| |||||||||| || || | Sbjct 41384689 AATCTGTCAGCTACAAACTCAATATACTGTTTCATCAAAACACAGTTCATCCCAATGAGG 41384630 Query 13040 TTTACAGGCATAGCTTCTGTTAAAAA 13065 || |||| |||||||||||||| Sbjct 41384629 CCAACTGGCAAGGCTTCTGTTAAAAA 41384604 Score = 84.2 bits (92), Expect = 2e-11 Identities = 66/79 (84%), Gaps = 0/79 (0%) Strand=Plus/Minus Query 12863 TGATATTCGCTAACTCTTTTTTCAAAAAAGTTTGTTTTTCCTTCTAACGAAATATTTTCC 12922 ||||| || ||||| ||| ||||| || |||||||| |||||||| ||||| |||||| Sbjct 41397863 TGATACTCTGAAACTCGTTTCTCAAAGAAATTTGTTTTCCCTTCTAAAGAAATGTTTTCC 41397804 Query 12923 ATAAAATCGAAAGGATTTT 12941 |||||||| || ||||||| Sbjct 41397803 ATAAAATCAAAGGGATTTT 41397785 >seq64 Length=9676502 Score = 82.4 bits (90), Expect = 7e-11 Identities = 81/105 (77%), Gaps = 0/105 (0%) Strand=Plus/Minus Query 13414 GTCTAAAATATAAGTATCTATCAATAAGCTATACATTTCTGAATGAATATTTTCCATCGC 13473 |||| ||| ||||| || || | | ||||||||||| ||||| || |||||||| || Sbjct 6349678 GTCTTTAATGTAAGTGTCAATAAGGAGACTATACATTTCAGAATGTATGTTTTCCATGGC 6349619 Query 13474 TATTTGGAAACCATAAAAACATCTAGCCTCTGATACCTGAACTTC 13518 |||||||| ||||| ||||| | || |||| || |||||||| Sbjct 6349618 AATTTGGAAGCCATAGAAACAGCGGGCTTCTGTAACTTGAACTTC 6349574 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 430916831819166