Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 189 of 770
Found at i:56499423 original size:26 final size:26
Alignment explanation
Indices: 56499394--56499501 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
56499384 TGGTACAAAT
56499394 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56499420 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56499446 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56499472 TGATAATGGTTTAGGTAAATGCTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56499498 TGAT
1 TGAT
56499502 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56501140 original size:27 final size:27
Alignment explanation
Indices: 56501100--56501230 Score: 171
Period size: 27 Copynumber: 4.9 Consensus size: 27
56501090 AGGAAGCGTC
*
56501100 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
56501127 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
56501153 CCTGGTGGCTATGCCACAATTATCTGAC
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
56501181 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
56501208 CTGGTGGCTCTGCCACAA-TATCT
1 CTGGTGGCTCTGCCACAATTATCT
56501231 ATATCTAGTG
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.11
27 79 0.86
28 3 0.03
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:56501179 original size:54 final size:54
Alignment explanation
Indices: 56501097--56501230 Score: 234
Period size: 54 Copynumber: 2.5 Consensus size: 54
56501087 TGAAGGAAGC
*
56501097 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGACCTGGTGGCTCTGCCACATATATCT
56501151 GTCCTGGTGGCTATGCCACAATTATCTGACCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGACCTGGTGGCTCTGCCACATATATCT
* *
56501205 GTTCTGGTGGCTCTGCCACAA-TATCT
1 GTCCTGGTGGCTATGCCACAATTATCT
56501231 ATATCTAGTG
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGACCTGGTGGCTCTGCCACATATATCT
Found at i:56501252 original size:81 final size:79
Alignment explanation
Indices: 56501099--56501258 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 79
56501089 AAGGAAGCGT
* * *
56501099 CCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTA
1 CCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTAGTGACTA
56501164 TGCCACAATTATCTGA
66 T-CCACAA-TATCTGA
* * *
56501180 CCTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTATATCTAGTGAC
1 CCTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTAT-CCTAGTGAC
56501243 T-TCATCACAATATCTG
64 TATC--CACAATATCTG
56501259 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
79 1 0.01
80 16 0.23
81 52 0.75
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (79 bp):
CCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTAGTGACTA
TCCACAATATCTGA
Found at i:56502768 original size:22 final size:21
Alignment explanation
Indices: 56502743--56502791 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
56502733 CATTCTTATA
*
56502743 AAATTTTAAAACCCTAAACCTT
1 AAATTTTAAAACCCTAAA-ATT
** *
56502765 AAATACTAAAATCCTAAAATT
1 AAATTTTAAAACCCTAAAATT
56502786 AAATTT
1 AAATTT
56502792 CAAATGAAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTTTAAAACCCTAAAATT
Found at i:56502980 original size:20 final size:21
Alignment explanation
Indices: 56502952--56502997 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
56502942 TAACTATATT
**
56502952 AGTTAGTATTTTGTTATAGTC
1 AGTTAGTATTCCGTTATAGTC
*
56502973 AGTT-GTATTCCGTTATAGTT
1 AGTTAGTATTCCGTTATAGTC
56502993 AGTTA
1 AGTTA
56502998 CTAATCTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.50
Consensus pattern (21 bp):
AGTTAGTATTCCGTTATAGTC
Found at i:56507567 original size:20 final size:21
Alignment explanation
Indices: 56507539--56507584 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
56507529 TAACTATATT
* *
56507539 AGTTAGTATTTTGTTATAGTC
1 AGTTAGTATTCTATTATAGTC
*
56507560 AGTT-GTATTCTATTATAGTT
1 AGTTAGTATTCTATTATAGTC
56507580 AGTTA
1 AGTTA
56507585 CTAATATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.52
Consensus pattern (21 bp):
AGTTAGTATTCTATTATAGTC
Found at i:56509287 original size:2 final size:2
Alignment explanation
Indices: 56509282--56509311 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56509272 AACAAAAGAA
56509282 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
56509312 GAATAAGGTG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:56511600 original size:16 final size:17
Alignment explanation
Indices: 56511569--56511612 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
56511559 GAGTTTTTTT
*
56511569 TTATTATAAAAGTTATA
1 TTATTATAAATGTTATA
*
56511586 -TATTATAAATTTTATA
1 TTATTATAAATGTTATA
*
56511602 TTATTTTAAAT
1 TTATTATAAAT
56511613 CTAATTTACG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTATTATAAATGTTATA
Found at i:56511603 original size:14 final size:16
Alignment explanation
Indices: 56511565--56511605 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
56511555 TATAGAGTTT
*
56511565 TTTTTTATTATAAAAG
1 TTTTATATTATAAAAG
*
56511581 TTATATATTAT-AAA-
1 TTTTATATTATAAAAG
56511595 TTTTATATTAT
1 TTTTATATTAT
56511606 TTTAAATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
16 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTATATTATAAAAG
Found at i:56512778 original size:26 final size:26
Alignment explanation
Indices: 56512749--56512804 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
56512739 TGATACAAAT
* *
56512749 TGATAATGGGTTCGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56512775 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56512801 TGAT
1 TGAT
56512805 GGGAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56514311 original size:25 final size:26
Alignment explanation
Indices: 56514283--56514334 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
56514273 TTTACAGTTT
56514283 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
56514308 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
56514334 T
1 T
56514335 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:56519797 original size:26 final size:26
Alignment explanation
Indices: 56519768--56519821 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
56519758 ATACAAATTT
56519768 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
56519794 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
56519820 AT
1 AT
56519822 GGGAATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:56521330 original size:26 final size:26
Alignment explanation
Indices: 56521301--56521353 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
56521291 TTTACAGTTT
56521301 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
56521327 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
56521353 T
1 T
56521354 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:56524617 original size:40 final size:40
Alignment explanation
Indices: 56524572--56524738 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56524562 CGGAATATAA
56524572 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
56524612 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56524652 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56524692 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56524731 CCGGATAT
1 CCGGATAT
56524739 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56533050 original size:41 final size:41
Alignment explanation
Indices: 56532991--56533070 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
56532981 AGGTTTTGGA
* *
56532991 AGCCCTTGCAAAAGTCCAACAAAATCGACCGAGTGATGCCG
1 AGCCATTGCAAAACTCCAACAAAATCGACCGAGTGATGCCG
* *
56533032 AGCCATTGCGAAACTCCAACAAAATCGAGCGAGTGATGC
1 AGCCATTGCAAAACTCCAACAAAATCGACCGAGTGATGC
56533071 TACAGCCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.35, C:0.28, G:0.23, T:0.15
Consensus pattern (41 bp):
AGCCATTGCAAAACTCCAACAAAATCGACCGAGTGATGCCG
Found at i:56538054 original size:26 final size:26
Alignment explanation
Indices: 56538024--56538128 Score: 192
Period size: 26 Copynumber: 4.0 Consensus size: 26
56538014 ATGAATTCCC
56538024 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56538050 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
56538076 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
56538102 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
56538128 A
1 A
56538129 CCAATTTGTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:56545162 original size:26 final size:26
Alignment explanation
Indices: 56545132--56545239 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
56545122 TGAATTTCCC
56545132 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56545158 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
56545184 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
56545210 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
56545236 ATCA
1 ATCA
56545240 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:56547643 original size:30 final size:31
Alignment explanation
Indices: 56547604--56547780 Score: 239
Period size: 31 Copynumber: 5.7 Consensus size: 31
56547594 TGTGTACCAT
56547604 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
56547635 GTG-AAAGTGGAAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
56547665 GTGAAAAATGGCAGCTTTGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
56547696 GTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* **
56547727 GTGAAAAGTGGTAGCTCCACCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
56547758 GTGAATAGTGATAGCTTCGGCTA
1 GTGAAAAGTGGTAGCTTCGGCTA
56547781 TCGAATGTGA
Statistics
Matches: 124, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
30 28 0.23
31 96 0.77
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:56554238 original size:41 final size:41
Alignment explanation
Indices: 56554176--56554274 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
56554166 CGCTCGACAT
*
56554176 TCGAGCCCTTGCAAAAGTCCAACAAAATCGACCGAGTGACG
1 TCGAGCCCTTGCAAAACTCCAACAAAATCGACCGAGTGACG
* * **
56554217 TCGAGCTCTTGCGAAACTCCAACAAAATCGAGTGAGTGACG
1 TCGAGCCCTTGCAAAACTCCAACAAAATCGACCGAGTGACG
* *
56554258 CTCTAGCCCTTGGAAAA
1 -TCGAGCCCTTGCAAAA
56554275 AGTCCAAGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
41 36 0.75
42 12 0.25
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.18
Consensus pattern (41 bp):
TCGAGCCCTTGCAAAACTCCAACAAAATCGACCGAGTGACG
Found at i:56554688 original size:21 final size:22
Alignment explanation
Indices: 56554664--56554715 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
56554654 TAACGTTTAG
*
56554664 AATTCTTTAAAATT-TTTAATT
1 AATTGTTTAAAATTGTTTAATT
*
56554685 AATTGTTT-ACATTGTTTAATT
1 AATTGTTTAAAATTGTTTAATT
56554706 AATTGTTTAA
1 AATTGTTTAA
56554716 TTAATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 4 0.15
21 22 0.81
22 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (22 bp):
AATTGTTTAAAATTGTTTAATT
Found at i:56554707 original size:4 final size:4
Alignment explanation
Indices: 56554700--56554750 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
56554690 TTTACATTGT
** *
56554700 TTAA TTAA TTGT TTAA TTAA TTAA TTAA TT-- TTAA TTAA -TAT TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA
56554745 TTAA TT
1 TTAA TT
56554751 TTTAGTGCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 2 0.05
4 34 0.89
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (4 bp):
TTAA
Found at i:56554710 original size:12 final size:11
Alignment explanation
Indices: 56554674--56554754 Score: 68
Period size: 11 Copynumber: 7.7 Consensus size: 11
56554664 AATTCTTTAA
56554674 AATTTTTAATT
1 AATTTTTAATT
56554685 AATTGTTTACA-T
1 AATT-TTTA-ATT
*
56554697 --TGTTTAATT
1 AATTTTTAATT
56554706 AATTGTTTAATT
1 AATT-TTTAATT
56554718 AA---TTAATT
1 AATTTTTAATT
56554726 AA-TTTTAATT
1 AATTTTTAATT
*
56554736 AATATTTAATT
1 AATTTTTAATT
56554747 AATTTTTA
1 AATTTTTA
56554755 GTGCATATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
8 9 0.16
9 5 0.09
10 9 0.16
11 19 0.33
12 14 0.25
13 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (11 bp):
AATTTTTAATT
Found at i:56557785 original size:21 final size:20
Alignment explanation
Indices: 56557759--56557798 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
56557749 GCATTACGGT
56557759 AAGTTGGGCCTCAAGGGGCTG
1 AAGTTGGGCC-CAAGGGGCTG
*
56557780 AAGTTGGGCCCAATGGGCT
1 AAGTTGGGCCCAAGGGGCT
56557799 TTCGGGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (20 bp):
AAGTTGGGCCCAAGGGGCTG
Found at i:56558174 original size:20 final size:19
Alignment explanation
Indices: 56558141--56558219 Score: 85
Period size: 20 Copynumber: 4.2 Consensus size: 19
56558131 ATACGTGGGA
56558141 TATGATAT--ACATGATTG
1 TATGATATGCACATGATTG
*
56558158 ATATGATATGCACATGACATG
1 -TATGATATGCACATGA-TTG
56558179 TATGATATGCACATGATATG
1 TATGATATGCACATGAT-TG
56558199 TATGA-AGTGCACATGA-TG
1 TATGATA-TGCACATGATTG
56558217 TAT
1 TAT
56558220 TCATAAATGC
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
18 13 0.24
19 1 0.02
20 38 0.70
21 2 0.04
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.34
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:56558347 original size:53 final size:51
Alignment explanation
Indices: 56558265--56558388 Score: 196
Period size: 53 Copynumber: 2.4 Consensus size: 51
56558255 GAGGAAGTGC
* *
56558265 AAAAGGGCTTATGCCTCAGTTTATTGAAAAGGGCTTATGCCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTT-TG-CCCCAGTTTACCG
56558318 AAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAGTTTACCG
*
56558369 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
56558389 ATTAAAAGAG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
50 10 0.15
51 22 0.32
52 2 0.03
53 34 0.50
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:56558363 original size:25 final size:26
Alignment explanation
Indices: 56558265--56558388 Score: 180
Period size: 26 Copynumber: 4.8 Consensus size: 26
56558255 GAGGAAGTGC
* **
56558265 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
56558291 AAAAGGGCTTATGCCCCCAGTTTACCG
1 AAAAGGGCTTATG-CCCCAGTTTACCG
*
56558318 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
56558344 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
56558369 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
56558389 ATTAAAAGAG
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
25 33 0.36
26 35 0.38
27 23 0.25
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:56565711 original size:19 final size:19
Alignment explanation
Indices: 56565675--56565713 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
56565665 TTTTCATCAT
* *
56565675 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
56565694 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
56565713 A
1 A
56565714 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:56566419 original size:28 final size:28
Alignment explanation
Indices: 56566372--56566436 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
56566362 AAATTAACCC
*
56566372 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
56566400 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
56566428 TAGGGGTAT
1 TAGGGGTAT
56566437 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:56569128 original size:12 final size:12
Alignment explanation
Indices: 56569078--56569131 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
56569068 TTTTTCACCT
56569078 TTATTTTTA-T-
1 TTATTTTTATTA
56569088 TTA-TTTTATTA
1 TTATTTTTATTA
** *
56569099 TTATTTAAACTA
1 TTATTTTTATTA
*
56569111 TCATTTTTATTA
1 TTATTTTTATTA
56569123 TTATTTTTA
1 TTATTTTTA
56569132 AATCCATTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
9 5 0.15
10 4 0.12
11 3 0.09
12 21 0.64
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:56569284 original size:15 final size:15
Alignment explanation
Indices: 56569266--56569300 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
56569256 ACGTTTATTT
*
56569266 TATATAAATTATGTA
1 TATATAAATTATGCA
*
56569281 TATATATATTATGCA
1 TATATAAATTATGCA
56569296 TATAT
1 TATAT
56569301 TTTTAGTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (15 bp):
TATATAAATTATGCA
Found at i:56569313 original size:23 final size:23
Alignment explanation
Indices: 56569287--56569354 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
56569277 TGTATATATA
56569287 TATTATGCATATATTTTTAGTAC
1 TATTATGCATATATTTTTAGTAC
* * * *
56569310 TATTATGTATATACTTTTCATTCC
1 TATTATGCATATA-TTTTTAGTAC
*
56569334 TATTATTGCGTATATATTTTA
1 TATTA-TGCATATAT-TTTTA
56569355 ATATATATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
23 12 0.34
24 13 0.37
25 10 0.29
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.54
Consensus pattern (23 bp):
TATTATGCATATATTTTTAGTAC
Found at i:56569336 original size:24 final size:23
Alignment explanation
Indices: 56569287--56569353 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 23
56569277 TGTATATATA
*
56569287 TATTATGCATATATTTTTAGTAC
1 TATTATGCATATATTTTCAGTAC
* * *
56569310 TATTATGTATATACTTTTCATTCC
1 TATTATGCATATA-TTTTCAGTAC
56569334 TATTATTGCGTATATATTTT
1 TATTA-TGC--ATATATTTT
56569354 AATATATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 12 0.34
24 12 0.34
25 2 0.06
26 4 0.11
27 5 0.14
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.55
Consensus pattern (23 bp):
TATTATGCATATATTTTCAGTAC
Found at i:56569568 original size:27 final size:29
Alignment explanation
Indices: 56569504--56569568 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
56569494 TATAACTACA
*
56569504 TTATGTATATATTTCATATATATATCATT
1 TTATGTATATATTTAATATATATATCATT
* * * *
56569533 GTATATATATTTTTAATAT-TATAT-TTT
1 TTATGTATATATTTAATATATATATCATT
56569560 TTATGTATA
1 TTATGTATA
56569569 GTATGTATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 9 0.31
28 5 0.17
29 15 0.52
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (29 bp):
TTATGTATATATTTAATATATATATCATT
Found at i:56571772 original size:41 final size:40
Alignment explanation
Indices: 56571636--56571771 Score: 150
Period size: 41 Copynumber: 3.4 Consensus size: 40
56571626 GCGTTTCTAG
* * **
56571636 ATAGCTTCGGCTATATAAAGCACTTAGTGTGTGA-ATCGGA
1 ATAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGAT-TAA
* * *
56571676 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGGTTGAG
1 ATAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGATT-AA
*
56571717 ATAGCTTTGGCTATGA-AAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCGGCTAT-ATAAGGCACTTAGTGTGCGAGATTA-A
56571758 ATAGCTTCGGCTAT
1 ATAGCTTCGGCTAT
56571772 GCTTTAGCAC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 32 0.40
41 47 0.59
42 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (40 bp):
ATAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGATTAA
Found at i:56573026 original size:65 final size:65
Alignment explanation
Indices: 56572881--56573016 Score: 166
Period size: 65 Copynumber: 2.1 Consensus size: 65
56572871 CACACACGGG
** * *
56572881 CGTGTGACATAAGTCAGTATACCCCCTAAATGGCACATAGCCTAGCACACAGGCGTGTGGTCGGC
1 CGTGTGACCCAAGTCAGTATACCCCCTAAATGGCACACAGCCTAGCACACAGGCGTGTGCTCGGC
** * * * *
56572946 CGTGTGACCCAAGTCAGTA-ACCCCTCTAAATTTCACACGGCCTAGGACACGGGCGTGTTCTCGG
1 CGTGTGACCCAAGTCAGTATACCCC-CTAAATGGCACACAGCCTAGCACACAGGCGTGTGCTCGG
56573010 C
65 C
56573011 CGTGTG
1 CGTGTG
56573017 GTGCAAGTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 5 0.08
65 55 0.92
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.21
Consensus pattern (65 bp):
CGTGTGACCCAAGTCAGTATACCCCCTAAATGGCACACAGCCTAGCACACAGGCGTGTGCTCGGC
Found at i:56574620 original size:38 final size:35
Alignment explanation
Indices: 56574561--56574661 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
56574551 TCAATCATGC
*
56574561 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
56574600 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
56574631 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
56574662 ACTGTAAACA
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:56574622 original size:31 final size:31
Alignment explanation
Indices: 56574584--56574665 Score: 155
Period size: 31 Copynumber: 2.6 Consensus size: 31
56574574 CCTTTTCATA
*
56574584 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
56574615 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
56574646 TTTCATATTTCATATTACTG
1 TTTCATATTTCATATTACTG
56574666 TAAACAGTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:56574904 original size:24 final size:24
Alignment explanation
Indices: 56574853--56574995 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
56574843 GCTTTATCAT
*
56574853 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
56574878 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
56574902 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
56574925 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
56574949 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
56574973 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
56574996 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:56574932 original size:47 final size:48
Alignment explanation
Indices: 56574853--56574994 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
56574843 GCTTTATCAT
* *
56574853 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
56574902 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
56574949 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
56574995 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:56574953 original size:71 final size:72
Alignment explanation
Indices: 56574852--56574995 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
56574842 TGCTTTATCA
*
56574852 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
56574917 GCCCTTT
66 GCCCTTT
* * **
56574924 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
56574987 AGCCCTTT
65 AGCCCTTT
56574995 T
1 T
56574996 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:56575071 original size:20 final size:20
Alignment explanation
Indices: 56575046--56575105 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
56575036 TATGATTACC
56575046 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
56575066 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
56575086 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
56575106 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:56575180 original size:25 final size:25
Alignment explanation
Indices: 56575148--56575195 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56575138 ATACATAAAC
* * *
56575148 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
56575173 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
56575196 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:56576791 original size:27 final size:27
Alignment explanation
Indices: 56576435--56576780 Score: 401
Period size: 27 Copynumber: 12.8 Consensus size: 27
56576425 GGGTATTTTA
* * *
56576435 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
56576462 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
56576489 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
56576516 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
56576543 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
56576570 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
56576597 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
56576624 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
56576651 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
56576678 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
*
56576705 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
56576732 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
56576759 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
56576781 CTTTGGTAAT
Statistics
Matches: 284, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.00
27 280 0.99
28 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:56576802 original size:27 final size:27
Alignment explanation
Indices: 56576730--56576956 Score: 178
Period size: 27 Copynumber: 8.4 Consensus size: 27
56576720 GAGGGTAAAA
***
56576730 TGGTAATTTTACAAATCGA-GGGTAAAA
1 TGGTAATTTTAC-AATCGAGGGGTATTT
* *
56576757 CGGTAATTCTATA-AATCGA-GGGTACTT
1 TGGTAATT-T-TACAATCGAGGGGTATTT
56576784 TGGTAATTTTACAAGTCGA-GGGTATTT
1 TGGTAATTTTACAA-TCGAGGGGTATTT
*** *
56576811 CAATAATTTTACAGGTCGA-GGGTATTT
1 TGGTAATTTTACA-ATCGAGGGGTATTT
** * *
56576838 CAGTAATTTCACAAAT-TAGGGGTATTT
1 TGGTAATTTTAC-AATCGAGGGGTATTT
* *
56576865 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCGAGGGGTATTT
* * *
56576892 TGATAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCGAGGGGTATTT
* *
56576919 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCGAGGGGTATTT
56576946 TGGTAATTTTA
1 TGGTAATTTTA
56576957 TAAACCAAAG
Statistics
Matches: 172, Mismatches: 20, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
25 2 0.01
26 6 0.03
27 160 0.93
28 2 0.01
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
TGGTAATTTTACAATCGAGGGGTATTT
Found at i:56576915 original size:81 final size:82
Alignment explanation
Indices: 56576776--56576961 Score: 225
Period size: 81 Copynumber: 2.3 Consensus size: 82
56576766 TATAAATCGA
* * * ** *
56576776 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTCAATAATTTTACAACTAGAGGGTATTTCA
*
56576840 GTAATTTCACAAATTAG
66 GTAATTTCACAAACTAG
** *
56576857 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTCAATAATTTTAC-AACTAGAGGGTATTTC
* *
56576920 GGTAATTTTACAAACTAG
65 AGTAATTTCACAAACTAG
*
56576938 GGGTATTTTGGTAATTTTATAAAC
1 GGGTATTTTGGTAATTTTACAAAC
56576962 CAAAGTATTT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 83 0.92
82 7 0.08
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (82 bp):
GGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTCAATAATTTTACAACTAGAGGGTATTTCA
GTAATTTCACAAACTAG
Found at i:56576961 original size:27 final size:27
Alignment explanation
Indices: 56576830--56576961 Score: 210
Period size: 27 Copynumber: 4.9 Consensus size: 27
56576820 TACAGGTCGA
** * *
56576830 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
56576857 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
56576884 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
56576911 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
56576938 GGGTATTTTGGTAATTTTATAAAC
1 GGGTATTTTGGTAATTTTACAAAC
56576962 CAAAGTATTT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:56579800 original size:30 final size:31
Alignment explanation
Indices: 56579764--56579823 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
56579754 CCTTTTCATA
56579764 TTTCATATTTCATAATACT-GGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
56579794 TTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTCATATTTCATAATACTGGGCCGAAGCC
56579824 CATATTTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:56580091 original size:24 final size:24
Alignment explanation
Indices: 56580027--56580169 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
56580017 GCTTTATCAT
*
56580027 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
56580052 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
56580075 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
56580099 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
56580123 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
56580147 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
56580170 TCACTTCCTC
Statistics
Matches: 112, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
23 17 0.15
24 87 0.78
25 8 0.07
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:56580249 original size:11 final size:11
Alignment explanation
Indices: 56580219--56580272 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
56580209 TTATGATTAC
56580219 TCATGTGCATA
1 TCATGTGCATA
*
56580230 TCA--TACATA
1 TCATGTGCATA
56580239 TCATGTGCATA
1 TCATGTGCATA
*
56580250 TCA--TACAT-
1 TCATGTGCATA
56580258 TCATGTGCATA
1 TCATGTGCATA
56580269 TCAT
1 TCAT
56580273 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:56580263 original size:19 final size:20
Alignment explanation
Indices: 56580219--56580277 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
56580209 TTATGATTAC
56580219 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
56580239 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
56580258 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
56580278 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:56580352 original size:25 final size:25
Alignment explanation
Indices: 56580320--56580367 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56580310 ATACATAAAC
* * *
56580320 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
56580345 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
56580368 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:56581615 original size:27 final size:27
Alignment explanation
Indices: 56581595--56581935 Score: 333
Period size: 27 Copynumber: 12.9 Consensus size: 27
56581585 AGGGTATTTT
56581595 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
56581622 A-TAATTTTG-AAATCAAGGGT-AAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
56581646 AGTAATTTTGTAAATCAAGGGT-AAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
** *
56581672 AGTAA-TTCATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
56581698 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
56581725 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
56581752 -GATAATTATGTAAATCTG-GGGTAAAAT
1 AG-TAATTTTGTAAATC-GAGGGTAAAAC
* * *
56581779 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTTTGTAAATCGA-GGGTAAAAC
* * * *
56581806 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
56581833 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTTTGTAAATC-GAGGGTAAAAC
* * *
56581860 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* **
56581887 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
56581914 -GTAATTCTATAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTA
56581936 CTTTAATCAA
Statistics
Matches: 275, Mismatches: 27, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.02
25 31 0.11
26 57 0.21
27 178 0.65
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:56581758 original size:54 final size:54
Alignment explanation
Indices: 56581596--56581935 Score: 383
Period size: 54 Copynumber: 6.4 Consensus size: 54
56581586 GGGTATTTTA
* * * * *
56581596 GTAATTTTGTAAATCGAGGGTAAAAC-ATAATTTTG-AAATCAAGGGT-AAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
56581647 GTAATTTTGTAAATCAAGGGT-AAACAGTAATTC-ATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
56581699 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
56581753 ATAATTATGTAAATCTG-GGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGA-GGGTAAAACG
* **
56581807 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
* * **
56581861 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
56581914 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
56581936 CTTTAATCAA
Statistics
Matches: 250, Mismatches: 28, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
50 4 0.02
51 35 0.14
52 22 0.09
53 35 0.14
54 151 0.60
55 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:56581785 original size:81 final size:82
Alignment explanation
Indices: 56581595--56581935 Score: 368
Period size: 81 Copynumber: 4.3 Consensus size: 82
56581585 AGGGTATTTT
* ** * * * * *
56581595 AGTAATTTTGTAAATCGAGGGTAAAA-CATAATTTTG-AAATCAAGGGT-AAACAGTAATTTTGT
1 AGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
*
56581657 AAATCAAGGGT-AAAC-
66 AAATCGAGGGTAAAACG
*
56581672 AGTAATTCA--TAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTG
1 AGTAATT-ATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTA
56581735 TAAATCGAGGGTAAAACG
65 TAAATCGAGGGTAAAACG
* *
56581753 A-TAATTATGTAAATCTG-GGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCT
1 AGTAATTATGTAAATC-GAGGGTAAAATGGTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCT
*
56581815 ATAAATCGAGGGTAAAA-T
64 ATAAATCGAGGGTAAAACG
* * * *
56581833 AGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTA
1 AGTAATTATGTAAATC-GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTA
*
56581897 CAAATCGAGGGTAAAAC-
65 TAAATCGAGGGTAAAACG
* *
56581914 -GTAATTCTATAAATCGAGGGTA
1 AGTAATTATGTAAATCGAGGGTA
56581936 CTTTAATCAA
Statistics
Matches: 229, Mismatches: 20, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
76 16 0.07
77 14 0.06
78 10 0.04
79 24 0.10
80 33 0.14
81 130 0.57
82 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (82 bp):
AGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
AAATCGAGGGTAAAACG
Found at i:56582043 original size:25 final size:26
Alignment explanation
Indices: 56581986--56582075 Score: 132
Period size: 25 Copynumber: 3.5 Consensus size: 26
56581976 GGTATTTCAG
*
56581986 TTTTACAAATTA-GGGTATTTTGGTAA
1 TTTTACAAACTAGGGGTA-TTTGGTAA
*
56582012 TTTTACAAACTAGGGGTA-TTGATAA
1 TTTTACAAACTAGGGGTATTTGGTAA
56582037 TTTTACAAACTAGGGGTATTTGGTAA
1 TTTTACAAACTAGGGGTATTTGGTAA
56582063 TTTTACAAA-TAGG
1 TTTTACAAACTAGG
56582076 TATTTTAGTA
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
25 28 0.47
26 26 0.44
27 5 0.08
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (26 bp):
TTTTACAAACTAGGGGTATTTGGTAA
Found at i:56582092 original size:25 final size:25
Alignment explanation
Indices: 56581986--56582090 Score: 117
Period size: 25 Copynumber: 4.2 Consensus size: 25
56581976 GGTATTTCAG
* *
56581986 TTTTACAAATTAGGGTATTTTGGTAA
1 TTTTACAAACTAGGGTA-TTTAGTAA
*
56582012 TTTTACAAACTAGGGGTATTGA-TAA
1 TTTTACAAACTA-GGGTATTTAGTAA
*
56582037 TTTTACAAACTAGGGGTATTTGGTAA
1 TTTTACAAACTA-GGGTATTTAGTAA
56582063 TTTTACAAA-TA-GGTATTTTAGTAA
1 TTTTACAAACTAGGGTA-TTTAGTAA
56582087 TTTT
1 TTTT
56582091 TAAACCAAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.06
24 11 0.16
25 25 0.36
26 25 0.36
27 5 0.07
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (25 bp):
TTTTACAAACTAGGGTATTTAGTAA
Found at i:56582092 original size:51 final size:50
Alignment explanation
Indices: 56581986--56582079 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 50
56581976 GGTATTTCAG
*
56581986 TTTTACAAATTAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTGATAA
1 TTTTACAAACTAGGGTATTTTGGTAATTTTACAAACTA-GGGTATTGATAA
56582037 TTTTACAAACTAGGGGTA-TTTGGTAATTTTACAAA-TA-GGTATT
1 TTTTACAAACTA-GGGTATTTTGGTAATTTTACAAACTAGGGTATT
56582080 TTAGTAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
48 6 0.15
50 2 0.05
51 28 0.68
52 5 0.12
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.41
Consensus pattern (50 bp):
TTTTACAAACTAGGGTATTTTGGTAATTTTACAAACTAGGGTATTGATAA
Found at i:56591689 original size:41 final size:40
Alignment explanation
Indices: 56591562--56591706 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
56591552 CTCGCACAAG
* * * *
56591562 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
56591602 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
56591642 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
56591683 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
56591707 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:56598098 original size:40 final size:39
Alignment explanation
Indices: 56598011--56598142 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 39
56598001 AACCAGCATG
* *
56598011 AATGCCTTTCGGGACTTAACTCGGTTATAATAACCCA-CAC
1 AATGCC-TTCGGGACTTAACCCGGTTATAATAA-CTAGCAC
56598051 GAATGCCTTCGGGACTTAACCCGGTTATAATAACTAGCAC
1 -AATGCCTTCGGGACTTAACCCGGTTATAATAACTAGCAC
** * *
56598091 AATTGCCTTC-GGATCTTAGTCCGGATATAGTAACTAGCAC
1 AA-TGCCTTCGGGA-CTTAACCCGGTTATAATAACTAGCAC
*
56598131 AAATCCCTTCGG
1 -AATGCCTTCGG
56598143 ATCTTAGTCT
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
39 7 0.09
40 63 0.80
41 9 0.11
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGTTATAATAACTAGCAC
Found at i:56598143 original size:40 final size:40
Alignment explanation
Indices: 56598071--56598158 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
56598061 GGGACTTAAC
* * *
56598071 CCGGTTATAATAACTAGCACAATTGCCTTCGGATCTTAGT
1 CCGGATATAATAACTAGCACAAATCCCTTCGGATCTTAGT
*
56598111 CCGGATATAGTAACTAGCACAAATCCCTTCGGATCTTAGT
1 CCGGATATAATAACTAGCACAAATCCCTTCGGATCTTAGT
*
56598151 CTGGATAT
1 CCGGATAT
56598159 CATCCGAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (40 bp):
CCGGATATAATAACTAGCACAAATCCCTTCGGATCTTAGT
Found at i:56601561 original size:40 final size:40
Alignment explanation
Indices: 56601505--56601684 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
56601495 TTTGAATGGT
* * *
56601505 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
56601545 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
*
56601585 ATCCGAGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
56601625 AACCGGGTTAAGTCCCGAGGGCATTTGTGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
56601666 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGTTAAT-TCCCGAAG
56601685 ACAATCGAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 123 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:56603164 original size:27 final size:27
Alignment explanation
Indices: 56603134--56603221 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
56603124 ATTACCAAAG
*
56603134 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
56603161 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
56603188 TACCATCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
56603215 TACCCTC
1 TACCCTC
56603222 AATTGTGAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:56603268 original size:27 final size:27
Alignment explanation
Indices: 56603238--56603354 Score: 105
Period size: 27 Copynumber: 4.4 Consensus size: 27
56603228 GAAATTCCTG
* *
56603238 AAATACCCTTA-TTGGGTAGAATTACCA
1 AAATACCCCTAGTT-GGTAAAATTACCA
*
56603265 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAGTTGGTAAAATTACCA
* * * * *
56603292 AAATACCACTGGTT-TTGAAATTACCG
1 AAATACCCCTAGTTGGTAAAATTACCA
* *
56603318 AAATA-CCCTCAATTTGTAAAATTACCA
1 AAATACCCCT-AGTTGGTAAAATTACCA
56603345 AAATACCCCT
1 AAATACCCCT
56603355 GATTTACAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.04
26 16 0.22
27 47 0.65
28 6 0.08
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATACCCCTAGTTGGTAAAATTACCA
Found at i:56603359 original size:27 final size:27
Alignment explanation
Indices: 56603257--56603393 Score: 129
Period size: 27 Copynumber: 5.1 Consensus size: 27
56603247 TATTGGGTAG
56603257 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * *
56603284 AATTACCAAAATACCACTGGTTT-TGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
56603310 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
56603337 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
56603364 AATTA-CAGAAATACCCTTGACTTTCTAA
1 AATTACCA-AAATACCCCTGA-TTTGTAA
56603392 AA
1 AA
56603394 ATTATAGAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
25 3 0.03
26 19 0.21
27 56 0.63
28 11 0.12
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:56603366 original size:80 final size:80
Alignment explanation
Indices: 56603227--56603378 Score: 195
Period size: 80 Copynumber: 1.9 Consensus size: 80
56603217 CCCTCAATTG
* * **
56603227 TGAAATTCCTGAAATACCCTTATTGGGTAGAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
1 TGAAATTCCTGAAATACCCTAATTGGGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA-CA
56603292 -AAATACCACTGGTTT
65 GAAATACCACTGGTTT
*
56603307 TGAAATTACC-GAAATACCCTCAATT-TGTAAAATTACCAAAATACCCCT-GATTTACAAAATTA
1 TGAAATT-CCTGAAATACCCT-AATTGGGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTA
56603369 CAGAAATACC
63 CAGAAATACC
56603379 CTTGACTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
79 3 0.05
80 55 0.87
81 5 0.08
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (80 bp):
TGAAATTCCTGAAATACCCTAATTGGGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAG
AAATACCACTGGTTT
Found at i:56603430 original size:27 final size:27
Alignment explanation
Indices: 56603335--56603442 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
56603325 CTCAATTTGT
** * *
56603335 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
56603362 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
56603389 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
56603418 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
56603443 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 41 0.61
28 7 0.10
29 19 0.28
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:56604406 original size:25 final size:25
Alignment explanation
Indices: 56604368--56604437 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
56604358 AGGAAATGCT
* *
56604368 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
56604393 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
56604418 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56604438 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:56604704 original size:30 final size:31
Alignment explanation
Indices: 56604657--56604740 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
56604647 CGCTTATAGT
*
56604657 AAAGGCTTC-GACCAGTGATATGATTTATG-
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
56604686 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
56604717 AAAGGCTTCGGCCCAGTGATATGA
1 AAAGGCTTCGGCCCAGTGATATGA
56604741 ATTAGGGCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
29 9 0.17
30 19 0.37
31 24 0.46
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:56606569 original size:33 final size:33
Alignment explanation
Indices: 56606512--56606574 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
56606502 CCACTAATTT
*
56606512 GGGCTAAGGCTCACACTGATACTGATACTGTAAA
1 GGGCTAAGGCTCACACTGAAACTGA-ACTGTAAA
56606546 GGGCTAAGGACT-A-ACTGAAACTGAACTGT
1 GGGCTAAGG-CTCACACTGAAACTGAACTGT
56606575 TACTGATACG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 5 0.19
33 10 0.37
34 10 0.37
35 2 0.07
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (33 bp):
GGGCTAAGGCTCACACTGAAACTGAACTGTAAA
Found at i:56637794 original size:40 final size:40
Alignment explanation
Indices: 56637730--56637878 Score: 131
Period size: 39 Copynumber: 3.8 Consensus size: 40
56637720 GCTACTCATT
* * **
56637730 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAACGCCTTCGGGACTTAGCCCGGATATCATAACCCGCA
* * *
56637770 CAAAGGCCTTCGGGACTTAACCCGGATATCATAACTCGCA
1 CAAACGCCTTCGGGACTTAGCCCGGATATCATAACCCGCA
** * * ***
56637810 CAATTGCCTTCGGG-CTTAGCCCGGGTATCACAATTTGCA
1 CAAACGCCTTCGGGACTTAGCCCGGATATCATAACCCGCA
** *
56637849 CAATTGCCTTCGGG-CTTAGCCTGGATATCA
1 CAAACGCCTTCGGGACTTAGCCCGGATATCA
56637879 CTCGAACATT
Statistics
Matches: 93, Mismatches: 16, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
39 48 0.52
40 45 0.48
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAACGCCTTCGGGACTTAGCCCGGATATCATAACCCGCA
Found at i:56637850 original size:39 final size:39
Alignment explanation
Indices: 56637766--56637879 Score: 147
Period size: 39 Copynumber: 2.9 Consensus size: 39
56637756 TATGGTAACC
** * *
56637766 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCATAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
56637806 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
56637845 TGCACAATTGCCTTCGGGCTTAGCCTGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
56637880 TCGAACATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 49 0.75
40 16 0.25
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:56648797 original size:18 final size:18
Alignment explanation
Indices: 56648770--56648823 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
56648760 TCAACTTCTT
*
56648770 ATAATTATAATGAAAATA
1 ATAATAATAATGAAAATA
** *
56648788 ATAATAATAATTCAAGTA
1 ATAATAATAATGAAAATA
56648806 ATAATAACATAATGAAAA
1 ATAAT-A-ATAATGAAAA
56648824 CCTTATTACA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 19 0.70
19 1 0.04
20 7 0.26
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (18 bp):
ATAATAATAATGAAAATA
Found at i:56651803 original size:40 final size:40
Alignment explanation
Indices: 56651748--56651911 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
56651738 TGAATGATAC
* * *
56651748 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
56651788 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
56651828 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
56651868 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
56651908 CCGG
1 CCGG
56651912 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:56651881 original size:80 final size:80
Alignment explanation
Indices: 56651748--56651925 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
56651738 TGAATGATAC
* * * * * *
56651748 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
56651812 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
56651828 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
56651893 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
56651908 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
56651926 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:56659922 original size:40 final size:40
Alignment explanation
Indices: 56659867--56660030 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
56659857 TGAATGATAC
* * *
56659867 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
56659907 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
56659947 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
56659987 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
56660027 CCGG
1 CCGG
56660031 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:56660000 original size:80 final size:80
Alignment explanation
Indices: 56659867--56660044 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
56659857 TGAATGATAC
* * * * * *
56659867 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
56659931 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
56659947 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
56660012 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
56660027 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
56660045 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:56662553 original size:31 final size:31
Alignment explanation
Indices: 56662518--56662581 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
56662508 CCTTTTCATA
*
56662518 TTTCATATTTCAT-TACACTGGGCCGAAGCCT
1 TTTCATATTTCATAT-CACTAGGCCGAAGCCT
*
56662549 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATATCACTAGGCCGAAGCCT
56662580 TT
1 TT
56662582 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATCACTAGGCCGAAGCCT
Found at i:56662893 original size:26 final size:25
Alignment explanation
Indices: 56662790--56662898 Score: 116
Period size: 25 Copynumber: 4.4 Consensus size: 25
56662780 CTGGAGGCCT
*
56662790 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
*
56662814 AGCCCTTTTGATAAATTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
56662839 AGCCCTTTTAATAAACTGAGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
56662864 AGCCCTTTTTCGGTAAACTGGGGC-AT
1 AGCCC-TTTT-GATAAACTGGGGCAAA
56662890 AGCCCTTTT
1 AGCCCTTTT
56662899 TGCACTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
23 7 0.10
24 12 0.17
25 33 0.46
26 10 0.14
27 10 0.14
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:56662969 original size:20 final size:20
Alignment explanation
Indices: 56662946--56663012 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
56662936 TTATGAATAC
56662946 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
56662966 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
56662986 ATCATGTGCATATCATAACA-
1 ATCATGTGCATATCAT-ACAT
56663006 ATCATGT
1 ATCATGT
56663013 ATATCAAATC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56662976 original size:40 final size:39
Alignment explanation
Indices: 56662932--56663012 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
56662922 CCCAACCCAA
56662932 TGCATTATGAATAC-ATCATGTGCATATCAT-ACATATCATG
1 TGCA-TAT-AATACAATCATGTGCATATCATAACA-ATCATG
*
56662972 TGCATATCATACATATCATGTGCATATCATAACAATCATG
1 TGCATATAATACA-ATCATGTGCATATCATAACAATCATG
56663012 T
1 T
56663013 ATATCAAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 27 0.73
41 3 0.08
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (39 bp):
TGCATATAATACAATCATGTGCATATCATAACAATCATG
Found at i:56662977 original size:11 final size:11
Alignment explanation
Indices: 56662946--56663001 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
56662936 TTATGAATAC
56662946 ATCATGTGCAT
1 ATCATGTGCAT
*
56662957 ATCA--TACAT
1 ATCATGTGCAT
56662966 ATCATGTGCAT
1 ATCATGTGCAT
*
56662977 ATCA--TACAT
1 ATCATGTGCAT
56662986 ATCATGTGCAT
1 ATCATGTGCAT
56662997 ATCAT
1 ATCAT
56663002 AACAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:56665954 original size:47 final size:47
Alignment explanation
Indices: 56665884--56666178 Score: 482
Period size: 47 Copynumber: 6.3 Consensus size: 47
56665874 CCCTTCGGGA
* * * *
56665884 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
56665931 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
56665978 CGTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
56666025 CTTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
56666072 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* * *
56666119 CTTATCACATATATGCATATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
56666166 CTTACCACATATA
1 CTTATCACATATA
56666179 CATATCTTAT
Statistics
Matches: 234, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 234 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:56675321 original size:31 final size:31
Alignment explanation
Indices: 56675286--56675349 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
56675276 CCTTTTCGTA
56675286 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
56675317 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
56675348 TT
1 TT
56675350 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:56675598 original size:24 final size:25
Alignment explanation
Indices: 56675558--56675665 Score: 123
Period size: 25 Copynumber: 4.4 Consensus size: 25
56675548 CTGGAGGCCT
56675558 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
56675582 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
* *
56675607 AGCCCTTTTAATGAACTGGGCCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
* * *
56675632 AGCCCTTTTCAGTAAACTAGGGC-AT
1 AGCCCTTTT-AATAAACTGGGGCAAA
56675657 AGCCCTTTT
1 AGCCCTTTT
56675666 TGCACTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
23 7 0.10
24 13 0.18
25 43 0.60
26 9 0.12
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:56675661 original size:50 final size:48
Alignment explanation
Indices: 56675557--56675665 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 48
56675547 ACTGGAGGCC
* * *
56675557 TAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTGATAAACTGGGGCAA
1 TAGCC-CTTTTAATAACTGGGCCAAAGCCCTTTTCATAAACTAGGGCAA
*
56675606 AAGCCCTTTTAATGAACTGGGCCAAAAGCCCTTTTCAGTAAACTAGGGC-A
1 TAGCCCTTTTAAT-AACTGGGCC-AAAGCCCTTTTCA-TAAACTAGGGCAA
56675656 TAGCCCTTTT
1 TAGCCCTTTT
56675666 TGCACTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
48 8 0.15
49 12 0.23
50 22 0.42
51 10 0.19
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (48 bp):
TAGCCCTTTTAATAACTGGGCCAAAGCCCTTTTCATAAACTAGGGCAA
Found at i:56675736 original size:20 final size:19
Alignment explanation
Indices: 56675709--56675778 Score: 97
Period size: 20 Copynumber: 3.6 Consensus size: 19
56675699 TGCATTATGA
*
56675709 ATAC-ATCATGTGCATACC
1 ATACAATCATGTGCATATC
*
56675727 ATACATATCATATGCATATC
1 ATACA-ATCATGTGCATATC
56675747 ATACAATCATGTGCATATC
1 ATACAATCATGTGCATATC
56675766 ATATCAATCATGT
1 ATA-CAATCATGT
56675779 ATATCAAATC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
18 4 0.09
19 16 0.35
20 26 0.57
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (19 bp):
ATACAATCATGTGCATATC
Found at i:56675746 original size:11 final size:11
Alignment explanation
Indices: 56675713--56675769 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
56675703 TTATGAATAC
*
56675713 ATCATGTGCAT
1 ATCATATGCAT
*
56675724 ACCATA--CAT
1 ATCATATGCAT
56675733 ATCATATGCAT
1 ATCATATGCAT
56675744 ATCATA--CA-
1 ATCATATGCAT
*
56675752 ATCATGTGCAT
1 ATCATATGCAT
56675763 ATCATAT
1 ATCATAT
56675770 CAATCATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
8 5 0.14
9 10 0.28
10 2 0.06
11 19 0.53
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:56680173 original size:20 final size:20
Alignment explanation
Indices: 56680150--56680195 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
56680140 CTAAAATTTT
56680150 GATACCAGACAAAAAATATC
1 GATACCAGACAAAAAATATC
* * **
56680170 GATACCATATAAAAGGTATC
1 GATACCAGACAAAAAATATC
56680190 GATACC
1 GATACC
56680196 CTATCAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.20
Consensus pattern (20 bp):
GATACCAGACAAAAAATATC
Found at i:56683987 original size:31 final size:31
Alignment explanation
Indices: 56683952--56684015 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
56683942 CCTTTTCATG
56683952 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
56683983 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
56684014 TT
1 TT
56684016 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:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:56684258 original size:24 final size:24
Alignment explanation
Indices: 56684221--56684349 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
56684211 CTGGAGGCCT
*
56684221 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
56684246 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56684270 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
56684293 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
56684317 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56684341 AGCCCTTTT
1 AGCCCTTTT
56684350 TCACTTCCTC
Statistics
Matches: 100, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.23
24 73 0.73
25 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:56684284 original size:47 final size:48
Alignment explanation
Indices: 56684221--56684348 Score: 204
Period size: 47 Copynumber: 2.7 Consensus size: 48
56684211 CTGGAGGCCT
*
56684221 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
**
56684270 AGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
*
56684317 AGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTT
56684349 TTCACTTCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
47 44 0.59
48 27 0.36
49 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
Found at i:56684424 original size:20 final size:20
Alignment explanation
Indices: 56684399--56684439 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
56684389 TTATGATTAC
*
56684399 ATCATGTGCATATTATACAT
1 ATCATGTGCATATCATACAT
56684419 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
56684439 A
1 A
56684440 CCATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56684514 original size:25 final size:25
Alignment explanation
Indices: 56684482--56684529 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56684472 ATACATAAAC
* * *
56684482 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
56684507 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
56684530 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:56686582 original size:48 final size:48
Alignment explanation
Indices: 56686498--56686772 Score: 338
Period size: 48 Copynumber: 5.7 Consensus size: 48
56686488 AAAGTACTAG
* ** * *
56686498 TGCCATGTCCCCA-ACATGGTCTTACATGAATC-CACATATCATCGTCGA
1 TGCCATGT-CCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCGA
* * * * * *
56686546 TACCATATCCCAGACATGGTATTACACTGGCACACATATCATCACCGA
1 TGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGA
* *
56686594 TGCCATGTCCTAGACATGGTCTTACACAAGCACATATATCATCGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGA
* * *
56686642 TGCCATGTCCCAGACATGATCTTACACAGACACATATATCATCGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGA
* *
56686690 TGCCATGTCCCAGACATGGTCTTACACAGGCACATATATTATCGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGA
* *
56686738 TTCCATGTCCCAAACATGGTCTTACACAGGCACAT
1 TGCCATGTCCCAGACATGGTCTTACACAGGCACAT
56686773 CTCAGATGTC
Statistics
Matches: 196, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
47 5 0.03
48 191 0.97
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGA
Found at i:56686772 original size:96 final size:96
Alignment explanation
Indices: 56686498--56686810 Score: 355
Period size: 96 Copynumber: 3.3 Consensus size: 96
56686488 AAAGTACTAG
* * * * * *
56686498 TGCCATGTCCCCA-ACATGGTCTTACATGAATC-CACATATCATCGTCGATACCATATCCCAGAC
1 TGCCATGT-CCCAGACATGGTCTTACA-CAAGCACATATATCATCGCCGATGCCATGTCCCAGAC
* * * **
56686561 ATGGTATTACACTGGCACACATATCATCACCGA
64 ATGGTCTTACACAGGCACATATATCATCGTCGA
*
56686594 TGCCATGTCCTAGACATGGTCTTACACAAGCACATATATCATCGCCGATGCCATGTCCCAGACAT
1 TGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCGATGCCATGTCCCAGACAT
* *
56686659 GATCTTACACAGACACATATATCATCGTCGA
66 GGTCTTACACAGGCACATATATCATCGTCGA
* * * * *
56686690 TGCCATGTCCCAGACATGGTCTTACACAGGCACATATATTATCGCTGATTCCATGTCCCAAACAT
1 TGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCGATGCCATGTCCCAGACAT
* *
56686755 GGTCTTACACAGGCACATCTCA-GAT-GTCGA
66 GGTCTTACACAGGCACATAT-ATCATCGTCGA
* * *
56686785 TACGATGTCCCAAACATGGTCTTACA
1 TGCCATGTCCCAGACATGGTCTTACA
56686811 TGGAATCTCA
Statistics
Matches: 187, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
95 34 0.18
96 152 0.81
97 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (96 bp):
TGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCGATGCCATGTCCCAGACAT
GGTCTTACACAGGCACATATATCATCGTCGA
Found at i:56687054 original size:14 final size:15
Alignment explanation
Indices: 56687027--56687055 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56687017 TCATGTAATG
56687027 TCAAGTATTAACATT
1 TCAAGTATTAACATT
56687042 TCAAGTA-TAACATT
1 TCAAGTATTAACATT
56687056 GCGTTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (15 bp):
TCAAGTATTAACATT
Found at i:56689285 original size:13 final size:13
Alignment explanation
Indices: 56689267--56689291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56689257 CCAAGCTCAC
56689267 GCCTGTGTCCTTG
1 GCCTGTGTCCTTG
56689280 GCCTGTGTCCTT
1 GCCTGTGTCCTT
56689292 CACACGGCCT
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:0.00, C:0.32, G:0.28, T:0.40
Consensus pattern (13 bp):
GCCTGTGTCCTTG
Found at i:56690385 original size:10 final size:10
Alignment explanation
Indices: 56690370--56690400 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
56690360 ATTAAATCGA
56690370 ATACTTTCAC
1 ATACTTTCAC
56690380 ATACTTTCAC
1 ATACTTTCAC
56690390 ATACTTTCAC
1 ATACTTTCAC
56690400 A
1 A
56690401 CCCTGACCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
ATACTTTCAC
Found at i:56691160 original size:38 final size:38
Alignment explanation
Indices: 56691112--56691349 Score: 323
Period size: 38 Copynumber: 6.2 Consensus size: 38
56691102 GGTACGAAGG
* * * *
56691112 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
56691150 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * ** * *
56691188 CCTGAATATTTTACCAGCACGAAGCTTGCGGGTTTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
*
56691227 GCCCGGATATAGTACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
56691266 CCCGGATATAATACCAGCACGAAGCTTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
56691304 CCTGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
56691342 CCCGGATA
1 CCCGGATA
56691350 GACATCGAAT
Statistics
Matches: 175, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 138 0.79
39 10 0.06
40 27 0.15
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:56691319 original size:116 final size:115
Alignment explanation
Indices: 56691111--56691349 Score: 345
Period size: 116 Copynumber: 2.1 Consensus size: 115
56691101 AGGTACGAAG
* * * *
56691111 GCCCGAATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATACCAGCACAAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCC
** * * *
56691176 TGCGGGATTTAACCTGAATATTTTACCAGCACGAAGCTTGCGGGTTTTTAA
66 TGCGGGATTTAACCTGAATATAATACCAGCACGAAGCCTGCGAG-ATTTAA
* * *
56691227 GCCCGGATATAGTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCT
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCC
*
56691292 TGCGGGATTTAACCTGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
66 TGCGGGATTTAACCTGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
56691342 -CCCGGATA
1 GCCCGGATA
56691350 GACATCGAAT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
114 8 0.07
115 5 0.05
116 97 0.88
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (115 bp):
GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCC
TGCGGGATTTAACCTGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:56695896 original size:15 final size:15
Alignment explanation
Indices: 56695854--56695915 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
56695844 CATGAAAACA
56695854 AAGATAAA-AAAGTCC
1 AAGATAAAGAAA-TCC
* * *
56695869 GAGACAAAAAAATCC
1 AAGATAAAGAAATCC
*
56695884 ATGATAAAGAAATCC
1 AAGATAAAGAAATCC
*
56695899 AAGATACAGAAATCC
1 AAGATAAAGAAATCC
56695914 AA
1 AA
56695916 AATACAATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
15 35 0.92
16 3 0.08
ACGTcount: A:0.58, C:0.16, G:0.13, T:0.13
Consensus pattern (15 bp):
AAGATAAAGAAATCC
Found at i:56695920 original size:15 final size:15
Alignment explanation
Indices: 56695891--56695921 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56695881 TCCATGATAA
*
56695891 AGAAATCCAAGATAC
1 AGAAATCCAAAATAC
56695906 AGAAATCCAAAATAC
1 AGAAATCCAAAATAC
56695921 A
1 A
56695922 ATATCATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.19, G:0.10, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAAATAC
Found at i:56698075 original size:29 final size:29
Alignment explanation
Indices: 56698036--56698114 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
56698026 CTTAATAATC
*
56698036 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
56698066 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
56698095 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56698115 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:56704407 original size:40 final size:40
Alignment explanation
Indices: 56704370--56704554 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
56704360 GCTACTCGTT
* *
56704370 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
56704410 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
56704450 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
56704490 CAAATGCCTTC-GGATCTT-AGTCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
56704530 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56704555 CATCATTCGA
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 24 0.19
40 102 0.80
41 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56704474 original size:80 final size:80
Alignment explanation
Indices: 56704370--56704554 Score: 261
Period size: 80 Copynumber: 2.3 Consensus size: 80
56704360 GCTACTCGTT
*
56704370 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTT-ACCC
*
56704433 GGATTTAGTAAC-TAGCA
63 GGATATAGTAACTTAGCA
* **
56704450 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTACCCGGA
*
56704515 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
56704530 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56704555 CATCATTCGA
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
79 35 0.37
80 58 0.61
81 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTACCCGGA
TATAGTAACTTAGCA
Found at i:56710743 original size:27 final size:28
Alignment explanation
Indices: 56710687--56710756 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
56710677 AAATTTGTAC
56710687 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
56710715 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
56710742 AGCACTAAGCGTGCG
1 AGCACTAAGTGTGCG
56710757 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:56710767 original size:27 final size:27
Alignment explanation
Indices: 56710711--56710768 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
56710701 GAGTTTGATC
* * * *
56710711 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGCGTGCGAGCTCACT
56710738 ATATAGCACTAAGCGTGCG-GACTCACT
1 ATATAGCACTAAGCGTGCGAG-CTCACT
56710765 ATAT
1 ATAT
56710769 GCTTTTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (27 bp):
ATATAGCACTAAGCGTGCGAGCTCACT
Found at i:56714307 original size:40 final size:40
Alignment explanation
Indices: 56714270--56714455 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
56714260 GCTACTCGTT
*
56714270 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
56714310 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
56714350 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
56714390 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
56714431 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56714456 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 118 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:56719121 original size:29 final size:29
Alignment explanation
Indices: 56719082--56719160 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
56719072 CTTAATAATC
*
56719082 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
56719112 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
56719141 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56719161 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:56725167 original size:13 final size:14
Alignment explanation
Indices: 56725151--56725179 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56725141 ACAGCCAAAA
56725151 TATACC-AAATCAT
1 TATACCAAAATCAT
56725164 TATACCAAAATCAT
1 TATACCAAAATCAT
56725178 TA
1 TA
56725180 CAATTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (14 bp):
TATACCAAAATCAT
Found at i:56726026 original size:40 final size:40
Alignment explanation
Indices: 56725919--56726026 Score: 92
Period size: 40 Copynumber: 2.7 Consensus size: 40
56725909 TATCTCGGTA
** * * * *
56725919 TCGCACACTTAGTGCCTCATACAGCCAAAGCTATTCCAAC
1 TCGCACACTTAGTGCCAAACATAGTCGAAGCTATTCCAAC
**** * *
56725959 TCGCACACTTAGTGCCATTTGTTGTCGAAGCTATTTCGAAC
1 TCGCACACTTAGTGCCAAACATAGTCGAAGCTA-TTCCAAC
56726000 -CGCACACTTAGTGCCAAACATAGTCGA
1 TCGCACACTTAGTGCCAAACATAGTCGA
56726027 TTATCATCAT
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
40 47 0.89
41 6 0.11
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (40 bp):
TCGCACACTTAGTGCCAAACATAGTCGAAGCTATTCCAAC
Found at i:56733517 original size:16 final size:16
Alignment explanation
Indices: 56733496--56733528 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
56733486 TGACACTTAG
56733496 GCTTAACATCTTTTAT
1 GCTTAACATCTTTTAT
56733512 GCTTAACATCTTTTAT
1 GCTTAACATCTTTTAT
56733528 G
1 G
56733529 TTTCCAACGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (16 bp):
GCTTAACATCTTTTAT
Found at i:56734677 original size:131 final size:130
Alignment explanation
Indices: 56734443--56734700 Score: 471
Period size: 131 Copynumber: 2.0 Consensus size: 130
56734433 CTGCCCCTTG
*
56734443 TGTAACAGCCCTAAATTGACCCTAGTCGAAATGTGGTTTCGGGACCACAAAACCGAGTCATAAAA
1 TGTAACAGCCCTAAATTGACCATAGTCGAAATGTGGTTTCGGGACCACAAAACCGAGTCATAAAA
56734508 TTTAGTTAAAATTTTATTAACATACCTTATATGTGTGGTAGTACTTGTATAAAAATTTGATGTAG
66 TTTAGTTAAAATTTTATTAACATACCTTATATGTGTGGTAGTACTTGTATAAAAA-TTGATGTAG
56734573 T
130 T
*
56734574 TGTAACAGCCCTAAATTGACCATAGTCGGAATGTGGTTTCGGGACCACAAAACCGAGTCATAAAA
1 TGTAACAGCCCTAAATTGACCATAGTCGAAATGTGGTTTCGGGACCACAAAACCGAGTCATAAAA
**
56734639 TTTAGTTAAAATTTTATTTGCATACCTTATATGTGTGGTAGTACTTGTATAAAAATTGATGT
66 TTTAGTTAAAATTTTATTAACATACCTTATATGTGTGGTAGTACTTGTATAAAAATTGATGT
56734701 TTTAATTTTT
Statistics
Matches: 123, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
130 7 0.06
131 116 0.94
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (130 bp):
TGTAACAGCCCTAAATTGACCATAGTCGAAATGTGGTTTCGGGACCACAAAACCGAGTCATAAAA
TTTAGTTAAAATTTTATTAACATACCTTATATGTGTGGTAGTACTTGTATAAAAATTGATGTAGT
Found at i:56735642 original size:14 final size:14
Alignment explanation
Indices: 56735623--56735650 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56735613 TTCGGAAGTG
56735623 TATATATATACATA
1 TATATATATACATA
56735637 TATATATATACATA
1 TATATATATACATA
56735651 AGTATGCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATACATA
Found at i:56736177 original size:27 final size:28
Alignment explanation
Indices: 56736121--56736190 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
56736111 AAATTGGTAC
56736121 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
56736149 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
56736176 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56736191 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:56743572 original size:14 final size:14
Alignment explanation
Indices: 56743553--56743580 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56743543 TTTGGAAGTG
56743553 TATATATATACATA
1 TATATATATACATA
56743567 TATATATATACATA
1 TATATATATACATA
56743581 AGTATGCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATACATA
Found at i:56744111 original size:27 final size:28
Alignment explanation
Indices: 56744055--56744124 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
56744045 AAATTGGTAC
56744055 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
56744083 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
56744110 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56744125 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:56746606 original size:13 final size:14
Alignment explanation
Indices: 56746588--56746616 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56746578 ACAACCAAAG
56746588 TATACC-AAATCAT
1 TATACCAAAATCAT
56746601 TATACCAAAATCAT
1 TATACCAAAATCAT
56746615 TA
1 TA
56746617 CAATTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (14 bp):
TATACCAAAATCAT
Found at i:56748316 original size:24 final size:23
Alignment explanation
Indices: 56748287--56748368 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 23
56748277 GAATGTTGCG
* **
56748287 CACATAGTGCTTATTATGTTCGCA
1 CACATAGTGCTTAGTA-AATCGCA
*
56748311 CACATAGTGCCATAGTAAATCGCA
1 CACATAGTG-CTTAGTAAATCGCA
56748335 CACATAGTGCTATAGTAAATCGCA
1 CACATAGTGCT-TAGTAAATCGCA
56748359 CACATAGTGC
1 CACATAGTGC
56748369 ATTTGAGATT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 1 0.02
24 45 0.88
25 5 0.10
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (23 bp):
CACATAGTGCTTAGTAAATCGCA
Done.