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: Trichinella_20sp._20T6_20[genbank_20GCA_5F001447435.1_202015-11-24] 5,951 sequences; 50,853,738 total letters Query= NC_004690.1 Length=113220 Score E Sequences producing significant alignments: (Bits) Value seq1863 109 4e-19 seq332 109 4e-19 seq2524 104 2e-17 seq326 104 2e-17 seq5215 93.3 3e-14 >seq1863 Length=625 Score = 109 bits (120), Expect = 4e-19 Identities = 108/140 (77%), Gaps = 0/140 (0%) Strand=Plus/Minus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | |||| |||||| || || ||||||||||||||| || |||||||| Sbjct 429 CCAGCAAAAATCAGACGTTGCTGATCTGGTGGAATTCCTTCTTTATCTTGAATTTTGCCT 370 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 |||||| | ||||| ||||| |||||| |||||||| || ||||| || || ||| Sbjct 369 TTTACATTCTCTATTGTATCAGATGGTTCTACTTCTAAGGTGATCGTTTTGCCGGTAAGA 310 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || |||||||||||||| Sbjct 309 GTCTTAACAAAAATTTGCAT 290 Score = 104 bits (114), Expect = 2e-17 Identities = 107/140 (76%), Gaps = 0/140 (0%) Strand=Plus/Minus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | |||| |||||| || || ||||||||||||||| || |||||||| Sbjct 146 CCAGCAAAAATCAGACGTTGCTGATCTGGTGGAATTCCTTCTTTATCTTGAATTTTGCCT 87 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 |||||| ||||||| ||||| ||||| || ||||| || ||||| || || ||| Sbjct 86 TTTACATTTTCTATTGTATCAGATGGCTCTACTTCCAAGGTGATCGTTTTGCCGGTAAGA 27 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || |||||||||||||| Sbjct 26 GTCTTAACAAAAATTTGCAT 7 >seq332 Length=28044 Score = 109 bits (120), Expect = 4e-19 Identities = 108/140 (77%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | |||| |||||| || || ||||||||||||||| || |||||||| Sbjct 197 CCAGCAAAAATCAGACGTTGCTGATCTGGTGGAATTCCTTCTTTATCTTGAATTTTGCCT 256 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 |||||| | ||||| ||||| |||||| |||||||| || ||||| || || ||| Sbjct 257 TTTACATTCTCTATTGTATCAGATGGTTCTACTTCTAAGGTGATCGTTTTGCCGGTAAGA 316 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || |||||||||||||| Sbjct 317 GTCTTAACAAAAATTTGCAT 336 Score = 104 bits (114), Expect = 2e-17 Identities = 107/140 (76%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | |||| |||||| || || ||||||||||||||| || |||||||| Sbjct 480 CCAGCAAAAATCAGACGTTGCTGATCTGGTGGAATTCCTTCTTTATCTTGAATTTTGCCT 539 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 |||||| | ||||| ||||| |||||| || ||||| || ||||| || || ||| Sbjct 540 TTTACATTCTCTATTGTATCAGATGGTTCTACTTCCAAGGTGATCGTTTTGCCGGTAAGA 599 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || |||||||||||||| Sbjct 600 GTCTTAACAAAAATTTGCAT 619 Score = 102 bits (112), Expect = 6e-17 Identities = 112/149 (75%), Gaps = 0/149 (0%) Strand=Plus/Plus Query 15215 AATTGTTTGCCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAA 15274 || || || ||||| | |||||||||||||| || |||||||||||| || || Sbjct 27490 AACTGCTTACCAGCAAAAATCAAACGTTGTTGATCCGGTGGAATTCCTTCCTTATCCTGT 27549 Query 15275 ATTTTGCTCTTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTA 15334 ||||| | |||||| | ||||| ||||| |||||| || ||||| || ||||| Sbjct 27550 ATTTTCCCTTTTACATTCTCTATTGTATCAGATGGTTCTACTTCCAAGGTGATCGTTTTG 27609 Query 15335 CCTGTCAGAGTTTTTACAAAAATTTGCAT 15363 || || ||||| || |||||||||||||| Sbjct 27610 CCGGTAAGAGTCTTAACAAAAATTTGCAT 27638 Score = 100 bits (110), Expect = 2e-16 Identities = 106/140 (76%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | ||||||||||| || || ||||||||| ||||| || ||||||| Sbjct 26375 CCAGCAAAAATCAAACGTTGCTGATCTGGTGGAATTCCCTCTTTATCCTGTATTTTGCCT 26434 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 |||||| | ||||| ||||| |||||| |||||||| || ||||| || || ||| Sbjct 26435 TTTACATTCTCTATTGTATCAGATGGTTCTACTTCTAAGGTGATCGTTTTGCCGGTAAGA 26494 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || || ||||||||||| Sbjct 26495 GTCTTAACGAAAATTTGCAT 26514 Score = 98.7 bits (108), Expect = 7e-16 Identities = 111/149 (74%), Gaps = 0/149 (0%) Strand=Plus/Plus Query 15215 AATTGTTTGCCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAA 15274 |||| || ||||| | ||||||||||| || || |||||||||||| || || Sbjct 26648 AATTACTTACCAGCAAAAATCAAACGTTGCTGATCCGGTGGAATTCCTTCCTTATCCTGT 26707 Query 15275 ATTTTGCTCTTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTA 15334 ||||| | |||||| | ||||| ||||| |||||| || ||||| || ||||| Sbjct 26708 ATTTTCCCTTTTACATTCTCTATTGTATCAGATGGTTCTACTTCCAAGGTGATCGTTTTG 26767 Query 15335 CCTGTCAGAGTTTTTACAAAAATTTGCAT 15363 || || ||||| || |||||||||||||| Sbjct 26768 CCGGTAAGAGTCTTAACAAAAATTTGCAT 26796 Score = 98.7 bits (108), Expect = 7e-16 Identities = 111/149 (74%), Gaps = 0/149 (0%) Strand=Plus/Plus Query 15215 AATTGTTTGCCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAA 15274 |||| || ||||| | |||||||| ||||| || |||||||||||| || || Sbjct 27211 AATTACTTACCAGCAAAAATCAAACGCTGTTGATCCGGTGGAATTCCTTCCTTATCCTGT 27270 Query 15275 ATTTTGCTCTTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTA 15334 ||||| | |||||| | ||||| ||||| |||||| || ||||| || ||||| Sbjct 27271 ATTTTCCCTTTTACATTCTCTATTGTATCAGATGGTTCTACTTCCAAGGTGATCGTTTTG 27330 Query 15335 CCTGTCAGAGTTTTTACAAAAATTTGCAT 15363 || || ||||| || |||||||||||||| Sbjct 27331 CCGGTAAGAGTCTTAACAAAAATTTGCAT 27359 Score = 98.7 bits (108), Expect = 7e-16 Identities = 111/149 (74%), Gaps = 0/149 (0%) Strand=Plus/Plus Query 15215 AATTGTTTGCCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAA 15274 || || || ||||| | |||||||||||||| || |||||||| ||||| || Sbjct 27769 AACTGCTTACCAGCAAAAATCAAACGTTGTTGATCCGGAGGAATTCCCTCTTTATCTTGT 27828 Query 15275 ATTTTGCTCTTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTA 15334 ||||| | || ||| ||||||| ||||| |||||| || || || |||||||| Sbjct 27829 ATTTTTCCTTTCACATTTTCTATTGTATCAGATGGTTCTACTTCCAACGTGATGGTTTTC 27888 Query 15335 CCTGTCAGAGTTTTTACAAAAATTTGCAT 15363 || || ||||| || |||||||||||||| Sbjct 27889 CCAGTAAGAGTCTTAACAAAAATTTGCAT 27917 Score = 95.1 bits (104), Expect = 9e-15 Identities = 105/140 (75%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | |||| |||||| || || |||||||||||| || || ||||||| Sbjct 26940 CCAGCAAAAATCAGACGTTGCTGATCTGGTGGAATTCCTTCCTTATCCTGTATTTTGCCT 26999 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 |||||| | ||||| ||||| |||||| |||||||| || ||||| || || ||| Sbjct 27000 TTTACATTCTCTATTGTATCAGATGGTTCTACTTCTAAGGTGATCGTTTTGCCGGTAAGA 27059 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || || ||||||||||| Sbjct 27060 GTCTTAACGAAAATTTGCAT 27079 Score = 91.5 bits (100), Expect = 1e-13 Identities = 106/143 (74%), Gaps = 0/143 (0%) Strand=Plus/Plus Query 15221 TTGCCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTG 15280 || ||||| | |||| ||||||||| ||| ||||||||| ||||| || |||||| Sbjct 1443 TTACCAGCAAAAATCAGACGTTGTTGATCGGGTGGAATTCCCTCTTTATCCTGAATTTTA 1502 Query 15281 CTCTTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTC 15340 | ||| ||| |||| | || || ||| || || | ||||||||||| || ||| Sbjct 1503 CCCTTCACATTTTCAACTGTGTCTGAGGGTTCCACTTCCAGAGTAATGGTTTTCCCGGTC 1562 Query 15341 AGAGTTTTTACAAAAATTTGCAT 15363 |||||||| ||||| || ||||| Sbjct 1563 AGAGTTTTGACAAATATCTGCAT 1585 Score = 91.5 bits (100), Expect = 1e-13 Identities = 106/143 (74%), Gaps = 0/143 (0%) Strand=Plus/Plus Query 15221 TTGCCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTG 15280 || ||||| | |||| ||||||||| ||| ||||||||| ||||| || |||||| Sbjct 17800 TTACCAGCAAAAATCAGACGTTGTTGATCGGGTGGAATTCCCTCTTTATCCTGAATTTTA 17859 Query 15281 CTCTTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTC 15340 | ||| ||| |||| | || || ||| || || | ||||||||||| || ||| Sbjct 17860 CCCTTCACATTTTCAACTGTGTCTGAGGGTTCCACTTCCAGAGTAATGGTTTTCCCGGTC 17919 Query 15341 AGAGTTTTTACAAAAATTTGCAT 15363 |||||||| ||||| || ||||| Sbjct 17920 AGAGTTTTGACAAATATCTGCAT 17942 >seq2524 Length=468 Score = 104 bits (114), Expect = 2e-17 Identities = 107/140 (76%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | |||| |||||| || || ||||||||||||||| || |||||||| Sbjct 233 CCAGCAAAAATCAGACGTTGCTGATCTGGTGGAATTCCTTCTTTATCTTGAATTTTGCCT 292 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 |||||| | ||||| ||||| |||||| || ||||| || ||||| || || ||| Sbjct 293 TTTACATTCTCTATTGTATCAGATGGTTCTACTTCCAAGGTGATCGTTTTGCCGGTAAGA 352 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || |||||||||||||| Sbjct 353 GTCTTAACAAAAATTTGCAT 372 >seq326 Length=30629 Score = 104 bits (114), Expect = 2e-17 Identities = 107/140 (76%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | |||| |||||| || || ||||||||||||||| || |||||||| Sbjct 18523 CCAGCAAAAATCAGACGTTGCTGATCTGGTGGAATTCCTTCTTTATCTTGAATTTTGCCT 18582 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 |||||| | ||||| ||||| |||||| || || || |||||||| || || ||| Sbjct 18583 TTTACATTCTCTATTGTATCAGATGGTTCTACTTCCAATGTGATGGTTTTGCCGGTGAGA 18642 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || |||||||||||||| Sbjct 18643 GTCTTAACAAAAATTTGCAT 18662 Score = 100 bits (110), Expect = 2e-16 Identities = 106/140 (76%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | |||| |||||| || || ||||||||||||||| || |||||||| Sbjct 17678 CCAGCAAAAATCAGACGTTGCTGATCTGGTGGAATTCCTTCTTTATCTTGAATTTTGCCT 17737 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 |||||| | ||||| ||||| |||||| || ||||| || ||||| || || ||| Sbjct 17738 TTTACATTCTCTATTGTATCAGATGGTTCTACTTCCAAGGTGATCGTTTTGCCGGTAAGA 17797 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || || ||||||||||| Sbjct 17798 GTCTTAACGAAAATTTGCAT 17817 Score = 98.7 bits (108), Expect = 7e-16 Identities = 111/149 (74%), Gaps = 0/149 (0%) Strand=Plus/Plus Query 15215 AATTGTTTGCCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAA 15274 |||| || ||||| | |||||||||||||| || |||||||||||| || || Sbjct 18231 AATTACTTACCAGCAAAAATCAAACGTTGTTGATCCGGTGGAATTCCTTCCTTATCCTGT 18290 Query 15275 ATTTTGCTCTTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTA 15334 ||||| | |||||| | ||||| ||||| |||||| || ||||| || ||||| Sbjct 18291 ATTTTCCCTTTTACATTCTCTATTGTATCAGATGGTTCTACTTCCAAGGTGATCGTTTTG 18350 Query 15335 CCTGTCAGAGTTTTTACAAAAATTTGCAT 15363 || || ||||| || |||||||| ||||| Sbjct 18351 CCGGTAAGAGTCTTAACAAAAATCTGCAT 18379 Score = 96.9 bits (106), Expect = 3e-15 Identities = 109/146 (75%), Gaps = 0/146 (0%) Strand=Plus/Plus Query 15221 TTGCCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTG 15280 || ||||| | |||| ||||||||| ||| ||||||||| ||||| || |||||| Sbjct 19766 TTACCAGCAAAAATCAGACGTTGTTGATCGGGTGGAATTCCCTCTTTATCCTGAATTTTA 19825 Query 15281 CTCTTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTC 15340 | ||| ||| |||| || || || ||| || || | ||||||||||| || ||| Sbjct 19826 CCCTTCACATTTTCAATTGTGTCAGAGGGTTCCACTTCCAGAGTAATGGTTTTCCCAGTC 19885 Query 15341 AGAGTTTTTACAAAAATTTGCATATT 15366 |||||||| ||||| || ||||| || Sbjct 19886 AGAGTTTTCACAAATATCTGCATTTT 19911 Score = 82.4 bits (90), Expect = 6e-11 Identities = 102/140 (73%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | |||||||||||||| || |||||||||||| || || ||||| | Sbjct 17958 CCAGCAAAAATCAAACGTTGTTGATCCGGTGGAATTCCTTCCTTATCCTGTATTTTCCCT 18017 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 || ||| |||| || ||||| |||||| || || || || ||||| || || || Sbjct 18018 TTCACATTTTCAATTGTATCAGATGGTTCTACTTCCAAAGTTATTGTTTTTCCAGTAAGG 18077 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || || ||||||||||| Sbjct 18078 GTCTTAACGAAAATTTGCAT 18097 Score = 82.4 bits (90), Expect = 6e-11 Identities = 102/140 (73%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 15224 CCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAAATTTTGCTC 15283 ||||| | |||||||||||||| || |||||||||||| || || ||||| | Sbjct 18803 CCAGCAAAAATCAAACGTTGTTGATCCGGTGGAATTCCTTCCTTATCCTGTATTTTCCCT 18862 Query 15284 TTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTACCTGTCAGA 15343 || ||| |||| || ||||| |||||| || || || || ||||| || || || Sbjct 18863 TTCACATTTTCAATTGTATCAGATGGTTCTACTTCCAAAGTTATTGTTTTTCCAGTAAGG 18922 Query 15344 GTTTTTACAAAAATTTGCAT 15363 || || || ||||||||||| Sbjct 18923 GTCTTAACGAAAATTTGCAT 18942 >seq5215 Length=241 Score = 93.3 bits (102), Expect = 3e-14 Identities = 110/149 (74%), Gaps = 0/149 (0%) Strand=Plus/Plus Query 15215 AATTGTTTGCCAGCGTATATCAAACGTTGTTGGTCGTTTGGAATTCCTTCTTTGTCACAA 15274 |||| || ||||| | |||||||||||||| || |||||||| ||||| || Sbjct 87 AATTACTTACCAGCAAAAATCAAACGTTGTTGATCCGGAGGAATTCCCTCTTTATCTTGT 146 Query 15275 ATTTTGCTCTTTACAATTTCTATGGTATCGCTATTTTCTACATCTAAGGTAATGGTTTTA 15334 ||||| | || ||| ||||||| ||||| ||||| || ||||| || ||||| Sbjct 147 ATTTTTCCTTTCACATTTTCTATTGTATCAGATGGCTCTACTTCCAAGGTGATCGTTTTG 206 Query 15335 CCTGTCAGAGTTTTTACAAAAATTTGCAT 15363 || || ||||| || |||||||||||||| Sbjct 207 CCGGTAAGAGTCTTAACAAAAATTTGCAT 235 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 362152931934891