Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold200
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 649609
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 5
Found at i:624350 original size:32 final size:32
Alignment explanation
Indices: 624309--624383 Score: 150
Period size: 32 Copynumber: 2.3 Consensus size: 32
624299 GTATCTTTGC
624309 ATCGATACATTGTATCGATACAACACTTATGT
1 ATCGATACATTGTATCGATACAACACTTATGT
624341 ATCGATACATTGTATCGATACAACACTTATGT
1 ATCGATACATTGTATCGATACAACACTTATGT
624373 ATCGATACATT
1 ATCGATACATT
624384 TACTGTTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (32 bp):
ATCGATACATTGTATCGATACAACACTTATGT
Found at i:626078 original size:476 final size:476
Alignment explanation
Indices: 624636--632352 Score: 8168
Period size: 476 Copynumber: 16.3 Consensus size: 476
624626 AGTGTCTACA
* * * * * * * *
624636 AGTTAACTATATTTACGGTGCCTAATCCTAAAAACATTGGGGATTAGTATGACTATTCAAGCTTG
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
* ** * *
624701 CCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACAATGGAAAGAAAACCTTTTTTTTGTGAC
66 TCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACC-TTTTCTTGCGAC
* * * * * * *
624766 GCCAAAGCATCAATATCATTTATCCTAACAAAAGAAATGTGTTCTTAGTTCCCAAT-CTAGAAAA
130 ACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCT-GAAAA
* * * * * * * *
624830 GAATAGG-GATTATTACGAGAATTGATGCTTGTTATATTTAAGGGATGAATTTTTATTTTAAGCA
194 AAAT-GGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGA
* * * **
624894 AAATAGGGCAATGAAAA-ATTCTCCATGCAAAAAAAAATCATCAATATCATATATCCTAA--AAC
258 AAATAGGGCAAAGAAAAGATT-TCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGG
* * * * * *
624956 ACACAGTATGTTTATCGTGCCAAAACACAAAATGAATGAAAATCTTTACTAGAATCCATGTTTAT
322 AGA-A-TGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGT
* *
625021 CTTATTTGAGGCACGAACTTAGACTTTACAAAAATTAGTGGGAAGAAAGCCTTTCTTGCGAAACC
385 CTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACC
*
625086 AAAGCATCAATTTCATCTATCCT-ATG
450 AAAGCATCAATTTCGTCTATCCTAATG
* * * *
625112 AGTTAACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTTTGGCTATTCATGCTTG
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
* * * **
625177 TCTTATTTAAAAAGCAAACTTTGATTCCAACAAAAACGGTGGAAAGAAAACCTTTTCTTATGACA
66 TCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGACA
* ** *
625242 CCAAAGCATCAATGTCATGTATCCTAATGAAGGGAACATGTTCTTGGTTCCCAAT-CTAGAAAAT
131 CCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCT-GAAAAA
* * * *
625306 AATAGAGACTGTCATGAGAATCGATAAC-TGTCATAATTAAGGAATG------------AAGGAA
195 AATGGAGACTGTTACGAGAATCGAT-GCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGAA
* * *
625358 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAACATCATTTATCTTAATGAGGAA
259 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAG
** * * * * *
625423 AATGTGTTTATTATG-CATAATCATAAAATAAATGAAAATCATTTCTAGAATCCGTGTTTGTCTC
324 AATGTGTTTATCGTGCCA-AATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTC
* * ** *
625487 ACTTGAGGCACGAACTTAAACTTTA-AAAAATTTGAAGGGAAGAAAGCCTTTCTTGCGAAAGCAA
388 ATTTGAGGCACGAACTTAGACTTTACAAAAA-TTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAA
* *
625551 AGCATCAATTTCGTCGATCCTAAAG
452 AGCATCAATTTCGTCTATCCTAATG
* * * * * * * * *
625576 AGATGGCAATGTTTATGGTACCTAATCCTGAAAAGAATGGAGATTAGCATGACCATTTAAGTTTG
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
* * * * * * * *
625641 TCTTATTTGAGAGGCAAACTTTGTTTCTAACAAAAATGGGGGACAGAAAATCTTTTCTTGCAATA
66 TCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGACA
** * * *
625706 CCAAAGCATCAATGTCATGTATCCTAATAAAATGATTGCGTTCTTGGTTCCAAATCCT-AAAAAA
131 CCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCTGAAAAAA
* * * * *
625770 ATTGGAGATTGTTACGAGAATCGATACTTGTCGTAATGAAAGAATGAATTTTTATTTTAAGGGAA
196 A-TGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAA-GGAA
* * * * **
625835 AA-ATGGCAAAAAAAAGATTTCCATGCAAAGGAAATTTGTCAATATCATTTATCCTAATGAGGAG
259 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAG
* * * *
625899 AATATGTTTATCGTGCCAAATTACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCT
324 AATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCA
* * * * * *
625964 TTTGATGTACGAACTTAAACTTTACAAAAATTAGTGGGAAGAAAGCCTTTCTTGTGAAACTAAAG
389 TTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAAAG
* *
626029 CATCAATTTTGTCTTTCCTAATG
454 CATCAATTTCGTCTATCCTAATG
*
626052 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATTACTATTCATGTTT-
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
* * * *
626116 TCCTTATTTTAGAAGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGAC
66 T-CTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGAC
* * *
626181 ACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTATTAGTTCCCAGT-CTAGAAAA
130 ACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCT-GAAAA
* * * * *
626245 AAATAGAGACTATTGCGAGAATCAATGCTTGTCATAATTAAGGAATGCATTTTTATTTTATA-GA
194 AAATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTA-AGGA
* * * * *
626309 AAAGAGGGCAAAGAAATGATTTCCATGCAAAATAAAGTCATTAATATCATTTATCCT-A-GAACG
258 AAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATG-A-G
* * * * * * * * * * *
626372 GACAGTGTGTTTATCATGCTAAAACAAAAAATGGATGAAAATCTTTACTAAAATCCATGTTTGCC
321 GAGAATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTC
* *
626437 TCATTTGAGGCACGAGCTTAGACTTTACAAAAATTGGTAGGAAGAAAGCCTTTCTTGCGAAACCA
386 TCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCA
* * *
626502 AAGCATCAATTTCATCTATCTTAATA
451 AAGCATCAATTTCGTCTATCCTAATG
* * * *
626528 AGTTGACTATGTTTATGGT-CCGTAATCCT-AAAAGGAATGAGAATTAGTATGGCTATTCATGCT
1 AGTTGACTATGTTTATGGTGCC-TAATCCTGAAAA-GAATGGGGATTAGTATGACTATTCATGTT
* *
626591 TGTCTTATTTAAGAGGCAAACTTTGATTCCAACAAAAACGGTGGAAAGAAAACCTTTTCTTGTGA
64 TGTCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGA
* **
626656 CACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAACATGTTCTTGGTTCCCAAT-CTAGAAA
129 CACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCT-GAAA
* * * * * * * *
626720 AGAATAGAAACTGTCATGAGAATCGATGATTGTCACAATTAATGAATGAATTTTTATTTTAAGGA
193 AAAATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGA
*
626785 AAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATC-A-A-CA--TATCCTAATGAGGA
258 AAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGA
* * ** *** * *
626845 AAATGTGTTTGTTATGTGTAATCACAAAATAAATGAAGATCATTTCTAGAATCCATGTTTGTCTC
323 GAATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTC
* * * * *
626910 TTTTGCGGCACGAACTTAGACTTTA-AAAAATTTGATGGGAAGAAAGCCTTTCTTGCCAAAGCAA
388 ATTTGAGGCACGAACTTAGACTTTACAAAAA-TTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAA
*
626974 AGCATCGATTTCGTCTATCCTAATG
452 AGCATCAATTTCGTCTATCCTAATG
* *
626999 AGTTG-CTTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTACTATGACTATTCATATTT
1 AGTTGAC-TATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTT
* ** *
627063 GTCTTATTTAAGAGGTAAACTTTGATTCTTTCAAAAACAGTGGAAAGAAAACCTTTTCTTGCGAC
65 GTCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGAC
* * * * * * *
627128 CCCAAAGCATCAATGTCTTGTATCCTAA-AGATGGAAATGTTTTCTTGGTTCCCAATCTTGAAAT
130 ACCAAAGCATCAATGTCATGTATCCTAATA-AAGGGAATGTGTTCTTGGTTCCCAATCCTGAAAA
* * * * * *
627192 GAATGGAGACTGTTACGAGAATCGATGCTTGTGATATTTAAGGGATGAAATTTTATTTTAGGGAA
194 AAATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGAA
* *
627257 AATAGGGTAAAGAAAAGATTTCCATGCAAAAG---------AATATCATTTATCCTAATGAGGGG
259 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAG
* ** * ** * *
627313 AATGTGTTCATTATACCAAATCACAAAATGAACAAAGATCATTACTAGAATCTATGTTTGTCTCT
324 AATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCA
* * * * * * *
627378 TTTGATGTATGAACTTAAACTTAACAAAAATTAGTGGGAAGAAAGCCTTTCTTGCGAAACTAAAG
389 TTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAAAG
* * *
627443 CAACAATTTTGTTTATCCTAATG
454 CATCAATTTCGTCTATCCTAATG
* * * * *
627466 AGTTGACTATGTTTATGATAG-CTAATCCAGGAAAA-AATAGGGATTAGTATTACTATTCATATT
1 AGTTGACTATGTTTATGGT-GCCTAATCC-TGAAAAGAATGGGGATTAGTATGACTATTCATGTT
* * * *
627529 TATCTTATTTAAGGGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGA
64 TGTCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGA
* * *
627594 CACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATATGTTATTAGTTCCCAAT-CTAGAAA
129 CACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCT-GAAA
* * * * * *
627658 AGAATAGAGATTATTGC-AAATATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGG
193 AAAATGGAGACTGTTACGAGA-ATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGG
* * * * *
627722 AAAATAGGGCACAGAAATGATTTCCATGCAAAATAAAATCATCAAAATCGTTTATCCTAAT-ATG
257 AAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGA-G
* * * *
627786 GAGAATGTGTTTATCGTGCCAAAACACAAAATGAGTGTAGATCATTGCTAGAATCCATGTTTGTC
321 GAGAATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTC
* * * * *
627851 TC-TATTGA-GCTATGAACTTAAACTTTATAAAAATTAGTGGGAAGGAAAGCCTTTCTTGCAAAA
386 TCAT-TTGAGGC-ACGAACTTAGACTTTACAAAAATTGGTGGGAA-GAAAGCCTTTCTTGCGAAA
627914 CCAAAGCATCAACTTT-GTCTATCCTAATG
448 CCAAAGCATCAA-TTTCGTCTATCCTAATG
* * * * * * *
627943 AGTTGATTATGTTTCTAGTGCCTCATTCTAAAAAGAATGCGGATTAGTATGACTATT-ATGTTTG
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
** *
628007 TCTTATTTAAGAGGCAAACTTTGATTCTAACAAAATTGGTGGAAAGAAAACCTTTTCTTTCGACA
66 TCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGACA
* * * * ** *
628072 CTAAAGCATCAATGTCATCTATCCTAATGAAGGGGATGCATTCTTGGTT-CCAAT-CTAGAAAAG
131 CCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCT-GAAAAA
* * * * * *
628135 AATAGAGACTGTCACGAGAATCGATAAC-TGTCCTAATTAAGGGAGGAATTTTTATTTTAAGGAA
195 AATGGAGACTGTTACGAGAATCGAT-GCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGAA
* * *
628199 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAACATCATTTATCCTAATGAGAAA
259 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAG
* * * * * *
628264 AATATGTTTATTGTGCCTAATCCCAAAATGAATGAAGATCGTTACTAGAATCCACGTTTGTCTCA
324 AATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCA
* * * *
628329 TTTGAGGCACGAAATTAGACTTTAAAAAAAATTGAAG-GGGAACAAAGCCTTTCTTGCAAAACCA
389 TTTGAGGCACGAACTTAGACTTT-ACAAAAATTG--GTGGGAAGAAAGCCTTTCTTGCGAAACCA
*
628393 AAGCATCAATTTCGTCTATCTTAATG
451 AAGCATCAATTTCGTCTATCCTAATG
* * * *
628419 AGATAACTATATTTATGGTGCCTAATCCTGAAAAGAATGGGGATTTGTATGACTATTCATGTTTG
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
* * * * *
628484 GCTTATTTTAA-AGGCAAACTTTGATTCTAACAAAAATGGTGGAAAGAAATCCTTTTCCTGCAAC
66 TCTTA-TTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGAC
* * * *
628548 ACCAAAGCATCAATGTCATGTATCTTAATGAAA-GGAATGTGTTATTGGTTCCTAATCTTGAAAA
130 ACCAAAGCATCAATGTCATGTATCCTAAT-AAAGGGAATGTGTTCTTGGTTCCCAATCCTGAAAA
* * *
628612 GAATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATAAATTTTTATTTTAGGGAA
194 AAATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGAA
* * * * * * *
628677 AATAGGCCAAAAAAAAGATTTCCATGCAAAGGAAAATTCCTCAATATCATTCATTCTAATGAGAA
259 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAA-TCATCAATATCATTTATCCTAATGAGGA
* *
628742 GAATGTGTTCATCGTGCCAAATGACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTC
323 GAATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTC
* * * *
628807 ATTTGAGGAACGAACTTAGACTTTGCAAAAATGGGTGGGAAGAAAG-CTTTCTTACGAAACCAAA
388 ATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAAA
628871 GCATCAATTTCGTCTATCCTAATG
453 GCATCAATTTCGTCTATCCTAATG
* * * * *
628895 GGTTGACTATGTTTATGGTGCCTAATCTTGAAAAGAATGGCGACTAGTATGACTATTCATGTTTT
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
* * * * * **
628960 TCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAATGGTGGAAACAGAAGCTTTTCTTGAAACA
66 TCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGACA
* * *
629025 CCAAAGCCTCAATGTCATGTATCCTCATTAAA-GGAATGTGTTCTTGGTTCCCAGT-CTAGAAAA
131 CCAAAGCATCAATGTCATGTATCCT-AATAAAGGGAATGTGTTCTTGGTTCCCAATCCT-GAAAA
* ** * * * *
629088 GAATGGAGACTGCAATGAGAATCAATGCTTGTCATATTTACAGG-ATGAATTTTTATTTGAAGGA
194 AAATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTA-AGGAATGAATTTTTATTTTAAGGA
** * * *
629152 AAATATTGTAAAGAAAA-ATTTCCATGC-AAAGTAAAATCTTCAATATCATTTATCCTAATGAGT
258 AAATAGGGCAAAGAAAAGATTTCCATGCAAAAG-AAAATCATCAATATCATTTATCCTAATGAGG
* * *
629215 AGAATGTGTTTATCGTGCCAAATCGCAAAATGAATGAAGATCAATACTAGAATCCAAGTTTGTCT
322 AGAATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCT
* **
629280 CATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAAAGCCTTTCTTGC-ATGGCCA
387 CATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGA-AACCA
* *
629344 AAGCATCAATTTCGTCTCTCGTAATG
451 AAGCATCAATTTCGTCTATCCTAATG
* * ** * * * *
629370 AGTTGACTATATTGATGGCACCTAATCTTGAAAAGAATGGGGATTAGTATGACCATACAAGTTTG
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
* * * *
629435 TCTTATTTAAGAGACAAAC-----TTCTAACAAAAACGATGGAAAGAAAACCTTTTTTTTGCAAC
66 TCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACC-TTTTCTTGCGAC
* * * * * * * * *
629495 ACC-AAGCATCAATGTCATTTATATCTTAATGAAGGGAATATGTTTTTTGTTCCTAATCTTGGAA
130 ACCAAAGCATCAATGTCA--TGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCTGAAA
* * * * *
629559 AGAATGGACG-TTGTTACGAGAATCGATGCTTGCCAT-ATTTATGAGATGAATTTTTATTTTAAG
193 AAAATGGA-GACTGTTACGAGAATCGATGCTTGTCATAATTAAGGA-ATGAATTTTTATTTTAAG
* * * * * *
629622 AAAAATAGTGTAAAGAAAAGATTTTCATGCAAAAGAAAATCTTCAATATCATTTATCCTAATAAG
256 GAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAG
* * * * * *
629687 TAGGATGTGTTTATCATGCCAAATAACAAAATGAATGAAGATCAGTACTAAAATCCATGTTTGTC
321 GAGAATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTC
* * * * *
629752 CCATTTGAGGCATGAACTTAGACTTTATAAAAATTGGTGGGAAGGAAA-CCTTTTTTAC-AAGAC
386 TCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAA-GAAAGCCTTTCTTGCGAA-AC
* * * *
629815 CAAAGCATCAATGTCTTCTCTCATAATG
449 CAAAGCATCAATTTCGTCTATCCTAATG
* * * * * *
629843 AATTGACTATATTGATGGTGCCTAATCCTAAAAAGAATGGGGATTAGTATGACTATACAAGTTTG
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
* * * *
629908 ACTTATTTAAGAGACAAACTTTTATTCTAACAAAAACGGTGGAAAGAAAACCTTTTTTTGCGACA
66 TCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGACA
* * ** * ** * * * ** *
629973 CCAAAGCATCAATTTCATTTATTTTAATGAAGGGAAACTATTCTTTGTTCCCAATCTTGGTAAGA
131 CCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCTGAAAAAA
* ** *
630038 ATGGGGGTTGTTACGAGAATCGATGCTTGTCATATTTAA-GAGATGAATTTTTATTTTAAGGAAA
196 ATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGA-ATGAATTTTTATTTTAAGGAAA
* * * * *
630102 ATAGGGCAAAGAAAAGATTTCCATGCAAAGGAAATTCATCCATATCATTTATCCTAATGAGCACA
260 ATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAGA
* *
630167 ATGTG----T--T--C--AT--CAGAGTGAATGAAGATCATTACTAGAATCCATGTTTGTCTCAT
325 ATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCAT
* * * * * *
630220 TTGATGCAC-AAGCTTAGATTTTTCAAAAATTGGTGGCAAGAAAGCCTTTCTTGCGATACCAAAA
390 TTGAGGCACGAA-CTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAAAG
* * * *
630284 CATCAATTTTGTTTGTCCTATTG
454 CATCAATTTCGTCTATCCTAATG
* * * * *
630307 AGATGACTATGTTTATTGTTCCTAATCCTGAAAAGAATGGAGATTAGTATGACAATTCATGTTTG
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
* * * ** * * * *
630372 TCTTATTTTTA-AGGCAAACTTTGATTCTATCAAAAATGGTGGAAAGCTAATCATTTCTGGTGAC
66 TCTTA-TTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGAC
* * * *
630436 ACCAAAGTATCAATGTCTTGTATCCTAATTAAA-GGAATGCGTTCTTGGTTCCCAATCTTGAAAA
130 ACCAAAGCATCAATGTCATGTATCCTAA-TAAAGGGAATGTGTTCTTGGTTCCCAATCCTGAAAA
* ** * * ** *
630500 GAATGGAGACTGTTGTGAGAATCCATGCTTGTCATATTTAAGGGTTGAA-TTTT-TTTTAGGGAA
194 AAATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGAA
* ** * *
630563 AATAGGGCAAAGAAAAGATTTTCATGCAAGGGAAAATCATCAATATCATTTATCATAATGAGGAC
259 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAG
* * * *
630628 AATGTGTTTATCGTGCCAAA--ACACAATGAATTAAAATCAATT-CTAGGATCCATGTTTGTCTC
324 AATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATC-ATTACTAGAATCCATGTTTGTCTC
* * * **
630690 ATTTGAAGCATGAATTTAGACTTTACAAAAATTGGTGGGAAGAAAGGTTTTCTTGCGAAACCAAA
388 ATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAAA
* * *
630755 GCATCAATTTCATCCATCCTAATC
453 GCATCAATTTCGTCTATCCTAATG
** **
630779 AACTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGGGTAGTATATGACTATTCATGTT
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAG--TATGACTATTCATGTT
* ** * * * *
630844 TGTTTTATTTGTGAGGCAAACTTTGATTCTAACGAAAACGGTTGAAAGAAAACCTTTTTTTGTGA
64 TGTCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGA
* * * * *
630909 CACCAAACCATCAATGTCATGTATCCTATTGAAGGGAACGTGTTCTTGGTTCCCAATCTTGAAAA
129 CACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCTGAAAA
* * * * *
630974 GAATGGAGACTATTACGAGAATCGATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGAAA
194 AAATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGAA
* ** * *
631039 AATAGGCCAAAGAAAAGATTTTAATGCAAAAGAAAATCATCAATATCATTTATCCTATTGAGAAG
259 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAG
* * * *
631104 AATGTGTTTGTCATGCCAAAACACAAAATGAAT---GAT--TT-CTAGAATCCATGTTTGTCTCT
324 AATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCA
** * * * * * *
631163 TTTGAGTTACGAACATAGACTTTACAAAAATTAGTGGGAAAAAAACATTTCTTGCAAAACC-AAG
389 TTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAAAG
* *
631227 CATGAATTTCGTCTATCCAAATG
454 CATCAATTTCGTCTATCCTAATG
* * * *
631250 AGGTGACTCTATTTATGGTGCCTCATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
* * * * **
631315 TCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAGAGAAGCTTTTCTTGAAACA
66 TCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGACA
* *
631380 CCAAAGCCTCAATGTCATGTATCCTAATTAAA-GGAATGTGTTCTTGGTTCCCAGT-CTAGAAAA
131 CCAAAGCATCAATGTCATGTATCCTAA-TAAAGGGAATGTGTTCTTGGTTCCCAATCCT-GAAAA
* * * * * * * * * * * * *
631443 GAATAGAGACTATCATGAGAATTGATGATTATCATAATTAAGGGATCAGTTTTTCTTTTAAAGAA
194 AAATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGAA
* *** *
631508 AATAGGGCAAAGAAATGATTTCCACATAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAT
259 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAG
* * * * * * ** * *
631573 AATGTGTTTTTTGTGCCTAATCACAAAATAAAAGAAGATCATTAGTAGAATCTGTGCTTCTCTCA
324 AATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCA
* ** ** * * *
631638 TTTGAGGCACGAACTTAG-CTTCACCGACGTTGGTGGGAAGAAAGCCATTCCTACGAAACCAAAG
389 TTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAAAG
* * * * * *
631702 CATCAGTATCATGTATCATTATG
454 CATCAATTTCGTCTATCCTAATG
** * * * ** * *
631725 AGAAGGCTATGTTTACGATGCCTAATAAT-AAAAGGAATGGGGGTTAGTATGACTATTTATGTTT
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAA-GAATGGGGATTAGTATGACTATTCATGTTT
* * * * * ** **
631789 GCCTTATTTAAGAGACAAACTTTGATTCTATCGAAAACGGTGGAAAGAGAAGATTTTCTTTTGAC
65 GTCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGAC
* * *
631854 ACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTATTCTTGGTTCCCAATCTTGAAAAG
130 ACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCTGAAAAA
** * * * *
631919 AATGGAGACTGTTGTGAGAATCAATGCTTGTTATATTTAAGG-ATGATTTTTTATTTTAAGGAAA
195 AATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGAAA
* * * *
631983 ATAGGGCAAGGAAATGATTTCCACGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGACA
260 ATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAGA
* * * * *
632048 ATGTGTTTGTTGTGCCTAATCACAAAAGGACTGAAGATCATTACTAGAATCCATGTTTGTCTCAT
325 ATGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCAT
* * * * * *
632113 TTGAGGCACGAACTTGGACTTTACAGAAATTGGTGGAAAGAAAGCCTTTCCTGGGAAACCAAAGT
390 TTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAAAGC
* * * * * * *
632178 GTCAGTATCATGTATCGTTATG
455 ATCAATTTCGTCTATCCTAATG
** * * * *
632200 AGAAGACTATGTTTACGGTG---GAT--TAAAAAGAATAGGGG-TTAGTATGACTATTTATGTTT
1 AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAAT-GGGGATTAGTATGACTATTCATGTTT
* * * * * * *
632259 GCCTTATTTAGGAGACAGACTTTGATTCTATCGAAAACGGTGGAAAGAAAAGCTTTTCTTGCGAC
65 GTCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGAC
*
632324 ACCAAAGCATCAATGTCTTGTATCCTAAT
130 ACCAAAGCATCAATGTCATGTATCCTAAT
632353 GATGACAACC
Statistics
Matches: 6090, Mismatches: 992, Indels: 324
0.82 0.13 0.04
Matches are distributed among these distances:
462 81 0.01
463 192 0.03
464 475 0.08
465 16 0.00
466 6 0.00
467 372 0.06
468 16 0.00
469 255 0.04
470 161 0.03
471 459 0.08
472 316 0.05
473 264 0.04
474 490 0.08
475 758 0.12
476 1725 0.28
477 236 0.04
478 165 0.03
479 103 0.02
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (476 bp):
AGTTGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGACTATTCATGTTTG
TCTTATTTAAGAGGCAAACTTTGATTCTAACAAAAACGGTGGAAAGAAAACCTTTTCTTGCGACA
CCAAAGCATCAATGTCATGTATCCTAATAAAGGGAATGTGTTCTTGGTTCCCAATCCTGAAAAAA
ATGGAGACTGTTACGAGAATCGATGCTTGTCATAATTAAGGAATGAATTTTTATTTTAAGGAAAA
TAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAA
TGTGTTTATCGTGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATT
TGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAAAGCA
TCAATTTCGTCTATCCTAATG
Found at i:634002 original size:475 final size:473
Alignment explanation
Indices: 633049--636910 Score: 4651
Period size: 475 Copynumber: 8.2 Consensus size: 473
633039 GTTCTCATAA
* * * *
633049 CCTAATAAAGGGAATACGTTCTTGGTTCCCAATCTTGAAAAAAATGG-GACTA-TTACGAGAATC
1 CCTAATGAAGGGAATGCATTCTTGGTTCCCAATCTTGAAAAGAATGGAGAC-AGTTACGAGAATC
* * * * *
633112 AACGCTTGTCATATTTAAGGGATAAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAATATTTTC
65 GATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCC
* * * * *
633177 ATGCAAAAGAAAATTCATCAATACCATTTATCCTAATGAGGAGAATATGTTTAT-AGTGCCAAAA
130 ATGC-AAAGGAAATTCATCAATATCATTTATCCTAATGAGGGGAATGTGTTTATCA-TGCCAAAT
* * * * *
633241 CACAAAATGAATGAAGATCATTACTAGAATCCGTGTTTG-TCTCTTTTAAGGTACAAACTTAGAC
193 CACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCTCTCATTTGAGGCACGAACTTAGAC
* * * * *
633305 TTTACAAAAATTAAGG-G-GAAGAAAGCATTATTGCAAAACCAAAGCATCAATTTCGCCTATCCT
258 TTTACAAAAATT--GGAGTGAAGAAAGCTTTTTTGCGAAACCAAAGCTTCAATTTCG-TTATCCT
* * *
633368 GATGAGTTGACTATGTTTATTGG-GCCTAAT-CTTGAAAAGAATGGGGATTAGTATAACTATTCA
320 AATGAGATGACTATGTTTA-TGGTGCCTAATCCTT-AAAAGAAT-GGGATTAGTATGACTATTCA
* * * * * * *
633431 TGTTTATCTTATTTAAGTGGCAAACTTTGATACTAACAAAAACAGTGGAAAGAAAACATTTTCTA
382 TGTTTGTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTT
* * **
633496 GTCACACCAAAGCATCAATGTCACGTAT
447 GTGACCCCAAAGCATCAATGTC-TTTAT
* ** * * *
633524 CCTAATGATGGGAATGTTTTCTTGGTTCCCAATTTTGAAAAAGAATGGAGACAGTTGCAAGAATC
1 CCTAATGAAGGGAATGCATTCTTGGTTCCCAATCTTG-AAAAGAATGGAGACAGTTACGAGAATC
* * * **
633589 GATTCTTGTCAAATTTATGGGATGAATTTTTATTTTAAGGAAAATAACGCAAAG-AAAGATTTCC
65 GATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCC
* ** * *
633653 ATGCAAAAGAAAAACATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT-AGTGCCTAATC
130 ATGCAAAGGAAATTCATCAATATCATTTATCCTAATGAGGGGAATGTGTTTATCA-TGCCAAATC
* * * *
633717 ACAAAATGAATAAAGATCATTACTTGAATCAATGTTT-CTCTCATTTGAGGCATGAACTTAGACT
194 ACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCTCTCATTTGAGGCACGAACTTAGACT
* * * * *
633781 TTTCAAAAATTAGTGGGAAGAAAGCCTTTCTTGCGAAACCAAAGCTTCAATTTCGTTGA-CCTTA
259 TTACAAAAATTGGAGTGAAGAAAG-CTTTTTTGCGAAACCAAAGCTTCAATTTCGTT-ATCC-TA
* * *
633845 ATGACATGACTATGTTTATGGTTCCTAATCCTTAAAAGAATAGGGATTAGTATGACTACTCATGT
321 ATGAGATGACTATGTTTATGGTGCCTAATCCTTAAAAGAAT-GGGATTAGTATGACTATTCATGT
* * * * *
633910 TTGTCTTATTTATGAGGCAAACTTTGATTCTACCAAAAATGCTAGAAAGAAAACCTTTTCTTGTG
385 TTGTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTG
633975 ACCCCAAAGCATCAATGTCTTTAT
450 ACCCCAAAGCATCAATGTCTTTAT
* * * * * * * *
633999 CCTAATGAAGGGATTACGTTCTTGGTTACCAATCTTGAAAAGAATGCAGAGATTTACAAGAATCG
1 CCTAATGAAGGGAATGCATTCTTGGTTCCCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
* * * *
634064 ATGCTTGTCATAATTAATGGATGAATTTTTATTTCAAGGAAAATAGGGCAAAGAAAAGATCTCCA
66 ATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
* * * * *
634129 TGCAAAGGAAATTCATCAATATCATCTATCCTAATGAAGAGAATGTGCTTATCAAGCCAAATCAC
131 TGCAAAGGAAATTCATCAATATCATTTATCCTAATGAGGGGAATGTGTTTATCATGCCAAATCAC
* *
634194 AAAATGATTTAAGATCATTACTAGAATCCATGTTTG-TCTCATTTGAGGCACGAACTTAGACTTT
196 AAAATGAATGAAGATCATTACTAGAATCCATGTTTGCTCTCATTTGAGGCACGAACTTAGACTTT
* * * * * * * * * * *
634258 ACAAAAGTTGGTGAGAAAAAAGCGTTTCTTGTGAAATCAAAGCATT-AATTTTGTCCACCCTATT
261 ACAAAAATTGGAGTGAAGAAAGC-TTTTTTGCGAAACCAAAGC-TTCAATTTCGT-TATCCTAAT
** * * * * * * * *
634322 GAGATGGTTATATTTGTGGTGCGTAATCCTGAAAATAACAGGGATTAGTATGACTATTCAAGCTT
323 GAGATGACTATGTTTATGGTGCCTAATCCTTAAAAGAA-TGGGATTAGTATGACTATTCATGTTT
* * * * *
634387 GTCTTATTTAAGAGACAAACTTT-ATTCTAGCAAAAATGGTGGAAGGAAAACCTTTTCTTG-CAG
387 GTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTGA-
*
634450 CACCAAAGCATCAATGTCTTTCAT
451 CCCCAAAGCATCAATGTCTTT-AT
* * * *
634474 CCTAATGAAGGAAATGCGTTCTTGGTTCCCAATCTTGAAAAGAATGGAGACTGTTACGAGAATCA
1 CCTAATGAAGGGAATGCATTCTTGGTTCCCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
* *
634539 ATGCTTGTCGTAATTAA-GGATTGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCC
66 ATGCTTGTCATATTTAAGGGA-TGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCC
* * * * * *
634603 AAGCAAAAGAAAATCATCAATATTATTTATCCTAATGAGGGAAATGTGTTTATCATGCCAAAACA
130 ATGCAAAGGAAATTCATCAATATCATTTATCCTAATGAGGGGAATGTGTTTATCATGCCAAATCA
* *
634668 CAAAATGAATGAAGATCATTACTAGAATCCATGTTTG-TCTCTTTTGAGGTACGAACTTAGACTT
195 CAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCTCTCATTTGAGGCACGAACTTAGACTT
* * * * * *
634732 TACAAAAATTAGG-GGGAAGCAAGCCTTTCTTGCAAAACCAAAGCATCAATTTCTTCTATCCTAA
260 TACAAAAATT-GGAGTGAAGAAAG-CTTTTTTGCGAAACCAAAGCTTCAATTTCGT-TATCCTAA
* * * * *
634796 TGAGATGACTATATTTGTGGTGCGTAATCCTGAAAAGAATTGGGATTGGTATGACTATTCATGTT
322 TGAGATGACTATGTTTATGGTGCCTAATCCTTAAAAGAA-TGGGATTAGTATGACTATTCATGTT
* * * * **
634861 TGTCTTATTCAGGAGGCAAACTTGGATTCTATCAAAAACGGTGGAATGAAAACCTTTTCTTACGA
386 TGTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTGA
* *
634926 CCCTAAAGCATCAAAGTCTTGTAT
451 CCCCAAAGCATCAATGTCTT-TAT
* * *
634950 CCTAATGAAGGGAATGCATTCTTGGTTCCTAATTTTGAAAAGAATGGAGACAGTTACGAGAATTG
1 CCTAATGAAGGGAATGCATTCTTGGTTCCCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
* *
635015 ATGGTTGTCATATTTAAGGGATGAATTTTTATTTTAAGAAAAATAGGGCAAAGAAAAGATTTCCA
66 ATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
* *
635080 CGCAAAGGAAATTCATCAATATCATTTATCCTAATAAGGGGAATGTGTTTATCATGCCAAATCAC
131 TGCAAAGGAAATTCATCAATATCATTTATCCTAATGAGGGGAATGTGTTTATCATGCCAAATCAC
** * * *
635145 AAAATGGGTGAAGATCATTACTAGAATCCATATTTGCCCT-ATTTCAGGCACGAACTTAGACTTT
196 AAAATGAATGAAGATCATTACTAGAATCCATGTTTGCTCTCATTTGAGGCACGAACTTAGACTTT
* * * * * *
635209 ATAGAAATTGGAGTGATGAAAGCTTCTTTTGCGAAACCAAAGCTTCGATTTCATCTATCTTAATG
261 ACAAAAATTGGAGTGAAGAAAGCTT-TTTTGCGAAACCAAAGCTTCAATTTCGT-TATCCTAATG
* *
635274 AGATGACTATGTTTATGGTGCCTGATCCTAAAAAGAATGGGATTAGTATTG-CTATTCATGTTTG
324 AGATGACTATGTTTATGGTGCCTAATCCTTAAAAGAATGGGATTAGTA-TGACTATTCATGTTTG
*
635338 TCTTTTTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAACCTTTTCTTGTGAC
388 TCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAG-AAAACCTTTTCTTGTGAC
* *
635403 CCCAAAGCATC-GTGTCATGTAT
452 CCCAAAGCATCAATGTC-TTTAT
* * *
635425 CCTAATAAAGGGAATGCATTCTTGGTTCCCAATTTTGAAAAGAATGGAGACAATTACGAGAATCG
1 CCTAATGAAGGGAATGCATTCTTGGTTCCCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
** *
635490 ATGCTTGTCATATTTAAAAGATAAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
66 ATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
* * * * ** *
635555 TGCAAAGGAAATTGATCAATATCGTTTATCCCAAT-ACGGGGATTGTGTTTATTGTACCAAATCA
131 TGCAAAGGAAATTCATCAATATCATTTATCCTAATGA-GGGGAATGTGTTTATCATGCCAAATCA
* * * * *
635619 CAAAATGAATGAGGATAATTACCAGAATCCATGTTTGC-CTTATTTGAGGCACAAACTTAGACTT
195 CAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCTCTCATTTGAGGCACGAACTTAGACTT
* * * *
635683 TATAGAAATTGGAGTGAAGAAAACTTCTTTTGCGAAACCAAAGCTTCGATTTCGTCTATCCTAAT
260 TACAAAAATTGGAGTGAAGAAAGCTT-TTTTGCGAAACCAAAGCTTCAATTTCGT-TATCCTAAT
* * * *
635748 GAAATGACTATGTTTGTGGTGCCTAAT-CTTGGAAAGAATGGAGATTGGTATGACTATTCATGTT
323 GAGATGACTATGTTTATGGTGCCTAATCCTT-AAAAGAATGG-GATTAGTATGACTATTCATGTT
* * * *
635812 TGTTTTATTTAGGAGGTAAATTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTGA
386 TGTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTGA
635877 CCCCAAAGCATCAAAT-TCTTGTAT
451 CCCCAAAGCATC-AATGTCTT-TAT
* * * * *
635901 CCTAATGAAAGGAATGCATTTTTGG---------TTGAAAAGAATGGAGATAATTACGAGAATCA
1 CCTAATGAAGGGAATGCATTCTTGGTTCCCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
* *
635957 ATGCTTGTCATATTTAAGGGATGAGTTTTTATTTTAAGGAAAATAGGGTAAAGAAAAGATTTCCA
66 ATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
* *
636022 TGCAAAGGAAATTCATCAATATCATTTATCCTACTAAGGGGAATGTGTTTATCATGCCAAATCAC
131 TGCAAAGGAAATTCATCAATATCATTTATCCTAATGAGGGGAATGTGTTTATCATGCCAAATCAC
* * * *
636087 AAAATGAATGAAGATCATTACTAGAATCCATGTTTGC-ATCATTTAAGGCATGGACTTAGACTTT
196 AAAATGAATGAAGATCATTACTAGAATCCATGTTTGCTCTCATTTGAGGCACGAACTTAGACTTT
* * *
636151 ACAGAAATCGGAGTGAAGAAAG-TTTTTTCGTGAAACCAAAGCTTCAATTTCGTTTATCCTAATG
261 ACAAAAATTGGAGTGAAGAAAGCTTTTTT-GCGAAACCAAAGCTTCAATTTCG-TTATCCTAATG
* * *
636215 AGATGACTATATTTAAGGTGCCTAAT-CTTGAAAAGAATTGGGACTAGTATGACTATTCATGTTT
324 AGATGACTATGTTTATGGTGCCTAATCCTT-AAAAGAA-TGGGATTAGTATGACTATTCATGTTT
* * * ** * *
636279 GTCTTATTTAGGAGGTAAACTTTAATTCTATCAAAAACGGAAGAAAGAAAACCTTTTCTTGCGAT
387 GTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTGAC
* *
636344 CCCAAAGCATCAGTGTCATGTAT
452 CCCAAAGCATCAATGTC-TTTAT
** * *
636367 CCTAATGAAGGGAATGCATTCTTGACTCCCAATTTTGAAAACAATGGAGACAGTTACGAGAATCG
1 CCTAATGAAGGGAATGCATTCTTGGTTCCCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
* *
636432 ATGCTTGTTATATTTAAGGGAT-AAATTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
66 ATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
* * *
636496 TGCAAAGGAAATTCATCAACATCATTTATCCTAATAAGGGGATTGTGTTTATCATGCCAAATCAC
131 TGCAAAGGAAATTCATCAATATCATTTATCCTAATGAGGGGAATGTGTTTATCATGCCAAATCAC
* * *
636561 AAAATGAATGAAGAT--TTACTAGAATCCATGTTTGC-CCCATTTCAAGCACGAACTTAGACTTT
196 AAAATGAATGAAGATCATTACTAGAATCCATGTTTGCTCTCATTTGAGGCACGAACTTAGACTTT
** * * *
636623 GTAGAAATTGGAGTGAAGAAAGCTTCTTTTGCGAAACCAAAGCTTCGATTTCGTCTATCTTAATG
261 ACAAAAATTGGAGTGAAGAAAGCTT-TTTTGCGAAACCAAAGCTTCAATTTCGT-TATCCTAATG
* *
636688 AGATGACTATGTTTATGGTGACTAATCCTAAAAAGAATGGGATTAGTATGACTATTCATGTTTGT
324 AGATGACTATGTTTATGGTGCCTAATCCTTAAAAGAATGGGATTAGTATGACTATTCATGTTTGT
* *
636753 CTTTTTTAAGAGGCAAACTTTGATTCTATCAAAAACGATGGAAAGAAAACCTTTTCTTGTGACCC
389 CTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTGACCC
* * *
636818 C-GATCCTCAATGTCTTGTAT
454 CAAAGCATCAATGTCTT-TAT
* * * *
636838 CCTAATGAAGGGAATGCGTTCTTGGTTCCAAATCTTGAAAAGAATGTAGACAGTTACGAGAATTG
1 CCTAATGAAGGGAATGCATTCTTGGTTCCCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
*
636903 ATGATTGT
66 ATGCTTGT
636911 GTTTATTGTA
Statistics
Matches: 2937, Mismatches: 387, Indels: 130
0.85 0.11 0.04
Matches are distributed among these distances:
465 6 0.00
466 182 0.06
467 223 0.08
468 1 0.00
470 1 0.00
471 76 0.03
472 145 0.05
473 64 0.02
474 255 0.09
475 1260 0.43
476 655 0.22
477 69 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (473 bp):
CCTAATGAAGGGAATGCATTCTTGGTTCCCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
ATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
TGCAAAGGAAATTCATCAATATCATTTATCCTAATGAGGGGAATGTGTTTATCATGCCAAATCAC
AAAATGAATGAAGATCATTACTAGAATCCATGTTTGCTCTCATTTGAGGCACGAACTTAGACTTT
ACAAAAATTGGAGTGAAGAAAGCTTTTTTGCGAAACCAAAGCTTCAATTTCGTTATCCTAATGAG
ATGACTATGTTTATGGTGCCTAATCCTTAAAAGAATGGGATTAGTATGACTATTCATGTTTGTCT
TATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTGACCCCA
AAGCATCAATGTCTTTAT
Found at i:635533 original size:951 final size:950
Alignment explanation
Indices: 633049--636910 Score: 4819
Period size: 951 Copynumber: 4.1 Consensus size: 950
633039 GTTCTCATAA
* * *
633049 CCTAATAAAGGGAATACGTTCTTGGTTCCCAATCTTGAAAAAAATGG-GACTA-TTACGAGAATC
1 CCTAATGAAGGGAATGCGTTCTTGGTT-CCAATCTTGAAAAGAATGGAGAC-AGTTACGAGAATC
* * * * *
633112 AACGCTTGTCATATTTAAGGGATAAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAATATTTTC
64 GATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCC
* * * * *
633177 ATGCAAAAGAAAATTCATCAATACCATTTATCCTAATGAGGAGAATATGTTTAT-AGTGCCAAAA
129 ATGC-AAAGGAAATTCATCAATATCATTTATCCTAATAAGGAGAATGTGTTTATCA-TGCCAAAT
* * * * *
633241 CACAAAATGAATGAAGATCATTACTAGAATCCGTGTTTGTCTCTTTTAAGGTACAAACTTAGACT
192 CACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTAAGGCACGAACTTAGACT
* * * * * * *
633306 TTACAAAAATTAAGG-G-GAAGAAAGCATTATTGCAAAACCAAAGCATCAATTTCGCCTATCCTG
257 TTACAGAAATT--GGAGTGAAGAAAGCTTTTTTGCGAAACCAAAGCTTCAATTTCGTCTATCCTA
* * * *
633369 ATGAGTTGACTATGTTTATTGG-GCCTAATCTTGAAAAGAA-TGGGGATTAGTATAACTATTCAT
320 ATGAGATGACTATATTTA-TGGTGCCTAATCCTGAAAAGAACT-GGGATTAGTATGACTATTCAT
* * * * * * *
633432 GTTTATCTTATTTAAGTGGCAAACTTTGATACTAACAAAAACAGTGGAAAGAAAACATTTTCTAG
383 GTTTGTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTG
* * **
633497 TCACACCAAAGCATCAATGTCACGTATCCTAATGATGGGAATGTTTTCTTGGTTCCCAATTTTGA
448 TCACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATGCATTCTTGGTTCCCAATTTTG-
* * * * ** *
633562 AAAAGAATGGAGACAGTTGCAAGAATCGATTCTTGTCAAATTTATGGGATGAATTTTTATTTTAA
512 AAAAGAATGGAGACAGTTACGAGAATCGATGCTTGTCATATTTAAAGGATAAATTTTTATTTTAA
** *
633627 GGAAAATAACGCAAAG-AAAGATTTCCATGCAAAAGAAAAACATCAATATCATTTATCCTAATGA
577 GGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGA
* * * *
633691 -GGAGAATGTGTTTAT-AGTGCCTAATCACAAAATGAATAAAGATCATTACTTGAATCAATGTTT
642 GGGA-AATGTGTTTATCA-TGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTT
* * * *
633754 -CTCTCATTTGAGGCATGAACTTAGACTTTTCAAAAATTAGTGGGAAGAAAGCCTT-TCTTGCGA
705 GC-CTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGAGGGAAGAAAGCCTTCTCTTGCGA
* * *
633817 AACCAAAGCTTCAATTTCGT-TGA-CCTTAATGACATGACTATGTTTATGGTTCCTAATCCTTAA
769 AACCAAAGCTTCAATTTCGTCT-ATCC-TAATGAGATGACTATGTTTATGGTGCCTAATCCTGAA
* * *
633880 AAGAATAGGGATTAGTATGACTACTCATGTTTGTCTTATTTATGAGGCAAACTTTGATTCTACCA
832 AAGAAT-GGGATTAGTATGACTATTCATGTTTGTCTTATTTAGGAGGCAAACTTTGATTCTATCA
* * * *
633945 AAAATGCTAGAAAGAAAACCTTTTCTTGTGACCCCAAAGCATCAATGTCTT-TAT
896 AAAACGGTGGAAAGAAAACCTTTTCTTGTGACCCCAAAGCATCAAAGTCTTGTAT
* * * * * *
633999 CCTAATGAAGGGATTACGTTCTTGGTTACCAATCTTGAAAAGAATGCAGAGATTTACAAGAATCG
1 CCTAATGAAGGGAATGCGTTCTTGGTT-CCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
* * * *
634064 ATGCTTGTCATAATTAATGGATGAATTTTTATTTCAAGGAAAATAGGGCAAAGAAAAGATCTCCA
65 ATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
* * *
634129 TGCAAAGGAAATTCATCAATATCATCTATCCTAATGAA-GAGAATGTGCTTATCAAGCCAAATCA
130 TGCAAAGGAAATTCATCAATATCATTTATCCTAAT-AAGGAGAATGTGTTTATCATGCCAAATCA
* * * *
634193 CAAAATGATTTAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTT
194 CAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTAAGGCACGAACTTAGACTTT
* * * * * * * * * *
634258 ACA-AAAGTTGGTGAGAAAAAAGCGTTTCTTGTGAAATCAAAGCATT-AATTTTGTCCACCCTAT
259 ACAGAAA-TTGGAGTGAAGAAAGC-TTTTTTGCGAAACCAAAGC-TTCAATTTCGTCTATCCTAA
** * * * * * *
634321 TGAGATGGTTATATTTGTGGTGCGTAATCCTGAAAATAACAGGGATTAGTATGACTATTCAAGCT
321 TGAGATGACTATATTTATGGTGCCTAATCCTGAAAAGAACTGGGATTAGTATGACTATTCATGTT
* * * *
634386 TGTCTTATTTAAGAGACAAACTTT-ATTCTAGCAAAAATGGTGGAAGGAAAACCTTTTCTTG-CA
386 TGTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTCA
* * * *
634449 GCACCAAAGCATCAATGTC-TTTCATCCTAATGAAGGAAATGCGTTCTTGGTTCCCAATCTTGAA
451 -CACCAAAGCATCAATGTCATGT-ATCCTAATGAAGGGAATGCATTCTTGGTTCCCAATTTTGAA
* * * * *
634513 AAGAATGGAGACTGTTACGAGAATCAATGCTTGTCGTAATT-AAGGATTGAATTTTTATTTTAAG
514 AAGAATGGAGACAGTTACGAGAATCGATGCTTGTCATATTTAAAGGA-TAAATTTTTATTTTAAG
* *
634577 GAAAATAGGGCAAAGAAAAGATTTCCAAGCAAAAGAAAATCATCAATATTATTTATCCTAATGAG
578 GAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAG
* *
634642 GGAAATGTGTTTATCATGCCAAAACACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTC
643 GGAAATGTGTTTATCATGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCC
* * * *
634707 TCTTTTGAGGTACGAACTTAGACTTTACAAAAATTAGG-GGGAAGCAAGCCTT-TCTTGCAAAAC
708 TCATTTGAGGCACGAACTTAGACTTTACAAAAATT-GGAGGGAAGAAAGCCTTCTCTTGCGAAAC
* * * * *
634770 CAAAGCATCAATTTCTTCTATCCTAATGAGATGACTATATTTGTGGTGCGTAATCCTGAAAAGAA
772 CAAAGCTTCAATTTCGTCTATCCTAATGAGATGACTATGTTTATGGTGCCTAATCCTGAAAAGAA
* * *
634835 TTGGGATTGGTATGACTATTCATGTTTGTCTTATTCAGGAGGCAAACTTGGATTCTATCAAAAAC
837 -TGGGATTAGTATGACTATTCATGTTTGTCTTATTTAGGAGGCAAACTTTGATTCTATCAAAAAC
* ** *
634900 GGTGGAATGAAAACCTTTTCTTACGACCCTAAAGCATCAAAGTCTTGTAT
901 GGTGGAAAGAAAACCTTTTCTTGTGACCCCAAAGCATCAAAGTCTTGTAT
* * *
634950 CCTAATGAAGGGAATGCATTCTTGGTTCCTAATTTTGAAAAGAATGGAGACAGTTACGAGAATTG
1 CCTAATGAAGGGAATGCGTTCTTGGTTCC-AATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
* *
635015 ATGGTTGTCATATTTAAGGGATGAATTTTTATTTTAAGAAAAATAGGGCAAAGAAAAGATTTCCA
65 ATGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
* *
635080 CGCAAAGGAAATTCATCAATATCATTTATCCTAATAAGGGGAATGTGTTTATCATGCCAAATCAC
130 TGCAAAGGAAATTCATCAATATCATTTATCCTAATAAGGAGAATGTGTTTATCATGCCAAATCAC
** * *
635145 AAAATGGGTGAAGATCATTACTAGAATCCATATTTGCC-CTATTTCAGGCACGAACTTAGACTTT
195 AAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTC-ATTTAAGGCACGAACTTAGACTTT
* * * * *
635209 ATAGAAATTGGAGTGATGAAAGCTTCTTTTGCGAAACCAAAGCTTCGATTTCATCTATCTTAATG
259 ACAGAAATTGGAGTGAAGAAAGCTT-TTTTGCGAAACCAAAGCTTCAATTTCGTCTATCCTAATG
* * *
635274 AGATGACTATGTTTATGGTGCCTGATCCTAAAAAGAA-TGGGATTAGTATTG-CTATTCATGTTT
323 AGATGACTATATTTATGGTGCCTAATCCTGAAAAGAACTGGGATTAGTA-TGACTATTCATGTTT
* *
635337 GTCTTTTTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAACCTTTTCTTGTGA
387 GTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAG-AAAACCTTTTCTTGTCA
* * *
635402 CCCCAAAGCATC-GTGTCATGTATCCTAATAAAGGGAATGCATTCTTGGTTCCCAATTTTGAAAA
451 CACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATGCATTCTTGGTTCCCAATTTTGAAAA
* *
635466 GAATGGAGACAATTACGAGAATCGATGCTTGTCATATTTAAAAGATAAATTTTTATTTTAAGGAA
516 GAATGGAGACAGTTACGAGAATCGATGCTTGTCATATTTAAAGGATAAATTTTTATTTTAAGGAA
* * * * *
635531 AATAGGGCAAAGAAAAGATTTCCATGCAAAGGAAATTGATCAATATCGTTTATCCCAAT-ACGGG
581 AATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGA-GGG
* * ** * * * * *
635595 GATTGTGTTTATTGTACCAAATCACAAAATGAATGAGGATAATTACCAGAATCCATGTTTGCCTT
645 AAATGTGTTTATCATGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTC
* * * * * *
635660 ATTTGAGGCACAAACTTAGACTTTATAGAAATTGGAGTGAAGAAA-ACTTCTTTTGCGAAACCAA
710 ATTTGAGGCACGAACTTAGACTTTACAAAAATTGGAGGGAAGAAAGCCTTCTCTTGCGAAACCAA
* * * * *
635724 AGCTTCGATTTCGTCTATCCTAATGAAATGACTATGTTTGTGGTGCCTAATCTTGGAAAGAATGG
775 AGCTTCAATTTCGTCTATCCTAATGAGATGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGG
* * * *
635789 AGATTGGTATGACTATTCATGTTTGTTTTATTTAGGAGGTAAATTTTGATTCTATCAAAAACGGT
840 -GATTAGTATGACTATTCATGTTTGTCTTATTTAGGAGGCAAACTTTGATTCTATCAAAAACGGT
*
635854 GGAAAGAAAACCTTTTCTTGTGACCCCAAAGCATCAAATTCTTGTAT
904 GGAAAGAAAACCTTTTCTTGTGACCCCAAAGCATCAAAGTCTTGTAT
* * * * * *
635901 CCTAATGAAAGGAATGCATTTTTGG--------TTGAAAAGAATGGAGATAATTACGAGAATCAA
1 CCTAATGAAGGGAATGCGTTCTTGGTTCCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCGA
* *
635958 TGCTTGTCATATTTAAGGGATGAGTTTTTATTTTAAGGAAAATAGGGTAAAGAAAAGATTTCCAT
66 TGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCAT
* *
636023 GCAAAGGAAATTCATCAATATCATTTATCCTACTAAGGGGAATGTGTTTATCATGCCAAATCACA
131 GCAAAGGAAATTCATCAATATCATTTATCCTAATAAGGAGAATGTGTTTATCATGCCAAATCACA
* * *
636088 AAATGAATGAAGATCATTACTAGAATCCATGTTTGCATCATTTAAGGCATGGACTTAGACTTTAC
196 AAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTAAGGCACGAACTTAGACTTTAC
* * *
636153 AGAAATCGGAGTGAAGAAAG-TTTTTTCGTGAAACCAAAGCTTCAATTTCGTTTATCCTAATGAG
261 AGAAATTGGAGTGAAGAAAGCTTTTTT-GCGAAACCAAAGCTTCAATTTCGTCTATCCTAATGAG
* * * *
636217 ATGACTATATTTAAGGTGCCTAATCTTGAAAAGAATTGGGACTAGTATGACTATTCATGTTTGTC
325 ATGACTATATTTATGGTGCCTAATCCTGAAAAGAACTGGGATTAGTATGACTATTCATGTTTGTC
* * * **
636282 TTATTTAGGAGGTAAACTTTAATTCTATCAAAAACGGAAGAAAGAAAACCTTTTCTTG-CGATC-
390 TTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTC-A-CA
* ** *
636345 CCAAAGCATCAGTGTCATGTATCCTAATGAAGGGAATGCATTCTTGACTCCCAATTTTGAAAACA
453 CCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATGCATTCTTGGTTCCCAATTTTGAAAAGA
* *
636410 ATGGAGACAGTTACGAGAATCGATGCTTGTTATATTTAAGGGATAAA-TTTTATTTTAAGGAAAA
518 ATGGAGACAGTTACGAGAATCGATGCTTGTCATATTTAAAGGATAAATTTTTATTTTAAGGAAAA
* * * * * *
636474 TAGGGCAAAGAAAAGATTTCCATGCAAAGGAAATTCATCAACATCATTTATCCTAATAAGGGGAT
583 TAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGGAAA
*
636539 TGTGTTTATCATGCCAAATCACAAAATGAATGAAGAT--TTACTAGAATCCATGTTTGCCCCATT
648 TGTGTTTATCATGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATT
* * ** * * *
636602 TCAAGCACGAACTTAGACTTTGTAGAAATTGGAGTGAAGAAAG-CTTCTTTTGCGAAACCAAAGC
713 TGAGGCACGAACTTAGACTTTACAAAAATTGGAGGGAAGAAAGCCTTCTCTTGCGAAACCAAAGC
* * * *
636666 TTCGATTTCGTCTATCTTAATGAGATGACTATGTTTATGGTGACTAATCCTAAAAAGAATGGGAT
778 TTCAATTTCGTCTATCCTAATGAGATGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGAT
* * *
636731 TAGTATGACTATTCATGTTTGTCTTTTTTAAGAGGCAAACTTTGATTCTATCAAAAACGATGGAA
843 TAGTATGACTATTCATGTTTGTCTTATTTAGGAGGCAAACTTTGATTCTATCAAAAACGGTGGAA
* * * *
636796 AGAAAACCTTTTCTTGTGACCCC-GATCCTCAATGTCTTGTAT
908 AGAAAACCTTTTCTTGTGACCCCAAAGCATCAAAGTCTTGTAT
* *
636838 CCTAATGAAGGGAATGCGTTCTTGGTTCCAAATCTTGAAAAGAATGTAGACAGTTACGAGAATTG
1 CCTAATGAAGGGAATGCGTTCTTGGTTCC-AATCTTGAAAAGAATGGAGACAGTTACGAGAATCG
*
636903 ATGATTGT
65 ATGCTTGT
636911 GTTTATTGTA
Statistics
Matches: 2523, Mismatches: 332, Indels: 118
0.85 0.11 0.04
Matches are distributed among these distances:
937 36 0.01
938 84 0.03
939 137 0.05
940 4 0.00
941 200 0.08
942 383 0.15
943 1 0.00
946 33 0.01
948 5 0.00
949 72 0.03
950 606 0.24
951 926 0.37
952 35 0.01
953 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (950 bp):
CCTAATGAAGGGAATGCGTTCTTGGTTCCAATCTTGAAAAGAATGGAGACAGTTACGAGAATCGA
TGCTTGTCATATTTAAGGGATGAATTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCAT
GCAAAGGAAATTCATCAATATCATTTATCCTAATAAGGAGAATGTGTTTATCATGCCAAATCACA
AAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTAAGGCACGAACTTAGACTTTAC
AGAAATTGGAGTGAAGAAAGCTTTTTTGCGAAACCAAAGCTTCAATTTCGTCTATCCTAATGAGA
TGACTATATTTATGGTGCCTAATCCTGAAAAGAACTGGGATTAGTATGACTATTCATGTTTGTCT
TATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAACCTTTTCTTGTCACACCA
AAGCATCAATGTCATGTATCCTAATGAAGGGAATGCATTCTTGGTTCCCAATTTTGAAAAGAATG
GAGACAGTTACGAGAATCGATGCTTGTCATATTTAAAGGATAAATTTTTATTTTAAGGAAAATAG
GGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGGAAATGT
GTTTATCATGCCAAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTGA
GGCACGAACTTAGACTTTACAAAAATTGGAGGGAAGAAAGCCTTCTCTTGCGAAACCAAAGCTTC
AATTTCGTCTATCCTAATGAGATGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGATTAG
TATGACTATTCATGTTTGTCTTATTTAGGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGA
AAACCTTTTCTTGTGACCCCAAAGCATCAAAGTCTTGTAT
Found at i:637909 original size:13 final size:13
Alignment explanation
Indices: 637891--637916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
637881 TATACAAAAT
637891 ATGTATCGATACA
1 ATGTATCGATACA
637904 ATGTATCGATACA
1 ATGTATCGATACA
637917 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:637914 original size:32 final size:33
Alignment explanation
Indices: 637873--637937 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
637863 TAGCCAAACT
*
637873 TGTATCGATATAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
637905 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
637938 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 12 0.40
34 18 0.60
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:642018 original size:16 final size:16
Alignment explanation
Indices: 641982--642018 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
641972 GATAAAAATA
641982 TCCAAAATGAGAAAGC
1 TCCAAAATGAGAAAGC
641998 T-CAAAATGA-AGAAGC
1 TCCAAAATGAGA-AAGC
642013 TCCAAA
1 TCCAAA
642019 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 13 0.68
16 5 0.26
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (16 bp):
TCCAAAATGAGAAAGC
Found at i:644112 original size:13 final size:13
Alignment explanation
Indices: 644094--644132 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
644084 CATTTTTCTT
644094 TGTATCGATACAA
1 TGTATCGATACAA
*
644107 TGTATCGATACAC
1 TGTATCGATACAA
644120 TGTATCGATACAA
1 TGTATCGATACAA
644133 GGGGATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:644286 original size:20 final size:20
Alignment explanation
Indices: 644243--644288 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
644233 AAATCTTTTG
644243 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
644264 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
644284 CAAAA
1 CAAAA
644289 CCAGCGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:646650 original size:19 final size:19
Alignment explanation
Indices: 646626--646690 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
646616 TAGCCAAACT
646626 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
646645 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
646658 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
646679 TGTATCGATACA
1 TGTATCGATACA
646691 TTGGCTTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:646662 original size:13 final size:13
Alignment explanation
Indices: 646644--646669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
646634 TACACAAAAT
646644 ATGTATCGATACA
1 ATGTATCGATACA
646657 ATGTATCGATACA
1 ATGTATCGATACA
646670 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:646667 original size:32 final size:33
Alignment explanation
Indices: 646626--646690 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
646616 TAGCCAAACT
646626 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
646658 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
646691 TTGGCTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Done.