Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 336 of 425
Found at i:104304021 original size:20 final size:19
Alignment explanation
Indices: 104303987--104304025 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
104303977 ATGACATACA
*
104303987 CATCTTGTTAACTTAATCAT
1 CATCTTGATAACTT-ATCAT
*
104304007 CATCTTGATATCTTATCAT
1 CATCTTGATAACTTATCAT
104304026 AAATTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (19 bp):
CATCTTGATAACTTATCAT
Found at i:104311408 original size:28 final size:28
Alignment explanation
Indices: 104311365--104311549 Score: 226
Period size: 28 Copynumber: 6.6 Consensus size: 28
104311355 TTTCAATGTC
* * * *
104311365 TCGCACACTAAATGCCGTACTCGATACC
1 TCGCACACTAAGTGCCATCCTCGATACT
* * **
104311393 TCGCACACTAAGTGCCATTCTGGATGTT
1 TCGCACACTAAGTGCCATCCTCGATACT
* *
104311421 TTGCACACTAAGTTCCATCCTCGATACT
1 TCGCACACTAAGTGCCATCCTCGATACT
* * * **
104311449 TAGCACACTAAGTGCCATTCTGGATGTT
1 TCGCACACTAAGTGCCATCCTCGATACT
104311477 TCGCACACTAAGTGCCATCCTCGATACT
1 TCGCACACTAAGTGCCATCCTCGATACT
*
104311505 TCACACACTAAGTGCCATCCTCGATACT
1 TCGCACACTAAGTGCCATCCTCGATACT
104311533 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
104311550 CATTTAGCCG
Statistics
Matches: 131, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 131 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCCTCGATACT
Found at i:104311444 original size:56 final size:56
Alignment explanation
Indices: 104311360--104311549 Score: 263
Period size: 56 Copynumber: 3.4 Consensus size: 56
104311350 TGCATTTTCA
* * * * *
104311360 ATGTCTCGCACACTAAATGCCGTACTCGATACCTCGCACACTAAGTGCCATTCTGG
1 ATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGCCATTCTGG
* * *
104311416 ATGTTTTGCACACTAAGTTCCATCCTCGATACTTAGCACACTAAGTGCCATTCTGG
1 ATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGCCATTCTGG
* * *
104311472 ATGTTTCGCACACTAAGTGCCATCCTCGATACTTCACACACTAAGTGCCATCCTCG
1 ATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGCCATTCTGG
**
104311528 ATACTTCGCACACTAAGTGCCA
1 ATGTTTCGCACACTAAGTGCCA
104311550 CATTTAGCCG
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (56 bp):
ATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGCCATTCTGG
Found at i:104315721 original size:26 final size:26
Alignment explanation
Indices: 104315690--104315883 Score: 163
Period size: 26 Copynumber: 7.5 Consensus size: 26
104315680 GTATATAGTA
**
104315690 CCTGCTAAATAGCCACCGGCTCAAAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* ** * *
104315716 CCTGCTAAATAAACACTAGCTAAAAA
1 CCTGCTAAATAATCACCGGCTCAAAG
* * *
104315742 CCTACTAAATAAACATCGGCTCAAAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* * *
104315768 CCTGCGAAATAATCATCGGCTCATAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* * * *
104315794 CTTGCTTAGTAATCACCTGCTCAAAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* *** * *
104315820 CTTGCTAAATAATTGTCGGCTTAAAA
1 CCTGCTAAATAATCACCGGCTCAAAG
* *
104315846 CCTGCTAAACAATCACTGGCTCAAAG
1 CCTGCTAAATAATCACCGGCTCAAAG
104315872 CCTGCTAAATAA
1 CCTGCTAAATAA
104315884 ATATCGGCTT
Statistics
Matches: 128, Mismatches: 40, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 128 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.23
Consensus pattern (26 bp):
CCTGCTAAATAATCACCGGCTCAAAG
Found at i:104315860 original size:52 final size:52
Alignment explanation
Indices: 104315689--104315904 Score: 161
Period size: 52 Copynumber: 4.2 Consensus size: 52
104315679 GGTATATAGT
* ** * * * *
104315689 ACCTGCTAAATAGCCACCGGCTCAAAGCCTGCTAAATAAACA-CTAGCTAAAA
1 ACCTGCTAAACAATCACTGGCTCAAAGCCTGCTAAATAAATATC-GGCTTAAA
* * * * * *
104315741 ACCTACTAAATAAACA-TCGGCTCAAAGCCTGCGAAAT-AATCATCGGCTCATA
1 ACCTGCTAAACAATCACT-GGCTCAAAGCCTGCTAAATAAAT-ATCGGCTTAAA
* * * ** * * *
104315793 GCTTGCTTAGTAATCACCT-GCTCAAAGCTTGCTAAATAATTGTCGGCTTAAA
1 ACCTGCTAAACAATCA-CTGGCTCAAAGCCTGCTAAATAAATATCGGCTTAAA
*
104315845 ACCTGCTAAACAATCACTGGCTCAAAGCCTGCTAAATAAATATCGGCTTAAG
1 ACCTGCTAAACAATCACTGGCTCAAAGCCTGCTAAATAAATATCGGCTTAAA
*
104315897 GCCTGCTA
1 ACCTGCTA
104315905 TTCAGGTACA
Statistics
Matches: 126, Mismatches: 31, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
51 4 0.03
52 118 0.94
53 3 0.02
54 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (52 bp):
ACCTGCTAAACAATCACTGGCTCAAAGCCTGCTAAATAAATATCGGCTTAAA
Found at i:104315892 original size:26 final size:26
Alignment explanation
Indices: 104315706--104315904 Score: 129
Period size: 26 Copynumber: 7.7 Consensus size: 26
104315696 AAATAGCCAC
*
104315706 CGGCTCAAAGCCTGCTAAATAAACA-
1 CGGCTCAAAGCCTGCTAAATAAATAT
* * * * *
104315731 CTAGCTAAAAACCTACTAAATAAACAT
1 C-GGCTCAAAGCCTGCTAAATAAATAT
*
104315758 CGGCTCAAAGCCTGCGAAAT-AATCAT
1 CGGCTCAAAGCCTGCTAAATAAAT-AT
* * * * *
104315784 CGGCTCATAGCTTGCTTAGT-AATCAC
1 CGGCTCAAAGCCTGCTAAATAAAT-AT
* * * *
104315810 CTGCTCAAAGCTTGCTAAATAATTGT
1 CGGCTCAAAGCCTGCTAAATAAATAT
* * *
104315836 CGGCTTAAAACCTGCTAAA-CAATCA-
1 CGGCTCAAAGCCTGCTAAATAAAT-AT
104315861 CTGGCTCAAAGCCTGCTAAATAAATAT
1 C-GGCTCAAAGCCTGCTAAATAAATAT
* *
104315888 CGGCTTAAGGCCTGCTA
1 CGGCTCAAAGCCTGCTA
104315905 TTCAGGTACA
Statistics
Matches: 131, Mismatches: 35, Indels: 15
0.72 0.19 0.08
Matches are distributed among these distances:
25 6 0.05
26 118 0.90
27 7 0.05
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (26 bp):
CGGCTCAAAGCCTGCTAAATAAATAT
Found at i:104322074 original size:22 final size:21
Alignment explanation
Indices: 104322027--104322079 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
104322017 TGTTAGTTTC
*
104322027 TTAATGTTTTAACCTTTAATA
1 TTAATATTTTAACCTTTAATA
* * *
104322048 ATAATATTTTAACATTTTATTA
1 TTAATATTTTAAC-CTTTAATA
104322070 TTAATTATTT
1 TTAA-TATTT
104322080 AATTAAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 11 0.44
22 9 0.36
23 5 0.20
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAATATTTTAACCTTTAATA
Found at i:104326495 original size:32 final size:32
Alignment explanation
Indices: 104326480--104326670 Score: 260
Period size: 32 Copynumber: 6.0 Consensus size: 32
104326470 CTTTTTAATG
* *
104326480 GTACACATAAAGTGTACA-AGACCTTTTCAAGT
1 GTACACACAAAGTGTACATA-ACCTTTTCAAGA
*
104326512 GTACACACAAAGTGTACATAACCTTTTCAAGT
1 GTACACACAAAGTGTACATAACCTTTTCAAGA
* *
104326544 GTACACACAAAGTGTATATAACCTTTTCAATTA
1 GTACACACAAAGTGTACATAACCTTTTCAA-GA
* *
104326577 -TACACACAAAGTGTACATAGCCATTTCAAGA
1 GTACACACAAAGTGTACATAACCTTTTCAAGA
* *
104326608 GTACACACAAAGTGTACATAGCCATTTCAAGA
1 GTACACACAAAGTGTACATAACCTTTTCAAGA
*
104326640 GTACACACAAAGTGTACATAATCTTTTCAAG
1 GTACACACAAAGTGTACATAACCTTTTCAAG
104326671 TATCATCCTT
Statistics
Matches: 145, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
31 1 0.01
32 143 0.99
33 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.27
Consensus pattern (32 bp):
GTACACACAAAGTGTACATAACCTTTTCAAGA
Found at i:104326527 original size:64 final size:65
Alignment explanation
Indices: 104326436--104326670 Score: 271
Period size: 64 Copynumber: 3.6 Consensus size: 65
104326426 ATGGACCTTT
* * * * ** * *
104326436 CCTTTTCTAGTTGTACACTCGAGGTGTACATTCCCTTTTTAATG-GTACACATAAAGTGTACA-A
1 CCTTTTCAAG-TGTACACACAAAGTGTACATAACCTTTTCAA-GAGTACACACAAAGTGTACATA
104326499 GA
64 GA
* *
104326501 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGTACACACAAAGTGTATATA-A
1 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGAGTACACACAAAGTGTACATAGA
* * * *
104326565 CCTTTTCAATTATACACACAAAGTGTACATAGCCATTTCAAGAGTACACACAAAGTGTACATAG-
1 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGAGTACACACAAAGTGTACATAGA
* * *
104326629 CCATTTCAAGAGTACACACAAAGTGTACATAATCTTTTCAAG
1 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAG
104326671 TATCATCCTT
Statistics
Matches: 145, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
63 1 0.01
64 134 0.92
65 10 0.07
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (65 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGAGTACACACAAAGTGTACATAGA
Found at i:104326569 original size:96 final size:96
Alignment explanation
Indices: 104326459--104326669 Score: 289
Period size: 96 Copynumber: 2.2 Consensus size: 96
104326449 TACACTCGAG
** * * * * *
104326459 GTGTACATTCCCTTTTTAATGGTACACATAAAGTGTACA-AGACCTTTTCAAGTGTACACACAAA
1 GTGTACATAACCTTTTCAATGATACACACAAAGTGTACATAG-CCATTTCAAGAGTACACACAAA
* *
104326523 GTGTACATAACCTTTTCAAGTGTACACACAAA
65 GTGTACATAACCATTTCAAGAGTACACACAAA
* *
104326555 GTGTATATAACCTTTTCAATTATACACACAAAGTGTACATAGCCATTTCAAGAGTACACACAAAG
1 GTGTACATAACCTTTTCAATGATACACACAAAGTGTACATAGCCATTTCAAGAGTACACACAAAG
*
104326620 TGTACATAGCCATTTCAAGAGTACACACAAA
66 TGTACATAACCATTTCAAGAGTACACACAAA
*
104326651 GTGTACATAATCTTTTCAA
1 GTGTACATAACCTTTTCAA
104326670 GTATCATCCT
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 98 0.98
97 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.29
Consensus pattern (96 bp):
GTGTACATAACCTTTTCAATGATACACACAAAGTGTACATAGCCATTTCAAGAGTACACACAAAG
TGTACATAACCATTTCAAGAGTACACACAAA
Found at i:104334239 original size:32 final size:32
Alignment explanation
Indices: 104334101--104334240 Score: 192
Period size: 32 Copynumber: 4.3 Consensus size: 32
104334091 GTGGACCTTT
* * * * **
104334101 CCTTTTCCAGTTGTACACCCGAGGTGTACATTC
1 CCTTTTCAAG-TGTACACACAAAGTGTACATAA
104334134 CCTTTTCAA-TGGTACACACAAAGTGTACATAA
1 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
*
104334166 CCTTTTCAATTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
104334198 CCTTTTCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
104334230 CCTTTTCAAGT
1 CCTTTTCAAGT
104334241 ACCACCCTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
31 1 0.01
32 88 0.90
33 9 0.09
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAA
Found at i:104336350 original size:23 final size:21
Alignment explanation
Indices: 104336304--104336360 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
104336294 GGCAAATTGT
* *
104336304 ACACACCGGTGTGGAAATCTC
1 ACACACCTGTATGGAAATCTC
104336325 ACACACCTGTATGGAAATCTC
1 ACACACCTGTATGGAAATCTC
104336346 ACACACTCCTGTATG
1 ACACA--CCTGTATG
104336361 ATAACTCCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 24 0.75
23 8 0.25
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (21 bp):
ACACACCTGTATGGAAATCTC
Found at i:104353749 original size:2 final size:2
Alignment explanation
Indices: 104353742--104353785 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
104353732 TCTCCTTAAA
104353742 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
104353784 TC
1 TC
104353786 CTCCATTATA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:104354621 original size:28 final size:28
Alignment explanation
Indices: 104354567--104354633 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
104354557 ATTTTCATTC
*
104354567 TAATTTTTAATAAAATTAAAATATTTTA
1 TAATTTTTATTAAAATTAAAATATTTTA
104354595 T-ATTTTTATTAAAATTTAATAAT-TTTTA
1 TAATTTTTATTAAAA-TTAA-AATATTTTA
*
104354623 TAACTTTTATT
1 TAATTTTTATT
104354634 GATTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 12 0.35
28 11 0.32
29 11 0.32
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATTTTTATTAAAATTAAAATATTTTA
Found at i:104354655 original size:9 final size:9
Alignment explanation
Indices: 104354590--104354656 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
104354580 AATTAAAATA
104354590 TTTTAT-AT
1 TTTTATAAT
*
104354598 TTTTATTAAAA
1 TTTTA-T-AAT
*
104354609 TTTAATAAT
1 TTTTATAAT
*
104354618 TTTTATAAC
1 TTTTATAAT
*
104354627 TTTTATTGAT
1 TTTTA-TAAT
104354637 TTTTAT--T
1 TTTTATAAT
104354644 TTTTATAAT
1 TTTTATAAT
104354653 TTTT
1 TTTT
104354657 TGCCACATGT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
7 7 0.15
8 5 0.11
9 21 0.46
10 8 0.17
11 5 0.11
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:104354999 original size:12 final size:12
Alignment explanation
Indices: 104354984--104355009 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
104354974 AAAAAAAAAA
104354984 AAAAAGAAGAAG
1 AAAAAGAAGAAG
104354996 AAAAAGAAGAAG
1 AAAAAGAAGAAG
104355008 AA
1 AA
104355010 GCAAGGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAAGAAGAAG
Found at i:104355005 original size:15 final size:15
Alignment explanation
Indices: 104354981--104355010 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
104354971 GCAAAAAAAA
104354981 AAAAAAAAGAAGAAG
1 AAAAAAAAGAAGAAG
*
104354996 AAAAAGAAGAAGAAG
1 AAAAAAAAGAAGAAG
104355011 CAAGGGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAGAAG
Found at i:104355713 original size:40 final size:40
Alignment explanation
Indices: 104355658--104355738 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
104355648 TATCAAATAA
104355658 AAGAGTTTGTGAGCTGCCTGTGGTGCTTGCATCTAGCATC
1 AAGAGTTTGTGAGCTGCCTGTGGTGCTTGCATCTAGCATC
*
104355698 AAGAGTTTGTGAGCTGCCTGTGGTGCTTGTATCTAGCATC
1 AAGAGTTTGTGAGCTGCCTGTGGTGCTTGCATCTAGCATC
104355738 A
1 A
104355739 TTCTCTCAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (40 bp):
AAGAGTTTGTGAGCTGCCTGTGGTGCTTGCATCTAGCATC
Found at i:104356462 original size:178 final size:175
Alignment explanation
Indices: 104356138--104356492 Score: 620
Period size: 178 Copynumber: 2.0 Consensus size: 175
104356128 CGGTTACCTG
104356138 TCCCAATAGCTACCCCACCCAATGGTTATTTAAATAGCCATTGAAACCCCCACTAATAGCTCTTT
1 TCCCAATAGCTACCCCACCCAATGGTTATTTAAATAGCCATTGAAACCCCCACTAATAGCTCTTT
*
104356203 TTATATATATAAAAACCCCTAATTCTTTTCTTTTTTTTCGATTCAATCTCAACTATCTATGTCTC
66 TTATATATATAAAAACCCCTAATTCTTTTCTTTTTTTTCAATTCAATCTCAACTATCTATGTCTC
* *
104356268 ATATTCACATATCTCTCTCAAATTTCTCTCAATTCCTTCTTAATT
131 AGATTCACAAATCTCTCTCAAATTTCTCTCAATTCCTTCTTAATT
104356313 TCCCAATAGCTACCCCACCCAATGGTTATTTAAATAGCCATTGAAACCTCCCACTAATAGCTCTT
1 TCCCAATAGCTACCCCACCCAATGGTTATTTAAATAGCCATTGAAACC-CCCACTAATAGCTC-T
* * * *
104356378 TTTTTTTTCTATATAAACCCCTAATTCTTTTCTTTTTTTTTCAATTCAATCTCAACTATCTATGT
64 TTTTATATATATAAAAACCCCTAATTCTTTTC-TTTTTTTTCAATTCAATCTCAACTATCTATGT
104356443 CTCAGATTCACAAATCTCTCTCAAATTTCTCTCAATTCCTTCTTAATT
128 CTCAGATTCACAAATCTCTCTCAAATTTCTCTCAATTCCTTCTTAATT
104356491 TC
1 TC
104356493 TCACTCAATT
Statistics
Matches: 170, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
175 48 0.28
176 14 0.08
177 29 0.17
178 79 0.46
ACGTcount: A:0.28, C:0.27, G:0.05, T:0.41
Consensus pattern (175 bp):
TCCCAATAGCTACCCCACCCAATGGTTATTTAAATAGCCATTGAAACCCCCACTAATAGCTCTTT
TTATATATATAAAAACCCCTAATTCTTTTCTTTTTTTTCAATTCAATCTCAACTATCTATGTCTC
AGATTCACAAATCTCTCTCAAATTTCTCTCAATTCCTTCTTAATT
Found at i:104356524 original size:20 final size:20
Alignment explanation
Indices: 104356469--104356525 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
104356459 TCTCTCAAAT
* * * *
104356469 TTCTCTCAATTCCTTCTTAA
1 TTCTCTCAACTCATTTTTTA
*
104356489 TT-TCTC-ACTCAATTTTTA
1 TTCTCTCAACTCATTTTTTA
104356507 TTCTCTCAACTCATTTTTT
1 TTCTCTCAACTCATTTTTT
104356526 TAATTAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 9 0.31
19 8 0.28
20 12 0.41
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.54
Consensus pattern (20 bp):
TTCTCTCAACTCATTTTTTA
Found at i:104358135 original size:26 final size:23
Alignment explanation
Indices: 104358093--104358152 Score: 59
Period size: 26 Copynumber: 2.5 Consensus size: 23
104358083 TTTGGTTCTC
*
104358093 GATTTTTATATTGATTTTGGAATAT
1 GATTTTTAGATTGATTTT--AATAT
104358118 AGATTTTTAGACTT-ATTTTAATAT
1 -GATTTTTAGA-TTGATTTTAATAT
*
104358142 GACTTTTAGAT
1 GATTTTTAGAT
104358153 ATTATTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 1 0.03
23 9 0.29
24 5 0.16
26 14 0.45
27 2 0.06
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.53
Consensus pattern (23 bp):
GATTTTTAGATTGATTTTAATAT
Found at i:104358157 original size:24 final size:24
Alignment explanation
Indices: 104358113--104358159 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
104358103 TTGATTTTGG
* *
104358113 AATATAGATTTTTAGACTTATTTT
1 AATATAGACTTTTAGAATTATTTT
104358137 AATAT-GACTTTTAGATATTATTT
1 AATATAGACTTTTAGA-ATTATTT
104358160 GGTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (24 bp):
AATATAGACTTTTAGAATTATTTT
Found at i:104359282 original size:41 final size:41
Alignment explanation
Indices: 104359237--104359354 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
104359227 TGAAAGATAA
104359237 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
104359278 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
104359308 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
104359349 ATGTAG
1 ATGTAG
104359355 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:104359293 original size:71 final size:71
Alignment explanation
Indices: 104359205--104359368 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
104359195 GAGATGTATC
104359205 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
104359270 AGGACA
66 AGGACA
104359276 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
104359341 AGGACA
66 AGGACA
104359347 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
104359369 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:104361229 original size:31 final size:33
Alignment explanation
Indices: 104361179--104361256 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
104361169 AACTCTATTT
104361179 TTATATAA-TTTT-TATA-TTT-TTTTAAAAAA
1 TTATATAATTTTTATATATTTTCTTTTAAAAAA
**
104361208 TTATATAATTTTTATATATTTTCTTTTAAAATT
1 TTATATAATTTTTATATATTTTCTTTTAAAAAA
* *
104361241 TTAAATATTTTTTATA
1 TTATATAATTTTTATA
104361257 AAAAATAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 8 0.20
30 4 0.10
31 4 0.10
32 3 0.07
33 22 0.54
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (33 bp):
TTATATAATTTTTATATATTTTCTTTTAAAAAA
Found at i:104361248 original size:22 final size:21
Alignment explanation
Indices: 104361208--104361259 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
104361198 TTTTAAAAAA
* *
104361208 TTATATAATTTTTATATATTTT
1 TTATA-AAATTTTAAATATTTT
*
104361230 CTTTTAAAATTTTAAATATTTT
1 -TTATAAAATTTTAAATATTTT
104361252 TTATAAAA
1 TTATAAAA
104361260 AATAGATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 7 0.28
22 14 0.56
23 4 0.16
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATAAAATTTTAAATATTTT
Found at i:104363914 original size:16 final size:16
Alignment explanation
Indices: 104363893--104363926 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
104363883 GGTTAGAGAT
104363893 CATTGGAGCATCATCA
1 CATTGGAGCATCATCA
104363909 CATTGGAGCATCATCA
1 CATTGGAGCATCATCA
104363925 CA
1 CA
104363927 CTATCCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (16 bp):
CATTGGAGCATCATCA
Found at i:104367038 original size:93 final size:93
Alignment explanation
Indices: 104366925--104367096 Score: 276
Period size: 93 Copynumber: 1.8 Consensus size: 93
104366915 GCCCATAAGT
* * *
104366925 GAACTTGGACTCAACTCAACGAGCTTAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTAGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCA
104366989 ACGA-TCTCGGATGCCTAGTTACATCTCTC
65 ACGAGT-TCGGATGCCTAGTTACATCTCTC
*
104367018 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTAGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
104367083 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
104367097 CAAACATCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 4 0.05
93 68 0.93
94 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTAGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:104367092 original size:46 final size:45
Alignment explanation
Indices: 104366917--104367091 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
104366907 TGTAACCCGC
* * * *
104366917 CCATAAGTGAACTTGGACTCAACTCAACGAGCTTAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGCATTCGAAT
* * *
104366963 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGCAT-TCGA-AT
* ***
104367009 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGAAT
104367056 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
104367092 ATGCCCAAAC
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
44 2 0.02
45 4 0.04
46 62 0.60
47 31 0.30
48 3 0.03
49 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGAAT
Found at i:104367111 original size:46 final size:46
Alignment explanation
Indices: 104366968--104367111 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 46
104366958 CGCATCCATA
* *
104366968 AGTGAACTCGGACTCAACTCAACGA-TCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGT-TCGGATGCCCA--AACATC-CT
* **** *
104367017 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GA-ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCC-T
104367060 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
104367107 AGTGA
1 AGTGA
104367112 CATGTCACTT
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 1 0.01
46 35 0.47
47 29 0.39
48 5 0.07
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
Found at i:104371060 original size:25 final size:25
Alignment explanation
Indices: 104371032--104371110 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
104371022 ACTCGGCCCT
104371032 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** *** *
104371057 ATCACAT-TGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
104371079 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
104371104 ATCACAT
1 ATCACAT
104371111 CAGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:104371158 original size:49 final size:49
Alignment explanation
Indices: 104370982--104371351 Score: 554
Period size: 49 Copynumber: 7.7 Consensus size: 49
104370972 TGCCCTTCGA
* * * * *
104370982 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
104371029 CCTATCACATA--TATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
104371076 CTTATCACATA--TATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
104371123 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
104371172 CTTATCACATATGTATACGCTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
104371221 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
104371270 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
104371319 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATATGTATACACTTTCACATTCATC
104371352 GCGTAGAATC
Statistics
Matches: 304, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 96 0.32
49 208 0.68
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:104374123 original size:30 final size:30
Alignment explanation
Indices: 104374079--104374167 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
104374069 CAAAGATAAC
104374079 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
104374108 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * *
104374138 AAGAGATCCAGGATAAAGAAA-CCTAAGATA
1 AAGAAAACCAGAATAAAGAAATCC-AAGATA
104374168 TGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 11 0.22
30 37 0.74
31 2 0.04
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:104374127 original size:15 final size:15
Alignment explanation
Indices: 104374079--104374158 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
104374069 CAAAGATAAC
*
104374079 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
104374093 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
104374108 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
104374123 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
104374138 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
104374153 AAGAAA
1 AAGAAA
104374159 CCTAAGATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:104374167 original size:15 final size:14
Alignment explanation
Indices: 104374090--104374167 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 14
104374080 AGAAAACCGA
104374090 ATAAAGAAATCCAAG
1 ATAAAGAAA-CCAAG
* *
104374105 ATAGAGAAACCCAG
1 ATAAAGAAACCAAG
104374119 AATAAAGAAATCC-AG
1 -ATAAAGAAA-CCAAG
* *
104374134 AATAAAGAGATCCAGG
1 -ATAAAGA-AACCAAG
104374150 ATAAAGAAACCTAAG
1 ATAAAGAAACC-AAG
104374165 ATA
1 ATA
104374168 TGATACTATG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
14 7 0.14
15 40 0.78
16 4 0.08
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (14 bp):
ATAAAGAAACCAAG
Found at i:104376536 original size:18 final size:18
Alignment explanation
Indices: 104376513--104376551 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
104376503 ATTTAGCATA
104376513 CATAACACCAAATATGAT
1 CATAACACCAAATATGAT
104376531 CATAACACCAAATATGAT
1 CATAACACCAAATATGAT
104376549 CAT
1 CAT
104376552 GATTAGCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (18 bp):
CATAACACCAAATATGAT
Found at i:104377239 original size:93 final size:92
Alignment explanation
Indices: 104377127--104377387 Score: 432
Period size: 93 Copynumber: 2.8 Consensus size: 92
104377117 CATAAGTGAG
* * *
104377127 CTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
1 CTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
*
104377192 GCTCAGATGCCTAGTTACATCTCTCGAA
66 GCTCGGATGCCTAGTTACATCTCT-GAA
*
104377220 CTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAATGA
1 CTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
*
104377285 TCTCGGATGCCTAGTTACATCTCTGAA
66 GCTCGGATGCCTAGTTACATCTCTGAA
* *
104377312 CTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACGA
1 CTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
*
104377377 GTTCGGATGCC
66 GCTCGGATGCC
104377388 CAAACATCCT
Statistics
Matches: 157, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
92 74 0.47
93 83 0.53
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (92 bp):
CTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
GCTCGGATGCCTAGTTACATCTCTGAA
Found at i:104377383 original size:46 final size:46
Alignment explanation
Indices: 104377116--104377383 Score: 244
Period size: 46 Copynumber: 5.8 Consensus size: 46
104377106 TGTAACAAGC
* * * *
104377116 CCATAAGTGAGCTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
104377162 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
104377208 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
104377255 CCATAAGTGAACTCGGACTCAACTCAATGA-TCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGC-A--T
* *** *
104377301 ACATCTCTGAACTCGGACTTAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
104377347 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
104377384 TGCCCAAACA
Statistics
Matches: 176, Mismatches: 31, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 7 0.04
45 1 0.01
46 124 0.70
47 31 0.18
48 4 0.02
49 6 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:104380429 original size:29 final size:29
Alignment explanation
Indices: 104380401--104380503 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
104380391 CCTCCGAGCT
** * * *
104380401 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
104380430 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
104380459 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
104380488 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
104380504 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:104395883 original size:47 final size:47
Alignment explanation
Indices: 104395829--104396069 Score: 365
Period size: 47 Copynumber: 5.1 Consensus size: 47
104395819 TTAGGATTTT
** * *
104395829 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
104395876 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
104395923 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
104395970 ATGTGATGAATGTGAGCATGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
104396017 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
104396064 ATGTGA
1 ATGTGA
104396070 AACATGTATG
Statistics
Matches: 178, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 178 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:104395904 original size:25 final size:25
Alignment explanation
Indices: 104395876--104395954 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
104395866 CGAATGGCCA
104395876 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
104395901 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
104395923 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
104395948 ATGTGAT
1 ATGTGAT
104395955 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 8 0.20
23 8 0.20
24 9 0.22
25 15 0.38
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:104395929 original size:22 final size:22
Alignment explanation
Indices: 104395858--104395976 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
104395848 GTATATATGA
104395858 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
104395880 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
104395905 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
104395927 GATGAATGTG-AGCAT-GCATATATGT
1 GAT-AA-G-GCCGAATGGC-CA-ATGT
104395952 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
104395974 GAT
1 GAT
104395977 GAATGTGAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:104396106 original size:48 final size:48
Alignment explanation
Indices: 104396040--104396175 Score: 193
Period size: 50 Copynumber: 2.8 Consensus size: 48
104396030 GAACATGCAT
*
104396040 ATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* * *
104396088 ATATGTGGTAAAGTCGAATGG-TCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGC
*
104396138 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
104396176 GGCGATGTGC
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
47 1 0.01
48 32 0.42
49 4 0.05
50 39 0.51
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:104396137 original size:141 final size:139
Alignment explanation
Indices: 104395858--104396122 Score: 329
Period size: 141 Copynumber: 1.9 Consensus size: 139
104395848 GTATATATGA
* *
104395858 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 GATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * * *
104395923 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
66 ATGTGATAAATGTGAGCATGCA-ATATGTGATAAAGCCGAATGGCCAATGTGA-GAATATGAACA
*
104395988 TGTATATGTGT
129 TGGATATGTGT
* * *
104395999 GATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 GATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * * *
104396064 ATGTGA-AACATGTATGAGATATGC-ATATGTGGTAAAGTCGAATGGTCAATGTGA-AATAT
66 ATGTGATAA-ATG--TGAG-CATGCAATATGTGATAAAGCCGAATGGCCAATGTGAGAATAT
104396123 ATATATGAGA
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
140 5 0.05
141 69 0.64
142 26 0.24
143 4 0.04
144 4 0.04
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (139 bp):
GATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCA
ATGTGATAAATGTGAGCATGCAATATGTGATAAAGCCGAATGGCCAATGTGAGAATATGAACATG
GATATGTGT
Found at i:104396190 original size:50 final size:50
Alignment explanation
Indices: 104396034--104396196 Score: 183
Period size: 50 Copynumber: 3.3 Consensus size: 50
104396024 GAATATGAAC
* *
104396034 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
* *
104396084 ATGC--ATATGTGGTAAAGTCGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAT
* * *
104396134 AT--GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
104396182 GTGCGTATATTGTGG
1 ATGCGTATA-TGTGG
104396197 CCGAACGACC
Statistics
Matches: 95, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
47 1 0.01
48 37 0.39
49 4 0.04
50 47 0.49
51 6 0.06
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:104396429 original size:37 final size:37
Alignment explanation
Indices: 104396321--104396429 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
104396311 GGAAATATAT
*
104396321 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
* *
104396358 TCCAGGTAAGACCCGATGACCACATGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
* * *
104396395 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTT
104396430 CGTTTGAGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
Found at i:104403014 original size:40 final size:39
Alignment explanation
Indices: 104402930--104403038 Score: 146
Period size: 40 Copynumber: 2.8 Consensus size: 39
104402920 ATTGAATGAT
* * * *
104402930 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTGTAACTAC
* * *
104402969 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCT-GTAACTAC
104403009 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
104403039 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 26 0.43
40 34 0.57
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTGTAACTAC
Found at i:104403053 original size:40 final size:39
Alignment explanation
Indices: 104402930--104403078 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
104402920 ATTGAATGAT
* * * * * *
104402930 ATCCGGGCTAAGTCCCGAAGACATTTATGCT-GTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
104402969 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
104403009 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
104403049 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
104403079 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
39 26 0.28
40 60 0.65
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:104407162 original size:272 final size:272
Alignment explanation
Indices: 104406676--104407226 Score: 958
Period size: 272 Copynumber: 2.0 Consensus size: 272
104406666 CATCTTCAAC
*
104406676 CTAAAATACATGGAAAACGGGAGAGAGAGAAGAAACTTTCATGGCATAATTGGGTAAGTTTCCTT
1 CTAAAATACATGGAAAACAGGAGAGAGAGAAGAAACTTTCATGGCATAATTGGGTAAGTTTCCTT
** * *
104406741 GTCCTGTTTTTAGTAATTTTCATATTTTTGAAATCAGGATAGCTTAATCTATTTATTTGGGGGAT
66 GTCCCATTTTTAGTAATTTTCATATTTTTGAAACCAGGATAACTTAATCTATTTATTTGGGGGAT
* *
104406806 CAATTTGAAAAGTTATCAAAGTATAAAAATTGGGTCATGGATGAATATGCTGAAAATTTGAAATT
131 CAATTTGAAAAGTTATCAAAGTATAAAAATTGAGTCATGGATGAATATGCTGAAAATTTGAAAAT
* *
104406871 TATGGTAGAAAATGAAAGGTTGTTGATAAATAAACAACTTTTACGAAGTGATTTTTGATGAAAAC
196 TATGGCAGAAAATGAAAGGTTGTTGATAAATAAACAACTTTTACGAAGTAATTTTTGATGAAAAC
104406936 ATGATTTAGGGA
261 ATGATTTAGGGA
* * *
104406948 CTAAAATACATGGAAAATAGGAGAGAGAGAAGAAACTTTCATGGCTTAATTGGGTAAGTTTTCTT
1 CTAAAATACATGGAAAACAGGAGAGAGAGAAGAAACTTTCATGGCATAATTGGGTAAGTTTCCTT
* *
104407013 GTCCCATTTTTAGTAATTTTGATATTTTTGAAACCGGGATAACTTAATCTATTTATTTGGGGGAT
66 GTCCCATTTTTAGTAATTTTCATATTTTTGAAACCAGGATAACTTAATCTATTTATTTGGGGGAT
*
104407078 CAATTTGAAAAGTTATCAAAGTATAAAAATTGAGTCATGGATGAATATGTTGAAAATTTGAAAAT
131 CAATTTGAAAAGTTATCAAAGTATAAAAATTGAGTCATGGATGAATATGCTGAAAATTTGAAAAT
*
104407143 TATGGCAGAAAATGAAAGGTTGTTGATAGATAAACAACTTTTACGAAGTAATTTTTGATGAAAAC
196 TATGGCAGAAAATGAAAGGTTGTTGATAAATAAACAACTTTTACGAAGTAATTTTTGATGAAAAC
104407208 ATGATTTAGGGA
261 ATGATTTAGGGA
104407220 CTAAAAT
1 CTAAAAT
104407227 GTAAAATTGT
Statistics
Matches: 263, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
272 263 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (272 bp):
CTAAAATACATGGAAAACAGGAGAGAGAGAAGAAACTTTCATGGCATAATTGGGTAAGTTTCCTT
GTCCCATTTTTAGTAATTTTCATATTTTTGAAACCAGGATAACTTAATCTATTTATTTGGGGGAT
CAATTTGAAAAGTTATCAAAGTATAAAAATTGAGTCATGGATGAATATGCTGAAAATTTGAAAAT
TATGGCAGAAAATGAAAGGTTGTTGATAAATAAACAACTTTTACGAAGTAATTTTTGATGAAAAC
ATGATTTAGGGA
Found at i:104416921 original size:7 final size:7
Alignment explanation
Indices: 104416909--104416942 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
104416899 CACATTTCTA
104416909 CTCATCC
1 CTCATCC
104416916 CTCATCC
1 CTCATCC
104416923 CTCATCC
1 CTCATCC
*
104416930 TTCATCC
1 CTCATCC
*
104416937 TTCATC
1 CTCATC
104416943 ATTCTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (7 bp):
CTCATCC
Found at i:104420602 original size:28 final size:27
Alignment explanation
Indices: 104420539--104420608 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
104420529 ATAGTGAGTC
*
104420539 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
104420566 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
104420594 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
104420609 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:104429356 original size:7 final size:7
Alignment explanation
Indices: 104429341--104429381 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
104429331 CAAATTTCTA
104429341 CTCATCC
1 CTCATCC
*
104429348 CTTATCC
1 CTCATCC
104429355 CTCATCC
1 CTCATCC
104429362 CTCATCC
1 CTCATCC
104429369 CTCATCC
1 CTCATCC
104429376 CTCATC
1 CTCATC
104429382 ATTCATCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.32
Consensus pattern (7 bp):
CTCATCC
Found at i:104429387 original size:21 final size:21
Alignment explanation
Indices: 104429340--104429388 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
104429330 TCAAATTTCT
*
104429340 ACTCATCCCTTATCCCTCATC
1 ACTCATCCCTCATCCCTCATC
*
104429361 CCTCATCCCTCATCCCTCATC
1 ACTCATCCCTCATCCCTCATC
*
104429382 ATTCATC
1 ACTCATC
104429389 ATTCTCACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.49, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTCATCCCTCATCCCTCATC
Found at i:104437618 original size:32 final size:34
Alignment explanation
Indices: 104437582--104437646 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
104437572 TAACAGTGGT
*
104437582 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
104437614 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
104437647 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:104439529 original size:26 final size:26
Alignment explanation
Indices: 104439493--104439576 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
104439483 CATGAAATTC
104439493 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
104439519 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
104439545 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
104439571 TTATCA
1 TTATCA
104439577 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:104442319 original size:49 final size:49
Alignment explanation
Indices: 104442213--104442311 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
104442203 ACCATTGTTA
* * *
104442213 TCAAACAACCCAGGGTGGTAGAATGTACATATCCTAGTAGTCATCATTG
1 TCAAGCAACCCAGGGTGATAGAATCTACATATCCTAGTAGTCATCATTG
* * * *
104442262 TCAAGCAACCCAGGGTGATAGTATCTACATGTTCTAGTAGTCATCGTTG
1 TCAAGCAACCCAGGGTGATAGAATCTACATATCCTAGTAGTCATCATTG
104442311 T
1 T
104442312 TGGGCAACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (49 bp):
TCAAGCAACCCAGGGTGATAGAATCTACATATCCTAGTAGTCATCATTG
Found at i:104445516 original size:8 final size:8
Alignment explanation
Indices: 104445503--104445539 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
104445493 CTAGATTGGC
104445503 AAAAGCCG
1 AAAAGCCG
104445511 AAAAGCCG
1 AAAAGCCG
*
104445519 AAATGCCG
1 AAAAGCCG
*
104445527 AAATGCCG
1 AAAAGCCG
104445535 AAAAG
1 AAAAG
104445540 TCAGTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.24, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:104445990 original size:27 final size:27
Alignment explanation
Indices: 104445952--104446067 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
104445942 ATGGAGGAAG
104445952 TGATCTGGTGGCTCTGCCACAAATATC
1 TGATCTGGTGGCTCTGCCACAAATATC
*
104445979 TGATCTGGTGGCTCTGCCACATATATC
1 TGATCTGGTGGCTCTGCCACAAATATC
* * * * *
104446006 TGTTCTGGTGGCCCTACCACGATTATC
1 TGATCTGGTGGCTCTGCCACAAATATC
* * *
104446033 TGTATCTGGTGACTCTGTCAC-ATTATC
1 TG-ATCTGGTGGCTCTGCCACAAATATC
*
104446060 TGTTCTGG
1 TGATCTGG
104446068 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 57 0.76
28 13 0.17
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
TGATCTGGTGGCTCTGCCACAAATATC
Found at i:104446033 original size:54 final size:54
Alignment explanation
Indices: 104445955--104446067 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
104445945 GAGGAAGTGA
* * *
104445955 TCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCCCTACCACAAATATCTGTATCTGGTGACTCTGCCACAT-TATCTGT
* * *
104446009 TCTGGTGGCCCTACCACGATTATCTGTATCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCCCTACCACAAATATCTGTATCTGGTGACTCTGCCACATTATCTGT
104446063 TCTGG
1 TCTGG
104446068 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (54 bp):
TCTGGTGGCCCTACCACAAATATCTGTATCTGGTGACTCTGCCACATTATCTGT
Found at i:104450917 original size:39 final size:40
Alignment explanation
Indices: 104450836--104450967 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
104450826 ATTCGATATG
* * * * ** *
104450836 ACACTAAGTGCCATACATATCCGAAGCTATCTCAAATTGC
1 ACACTAAGTGCCATATATAGCCAAAGCTATGTCGTATCGC
*
104450876 ACACTAAGTCCCATATATA-CCAAAGCTATGTCGTATCGC
1 ACACTAAGTGCCATATATAGCCAAAGCTATGTCGTATCGC
* * *
104450915 ACACTAAGTGTCATGTATAGCTAAAGCTATGTCGTATCGC
1 ACACTAAGTGCCATATATAGCCAAAGCTATGTCGTATCGC
104450955 ACACTAAGTGCCA
1 ACACTAAGTGCCA
104450968 CAAATAACCG
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 31 0.39
40 48 0.61
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCAAAGCTATGTCGTATCGC
Found at i:104452466 original size:88 final size:88
Alignment explanation
Indices: 104452314--104452571 Score: 240
Period size: 86 Copynumber: 3.0 Consensus size: 88
104452304 AAATTGAAGG
* * * * * *
104452314 AAATATAATGGCATACACAGTTCATCATCGGACAAGCCGAAACAATTGTACT-AGCACGCT-TAG
1 AAATATAATGGCACACACAGTGCATCATCGGACAAGCTGAAATAATTATACTGA-CAC-ATATAG
104452377 TGCATCATTGGAATAAACCGAAAAA
64 TGCATCATTGGAATAAACCGAAAAA
* *
104452402 AAATATACTGGTACACACAGTGCATCATCGGACAAGCTGAAATAATTATACTGACACATATAGTG
1 AAATATAATGGCACACACAGTGCATCATCGGACAAGCTGAAATAATTATACTGACACATATAGTG
* * * **
104452467 CATCA-TCGAAAAAACTG-AAGT
66 CATCATTGGAATAAACCGAAAAA
* * * ** * * *
104452488 AATTATATTGGCACCCACAGTGCATCATCAAACAAG-TCAAAGTAATTATACTGACACACAGAGT
1 AAATATAATGGCACACACAGTGCATCATCGGACAAGCTGAAA-TAATTATACTGACACATATAGT
* *
104452552 ACATCATCGG-ATAAACCGAA
65 GCATCATTGGAATAAACCGAA
104452572 GTATAACATG
Statistics
Matches: 138, Mismatches: 27, Indels: 11
0.78 0.15 0.06
Matches are distributed among these distances:
85 4 0.03
86 63 0.46
87 12 0.09
88 58 0.42
89 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (88 bp):
AAATATAATGGCACACACAGTGCATCATCGGACAAGCTGAAATAATTATACTGACACATATAGTG
CATCATTGGAATAAACCGAAAAA
Found at i:104452467 original size:43 final size:43
Alignment explanation
Indices: 104452405--104452560 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 43
104452395 CGAAAAAAAA
** *
104452405 TATACTGGTACACACAGTGCATCATCGGACAAGCTGAAATAAT
1 TATACTGACACACACAGTGCATCATCGAACAAGCTGAAATAAT
* * * * *
104452448 TATACTGACACATATAGTGCATCATCGAAAAAACTGAAGTAAT
1 TATACTGACACACACAGTGCATCATCGAACAAGCTGAAATAAT
* * * * *
104452491 TATATTGGCACCCACAGTGCATCATCAAACAAG-TCAAAGTAAT
1 TATACTGACACACACAGTGCATCATCGAACAAGCTGAAA-TAAT
* *
104452534 TATACTGACACACAGAGTACATCATCG
1 TATACTGACACACACAGTGCATCATCG
104452561 GATAAACCGA
Statistics
Matches: 88, Mismatches: 24, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
42 3 0.03
43 85 0.97
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (43 bp):
TATACTGACACACACAGTGCATCATCGAACAAGCTGAAATAAT
Found at i:104455545 original size:93 final size:93
Alignment explanation
Indices: 104455384--104455559 Score: 289
Period size: 93 Copynumber: 1.9 Consensus size: 93
104455374 CGTTGTATCA
* * *
104455384 AGTACTAGCTAGCCCAAAGACTAATTTTCAAAACTACTTAATATTTTGAAAGTTTTCATTTATGA
1 AGTACTAGCTAGCCCAAAGACTAATTTGCAAAACTACTTAATATTTTGAAACTTTTCATTAATGA
104455449 ATTCATGTGTTTTTTAATTATTAATGAT
66 ATTCATGTGTTTTTTAATTATTAATGAT
** * *
104455477 AGTACTAGCTAGCCCAGGGACTAATTTGCAAAACTGCTTAATATTTTGAAACTTTTCATTAATTA
1 AGTACTAGCTAGCCCAAAGACTAATTTGCAAAACTACTTAATATTTTGAAACTTTTCATTAATGA
104455542 ATTCATGTGTTTTTTAAT
66 ATTCATGTGTTTTTTAAT
104455560 GCTTGATGAT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (93 bp):
AGTACTAGCTAGCCCAAAGACTAATTTGCAAAACTACTTAATATTTTGAAACTTTTCATTAATGA
ATTCATGTGTTTTTTAATTATTAATGAT
Found at i:104456529 original size:32 final size:32
Alignment explanation
Indices: 104456513--104456577 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
104456503 TGTCTGCATT
*
104456513 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATCGGCA
* *
104456545 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATCGGCA
104456577 T
1 T
104456578 GATAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGAATGATCGGCA
Found at i:104459737 original size:12 final size:12
Alignment explanation
Indices: 104459720--104459750 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
104459710 ACTCGGGGAA
104459720 GAGGCCGTGGTC
1 GAGGCCGTGGTC
104459732 GAGGCCGTGGTC
1 GAGGCCGTGGTC
104459744 GAGGCCG
1 GAGGCCG
104459751 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:104464580 original size:30 final size:31
Alignment explanation
Indices: 104464544--104464606 Score: 110
Period size: 30 Copynumber: 2.0 Consensus size: 31
104464534 TGTATGCATT
104464544 TTAGCATTTTAATAGTTAAT-ATGATGGGCA
1 TTAGCATTTTAATAGTTAATGATGATGGGCA
104464574 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAAT-GATGATGGGCA
104464606 T
1 T
104464607 GATAAGCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 20 0.65
32 11 0.35
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (31 bp):
TTAGCATTTTAATAGTTAATGATGATGGGCA
Found at i:104466102 original size:26 final size:26
Alignment explanation
Indices: 104466073--104466125 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
104466063 TTTACAGTTT
104466073 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
104466099 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
104466125 T
1 T
104466126 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:104467467 original size:32 final size:32
Alignment explanation
Indices: 104467431--104467495 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
104467421 TGTATGCATT
104467431 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
*
104467463 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
104467495 T
1 T
104467496 GATAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGAATGATGGGCA
Found at i:104469004 original size:26 final size:26
Alignment explanation
Indices: 104468975--104469027 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
104468965 TTTACAGTTT
104468975 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
104469001 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
104469027 T
1 T
104469028 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:104470648 original size:12 final size:12
Alignment explanation
Indices: 104470631--104470661 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
104470621 ACTCGGGGAA
104470631 GAGGCCGTGGTC
1 GAGGCCGTGGTC
104470643 GAGGCCGTGGTC
1 GAGGCCGTGGTC
104470655 GAGGCCG
1 GAGGCCG
104470662 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:104475530 original size:31 final size:32
Alignment explanation
Indices: 104475492--104475555 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
104475482 TGTATGCATT
104475492 TTAGCATTTTAATAGTTAAT-AATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
*
104475523 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
104475555 T
1 T
104475556 GATAAGCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 20 0.65
32 11 0.35
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGAATGATGGGCA
Found at i:104477086 original size:25 final size:25
Alignment explanation
Indices: 104477038--104477086 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
104477028 ACAGTTTTAC
104477038 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
104477063 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
104477087 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:104483507 original size:34 final size:34
Alignment explanation
Indices: 104483462--104483530 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
104483452 AAATTTATCT
* *
104483462 TGGTCTTGATGAACATCCACTTAATAATAAAATA
1 TGGTCTCGATGAACATCCACTTAACAATAAAATA
104483496 TGGTCTCGATGAACATCCACTTAACAATAAAATA
1 TGGTCTCGATGAACATCCACTTAACAATAAAATA
104483530 T
1 T
104483531 TCATAATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (34 bp):
TGGTCTCGATGAACATCCACTTAACAATAAAATA
Found at i:104486935 original size:44 final size:43
Alignment explanation
Indices: 104486850--104486936 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 43
104486840 ATTTGAACTA
* *
104486850 GTAAACTTTTAGTTTACTATGCACGTGATTTAACATTACTAAT
1 GTAAACTTCTAGTTTACAATGCACGTGATTTAACATTACTAAT
*
104486893 GTAAACTTCTAGTTTACAATCGCATGTGATTTAACCA-TACTAAT
1 GTAAACTTCTAGTTTACAAT-GCACGTGATTTAA-CATTACTAAT
104486937 ATATTGATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 18 0.46
44 19 0.49
45 2 0.05
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.39
Consensus pattern (43 bp):
GTAAACTTCTAGTTTACAATGCACGTGATTTAACATTACTAAT
Found at i:104487998 original size:24 final size:23
Alignment explanation
Indices: 104487944--104487988 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
104487934 ACAATGACTT
104487944 ATTAATTTAATTCTATTTTCACTA
1 ATTAATTTAATTCTATTTTCAC-A
104487968 ATTAATTTAATTCTATTTTCA
1 ATTAATTTAATTCTATTTTCA
104487989 AACTTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTAATTTAATTCTATTTTCACA
Found at i:104497317 original size:20 final size:21
Alignment explanation
Indices: 104497274--104497318 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
104497264 ATATTCTGAT
* *
104497274 ACATATCAATCACATATAAGC
1 ACATATCAATCACATACAACC
*
104497295 ACATAT-AATTACATACAACC
1 ACATATCAATCACATACAACC
104497315 ACAT
1 ACAT
104497319 TTAGTCATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (21 bp):
ACATATCAATCACATACAACC
Found at i:104497364 original size:14 final size:13
Alignment explanation
Indices: 104497333--104497386 Score: 99
Period size: 13 Copynumber: 4.1 Consensus size: 13
104497323 TCATAGTGTA
104497333 TGATAATTTGGCT
1 TGATAATTTGGCT
104497346 TGATAATTTGGCTT
1 TGATAATTTGGC-T
104497360 TGATAATTTGGCT
1 TGATAATTTGGCT
104497373 TGATAATTTGGCT
1 TGATAATTTGGCT
104497386 T
1 T
104497387 TTGAGTTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
13 27 0.68
14 13 0.32
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (13 bp):
TGATAATTTGGCT
Found at i:104497371 original size:27 final size:27
Alignment explanation
Indices: 104497333--104497387 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
104497323 TCATAGTGTA
104497333 TGATAATTTGGCTTGATAATTTGGCTT
1 TGATAATTTGGCTTGATAATTTGGCTT
104497360 TGATAATTTGGCTTGATAATTTGGCTT
1 TGATAATTTGGCTTGATAATTTGGCTT
104497387 T
1 T
104497388 TGAGTTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.49
Consensus pattern (27 bp):
TGATAATTTGGCTTGATAATTTGGCTT
Found at i:104499099 original size:43 final size:42
Alignment explanation
Indices: 104499052--104499190 Score: 117
Period size: 39 Copynumber: 3.4 Consensus size: 42
104499042 TCTCAGACGT
* * *
104499052 GGTCTTACATGTAATCAAATATCGATGC-CATTGTCCCAGACAG
1 GGTCTTACACGAAATAAAATA-CGATGCTCA-TGTCCCAGACAG
* * *
104499095 GGTCTTACACGAAATAAAATACGATTCTGATGTCCCAGACAT
1 GGTCTTACACGAAATAAAATACGATGCTCATGTCCCAGACAG
** * * *
104499137 GGTCTTACAC-TCAT-AAGT-CGATGC-CAACGTCCCAGACAT
1 GGTCTTACACGAAATAAAATACGATGCTC-ATGTCCCAGACAG
104499176 GGTCTTACACGAAAT
1 GGTCTTACACGAAAT
104499191 CACATATCGG
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
39 27 0.34
40 5 0.06
41 2 0.03
42 26 0.33
43 19 0.24
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATAAAATACGATGCTCATGTCCCAGACAG
Found at i:104499141 original size:42 final size:40
Alignment explanation
Indices: 104499033--104499190 Score: 138
Period size: 42 Copynumber: 3.9 Consensus size: 40
104499023 AACTCGTACA
* * * * *
104499033 ATGCCAACGTCTCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT--AA-ATCG
* *
104499076 ATGCCATTGTCCCAGACAGGGTCTTACACGAAATAAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT-AAAT-CG
* ** ** *
104499118 ATTCTGATGTCCCAGACATGGTCTTACAC-TCATAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATAAATCG
*
104499157 ATGCCAACGTCCCAGACATGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT
104499191 CACATATCGG
Statistics
Matches: 92, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 27 0.29
40 5 0.05
41 4 0.04
42 29 0.32
43 27 0.29
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (40 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATAAATCG
Found at i:104499607 original size:9 final size:9
Alignment explanation
Indices: 104499593--104499618 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
104499583 AGTCCCTAAT
104499593 CACAAAATA
1 CACAAAATA
104499602 CACAAAATA
1 CACAAAATA
104499611 CACAAAAT
1 CACAAAAT
104499619 TTCTTTAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
CACAAAATA
Found at i:104505678 original size:26 final size:26
Alignment explanation
Indices: 104505647--104505752 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
104505637 TGAAATGCCC
104505647 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
104505673 ATCAT-GAACATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
104505697 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
104505723 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
104505749 ATCA
1 ATCA
104505753 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
24 12 0.16
25 23 0.31
26 39 0.53
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:104505705 original size:50 final size:52
Alignment explanation
Indices: 104505647--104505752 Score: 180
Period size: 50 Copynumber: 2.1 Consensus size: 52
104505637 TGAAATGCCC
104505647 ATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
104505697 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
104505749 ATCA
1 ATCA
104505753 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 29 0.56
51 14 0.27
52 9 0.17
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:104512680 original size:26 final size:26
Alignment explanation
Indices: 104512649--104512756 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
104512639 TGAAATGCCC
104512649 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
104512675 ATCATGCAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
104512701 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
104512727 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
104512753 ATCA
1 ATCA
104512757 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 4 0.05
26 67 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:104523117 original size:31 final size:31
Alignment explanation
Indices: 104523076--104523139 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
104523066 CCTTTTCATA
*
104523076 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
104523107 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
104523138 TT
1 TT
104523140 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:104523390 original size:24 final size:24
Alignment explanation
Indices: 104523333--104523525 Score: 196
Period size: 25 Copynumber: 8.0 Consensus size: 24
104523323 GCTTTATCAT
*
104523333 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* *
104523357 AGTAACTGGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
* *
104523382 ATAATTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
* *
104523407 ACAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
104523432 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
104523457 ACAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
*
104523480 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
* *
104523503 ATAACTAGGGCATAAGCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTT
104523526 GCACTTCCTC
Statistics
Matches: 148, Mismatches: 15, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
23 40 0.27
24 32 0.22
25 76 0.51
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:104523458 original size:50 final size:48
Alignment explanation
Indices: 104523360--104523520 Score: 218
Period size: 50 Copynumber: 3.3 Consensus size: 48
104523350 CTCTTTTAGT
* * * *
104523360 AACTGGGGCAAAAGCCCTTTTTATAATTGGGGCATAAGCCCTTCATCAC
1 AACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTATCAC
*
104523409 AACTGGGGCATAAGCCCTTCATCATAACTGGGGCATAAGCCCTTTATCAC
1 AACTGGGGCATAAGCCCTT--TAATAACTGGGGCATAAGCCCTTTATCAC
*
104523459 AACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTA--AT
1 AACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTATCAC
*
104523505 AACTAGGGCATAAGCC
1 AACTGGGGCATAAGCC
104523521 TTTTTGCACT
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
46 16 0.16
48 26 0.25
49 16 0.16
50 45 0.44
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (48 bp):
AACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTATCAC
Found at i:104523599 original size:20 final size:20
Alignment explanation
Indices: 104523571--104523654 Score: 141
Period size: 20 Copynumber: 4.2 Consensus size: 20
104523561 GCATTTATGA
*
104523571 ACATCTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
104523591 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
*
104523611 ACATATCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
*
104523631 ACATGTCATATGCATATCAT
1 ACATGTCATGTGCATATCAT
104523651 ACAT
1 ACAT
104523655 ACCATGTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATGTCATGTGCATATCAT
Found at i:104523615 original size:9 final size:9
Alignment explanation
Indices: 104523583--104523655 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 9
104523573 ATCTCATGTG
104523583 CATATCATA
1 CATATCATA
* *
104523592 CATGTCATGTG
1 CATATCA--TA
104523603 CATATCATA
1 CATATCATA
*
104523612 CATATCATGTG
1 CATATCA--TA
104523623 CATATCATA
1 CATATCATA
*
104523632 CATGTCATA
1 CATATCATA
104523641 TGCATATCATA
1 --CATATCATA
104523652 CATA
1 CATA
104523656 CCATGTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 27 0.54
11 23 0.46
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:104523626 original size:11 final size:11
Alignment explanation
Indices: 104523576--104523630 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
104523566 TATGAACATC
104523576 TCATGTGCATA
1 TCATGTGCATA
* *
104523587 TCA--TACATG
1 TCATGTGCATA
104523596 TCATGTGCATA
1 TCATGTGCATA
*
104523607 TCA--TACATA
1 TCATGTGCATA
104523616 TCATGTGCATA
1 TCATGTGCATA
104523627 TCAT
1 TCAT
104523631 ACATGTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:104523635 original size:15 final size:14
Alignment explanation
Indices: 104523577--104523646 Score: 51
Period size: 15 Copynumber: 5.0 Consensus size: 14
104523567 ATGAACATCT
104523577 CATGTGCATATCATA
1 CATGT-CATATCATA
*
104523592 CATGTCATGTGCAT-
1 CATGTCATAT-CATA
104523606 -A--TCATA-CATA
1 CATGTCATATCATA
104523616 TCATGTGCATATCATA
1 -CATGT-CATATCATA
104523632 CATGTCATATGCATA
1 CATGTCATAT-CATA
104523647 TCATACATAC
Statistics
Matches: 44, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
9 3 0.07
11 4 0.09
12 1 0.02
13 1 0.02
14 10 0.23
15 21 0.48
16 4 0.09
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (14 bp):
CATGTCATATCATA
Found at i:104523726 original size:25 final size:25
Alignment explanation
Indices: 104523698--104523745 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
104523688 ATGTATAAAC
* *
104523698 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
104523723 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
104523746 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:104524947 original size:27 final size:27
Alignment explanation
Indices: 104524910--104524997 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
104524900 TATTCATCAT
*
104524910 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCTTACAGGGGCT-TTACGGTCAC
104524937 TTTACCTTACAGGGGCTTTACGGTCAC
1 TTTACCTTACAGGGGCTTTACGGTCAC
* **
104524964 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCTTACAGGGGCTTTACGGTCAC
104524991 TTTACCT
1 TTTACCT
104524998 AATAGGGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
TTTACCTTACAGGGGCTTTACGGTCAC
Found at i:104525153 original size:27 final size:27
Alignment explanation
Indices: 104525133--104525265 Score: 146
Period size: 27 Copynumber: 4.9 Consensus size: 27
104525123 GTAACTTTGT
*
104525133 AAATTAGGGGTATTTTGGTAATTTTAA
1 AAATTAGGGGTATTTTGGTAATTTTAC
* * *
104525160 AAATT-GAGGGTATTTCGATAATTTCAC
1 AAATTAG-GGGTATTTTGGTAATTTTAC
** *
104525187 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATTAGGGGTATTTTGGTAATTTTAC
*
104525214 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAATTAGGGGTATTTTGGTAATTTTAC
104525241 AAATT-GAGGGTATTTCT-GTAATTTT
1 AAATTAG-GGGTATTT-TGGTAATTTT
104525266 GTAAATCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 85 0.96
28 2 0.02
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
AAATTAGGGGTATTTTGGTAATTTTAC
Found at i:104525271 original size:27 final size:27
Alignment explanation
Indices: 104525056--104525306 Score: 131
Period size: 27 Copynumber: 9.2 Consensus size: 27
104525046 CTACAAACCA
* * * *
104525056 AGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTCTGTAATTTTATAAATCG
* * * *
104525083 ATGGTATTTCTATAATTTTTAGAAAGTCA
1 AGGGTATTTCTGTAA-TTTTATAAA-TCG
* * *
104525112 AGGGTATTTCTGTAACTTTGTAAAT-T
1 AGGGTATTTCTGTAATTTTATAAATCG
* *
104525138 AGGGGTATTT-TGGTAATTTTAAAAATTG
1 A-GGGTATTTCT-GTAATTTTATAAATCG
* * *
104525166 AGGGTATTTC-GATAATTTCACAAA-CC
1 AGGGTATTTCTG-TAATTTTATAAATCG
* *
104525192 AGTGGTATTT-TGGTAATTTTACAAA-CT
1 AG-GGTATTTCT-GTAATTTTATAAATCG
* *
104525219 AGGGGTATTT-TGGTAATTTTACAAATTG
1 A-GGGTATTTCT-GTAATTTTATAAATCG
*
104525247 AGGGTATTTCTGTAATTTTGTAAATCG
1 AGGGTATTTCTGTAATTTTATAAATCG
** * *
104525274 AGGGTAAAAT-AGTAATTTTATAAATCA
1 AGGGT-ATTTCTGTAATTTTATAAATCG
104525301 AGGGTA
1 AGGGTA
104525307 AAGTAGTAAT
Statistics
Matches: 178, Mismatches: 32, Indels: 29
0.74 0.13 0.12
Matches are distributed among these distances:
26 6 0.03
27 137 0.77
28 20 0.11
29 15 0.08
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCTGTAATTTTATAAATCG
Found at i:104525289 original size:81 final size:81
Alignment explanation
Indices: 104525137--104525293 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
104525127 CTTTGTAAAT
***
104525137 TAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTT
1 TAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTAAAA
*
104525202 TGGTAATTTTACAAAC
66 TAGTAATTTTACAAAC
* *** *
104525218 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTG-TAATTTTGTAAATCGAG-GGTAA
1 TAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTC-GATAATTTCACAAA-CCAGTGGTAA
104525281 AATAGTAATTTTA
64 AATAGTAATTTTA
104525294 TAAATCAAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 61 0.94
82 4 0.06
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTAAAA
TAGTAATTTTACAAAC
Found at i:104525307 original size:27 final size:27
Alignment explanation
Indices: 104525258--104525532 Score: 192
Period size: 27 Copynumber: 9.8 Consensus size: 27
104525248 GGGTATTTCT
*
104525258 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * * *
104525285 GTAATTTTATAAATCAAGGGTAAAGTA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * *
104525312 GTAATTCTATAAATCGACGGTAAAA-C
1 GTAATTCTGTAAATCGAGGGTAAAATA
* **
104525338 GATAATTTTGTAAATCGAGGGTAAAACG
1 G-TAATTCTGTAAATCGAGGGTAAAATA
*
104525366 GTAATTCTGTAAGTCGAGGGTAAAACGGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAA-----T---A
* * *
104525401 TGGTAATTATGTAAATCGGGGGTAAAATG
1 --GTAATTCTGTAAATCGAGGGTAAAATA
* * *
104525430 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * **
104525457 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * **
104525484 GTACTTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
104525511 GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
104525533 CTTTGGTAAT
Statistics
Matches: 202, Mismatches: 34, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.00
27 177 0.88
28 1 0.00
32 1 0.00
37 22 0.11
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:104525399 original size:37 final size:38
Alignment explanation
Indices: 104525347--104525427 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 38
104525337 CGATAATTTT
* * *
104525347 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
* *
104525385 GTAAAACG-GGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
104525422 GTAAAA
1 GTAAAA
104525428 TGGTAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
37 31 0.82
38 7 0.18
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
Found at i:104525414 original size:64 final size:64
Alignment explanation
Indices: 104525330--104525455 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 64
104525320 ATAAATCGAC
* * *
104525330 GGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGG
1 GGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGG
* * * * *
104525394 GGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAAC
1 GGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
104525456 AGTAATTCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (64 bp):
GGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGG
Found at i:104525417 original size:91 final size:91
Alignment explanation
Indices: 104525302--104525484 Score: 249
Period size: 91 Copynumber: 2.0 Consensus size: 91
104525292 TATAAATCAA
* * * *
104525302 GGGTAAAGTAGTAATTCTATAAATCGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACAG
* * *
104525367 TAATTCTGTAAGTCGAGGGTAAAACG
66 TAATTCTATAAATCAAGGGTAAAACG
* * ** * *
104525393 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACAG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACAG
104525458 TAATTCTATAAATCAAGGGTAAAACG
66 TAATTCTATAAATCAAGGGTAAAACG
104525484 G
1 G
104525485 TACTTCTATA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (91 bp):
GGGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACAG
TAATTCTATAAATCAAGGGTAAAACG
Found at i:104525483 original size:118 final size:118
Alignment explanation
Indices: 104525266--104525511 Score: 305
Period size: 118 Copynumber: 2.1 Consensus size: 118
104525256 CTGTAATTTT
* * * *
104525266 GTAAATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAGTAGTAATTCTATAAATCGACG
1 GTAAAACG-GGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* * * * *
104525331 GTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
65 GTAAAACGATAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGG
* * ** * * * *
104525385 GTAAAACGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGG
1 GTAAAACGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACGG
*
104525450 TAAAAC-AGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGG
66 TAAAACGA-TAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGG
104525503 GTAAAACGG
1 GTAAAACGG
104525512 TAATTATGTA
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
117 1 0.01
118 100 0.93
119 7 0.06
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.27
Consensus pattern (118 bp):
GTAAAACGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACGG
TAAAACGATAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGG
Found at i:104525511 original size:145 final size:145
Alignment explanation
Indices: 104525258--104525532 Score: 415
Period size: 145 Copynumber: 1.9 Consensus size: 145
104525248 GGGTATTTCT
* **
104525258 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAGTAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAACAGTAATTCTATA
* * * * *
104525323 AATCGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTA
66 AATCAACGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTA
104525388 AAACGGGGTAAAATG
131 AAACGGGGTAAAATG
* * *
104525403 GTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAACAGTAATTCTATA
* * * *
104525468 AATCAAGGGTAAAACGGTACTTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTA
66 AATCAACGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTA
104525533 CTTTGGTAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
145 115 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (145 bp):
GTAATTATGTAAATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAACAGTAATTCTATA
AATCAACGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTA
AAACGGGGTAAAATG
Found at i:104525555 original size:54 final size:54
Alignment explanation
Indices: 104525393--104525559 Score: 190
Period size: 54 Copynumber: 3.1 Consensus size: 54
104525383 GGGTAAAACG
* * *
104525393 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAA
1 GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
* * * ** * * *
104525447 GGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGA
1 GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
*** * *
104525501 GGGTAAAACGGTAATTATGTAAATCGGGGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
104525555 GGGTA
1 GGGTA
104525560 TTTCAATAAT
Statistics
Matches: 89, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (54 bp):
GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
Found at i:104530363 original size:13 final size:13
Alignment explanation
Indices: 104530345--104530369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104530335 AACGAAGCAG
104530345 GACACGGCCGTGC
1 GACACGGCCGTGC
104530358 GACACGGCCGTG
1 GACACGGCCGTG
104530370 TGAACCAACA
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:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:104531957 original size:6 final size:6
Alignment explanation
Indices: 104531937--104531981 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
104531927 TTTTGAAGAC
* * *
104531937 TTTTAT TTATTAT TTTTAT TTTAAT TTTTAC TTTTAT CTTTAT TT
1 TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
104531982 ATCTCTTTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:104531981 original size:18 final size:18
Alignment explanation
Indices: 104531937--104531983 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
104531927 TTTTGAAGAC
*
104531937 TTTTATTTATTATTTTTA
1 TTTTATTTATTACTTTTA
104531955 TTTTAATTT-TTACTTTTA
1 TTTT-ATTTATTACTTTTA
104531973 TCTTTATTTAT
1 T-TTTATTTAT
104531984 CTCTTTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATTTATTACTTTTA
Found at i:104540595 original size:23 final size:23
Alignment explanation
Indices: 104540569--104540613 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
104540559 TGGGTATGAG
*
104540569 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
104540592 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
104540614 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:104548796 original size:17 final size:17
Alignment explanation
Indices: 104548760--104548808 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
104548750 AAATAAGGAA
* * *
104548760 AAAATTAATAATGAATT
1 AAAATTAAAAATAAAGT
*
104548777 AAAATTAAAATTAAAGT
1 AAAATTAAAAATAAAGT
*
104548794 AAATTTAAAAATAAA
1 AAAATTAAAAATAAA
104548809 CAAATCTCTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
AAAATTAAAAATAAAGT
Found at i:104551873 original size:15 final size:15
Alignment explanation
Indices: 104551853--104551909 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
104551843 ATTCAATATT
104551853 AATATTTTAATAATA
1 AATATTTTAATAATA
*
104551868 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
104551887 AATATATTAATAATA
1 AATATTTTAATAATA
*
104551902 AATGTTTT
1 AATATTTT
104551910 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:104552314 original size:32 final size:33
Alignment explanation
Indices: 104552278--104552350 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
104552268 CAACTTTTAT
*
104552278 AAAATATTTTA-ACGAAATCTA-CCAAGCAACAG
1 AAAATATTTTACAC-AAATCTATCCAAACAACAG
* *
104552310 AAAATATTTTACACAAATTTATCCAAACACCAG
1 AAAATATTTTACACAAATCTATCCAAACAACAG
104552343 AAAATATT
1 AAAATATT
104552351 AACTTTTCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 17 0.47
33 19 0.53
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (33 bp):
AAAATATTTTACACAAATCTATCCAAACAACAG
Found at i:104553590 original size:2 final size:2
Alignment explanation
Indices: 104553583--104553612 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
104553573 TCATATACTC
104553583 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
104553613 TTAGACATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104571888 original size:20 final size:21
Alignment explanation
Indices: 104571849--104571888 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104571839 GTCAAAATCA
*
104571849 CCACACGGGGGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
104571870 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
104571889 GTTTTAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.33, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:104580000 original size:66 final size:68
Alignment explanation
Indices: 104579924--104580110 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
104579914 TAGTACCACT
*
104579924 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
104579986 CACG
65 CACG
104579990 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
104580055 ATCACG
63 ATCACG
104580061 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
104580111 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:104580035 original size:71 final size:71
Alignment explanation
Indices: 104579947--104580110 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
104579937 CGATTTGTCT
104579947 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104580012 CTTTCA
66 CTTTCA
104580018 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104580083 CTTTCA
66 CTTTCA
104580089 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
104580111 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:104580148 original size:71 final size:70
Alignment explanation
Indices: 104579947--104580144 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
104579937 CGATTTGTCT
* * *
104579947 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
104580012 CTTTCA
65 CTTTCA
* * *
104580018 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
104580083 CTTTCA
65 CTTTCA
* *
104580089 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
104580145 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:104587571 original size:66 final size:68
Alignment explanation
Indices: 104587495--104587681 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
104587485 TAGTACCACT
*
104587495 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
104587557 CACG
65 CACG
104587561 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
104587626 ATCACG
63 ATCACG
104587632 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
104587682 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:104587606 original size:71 final size:71
Alignment explanation
Indices: 104587518--104587681 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
104587508 CGATTTGTCT
104587518 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104587583 CTTTCA
66 CTTTCA
104587589 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104587654 CTTTCA
66 CTTTCA
104587660 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
104587682 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:104587719 original size:71 final size:70
Alignment explanation
Indices: 104587518--104587715 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
104587508 CGATTTGTCT
* * *
104587518 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
104587583 CTTTCA
65 CTTTCA
* * *
104587589 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
104587654 CTTTCA
65 CTTTCA
* *
104587660 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
104587716 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:104591136 original size:113 final size:113
Alignment explanation
Indices: 104590938--104591164 Score: 350
Period size: 113 Copynumber: 2.0 Consensus size: 113
104590928 AGAAGGCAAC
* * * *
104590938 TTCTCTATCCTTGCTAGGCAGTATGACACTATTTCAATATTTTTTGTCTACTATTACGTATTATA
1 TTCTCTACCCTTGCTAGGCAGTATGACACTAGTTCAAAATTTTTTGTCTACTAGTACGTATTATA
104591003 CTATGGAAACTATTTTGCTTCCTTTGAGTTGTTATAATCACATTAAAA
66 CTATGGAAACTATTTTGCTTCCTTTGAGTTGTTATAATCACATTAAAA
* *
104591051 TTCTCTACCCTTG-TCAGGCCGTATGACACTAGTTCAAAATTTTTTGT-TGACTAGTATGTATTA
1 TTCTCTACCCTTGCT-AGGCAGTATGACACTAGTTCAAAATTTTTTGTCT-ACTAGTACGTATTA
* *
104591114 TACTATGGCAACTATTTTGCTTCCTTTGAGTTGTTGTAATCACATTAAAA
64 TACTATGGAAACTATTTTGCTTCCTTTGAGTTGTTATAATCACATTAAAA
104591164 T
1 T
104591165 GGTCTAACAT
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
112 2 0.02
113 102 0.98
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (113 bp):
TTCTCTACCCTTGCTAGGCAGTATGACACTAGTTCAAAATTTTTTGTCTACTAGTACGTATTATA
CTATGGAAACTATTTTGCTTCCTTTGAGTTGTTATAATCACATTAAAA
Found at i:104599155 original size:26 final size:24
Alignment explanation
Indices: 104599125--104599174 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
104599115 AAATAAAAAA
*
104599125 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
104599151 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
104599175 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Done.