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_003391.1 Length=205719 Score E Sequences producing significant alignments: (Bits) Value seq8036 167 3e-36 seq50462 143 3e-29 seq44403 122 1e-22 seq14694 105 9e-18 seq116961 91.5 2e-13 >seq8036 Length=301664 Score = 167 bits (184), Expect = 3e-36 Identities = 154/195 (79%), Gaps = 0/195 (0%) Strand=Plus/Plus Query 9227 TTATTTCTTATTAGATACTTCCAAAAGCTGTAACAGATGCAAGAACAGATTGATGATATC 9286 ||| || |||||| | |||||| || | | ||| |||| ||||||||||||||| || Sbjct 60223 TTACTTTTTATTAACTGCTTCCAGAAACCTCAGCAGGTGCAGGAACAGATTGATGATGTC 60282 Query 9287 CAAGTAGAAATTGATAGAGGCTAACACATAGTCTTCAGGCGAGAGCTTATGTATTAGTGA 9346 |||||||| |||||| | |||| ||||| |||||||| || || | || || || || Sbjct 60283 CAAGTAGAGATTGATGGCAGCTAGTACATACTCTTCAGGAGACAGTCTGTGCATCAGCGA 60342 Query 9347 GTGCGTGTCATAGATAATGAATCCGCAGAATACAAGGGCCCCAAAAGCAGACAGGACCAG 9406 |||||| |||||||| |||||||| ||||| | |||||| || | || ||||| |||||| Sbjct 60343 GTGCGTATCATAGATGATGAATCCACAGAAAAGAAGGGCGCCCAGAGAAGACAAGACCAG 60402 Query 9407 CTCCACTGTTTCACT 9421 ||||| |||||||| Sbjct 60403 CTCCATGGTTTCACT 60417 Score = 84.2 bits (92), Expect = 3e-11 Identities = 60/69 (87%), Gaps = 0/69 (0%) Strand=Plus/Plus Query 9847 CCATTCGTATGTGCACACTGGCAGACGCCACCGAGCTGCCATAGTTGAAGTCGTCCTCGA 9906 |||| || |||||||| ||||| || ||||| ||||||| ||||||||||| ||||||| Sbjct 78760 CCATGCGGATGTGCACGCTGGCCGAGGCCACGCAGCTGCCGTAGTTGAAGTCATCCTCGA 78819 Query 9907 TGGAGGAGC 9915 ||||||||| Sbjct 78820 TGGAGGAGC 78828 >seq50462 Length=1534 Score = 143 bits (158), Expect = 3e-29 Identities = 103/119 (87%), Gaps = 0/119 (0%) Strand=Plus/Minus Query 9480 CCTGCTCCAAGTTTACTGAAATCTCTCTTTGATTGTAGAGTATATGCAGTCAGAGCAAGA 9539 |||||||||| ||| ||||||||||||||||| ||||||||||| ||||||||| ||||| Sbjct 281 CCTGCTCCAAATTTGCTGAAATCTCTCTTTGACTGTAGAGTATAGGCAGTCAGACCAAGA 222 Query 9540 AACACTGCAGTAGTCAGCATGAAAGCTTGCATAACGACATGCACATCATAGAAAGTAAC 9598 || |||||||||||||| || || ||||||| ||| | ||||| |||||||||||| Sbjct 221 AAGACTGCAGTAGTCAGTATAAAGGCTTGCAGAACCAGGAACACATTATAGAAAGTAAC 163 >seq44403 Length=740699 Score = 122 bits (134), Expect = 1e-22 Identities = 109/137 (80%), Gaps = 0/137 (0%) Strand=Plus/Minus Query 65181 ACTTGAAATTCTCCAGACAATACTCTCCGAGTGTAAATATTACTGGTATACGGTTCCACA 65240 || ||||||||||| ||||| || || |||||||| || |||||||| || ||||| | Sbjct 631769 ACCTGAAATTCTCCTGACAAGACCCTGCGAGTGTAGATGTTACTGGTGTAAGGTTCAATG 631710 Query 65241 GACTCATTATTTCCCAAAATTTGAGCAGTTGATGCAGTCGGCATAGGTGCCACCAATAAA 65300 || |||||||| |||| ||| ||||||||||| ||||| ||||| || || | | |||| Sbjct 631709 GATTCATTATTCCCCAGAATCTGAGCAGTTGAGGCAGTAGGCATTGGGGCAATAAGTAAA 631650 Query 65301 CTATTTCTAAGACCGTA 65317 || ||||| | ||| || Sbjct 631649 CTGTTTCTTACACCATA 631633 Score = 96.9 bits (106), Expect = 5e-15 Identities = 124/171 (73%), Gaps = 0/171 (0%) Strand=Plus/Minus Query 64906 TCCATCCGTAAAAATGCATACTCGTTAGTTTGGAATAACTCGGATCTGCTATATGGATAT 64965 |||| ||||| || |||||||| || |||||| ||| | || || || || ||||| | Sbjct 634851 TCCAGCCGTAGAAGTGCATACTAGTGAGTTTGCCATAGTTAGGCTCAGCAATGTGGATGT 634792 Query 64966 TCATAGATTGACTTTGATCGATGAAGGCTCCCCTGTCTGCAGCCATTTTTATGATCGTCT 65025 | | ||| || |||||||||||||| || || || || || ||||| || | | |||| Sbjct 634791 TTAAAGACTGGCTTTGATCGATGAAAGCACCTCTCTCGGCTGCCATCTTGAGAACAGTCT 634732 Query 65026 TTTGTGGAATTTCCCAAATAGTTTTATAAACTCGCTTAATATCTTCTGGAA 65076 | || | |||||||| | ||| ||||| | |||| | || || |||| Sbjct 634731 TCTGAGAGATTTCCCACACAGTCTTATAGAGCTGCTTTAGGTCATCAGGAA 634681 Score = 93.3 bits (102), Expect = 6e-14 Identities = 119/164 (73%), Gaps = 0/164 (0%) Strand=Plus/Minus Query 66801 CTAAATAGtttttttGTTTCTTTGTGTAGATTTGATACGGCTATTCTAGCGGCTATAATG 66860 || || | ||| |||||||||||||| | || || || || || || || |||| || Sbjct 612569 CTGAACACTTTCTTTGTTTCTTTGTGCAAGTTAGAGACAGCAATCCTTGCTGCTAAGATA 612510 Query 66861 GCATAATCCGGATGTTGTGTAGTACAAGTGGCTGCTATTTCGGCTGCCAGAGTGTCCAAT 66920 ||||| || || || | ||||| | || || ||| | || || |||||||| |||| | Sbjct 612509 GCATAGTCAGGGTGCTTCGTAGTCAAGGTTGCAGCTGTCTCTGCAGCCAGAGTATCCAGT 612450 Query 66921 TCTACCGTTGTTACTCCATTATATATTCCTTGGATAACCTTCAT 66964 || || || || || ||| |||| | |||||||| || ||||| Sbjct 612449 TCCACTGTGGTGACCCCACTATACAGGCCTTGGATTACTTTCAT 612406 >seq14694 Length=1798513 Score = 105 bits (116), Expect = 9e-18 Identities = 96/121 (79%), Gaps = 0/121 (0%) Strand=Plus/Plus Query 36180 CCTCGTCTCTACTAATTAATTCGTTGGAAAACGTGAGTCCGGGCATTAGGCCACGCTTTT 36239 |||||||||| ||||| | || ||||||||||| || || ||||| || || || || | Sbjct 774096 CCTCGTCTCTGCTAATAAGCTCATTGGAAAACGTAAGGCCAGGCATCAGTCCCCGTTTCT 774155 Query 36240 TAAGCCAAAATATGGACGCAAATGATCCAGAAAAGAAAATTCCTTCTACTGCCGCAAAGG 36299 | ||||| ||||| || ||||| || ||||| ||||| || ||||| || || ||||||| Sbjct 774156 TGAGCCAGAATATTGATGCAAAAGAGCCAGAGAAGAAGATCCCTTCCACGGCGGCAAAGG 774215 Query 36300 C 36300 | Sbjct 774216 C 774216 Score = 95.1 bits (104), Expect = 2e-14 Identities = 109/145 (75%), Gaps = 5/145 (3%) Strand=Plus/Plus Query 35806 GTTTCTTTAAAAATCAACATCTAGAGAAAAATGATTGTCTTCTTGA----GACATAACTC 35861 |||| ||| |||||| |||| | | |||| ||| ||| |||| ||||| || | Sbjct 772095 GTTTACTTAGAAATCAGCATCCAAGGTAAAAGAATTCTCTG-TTGAACTCGACATCACCC 772153 Query 35862 CCATTTTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTTTTACCTTCTAATGATA 35921 |||| | |||||||| ||||| || || || || || || || || ||||||| ||| | Sbjct 772154 CCATCCTCTGGTATTCTCCCACTCGCTTCTCAAAGAAGTTTGTCTTTCCTTCTAGTGAAA 772213 Query 35922 TATTTTCCATGAAATCGAATGGATT 35946 ||||||||||||| || |||||||| Sbjct 772214 TATTTTCCATGAAGTCAAATGGATT 772238 >seq116961 Length=993603 Score = 91.5 bits (100), Expect = 2e-13 Identities = 197/292 (67%), Gaps = 7/292 (2%) Strand=Plus/Minus Query 33964 TCTGGATAATATATACGTTGATAGATTAGCTGAGCTATTCTATCCCCCGTATTTACATTG 34023 ||||||||| | || |||| | | || ||||| || || | ||| || | || || | Sbjct 255538 TCTGGATAAAAGATCCGTTCAGAAATGAGCTGTGCAATCCGATCACCTTTTTTCACTTCA 255479 Query 34024 AATGTACATTTTCCATTATTAATAAGAATGACTCCTATATTTCCCCTATAATCTTCGTCT 34083 || | ||||||| ||||| || | || || | |||||| ||||||||||| ||| Sbjct 255478 AACTTCTCTTTTCCAAAATTAAACAGCACAACACCAACATTTCCTCTATAATCTTCATCT 255419 Query 34084 ATTACACCGCCTCCTATATCAAT---ACCTTTTAGGGACAGACCAGACCTAGGAGCTATT 34140 || ||||| |||||| ||| || ||||| | || ||||| | ||||||| | Sbjct 255418 ATGACACCAGCTCCTACATCTATGAAGGGTTTTACTGCCAAGCCAGAACCTGGAGCTACT 255359 Query 34141 CTACCATAGCAGAACTTAGGCATGGACATACTAATATCTGTCTTAATTAATTGTCTTTCT 34200 || |||||||| ||| | | || ||| ||||| || | | || |||||| Sbjct 255358 CTTCCATAGCATCCAGAAGGAACAGCTATCTGAATGTCTGTTTTCA--CAATGGCTTTCT 255301 Query 34201 CC--TGGAGGGATAGTATAATAATAAGCGCTATATAAATCATATCCGGCGGC 34250 || || ||||| ||||||| ||| || || || | || || || || || Sbjct 255300 CCATGGGTGGGATTGTATAATCATAGGCACTGTACAGGTCGTAGCCCGCAGC 255249 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 657190699229320