Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 127 of 362
Found at i:42015837 original size:27 final size:28
Alignment explanation
Indices: 42015766--42015837 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
42015756 GGAGGAAGCG
*
42015766 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAAAATCTGT
*
42015794 TTCTAGTGGCTATGCCACAAAAATCTGT
1 TTCTGGTGGCTATGCCACAAAAATCTGT
*
42015822 TT-TGGTGGCTCTGCCA
1 TTCTGGTGGCTATGCCA
42015838 TAATATCTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 12 0.30
28 28 0.70
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAAAATCTGT
Found at i:42019073 original size:40 final size:40
Alignment explanation
Indices: 42018964--42019182 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
42018954 ACCCAAGTAT
* * * *
42018964 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
* ** *
42019002 CTTCGGGTCTTAGCCC-GATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
*
42019041 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
42019081 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATGC
* * * *
42019121 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAATCACTAGCACAAATGC
42019161 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
42019183 CATTCGAATA
Statistics
Matches: 149, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
38 23 0.15
39 25 0.17
40 97 0.65
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:42019133 original size:80 final size:80
Alignment explanation
Indices: 42018964--42019182 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 80
42018954 ACCCAAGTAT
* * * *
42018964 CTTCGGGAT-TTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCC-GATATGGT
1 CTTCGGGATCTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
*
42019026 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* *
42019041 CTTCGGGA-CTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGATCTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
*
42019105 -CAACTCGCACAAATGC
65 TC-ACTAGCACAAATGC
* * *
42019121 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGATCTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
42019183 CATTCGAATA
Statistics
Matches: 123, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
77 12 0.10
78 17 0.14
79 24 0.20
80 70 0.57
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGATCTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:42019174 original size:120 final size:117
Alignment explanation
Indices: 42018964--42019182 Score: 332
Period size: 120 Copynumber: 1.8 Consensus size: 117
42018954 ACCCAAGTAT
* * *
42018964 CTTCGGGATTTAGCCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGATATGGTCAC
1 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGATATAGTCAC
*
42019029 TAGCATAAATGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
66 TAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
* * *
42019081 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAG
1 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAG-CCCGATATAG
42019145 TCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
62 TCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
42019183 CATTCGAATA
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
116 1 0.01
117 11 0.12
118 18 0.20
119 16 0.18
120 45 0.49
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (117 bp):
CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGATATAGTCAC
TAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
Found at i:42028424 original size:40 final size:40
Alignment explanation
Indices: 42028376--42028642 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
42028366 GCAAACACAT
* *
42028376 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
42028416 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42028456 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42028496 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42028536 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42028576 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42028616 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
42028643 ATCCAATGTT
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:42034225 original size:40 final size:40
Alignment explanation
Indices: 42034177--42034443 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
42034167 GCAAACACAT
* *
42034177 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
42034217 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42034257 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42034297 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42034337 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42034377 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42034417 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
42034444 ATCCAATGTT
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:42040006 original size:40 final size:40
Alignment explanation
Indices: 42039923--42040142 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
42039913 ACCCAAGTAT
** * *
42039923 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
42039961 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
42040001 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
42040041 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
42040081 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
42040121 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
42040143 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 125 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:42045494 original size:28 final size:27
Alignment explanation
Indices: 42045460--42045563 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 27
42045450 CAGTGGGTGA
*
42045460 TATGCCACAAATGTCTGTTTCTGGTGGC
1 TATGCCACAAATATCTG-TTCTGGTGGC
*
42045488 TATGCCACAAATATCTGTTCTTGTGGC
1 TATGCCACAAATATCTGTTCTGGTGGC
* * * *
42045515 TCTGTCAC-AATATCTGTAGCTGGTGAC
1 TATGCCACAAATATCTGT-TCTGGTGGC
* *
42045542 TCTGTCAC-AATATCTGTTCTGG
1 TATGCCACAAATATCTGTTCTGG
42045564 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 13 0.19
27 38 0.57
28 16 0.24
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (27 bp):
TATGCCACAAATATCTGTTCTGGTGGC
Found at i:42046805 original size:21 final size:21
Alignment explanation
Indices: 42046779--42046820 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
42046769 TTTCCAATAC
42046779 CAAATCATAGTCGAATCATTT
1 CAAATCATAGTCGAATCATTT
*
42046800 CAAATCATTGTCGAATCATTT
1 CAAATCATAGTCGAATCATTT
42046821 TTCAATAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (21 bp):
CAAATCATAGTCGAATCATTT
Found at i:42046819 original size:11 final size:11
Alignment explanation
Indices: 42046781--42046819 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
42046771 TCCAATACCA
*
42046781 AATCATAGTCG
1 AATCATTGTCG
*
42046792 AATCATT-TCA
1 AATCATTGTCG
42046802 AATCATTGTCG
1 AATCATTGTCG
42046813 AATCATT
1 AATCATT
42046820 TTTCAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (11 bp):
AATCATTGTCG
Found at i:42046979 original size:12 final size:12
Alignment explanation
Indices: 42046964--42046989 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42046954 TACTCATTCA
42046964 ATCTAATTCCAG
1 ATCTAATTCCAG
42046976 ATCTAATTCCAG
1 ATCTAATTCCAG
42046988 AT
1 AT
42046990 TCCTCTTTTC
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:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCTAATTCCAG
Found at i:42053542 original size:27 final size:27
Alignment explanation
Indices: 42053512--42053603 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
42053502 ATTACCAAAG
* *
42053512 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
42053539 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
42053566 TACCATC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCGTTT
42053593 TACCCTCGATT
1 TACCCTCGATT
42053604 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.96
28 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:42053545 original size:54 final size:53
Alignment explanation
Indices: 42053495--42053613 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 53
42053485 TGCCCTCAAC
* * *
42053495 TTGTAAAATTACCAAAGTACCCTC-GATTTATAAAATTATCGTTTTACCCTCGA
1 TTGTAAAATTACCAAAGTACCATCAG-TTTACAAAATTACCGTTTTACCCTCGA
***
42053548 TT-TACAAAATTACCATTTTACCATCAGTTTACAAAATTACCGTTTTACCCTCGA
1 TTGT--AAAATTACCAAAGTACCATCAGTTTACAAAATTACCGTTTTACCCTCGA
*
42053602 TTGTGAAATTAC
1 TTGTAAAATTAC
42053614 TGAAATACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
52 1 0.02
53 9 0.16
54 43 0.78
55 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (53 bp):
TTGTAAAATTACCAAAGTACCATCAGTTTACAAAATTACCGTTTTACCCTCGA
Found at i:42053662 original size:27 final size:27
Alignment explanation
Indices: 42053632--42053733 Score: 161
Period size: 27 Copynumber: 3.8 Consensus size: 27
42053622 CCCTGTAGGA
42053632 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
*
42053659 TAAAATTACCAAAATACCACTAGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* *
42053686 TGAAATTACCAAAATA-CCCTCAATTTG
1 TAAAATTACCAAAATACCCCT-AGTTTG
42053713 TAAAATTACCAAAATACCCCT
1 TAAAATTACCAAAATACCCCT
42053734 GATTTACAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 3 0.04
27 61 0.90
28 4 0.06
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTAGTTTG
Found at i:42053676 original size:54 final size:53
Alignment explanation
Indices: 42053593--42053734 Score: 162
Period size: 54 Copynumber: 2.7 Consensus size: 53
42053583 ATTACCGTTT
* * **
42053593 TACCCTCGA-TTGTGAAATTACTGAAATACCCCTGTAGGATAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGTAGG-TAAAATTACCAAAA
* * ** *
42053646 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCT-GTAGGTAAAATTACCAAAA
42053700 TACCCTCAATTTGTAAAATTACCAAAATACCCCTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTG
42053735 ATTTACAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
52 1 0.01
53 6 0.08
54 63 0.85
55 4 0.05
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGTAGGTAAAATTACCAAAA
Found at i:42053738 original size:27 final size:27
Alignment explanation
Indices: 42053632--42053835 Score: 150
Period size: 27 Copynumber: 7.5 Consensus size: 27
42053622 CCCTGTAGGA
42053632 TAAAATTACCAAAATACCCCT-AGTTTG
1 TAAAATTACCAAAATACCCCTGA-TTTG
*
42053659 TAAAATTACCAAAATACCACT-AGTTTG
1 TAAAATTACCAAAATACCCCTGA-TTTG
* *
42053686 TGAAATTACCAAAATA-CCCTCAATTTG
1 TAAAATTACCAAAATACCCCT-GATTTG
*
42053713 TAAAATTACCAAAATACCCCTGATTTA
1 TAAAATTACCAAAATACCCCTGATTTG
* * * *
42053740 CAAAATTA-TAGAAATACCCTTGACTTTC
1 TAAAATTACCA-AAATACCCCTGA-TTTG
* ** *
42053768 TAAAAATTA-TAGAAATACCATTG-TTTA
1 T-AAAATTACCA-AAATACCCCTGATTTG
* **
42053795 CAAAATTACTGAAATACCCCTGATTTG
1 TAAAATTACCAAAATACCCCTGATTTG
* *
42053822 TAGATTTACCAAAA
1 TAAAATTACCAAAA
42053836 CACCTTTGTA
Statistics
Matches: 146, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
26 20 0.14
27 98 0.67
28 8 0.05
29 20 0.14
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGATTTG
Found at i:42053746 original size:54 final size:54
Alignment explanation
Indices: 42053633--42053835 Score: 173
Period size: 54 Copynumber: 3.7 Consensus size: 54
42053623 CCTGTAGGAT
* **
42053633 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCACTAGTTTAC
* *
42053687 GAAATTACCAAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTAC
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCACTAG-TTTAC
* * * * * *
42053741 AAAATTA-TAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCA-TTGTTTAC
1 AAAATTACCA-AAATACCCCT-AATTTGT-AAAATTACCA-AAATACCACTAGTTTAC
** * * *
42053796 AAAATTACTGAAATACCCCTGATTTGTAGATTTACCAAAA
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAA
42053836 CACCTTTGTA
Statistics
Matches: 119, Mismatches: 21, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
53 14 0.12
54 58 0.49
55 31 0.26
56 16 0.13
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCACTAGTTTAC
Found at i:42053808 original size:26 final size:27
Alignment explanation
Indices: 42053724--42053812 Score: 94
Period size: 29 Copynumber: 3.3 Consensus size: 27
42053714 AAAATTACCA
**
42053724 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCATTGATTTACAAAATTATAG
*
42053751 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCATTGA-TTTAC--AAAATTATAG
42053780 AAATACCATTG-TTTACAAAATTACT-G
1 AAATACCATTGATTTACAAAATTA-TAG
42053806 AAATACC
1 AAATACC
42053813 CCTGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
26 15 0.27
27 16 0.29
28 4 0.07
29 20 0.36
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATACCATTGATTTACAAAATTATAG
Found at i:42054823 original size:24 final size:25
Alignment explanation
Indices: 42054747--42054816 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
42054737 AGGAAGTGCT
* *
42054747 AAAAGGGCTATGCCCCAGTTTACCGA
1 AAAAGGGCTTTGCCCCAGTTTATC-A
42054773 AAAA-GGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
42054797 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
42054817 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.12
25 32 0.78
26 4 0.10
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:42054829 original size:24 final size:24
Alignment explanation
Indices: 42054746--42054829 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
42054736 GAGGAAGTGC
* * *
42054746 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAAGGCTTTGCCCCAGTTTA-T
*
42054771 GAAAAAGGCTTTGCCCCAGTTTAT
1 TAAAAAGGCTTTGCCCCAGTTTAT
*
42054795 CAAAAAGGGCTTTGCCCCAG-TTAT
1 TAAAAA-GGCTTTGCCCCAGTTTAT
42054819 TAAAAGAGGCT
1 TAAAA-AGGCT
42054830 AGGCATCCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
24 17 0.33
25 34 0.67
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (24 bp):
TAAAAAGGCTTTGCCCCAGTTTAT
Found at i:42055085 original size:31 final size:31
Alignment explanation
Indices: 42055036--42055113 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
42055026 TGCTTACAGT
42055036 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
42055066 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
42055097 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
42055114 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 11 0.23
31 36 0.77
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:42060572 original size:24 final size:23
Alignment explanation
Indices: 42060512--42060575 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 23
42060502 TAAAGGATAT
* *
42060512 ATAATGCTCTCCTTTAAATGATG
1 ATAATGCTCTTCTTTAAGTGATG
*
42060535 -TAACAGCT-TT-TTTAAGTGATG
1 ATAA-TGCTCTTCTTTAAGTGATG
42060556 AATAATGCTCTTCTTTAAGT
1 -ATAATGCTCTTCTTTAAGT
42060576 AATGTAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
21 10 0.31
22 7 0.22
23 8 0.25
24 7 0.22
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (23 bp):
ATAATGCTCTTCTTTAAGTGATG
Found at i:42060675 original size:11 final size:11
Alignment explanation
Indices: 42060652--42060681 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
42060642 CACCTACAAG
42060652 CATTAACAAACA
1 CATTAA-AAACA
42060664 CATTAAAAACA
1 CATTAAAAACA
42060675 CATTAAA
1 CATTAAA
42060682 CATACTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (11 bp):
CATTAAAAACA
Found at i:42060827 original size:34 final size:32
Alignment explanation
Indices: 42060780--42060857 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
42060770 TAACAATAAG
* *
42060780 TTATTCCAACAATTAAATAAACTAAGACAAGCAC
1 TTATTCCAGCAATT-AATAAA-TAAAACAAGCAC
* * *
42060814 TTATTCCAGCAATTAATTAATAAAATAAGCAT
1 TTATTCCAGCAATTAATAAATAAAACAAGCAC
42060846 TTATTCCAGCAA
1 TTATTCCAGCAA
42060858 CTCAATTAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 21 0.54
33 5 0.13
34 13 0.33
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.29
Consensus pattern (32 bp):
TTATTCCAGCAATTAATAAATAAAACAAGCAC
Found at i:42060886 original size:34 final size:34
Alignment explanation
Indices: 42060814--42060930 Score: 141
Period size: 34 Copynumber: 3.5 Consensus size: 34
42060804 AGACAAGCAC
42060814 TTATTCCAGCAA-TTAATTAA-TAAAAT-AAGCAT
1 TTATTCCAGCAACTTAATTAACTAAAATGAA-CAT
* * *
42060846 TTATTCCAGCAACTCAATTAACCAAGATGAACAT
1 TTATTCCAGCAACTTAATTAACTAAAATGAACAT
* *
42060880 TTATTCCAGCAACTTAATTAACTAATATGAGCAT
1 TTATTCCAGCAACTTAATTAACTAAAATGAACAT
* *
42060914 TTACTCCAGCAGCTTAA
1 TTATTCCAGCAACTTAA
42060931 AATGCTTGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
32 12 0.16
33 7 0.10
34 52 0.71
35 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (34 bp):
TTATTCCAGCAACTTAATTAACTAAAATGAACAT
Found at i:42061324 original size:27 final size:27
Alignment explanation
Indices: 42061294--42061354 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
42061284 TCTCTCAATC
**
42061294 TCTTTTTGCTCTCTTTTGTTCTCTTTT
1 TCTTTTTGCTCTCTTTCATTCTCTTTT
* * * *
42061321 TCTTTTAGTTTTCTTTCATTCTTTTTT
1 TCTTTTTGCTCTCTTTCATTCTCTTTT
42061348 TCTTTTT
1 TCTTTTT
42061355 TTATTTCTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.03, C:0.18, G:0.05, T:0.74
Consensus pattern (27 bp):
TCTTTTTGCTCTCTTTCATTCTCTTTT
Found at i:42061326 original size:16 final size:16
Alignment explanation
Indices: 42061305--42061373 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 16
42061295 CTTTTTGCTC
42061305 TCTTTTGTTCTCTTTT
1 TCTTTTGTTCTCTTTT
*
42061321 TCTTTTAGTTTTCTTTCAT
1 TCTTTT-GTTCTCTTT--T
* *
42061340 TCTTTTTTTCTTTTTT
1 TCTTTTGTTCTCTTTT
*
42061356 TATTTCT-TTCTCTTTT
1 TCTTT-TGTTCTCTTTT
42061372 TC
1 TC
42061374 ACATGCTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
16 20 0.48
17 9 0.21
18 6 0.14
19 7 0.17
ACGTcount: A:0.04, C:0.17, G:0.03, T:0.75
Consensus pattern (16 bp):
TCTTTTGTTCTCTTTT
Found at i:42063538 original size:33 final size:34
Alignment explanation
Indices: 42063475--42063549 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
42063465 TAGCAATAAG
* *
42063475 TTATTCCAGCAATTAAATAAACTAAGATAAGTAA
1 TTATTCCAGCAATTAAATAAACTAAAATAAGCAA
* * *
42063509 TTATTCTAGCAATT-AATTAACTAAAATAAGCAT
1 TTATTCCAGCAATTAAATAAACTAAAATAAGCAA
42063542 TTATTCCA
1 TTATTCCA
42063550 ACAAATCAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
33 22 0.63
34 13 0.37
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (34 bp):
TTATTCCAGCAATTAAATAAACTAAAATAAGCAA
Found at i:42063626 original size:34 final size:34
Alignment explanation
Indices: 42063475--42063618 Score: 125
Period size: 34 Copynumber: 4.3 Consensus size: 34
42063465 TAGCAATAAG
* * *
42063475 TTATTCCAGCAA-TTAAATAAACTAAGAT-AAGTAA
1 TTATTCCAGCAACTT-AATTAACTAAGATGAA-CAT
* *
42063509 TTATTCTAGCAA-TTAATTAACTAAAAT-AAGCAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAA-CAT
* * * * * *
42063542 TTATTCCAACAAATCAAGTGACTAAGATGACCAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACAT
*
42063576 TTATTCTAGCAACTTAATTAACTAAGATGAACAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACAT
42063610 TTATTCCAG
1 TTATTCCAG
42063619 TAGCTTAAAA
Statistics
Matches: 88, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
33 25 0.28
34 62 0.70
35 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (34 bp):
TTATTCCAGCAACTTAATTAACTAAGATGAACAT
Found at i:42064878 original size:27 final size:27
Alignment explanation
Indices: 42064848--42064927 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
42064838 ATCTCATATT
* *
42064848 TGTAGGCTAGTATTACTGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* **
42064875 TGTAGGGTAGAATTATTGAAATGTCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
42064902 TGTAGGGTAGAATTACTGAAATACCC
1 TGTAGGGTAGAATTACTGAAATACCC
42064928 TTGGTTTGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCC
Found at i:42064942 original size:27 final size:27
Alignment explanation
Indices: 42064912--42065235 Score: 260
Period size: 27 Copynumber: 12.0 Consensus size: 27
42064902 TGTAGGGTAG
*
42064912 AATTACTGAAATACCCTTGGTTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
** *
42064939 AATTACCAAAATA-CCTCTGGTTTGTAA
1 AATTACTGAAATACCCT-TGATTTGTAA
* ** * *
42064966 AATTTCCAAAATACACC-TAATTTGTGA
1 AATTACTGAAATAC-CCTTGATTTGTAA
* *
42064993 AATTACCGAAATACCCTTGACTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
* *
42065020 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
* *
42065047 AATTACTGAAATACCCTTAATTTTTAA
1 AATTACTGAAATACCCTTGATTTGTAA
** * * *
42065074 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACTGAAATACCCTTGATTTGTAA
* *
42065101 AATTA-TCGAAAGACCCTTGATTTGGAA
1 AATTACT-GAAATACCCTTGATTTGTAA
* * * **
42065128 AATTACAGAAATACCCCTAATTTACAA
1 AATTACTGAAATACCCTTGATTTGTAA
* **
42065155 AATTACAGAAATACCCTTGACTTTCAAA
1 AATTACTGAAATACCCTTGA-TTTGTAA
* * * *
42065183 AATTACAGAAATACCATTGGTTTGCAA
1 AATTACTGAAATACCCTTGATTTGTAA
*
42065210 AATTA-TGAAAATACCCTTGGTTTGTA
1 AATTACTG-AAATACCCTTGATTTGTA
42065236 GATTTACCAA
Statistics
Matches: 245, Mismatches: 44, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
26 6 0.02
27 214 0.87
28 23 0.09
29 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTGTAA
Found at i:42067377 original size:61 final size:61
Alignment explanation
Indices: 42067309--42067432 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
42067299 ACAACTTAGA
*
42067309 AAGAACATGTAGCAATTGAGTAGTATAATCTTTCAAAACACGATCGAATCTTTTTAACCAC
1 AAGAACATGTAGCAATTGAATAGTATAATCTTTCAAAACACGATCGAATCTTTTTAACCAC
*
42067370 AAGAACATGTAGCAATTGAATAGTATAATCTTTCAAAACATGATCGAATCTTTTTAACCAC
1 AAGAACATGTAGCAATTGAATAGTATAATCTTTCAAAACACGATCGAATCTTTTTAACCAC
42067431 AA
1 AA
42067433 TTTAGAACAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (61 bp):
AAGAACATGTAGCAATTGAATAGTATAATCTTTCAAAACACGATCGAATCTTTTTAACCAC
Found at i:42068496 original size:18 final size:17
Alignment explanation
Indices: 42068457--42068499 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
42068447 TTTTTGAACT
*
42068457 TTCTTTTTTTTCTCACA
1 TTCTTTTTTTTCCCACA
42068474 TTCTTTTTTGTTCCCA-A
1 TTCTTTTTT-TTCCCACA
42068491 TCTCTTTTT
1 T-TCTTTTT
42068500 GCTCTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.09, C:0.23, G:0.02, T:0.65
Consensus pattern (17 bp):
TTCTTTTTTTTCCCACA
Found at i:42070589 original size:11 final size:11
Alignment explanation
Indices: 42070566--42070600 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
42070556 CACCTACAAG
42070566 CATTAACAAACA
1 CATTAA-AAACA
42070578 CATTAAAAACA
1 CATTAAAAACA
*
42070589 CATTAAACACA
1 CATTAAAAACA
42070600 C
1 C
42070601 TATACTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (11 bp):
CATTAAAAACA
Found at i:42070845 original size:34 final size:34
Alignment explanation
Indices: 42070694--42070845 Score: 150
Period size: 34 Copynumber: 4.5 Consensus size: 34
42070684 TATCAATAAG
** * *
42070694 TTATTCCAGCAA-TTAAAGAAACTAAGAT-AAGTAA
1 TTATTCCAGCAACTT-AATTAACTAAGATGAA-CAT
* *
42070728 TTATTCTAGCAA-TTAATTAACTAAAAT-AAGCAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAA-CAT
* * *
42070761 TTATTCCAACAACTCAATTAACTAAGATGACCAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACAT
*
42070795 TTATTCTAGCAACTTAATTAACTAAGATGAACAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACAT
*
42070829 TTATTCCAGCAGCTTAA
1 TTATTCCAGCAACTTAA
42070846 AATGCATGAA
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
33 24 0.24
34 74 0.75
35 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (34 bp):
TTATTCCAGCAACTTAATTAACTAAGATGAACAT
Found at i:42073025 original size:34 final size:34
Alignment explanation
Indices: 42072980--42073099 Score: 189
Period size: 34 Copynumber: 3.7 Consensus size: 34
42072970 TTATAATTCT
*
42072980 ATTGCCGTGGACTTATTTCACTTAGACTTAGCAC
1 ATTGCCATGGACTTATTTCACTTAGACTTAGCAC
42073014 ATTGCCATGGACTTATTT--C----ACTTAGCAC
1 ATTGCCATGGACTTATTTCACTTAGACTTAGCAC
42073042 ATTGCCATGGACTTATTTCACTTAGACTTAGCAC
1 ATTGCCATGGACTTATTTCACTTAGACTTAGCAC
42073076 ATTGCCATGGACTTATTTCACTTA
1 ATTGCCATGGACTTATTTCACTTA
42073100 AATGCAATGG
Statistics
Matches: 79, Mismatches: 1, Indels: 12
0.86 0.01 0.13
Matches are distributed among these distances:
28 27 0.34
30 1 0.01
32 1 0.01
34 50 0.63
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (34 bp):
ATTGCCATGGACTTATTTCACTTAGACTTAGCAC
Found at i:42073037 original size:28 final size:28
Alignment explanation
Indices: 42073005--42073267 Score: 289
Period size: 28 Copynumber: 9.6 Consensus size: 28
42072995 TTTCACTTAG
42073005 ACTTAGCACATTGCCATGGACTTATTTC
1 ACTTAGCACATTGCCATGGACTTATTTC
42073033 ACTTAGCACATTGCCATGGACTTATTTCAC
1 ACTTAGCACATTGCCATGGACTTATTT--C
42073063 TTAGACTTAGCACATTGCCATGGACTTATTTC
1 ----ACTTAGCACATTGCCATGGACTTATTTC
* *
42073095 ACTTA--A-A-TGCAATGGTCTTATTTC
1 ACTTAGCACATTGCCATGGACTTATTTC
* *
42073119 ACTTAGCACATTGTCATGGACTTATTTT
1 ACTTAGCACATTGCCATGGACTTATTTC
*
42073147 ACTTAGCATATTGCCATGGACTTATTTC
1 ACTTAGCACATTGCCATGGACTTATTTC
* *
42073175 ACTTAG---A-TGACATGGTCTTATTTC
1 ACTTAGCACATTGCCATGGACTTATTTC
*
42073199 ACTTAACACATTGCCATGGACTTATTTC
1 ACTTAGCACATTGCCATGGACTTATTTC
* *
42073227 ACTTA--A-A-TGCCATGGTCCTATTTC
1 ACTTAGCACATTGCCATGGACTTATTTC
*
42073251 ACTCAGCACATTGCCAT
1 ACTTAGCACATTGCCAT
42073268 ATCCTAGATA
Statistics
Matches: 200, Mismatches: 17, Indels: 36
0.79 0.07 0.14
Matches are distributed among these distances:
24 59 0.29
25 3 0.01
26 4 0.02
27 3 0.01
28 102 0.51
30 1 0.00
32 1 0.00
34 27 0.14
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (28 bp):
ACTTAGCACATTGCCATGGACTTATTTC
Found at i:42073129 original size:52 final size:55
Alignment explanation
Indices: 42073005--42073267 Score: 269
Period size: 52 Copynumber: 4.8 Consensus size: 55
42072995 TTTCACTTAG
42073005 ACTTAGCACATTGCCATGGACTTATTTCACTTAGCACATTGCCATGGACTTATTTCAC
1 ACTTAGCACATTGCCATGGACTTATTTCACTTA-CACATTGCCATGGACTTATTT--C
* *
42073063 TTAGACTTAGCACATTGCCATGGACTTATTTCACTTA-A-A-TGCAATGGTCTTATTTC
1 ----ACTTAGCACATTGCCATGGACTTATTTCACTTACACATTGCCATGGACTTATTTC
* * *
42073119 ACTTAGCACATTGTCATGGACTTATTTTACTTAGCATATTGCCATGGACTTATTTC
1 ACTTAGCACATTGCCATGGACTTATTTCACTTA-CACATTGCCATGGACTTATTTC
* *
42073175 ACTTAG---A-TGACATGGTCTTATTTCACTTAACACATTGCCATGGACTTATTTC
1 ACTTAGCACATTGCCATGGACTTATTTCACTT-ACACATTGCCATGGACTTATTTC
* * *
42073227 ACTTA--A-A-TGCCATGGTCCTATTTCACTCAGCACATTGCCAT
1 ACTTAGCACATTGCCATGGACTTATTTCACTTA-CACATTGCCAT
42073268 ATCCTAGATA
Statistics
Matches: 181, Mismatches: 13, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
51 1 0.01
52 105 0.58
53 2 0.01
54 1 0.01
55 1 0.01
56 22 0.12
58 14 0.08
59 1 0.01
60 1 0.01
62 33 0.18
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (55 bp):
ACTTAGCACATTGCCATGGACTTATTTCACTTACACATTGCCATGGACTTATTTC
Found at i:42073193 original size:80 final size:79
Alignment explanation
Indices: 42073019--42073231 Score: 300
Period size: 80 Copynumber: 2.6 Consensus size: 79
42073009 AGCACATTGC
*
42073019 CATGGACTTATTTCACTTAGCACATTGCCATGGACTTATTTCACTTAGACTTAGCACATTGCCAT
1 CATGGTCTTATTTCACTTAGCACATTGCCATGGACTTA-TT---TT--ACTTAGCACATTGCCAT
42073084 GGACTTATTTCACTTAAATG
60 GGACTTATTTCACTTAAATG
* *
42073104 CAATGGTCTTATTTCACTTAGCACATTGTCATGGACTTATTTTACTTAGCATATTGCCATGGACT
1 C-ATGGTCTTATTTCACTTAGCACATTGCCATGGACTTATTTTACTTAGCACATTGCCATGGACT
*
42073169 TATTTCACTTAGATG
65 TATTTCACTTAAATG
* *
42073184 ACATGGTCTTATTTCACTTAACACATTGCCATGGACTTATTTCACTTA
1 -CATGGTCTTATTTCACTTAGCACATTGCCATGGACTTATTTTACTTA
42073232 AATGCCATGG
Statistics
Matches: 119, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
80 78 0.66
81 1 0.01
82 2 0.02
85 3 0.03
86 35 0.29
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (79 bp):
CATGGTCTTATTTCACTTAGCACATTGCCATGGACTTATTTTACTTAGCACATTGCCATGGACTT
ATTTCACTTAAATG
Found at i:42078995 original size:63 final size:63
Alignment explanation
Indices: 42078896--42079022 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
42078886 GTGCTTTTGT
42078896 TAATAAATAAGACCAGTAAATTTATTTTCCGTTATACGAACTTACTAAGCATAAAATGCTTAC
1 TAATAAATAAGACCAGTAAATTTATTTTCCGTTATACGAACTTACTAAGCATAAAATGCTTAC
42078959 TAATAAATAAGACCAGTAAATTTATTTTCCGTTATACGAACTTACTAAGCATAAAATGCTTAC
1 TAATAAATAAGACCAGTAAATTTATTTTCCGTTATACGAACTTACTAAGCATAAAATGCTTAC
42079022 T
1 T
42079023 CCATTTATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (63 bp):
TAATAAATAAGACCAGTAAATTTATTTTCCGTTATACGAACTTACTAAGCATAAAATGCTTAC
Found at i:42089966 original size:24 final size:24
Alignment explanation
Indices: 42089924--42090043 Score: 123
Period size: 24 Copynumber: 5.0 Consensus size: 24
42089914 TTTACTGCAA
* ** *
42089924 TATTGAGTGGTTTAACCACAATGT
1 TATTGAGTGGCTTGGCCACAACGT
* *
42089948 TATTGGGTGGCTTGGCCACAACAT
1 TATTGAGTGGCTTGGCCACAACGT
*** *
42089972 TATTGAGTGGCTTGAAAACAATGT
1 TATTGAGTGGCTTGGCCACAACGT
* *
42089996 TATTGACTGGCTTGGCAACAACGT
1 TATTGAGTGGCTTGGCCACAACGT
*
42090020 TATTGAGTGGCTTGTCCACAACGT
1 TATTGAGTGGCTTGGCCACAACGT
42090044 GCAACTTGAC
Statistics
Matches: 77, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 77 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
TATTGAGTGGCTTGGCCACAACGT
Found at i:42089993 original size:48 final size:49
Alignment explanation
Indices: 42089924--42090033 Score: 152
Period size: 48 Copynumber: 2.3 Consensus size: 49
42089914 TTTACTGCAA
* * ** *
42089924 TATTGAGTGG-TTTAACCACAATGTTATTGGGTGGCTTGGCCACAACAT
1 TATTGAGTGGCTTGAACAACAATGTTATTGACTGGCTTGGCAACAACAT
*
42089972 TATTGAGTGGCTTGAA-AACAATGTTATTGACTGGCTTGGCAACAACGT
1 TATTGAGTGGCTTGAACAACAATGTTATTGACTGGCTTGGCAACAACAT
42090020 TATTGAGTGGCTTG
1 TATTGAGTGGCTTG
42090034 TCCACAACGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 51 0.93
49 4 0.07
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (49 bp):
TATTGAGTGGCTTGAACAACAATGTTATTGACTGGCTTGGCAACAACAT
Found at i:42096298 original size:52 final size:51
Alignment explanation
Indices: 42096185--42096362 Score: 245
Period size: 52 Copynumber: 3.5 Consensus size: 51
42096175 CGGATACCCG
* * * * *
42096185 GTGGCCTGCACATAGTACCACCCTTAT-AGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAA
*
42096236 GTGGACTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
*
42096288 GTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
*
42096337 GTTGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
42096363 AGTCACTAGT
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
49 34 0.29
51 40 0.34
52 42 0.36
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:42102982 original size:39 final size:39
Alignment explanation
Indices: 42102935--42103021 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
42102925 GACTTAATGT
*
42102935 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAAGTTTATAC
* *
42102974 CTAGCAGGCCTCGTGCCGGTGTTAAGTTCAAGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAAGTTTATAC
42103013 CTAGCAGGC
1 CTAGCAGGC
42103022 AAATTGCCAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAAGTTTATAC
Found at i:42103120 original size:19 final size:19
Alignment explanation
Indices: 42103096--42103169 Score: 91
Period size: 19 Copynumber: 4.1 Consensus size: 19
42103086 TTCAATAGAT
42103096 TAAATTGTCCAGGTACGTA
1 TAAATTGTCCAGGTACGTA
* *
42103115 TAAATTGT-TA--TACATA
1 TAAATTGTCCAGGTACGTA
*
42103131 TAAATTGTCCAAGTACGTA
1 TAAATTGTCCAGGTACGTA
*
42103150 TAAATTGTCTAGGTACGTA
1 TAAATTGTCCAGGTACGTA
42103169 T
1 T
42103170 GAAAGATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
16 13 0.28
17 1 0.02
18 1 0.02
19 31 0.67
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (19 bp):
TAAATTGTCCAGGTACGTA
Found at i:42114087 original size:39 final size:39
Alignment explanation
Indices: 42114031--42114117 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
42114021 GACTTAATGT
* *
42114031 CTAGTAGGACTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* *
42114070 CTAGCAGGCCTCGTGCCGGTGTTAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
42114109 CTAGCAGGC
1 CTAGCAGGC
42114118 AAATTGCCGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:42114126 original size:39 final size:39
Alignment explanation
Indices: 42114043--42114130 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 39
42114033 AGTAGGACTC
***
42114043 GTGCCGGTGATAAATTCAGGTTTATACCTAGCAGGCCTC
1 GTGCCGGTGATAAATTCAGGTTTATACCTAGCAGGCAAA
* *
42114082 GTGCCGGTGTTAAGTTCAGGTTTATACCTAGCAGGCAAA
1 GTGCCGGTGATAAATTCAGGTTTATACCTAGCAGGCAAA
*
42114121 TTGCCGGTGA
1 GTGCCGGTGA
42114131 AACAATAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
GTGCCGGTGATAAATTCAGGTTTATACCTAGCAGGCAAA
Found at i:42114787 original size:17 final size:17
Alignment explanation
Indices: 42114767--42114821 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
42114757 GAAGTAAGTT
42114767 ATATTTTGAAATTGTAA
1 ATATTTTGAAATTGTAA
**
42114784 ATATTTTAGCCA-T-T--
1 ATATTTT-GAAATTGTAA
42114798 ATATTTTGAAATTGTAA
1 ATATTTTGAAATTGTAA
42114815 ATATTTT
1 ATATTTT
42114822 AGCCATGCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
13 2 0.07
14 8 0.28
15 1 0.03
16 1 0.03
17 15 0.52
18 2 0.07
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (17 bp):
ATATTTTGAAATTGTAA
Found at i:42114803 original size:31 final size:31
Alignment explanation
Indices: 42114765--42114827 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
42114755 TTGAAGTAAG
42114765 TTATATTTTGAAATTGTAAATATTTTAGCCA
1 TTATATTTTGAAATTGTAAATATTTTAGCCA
42114796 TTATATTTTGAAATTGTAAATATTTTAGCCA
1 TTATATTTTGAAATTGTAAATATTTTAGCCA
42114827 T
1 T
42114828 GCGAAAATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (31 bp):
TTATATTTTGAAATTGTAAATATTTTAGCCA
Found at i:42121751 original size:40 final size:40
Alignment explanation
Indices: 42121687--42121884 Score: 310
Period size: 40 Copynumber: 5.0 Consensus size: 40
42121677 ACATCATCGG
* * *
42121687 CACGAATGCCCTTCAGGACCTAGCCCGGATGTAACACCAA
1 CACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAA
*
42121727 CACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAA
*
42121767 CACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAA
42121807 CACGAA-GCTCTTCGGGACTTAGCCCGGATGTAACACCAGA
1 CACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA-A
* *
42121847 -ACGAATGCTTTTCGGGACTTAGCCCGGATATAACACCA
1 CACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
42121885 TTTCCCATAC
Statistics
Matches: 149, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 37 0.25
40 112 0.75
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.19
Consensus pattern (40 bp):
CACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAA
Found at i:42121851 original size:79 final size:80
Alignment explanation
Indices: 42121688--42121884 Score: 324
Period size: 79 Copynumber: 2.5 Consensus size: 80
42121678 CATCATCGGC
* * *
42121688 ACGAATGCCCTTCAGGACCTAGCCCGGATGTAACACCAACACGAATGCTCTTCGGGACTTAGCCC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAACACGAATGCTCTTCGGGACTTAGCCC
*
42121753 GGATGTAACACCAGC
66 GGATGTAACACCAGA
*
42121768 ACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCACGAA-GCTCTTCGGGACTTAGCCC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAACACGAATGCTCTTCGGGACTTAGCCC
42121832 GGATGTAACACCAGA
66 GGATGTAACACCAGA
* *
42121847 ACGAATGCTTTTCGGGACTTAGCCCGGATATAACACCA
1 ACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
42121885 TTTCCCATAC
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 69 0.63
80 41 0.37
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.19
Consensus pattern (80 bp):
ACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAACACGAATGCTCTTCGGGACTTAGCCC
GGATGTAACACCAGA
Found at i:42131151 original size:40 final size:40
Alignment explanation
Indices: 42131067--42131250 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
42131057 TTGAATGCTG
* * * *
42131067 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
42131106 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
42131147 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
42131187 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
42131227 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42131251 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:42131204 original size:80 final size:81
Alignment explanation
Indices: 42131067--42131247 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
42131057 TTGAATGCTG
* * *
42131067 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
42131131 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
42131147 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
42131208 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
42131227 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
42131248 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:42131271 original size:39 final size:38
Alignment explanation
Indices: 42131148--42131297 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
42131138 GTTATTAATT
* ** * *
42131148 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
42131188 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
42131227 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
42131267 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
42131298 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:42138988 original size:40 final size:40
Alignment explanation
Indices: 42138904--42139087 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
42138894 TTGAATGCTG
* * * *
42138904 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
42138943 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
42138984 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
42139024 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
42139064 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42139088 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:42139041 original size:80 final size:81
Alignment explanation
Indices: 42138904--42139084 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
42138894 TTGAATGCTG
* * *
42138904 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
42138968 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
42138984 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
42139045 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
42139064 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
42139085 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:42139108 original size:39 final size:38
Alignment explanation
Indices: 42138985--42139134 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
42138975 GTTATTAATT
* ** * *
42138985 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
42139025 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
42139064 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
42139104 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
42139135 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:42151167 original size:46 final size:41
Alignment explanation
Indices: 42151065--42151167 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 41
42151055 CGACTAAGAA
42151065 TGGCACTTAGTGTGC-AGTTTAAAATAGCTTCGGCTAAATG
1 TGGCACTTAGTGTGCGAGTTTAAAATAGCTTCGGCTAAATG
* * *
42151105 TGGCACTTGGTGTGCGA-TTTGAGATAGCTTCGGCTATATATATGTG
1 TGGCACTTAGTGTGCGAGTTTAAAATAGCTTCGGC--TA-A-A--TG
42151151 TGGCACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
42151168 AATATTAAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
40 29 0.56
41 1 0.02
42 2 0.04
43 1 0.02
44 1 0.02
46 18 0.35
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGAGTTTAAAATAGCTTCGGCTAAATG
Found at i:42151224 original size:28 final size:27
Alignment explanation
Indices: 42151151--42151225 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 27
42151141 TATATATGTG
*
42151151 TGGCACTTAGTGTGCGAAATATTAAGAA
1 TGGCACTTAGTGTGCGAGATATT-AGAA
* * *
42151179 TGACAC-TAGGTCTACGAGATATT-GCATA
1 TGGCACTTA-GTGTGCGAGATATTAG-A-A
42151207 TGGCACTTAGTGTGCGAGA
1 TGGCACTTAGTGTGCGAGA
42151226 CATCGAAGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
26 1 0.03
27 3 0.08
28 30 0.83
29 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (27 bp):
TGGCACTTAGTGTGCGAGATATTAGAA
Found at i:42152995 original size:31 final size:32
Alignment explanation
Indices: 42152934--42153004 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
42152924 GAGCCATACA
**
42152934 GGCGTGTGTGACCACACGTTCTAACCCACACG
1 GGCGTGTGTGACCACACGGCCTAACCCACACG
*
42152966 GGTGTGTGTGACCACACGGCCT-ACCCACACG
1 GGCGTGTGTGACCACACGGCCTAACCCACACG
42152997 GGCGTGTG
1 GGCGTGTG
42153005 ACCCTGTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 16 0.46
32 19 0.54
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.18
Consensus pattern (32 bp):
GGCGTGTGTGACCACACGGCCTAACCCACACG
Found at i:42153946 original size:37 final size:38
Alignment explanation
Indices: 42153904--42154084 Score: 160
Period size: 37 Copynumber: 4.8 Consensus size: 38
42153894 CATGTGAGTA
42153904 TGTGTAAGACCATAGCTGGGCTATGGCATCGTAAT-AG
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGTAATGAG
* * *
42153941 TGTGTAAGACCATAGTTGGGCTATGGCATCATGATGAG
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGTAATGAG
* * * *
42153979 -ATGTAAGACCATAGCTGGGCTATGCCATTGTGAT-A-
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGTAATGAG
*
42154014 CGTGTAAGACCAT-GTCTGGGAC-ATGGCATCG-ATATGAG
1 TGTGTAAGACCATAG-CTGGG-CTATGGCATCGTA-ATGAG
* *
42154052 ATCTCGTGTAAGACCATATCTGGGATATGGCAT
1 ---T-GTGTAAGACCATAGCTGGGCTATGGCAT
42154085 TAGCATCGAT
Statistics
Matches: 116, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
35 1 0.01
36 26 0.22
37 63 0.54
38 2 0.02
42 24 0.21
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (38 bp):
TGTGTAAGACCATAGCTGGGCTATGGCATCGTAATGAG
Found at i:42154051 original size:73 final size:74
Alignment explanation
Indices: 42153906--42154053 Score: 205
Period size: 74 Copynumber: 2.0 Consensus size: 74
42153896 TGTGAGTATG
* *
42153906 TGTAAGACCATAGCTGGGCTATGGCATCGTAATAGTGTGTAAGACCATAGTTGGGCTATGGCATC
1 TGTAAGACCATAGCTGGGCTATGCCATCGTAATAGCGTGTAAGACCATAGTTGGGCTATGGCATC
42153971 ATGATGAGA
66 ATGATGAGA
* *
42153980 TGTAAGACCATAGCTGGGCTATGCCATTGTGATA-CGTGTAAGACCAT-GTCTGGGAC-ATGGCA
1 TGTAAGACCATAGCTGGGCTATGCCATCGTAATAGCGTGTAAGACCATAGT-TGGG-CTATGGCA
42154042 TCGAT-ATGAGA
64 TC-ATGATGAGA
42154053 T
1 T
42154054 CTCGTGTAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
72 2 0.03
73 31 0.46
74 34 0.51
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (74 bp):
TGTAAGACCATAGCTGGGCTATGCCATCGTAATAGCGTGTAAGACCATAGTTGGGCTATGGCATC
ATGATGAGA
Found at i:42154074 original size:42 final size:42
Alignment explanation
Indices: 42154014--42154243 Score: 203
Period size: 42 Copynumber: 5.3 Consensus size: 42
42154004 CATTGTGATA
*
42154014 CGTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCT
1 CGTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCT
*
42154056 CGTGTAAGACCATATCTGGGATATGGCATTAGCATCGATATGAGAT-T
1 CGTGTAAGACCATATCTGGG--A---CA-TGGCATCGATATGAGATCT
* * * * * *
42154103 ATGTGTAAGACCATATATGGGATATGGCTTCGGTATGAGATTT
1 -CGTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCT
* * *** * *
42154146 CGTGTAAGACCGTGTCTGGGATGCGGCATCGATATGTGATTT
1 CGTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCT
* * * *
42154188 CGTATAAGACTATGTCTGGGACATGGCATCGATGTGAGA-CTT
1 CGTGTAAGACCATATCTGGGACATGGCATCGATATGAGATC-T
42154230 CGTGTAAGACCATA
1 CGTGTAAGACCATA
42154244 GTTGGAATGT
Statistics
Matches: 150, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
42 109 0.73
43 2 0.01
44 1 0.01
46 1 0.01
47 3 0.02
48 34 0.23
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCT
Found at i:42154110 original size:48 final size:48
Alignment explanation
Indices: 42154039--42154130 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
42154029 CTGGGACATG
*
42154039 GCATCGATATGAGATCTCGTGTAAGACCATATCTGGGATATGGCATTA
1 GCATCGATATGAGATCTCGTGTAAGACCATATATGGGATATGGCATTA
*
42154087 GCATCGATATGAGAT-TATGTGTAAGACCATATATGGGATATGGC
1 GCATCGATATGAGATCT-CGTGTAAGACCATATATGGGATATGGC
42154131 TTCGGTATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 1 0.02
48 40 0.98
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (48 bp):
GCATCGATATGAGATCTCGTGTAAGACCATATATGGGATATGGCATTA
Found at i:42157732 original size:27 final size:27
Alignment explanation
Indices: 42157702--42157783 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
42157692 ATCTCATATC
* *
42157702 TGTAGGCTAGCATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
* *
42157729 TGTAGGGTAGAATTACTGAAATGCCCC
1 TGTAGGGTAGAATTACTGAAATACCCT
**
42157756 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
42157783 T
1 T
42157784 AGTTTATAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:42157796 original size:27 final size:27
Alignment explanation
Indices: 42157766--42157961 Score: 191
Period size: 27 Copynumber: 7.2 Consensus size: 27
42157756 TGTAGGGTAG
* *
42157766 AATTACCAAAATACCCTTAGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAA
42157793 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
42157820 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
42157847 AATTACCAAAATACCTCT-GATTTGTAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
** * ***
42157874 AATTACTGAAATACACCTCAACATGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
** * *
42157902 AATTACTGAAATA-CCCTCGACTTGTAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
* * *
42157929 AATTACCAAAGTA-CCCTCGATTTATAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
42157956 AATTAC
1 AATTAC
42157962 TGTTTTACCA
Statistics
Matches: 146, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 127 0.87
28 18 0.12
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:42157797 original size:54 final size:54
Alignment explanation
Indices: 42157747--42157861 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
42157737 AGAATTACTG
* * *
42157747 AAATGCCCCT-GTAGGGTAGAATTACCAAAATACCCTTAGTTTATAAAATTACCA
1 AAATACCCCTAGT-GGGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
** *
42157801 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAGTGGGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
42157855 AAATACC
1 AAATACC
42157862 TCTGATTTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 52 0.96
55 2 0.04
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.28
Consensus pattern (54 bp):
AAATACCCCTAGTGGGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
Found at i:42157906 original size:28 final size:27
Alignment explanation
Indices: 42157869--42157934 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 27
42157859 ACCTCTGATT
42157869 TGTAAAATTACTGAAATACACCTCAACA
1 TGTAAAATTACTGAAATAC-CCTCAACA
* *
42157897 TGTAAAATTACTGAAATACCCTCGACT
1 TGTAAAATTACTGAAATACCCTCAACA
42157924 TGTAAAATTAC
1 TGTAAAATTAC
42157935 CAAAGTACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 17 0.47
28 19 0.53
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACTGAAATACCCTCAACA
Found at i:42157933 original size:82 final size:80
Alignment explanation
Indices: 42157766--42157963 Score: 227
Period size: 82 Copynumber: 2.4 Consensus size: 80
42157756 TGTAGGGTAG
* ** * ***
42157766 AATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 AATTACCAAAATACCCTGA-TTTATAAAATTACTGAAATACACCTAACATGTAAAATTACCAAAA
* *
42157831 TACCCCTAGTTTGTAA
65 TACCCCGAGCTTGTAA
* **
42157847 AATTACCAAAATACCTCTGATTTGTAAAATTACTGAAATACACCTCAACATGTAAAATTACTGAA
1 AATTACCAAAATACC-CTGATTTATAAAATTACTGAAATACACCT-AACATGTAAAATTACCAAA
42157912 ATACCCTCGA-CTTGTAA
64 ATACCC-CGAGCTTGTAA
*
42157929 AATTACCAAAGTACCCTCGATTTATAAAATTACTG
1 AATTACCAAAATACCCT-GATTTATAAAATTACTG
42157964 TTTTACCATT
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
81 38 0.38
82 59 0.60
83 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AATTACCAAAATACCCTGATTTATAAAATTACTGAAATACACCTAACATGTAAAATTACCAAAAT
ACCCCGAGCTTGTAA
Found at i:42157970 original size:27 final size:27
Alignment explanation
Indices: 42157940--42158348 Score: 502
Period size: 27 Copynumber: 15.2 Consensus size: 27
42157930 ATTACCAAAG
42157940 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * * * *
42157967 TACCATTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
42157994 TACCCTCGATTTACAAAATCACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * * *
42158021 TACCCTCGATTTACAGAATTATTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
42158048 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
42158075 TACCCTCGATTTATATAATTA-TCATTT
1 TACCCTCGATTTATAAAATTACT-GTTT
* *
42158102 TATCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
42158129 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
42158156 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
42158183 TA-CCTCGATTTATAAAATTA-TCGTTT
1 TACCCTCGATTTATAAAATTACT-GTTT
* *
42158209 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
42158236 TATCCTCAATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTATAAAATTACT-GTTT
* * *
42158263 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
42158290 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
**
42158317 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACTGTTT
42158344 TACCC
1 TACCC
42158349 CTAGGGTGTT
Statistics
Matches: 336, Mismatches: 39, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
25 1 0.00
26 26 0.08
27 306 0.91
28 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTGTTT
Found at i:42158893 original size:6 final size:6
Alignment explanation
Indices: 42158858--42158984 Score: 82
Period size: 6 Copynumber: 20.7 Consensus size: 6
42158848 ATTCACATTT
* * * *
42158858 TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC TAATTC TG-TCACC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGAT--TC
* * *
42158908 TAATTC TGATTC TGATTC TGATTC TGATTC TG-TCACC TGATTT TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC
* *
42158957 TGATTC TCATTT TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGA-TTC TGAT
42158985 AATGTTTCTT
Statistics
Matches: 93, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
5 5 0.05
6 76 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:42158926 original size:37 final size:37
Alignment explanation
Indices: 42158876--42158963 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
42158866 ATTCTGTTAC
*
42158876 CTGATACTGATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
* *
42158913 CTGATTCTGATTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
*
42158950 TTGATTCTGATTCT
1 CTGATTCTGATTCT
42158964 CATTTTGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
Found at i:42158948 original size:31 final size:31
Alignment explanation
Indices: 42158858--42158963 Score: 113
Period size: 31 Copynumber: 3.2 Consensus size: 31
42158848 ATTCACATTT
* * *
42158858 TGATTTTGATTCTGTTACCTGATACTGATTC
1 TGATTCTGATTCTGTCACCTGATTCTGATTC
*
42158889 TGATTCTAATTCTGTCACCTAATTCTGATTCTGATTC
1 TGATTCTGATTCTGTCA-C-----CTGATTCTGATTC
*
42158926 TGATTCTGATTCTGTCACCTGATTTTGATTC
1 TGATTCTGATTCTGTCACCTGATTCTGATTC
42158957 TGATTCT
1 TGATTCT
42158964 CATTTTGATT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
31 33 0.52
32 1 0.02
36 1 0.02
37 28 0.44
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
TGATTCTGATTCTGTCACCTGATTCTGATTC
Found at i:42158973 original size:37 final size:36
Alignment explanation
Indices: 42158860--42158975 Score: 134
Period size: 37 Copynumber: 3.3 Consensus size: 36
42158850 TCACATTTTG
* *
42158860 ATTTTGATTCTGTTACCTGATACTGATTCTGATTCT
1 ATTTTGATTCTGTCACCTGATTCTGATTCTGATTCT
*
42158896 A-----ATTCTGTCACCTAATTCTGATTCTGATTCT
1 ATTTTGATTCTGTCACCTGATTCTGATTCTGATTCT
* *
42158927 GATTCTGATTCTGTCACCTGATTTTGATTCTGATTCT
1 -ATTTTGATTCTGTCACCTGATTCTGATTCTGATTCT
42158964 CATTTTGATTCT
1 -ATTTTGATTCT
42158976 AGTTCTGATA
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
31 27 0.40
32 1 0.01
36 1 0.01
37 38 0.57
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (36 bp):
ATTTTGATTCTGTCACCTGATTCTGATTCTGATTCT
Found at i:42160444 original size:21 final size:20
Alignment explanation
Indices: 42160414--42160452 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
42160404 CGATGAAATT
*
42160414 TGATTGAATTGAGTAGAATAA
1 TGATTAAATT-AGTAGAATAA
*
42160435 TGATTAAATTAGTTGAAT
1 TGATTAAATTAGTAGAAT
42160453 TTGATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (20 bp):
TGATTAAATTAGTAGAATAA
Found at i:42160705 original size:40 final size:43
Alignment explanation
Indices: 42160661--42160757 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 43
42160651 CGGCTAAGAA
42160661 TGGCACTTAGTGTACAATTTGAAATAGCTTCGGC-TA-A-ATG
1 TGGCACTTAGTGTACAATTTGAAATAGCTTCGGCATATATATG
* * * *
42160701 TGGCACTTGGTGTGCGATTTGAGATAGCTTCGGCTATATATATG
1 TGGCACTTAGTGTACAATTTGAAATAGCTTCGGC-ATATATATG
42160745 TGGCACTTAGTGT
1 TGGCACTTAGTGT
42160758 GCAAAATATT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 30 0.62
42 2 0.04
43 1 0.02
44 15 0.31
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (43 bp):
TGGCACTTAGTGTACAATTTGAAATAGCTTCGGCATATATATG
Found at i:42160816 original size:28 final size:28
Alignment explanation
Indices: 42160745--42160819 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
42160735 TATATATATG
* *
42160745 TGGCACTTAGTGTGCAAAATATTGAGAA
1 TGGCACTTAGTGTGCGAGATATTGAGAA
*
42160773 TGGCACTT-GATGTGCGAGATATTGAGTA
1 TGGCACTTAG-TGTGCGAGATATTGAGAA
*
42160801 TGGCATTTAGTGTGCGAGA
1 TGGCACTTAGTGTGCGAGA
42160820 CATCGAAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.02
28 39 0.95
29 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.31, T:0.31
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAGATATTGAGAA
Found at i:42162245 original size:31 final size:32
Alignment explanation
Indices: 42162184--42162254 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
42162174 GAGCCATATG
* *
42162184 GGCGTGTGTCACCACATGGCTTAACCCACACA
1 GGCGTGTGTCACCACACGGCCTAACCCACACA
* *
42162216 GGCGTGTGTGACCACACGGCCT-ACCCACACG
1 GGCGTGTGTCACCACACGGCCTAACCCACACA
42162247 GGCGTGTG
1 GGCGTGTG
42162255 ACCCTGTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 16 0.46
32 19 0.54
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.17
Consensus pattern (32 bp):
GGCGTGTGTCACCACACGGCCTAACCCACACA
Found at i:42166429 original size:40 final size:40
Alignment explanation
Indices: 42166338--42166598 Score: 402
Period size: 40 Copynumber: 6.6 Consensus size: 40
42166328 AACCCAAGTA
* * *
42166338 CCTTCGGGATTTAG-CCGGATATAG-CAACTCG-ACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
42166376 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
42166416 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
42166456 CCTTCGAGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
42166496 CCTTCGGGACATAGCCCGGATATAGTTAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
42166536 CCTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
42166576 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42166599 CATTCGAATA
Statistics
Matches: 203, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
38 12 0.06
39 12 0.06
40 179 0.88
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:42174862 original size:40 final size:40
Alignment explanation
Indices: 42174780--42175360 Score: 902
Period size: 40 Copynumber: 14.6 Consensus size: 40
42174770 AACCCAAGTA
* * *
42174780 CCTTCAGGATTTAG-CCGGATATAG-CAACTCA-CACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-T-AGCACAAATG
* *
42174819 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
42174859 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
42174899 CCTTCAGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
42174939 CCTTCGGGACTTAGCCCGAATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
42174979 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
42175019 CCTTCGGGACATAGCCCGGATATAGTTAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
42175059 CCTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
42175099 CCTTCGGGACTTAG-CCGGATATAG-CAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
42175138 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
**
42175178 CCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
42175218 CCTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
42175258 CCTTCGGGACATAGCCCGTATATAGTTAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
42175298 CCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
42175338 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42175361 CATTCGAATA
Statistics
Matches: 495, Mismatches: 41, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
38 3 0.01
39 43 0.09
40 443 0.89
41 6 0.01
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:42178674 original size:43 final size:44
Alignment explanation
Indices: 42178613--42178740 Score: 181
Period size: 43 Copynumber: 3.0 Consensus size: 44
42178603 ATATAGCTTG
* * *
42178613 TACAATGCC-ACATCCCAGATATGGTCTTACATATTATCACATA
1 TACAATGCCAATATCCCAGATATGGTCTTACATGTAATCACATA
*
42178656 T-CAATGCCAATATCCCAGACATGGTCTTACATGTAATCACA-A
1 TACAATGCCAATATCCCAGATATGGTCTTACATGTAATCACATA
* *
42178698 TACAATGCCAATGTCCCAAATATGGTCTTACATGTAATCACAT
1 TACAATGCCAATATCCCAGATATGGTCTTACATGTAATCACAT
42178741 CTCATTAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 9 0.12
43 66 0.88
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (44 bp):
TACAATGCCAATATCCCAGATATGGTCTTACATGTAATCACATA
Found at i:42183429 original size:43 final size:43
Alignment explanation
Indices: 42183380--42183536 Score: 235
Period size: 43 Copynumber: 3.7 Consensus size: 43
42183370 TGTGTTCTCC
*
42183380 TGTAAGACCACGTCTGGAACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * *
42183423 TGTAAGACCACGTCTGGGATGTTAGCATCGATATATGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
** *
42183466 TGTAAGACCACGTCTACGACAG-TGGCATCGATATGTGATTACA
1 TGTAAGACCACGTCTGGGAC-GTTGGCATCGATATGTGATTACG
42183509 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
42183537 TGTACAATAT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 1 0.01
43 98 0.98
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
Found at i:42191580 original size:42 final size:43
Alignment explanation
Indices: 42191533--42191640 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 43
42191523 CAATGTCTCT
* *
42191533 GTCCCAGACAG-GGTCTTACAC-AAAATTAGATACGATGCCAAC
1 GTCCCAGAC-GTGGTCTTACACGAAAATCAGAAACGATGCCAAC
* * *
42191575 GTCCCAGACGTGGTCTTACACGTAAATCATAAATGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGAAAATCAGAAACGATGCCAAC
*
42191618 GTCCTAGACGTGGTCTTACACGA
1 GTCCCAGACGTGGTCTTACACGA
42191641 TAACACATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 19 0.33
43 37 0.65
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACACGAAAATCAGAAACGATGCCAAC
Found at i:42200097 original size:30 final size:30
Alignment explanation
Indices: 42200051--42200111 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42200041 ATCCCGAGCC
42200051 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
* * * * *
42200081 TAGGGGTAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
42200111 T
1 T
42200112 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAGTT
Found at i:42200580 original size:46 final size:46
Alignment explanation
Indices: 42200530--42200705 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
42200520 TGGTTGAGCA
42200530 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
42200576 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
42200621 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
42200669 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42200706 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 58 0.53
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42200686 original size:93 final size:93
Alignment explanation
Indices: 42200527--42200698 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
42200517 GGATGGTTGA
* * *
42200527 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
42200592 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
42200620 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
42200684 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
42200699 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42207820 original size:19 final size:19
Alignment explanation
Indices: 42207796--42207895 Score: 159
Period size: 19 Copynumber: 5.3 Consensus size: 19
42207786 AATCTTTAAG
42207796 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
42207815 GATATGCGATCTTAGATAT
1 GATATGCAATCTTAGATAT
42207834 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42207851 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42207870 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
42207891 GATAT
1 GATAT
42207896 TGTAATCTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.21
19 48 0.64
21 11 0.15
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42207827 original size:36 final size:35
Alignment explanation
Indices: 42207786--42207904 Score: 107
Period size: 36 Copynumber: 3.2 Consensus size: 35
42207776 ATGGAAATAT
42207786 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
*
42207822 GATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
* *
42207858 AATCTTAGATATGATATGCAATCTTGAAGATATGATATTGT
1 AATCTT---TAAGATATGCAATCTT--AGATATGATA-TGC
42207899 AATCTT
1 AATCTT
42207905 GGAGATTTAA
Statistics
Matches: 68, Mismatches: 4, Indels: 17
0.76 0.04 0.19
Matches are distributed among these distances:
33 6 0.09
34 1 0.01
35 2 0.03
36 26 0.38
37 1 0.01
38 7 0.10
40 11 0.16
41 14 0.21
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:42213054 original size:7 final size:7
Alignment explanation
Indices: 42213034--42213080 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
42213024 CTTCTATTTC
42213034 AAAAA-A
1 AAAAAGA
*
42213040 AAAGAGA
1 AAAAAGA
42213047 AAAAAG-
1 AAAAAGA
42213053 AAAAAGAA
1 AAAAAG-A
42213061 AAAAGAGA
1 AAAA-AGA
42213069 AAAAAGA
1 AAAAAGA
42213076 AAAAA
1 AAAAA
42213081 CAAGGAGAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
6 10 0.29
7 14 0.40
8 9 0.26
9 2 0.06
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:42213060 original size:13 final size:13
Alignment explanation
Indices: 42213034--42213071 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
42213024 CTTCTATTTC
*
42213034 AAAAAA-AAAGAG
1 AAAAAAGAAAAAG
42213046 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
42213059 AAAAAAGAGAAAA
1 AAAAAAGA-AAAA
42213072 AAGAAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 6 0.26
13 13 0.57
14 4 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:42213089 original size:22 final size:22
Alignment explanation
Indices: 42213037--42213079 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
42213027 CTATTTCAAA
42213037 AAAAAAGAGAAAAAAGAAAAAG
1 AAAAAAGAGAAAAAAGAAAAAG
42213059 AAAAAAGAGAAAAAAGAAAAA
1 AAAAAAGAGAAAAAAGAAAAA
42213080 ACAAGGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAAAAGAGAAAAAAGAAAAAG
Found at i:42214115 original size:44 final size:43
Alignment explanation
Indices: 42214059--42215215 Score: 420
Period size: 44 Copynumber: 26.4 Consensus size: 43
42214049 GATCCAAGAT
*
42214059 GATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAT-ACA
*
42214103 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAT-ACA
* *
42214147 GATTTGGCATCTCTGTATTGGCAGGGAGCAAATTGAAGACATAACTA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAG--AT-AC-A
* * * * * * *
42214194 -ATTTGGCTTTCACGTGT-TT-AC-GTTGAAGCAAATCCAA-A-A-T
1 GATTTGGC-ATCTC-TGTATTGGCAG--GGAGCAGATCGAAGATACA
* * * ** * * *
42214234 GATTTGGCGTCTTTGTATTGTCAGAAAGCAAATCAAAGGTAGCA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATA-CA
* * * *
42214278 GATTTGGCATCTCTGTTTTGGCAGAGAGTAGATTGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAT-ACA
* * * *
42214322 AATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGACAGCA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATA-CA
* * * *
42214366 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCTAGGACATAGCT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATC--GAAGATA-CA
* * * * * * *
42214412 GATTTGGCTTTCACGTGT-TT-ACATTGAAGCAAATCTAAGAT---
1 GATTTGGC-ATCTC-TGTATTGGCA-GGGAGCAGATCGAAGATACA
* *
42214453 GATTTGGCATCTCTGTATTGGAAGGGAGCAGATCGAAGACATAACT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAG--AT-ACA
* * * * * * *
42214499 GATTTGGCTTTCACGTGT-TT-ACATTGAAGCAAATCCAAGAT---
1 GATTTGGC-ATCTC-TGTATTGGCA-GGGAGCAGATCGAAGATACA
* * *
42214540 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATA-CA
* * * *
42214584 AATTTGGCATCTCTATATTGGCAGAGAGCAGATTGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAT-ACA
* * * *
42214628 GATTTGGCATCTCTATATTGGCAGAGAGCAGATCAAAGACAGCA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATA-CA
* * * *
42214672 GATTTGGCGTCTTTGTATTGGAAGGGAGCAGATC-AAGGACATAGCT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAA-G--ATA-CA
* * * * * * *
42214718 GATTTGGCTTTCACATGT-TT-AC-GTTGAAGCAAATC-TA-ATA-T
1 GATTTGGC-ATCTC-TGTATTGGCAG--GGAGCAGATCGAAGATACA
* * *
42214759 GATTTGGCATCTCTATATTGGCAGGGAGCAGATCAAAGACATAGCT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAG--ATA-CA
* * * * * *
42214805 GATTTGGCTTTCACGTGT-TT-AC-GTTGAAGCAAATCTAAGAT---
1 GATTTGGC-ATCTC-TGTATTGGCAG--GGAGCAGATCGAAGATACA
* * * *
42214846 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAGGACATAGA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGA--AGATACA
** * * * * *
42214891 TGATTTGGTTTTCACGTGT-TT-AC-GTTGAAGCAAATCTAAGAT---
1 -GATTTGG-CATCTC-TGTATTGGCAG--GGAGCAGATCGAAGATACA
* * * *
42214933 TATTTGGCGTGTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAG--ATA-CA
* * * * * *
42214979 GATTTGGCTTTCACGTGT-TT-AC-GTTGAAGCAAATCTAAG---CA
1 GATTTGGC-ATCTC-TGTATTGGCAG--GGAGCAGATCGAAGATACA
*
42215020 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATT-GGCAGGGAGCAGATCGAAGAT-ACA
* * * *
42215065 GATTTGACATCTTTGTATTGGCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAT-ACA
** * *
42215109 GATTTGGTGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGAA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATA-CA
* ** * *
42215153 GATTTGGCGTCTCTGTATTATCAGAGAGCA-AGTTGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGA-TCGAAGATA-CA
*
42215197 GATTTGGCATCCCTGTATT
1 GATTTGGCATCTCTGTATT
42215216 TATAGGGAAC
Statistics
Matches: 845, Mismatches: 171, Indels: 194
0.70 0.14 0.16
Matches are distributed among these distances:
39 20 0.02
40 94 0.11
41 74 0.09
42 15 0.02
43 10 0.01
44 398 0.47
45 36 0.04
46 76 0.09
47 102 0.12
48 20 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATACA
Found at i:42214441 original size:219 final size:219
Alignment explanation
Indices: 42214059--42214472 Score: 632
Period size: 219 Copynumber: 1.9 Consensus size: 219
42214049 GATCCAAGAT
* * * *
42214059 GATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTGG
*
42214124 CAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGGGAGCAAATTGAAGACAT
66 CAGAGAGCAGATCGAAGACAACAGATTTGGCATCTCTGTATTGGCAGGGAGCAAATTGAAGACAT
* * *
42214189 AACTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAAATGATTTGGCGTCTTTGTATTG
131 AACTAATTTGGCTTTCACGTGTTTACATTGAAGCAAATCCAAAATGATTTGGCATCTCTGTATTG
42214254 TCAGAAAGCAAATCAAAGGTAGCA
196 TCAGAAAGCAAATCAAAGGTAGCA
* * *
42214278 GATTTGGCATCTCTGTTTTGGCAGAGAGTAGATTGAAGATAACAAATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTGG
* * * * *
42214343 CAGAGAGCAGATTGAAGACAGCAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCT-AGGACA
66 CAGAGAGCAGATCGAAGACAACAGATTTGGCATCTCTGTATTGGCAGGGAGCAAAT-TGAAGACA
* * * *
42214407 TAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATT
130 TAACTAATTTGGCTTTCACGTGTTTACATTGAAGCAAATCCAAAATGATTTGGCATCTCTGTATT
42214472 G
195 G
42214473 GAAGGGAGCA
Statistics
Matches: 174, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
219 173 0.99
220 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (219 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTGG
CAGAGAGCAGATCGAAGACAACAGATTTGGCATCTCTGTATTGGCAGGGAGCAAATTGAAGACAT
AACTAATTTGGCTTTCACGTGTTTACATTGAAGCAAATCCAAAATGATTTGGCATCTCTGTATTG
TCAGAAAGCAAATCAAAGGTAGCA
Found at i:42214700 original size:306 final size:306
Alignment explanation
Indices: 42214147--42214881 Score: 1200
Period size: 306 Copynumber: 2.4 Consensus size: 306
42214137 GAAGATAACA
* * *
42214147 GATTTGGCATCTCTGTATTGGCAGGGAGCAAATTGAAGACATAACTAATTTGGCTTTCACGTGTT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTT
* * * * * *
42214212 TACGTTGAAGCAAATCCAAAATGATTTGGCGTCTTTGTATTGTCAGAAAGCAAATCAAAGGTAGC
66 TACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGC
* * * * *
42214277 AGATTTGGCATCTCTGTTTTGGCAGAGAGTAGATTGAAGATAACAAATTTGGCATCTCTGTATTG
131 AAATTTGGCATCTCTATATTGGCAGAGAGCAGATTGAAGATAACAAATTTGGCATCTCTATATTG
** * *
42214342 GCAGAGAGCAGATTGAAGACAGCAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCTAGGACA
196 GCAGAGAGCAGATCAAAGACAGCAGATTTGGCGTCTCTGTATTGGAAGGGAGCAGATCAAGGACA
*
42214407 TAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGAT
261 TAGCTGATTTGGCTTTCACATGTTTACATTGAAGCAAATCTAAGAT
*
42214453 GATTTGGCATCTCTGTATTGGAAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTT
*
42214518 TACATTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGC
66 TACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGC
*
42214583 AAATTTGGCATCTCTATATTGGCAGAGAGCAGATTGAAGATAACAGATTTGGCATCTCTATATTG
131 AAATTTGGCATCTCTATATTGGCAGAGAGCAGATTGAAGATAACAAATTTGGCATCTCTATATTG
*
42214648 GCAGAGAGCAGATCAAAGACAGCAGATTTGGCGTCTTTGTATTGGAAGGGAGCAGATCAAGGACA
196 GCAGAGAGCAGATCAAAGACAGCAGATTTGGCGTCTCTGTATTGGAAGGGAGCAGATCAAGGACA
* *
42214713 TAGCTGATTTGGCTTTCACATGTTTACGTTGAAGCAAATCTAATAT
261 TAGCTGATTTGGCTTTCACATGTTTACATTGAAGCAAATCTAAGAT
* * *
42214759 GATTTGGCATCTCTATATTGGCAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTT
* *
42214824 TACGTTGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGA
66 TACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGA
42214882 GGACATAGAT
Statistics
Matches: 397, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
306 397 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (306 bp):
GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTT
TACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGC
AAATTTGGCATCTCTATATTGGCAGAGAGCAGATTGAAGATAACAAATTTGGCATCTCTATATTG
GCAGAGAGCAGATCAAAGACAGCAGATTTGGCGTCTCTGTATTGGAAGGGAGCAGATCAAGGACA
TAGCTGATTTGGCTTTCACATGTTTACATTGAAGCAAATCTAAGAT
Found at i:42214790 original size:87 final size:87
Alignment explanation
Indices: 42214672--42215054 Score: 590
Period size: 87 Copynumber: 4.4 Consensus size: 87
42214662 AAAGACAGCA
* * *
42214672 GATTTGGCGTCTTTGTATTGGAAGGGAGCAGATCAAGGACATAGCTGATTTGGCTTTCACATGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCAAGGACATAGCTGATTTGGCTTTCACGTGTT
*
42214737 TACGTTGAAGCAAATCTAATAT
66 TACGTTGAAGCAAATCTAAGAT
* * *
42214759 GATTTGGCATCTCTATATTGGCAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCAAGGACATAGCTGATTTGGCTTTCACGTGTT
42214824 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * * *
42214846 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAGGACATAGATGATTTGGTTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCAAGGACATAGCTGATTTGGCTTTCACGTGTT
42214911 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* *
42214933 TATTTGGCGTGTCTGTATTGGCAGGGAGCAGATCGAA-GACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATC-AAGGACATAGCTGATTTGGCTTTCACGTGT
42214997 TTACGTTGAAGCAAATCTAAGCA-
65 TTACGTTGAAGCAAATCTAAG-AT
* *
42215020 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATC
1 GATTTGGCGTCTCTGTATT-GGCAGGGAGCAGATC
42215055 GAAGATAACA
Statistics
Matches: 269, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
87 253 0.94
88 16 0.06
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (87 bp):
GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCAAGGACATAGCTGATTTGGCTTTCACGTGTT
TACGTTGAAGCAAATCTAAGAT
Found at i:42215159 original size:174 final size:177
Alignment explanation
Indices: 42214672--42215160 Score: 467
Period size: 174 Copynumber: 2.8 Consensus size: 177
42214662 AAAGACAGCA
* * * * *
42214672 GATTTGGCGTCTTTGTATTGGA-AGGGAGCAGATC-AAGGACATAGC-TGATTTGG-CTTTCACA
1 GATTTGGCATCTCTGTATT-GACAGAGAGCAGATCGAA-GACATA-CATGATTTGGAC-ATCACG
** * * * *
42214733 TGTTTACGTTGAAGCAAATC-TA-AT-AT-GATTTGGCATCTCTATATTGGCAGGGAGCAGATCA
62 TGTTTACGCAGAAGCAAATCGAAGATAATAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCG
42214794 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAT
127 AAGA-ATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAT
* * * * ***
42214846 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAGGACATAGATGATTTGGTTTTCACGTGTT
1 GATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGACATACATGATTTGGACATCACGTGTT
** * *
42214911 TACGTTGAAGCAAATCTAAGAT--T--ATTTGGCGTGTCTGTATTGGCAGGGAGCAGATCGAAGA
66 TACGCAGAAGCAAATCGAAGATAATAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGA
42214972 CATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGCA-
131 -ATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAG-AT
* * **
42215020 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATA-ACA-GATTT-GACATC-TTTGT
1 GATTTGGCATCTCTGTATT-GACAGAGAGCAGATCGAAGACATACATGATTTGGACATCACGTGT
* * * *
42215081 ATT-GGCAGAGAGCAGATCGAAGATAATAGATTTGGTGTCTCTGTATTGGCAGAGAGCAGATCGA
65 -TTACGCAGA-AGCAAATCGAAGATAATAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGA
**
42215145 AG-ATAGAAGATTTGGC
128 AGAATAGCTGATTTGGC
42215161 GTCTCTGTAT
Statistics
Matches: 268, Mismatches: 33, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
171 6 0.02
172 17 0.06
173 6 0.02
174 181 0.68
175 22 0.08
176 36 0.13
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (177 bp):
GATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGACATACATGATTTGGACATCACGTGTT
TACGCAGAAGCAAATCGAAGATAATAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGA
ATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAT
Found at i:42215229 original size:88 final size:88
Alignment explanation
Indices: 42214059--42215235 Score: 362
Period size: 87 Copynumber: 13.4 Consensus size: 88
42214049 GATCCAAGAT
* * * *
42214059 GATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTAG
*
42214124 CAGAGAGCAGATCGAAGATAACA
66 CAGAGAGCAGATCGAAGATAGCA
* * * * * *
42214147 GATTTGGCATCTCTGTATTGGCAGGGAGCAAATTGAAGACATAACTA-ATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAG--ATAAC-AGATTTGAC-ATCTC-TGT
** * * *
42214211 -TTACGTTGA-AGCAAATCCAA-A-A--T
61 ATTA-GCAGAGAGCAGATCGAAGATAGCA
* * * ** * * * * * * *
42214234 GATTTGGCGTCTTTGTATTGTCAGAAAGCAAATCAAAGGTAGCAGATTTGGCATCTCTGTTTTGG
1 GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTAG
* * *
42214299 CAGAGAGTAGATTGAAGATAACA
66 CAGAGAGCAGATCGAAGATAGCA
* * * * * * * * *
42214322 AATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGACAGCAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTAG
* * * *
42214387 CAGGGAGCAGATCTAGGACATAGCT
66 CAGAGAGCAGATC--GAAGATAGCA
* * * * * * *
42214412 GATTTGGCTTTCACGTGT-TT-ACATTGAAGCAAATCTAAGAT----GATTTGGCATCTCTGTAT
1 GATTTGGC-ATCTC-TGTATTGACA-GGGAGCAGATCGAAGATAACAGATTTGACATCTCTGTAT
* * * * *
42214471 TGGAAGGGAGCAGATCGAAGACATAACT
63 TAGCAGAGAGCAGATCGAAG--ATAGCA
* * * * * * * *
42214499 GATTTGGCTTTCACGTGT-TT-ACATTGAAGCAAATCCAAGAT----GATTTGGCGTCTCTGTAT
1 GATTTGGC-ATCTC-TGTATTGACA-GGGAGCAGATCGAAGATAACAGATTTGACATCTCTGTAT
42214558 T-GTCAGAGAGCAGATCGAAGATAGCA
63 TAG-CAGAGAGCAGATCGAAGATAGCA
* * * * * * * *
42214584 AATTTGGCATCTCTATATTGGCAGAGAGCAGATTGAAGATAACAGATTTGGCATCTCTATATTGG
1 GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTAG
* *
42214649 CAGAGAGCAGATCAAAGACAGCA
66 CAGAGAGCAGATCGAAGATAGCA
* * * * * * *
42214672 GATTTGGCGTCTTTGTATTGGA-AGGGAGCAGATC-AAGGACATAGCTGATTTGGCTTTCACATG
1 GATTTGGCATCTCTGTATT-GACAGGGAGCAGATCGAA-G--ATAACAGATTTGAC-ATCTC-TG
** * * *
42214735 T-TTACGTTGA-AGCAAATC-TA-ATA--T
60 TATTA-GCAGAGAGCAGATCGAAGATAGCA
* * * * * * * *
42214759 GATTTGGCATCTCTATATTGGCAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGT-
1 GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAG--ATAACAGATTTGAC-ATCTC-TGTA
** * *
42214823 TTACGTTGA-AGCAAATCTAAGAT----
62 TTA-GCAGAGAGCAGATCGAAGATAGCA
* * * * * * *** *
42214846 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAGGACATAGATGATTTGGTTTTCACGTGT-
1 GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAGATA-ACA-GATTT-GACATCTC-TGTA
** * *
42214910 TTACGTTGA-AGCAAATCTAAGAT----
62 TTA-GCAGAGAGCAGATCGAAGATAGCA
* * * * * * * * *
42214933 TATTTGGCGTGTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-
1 GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAG--ATAACAGATTTGAC-ATCTC-TGTA
** * *
42214997 TTACGTTGA-AGCAAATC---TA-AGCA
62 TTA-GCAGAGAGCAGATCGAAGATAGCA
* *
42215020 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAACAGATTTGACATCTTTGTATTG
1 GATTTGGCATCTCTGTATT-GACAGGGAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTA
**
42215085 GCAGAGAGCAGATCGAAGATAATA
65 GCAGAGAGCAGATCGAAGATAGCA
** * * * *
42215109 GATTTGGTGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAGATA-ACAGATTTGACATCTCTGTATTA
* *
42215173 TCAGAGAGCA-AGTTGAAGATAGCA
65 GCAGAGAGCAGA-TCGAAGATAGCA
* * * * *
42215197 GATTTGGCATCCCTGTATTTATAGGGAACAGATTGAAGA
1 GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAGA
42215236 CATAGCAGAT
Statistics
Matches: 859, Mismatches: 172, Indels: 116
0.75 0.15 0.10
Matches are distributed among these distances:
83 8 0.01
84 36 0.04
85 39 0.05
86 15 0.02
87 366 0.43
88 270 0.31
89 29 0.03
90 40 0.05
91 42 0.05
92 14 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (88 bp):
GATTTGGCATCTCTGTATTGACAGGGAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTAG
CAGAGAGCAGATCGAAGATAGCA
Found at i:42215233 original size:44 final size:44
Alignment explanation
Indices: 42215016--42215475 Score: 223
Period size: 44 Copynumber: 10.3 Consensus size: 44
42215006 AGCAAATCTA
* * *
42215016 AGCAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTATT-TACAGGGAACAGATCGAAGAT
* * ** ** * *
42215061 AACAGATTTGACATCTTTGTATTGGCAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTATTTACAGGGAACAGATCGAAGAT
** ** * ** * *
42215105 AATAGATTTGGTGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTATTTACAGGGAACAGATCGAAGAT
* * * * * *
42215149 AGAAGATTTGGCGTCTCTGTA-TTATCAGAGAGCA-AGTTGAAGAT
1 AGCAGATTTGGCATCCCTGTATTTA-CAGGGAACAGA-TCGAAGAT
* *
42215193 AGCAGATTTGGCATCCCTGTATTTATAGGGAACAGATTGAAGACAT
1 AGCAGATTTGGCATCCCTGTATTTACAGGGAACAGATCGAAG--AT
* * * ** * *
42215239 AGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
1 AGCAGATTTGGCATCCCTGTATTTACAGGGAA-CAGATCGAAGAT
*** ** * ** *
42215284 TTTA-ACATGGCATCCCTGTGTTTTTAGGGAACA-AGTTGAAGAT
1 AGCAGATTTGGCATCCCTGTATTTACAGGGAACAGA-TCGAAGAT
* * *
42215327 AGCAGATTTGGCATCCCTGTGTTTACAGGGAACAAATCAAAGACAT
1 AGCAGATTTGGCATCCCTGTATTTACAGGGAACAGATCGAAG--AT
* * * ** * *
42215373 AGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATTGAAGAT
1 AGCAGATTTGGCATCCCTGTATTTACAGGGAA-CAGATCGAAGAT
** * * *
42215418 TTCAGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGAT
1 AGCAG-ATTTGGCATCCCTGTATTTACAGGGAACAGA-TCGAAGAT
*
42215461 AGTAGATTTGGCATC
1 AGCAGATTTGGCATC
42215476 TCCATATTCG
Statistics
Matches: 327, Mismatches: 71, Indels: 35
0.76 0.16 0.08
Matches are distributed among these distances:
42 3 0.01
43 23 0.07
44 196 0.60
45 33 0.10
46 57 0.17
47 15 0.05
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (44 bp):
AGCAGATTTGGCATCCCTGTATTTACAGGGAACAGATCGAAGAT
Found at i:42215334 original size:134 final size:134
Alignment explanation
Indices: 42215181--42215552 Score: 487
Period size: 134 Copynumber: 2.8 Consensus size: 134
42215171 TATCAGAGAG
* * **
42215181 CAAGTTGAAGATAGCAGATTTGGCATCCCTGTATTTATAGGGAACAGATTGAAGACATAGCAGAT
1 CAAGTTGAAGATAGCAGATTTGGCATCCCTGTATTTACAGGGAACAAATCAAAGACATAGCAGAT
* * *
42215246 CTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTTAACATGGCATCCCTGTGTTTTTAG
66 CTGACATTCCTGTGCTTACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAG
42215311 GGAA
131 GGAA
*
42215315 CAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTACAGGGAACAAATCAAAGACATAGCAGAT
1 CAAGTTGAAGATAGCAGATTTGGCATCCCTGTATTTACAGGGAACAAATCAAAGACATAGCAGAT
** *
42215380 CTGACATTCCTGTGCTTACAGCGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAG
66 CTGACATTCCTGTGCTTACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAG
42215445 GGAA
131 GGAA
* * * ** * *
42215449 CAAGTTGAAGATAGTAGATTTGGCATCTCC-ATATTCGAC-GGGAAGCAGGTTAAAGACATAGTA
1 CAAGTTGAAGATAGCAGATTTGGCATC-CCTGTATT-TACAGGGAA-CAAATCAAAGACATAGCA
* * * * * *
42215512 GATCTGACCTTCATGTGTTTACATCGACGCAGATCCAAGAT
63 GATCTGACATTCCTGTGCTTACAGCGAAGCAGATCAAAGAT
42215553 GACAGATTTG
Statistics
Matches: 209, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
134 157 0.75
135 52 0.25
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (134 bp):
CAAGTTGAAGATAGCAGATTTGGCATCCCTGTATTTACAGGGAACAAATCAAAGACATAGCAGAT
CTGACATTCCTGTGCTTACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAG
GGAA
Found at i:42216068 original size:19 final size:19
Alignment explanation
Indices: 42216044--42216141 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
42216034 AATCTTTAAG
*
42216044 GATATGGAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42216063 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42216082 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42216099 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42216118 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
42216139 GAT
1 GAT
42216142 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42216074 original size:36 final size:35
Alignment explanation
Indices: 42216034--42216119 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 35
42216024 ATGGAAATAT
*
42216034 AATCTTTAAGGATATG-GAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
42216070 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
42216106 AATC-TTAGATATGA
1 AATCTTTAGATATGA
42216120 TATGCAATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 36 0.78
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:42216080 original size:14 final size:15
Alignment explanation
Indices: 42216063--42216119 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
42216053 TCTTAGATAT
42216063 GATATG-CAATCTTA
1 GATATGACAATCTTA
42216077 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
42216094 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
42216113 GATATGA
1 GATATGA
42216120 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:42216120 original size:36 final size:37
Alignment explanation
Indices: 42216051--42216141 Score: 148
Period size: 36 Copynumber: 2.4 Consensus size: 37
42216041 AAGGATATGG
42216051 AATCTTAGATATGATATGCAATCTTAGATATGATA-C
1 AATCTTAGATATGATATGCAATCTTAGATATGATAGC
42216087 AATCTTAGATATGATATGCAATCTTAGATATGATATGC
1 AATCTTAGATATGATATGCAATCTTAGATATGATA-GC
42216125 AATCTTGAAGATATGAT
1 AATCTT--AGATATGAT
42216142 CTTGTAATCT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
36 35 0.69
38 7 0.14
40 9 0.18
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (37 bp):
AATCTTAGATATGATATGCAATCTTAGATATGATAGC
Found at i:42219302 original size:28 final size:28
Alignment explanation
Indices: 42219262--42219317 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
42219252 TAAGAGTATG
42219262 CCCAAAGATCAATCATGAGATGGTTGTA
1 CCCAAAGATCAATCATGAGATGGTTGTA
42219290 CCCAAAGATCAATCATGAGATGGTTGTA
1 CCCAAAGATCAATCATGAGATGGTTGTA
42219318 ATAACATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (28 bp):
CCCAAAGATCAATCATGAGATGGTTGTA
Found at i:42220050 original size:14 final size:15
Alignment explanation
Indices: 42220019--42220051 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
42220009 TAAAGGACTT
*
42220019 AAAGATTAATGCATA
1 AAAGATTAATGCACA
42220034 AAAGATTAAT-CACA
1 AAAGATTAATGCACA
42220048 AAAG
1 AAAG
42220052 GTTATGTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (15 bp):
AAAGATTAATGCACA
Found at i:42221644 original size:27 final size:27
Alignment explanation
Indices: 42221610--42221701 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
42221600 GGGCAAAATA
*
42221610 GTCATTTTACCCTAC-AGAGGTATGTCG
1 GTCATTTTACACTACAAG-GGTATGTCG
* *
42221637 GTCATTTTACACTATAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* *
42221664 GTAATTTTACACTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* *
42221691 ATAATTTTACA
1 GTCATTTTACA
42221702 AATCGAAGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 56 0.97
28 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTCG
Found at i:42222053 original size:27 final size:27
Alignment explanation
Indices: 42221653--42222073 Score: 449
Period size: 27 Copynumber: 15.7 Consensus size: 27
42221643 TTACACTATA
* *
42221653 AGGGTATTTCGGTAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
*
42221680 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * **
42221707 AAGGTGTTTTAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
42221734 ATGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
**
42221761 AGGGTATTTTTGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
42221788 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
42221815 AGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
42221842 AGGGTATTTCAATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
***
42221869 AGGGTATTTTACTAATTTTAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
42221895 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * * * *
42221922 AGGGTATTTTAGCAATTTTGCAAACCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
42221949 AGGGTATTTCAGTAATTTTACAAA-CT
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
42221975 AGGAGTATTTTGGTAATTTTAC-AA-CC
1 AGG-GTATTTCGGTAATTTTACAAATCG
* ** *
42222001 AGGAGTGTTTCTATAATTTTACAAACCG
1 AGG-GTATTTCGGTAATTTTACAAATCG
*
42222029 AGGGTACTTCGGTAATTTTACAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAATC-G
*
42222056 GGGGTATTTCGGTAATTT
1 AGGGTATTTCGGTAATTT
42222074 CTCTTTATTA
Statistics
Matches: 334, Mismatches: 54, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
26 48 0.14
27 280 0.84
28 6 0.02
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:42222425 original size:28 final size:28
Alignment explanation
Indices: 42222390--42222453 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
42222380 TAGCCCCTTT
*
42222390 AGGCCCAATC-TCGTTCACATGGCCCATC
1 AGGCCCAATCAT-ATTCACATGGCCCATC
*
42222418 AGGCCCAATCATATTCATATGGCCCATC
1 AGGCCCAATCATATTCACATGGCCCATC
42222446 AGGCCCAA
1 AGGCCCAA
42222454 CTACTTCCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCATATTCACATGGCCCATC
Found at i:42225283 original size:27 final size:27
Alignment explanation
Indices: 42225240--42225585 Score: 244
Period size: 27 Copynumber: 12.9 Consensus size: 27
42225230 TACCCTACAG
* * *
42225240 GGGTATGTTAGTCATTTTAC-ACTACAA
1 GGGTATTTTAGTAATTTTACAAAT-CAA
* * *
42225267 GGGTATTTTGGTAATTTTA-TACTACAA
1 GGGTATTTTAGTAATTTTACAAAT-CAA
* * **
42225294 AGGTA-TTTCGATAATTTTACAAATCGG
1 GGGTATTTTAG-TAATTTTACAAATCAA
* *
42225321 GGGTGTTTTAGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCAA
42225348 GGGTATTTTAGTAATTTTACAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCAA
* * * *
42225375 GGGTGTTTTGGTAATTTTAAAAATTGAA
1 GGGTATTTTAGTAATTTTACAAA-TCAA
* * *
42225403 -GGTATTTTAATAAATTTAC-AATCGA
1 GGGTATTTTAGTAATTTTACAAATCAA
* * *
42225428 GGGTGTTTCAGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCAA
* * *
42225455 GGGTATTTCAATAATTTTAC-AATCGA
1 GGGTATTTTAGTAATTTTACAAATCAA
* *
42225481 GGGTA-TTTCGATAATTTTACAAATTAA
1 GGGTATTTTAG-TAATTTTACAAATCAA
** * *
42225508 GGGTATTGCAGTAATTTTGCAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCAA
* * *
42225535 GGGTA-TTTCGATAATTTTATAAA-CTA
1 GGGTATTTTAG-TAATTTTACAAATCAA
*
42225561 GGGTA-TTTCGATAATTTTACAAATC
1 GGGTATTTTAG-TAATTTTACAAATC
42225586 GGGGGCACTT
Statistics
Matches: 257, Mismatches: 50, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
25 4 0.02
26 67 0.26
27 175 0.68
28 11 0.04
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAATCAA
Found at i:42225447 original size:80 final size:81
Alignment explanation
Indices: 42225295--42225609 Score: 321
Period size: 80 Copynumber: 3.9 Consensus size: 81
42225285 ATACTACAAA
* ** * * *
42225295 GGTATTTCGATAATTTTACAAATCGGGGGTGTTTTAGTAATTTTACAAATCGAGGGTATTTTAGT
1 GGTATTTCGATAATTTTAAAAATCGAAGGTATTTTAATAATTTTACAAATCGAGGGTATTTCAGT
42225360 AATTTTACAAATCAAG
66 AATTTTACAAATCAAG
* * * * * *
42225376 GGTGTTTTGGTAATTTTAAAAATTGAAGGTATTTTAATAAATTTAC-AATCGAGGGTGTTTCAGT
1 GGTATTTCGATAATTTTAAAAATCGAAGGTATTTTAATAATTTTACAAATCGAGGGTATTTCAGT
*
42225440 AATTTTACAAATCGAG
66 AATTTTACAAATCAAG
* * * ** ** *
42225456 GGTATTTCAATAATTTT-ACAATCGAGGGTATTTCGATAATTTTACAAATTAAGGGTATTGCAGT
1 GGTATTTCGATAATTTTAAAAATCGAAGGTATTTTAATAATTTTACAAATCGAGGGTATTTCAGT
* *
42225520 AATTTTGCAAACCAAG
66 AATTTTACAAATCAAG
* * * ** * * * *
42225536 GGTATTTCGATAATTTTATAAA-CTAGGGTATTTCGATAATTTTACAAATCGGGGGCACTTCAAT
1 GGTATTTCGATAATTTTAAAAATCGAAGGTATTTTAATAATTTTACAAATCGAGGGTATTTCAGT
42225600 AATTTTACAA
66 AATTTTACAA
42225610 CCAGAGGTAT
Statistics
Matches: 190, Mismatches: 42, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
79 22 0.12
80 130 0.68
81 38 0.20
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (81 bp):
GGTATTTCGATAATTTTAAAAATCGAAGGTATTTTAATAATTTTACAAATCGAGGGTATTTCAGT
AATTTTACAAATCAAG
Found at i:42225460 original size:53 final size:54
Alignment explanation
Indices: 42225295--42225609 Score: 307
Period size: 53 Copynumber: 5.9 Consensus size: 54
42225285 ATACTACAAA
* * *
42225295 GGTATTTCGATAATTTTACAAATCGGGGGTGTTTTAGTAATTTTACAAATCGAG
1 GGTATTTCAATAATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAATCGAG
* * * ** * * *
42225349 GGTATTTTAGTAATTTTACAAATCAAGGGTGTTTTGGTAATTTTAAAAATTGAA
1 GGTATTTCAATAATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAATCGAG
* *
42225403 GGTATTTTAATAAATTTAC-AATCGAGGGTGTTTCAGTAATTTTACAAATCGAG
1 GGTATTTCAATAATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAATCGAG
* **
42225456 GGTATTTCAATAATTTTAC-AATCGAGGGTATTTC-GATAATTTTACAAATTAAG
1 GGTATTTCAATAATTTTACAAATCGAGGGTGTTTCAG-TAATTTTACAAATCGAG
* * * * * * * *
42225509 GGTATTGCAGTAATTTTGCAAACCAAGGGTATTTC-GATAATTTTATAAA-CTAG
1 GGTATTTCAATAATTTTACAAATCGAGGGTGTTTCAG-TAATTTTACAAATCGAG
* * *** *
42225562 GGTATTTCGATAATTTTACAAATCGGGGGCACTTCAATAATTTTACAA
1 GGTATTTCAATAATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAA
42225610 CCAGAGGTAT
Statistics
Matches: 217, Mismatches: 41, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
52 1 0.00
53 128 0.59
54 88 0.41
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (54 bp):
GGTATTTCAATAATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAATCGAG
Found at i:42225609 original size:27 final size:27
Alignment explanation
Indices: 42225295--42225609 Score: 303
Period size: 27 Copynumber: 11.8 Consensus size: 27
42225285 ATACTACAAA
* *
42225295 GGTATTTCGATAATTTTACAAATCGGG
1 GGTATTTCAATAATTTTACAAATCGAG
* * *
42225322 GGTGTTTTAGTAATTTTACAAATCGAG
1 GGTATTTCAATAATTTTACAAATCGAG
* * *
42225349 GGTATTTTAGTAATTTTACAAATCAAG
1 GGTATTTCAATAATTTTACAAATCGAG
* *** * * *
42225376 GGTGTTTTGGTAATTTTAAAAATTGAA
1 GGTATTTCAATAATTTTACAAATCGAG
* *
42225403 GGTATTTTAATAAATTTAC-AATCGAG
1 GGTATTTCAATAATTTTACAAATCGAG
* *
42225429 GGTGTTTCAGTAATTTTACAAATCGAG
1 GGTATTTCAATAATTTTACAAATCGAG
42225456 GGTATTTCAATAATTTTAC-AATCGAG
1 GGTATTTCAATAATTTTACAAATCGAG
* **
42225482 GGTATTTCGATAATTTTACAAATTAAG
1 GGTATTTCAATAATTTTACAAATCGAG
* * * * *
42225509 GGTATTGCAGTAATTTTGCAAACCAAG
1 GGTATTTCAATAATTTTACAAATCGAG
* * *
42225536 GGTATTTCGATAATTTTATAAA-CTAG
1 GGTATTTCAATAATTTTACAAATCGAG
* *
42225562 GGTATTTCGATAATTTTACAAATCGGG
1 GGTATTTCAATAATTTTACAAATCGAG
* *
42225589 GGCACTTCAATAATTTTACAA
1 GGTATTTCAATAATTTTACAA
42225610 CCAGAGGTAT
Statistics
Matches: 238, Mismatches: 47, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
26 69 0.29
27 169 0.71
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTATTTCAATAATTTTACAAATCGAG
Found at i:42225991 original size:28 final size:28
Alignment explanation
Indices: 42225948--42226002 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
42225938 GGCCCCTTTA
* *
42225948 GGCCCAATCTCGTTCACATGGCCCATCC
1 GGCCCAATCACATTCACATGGCCCATCC
*
42225976 GGCCCAATCACATTCATATGGCCCATC
1 GGCCCAATCACATTCACATGGCCCATC
42226003 AAGCCCAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (28 bp):
GGCCCAATCACATTCACATGGCCCATCC
Found at i:42226008 original size:28 final size:28
Alignment explanation
Indices: 42225949--42226010 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
42225939 GCCCCTTTAG
* * **
42225949 GCCCAATCTCGTTCACATGGCCCATCCG
1 GCCCAATCACATTCACATGGCCCATCAA
*
42225977 GCCCAATCACATTCATATGGCCCATCAA
1 GCCCAATCACATTCACATGGCCCATCAA
42226005 GCCCAA
1 GCCCAA
42226011 CTATTCCCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.40, G:0.15, T:0.19
Consensus pattern (28 bp):
GCCCAATCACATTCACATGGCCCATCAA
Found at i:42235457 original size:27 final size:26
Alignment explanation
Indices: 42235399--42235483 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
42235389 GCGTACCTAA
**
42235399 ACCCTTATGTGATAAAATGAC-GATTTT
1 ACCCTTA-GTGATAAAATGACTGA-AAT
*
42235426 TCCCTTACGTGATAAAATGACTGAAAT
1 ACCCTTA-GTGATAAAATGACTGAAAT
42235453 ACCCTCATAG-GATAAAATGACTGAAAT
1 ACCCT--TAGTGATAAAATGACTGAAAT
42235480 ACCC
1 ACCC
42235484 CCATAGGGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 45 0.90
28 3 0.06
29 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (26 bp):
ACCCTTAGTGATAAAATGACTGAAAT
Found at i:42235488 original size:27 final size:27
Alignment explanation
Indices: 42235436--42235536 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
42235426 TCCCTTACGT
*
42235436 GATAAAATGACTGAAATACCCTCATAG
1 GATAAAATGACTGAAATACCCCCATAG
42235463 GATAAAATGACTGAAATACCCCCATAG
1 GATAAAATGACTGAAATACCCCCATAG
* ** * *
42235490 GGTGGAATGACCGAAA-ACCCCTATAG
1 GATAAAATGACTGAAATACCCCCATAG
*
42235516 GGTAAAATGACT-ATAATACCC
1 GATAAAATGACTGA-AATACCC
42235537 TGGTAAGGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.02
26 20 0.32
27 42 0.67
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
GATAAAATGACTGAAATACCCCCATAG
Found at i:42235524 original size:26 final size:27
Alignment explanation
Indices: 42235438--42235553 Score: 114
Period size: 27 Copynumber: 4.3 Consensus size: 27
42235428 CCTTACGTGA
*
42235438 TAAAATGACTGAAATA-CCCTCATAGGA
1 TAAAATGACTGAAATACCCCT-ATAGGG
*
42235465 TAAAATGACTGAAATACCCCCATAGGG
1 TAAAATGACTGAAATACCCCTATAGGG
** *
42235492 TGGAATGACCGAAA-ACCCCTATAGGG
1 TAAAATGACTGAAATACCCCTATAGGG
* *
42235518 TAAAATGACT-ATAATA-CCCTGGTAAGG
1 TAAAATGACTGA-AATACCCCT-ATAGGG
42235545 TAAAATGAC
1 TAAAATGAC
42235554 ATTTGTTCTA
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
25 1 0.01
26 24 0.32
27 46 0.62
28 3 0.04
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCCTATAGGG
Found at i:42235552 original size:53 final size:54
Alignment explanation
Indices: 42235438--42235553 Score: 121
Period size: 53 Copynumber: 2.2 Consensus size: 54
42235428 CCTTACGTGA
* *
42235438 TAAAATGACTGAAATACCCTCATAGGATAAAATGACTGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGATAAAATGACTGAAATACCCCCATAAGG
** * ***
42235492 TGGAATGACCGAAA-ACCC-CTATAGGGTAAAATGACT-ATAATACCCTGGTAAGG
1 TAAAATGACCGAAATACCCTC-ATAGGATAAAATGACTGA-AATACCCCCATAAGG
42235545 TAAAATGAC
1 TAAAATGAC
42235554 ATTTGTTCTA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
52 2 0.04
53 37 0.74
54 11 0.22
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (54 bp):
TAAAATGACCGAAATACCCTCATAGGATAAAATGACTGAAATACCCCCATAAGG
Found at i:42237471 original size:25 final size:25
Alignment explanation
Indices: 42237436--42237494 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
42237426 CATGAATGAT
*
42237436 GAAGATTCATGCATGAATGTATCTA
1 GAAGATCCATGCATGAATGTATCTA
42237461 GAAGATCCATGCATGAATGTATCTA
1 GAAGATCCATGCATGAATGTATCTA
42237486 GAAGATCCA
1 GAAGATCCA
42237495 ATCCCTTTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (25 bp):
GAAGATCCATGCATGAATGTATCTA
Found at i:42238763 original size:12 final size:11
Alignment explanation
Indices: 42238744--42238787 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
42238734 TATACAAGTT
42238744 AAAAAAAATTC
1 AAAAAAAATTC
42238755 AATAAAAAATTC
1 AA-AAAAAATTC
*
42238767 -AAAAAAATCTG
1 AAAAAAAAT-TC
42238778 AAAAAAAATT
1 AAAAAAAATT
42238788 GAAGTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 7 0.24
11 5 0.17
12 17 0.59
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.20
Consensus pattern (11 bp):
AAAAAAAATTC
Done.