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: Clupea_20harengus_20[refseq_20GCF_5F000966335.1_202015-03-30] 6,915 sequences; 807,711,962 total letters Query= NC_024696.1 Length=180800 Score E Sequences producing significant alignments: (Bits) Value seq4308 120 4e-22 seq2278 120 4e-22 seq2703 116 4e-21 seq2123 114 1e-20 seq5481 109 6e-19 seq5240 107 2e-18 seq6412 102 9e-17 >seq4308 Length=3925911 Score = 120 bits (132), Expect = 4e-22 Identities = 244/358 (68%), Gaps = 6/358 (2%) Strand=Plus/Minus Query 162640 CGCACCATCTCTAGATTGGTCTTAAGGGGAAAGTCGGTGCCGCAGAGATTAATAACATAT 162699 |||||||||||| ||||| || | ||| ||||| || || ||| ||| |||| || Sbjct 1325153 CGCACCATCTCTGTGTTGGTTTTGATGGGGAAGTCAGTTCCACAGGTATTGATAAGGTAC 1325094 Query 162700 TTCCACTTAAC-GCTGAGTCCGTACAGATCCTGTAGACAGTTCAGATCGGCCTGGACGCG 162758 ||||||| ||| | |||||| |||||| | | |||||||| || || ||||| || Sbjct 1325093 TTCCACTCAACAGTCGAGTCC-ACCAGATCATTCATGCAGTTCAGGTCAGCTTGGACTCG 1325035 Query 162759 ACTCCACGACGCGTACACGACGCTCTCCAACCTAGTGGCGACAAAGACATTGTCGAAACA 162818 | ||| || || || || | ||||||| | | || ||||| ||||| ||||| Sbjct 1325034 AGACCAAGAGGCATAAACAAGCCTCTCCAGTTTGCTTGCCACAAACACATTTGGAAAACA 1324975 Query 162819 CGAAACTATCCCCATCACGGCCA--GTGAGAACATCGGGTCCGCTTTCCTATCTACGTGT 162876 ||||| || | ||| |||| ||| || || | ||| | || || || Sbjct 1324974 AGAAACAATGGCTTCCACAGCCATCATGAAGTTTTCTGG--AGACTTCTTGTCCACATGC 1324917 Query 162877 ACGCAGTATAGATTCTGAGGGGCGTAGATGGCCCTCAGTAATCTCTCGAACATCTCTATC 162936 || ||||| | |||||| || | ||| | || ||||| | ||||| |||||||| ||| Sbjct 1324916 ACACAGTACACATTCTGTGGTGTGTACACAGCTCTCAGGAGCCTCTCAAACATCTCGATC 1324857 Query 162937 TTATGGTGTACCACGATAGAATACGCTATGGGGAACTCAGCCTCCTCGCGACTGAGAG 162994 | || || | ||| || ||||| || || || || || ||| || |||||||| Sbjct 1324856 TGATCATGGATCACCATGGAATAGGCAATAGGAAAGTCCCTCTCTTCTTCACTGAGAG 1324799 >seq2278 Length=6606680 Score = 120 bits (132), Expect = 4e-22 Identities = 244/358 (68%), Gaps = 6/358 (2%) Strand=Plus/Plus Query 162640 CGCACCATCTCTAGATTGGTCTTAAGGGGAAAGTCGGTGCCGCAGAGATTAATAACATAT 162699 |||||||||||| ||||| || | ||| ||||| || || ||| ||| |||| || Sbjct 4234649 CGCACCATCTCTGTGTTGGTTTTGATGGGGAAGTCAGTTCCACAGGTATTGATAAGGTAC 4234708 Query 162700 TTCCACTTAAC-GCTGAGTCCGTACAGATCCTGTAGACAGTTCAGATCGGCCTGGACGCG 162758 ||||||| ||| | |||| | ||||||| | | |||||||| || || ||||| || Sbjct 4234709 TTCCACTCAACAGTCGAGTTC-AACAGATCATTCATGCAGTTCAGGTCAGCTTGGACTCG 4234767 Query 162759 ACTCCACGACGCGTACACGACGCTCTCCAACCTAGTGGCGACAAAGACATTGTCGAAACA 162818 | ||| | || || || || ||||||| | | || ||||| ||||| ||||| Sbjct 4234768 AGACCAAGTGGCATAAACAACCCTCTCCAGTTTGCTTGCCACAAACACATTTGGAAAACA 4234827 Query 162819 CGAAACTATCCCCATCACGGCC--AGTGAGAACATCGGGTCCGCTTTCCTATCTACGTGT 162876 ||||| || | | | ||| |||| | || || | ||| | || || || Sbjct 4234828 AGAAACAATGGCTTCCGCAGCCTTCGTGAAATTTTCTGG--AGACTTCTTGTCCACATGC 4234885 Query 162877 ACGCAGTATAGATTCTGAGGGGCGTAGATGGCCCTCAGTAATCTCTCGAACATCTCTATC 162936 || ||||| | |||||| || | ||| | || || |||| ||||| |||||||| ||| Sbjct 4234886 ACACAGTACACATTCTGTGGTGTGTACACAGCTCTGAGTAGCCTCTCAAACATCTCGATC 4234945 Query 162937 TTATGGTGTACCACGATAGAATACGCTATGGGGAACTCAGCCTCCTCGCGACTGAGAG 162994 || | || | ||| || ||||| || || || || || ||| || |||||||| Sbjct 4234946 TTCTCATGGATCACCATGGAATAGGCAATAGGAAAGTCCCTCTCTTCTTCACTGAGAG 4235003 Score = 111 bits (122), Expect = 2e-19 Identities = 242/358 (68%), Gaps = 6/358 (2%) Strand=Plus/Minus Query 162640 CGCACCATCTCTAGATTGGTCTTAAGGGGAAAGTCGGTGCCGCAGAGATTAATAACATAT 162699 |||||||||||| ||||| || | ||| ||||| || || ||| ||| |||| || Sbjct 4157506 CGCACCATCTCTTTGTTGGTTTTGATGGGGAAGTCAGTTCCACAGGTATTGATAAGGTAC 4157447 Query 162700 TTCCACTTAAC-GCTGAGTCCGTACAGATCCTGTAGACAGTTCAGATCGGCCTGGACGCG 162758 ||||||||||| | |||| | ||||||| | | |||||||| || || ||||| || Sbjct 4157446 TTCCACTTAACAGTCGAGTTC-AACAGATCATTCATGCAGTTCAGGTCAGCTTGGACTCG 4157388 Query 162759 ACTCCACGACGCGTACACGACGCTCTCCAACCTAGTGGCGACAAAGACATTGTCGAAACA 162818 | ||| || || || || || ||||||| | | || ||||| ||||| ||||| Sbjct 4157387 AGACCAAGAGGCATAAACAACCCTCTCCAGTTTGCTTGCCACAAACACATTTGGAAAACA 4157328 Query 162819 CGAAACTATCCCCATCACGGCC--AGTGAGAACATCGGGTCCGCTTTCCTATCTACGTGT 162876 || || || | | | ||| ||| || || | ||| | || || || Sbjct 4157327 AGACACAATGGCTTCCGCAGCCTTCATGAAGTTTTCTGG--AGACTTCTTGTCCACATGC 4157270 Query 162877 ACGCAGTATAGATTCTGAGGGGCGTAGATGGCCCTCAGTAATCTCTCGAACATCTCTATC 162936 || ||||| | |||||| || | ||| | || || || | ||||| |||||||| ||| Sbjct 4157269 ACACAGTACACATTCTGTGGTGTGTACACAGCTCTGAGGAGCCTCTCAAACATCTCGATC 4157210 Query 162937 TTATGGTGTACCACGATAGAATACGCTATGGGGAACTCAGCCTCCTCGCGACTGAGAG 162994 || | || | ||| || ||||| || || || || || ||| || |||||||| Sbjct 4157209 TTTTCATGGATCACCATGGAATAGGCAATAGGAAAGTCCCTCTCTTCTTCACTGAGAG 4157152 >seq2703 Length=1544229 Score = 116 bits (128), Expect = 4e-21 Identities = 226/334 (68%), Gaps = 0/334 (0%) Strand=Plus/Plus Query 176956 TAGGGGACGTGTAGTCGTTCACGTGAATGAAAGCGTCTCCCGGGACGTAATTTTCGTAAT 177015 ||||||| | | || | ||| ||||||||||| ||||| || || | || || |||| Sbjct 939697 TAGGGGAAAGGAAATCATCCACATGAATGAAAGCATCTCCTGGCACAAAGTTCTCATAAT 939756 Query 177016 TCTCTCTCGATGTTCCGAGTACTATGGGTACCGCACCTGCCATAAGAGATCGGTAGAGTT 177075 ||| | || | ||| || || ||||| || || || || |||| | |||||| Sbjct 939757 TCTGACGAGAAGGTCCAAGGACGATGGGCACTGCGCCCGCAGAGAGAGGGTTGAAGAGTT 939816 Query 177076 TTTCGGTAATATAGTCCCTGTGTACGGAGTTCTCAAACGCGAGATAGAATTTACAGGAAG 177135 | || || || ||||| |||| | |||||||||||| | ||||||||||||||| || Sbjct 939817 TCTCAGTTATGTAGTCTTTGTGGATGGAGTTCTCAAATGAGAGATAGAATTTACAACTAG 939876 Query 177136 ATAGTAGCGGGATGAAGTCATCATCGGGTATATAATCTCCTACTACGTTCCCGTATACAT 177195 ||| | || ||||| | || | || || || | | | || ||| || Sbjct 939877 ATATGGTTGAGAAAAAGTCTTTGTCAATGACGTATTCCCCAAAGGCTTGGCCATATGTAT 939936 Query 177196 GTATATCTATGTGTTTACTGAGCTCTAGGTAGTATCTCGATCTCACGTGGTCGTTGTTCC 177255 |||| || ||||| ||||| | ||| ||||||| || ||| | ||||| |||| Sbjct 939937 GTATCTCAATGTGCTTACTCAACTCACTGTAGTATTTCACTCTGGCATGGTCAGCATTCC 939996 Query 177256 AATTGCTGACGACCCAGCAAACTAACTTGCTCTT 177289 | || || || | |||||| || | ||| |||| Sbjct 939997 AGTTACTAACAATCCAGCACACCATCTTTGTCTT 940030 >seq2123 Length=1046558 Score = 114 bits (126), Expect = 1e-20 Identities = 243/358 (68%), Gaps = 6/358 (2%) Strand=Plus/Minus Query 162640 CGCACCATCTCTAGATTGGTCTTAAGGGGAAAGTCGGTGCCGCAGAGATTAATAACATAT 162699 |||||||||||| ||||| || | ||| ||||| || || ||| ||| |||| || Sbjct 25417 CGCACCATCTCTGTGTTGGTTTTGATGGGGAAGTCAGTTCCACAGGTATTGATAAGGTAC 25358 Query 162700 TTCCACTTAAC-GCTGAGTCCGTACAGATCCTGTAGACAGTTCAGATCGGCCTGGACGCG 162758 ||||||| ||| | ||||| |||||| | | |||||||| || || ||||| || Sbjct 25357 TTCCACTCAACAGTCAAGTCC-AGCAGATCATTCATGCAGTTCAGGTCAGCTTGGACTCG 25299 Query 162759 ACTCCACGACGCGTACACGACGCTCTCCAACCTAGTGGCGACAAAGACATTGTCGAAACA 162818 | ||| || || || || || ||||||| | | || ||||| ||||| ||||| Sbjct 25298 AGACCAAGAGGCATAAACAACCCTCTCCAGTTTGCTTGCCACAAACACATTTGGAAAACA 25239 Query 162819 CGAAACTATCCCCATCACGGCC--AGTGAGAACATCGGGTCCGCTTTCCTATCTACGTGT 162876 ||||| || | ||| ||| ||| || || | ||| | || || || Sbjct 25238 AGAAACAATGGCTTCCACAGCCTTCATGAAGTTTTCTGG--AGACTTCTTGTCCACATGC 25181 Query 162877 ACGCAGTATAGATTCTGAGGGGCGTAGATGGCCCTCAGTAATCTCTCGAACATCTCTATC 162936 || ||||| | |||||| || | ||| | || || || | ||||| |||||||| ||| Sbjct 25180 ACACAGTACACATTCTGTGGTGTGTACACAGCTCTGAGGAGCCTCTCAAACATCTCGATC 25121 Query 162937 TTATGGTGTACCACGATAGAATACGCTATGGGGAACTCAGCCTCCTCGCGACTGAGAG 162994 || | || | ||| || ||||| || || || || ||| ||| || |||||||| Sbjct 25120 TTCTCATGGATCACCATGGAATAGGCAATAGGAAAGTCATTCTCTTCTTCACTGAGAG 25063 >seq5481 Length=6639876 Score = 109 bits (120), Expect = 6e-19 Identities = 140/190 (74%), Gaps = 6/190 (3%) Strand=Plus/Minus Query 176945 GGCCAGTTCTATAGGGGACGTGTAGTCGTTCACGTGAATGAAAGCGTCTCCCGGGACGTA 177004 |||||| ||| | || || | | |||||| |||||||||||| |||||||| ||| | | Sbjct 6458321 GGCCAGCTCTTTGGGCGAGGAGAAGTCGTCCACGTGAATGAAGGCGTCTCCTTGGATGAA 6458262 Query 177005 ATTTTCGTAATTCTCTCTCGATGTTCCGAGTACTATGGGTACCGCACCTGCCATA-AGAG 177063 || | || ||||| | |||| ||| || || | |||||||| | ||| | |||| Sbjct 6458261 GTTCTGATAGTTCTCCCGTGATGGTCCCAGCACCACTGGTACCGCCC---CCACAGAGAG 6458205 Query 177064 ATCG--GTAGAGTTTTTCGGTAATATAGTCCCTGTGTACGGAGTTCTCAAACGCGAGATA 177121 | | | |||| || || || || |||||| |||| | ||||||||| |||| |||||| Sbjct 6458204 AGGGTTGAAGAGCTTCTCCGTGATGTAGTCCTTGTGGATGGAGTTCTCGAACGAGAGATA 6458145 Query 177122 GAATTTACAG 177131 || |||||| Sbjct 6458144 AAACTTACAG 6458135 >seq5240 Length=617125 Score = 107 bits (118), Expect = 2e-18 Identities = 240/356 (67%), Gaps = 6/356 (2%) Strand=Plus/Plus Query 162640 CGCACCATCTCTAGATTGGTCTTAAGGGGAAAGTCGGTGCCGCAGAGATTAATAACATAT 162699 |||||||||||| ||||| || | ||| ||||| || || ||| ||| |||| || Sbjct 247726 CGCACCATCTCTGTGTTGGTTTTGATGGGGAAGTCAGTTCCACAGGTATTGATAAGGTAC 247785 Query 162700 TTCCACTTAAC-GCTGAGTCCGTACAGATCCTGTAGACAGTTCAGATCGGCCTGGACGCG 162758 ||||||| || | |||||| | |||||| | | |||||||| || || ||||| || Sbjct 247786 TTCCACTCGACAGTCGAGTCCAT-CAGATCATTCATGCAGTTCAGGTCAGCTTGGACTCG 247844 Query 162759 ACTCCACGACGCGTACACGACGCTCTCCAACCTAGTGGCGACAAAGACATTGTCGAAACA 162818 | ||| || || || || || |||||| | | || ||||| ||||| ||||| Sbjct 247845 AGACCAAGAGGCATAAACAACCCTCTCCTGTTTGCTTGCCACAAACACATTTGGAAAACA 247904 Query 162819 CGAAACTATCCCCATCACGGCC--AGTGAGAACATCGGGTCCGCTTTCCTATCTACGTGT 162876 ||||| || | ||| ||| ||| || || | ||| | || || || Sbjct 247905 AGAAACAATGGCTTCCACAGCCCTCATGAAGTTTTCTGG--AGACTTCTTGTCCACATGC 247962 Query 162877 ACGCAGTATAGATTCTGAGGGGCGTAGATGGCCCTCAGTAATCTCTCGAACATCTCTATC 162936 || ||||| | |||||| || | ||| | || || || | ||||| |||||||| ||| Sbjct 247963 ACACAGTACACATTCTGTGGTGTGTACACAGCTCTGAGGAGCCTCTCAAACATCTCGATC 248022 Query 162937 TTATGGTGTACCACGATAGAATACGCTATGGGGAACTCAGCCTCCTCGCGACTGAG 162992 || | || | ||| || ||||| || || || || || ||| || |||||| Sbjct 248023 TTCTCATGGATCACCATTGAATAGGCAATAGGAAAGTCCCTCTCTTCTTCACTGAG 248078 >seq6412 Length=1308369 Score = 102 bits (112), Expect = 9e-17 Identities = 228/338 (67%), Gaps = 6/338 (2%) Strand=Plus/Plus Query 162640 CGCACCATCTCTAGATTGGTCTTAAGGGGAAAGTCGGTGCCGCAGAGATTAATAACATAT 162699 |||||||||||| ||||| || | ||| ||||| || || ||| ||| |||| || Sbjct 1806 CGCACCATCTCTGCGTTGGTTTTGATGGGGAAGTCAGTTCCACAGGTATTGATAAGGTAC 1865 Query 162700 TTCCACTTAAC-GCTGAGTCCGTACAGATCCTGTAGACAGTTCAGATCGGCCTGGACGCG 162758 ||||||| ||| | ||||| |||||| | | |||||||| || || ||||| || Sbjct 1866 TTCCACTCAACAGTCAAGTCC-AGCAGATCATTCATGCAGTTCAGGTCAGCTTGGACTCG 1924 Query 162759 ACTCCACGACGCGTACACGACGCTCTCCAACCTAGTGGCGACAAAGACATTGTCGAAACA 162818 | ||| || || || || || ||||||| | | || ||||| ||||| ||||| Sbjct 1925 AGACCAAGAGGCATAAACAACCCTCTCCAGTTTGCTTGCCACAAACACATTTGGAAAACA 1984 Query 162819 CGAAACTATCCCCATCACGGCC--AGTGAGAACATCGGGTCCGCTTTCCTATCTACGTGT 162876 ||||| || | ||| ||| ||| || || | || | || || || Sbjct 1985 AGAAACAATGGCTTCCACTGCCTTCATGAAGTTTTCTGG--AGACCTCTTGTCCACATGC 2042 Query 162877 ACGCAGTATAGATTCTGAGGGGCGTAGATGGCCCTCAGTAATCTCTCGAACATCTCTATC 162936 || ||||| | |||||| || | ||| | || || || | ||||| |||||||| ||| Sbjct 2043 ACACAGTACACATTCTGTGGTGTGTACACAGCTCTGAGGAGCCTCTCAAACATCTCAATC 2102 Query 162937 TTATGGTGTACCACGATAGAATACGCTATGGGGAACTC 162974 || | || | ||| || ||||| || || || || || Sbjct 2103 TTCTCATGGATCACCATGGAATAGGCAATAGGAAAGTC 2140 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 578382001784000