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_024696.1 Length=180800 Score E Sequences producing significant alignments: (Bits) Value seq87223 233 2e-56 seq112772 127 2e-24 seq66404 122 1e-22 seq34769 111 2e-19 >seq87223 Length=339319 Score = 233 bits (258), Expect = 2e-56 Identities = 649/994 (65%), Gaps = 9/994 (1%) Strand=Plus/Minus Query 162059 CCAGGGACTTATGTCGGAGATACTCGTCTAGACACTGGACCGCGAACACGTCTCGTTCCT 162118 |||||| ||||| | |||| ||| || | |||||||| || | ||| ||| Sbjct 190278 CCAGGGCTTTATGCCTCAGATGCTCATCCAAACACTGGATGGCAANNGGGTCAACATCCA 190219 Query 162119 CATCGAACTTGTTCGCGAACAGGTGATGCGAGTTCTTCAATATCCAATTAAGATCCCCCG 162178 || ||||| || ||||| | ||| || | | || |||| | || || | Sbjct 190218 TGTCAAACTTATTGGCGAAAAAGTGGTGTGTGCGAAGCA---TCCACCGCAAGTCACCAG 190162 Query 162179 ATCCGAACACGCACACGGACCGCACGTGCACGCCGCTGCACGGCGGATACAGGGCCCCAT 162238 |||||| || || ||||| ||||| || || ||||||||||| || || | || || | Sbjct 190161 CTCCGAAAACACAGACGGAGCGCACATGGACCCCGCTGCACGGTGGGTAAGGAGCGCCTT 190102 Query 162239 CGTCCACATCCCCCTCGTAGTATTGCCACTTAACGAACCTAGTGATAGCCTGCATGTCGG 162298 | ||||| || || |||| |||||||| || ||||||| | ||| | |||||| | Sbjct 190101 TGGAAACATCACCTTCAAAGTACTGCCACTTGACAAACCTAGCAACAGCATTCATGTCAG 190042 Query 162299 AGGTGTCGTACTTGTACACTGACGGCACGGCTCCAGGAACACCCGGCAGTCTCTGTAGAG 162358 | ||| ||||| | ||| || | | ||||| || | || | ||||| | || Sbjct 190041 ACAAGTCATACTTATGGCTTGAGGGGAGAGAACCAGGGACTTCGGGGATCCTCTGGATAG 189982 Query 162359 TAGCCCACAGGTGTTCGTCTGGACTATACGTCTCCTTCGACCACTCCATGAACTCCCTGA 162418 | ||||| |||| || || || || || || |||| | |||||||||||||| || Sbjct 189981 TGGCCCAGAGGTACTCATCCGGGCTGTATGTGTCCTGTGCCCACTCCATGAACTTTTGGA 189922 Query 162419 CCGTTTTATCGTATAGAATGTAAGAGACGTAGGACCTGGTCACAATAAAGTACGCGCTAC 162478 ||| || | ||| | || | || ||| | || | |||||| || || | Sbjct 189921 TATTTTCATTTTCTAGCACATAGCCTATATATTCCCTACTGACTACAAAGTAGGCACTGC 189862 Query 162479 CAGAAAACACGGG---TATGCGTATAGGAGGGGGCTCTTTGTCTTGACCCGTGTTGACTA 162535 | ||||| | || | || || ||||| ||| ||||| || ||||||||| | Sbjct 189861 CTGAAAAAAGAGGAGTTTTGAGT---GGAGGTGGCGCTTTGACTACCCCCGTGTTGGTCA 189805 Query 162536 CCATTCCCTCTACGACCACGTGTCTCTTCCTCCACCTGGCCATCTTACTGGTAGACGGGT 162595 | | || || |||| ||| | || |||| || || ||| | || | | Sbjct 189804 GCTTCCCGTCAACGATGGCGTACCGTTTTTTCCATCTTTCCTCCTTGTTCTGAGGCATCT 189745 Query 162596 GTTCGGTCTCTAGACTGTTACGACCCCCCAAGGCCTTCAGCTGACGCACCATCTCTAGAT 162655 || || ||||| |||| |||| | | ||| |||| | || || ||||| | Sbjct 189744 TCTCAGTTTCTAGGTTGTTCTCACCCGAGAGTGACTTGAGCTTCCTGACAATTTCTAGGT 189685 Query 162656 TGGTCTTAAGGGGAAAGTCGGTGCCGCAGAGATTAATAACATATTTCCACTTAACGCTGA 162715 |||| || | || || || | || || ||||| || | || ||||| || | || | Sbjct 189684 TGGTTTTGATAGGGAAATCCATACCACAAAGATTGATCAAGTACTTCCAGTTTGCACTCA 189625 Query 162716 GTCCGTACAGATCCTGTAGACAGTTCAGATCGGCCTGGACGCGACTCCACGACGCGTACA 162775 || ||||| |||| | |||||| || || ||||| || |||||||| || || || | Sbjct 189624 TTCTATACAGGTCCTTCATACAGTTGAGGTCAGCCTGAACCCGACTCCAGGATGCATAAA 189565 Query 162776 CGACGCTCTCCAACCTAGTGGCGACAAAGACATTGTCGAAACACGAAACTATCCCCATCA 162835 | || |||||||| |||| ||||||||||| || || || || | || ||||||| Sbjct 189564 CAACATTCTCCAACTGGCTGGCCACAAAGACATTATCAAAGCAGGATGCAATGCCCATCA 189505 Query 162836 CGGCCAGTGAGAACATCGGGTCCGCTTTCCTATCTACGTGTACGCAGTATAGATTCTGAG 162895 | || | | || || ||||| | || || || | |||||| | |||||||| Sbjct 189504 CTGCAGCTAAAAAGGATTCCTCTGCTTTTTTGTCCACATGAATGCAGTAGAAATTCTGAG 189445 Query 162896 GGGCGTAGATGGCCCTCAGTAATCTCTCGAACATCTCTATCTTATGGTGTACCACGATAG 162955 | |||||||||||||| | || || | ||| || ||||| || || ||||| || | Sbjct 189444 GCATATAGATGGCCCTCAGGAGCCTATCAAGCATTTCAATCTTGTGATGAACCACTATGG 189385 Query 162956 AATACGCTATGGGGAACTCAGCCTCCTCGCGACTGAGAGACCCTGTAAAGTACTTGCGGT 163015 |||| || || || || || |||| || ||| || | | || || || ||||| Sbjct 189384 AATATGCAATTGGAAAGTCTACCTCTTCTTTACTAAGGGGCTCTACAATATATTTGCGCA 189325 Query 163016 CCCTCACAAACGCCGCACAGTCCTCCGTCATGTT 163049 |||| | || | ||||| || |||||||| Sbjct 189324 CCCTGATGAAAGAGGCACAATCACGGGTCATGTT 189291 >seq112772 Length=1341 Score = 127 bits (140), Expect = 2e-24 Identities = 385/583 (66%), Gaps = 15/583 (3%) Strand=Plus/Minus Query 176967 TAGTCGTTCACGTGAATGAAAGCGTCTCCCGGGACGTAATTTTCGTAATTCTCTCTCGAT 177026 || || | ||| |||||||| | || | || | ||||| || || || || || ||| Sbjct 1013 TAATCTTCCACATGAATGAATGAATCAGCTGGAATATAATTCTCATAGTTTTCCCTAGAT 954 Query 177027 GTTCCGAGTACTATGGGTACCGCACCTGCCATAAGAGATCGGTAGAGTTTTTCGGTAATA 177086 | ||| || || | ||||| | || |||| || | |||||| ||||| || || Sbjct 953 GGTCCAAGGACAACAGGTACTGAGCCAGCCAAAAATGCATTGTAGAGCTTTTCTGTGATG 894 Query 177087 TAGTCCCTGTGTACGGAGTTCTCAAACGCGAGATAGAATTTACAGGAAGATAGTAGCGGG 177146 || || |||| | ||||| ||||||| ||||| |||||||| | ||||| | | ||| Sbjct 893 TAATCTTTGTGAATTGAGTTTTCAAACGAAAGATAAAATTTACAAGTAGATA-TGGTGGG 835 Query 177147 A-TGAAGTCATCATCGGGTATATAATCTCCTACTACGTTCCCGTATACATGTATATCTAT 177205 | | | || | ||| | || ||||| | | | ||| || || || || || Sbjct 834 AATCAGGTTTTTATCATTCACGTATTCTCCAAACGCTTGCCCATAGGTGTGAATTTCAAT 775 Query 177206 GTGTTTACTGAGCTCTAGGTAGTATCTCGATC-TCACGTGGTCGTTGTTCCAATTGCTGA 177264 || || ||||| || || || || | | | || || |||||| || || | Sbjct 774 ACTCTTGCTCAGCTCGTTATAATA-CTTGACCCTGGCATGCTCAGGGTTCCAGTTACTCA 716 Query 177265 CGACCCAGCAAACTAACTTGCTCTTTGCG-GGAACGGGATTCGAT-ACTAATGCAGTGTC 177322 | |||||||| || ||||| |||||||| || || ||| | || || | | | Sbjct 715 CAACCCAGCACACCAACTT-CTCTTTGCTTGGCAC----TTCAAACACAAAGGGATTTGT 661 Query 177323 TCTGAGCGTTAGTGATCCATAGGGCACGTGAATATCCGAGTCGCGTCTGTACGTTAACGT 177382 || | ||| | | ||||| ||||| |||||||| || || || | ||| |||| || Sbjct 660 GCTCACCGTCAAGAAGCCATAAGGCACTTGAATATCTGAATCACGGCGGTAAGTTAGAGT 601 Query 177383 GAGATTGAAAAGGTTTTCTATACC--TTGTTTGAAGGGGCTGTTACTGGGCGATTCTAAG 177440 || ||||| | | || || || | |||| ||| ||| | | || || |||||| Sbjct 600 CAGGTTGAACAAATGCTCGATGCCACTCTTTTG--GGGAGTGTGAGTCGGAGACTCTAAG 543 Query 177441 TTCATCCATATCCACTTTTGAAAGGTTGGTCTGGGTTCCGTAGGTAGAGTATAAGGATCT 177500 |||||||| ||||| || ||||||| ||| || | | | ||||| | || |||| Sbjct 542 TTCATCCAAATCCATTTCTGAAAGGGTGGCCTAGCCTGCTGAGGTAAATTAGTCAGATCC 483 Query 177501 ATACTTATCTCTCTGTGGTGAAAGACTACGGCATTGGCTTTGT 177543 || || ||||||||||||| | || |||| || ||||| Sbjct 482 CAGCTGATGTCTCTGTGGTGAATCAGGACCGCATGGGATTTGT 440 >seq66404 Length=212649 Score = 122 bits (134), Expect = 1e-22 Identities = 220/322 (68%), Gaps = 0/322 (0%) Strand=Plus/Plus Query 171771 CATAGAGTGTCAGACAGGTCTTACCCGATATTTTTCCGGACCCAAAAGTATTAAACAAAC 171830 ||||||| || || |||| | || || || || || || ||||||||| || | || Sbjct 31011 CATAGAGGGTGAGGCAGGCTGTTCCTGAGATCTTCCCAGAATGAAAAGTATTGAAGAGAC 31070 Query 171831 ACATAAAACAGCCTTCGTCCTCCACGGTGGTGTTCCAAAAAGTCAATGTAGAATTTCTGA 171890 |||| | ||||| || || |||| || ||||||||||| || | | | || | || Sbjct 31071 ACATGTAGCAGCCCTCATCATCCAGTGTTGTGTTCCAAAAGGTGATGCTTGTGTTCCAGA 31130 Query 171891 GTCCGAGTTGCGTAATGTTCACCCGGTCCTTGTACGGAGGCTGGACGACAACACCGTGAT 171950 |||| || | || ||||||| | ||| | || | ||||||||| ||||| || || Sbjct 31131 GTCCCAGCTCAGTGATGTTCATCTTGTCTCTATATGCAGGCTGGACTACAACCCCATGGG 31190 Query 171951 TCTCGCTGAACGTGGCCATGTTTTCGGGGCTCGTAGCCTTTATCTTCTGCCACGTTACTA 172010 | |||| | ||| |||||||||| ||||| ||| || |||||||||| || || | Sbjct 31191 CTTTGCTGTAAGTGACCATGTTTTCTGGGCTTACAGCTTTCTTCTTCTGCCATGTCACAA 31250 Query 172011 TTAAAACTTCTTTGTCGGTTTGAAGAGAGCATCTTAAAGAAGCAGGTGTGTTCAATAATT 172070 | || ||| | | | | ||||| |||| || || ||||||| || || | | Sbjct 31251 TCAAGGGTTCCTGGGCCAGCTTCAGAGAACATCGCAAGGATGCAGGTGAGTGCAGCAGCT 31310 Query 172071 CCCTTTCGTCTTGCGTTACCAC 172092 || || || || || ||||| Sbjct 31311 TTCTCTCATCCTGGGTCACCAC 31332 >seq34769 Length=1374272 Score = 111 bits (122), Expect = 2e-19 Identities = 235/345 (68%), Gaps = 8/345 (2%) Strand=Plus/Plus Query 162643 ACCATCTCTAGATTGGTCTTAAGGGGAAAGTCGGTGCCGCAGAGATTAATAACATATTTC 162702 |||||||| ||||||||||| ||||||||| || || ||| || | | |||||| Sbjct 613280 ACCATCTCAGCATTGGTCTTAATGGGAAAGTCTGTCCCACAGGTGTTCAGGAGGTATTTC 613339 Query 162703 CACTTAACGCTGAG-TCCGTA-CAGATCCTGTAGACAGTTCAGATCGGCCTGGACGCGAC 162760 || | | | ||| || | | || || | | |||||||| || ||||| || | Sbjct 613340 CA--TGGCACAGAGCTCTGGAGCAAGTCTTCCATGCAGTTCAGGTCAGCCTGCACCCTGG 613397 Query 162761 TCCACGACGCGTACACGACGCTCTCCAACCTAGTGGCGACAAAGACATTGTCGAAACACG 162820 ||| || ||||| || || | ||| | || | || | |||||||| ||| || | Sbjct 613398 ACCAGGAAGCGTAGACCACTGACACCAGCTTACTAGCTAAGAAGACATTTGGGAAGCATG 613457 Query 162821 AAACTATCCCCATCACGGCCAG--TGAGAACATCGGGTCCGCTTTCCTATCTACGTGTAC 162878 | || || || | || ||| | ||| | || || | ||| ||| || || || Sbjct 613458 ACACAATGGCCCTGACTGCCTGCTTGAAAGTCTCTGG--GGACTTCTGATCCACATGGAC 613515 Query 162879 GCAGTATAGATTCTGAGGGGCGTAGATGGCCCTCAGTAATCTCTCGAACATCTCTATCTT 162938 ||||||| |||||||||| ||| | || | ||| | || || || |||| ||||| Sbjct 613516 ACAGTATATGTTCTGAGGGGTGTATACAGCTCGCAGCAGCCTTTCAAAGTTCTCGATCTT 613575 Query 162939 ATGGTGTACCACGATAGAATACGCTATGGGGAACTCAGCCTCCTC 162983 | ||| ||||| || |||||||| |||||||| |||||||| || Sbjct 613576 CTCGTGAACCACCATGGAATACGCAATGGGGAAATCAGCCTCTTC 613620 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 577568885460800