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: Neotoma_20lepida_20[genbank_20GCA_5F001675575.1_202016-06-23] 119,373 sequences; 2,353,855,022 total letters Query= NC_001650.2 Length=184439 Score E Sequences producing significant alignments: (Bits) Value seq108307 269 3e-67 seq73029 143 3e-29 seq87169 122 1e-22 seq78026 109 6e-19 >seq108307 Length=83418 Score = 269 bits (298), Expect = 3e-67 Identities = 597/884 (68%), Gaps = 15/884 (2%) Strand=Plus/Minus Query 176373 CTTGTGTTTCTCTTTGGGTTGTTGGGCAATATCTTAGTGGTGATTATTGTCATAAGATAC 176432 || ||||| || |||| | ||||||| || | || ||| | || |||||| ||| Sbjct 78643 CTGGTGTTCATCATTGGCCTCCTGGGCAACATGGTGGTTGTGTTGATCCTCATAAAGTAC 78584 Query 176433 ATGAAGATCAAAAACCTCACTAACATGTTACTGTTAAACTTGGCAATATCTGACTTGCTA 176492 | |||| || ||| | ||||| || | ||| | ||||||||||| |||||| |||| Sbjct 78583 AGGAAGCTCCAAATTATGACTAATATCTACCTGCTCAACTTGGCAATTTCTGACCTGCTC 78524 Query 176493 TTTCTTTTAACTTTGCCATTTTGGATGCACTATATTGGAATGTATCATGATTGGACTTTT 176552 | | | || || | ||||| ||||| |||||| ||| | || | |||| ||| |||| Sbjct 78523 TCTGTCTTCACCGTTCCATTCTGGATTCACTATGTTGTA-TGGA--ATGAGTGGTGTTTT 78467 Query 176553 GGTATTTCCCTGTGTAAACTGCTCAGGGGTGTGTGTTACATGTCACTGTACAGCCAGGTC 176612 || | ||||||||||| || || | | |||| | | ||||||| || | Sbjct 78466 GGCCACCACATGTGTAAACTGATCTCTGGGTTTTATTACCTTGCCTTGTACAGTGAGATA 78407 Query 176613 TTTTGCATCATCCTGCTAACAGTAGACAGGTATCTAGCTGTTGTCTATGCTGTAACTGCT 176672 |||| |||||||||||| ||| | |||||||| || || ||||| ||||||| ||| Sbjct 78406 TTTTTCATCATCCTGCTGACAATTGACAGGTACCTGGCCATTGTCCATGCTGTGTTTGCC 78347 Query 176673 TTGAGGTTTAGAACAGTAACCTGTGGCATAGTTACCTGTGTATGTACCTGGTTTCTGGCA 176732 | || | || || || | || | | ||| | | ||||||| |||||| Sbjct 78346 CTTAGAGCCCGGACTGTGACTTTTGCTACCATCACCAGCATCATTACCTGGGGACTGGCA 78287 Query 176733 GGGTTGTTGTCCCTCCCTGAATTTTTCTTTCATGGACACCAAGATGACAATGGTAGGG-- 176790 ||| || | | ||||||||| |||| |||| |||||| || ||| || | Sbjct 78286 GGGCTGGCAGCATTACCTGAATTTATCTTCCATGAGTCCCAAGACAGCATTGG-AGAGCC 78228 Query 176791 -TTCAGTGTGATCCTTACTACCCAGAGATGTCTACAA-ATGTTTGGAGGCGCGCCCACGT 176848 ||| || | |||| ||||||||| | | || | |||| ||| ||| | Sbjct 78227 TTTC--TGCGGTCCTCGTTACCCAGAGG-GAGAAGAAGACAGCTGGAAGCGTTTCCATGC 78171 Query 176849 TGCAAAGGTGATTATGTTAAGTCTCATTTTGCCTCTGCTCATTATGGCTGTCTGCTACTA 176908 | | ||| ||| || || | | ||||| |||||||||| | ||||||| | Sbjct 78170 TCTGAGAATGAATATCTTTGGTTTAGCCCTCCCTCTCCTCATTATGGTTATCTGCTATTC 78111 Query 176909 TGTAATTATCAGAAGACTGTTGAGGCGCCCCAGCAAGAAGAAGTACAAGGCCATCAGGCT 176968 | ||| || | || ||| |||| |||||| || || ||| ||||||||||| |||| Sbjct 78110 AGGAATCATTAAAACTCTGCTGAGATGCCCCAATAAAAAAAAGCACAAGGCCATCCGGCT 78051 Query 176969 CATCTTTGTCATCATGGTGGCCTATTTTGTTTTTTGGACACCCTACAACATTGTTCTCCT 177028 || ||||| ||||| | | || |||| |||||||||| || |||||| | |||||||| Sbjct 78050 TATTTTTGTTGTCATGATAGTCTTTTTTATTTTTTGGACCCCATACAACCTCGTTCTCCT 77991 Query 177029 ACTGTCTACCTTTCAC-GCAACCCTTCTTAACCTGCAG-TGTGCATTGAGCAGTAACTTG 177086 || ||| | |||||| ||| | || || ||| ||| | ||||| || || Sbjct 77990 TCTCTCTGCTTTTCACAGCA--CATTTTTGGAGAACAGCTGTCAACAGAGCAAACACCTG 77933 Query 177087 GACATGGCTCTGCTGATAACAAAAACAGTAGCCTACACACACTGTTGCATCAACCCAGTG 177146 ||| |||| ||| | | || | | |||||||| ||||| | ||||||||| | Sbjct 77932 GACCTGGCCATGCAGGTGACTGAGGTGATCGCCTACACCCACTGCTNTATCAACCCAATC 77873 Query 177147 ATCTACGCGTTCGTGGGGGAGAAGTTTAGAAGACACCTGTACCACTTCTTCCACACCTAC 177206 ||||| || || || || |||| ||| | | |||||| | ||| ||||||| | Sbjct 77872 ATCTATGCCTTTGTTGGTGAGAGGTTCCGGAAACACCTTCGGCTCTTTTTCCACAGACAT 77813 Query 177207 GTGGCCATCTACCTCTGCAAGTACATCCCCTTCCTGTCTGGTGA 177250 ||||| ||||||||| | || ||||| || ||||| ||||||| Sbjct 77812 GTGGCAATCTACCTCGGGAAATACATTCCATTCCTTGCTGGTGA 77769 Score = 269 bits (298), Expect = 3e-67 Identities = 597/884 (68%), Gaps = 15/884 (2%) Strand=Plus/Minus Query 9487 CTTGTGTTTCTCTTTGGGTTGTTGGGCAATATCTTAGTGGTGATTATTGTCATAAGATAC 9546 || ||||| || |||| | ||||||| || | || ||| | || |||||| ||| Sbjct 78643 CTGGTGTTCATCATTGGCCTCCTGGGCAACATGGTGGTTGTGTTGATCCTCATAAAGTAC 78584 Query 9547 ATGAAGATCAAAAACCTCACTAACATGTTACTGTTAAACTTGGCAATATCTGACTTGCTA 9606 | |||| || ||| | ||||| || | ||| | ||||||||||| |||||| |||| Sbjct 78583 AGGAAGCTCCAAATTATGACTAATATCTACCTGCTCAACTTGGCAATTTCTGACCTGCTC 78524 Query 9607 TTTCTTTTAACTTTGCCATTTTGGATGCACTATATTGGAATGTATCATGATTGGACTTTT 9666 | | | || || | ||||| ||||| |||||| ||| | || | |||| ||| |||| Sbjct 78523 TCTGTCTTCACCGTTCCATTCTGGATTCACTATGTTGTA-TGGA--ATGAGTGGTGTTTT 78467 Query 9667 GGTATTTCCCTGTGTAAACTGCTCAGGGGTGTGTGTTACATGTCACTGTACAGCCAGGTC 9726 || | ||||||||||| || || | | |||| | | ||||||| || | Sbjct 78466 GGCCACCACATGTGTAAACTGATCTCTGGGTTTTATTACCTTGCCTTGTACAGTGAGATA 78407 Query 9727 TTTTGCATCATCCTGCTAACAGTAGACAGGTATCTAGCTGTTGTCTATGCTGTAACTGCT 9786 |||| |||||||||||| ||| | |||||||| || || ||||| ||||||| ||| Sbjct 78406 TTTTTCATCATCCTGCTGACAATTGACAGGTACCTGGCCATTGTCCATGCTGTGTTTGCC 78347 Query 9787 TTGAGGTTTAGAACAGTAACCTGTGGCATAGTTACCTGTGTATGTACCTGGTTTCTGGCA 9846 | || | || || || | || | | ||| | | ||||||| |||||| Sbjct 78346 CTTAGAGCCCGGACTGTGACTTTTGCTACCATCACCAGCATCATTACCTGGGGACTGGCA 78287 Query 9847 GGGTTGTTGTCCCTCCCTGAATTTTTCTTTCATGGACACCAAGATGACAATGGTAGGG-- 9904 ||| || | | ||||||||| |||| |||| |||||| || ||| || | Sbjct 78286 GGGCTGGCAGCATTACCTGAATTTATCTTCCATGAGTCCCAAGACAGCATTGG-AGAGCC 78228 Query 9905 -TTCAGTGTGATCCTTACTACCCAGAGATGTCTACAA-ATGTTTGGAGGCGCGCCCACGT 9962 ||| || | |||| ||||||||| | | || | |||| ||| ||| | Sbjct 78227 TTTC--TGCGGTCCTCGTTACCCAGAGG-GAGAAGAAGACAGCTGGAAGCGTTTCCATGC 78171 Query 9963 TGCAAAGGTGATTATGTTAAGTCTCATTTTGCCTCTGCTCATTATGGCTGTCTGCTACTA 10022 | | ||| ||| || || | | ||||| |||||||||| | ||||||| | Sbjct 78170 TCTGAGAATGAATATCTTTGGTTTAGCCCTCCCTCTCCTCATTATGGTTATCTGCTATTC 78111 Query 10023 TGTAATTATCAGAAGACTGTTGAGGCGCCCCAGCAAGAAGAAGTACAAGGCCATCAGGCT 10082 | ||| || | || ||| |||| |||||| || || ||| ||||||||||| |||| Sbjct 78110 AGGAATCATTAAAACTCTGCTGAGATGCCCCAATAAAAAAAAGCACAAGGCCATCCGGCT 78051 Query 10083 CATCTTTGTCATCATGGTGGCCTATTTTGTTTTTTGGACACCCTACAACATTGTTCTCCT 10142 || ||||| ||||| | | || |||| |||||||||| || |||||| | |||||||| Sbjct 78050 TATTTTTGTTGTCATGATAGTCTTTTTTATTTTTTGGACCCCATACAACCTCGTTCTCCT 77991 Query 10143 ACTGTCTACCTTTCAC-GCAACCCTTCTTAACCTGCAG-TGTGCATTGAGCAGTAACTTG 10200 || ||| | |||||| ||| | || || ||| ||| | ||||| || || Sbjct 77990 TCTCTCTGCTTTTCACAGCA--CATTTTTGGAGAACAGCTGTCAACAGAGCAAACACCTG 77933 Query 10201 GACATGGCTCTGCTGATAACAAAAACAGTAGCCTACACACACTGTTGCATCAACCCAGTG 10260 ||| |||| ||| | | || | | |||||||| ||||| | ||||||||| | Sbjct 77932 GACCTGGCCATGCAGGTGACTGAGGTGATCGCCTACACCCACTGCTNTATCAACCCAATC 77873 Query 10261 ATCTACGCGTTCGTGGGGGAGAAGTTTAGAAGACACCTGTACCACTTCTTCCACACCTAC 10320 ||||| || || || || |||| ||| | | |||||| | ||| ||||||| | Sbjct 77872 ATCTATGCCTTTGTTGGTGAGAGGTTCCGGAAACACCTTCGGCTCTTTTTCCACAGACAT 77813 Query 10321 GTGGCCATCTACCTCTGCAAGTACATCCCCTTCCTGTCTGGTGA 10364 ||||| ||||||||| | || ||||| || ||||| ||||||| Sbjct 77812 GTGGCAATCTACCTCGGGAAATACATTCCATTCCTTGCTGGTGA 77769 >seq73029 Length=1854 Score = 143 bits (158), Expect = 3e-29 Identities = 128/161 (80%), Gaps = 0/161 (0%) Strand=Plus/Minus Query 145750 AGGCCCGTGAGGTGGGCGACCATGTAGGTCAGCAGGGAGTAGCTGGCTATGTTGAAGGGC 145809 |||||||||| ||| || | |||||| || ||||||| |||||||| |||||||||||| Sbjct 1549 AGGCCCGTGATGTGTGCAATCATGTANGTGAGCAGGGCATAGCTGGCAATGTTGAAGGGC 1490 Query 145810 ACCCCCAGCCCCATGTCCCCCGAGCGCTGGTACAGCTGGCAGGAGAGCTCCCCGCCCGCC 145869 || ||||| ||||| || || || | |||||| |||||||| || |||||||| | || Sbjct 1489 ACGCCCAGGCCCATATCTCCTGACCTCTGGTAAAGCTGGCAAGACAGCTCCCCATTCACC 1430 Query 145870 ACGTAGAACTGGCACAGGAGGTGGCAGGGCGGCAGGGCCAT 145910 || ||||| || || ||| ||||| || ||||| ||||| Sbjct 1429 ACATAGAATTGACAGAGGGCATGGCAAGGAGGCAGTGCCAT 1389 >seq87169 Length=633259 Score = 122 bits (134), Expect = 1e-22 Identities = 123/159 (77%), Gaps = 7/159 (4%) Strand=Plus/Minus Query 138082 CAGCGCCTCAGCCTCACCCTGAGGGTTTTGAGCTTTTCCCCCAGGGAGTTCACTTTATCC 138141 |||||| |||| | ||||||||| || ||||| || ||||||||||||| | ||| Sbjct 195124 CAGCGCTGCAGCTGCCTCCTGAGGGTCTTCAGCTTCTCTCCCAGGGAGTTCAAATGCTCC 195065 Query 138142 TT--TTCCTGGTCGGTGCTGTGGTTCTCGGCCTGGGGCATCACCTCCTCCAGGTAAAACT 138199 || || |||| || ||||| || |||||||||||||| || |||||||||||| Sbjct 195064 TTGATTTCTGG-----GCCATGGTTTTCTGCCTGGGGCATCACTTCTACCAGGTAAAACT 195010 Query 138200 GGATCATCTCAGACAGGGCCTGGCAGCCCAGGTAACCCT 138238 ||||||| || || | ||| ||||| |||| |||||||| Sbjct 195009 GGATCATTTCTGATAAGGCTTGGCAACCCAAGTAACCCT 194971 Score = 105 bits (116), Expect = 8e-18 Identities = 79/93 (85%), Gaps = 0/93 (0%) Strand=Plus/Minus Query 137924 AGTTTTTCATCTTTGTGGTCATGTAGGCCTCTATGTAGTTAATGAAGATGTCAAACTCGC 137983 |||||||||| | |||||||||| || |||||| |||| |||||||||||||| || Sbjct 197259 AGTTTTTCATTCTGATGGTCATGTACGCTTCTATGCAGTTGATGAAGATGTCAAATTCAT 197200 Query 137984 TCATGGCCTTGTAGACCCCTTTTTCCTGGAGCT 138016 |||||||||||||||| ||||| || ||||||| Sbjct 197199 TCATGGCCTTGTAGACGCCTTTCTCTTGGAGCT 197167 >seq78026 Length=10422 Score = 109 bits (120), Expect = 6e-19 Identities = 172/242 (71%), Gaps = 12/242 (5%) Strand=Plus/Plus Query 10057 AAGAAGAAGTACAAGGCCATCAGGCTCATCTTTGTCATCATGGTGGCCTATTTTGTTTTT 10116 ||||||| | ||| ||| | ||||| ||||||| ||||||| | | ||| ||| | || Sbjct 3390 AAGAAGAGGCACAGGGCTGTGAGGCTTATCTTTGCCATCATGATTGTCTACTTTCTCTTC 3449 Query 10117 TGGACACCCTACAACATTGTTCTCCTACTGTCTACCTTTCACGCAACCCTTCTTA-ACCT 10175 ||||| ||||||||||| |||||| | ||| |||||| || | | |||||| || Sbjct 3450 TGGACTCCCTACAACATCGTTCTCTTCCTGAATACCTTCCAGGAA----TTCTTAGGACT 3505 Query 10176 G-----CAGTGTGCATTGAGCAGTAACTTGGACATGGCTCTGCTGATAACAAAAACAGTA 10230 | | ||||| |||| || | |||| ||| ||| ||| | | ||| | || | Sbjct 3506 GAGTAACTGTGTG-ATTG-CCAATCACTTAGACCAGGCCATGCAGGTGACAGAGACTCTT 3563 Query 10231 GCCTACACACACTGTTGCATCAACCCAGTGATCTACGCGTTCGTGGGGGAGAAGTTTAGA 10290 | |||||||| ||||| ||||| || ||||| || || || ||||||||||| || Sbjct 3564 GGAATGACACACTGCTGCATTAACCCTGTCATCTATGCCTTTGTTGGGGAGAAGTTCCGA 3623 Query 10291 AG 10292 || Sbjct 3624 AG 3625 Score = 109 bits (120), Expect = 6e-19 Identities = 172/242 (71%), Gaps = 12/242 (5%) Strand=Plus/Plus Query 176943 AAGAAGAAGTACAAGGCCATCAGGCTCATCTTTGTCATCATGGTGGCCTATTTTGTTTTT 177002 ||||||| | ||| ||| | ||||| ||||||| ||||||| | | ||| ||| | || Sbjct 3390 AAGAAGAGGCACAGGGCTGTGAGGCTTATCTTTGCCATCATGATTGTCTACTTTCTCTTC 3449 Query 177003 TGGACACCCTACAACATTGTTCTCCTACTGTCTACCTTTCACGCAACCCTTCTTA-ACCT 177061 ||||| ||||||||||| |||||| | ||| |||||| || | | |||||| || Sbjct 3450 TGGACTCCCTACAACATCGTTCTCTTCCTGAATACCTTCCAGGAA----TTCTTAGGACT 3505 Query 177062 G-----CAGTGTGCATTGAGCAGTAACTTGGACATGGCTCTGCTGATAACAAAAACAGTA 177116 | | ||||| |||| || | |||| ||| ||| ||| | | ||| | || | Sbjct 3506 GAGTAACTGTGTG-ATTG-CCAATCACTTAGACCAGGCCATGCAGGTGACAGAGACTCTT 3563 Query 177117 GCCTACACACACTGTTGCATCAACCCAGTGATCTACGCGTTCGTGGGGGAGAAGTTTAGA 177176 | |||||||| ||||| ||||| || ||||| || || || ||||||||||| || Sbjct 3564 GGAATGACACACTGCTGCATTAACCCTGTCATCTATGCCTTTGTTGGGGAGAAGTTCCGA 3623 Query 177177 AG 177178 || Sbjct 3624 AG 3625 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 589196309526920