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_002331.1 Length=178733 Score E Sequences producing significant alignments: (Bits) Value seq66478 111 2e-19 seq78627 105 8e-18 seq7994 102 9e-17 seq117011 100 3e-16 seq27479 100 3e-16 seq108018 98.7 1e-15 seq35323 98.7 1e-15 seq75927 91.5 2e-13 seq7954 87.8 2e-12 >seq66478 Length=146994 Score = 111 bits (122), Expect = 2e-19 Identities = 164/233 (70%), Gaps = 0/233 (0%) Strand=Plus/Minus Query 42957 CCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCC 43016 || ||||| | ||| || |||| |||| ||| ||| || || || ||||| |||| Sbjct 11240 CCACCTCTCAGACGGAAGACCAGGTGCAGGGTGGACTCTTTCTGGATGTTGTAGTCAGAA 11181 Query 43017 AGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGC 43076 ||||| | | || | |||||||| ||||| || ||||||||||||||||| | || Sbjct 11180 AGAGTGCAGCCATCTTTCAGCTGCTTGCCAGCAAAGATGAGTCGCTGCTGGTCAGGGGGG 11121 Query 43077 ACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACA 43136 | | ||| || ||| ||| || |||| || | | ||||| || | ||||| Sbjct 11120 ATGTCCTCTTTATCCTGGATCTTGGCCTTGACATTCTCAATGGTGTCACTGGGCTCCACC 11061 Query 43137 TCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCATTTTTAC 43189 || | |||||||| ||||| || || ||||| | ||||||| |||||| || Sbjct 11060 TCNAGGGTGATGGTCTTGCCGGTCAGGGTCTTCATGAAGATTTTCATTTTGAC 11008 Score = 100 bits (110), Expect = 3e-16 Identities = 144/203 (71%), Gaps = 0/203 (0%) Strand=Plus/Minus Query 42981 TGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGC 43040 |||| ||| ||| || || || ||||| |||| ||||| | | || || |||||| Sbjct 11444 TGCAGGGTGGACTCTTTCTGGATGTTGTAGTCAGAAAGAGTGCAGCCATCTTCCAGCTGC 11385 Query 43041 TTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTTT 43100 || ||||| || ||||||||||||||||| | || | | ||| || || ||| || Sbjct 11384 TTGCCAGCAAAGATGAGTCGCTGCTGGTCAGGGGGGATGTCCTCTTTACCCTGGATCTTG 11325 Query 43101 TGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTT 43160 |||| || | | ||||| || | ||||| || | |||||||| ||||| || Sbjct 11324 GCCTTGACATTCTCAATGGTGTCACTGGGATCCACTTCCAGGGTGATGGTCTTGCCTGTC 11265 Query 43161 AGCGTCTTTACAAAGATTTGCAT 43183 || ||||| |||||||| ||||| Sbjct 11264 AGGGTCTTCACAAAGATCTGCAT 11242 >seq78627 Length=1950313 Score = 105 bits (116), Expect = 8e-18 Identities = 70/78 (90%), Gaps = 0/78 (0%) Strand=Plus/Plus Query 60064 TTCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCAC 60123 |||||| || | ||||||||||||| ||||||||||||||||||||| ||||||||||| Sbjct 538498 TTCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCAC 538557 Query 60124 TATACTACCGAGGATTGA 60141 ||||||| |||||| ||| Sbjct 538558 TATACTAACGAGGAGTGA 538575 >seq7994 Length=453558 Score = 102 bits (112), Expect = 9e-17 Identities = 67/74 (91%), Gaps = 0/74 (0%) Strand=Plus/Minus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 |||||||| | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 9218 TCTCCTCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 9159 Query 60125 ATACTACCGAGGAT 60138 |||||| || |||| Sbjct 9158 ATACTAACGGGGAT 9145 >seq117011 Length=451335 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 277521 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 277580 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 277581 ATACTAACGAGGA 277593 Score = 98.7 bits (108), Expect = 1e-15 Identities = 65/72 (90%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 60066 CTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 60125 |||| || | ||||||||||||| ||||||||||||||||||||| ||||||||||||| Sbjct 236057 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 235998 Query 60126 TACTACCGAGGA 60137 ||||| |||||| Sbjct 235997 TACTAACGAGGA 235986 >seq27479 Length=274127 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 32468 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 32409 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 32408 ATACTAACGAGGA 32396 >seq108018 Length=242351 Score = 98.7 bits (108), Expect = 1e-15 Identities = 65/72 (90%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 60066 CTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 60125 |||| || | ||||||||||||| ||||||||||||||||||||| ||||||||||||| Sbjct 191687 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 191628 Query 60126 TACTACCGAGGA 60137 ||||| |||||| Sbjct 191627 TACTAACGAGGA 191616 >seq35323 Length=73809 Score = 98.7 bits (108), Expect = 1e-15 Identities = 66/74 (89%), Gaps = 0/74 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 |||||||| | ||||||||||||| ||| ||||||||||||||||| |||||||||||| Sbjct 64 TCTCCTCGTCGGGGAATCGAACCCCGGTNTCCCGCGTGACAGGCGGGGATACTCACCACT 123 Query 60125 ATACTACCGAGGAT 60138 |||||| || |||| Sbjct 124 ATACTAGCGGGGAT 137 >seq75927 Length=353701 Score = 91.5 bits (100), Expect = 2e-13 Identities = 64/73 (88%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | |||||| |||||| ||||||||||||||||||||| ||||| |||||| Sbjct 158940 TCTCCCCGTCGGGGAATTGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTAACCACT 158999 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 159000 ATACTAACGAGGA 159012 >seq7954 Length=808569 Score = 87.8 bits (96), Expect = 2e-12 Identities = 149/216 (69%), Gaps = 0/216 (0%) Strand=Plus/Minus Query 42971 CAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTC 43030 |||||| | ||| | ||| |||||||||||| |||| |||| || ||| || | || Sbjct 793854 CAACACAAGATGAAGGGTGGACTCCTTTTGAATGCTGTAGTCAGACAAAGTACGGCCATC 793795 Query 43031 ATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTC 43090 || ||||||||||||||||| || || | ||||| || | || | | ||||| || Sbjct 793794 TTCCAGCTGCTTACCAGCGAAGATCAGCCTTTGCTGATCAGGAGGAATTCCTTCCTTATC 793735 Query 43091 CATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATGGT 43150 | ||| || || | | | | ||||| | ||| || |||| ||||||||| Sbjct 793734 CTGGATCTTGGCCTTCAAATTTTCTATAGTGTCTGAGGGTTCAACCTCGAGCGTGATGGT 793675 Query 43151 TTTGCCCGTTAGCGTCTTTACAAAGATTTGCATTTT 43186 ||| || || | ||||| ||||| || | ||| || Sbjct 793674 TTTCCCTGTAAAGGTCTTCACAAAAATCTCCATCTT 793639 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 570964355220440