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: Peromyscus_20maniculatus_20bairdii_20[refseq_20GCF_5F000500345.1_202 013-12-03] 30,921 sequences; 2,630,541,020 total letters Query= NC_001650.2 Length=184439 Score E Sequences producing significant alignments: (Bits) Value seq481 248 1e-60 seq874 127 2e-24 >seq481 Length=1457593 Score = 248 bits (274), Expect = 1e-60 Identities = 590/883 (67%), Gaps = 13/883 (1%) Strand=Plus/Minus Query 176373 CTTGTGTTTCTCTTTGGGTTGTTGGGCAATATCTTAGTGGTGATTATTGTCATAAGATAC 176432 || ||||| || |||| | ||||||| || | || ||| | || |||||| ||| Sbjct 175560 CTGGTGTTCATCATTGGCCTCCTGGGCAACATGGTGGTTGTGTTGATCCTCATAAAGTAC 175501 Query 176433 ATGAAGATCAAAAACCTCACTAACATGTTACTGTTAAACTTGGCAATATCTGACTTGCTA 176492 | |||| || ||| | ||||| || | ||| | ||||||||| | |||||| |||| Sbjct 175500 AGGAAGCTCCAAATTATGACTAATATTTACCTGCTCAACTTGGCAGTTTCTGACCTGCTC 175441 Query 176493 TTTCTTTTAACTTTGCCATTTTGGATGCACTATATTGGAATGTATCATGATTGGACTTTT 176552 | ||| || || | ||||| ||||| |||||| || ||| |||| ||| |||| Sbjct 175440 TCTCTCTTCACCATTCCATTCTGGATTCACTATGTTT---TGTGGAATGAGTGGCGTTTT 175384 Query 176553 GGTATTTCCCTGTGTAAACTGCTCAGGGGTGTGTGTTACATGTCACTGTACAGCCAGGTC 176612 || | | |||||||||| || || | | |||| | | |||||||| || | Sbjct 175383 GGCCATCACATGTGTAAACTAATCTCTGGGTTTTATTACCTTGCCTTGTACAGCGAGATA 175324 Query 176613 TTTTGCATCATCCTGCTAACAGTAGACAGGTATCTAGCTGTTGTCTATGCTGTAACTGCT 176672 |||| |||||||||||| || | |||||||| || || ||||| ||||||| ||| Sbjct 175323 TTTTTCATCATCCTGCTGACGATTGACAGGTACCTGGCCATTGTCCATGCTGTGTTTGCC 175264 Query 176673 TTGAGGTTTAGAACAGTAACCTGTGGCATAGTTACCTGTGTATGTACCTGGTTTCTGGCA 176732 | || | || || || | || | | ||| | | |||||| |||||| Sbjct 175263 CTTAGAGCCCGGACCGTGACTTTTGCTACCATCACCAGCATCATCACCTGGGGACTGGCA 175204 Query 176733 GGGTTGTTGTCCCTCCCTGAATTTTTCTTTCATGGACACCAAGATGACAATGGTAGGG-- 176790 ||| || | | ||||||||| |||| |||| |||||| | ||| || | Sbjct 175203 GGGCTGGCAGCATTACCTGAATTTATCTTCCATGAGTCCCAAGACAGCTTTGG-AGAGCC 175145 Query 176791 -TTCAGTGTGATCCTTACTACCCAGAGATGTCTACAA-ATGTTTGGAGGCGCGCCCACGT 176848 ||| |||| ||| |||||||| | || | || | |||| ||| ||| | Sbjct 175144 TTTC--TGTGGACCTCGTTACCCAGA-AGGTGAAGAAGACAGCTGGAAGCGTTTCCATGC 175088 Query 176849 TGCAAAGGTGATTATGTTAAGTCTCATTTTGCCTCTGCTCATTATGGCTGTCTGCTACTA 176908 | | ||| ||| || || | | | ||||| |||||||||| | ||||||| | Sbjct 175087 TCTGAGAATGAATATTTTTGGTTTAGCTCTCCCTCTCCTCATTATGGTTATCTGCTATTC 175028 Query 176909 TGTAATTATCAGAAGACTGTTGAGGCGCCCCAGCAAGAAGAAGTACAAGGCCATCAGGCT 176968 | ||| || | || ||| |||| |||||| || || ||| ||||||||||| |||| Sbjct 175027 AGGAATCATTAAAACTCTGCTGAGATGCCCCAATAAAAAAAAGGACAAGGCCATCCGGCT 174968 Query 176969 CATCTTTGTCATCATGGTGGCCTATTTTGTTTTTTGGACACCCTACAACATTGTTCTCCT 177028 || ||||| | ||| | | || |||| |||||||||| || |||||| | |||||||| Sbjct 174967 TATTTTTGTTGTTATGATAGTCTTTTTTATTTTTTGGACCCCATACAACCTGGTTCTCCT 174908 Query 177029 ACTGTCTACCTTTCACGCAACCCTTCTTAACCTGCAG-TGTGCATTGAGCAGTAACTTGG 177087 || ||| | |||||| | | || || ||| ||| | ||||| || ||| Sbjct 174907 TCTCTCTGCTTTTCACAGTA-CATTTTTGGAGAACAGCTGTCAACAGAGCAAACACCTGG 174849 Query 177088 ACATGGCTCTGCTGATAACAAAAACAGTAGCCTACACACACTGTTGCATCAACCCAGTGA 177147 || |||| ||| | || | | |||||||| || || || ||||||||||| | Sbjct 174848 ACCTGGCCATGCAAGTGACTGAGGTGATCGCCTACACCCATTGCTGTATCAACCCAGTCA 174789 Query 177148 TCTACGCGTTCGTGGGGGAGAAGTTTAGAAGACACCTGTACCACTTCTTCCACACCTACG 177207 |||| || || || || |||| ||| | | |||||| | ||| || |||| | | Sbjct 174788 TCTATGCCTTTGTTGGTGAGAGGTTCCGGAAACACCTTCGGCTCTTTTTTCACAGACATG 174729 Query 177208 TGGCCATCTACCTCTGCAAGTACATCCCCTTCCTGTCTGGTGA 177250 |||| |||||||| | || ||||| || ||||| ||||||| Sbjct 174728 TGGCAATCTACCTGGGGAAATACATTCCATTCCTTCCTGGTGA 174686 Score = 248 bits (274), Expect = 1e-60 Identities = 590/883 (67%), Gaps = 13/883 (1%) Strand=Plus/Minus Query 9487 CTTGTGTTTCTCTTTGGGTTGTTGGGCAATATCTTAGTGGTGATTATTGTCATAAGATAC 9546 || ||||| || |||| | ||||||| || | || ||| | || |||||| ||| Sbjct 175560 CTGGTGTTCATCATTGGCCTCCTGGGCAACATGGTGGTTGTGTTGATCCTCATAAAGTAC 175501 Query 9547 ATGAAGATCAAAAACCTCACTAACATGTTACTGTTAAACTTGGCAATATCTGACTTGCTA 9606 | |||| || ||| | ||||| || | ||| | ||||||||| | |||||| |||| Sbjct 175500 AGGAAGCTCCAAATTATGACTAATATTTACCTGCTCAACTTGGCAGTTTCTGACCTGCTC 175441 Query 9607 TTTCTTTTAACTTTGCCATTTTGGATGCACTATATTGGAATGTATCATGATTGGACTTTT 9666 | ||| || || | ||||| ||||| |||||| || ||| |||| ||| |||| Sbjct 175440 TCTCTCTTCACCATTCCATTCTGGATTCACTATGTTT---TGTGGAATGAGTGGCGTTTT 175384 Query 9667 GGTATTTCCCTGTGTAAACTGCTCAGGGGTGTGTGTTACATGTCACTGTACAGCCAGGTC 9726 || | | |||||||||| || || | | |||| | | |||||||| || | Sbjct 175383 GGCCATCACATGTGTAAACTAATCTCTGGGTTTTATTACCTTGCCTTGTACAGCGAGATA 175324 Query 9727 TTTTGCATCATCCTGCTAACAGTAGACAGGTATCTAGCTGTTGTCTATGCTGTAACTGCT 9786 |||| |||||||||||| || | |||||||| || || ||||| ||||||| ||| Sbjct 175323 TTTTTCATCATCCTGCTGACGATTGACAGGTACCTGGCCATTGTCCATGCTGTGTTTGCC 175264 Query 9787 TTGAGGTTTAGAACAGTAACCTGTGGCATAGTTACCTGTGTATGTACCTGGTTTCTGGCA 9846 | || | || || || | || | | ||| | | |||||| |||||| Sbjct 175263 CTTAGAGCCCGGACCGTGACTTTTGCTACCATCACCAGCATCATCACCTGGGGACTGGCA 175204 Query 9847 GGGTTGTTGTCCCTCCCTGAATTTTTCTTTCATGGACACCAAGATGACAATGGTAGGG-- 9904 ||| || | | ||||||||| |||| |||| |||||| | ||| || | Sbjct 175203 GGGCTGGCAGCATTACCTGAATTTATCTTCCATGAGTCCCAAGACAGCTTTGG-AGAGCC 175145 Query 9905 -TTCAGTGTGATCCTTACTACCCAGAGATGTCTACAA-ATGTTTGGAGGCGCGCCCACGT 9962 ||| |||| ||| |||||||| | || | || | |||| ||| ||| | Sbjct 175144 TTTC--TGTGGACCTCGTTACCCAGA-AGGTGAAGAAGACAGCTGGAAGCGTTTCCATGC 175088 Query 9963 TGCAAAGGTGATTATGTTAAGTCTCATTTTGCCTCTGCTCATTATGGCTGTCTGCTACTA 10022 | | ||| ||| || || | | | ||||| |||||||||| | ||||||| | Sbjct 175087 TCTGAGAATGAATATTTTTGGTTTAGCTCTCCCTCTCCTCATTATGGTTATCTGCTATTC 175028 Query 10023 TGTAATTATCAGAAGACTGTTGAGGCGCCCCAGCAAGAAGAAGTACAAGGCCATCAGGCT 10082 | ||| || | || ||| |||| |||||| || || ||| ||||||||||| |||| Sbjct 175027 AGGAATCATTAAAACTCTGCTGAGATGCCCCAATAAAAAAAAGGACAAGGCCATCCGGCT 174968 Query 10083 CATCTTTGTCATCATGGTGGCCTATTTTGTTTTTTGGACACCCTACAACATTGTTCTCCT 10142 || ||||| | ||| | | || |||| |||||||||| || |||||| | |||||||| Sbjct 174967 TATTTTTGTTGTTATGATAGTCTTTTTTATTTTTTGGACCCCATACAACCTGGTTCTCCT 174908 Query 10143 ACTGTCTACCTTTCACGCAACCCTTCTTAACCTGCAG-TGTGCATTGAGCAGTAACTTGG 10201 || ||| | |||||| | | || || ||| ||| | ||||| || ||| Sbjct 174907 TCTCTCTGCTTTTCACAGTA-CATTTTTGGAGAACAGCTGTCAACAGAGCAAACACCTGG 174849 Query 10202 ACATGGCTCTGCTGATAACAAAAACAGTAGCCTACACACACTGTTGCATCAACCCAGTGA 10261 || |||| ||| | || | | |||||||| || || || ||||||||||| | Sbjct 174848 ACCTGGCCATGCAAGTGACTGAGGTGATCGCCTACACCCATTGCTGTATCAACCCAGTCA 174789 Query 10262 TCTACGCGTTCGTGGGGGAGAAGTTTAGAAGACACCTGTACCACTTCTTCCACACCTACG 10321 |||| || || || || |||| ||| | | |||||| | ||| || |||| | | Sbjct 174788 TCTATGCCTTTGTTGGTGAGAGGTTCCGGAAACACCTTCGGCTCTTTTTTCACAGACATG 174729 Query 10322 TGGCCATCTACCTCTGCAAGTACATCCCCTTCCTGTCTGGTGA 10364 |||| |||||||| | || ||||| || ||||| ||||||| Sbjct 174728 TGGCAATCTACCTGGGGAAATACATTCCATTCCTTCCTGGTGA 174686 Score = 105 bits (116), Expect = 8e-18 Identities = 171/242 (71%), Gaps = 12/242 (5%) Strand=Plus/Minus Query 176943 AAGAAGAAGTACAAGGCCATCAGGCTCATCTTTGTCATCATGGTGGCCTATTTTGTTTTT 177002 ||||||| | ||| ||| | ||||| ||||||| ||||||| | | ||| ||| | || Sbjct 96992 AAGAAGAGGCACAGGGCTGTGAGGCTTATCTTTGCCATCATGATTGTCTACTTTATCTTC 96933 Query 177003 TGGACACCCTACAACATTGTTCTCCTACTGTCTACCTTTCACGCAACCCTTCTTA-ACCT 177061 ||||| |||||||||||||||||| | ||| ||||| || | | |||||| || Sbjct 96932 TGGACTCCCTACAACATTGTTCTCTTCCTGAACACCTTCCAGGAA----TTCTTAGGACT 96877 Query 177062 G-----CAGTGTGCATTGAGCAGTAACTTGGACATGGCTCTGCTGATAACAAAAACAGTA 177116 | | ||||| ||| || | |||| ||| ||| ||| | | ||| | || | Sbjct 96876 GAGTAACTGTGTG-GTTG-CCAATCACTTAGACCAGGCCATGCAGGTGACAGAGACTCTT 96819 Query 177117 GCCTACACACACTGTTGCATCAACCCAGTGATCTACGCGTTCGTGGGGGAGAAGTTTAGA 177176 | |||||||| ||||||||||| || || || || || || ||||||||||| || Sbjct 96818 GGAATGACACACTGCTGCATCAACCCTGTCATTTATGCCTTTGTTGGGGAGAAGTTCCGA 96759 Query 177177 AG 177178 || Sbjct 96758 AG 96757 Score = 105 bits (116), Expect = 8e-18 Identities = 171/242 (71%), Gaps = 12/242 (5%) Strand=Plus/Minus Query 10057 AAGAAGAAGTACAAGGCCATCAGGCTCATCTTTGTCATCATGGTGGCCTATTTTGTTTTT 10116 ||||||| | ||| ||| | ||||| ||||||| ||||||| | | ||| ||| | || Sbjct 96992 AAGAAGAGGCACAGGGCTGTGAGGCTTATCTTTGCCATCATGATTGTCTACTTTATCTTC 96933 Query 10117 TGGACACCCTACAACATTGTTCTCCTACTGTCTACCTTTCACGCAACCCTTCTTA-ACCT 10175 ||||| |||||||||||||||||| | ||| ||||| || | | |||||| || Sbjct 96932 TGGACTCCCTACAACATTGTTCTCTTCCTGAACACCTTCCAGGAA----TTCTTAGGACT 96877 Query 10176 G-----CAGTGTGCATTGAGCAGTAACTTGGACATGGCTCTGCTGATAACAAAAACAGTA 10230 | | ||||| ||| || | |||| ||| ||| ||| | | ||| | || | Sbjct 96876 GAGTAACTGTGTG-GTTG-CCAATCACTTAGACCAGGCCATGCAGGTGACAGAGACTCTT 96819 Query 10231 GCCTACACACACTGTTGCATCAACCCAGTGATCTACGCGTTCGTGGGGGAGAAGTTTAGA 10290 | |||||||| ||||||||||| || || || || || || ||||||||||| || Sbjct 96818 GGAATGACACACTGCTGCATCAACCCTGTCATTTATGCCTTTGTTGGGGAGAAGTTCCGA 96759 Query 10291 AG 10292 || Sbjct 96758 AG 96757 Score = 87.8 bits (96), Expect = 2e-12 Identities = 80/101 (79%), Gaps = 0/101 (0%) Strand=Plus/Minus Query 176943 AAGAAGAAGTACAAGGCCATCAGGCTCATCTTTGTCATCATGGTGGCCTATTTTGTTTTT 177002 ||||||| | ||||||| | ||||||||||||| ||||||| | | ||| ||| | || Sbjct 84312 AAGAAGAGGCACAAGGCTGTGAGGCTCATCTTTGCCATCATGATTGTCTACTTTATCTTC 84253 Query 177003 TGGACACCCTACAACATTGTTCTCCTACTGTCTACCTTTCA 177043 ||||| |||||||||||||| || || ||| ||||| || Sbjct 84252 TGGACTCCCTACAACATTGTCCTTCTCCTGATCACCTTCCA 84212 Score = 87.8 bits (96), Expect = 2e-12 Identities = 80/101 (79%), Gaps = 0/101 (0%) Strand=Plus/Minus Query 10057 AAGAAGAAGTACAAGGCCATCAGGCTCATCTTTGTCATCATGGTGGCCTATTTTGTTTTT 10116 ||||||| | ||||||| | ||||||||||||| ||||||| | | ||| ||| | || Sbjct 84312 AAGAAGAGGCACAAGGCTGTGAGGCTCATCTTTGCCATCATGATTGTCTACTTTATCTTC 84253 Query 10117 TGGACACCCTACAACATTGTTCTCCTACTGTCTACCTTTCA 10157 ||||| |||||||||||||| || || ||| ||||| || Sbjct 84252 TGGACTCCCTACAACATTGTCCTTCTCCTGATCACCTTCCA 84212 Score = 82.4 bits (90), Expect = 9e-11 Identities = 226/346 (65%), Gaps = 3/346 (1%) Strand=Plus/Plus Query 9470 TACCCGCCCTGTATCTGCTTGTGTTTCTCTTTGGGTTGTTGGGCAATATCTTAGTGGTGA 9529 |||| ||||||| || ||||| || |||| || | |||||| | | ||||| Sbjct 242234 TACCACCCCTGTACTCCCTGGTGTTCATCATTGGAGTGATAGGCAATGTTCTGGTGGTTC 242293 Query 9530 TTATTGTCATAAGATACATGAAGATCAAAAACCTCACTAACATGTTACTGTTAAACTTGG 9589 | | |||| |||| || | | || | | || | ||| | ||||| ||| ||| Sbjct 242294 TGGTGCTCATGCAGTACAGGAGGCTTCGAAGCATGACCAGCATCTACCTGTTCAACCTGG 242353 Query 9590 CAATATCTGACTTGCTATTTCTTTTAACTTTGCCATTTTGGATGCACTATATTGGAATGT 9649 | || ||||| || | |||||||| |||||||| || ||||| |||| | || Sbjct 242354 CCATCTCTGATCTGGTCTTTCTTTTCACTTTGCCTTTCTGGATTGACTACAAGC---TGA 242410 Query 9650 ATCATGATTGGACTTTTGGTATTTCCCTGTGTAAACTGCTCAGGGGTGTGTGTTACATGT 9709 | | | ||| ||||||| | || ||||||| || ||| || | | |||| || Sbjct 242411 AAGACAACTGGGTTTTTGGTGATGCCATGTGTAAGCTCCTCTCTGGGTTTTATTACCTGG 242470 Query 9710 CACTGTACAGCCAGGTCTTTTGCATCATCCTGCTAACAGTAGACAGGTATCTAGCTGTTG 9769 | ||||| || | || | ||||||||||| || | |||||||| || ||| ||| Sbjct 242471 GCTTATACAGTGAGATATTCTTTATCATCCTGCTGACGATTGACAGGTACCTGGCTATTG 242530 Query 9770 TCTATGCTGTAACTGCTTTGAGGTTTAGAACAGTAACCTGTGGCAT 9815 | |||| || ||| ||||| | || || || | |||||| Sbjct 242531 TTCATGCAGTGTTTGCCCTGAGGGCCCGGACTGTCACTTTTGGCAT 242576 Score = 82.4 bits (90), Expect = 9e-11 Identities = 226/346 (65%), Gaps = 3/346 (1%) Strand=Plus/Plus Query 176356 TACCCGCCCTGTATCTGCTTGTGTTTCTCTTTGGGTTGTTGGGCAATATCTTAGTGGTGA 176415 |||| ||||||| || ||||| || |||| || | |||||| | | ||||| Sbjct 242234 TACCACCCCTGTACTCCCTGGTGTTCATCATTGGAGTGATAGGCAATGTTCTGGTGGTTC 242293 Query 176416 TTATTGTCATAAGATACATGAAGATCAAAAACCTCACTAACATGTTACTGTTAAACTTGG 176475 | | |||| |||| || | | || | | || | ||| | ||||| ||| ||| Sbjct 242294 TGGTGCTCATGCAGTACAGGAGGCTTCGAAGCATGACCAGCATCTACCTGTTCAACCTGG 242353 Query 176476 CAATATCTGACTTGCTATTTCTTTTAACTTTGCCATTTTGGATGCACTATATTGGAATGT 176535 | || ||||| || | |||||||| |||||||| || ||||| |||| | || Sbjct 242354 CCATCTCTGATCTGGTCTTTCTTTTCACTTTGCCTTTCTGGATTGACTACAAGC---TGA 242410 Query 176536 ATCATGATTGGACTTTTGGTATTTCCCTGTGTAAACTGCTCAGGGGTGTGTGTTACATGT 176595 | | | ||| ||||||| | || ||||||| || ||| || | | |||| || Sbjct 242411 AAGACAACTGGGTTTTTGGTGATGCCATGTGTAAGCTCCTCTCTGGGTTTTATTACCTGG 242470 Query 176596 CACTGTACAGCCAGGTCTTTTGCATCATCCTGCTAACAGTAGACAGGTATCTAGCTGTTG 176655 | ||||| || | || | ||||||||||| || | |||||||| || ||| ||| Sbjct 242471 GCTTATACAGTGAGATATTCTTTATCATCCTGCTGACGATTGACAGGTACCTGGCTATTG 242530 Query 176656 TCTATGCTGTAACTGCTTTGAGGTTTAGAACAGTAACCTGTGGCAT 176701 | |||| || ||| ||||| | || || || | |||||| Sbjct 242531 TTCATGCAGTGTTTGCCCTGAGGGCCCGGACTGTCACTTTTGGCAT 242576 >seq874 Length=605229 Score = 127 bits (140), Expect = 2e-24 Identities = 124/159 (78%), Gaps = 7/159 (4%) Strand=Plus/Plus Query 138082 CAGCGCCTCAGCCTCACCCTGAGGGTTTTGAGCTTTTCCCCCAGGGAGTTCACTTTATCC 138141 |||||| ||||| | ||||||||| || ||||| || |||||| | |||| | ||| Sbjct 546850 CAGCGCTGCAGCCGCCTCCTGAGGGTCTTCAGCTTCTCTCCCAGGAAATTCAAATGCTCC 546909 Query 138142 TT--TTCCTGGTCGGTGCTGTGGTTCTCGGCCTGGGGCATCACCTCCTCCAGGTAAAACT 138199 || || |||| || |||||||| |||||||||||||| || |||||||||||| Sbjct 546910 TTGATTTCTGG-----GCCATGGTTCTCTGCCTGGGGCATCACTTCTACCAGGTAAAACT 546964 Query 138200 GGATCATCTCAGACAGGGCCTGGCAGCCCAGGTAACCCT 138238 ||||||| || || | ||| ||||| ||||||||||||| Sbjct 546965 GGATCATTTCTGATAAGGCTTGGCAACCCAGGTAACCCT 547003 Score = 113 bits (124), Expect = 5e-20 Identities = 82/95 (86%), Gaps = 0/95 (0%) Strand=Plus/Plus Query 137922 TCAGTTTTTCATCTTTGTGGTCATGTAGGCCTCTATGTAGTTAATGAAGATGTCAAACTC 137981 |||||||||||| | |||||||||| || |||||| |||| ||||||||||||||||| Sbjct 544626 TCAGTTTTTCATTCTGATGGTCATGTACGCTTCTATGCAGTTGATGAAGATGTCAAACTC 544685 Query 137982 GCTCATGGCCTTGTAGACCCCTTTTTCCTGGAGCT 138016 ||||||||||||||||| || || || ||||||| Sbjct 544686 ACTCATGGCCTTGTAGACGCCGTTCTCTTGGAGCT 544720 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 589848727940840