Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 356 of 378
Found at i:106816576 original size:3 final size:3
Alignment explanation
Indices: 106816568--106816596 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
106816558 TAGTCTTACT
106816568 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
106816597 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:106818036 original size:32 final size:31
Alignment explanation
Indices: 106817958--106818036 Score: 74
Period size: 32 Copynumber: 2.5 Consensus size: 31
106817948 TTATTTAGAA
*
106817958 ATAATAAAAATATAAA-ATATTTTTATATTTT
1 ATAATAAAAA-ATAAATAAATTTTTATATTTT
**
106817989 ATAACT-AAATTTAAATACAATTTTTATTATTTT
1 ATAA-TAAAAAATAAATA-AATTTTTA-TATTTT
106818022 -TAATAAAAAATAAAT
1 ATAATAAAAAATAAAT
106818037 CATTTAACTG
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
30 4 0.11
31 9 0.24
32 19 0.50
33 6 0.16
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
ATAATAAAAAATAAATAAATTTTTATATTTT
Found at i:106821085 original size:23 final size:23
Alignment explanation
Indices: 106821058--106821114 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 23
106821048 ATTTTTAAAA
106821058 ATATTTAAAATTATTAAA-ATATC
1 ATATTTAAAATTATTAAATATA-C
*
106821081 ATATTTTTCAATATTATTAAATATAC
1 ATA--TTT-AAAATTATTAAATATAC
106821107 ATATTTAA
1 ATATTTAA
106821115 TTATTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
23 5 0.17
24 3 0.10
25 3 0.10
26 15 0.52
27 3 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATTTAAAATTATTAAATATAC
Found at i:106821205 original size:13 final size:14
Alignment explanation
Indices: 106821180--106821228 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
106821170 TTTAATATTT
*
106821180 TAATATTATTTTAA
1 TAATATAATTTTAA
106821194 TAATA-AATTTTAA
1 TAATATAATTTTAA
*
106821207 AAATAATAATTTTAAA
1 TAAT-ATAATTTT-AA
106821223 TAATAT
1 TAATAT
106821229 CATTCACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 10 0.34
14 6 0.21
15 8 0.28
16 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATATAATTTTAA
Found at i:106821213 original size:16 final size:16
Alignment explanation
Indices: 106821191--106821227 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
106821181 AATATTATTT
106821191 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
106821208 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
106821223 TAATA
1 TAATA
106821228 TCATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:106821280 original size:15 final size:15
Alignment explanation
Indices: 106821260--106821304 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
106821250 ATTCAATATT
106821260 AATATTTTAATAATA
1 AATATTTTAATAATA
*
106821275 AATATTTTAAAAAT-
1 AATATTTTAATAATA
106821289 AATAATTTTAATAATA
1 AAT-ATTTTAATAATA
106821305 TTTCAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 3 0.12
15 23 0.88
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:106821301 original size:87 final size:87
Alignment explanation
Indices: 106821210--106821377 Score: 216
Period size: 87 Copynumber: 1.9 Consensus size: 87
106821200 ATTTTAAAAA
* **
106821210 TAATAAT-TTTAAATAAT-ATCATTCACATATTATTCAAAATATTCA-ATATTAATATTTTAATA
1 TAATAATATTTAAATAATAAT-ATTCA-A-AATATTCAAAATATTCACATATTAATATTACAATA
*
106821272 ATAAATATTTTAAAAATAATAATTT
63 ATAAATATATTAAAAATAATAATTT
* * *
106821297 TAATAATATTTCAATATTAATATTCAAAATATTCAAAATATTCACATATTAATATTACAATTATA
1 TAATAATATTTAAATAATAATATTCAAAATATTCAAAATATTCACATATTAATATTACAATAATA
*
106821362 AATATATTAATAATAA
66 AATATATTAAAAATAA
106821378 ATGTTTTGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
86 16 0.23
87 39 0.56
88 13 0.19
89 2 0.03
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (87 bp):
TAATAATATTTAAATAATAATATTCAAAATATTCAAAATATTCACATATTAATATTACAATAATA
AATATATTAAAAATAATAATTT
Found at i:106821329 original size:9 final size:9
Alignment explanation
Indices: 106821315--106821340 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
106821305 TTTCAATATT
106821315 AATATTCAA
1 AATATTCAA
106821324 AATATTCAA
1 AATATTCAA
106821333 AATATTCA
1 AATATTCA
106821341 CATATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (9 bp):
AATATTCAA
Found at i:106821330 original size:77 final size:75
Alignment explanation
Indices: 106821186--106821332 Score: 219
Period size: 77 Copynumber: 1.9 Consensus size: 75
106821176 ATTTTAATAT
106821186 TATTTTAATAATAAATTTTAAAAATAATAATTTTAAATAATATCATTCACATATTATTCAAAATA
1 TATTTTAATAATAAATTTTAAAAATAATAATTTTAAATAATAT-ATTCACATATTATTCAAAATA
106821251 TTCAATATTAA
65 TTCAATATTAA
106821262 TATTTTAATAATAAATATTTTAAAAATAATAATTTT-AATAATAT-TTCA-ATATTAATATTCAA
1 TATTTTAATAAT-AA-ATTTTAAAAATAATAATTTTAAATAATATATTCACATA-T--TATTCAA
106821324 AATATTCAA
61 AATATTCAA
106821333 AATATTCACA
Statistics
Matches: 66, Mismatches: 0, Indels: 9
0.88 0.00 0.12
Matches are distributed among these distances:
74 3 0.05
75 5 0.08
76 12 0.18
77 26 0.39
78 20 0.30
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.44
Consensus pattern (75 bp):
TATTTTAATAATAAATTTTAAAAATAATAATTTTAAATAATATATTCACATATTATTCAAAATAT
TCAATATTAA
Found at i:106824277 original size:19 final size:19
Alignment explanation
Indices: 106824253--106824290 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
106824243 GAAATGAATA
*
106824253 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
106824272 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
106824291 GCAATCTCAA
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:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:106825154 original size:2 final size:2
Alignment explanation
Indices: 106825147--106825176 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
106825137 TTAAATTATG
*
106825147 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106825177 AATAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:106825156 original size:10 final size:10
Alignment explanation
Indices: 106825143--106825175 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
106825133 TCAATTAAAT
106825143 TATGTATATA
1 TATGTATATA
106825153 TATGTATATA
1 TATGTATATA
*
106825163 TATATATATA
1 TATGTATATA
106825173 TAT
1 TAT
106825176 AAATAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (10 bp):
TATGTATATA
Found at i:106825481 original size:8 final size:8
Alignment explanation
Indices: 106825453--106825491 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
106825443 AAGAGGTTAG
106825453 ATTTTTTT
1 ATTTTTTT
106825461 -TTTTTCTT
1 ATTTTT-TT
106825469 CATTTTTTT
1 -ATTTTTTT
106825478 ATTTTTTT
1 ATTTTTTT
106825486 ATTTTT
1 ATTTTT
106825492 ATTTTGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 5 0.18
8 16 0.57
9 2 0.07
10 5 0.18
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (8 bp):
ATTTTTTT
Found at i:106826159 original size:64 final size:64
Alignment explanation
Indices: 106826072--106826206 Score: 247
Period size: 64 Copynumber: 2.1 Consensus size: 64
106826062 TATAATAATT
106826072 ATTTA-AT-TCAAAATAAATTGGATTAAAATTAAAATTAATTATATTATGTATTAATATTCATC
1 ATTTAGATCTCAAAATAAATTGGATTAAAATTAAAATTAATTATATTATGTATTAATATTCATC
*
106826134 ATTTGGATCTCAAAATAAATTGGATTAAAATTAAAATTAATTATATTATGTATTAATATTCATC
1 ATTTAGATCTCAAAATAAATTGGATTAAAATTAAAATTAATTATATTATGTATTAATATTCATC
106826198 ATTTAGATC
1 ATTTAGATC
106826207 GTCTTAGGTT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
62 4 0.06
63 2 0.03
64 63 0.91
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (64 bp):
ATTTAGATCTCAAAATAAATTGGATTAAAATTAAAATTAATTATATTATGTATTAATATTCATC
Found at i:106829923 original size:29 final size:29
Alignment explanation
Indices: 106829874--106829929 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
106829864 TTAATTCTTT
*
106829874 TTTAATAGTACACGGGTTAATTCAATCCA
1 TTTAATAGTACACGGGCTAATTCAATCCA
* * *
106829903 TTTAATAGTAGATGGGCTAATTTAATC
1 TTTAATAGTACACGGGCTAATTCAATC
106829930 GAGTCCCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (29 bp):
TTTAATAGTACACGGGCTAATTCAATCCA
Found at i:106831505 original size:9 final size:9
Alignment explanation
Indices: 106831491--106831521 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
106831481 TAAATTAATT
106831491 AATTTTAAA
1 AATTTTAAA
106831500 AATTTTAAA
1 AATTTTAAA
106831509 AATTTTAAA
1 AATTTTAAA
106831518 AATT
1 AATT
106831522 AATTAATTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AATTTTAAA
Found at i:106842814 original size:19 final size:20
Alignment explanation
Indices: 106842787--106842827 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
106842777 ACAGAATTAG
* *
106842787 TTAATTTTATATAA-ATATA
1 TTAAATTTATAAAAGATATA
106842806 TTAAATTTATAAAAGATATA
1 TTAAATTTATAAAAGATATA
106842826 TT
1 TT
106842828 CACTAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAAATTTATAAAAGATATA
Found at i:106843572 original size:22 final size:22
Alignment explanation
Indices: 106843540--106843593 Score: 99
Period size: 22 Copynumber: 2.4 Consensus size: 22
106843530 AAAAAAAAAA
106843540 ATTTTTAACTCTTCATTTATTTT
1 ATTTTT-ACTCTTCATTTATTTT
106843563 ATTTTTACTCTTCATTTATTTT
1 ATTTTTACTCTTCATTTATTTT
106843585 ATTTTTACT
1 ATTTTTACT
106843594 TTTTTCAGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 25 0.81
23 6 0.19
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTTACTCTTCATTTATTTT
Found at i:106844667 original size:32 final size:32
Alignment explanation
Indices: 106844626--106844688 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
106844616 CATGGCAAAC
106844626 CCAAAATCCTCTTTTACTACACCAGTAGTGTG
1 CCAAAATCCTCTTTTACTACACCAGTAGTGTG
* *
106844658 CCAAAATCCTCTTTTACTGCACCATTAGTGT
1 CCAAAATCCTCTTTTACTACACCAGTAGTGT
106844689 TCAATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (32 bp):
CCAAAATCCTCTTTTACTACACCAGTAGTGTG
Found at i:106848226 original size:20 final size:20
Alignment explanation
Indices: 106848201--106848243 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
106848191 CCACATGTCA
106848201 TTTTTTTTGTTGATTATCTT
1 TTTTTTTTGTTGATTATCTT
106848221 TTTTTTTTGTTGATTATCTT
1 TTTTTTTTGTTGATTATCTT
106848241 TTT
1 TTT
106848244 CAAAAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.05, G:0.09, T:0.77
Consensus pattern (20 bp):
TTTTTTTTGTTGATTATCTT
Found at i:106852304 original size:26 final size:26
Alignment explanation
Indices: 106852275--106852324 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
106852265 ATTGATAAAA
106852275 GGTTAGGTAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
*
106852301 GGTTAGGTAAATGTTTCATGATAA
1 GGTTAGGTAAATGTTCCATGATAA
106852325 GAATTTCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
GGTTAGGTAAATGTTCCATGATAATG
Found at i:106853840 original size:26 final size:26
Alignment explanation
Indices: 106853811--106853863 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
106853801 TTTACAGTTT
*
106853811 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
106853837 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
106853863 T
1 T
106853864 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:106855716 original size:30 final size:30
Alignment explanation
Indices: 106855682--106855744 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
106855672 ACTTATTTTA
*
106855682 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATGTTAAAGACAT
*
106855712 TTGTTAATTTTGTTATTATGTTAAAGATAT
1 TTGTTAATTTTGTTATTATGTTAAAGACAT
106855742 TTG
1 TTG
106855745 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATGTTAAAGACAT
Found at i:106856165 original size:24 final size:24
Alignment explanation
Indices: 106856118--106856165 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
106856108 AGGACAAAAT
*
106856118 TATTATATTATAAAAATATTTTTA
1 TATTATATTATAAAAATATATTTA
*
106856142 TATTTTATTATATAAAATA-ATTTA
1 TATTATATTATA-AAAATATATTTA
106856166 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTATATTATAAAAATATATTTA
Found at i:106856173 original size:24 final size:24
Alignment explanation
Indices: 106856123--106856173 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
106856113 AAAATTATTA
* * *
106856123 TATTATAAAAATATTTTTATATTT
1 TATTATAAAAATATATTTACATGT
106856147 TATTATATAAAATA-ATTTACATGT
1 TATTATA-AAAATATATTTACATGT
106856171 TAT
1 TAT
106856174 AAAAGGGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TATTATAAAAATATATTTACATGT
Found at i:106856416 original size:14 final size:16
Alignment explanation
Indices: 106856387--106856418 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
106856377 AATTTATGTT
106856387 TTATAAAGACTATATA
1 TTATAAAGACTATATA
106856403 TTATAAA-A-TATATA
1 TTATAAAGACTATATA
106856417 TT
1 TT
106856419 TTTTTCTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (16 bp):
TTATAAAGACTATATA
Found at i:106864734 original size:8 final size:8
Alignment explanation
Indices: 106864721--106864746 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
106864711 ATAAAGTATA
106864721 ATAAAAAT
1 ATAAAAAT
106864729 ATAAAAAT
1 ATAAAAAT
106864737 ATAAAAAT
1 ATAAAAAT
106864745 AT
1 AT
106864747 GTGATATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
ATAAAAAT
Found at i:106865181 original size:26 final size:26
Alignment explanation
Indices: 106865123--106865173 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
106865113 TTTATATTTA
106865123 ATTTTAAAAAATAAAAATACTAAAAT
1 ATTTTAAAAAATAAAAATACTAAAAT
*
106865149 ATTTT-TAAAATAAAAAATA-TAAAAT
1 ATTTTAAAAAAT-AAAAATACTAAAAT
106865174 GCATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
ATTTTAAAAAATAAAAATACTAAAAT
Found at i:106865510 original size:20 final size:20
Alignment explanation
Indices: 106865487--106865535 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
106865477 AAACATTGTG
106865487 GGAAAAAGAATCTTAGTGAA
1 GGAAAAAGAATCTTAGTGAA
*
106865507 GGAAAAAAAATCTTAGTGAA
1 GGAAAAAGAATCTTAGTGAA
106865527 GGAAAAAGA
1 GGAAAAAGA
106865536 GTACACTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.55, C:0.04, G:0.24, T:0.16
Consensus pattern (20 bp):
GGAAAAAGAATCTTAGTGAA
Found at i:106868029 original size:50 final size:50
Alignment explanation
Indices: 106867947--106868072 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
106867937 GCCAATCCAA
* * ** * *
106867947 CCAAAAACACACTTAGGCACCAAGTGTTTAGCCTGTAAGCTAACATCCTT
1 CCAAAAACACGCTTGGGCACCAAGTGCCTAGCCCGTAAGCTAACATCCCT
* * * *
106867997 TCAGAAACACGCTTGGGCACTAAGTGCCTAGCCCGTAGGCTAACATCCCT
1 CCAAAAACACGCTTGGGCACCAAGTGCCTAGCCCGTAAGCTAACATCCCT
* *
106868047 CCAAAAACATGATTGGGCACCAAGTG
1 CCAAAAACACGCTTGGGCACCAAGTG
106868073 TTAAACCCGT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (50 bp):
CCAAAAACACGCTTGGGCACCAAGTGCCTAGCCCGTAAGCTAACATCCCT
Found at i:106868082 original size:50 final size:49
Alignment explanation
Indices: 106867947--106868087 Score: 140
Period size: 50 Copynumber: 2.8 Consensus size: 49
106867937 GCCAATCCAA
* * * *
106867947 CCAAAAACAC-ACTTAGGCACCAAGTGTTTAGCCTGTAAGCTAACATCCTT
1 CCAAAAACACGA-TTGGGCACCAAGTG-TTAGCCCGTAGGCTAACATCCCT
* * * * *
106867997 TCAGAAACACGCTTGGGCACTAAGTGCCTAGCCCGTAGGCTAACATCCCT
1 CCAAAAACACGATTGGGCACCAAGTG-TTAGCCCGTAGGCTAACATCCCT
* *
106868047 CCAAAAACATGATTGGGCACCAAGTGTTAAACCCGTAGGCT
1 CCAAAAACACGATTGGGCACCAAGTGTT-AGCCCGTAGGCT
106868088 TTACATCCTC
Statistics
Matches: 72, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 71 0.99
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (49 bp):
CCAAAAACACGATTGGGCACCAAGTGTTAGCCCGTAGGCTAACATCCCT
Found at i:106877899 original size:21 final size:22
Alignment explanation
Indices: 106877874--106877914 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
106877864 ACATTGTATC
* *
106877874 AATTTAGTTTT-AATTTTTAAA
1 AATTTAATTTTCAATGTTTAAA
106877895 AATTTAATTTTCAATGTTTA
1 AATTTAATTTTCAATGTTTA
106877915 CATAGTACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
AATTTAATTTTCAATGTTTAAA
Found at i:106878331 original size:146 final size:146
Alignment explanation
Indices: 106878067--106878345 Score: 531
Period size: 146 Copynumber: 1.9 Consensus size: 146
106878057 TCTTATACTT
*
106878067 CAAAAGGTTGATAATTTGATGTCTCTCAATGACAACTAATTTATTTTTACCAATGATATTTATTG
1 CAAAAGGTTGATAATTTGATGTCTCTCAATGACAACTAATTTATTTTTACCAATGAAATTTATTG
* *
106878132 TTTGATATCTAGACATTGGCAACTAATAATGCGAGTTTATTTATTGGTCTATTTGAACTCCTGAG
66 TTTGATATCTAGACATTGGCAACTAATAATGCGAGTTTATTCATGGGTCTATTTGAACTCCTGAG
106878197 TCTATTTATTTTTTAC
131 TCTATTTATTTTTTAC
106878213 CAAAAGGTTGATAATTTGATGTCTCTCAATGACAACTAATTTATTTTTACCAATGAAATTTATTG
1 CAAAAGGTTGATAATTTGATGTCTCTCAATGACAACTAATTTATTTTTACCAATGAAATTTATTG
106878278 TTTGATATCTAGACATTGGCAACTAATAATGCGAGTTTATTCATGGGTCTATTTGAACTCCTGAG
66 TTTGATATCTAGACATTGGCAACTAATAATGCGAGTTTATTCATGGGTCTATTTGAACTCCTGAG
106878343 TCT
131 TCT
106878346 CCAAGTTATT
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
146 130 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.42
Consensus pattern (146 bp):
CAAAAGGTTGATAATTTGATGTCTCTCAATGACAACTAATTTATTTTTACCAATGAAATTTATTG
TTTGATATCTAGACATTGGCAACTAATAATGCGAGTTTATTCATGGGTCTATTTGAACTCCTGAG
TCTATTTATTTTTTAC
Found at i:106879937 original size:20 final size:18
Alignment explanation
Indices: 106879914--106880024 Score: 62
Period size: 21 Copynumber: 5.6 Consensus size: 18
106879904 CTTCTAATCA
106879914 TTTTATAATTTTCAATAATT
1 TTTTATAATTTT-AAT-ATT
* *
106879934 TTTTATGATTCTTTTATAAGTT
1 TTTTAT-AAT-TTTAAT-A-TT
* * *
106879956 TTTAAGAATTTTTATATGT
1 TTTTATAATTTTAATAT-T
*
106879975 TTTTATAAAATTGTAAATATT
1 TTTTAT--AATT-TTAATATT
106879996 TTTTATTAATTTT-ATATT
1 TTTTA-TAATTTTAATATT
106880014 TTTTATAATTT
1 TTTTATAATTT
106880025 ATTTTAATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 19
0.72 0.10 0.19
Matches are distributed among these distances:
17 6 0.08
18 11 0.15
19 7 0.10
20 16 0.22
21 18 0.25
22 15 0.21
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTTAATATT
Found at i:106880014 original size:18 final size:18
Alignment explanation
Indices: 106879991--106880100 Score: 72
Period size: 16 Copynumber: 6.2 Consensus size: 18
106879981 AAAATTGTAA
106879991 ATATTTTTTATTAATTTT
1 ATATTTTTTATTAATTTT
106880009 ATATTTTTTA-TAA-TTT
1 ATATTTTTTATTAATTTT
106880025 AT-TTTAATTTATTAGATTTT
1 ATATTT--TTTATTA-ATTTT
* *
106880045 TTATATTTTTATAATATTTT
1 ATAT-TTTTTATTA-ATTTT
* *
106880065 A-AGTTATTATT-ATTTT
1 ATATTTTTTATTAATTTT
* *
106880081 ATA-ATTTTA-TAAGTTT
1 ATATTTTTTATTAATTTT
106880097 ATAT
1 ATAT
106880101 CAGTTTTAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
15 4 0.06
16 22 0.31
17 8 0.11
18 18 0.25
19 2 0.03
20 15 0.21
21 1 0.01
22 2 0.03
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
ATATTTTTTATTAATTTT
Found at i:106880024 original size:10 final size:10
Alignment explanation
Indices: 106879914--106880065 Score: 79
Period size: 10 Copynumber: 15.5 Consensus size: 10
106879904 CTTCTAATCA
106879914 TTTTATAATT
1 TTTTATAATT
**
106879924 TTCAATAATT
1 TTTTATAATT
*
106879934 TTTTATGATT
1 TTTTATAATT
*
106879944 CTTTTATAAGT
1 -TTTTATAATT
*
106879955 TTTTA-AGAAT
1 TTTTATA-ATT
106879965 TTTTAT-ATGT
1 TTTTATAAT-T
**
106879975 TTTTATAAAA
1 TTTTATAATT
* *
106879985 TTGTAAATATT
1 TTTTATA-ATT
106879996 TTTTATTAA--
1 TTTTA-TAATT
106880005 TTTTAT-ATT
1 TTTTATAATT
106880014 TTTTATAATT
1 TTTTATAATT
106880024 TATTT-TAATT
1 T-TTTATAATT
* *
106880034 TATTA-GATT
1 TTTTATAATT
106880043 TTTTAT-A-T
1 TTTTATAATT
*
106880051 TTTTATAATA
1 TTTTATAATT
106880061 TTTTA
1 TTTTA
106880066 AGTTATTATT
Statistics
Matches: 106, Mismatches: 21, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
7 1 0.01
8 8 0.08
9 24 0.23
10 54 0.51
11 18 0.17
12 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:106880059 original size:27 final size:27
Alignment explanation
Indices: 106879995--106880088 Score: 79
Period size: 26 Copynumber: 3.5 Consensus size: 27
106879985 TTGTAAATAT
*
106879995 TTTTTATTAA-TTTTATATTTTTTATAA
1 TTTTTA-TAATTTTTAGATTTTTTATAA
*
106880022 TTTATTTTAATTTATTAGATTTTTTAT-A
1 TTT-TTATAATTT-TTAGATTTTTTATAA
* * *
106880050 TTTTTATAATATTTTA-AGTTATTATTA
1 TTTTTATAAT-TTTTAGATTTTTTATAA
106880077 -TTTTATAATTTT
1 TTTTTATAATTTT
106880089 ATAAGTTTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 3 0.05
26 16 0.28
27 16 0.28
28 10 0.18
29 12 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTTATAATTTTTAGATTTTTTATAA
Found at i:106880063 original size:35 final size:35
Alignment explanation
Indices: 106879997--106880092 Score: 117
Period size: 35 Copynumber: 2.7 Consensus size: 35
106879987 GTAAATATTT
*
106879997 TTTATTAATTTTATAT-TTTTTATAATTTATTTTAA
1 TTTATTAATTTTTTATATTTTTATAA-TTATTTTAA
106880032 TTTATTAGATTTTTTATATTTTTATAA-TATTTTAA
1 TTTATTA-ATTTTTTATATTTTTATAATTATTTTAA
* *
106880067 GTTATT-ATTATTTTATAATTTTATAA
1 TTTATTAATT-TTTTATATTTTTATAA
106880093 GTTTATATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
33 3 0.05
34 15 0.27
35 20 0.36
36 8 0.15
37 9 0.16
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (35 bp):
TTTATTAATTTTTTATATTTTTATAATTATTTTAA
Found at i:106880087 original size:8 final size:8
Alignment explanation
Indices: 106880043--106880099 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 8
106880033 TTATTAGATT
*
106880043 TTTTATAT
1 TTTTATAA
106880051 TTTTATAA
1 TTTTATAA
106880059 TATTT-TAA
1 T-TTTATAA
*
106880067 GTTATTATTA
1 -TT-TTATAA
106880077 TTTTATAA
1 TTTTATAA
106880085 TTTTATAA
1 TTTTATAA
*
106880093 GTTTATA
1 TTTTATA
106880100 TCAGTTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 31 0.76
9 8 0.20
10 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (8 bp):
TTTTATAA
Found at i:106885192 original size:2 final size:2
Alignment explanation
Indices: 106885185--106885209 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
106885175 GTGATATCAC
106885185 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
106885210 AAACTTGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:106887447 original size:2 final size:2
Alignment explanation
Indices: 106887440--106887479 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
106887430 TTCCCCCTCC
106887440 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
106887480 AATAATGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:106890831 original size:33 final size:33
Alignment explanation
Indices: 106890794--106891053 Score: 188
Period size: 33 Copynumber: 7.9 Consensus size: 33
106890784 TGGTACAACT
* * *
106890794 TGAAAAGGCTATGTACACTTTGTGTATACCATA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
** * *
106890827 TGAAAAGGAAAGGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGTTAGGTATACTTTGTGTATACCA-TA
* * *
106890859 TGGAAAGGTTAGGTATACTTTGTGCATACCTTA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
** * * * *
106890892 TGAAAAGGAAAAGTACACTTGGTGTGTA-CACT-
1 TGAAAAGGTTAGGTATACTTTGTGTATACCA-TA
* *
106890924 TGGAACGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
* ** * *
106890957 TGAAAAAGAAAGATATACTTTGTGTGTACCACT-
1 TGAAAAGGTTAGGTATACTTTGTGTATACCA-TA
* *
106890990 TGGAAATGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
* ** * *
106891023 TGAAAAAGAAAGATATACTTTGTGTGTACCA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCA
106891054 CTTGGAAAGG
Statistics
Matches: 172, Mismatches: 47, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
32 48 0.28
33 123 0.72
34 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (33 bp):
TGAAAAGGTTAGGTATACTTTGTGTATACCATA
Found at i:106890879 original size:65 final size:65
Alignment explanation
Indices: 106890786--106891063 Score: 387
Period size: 65 Copynumber: 4.2 Consensus size: 65
106890776 TACCCAAATG
* * * * * *
106890786 GTACAACTTGAAAAGGCTATGTACACTTTGTGTATACCATATGAAAAGGAAAGGTACACTTTGTG
1 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATACACTTTGTG
106890851 T
65 T
* * * *
106890852 GTACACTTGGAAAGGTTAGGTATACTTTGTGCATACCTTATGAAAAGGAAA-AGTACACTTGGTG
1 GTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGA-TACACTTTGTG
106890916 T
65 T
* *
106890917 GTACACTTGGAACGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATATACTTTGTGT
1 GTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATACACTTTGTGT
* *
106890982 GTACCACTTGGAAATGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATATACTTTGTG
1 GTA-CACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATACACTTTGTG
106891047 T
65 T
106891048 GTACCACTTGGAAAGG
1 GTA-CACTTGGAAAGG
106891064 AATATACACT
Statistics
Matches: 192, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
65 112 0.58
66 80 0.42
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (65 bp):
GTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATACACTTTGTGT
Found at i:106903991 original size:13 final size:13
Alignment explanation
Indices: 106903953--106903991 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
106903943 ATAAGTTTTA
*
106903953 AAATTATTAA-TT
1 AAATTAATAATTT
106903965 AAATATAATAATTT
1 AAAT-TAATAATTT
106903979 AAATTAATAATTT
1 AAATTAATAATTT
106903992 TTTTAACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 14 0.58
14 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTAATAATTT
Found at i:106906200 original size:9 final size:10
Alignment explanation
Indices: 106906173--106906213 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
106906163 ACCGACCTTT
106906173 GATCGAATTA
1 GATCGAATTA
106906183 GATCG-ATTA
1 GATCGAATTA
106906192 -ATCGAATTA
1 GATCGAATTA
*
106906201 GATC-AATTC
1 GATCGAATTA
106906210 GATC
1 GATC
106906214 AGTTAATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
8 4 0.14
9 16 0.57
10 8 0.29
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (10 bp):
GATCGAATTA
Found at i:106906504 original size:23 final size:24
Alignment explanation
Indices: 106906477--106906525 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
106906467 TTAATTTATA
*
106906477 TTAAATTA-AAGTTT-ATTAATATT
1 TTAAATTATAAATTTCATT-ATATT
106906500 TTAAATTATAAATTTCATTATATT
1 TTAAATTATAAATTTCATTATATT
106906524 TT
1 TT
106906526 GATTTTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 12 0.52
25 3 0.13
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TTAAATTATAAATTTCATTATATT
Found at i:106911400 original size:16 final size:16
Alignment explanation
Indices: 106911379--106911409 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106911369 CAAATGCACA
106911379 AAAAAAAATAAAAAAT
1 AAAAAAAATAAAAAAT
*
106911395 AAAAAAACTAAAAAA
1 AAAAAAAATAAAAAA
106911410 AATAGCAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (16 bp):
AAAAAAAATAAAAAAT
Found at i:106911539 original size:3 final size:3
Alignment explanation
Indices: 106911531--106911574 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
106911521 TTTAATTCTC
*
106911531 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
106911575 TAAAGGGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:106912585 original size:28 final size:28
Alignment explanation
Indices: 106912553--106912609 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
106912543 ATTTTTTAAA
106912553 AATTTTAAATTAGTAAAGGTAAAATTGT
1 AATTTTAAATTAGTAAAGGTAAAATTGT
*
106912581 AATTTTTAATTAGTAAAGGTAAAATTGT
1 AATTTTAAATTAGTAAAGGTAAAATTGT
106912609 A
1 A
106912610 CTTTGACCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (28 bp):
AATTTTAAATTAGTAAAGGTAAAATTGT
Found at i:106915302 original size:21 final size:21
Alignment explanation
Indices: 106915276--106915315 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
106915266 ACGAGACAAG
106915276 TGACGTAGCCCA-TTAACTAGC
1 TGACGT-GCCCAGTTAACTAGC
*
106915297 TGACGTGGCCAGTTAACTA
1 TGACGTGCCCAGTTAACTA
106915316 CCCACGGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (21 bp):
TGACGTGCCCAGTTAACTAGC
Found at i:106915782 original size:3 final size:3
Alignment explanation
Indices: 106915774--106915856 Score: 166
Period size: 3 Copynumber: 27.7 Consensus size: 3
106915764 TTAACAGTAA
106915774 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
106915822 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
106915857 ATAAAGATGC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:106916925 original size:2 final size:2
Alignment explanation
Indices: 106916914--106916944 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
106916904 TTCTTTCATT
106916914 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106916945 GGGTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:106917310 original size:8 final size:8
Alignment explanation
Indices: 106917297--106917335 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
106917287 GAAAAAGAGA
106917297 GAAGAAGG
1 GAAGAAGG
106917305 GAAGAAGG
1 GAAGAAGG
106917313 GAAGAAGG
1 GAAGAAGG
*
106917321 GAAGAAGA
1 GAAGAAGG
106917329 GAAGAAG
1 GAAGAAG
106917336 AAGAAAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (8 bp):
GAAGAAGG
Found at i:106917349 original size:16 final size:17
Alignment explanation
Indices: 106917284--106917351 Score: 50
Period size: 19 Copynumber: 3.8 Consensus size: 17
106917274 CATTTTCAGC
106917284 AAAGAA-AAAGAGAGAAG
1 AAAGAAGAAAGA-AGAAG
* *
106917301 AAGGGAAGAAGGGAAGAAGG
1 AA-AGAAGAA-AGAAGAA-G
*
106917321 GAAGAAGAGAAGAAGAAG
1 AAAGAAGA-AAGAAGAAG
106917339 AAAGAA-AAAGAAG
1 AAAGAAGAAAGAAG
106917352 GAGAGGAGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
16 6 0.15
17 3 0.08
18 9 0.22
19 17 0.43
20 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (17 bp):
AAAGAAGAAAGAAGAAG
Found at i:106917436 original size:14 final size:14
Alignment explanation
Indices: 106917395--106917449 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
106917385 AGAAAAAAGA
106917395 AAAGAAAAAGAGAAGG
1 AAAG-AAAA-AGAAGG
* *
106917411 AGAAGAAGAAGAGGG
1 A-AAGAAAAAGAAGG
*
106917426 AAGGAAAAAGAAGG
1 AAAGAAAAAGAAGG
106917440 AAAGAAAAAG
1 AAAGAAAAAG
106917450 GTAATTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 19 0.59
15 6 0.19
16 4 0.12
17 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAGG
Found at i:106918037 original size:135 final size:134
Alignment explanation
Indices: 106917898--106918154 Score: 313
Period size: 135 Copynumber: 1.9 Consensus size: 134
106917888 TAATATAAAA
** * * *
106917898 AAAATAAAATATGAAAATAGTATAATTAAAAAAATAAAATTTGAAAATAAAAAATACGAACAAGG
1 AAAATAAAATACCAAAATAATATAATTAAAAAAAT--AATAT-AAAA-AAAAAATACGAACAAAG
* **
106917963 TGCCAAAGTCA-GGTTACTTATT-AAATTAATATAAAAAA-ACTTAAATAATACATTTGAATGAT
62 TGCCAAAATCAGGGTTACTTATTAAAAAAAATATAAAAAATACTTAAATAATACATTTGAATGAT
106918025 TTTATGCT
127 TTTATGCT
* * ** * **
106918033 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGTT
1 AAAATAAAATACCAAAATAATATAATTAAAAAAATAATATAAAAAAAAAATACGAACAAAGTGCC
*
106918098 AAAATCAGGGTTATTTATTAAAAAAAATATAAAAAATACTTAAATAATACATTTGAA
66 AAAATCAGGGTTACTTATTAAAAAAAATATAAAAAATACTTAAATAATACATTTGAA
106918155 GCATTATGTA
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
131 23 0.22
132 12 0.12
133 18 0.17
134 20 0.19
135 30 0.29
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (134 bp):
AAAATAAAATACCAAAATAATATAATTAAAAAAATAATATAAAAAAAAAATACGAACAAAGTGCC
AAAATCAGGGTTACTTATTAAAAAAAATATAAAAAATACTTAAATAATACATTTGAATGATTTTA
TGCT
Found at i:106918213 original size:132 final size:131
Alignment explanation
Indices: 106917946--106918206 Score: 278
Period size: 134 Copynumber: 2.0 Consensus size: 131
106917936 ATTTGAAAAT
* * **
106917946 AAAAAATACGAACAAGGTGCCAAAGTCAGGTTACTTATTAAATTAATATAAAAAAACTTAAATAA
1 AAAAAATACGAACAAAGTGCCAAAATCAGGTTACTTATTAAAAAAATATAAAAAAACTTAAATAA
* * * ****
106918011 TACATTTGAATGATTTTATGCTAAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACG
66 TACATTTGAATGATTATATACTAAAATAAAATACAAAAATAATATAAACGAAAAAATAATATACG
106918076 A
131 A
* ** *
106918077 AAAAAATACGAATAAAGTGTTAAAATCAGGGTTATTTATTAAAAAAAATATAAAAAATACTTAAA
1 AAAAAATACGAACAAAGTGCCAAAATCA-GGTTACTTATT-AAAAAAATATAAAAAA-ACTTAAA
* *
106918142 TAATACATTTGAA-GCATTATGTACTAAAATAATATA-AAGAAATAA-A-AAACGAAAATAATAT
63 TAATACATTTGAATG-ATTATATACTAAAATAAAATACAA-AAATAATATAAACGAAAA-AATA-
106918203 ATAT
124 ATAT
106918207 TAAAAAATAA
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
131 23 0.22
132 15 0.14
133 21 0.20
134 47 0.44
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.29
Consensus pattern (131 bp):
AAAAAATACGAACAAAGTGCCAAAATCAGGTTACTTATTAAAAAAATATAAAAAAACTTAAATAA
TACATTTGAATGATTATATACTAAAATAAAATACAAAAATAATATAAACGAAAAAATAATATACG
A
Found at i:106918215 original size:30 final size:29
Alignment explanation
Indices: 106918169--106918229 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
106918159 TATGTACTAA
106918169 AATAATATAAAGAAATAAAAAACGAAAAT
1 AATAATATAAAGAAATAAAAAACGAAAAT
* *
106918198 AATATATATTAAA-AAATAATATACGAAAAT
1 AATA-ATA-TAAAGAAATAAAAAACGAAAAT
106918228 AA
1 AA
106918230 AAAAATTACG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 20 0.71
31 4 0.14
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (29 bp):
AATAATATAAAGAAATAAAAAACGAAAAT
Found at i:106918347 original size:17 final size:17
Alignment explanation
Indices: 106918325--106918360 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
106918315 TTTTTTTTGC
* *
106918325 TAAAATAATATAAAAAA
1 TAAAATAAGAAAAAAAA
106918342 TAAAATAAGAAAAAAAA
1 TAAAATAAGAAAAAAAA
106918359 TA
1 TA
106918361 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
TAAAATAAGAAAAAAAA
Found at i:106918358 original size:29 final size:29
Alignment explanation
Indices: 106918326--106918386 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
106918316 TTTTTTTGCT
106918326 AAAATAATATAAAAAATAAAATAAGAAAA
1 AAAATAATATAAAAAATAAAATAAGAAAA
* * * *
106918355 AAAATATTTTAAAAAATAATATACGAAAA
1 AAAATAATATAAAAAATAAAATAAGAAAA
106918384 AAA
1 AAA
106918387 TACGAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (29 bp):
AAAATAATATAAAAAATAAAATAAGAAAA
Found at i:106918577 original size:145 final size:146
Alignment explanation
Indices: 106918034--106918647 Score: 644
Period size: 145 Copynumber: 4.1 Consensus size: 146
106918024 TTTTATGCTA
* * *
106918034 AAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGTTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAAAATACGAATAAAGTGTCA
* *
106918099 AAATCAGGGTTATTTATTAAAAAAAATATAAAAAATACTTAAATAATACATTTGAAGCATTATGT
66 AAATCAGGGTTATTTATTAAAATAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
106918164 ACTAAAATAATATAAAG
131 ACTAAAATAATAT-AAG
* * *
106918181 AAATAAAAAACGAAAATAATATATATTAAAAAATAATATACGAAAATAAAAAAATTACGAAGAAA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC----A-AAAAAAA-TACGAATAAA
* * * * * *
106918246 GTATCAAAATCAGGGTTATTTAGTAAAAAACCCTTAATATAAAGAAACAGTTAATTAATACATTT
60 GTGTCAAAATCAGGGTTATTTA-T-TAAAA---TAAATATAAA-AAATACTTAAATAATACATTT
*** * * * *
106918311 GAATTTTTTTTTGCTAAAATAATATAAA
119 GAAACATTATGTACTAAAATAATATAAG
* * *
106918339 AAATAAAATAAGAAAA-AAAATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTG-CT
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAAAATACGAATAAAGTGTC-
* *
106918402 AAAATCAGGGATATTTATTGAAA-AAATATAAAAAATA-TTGAAATAATACATTTGAAACATTAT
65 AAAATCAGGGTTATTTATTAAAATAAATATAAAAAATACTT-AAATAATACATTTGAAACATTAT
106918465 GTACTAAAATAATATGAAG
129 GTACTAAAATAATAT-AAG
* *
106918484 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATAC-AAAAAAATACGAAAAAAGTGTCA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAAAATACGAATAAAGTGTCA
* * *
106918548 AAATCAGGGTTATTTATTAAATTAGTATAAAAAAACACTTACATAATATACATAATACATTTGAA
66 AAATCAGGGTTATTTATTAAAATA-AATATAAAAA-A--TAC-T--TA-A-ATAATACATTTGAA
* * * *
106918613 ACATTTTTTGCTAAAATAATATAAAA
122 ACATTATGTACTAAAATAATAT-AAG
106918639 AAATAAAAT
1 AAATAAAAT
106918648 GATGAGTAAA
Statistics
Matches: 385, Mismatches: 54, Indels: 48
0.79 0.11 0.10
Matches are distributed among these distances:
143 2 0.01
144 35 0.09
145 64 0.17
146 24 0.06
147 46 0.12
148 1 0.00
149 3 0.01
150 4 0.01
151 27 0.07
152 15 0.04
153 30 0.08
154 3 0.01
155 48 0.12
157 22 0.06
158 24 0.06
159 37 0.10
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (146 bp):
AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAAAATACGAATAAAGTGTCA
AAATCAGGGTTATTTATTAAAATAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
ACTAAAATAATATAAG
Found at i:106922442 original size:15 final size:16
Alignment explanation
Indices: 106922423--106922484 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 16
106922413 TACCTTCTTT
106922423 TTTTCTTCTCCTTCT-
1 TTTTCTTCTCCTTCTA
*
106922438 TTTTCTTCCTTCTCTTCTC
1 TTTTCTT-C-TC-CTTCTA
* *
106922457 CTTTCTT-TCCTTTTA
1 TTTTCTTCTCCTTCTA
106922472 TTTTCTTCTCCTT
1 TTTTCTTCTCCTT
106922485 ACTGCTGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
15 17 0.45
16 8 0.21
17 2 0.05
18 5 0.13
19 6 0.16
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTCTTCTCCTTCTA
Found at i:106922908 original size:16 final size:16
Alignment explanation
Indices: 106922889--106922922 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
106922879 AAAAAATTCT
106922889 AAAAACCA-AAAACCC
1 AAAAACCATAAAACCC
*
106922904 AAAAACGATAAAACCC
1 AAAAACCATAAAACCC
106922920 AAA
1 AAA
106922923 TCAAAGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.68, C:0.26, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAACCATAAAACCC
Found at i:106929785 original size:12 final size:12
Alignment explanation
Indices: 106929768--106929800 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
106929758 TTCTCTGTAA
106929768 AATAGTAAAAAT
1 AATAGTAAAAAT
106929780 AATAGTAAAAAT
1 AATAGTAAAAAT
106929792 AATAGTAAA
1 AATAGTAAA
106929801 GGGGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:106929976 original size:18 final size:19
Alignment explanation
Indices: 106929948--106929990 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
106929938 GAATTTAAAG
*
106929948 TGAAATGAATTTGC-GAAAT
1 TGAAAT-AAATTGCAGAAAT
106929967 T-AAATAAATTGCAGAAAT
1 TGAAATAAATTGCAGAAAT
106929985 TGAAAT
1 TGAAAT
106929991 GATGAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (19 bp):
TGAAATAAATTGCAGAAAT
Found at i:106930723 original size:10 final size:10
Alignment explanation
Indices: 106930704--106930753 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
106930694 TGAAATTCTA
106930704 AAAGATAAAT
1 AAAGATAAAT
106930714 ACAA-ATAAAT
1 A-AAGATAAAT
106930724 AAAGATAAAT
1 AAAGATAAAT
106930734 AAAGATAAAT
1 AAAGATAAAT
106930744 GAAA-ATAAAT
1 -AAAGATAAAT
106930754 CTTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:106938862 original size:10 final size:10
Alignment explanation
Indices: 106938843--106938892 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
106938833 TGAAATTCTA
106938843 AAAGATAAAT
1 AAAGATAAAT
106938853 ACAA-ATAAAT
1 A-AAGATAAAT
106938863 AAAGATAAAT
1 AAAGATAAAT
106938873 AAAGATAAAT
1 AAAGATAAAT
106938883 GAAA-ATAAAT
1 -AAAGATAAAT
106938893 CCTAAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:106940706 original size:35 final size:35
Alignment explanation
Indices: 106940662--106940828 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
106940652 TCCTCATTGA
** *
106940662 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
106940697 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
106940737 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
106940772 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
106940807 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
106940829 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:106940745 original size:75 final size:73
Alignment explanation
Indices: 106940657--106940828 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
106940647 GGTTTTCCTC
** * * **
106940657 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
106940721 TCAGTATGG
65 TCAGTATGG
*
106940730 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
106940795 CTCAGTATGG
64 CTCAGTATGG
106940805 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
106940829 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:106955306 original size:22 final size:23
Alignment explanation
Indices: 106955257--106955307 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
106955247 TTATTTTATC
* *
106955257 TAATAAATAATTTAAATTAATTA
1 TAATAATTAATTTAAAATAATTA
*
106955280 T-ATAATTAA-TTAAAATATTTA
1 TAATAATTAATTTAAAATAATTA
106955301 TAATAAT
1 TAATAAT
106955308 ATATCGAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.46
22 12 0.50
23 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAATTAATTTAAAATAATTA
Found at i:106961625 original size:20 final size:20
Alignment explanation
Indices: 106961579--106961627 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
106961569 CCGTGTGTCG
*
106961579 CACACGACCTACTTAGCCGT
1 CACACGGCCTACTTAGCCGT
* *
106961599 CACACGGCCTGCTTAGCTGT
1 CACACGGCCTACTTAGCCGT
106961619 CACACGGCC
1 CACACGGCC
106961628 GTGTCTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.41, G:0.20, T:0.18
Consensus pattern (20 bp):
CACACGGCCTACTTAGCCGT
Found at i:106965516 original size:26 final size:26
Alignment explanation
Indices: 106965480--106965532 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
106965470 TAATAAAAAG
106965480 TTAGTTATTACTAGTACTTTTAGTCC
1 TTAGTTATTACTAGTACTTTTAGTCC
106965506 TTAGTTATTACTAGTACTTTTAGTCC
1 TTAGTTATTACTAGTACTTTTAGTCC
106965532 T
1 T
106965533 CGTGGATACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.51
Consensus pattern (26 bp):
TTAGTTATTACTAGTACTTTTAGTCC
Found at i:106974344 original size:2 final size:2
Alignment explanation
Indices: 106974337--106974373 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
106974327 CTTTTTGGTG
106974337 TA TA 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 T
106974374 GGTTTAAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:106978474 original size:15 final size:15
Alignment explanation
Indices: 106978454--106978483 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
106978444 ATACCTATCT
*
106978454 TTGTACATTGGGGGC
1 TTGTACATTGAGGGC
106978469 TTGTACATTGAGGGC
1 TTGTACATTGAGGGC
106978484 AATGTACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.37, T:0.33
Consensus pattern (15 bp):
TTGTACATTGAGGGC
Found at i:106982775 original size:43 final size:43
Alignment explanation
Indices: 106982713--106982801 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
106982703 AGATGCGTAA
*
106982713 TTATGAAAGAAAGTGGTATTTTTATCTCCATTTGCTAACCAAT
1 TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
106982756 TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
1 TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
106982799 TTA
1 TTA
106982802 CTTTCGCCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.40
Consensus pattern (43 bp):
TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
Found at i:106984114 original size:46 final size:46
Alignment explanation
Indices: 106984062--106984405 Score: 528
Period size: 46 Copynumber: 7.5 Consensus size: 46
106984052 TATTCATTTC
* *
106984062 TATCTTTCAACCATAGTCTTATTTATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* * *
106984108 TATCTTTCAACTATGGTCTTATTCATTTCCTATCATGTTGCTATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
106984154 TATCTTTCAACTATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* *
106984200 TATCTTTCAACCATGGTCATATTTATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
106984246 TATCTTTCAACCATGGTCATATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
106984292 TATCTTTCAACCATGGTCCTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* * * *
106984338 TATCTTTCAACCATGGTCTTATTCATTT-CTCATCATATTGTCATAG
1 TATCTTTCAACCATGGTCTTATTCATTTCCT-GTCATGTTGCCATGG
* *
106984384 TATCTTTCAACTATAGTCTTAT
1 TATCTTTCAACCATGGTCTTAT
106984406 ATATCTGAAT
Statistics
Matches: 278, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 2 0.01
46 276 0.99
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
Found at i:106984127 original size:75 final size:75
Alignment explanation
Indices: 106984002--106984141 Score: 187
Period size: 75 Copynumber: 1.9 Consensus size: 75
106983992 TCCCATCCAC
*
106984002 AGTCTTATTTATCTTCGACATGATGCCATAGTGTCTTCAAACTATCGTCTTATTCATTT-CTATC
1 AGTCTTATTTATCTTCGACATGATGCCATAGTATCTTCAAACTATCGTCTTATTCATTTCCTATC
106984066 TTTCAACCAT
66 TTTCAACCAT
* * * *
106984076 AGTCTTATTTAT-TTCCTGTCATGTTGCCATGGTATCTTTC-AACTATGGTCTTATTCATTTCCT
1 AGTCTTATTTATCTT-C-GACATGATGCCATAGTATC-TTCAAACTATCGTCTTATTCATTTCCT
106984139 ATC
63 ATC
106984142 ATGTTGCTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
73 2 0.04
74 13 0.23
75 34 0.60
76 8 0.14
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (75 bp):
AGTCTTATTTATCTTCGACATGATGCCATAGTATCTTCAAACTATCGTCTTATTCATTTCCTATC
TTTCAACCAT
Found at i:106984458 original size:45 final size:45
Alignment explanation
Indices: 106984386--106984499 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
106984376 TGTCATAGTA
* ** * * *
106984386 TCTTTCAACTATAGTCTTA-TATATCTGAATCGTGATGCCATAATG
1 TCTTTCAACTATGGTCTTACT-CGTCTGAATCGAGAAGCCATAACG
*
106984431 TCTTTCAACTATGGTCTTACTCGTCTGAATCGAGAAGCCATAGCG
1 TCTTTCAACTATGGTCTTACTCGTCTGAATCGAGAAGCCATAACG
* *
106984476 TCTTTCAGCGATGGTCTTACTCGT
1 TCTTTCAACTATGGTCTTACTCGT
106984500 TTCTAGTATG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 58 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTCGTCTGAATCGAGAAGCCATAACG
Found at i:106984563 original size:33 final size:33
Alignment explanation
Indices: 106984511--106984666 Score: 122
Period size: 33 Copynumber: 4.7 Consensus size: 33
106984501 TCTAGTATGA
* * *
106984511 TGCCATAGTCCAACTATGGTCTTACACATCTAT
1 TGCCATAGCCCAGCCATGGTCTTACACATCTAT
* *
106984544 TGCCATGGCCCAGCCATGGTCTTACAC-TCGTAG
1 TGCCATAGCCCAGCCATGGTCTTACACATC-TAT
* * * * *
106984577 TGCCATATCCAAAG-TATGGTCTTA-TCATC-AGGA
1 TGCCATAGCC-CAGCCATGGTCTTACACATCTA--T
* * *
106984610 TGCCATAGCCTAGCTATGGTCTTACACATATAT
1 TGCCATAGCCCAGCCATGGTCTTACACATCTAT
*
106984643 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
106984667 TCCGTCAATT
Statistics
Matches: 96, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
31 1 0.01
32 5 0.05
33 84 0.88
34 5 0.05
35 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (33 bp):
TGCCATAGCCCAGCCATGGTCTTACACATCTAT
Found at i:106986257 original size:11 final size:11
Alignment explanation
Indices: 106986241--106986288 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
106986231 CTTTATATAC
106986241 TAATAAAATAA
1 TAATAAAATAA
*
106986252 TAATAAAATATCT
1 TAATAAAATA--A
* *
106986265 TATTAAAATAT
1 TAATAAAATAA
106986276 TAATAAAATAA
1 TAATAAAATAA
106986287 TA
1 TA
106986289 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:106988987 original size:73 final size:73
Alignment explanation
Indices: 106988868--106989012 Score: 263
Period size: 73 Copynumber: 2.0 Consensus size: 73
106988858 CCAATGATCA
*
106988868 ACTATTGTATTCCCTATTGAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAAC
1 ACTATTGTATTCCCTATTAAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAAC
106988933 AATTAGTG
66 AATTAGTG
* *
106988941 ACTATTGTATTCCCTATTAAAGGAAAATGTATTACACTTGCTGTCAAATAGCTTCCACTAAACAC
1 ACTATTGTATTCCCTATTAAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAAC
106989006 AATTAGT
66 AATTAGT
106989013 AATCCTCCTC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (73 bp):
ACTATTGTATTCCCTATTAAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAAC
AATTAGTG
Found at i:106991654 original size:17 final size:17
Alignment explanation
Indices: 106991621--106991654 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
106991611 ATATAATTAC
*
106991621 TTTTTTTTACTAGTTTA
1 TTTTTTTTACTAATTTA
*
106991638 TTTTTTTTCCTAATTTA
1 TTTTTTTTACTAATTTA
106991655 ACCTTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTTTTACTAATTTA
Found at i:106992455 original size:19 final size:16
Alignment explanation
Indices: 106992413--106992446 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
106992403 CCGGTTAGGC
106992413 AACGAACAAGTAAAAT
1 AACGAACAAGTAAAAT
106992429 AACGAACAAGTAAAAT
1 AACGAACAAGTAAAAT
106992445 AA
1 AA
106992447 AGTCGAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (16 bp):
AACGAACAAGTAAAAT
Found at i:106994320 original size:25 final size:25
Alignment explanation
Indices: 106994267--106994519 Score: 92
Period size: 25 Copynumber: 10.2 Consensus size: 25
106994257 AAGGTCTTTC
* * **
106994267 GAGCCATATAACGGGAAGCTTATGT
1 GAGCCATATAACAGGAAGCTCATAA
*
106994292 GAGCCATGTAACAGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
* * * *
106994317 GAGCCATA-ATCAAGAAGTTCA-AGC
1 GAGCCATATAACAGGAAGCTCATA-A
* *
106994341 GAGCCA-ATATA-GGGAAGCTCCA-GA
1 GAGCCATATA-ACAGGAAGCT-CATAA
* **
106994365 GAGCCAT-TAATC-GGAAAGTTCCGAA
1 GAGCCATATAA-CAGG-AAGCTCATAA
* * * *
106994390 GATCTATATATCAGGAAGCTCAAGAAA
1 GAGCCATATAACAGGAAGCTC-A-TAA
* * **
106994417 GAGCC-TTTAATCGGGAAGCTCCGAA
1 GAGCCATATAA-CAGGAAGCTCATAA
*
106994442 GAGCCATATATCAGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
** * **
106994467 GAGCCATA-AATGGGAAACTCGCAA
1 GAGCCATATAACAGGAAGCTCATAA
* * *
106994491 GAACCATATAACGGGAAGCTCATGA
1 GAGCCATATAACAGGAAGCTCATAA
106994516 GAGC
1 GAGC
106994520 TAATAATGGG
Statistics
Matches: 162, Mismatches: 50, Indels: 32
0.66 0.20 0.13
Matches are distributed among these distances:
23 3 0.02
24 50 0.31
25 85 0.52
26 10 0.06
27 14 0.09
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAA
Found at i:106994427 original size:52 final size:52
Alignment explanation
Indices: 106994341--106994512 Score: 162
Period size: 52 Copynumber: 3.4 Consensus size: 52
106994331 AAGTTCAAGC
* *
106994341 GAGCCA-ATAT-AGGGAAGCTCCAG--AGAGCCATTAATCGGAAAGTTCCGAA
1 GAGCCATATATCA-GGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCGAA
* * * *
106994390 GATCTATATATCAGGAAGCTCAAGAAAGAGCCTTTAATCGGGAAGCTCCGAA
1 GAGCCATATATCAGGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCGAA
* * *
106994442 GAGCCATATATCAGGAAGCTC-A-TAAGAGCCATAAATGGGAAA-CT-CGCAA
1 GAGCCATATATCAGGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCG-AA
* * *
106994491 GAACCATATAACGGGAAGCTCA
1 GAGCCATATATCAGGAAGCTCA
106994513 TGAGAGCTAA
Statistics
Matches: 101, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
48 2 0.02
49 26 0.26
50 29 0.29
51 2 0.02
52 42 0.42
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.17
Consensus pattern (52 bp):
GAGCCATATATCAGGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCGAA
Found at i:106994508 original size:49 final size:49
Alignment explanation
Indices: 106994395--106994535 Score: 133
Period size: 49 Copynumber: 2.8 Consensus size: 49
106994385 CCGAAGATCT
* * ** * *
106994395 ATATATCAGGAAGCTCAAGAAAGAGCCTTTAATCGGGAAGCTC-CGAAGAGCC
1 ATATAACAGGAAGCTC-A-TAAGAGCCAATAAT-GGGAAACTCGC-AAGAACC
*
106994447 ATATATCAGGAAGCTCATAAGAGCC-ATAAATGGGAAACTCGCAAGAACC
1 ATATAACAGGAAGCTCATAAGAGCCAAT-AATGGGAAACTCGCAAGAACC
* * *
106994496 ATATAACGGGAAGCTCATGAGAGCTAATAATGGGAAACTC
1 ATATAACAGGAAGCTCATAAGAGCCAATAATGGGAAACTC
106994536 TTTCGATCTG
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
49 48 0.62
50 13 0.17
51 1 0.01
52 16 0.21
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (49 bp):
ATATAACAGGAAGCTCATAAGAGCCAATAATGGGAAACTCGCAAGAACC
Found at i:107000048 original size:18 final size:17
Alignment explanation
Indices: 106999999--107000054 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
106999989 ATTAATTATA
*
106999999 ATATTTATGAATTTGAAT
1 ATATTTAT-AATTTTAAT
107000017 ATCATTTA-AA-TTTAAT
1 AT-ATTTATAATTTTAAT
*
107000033 ATATTTATATATTTTAAA
1 ATATTTATA-ATTTTAAT
107000051 ATAT
1 ATAT
107000055 AATAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 5 0.16
16 8 0.25
17 3 0.09
18 11 0.34
19 5 0.16
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (17 bp):
ATATTTATAATTTTAAT
Found at i:107000067 original size:2 final size:2
Alignment explanation
Indices: 107000051--107000083 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
107000041 ATATTTTAAA
*
107000051 AT AT A- AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107000084 TTAGACTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:107006249 original size:14 final size:14
Alignment explanation
Indices: 107006230--107006260 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
107006220 AACGTGACTC
107006230 AAACTTGTATGCCT
1 AAACTTGTATGCCT
107006244 AAACTTGTATGCCT
1 AAACTTGTATGCCT
107006258 AAA
1 AAA
107006261 ATCTTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (14 bp):
AAACTTGTATGCCT
Found at i:107006893 original size:27 final size:28
Alignment explanation
Indices: 107006829--107006895 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
107006819 TTGAAATGAA
*
107006829 ATAATATATAAA-ATTTAAAAATATATC
1 ATAATAGATAAATATTTAAAAATATATC
*
107006856 AAAATAGATAAATATTTTCAAAAA-ATAT-
1 ATAATAGATAAATA-TTT-AAAAATATATC
107006884 ATAATA-ATAAAT
1 ATAATAGATAAAT
107006896 TTAAATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 16 0.47
28 6 0.18
29 7 0.21
30 5 0.15
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (28 bp):
ATAATAGATAAATATTTAAAAATATATC
Found at i:107006924 original size:23 final size:25
Alignment explanation
Indices: 107006880--107006925 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
107006870 TTTTCAAAAA
*
107006880 ATATATAATAATAAATTTAAATTTT
1 ATATATAATAATAAATTAAAATTTT
*
107006905 ATAT-TAATATTAAA-TAAAATT
1 ATATATAATAATAAATTAAAATT
107006926 AAAATCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 9 0.47
25 4 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATATAATAATAAATTAAAATTTT
Found at i:107008057 original size:3 final size:3
Alignment explanation
Indices: 107008051--107008082 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
107008041 TAAAAGTATG
107008051 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
107008083 TCTACAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:107008900 original size:27 final size:28
Alignment explanation
Indices: 107008870--107008932 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
107008860 GGTTTCTTGG
107008870 TTTTTTTTGGGGGGTTAGG-TTTTTCTT
1 TTTTTTTTGGGGGGTTAGGTTTTTTCTT
***
107008897 TTTTTTTTTTTGGGTTAGGTTTTTTCTT
1 TTTTTTTTGGGGGGTTAGGTTTTTTCTT
107008925 TTTTTTTT
1 TTTTTTTT
107008933 TGGTTAGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 16 0.50
28 16 0.50
ACGTcount: A:0.03, C:0.03, G:0.21, T:0.73
Consensus pattern (28 bp):
TTTTTTTTGGGGGGTTAGGTTTTTTCTT
Found at i:107008902 original size:28 final size:29
Alignment explanation
Indices: 107008870--107008935 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
107008860 GGTTTCTTGG
107008870 TTTTTTTTGGGGGGTTAGG-TTTTTCTTT
1 TTTTTTTTGGGGGGTTAGGTTTTTTCTTT
**
107008898 TTTTTTTT-TTGGGTTAGGTTTTTTCTTT
1 TTTTTTTTGGGGGGTTAGGTTTTTTCTTT
107008926 TTTTTTTTGG
1 TTTTTTTTGG
107008936 TTAGGTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 8 0.24
28 25 0.76
ACGTcount: A:0.03, C:0.03, G:0.23, T:0.71
Consensus pattern (29 bp):
TTTTTTTTGGGGGGTTAGGTTTTTTCTTT
Found at i:107008947 original size:27 final size:26
Alignment explanation
Indices: 107008881--107008948 Score: 111
Period size: 25 Copynumber: 2.6 Consensus size: 26
107008871 TTTTTTTGGG
107008881 GGGTTAGGTTTTTCTTTTTTTTTTTTT
1 GGGTTAGGTTTTT-TTTTTTTTTTTTT
*
107008908 GGGTTAGGTTTTTTCTTTTTTTTTTT
1 GGGTTAGGTTTTTTTTTTTTTTTTTT
107008934 -GGTTAGGTTTTTTTT
1 GGGTTAGGTTTTTTTT
107008949 GGGAGGGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 14 0.36
26 12 0.31
27 13 0.33
ACGTcount: A:0.04, C:0.03, G:0.21, T:0.72
Consensus pattern (26 bp):
GGGTTAGGTTTTTTTTTTTTTTTTTT
Found at i:107009821 original size:30 final size:29
Alignment explanation
Indices: 107009772--107009832 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
107009762 TTTTGAAAAA
107009772 CAGAAATTAAAAACTCAACTCAACTCTCG
1 CAGAAATTAAAAACTCAACTCAACTCTCG
*
107009801 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAA-CTCAACTCAACTCTCG
107009831 CA
1 CA
107009833 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.43, C:0.30, G:0.08, T:0.20
Consensus pattern (29 bp):
CAGAAATTAAAAACTCAACTCAACTCTCG
Found at i:107009951 original size:14 final size:14
Alignment explanation
Indices: 107009928--107009962 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
107009918 TGAGTTGATT
107009928 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
107009941 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
107009955 TTTGAAAA
1 TTTGAAAA
107009963 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:107010094 original size:166 final size:165
Alignment explanation
Indices: 107009814--107011162 Score: 1242
Period size: 166 Copynumber: 8.2 Consensus size: 165
107009804 AAATTAAAAA
* *
107009814 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAATAGAAATTGAAAATAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG----AAAAACAGAAATTGAAAATACC
** * * * * *
107009879 TCAGCACGTGAGCCAAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAAACAGAATTT
61 TCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT
** * * *
107009944 GAAAAACAGATTTTGAAAATACCTCGACATGTG-CCCGAG
126 GAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* * * *
107009983 GCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG--AAAATACCTCA
* *
107010048 GTGTGTGATCTAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-----------TTGAA
64 GCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAA
* * * * *
107010102 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAG
129 AAACAGAAATTGAAAATACCTCGGCGTGTGA-CCTGAG
* *
107010139 GCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTG-AAAACAGAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGC
* * ** * *
107010202 GTGT-CT-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATTG-AAA
66 GTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAA
** * *
107010264 ATGGAAATTGAAAATACGTCGGCGTGTGATCTGAG
131 ACAGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* *
107010299 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATTGAAGTAAAAAAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT---G------AAAA
* *
107010362 TACCTCAGTGTGTGATCTGAA-GCTCAAC-CACCTCTCACAATATGAGTTGATTTTT--------
57 TACCTCAGCGTGTGATCT-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAG
* *
107010417 ---TTGAAAGACAGAAATTGAAAATACCTCGGCGTGTGATCTGAG
121 AAATTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* *
107010459 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGC
* * * * * * *
107010524 GCGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTAAAGGCAGAAATT
66 GTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAA-ACAGAAATT
107010589 GAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAG
126 GAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* * * * *
107010629 GCTCAACTCGCCGT-TCGCAATACGAGTTGACTTTTTTG-ACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAG
* * *
107010692 CGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGCCAGAAATT
65 CGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAA-ACAGAAATT
*
107010755 GAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
126 GAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* * * *
107010795 GCTCAACTCGCCAT-TCGCAATACGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAG
* *
107010858 CGTGT--CCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTGAAAGACAGAAATT
65 CGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTG---ATTTTTGAAA-ACAGAAATT
*
107010921 GAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
126 GAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAG
*
107010961 GCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATT-TTT--------T--TGA--AAAACAGAAATTG
* * * * *
107011026 AAAATACCTC-G-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCTTTCAAA
53 AAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTT-GAA
* * *
107011089 AACATAATAATG-AAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAG
116 AACAGAA-ATTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAG
107011137 GCTCAACTCACCTCTCGCAATATGAG
1 GCTCAACTCACCTCTCGCAATATGAG
107011163 CTAATTTTGA
Statistics
Matches: 1000, Mismatches: 106, Indels: 141
0.80 0.09 0.11
Matches are distributed among these distances:
150 34 0.03
151 1 0.00
152 17 0.02
153 23 0.02
154 31 0.03
155 34 0.03
156 29 0.03
157 2 0.00
158 5 0.00
159 11 0.01
160 130 0.13
161 3 0.00
162 16 0.02
163 1 0.00
164 13 0.01
165 1 0.00
166 296 0.30
167 34 0.03
168 9 0.01
169 67 0.07
170 97 0.10
171 9 0.01
172 1 0.00
175 1 0.00
176 36 0.04
177 3 0.00
178 35 0.04
179 7 0.01
180 54 0.05
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (165 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGC
GTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAA
ACAGAAATTGAAAATACCTCGGCGTGTGACCTGAG
Found at i:107010149 original size:77 final size:77
Alignment explanation
Indices: 107009981--107010593 Score: 455
Period size: 77 Copynumber: 7.8 Consensus size: 77
107009971 CATGTGCCCG
* * * * *
107009981 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG--AAAATACCT
* * *
107010046 CAGTGTGTGATCTA
64 CAGCGCGTGATCCA
* *
107010060 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
*
107010125 GCGCGTGAGCCA
66 GCGCGTGATCCA
*
107010137 AGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
* **
107010200 --ACGTG-TCTTG
66 GCGCGTGATC-CA
** * * **
107010210 AGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAA-ATAGAAATTGAAAATGGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAT---ACC
* *
107010272 TGAAAATACGTCGGCGTG-T-GA
63 T-----CA-G-C-GCGTGATCCA
* * * * * *
107010293 TCTGAG-GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATTGAAGTAA
1 --AG-GCTC-AA-CTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATT---G---
* * *
107010355 AAAAAAATACCTCAGTGTGTGATCTGA
55 ---AAAATACCTCAGCGCGTGATC-CA
* *
107010382 A-GCTCAAC-CACCTCTCACAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
* **
107010445 GCGTGTGATCTG
66 GCGCGTGATCCA
*
107010457 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
*
107010522 GCGCGTGAGCCA
66 GCGCGTGATCCA
* * * *
107010534 AGGCTTAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTAAAGGCAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAGACAGAAATTGAAAA
107010594 ACAGAAATTG
Statistics
Matches: 432, Mismatches: 63, Indels: 78
0.75 0.11 0.14
Matches are distributed among these distances:
72 23 0.05
73 33 0.08
75 23 0.05
76 36 0.08
77 138 0.32
79 72 0.17
80 1 0.00
82 1 0.00
83 21 0.05
84 1 0.00
85 25 0.06
86 7 0.02
87 31 0.07
88 9 0.02
89 3 0.01
91 1 0.00
94 2 0.00
97 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (77 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
GCGCGTGATCCA
Found at i:107010263 original size:13 final size:13
Alignment explanation
Indices: 107010245--107010279 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
107010235 GAGTTGAATT
107010245 TTGAAAATAGAAA
1 TTGAAAATAGAAA
*
107010258 TTGAAAATGGAAA
1 TTGAAAATAGAAA
107010271 TTGAAAATA
1 TTGAAAATA
107010280 CGTCGGCGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.26
Consensus pattern (13 bp):
TTGAAAATAGAAA
Found at i:107010322 original size:87 final size:87
Alignment explanation
Indices: 107010173--107010438 Score: 294
Period size: 85 Copynumber: 3.1 Consensus size: 87
107010163 AGTTGATTTT
** * * **
107010173 TTGAAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCGCAATATG
1 TTGAAAATGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
*
107010236 AGTTGAATTTTGAAAATAGAAA
66 AGTTGATTTTTGAAAATAGAAA
* *
107010258 TTGAAAATGGAAATTGAAAATACGTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAATGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
*
107010323 AGTTGATTTTTGAAAAATATAAA
66 AGTTGATTTTTG-AAAATAGAAA
* ** * * *
107010346 TTG--AA-GTAAA-AAAAAATACCTCAGTGTGTGATCTGAAGCTCAAC-CACCTCTCACAATATG
1 TTGAAAATGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
*
107010406 AGTTGATTTTTTTGAAAGACAGAAA
66 AGTTGA--TTTTTGAAA-ATAGAAA
107010431 TTGAAAAT
1 TTGAAAAT
107010439 ACCTCGGCGT
Statistics
Matches: 152, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
83 21 0.14
84 31 0.20
85 46 0.30
86 3 0.02
87 39 0.26
88 12 0.08
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (87 bp):
TTGAAAATGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTGAAAATAGAAA
Found at i:107010600 original size:14 final size:14
Alignment explanation
Indices: 107010581--107010607 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
107010571 TTTTTAAAGG
107010581 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
107010595 CAGAAATTGAAAA
1 CAGAAATTGAAAA
107010608 TACCTCGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:107010664 original size:93 final size:93
Alignment explanation
Indices: 107010494--107010665 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 93
107010484 GTTGATTTTT
* * * *
107010494 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTTAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAC
*
107010559 GAGTCGATTTTTTTTTTAAAGGCAGAAA
66 GAGTCGACTTTTTTTTTAAAGGCAGAAA
* * * *
107010587 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCGT-TCGCAAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACC-TCTCGCAAT
*
107010650 ACGAGTTGACTTTTTT
64 ACGAGTCGACTTTTTT
107010666 GACAACAGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
92 2 0.03
93 64 0.96
94 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAC
GAGTCGACTTTTTTTTTAAAGGCAGAAA
Found at i:107010730 original size:74 final size:75
Alignment explanation
Indices: 107010592--107010759 Score: 225
Period size: 76 Copynumber: 2.2 Consensus size: 75
107010582 AGAAATTGAA
* *
107010592 AAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGTTCGCAATACGAGTT
1 AAACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGTTCGCAATACGAGTT
107010657 GA-CTTTTTTG
65 GATCTTTTTTG
* *
107010667 ACAACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACC-TCTCGCAATATGAGT
1 A-AACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGT-TCGCAATACGAGT
*
107010730 TGATTTTTTTTG
64 TGATCTTTTTTG
107010742 AAAGCCAGAAATTGAAAA
1 AAA--CAGAAATTGAAAA
107010760 ACGGAAATTG
Statistics
Matches: 82, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
73 1 0.01
74 34 0.41
75 9 0.11
76 38 0.46
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (75 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGTTCGCAATACGAGTTG
ATCTTTTTTG
Found at i:107010828 original size:92 final size:88
Alignment explanation
Indices: 107010673--107011158 Score: 285
Period size: 88 Copynumber: 5.6 Consensus size: 88
107010663 TTTGACAACA
* *
107010673 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TTTT
107010738 TTTGA-AAGCCAGAAATTGAAAAACG
65 TTTGACAA--CAGAAATTGAAAAACG
* *
107010763 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCAT-TCGCAATACGAGTTGATT
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACC-TCTCGCAATACGAGTTGATT
* *
107010827 TTTTTGACAACAGAAATTGAAATTACCT
63 TTTTTGACAACAGAAATTGAAA--AACG
* *** * * * * * *** * *
107010855 CAGCGTG----T-CCT-A-AG-G--CTCA-ACTC-AC-C-TCTCGCAATATGA-GTTGTT-TTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT-ACG-AGTTGATTT
* *
107010904 TTTG-AAAGACAGAAATTGAAAAACG
64 TTTTGACA-ACAGAAATTGAAAAACG
* * *
107010929 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTC
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
** * * * *
107010994 TTTCAAAAACATAATAATG-AAAACA
64 TTTTGACAACAGAA-ATTGAAAAACG
* * * * *
107011019 GAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
** * * * * *
107011084 TCAAAAACATAATAATG-AAGACA
66 TTGACAACAGAA-ATTGAAAAACG
* *
107011107 GAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
107011159 TGAGCTAATT
Statistics
Matches: 318, Mismatches: 48, Indels: 62
0.74 0.11 0.14
Matches are distributed among these distances:
74 5 0.02
75 3 0.01
76 24 0.08
77 5 0.02
78 3 0.01
79 6 0.02
80 3 0.01
81 1 0.00
82 1 0.00
84 1 0.00
85 1 0.00
86 3 0.01
87 6 0.02
88 117 0.37
89 5 0.02
90 79 0.25
91 15 0.05
92 39 0.12
93 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (88 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
TTGACAACAGAAATTGAAAAACG
Found at i:107010896 original size:74 final size:77
Alignment explanation
Indices: 107010753--107010925 Score: 219
Period size: 76 Copynumber: 2.3 Consensus size: 77
107010743 AAGCCAGAAA
* * * * *
107010753 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCATTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTAAGGCTCAACTCACCATTCGCAATAC
107010818 GAGTTG-ATTTTT
65 GAGTTGTATTTTT
* * *
107010830 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGT-CCTAAGGCTCAACTCACC-TCTCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCAT-TCGCAATAC
*
107010892 GAGTTGTTTTTTT
65 GAGTTGTATTTTT
107010905 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
107010926 ACGGAAATTG
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
73 1 0.01
74 30 0.36
75 10 0.12
76 37 0.45
77 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (77 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCATTCGCAATACG
AGTTGTATTTTT
Found at i:107010924 original size:14 final size:14
Alignment explanation
Indices: 107010905--107010939 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
107010895 TTGTTTTTTT
*
107010905 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
107010919 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
107010933 TTGAAAA
1 TTGAAAA
107010940 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:107011069 original size:88 final size:88
Alignment explanation
Indices: 107010835--107011162 Score: 487
Period size: 88 Copynumber: 3.7 Consensus size: 88
107010825 TTTTTTTGAC
* * * *
107010835 AACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGTT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG--
* * * * * *
107010900 TTTTTTTGAAAGACAGAA-ATTGAAA
64 ATTCTTTCAAAAACATAATAATG-AA
*
107010925 AACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
107010990 ATTCTTTCAAAAACATAATAATGAA
64 ATTCTTTCAAAAACATAATAATGAA
*
107011015 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
107011080 TCTTTCAAAAACATAATAATGAA
66 TCTTTCAAAAACATAATAATGAA
*
107011103 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
107011163 CTAATTTTGA
Statistics
Matches: 221, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
88 122 0.55
90 59 0.27
91 3 0.01
92 37 0.17
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (88 bp):
AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TCTTTCAAAAACATAATAATGAA
Found at i:107011071 original size:180 final size:176
Alignment explanation
Indices: 107010835--107011162 Score: 487
Period size: 180 Copynumber: 1.8 Consensus size: 176
107010825 TTTTTTTGAC
* * *
107010835 AACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGTT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTG--
* * * * * *
107010900 TTTTTTTGAAAGACAGAA-ATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCT
64 ATTCTTTCAAAAACAGAATAATG-AAAACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCT
107010964 CAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAA
126 CAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAA
* *
107011015 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
107011080 TCTTTCAAAAACATAATAATGAAGACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
66 TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
107011145 CACCTCTCGCAATATGAG
131 CACCTCTCGCAATATGAG
107011163 CTAATTTTGA
Statistics
Matches: 134, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
176 36 0.27
178 37 0.28
179 3 0.02
180 58 0.43
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (176 bp):
AACAGAAATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAA
Found at i:107011343 original size:72 final size:73
Alignment explanation
Indices: 107011193--107011380 Score: 229
Period size: 72 Copynumber: 2.6 Consensus size: 73
107011183 ATTAAAAGGT
* ** * * * * * *
107011193 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
*
107011258 CCTGAGGC
66 CCCGAGGC
*
107011266 TCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTTAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTG
107011329 CCCCGAGGC
65 CCCCGAGGC
* *
107011338 TCAACTCACCTCTAGCAATATGAGTTGAT-TTTGAAAAACAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAA
107011381 TTAAAAGGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
71 3 0.03
72 65 0.66
73 31 0.31
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
CCCGAGGC
Found at i:107011539 original size:71 final size:71
Alignment explanation
Indices: 107011423--107011555 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
107011413 GTCAATTTAA
* *
107011423 AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAA
1 AATTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAA
107011488 AACAAC
66 AACAAC
* **
107011494 AATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 AATTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
107011556 CCTTGAAAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (71 bp):
AATTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAA
AACAAC
Found at i:107020294 original size:10 final size:11
Alignment explanation
Indices: 107020255--107020294 Score: 52
Period size: 10 Copynumber: 4.0 Consensus size: 11
107020245 GGTATTTAAA
107020255 ATATATA-TAT
1 ATATATAGTAT
107020265 ATATATA-TAT
1 ATATATAGTAT
107020275 ATATAT-GTAT
1 ATATATAGTAT
107020285 ATA-ATAGTAT
1 ATATATAGTAT
107020295 TTAAGAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.07
10 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (11 bp):
ATATATAGTAT
Found at i:107020306 original size:2 final size:2
Alignment explanation
Indices: 107020255--107020287 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
107020245 GGTATTTAAA
*
107020255 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107020288 ATAGTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107020870 original size:19 final size:19
Alignment explanation
Indices: 107020846--107020920 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
107020836 AGGGTTTTTT
**
107020846 GGTTTTTTTTTGGGGGTTA
1 GGTTTTTTTTTTTGGGTTA
107020865 GGTTTTTTTTTTTTTGGGTTA
1 GG--TTTTTTTTTTTGGGTTA
*
107020886 GGTTTTTTTTTTTTGGTTA
1 GGTTTTTTTTTTTGGGTTA
*
107020905 GGTTATTTTTTTTGGG
1 GGTTTTTTTTTTTGGG
107020921 AGGGTTTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 32 0.65
21 17 0.35
ACGTcount: A:0.05, C:0.00, G:0.28, T:0.67
Consensus pattern (19 bp):
GGTTTTTTTTTTTGGGTTA
Found at i:107020874 original size:21 final size:21
Alignment explanation
Indices: 107020848--107020920 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
107020838 GGTTTTTTGG
107020848 TTTTTTTTTGGGGGTTAGGTT
1 TTTTTTTTTGGGGGTTAGGTT
**
107020869 TTTTTTTTTTTGGGTTAGGTT
1 TTTTTTTTTGGGGGTTAGGTT
*
107020890 TTTTTTTTT--TGGTTAGGTT
1 TTTTTTTTTGGGGGTTAGGTT
*
107020909 ATTTTTTTTGGG
1 TTTTTTTTTGGG
107020921 AGGGTTTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
19 17 0.38
21 28 0.62
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.68
Consensus pattern (21 bp):
TTTTTTTTTGGGGGTTAGGTT
Found at i:107020878 original size:23 final size:21
Alignment explanation
Indices: 107020848--107020917 Score: 99
Period size: 20 Copynumber: 3.4 Consensus size: 21
107020838 GGTTTTTTGG
**
107020848 TTTTTTTTTGGGGGTTAGGTT
1 TTTTTTTTTTTGGGTTAGGTT
107020869 TTTTTTTTTTTGGGTTAGG-T
1 TTTTTTTTTTTGGGTTAGGTT
107020889 TTTTTTTTTTT-GGTTAGGTT
1 TTTTTTTTTTTGGGTTAGGTT
*
107020909 ATTTTTTTT
1 TTTTTTTTT
107020918 GGGAGGGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 7 0.16
20 21 0.47
21 17 0.38
ACGTcount: A:0.06, C:0.00, G:0.23, T:0.71
Consensus pattern (21 bp):
TTTTTTTTTTTGGGTTAGGTT
Found at i:107028308 original size:16 final size:17
Alignment explanation
Indices: 107028277--107028309 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
107028267 ACATTCCAAG
107028277 AAGAATTATTTAAATAA
1 AAGAATTATTTAAATAA
*
107028294 AAGAA-TATTTTAATAA
1 AAGAATTATTTAAATAA
107028310 TTTTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
AAGAATTATTTAAATAA
Found at i:107028954 original size:30 final size:31
Alignment explanation
Indices: 107028913--107028975 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
107028903 CGAGTGTATG
* *
107028913 TTAATTTTTAAATTTAG-TAATTATTTTTATA
1 TTAATTTTTAAA-TTAGACAATTATTTATATA
107028944 TTAA-TTTTAAATTAGACAATTATTTATATA
1 TTAATTTTTAAATTAGACAATTATTTATATA
107028974 TT
1 TT
107028976 GAGACTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 21 0.72
31 4 0.14
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (31 bp):
TTAATTTTTAAATTAGACAATTATTTATATA
Found at i:107036804 original size:3 final size:3
Alignment explanation
Indices: 107036796--107036820 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
107036786 CCTTCCTCAT
107036796 CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC C
107036821 AACAACAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:107048081 original size:27 final size:27
Alignment explanation
Indices: 107048015--107048069 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
107048005 CCCAAAACTG
107048015 TAAATACGTAATAGCAAAAGGTTCTCT
1 TAAATACGTAATAGCAAAAGGTTCTCT
*
107048042 TAAATACATAATAGCAAAAGGTTCTCT
1 TAAATACGTAATAGCAAAAGGTTCTCT
107048069 T
1 T
107048070 TTATTGGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (27 bp):
TAAATACGTAATAGCAAAAGGTTCTCT
Done.