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_006639.1 Length=24748 Score E Sequences producing significant alignments: (Bits) Value seq44436 159 5e-35 seq17733 154 2e-33 seq99139 150 3e-32 seq117061 147 3e-31 seq117011 147 3e-31 seq87263 143 4e-30 >seq44436 Length=465823 Score = 159 bits (176), Expect = 5e-35 Identities = 192/261 (74%), Gaps = 0/261 (0%) Strand=Plus/Plus Query 16433 GCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTATC 16492 || ||||| || |||| ||| || || |||||||| || ||||||||||| || ||| Sbjct 145574 GCCAAGCGCCACCGCAAGGTTCTGCGCGACAACATCCAGGGCATCACCAAGCCCGCCATC 145633 Query 16493 CGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATT 16552 || || ||||| || || ||||| |||||||| |||| || | |||| || |||| Sbjct 145634 CGCCGCCTGGCCCGACGCGGTGGTGTCAAGCGCATCTCCGGCCTCATCTACGAGGAGACC 145693 Query 16553 CGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGAG 16612 || | ||| ||||| | ||||| ||| ||| |||| || || || ||| || ||| Sbjct 145694 CGCGGTGTGCTGAAGGTTTTCCTGGAGAACGTGATCCGGGACGCCGTCACCTACACGGAG 145753 Query 16613 CACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGGC 16672 |||||||| || ||||| |||||| |||||||| | ||||| || | ||||| || ||| Sbjct 145754 CACGCTAAGCGCAAGACCGTCACCGCCATGGATGTGGTCTACGCGCTCAAACGCCAGGGC 145813 Query 16673 CGTAAGATTTATGGTTTTGGA 16693 || | | ||||| || ||| Sbjct 145814 CGCACCCTGTATGGCTTCGGA 145834 >seq17733 Length=79199 Score = 154 bits (170), Expect = 2e-33 Identities = 195/268 (73%), Gaps = 0/268 (0%) Strand=Plus/Plus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| || |||| | || || || |||||||| || ||||||||||| || || Sbjct 43536 CGCCAAGCGCCACCGCAAAGTCCTGCGCGACAACATCCAGGGCATCACCAAGCCCGCCAT 43595 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| || ||||| || ||||| ||||||||||| |||| || | |||| || |||| Sbjct 43596 CCGCCGCCTGGCCCGGCGTGGCGGAGTCAAGCGCATCTCCGGCCTCATCTACGAGGAGAC 43655 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 || | || ||||| | ||||| ||| ||| |||| || || || ||| || || Sbjct 43656 CCGCGGGGTGCTGAAGGTGTTCCTGGAGAACGTGATCCGCGACGCGGTCACCTACACGGA 43715 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| |||||| ||||||| | ||||| || | || || || || Sbjct 43716 GCACGCCAAGCGCAAGACCGTCACCGCCATGGACGTGGTCTACGCGCTCAAGCGCCAGGG 43775 Query 16672 CCGTAAGATTTATGGTTTTGGAAGTTAA 16699 ||| | | |||| || || || ||||| Sbjct 43776 CCGCACGCTTTACGGCTTCGGTGGTTAA 43803 Score = 150 bits (166), Expect = 3e-32 Identities = 179/243 (74%), Gaps = 0/243 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||||||||| || |||| | || || || |||||||| || ||||||||||| || || Sbjct 46698 CGCTAAGCGCCACCGCAAAGTCCTGCGCGACAACATCCAGGGCATCACCAAGCCCGCCAT 46639 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| || ||||| || ||||| ||||||||||| |||| || | |||| || |||| Sbjct 46638 CCGCCGCCTGGCCCGGCGTGGCGGAGTCAAGCGCATCTCCGGCCTCATCTACGAGGAGAC 46579 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 || | || ||||| | ||||| ||| ||| |||| || || || ||| || || Sbjct 46578 CCGCGGGGTGCTGAAGGTGTTCCTGGAGAACGTGATCCGCGACGCGGTCACCTACACGGA 46519 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| |||||| ||||||| | ||||| || | || || || || Sbjct 46518 GCACGCCAAGCGCAAGACCGTCACCGCCATGGACGTGGTCTACGCGCTCAAGCGCCAGGG 46459 Query 16672 CCG 16674 ||| Sbjct 46458 CCG 46456 >seq99139 Length=11771 Score = 150 bits (166), Expect = 3e-32 Identities = 194/268 (72%), Gaps = 0/268 (0%) Strand=Plus/Plus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| || |||| | || || || |||||||| || ||||||||||| || || Sbjct 5838 CGCCAAGCGCCACCGCAAAGTCCTGCGCGACAACATCCAGGGCATCACCAAGCCCGCCAT 5897 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| || ||||| || ||||| ||||||||||| |||| || | |||| || |||| Sbjct 5898 CCGCCGCCTGGCCCGGCGTGGCGGAGTCAAGCGCATCTCCGGCCTCATCTACGAGGAGAC 5957 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 || | || ||||| | ||||| ||| ||| |||| || || || ||| || || Sbjct 5958 CCGCGGGGTGCTGAAGGTGTTCCTGGAGAACGTGATCCGCGACGCGGTCACCTACACGGA 6017 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| |||||| ||||||| | ||||| || | || || || || Sbjct 6018 GCACGCCAAGCGCAAGACNGTCACCGCCATGGACGTGGTCTACGCGCTCAAGCGCCAGGG 6077 Query 16672 CCGTAAGATTTATGGTTTTGGAAGTTAA 16699 ||| | | | || || || || ||||| Sbjct 6078 CCGCACGCTCTACGGCTTCGGTGGTTAA 6105 >seq117061 Length=280271 Score = 147 bits (162), Expect = 3e-31 Identities = 178/243 (73%), Gaps = 0/243 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| || |||| | || || || |||||||| || ||||||||||| || || Sbjct 186015 CGCCAAGCGCCACCGCAAAGTCCTGCGCGACAACATCCAGGGCATCACCAAGCCCGCCAT 185956 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| || ||||| || ||||| ||||||||||| |||| || | |||| || |||| Sbjct 185955 CCGCCGCCTGGCCCGGCGTGGCGGAGTCAAGCGCATCTCCGGCCTCATCTACGAGGAGAC 185896 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 || | || ||||| | ||||| ||| ||| |||| || || || ||| || || Sbjct 185895 CCGCGGGGTGCTGAAGGTGTTCCTGGAGAACGTGATCCGCGACGCNGTCACCTACACGGA 185836 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| |||||| ||||||| | ||||| || | || || || || Sbjct 185835 GCACGCCAAGCGCAAGACCGTCACCGCCATGGACGTGGTCTACGCGCTCAAGCGCCAGGG 185776 Query 16672 CCG 16674 ||| Sbjct 185775 CCG 185773 Score = 102 bits (112), Expect = 1e-17 Identities = 117/158 (74%), Gaps = 0/158 (0%) Strand=Plus/Plus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| || |||| | || || || |||||||| || ||||||||||| || || Sbjct 220823 CGCCAAGCGCCACCGCAAAGTNCTNCGCGACAACATCCAGGGCATCACCAAGCCCGCCAT 220882 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| || ||||| || ||||| ||||||||||| |||| || | |||| || |||| Sbjct 220883 CCGCCGCCTGGCCCGGCGTGGCGGAGTCAAGCGCATCTCCGGCCTCATCTACGAGGAGAC 220942 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCC 16589 || | || ||||| | ||||| ||| ||| |||| Sbjct 220943 CCGCGGGGTGCTGAAGGTGTTCCTGGAGAACGTGATCC 220980 >seq117011 Length=451335 Score = 147 bits (162), Expect = 3e-31 Identities = 189/261 (72%), Gaps = 0/261 (0%) Strand=Plus/Minus Query 16432 CGCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 ||| ||||| || |||| | || || || |||||||| || ||||||||||| || || Sbjct 400442 CGCCAAGCGCCACCGCAAAGTCCTGCGCGACAACATCCAGGGCATCACCAAGCCCGCCAT 400383 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| || ||||| || ||||| ||||||||||| |||| || | |||| || |||| Sbjct 400382 CCGCCGCCTGGCCCGGCGTGGCGGAGTCAAGCGCATCTCCGGCCTCATCTACGAGGAGAC 400323 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 || | || ||||| | ||||| ||| ||| |||| || || || ||| || || Sbjct 400322 CCGCGGGGTGCTGAAGGTGTTCCTGGAGAACGTGATCCGCGACGCCGTCACCTACACGGA 400263 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| |||||| ||||||| | ||||| || | || || || || Sbjct 400262 GCACGCCAAGCGCAAGACCGTCACCGCCATGGACGTGGTCTACGCGCTCAAGCGCCAGGG 400203 Query 16672 CCGTAAGATTTATGGTTTTGG 16692 ||| | | | || || || || Sbjct 400202 CCGCACGCTNTACGGCTTCGG 400182 >seq87263 Length=247863 Score = 143 bits (158), Expect = 4e-30 Identities = 190/261 (73%), Gaps = 2/261 (1%) Strand=Plus/Minus Query 16433 GCTAAGCGTCATCGCA-GATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTAT 16491 || ||||| || |||| | || || |||||||||||||| || || || ||||| || || Sbjct 212696 GCCAAGCGACACCGCAAGGTC-CTGCGAGATAACATCCAGGGCATTACGAAGCCCGCCAT 212638 Query 16492 CCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGAT 16551 ||| || ||||||| || || ||||||||||| |||| || | | || || |||| Sbjct 212637 CCGGCGCTTGGCTCGGCGCGGCGGAGTCAAGCGCATCTCGGGGCTCATTTACGAGGAGAC 212578 Query 16552 TCGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGA 16611 ||| | |||| | || | || || ||| ||| |||| || ||| || ||| ||||| Sbjct 212577 TCGCGGTGTTCTCAAAGTGTTTCTGGAGAACGTGATCCGCGACGCTGTCACCTACACCGA 212518 Query 16612 GCACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGG 16671 |||||| || || ||||| ||||| ||||||| | ||||| || | || || || || Sbjct 212517 GCACGCCAAGCGCAAGACGGTCACGGCCATGGACGTGGTCTACGCGCTCAAGCGCCAGGG 212458 Query 16672 CCGTAAGATTTATGGTTTTGG 16692 ||| | ||||||| || || Sbjct 212457 CCGCACTCTTTATGGCTTCGG 212437 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 78966056430489