Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 192 of 425
Found at i:58348341 original size:46 final size:46
Alignment explanation
Indices: 58348287--58348406 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 46
58348277 CTCGTAGCCA
*
58348287 ATGCATGTCCCAGACATGCCTTACACTGGC-TCGTGTC-TCAA-T-GTTG
1 ATGCATGTCCCAGACATGTCTTACACTGGCAT--T-TCAT-AAGTGGTTG
*
58348333 ATGCATGTCTCAGACATGTCTTACACTGGCATTTCATAATGTGGTTG
1 ATGCATGTCCCAGACATGTCTTACACTGGCATTTCATAA-GTGGTTG
58348380 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
58348407 AGCACACACA
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
44 4 0.06
45 2 0.03
46 29 0.44
47 31 0.47
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCATTTCATAAGTGGTTG
Found at i:58348960 original size:30 final size:30
Alignment explanation
Indices: 58348925--58348983 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
58348915 CAAAACTCAT
*
58348925 ATTTTGACAAATTTAAAATTTTGCCCCTAA
1 ATTTTGACAAAATTAAAATTTTGCCCCTAA
* * * *
58348955 ATTTTGCCAAAATTACATTTTTGTCCCTA
1 ATTTTGACAAAATTAAAATTTTGCCCCTA
58348984 GGCTTGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (30 bp):
ATTTTGACAAAATTAAAATTTTGCCCCTAA
Found at i:58355107 original size:46 final size:45
Alignment explanation
Indices: 58355040--58355211 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
58355030 TGTAACCCGC
* *
58355040 CCATAAGCGAACTCGGACTCAACTCAACGAGGTCAGGCATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGTAT
* *
58355086 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGTA--T
* * * * *
58355132 ACATCTCA-TGAACTTGGACTCAACACAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGTAT
* *
58355179 CCATAAGTGAACTCGAACTCAACTCAATGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
58355212 TGGATGCCCA
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
44 5 0.05
45 4 0.04
46 57 0.56
47 30 0.29
48 2 0.02
49 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGTAT
Found at i:58355162 original size:93 final size:93
Alignment explanation
Indices: 58355048--58355219 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
58355038 GCCCATAAGC
* * *
58355048 GAACTCGGACTCAACTCAACGAGGTCAGG-CATTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACACAACGAGGTC-GGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
58355112 ACGAGTTCGGATGCCTAGTTACATCTCAT
65 ACGAGTTCGGATGCCTAGTTACATCTCAT
* *
58355141 GAACTTGGACTCAACACAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACACAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
* *
58355206 TGAGTTTGGATGCC
66 CGAGTTCGGATGCC
58355220 CAAATATCCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACACAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:58357682 original size:22 final size:22
Alignment explanation
Indices: 58357641--58357684 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
58357631 ATAGAAAAAC
**
58357641 CCAGAATAAAGAAATTCAAGAT
1 CCAGAATAAAGAAACCCAAGAT
*
58357663 CCAGGATAAAGAAACCCAAGAT
1 CCAGAATAAAGAAACCCAAGAT
58357685 ACGATACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.18, G:0.16, T:0.14
Consensus pattern (22 bp):
CCAGAATAAAGAAACCCAAGAT
Found at i:58359861 original size:40 final size:40
Alignment explanation
Indices: 58359806--58360036 Score: 374
Period size: 40 Copynumber: 5.8 Consensus size: 40
58359796 CGGATGATAA
58359806 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
58359846 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
58359886 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * * *
58359926 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * *
58359966 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* *
58360006 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
58360037 AGCTATATCT
Statistics
Matches: 181, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 8 0.04
40 173 0.96
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
Found at i:58368656 original size:54 final size:54
Alignment explanation
Indices: 58368580--58368687 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
58368570 GAATTGAAAG
*
58368580 ATCAAATTGAGTAGAACGTAGGAAATGAGCACGATCGTTTGATGATGAATTGAT
1 ATCAAATTGAGTAGAACATAGGAAATGAGCACGATCGTTTGATGATGAATTGAT
58368634 ATCAAATTGAGTAGAACATAGGAAATGAGCACGATCGTTTGATGATGAATTGAT
1 ATCAAATTGAGTAGAACATAGGAAATGAGCACGATCGTTTGATGATGAATTGAT
58368688 GGATAAGACC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (54 bp):
ATCAAATTGAGTAGAACATAGGAAATGAGCACGATCGTTTGATGATGAATTGAT
Found at i:58371962 original size:13 final size:13
Alignment explanation
Indices: 58371944--58371968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58371934 TATGGTCTAC
58371944 GATTTCATGAAAT
1 GATTTCATGAAAT
58371957 GATTTCATGAAA
1 GATTTCATGAAA
58371969 ATTTCGTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATTTCATGAAAT
Found at i:58380764 original size:25 final size:25
Alignment explanation
Indices: 58380725--58380773 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
58380715 CTATATTATG
** *
58380725 AAAAATGACTGTTTTGCCCCTAGGT
1 AAAAATGACCATTTTACCCCTAGGT
*
58380750 AAAAATGACCATTTTACCGCTAGG
1 AAAAATGACCATTTTACCCCTAGG
58380774 GTTTAGGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (25 bp):
AAAAATGACCATTTTACCCCTAGGT
Found at i:58380836 original size:11 final size:10
Alignment explanation
Indices: 58380804--58380857 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
58380794 CATGAGATTT
58380804 TGATAT-ACA
1 TGATATGACA
*
58380813 TGATTTGACA
1 TGATATGACA
58380823 TGATATGCACA
1 TGATATG-ACA
*
58380834 TGATATG-TA
1 TGATATGACA
58380843 TGATATGCACA
1 TGATATG-ACA
58380854 TGAT
1 TGAT
58380858 GTATTTACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:58380994 original size:25 final size:25
Alignment explanation
Indices: 58380904--58380987 Score: 141
Period size: 25 Copynumber: 3.4 Consensus size: 25
58380894 GAAGAAGTGC
58380904 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTACCG
58380929 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTACCG
* * *
58380954 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCG
58380979 AAAAGGGCT
1 AAAAGGGCT
58380988 TTTCCCCCAG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTACCG
Found at i:58381006 original size:25 final size:25
Alignment explanation
Indices: 58380904--58380999 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
58380894 GAAGAAGTGC
* * * *
58380904 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTCCCCCAGTTTATCA
* * * *
58380929 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTCCCCCAGTTTATCA
*
58380954 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTCCCCCAGTTTATCA
58380979 AAAAGGGCTTTTCCCCCAGTT
1 AAAAGGGC-TTTCCCCCAGTT
58381000 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 55 0.83
26 11 0.17
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTCCCCCAGTTTATCA
Found at i:58381012 original size:25 final size:26
Alignment explanation
Indices: 58380916--58381012 Score: 71
Period size: 25 Copynumber: 3.8 Consensus size: 26
58380906 AAGGGCTATG
* * *
58380916 CCCCAGTTTACCGAAAAG-GGC-TATG
1 CCCCAGTTTATC-AAAAGAGGCTTTTC
* *
58380941 CCCCAGTTTACCGAAAAG-GGC-TTTG
1 CCCCAGTTTATC-AAAAGAGGCTTTTC
58380966 CCCCAGTTTATCAAAA-AGGGCTTTTC
1 CCCCAGTTTATCAAAAGA-GGCTTTTC
*
58380992 CCCCAG-TTATTAAAAGAGGCT
1 CCCCAGTTTATCAAAAGAGGCT
58381013 AGGCTTCCAG
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
24 4 0.06
25 50 0.78
26 10 0.16
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (26 bp):
CCCCAGTTTATCAAAAGAGGCTTTTC
Found at i:58381256 original size:31 final size:31
Alignment explanation
Indices: 58381218--58381394 Score: 266
Period size: 31 Copynumber: 5.7 Consensus size: 31
58381208 TTGTTACAGT
*
58381218 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
*
58381249 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
*
58381280 AAAGGCTTCAGCCTAGTGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
* *
58381311 AAAGGCTTCATCCCAGTGATATGAAAAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
* *
58381342 AAAGGCTTCAGCCTAGTGATATGAATAATGT
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
* *
58381373 AAAGGCTGCGGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
58381395 CTGAGATTGA
Statistics
Matches: 134, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.04
31 129 0.96
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGAATAATGA
Found at i:58385073 original size:40 final size:40
Alignment explanation
Indices: 58385019--58385220 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
58385009 TGAATGATAC
* * *
58385019 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
58385058 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
58385098 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
58385138 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
58385177 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
58385217 CCGG
1 CCGG
58385221 CTAAATTCCG
Statistics
Matches: 147, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 42 0.29
40 103 0.70
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:58394812 original size:27 final size:28
Alignment explanation
Indices: 58394782--58394851 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
58394772 ATAATAAGTC
*
58394782 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
58394809 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
58394837 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58394852 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58402670 original size:29 final size:29
Alignment explanation
Indices: 58402638--58402773 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
58402628 ATACCCTTCG
** * *
58402638 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
58402667 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
58402696 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
58402725 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
58402754 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
58402774 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:58402765 original size:58 final size:58
Alignment explanation
Indices: 58402613--58402772 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
58402603 AATTTAAGCC
* *** * * ** * *
58402613 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
58402671 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
58402729 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
58402773 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:58404512 original size:40 final size:40
Alignment explanation
Indices: 58404464--58404669 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
58404454 GGACTAAGAT
58404464 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
58404504 CCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
58404544 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
58404584 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
58404624 CCAAAGGCATTTGTGCGAGTTG-CTATATAC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
58404663 CCGAAGG
1 CCGAAGG
58404670 TACTTGGGTT
Statistics
Matches: 150, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 14 0.09
40 134 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:58404590 original size:80 final size:80
Alignment explanation
Indices: 58404464--58404669 Score: 342
Period size: 80 Copynumber: 2.6 Consensus size: 80
58404454 GGACTAAGAT
* *
58404464 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGATTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGATTA
58404529 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
*
58404544 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGATTA
58404609 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
* * * *
58404624 CCAAAGGCATTTGTGCGAGTTGCTATATAC-GGCTAAATCCCGAAGG
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
58404670 TACTTGGGTT
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
79 15 0.13
80 104 0.87
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGATTA
TATCCGGGCTAAGTC
Found at i:58406527 original size:27 final size:27
Alignment explanation
Indices: 58406496--58406548 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
58406486 CTTCCAGAAA
58406496 CAGTAA-AAGTGGCAAAGCCACCAGTAT
1 CAGTAATAA-TGGCAAAGCCACCAGTAT
* *
58406523 CAGTAATTATGGCATAGCCACCAGTA
1 CAGTAATAATGGCAAAGCCACCAGTA
58406549 ACAGCGAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (27 bp):
CAGTAATAATGGCAAAGCCACCAGTAT
Found at i:58406781 original size:27 final size:27
Alignment explanation
Indices: 58406717--58406783 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
58406707 GGCATAATCG
* *
58406717 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGA
*
58406744 TCACTTTACCCTACAGGGGCT-TTACGA
1 TCATTTTACCCTACAGGGG-TATTACGA
58406771 TCATTTTACCCTA
1 TCATTTTACCCTA
58406784 AGTTCAAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGA
Found at i:58407773 original size:27 final size:27
Alignment explanation
Indices: 58407746--58407875 Score: 179
Period size: 27 Copynumber: 4.8 Consensus size: 27
58407736 CTCATATCTA
* * *
58407746 TAGGCTAGTATTACTGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
58407773 TATGGTAGAATTACGGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
58407800 TAGGGTAGAATTACGGAAATGCCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
*
58407827 TAGGATAGAATTACTGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
*
58407854 TAGGGTAGAATTACTAAAATAC
1 TAGGGTAGAATTACTGAAATAC
58407876 ACTTGGTTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCCTG
Found at i:58407893 original size:54 final size:54
Alignment explanation
Indices: 58407781--58407903 Score: 122
Period size: 54 Copynumber: 2.3 Consensus size: 54
58407771 TATATGGTAG
* * * * * *
58407781 AATTACGGAAATACCCCTGTAGGGTAGAATTACGGAAATGCCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACGAAAATACACCTGTAGGACAA
* * * **
58407835 AATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACACTTGGT-TTACAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACGAAAATACACCT-GTAGGACAA
*
58407889 AATTACCAAAATACC
1 AATTACCGAAATACC
58407904 TTTGACTAGA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 54 0.96
55 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACGAAAATACACCTGTAGGACAA
Found at i:58407966 original size:27 final size:27
Alignment explanation
Indices: 58407862--58407986 Score: 142
Period size: 27 Copynumber: 4.6 Consensus size: 27
58407852 TGTAGGGTAG
* * **
58407862 AATTACTAAAATACACTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* ** * *
58407889 AATTACCAAAATACCTTTGACTAGAAA
1 AATTACCAAAATACCCTTGGTTTGTAA
58407916 AATTACCAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
58407943 AATTACCAAAATACCCTTGGTTTGTGA
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
58407970 AATTATCGAAATACCCT
1 AATTACCAAAATACCCT
58407987 CGACCTGTAA
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:58408103 original size:27 final size:27
Alignment explanation
Indices: 58408073--58408164 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
58408063 ACCCCTAATA
*
58408073 GGTAAAAAGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
58408100 GGTAAAATGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * *
58408127 GGTAAAGTGACCGTAATACCCCTATAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
58408154 GGTAAAATGAC
1 GGTAAAATGAC
58408165 GATTATGCCC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:58408335 original size:27 final size:26
Alignment explanation
Indices: 58408305--58408400 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 26
58408295 GGAAGTTCTA
* *
58408305 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATT-ACTGT
*
58408332 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCAC-ATTACTGT
*
58408359 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTGT
* **
58408386 TTCTGGCAGCTATGC
1 TACTGGTGGCTATGC
58408401 TGCATCATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.93
28 3 0.05
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTGT
Found at i:58408588 original size:33 final size:33
Alignment explanation
Indices: 58408541--58408605 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
58408531 ATTACATCGT
* *
58408541 ACTATATTGTTACTGAATAGGGCTTTGGCCCAG
1 ACTATATTGATACTGAATACGGCTTTGGCCCAG
58408574 ACTATATTGATACTGAATACGGCTTTGGCCCA
1 ACTATATTGATACTGAATACGGCTTTGGCCCA
58408606 AACGGTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (33 bp):
ACTATATTGATACTGAATACGGCTTTGGCCCAG
Found at i:58408620 original size:33 final size:33
Alignment explanation
Indices: 58408551--58408620 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
58408541 ACTATATTGT
* * * * *
58408551 TACTGAATAGGGCTTTGGCCCAGACTATATTGA
1 TACTGAATACGGCTTTGGCCCAAACGATACTAA
*
58408584 TACTGAATACGGCTTTGGCCCAAACGGTACTAA
1 TACTGAATACGGCTTTGGCCCAAACGATACTAA
58408617 TACT
1 TACT
58408621 ATGCTATTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (33 bp):
TACTGAATACGGCTTTGGCCCAAACGATACTAA
Found at i:58411663 original size:27 final size:28
Alignment explanation
Indices: 58411633--58411733 Score: 123
Period size: 27 Copynumber: 3.5 Consensus size: 28
58411623 TATAGTGAGT
58411633 TCGCACACTTAGTGCTATAAAATC-AAC
1 TCGCACACTTAGTGCTATAAAATCAAAC
* *
58411660 TCGCACACCTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATAAAATCAAAC
* *
58411688 TCGCACACTTAGTGCTGTACAAATTTAAAAC
1 TCGCACACTTAGTGCTATA-AAA--TCAAAC
*
58411719 CCGCACACTTAGTGC
1 TCGCACACTTAGTGC
58411734 AATCTCATGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
27 22 0.35
28 20 0.32
29 2 0.03
31 19 0.30
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATAAAATCAAAC
Found at i:58417768 original size:34 final size:34
Alignment explanation
Indices: 58417723--58417807 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
58417713 TTGCATATCT
* * *
58417723 ATACTGCTACTGTTACTGAAATGGGCTACGGCCC
1 ATACTGATACTGATACTGAAATGGGCTAAGGCCC
*
58417757 ATACTGATACTGATACTGTAATGGGCTAAGGCCC
1 ATACTGATACTGATACTGAAATGGGCTAAGGCCC
*
58417791 -TAACTGAAACTGA-ACTG
1 AT-ACTGATACTGATACTG
58417808 TTACTGATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.11
34 40 0.89
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
ATACTGATACTGATACTGAAATGGGCTAAGGCCC
Found at i:58423502 original size:27 final size:27
Alignment explanation
Indices: 58423453--58423531 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
58423443 AAGGGCAAAA
* * *
58423453 CAGTCATTTTACCCTATAGGGGTATGC
1 CAGTCATTTTACACTACAAGGGTATGC
* **
58423480 CAGTCATTTTATACTACAAGGGTATTT
1 CAGTCATTTTACACTACAAGGGTATGC
* *
58423507 CGGTAATTTTACACTACAAGGGTAT
1 CAGTCATTTTACACTACAAGGGTAT
58423532 TTCGATAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (27 bp):
CAGTCATTTTACACTACAAGGGTATGC
Found at i:58423532 original size:27 final size:27
Alignment explanation
Indices: 58423498--58423964 Score: 488
Period size: 27 Copynumber: 17.4 Consensus size: 27
58423488 TTATACTACA
* * *
58423498 AGGGTATTTCGGTAATTTTAC-ACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
58423525 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * **
58423552 AGGGTATTTCAATAATTTTTCAAATTA
1 AGGGTATTTCGATAATTTTACAAATCG
*
58423579 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
58423606 AGGGTGTTTCGAAAATATTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
58423633 AAGGTGTTTCGGTAATTTCACAAATC-
1 AGGGTATTTCGATAATTTTACAAATCG
*
58423659 AGGGGTATTTCGATAATTTTACAAATCA
1 A-GGGTATTTCGATAATTTTACAAATCG
* *
58423687 AGTGTATTTC-AGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
58423713 ATGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
58423740 GGGGTATTT-TAGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
58423767 AGGGTATTTCGATAATTTTATAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
58423794 AGGGTATTTCAATAATTTTAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
58423820 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
58423847 AGGGTATTTC-AGTAATTTTGCAAA-CTG
1 AGGGTATTTCGA-TAATTTTACAAATC-G
*
58423874 AGGGTATTTCGGTAATTTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
* * *
58423901 -GGGTACTTCGGTAATTTTACAAACCG
1 AGGGTATTTCGATAATTTTACAAATCG
* ** *
58423927 GGGGTGCTTCGATAATTTTACAAA-CC
1 AGGGTATTTCGATAATTTTACAAATCG
58423953 AGAGGTATTTCG
1 AG-GGTATTTCG
58423965 GCAATTTCTC
Statistics
Matches: 375, Mismatches: 50, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
26 74 0.20
27 297 0.79
28 4 0.01
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:58423764 original size:107 final size:107
Alignment explanation
Indices: 58423498--58423963 Score: 505
Period size: 107 Copynumber: 4.3 Consensus size: 107
58423488 TTATACTACA
* * *
58423498 AGGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTC-GATAATTTTACAAATCGAGGGTATTT
1 AGGGTATTTCGATAATTTTACAAAT-CGAGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTT
* * * *
58423561 CAATAATTTTTCAAATTAAGGGTGTTTC-GATAATTTTACAAATCG
64 CGATAATTTTACAAATCAAGGGTATTTCAG-TAATTTTAC-AATCG
* * * * * * *
58423606 AGGGTGTTTCGAAAATATTACAAATCGAAGGTGTTTCGGTAATTTCACAAATC-AGGGGTATTTC
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGA-GGGTATTTC
* *
58423670 GATAATTTTACAAATCAAGTGTATTTCAGTAATTTCACAATCG
65 GATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCG
* * *
58423713 ATGGTATTTCGATAATTTTACAAATCGGGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCG
* * *
58423778 ATAATTTTATAAATCGAGGGTATTTCAATAATTTTACAATCG
66 ATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCG
* *
58423820 AGGGTATTTCGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAA-CTGAGGGTATTTC
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATC-GAGGGTATTTC
* ** * * *
58423884 GGTAATTTTACAAA-CTGGGGTACTTCGGTAATTTTACAAACCG
65 GATAATTTTACAAATCAAGGGTATTTCAGTAATTTTAC-AATCG
* ** *
58423927 GGGGTGCTTCGATAATTTTACAAA-CCAGAGGTATTTC
1 AGGGTATTTCGATAATTTTACAAATCGAG-GGTATTTC
58423964 GGCAATTTCT
Statistics
Matches: 302, Mismatches: 48, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
106 21 0.07
107 198 0.66
108 79 0.26
109 4 0.01
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (107 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCG
ATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCG
Found at i:58424325 original size:28 final size:28
Alignment explanation
Indices: 58424288--58424351 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
58424278 TGGCCCTTTT
* *
58424288 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
58424316 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
58424344 AGGCCCAA
1 AGGCCCAA
58424352 CTACTTCCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.38, G:0.17, T:0.19
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:58426077 original size:28 final size:28
Alignment explanation
Indices: 58426037--58426115 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 28
58426027 GTACGAAATG
* *
58426037 TTTGAGGAAATTTTCATGTATGTGCTTA
1 TTTGAGGACATTTTCATGTATGTGCTCA
58426065 TTTGAGGACATTTTCATAAGGATGTATGTGCTCA
1 TTTGAGGACATTTTC------ATGTATGTGCTCA
58426099 TTTGAGGACATTTTCAT
1 TTTGAGGACATTTTCAT
58426116 AAGGATGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
28 16 0.37
34 27 0.63
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (28 bp):
TTTGAGGACATTTTCATGTATGTGCTCA
Found at i:58426095 original size:34 final size:34
Alignment explanation
Indices: 58426052--58426133 Score: 155
Period size: 34 Copynumber: 2.4 Consensus size: 34
58426042 GGAAATTTTC
*
58426052 ATGTATGTGCTTATTTGAGGACATTTTCATAAGG
1 ATGTATGTGCTCATTTGAGGACATTTTCATAAGG
58426086 ATGTATGTGCTCATTTGAGGACATTTTCATAAGG
1 ATGTATGTGCTCATTTGAGGACATTTTCATAAGG
58426120 ATGTATGTGCTCAT
1 ATGTATGTGCTCAT
58426134 GCTATAGAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (34 bp):
ATGTATGTGCTCATTTGAGGACATTTTCATAAGG
Found at i:58429174 original size:31 final size:31
Alignment explanation
Indices: 58429139--58429198 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
58429129 CGCTTGTGTA
58429139 GGTAGGCCGTGTGGTCACACACGCCCGTGAG
1 GGTAGGCCGTGTGGTCACACACGCCCGTGAG
*
58429170 GGTAGGCCGTGTGGTCACACACGCTCGTG
1 GGTAGGCCGTGTGGTCACACACGCCCGTG
58429199 TCCTTAGCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.18
Consensus pattern (31 bp):
GGTAGGCCGTGTGGTCACACACGCCCGTGAG
Found at i:58432352 original size:40 final size:40
Alignment explanation
Indices: 58432273--58432530 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
58432263 AAGCCAAGTA
* * * * *
58432273 CCTTCGGGATTTA-ACCGGCTATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
58432312 CCTTCGGGACATAGCCCGGATATAGTAACTCTCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58432352 CCTTCGGGACTTAGCCCGGATATAGCAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58432392 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58432432 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
58432472 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
58432512 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58432531 TTATCATCCA
Statistics
Matches: 198, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.07
40 185 0.93
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58440586 original size:40 final size:40
Alignment explanation
Indices: 58440524--58440781 Score: 328
Period size: 40 Copynumber: 6.5 Consensus size: 40
58440514 AAGCCAAGTA
* * * * *
58440524 CCTTCGGGATTTA-ACCGGATATAGCTACTCACTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
** *
58440563 CCTTCGGGAGATAGCCCGGATATAG-TAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
*
58440603 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
* *
58440643 CCTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
58440683 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
* *
58440723 CCTTCGGGACTTAGCCCGGA-ACTAG-TCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGCT-ACTCGCACAAATG
58440763 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58440782 TTATCATCCA
Statistics
Matches: 198, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.07
40 185 0.93
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
Found at i:58440761 original size:120 final size:120
Alignment explanation
Indices: 58440524--58440781 Score: 369
Period size: 120 Copynumber: 2.2 Consensus size: 120
58440514 AAGCCAAGTA
* * * * * * *
58440524 CCTTCGGGATTTA-ACCGGATATAGCTACTCACTCGAATGCCTTCGGGAGATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGACATAGCCCGGATATAG
* *
58440588 TAACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
66 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
* *
58440643 CCTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGACATAGCCCGGATATAG
*
58440708 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTC-ACTAGCGCAAATG
66 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAG-CAACTAGCACAAATG
58440763 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58440782 TTATCATCCA
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
119 13 0.10
120 110 0.89
121 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:58454324 original size:30 final size:29
Alignment explanation
Indices: 58454263--58454334 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
58454253 TATGATATGG
* *
58454263 TATCTTGGATTTTGTACCTTTGATATCTT
1 TATCTTGGATTTTCTACCTTAGATATCTT
*
58454292 TATCTTGGATTCTTCT-CTCTTAGATTTCTT
1 TATCTTGGATT-TTCTAC-CTTAGATATCTT
*
58454322 TATTTTGG-TTTTC
1 TATCTTGGATTTTC
58454335 GTGTTATCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 3 0.08
29 14 0.38
30 20 0.54
ACGTcount: A:0.14, C:0.15, G:0.12, T:0.58
Consensus pattern (29 bp):
TATCTTGGATTTTCTACCTTAGATATCTT
Found at i:58456727 original size:45 final size:45
Alignment explanation
Indices: 58456611--58456733 Score: 192
Period size: 45 Copynumber: 2.7 Consensus size: 45
58456601 GAATGTGTTG
* * *
58456611 TAGAAAAGGATTTAGCCCAGACGGGTAATCCTTTGATCTCAAATA
1 TAGAAAAGGATCTAGCCCGGACGGGTAATCCTTTGATCTCAAACA
58456656 TAGAAAAGGATCTAGCCCGGACGGGTAATCCTTTGATCTCAAACA
1 TAGAAAAGGATCTAGCCCGGACGGGTAATCCTTTGATCTCAAACA
* * *
58456701 TAGAAAAGGATCTAGCCGGGATGGGTATTCCTT
1 TAGAAAAGGATCTAGCCCGGACGGGTAATCCTT
58456734 AAGTGATCGA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (45 bp):
TAGAAAAGGATCTAGCCCGGACGGGTAATCCTTTGATCTCAAACA
Found at i:58462766 original size:40 final size:40
Alignment explanation
Indices: 58462718--58462963 Score: 370
Period size: 40 Copynumber: 6.2 Consensus size: 40
58462708 GGACTAAGAT
*
58462718 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
58462758 CCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
58462798 TCGAAGGAATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
58462838 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
58462878 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
58462918 CCAAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
58462957 CCGAAGG
1 CCGAAGG
58462964 TACTTGGGTT
Statistics
Matches: 186, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
39 14 0.08
40 170 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:58467022 original size:40 final size:40
Alignment explanation
Indices: 58466957--58467204 Score: 365
Period size: 40 Copynumber: 6.2 Consensus size: 40
58466947 TCTTCGGAAT
* ** *
58466957 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
58466996 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
58467036 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
58467076 TTAGCCCGGATATAACAACTCGCACGAATGCATTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
58467116 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
58467156 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
58467196 TTAGCCCGG
1 TTAGCCCGG
58467205 GTATCATTCA
Statistics
Matches: 190, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 3 0.02
40 186 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:58476843 original size:40 final size:40
Alignment explanation
Indices: 58476778--58477024 Score: 365
Period size: 40 Copynumber: 6.2 Consensus size: 40
58476768 TCTTCGGAAT
* ** *
58476778 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
58476817 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
58476857 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
58476897 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
58476937 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
58476976 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
58477016 TTAGCCCGG
1 TTAGCCCGG
58477025 GTATCATTCA
Statistics
Matches: 190, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 41 0.22
40 148 0.78
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:58476979 original size:79 final size:79
Alignment explanation
Indices: 58476778--58477021 Score: 364
Period size: 79 Copynumber: 3.1 Consensus size: 79
58476768 TCTTCGGAAT
* ** * * * *
58476778 TTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
1 TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACA
58476843 AATGCCTTCGGGTC
66 AATGCCTTCGGGTC
58476857 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
*
58476922 GAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
58476937 TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCAT
1 TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCAC
*
58477001 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGTC
58477016 TTAGCC
1 TTAGCC
58477022 CGGGTATCAT
Statistics
Matches: 151, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
79 79 0.52
80 72 0.48
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (79 bp):
TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACA
AATGCCTTCGGGTC
Found at i:58476980 original size:119 final size:120
Alignment explanation
Indices: 58476769--58477024 Score: 367
Period size: 119 Copynumber: 2.1 Consensus size: 120
58476759 AACCAAGTTT
* * * * *
58476769 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAC
*
58476833 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* ** *
58476888 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTT-AGCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAA
*
58476951 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
65 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
58477007 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
58477025 GTATCATTCA
Statistics
Matches: 122, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
119 88 0.72
120 32 0.26
121 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAC
AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:58494052 original size:41 final size:40
Alignment explanation
Indices: 58493925--58494069 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
58493915 CTCACACAAG
* * *
58493925 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
58493965 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
58494005 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
58494046 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
58494070 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:58496947 original size:30 final size:30
Alignment explanation
Indices: 58496903--58496961 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
58496893 TTTAATACGA
58496903 ACTTTGGCAAAATTACA-TTTTTGCCCCTAT
1 ACTTTGGCAAAATTACACTTTTT-CCCCTAT
* *
58496933 ACTTTTGCATAATTACACTTTTTCCCCTA
1 ACTTTGGCAAAATTACACTTTTTCCCCTA
58496962 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
ACTTTGGCAAAATTACACTTTTTCCCCTAT
Found at i:58500939 original size:36 final size:36
Alignment explanation
Indices: 58500892--58500963 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
58500882 CAGGTACGTA
58500892 CTCGAAACCCATGAGCATGTGTTTTCCATGTCAAAT
1 CTCGAAACCCATGAGCATGTGTTTTCCATGTCAAAT
58500928 CTCGAAACCCATGAGCATGTGTTTTCCATGTCAAAT
1 CTCGAAACCCATGAGCATGTGTTTTCCATGTCAAAT
58500964 GAAATAGACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (36 bp):
CTCGAAACCCATGAGCATGTGTTTTCCATGTCAAAT
Found at i:58502140 original size:11 final size:11
Alignment explanation
Indices: 58502124--58502156 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
58502114 TAAAATGGGA
58502124 AAAATCAAGCC
1 AAAATCAAGCC
58502135 AAAATCAAGCC
1 AAAATCAAGCC
58502146 AAAATC-AGCC
1 AAAATCAAGCC
58502156 A
1 A
58502157 TTTTCTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.55, C:0.27, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAATCAAGCC
Found at i:58516285 original size:64 final size:64
Alignment explanation
Indices: 58516083--58516328 Score: 226
Period size: 64 Copynumber: 3.8 Consensus size: 64
58516073 CATAAGTTTG
* * * * * * *
58516083 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCGTA
1 GCTCTCTTGT-CTACATGGCGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTA
* * * * * * * * * * *
58516146 GCGCTCTTGTTTACATGGTGTCTTTCACCTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACAT-G-G-CGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCG
58516211 TA
63 TA
* * * *
58516213 GCTTTCTTGTCTACATGGCGTACACATAGTATCACCCATGTGACCTAGCTACATATATTTTGTA
1 GCTCTCTTGTCTACATGGCGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTA
* *
58516277 GCTCTCTTGTCTATATGGTGTACACATAGTATCACCCATGCGACCTAGCTAC
1 GCTCTCTTGTCTACATGGCGTACACATAGTATCACCCATGCGACCTAGCTAC
58516329 CTCATAATGT
Statistics
Matches: 146, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
63 13 0.09
64 83 0.57
65 2 0.01
66 24 0.16
67 24 0.16
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGCGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTA
Found at i:58523948 original size:39 final size:39
Alignment explanation
Indices: 58523901--58524083 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
58523891 AATGTTCGAG
58523901 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
58523940 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
58523979 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
58524018 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
58524058 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
58524084 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:58526269 original size:28 final size:28
Alignment explanation
Indices: 58526229--58526345 Score: 171
Period size: 28 Copynumber: 4.2 Consensus size: 28
58526219 GAAGTAGTTA
58526229 GGCCTGATGGGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
* *
58526257 GGCCTGATGGGCCATATAAAGGTGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
*
58526285 GGCTTGATGGGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
* * * *
58526313 GGCCTGATGGTCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
58526341 GGCCT
1 GGCCT
58526346 AAAGGGGCCG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.27
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAATGTGATTG
Found at i:58526675 original size:27 final size:27
Alignment explanation
Indices: 58526645--58527005 Score: 350
Period size: 27 Copynumber: 13.7 Consensus size: 27
58526635 TATTAAAGAG
* *
58526645 AAATTACCGAAGTACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
58526672 AAATTATCGAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
* * *
58526699 AAATTATCGAAATACCCCCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
58526726 AAATTACCAAAATACCC-C-----CTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
58526747 AAATTACTGAAATACCCTCGATTT-TA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
58526773 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * *
58526800 AAATTATTGAAACACCTTCG-TTTG-A
1 AAATTACCGAAATACCCTCGATTTGTA
* *
58526825 GAAATTATCGAAATACCCTCGATTTTTA
1 -AAATTACCGAAATACCCTCGATTTGTA
*
58526853 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
58526880 AAATTACCGAGATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
58526907 AAATTACCGAGATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
58526934 AAATTACTGAAACACCC-CAGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
* * * *
58526961 AAATTATCAAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
58526988 AAATTATCGAAATACCCT
1 AAATTACCGAAATACCCT
58527006 TGTAGTGTAA
Statistics
Matches: 285, Mismatches: 34, Indels: 30
0.82 0.10 0.09
Matches are distributed among these distances:
21 17 0.06
22 1 0.00
25 1 0.00
26 49 0.17
27 215 0.75
28 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:58526748 original size:21 final size:21
Alignment explanation
Indices: 58526724--58526763 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58526714 CCCCGACTTG
58526724 TAAAATTACCAAAATACCCCC
1 TAAAATTACCAAAATACCCCC
**
58526745 TAAAATTACTGAAATACCC
1 TAAAATTACCAAAATACCC
58526764 TCGATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (21 bp):
TAAAATTACCAAAATACCCCC
Found at i:58526788 original size:47 final size:48
Alignment explanation
Indices: 58526697--58526789 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 48
58526687 CCCTGATTTG
58526697 TAAAATTATCGAAATACCCCCGACTTGTAAAATTACCAAAATACCCCC
1 TAAAATTATCGAAATACCCCCGACTTGTAAAATTACCAAAATACCCCC
* * *
58526745 TAAAATTA-CTGAAATACCCTCGA-TTTTAAAATTACTAAAATACCC
1 TAAAATTATC-GAAATACCCCCGACTTGTAAAATTACCAAAATACCC
58526790 TTGATTTGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
47 21 0.51
48 20 0.49
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (48 bp):
TAAAATTATCGAAATACCCCCGACTTGTAAAATTACCAAAATACCCCC
Found at i:58527006 original size:27 final size:27
Alignment explanation
Indices: 58526957--58527045 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
58526947 ACCCCAGATT
*
58526957 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
58526984 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * *
58527011 TGTAAAATGATCGACATACCCCTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
58527038 GGTAAAAT
1 TGTAAAAT
58527046 GACTGTTTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:58528702 original size:79 final size:81
Alignment explanation
Indices: 58528601--58528785 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
58528591 ACGACTCGCT
** * *
58528601 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
58528664 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
58528681 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
58528745 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
58528761 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58528786 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:58528785 original size:40 final size:39
Alignment explanation
Indices: 58528594--58528785 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
58528584 GGATATAACG
* ** * *
58528594 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
58528634 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
58528674 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
58528713 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
58528753 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
58528786 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:58535951 original size:46 final size:46
Alignment explanation
Indices: 58535901--58536076 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
58535891 TATTTGGGCA
58535901 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
58535947 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
58535994 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
58536040 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58536077 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:58536056 original size:93 final size:93
Alignment explanation
Indices: 58535897--58536068 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
58535887 TGGATATTTG
* *
58535897 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
58535962 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
58535990 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
58536055 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
58536069 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:58539049 original size:15 final size:15
Alignment explanation
Indices: 58539029--58539097 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
58539019 GTATCTTGGG
58539029 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
58539044 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
58539059 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
58539074 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
58539089 TTTCTTTAT
1 TTTCTTTAT
58539098 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:58539098 original size:30 final size:30
Alignment explanation
Indices: 58539020--58539107 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
58539010 CATAGTATCG
* * * *
58539020 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
58539050 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
58539080 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
58539108 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:58541544 original size:46 final size:46
Alignment explanation
Indices: 58541491--58541666 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
58541481 TATTTGGGCA
58541491 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
58541537 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
58541584 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
58541630 CCCGAGCTCGCTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58541667 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.59
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:58541646 original size:93 final size:93
Alignment explanation
Indices: 58541487--58541658 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
58541477 GGGATATTTG
* * *
58541487 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGCTGAG
58541552 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
58541580 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGCTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGCTGAG
58541645 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
58541659 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGCTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:58546409 original size:16 final size:18
Alignment explanation
Indices: 58546390--58546422 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
58546380 CATACGAACT
58546390 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
58546406 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
58546423 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:58547047 original size:43 final size:43
Alignment explanation
Indices: 58546983--58547233 Score: 369
Period size: 43 Copynumber: 5.8 Consensus size: 43
58546973 CTGAACTCAT
* *
58546983 TCACCGGCATTA-CGCCTGCTAGGCTCGACGCCCGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* * *
58547025 TCACTGGTATTATAGCTTGCTAGGCTCGAAGCCCGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
*
58547068 TCACCGGCATTATAGCCTGCTACGCTCGAAGCCCGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* *
58547111 TCACCGGTATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* ** *
58547154 TCACCGGCATTATAGCCTACTACACTCGAAGCCCAATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
*
58547197 TCATCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAA-GCCCGA
58547234 ATAGTACCGT
Statistics
Matches: 186, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 10 0.05
43 171 0.92
44 5 0.03
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
Found at i:58554103 original size:47 final size:47
Alignment explanation
Indices: 58554050--58554332 Score: 424
Period size: 47 Copynumber: 6.0 Consensus size: 47
58554040 AAGATATGTA
*
58554050 TATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
58554097 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* **
58554144 TATATGATAAGGCCGAATGGCCAATGTGATGAATGTGATGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
58554191 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
58554240 TATGTGATAAGGCCGAATGGCCAATGTGCTGAATGTGAAAGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
58554287 TATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTAT
1 TATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
58554333 AACTGTGATA
Statistics
Matches: 214, Mismatches: 19, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
47 167 0.78
48 3 0.01
49 44 0.21
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
Found at i:58554290 original size:143 final size:143
Alignment explanation
Indices: 58554044--58554317 Score: 521
Period size: 143 Copynumber: 1.9 Consensus size: 143
58554034 ATGTACAAGA
58554044 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
58554109 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
66 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
58554174 GAATGTGATGGTG
131 GAATGTGATGGTG
*
58554187 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
* *
58554252 CCGAATGGCCAATGTGCTGAATGTGAAAGTATATATATATGATAAGGCCGAATGGTCAATGTGAT
66 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
58554317 G
131 G
58554318 GAAGTGGAAG
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 128 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (143 bp):
TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
GAATGTGATGGTG
Found at i:58556340 original size:47 final size:47
Alignment explanation
Indices: 58556264--58556576 Score: 455
Period size: 47 Copynumber: 6.5 Consensus size: 47
58556254 TATTAAAATT
58556264 TGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATAT--GTGATAAGGCCTAATGGCCGATGTGATGAA
* *
58556313 TGTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATGTA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
58556360 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
58556409 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
58556456 TGTGAACGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * * * *
58556505 TGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
58556552 TGTGGAAGTGTATAAATGTGATAAG
1 TGTGAAAGTGTATATATGTGATAAG
58556577 TCCCGAAGGG
Statistics
Matches: 243, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
47 137 0.56
49 106 0.44
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:58556375 original size:96 final size:96
Alignment explanation
Indices: 58556264--58556576 Score: 486
Period size: 96 Copynumber: 3.3 Consensus size: 96
58556254 TATTAAAATT
*
58556264 TGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
58556329 TGTGATAAGGCCTAACGGCCGATGTGATGTA
66 TGTGATAAGGCCTAACGGCCGATGTGATGAA
*
58556360 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
58556425 TGTGATAAGGCCTAATGGCCGATGTGATGAA
66 TGTGATAAGGCCTAACGGCCGATGTGATGAA
* *
58556456 TGTGAACGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * ** * * *
58556521 TGTGATAGGGCCGAGTGGCCAACGTGATGGA
66 TGTGATAAGGCCTAACGGCCGATGTGATGAA
*
58556552 TGTGGAAGTGTATA-A-ATGTGATAAG
1 TGTGAAAGTGTATATATATGTGATAAG
58556577 TCCCGAAGGG
Statistics
Matches: 203, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 10 0.05
95 1 0.00
96 192 0.95
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAACGGCCGATGTGATGAA
Found at i:58558381 original size:16 final size:18
Alignment explanation
Indices: 58558360--58558392 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
58558350 CAAACGAATT
58558360 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
58558376 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
58558393 GTGATGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:58559024 original size:43 final size:44
Alignment explanation
Indices: 58558957--58559153 Score: 300
Period size: 43 Copynumber: 4.6 Consensus size: 44
58558947 CTGAACTCAT
*
58558957 TCACCGGCATTA-CGCCTGCTAGGCTCT-AAGCCCAATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCTGAAGCCCAATATTAAC
58558999 TCACCGGCATTATAGCCTGCTAGGCT-TGAAGCCCAATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCTGAAGCCCAATATTAAC
58559042 TCACCGGCATTATAGCCTGCTAGGCT-TGAAGCCCAATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCTGAAGCCCAATATTAAC
* *
58559085 TCA-CGGCATTATAGCCTACTAGGCTC-GAA-CCCTGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCTGAAGCCC-AATATTAAC
*
58559127 TCACCGGCATTATAGCCTTCTAGGCTC
1 TCACCGGCATTATAGCCTGCTAGGCTC
58559154 AAAGGCCCGA
Statistics
Matches: 146, Mismatches: 4, Indels: 9
0.92 0.03 0.06
Matches are distributed among these distances:
41 3 0.02
42 48 0.33
43 95 0.65
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCTGAAGCCCAATATTAAC
Found at i:58559051 original size:85 final size:86
Alignment explanation
Indices: 58558957--58559153 Score: 303
Period size: 85 Copynumber: 2.3 Consensus size: 86
58558947 CTGAACTCAT
* *
58558957 TCACCGGCATTA-CGCCTGCTAGGCTCT-AAGCCCAATATTAACTCACCGGCATTATAGCCTGCT
1 TCACCGGCATTATAGCCTGCTAGGCTCTGAAGCCCAATATTAACTCA-CGGCATTATAGCCTACT
*
58559020 AGGCTTGAAGCCC-AATATTAAC
65 AGGCTCGAA-CCCTAATATTAAC
58559042 TCACCGGCATTATAGCCTGCTAGGCT-TGAAGCCCAATATTAACTCACGGCATTATAGCCTACTA
1 TCACCGGCATTATAGCCTGCTAGGCTCTGAAGCCCAATATTAACTCACGGCATTATAGCCTACTA
*
58559106 GGCTCGAACCCTGATATTAAC
66 GGCTCGAACCCTAATATTAAC
*
58559127 TCACCGGCATTATAGCCTTCTAGGCTC
1 TCACCGGCATTATAGCCTGCTAGGCTC
58559154 AAAGGCCCGA
Statistics
Matches: 103, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
84 3 0.03
85 70 0.68
86 30 0.29
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (86 bp):
TCACCGGCATTATAGCCTGCTAGGCTCTGAAGCCCAATATTAACTCACGGCATTATAGCCTACTA
GGCTCGAACCCTAATATTAAC
Found at i:58561994 original size:42 final size:42
Alignment explanation
Indices: 58561873--58561994 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
58561863 TACCATACCA
* **
58561873 ATGCCATATCCCAGATATGGTCTTACAT-GTAATCTTGTATCG
1 ATGCCATATCTCAGATATGGTCTTAC-TCGTAATCTCATATCG
* * *
58561915 ATGCCAATAGCTCAGGTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATATCTCAGATATGGTCTTACTCGTAA-TCTCATATCG
*
58561958 ATGCCATATCTCAGATATGATCTTACTCGTAATCTCA
1 ATGCCATATCTCAGATATGGTCTTACTCGTAATCTCA
58561995 ATAACCCTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGCCATATCTCAGATATGGTCTTACTCGTAATCTCATATCG
Found at i:58573099 original size:16 final size:17
Alignment explanation
Indices: 58573066--58573100 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
58573056 TAAGGTTCTA
*
58573066 TAGCTATTAGACACTTT
1 TAGCTAATAGACACTTT
58573083 TAGCTAATAGA-ACTTT
1 TAGCTAATAGACACTTT
58573099 TA
1 TA
58573101 CTCTTTACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (17 bp):
TAGCTAATAGACACTTT
Found at i:58592026 original size:40 final size:40
Alignment explanation
Indices: 58591970--58592172 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
58591960 CGGAATTCAA
* * *
58591970 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
58592010 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
58592050 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58592090 CCGGATATAATAACTCGCACAATTGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58592129 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
58592169 CCGG
1 CCGG
58592173 TTATCATCCG
Statistics
Matches: 147, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.23
40 112 0.76
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58593466 original size:40 final size:40
Alignment explanation
Indices: 58593406--58593568 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 40
58593396 CGGGATTTAA
* ** *
58593406 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
58593446 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
58593486 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
58593526 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
58593566 CCG
1 CCG
58593569 AGTATCATTC
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:58593553 original size:80 final size:80
Alignment explanation
Indices: 58593392--58593568 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 80
58593382 GAATCACGTA
* * * * **
58593392 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
* *
58593456 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
58593471 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
58593535 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
*
58593551 CCTTTGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
58593569 AGTATCATTC
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 11 0.14
80 67 0.84
81 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:58598701 original size:23 final size:24
Alignment explanation
Indices: 58598655--58598707 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
58598645 TCACCTTTCT
*
58598655 ATCA-ACCAATTCATACTTCTTAA
1 ATCATACCAATTCATACATCTTAA
58598678 A-CATACCAATTCAT-CATCTATAA
1 ATCATACCAATTCATACATCT-TAA
58598701 ATCATAC
1 ATCATAC
58598708 TAAAATATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.23
23 15 0.58
24 5 0.19
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (24 bp):
ATCATACCAATTCATACATCTTAA
Found at i:58599326 original size:43 final size:42
Alignment explanation
Indices: 58599159--58599327 Score: 144
Period size: 43 Copynumber: 4.0 Consensus size: 42
58599149 ACATAAGCTC
* * * * *
58599159 ATACAATGCC-ATATCCTAGATATGGTCTTACATGTTAT-CA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCCA
* * * * * *
58599199 CATATCGATGCCACTGTCCCAGACAGGGTTTTACACGAAATCGA
1 -ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCCA
* * * *
58599243 TTAACGATGCCAATGTCTCAGACATGGTCTTACACATAATCTCA
1 AT-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC-CA
*
58599287 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCC
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCC
58599328 CATCTCAGTA
Statistics
Matches: 99, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
41 3 0.03
42 7 0.07
43 85 0.86
44 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCCA
Found at i:58605415 original size:2 final size:2
Alignment explanation
Indices: 58605403--58605440 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
58605393 TGTACCTTGT
58605403 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58605441 GATAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:58605616 original size:20 final size:22
Alignment explanation
Indices: 58605579--58605618 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
58605569 TTAAAAAATT
58605579 ATATACTAGAACTTTTTTATAC
1 ATATACTAGAACTTTTTTATAC
58605601 ATATACTA-AA-TTTTTTAT
1 ATATACTAGAACTTTTTTAT
58605619 TATTTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.50
Consensus pattern (22 bp):
ATATACTAGAACTTTTTTATAC
Found at i:58613003 original size:23 final size:19
Alignment explanation
Indices: 58612987--58613024 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
58612977 AAGAAGTGAA
58612987 ACAATACCCAAGAAAGAAT
1 ACAATACCCAAGAAAGAAT
*
58613006 ACAATACCCAGGAAAGAAT
1 ACAATACCCAAGAAAGAAT
58613025 CTGCCTAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.21, G:0.13, T:0.11
Consensus pattern (19 bp):
ACAATACCCAAGAAAGAAT
Found at i:58626254 original size:39 final size:39
Alignment explanation
Indices: 58626209--58626295 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
58626199 CCGGCAATTA
*
58626209 GCCTGCTAGGTA-ATAACCTAAACTTATCATCGGCACAAG
1 GCCTGCTAGGTATA-AACCTAAACTTATCACCGGCACAAG
* * *
58626248 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTAAACTTATCACCGGCACAAG
58626287 GCCTGCTAG
1 GCCTGCTAG
58626296 ACATTAAGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 42 0.98
40 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTAAACTTATCACCGGCACAAG
Found at i:58630239 original size:12 final size:12
Alignment explanation
Indices: 58630222--58630247 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58630212 AAAATTAACC
58630222 AAAATTAATTAT
1 AAAATTAATTAT
58630234 AAAATTAATTAT
1 AAAATTAATTAT
58630246 AA
1 AA
58630248 TTCATTATGT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATTAATTAT
Found at i:58632312 original size:16 final size:16
Alignment explanation
Indices: 58632302--58632341 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
58632292 TATTAATAAT
*
58632302 TTAATAAATTAAAAAA
1 TTAAAAAATTAAAAAA
58632318 TTAAAAAATTAAATAAAA
1 TTAAAAAATT-AA-AAAA
58632336 TTAAAA
1 TTAAAA
58632342 TTGTAGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 10 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAAATTAAAAAA
Found at i:58632510 original size:17 final size:17
Alignment explanation
Indices: 58632485--58632519 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58632475 ATGTGCCTGT
58632485 GAGTAGGCAACAGCGTG
1 GAGTAGGCAACAGCGTG
* *
58632502 GAGTGGGCAGCAGCGTG
1 GAGTAGGCAACAGCGTG
58632519 G
1 G
58632520 GCGCTCGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.49, T:0.11
Consensus pattern (17 bp):
GAGTAGGCAACAGCGTG
Found at i:58635326 original size:47 final size:47
Alignment explanation
Indices: 58635257--58635647 Score: 674
Period size: 47 Copynumber: 8.3 Consensus size: 47
58635247 CCCTTCGGGA
* * * * *
58635257 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58635304 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58635351 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58635398 CTTATCACATATATACACTTTCACATTCATCACCTCGGCCTTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58635445 GTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58635492 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58635539 CTTATCACAGATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58635586 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58635633 CTTATCACATATATA
1 CTTATCACATATATA
58635648 TATCTCATAC
Statistics
Matches: 330, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 330 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58635335 original size:25 final size:25
Alignment explanation
Indices: 58635307--58635385 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
58635297 ACTCGGCCTT
58635307 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
58635332 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
58635354 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
58635379 ATCACAT
1 ATCACAT
58635386 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:58641280 original size:40 final size:40
Alignment explanation
Indices: 58641225--58641428 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
58641215 TGAATGATAC
* * *
58641225 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
58641265 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
58641305 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
58641345 CCGGG----GACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
58641381 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
58641421 CC-GGCTAA
1 CCGGGCTAA
58641429 ATTCCAAAGA
Statistics
Matches: 147, Mismatches: 12, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
36 34 0.23
39 5 0.03
40 106 0.72
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:58641391 original size:76 final size:77
Alignment explanation
Indices: 58641221--58641424 Score: 277
Period size: 76 Copynumber: 2.6 Consensus size: 77
58641211 CATTTGAATG
* *
58641221 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGG---AGACCCGAAGGC
*
58641285 ATTTGTGCGAGTTGTT
62 ATTTGTGCGAGTTGCT
* *
58641301 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG-GACCCGAAGGCATTT
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGAGACCCGAAGGCATTT
58641365 GTGCGAGTTGCT
66 GTGCGAGTTGCT
* * * *
58641377 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGG
58641425 CTAAATTCCA
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
76 68 0.61
80 42 0.38
81 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (77 bp):
ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGAGACCCGAAGGCATTT
GTGCGAGTTGCT
Found at i:58648716 original size:41 final size:41
Alignment explanation
Indices: 58648655--58648800 Score: 192
Period size: 41 Copynumber: 3.6 Consensus size: 41
58648645 TACTCGAATG
*
58648655 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCT-AGCGACT
* *
58648696 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGCGACT
* * *
58648736 ATATCCGGGCTAA-AGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGA-TCCCGAAGGCATTTGTGCTAGCGACT
58648777 ATATCCGGGCTAAGA-CCCGAAGGC
1 ATATCCGGGCTAAGATCCCGAAGGC
58648801 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
39 1 0.01
40 28 0.30
41 62 0.67
42 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGCGACT
Found at i:58670494 original size:8 final size:8
Alignment explanation
Indices: 58670481--58670513 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
58670471 TACATGTTGA
58670481 TATAAAGC
1 TATAAAGC
58670489 TATAAAGC
1 TATAAAGC
58670497 TATAAAGC
1 TATAAAGC
58670505 TATAAAGC
1 TATAAAGC
58670513 T
1 T
58670514 TACTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (8 bp):
TATAAAGC
Found at i:58675484 original size:43 final size:43
Alignment explanation
Indices: 58675431--58675513 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
58675421 GAGATATGTG
* **
58675431 GCATCTGAGCTCGTTGAGAGGTTTGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
58675474 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
58675514 TGTTACATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
Found at i:58678429 original size:31 final size:31
Alignment explanation
Indices: 58678389--58678463 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
58678379 TTTTAAGAGC
*
58678389 CACAAGCCCGTGTGGGCAGGCCGTGTGGTCA
1 CACACGCCCGTGTGGGCAGGCCGTGTGGTCA
58678420 CACACGCCCGTGTGGGCAGGCCGTGTGGTCA
1 CACACGCCCGTGTGGGCAGGCCGTGTGGTCA
*
58678451 CACACGCCGGTGT
1 CACACGCCCGTGT
58678464 CTCTAACCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.15, C:0.32, G:0.37, T:0.16
Consensus pattern (31 bp):
CACACGCCCGTGTGGGCAGGCCGTGTGGTCA
Found at i:58679637 original size:43 final size:42
Alignment explanation
Indices: 58679574--58679682 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
58679564 TACCATACCA
* * * * * *
58679574 ATGCCATATCCCATATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATAGCCCAGATATGGTCTTACACGAAG-TCTCATATAG
*
58679616 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATAG
1 ATGCC-ATAGCCCAGATATGGTCTTACACGAAGTCTCATATAG
*
58679659 ATGCCATATCCCAGATATGGTCTT
1 ATGCCATAGCCCAGATATGGTCTT
58679683 CCACATAGTC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 22 0.39
43 33 0.59
44 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACACGAAGTCTCATATAG
Found at i:58679693 original size:42 final size:41
Alignment explanation
Indices: 58679574--58679693 Score: 118
Period size: 42 Copynumber: 2.8 Consensus size: 41
58679564 TACCATACCA
* * * *
58679574 ATGCCATATCCCATATATGGTCTT-ACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTCACAT-AG-TCTCATATAG
* *
58679616 ATGCCAATAGCCCAGCTATGGTCTTACACGA-AGTCTCATATAG
1 ATGCC-ATATCCCAGATATGGTCTT-CAC-ATAGTCTCATATAG
58679659 ATGCCATATCCCAGATATGGTCTTCCACATAGTCT
1 ATGCCATATCCCAGATATGGTCTT-CACATAGTCT
58679694 TAGTAACCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.47
43 29 0.45
44 1 0.02
45 2 0.03
46 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTCACATAGTCTCATATAG
Found at i:58687543 original size:43 final size:43
Alignment explanation
Indices: 58687495--58687589 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
58687485 TAGCCCAGCT
* * *
58687495 ATGGTCTTACTCGAAATCAAATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAAC
* * *
58687538 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAAC
58687581 ATGGTCTTA
1 ATGGTCTTA
58687590 TACATAATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAAC
Found at i:58687598 original size:43 final size:43
Alignment explanation
Indices: 58687495--58687600 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
58687485 TAGCCCAGCT
* * * *
58687495 ATGGTCTTACTCGA-AATCAAATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACAC-ATAATCACATAACGATGCCAATGTCCCAAAC
* *
58687538 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAAAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
*
58687581 ATGGTCTTATACATAATCAC
1 ATGGTCTTACACATAATCAC
58687601 TACTCGTTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
Found at i:58690277 original size:40 final size:40
Alignment explanation
Indices: 58690169--58690417 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
58690159 CGGGATTTAA
* * * * *
58690169 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58690209 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58690249 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58690289 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58690329 CCGGATAT-TCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58690368 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58690408 CCGGATATAT
1 CCGGATATAT
58690418 TTCCAATGTT
Statistics
Matches: 191, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 40 0.21
40 151 0.79
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58690367 original size:79 final size:80
Alignment explanation
Indices: 58690169--58690417 Score: 376
Period size: 79 Copynumber: 3.1 Consensus size: 80
58690159 CGGGATTTAA
* * * * * * * * * * *
58690169 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGT-GACTTGCACAAAG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACGAAT
58690233 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAGC
58690249 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
58690314 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
58690329 CCGGATAT-TCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
58690393 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
58690408 CCGGATATAT
1 CCGGATATAT
58690418 TTCCAATGTT
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
79 80 0.51
80 76 0.49
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
CCTTCGGGTCTTAGC
Found at i:58690383 original size:119 final size:119
Alignment explanation
Indices: 58690169--58690417 Score: 383
Period size: 119 Copynumber: 2.1 Consensus size: 119
58690159 CGGGATTTAA
* * * ** *
58690169 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGTGACTTGCACAAAGG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATTT-GCAACTCGCACAAAGG
58690234 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
65 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
58690289 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATT-CAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGAT-TTGCAACTCGCACAAAGG
58690353 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
65 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58690408 CCGGATATAT
1 CCGGATATAT
58690418 TTCCAATGTT
Statistics
Matches: 118, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
119 75 0.64
120 41 0.35
121 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (119 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATTTGCAACTCGCACAAAGGC
CTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58698448 original size:40 final size:40
Alignment explanation
Indices: 58698340--58698589 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
58698330 CGGGATTTAA
* * * * *
58698340 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58698380 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58698420 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58698460 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58698500 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58698540 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58698580 CCGGATATAT
1 CCGGATATAT
58698590 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58700868 original size:22 final size:23
Alignment explanation
Indices: 58700820--58700866 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
58700810 AAAGGCTCGG
58700820 AACTAAACTGATAACATTTAAAA
1 AACTAAACTGATAACATTTAAAA
58700843 AACTAAACTGATAACATTTAAAA
1 AACTAAACTGATAACATTTAAAA
58700866 A
1 A
58700867 CTTCAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (23 bp):
AACTAAACTGATAACATTTAAAA
Found at i:58702226 original size:42 final size:43
Alignment explanation
Indices: 58702174--58702289 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 43
58702164 GCCATATCCT
* *
58702174 AGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCC
1 AGATATGGTCTTACATGTAATCACATATCGATGCCAATGTCCC
* * *
58702217 AGATA-GGTCTTACATGAAATCATATAACGATGCCAATGTCCC
1 AGATATGGTCTTACATGTAATCACATATCGATGCCAATGTCCC
* * *
58702259 AGACATGGTCTTACATCTAATCACATCTCGA
1 AGATATGGTCTTACATGTAATCACATATCGA
58702290 CAATCCTAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 36 0.59
43 25 0.41
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
AGATATGGTCTTACATGTAATCACATATCGATGCCAATGTCCC
Found at i:58703703 original size:51 final size:51
Alignment explanation
Indices: 58703648--58703747 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
58703638 CTACCTTCTA
* *
58703648 ACATGTAACACATCCATAATGAAATCGGACCTCTCAACAAGCTCGGATGTT
1 ACATGTAACACATCCATAATGAAATCGGACCACTCAACAAGCTCAGATGTT
* * * * *
58703699 ACATGTATCACATCTATTATGAACTCGGACCACTCAACGAGCTCAGATG
1 ACATGTAACACATCCATAATGAAATCGGACCACTCAACAAGCTCAGATG
58703748 CCTCATATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (51 bp):
ACATGTAACACATCCATAATGAAATCGGACCACTCAACAAGCTCAGATGTT
Found at i:58703759 original size:51 final size:51
Alignment explanation
Indices: 58703656--58703759 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 51
58703646 TAACATGTAA
* * * *
58703656 CACATCCATAATGAAATCGGACCTCTCAACAAGCTCGGATGTTACATGTAT
1 CACATCCATAATGAAATCGGACCACTCAACAAGCTCAGATGCTACATATAT
* * * *
58703707 CACATCTATTATGAACTCGGACCACTCAACGAGCTCAGATGCCT-CATATAT
1 CACATCCATAATGAAATCGGACCACTCAACAAGCTCAGATG-CTACATATAT
58703758 CA
1 CA
58703760 TGAACTTGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (51 bp):
CACATCCATAATGAAATCGGACCACTCAACAAGCTCAGATGCTACATATAT
Found at i:58712835 original size:30 final size:30
Alignment explanation
Indices: 58712778--58712835 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
58712768 TTACAAGCCT
* *
58712778 AGGGGCCAAAGTGCAAATATGTGAAAGTTA
1 AGGGGCCAAAATGCAAATATGTAAAAGTTA
*
58712808 AGGGGTCAAAATGCAAACT-TGTAAAAGT
1 AGGGGCCAAAATGCAAA-TATGTAAAAGT
58712836 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.41, C:0.10, G:0.28, T:0.21
Consensus pattern (30 bp):
AGGGGCCAAAATGCAAATATGTAAAAGTTA
Found at i:58715030 original size:28 final size:27
Alignment explanation
Indices: 58714967--58715036 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58714957 ATAGTGAGTC
58714967 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
58714994 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
58715022 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58715037 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:58716662 original size:51 final size:50
Alignment explanation
Indices: 58716587--58716774 Score: 152
Period size: 51 Copynumber: 3.7 Consensus size: 50
58716577 TGATAGGTAG
* * *
58716587 CATGTG-TAGTAATAACTGCAGGCTACTATGCGTACCCGTTAACTTTGAT
1 CATGTGTTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTAGAT
* * * * * * *
58716636 CATGTGTCTAGTACTAAGTGCTGGCTACTACGTGTATCAGATTGA--TAGGT
1 CATGTGT-TAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTAGAT
* *
58716686 CGCATGTG-TAGTTCTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGAT
1 --CATGTGTTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTAGAT
* * *
58716737 AACT-TGTGTAGTACTAAGTACAGTCTACTATGCGTACC
1 CA-TGTGT-TAGTACTAAGTGCAGGCTACTATGCGTACC
58716775 AGAAAGCTTT
Statistics
Matches: 106, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
49 12 0.11
50 30 0.28
51 55 0.52
52 9 0.08
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
CATGTGTTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTAGAT
Found at i:58716726 original size:101 final size:101
Alignment explanation
Indices: 58716551--58716766 Score: 290
Period size: 101 Copynumber: 2.1 Consensus size: 101
58716541 GGGCTGTCAC
* *
58716551 AGTGCAGGTTACTACGTGCACCTGATTGATAGGTAGCATGTGTAGTAATAACTGCAGGCTACTAT
1 AGTGCAGGCTACTACGTGCACCAGATTGATAGGTAGCATGTGTAGTAATAACTGCAGGCTACTAT
* *
58716616 GCGTACCCGTTAACTTTGATCA-TGTGTCTAGTACTA
66 GCGTACCCGTTAACTTCGATAACT-TGTCTAGTACTA
* * * * ** *
58716652 AGTGCTGGCTACTACGTGTATCAGATTGATAGGTCGCATGTGTAGTTCTAAGTGCAGGCTACTAT
1 AGTGCAGGCTACTACGTGCACCAGATTGATAGGTAGCATGTGTAGTAATAACTGCAGGCTACTAT
*
58716717 GCGTACCCGTTAACTTCGATAACTTGTGTAGTACTA
66 GCGTACCCGTTAACTTCGATAACTTGTCTAGTACTA
* *
58716753 AGTACAGTCTACTA
1 AGTGCAGGCTACTA
58716767 TGCGTACCAG
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
101 98 0.99
102 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (101 bp):
AGTGCAGGCTACTACGTGCACCAGATTGATAGGTAGCATGTGTAGTAATAACTGCAGGCTACTAT
GCGTACCCGTTAACTTCGATAACTTGTCTAGTACTA
Found at i:58720288 original size:15 final size:15
Alignment explanation
Indices: 58720268--58720311 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
58720258 TATGATATTG
58720268 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
58720282 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
*
58720298 TATCTTGGACTTCT
1 TATCTTGGATTTCT
58720312 GAATCCTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:58722673 original size:30 final size:30
Alignment explanation
Indices: 58722615--58722673 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
58722605 TTTTTGAGCC
* *
58722615 TAGGGGCCAAAGTGCAAATATGTGAAAGTT
1 TAGGGGCCAAAATGCAAATATGTAAAAGTT
* * *
58722645 TAGGGGTCAAAATGTAAATTTGTAAAAGT
1 TAGGGGCCAAAATGCAAATATGTAAAAGT
58722674 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (30 bp):
TAGGGGCCAAAATGCAAATATGTAAAAGTT
Found at i:58723409 original size:51 final size:50
Alignment explanation
Indices: 58723293--58723421 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 50
58723283 TTGTGAGTCA
* * * * *
58723293 CGTGTGTAGTACTAAGTACAGGCTACTATGTGTACGAGATTGATAGGTCG
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGATCG
* *
58723343 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG-TTAACTTCGATCG
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAA--TAGATCG
58723394 CGTGTGTAGTACTAAGTGCAGGCTACTA
1 CGTGTGTAGTACTAAGTGCAGGCTACTA
58723422 CATGTATCAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 3 0.04
50 34 0.49
51 32 0.46
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGATCG
Found at i:58725009 original size:39 final size:40
Alignment explanation
Indices: 58724863--58725048 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
58724853 ATAACCACAA
* *
58724863 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
58724903 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
58724943 GCACAAATGCCTTCGGGTCTTAACCCGGATCTAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
58724983 GCACAAATGCC-TCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
58725022 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
58725049 GTATCATTCA
Statistics
Matches: 132, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 41 0.31
40 91 0.69
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:58733439 original size:30 final size:30
Alignment explanation
Indices: 58733403--58733461 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
58733393 TTTTCGAGCC
*
58733403 TAGGGGTCAAAGTGCAAATATGTGAAAGTT
1 TAGGGGTCAAAGTGCAAATATGTAAAAGTT
*
58733433 TAGGGGTCAAAGTGCAAATTTGTAAAAGT
1 TAGGGGTCAAAGTGCAAATATGTAAAAGT
58733462 ATGATTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.29, T:0.27
Consensus pattern (30 bp):
TAGGGGTCAAAGTGCAAATATGTAAAAGTT
Found at i:58734357 original size:150 final size:150
Alignment explanation
Indices: 58734078--58734437 Score: 537
Period size: 150 Copynumber: 2.4 Consensus size: 150
58734068 ATCCATTGTG
* * * *
58734078 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCT-CCAAATTGATAGGTCGCATGTGTAG
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTG-TACCAGATTGATAGGTCGCATGGGTAG
** *
58734142 TACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCGTGTGTGTAGTACTAAGTGTAGGC
65 TA-TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGC
*
58734207 TAGTACGTGTATCAGATGGTTA
129 TACTACGTGTATCAGATGGTTA
* * *
58734229 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATTGATCGGTCGCATGGGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGGGTAGT
*
58734294 -TGAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCT
66 AT-AAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
*
58734358 ACTACGTGTATTAGATGGTTA
130 ACTACGTGTATCAGATGGTTA
*
58734379 AGTCACGTGTGTAGTACTATA-TGTAGGCTACTATGTGTACCAGATTGATAGGTCGCATG
1 AGTCACGTGTGTAGTACTA-AGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATG
58734438 TGTAACACCC
Statistics
Matches: 189, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
149 1 0.01
150 131 0.69
151 57 0.30
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (150 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGGGTAGT
ATAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTA
CTACGTGTATCAGATGGTTA
Done.