Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold10
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: 3842500
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.31
Warning! 348197 characters in sequence are not A, C, G, or T
File 5 of 25
Found at i:638524 original size:42 final size:43
Alignment explanation
Indices: 638431--638528 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
638421 GAGTACATCA
* * *
638431 ACTCTTTGAGGACAAAGGAAAAGAAGGAAATTAAGTGTGTTCT
1 ACTCTTTGAGGACAAAAGAAAAGAAGGAAATAAAGTGAGTTCT
* *
638474 GCTCTTTGAGGACAAAAGAGAA-AAGGAAATAAAGTGAG-TCTT
1 ACTCTTTGAGGACAAAAGAAAAGAAGGAAATAAAGTGAGTTC-T
*
638516 ACTTTTTGAGGAC
1 ACTCTTTGAGGAC
638529 CAGAAGGTGC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 2 0.04
42 26 0.55
43 19 0.40
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.26
Consensus pattern (43 bp):
ACTCTTTGAGGACAAAAGAAAAGAAGGAAATAAAGTGAGTTCT
Found at i:638722 original size:61 final size:60
Alignment explanation
Indices: 638520--638895 Score: 434
Period size: 59 Copynumber: 6.2 Consensus size: 60
638510 AGTCTTACTT
* * * * * *
638520 TTTGAGGACCAGAAGGTGCCACTAACTTATGTGGGCTTTGAAAGGAAA-ACGTCATGCTC
1 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCGTCCTGCTC
* * *
638579 TTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA-GCGTCTTGCTT
1 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCGTCCTGCTC
** * *
638638 TTTGAAAACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCTTGCTC
1 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGGCGTCCTGCTC
* * * *
638699 TTTGAGGACTAAAAGGTGCCACCAACTTATGTGGACTTTAAAAGGAAAAAGGAAAGTATCCTGCT
1 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG--AAAGG--CG--TCCTGCT
638764 C
60 C
* * *
638765 TTTGGGGACTAGAAGGTGCCACCAACTTGTAT-GGCTTTAAAAGGATAAGGTGTCCTGCTC
1 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGGCGTCCTGCTC
* * *
638825 TTTGAGAACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTC
1 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCGTCCTGCTC
*
638886 TTCGAGGACT
1 TTTGAGGACT
638896 GAAAGGATAA
Statistics
Matches: 271, Mismatches: 35, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
59 93 0.34
60 38 0.14
61 81 0.30
62 6 0.02
63 2 0.01
64 5 0.02
65 11 0.04
66 35 0.13
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (60 bp):
TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCGTCCTGCTC
Found at i:638836 original size:60 final size:60
Alignment explanation
Indices: 638745--638900 Score: 201
Period size: 60 Copynumber: 2.6 Consensus size: 60
638735 TTTAAAAGGA
* * *
638745 AAAAGGAAA-GTATCCTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTAT-GGCTTT
1 AAAAGGAAAGGTATCCTGCTCTTTGAGAACTAGAAAGTGCCACCAACTTGTATGGGCTTT
* *
638803 AAAAGGATAAGGTGTCCTGCTCTTTGAGAACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGA-AAGGTATCCTGCTCTTTGAGAACTAGAAAGTGCCACCAACTTGTATGGGCTTT
* * *
638864 AAAAGGAAAAGGCATCCTGCTCTTCGAGGACT-GAAAG
1 AAAAGG-AAAGGTATCCTGCTCTTTGAGAACTAGAAAG
638901 GATAAAAGGT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
58 7 0.08
59 2 0.02
60 43 0.51
61 32 0.38
62 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (60 bp):
AAAAGGAAAGGTATCCTGCTCTTTGAGAACTAGAAAGTGCCACCAACTTGTATGGGCTTT
Found at i:641334 original size:88 final size:88
Alignment explanation
Indices: 641181--641351 Score: 245
Period size: 88 Copynumber: 1.9 Consensus size: 88
641171 GAAGGGCGAG
** * * * *
641181 GTTAGAGTATCCCCTGGAAAGGTCGAGGTTAAAGTATCCTCATGGATGGCAAATGATTTTGACAA
1 GTTAGAGTATCCCCTCAAAAGGTCGAGGTTAAAGTATCCACATGGATGACAAATAATTTTAACAA
*
641246 AGTAAAAGTTCCAATCTTGATAC
66 AGAAAAAGTTCCAATCTTGATAC
* *
641269 GTTAGAGTATCCCTTCAAAAGGTC-AGGGTTGAAGTATCCACATGGATGACAAATAATTTTAACA
1 GTTAGAGTATCCCCTCAAAAGGTCGA-GGTTAAAGTATCCACATGGATGACAAATAATTTTAACA
641333 AAGAAAAAGTTCCAATCTT
65 AAGAAAAAGTTCCAATCTT
641352 AACAAATTTC
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 1 0.01
88 72 0.99
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (88 bp):
GTTAGAGTATCCCCTCAAAAGGTCGAGGTTAAAGTATCCACATGGATGACAAATAATTTTAACAA
AGAAAAAGTTCCAATCTTGATAC
Found at i:644368 original size:76 final size:78
Alignment explanation
Indices: 644187--644369 Score: 226
Period size: 79 Copynumber: 2.4 Consensus size: 78
644177 TAACAACGAT
* * * * * *
644187 GTTGGAGTATCCCTGATTATGGGAAATCGGTGTTCTGGAAATAAAATCAGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCTGATTATAGAAAATCGGTATTCTGAAAATAAAATCA-GATTAGAGTATCCCC
*
644252 TCGGAAATAACAGG
65 TCGAAAATAACAGG
** *
644266 GTTAAAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATC-GATTAGAGTAT-CCCT
1 GTTGGAGTATCCCTGATTATAGAAAATCGGTATTCTGAAAATAAAATCAGATTAGAGTATCCCCT
644329 CGAAAATAACAGG
66 CGAAAATAACAGG
* * *
644342 GTTGGAGTATCCCCGATTGTAAAAAATC
1 GTTGGAGTATCCCTGATTATAGAAAATC
644370 AATATTTTAG
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
76 39 0.44
77 9 0.10
79 41 0.46
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (78 bp):
GTTGGAGTATCCCTGATTATAGAAAATCGGTATTCTGAAAATAAAATCAGATTAGAGTATCCCCT
CGAAAATAACAGG
Found at i:644384 original size:76 final size:77
Alignment explanation
Indices: 644224--644385 Score: 193
Period size: 76 Copynumber: 2.1 Consensus size: 77
644214 CGGTGTTCTG
* * * * *
644224 GAAATAAAATCAGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTAAAGTATCCCTGATTATAGA
1 GAAATAAAATCA-GATTAGAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCCCCGATTATAAA
**
644289 AAATCGGTATTTT
65 AAATCAATATTTT
** *
644302 GAAAATAAAATC-GATTAGAGTAT-CCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTAAA
1 G-AAATAAAATCAGATTAGAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCCCCGATTATAAA
644365 AAATCAATATTTT
65 AAATCAATATTTT
644378 AGAAATAA
1 -GAAATAA
644386 GGTCGGGGTT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
76 51 0.71
77 10 0.14
78 1 0.01
79 10 0.14
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (77 bp):
GAAATAAAATCAGATTAGAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCCCCGATTATAAAA
AATCAATATTTT
Found at i:644396 original size:51 final size:51
Alignment explanation
Indices: 644340--644457 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
644330 GAAAATAACA
*
644340 GGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTTAGAAAT-AAGGTCG
1 GGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTTAGAAATAAAGCT-G
* ***
644391 GGGTTGAAGTATCCCCGATTGTGTGAAATCAATATTTTAGAAATAAAGCTG
1 GGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTTAGAAATAAAGCTG
644442 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
644458 TCGGAAATAG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 56 0.93
52 4 0.07
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTTAGAAATAAAGCTG
Found at i:644493 original size:29 final size:27
Alignment explanation
Indices: 644437--644512 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 27
644427 TTAGAAATAA
644437 AGCTGGGGTTGGAGTATCCCCTCGGAAAT
1 AGCTGGGGTTGGAGTAT--CCTCGGAAAT
*
644466 AGCTGAGGTTGGAGTATCCTCGATGAAAT
1 AGCTGGGGTTGGAGTATCCTCG--GAAAT
* *
644495 AAC-GGGGTTGGATTATCC
1 AGCTGGGGTTGGAGTATCC
644513 CAGATTGTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.12
28 13 0.32
29 23 0.56
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (27 bp):
AGCTGGGGTTGGAGTATCCTCGGAAAT
Found at i:644616 original size:51 final size:51
Alignment explanation
Indices: 644497--644931 Score: 230
Period size: 51 Copynumber: 8.4 Consensus size: 51
644487 GATGAAATAA
* * * * *
644497 CGGGGTTGGATTATCCCAGATTGT-GAAAGATTAGTGTTTT-GAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGGAGA-ATTGGTGTTTTAG-AAATAAAAC
* *
644548 CGGAGTTAGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAC
* *** ** ** * * ***** *
644599 CGGGGTTTGAGTATCCCCTCGAGAATAACAGGCTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTAT-CCC-CGATTGT-GGAGAATTGGTGTTTTAGAAAT-AAA-AC
* * * * * * *
644655 CAGGGTT-GAATATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAC
* *
644705 CAGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAC
*** ** ** * * ***** *
644756 CGGGGTTGGAGTATCCCCTCGAGAATAACAGGCTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTAT-CCC-CGATTGT-GGAGAATTGGTGTTTTAGAAAT-AAA-AC
* * * * * *
644812 CGGGTTTGGAATATCCCCAATTGTGAAAAATTGGTGTTTT-GAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAG-AAATAAAAC
* *
644863 CGGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAC
644914 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
644932 TCAGAAATAA
Statistics
Matches: 275, Mismatches: 94, Indels: 30
0.69 0.24 0.08
Matches are distributed among these distances:
50 7 0.03
51 162 0.59
52 23 0.08
53 22 0.08
54 27 0.10
55 14 0.05
56 20 0.07
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAC
Found at i:644674 original size:27 final size:27
Alignment explanation
Indices: 644615--644674 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
644605 TTGAGTATCC
*
644615 CCTCGA-GAATAACAGGCTTGGAGTAT
1 CCTCGATGAATAACAGGCTTGGAATAT
* *
644641 CCCCGATGAAATAACAGGGTT-GAATAT
1 CCTCGATG-AATAACAGGCTTGGAATAT
644668 CCTCGAT
1 CCTCGAT
644675 TGTGAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.18
27 12 0.43
28 11 0.39
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (27 bp):
CCTCGATGAATAACAGGCTTGGAATAT
Found at i:644722 original size:157 final size:159
Alignment explanation
Indices: 644319--644942 Score: 847
Period size: 158 Copynumber: 4.0 Consensus size: 159
644309 AAATCGATTA
* * * * *
644319 GAGTATCCCTCGA--AAATAACAGGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTT-AGA
1 GAGTATCCC-CGATGAAATAACAGGGTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTGA-A
** * * *** * * *
644381 AATAAGGTCGGGGTTGAAGTATCCCCGATTGTGTGA-AATCAATATTTTAGAAATAAAGCTGGGG
64 AATAAAATCGGAGTTGGAGTATCCCCGATTGTG-GAGAATTGGTGTTTTAGAAATAAAACCGGGG
*
644445 TTGGAGTATCCCCTCG-GAAATAGCTGAGG-TTG
128 TTGGAGTATCCCCTCGAGAAATAAC--AGGCTTG
* * * * *
644477 GAGTATCCTCGATGAAATAACGGGGTTGGATTATCCCAGATTGTGAAAGATTAGTGTTTTGAAAA
1 GAGTATCCCCGATGAAATAACAGGGTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTGAAAA
* *
644542 TAAAATCGGAGTTAGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTT
66 TAAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTG
644607 GAGTATCCCCTCGAG-AATAACAGGCTTG
131 GAGTATCCCCTCGAGAAATAACAGGCTTG
* * *
644635 GAGTATCCCCGATGAAATAACAGGGTT-GAATATCCTCGATTGTGAAAAATTGGTGTTTTGGAAA
1 GAGTATCCCCGATGAAATAACAGGGTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTGAAAA
*
644699 TAAAATCAGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTG
66 TAAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTG
644764 GAGTATCCCCTCGAG-AATAACAGGCTTG
131 GAGTATCCCCTCGAGAAATAACAGGCTTG
* *
644792 GAGTATCCCCGATGAAATAAC-GGGTTTGGAATATCCCCAATTGTGAAAAATTGGTGTTTTGAAA
1 GAGTATCCCCGATGAAATAACAGGG-TTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTGAAA
*
644856 ATAAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAAAAATAAAACCGGGGTT
65 ATAAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTT
644921 GGAGTATCCCCTC-AGAAATAAC
130 GGAGTATCCCCTCGAGAAATAAC
644943 GAGATTGGAG
Statistics
Matches: 419, Mismatches: 38, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
156 3 0.01
157 152 0.36
158 153 0.37
159 109 0.26
160 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (159 bp):
GAGTATCCCCGATGAAATAACAGGGTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTGAAAA
TAAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTG
GAGTATCCCCTCGAGAAATAACAGGCTTG
Found at i:644820 original size:28 final size:28
Alignment explanation
Indices: 644756--644829 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
644746 GAAATAAAAC
*
644756 CGGGGTTGGAGTATCCCCTCGAGAATAA
1 CGGGCTTGGAGTATCCCCTCGAGAATAA
*
644784 CAGGCTTGGAGTAT-CCC-CGATGAAATAA
1 CGGGCTTGGAGTATCCCCTCGA-G-AATAA
* *
644812 CGGGTTTGGAATATCCCC
1 CGGGCTTGGAGTATCCCC
644830 AATTGTGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
26 3 0.08
27 4 0.11
28 28 0.74
29 3 0.08
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (28 bp):
CGGGCTTGGAGTATCCCCTCGAGAATAA
Found at i:645034 original size:130 final size:129
Alignment explanation
Indices: 644789--645034 Score: 275
Period size: 130 Copynumber: 1.9 Consensus size: 129
644779 AATAACAGGC
* * * * * *
644789 TTGGAGTATCCCCGATGAAATAACGGGTTTGGAATATCCCCAATTGTGAAAAATTGGTGTTTTGA
1 TTGGAGTATCCCCCATGAAATAACGAGATTGGAACATCCCCAATTATGAAAAATTGATGTTTTGA
* * * *
644854 AAATAAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAAAAATAAAACCGGGG
66 AAATAAAATCGGAGTTGGAGTATCCCCGA-TGTGAAGAATTAGAGATTTAAAAATAAAACCGGGG
* **
644919 TTGGAGTATCCCCTCA-GAAATAACGAGATTGGAGCATCCCTGATTATGAAAAATTGATGTTTT-
1 TTGGAGTATCCCC-CATGAAATAACGAGATTGGAACATCCCCAATTATGAAAAATTGATGTTTTG
* *
644982 AGAAATATAACTCGG-GTTGGAGTATCCTCGA-GATGAAGAATCTAGAGATTTAA
65 A-AAATA-AAATCGGAGTTGGAGTATCCCCGATG-TGAAGAAT-TAGAGATTTAA
645035 CAAAAATACT
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
128 1 0.01
129 8 0.08
130 80 0.83
131 7 0.07
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (129 bp):
TTGGAGTATCCCCCATGAAATAACGAGATTGGAACATCCCCAATTATGAAAAATTGATGTTTTGA
AAATAAAATCGGAGTTGGAGTATCCCCGATGTGAAGAATTAGAGATTTAAAAATAAAACCGGGG
Found at i:647343 original size:33 final size:33
Alignment explanation
Indices: 647306--647375 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
647296 AAAATGCATG
* *
647306 AATGTATCGACGCATTGTA-AAATGTATCGATAC
1 AATGTATCGACACAATG-AGAAATGTATCGATAC
* *
647339 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGACACAATGAGAAATGTATCGATAC
647372 AATG
1 AATG
647376 CAAAATGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (33 bp):
AATGTATCGACACAATGAGAAATGTATCGATAC
Found at i:647368 original size:53 final size:53
Alignment explanation
Indices: 647306--647426 Score: 188
Period size: 53 Copynumber: 2.3 Consensus size: 53
647296 AAAATGCATG
* * * *
647306 AATGTATCGACGCATTGTAAAATGTATCGATACAATGTATCGATACAATGAGC
1 AATGTATCGACACAATGCAAAATGTATCGATACAATGTATCGATACAATGAAC
*
647359 AATGTATCGATACAATGCAAAATGTATCGATACAATGTATCGATACAATGAAC
1 AATGTATCGACACAATGCAAAATGTATCGATACAATGTATCGATACAATGAAC
*
647412 AATGTATCGATACAA
1 AATGTATCGACACAA
647427 ATTGTGAACA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (53 bp):
AATGTATCGACACAATGCAAAATGTATCGATACAATGTATCGATACAATGAAC
Found at i:647395 original size:33 final size:33
Alignment explanation
Indices: 647358--647426 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
647348 ATACAATGAG
647358 CAATGTATCGATACAATGCAA-AATGTATCGATA
1 CAATGTATCGATACAATG-AACAATGTATCGATA
647391 CAATGTATCGATACAATGAACAATGTATCGATA
1 CAATGTATCGATACAATGAACAATGTATCGATA
647424 CAA
1 CAA
647427 ATTGTGAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 2 0.06
33 33 0.94
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (33 bp):
CAATGTATCGATACAATGAACAATGTATCGATA
Found at i:647413 original size:20 final size:20
Alignment explanation
Indices: 647337--647426 Score: 106
Period size: 20 Copynumber: 4.8 Consensus size: 20
647327 ATGTATCGAT
647337 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
647357 GCAATGTATCGATACAATGCA
1 ACAATGTATCGATACAATG-A
647378 A-AATGTATCG-----AT--
1 ACAATGTATCGATACAATGA
647390 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
647410 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
647427 ATTGTGAACA
Statistics
Matches: 59, Mismatches: 2, Indels: 18
0.75 0.03 0.23
Matches are distributed among these distances:
12 1 0.02
13 9 0.15
15 2 0.03
18 2 0.03
20 44 0.75
21 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:647426 original size:13 final size:13
Alignment explanation
Indices: 647326--647408 Score: 82
Period size: 13 Copynumber: 7.3 Consensus size: 13
647316 CGCATTGTAA
647326 AATGTATCGATAC
1 AATGTATCGATAC
647339 AATGTATCGATAC
1 AATGTATCGATAC
647352 AATG-A--G---C
1 AATGTATCGATAC
647359 AATGTATCGATAC
1 AATGTATCGATAC
647372 AATG---C-A-A-
1 AATGTATCGATAC
647379 AATGTATCGATAC
1 AATGTATCGATAC
647392 AATGTATCGATAC
1 AATGTATCGATAC
647405 AATG
1 AATG
647409 AACAATGTAT
Statistics
Matches: 58, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
7 9 0.16
8 2 0.03
9 1 0.02
10 4 0.07
11 1 0.02
12 2 0.03
13 39 0.67
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:648212 original size:42 final size:41
Alignment explanation
Indices: 648159--648279 Score: 129
Period size: 45 Copynumber: 2.8 Consensus size: 41
648149 ACGAAATGCG
648159 TCCTACTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGTA
1 TCCTACTCTTTGAGGACAAAAGAAA-AGGAAAATAAAGTGTA
* *
648201 TCCTGCTCTTTGAGGACAAAAGGGAAAA--AAAGGGAGTAAAGTGTG
1 TCCTACTCTTTGAGGACAAAA--GAAAAGGAAA---A-TAAAGTGTA
648246 TCCTACTCTTTGAGGACAAAGGAGAAAAGGAAAA
1 TCCTACTCTTTGAGGACAAA--AGAAAAGGAAAA
648280 GGCGTCCTGC
Statistics
Matches: 66, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
41 3 0.05
42 20 0.30
43 1 0.02
44 6 0.09
45 32 0.48
47 4 0.06
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (41 bp):
TCCTACTCTTTGAGGACAAAAGAAAAGGAAAATAAAGTGTA
Found at i:648355 original size:62 final size:60
Alignment explanation
Indices: 648270--648748 Score: 569
Period size: 55 Copynumber: 8.1 Consensus size: 60
648260 GACAAAGGAG
*
648270 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTT
* * *
648331 GAAAAGAAAAGGGCATCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTATGTGGGCTTT
1 -AAAAGAAAA-GGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
*
648393 AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTT
* * *
648454 -----AAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGTTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
* * *
648509 AAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTT
* ** *
648571 -----AAAAGGTGTCCTGCTCTTCAAGGACTGAAAAATGCCATCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
648626 -----AAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGC-TTT
* * * *
648682 AAAAGAAAAATGCGTCCTACTATTTGAGGAGTAGAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAG-AAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTT
648744 AAAAG
1 AAAAG
648749 GTGTCATGCT
Statistics
Matches: 366, Mismatches: 32, Indels: 38
0.84 0.07 0.09
Matches are distributed among these distances:
55 124 0.34
56 27 0.07
60 1 0.00
61 74 0.20
62 109 0.30
63 31 0.08
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (60 bp):
AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:648877 original size:61 final size:61
Alignment explanation
Indices: 648797--649077 Score: 246
Period size: 61 Copynumber: 4.8 Consensus size: 61
648787 AGCGTCCTAT
* * * * *
648797 TCTTTAAGGACTAGGAAATGCCACTAACTTGTGTGGGCTCTAAAAGGAAAAGGCATCGTGC
1 TCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
* *
648858 TCTTTGAGGACTAGAAAATGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCGTCCTGC
1 TCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
* * * * *
648919 TTTTTGAGGACTGGAAAGTGCCACCAACCTGTGTGGGCTTT------AAAAGGCATCATGC
1 TCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
* * * * ** *
648974 TCTTTAAGGACTAAAAAAAATGCCACCAACTTGCGTAGGCTTT-----G-AAAGGTGTCCTGG
1 TCTTTGAGGACT--AGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
* * *
649031 TTTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGG
649078 CATTCTGCTC
Statistics
Matches: 179, Mismatches: 32, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
54 3 0.02
55 43 0.24
57 42 0.23
60 1 0.01
61 90 0.50
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (61 bp):
TCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
Found at i:649015 original size:57 final size:56
Alignment explanation
Indices: 648845--649100 Score: 182
Period size: 55 Copynumber: 4.5 Consensus size: 56
648835 TCTAAAAGGA
* * *
648845 AAAGGCATCGTGCTCTTTGAGGACT--AGAAAATGCCACCAACTTGTATGGGCTTTAAAAGG
1 AAAGGCATC-TGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTT-----G
* * * ** * * *
648905 AAAAGGCGTCCTGCTTTTTGAGGACT--GGAAAGTGCCACCAACCTGTGTGGGCTTTA
1 -AAAGGCAT-CTGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTG
* *
648961 AAAGGCATCATGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGCGTAGGCTTTG
1 AAAGGCATC-TGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTG
** * * * * **
649018 AAAGGTGTCCTGGTTTTTGAGGACT--GAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCAT-CTGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTG
649073 AAAGGCATTCTGCTCTTTAAGGACTAAA
1 AAAGGCA-TCTGCTCTTTAAGGACTAAA
649101 GGGTGAAAGG
Statistics
Matches: 154, Mismatches: 33, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
54 1 0.01
55 63 0.41
56 1 0.01
57 41 0.27
58 1 0.01
61 46 0.30
62 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (56 bp):
AAAGGCATCTGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:649052 original size:112 final size:113
Alignment explanation
Indices: 648844--649100 Score: 326
Period size: 112 Copynumber: 2.2 Consensus size: 113
648834 CTCTAAAAGG
* * * *
648844 AAAAGGCATCGTGCTCTTTGAGGACT--AGAAAATGCCACCAACTTGTATGGGCTTTAAAAGGAA
1 AAAAGGCATC-TGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGCATAGGCTTT---A-GAA
648907 AAGGCGTCCTGCTTTTTGAGGACTGGAAAGTGCCACCAACCTGTGTGGGCTTT
61 AAGGCGTCCTGCTTTTTGAGGACTGGAAAGTGCCACCAACCTGTGTGGGCTTT
*
648960 AAAAGGCATCATGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGCGTAGGCTTT-G-AAAGG
1 AAAAGGCATC-TGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGCATAGGCTTTAGAAAAGG
* * *
649023 TGTCCTGGTTTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
65 CGTCCTGCTTTTTGAGGACTGGAAA-GTGCCACCAACCTGTGTGGGCTTT
*
649072 GAAAGGCATTCTGCTCTTTAAGGACTAAA
1 AAAAGGCA-TCTGCTCTTTAAGGACTAAA
649101 GGGTGAAAGG
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
111 4 0.03
112 71 0.56
113 3 0.02
116 24 0.19
118 25 0.20
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (113 bp):
AAAAGGCATCTGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGCATAGGCTTTAGAAAAGGC
GTCCTGCTTTTTGAGGACTGGAAAGTGCCACCAACCTGTGTGGGCTTT
Found at i:649098 original size:328 final size:325
Alignment explanation
Indices: 648459--649205 Score: 920
Period size: 328 Copynumber: 2.3 Consensus size: 325
648449 GCTTTAAAAG
* * * * *
648459 GCATCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGTTTTAAAAAGAAAAGGTG
1 GCATCCTACTCTTTAAGGACTAGG-AAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
648523 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGGTGTCCTGCTCT
65 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGACTTTAAAAGGCGTCCTGCTCT
* * * * * *
648588 TCAAGGACTGAAAAATGCCATCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTG
130 TCAAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCATCATGCTCTTTAAGGACTA
* * * *
648653 AAAAATGCCACCAACTTGTGTGGGCTTTTAAAAGAAAAATGCGTCCTACTATTTGAGGAGTAGAA
195 AAAAATGCCACCAACTTGCGTAGGCTTTT---AG-AAAAGGCGTCCTACTATTTGAGGACTAGAA
648718 AAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCATGCTCTTTAAGGACTAAAGGGCGAAAGG
256 AAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCATGCTCTTTAAGGACTAAAGGGCGAAAGG
648783 AGAGA
321 AGAGA
* * * * *
648788 GCGTCCTATTCTTTAAGGACTAGGAAATGCCACTAACTTGTGTGGGCTCTAAAAGGAAAAGGCAT
1 GCATCCTACTCTTTAAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
648853 CGTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCGTCCT
66 CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGACTTT------AAAAGGCGTCCT
* ** * *
648917 GCTTTTTGAGGACTGGAAAGTGCCACCAACCTGTGTGGGCTTTAAAAGGCATCATGCTCTTTAAG
125 GCTCTTCAAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCATCATGCTCTTTAAG
* ** *
648982 GACTAAAAAAAATGCCACCAACTTGCGTAGGC-TTT-G-AAAGGTGTCCTGGTTTTTGAGGACT-
190 GACT--AAAAAATGCCACCAACTTGCGTAGGCTTTTAGAAAAGGCGTCCTACTATTTGAGGACTA
** * *
649043 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAT-TC-TGCTCTTTAAGGACTAAAGGGTG
253 GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG--TGTCATGCTCTTTAAGGACTAAAGGGCG
649106 AAAGGAGAGA
316 AAAGGAGAGA
* *
649116 GCATCCTACTCTTTAAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
1 GCATCCTACTCTTTAAGGACTAGGAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
649180 TCCTGCTCTTTGAGGA-TTGAAAAGTG
65 TCCTGCTCTTTGAGGACTAGAAAAGTG
649206 AAAAGAGAAA
Statistics
Matches: 359, Mismatches: 46, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
327 9 0.03
328 155 0.43
329 95 0.26
330 3 0.01
331 1 0.00
334 70 0.19
335 3 0.01
336 23 0.06
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (325 bp):
GCATCCTACTCTTTAAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGACTTTAAAAGGCGTCCTGCTCTT
CAAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCATCATGCTCTTTAAGGACTAA
AAAATGCCACCAACTTGCGTAGGCTTTTAGAAAAGGCGTCCTACTATTTGAGGACTAGAAAAATG
CCACCAACTTGTGTGGGCTTTAAAAGGTGTCATGCTCTTTAAGGACTAAAGGGCGAAAGGAGAGA
Found at i:651676 original size:20 final size:19
Alignment explanation
Indices: 651651--651717 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
651641 GCCAAGGAAA
651651 TGTATCGATACATCGATCTT
1 TGTATCGATACATCGAT-TT
651671 TGTATCGAT--AT--A--T
1 TGTATCGATACATCGATTT
651684 TGTATCGATACATCGATATT
1 TGTATCGATACATCGAT-TT
651704 TGTATCGATACATC
1 TGTATCGATACATC
651718 TAAGAAGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.25
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 24 0.60
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATCGATTT
Found at i:651693 original size:33 final size:33
Alignment explanation
Indices: 651651--651713 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
651641 GCCAAGGAAA
*
651651 TGTATCGATACATCGATCTTTGTATCGATATAT
1 TGTATCGATACATCGATATTTGTATCGATATAT
651684 TGTATCGATACATCGATATTTGTATCGATA
1 TGTATCGATACATCGATATTTGTATCGATA
651714 CATCTAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATCGATATTTGTATCGATATAT
Found at i:654147 original size:51 final size:51
Alignment explanation
Indices: 654067--654234 Score: 182
Period size: 51 Copynumber: 3.3 Consensus size: 51
654057 TTTTTTCATC
* * * * *
654067 TCGAGGATACTCCAA-TCCCGGTCTCATTTCCAAAACATCAATTGTT-CTTAA
1 TCGAGGATACTCCAACT-CCGATTTTATTTCCAAAACACCAATT-TTCCATAA
* * * *
654118 TCGGGGATACTCCAACTTCGATTTTATTTCTAAAACACCCATTTTCCATAA
1 TCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAA
* *
654169 TCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACCGACTTTT-CACAA
1 TCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACC-AATTTTCCATAA
654220 TCG-GGATACTCCAAC
1 TCGAGGATACTCCAAC
654235 CCCGTTATTT
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
50 14 0.14
51 80 0.81
52 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (51 bp):
TCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAA
Found at i:654331 original size:79 final size:78
Alignment explanation
Indices: 654173--654443 Score: 308
Period size: 79 Copynumber: 3.4 Consensus size: 78
654163 CCATAATCGA
* * * * * * *
654173 GGATACTCCAACTCCGATTTTATTTCCAAAACACCGACTTTTCACAATCGGGATACTCCAACCCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCATATTGGGGATACTCCAACCCC
*
654238 GTTATTTCCGAGG
66 GTTATTTCCAAGG
** * *
654251 GGACCCTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTTATAGTTGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCATA-TTGGGGATACTCCAACCC
654316 CGTTATTTCCAAGG
65 CGTTATTTCCAAGG
* ** * * *
654330 GGATACTCCAACCCTGGCTTTATTTCTAAAATATTGATTTCTCATAATTGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCAT-ATTGGGGATACTCCAACCC
* * *
654395 CATTATTTTCACGG
65 CGTTATTTCCAAGG
* * *
654409 GGATACTCCAATCCCGATTTTATTTTTGAAACATC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACATC
654444 TGTTTTCTAT
Statistics
Matches: 158, Mismatches: 33, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
78 37 0.23
79 120 0.76
80 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCATATTGGGGATACTCCAACCCC
GTTATTTCCAAGG
Found at i:657976 original size:19 final size:19
Alignment explanation
Indices: 657952--658001 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
657942 AAATCGTAAC
657952 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
657971 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
*
657990 TGTATCAATACA
1 TGTATCGATACA
658002 ATGTATCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:670301 original size:1 final size:1
Alignment explanation
Indices: 670295--670338 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
670285 ACATTCTTTT
* * * *
670295 AAAAAAACAAAAAACAAAAAAAACAAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
670339 GAAGAGAATC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:670316 original size:16 final size:15
Alignment explanation
Indices: 670295--670338 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
670285 ACATTCTTTT
670295 AAAAAAACAAAAAACA
1 AAAAAAACAAAAAA-A
670311 AAAAAAACAAAAAAA
1 AAAAAAACAAAAAAA
670326 AAGAAAAA-AAAAA
1 AA-AAAAACAAAAA
670339 GAAGAGAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAA
Found at i:671471 original size:55 final size:56
Alignment explanation
Indices: 671406--671663 Score: 265
Period size: 61 Copynumber: 4.5 Consensus size: 56
671396 TCTCTCCTTT
* * *
671406 CACCCTTTAGTCCCCAAAGAGTAGGACGCCTTT-CAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCCAAAGCCCACACAAGTTGGTGG
* * * *
671461 CACCTTTTAGTCCTCAAAGAGCAGGACACCTTT-TAAAGCCCACATAAGCTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCCAAAGCCCACACAAGTTGGTGG
671516 CACC-TTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTT-TCC----AAAGCCCACACAAGTTGGTGG
* * * *
671576 CA-CTTTTCAGTCCTCGAAGAGCAGGATGCTTTCTTTTTGCAAAGCTCACACAAGTTGGTGG
1 CACCTTTT-AGTCCTCAAAGAGCAGGACGC---C--TTTCCAAAGCCCACACAAGTTGGTGG
*
671637 CA-CTTCCTAGTCCTCAAAGAGCAGGAC
1 CACCTT-TTAGTCCTCAAAGAGCAGGAC
671664 ACTATCTCCT
Statistics
Matches: 171, Mismatches: 18, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
54 26 0.15
55 53 0.31
59 1 0.01
60 24 0.14
61 61 0.36
62 1 0.01
64 1 0.01
65 2 0.01
66 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (56 bp):
CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCCAAAGCCCACACAAGTTGGTGG
Found at i:671620 original size:61 final size:57
Alignment explanation
Indices: 671434--671662 Score: 275
Period size: 61 Copynumber: 3.9 Consensus size: 57
671424 GAGTAGGACG
* *
671434 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA-C--A
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAGTCCTCAAAGAGCAGGAGCTTT
* * *
671489 CCTTTTAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGA-G-CTT-T
*
671549 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCGAAGAGCAGGATGCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-AGTCCTCAAAGAGCAGGA-GCTTT
* * *
671608 CTTTTTGCAAAGCTCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
1 CCTTTT--AAAGCCCACACAAGTTGGTGGCACTT-TTAGTCCTCAAAGAGCAGGA
671663 CACTATCTCC
Statistics
Matches: 150, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
54 22 0.15
55 26 0.17
57 1 0.01
59 6 0.04
60 34 0.23
61 60 0.40
62 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (57 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGAGCTTT
Found at i:671686 original size:13 final size:13
Alignment explanation
Indices: 671668--671701 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
671658 CAGGACACTA
671668 TCTCCTTTCACCT
1 TCTCCTTTCACCT
*
671681 TCTCCTTTCGCCT
1 TCTCCTTTCACCT
671694 TCTCCTTT
1 TCTCCTTT
671702 TAAAGCCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.03, C:0.44, G:0.03, T:0.50
Consensus pattern (13 bp):
TCTCCTTTCACCT
Found at i:671745 original size:209 final size:207
Alignment explanation
Indices: 671489--671874 Score: 539
Period size: 209 Copynumber: 1.9 Consensus size: 207
671479 GAGCAGGACA
*
671489 CCTTTTAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACG-CTT-TCCTTT
* * *
671554 T-AAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCGAAGAGCAGGATG-C-TTTCTTTTTG
64 TCAAAGCCCACACAAGTTAGTGGCATC-TTCCAGTCCTCAAAGAGCAGGATGCCTTTTC-TTTT-
*
671615 CAAAGCTCACACAAGTTGGTGGCACTTC-CTAGTCCTCAAAGAGCAGGACACTATCTCCTTTCAC
126 CAAAGCCCACACAAGTTGGTGGCACTTCTC-AGTCCTCAAAGAGCAGGACACTATCTCCTTTCAC
671679 CTTCTCCTTTCGCCTTCT
190 CTTCTCCTTTCGCCTTCT
* * * * *
671697 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGATGCTTTCTTTTT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCTTTCCTTTT
*
671762 GCAAAGCCCACACAAGTTAGTGGCATCTTCCAGTCCTCAAAGGGCAGGATGCCTTTTCTTTTCAA
65 -CAAAGCCCACACAAGTTAGTGGCATCTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAA
* * *
671827 AGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCGGGACAC
129 AGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGACAC
671875 ACTTCCTTCC
Statistics
Matches: 157, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
207 6 0.04
208 34 0.22
209 106 0.68
210 7 0.04
211 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (207 bp):
CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCTTTCCTTTTC
AAAGCCCACACAAGTTAGTGGCATCTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAG
CCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGACACTATCTCCTTTCACCTTCTC
CTTTCGCCTTCT
Found at i:671778 original size:61 final size:61
Alignment explanation
Indices: 671698--671867 Score: 240
Period size: 61 Copynumber: 2.8 Consensus size: 61
671688 TCGCCTTCTC
*
671698 CTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGATG-C-TTT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
671756 CTTTTTGCAAAGCCCACACAAGTTAGTGGCA-TCTTCCAGTCCTCAAAGGGCAGGATGCCTTTT
1 C-TTTT-CAAAGCCCACACAAGTTGGTGGCACT-TTTCAGTCCTCAAAGAGCAGGATGCCTTTT
*
671819 CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGC
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGC
671868 GGGACACACT
Statistics
Matches: 97, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
58 1 0.01
59 4 0.04
60 1 0.01
61 81 0.84
62 6 0.06
63 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (61 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:671799 original size:270 final size:268
Alignment explanation
Indices: 671306--671867 Score: 667
Period size: 270 Copynumber: 2.1 Consensus size: 268
671296 CTTCTCCTTC
*
671306 CACTTTTCAGTCCTCAAAAAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 CACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * *
671371 TTCTTATCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCCCAAAGAGTAGGACGCC
66 TTCCTATCCTCAAAGAGCAGGACACTATCTCCTTTCACCCTTTACTCCCCAAAGACT--GACGCC
671436 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCC
129 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCC
* * *
671501 CACATAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACA
194 CACACAAGCTAGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTCAAAGCCCACA
671565 CAAGTTGGTGG
258 CAAGTTGGTGG
* * *
671576 CACTTTTCAGTCCTCGAAGAGCAGGATG-C-TTTCTTTTTGCAAAGCTCACACAAGTTGGTGGCA
1 CACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT--AAAGCCCACACAAGTTGGTGGCA
**** * * *
671639 -CTTCCTAGTCCTCAAAGAGCAGGACACTATCTCCTTTCA-CC-TT-CT-CCTTTCGCCT-TCTC
64 CCTTCCTA-TCCTCAAAGAGCAGGACACTATCTCCTTTCACCCTTTACTCCCCAAAGACTGACGC
* * * *
671698 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTTAAAGAGCAGGATGCTTTCTTTTT
128 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGCAGGA--C--ACCTTTT
* * * * *
671762 GCAAAGCCCACACAAGTTAGTGGCATCTTCCAGTCCTCAAAGGGCAGGATGCCTTTTCTTTTCAA
188 --AAAGCCCACACAAGCTAGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAA
*
671827 AGCCCACACGAGTTGGTGG
250 AGCCCACACAAGTTGGTGG
671846 CACTTTTCAGTCCTCAAAGAGC
1 CACTTTTCAGTCCTCAAAGAGC
671868 GGGACACACT
Statistics
Matches: 250, Mismatches: 30, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
262 5 0.02
263 46 0.18
265 1 0.00
266 4 0.02
267 6 0.02
268 10 0.04
269 38 0.15
270 140 0.56
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (268 bp):
CACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
TTCCTATCCTCAAAGAGCAGGACACTATCTCCTTTCACCCTTTACTCCCCAAAGACTGACGCCTT
TCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCA
CACAAGCTAGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAAGCCCACACAA
GTTGGTGG
Found at i:671825 original size:148 final size:148
Alignment explanation
Indices: 671541--671810 Score: 479
Period size: 148 Copynumber: 1.8 Consensus size: 148
671531 AAGAGCAGGA
*
671541 CGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCGAAGAGCAGGATGCT
1 CGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCT
* *
671606 TTCTTTTTGCAAAGCTCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTATCT
66 TTCTTTTTGCAAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTATCT
671671 CCTTTCACCTTCTCCTTT
131 CCTTTCACCTTCTCCTTT
*
671689 CGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGATGCT
1 CGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCT
*
671754 TTCTTTTTGCAAAGCCCACACAAGTTAGTGGCATCTTCC-AGTCCTCAAAGGGCAGGA
66 TTCTTTTTGCAAAGCCCACACAAGTTAGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGA
671811 TGCCTTTTCT
Statistics
Matches: 116, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
148 111 0.96
149 5 0.04
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (148 bp):
CGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCT
TTCTTTTTGCAAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTATCT
CCTTTCACCTTCTCCTTT
Found at i:672861 original size:13 final size:13
Alignment explanation
Indices: 672843--672868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
672833 CATTATTCGA
672843 TGTATCGATACAT
1 TGTATCGATACAT
672856 TGTATCGATACAT
1 TGTATCGATACAT
672869 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:675314 original size:51 final size:50
Alignment explanation
Indices: 675238--675402 Score: 215
Period size: 51 Copynumber: 3.2 Consensus size: 50
675228 TTCATCTCGA
* * * * *
675238 GGATACTCCAA-TCCCGATCTCATTTCCAAAACATCAATTGTTCTTAATCGG
1 GGATACTCCAACT-CCGATTTTATTTCTAAAACACCAATT-TTCATAATCGG
* *
675289 GGATACTCCAACTTCGATTTTATTTCTAAAACACCCATTTTCCATAATCGG
1 GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTT-CATAATCGG
*
675340 GGATACTCCAACTCCGATTTTATTTCTAAAACACCGACTTTTCATAATCGG
1 GGATACTCCAACTCCGATTTTATTTCTAAAACACC-AATTTTCATAATCGG
675391 GGATACTCCAAC
1 GGATACTCCAAC
675403 CCCGTTATTT
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
50 2 0.02
51 94 0.93
52 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (50 bp):
GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCATAATCGG
Found at i:675474 original size:79 final size:79
Alignment explanation
Indices: 675338--675641 Score: 297
Period size: 79 Copynumber: 3.8 Consensus size: 79
675328 TTCCATAATC
* * * * * * *
675338 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCGACTTTTCATAATCGGGGATACTCCAAC
1 GGGGACACTCTAACCCCAATTTTATTTCTAAAACATCGATTTTTCATAATTGGGGATACTCCAAC
675403 CCCGTTATTTCTGA
66 CCCGTTATTTCTGA
* * * * *
675417 GGGGACCCTCTAACCCCAATTTTATTTCTAAAACATCAATTTTTTATAGTTAGGGATACTCCAAC
1 GGGGACACTCTAACCCCAATTTTATTTCTAAAACATCGATTTTTCATAATTGGGGATACTCCAAC
675482 CCCGTTATTTCTGA
66 CCCGTTATTTCTGA
* *** * * *
675496 GGGGATACTCTAACCCCGGCTTTATTTCTAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGACACTCTAACCCCAATTTTATTTCTAAAACATCGATTTTTCATAATTGGGGATACTCCAAC
* *
675561 CCCATTATTT-TCA
66 CCCGTTATTTCTGA
* * * * * * * * * *
675574 CGGGGATACTCCAATCCCGATTTTATTTTTGAAACATCTA-TTTTCTATAATCGGGGACACTTCA
1 -GGGGACACTCTAACCCCAATTTTATTTCTAAAACATCGATTTTTC-ATAATTGGGGATACTCCA
675638 ACCC
64 ACCC
675642 TTGCCTTATT
Statistics
Matches: 184, Mismatches: 39, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
78 6 0.03
79 178 0.97
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGACACTCTAACCCCAATTTTATTTCTAAAACATCGATTTTTCATAATTGGGGATACTCCAAC
CCCGTTATTTCTGA
Found at i:675640 original size:158 final size:158
Alignment explanation
Indices: 675338--675641 Score: 360
Period size: 158 Copynumber: 1.9 Consensus size: 158
675328 TTCCATAATC
* *
675338 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCGACTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAACACCGACTTTTCATAATCGGGGATACTCCAAC
* * * * * * *
675403 CCCGTTATTTCTGAGGGGACCCTCTAACCCCAATTTTATTTCTAAAACATCAATTTTTTATAGTT
66 CCCATTATTTCTCAGGGGACACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTCTATAATC
*
675468 AGGGATACTCCAACCCCGTTATTTCTGA
131 AGGGACACTCCAACCCCGTTATTTCTGA
* * * ** *
675496 GGGGATACTCTAACCCCGGCTTTATTTCTAAAATATTGA-TTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAACACCGACTTT-TCATAATCGGGGATACTCCAA
* * * * * *
675560 CCCCATTATTT-TCACGGGGATACTCCAATCCCGATTTTATTTTTGAAACATCTATTTTCTATAA
65 CCCCATTATTTCTCA-GGGGACACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTCTATAA
* *
675624 TCGGGGACACTTCAACCC
129 TCAGGGACACTCCAACCC
675642 TTGCCTTATT
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
157 5 0.04
158 115 0.96
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGACTTTATTTCTAAAACACCGACTTTTCATAATCGGGGATACTCCAAC
CCCATTATTTCTCAGGGGACACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTCTATAATC
AGGGACACTCCAACCCCGTTATTTCTGA
Found at i:685728 original size:4 final size:4
Alignment explanation
Indices: 685721--685747 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
685711 CAAAACAAAC
685721 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
685748 CACCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:687731 original size:51 final size:51
Alignment explanation
Indices: 687664--687783 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
687654 TCAAAAATAA
** *
687664 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAGGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAACCAATATTTTAGAAATAAAGC
* * *
687715 CGGGGTTGAAGTATCCCCGATTGTGTAAAACCAATATTTTGGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAACCAATATTTTAGAAATAAAGC
*
687766 CGAGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
687784 TCGAAAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAACCAATATTTTAGAAATAAAGC
Found at i:687800 original size:28 final size:29
Alignment explanation
Indices: 687766--687839 Score: 109
Period size: 28 Copynumber: 2.6 Consensus size: 29
687756 GAAATAAAGC
687766 CGAGGTTGGAGTATCCCCTCGA-AAATAA
1 CGAGGTTGGAGTATCCCCTCGAGAAATAA
687794 CGAGGTTGGAGTAT--CCTCGATGAAATAA
1 CGAGGTTGGAGTATCCCCTCGA-GAAATAA
*
687822 CGGGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
687840 GATTGTGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
26 6 0.15
28 33 0.80
30 2 0.05
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (29 bp):
CGAGGTTGGAGTATCCCCTCGAGAAATAA
Found at i:687921 original size:51 final size:51
Alignment explanation
Indices: 687826--688097 Score: 218
Period size: 51 Copynumber: 5.3 Consensus size: 51
687816 AAATAACGGG
*
687826 GTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
* *
687876 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
* ** * ** * *
687927 GTTGGAGTATCCCC---T-CGGAAATAACGGGGTTAAAGTATCCCCGATGAAATAACAGG-
1 GTTGGAGTATCCCCGATTGTGGAAA-ATTGGTGTTTTAG-A-----AAT-AAA-ATC-GGA
* * *
687983 GTTGGAATATCTCTGATTGT-GAAAATTGGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAG-AAATAAAATCGGA
* * * *
688033 GTTGGAGTATCCTCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
*
688084 GTTAGAGTATCCCC
1 GTTGGAGTATCCCC
688098 TCGTAAATAA
Statistics
Matches: 171, Mismatches: 33, Indels: 35
0.72 0.14 0.15
Matches are distributed among these distances:
47 4 0.02
48 9 0.05
49 3 0.02
50 38 0.22
51 81 0.47
52 3 0.02
54 2 0.01
55 3 0.02
56 13 0.08
57 4 0.02
58 6 0.04
59 5 0.03
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
Found at i:687935 original size:157 final size:156
Alignment explanation
Indices: 687658--688128 Score: 618
Period size: 157 Copynumber: 3.0 Consensus size: 156
687648 ATCCCCTCAA
** * * *** *
687658 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAGGCCGGGGTTG
1 AAATAACGGGGTTGGAGTATCCCCGATTGTG-AAAATTGGTGTTTTGGAAATAAAATCGGAGTTG
* * * **** * * * *
687723 AAGTATCCCCGATTGTGTAAAACCAATATTTTGGAAATAAAGCCGAGGTTGGAGTATCCCCTCGA
65 GAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA
*
687788 AAATAACGAGGTTGGAGTATCCTCGATG
130 AAATAACG-GGTTGGAGTATCCCCGATG
687816 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGG
1 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGG
* *
687881 AGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGA
66 AGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAA
**
687946 AATAACGGGGTTAAAGTATCCCCGATG
131 AATAAC-GGGTTGGAGTATCCCCGATG
* * * * *
687973 AAATAACAGGGTTGGAATATCTCTGATTGTGAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGG
1 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGG
* * *
688038 AGTATCCTCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCGTA
66 AGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAA
688103 AATAACGGGATTGGAGTATCCCCGAT
131 AATAACGGG-TTGGAGTATCCCCGAT
688129 TATGAAAAAT
Statistics
Matches: 276, Mismatches: 35, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
156 3 0.01
157 241 0.87
158 32 0.12
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (156 bp):
AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGG
AGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAA
AATAACGGGTTGGAGTATCCCCGATG
Found at i:687957 original size:28 final size:28
Alignment explanation
Indices: 687923--687993 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
687913 GAAATAAAAT
**
687923 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
** *
687951 CGGGGTTAAAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* *
687979 CAGGGTTGGAATATC
1 CGGGGTTGGAGTATC
687994 TCTGATTGTG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:690494 original size:20 final size:19
Alignment explanation
Indices: 690469--690538 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 19
690459 AAAATGCATG
*
690469 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
690489 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
690509 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
690529 AATGTATCGA
1 AATGTATCGA
690539 ACATCTGGGT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:694433 original size:13 final size:13
Alignment explanation
Indices: 694415--694439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
694405 CATAAAATGT
694415 TGTATCGATACAA
1 TGTATCGATACAA
694428 TGTATCGATACA
1 TGTATCGATACA
694440 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:694437 original size:33 final size:33
Alignment explanation
Indices: 694395--694464 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
694385 TTCAACGATT
694395 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
694428 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
694461 TGTA
1 TGTA
694465 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:694522 original size:13 final size:13
Alignment explanation
Indices: 694504--694528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
694494 ATTACTCACA
694504 TGTATCGATACAT
1 TGTATCGATACAT
694517 TGTATCGATACA
1 TGTATCGATACA
694529 CTGAATTGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:702888 original size:30 final size:31
Alignment explanation
Indices: 702851--702935 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 31
702841 CAAATACCTT
702851 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
*
702882 -TCAAAGTCCACGACTCAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* * * *
702912 TTTAAAGCCCACAACTCTGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
702936 CACTTTTTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 29 0.60
31 19 0.40
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATTTTGTC
Found at i:702944 original size:33 final size:34
Alignment explanation
Indices: 702912--703064 Score: 157
Period size: 33 Copynumber: 4.4 Consensus size: 34
702902 GCATTTTTTC
*
702912 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCT
*
702947 TCT-AAGCCCACAACTCCGTGGCACTCTTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTTTT-CCT
*
702983 TTTAAAGCCCACAACTCCGTGGCACCTTGTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* * * * **
703016 TTTTAAGTCCACAACTTCGTGGCATCTTTCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTT-TTCCT
703051 TTCTAAAGCCCACA
1 TT-TAAAGCCCACA
703065 CAAGTCGGTG
Statistics
Matches: 98, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
33 26 0.27
34 21 0.21
35 15 0.15
36 15 0.15
37 21 0.21
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
Found at i:702954 original size:34 final size:33
Alignment explanation
Indices: 702889--703044 Score: 154
Period size: 34 Copynumber: 4.6 Consensus size: 33
702879 GTCTCAAAGT
* * * *
702889 CCACGACTCAGTGGCA--TTTTTTCTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGC
* *
702920 CCACAACTCTGTGGCACACTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTTAAGC
702954 CCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGC
1 CCACAACTCCGTGGCAC-C-TTTTT-CCTTTT-AAGC
* * *
702991 CCACAACTCCGTGGCACCTTGTTCTTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGC
* *
703024 CCACAACTTCGTGGCATCTTT
1 CCACAACTCCGTGGCACCTTT
703045 CACCCTTTCT
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
31 14 0.13
33 21 0.20
34 34 0.32
35 9 0.09
36 6 0.06
37 21 0.20
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (33 bp):
CCACAACTCCGTGGCACCTTTTTCCTTTTAAGC
Found at i:703077 original size:71 final size:71
Alignment explanation
Indices: 702912--703064 Score: 204
Period size: 70 Copynumber: 2.2 Consensus size: 71
702902 GCATTTTTTC
* *
702912 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACACTTGTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTT
**
702977 TTCCCT
66 CACCCT
* * * *
702983 TTTAAAGCCCACAACTCCGTGGCAC-CTTGTTCTTTTTAAGTCCACAACTTCGTGGCA-TC-TTT
1 TTTAAAGCCCACAACTCCGTGGCACACTTGTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTT
703045 CACCCT
66 CACCCT
703051 TTCTAAAGCCCACA
1 TT-TAAAGCCCACA
703065 CAAGTCGGTG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
68 9 0.12
69 13 0.18
70 27 0.37
71 24 0.33
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.33
Consensus pattern (71 bp):
TTTAAAGCCCACAACTCCGTGGCACACTTGTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTT
CACCCT
Found at i:703197 original size:49 final size:49
Alignment explanation
Indices: 703085--703715 Score: 774
Period size: 49 Copynumber: 12.7 Consensus size: 49
703075 GCAACCCTTC
*
703085 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACA-T--TGGCACC--TT-CATCTT
* * * *
703140 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
703189 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
703238 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
703286 TAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* * * *
703338 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
703387 TAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
703436 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
703485 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* **
703533 TAAGCCCAACGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
703576 TAAGTCCAATATAGCTGGCCTTGAAGCAACATATTGGCACCTTTTCCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
703628 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
703680 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
703716 ACATCCTTTT
Statistics
Matches: 508, Mismatches: 55, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
43 36 0.07
45 1 0.00
48 87 0.17
49 214 0.42
50 5 0.01
51 1 0.00
52 133 0.26
54 1 0.00
55 30 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:703437 original size:198 final size:198
Alignment explanation
Indices: 703080--703744 Score: 900
Period size: 198 Copynumber: 3.3 Consensus size: 198
703070 CGGTGGCAAC
* *
703080 CCTTCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGTGGCACCTTTTCCATCTTTAAGT
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACA-T--TGGCA-CTTTTCCATCTTTAAGC
703145 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCT
61 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCT
* *
703210 TGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
126 TGAATCAACATATTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
703275 CACC-TCA
191 CACCTTCA
* * *
703282 CCTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC-TTTTCCATCTTTAAGCCCAA
*
703347 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGTTGGCCTTGAA
65 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAA
* * *
703412 TCAACATATTGGCACCTTTATCTTTAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC
130 TCAACATATTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
703477 TTCA
195 TTCA
* * * * *
703481 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC--CT-CACCTTTAAGCCCAAC
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTTTCCATCTTTAAGCCCAAT
* *
703543 GTAGCTGGCCTTGAATCAGCACATTGGCACC-T-----TTAAGTCCAATATAGCTGGCCTTGAAG
66 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAAT
* *
703602 CAACATATTGGCACCTTTTCCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
131 CAACATATTGGCACC-TTT--ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
703667 CCTTTTCCA
193 CC--TT-CA
* * * *
703676 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCC
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA--C-TTTTC-CATCTTTAAGCC
703741 CAAT
62 CAAT
703745 AGCGTTGGCC
Statistics
Matches: 420, Mismatches: 28, Indels: 30
0.88 0.06 0.06
Matches are distributed among these distances:
189 40 0.10
190 3 0.01
192 41 0.10
194 3 0.01
195 86 0.20
196 1 0.00
197 2 0.00
198 149 0.35
199 43 0.10
200 2 0.00
201 32 0.08
202 18 0.04
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (198 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTTTCCATCTTTAAGCCCAAT
GTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAAT
CAACATATTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
TCA
Found at i:703760 original size:107 final size:104
Alignment explanation
Indices: 703573--703778 Score: 259
Period size: 107 Copynumber: 2.0 Consensus size: 104
703563 ACATTGGCAC
* * *
703573 CTTTAAGTCCAATATAGCTGGCCTTGAAGCAACATATTGGCACCTTTTCCACCTTTAAGTCCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAAGCAACACATTGACACCTTTTCCACCTTTAAGCCCAAT
* * *
703638 ATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
66 AGAGCTGGCCGTGAATCAACATATTGGCACCTTTTCCAT
* * * * *
703677 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCC
1 CTTTAAGTCCAATATAGCTGGCCTTGAAGCAACACATTGACA-CC-TTTTC-CACCTTTAAGCCC
* * *
703742 AATAGCGTTGGCCGTGAATCAACATATTGGCATCTTT
63 AATAGAGCTGGCCGTGAATCAACATATTGGCACCTTT
703779 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
104 36 0.42
105 2 0.02
106 5 0.06
107 42 0.49
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (104 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAAGCAACACATTGACACCTTTTCCACCTTTAAGCCCAAT
AGAGCTGGCCGTGAATCAACATATTGGCACCTTTTCCAT
Found at i:703836 original size:67 final size:68
Alignment explanation
Indices: 703728--703854 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 68
703718 ATCCTTTTTC
* * * *
703728 TCATCTTTAAGCCCAATAGCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATAGCGCTGGCCGTGAATCAACATATTAGCACCTTCATCATCTTTTCTCA
703792 TCT
66 TCT
* ** * *
703795 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTAGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATAGCGCTGGCCGTGAATCAACATATTAGCACCTTCATCATCTTT
703855 AAAACCCAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
67 46 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATAGCGCTGGCCGTGAATCAACATATTAGCACCTTCATCATCTTTTCTCA
TCT
Found at i:704683 original size:13 final size:13
Alignment explanation
Indices: 704665--704689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
704655 CATAAAATGT
704665 TGTATCGATACAA
1 TGTATCGATACAA
704678 TGTATCGATACA
1 TGTATCGATACA
704690 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:704687 original size:33 final size:33
Alignment explanation
Indices: 704645--704714 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
704635 TTCAACGATT
704645 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
704678 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
704711 TGTA
1 TGTA
704715 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:704772 original size:13 final size:13
Alignment explanation
Indices: 704754--704779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
704744 ATTACTCACA
704754 TGTATCGATACAT
1 TGTATCGATACAT
704767 TGTATCGATACAT
1 TGTATCGATACAT
704780 GCAGGCAAAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:704845 original size:52 final size:52
Alignment explanation
Indices: 704767--704891 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
704757 ATCGATACAT
*
704767 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
704819 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
704871 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
704892 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:708899 original size:17 final size:17
Alignment explanation
Indices: 708877--708910 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
708867 CCGTTGGGAC
708877 CTTGTATCGATACATTT
1 CTTGTATCGATACATTT
708894 CTTGTATCGATACATTT
1 CTTGTATCGATACATTT
708911 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
CTTGTATCGATACATTT
Found at i:710020 original size:13 final size:13
Alignment explanation
Indices: 709999--710028 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
709989 ATACATTGTT
*
709999 CATTGTATCGATA
1 CATTATATCGATA
710012 CATTATATCGATA
1 CATTATATCGATA
710025 CATT
1 CATT
710029 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTATATCGATA
Found at i:710073 original size:20 final size:20
Alignment explanation
Indices: 710044--710150 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
710034 TTTACCCAAA
*
710044 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
*
710064 TGTATTGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
710084 TGTATCGAT--A-----CAT
1 TGTATCGATACATTGCTCAT
710097 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
* * *
710117 TGTATCGATAGATT-TTACAA
1 TGTATCGATACATTGCT-CAT
710137 TGTATCGATACATT
1 TGTATCGATACATT
710151 CAGGCATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
13 12 0.17
15 1 0.01
18 1 0.01
19 1 0.01
20 55 0.77
21 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:710097 original size:13 final size:13
Alignment explanation
Indices: 710081--710111 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
710071 ATACATTGCT
710081 CATTGTATCGATA
1 CATTGTATCGATA
710094 CATTGTATCGATA
1 CATTGTATCGATA
710107 CATTG
1 CATTG
710112 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:710104 original size:53 final size:53
Alignment explanation
Indices: 710044--710150 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
710034 TTTACCCAAA
* * *
710044 TGTATCGATACATT-TTGCATTGTATTGATACATTGCT-CATTGTATCGATACAT
1 TGTATCGATACATTGCT-CATTGTATCGATACATT-CTACAATGTATCGATACAT
* *
710097 TGTATCGATACATTGCTCATTGTATCGATAGATTTTACAATGTATCGATACAT
1 TGTATCGATACATTGCTCATTGTATCGATACATTCTACAATGTATCGATACAT
710150 T
1 T
710151 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (53 bp):
TGTATCGATACATTGCTCATTGTATCGATACATTCTACAATGTATCGATACAT
Found at i:710107 original size:33 final size:33
Alignment explanation
Indices: 710061--710126 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
710051 ATACATTTTG
*
710061 CATTGTATTGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
710094 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
710127 GATTTTACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:712533 original size:51 final size:51
Alignment explanation
Indices: 712451--712616 Score: 149
Period size: 51 Copynumber: 3.3 Consensus size: 51
712441 TTTCATCTCA
* ** **
712451 GGGATACTCCAA-TCCCGGTTCCATTTCTAAAACATCAAATTTT-CTTAACCG
1 GGGATACTCCAACT-CCGATTTTATTTCTAAAACA-CAAATTTTCCACAACCG
* ** *
712502 GGGATACTCCAACTCCGATTTTATTTTTAAAACACCCATTTTCCACAATCG
1 GGGATACTCCAACTCCGATTTTATTTCTAAAACACAAATTTTCCACAACCG
* * * * * *
712553 GGGATACTCTAACTCCAATTTTATTTCCAAAACACTGACTTTT-CACAATCG
1 GGGATACTCCAACTCCGATTTTATTTCTAAAACAC-AAATTTTCCACAACCG
712604 GGGATACTCCAAC
1 GGGATACTCCAAC
712617 CCTGTTATTT
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 6 0.06
51 84 0.88
52 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.31
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCTAAAACACAAATTTTCCACAACCG
Found at i:712708 original size:76 final size:77
Alignment explanation
Indices: 712571--712849 Score: 303
Period size: 79 Copynumber: 3.6 Consensus size: 77
712561 CTAACTCCAA
* * * * *
712571 TTTTATTTCCAAAACACTGACTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACA-TCAATTTT-ATAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
*
712636 CACTCCAACCCCGA
64 CACTCCAACCCCGG
* * *
712650 TTTTATTTCTAAAACATCAATTTT-TCATCGAGGATACTCCAACCCCGTTATTTTTGAGGGGATA
1 TTTTATTTCTAAAACATCAATTTTATAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGACA
712714 CTCCAA-CCCGG
66 CTCCAACCCCGG
* * ** *
712725 TTTTATTTTTAAAACATCAATTTTTTATAATCGGGGATACTCCAACCCCATTATTTCCGAGAGGA
1 TTTTATTTCTAAAACATCAA--TTTTATAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
**
712790 TC-CTCCAACCTTGG
64 -CACTCCAACCCCGG
* * *
712804 TTTTATTTCTAAAACACCAATTCTCCATAATCGGGGATATTCCAAC
1 TTTTATTTCTAAAACATCAATT-T-TATAATCGGGGATACTCCAAC
712850 TCCGATTTTA
Statistics
Matches: 170, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
75 23 0.14
76 41 0.24
77 6 0.04
78 45 0.26
79 55 0.32
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (77 bp):
TTTTATTTCTAAAACATCAATTTTATAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGACA
CTCCAACCCCGG
Found at i:712869 original size:51 final size:50
Alignment explanation
Indices: 712804--712899 Score: 147
Period size: 51 Copynumber: 1.9 Consensus size: 50
712794 CCAACCTTGG
*
712804 TTTTATTTCTAAAACACCAATTCTCCATAATCGGGGATATTCCAACTCCGA
1 TTTTATTTCCAAAACACCAATTCTCCATAATCGGGGATA-TCCAACTCCGA
* * *
712855 TTTTATTTCCAAAACACTAATTTTTCATAATCGGGGATATCCAAC
1 TTTTATTTCCAAAACACCAATTCTCCATAATCGGGGATATCCAAC
712900 CCTATTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 6 0.15
51 35 0.85
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.35
Consensus pattern (50 bp):
TTTTATTTCCAAAACACCAATTCTCCATAATCGGGGATATCCAACTCCGA
Found at i:713007 original size:51 final size:51
Alignment explanation
Indices: 712945--713060 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
712935 TTTTCGAGGA
* * * * *
712945 GATACTCCAACCCCGGATTTGTTTCAAAAATATTGATTTTTCACAATCAAG
1 GATACTTCAACCCCGGACTTATTTCAAAAATATTGATATCTCACAATCAAG
* * * ***
712996 GATACTTCAACCCCGGCCTTATTTCTAAAATATTGATATCTCATAATTGGG
1 GATACTTCAACCCCGGACTTATTTCAAAAATATTGATATCTCACAATCAAG
713047 GATACTTCAACCCC
1 GATACTTCAACCCC
713061 ATTATTTTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
GATACTTCAACCCCGGACTTATTTCAAAAATATTGATATCTCACAATCAAG
Found at i:723485 original size:51 final size:51
Alignment explanation
Indices: 723389--723567 Score: 193
Period size: 51 Copynumber: 3.5 Consensus size: 51
723379 AAATTTCTAG
* * * * *
723389 ATTTTTCAT-CTCGGGGATACTTCAA-TCTCGGTTTCATTT-TCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACTC-CGATTTTATTTCT-AAAACACCA
* * *
723439 ATTTTTCTTAACCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCA
* * * * *
723490 ATTTTCCATAATCAGGGATACTCTAACTCCGATTTTATTTCCAAAACACCG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCA
*
723541 ATTTTTCACAATCGGGGATACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
723568 CCCGTTATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
50 8 0.07
51 96 0.90
52 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCA
Found at i:723753 original size:79 final size:79
Alignment explanation
Indices: 723503--723801 Score: 428
Period size: 79 Copynumber: 3.8 Consensus size: 79
723493 TTCCATAATC
* * * * *
723503 AGGGATACTCTAACTCCGATTTTATTTCCAAAACACCGATTTTTCACAATCGGGGATACTCCAAC
1 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
723568 CCCGTTATTTCCG-
66 CCCGTTATTTCCGA
* *
723581 AGGGAACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCAA----GGATACTCCA
1 AGGG-ATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCA-CAATCGGGGATACTCCA
*
723642 ACCCCGTTATTTTCGA
64 ACCCCGTTATTTCCGA
* * * *
723658 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATAATCGGGGATACTCCAAC
1 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
723723 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
*
723737 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATATTCCAAC
1 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
723802 TCCGATTTTA
Statistics
Matches: 196, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
75 2 0.01
76 64 0.33
77 3 0.02
78 4 0.02
79 120 0.61
80 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (79 bp):
AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:723814 original size:51 final size:51
Alignment explanation
Indices: 723738--723856 Score: 186
Period size: 51 Copynumber: 2.3 Consensus size: 51
723728 TATTTCCGAA
*
723738 GGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACCAATTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTTCACAATCG
* * *
723789 GGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCG
723840 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
723857 TTATTTCATC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 57 0.93
52 4 0.07
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCG
Found at i:723872 original size:28 final size:28
Alignment explanation
Indices: 723836--723912 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
723826 ATTTTTCACA
*
723836 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
723864 ATCGAGGATACTCCAACCCCATTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
723892 -T-GAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
723913 ACTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 41 0.93
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:724001 original size:51 final size:50
Alignment explanation
Indices: 723894--724013 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 50
723884 ATTATTTCTG
* *
723894 AGGGGATACTCCAACCCCGACTTTATTTCAAAATATTGATTTCTCACAAT
1 AGGGGATACTCCAACCCCAACCTTATTTCAAAATATTGATTTCTCACAAT
* * *
723944 AAGGGATACTTCAACCCCAACCTTATTTCTAAAATATTGATTTCTCATAAT
1 AGGGGATACTCCAACCCCAACCTTATTTC-AAAATATTGATTTCTCACAAT
*
723995 TGGGGATACTCCAACCCCA
1 AGGGGATACTCCAACCCCA
724014 TTATTTTCAC
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
50 25 0.41
51 36 0.59
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.31
Consensus pattern (50 bp):
AGGGGATACTCCAACCCCAACCTTATTTCAAAATATTGATTTCTCACAAT
Found at i:724032 original size:157 final size:158
Alignment explanation
Indices: 723706--724036 Score: 391
Period size: 157 Copynumber: 2.1 Consensus size: 158
723696 ATTTTTTATA
* * **
723706 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGAGGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAAC
* ** * * ** *
723771 ACCAATTTTTCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCACA
66 ACCAATTTCTCACAATAAGGGATATTCCAACCCCAACCTTATTTTCAAAACACTAATTTCTCACA
*
723836 ATCGGGGATACTCCAACCCCGTTATTTC
131 ATCGGGGATACTCCAACCCCATTATTTC
* * *
723864 ATCGAGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTC-AAAAT
1 ATCGAGGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAAC
*** * * *
723928 ATTGATTTCTCACAATAAGGGATACTT-CAACCCCAACCTTA-TTTCTAAAATATTGATTTCTCA
66 ACCAATTTCTCACAATAAGGGATA-TTCCAACCCCAACCTTATTTTC-AAAACACTAATTTCTCA
* *
723991 TAATTGGGGATACTCCAACCCCATTATTTTC
129 CAATCGGGGATACTCCAACCCCATTA-TTTC
724022 A-CGAGGATACTCCAA
1 ATCGAGGATACTCCAA
724037 TCCCGATTTT
Statistics
Matches: 146, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
156 4 0.03
157 82 0.56
158 60 0.41
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (158 bp):
ATCGAGGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAAC
ACCAATTTCTCACAATAAGGGATATTCCAACCCCAACCTTATTTTCAAAACACTAATTTCTCACA
ATCGGGGATACTCCAACCCCATTATTTC
Found at i:724198 original size:130 final size:129
Alignment explanation
Indices: 723871--724198 Score: 358
Period size: 130 Copynumber: 2.5 Consensus size: 129
723861 TTCATCGAGG
* * *
723871 ATACTCCAACCCCATTA-TTTCTGAGGGGATACTCCAACCCCGACTTTATTTCAAAATATTGATT
1 ATACTCCAACCCCATTATTTTC-AAGGGGATACTCCAACCCCGATTTTATTTCAAAATATTAATT
* * * *
723935 TCTCACAATAAGGGATACTTCAACCCCAACCTTATTTCTAAAATATTGATTTCTCATAATTGGGG
65 TCTCACAATAAGGGATACTTCAACCCCAACCTTATTTCTAAAATATCGATTTCTCACAATCGGGA
* * * ** * *
724000 ATACTCCAACCCCATTATTTTCACGAGGATACTCCAATCCCGATTTTATTTTTGAAACATCTATT
1 ATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCGATTTTA-TTTCAAAATAT-TAAT
* ** *** *
724065 TTCT-ATAATCGGGGATACTTCAACCCTTGCCTTATTTCT-AAATCATCGATTTTTCACAATCGG
64 TTCTCACAATAAGGGATACTTCAACCCCAACCTTATTTCTAAAAT-ATCGATTTCTCACAATCGG
724128 GA
128 GA
* *
724130 ATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCG-TTATTATCTCCAAAATATTAAA
1 ATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCGATT-TTAT-TTCAAAATATT-AA
724194 TTTCT
63 TTTCT
724199 TGTCGAGAGA
Statistics
Matches: 162, Mismatches: 30, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
129 46 0.28
130 110 0.68
131 6 0.04
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (129 bp):
ATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTCAAAATATTAATTT
CTCACAATAAGGGATACTTCAACCCCAACCTTATTTCTAAAATATCGATTTCTCACAATCGGGA
Found at i:733567 original size:9 final size:9
Alignment explanation
Indices: 733553--733606 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
733543 ATTATTTTAA
733553 ATTTAAATT
1 ATTTAAATT
733562 ATTTAAATTT
1 ATTTAAA-TT
*
733572 GATGATAAATT
1 -AT-TTAAATT
733583 ATTT-AA--
1 ATTTAAATT
733589 ATTTAAATT
1 ATTTAAATT
733598 ATTTAAATT
1 ATTTAAATT
733607 TGAGTCAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
6 4 0.11
7 2 0.05
8 2 0.05
9 17 0.46
10 4 0.11
11 4 0.11
12 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (9 bp):
ATTTAAATT
Found at i:733568 original size:15 final size:15
Alignment explanation
Indices: 733542--733607 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 15
733532 TTAATCTTTC
733542 AATTATTTTAAATTTA
1 AATTA-TTTAAATTTA
733558 AATTATTTAAATTTGATGATA
1 AATTATTTAAA--T--T--TA
733579 AATTATTTAAATTTA
1 AATTATTTAAATTTA
733594 AATTATTTAAATTT
1 AATTATTTAAATTT
733608 GAGTCAATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
15 22 0.50
16 5 0.11
17 2 0.05
19 2 0.05
21 13 0.30
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
AATTATTTAAATTTA
Found at i:733607 original size:21 final size:21
Alignment explanation
Indices: 733548--733597 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
733538 TTTCAATTAT
733548 TTTAAATTTAAATTATTTAAA
1 TTTAAATTTAAATTATTTAAA
* *
733569 TTT-GATGATAAATTATTTAAA
1 TTTAAAT-TTAAATTATTTAAA
733590 TTTAAATT
1 TTTAAATT
733598 ATTTAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.09
21 19 0.83
22 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
TTTAAATTTAAATTATTTAAA
Found at i:734186 original size:16 final size:16
Alignment explanation
Indices: 734124--734187 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
734114 CAAGTTAATT
* * *
734124 ATTTTAATTATTTTAG
1 ATTTAAATTAATTTAA
734140 ATTTAAA-TAATTTTAA
1 ATTTAAATTAA-TTTAA
* *
734156 ATTTATATCAATTTAA
1 ATTTAAATTAATTTAA
734172 ATTTAAATTAATTTAA
1 ATTTAAATTAATTTAA
734188 GTTTGAGTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 2 0.05
16 35 0.90
17 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTTAAATTAATTTAA
Found at i:735009 original size:19 final size:19
Alignment explanation
Indices: 734974--735011 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
734964 CCTTTTTCTT
*
734974 TTTTTTATGAATTATAAAA
1 TTTTTTATGAATAATAAAA
734993 TTTTTTAT-ATATAATAAAA
1 TTTTTTATGA-ATAATAAAA
735012 ATAAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTTATGAATAATAAAA
Found at i:735020 original size:20 final size:20
Alignment explanation
Indices: 734997--735036 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
734987 ATAAAATTTT
*
734997 TTATATATAATAAAAATAAA
1 TTATAAATAATAAAAATAAA
* *
735017 TTATAAATATTAAAATTAAA
1 TTATAAATAATAAAAATAAA
735037 ATTTTAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTATAAATAATAAAAATAAA
Found at i:739113 original size:20 final size:20
Alignment explanation
Indices: 739084--739122 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
739074 TTGTTAGAAG
*
739084 TTAAGTTATCAATACTTTAA
1 TTAAGGTATCAATACTTTAA
*
739104 TTAAGGTATCGATACTTTA
1 TTAAGGTATCAATACTTTA
739123 TAAAAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (20 bp):
TTAAGGTATCAATACTTTAA
Found at i:739236 original size:32 final size:32
Alignment explanation
Indices: 739190--739253 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
739180 TGCTAATATG
739190 ATACTTGCACTATAAGCCTTACAAAAAATGTT
1 ATACTTGCACTATAAGCCTTACAAAAAATGTT
*
739222 ATACTTGCATTATAAGCCTTACAAAAAATGTT
1 ATACTTGCACTATAAGCCTTACAAAAAATGTT
739254 TTCTTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (32 bp):
ATACTTGCACTATAAGCCTTACAAAAAATGTT
Found at i:740733 original size:17 final size:16
Alignment explanation
Indices: 740709--740749 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
740699 ATTAATTTTT
*
740709 AAAT-AAAAATTTTAAA
1 AAATAAAAAAATTT-AA
740725 AAATAAAAAAATTTAA
1 AAATAAAAAAATTTAA
740741 AAATAAAAA
1 AAATAAAAA
740750 TAAATATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAAAAAATTTAA
Found at i:740840 original size:9 final size:9
Alignment explanation
Indices: 740828--741226 Score: 109
Period size: 9 Copynumber: 43.6 Consensus size: 9
740818 ATAAAATTTC
740828 AAAAAATAT
1 AAAAAATAT
740837 AAAAAAT-T
1 AAAAAATAT
*
740845 AATAAAATTT
1 AA-AAAATAT
740855 AAAAAATTAT
1 AAAAAA-TAT
*
740865 AAAAAATCT
1 AAAAAATAT
*
740874 ATAAAAT-T
1 AAAAAATAT
740882 CAAAAAAATTAT
1 --AAAAAA-TAT
*
740894 AAACAAAATCT
1 -AA-AAAATAT
*
740905 ATAAAAT-T
1 AAAAAATAT
740913 CAAAAAATTAT
1 -AAAAAA-TAT
* *
740924 GAAAAA-CT
1 AAAAAATAT
*
740932 -AAAAATTT
1 AAAAAATAT
740940 CAAAAAAT-T
1 -AAAAAATAT
*
740949 ATAAAATAT
1 AAAAAATAT
* *
740958 ATAAAATTT
1 AAAAAATAT
740967 AAAAAATAT
1 AAAAAATAT
*
740976 -AAAAATTT
1 AAAAAATAT
740984 AAAATAA-A-
1 AAAA-AATAT
740992 AAAGAAAT-T
1 AAA-AAATAT
*
741001 CAGAAAATTAT
1 -A-AAAAATAT
741012 AAAAAATAAT
1 AAAAAAT-AT
* *
741022 GAAAAATCT
1 AAAAAATAT
*
741031 ATAAAATTAT
1 A-AAAAATAT
*
741041 AAAAATTAT
1 AAAAAATAT
741050 -AAAAATAT
1 AAAAAATAT
*
741058 --AAATTAT
1 AAAAAATAT
*
741065 -AAAATTAT
1 AAAAAATAT
*
741073 -AAAAATCT
1 AAAAAATAT
**
741081 ATAAATTTAT
1 A-AAAAATAT
*
741091 AAAAAATTT
1 AAAAAATAT
741100 AAAAAAT-T
1 AAAAAATAT
* *
741108 GAGAAAATTAG
1 -A-AAAAATAT
741119 AAAAAATGAT
1 AAAAAAT-AT
741129 AAAAAA-AT
1 AAAAAATAT
*
741137 CAATAAAATTT
1 -AA-AAAATAT
*
741148 AAAAAATTT
1 AAAAAATAT
* *
741157 AAAACATAA
1 AAAAAATAT
*
741166 AACCAAAATTTT
1 AA--AAAA-TAT
*
741178 AAAAATTAT
1 AAAAAATAT
741187 GAAAAAA-AT
1 -AAAAAATAT
*
741196 --AAAATAG
1 AAAAAATAT
*
741203 AAAAACTAT
1 AAAAAATAT
*
741212 AAATAAAGAT
1 AAA-AAATAT
741222 AAAAA
1 AAAAA
741227 TTAGATAAAA
Statistics
Matches: 295, Mismatches: 52, Indels: 86
0.68 0.12 0.20
Matches are distributed among these distances:
6 4 0.01
7 12 0.04
8 48 0.16
9 118 0.40
10 91 0.31
11 14 0.05
12 8 0.03
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAAAATAT
Found at i:741113 original size:107 final size:108
Alignment explanation
Indices: 740932--741160 Score: 258
Period size: 107 Copynumber: 2.1 Consensus size: 108
740922 ATGAAAAACT
740932 AAAAATTTCAAAAAATTATAAAATATATAAAATTTAAAAAATATAAAAATTTAAAATAAAAAAGA
1 AAAAATTT--AAAAATTATAAAATATATAAAATTTAAAAAATATAAAAATTTAAAATAAAAAAGA
* * *
740997 AATTCAGAAAATTATAAAAAATAAT-GAAAAATCTATAAAA-TTA
64 AATTCAGAAAATTAGAAAAAATAATAAAAAAATCAATAAAATTTA
* *
741040 TAAAAATTATAAAAA-TAT-AAAT-TATAAAA-TTATAAAAATCTATAAATTTATAAA-AAATTT
1 -AAAAATT-TAAAAATTATAAAATATATAAAATTTA-AAAAATATAAAAATTTA-AAATAAA---
* *
741100 AAA-AAATTGAGAAAATTAGAAAAAATGATAAAAAAATCAATAAAATTTA
59 AAAGAAATTCAGAAAATTAGAAAAAATAATAAAAAAATCAATAAAATTTA
741149 AAAAATTTAAAA
1 AAAAATTTAAAA
741161 CATAAAACCA
Statistics
Matches: 105, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
104 3 0.03
105 25 0.24
106 7 0.07
107 31 0.30
108 28 0.27
109 10 0.10
110 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (108 bp):
AAAAATTTAAAAATTATAAAATATATAAAATTTAAAAAATATAAAAATTTAAAATAAAAAAGAAA
TTCAGAAAATTAGAAAAAATAATAAAAAAATCAATAAAATTTA
Found at i:741160 original size:8 final size:9
Alignment explanation
Indices: 740820--741160 Score: 133
Period size: 9 Copynumber: 36.2 Consensus size: 9
740810 AAATAGAAAT
740820 AAAATTTCAA
1 AAAATTT-AA
*
740830 AAAATATAA
1 AAAATTTAA
740839 AAAA-TTAA
1 AAAATTTAA
740847 TAAAATTTAA
1 -AAAATTTAA
740857 AAAATTATAA
1 AAAATT-TAA
* *
740867 AAAATCTAT
1 AAAATTTAA
*
740876 AAAATTCAAA
1 AAAATT-TAA
740886 AAAATTATAAA
1 AAAATT-T-AA
* *
740897 CAAAATCTAT
1 -AAAATTTAA
*
740907 AAAATTCAA
1 AAAATTTAA
*
740916 AAAATTATGA
1 AAAATT-TAA
*
740926 AAAA-CT-A
1 AAAATTTAA
740933 AAAATTTCAA
1 AAAATTT-AA
*
740943 AAAA-TTAT
1 AAAATTTAA
* *
740951 AAAATATAT
1 AAAATTTAA
740960 AAAATTTAA
1 AAAATTTAA
*
740969 AAAATAT-A
1 AAAATTTAA
740977 AAAATTTAA
1 AAAATTTAA
*
740986 AATAA--AAA
1 AA-AATTTAA
* *
740994 AGAAATTCAG
1 A-AAATTTAA
741004 AAAATTATAA
1 AAAATT-TAA
* *
741014 AAAATAATGA
1 AAAAT-TTAA
* *
741024 AAAATCTAT
1 AAAATTTAA
741033 AAAA-TTATA
1 AAAATTTA-A
741042 AAAATTATAA
1 AAAATT-TAA
*
741052 AAATATAAATTAT
1 AAA-AT---TTAA
741065 AAAA-TTATA
1 AAAATTTA-A
* *
741074 AAAATCTAT
1 AAAATTTAA
*
741083 AAATTTATAA
1 AAAATT-TAA
741093 AAAATTTAA
1 AAAATTTAA
* *
741102 AAAATTGAG
1 AAAATTTAA
*
741111 AAAATTAGAA
1 AAAATT-TAA
*
741121 AAAATGATAA
1 AAAAT-TTAA
* *
741131 AAAAATCAA
1 AAAATTTAA
741140 TAAAATTTAA
1 -AAAATTTAA
741150 AAAATTTAA
1 AAAATTTAA
741159 AA
1 AA
741161 CATAAAACCA
Statistics
Matches: 246, Mismatches: 54, Indels: 63
0.68 0.15 0.17
Matches are distributed among these distances:
7 5 0.02
8 27 0.11
9 108 0.44
10 87 0.35
11 7 0.03
12 6 0.02
13 5 0.02
14 1 0.00
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (9 bp):
AAAATTTAA
Found at i:741285 original size:43 final size:44
Alignment explanation
Indices: 741238--741338 Score: 102
Period size: 43 Copynumber: 2.3 Consensus size: 44
741228 TAGATAAAAC
*
741238 TTTTTATATTTTTAAATTTTATACAGTTGTT-T-TAATTTTTT-AT
1 TTTTTATATTTTTAAATTTTATACA-TT-TTATGTAATTTTTTAAA
* * *
741281 TTTTTAAAATTGTT-AATTTTATAGATTTTATGTAATTTTTTAAA
1 TTTTT-ATATTTTTAAATTTTATACATTTTATGTAATTTTTTAAA
*
741325 TTTTTATTTTTTTA
1 TTTTTATATTTTTA
741339 TTTTGTTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
41 2 0.04
42 3 0.07
43 29 0.63
44 12 0.26
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (44 bp):
TTTTTATATTTTTAAATTTTATACATTTTATGTAATTTTTTAAA
Found at i:741415 original size:52 final size:53
Alignment explanation
Indices: 741339--741470 Score: 135
Period size: 52 Copynumber: 2.5 Consensus size: 53
741329 TATTTTTTTA
* * *
741339 TTTTGTTATTTTTGTTTTCGAATTTTATAGATTTGTT-ATAACTTTT-TATAAT
1 TTTTGTAATTTTTATTTTTGAATTTTATAGATTT-TTAATAACTTTTGTATAAT
* * * ** * *
741391 TTTT-TCCATTTTTATTTTTTAATTTCATCTATTTTTAATAATTTTTGTGTAAT
1 TTTTGT-AATTTTTATTTTTGAATTTTATAGATTTTTAATAACTTTTGTATAAT
741444 TTTTGTAATTTTTATTTTTGAATTTTA
1 TTTTGTAATTTTTATTTTTGAATTTTA
741471 ATAAAATTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
51 3 0.05
52 33 0.52
53 27 0.42
54 1 0.02
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (53 bp):
TTTTGTAATTTTTATTTTTGAATTTTATAGATTTTTAATAACTTTTGTATAAT
Found at i:741569 original size:61 final size:60
Alignment explanation
Indices: 741515--741633 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 60
741505 TTTTGTAAGT
*
741515 TTCTGAATTTTT-TTATT-TTCAAATTCTTTTATAATTTTATAAATTATTAATTTTTTAATG
1 TTCTAAATTTTTATTATTATTCAAATT-TTTTAT-ATTTTATAAATTATTAATTTTTTAATG
* * * *
741575 TTCTAAATTTTTATTTTTCATTTAAATTTTTTATATTTTTTAAATTTTTAATTTTTTAA
1 TTCTAAATTTTTATTATT-ATTCAAATTTTTTATATTTTATAAATTATTAATTTTTTAA
741634 CTCAAAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
60 11 0.22
61 27 0.53
62 6 0.12
63 7 0.14
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (60 bp):
TTCTAAATTTTTATTATTATTCAAATTTTTTATATTTTATAAATTATTAATTTTTTAATG
Found at i:741612 original size:9 final size:8
Alignment explanation
Indices: 741541--741633 Score: 60
Period size: 8 Copynumber: 11.0 Consensus size: 8
741531 TTTCAAATTC
*
741541 TTTTATAA
1 TTTTTTAA
*
741549 TTTTATAA
1 TTTTTTAA
* *
741557 ATTATTAA
1 TTTTTTAA
741565 TTTTTTAA
1 TTTTTTAA
* *
741573 TGTTCTAA
1 TTTTTTAA
* *
741581 ATTTTTATT
1 TTTTTTA-A
741590 TTTCATTTAAA
1 TTT--TTT-AA
741601 TTTTTTATA
1 TTTTTTA-A
741610 TTTTTTAA
1 TTTTTTAA
*
741618 ATTTTTAA
1 TTTTTTAA
741626 TTTTTTAA
1 TTTTTTAA
741634 CTCAAAAAAT
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
8 45 0.69
9 13 0.20
11 6 0.09
12 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (8 bp):
TTTTTTAA
Found at i:741628 original size:16 final size:16
Alignment explanation
Indices: 741536--741633 Score: 70
Period size: 16 Copynumber: 5.6 Consensus size: 16
741526 TTTATTTTCA
741536 AATTCTTTTATAATTTTAT
1 AATT-TTTTA-AATTTT-T
* * *
741555 AAATTATTAATTTTTT
1 AATTTTTTAAATTTTT
* *
741571 AATGTTCTAAATTTTT
1 AATTTTTTAAATTTTT
*
741587 ATTTTTCATTTAAATTTTTT
1 A-ATTT--TTTAAA-TTTTT
741607 ATATTTTTTAAATTTTT
1 A-ATTTTTTAAATTTTT
741624 AATTTTTTAA
1 AATTTTTTAA
741634 CTCAAAAAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
16 22 0.35
17 13 0.21
18 10 0.16
19 8 0.13
20 10 0.16
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (16 bp):
AATTTTTTAAATTTTT
Found at i:742389 original size:20 final size:20
Alignment explanation
Indices: 742364--742402 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
742354 TTACCACTGT
742364 TTGTATCGATACATGGCATA
1 TTGTATCGATACATGGCATA
*
742384 TTGTATCGATACATTGCAT
1 TTGTATCGATACATGGCAT
742403 TGATACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACATGGCATA
Found at i:749114 original size:20 final size:20
Alignment explanation
Indices: 749089--749130 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
749079 TCACCTCCAA
749089 GTCACGATCGGCACTCCCAG
1 GTCACGATCGGCACTCCCAG
*
749109 GTCACGATCGGCACTCCTAG
1 GTCACGATCGGCACTCCCAG
749129 GT
1 GT
749131 TGCAACCGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.36, G:0.26, T:0.19
Consensus pattern (20 bp):
GTCACGATCGGCACTCCCAG
Found at i:751127 original size:13 final size:13
Alignment explanation
Indices: 751106--751137 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
751096 TCGATACATT
*
751106 ATACTTTGTATCG
1 ATACATTGTATCG
751119 ATACATTGTATCG
1 ATACATTGTATCG
751132 ATACAT
1 ATACAT
751138 GTTCATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:751146 original size:19 final size:20
Alignment explanation
Indices: 751122--751177 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
751112 TGTATCGATA
751122 CATTGTATCGATACATGT-T
1 CATTGTATCGATACATGTAT
*
751141 CATTGTATCGATTCATGTAT
1 CATTGTATCGATACATGTAT
*
751161 AATTGTATCGATACATG
1 CATTGTATCGATACATG
751178 AAACTGACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (20 bp):
CATTGTATCGATACATGTAT
Found at i:751241 original size:13 final size:13
Alignment explanation
Indices: 751223--751249 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
751213 GATACATAAC
751223 ATATTGTATTGAT
1 ATATTGTATTGAT
751236 ATATTGTATTGAT
1 ATATTGTATTGAT
751249 A
1 A
751250 CATGAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
ATATTGTATTGAT
Found at i:751250 original size:33 final size:33
Alignment explanation
Indices: 751206--751269 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
751196 CCACCACTGT
*
751206 TTGTATCGATACAT-AACATATTGTATTGATATA
1 TTGTATCGATACATGAACA-ATTGTATCGATATA
* *
751239 TTGTATTGATACATGAAGAATTGTATCGATA
1 TTGTATCGATACATGAACAATTGTATCGATA
751270 CATTATTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.41
Consensus pattern (33 bp):
TTGTATCGATACATGAACAATTGTATCGATATA
Found at i:757424 original size:34 final size:35
Alignment explanation
Indices: 757381--757446 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
757371 TACTCGAGAT
* * *
757381 AAATGTGA-TTGGATTGTAACAGTGGTTCAATGAA
1 AAATGTGATTTGGATTATAACAATGGCTCAATGAA
757415 AAATGTGATTTGGATTATAACAATGGCTCAAT
1 AAATGTGATTTGGATTATAACAATGGCTCAAT
757447 CATTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 8 0.29
35 20 0.71
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (35 bp):
AAATGTGATTTGGATTATAACAATGGCTCAATGAA
Found at i:759749 original size:2 final size:2
Alignment explanation
Indices: 759731--759767 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
759721 ATAAATCCGA
*
759731 AT AT CAT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
759768 GTAACACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:759948 original size:74 final size:74
Alignment explanation
Indices: 759856--760010 Score: 184
Period size: 74 Copynumber: 2.1 Consensus size: 74
759846 ATTTTAGTTA
* * * * * * **
759856 TTAATAATAAGATTTATTACATTTCTAAATAACAATTTTAATTTTATTGAAATTCTTTAGTTAAA
1 TTAATAATAAGATCTATTACATGTATAAATAACAATTCTAATTCTATAGAAAGACTTTAGTTAAA
*
759921 TGATTTTAT
66 TGAATTTAT
* ** * *
759930 TTGATAATAAGATCTATTACATGTATTGATAATAATTCTAATTCTATAGAAAGACTTTGGTTAAA
1 TTAATAATAAGATCTATTACATGTATAAATAACAATTCTAATTCTATAGAAAGACTTTAGTTAAA
759995 TGAATTTAT
66 TGAATTTAT
760004 TTAATAA
1 TTAATAA
760011 CTTATAATTA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (74 bp):
TTAATAATAAGATCTATTACATGTATAAATAACAATTCTAATTCTATAGAAAGACTTTAGTTAAA
TGAATTTAT
Found at i:763966 original size:18 final size:19
Alignment explanation
Indices: 763933--763968 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
763923 ATTTTCATGG
763933 TATTATATTATTAAATATT
1 TATTATATTATTAAATATT
*
763952 TATTAT-TTTTTAAATAT
1 TATTATATTATTAAATAT
763969 AATTTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTATATTATTAAATATT
Found at i:769909 original size:2 final size:2
Alignment explanation
Indices: 769902--769945 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
769892 ACCTACATGC
769902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
769944 AT
1 AT
769946 TAGTTTCTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:770152 original size:16 final size:16
Alignment explanation
Indices: 770122--770151 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
770112 TTTACTACAT
770122 TTCTTGTCTTTTTTTC
1 TTCTTGTCTTTTTTTC
770138 TTCTTGT-TTTTTTT
1 TTCTTGTCTTTTTTT
770152 TGGGGAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (16 bp):
TTCTTGTCTTTTTTTC
Found at i:770604 original size:21 final size:22
Alignment explanation
Indices: 770578--770623 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
770568 AGCAATATGC
* *
770578 ATTTTGAA-ATTTAAAAAATTA
1 ATTTTGAATATTAAAAAAATAA
770599 ATTTTGAATATTAAAAAAATAA
1 ATTTTGAATATTAAAAAAATAA
770621 ATT
1 ATT
770624 GTACTTTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
ATTTTGAATATTAAAAAAATAA
Found at i:771892 original size:24 final size:24
Alignment explanation
Indices: 771858--771917 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
771848 TAAATATGAT
771858 ATAAATATATTAAAAAATATATAAA
1 ATAAATATATTAAAAAATATAT-AA
**
771883 ATAAAT-TATTAAAATTTATATAA
1 ATAAATATATTAAAAAATATATAA
771906 ATAAATAATATT
1 ATAAAT-ATATT
771918 TTAAATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 8 0.26
24 13 0.42
25 10 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAAATATATTAAAAAATATATAA
Found at i:773085 original size:29 final size:29
Alignment explanation
Indices: 773053--773109 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
773043 TTATAATCGT
*
773053 ATTTAAGATTTTA-ATATATTTATATAATA
1 ATTTAAG-TTGTATATATATTTATATAATA
* *
773082 ATTTATGTTGTATTTATATTTATATAAT
1 ATTTAAGTTGTATATATATTTATATAAT
773110 TGATAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (29 bp):
ATTTAAGTTGTATATATATTTATATAATA
Found at i:780372 original size:20 final size:20
Alignment explanation
Indices: 780347--780400 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
780337 GTTTGGGACA
780347 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATGTGC--C
*
780367 ATGTATCAATACAATGTGCC
1 ATGTATCGATACAATGTGCC
780387 ATGTATCGATACAA
1 ATGTATCGATACAA
780401 ACAATGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:780454 original size:20 final size:20
Alignment explanation
Indices: 780429--780486 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 20
780419 CTGCCAGTTT
780429 CATGTATCGATACAATTGTA
1 CATGTATCGATACAATTGTA
**
780449 CATGTATCGATACAA-TAAA
1 CATGTATCGATACAATTGTA
780468 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
780487 TCGATACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 15 0.45
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:780488 original size:13 final size:13
Alignment explanation
Indices: 780470--780494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
780460 ACAATAAACA
780470 TGTATCGATACAT
1 TGTATCGATACAT
780483 TGTATCGATACA
1 TGTATCGATACA
780495 AAGCATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:783612 original size:17 final size:17
Alignment explanation
Indices: 783591--783635 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
783581 GAAATAAAGT
* *
783591 AAGCATAATAATAACAA
1 AAGCATAAAAAAAACAA
*
783608 GAGCATAAAAAAAACAA
1 AAGCATAAAAAAAACAA
783625 AAGCATAAAAA
1 AAGCATAAAAA
783636 TGAAATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.69, C:0.11, G:0.09, T:0.11
Consensus pattern (17 bp):
AAGCATAAAAAAAACAA
Found at i:783773 original size:6 final size:6
Alignment explanation
Indices: 783762--783801 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
783752 AATTAACTAT
783762 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATA
783802 TAATTTAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:784071 original size:2 final size:2
Alignment explanation
Indices: 784064--784090 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
784054 AGAAAAACTT
784064 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
784091 TTCTTCTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:786173 original size:40 final size:40
Alignment explanation
Indices: 786100--786347 Score: 132
Period size: 40 Copynumber: 6.0 Consensus size: 40
786090 TAAATATAAA
* * * *
786100 TTTAAGTGAAAATTTGA-ATGCGAAGGTTTAATTAAAAAG
1 TTTAATTGAAAATTTTATATGTGAAAGTTTAATTAAAAAG
* *
786139 TCTAATTGAAAATTTTATATGTGAAAGTTTAATTAAAAATATAAAATA
1 TTTAATTGAAAATTTTATATGTGAAAGTTTAA-T-----TA-AAAA-G
* *
786187 TTTAATTGAAAATTCTATATGTAAAAGTTT--TTAAAAA-
1 TTTAATTGAAAATTTTATATGTGAAAGTTTAATTAAAAAG
* * * * *
786224 TTCTAATTGTAAATTTTATGTATGAAAATTTAATTAAAAAT
1 TT-TAATTGAAAATTTTATATGTGAAAGTTTAATTAAAAAG
* * * *
786265 TTTATATGTAAAAAATTTA-AT-TGAAGAATCTATATGTAAAAAG
1 TTTA-AT-TGAAAATTTTATATGTGAA-AGTTTA-AT-TAAAAAG
* *
786308 TTTAGTTGAAAATTCTATATGT-AAAGGTTTTAATTAAAAA
1 TTTAATTGAAAATTTTATATGTGAAA-G-TTTAATTAAAAA
786348 TTCACTAGGA
Statistics
Matches: 160, Mismatches: 27, Indels: 42
0.70 0.12 0.18
Matches are distributed among these distances:
37 2 0.01
38 22 0.14
39 18 0.11
40 27 0.17
41 26 0.16
42 17 0.11
43 14 0.09
45 1 0.01
46 2 0.01
47 4 0.03
48 27 0.17
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.40
Consensus pattern (40 bp):
TTTAATTGAAAATTTTATATGTGAAAGTTTAATTAAAAAG
Done.