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_001611.1 Length=185578 Score E Sequences producing significant alignments: (Bits) Value seq44403 122 1e-22 seq116961 109 7e-19 seq14694 105 8e-18 >seq44403 Length=740699 Score = 122 bits (134), Expect = 1e-22 Identities = 109/137 (80%), Gaps = 0/137 (0%) Strand=Plus/Minus Query 53150 ACTTGAAATTCTCCAGACAATACTCTCCGAGTGTAAATATTACTGGTATACGGTTCCACA 53209 || ||||||||||| ||||| || || |||||||| || |||||||| || ||||| | Sbjct 631769 ACCTGAAATTCTCCTGACAAGACCCTGCGAGTGTAGATGTTACTGGTGTAAGGTTCAATG 631710 Query 53210 GACTCATTATTTCCCAAAATTTGAGCAGTTGATGCAGTCGGCATAGGTGCCACCAATAAA 53269 || |||||||| |||| ||| ||||||||||| ||||| ||||| || || | | |||| Sbjct 631709 GATTCATTATTCCCCAGAATCTGAGCAGTTGAGGCAGTAGGCATTGGGGCAATAAGTAAA 631650 Query 53270 CTATTTCTAAGACCGTA 53286 || ||||| | ||| || Sbjct 631649 CTGTTTCTTACACCATA 631633 Score = 96.9 bits (106), Expect = 4e-15 Identities = 124/171 (73%), Gaps = 0/171 (0%) Strand=Plus/Minus Query 52875 TCCATCCGTAAAAATGCATACTTGTTAGTTTGGAATAACTCGGATCTGCTATATGGATAT 52934 |||| ||||| || |||||||| || |||||| ||| | || || || || ||||| | Sbjct 634851 TCCAGCCGTAGAAGTGCATACTAGTGAGTTTGCCATAGTTAGGCTCAGCAATGTGGATGT 634792 Query 52935 TCATAGATTGACTTTGATCGATGAAGGCTCCCCTGTCTGCAGCCATTTTTATGATCGTCT 52994 | | ||| || |||||||||||||| || || || || || ||||| || | | |||| Sbjct 634791 TTAAAGACTGGCTTTGATCGATGAAAGCACCTCTCTCGGCTGCCATCTTGAGAACAGTCT 634732 Query 52995 TTTGTGGAATTTCCCAAATAGTTTTATAAACTCGCTTAATATCTTCTGGAA 53045 | || | |||||||| | ||| ||||| | |||| | || || |||| Sbjct 634731 TCTGAGAGATTTCCCACACAGTCTTATAGAGCTGCTTTAGGTCATCAGGAA 634681 Score = 89.7 bits (98), Expect = 6e-13 Identities = 118/164 (72%), Gaps = 0/164 (0%) Strand=Plus/Minus Query 54770 CTAAATAGtttttttGTTTCTTTGTGTAGATTTGATACGGCTATTCTAGCGGCTAGAATG 54829 || || | ||| |||||||||||||| | || || || || || || || |||| || Sbjct 612569 CTGAACACTTTCTTTGTTTCTTTGTGCAAGTTAGAGACAGCAATCCTTGCTGCTAAGATA 612510 Query 54830 GCATAATCCGGATGTTGTGTAGTACAAGTGGCTGCTATTTCGGCTGTCAGAGTGTCCAAT 54889 ||||| || || || | ||||| | || || ||| | || || | |||||| |||| | Sbjct 612509 GCATAGTCAGGGTGCTTCGTAGTCAAGGTTGCAGCTGTCTCTGCAGCCAGAGTATCCAGT 612450 Query 54890 TCTACCGTTGTTACTCCATTATATATTCCTTGGATAACCTTCAT 54933 || || || || || ||| |||| | |||||||| || ||||| Sbjct 612449 TCCACTGTGGTGACCCCACTATACAGGCCTTGGATTACTTTCAT 612406 Score = 86.0 bits (94), Expect = 7e-12 Identities = 101/137 (74%), Gaps = 0/137 (0%) Strand=Plus/Minus Query 54025 CTTCACTCGTTTCATAAAGAGATCAGGAATCCAAAGAGCTATAAATAGATCTCTGGTTCT 54084 || |||||| ||||| |||||||| ||||||||||| || | || ||||| | || || Sbjct 624566 CTCCACTCGCTTCATGAAGAGATCTGGAATCCAAAGTGCAAAGAAGAGATCCCGGGCTCG 624507 Query 54085 ATGTTCCTCGTTTCCTGTATTCTTTTTAAGATCGAGGAACGCCATAATATCAGAATGCCA 54144 || || || || ||||| ||||| || | || |||||| | | || || | ||||| Sbjct 624506 CTGCTCTTCCTTCCCTGTGTTCTTCTTCAAGTCAAGGAACTCAAAGATGTCTAAGTGCCA 624447 Query 54145 CGGTTCCAAGTATATGG 54161 || |||| ||| |||| Sbjct 624446 AGGCTCCAGGTAAATGG 624430 >seq116961 Length=993603 Score = 109 bits (120), Expect = 7e-19 Identities = 201/292 (69%), Gaps = 7/292 (2%) Strand=Plus/Minus Query 21947 TCTGGATAATATATACGTTGATAGATTAGCTGAGCTATTCTATCCCCCGTATTTACATTA 22006 ||||||||| | || |||| | | || ||||| || || | ||| || | || || | | Sbjct 255538 TCTGGATAAAAGATCCGTTCAGAAATGAGCTGTGCAATCCGATCACCTTTTTTCACTTCA 255479 Query 22007 AATGTATATTTTCCATTATTAATAAGAATGACTCCTATATTTCCCCTATAATCTTCGTCT 22066 || | | ||||||| ||||| || | || || | |||||| ||||||||||| ||| Sbjct 255478 AACTTCTCTTTTCCAAAATTAAACAGCACAACACCAACATTTCCTCTATAATCTTCATCT 255419 Query 22067 ATTACACCGCCTCCTATATCAAT---GCCTTTTAGGGACAGACCAGACCTAGGAGCTATT 22123 || ||||| |||||| ||| || | ||||| | || ||||| | ||||||| | Sbjct 255418 ATGACACCAGCTCCTACATCTATGAAGGGTTTTACTGCCAAGCCAGAACCTGGAGCTACT 255359 Query 22124 CTACCATAGCAGAACTTAGGCATGGACATACTAATATCTGTCTTAATTAATTGTCTTTCT 22183 || |||||||| ||| | | || ||| ||||| || | | || |||||| Sbjct 255358 CTTCCATAGCATCCAGAAGGAACAGCTATCTGAATGTCTGTTTTCA--CAATGGCTTTCT 255301 Query 22184 CC--TGGAGGGATAGTATAATCATAAGCGCTATATAAATCATATCCGGCGGC 22233 || || ||||| ||||||||||| || || || | || || || || || Sbjct 255300 CCATGGGTGGGATTGTATAATCATAGGCACTGTACAGGTCGTAGCCCGCAGC 255249 >seq14694 Length=1798513 Score = 105 bits (116), Expect = 8e-18 Identities = 96/121 (79%), Gaps = 0/121 (0%) Strand=Plus/Plus Query 24157 CCTCGTCTCTACTAATTAATTCGTTGGAAAACGTGAGTCCGGGCATTAGGCCACGCTTTT 24216 |||||||||| ||||| | || ||||||||||| || || ||||| || || || || | Sbjct 774096 CCTCGTCTCTGCTAATAAGCTCATTGGAAAACGTAAGGCCAGGCATCAGTCCCCGTTTCT 774155 Query 24217 TAAGCCAAAATATGGACGCAAATGATCCAGAAAAGAAAATTCCTTCTACTGCCGCAAAGG 24276 | ||||| ||||| || ||||| || ||||| ||||| || ||||| || || ||||||| Sbjct 774156 TGAGCCAGAATATTGATGCAAAAGAGCCAGAGAAGAAGATCCCTTCCACGGCGGCAAAGG 774215 Query 24277 C 24277 | Sbjct 774216 C 774216 Score = 91.5 bits (100), Expect = 2e-13 Identities = 108/145 (74%), Gaps = 5/145 (3%) Strand=Plus/Plus Query 23783 GTTTCTTTAAAAGTCAACATCTAAAGAAAAATGATTGTCTTCTTGA----GACATAACTC 23838 |||| ||| || ||| |||| || | |||| ||| ||| |||| ||||| || | Sbjct 772095 GTTTACTTAGAAATCAGCATCCAAGGTAAAAGAATTCTCTG-TTGAACTCGACATCACCC 772153 Query 23839 CCATTTTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTTTTACCTTCTAATGATA 23898 |||| | |||||||| ||||| || || || || || || || || ||||||| ||| | Sbjct 772154 CCATCCTCTGGTATTCTCCCACTCGCTTCTCAAAGAAGTTTGTCTTTCCTTCTAGTGAAA 772213 Query 23899 TATTTTCCATGAAATCGGATGGATT 23923 ||||||||||||| || ||||||| Sbjct 772214 TATTTTCCATGAAGTCAAATGGATT 772238 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 592835670893040