Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 261 of 322
Found at i:86765919 original size:39 final size:39
Alignment explanation
Indices: 86765833--86765961 Score: 201
Period size: 39 Copynumber: 3.4 Consensus size: 39
86765823 TCAATCTTAT
*
86765833 TTTAATTAATATAATTTGGATTAATTTATTT--A-ATTA
1 TTTAATTAATATAAATTGGATTAATTTATTTAAATATTA
*
86765869 TTTACTTAATATAAATTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAAATTGGATTAATTTATTTAAATATTA
*
86765908 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAAATTGGATTAATTTATTTAAATATTA
*
86765947 TTTAATTAAAATAAA
1 TTTAATTAATATAAA
86765962 ATTTTTTCCA
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
36 29 0.35
38 1 0.01
39 54 0.64
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (39 bp):
TTTAATTAATATAAATTGGATTAATTTATTTAAATATTA
Found at i:86766176 original size:9 final size:9
Alignment explanation
Indices: 86766158--86766404 Score: 311
Period size: 9 Copynumber: 27.7 Consensus size: 9
86766148 TATATACTTG
*
86766158 AACTTCCAT
1 AACTTACAT
*
86766167 AACTCACAT
1 AACTTACAT
86766176 AACTTACAT
1 AACTTACAT
* *
86766185 AACCTATAT
1 AACTTACAT
86766194 AACTTACAT
1 AACTTACAT
*
86766203 AACTCACAT
1 AACTTACAT
86766212 AACTTACAT
1 AACTTACAT
*
86766221 AACTTATAT
1 AACTTACAT
86766230 AACTTACAT
1 AACTTACAT
86766239 AACTTACAT
1 AACTTACAT
86766248 AACTTACAT
1 AACTTACAT
*
86766257 AACTCACAT
1 AACTTACAT
86766266 AACTTACAT
1 AACTTACAT
*
86766275 AACTTATAT
1 AACTTACAT
86766284 AACTTACAT
1 AACTTACAT
*
86766293 AACTTGCAT
1 AACTTACAT
*
86766302 AACTCACAT
1 AACTTACAT
86766311 AACTTACAT
1 AACTTACAT
*
86766320 AACTCACAT
1 AACTTACAT
*
86766329 AACTTACAG
1 AACTTACAT
86766338 AACTTACAT
1 AACTTACAT
*
86766347 AATTTACAT
1 AACTTACAT
86766356 AACTTACAT
1 AACTTACAT
86766365 AA--TACAT
1 AACTTACAT
* *
86766372 AA-ATATAT
1 AACTTACAT
* *
86766380 ATCATATCAT
1 AACTTA-CAT
86766390 AACTTACAT
1 AACTTACAT
86766399 AACTTA
1 AACTTA
86766405 ATTAGAGTTA
Statistics
Matches: 205, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
7 7 0.03
8 5 0.02
9 187 0.91
10 6 0.03
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:86772940 original size:21 final size:21
Alignment explanation
Indices: 86772915--86772957 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
86772905 TTAGAGCGGA
*
86772915 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
*
86772936 GGCAGCAGCGAGAGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
86772957 G
1 G
86772958 ATAATAGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.51, T:0.00
Consensus pattern (21 bp):
GGCAGCAGAGAGAGAGGCAGC
Found at i:86773181 original size:21 final size:21
Alignment explanation
Indices: 86773156--86773198 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
86773146 TTAGAGCGGA
*
86773156 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
*
86773177 GGCAGCAGCGAGAGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
86773198 G
1 G
86773199 ATAATAGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.51, T:0.00
Consensus pattern (21 bp):
GGCAGCAGAGAGAGAGGCAGC
Found at i:86773289 original size:241 final size:242
Alignment explanation
Indices: 86772838--86773317 Score: 901
Period size: 241 Copynumber: 2.0 Consensus size: 242
86772828 GATAGCTCAA
86772838 ATGCAAGCAAACACGGTTAAGCAAATTACCGAGGTTCAAAGAAAATATGAAGAACTCCAGCAACA
1 ATGCAAGCAAACACGGTTAAGCAAATTACCGAGGTTCAAAGAAAATATGAAGAACTCCAGCAACA
86772903 ACTTAGAGCGGAGGCAGCAGAGAGGGAGGCAGCGGCAGCAGCGAGAGAGGCAGCGATAATAGCGA
66 ACTTAGAGCGGAGGCAGCAGAGAGGGAGGCAGCGGCAGCAGCGAGAGAGGCAGCGATAATAGCGA
86772968 GGGAGGCAGAGCAGAGCAGAAAGTACGATGAGCTTCAGCTACAGCTTCAGCAAATGATGCAGATG
131 GGGAGGCAGAGCAGAGCAGAAAGTACGATGAGCTTCAGCTACAGCTTCAGCAAATGATGCAGATG
86773033 TTTCAGCAGTCGCAAAAGCCGCCATCTTAGACATTAGTTTTCTCCAG
196 TTTCAGCAGTCGCAAAAGCCGCCATCTTAGACATTAGTTTTCTCCAG
* * * *
86773080 ATGCAAGCGAACATGGTTGAGC-AATTGCCGAGGTTCAACA-AAAATATGAAGAACTCCAGCAAC
1 ATGCAAGCAAACACGGTTAAGCAAATTACCGAGGTTCAA-AGAAAATATGAAGAACTCCAGCAAC
86773143 AACTTAGAGCGGAGGCAGCAGAGAGGGAGGCAGCGGCAGCAGCGAGAGAGGCAGCGATAATAGCG
65 AACTTAGAGCGGAGGCAGCAGAGAGGGAGGCAGCGGCAGCAGCGAGAGAGGCAGCGATAATAGCG
86773208 AGGGAGGCAGAGCAGAGCAGAAAGTACGATGAGCTTCAGCTACAGCTTCAGCAAATGATGCAGAT
130 AGGGAGGCAGAGCAGAGCAGAAAGTACGATGAGCTTCAGCTACAGCTTCAGCAAATGATGCAGAT
86773273 GTTTCAGCAGTCGCAAAAGCCGCCATCTTAGACATTAGTTTTCTC
195 GTTTCAGCAGTCGCAAAAGCCGCCATCTTAGACATTAGTTTTCTC
86773318 NNNNNNNNNN
Statistics
Matches: 233, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
241 213 0.91
242 20 0.09
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.16
Consensus pattern (242 bp):
ATGCAAGCAAACACGGTTAAGCAAATTACCGAGGTTCAAAGAAAATATGAAGAACTCCAGCAACA
ACTTAGAGCGGAGGCAGCAGAGAGGGAGGCAGCGGCAGCAGCGAGAGAGGCAGCGATAATAGCGA
GGGAGGCAGAGCAGAGCAGAAAGTACGATGAGCTTCAGCTACAGCTTCAGCAAATGATGCAGATG
TTTCAGCAGTCGCAAAAGCCGCCATCTTAGACATTAGTTTTCTCCAG
Found at i:86774676 original size:21 final size:21
Alignment explanation
Indices: 86774651--86774693 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
86774641 TTAGAGCGGA
*
86774651 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
*
86774672 GGCAGCAGCGAGAGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
86774693 G
1 G
86774694 ATAATAGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.51, T:0.00
Consensus pattern (21 bp):
GGCAGCAGAGAGAGAGGCAGC
Found at i:86776479 original size:39 final size:39
Alignment explanation
Indices: 86776408--86776529 Score: 120
Period size: 40 Copynumber: 3.1 Consensus size: 39
86776398 AGTCCAGTCA
* * *
86776408 CCAGCACA-AACCCTTCGGAACTTTAAGCCCGGATATATTT
1 CCAGCACATAA-CCTGC-GAACCTTAAGTCCGGATATATTT
* **
86776448 CCAGCACGTAACCTGCGAACCTTAAGTCCGGATTATAACT
1 CCAGCACATAACCTGCGAACCTTAAGTCCGGA-TATATTT
* * * *
86776488 CCAGCATATAGCTTGCGGACCTTAAGTCCGGATATATTT
1 CCAGCACATAACCTGCGAACCTTAAGTCCGGATATATTT
86776527 CCA
1 CCA
86776530 AATATCATGC
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
39 22 0.33
40 43 0.64
41 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (39 bp):
CCAGCACATAACCTGCGAACCTTAAGTCCGGATATATTT
Found at i:86778129 original size:21 final size:21
Alignment explanation
Indices: 86778103--86778142 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
86778093 GTTGTAAGCA
86778103 AATTCAATCAAAGGCAAATCG
1 AATTCAATCAAAGGCAAATCG
*
86778124 AATTCAATCAAAGGTAAAT
1 AATTCAATCAAAGGCAAAT
86778143 ACCGTTCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (21 bp):
AATTCAATCAAAGGCAAATCG
Found at i:86783124 original size:39 final size:39
Alignment explanation
Indices: 86783081--86783298 Score: 312
Period size: 39 Copynumber: 5.5 Consensus size: 39
86783071 CTTCTGAACT
** * *
86783081 TTAAG-CCTGGATATATTTCCAGCACGTAACCTGCGAACC
1 TTAAGTCC-GGATATATTTCCAGCATATAGCCTGCGGACC
** *
86783120 TTAAGTCCGGACTATAACTCCAGCATATAGCTTGCGGACC
1 TTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGGACC
86783160 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
86783199 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
** *
86783238 TTAAGTCCGGATTATAACTCCAGCATATAGCCTACGGACC
1 TTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGGACC
86783278 TTAAGTCCGGATATATTTCCA
1 TTAAGTCCGGATATATTTCCA
86783299 AATATCATGC
Statistics
Matches: 161, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
39 91 0.57
40 70 0.43
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (39 bp):
TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
Found at i:86783260 original size:79 final size:78
Alignment explanation
Indices: 86783110--86783298 Score: 297
Period size: 79 Copynumber: 2.4 Consensus size: 78
86783100 CAGCACGTAA
* ** *
86783110 CCTGCGAACCTTAAGTCCGGACTATAACTCCAGCATATAGCTTGCGGACCTTAAGTCCGGATATA
1 CCTGCGGACCTTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGATATA
**
86783175 TTTCCAGCATATAG
65 ACTCCAGCATATAG
86783189 CCTGCGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGATTATA
1 CCTGCGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGA-TATA
86783254 ACTCCAGCATATAG
65 ACTCCAGCATATAG
*
86783268 CCTACGGACCTTAAGTCCGGATATATTTCCA
1 CCTGCGGACCTTAAGTCCGGATATATTTCCA
86783299 AATATCATGC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 36 0.35
79 66 0.65
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (78 bp):
CCTGCGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGATATAA
CTCCAGCATATAG
Found at i:86783289 original size:118 final size:118
Alignment explanation
Indices: 86783081--86783298 Score: 357
Period size: 118 Copynumber: 1.8 Consensus size: 118
86783071 CTTCTGAACT
*
86783081 TTAAGCCTGGATATATTTCCAGCACGTAACCTGCGAACCTTAAGTCCGGACTATAACTCCAGCAT
1 TTAAGCCTGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGGACTATAACTCCAGCAT
* *
86783146 ATAGCTTGCGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
66 ATAGCCTACGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
* * * *
86783199 TTAAGTCC-GGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGATTATAACTCCAGCA
1 TTAAG-CCTGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGGACTATAACTCCAGCA
86783263 TATAGCCTACGGACCTTAAGTCCGGATATATTTCCA
65 TATAGCCTACGGACCTTAAGTCCGGATATATTTCCA
86783299 AATATCATGC
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
118 90 0.98
119 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (118 bp):
TTAAGCCTGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGGACTATAACTCCAGCAT
ATAGCCTACGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
Found at i:86785103 original size:24 final size:25
Alignment explanation
Indices: 86785054--86785106 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
86785044 TAGCTTAGAG
* *
86785054 GAGCTTACCGATTTGCAGCTCGTAT
1 GAGCTTACCGATTTACAGCTCATAT
*
86785079 GAGCTTACCG-TTTACCGCTCATAT
1 GAGCTTACCGATTTACAGCTCATAT
86785103 GAGC
1 GAGC
86785107 ATACATGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTACCGATTTACAGCTCATAT
Found at i:86793294 original size:34 final size:34
Alignment explanation
Indices: 86793251--86793315 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
86793241 TATGGTCTTG
*
86793251 CACATCTTCACATAATGATGCCATATCCCAGTTA
1 CACATCTTCACATAATGATGCCATAGCCCAGTTA
86793285 CACATCTTCACATAATGATGCCATAGCCCAG
1 CACATCTTCACATAATGATGCCATAGCCCAG
86793316 CTATGGTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.32, C:0.31, G:0.11, T:0.26
Consensus pattern (34 bp):
CACATCTTCACATAATGATGCCATAGCCCAGTTA
Found at i:86793329 original size:42 final size:42
Alignment explanation
Indices: 86793282--86793383 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
86793272 CATATCCCAG
*
86793282 TTACACATCTTCACATAAT-GATGCCATAGCCCAGCTATGGTC
1 TTACACATATTCACAT-ATCGATGCCATAGCCCAGCTATGGTC
*
86793324 TTACACATATTCATATATCGATGCCATAGCCCAGCTATGGTC
1 TTACACATATTCACATATCGATGCCATAGCCCAGCTATGGTC
86793366 TTACACGA-A-TCACATATC
1 TTACAC-ATATTCACATATC
86793384 TCACTGATGC
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
41 10 0.18
42 44 0.80
43 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (42 bp):
TTACACATATTCACATATCGATGCCATAGCCCAGCTATGGTC
Found at i:86793331 original size:34 final size:33
Alignment explanation
Indices: 86793255--86793332 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 33
86793245 GTCTTGCACA
* * ***
86793255 TCTTCACATAATGATGCCATATCCCAGTTACACA
1 TCTTCACATAATGATGCCATAGCCCAGCTA-TGG
86793289 TCTTCACATAATGATGCCATAGCCCAGCTATGG
1 TCTTCACATAATGATGCCATAGCCCAGCTATGG
86793322 TCTTACACATA
1 TCTT-CACATA
86793333 TTCATATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (33 bp):
TCTTCACATAATGATGCCATAGCCCAGCTATGG
Found at i:86793445 original size:47 final size:46
Alignment explanation
Indices: 86793342--86793465 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
86793332 ATTCATATAT
* * * * *
86793342 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
86793388 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
86793435 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
86793466 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:86793525 original size:31 final size:31
Alignment explanation
Indices: 86793490--86793636 Score: 222
Period size: 31 Copynumber: 4.7 Consensus size: 31
86793480 CTTGTCACTT
* *
86793490 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
86793521 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
86793552 GTAGCCGGAGCAACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
86793583 GTAGCCGGAGCTACCACTTTTCACTTATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* * *
86793614 GTAGCAGAAGCTATCACTTTTCA
1 GTAGCCGGAGCTACCACTTTTCA
86793637 GTTGTCATTT
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:86793710 original size:50 final size:50
Alignment explanation
Indices: 86793614--86793895 Score: 395
Period size: 50 Copynumber: 5.5 Consensus size: 50
86793604 CACTTATCAG
* * * *
86793614 GTAGCAGAAGCTATCACTTTTCAGTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
86793665 GTAGCCGAAGTTATAACTTATCACTTTCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTGTCCTTGATCAGATAAGT
*
86793715 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTG-----ATCAGATAAGT
* *
86793770 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
86793820 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
86793870 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
86793896 GTTGCCATGG
Statistics
Matches: 207, Mismatches: 17, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
49 3 0.01
50 133 0.64
51 24 0.12
55 47 0.23
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:86793792 original size:105 final size:100
Alignment explanation
Indices: 86793614--86793895 Score: 420
Period size: 105 Copynumber: 2.8 Consensus size: 100
86793604 CACTTATCAG
* * * * * *
86793614 GTAGCAGAAGCTATCACTTTTCAGTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGAAGTTAT
1 GTAGCCGAAGCTATTACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
86793679 AACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
65 CACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
86793715 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAAATCAGATAAGTGTAGCCGAAG
1 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTG-----ATCAGATAAGTGTAGCCGAAG
86793780 CTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
61 CTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
*
86793820 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATC
1 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATC
86793885 ACTTATCACTT
66 ACTTATCACTT
86793896 GTTGCCATGG
Statistics
Matches: 166, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
100 49 0.30
101 22 0.13
105 95 0.57
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (100 bp):
GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATC
ACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
Found at i:86793824 original size:155 final size:156
Alignment explanation
Indices: 86793614--86793895 Score: 469
Period size: 155 Copynumber: 1.8 Consensus size: 156
86793604 CACTTATCAG
* * * *
86793614 GTAGCAGAAGCTATCACTTTTCAGTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGAAGTTAT
1 GTAGCAGAAGCTATCACTTATCACTTGTCACTTGTCATTAATCAGATAAGTGTAGCCGAAGTTAT
*
86793679 AACTTATCACTTTCACTTT-TCCTTGATCAGATAAGTGTAGCCGAAGCTATTACTTATCACTTTC
66 AACTTATCACTTTCA-TTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTC
86793743 ATTTGTCCTTGATCAAATCAGATAAGT
130 ATTTGTCCTTGATCAAATCAGATAAGT
* *
86793770 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTAATCAGATAAGTGTAGCCGAAGTTAT
1 GTAGCAGAAGCTATCACTTATCACTTGTCACTTGTCATTAATCAGATAAGTGTAGCCGAAGTTAT
*
86793834 TACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
66 AACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
86793896 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
154 3 0.03
155 91 0.78
156 23 0.20
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (156 bp):
GTAGCAGAAGCTATCACTTATCACTTGTCACTTGTCATTAATCAGATAAGTGTAGCCGAAGTTAT
AACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCA
TTTGTCCTTGATCAAATCAGATAAGT
Found at i:86796496 original size:22 final size:23
Alignment explanation
Indices: 86796455--86796529 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
86796445 CAACTTATTG
86796455 GAGCTTACCGTTCCAGCTCG-TA
1 GAGCTTACCGTTCCAGCTCGATA
*
86796477 TGAGCTTACTGTT-CAGCTCGATA
1 -GAGCTTACCGTTCCAGCTCGATA
* *
86796500 GAGCTTACCATTTCAGCTC-ATTA
1 GAGCTTACCGTTCCAGCTCGA-TA
86796523 GAGCTTA
1 GAGCTTA
86796530 TTGTTCATCA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
22 18 0.39
23 28 0.61
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (23 bp):
GAGCTTACCGTTCCAGCTCGATA
Found at i:86797367 original size:22 final size:22
Alignment explanation
Indices: 86797342--86797391 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
86797332 TTGAGTTGCA
*
86797342 TAAATGTGGTCAATTATGCTTT
1 TAAATGCGGTCAATTATGCTTT
86797364 TAAATGCGGTCAATTATGCTTT
1 TAAATGCGGTCAATTATGCTTT
86797386 TAAATG
1 TAAATG
86797392 GTTGTGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (22 bp):
TAAATGCGGTCAATTATGCTTT
Found at i:86797792 original size:108 final size:108
Alignment explanation
Indices: 86797599--86797795 Score: 236
Period size: 108 Copynumber: 1.8 Consensus size: 108
86797589 CCCCCTAAAT
* * * *
86797599 GGCACACGACCTAGCACACGGGCGTGTGACTTGGCCGTGTTACATAAGTCAATATACCCTACAAT
1 GGCACACGAACTAGCACACAGGCGTGTGACTTGGCCGTGTGACACAAGTCAATATACCCTACAAT
** *
86797664 TTTGGCACGGCCTGATACACGGGCGTGTGTGGCCATTTTGAAG
66 TTTCACACGGCCTGACACACGGGCGTGTGTGGCCATTTTGAAG
* * * *
86797707 GGCACACGAACTAGACACACAGGCGTGTG-GTTGGCCGTGTGACCCAAGTCAGTAT-CCTCTCCA
1 GGCACACGAACTAG-CACACAGGCGTGTGACTTGGCCGTGTGACACAAGTCAATATACC-CTACA
* * *
86797770 GTTTTCACACGGCTTGGCACACGGGC
64 ATTTTCACACGGCCTGACACACGGGC
86797796 ATGTCCTCGA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
107 2 0.03
108 58 0.79
109 13 0.18
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.22
Consensus pattern (108 bp):
GGCACACGAACTAGCACACAGGCGTGTGACTTGGCCGTGTGACACAAGTCAATATACCCTACAAT
TTTCACACGGCCTGACACACGGGCGTGTGTGGCCATTTTGAAG
Found at i:86798471 original size:43 final size:43
Alignment explanation
Indices: 86798407--86798557 Score: 203
Period size: 43 Copynumber: 3.5 Consensus size: 43
86798397 GCAATTTTTA
* * *
86798407 GTCATGTTCTTTAGCGACGTTTGTGGGGAAAGCGCCGCTAAAG
1 GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
* * *
86798450 GTCATGTTCTATAATGGCGTTTGTGGGGAAAGCACCGCTAAAA
1 GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
* * * *
86798493 GTCATGTTCTTTAACGGCATTTGTGGGAAAAGCGTCGCTAAAG
1 GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
*
86798536 GTCATGTTCTATAACGGAGTTT
1 GTCATGTTCTATAACGGCGTTT
86798558 TTCCACATAA
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
Found at i:86799372 original size:21 final size:21
Alignment explanation
Indices: 86799343--86799383 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
86799333 CAAAAATTAT
86799343 AAAAATAAAA-TAAAATAAATC
1 AAAAATAAAATTAAAA-AAATC
*
86799364 AAAATTAAAATTAAAAAAAT
1 AAAAATAAAATTAAAAAAAT
86799384 ATAAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATAAAATTAAAAAAATC
Found at i:86799648 original size:81 final size:81
Alignment explanation
Indices: 86799493--86799644 Score: 288
Period size: 81 Copynumber: 1.9 Consensus size: 81
86799483 TTTATGTTAA
86799493 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAAATTTTTTT
1 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAAATTTTTTT
*
86799558 TAAAAAAGAAAAAACC
66 AAAAAAAGAAAAAACC
86799574 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTC-AAATTTTTTT
1 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAAATTTTTTT
86799638 AAAAAAA
66 AAAAAAA
86799645 AGAATAAAGC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
80 16 0.23
81 54 0.77
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (81 bp):
CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAAATTTTTTT
AAAAAAAGAAAAAACC
Found at i:86800360 original size:28 final size:28
Alignment explanation
Indices: 86800328--86800383 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
86800318 TTAGGACTCC
86800328 TTAACTCAGAAACACATGTACTAAATTT
1 TTAACTCAGAAACACATGTACTAAATTT
*
86800356 TTAACTCAGAAACACGTGTACTAAATTT
1 TTAACTCAGAAACACATGTACTAAATTT
86800384 AGTGAGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (28 bp):
TTAACTCAGAAACACATGTACTAAATTT
Found at i:86802385 original size:27 final size:25
Alignment explanation
Indices: 86802358--86802411 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
86802348 TTTCTTAAAT
86802358 TTTAAAAATCTTTTTATTTTTTATAAT
1 TTTAAAAA-CTTTTTATTTTTTA-AAT
* *
86802385 TTTAAAGAGTTTTTA-TTTTTAAAT
1 TTTAAAAACTTTTTATTTTTTAAAT
86802409 TTT
1 TTT
86802412 TATGTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 6 0.24
26 6 0.24
27 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTAAAAACTTTTTATTTTTTAAAT
Found at i:86807204 original size:17 final size:17
Alignment explanation
Indices: 86807182--86807224 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
86807172 TTCGGGAGTC
*
86807182 GGTTACGTACGAGGAAG
1 GGTTACGCACGAGGAAG
86807199 GGTTACGCACGAGGAAG
1 GGTTACGCACGAGGAAG
86807216 GGTTA-GCAC
1 GGTTACGCAC
86807225 CCTCGATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.28, C:0.16, G:0.40, T:0.16
Consensus pattern (17 bp):
GGTTACGCACGAGGAAG
Found at i:86807834 original size:23 final size:22
Alignment explanation
Indices: 86807808--86807857 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
86807798 TATATAATGC
86807808 AATAACAATGAAGACAAAAATAA
1 AATAACAATGAA-ACAAAAATAA
* *
86807831 AATAAGAATGAAACAATAATAA
1 AATAACAATGAAACAAAAATAA
86807853 AATAA
1 AATAA
86807858 AATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.16
Consensus pattern (22 bp):
AATAACAATGAAACAAAAATAA
Found at i:86807873 original size:22 final size:22
Alignment explanation
Indices: 86807821--86807873 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
86807811 AACAATGAAG
* *
86807821 ACAAAAATAAAATAAGAATGAA
1 ACAACAATAAAATAAGAATAAA
*
86807843 ACAATAATAAAATAA-AATAAAA
1 ACAACAATAAAATAAGAAT-AAA
*
86807865 ATAACAATA
1 ACAACAATA
86807874 CATTAATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.17
Consensus pattern (22 bp):
ACAACAATAAAATAAGAATAAA
Found at i:86807937 original size:3 final size:3
Alignment explanation
Indices: 86807931--86807960 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
86807921 GATAATAATA
86807931 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
86807961 TAAGTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:86808200 original size:3 final size:3
Alignment explanation
Indices: 86808192--86808301 Score: 95
Period size: 3 Copynumber: 37.7 Consensus size: 3
86808182 AAAGTAAGAG
* * *
86808192 TAA TAA TAA T-A TAT TGA TAA TAA TAA TAA TAA TAA TAA TAA -AA GGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * *
86808239 TAA TAA TAG TAA -AA TAA TAA TAG TGA TAA TAA TATA TCA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
*
86808283 TAA TAG TAA -AA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
86808302 TATTAAATTA
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
2 9 0.11
3 72 0.85
4 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:86808211 original size:29 final size:28
Alignment explanation
Indices: 86808156--86808301 Score: 84
Period size: 29 Copynumber: 5.0 Consensus size: 28
86808146 TAATATTTTA
*
86808156 AATAAGATAATAATAATAGGTTAATAA-
1 AATAAGATAATAATAATAGATTAATAAT
* *
86808183 AAGTAAGAGTAATAATAATATATTGATAAT
1 AA-TAAGA-TAATAATAATAGATTAATAAT
* * **
86808213 AATAATAATAATAATAATAAAAGGAATAAT
1 AATAA-GATAATAATAAT-AGATTAATAAT
*
86808243 AAT-AGTAAAATAATAATAG-TGATAATAAT
1 AATAAG-ATAATAATAATAGAT--TAATAAT
* * *
86808272 ATATCAA-ATAATAATAGTAAAATAATAAT
1 A-AT-AAGATAATAATAATAGATTAATAAT
86808301 A
1 A
86808302 TATTAAATTA
Statistics
Matches: 90, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
27 2 0.02
28 6 0.07
29 56 0.62
30 25 0.28
32 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (28 bp):
AATAAGATAATAATAATAGATTAATAAT
Found at i:86808282 original size:41 final size:41
Alignment explanation
Indices: 86808210--86808301 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
86808200 ATATATTGAT
**
86808210 AATAATAATAATAATAATAATAAAAGGAATAATAATAGTAA
1 AATAATAATAATAATAATAATAAAACAAATAATAATAGTAA
* * * *
86808251 AATAATAATAGTGATAATAATATATCAAATAATAATAGTAA
1 AATAATAATAATAATAATAATAAAACAAATAATAATAGTAA
86808292 AATAATAATA
1 AATAATAATA
86808302 TATTAAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (41 bp):
AATAATAATAATAATAATAATAAAACAAATAATAATAGTAA
Found at i:86822148 original size:51 final size:51
Alignment explanation
Indices: 86822093--86822221 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
86822083 ATGATTTTAA
* * *
86822093 AAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTAATCTTAT
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATACGTAATCTTAG
* ** * *
86822144 AAGATATTATTTTATAAGATTACATATCTTAGATAAGATACGTAATCTTAG
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATACGTAATCTTAG
* *
86822195 GAGATATGATTTTATATTCTTAGAGAT
1 AAGATATGATTTTATAATCTTAGAGAT
86822222 TTGATTGTAG
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (51 bp):
AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATACGTAATCTTAG
Found at i:86822775 original size:134 final size:134
Alignment explanation
Indices: 86822535--86822802 Score: 527
Period size: 134 Copynumber: 2.0 Consensus size: 134
86822525 GTTTTTGGAG
86822535 TAAGAAATTGCTTAAGGCCGCACGGATTGTGAGGCAAGAATCCTAAGTCCATGACAGTTGGTACC
1 TAAGAAATTGCTTAAGGCCGCACGGATTGTGAGGCAAGAATCCTAAGTCCATGACAGTTGGTACC
86822600 AGAGCCAGTTCGAAAGCACTTTTGAGATATGTCGAAAGAAGTTGTTGATCAGAATGAACCAATGG
66 AGAGCCAGTTCGAAAGCACTTTTGAGATATGTCGAAAGAAGTTGTTGATCAGAATGAACCAATGG
86822665 AGAC
131 AGAC
86822669 TAAGAAATTGCTTAAGGCCGCACGGATTGTGAGGCAAGAATCCTAAGTCCATGACAGTTGGTACC
1 TAAGAAATTGCTTAAGGCCGCACGGATTGTGAGGCAAGAATCCTAAGTCCATGACAGTTGGTACC
*
86822734 AGAGCCAGTTCGAAAGCACTTTTGAGATATGTCGAAAGAAGTTGTTGATCAGAATGAGCCAATGG
66 AGAGCCAGTTCGAAAGCACTTTTGAGATATGTCGAAAGAAGTTGTTGATCAGAATGAACCAATGG
86822799 AGAC
131 AGAC
86822803 CCGTGGGAGG
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (134 bp):
TAAGAAATTGCTTAAGGCCGCACGGATTGTGAGGCAAGAATCCTAAGTCCATGACAGTTGGTACC
AGAGCCAGTTCGAAAGCACTTTTGAGATATGTCGAAAGAAGTTGTTGATCAGAATGAACCAATGG
AGAC
Found at i:86827465 original size:51 final size:50
Alignment explanation
Indices: 86827403--86827537 Score: 171
Period size: 51 Copynumber: 2.7 Consensus size: 50
86827393 TAGAAACATG
*
86827403 ATCTTAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* ** * *
86827453 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTA-AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * *
86827504 ATCTTAGGAGATATGATTCTATATTCTTAGAGAT
1 ATCTTA-AAGATATGATTTTATAATCTTAGAGAT
86827538 TTGATTGTAG
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 6 0.09
51 63 0.91
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (50 bp):
ATCTTAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
Found at i:86827507 original size:19 final size:19
Alignment explanation
Indices: 86827434--86827510 Score: 60
Period size: 19 Copynumber: 4.4 Consensus size: 19
86827424 AATCTTAGAG
*
86827434 ATCTTAGATATGATATGTA
1 ATCTTAGATAAGATATGTA
86827453 ATCTT--ATAAGATAT-T-
1 ATCTTAGATAAGATATGTA
* **
86827468 AT-TT-TATAAGAT-TACA
1 ATCTTAGATAAGATATGTA
86827484 TATCTTAGATAAGATATGTA
1 -ATCTTAGATAAGATATGTA
86827504 ATCTTAG
1 ATCTTAG
86827511 GAGATATGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
14 3 0.07
15 9 0.20
16 1 0.02
17 10 0.22
18 2 0.04
19 19 0.41
20 2 0.04
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (19 bp):
ATCTTAGATAAGATATGTA
Found at i:86829596 original size:17 final size:17
Alignment explanation
Indices: 86829552--86829596 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
86829542 ATTAAGTTAT
*
86829552 TATTAAAGTTAAATTAG
1 TATTAAAGTTTAATTAG
86829569 TATTAAAGTTTAATTAG
1 TATTAAAGTTTAATTAG
86829586 TATTAAAGTTT
1 TATTAAAGTTT
86829597 TGTTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (17 bp):
TATTAAAGTTTAATTAG
Found at i:86832701 original size:45 final size:45
Alignment explanation
Indices: 86832652--86832825 Score: 249
Period size: 45 Copynumber: 3.9 Consensus size: 45
86832642 TCGGCCATGG
* * * *
86832652 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGTCAAA
* *
86832697 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGTCAAA
*
86832742 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGTCAAA
* * * *
86832787 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTG
86832826 TCCACCTCTT
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 117 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGTCAAA
Found at i:86835610 original size:185 final size:185
Alignment explanation
Indices: 86835298--86835666 Score: 711
Period size: 185 Copynumber: 2.0 Consensus size: 185
86835288 ACTTAATAGT
*
86835298 GATCTTATTTACCGCGCGACAATCTACGCACATACGCCATGTTCCATCCTTTTTTTGCACCAATA
1 GATCTTATTTACCGCGCGACAATCTACGCACATACGCCATGTTCCATCCTTTTTTGGCACCAATA
86835363 AAATCGATACGGCGCAAGGACTAAGACTTTCTCGTATATATCCCTTCTCCATAAGTTCATTGACT
66 AAATCGATACGGCGCAAGGACTAAGACTTTCTCGTATATATCCCTTCTCCATAAGTTCATTGACT
86835428 TGTTTTTACAATTCTTTGGTCTCTTCGGGATTTGTACGATAAGCTGGTCGATTGA
131 TGTTTTTACAATTCTTTGGTCTCTTCGGGATTTGTACGATAAGCTGGTCGATTGA
86835483 GATCTTATTTACCGCGCGACAATCTACGCACATACGCCATGTTCCATCCTTTTTTGGCACCAATA
1 GATCTTATTTACCGCGCGACAATCTACGCACATACGCCATGTTCCATCCTTTTTTGGCACCAATA
*
86835548 AAATCGGTACGGCGCAAGGACTAAGACTTTCTCGTATATATCCCTTCTCCATAAGTTCATTGACT
66 AAATCGATACGGCGCAAGGACTAAGACTTTCTCGTATATATCCCTTCTCCATAAGTTCATTGACT
*
86835613 TGTTTTTGCAATTCTTTGGTCTCTTCGGGATTTGTACGATAAGCTGGTCGATTG
131 TGTTTTTACAATTCTTTGGTCTCTTCGGGATTTGTACGATAAGCTGGTCGATTG
86835667 GGAATGGAGG
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
185 181 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (185 bp):
GATCTTATTTACCGCGCGACAATCTACGCACATACGCCATGTTCCATCCTTTTTTGGCACCAATA
AAATCGATACGGCGCAAGGACTAAGACTTTCTCGTATATATCCCTTCTCCATAAGTTCATTGACT
TGTTTTTACAATTCTTTGGTCTCTTCGGGATTTGTACGATAAGCTGGTCGATTGA
Found at i:86836334 original size:45 final size:45
Alignment explanation
Indices: 86836277--86836398 Score: 199
Period size: 45 Copynumber: 2.7 Consensus size: 45
86836267 AAAACTTGCT
86836277 TCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCC
1 TCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCC
86836322 TCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCC
1 TCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCC
* * * **
86836367 TTAATTTGTTCCACAAATTATGCATGATGTTG
1 TCAAATTCTTCCATGAATTATGCATGATGTTG
86836399 TCCACCTCTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (45 bp):
TCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCC
Found at i:86842795 original size:34 final size:34
Alignment explanation
Indices: 86842757--86842825 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
86842747 ACATGTATGT
*
86842757 ATTATACTTTATACACATGTAATTAATGTTTACC
1 ATTATACTTTATACACATGTAATAAATGTTTACC
86842791 ATTATACTTTATACACATGTAATAAATGTTTACC
1 ATTATACTTTATACACATGTAATAAATGTTTACC
86842825 A
1 A
86842826 CACATTTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (34 bp):
ATTATACTTTATACACATGTAATAAATGTTTACC
Found at i:86851822 original size:26 final size:26
Alignment explanation
Indices: 86851792--86851845 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
86851782 GTGATGAATC
86851792 TGAGCATGTCGAATATTTGAGAATAG
1 TGAGCATGTCGAATATTTGAGAATAG
86851818 TGAGCATGTCGAATATTTGAGAATAG
1 TGAGCATGTCGAATATTTGAGAATAG
86851844 TG
1 TG
86851846 CTACAGACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (26 bp):
TGAGCATGTCGAATATTTGAGAATAG
Found at i:86860231 original size:17 final size:18
Alignment explanation
Indices: 86860210--86860273 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
86860200 ACCCTAATTT
86860210 TTCCCTTTTCTTTTTCT-
1 TTCCCTTTTCTTTTTCTA
*
86860227 TTCCCTTTCCTTCTTTCCTA
1 TTCCCTTTTCTT-TTT-CTA
* * *
86860247 TTCCCTTTTCATTCTCTG
1 TTCCCTTTTCTTTTTCTA
86860265 TTCCCTTTT
1 TTCCCTTTT
86860274 TCTATTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 11 0.28
18 14 0.36
19 4 0.10
20 10 0.26
ACGTcount: A:0.03, C:0.34, G:0.02, T:0.61
Consensus pattern (18 bp):
TTCCCTTTTCTTTTTCTA
Found at i:86860250 original size:20 final size:17
Alignment explanation
Indices: 86860209--86860254 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 17
86860199 AACCCTAATT
*
86860209 TTTCCCTTTTCTTTTTC
1 TTTCCCTTTCCTTTTTC
86860226 TTTCCCTTTCCTTCTTTCC
1 TTTCCCTTTCCTT-TTT-C
86860245 TATTCCCTTT
1 T-TTCCCTTT
86860255 TCATTCTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 12 0.48
18 3 0.12
19 2 0.08
20 8 0.32
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTCCCTTTCCTTTTTC
Found at i:86860320 original size:5 final size:5
Alignment explanation
Indices: 86860312--86860341 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
86860302 TTACTTTAAC
86860312 TATTA TATTA TATTA TATTA TTATTA TATT
1 TATTA TATTA TATTA TATTA -TATTA TATT
86860342 TTAGTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATTA
Found at i:86864575 original size:51 final size:51
Alignment explanation
Indices: 86864516--86864619 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
86864506 CTTATGCAAC
* * * *
86864516 ACAGTCAAGTCAAACGCTCGTGTGCTAGGCCGTGTGCCAATTAGGGGATAT
1 ACAGTCAAGTCAAACGCCCATGTGCTAAGCCGTGTGCCAACTAGGGGATAT
*
86864567 ACAGTCAAGTCAAACGCCCATGTGCTAAGCCGTGTGCCAACTAGGGGGTAT
1 ACAGTCAAGTCAAACGCCCATGTGCTAAGCCGTGTGCCAACTAGGGGATAT
86864618 AC
1 AC
86864620 TGACTTGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (51 bp):
ACAGTCAAGTCAAACGCCCATGTGCTAAGCCGTGTGCCAACTAGGGGATAT
Found at i:86866407 original size:40 final size:40
Alignment explanation
Indices: 86866352--86866463 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
86866342 TATTCGGATG
86866352 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
* * *
86866392 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
* ** *
86866432 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGC
1 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
86866464 GGGTTATTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 62 0.98
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
Found at i:86866470 original size:40 final size:40
Alignment explanation
Indices: 86866368--86866508 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
86866358 GGACTAAGAT
* * * * * **
86866368 CCGAAGGCATTTGTGCTAGTCACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAG-TC
*
86866408 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTGGTTATTATAACCGGGTTAAGTC
* *
86866448 CCGAAGGCATTCGTGCGGGTTATTATAATCGGGTTAAGTC
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
*
86866488 CCAAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCTGGTT
86866509 GTTACATCCG
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
39 4 0.05
40 81 0.92
41 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
Found at i:86879137 original size:21 final size:22
Alignment explanation
Indices: 86879111--86879157 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
86879101 CTCTGCTCAA
*
86879111 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
86879132 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
86879154 ACTC
1 ACTC
86879158 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:86886227 original size:28 final size:26
Alignment explanation
Indices: 86886173--86886233 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
86886163 AAATTGATAA
*
86886173 TTTTTATTTTTATAAATTAATAATTT
1 TTTTTATTTTTATAAAATAATAATTT
*
86886199 TTTTTACTATTTTATAAAAT-ATTATTT
1 TTTTTA-T-TTTTATAAAATAATAATTT
*
86886226 TTTATATT
1 TTTTTATT
86886234 AAAAACAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 12 0.40
28 10 0.33
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTTATTTTTATAAAATAATAATTT
Found at i:86886233 original size:24 final size:26
Alignment explanation
Indices: 86886173--86886233 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
86886163 AAATTGATAA
86886173 TTTTTAT-TTTTATAAATTAATAATTT
1 TTTTTATATTTTATAAA-TAATAATTT
86886199 TTTTTACTATTTTAT-AA-AAT-ATTAT
1 TTTTTA-TATTTTATAAATAATAATT-T
86886224 TTTTTATATT
1 TTTTTATATT
86886234 AAAAACAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
24 7 0.22
25 10 0.31
26 6 0.19
27 3 0.09
28 6 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTTATATTTTATAAATAATAATTT
Found at i:86887185 original size:8 final size:8
Alignment explanation
Indices: 86887174--86887267 Score: 55
Period size: 8 Copynumber: 10.8 Consensus size: 8
86887164 TTAAATTTTA
86887174 ATAAAAAT
1 ATAAAAAT
86887182 ATAAAAAT
1 ATAAAAAT
*
86887190 ATTTAAAAT
1 A-TAAAAAT
*
86887199 -TAAAATT
1 ATAAAAAT
* *
86887206 AGAAAAAAA
1 A-TAAAAAT
86887215 ATAAAAAT
1 ATAAAAAT
86887223 AGTAAAAAAAT
1 A-T--AAAAAT
86887234 ATAAAAAAATT
1 AT--AAAAA-T
*
86887245 ATCAAATAT
1 AT-AAAAAT
86887254 ATAAAAAT
1 ATAAAAAT
86887262 ATAAAA
1 ATAAAA
86887268 TTTTATAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
7 5 0.07
8 26 0.38
9 15 0.22
10 12 0.18
11 10 0.15
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (8 bp):
ATAAAAAT
Found at i:86887196 original size:18 final size:18
Alignment explanation
Indices: 86887175--86887263 Score: 58
Period size: 19 Copynumber: 4.9 Consensus size: 18
86887165 TAAATTTTAA
86887175 TAAAAATATAAAAATATT
1 TAAAAATATAAAAATATT
* *
86887193 T-AAAAT-TAAAATTA-G
1 TAAAAATATAAAAATATT
* * *
86887208 AAAAAAAATAAAAATAGTA
1 TAAAAATATAAAAATA-TT
* *
86887227 AAAAAATATAAAAAAATT
1 TAAAAATATAAAAATATT
*
86887245 ATCAAATATATAAAAATAT
1 -T-AAAAATATAAAAATAT
86887264 AAAATTTTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
16 11 0.21
17 12 0.23
18 2 0.04
19 14 0.26
20 14 0.26
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAAATATAAAAATATT
Found at i:86887214 original size:17 final size:18
Alignment explanation
Indices: 86887194--86887240 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
86887184 AAAAATATTT
*
86887194 AAAATTAAAATTAG-AAA
1 AAAATTAAAAATAGTAAA
*
86887211 AAAAATAAAAATAGTAAA
1 AAAATTAAAAATAGTAAA
86887229 AAAATATAAAAA
1 AAAAT-TAAAAA
86887241 AATTATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 12 0.48
18 7 0.28
19 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (18 bp):
AAAATTAAAAATAGTAAA
Found at i:86887231 original size:11 final size:10
Alignment explanation
Indices: 86887217--86887267 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
86887207 GAAAAAAAAT
86887217 AAAAATAGTAA
1 AAAAATA-TAA
86887228 AAAAATATAA
1 AAAAATATAA
86887238 AAAAAT-T-A
1 AAAAATATAA
** *
86887246 TCAAATATAT
1 AAAAATATAA
86887256 AAAAATATAA
1 AAAAATATAA
86887266 AA
1 AA
86887268 TTTTATAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
8 5 0.16
9 2 0.06
10 18 0.56
11 7 0.22
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
AAAAATATAA
Found at i:86887278 original size:10 final size:10
Alignment explanation
Indices: 86887261--86887286 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
86887251 TATATAAAAA
86887261 TATAAAATTT
1 TATAAAATTT
86887271 TATAAAATTT
1 TATAAAATTT
86887281 TATAAA
1 TATAAA
86887287 GTCGTAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TATAAAATTT
Found at i:86888064 original size:40 final size:40
Alignment explanation
Indices: 86887981--86888064 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
86887971 AAATAGATTC
*
86887981 AAAACAAATATTAAAACAAGAAACAAATAAAAATGATACT
1 AAAACAAATATTAAAACAAGAAACAAATAAAAATGATAAT
* * * * *
86888021 AAAACAATTCTTAAAACAATACACAAATTGAAAAT-ATAAT
1 AAAACAAATATTAAAACAAGAAACAAA-TAAAAATGATAAT
86888061 AAAA
1 AAAA
86888065 AGTGATTGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
40 31 0.84
41 6 0.16
ACGTcount: A:0.65, C:0.11, G:0.04, T:0.20
Consensus pattern (40 bp):
AAAACAAATATTAAAACAAGAAACAAATAAAAATGATAAT
Found at i:86889787 original size:13 final size:14
Alignment explanation
Indices: 86889771--86889799 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
86889761 ATTAAATATT
86889771 AAAAA-TATTTAAA
1 AAAAAGTATTTAAA
86889784 AAAAAGTATTTAAA
1 AAAAAGTATTTAAA
86889798 AA
1 AA
86889800 TCTAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAAAGTATTTAAA
Found at i:86897045 original size:40 final size:39
Alignment explanation
Indices: 86896966--86897053 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
86896956 ATAACTTATT
* * *
86896966 ATTTTTAACCTTTCACTTATAAATATTATAACATTATAA
1 ATTTTCAACCTTTCACTTATAAATATTAGAACATAATAA
* * * *
86897005 AGTTTTCAACTTTTCATTTATAATTATTAGAATATAATAA
1 A-TTTTCAACCTTTCACTTATAAATATTAGAACATAATAA
86897045 ATATTTCAA
1 AT-TTTCAA
86897054 AAATATTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (39 bp):
ATTTTCAACCTTTCACTTATAAATATTAGAACATAATAA
Found at i:86897439 original size:43 final size:45
Alignment explanation
Indices: 86897366--86897449 Score: 118
Period size: 43 Copynumber: 1.9 Consensus size: 45
86897356 TTTTTTTCTA
* * *
86897366 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC-TTTTACCG
1 AAAAACGCCACTAAAAACCAGGACATTTAGCGGCGCATTTTACCG
*
86897410 AAAAA-GCCACTAAAAACCATGACATTTAGCGGCGCATTTT
1 AAAAACGCCACTAAAAACCAGGACATTTAGCGGCGCATTTT
86897450 TTCAAGACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 26 0.74
44 9 0.26
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (45 bp):
AAAAACGCCACTAAAAACCAGGACATTTAGCGGCGCATTTTACCG
Found at i:86901601 original size:9 final size:9
Alignment explanation
Indices: 86901589--86901621 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
86901579 TTAATTTTAA
86901589 ATTTTTTTC
1 ATTTTTTTC
*
86901598 ATTTTTTAC
1 ATTTTTTTC
86901607 ATTTTTTT-
1 ATTTTTTTC
86901615 ATTTTTT
1 ATTTTTT
86901622 CTTCCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:86901604 original size:18 final size:17
Alignment explanation
Indices: 86901583--86901621 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
86901573 TTTTATTTAA
86901583 TTTTAAATTTTTTTCATT
1 TTTTAAATTTTTTT-ATT
*
86901601 TTTTACATTTTTTTATT
1 TTTTAAATTTTTTTATT
86901618 TTTT
1 TTTT
86901622 CTTCCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTAAATTTTTTTATT
Found at i:86901721 original size:6 final size:7
Alignment explanation
Indices: 86901709--86901752 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
86901699 TAAAAACTAA
86901709 AATTTTT
1 AATTTTT
86901716 AATTTTT
1 AATTTTT
86901723 AATTTTTTT
1 AA--TTTTT
*
86901732 ATTTTTT
1 AATTTTT
86901739 AATTTTT
1 AATTTTT
86901746 AATTTTT
1 AATTTTT
86901753 TTAAAGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 27 0.82
9 6 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
AATTTTT
Found at i:86901739 original size:23 final size:23
Alignment explanation
Indices: 86901711--86901755 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
86901701 AAAACTAAAA
86901711 TTTTTAATTTTTAATTTTTTTAT
1 TTTTTAATTTTTAATTTTTTTAT
86901734 TTTTTAATTTTTAATTTTTTTA
1 TTTTTAATTTTTAATTTTTTTA
86901756 AAGATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTAATTTTTAATTTTTTTAT
Found at i:86901778 original size:8 final size:8
Alignment explanation
Indices: 86901708--86901778 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 8
86901698 ATAAAAACTA
86901708 AAATTTTT
1 AAATTTTT
86901716 -AATTTTT
1 AAATTTTT
86901723 -AATTTTT
1 AAATTTTT
**
86901730 TTATTTTT
1 AAATTTTT
*
86901738 TAATTTTT
1 AAATTTTT
*
86901746 AATTTTTTT
1 AA-ATTTTT
86901755 AAAGATTTTT
1 -AA-ATTTTT
86901765 ATAATTTTT
1 A-AATTTTT
86901774 AAATT
1 AAATT
86901779 AACATATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
7 14 0.26
8 18 0.34
9 13 0.25
10 8 0.15
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (8 bp):
AAATTTTT
Found at i:86902948 original size:40 final size:41
Alignment explanation
Indices: 86902879--86902978 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 41
86902869 AATCTTTTAG
* *
86902879 CGCCGCTAATGCTCAGATCTTTAGTGGCGCTTTCTTAAGAA
1 CGCCGCTAATGCTCAGATCTTTAGCGGCGCTTTCTTAAAAA
*
86902920 CGCCGCTAATGCT-TGATCTTTAGCGGCGCTTTCTTAAAAA
1 CGCCGCTAATGCTCAGATCTTTAGCGGCGCTTTCTTAAAAA
*
86902960 CGCCGCTAATACTCA-ATCT
1 CGCCGCTAATGCTCAGATCT
86902979 ATTCGATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 40 0.75
41 13 0.25
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (41 bp):
CGCCGCTAATGCTCAGATCTTTAGCGGCGCTTTCTTAAAAA
Found at i:86903860 original size:38 final size:40
Alignment explanation
Indices: 86903809--86903887 Score: 135
Period size: 38 Copynumber: 2.0 Consensus size: 40
86903799 CAGGGATTAG
86903809 CTTTACTTAAAAGTTAAAAGAAAGATAATCACATGCCCTA
1 CTTTACTTAAAAGTTAAAAGAAAGATAATCACATGCCCTA
*
86903849 CTTTA-TT-AAAGTTAAAAGAAAGATAATCACATTCCCTA
1 CTTTACTTAAAAGTTAAAAGAAAGATAATCACATGCCCTA
86903887 C
1 C
86903888 GTGTAACAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 31 0.82
39 2 0.05
40 5 0.13
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (40 bp):
CTTTACTTAAAAGTTAAAAGAAAGATAATCACATGCCCTA
Found at i:86910379 original size:9 final size:9
Alignment explanation
Indices: 86910365--86910395 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
86910355 AAATTTTGTT
86910365 TTATTATTC
1 TTATTATTC
86910374 TTATTATTC
1 TTATTATTC
*
86910383 TTATTATTA
1 TTATTATTC
86910392 TTAT
1 TTAT
86910396 ATTAGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATTATTC
Found at i:86910909 original size:22 final size:22
Alignment explanation
Indices: 86910867--86910909 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
86910857 TATATATTTT
*
86910867 ATAAAAGAAATAAAGATGAAAC
1 ATAAAAGAAATAAAGAAGAAAC
86910889 ATAAAAGAAA-AAAGAAAGAAA
1 ATAAAAGAAATAAAG-AAGAAA
86910910 GTTACAGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.09
Consensus pattern (22 bp):
ATAAAAGAAATAAAGAAGAAAC
Found at i:86911709 original size:6 final size:6
Alignment explanation
Indices: 86911693--86911749 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
86911683 GGAAAAGTGT
* * * * *
86911693 AATTGA TATTGA AATTGA AATTGT TA-TGA AAATGA AAATGA AATTGA
1 AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA
86911740 GAATTGA AAT
1 -AATTGA AAT
86911750 ACCCTATTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 3 0.07
6 33 0.79
7 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (6 bp):
AATTGA
Found at i:86911714 original size:18 final size:18
Alignment explanation
Indices: 86911693--86911749 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
86911683 GGAAAAGTGT
86911693 AATTGATATTGAAATTGA
1 AATTGATATTGAAATTGA
* *
86911711 AATTGTTA-TGAAAATGA
1 AATTGATATTGAAATTGA
* *
86911728 AAATGAAATTGAGAATTGA
1 AATTGATATTGA-AATTGA
86911747 AAT
1 AAT
86911750 ACCCTATTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 13 0.43
18 10 0.33
19 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (18 bp):
AATTGATATTGAAATTGA
Found at i:86911881 original size:21 final size:20
Alignment explanation
Indices: 86911855--86911919 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 20
86911845 ATGTATCATA
*
86911855 TATCAGGCACTTTATGCGTCG
1 TATCAGGCAC-TTATGTGTCG
*
86911876 TATCAGGCACCTAGTGTGTCG
1 TATCAGGCACTTA-TGTGTCG
*
86911897 TCTCAGGCACTTATGTGTCG
1 TATCAGGCACTTATGTGTCG
86911917 TAT
1 TAT
86911920 ACTGATCAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
20 11 0.29
21 27 0.71
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (20 bp):
TATCAGGCACTTATGTGTCG
Found at i:86916345 original size:13 final size:14
Alignment explanation
Indices: 86916329--86916357 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
86916319 ATTAAATATT
86916329 AAAAA-TATTTAAA
1 AAAAAGTATTTAAA
86916342 AAAAAGTATTTAAA
1 AAAAAGTATTTAAA
86916356 AA
1 AA
86916358 TCTAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAAAGTATTTAAA
Found at i:86921459 original size:16 final size:17
Alignment explanation
Indices: 86921437--86921472 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
86921427 GATAAGTAGT
*
86921437 TTTTTTTAATTGCTTTA
1 TTTTTTAAATTGCTTTA
86921454 TTTTTTAAAATTGCTTTA
1 TTTTTT-AAATTGCTTTA
86921472 T
1 T
86921473 GCTATTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTTTAAATTGCTTTA
Found at i:86928819 original size:6 final size:6
Alignment explanation
Indices: 86928808--86928838 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
86928798 TTTGCAACCC
*
86928808 AAGGGG AAGGGG AAGGGG AAGGGG ACGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG A
86928839 GAAAGAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.03, G:0.65, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:86929600 original size:13 final size:13
Alignment explanation
Indices: 86929584--86929608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86929574 TAAATTGTTT
86929584 TATTCAATTTTAC
1 TATTCAATTTTAC
86929597 TATTCAATTTTA
1 TATTCAATTTTA
86929609 ATTTGAAAGA
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:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTCAATTTTAC
Found at i:86932567 original size:27 final size:27
Alignment explanation
Indices: 86932529--86932580 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
86932519 AAAATAAGGG
*
86932529 TGGAGGGTACCCCACAGGTGGCACCGA
1 TGGAGGGTACCCCACAGGCGGCACCGA
*
86932556 TGGAGGGTACCCCATAGGCGGCACC
1 TGGAGGGTACCCCACAGGCGGCACC
86932581 AATCATTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.31, G:0.37, T:0.12
Consensus pattern (27 bp):
TGGAGGGTACCCCACAGGCGGCACCGA
Found at i:86932712 original size:3 final size:3
Alignment explanation
Indices: 86932706--86932747 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
86932696 AGGGGGAAAG
* *
86932706 AGA AGA AAA AG- AGT AGA A-A AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
86932748 GAGGAGGAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:86932794 original size:6 final size:6
Alignment explanation
Indices: 86932783--86932813 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
86932773 TGAGGGAAGA
*
86932783 AAAAAG AAAAAG AAAAAG AGAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
86932814 GAAGGAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:86932808 original size:18 final size:18
Alignment explanation
Indices: 86932785--86932831 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
86932775 AGGGAAGAAA
86932785 AAAGAAAAAGAAAAAGAG
1 AAAGAAAAAGAAAAAGAG
* *
86932803 AAAGAAAAAGAGAAGGAG
1 AAAGAAAAAGAAAAAGAG
*
86932821 -AAGAAGAAGAA
1 AAAGAAAAAGAA
86932832 GAGGGAGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAAAAAGAG
Found at i:86932814 original size:12 final size:12
Alignment explanation
Indices: 86932783--86932816 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
86932773 TGAGGGAAGA
*
86932783 AAAAAGAAAAAG
1 AAAAAGAGAAAG
86932795 AAAAAGAGAAAG
1 AAAAAGAGAAAG
86932807 AAAAAGAGAA
1 AAAAAGAGAA
86932817 GGAGAAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:86932918 original size:27 final size:27
Alignment explanation
Indices: 86932865--86932920 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
86932855 AATATTCTTT
*
86932865 TTTAAGGAAATAATTTTTAATTGTTAA
1 TTTAAGGAAATAATTTTTAATTATTAA
86932892 TTTAAGGAAATAAATTATTT-A-TATTAA
1 TTTAAGGAAAT-AATT-TTTAATTATTAA
86932919 TT
1 TT
86932921 GTTAATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 18 0.69
28 5 0.19
29 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (27 bp):
TTTAAGGAAATAATTTTTAATTATTAA
Found at i:86933263 original size:13 final size:13
Alignment explanation
Indices: 86933247--86933278 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
86933237 AAAGAATAGC
*
86933247 TTAATAGTATATT
1 TTAAAAGTATATT
86933260 TTAAAAGTATATT
1 TTAAAAGTATATT
86933273 TTAAAA
1 TTAAAA
86933279 AATCCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (13 bp):
TTAAAAGTATATT
Found at i:86934091 original size:50 final size:50
Alignment explanation
Indices: 86934037--86934256 Score: 134
Period size: 50 Copynumber: 4.4 Consensus size: 50
86934027 CAAAGTTTTT
86934037 TACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATG
1 TACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATG
* * * * *
86934087 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAA-A--A-G
1 TACTAAATTAATAT---AAA-AAAATACAAAAATAATACATTTGAAACATTATG
* * * * * ***** * *
86934137 -A-AAAATCTGA-A-AATAAAATAAAAAAACAA-ACGGCCAAAATCAAAGTTTTT
1 TACTAAAT-TAATATAAAAAAATACAAAAATAATACATTTGAAA-C--A-TTATG
86934187 TACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATG
1 TACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATG
*
86934237 TACTAAAATAATATAAAAAA
1 TACTAAATTAATATAAAAAA
86934257 TAAAATACGA
Statistics
Matches: 118, Mismatches: 34, Indels: 36
0.63 0.18 0.19
Matches are distributed among these distances:
42 4 0.03
43 11 0.09
44 2 0.02
46 1 0.01
48 4 0.03
49 3 0.03
50 36 0.31
51 5 0.04
52 5 0.04
53 20 0.17
54 27 0.23
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.27
Consensus pattern (50 bp):
TACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATG
Found at i:86934104 original size:150 final size:148
Alignment explanation
Indices: 86933462--86934308 Score: 1239
Period size: 150 Copynumber: 5.8 Consensus size: 148
86933452 AAAATCAAAG
* *
86933462 ATTAATAT-AAAAAACTAAAATAATATATTTGAAACATTATGTACTAAAATGATATAAAAAAATA
1 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
* * *
86933526 AAATAAGATAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAT----AAAAAACGGCAAAA
66 AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAAAAAACGGCCAAA
* *
86933587 ATCACAA-ATTTGTACTAA
131 ATCA-AAGTTTTTTACTAA
*
86933605 ATTAATAT-AAAAAACTAAAATAATACA--TGAAATATTATGTACTAAAATAATATAAAAAAATA
1 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
* *
86933667 AAATATGAAAATAGTATATTTTAAAAAATAAAATCC----A-AAAATAAAAATAAAAAGGGCCAA
66 AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAA-AAAAACGGCCAA
* *
86933727 AATCAGAGTTTTCTTTCTAA
130 AATCAAAGTTTT-TTACTAA
*
86933747 ATTAATATAAAAAAATTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
1 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
* * * *
86933812 AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAGAATAAAATAAAAAATAAATGGCAAAA
66 AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAAAAAACGGCCAAA
*
86933877 ATCAGAGTTTTTTACTAA
131 ATCAAAGTTTTTTACTAA
*
86933895 ATTAATATAAAAAAACTAAAATAATACATATGAAACATTATGTACTAAAATAATAT-AAAAAATA
1 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
*
86933959 AAATACGAAAATAGTATATTTTAAAAAGA-AAAATCTGAAAATAAAATAAAAAAACAAACGGCCA
66 AAATACGAAAATAGTATATTTTAAAAA-ATAAAATCCGAAAATAAAATAAAAAAA-AAACGGCCA
86934023 AAATCAAAGTTTTTTACTAA
129 AAATCAAAGTTTTTTACTAA
*
86934043 ATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAA
1 ATTAATAT-AAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAA
*
86934107 TAAAATACGAAAATAGTATATTTTAAAAAGA-AAAATCTGAAAATAAAATAAAAAAACAAACGGC
64 TAAAATACGAAAATAGTATATTTTAAAAA-ATAAAATCCGAAAATAAAATAAAAAAA-AAACGGC
86934171 CAAAATCAAAGTTTTTTACTAA
127 CAAAATCAAAGTTTTTTACTAA
*
86934193 ATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAA
1 ATTAATAT-AAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAA
86934257 TAAAATACGAAAATAGTATATTTTAAAAAGA-AAAATCCGAAAATAAAATAAA
64 TAAAATACGAAAATAGTATATTTTAAAAA-ATAAAATCCGAAAATAAAATAAA
86934309 TACCAAAATA
Statistics
Matches: 656, Mismatches: 29, Indels: 31
0.92 0.04 0.04
Matches are distributed among these distances:
136 5 0.01
137 1 0.00
140 2 0.00
141 85 0.13
142 13 0.02
143 44 0.07
145 69 0.11
147 57 0.09
148 95 0.14
149 28 0.04
150 257 0.39
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.27
Consensus pattern (148 bp):
ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAAAAAACGGCCAAA
ATCAAAGTTTTTTACTAA
Found at i:86934399 original size:300 final size:296
Alignment explanation
Indices: 86933277--86934308 Score: 1253
Period size: 300 Copynumber: 3.6 Consensus size: 296
86933267 TATATTTTAA
* * * *
86933277 AAAATCCAAAAATAAAAT--AAAA-AAA-TGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAATAAAAAACAAACGGCAAAAATCAAAGTTTTTTACTAAATTAATATAAA
* * * *
86933338 TATACTAAAATAATACATATGAAACATCATGTACTAAAATAATAT-AAAAATAAAATACGAAAAT
66 AAAACAAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
* * * *
86933402 AGTATATTTTGAAAAA-TAAAATTCGAAAATAAAAT-AAAAAATAAAC-ATCCAAAATCAAAG--
131 AGTATATTTT-AAAAAGAAAAATCCGAAAATAAAATAAAAAAACAAACGA-ACAAAATCAAAGTA
* * *
86933462 ---------ATTAATAT--AAAAA-ACTAAAATAATATATTTGAAACATTATGTACTAAAATGAT
194 TATTACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTAC-AAAATAAT
* *
86933515 ATAAAAAAATAAAATAAGATAATAGTATATTTTAAAAAAT
258 AT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAAT
* *
86933555 AAAATCCGAAAATAAAAT---AAA-AAACGGCAAAAATCACAA-ATTTGTACTAAATTAATAT-A
1 AAAATCCGAAAATAAAATAAAAAACAAACGGCAAAAATCA-AAGTTTTTTACTAAATTAATATAA
* * *
86933614 AAAAACTAAAATAATAC--ATGAAATATTATGTACTAAAATAATATAAAAAAATAAAATATGAAA
65 AAAAACAAAAATAATACATATGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAA
* ** *
86933677 ATAGTATATTTTAAAAA-ATAAAATCC----A-AAAATAAAAATAA-AAAGGGCCAAAATCAGAG
129 ATAGTATATTTTAAAAAGA-AAAATCCGAAAATAAAATAAAAA-AACAAACGAACAAAATCAAAG
* * * *
86933735 TTTTCTTTCTAAATTAATATAAAAAAAT--TAAAATAATACATTTGAAACATTATGTACTAAAAT
192 -TATATTACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTAC-AAAAT
86933798 AATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAT
255 AATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAAT
* * * *
86933841 AAAATCCGAGAATAAAATAAAAAATAAATGGCAAAAATCAGAGTTTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAATAAAAAACAAACGGCAAAAATCAAAGTTTTTTACTAAATTAATATAAA
*
86933906 AAAACTAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
66 AAAACAAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
* ** * *
86933971 AGTATATTTTAAAAAGAAAAATCTGAAAATAAAATAAAAAAACAAACGGCCAAAATCAAAGTTTT
131 AGTATATTTTAAAAAGAAAAATCCGAAAATAAAATAAAAAAACAAACGAACAAAATCAAAGTATA
86934036 TTACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
196 TTACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTAC-AAAATAATAT
86934101 AAAAAATAAAATACGAAAATAGTATATTTTAAAAAGA-
260 AAAAAATAAAATACGAAAATAGTATATTTTAAAAA-AT
* *
86934138 AAAATCTGAAAATAAAATAAAAAAACAAACGGCCAAAATCAAAGTTTTTTACTAAATTAATATAA
1 AAAATCCGAAAATAAAAT-AAAAAACAAACGGCAAAAATCAAAGTTTTTTACTAAATTAATAT-A
*
86934203 AAAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAA
64 AAAAA-ACAAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAA
86934268 AATAGTATATTTTAAAAAGAAAAATCCGAAAATAAAATAAA
128 AATAGTATATTTTAAAAAGAAAAATCCGAAAATAAAATAAA
86934309 TACCAAAATA
Statistics
Matches: 668, Mismatches: 42, Indels: 66
0.86 0.05 0.09
Matches are distributed among these distances:
272 5 0.01
273 19 0.03
274 2 0.00
275 25 0.04
276 5 0.01
277 56 0.08
278 43 0.06
279 1 0.00
285 8 0.01
286 91 0.14
287 5 0.01
289 4 0.01
290 31 0.05
291 18 0.03
292 40 0.06
293 27 0.04
296 28 0.04
297 77 0.12
298 80 0.12
299 6 0.01
300 97 0.15
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.27
Consensus pattern (296 bp):
AAAATCCGAAAATAAAATAAAAAACAAACGGCAAAAATCAAAGTTTTTTACTAAATTAATATAAA
AAAACAAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
AGTATATTTTAAAAAGAAAAATCCGAAAATAAAATAAAAAAACAAACGAACAAAATCAAAGTATA
TTACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTACAAAATAATATA
AAAAATAAAATACGAAAATAGTATATTTTAAAAAAT
Found at i:86946142 original size:25 final size:25
Alignment explanation
Indices: 86946114--86946171 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
86946104 TCATAGCTCA
* *
86946114 TGTGAGCAATTATAGTTACAGCTTG
1 TGTGAGCAATTACAGTAACAGCTTG
*
86946139 TGTGAGCATTTACAGTAACAGCTTG
1 TGTGAGCAATTACAGTAACAGCTTG
*
86946164 TGTAAGCA
1 TGTGAGCA
86946172 TTGTTCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (25 bp):
TGTGAGCAATTACAGTAACAGCTTG
Found at i:86946329 original size:27 final size:28
Alignment explanation
Indices: 86946298--86946370 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 28
86946288 GTAGATATAC
86946298 AAAATGGTTATATGAATATG-TTATATG
1 AAAATGGTTATATGAATATGTTTATATG
* * * *
86946325 GAAATAGTTATATTAA-GTGTTTATATG
1 AAAATGGTTATATGAATATGTTTATATG
* *
86946352 AAAATGTTTATATGGATAT
1 AAAATGGTTATATGAATAT
86946371 ATATGTAAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
26 2 0.06
27 31 0.91
28 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (28 bp):
AAAATGGTTATATGAATATGTTTATATG
Found at i:86946361 original size:14 final size:13
Alignment explanation
Indices: 86946298--86946365 Score: 57
Period size: 14 Copynumber: 5.0 Consensus size: 13
86946288 GTAGATATAC
86946298 AAAATGGTTATATG
1 AAAAT-GTTATATG
*
86946312 AATATGTTATATG
1 AAAATGTTATATG
*
86946325 GAAATAGTTATAT-
1 AAAAT-GTTATATG
* *
86946338 TAAGTGTTTATATG
1 AAAATG-TTATATG
86946352 AAAATGTTTATATG
1 AAAATG-TTATATG
86946366 GATATATATG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
12 1 0.02
13 20 0.45
14 23 0.52
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.43
Consensus pattern (13 bp):
AAAATGTTATATG
Found at i:86947465 original size:22 final size:21
Alignment explanation
Indices: 86947423--86947465 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
86947413 GTAACCCCTG
**
86947423 TTTTCAATTTTTTTTCTATTA
1 TTTTCAATTTTTTTTAGATTA
86947444 TTTTCAATTTTGTTTTAGATTA
1 TTTTCAATTTT-TTTTAGATTA
86947466 GTCCCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTCAATTTTTTTTAGATTA
Found at i:86959232 original size:17 final size:16
Alignment explanation
Indices: 86959210--86959241 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
86959200 ATTTAAAACA
86959210 TTAAAAAAATATCTAAC
1 TTAAAAAAA-ATCTAAC
86959227 TTAAAAAAAATCTAA
1 TTAAAAAAAATCTAA
86959242 ACATCATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (16 bp):
TTAAAAAAAATCTAAC
Found at i:86961034 original size:30 final size:29
Alignment explanation
Indices: 86960975--86961034 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
86960965 TTCCCGAGCC
*
86960975 TAGGGGCAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAATGTAAATATGCAAAAGTT
* * *
86961004 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAT-GTAAATATGCAAAAGTT
86961034 T
1 T
86961035 GTATTAAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (29 bp):
TAGGGGCAAAATGTAAATATGCAAAAGTT
Found at i:86961602 original size:68 final size:64
Alignment explanation
Indices: 86961516--86961737 Score: 232
Period size: 67 Copynumber: 3.4 Consensus size: 64
86961506 TAATACGGGA
* *
86961516 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCACATGGGTGGTACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCACATGGGTGGTACT
86961581 ATG
62 ATG
* ** * * *
86961584 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCACATGGGTGGTACTA--
86961648 TG
63 TG
* * ** * *
86961650 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCACATGGGTGGTACTATG
86961714 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
86961738 CAAAATTATG
Statistics
Matches: 127, Mismatches: 22, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
63 20 0.16
64 25 0.20
65 2 0.02
66 23 0.18
67 29 0.23
68 27 0.21
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCACATGGGTGGTACTATG
Found at i:86964328 original size:25 final size:25
Alignment explanation
Indices: 86964281--86964357 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
86964271 AGCTCCGAAT
* * *
86964281 AGCCATATAACAGGAAGTTCA-AACG
1 AGCC-TATATCAGGAAGCTCACAAAG
*
86964306 AGCC-ATATTAGGAAGCTCACAAAG
1 AGCCTATATCAGGAAGCTCACAAAG
* *
86964330 AGCCTATATCAGGATGCTCATAAAG
1 AGCCTATATCAGGAAGCTCACAAAG
86964355 AGC
1 AGC
86964358 TGTGGTATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 12 0.28
24 7 0.16
25 24 0.56
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (25 bp):
AGCCTATATCAGGAAGCTCACAAAG
Found at i:86964449 original size:64 final size:64
Alignment explanation
Indices: 86964340--86964459 Score: 143
Period size: 64 Copynumber: 1.9 Consensus size: 64
86964330 AGCCTATATC
* * * ** * *
86964340 AGGATGCTCATAAAGAGCTGTGGTATATCCGCATTATATGCAGGATCTATACCGATTATATAAT
1 AGGACGCTCACAAAGAGCTGCGGTATATCCGCAACACATGCAGGATCAATACCGATTATATAAT
* *
86964404 AGGACGCTCACAAAGAGCTGCGGTATGA-CCGCAACACATGTAGGATCAATATCGAT
1 AGGACGCTCACAAAGAGCTGCGGTAT-ATCCGCAACACATGCAGGATCAATACCGAT
86964460 CAGTATGCTC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
64 45 0.98
65 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (64 bp):
AGGACGCTCACAAAGAGCTGCGGTATATCCGCAACACATGCAGGATCAATACCGATTATATAAT
Found at i:86965377 original size:12 final size:12
Alignment explanation
Indices: 86965360--86965394 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
86965350 TTTATTTAGG
86965360 AAAGATGATATA
1 AAAGATGATATA
86965372 AAAGATGATATA
1 AAAGATGATATA
86965384 AAAGATGATAT
1 AAAGATGATAT
86965395 TTTCTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.26
Consensus pattern (12 bp):
AAAGATGATATA
Found at i:86970570 original size:20 final size:18
Alignment explanation
Indices: 86970545--86970581 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
86970535 ATTGCTAAGT
86970545 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
86970565 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
86970582 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:86970715 original size:30 final size:30
Alignment explanation
Indices: 86970663--86970719 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
86970653 TACGAGCATT
*
86970663 GGGGCAAAAGTGTAAATATGTAAAAATTTA
1 GGGGCAAAAGTGAAAATATGTAAAAATTTA
*
86970693 GGGGTCAAAA-TGAAAATTTGTAAAAAT
1 GGGG-CAAAAGTGAAAATATGTAAAAAT
86970720 ATGATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.47, C:0.04, G:0.23, T:0.26
Consensus pattern (30 bp):
GGGGCAAAAGTGAAAATATGTAAAAATTTA
Found at i:86973221 original size:46 final size:45
Alignment explanation
Indices: 86973168--86973334 Score: 212
Period size: 46 Copynumber: 3.7 Consensus size: 45
86973158 GACGAGGGCT
86973168 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAG-ATG-TAGCC
* * *
86973214 AGTGTAAGACATGTTTGGGACATGCATTAGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATG-TAGCC
* * * * *
86973260 AATGTCAGACATGTCTGGGACATGCGTCAGCTACGAGATGT-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGTAGCC
*
86973304 AGTGTAAGACATGTCTGGGACATGCGTCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
86973335 ATGGTTACAT
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
44 31 0.29
45 1 0.01
46 72 0.68
47 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGTAGCC
Found at i:86973365 original size:46 final size:44
Alignment explanation
Indices: 86973165--86973371 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 44
86973155 TGAGACGAGG
* * *
86973165 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAT
1 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGA-CATG-T
* * * * *
86973210 AGCCAGTGTAAGACATGTTTGGGACATGCATTAGCCT-CGAGATGTT
1 -GCTAGTGTAAGACATGTCTGGGACATGCGTCAG-CTACGACATG-T
* * * *
86973256 AGCCAATGTCAGACATGTCTGGGACATGCGTCAGCTACGAGATGT
1 -GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGT
*
86973301 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGC-ATGGTTACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCTA-CG--ACATGT
*
86973347 G-TCAGTGTAAGACCTGTCTGGGACA
1 GCT-AGTGTAAGACATGTCTGGGACA
86973372 CGGCATCGAC
Statistics
Matches: 137, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.01
44 32 0.23
45 4 0.03
46 98 0.72
47 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGT
Found at i:86973365 original size:90 final size:92
Alignment explanation
Indices: 86973117--86973371 Score: 232
Period size: 90 Copynumber: 2.8 Consensus size: 92
86973107 AGATTTGTGT
* * * * * *** *
86973117 GCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGACATGTTAGCCAGTGTAAGACATGT
86973182 CTGGGACATGCATCAGCCACAGTATGATA
64 CTGGGACATGCATCAGCCACAGTATGATA
* * * * * *
86973211 GCCAGTGTAAGACATGTTTGGGACATGCATTAGCCTCGAGATGTTAGCCAATGTCAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCATCGACATGTTAGCCAGTGTAAGACATGTCT
* *
86973276 GGGACATGCGTCAGCTACGAG-ATG-T-
66 GGGACATGCATCAGCCAC-AGTATGATA
* * * * *
86973301 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCATGGTTACATG-T-GTCAGTGTAAGACCTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCATCG--ACATGTTAGCCAGTGTAAGACATGT
86973364 CTGGGACA
64 CTGGGACA
86973372 CGGCATCGAC
Statistics
Matches: 133, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
90 53 0.40
91 2 0.02
92 51 0.38
93 15 0.11
94 12 0.09
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (92 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCATCGACATGTTAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCACAGTATGATA
Found at i:86981946 original size:15 final size:14
Alignment explanation
Indices: 86981921--86981970 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
86981911 GAGTCCATAG
86981921 GTATGTATCCACCAA
1 GTATG-ATCCACCAA
86981936 GTATGAGTCCA-CAA
1 GTATGA-TCCACCAA
*
86981950 ATATGTATCCACCAA
1 GTATG-ATCCACCAA
86981965 GTATGA
1 GTATGA
86981971 ATCTGCAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (14 bp):
GTATGATCCACCAA
Found at i:86981954 original size:29 final size:29
Alignment explanation
Indices: 86981908--86981993 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
86981898 GGTTGTTACA
*
86981908 TATGAGTCCATAGGTATGTATCCACCAAG
1 TATGAGTCCACAGGTATGTATCCACCAAG
**
86981937 TATGAGTCCACAAATATGTATCCACCAAG
1 TATGAGTCCACAGGTATGTATCCACCAAG
* **
86981966 TATGAATCTGCAGGTATGTATCCACCAA
1 TATGAGTCCACAGGTATGTATCCACCAA
86981994 ATGTGAGCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (29 bp):
TATGAGTCCACAGGTATGTATCCACCAAG
Found at i:86983996 original size:25 final size:25
Alignment explanation
Indices: 86983949--86983996 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
86983939 CATCTAAGTT
*
86983949 TGTTATATAATATAGATATGTGTAC
1 TGTTATATAATATAGATAGGTGTAC
*
86983974 TGTTATAT-ATATTATATAGGTGT
1 TGTTATATAATA-TAGATAGGTGT
86983997 TTATGGGACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (25 bp):
TGTTATATAATATAGATAGGTGTAC
Found at i:86984784 original size:16 final size:16
Alignment explanation
Indices: 86984749--86984789 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
86984739 TGAACTGATG
86984749 ATATGCGAA-CCACCT
1 ATATGCGAACCCACCT
**
86984764 ATATGCGAACCCATTT
1 ATATGCGAACCCACCT
86984780 ATATGCGAAC
1 ATATGCGAAC
86984790 TGTTATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (16 bp):
ATATGCGAACCCACCT
Found at i:86996574 original size:47 final size:45
Alignment explanation
Indices: 86996423--86996640 Score: 210
Period size: 47 Copynumber: 4.7 Consensus size: 45
86996413 ATTACTTGTG
* * *
86996423 TGCCAGTGTAAGACATGTCTGGGACATGCATCGACCATA-ATATGA
1 TGCCAGTGTAAGACATGTCTAGGACATGCATCGGCC-TAGAGATGA
* **
86996468 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTAGAGAATGA
1 T-GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTAGAG-ATGA
* * *
86996517 GTGCTAGTGTAAGACATGTCTAAGACATGCATCGGCCTCGACGATGA
1 -TGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTAGA-GATGA
* *
86996564 TAGCCAGTGTAAAACATGTCTAGGACACT-CATCGG-CTAAGAGTTG-
1 T-GCCAGTGTAAGACATGTCTAGGACA-TGCATCGGCCT-AGAGATGA
*
86996609 TGCTAGTGTAAGACATGTCTAGGACATGCATC
1 TGCCAGTGTAAGACATGTCTAGGACATGCATC
86996641 AGCGTATAGA
Statistics
Matches: 145, Mismatches: 17, Indels: 23
0.78 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 27 0.19
45 2 0.01
46 18 0.12
47 60 0.41
48 21 0.14
49 15 0.10
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (45 bp):
TGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTAGAGATGA
Found at i:86996629 original size:44 final size:45
Alignment explanation
Indices: 86996421--86996722 Score: 177
Period size: 47 Copynumber: 6.4 Consensus size: 45
86996411 GGATTACTTG
* * * *
86996421 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCATA-A-TA
1 TGTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCC-TAGACGA
* * **
86996465 TGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTAGA-GAA
1 TG-T-GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTAGACG-A
* *
86996514 TGAGTGCTAGTGTAAGACATGTCTAAGACATGCATCGGCCTCGACGA
1 T--GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTAGACGA
* * *
86996561 TGATAGCCAGTGTAAAACATGTCTAGGACACT-CATCGG-CTAAGA-GT
1 TG-T-GCTAGTGTAAGACATGTCTAGGACA-TGCATCGGCCT-AGACGA
**
86996607 TGTGCTAGTGTAAGACATGTCTAGGACATGCATCAGCGTATAGACGA
1 TGTGCTAGTGTAAGACATGTCTAGGACATGCATC-G-GCCTAGACGA
* * ** ** * *
86996654 -GAGCTAGTATAAGAACATGTCCGGGACATGGCATCAACCTCGATGA
1 TGTGCTAGTGTAAG-ACATGTCTAGGACAT-GCATCGGCCTAGACGA
86996700 TGATAGCTAGTGTAAGACCATGT
1 TG-T-GCTAGTGTAAGA-CATGT
86996723 TCGGGACATG
Statistics
Matches: 203, Mismatches: 31, Indels: 43
0.73 0.11 0.16
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 4 0.02
46 38 0.19
47 74 0.36
48 27 0.13
49 28 0.14
50 1 0.00
51 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (45 bp):
TGTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTAGACGA
Found at i:86996635 original size:91 final size:94
Alignment explanation
Indices: 86996419--86996640 Score: 267
Period size: 95 Copynumber: 2.4 Consensus size: 94
86996409 TCGGATTACT
* * * *
86996419 TGTGTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCATAATATGATAGCCAGTGTAAGACC
1 TGTGTGCTAGTGTAAGACATGTCTAGGACATGCATCGACCATAAGATGATAGCCAGTGTAAGAAC
* *
86996484 ATGTCTGGGACATGGCATCGGTGTAGAGAA
66 ATGTCTAGGACAT-GCATCGGTCTAGAGAA
* * * *
86996514 TGAGTGCTAGTGTAAGACATGTCTAAGACATGCATCGGCC-TCGACGATGATAGCCAGTGTAA-A
1 TGTGTGCTAGTGTAAGACATGTCTAGGACATGCATCGACCAT--AAGATGATAGCCAGTGTAAGA
*
86996577 ACATGTCTAGGACACT-CATCGG-CTA-AGAG
64 ACATGTCTAGGACA-TGCATCGGTCTAGAGAA
86996606 T-TGTGCTAGTGTAAGACATGTCTAGGACATGCATC
1 TGTGTGCTAGTGTAAGACATGTCTAGGACATGCATC
86996641 AGCGTATAGA
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
91 32 0.29
92 4 0.04
93 2 0.02
94 7 0.06
95 48 0.43
96 18 0.16
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (94 bp):
TGTGTGCTAGTGTAAGACATGTCTAGGACATGCATCGACCATAAGATGATAGCCAGTGTAAGAAC
ATGTCTAGGACATGCATCGGTCTAGAGAA
Found at i:87003702 original size:47 final size:47
Alignment explanation
Indices: 87003636--87003952 Score: 235
Period size: 47 Copynumber: 6.7 Consensus size: 47
87003626 TTACTTGTGT
*
87003636 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCACA-ATATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATATGATA
* * **
87003682 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGA-ATGAGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACAGATATGATA
* * *
87003731 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-GACGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGA-TATGATA
* * *
87003778 GCCAGTGTAA-AGCGTGTCTGGGACACGCATCGGCTA-AGAT-TG-T-
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACAGATATGATA
* ** * *
87003821 GCTAGTGTAAGACATGTCTGGGACATGCATC-ATCACGTAGAGATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC--AGATATGATA
* * ** *
87003869 GCTAGTATAAGACCATGT-TCGGGACATGGCATTAGCCTC-GATGATGATA
1 GCCAGTGTAAGA-CATGTCT-GGGACAT-GCATCGGCCACAGAT-ATGATA
*
87003918 GCCAGTGTAAGACCATGTCCGGGA-ATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
87003953 AAAATATCCC
Statistics
Matches: 213, Mismatches: 37, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 26 0.12
44 2 0.01
45 7 0.03
46 14 0.07
47 57 0.27
48 45 0.21
49 54 0.25
50 5 0.02
51 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATATGATA
Found at i:87004838 original size:55 final size:54
Alignment explanation
Indices: 87004724--87004838 Score: 133
Period size: 55 Copynumber: 2.1 Consensus size: 54
87004714 TCTACACGAG
* * * ** *
87004724 CGTGTGTCATGGTCGTGTTTTAAAGTTAGTGTTGTACATGGGCAGGCCATACGGG
1 CGTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTGCACACAGGCAGGCCATA-GGA
*
87004779 CGTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTGCACACAGGCTAAGGGCAT-GGA
1 CGTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTGCACACAGGC--AGGCCATAGGA
87004834 CGTGT
1 CGTGT
87004839 CCCAAGCCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
55 45 0.88
57 6 0.12
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (54 bp):
CGTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTGCACACAGGCAGGCCATAGGA
Found at i:87010830 original size:39 final size:38
Alignment explanation
Indices: 87010699--87010840 Score: 178
Period size: 38 Copynumber: 3.7 Consensus size: 38
87010689 TGTTAAAGCG
* * *
87010699 GCACGAAACCTACTAAGCATC-AAGCCCGATAAACACCG
1 GCACGAAGCCTACTAGGC-TCAAAGCCCGATAAACACCA
* *
87010737 GAACGAAGCCTACTAGGCTCAAAGCCCAATAAACACCA
1 GCACGAAGCCTACTAGGCTCAAAGCCCGATAAACACCA
* * *
87010775 GCACGAATCCTGCTAGGCTCAAAGCCCGATAAGTCACCA
1 GCACGAAGCCTACTAGGCTCAAAGCCCGATAA-ACACCA
*
87010814 GCACGAGGCCTACTAGGCTCAAAGCCC
1 GCACGAAGCCTACTAGGCTCAAAGCCC
87010841 AATACAATAC
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
37 2 0.02
38 58 0.65
39 29 0.33
ACGTcount: A:0.35, C:0.34, G:0.19, T:0.12
Consensus pattern (38 bp):
GCACGAAGCCTACTAGGCTCAAAGCCCGATAAACACCA
Found at i:87010901 original size:41 final size:41
Alignment explanation
Indices: 87010821--87010901 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
87010811 CCAGCACGAG
* * *
87010821 GCCTACTAGGCTCAAAGCCCAATACAATACACTGGCATAAA
1 GCCTACTAGGCCCAAAGCCCAATACAATACACCGCCATAAA
*
87010862 GCCTACTAGGCCCAAGGCCCAATACAATACACCGCCATAA
1 GCCTACTAGGCCCAAAGCCCAATACAATACACCGCCATAA
87010902 CAACTCAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.37, C:0.33, G:0.15, T:0.15
Consensus pattern (41 bp):
GCCTACTAGGCCCAAAGCCCAATACAATACACCGCCATAAA
Found at i:87019105 original size:42 final size:42
Alignment explanation
Indices: 87019042--87019138 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
87019032 TATGAAAGGA
* *
87019042 ACTTAGCGTGC-AAGATTATAATAGCTTTGGCTATGCTTTGGC
1 ACTTAGTGTGCGAA-ATTATAATAGCTTCGGCTATGCTTTGGC
*
87019084 ATTTAGTGTGCGAAATTATAATAGCTTCGGCTATGCTTTGGC
1 ACTTAGTGTGCGAAATTATAATAGCTTCGGCTATGCTTTGGC
87019126 ACTTAGTGTGCGA
1 ACTTAGTGTGCGA
87019139 GATATCGAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (42 bp):
ACTTAGTGTGCGAAATTATAATAGCTTCGGCTATGCTTTGGC
Found at i:87031298 original size:12 final size:12
Alignment explanation
Indices: 87031281--87031332 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
87031271 AAACTTAATC
87031281 AATTTAATATTA
1 AATTTAATATTA
*
87031293 AATTTAATCTATA
1 AATTTAATAT-TA
87031306 AATATT-ATATTA
1 AAT-TTAATATTA
*
87031318 AACTTAATATTA
1 AATTTAATATTA
87031330 AAT
1 AAT
87031333 ATTATTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 2 0.06
12 21 0.64
13 8 0.24
14 2 0.06
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTTAATATTA
Found at i:87031315 original size:25 final size:24
Alignment explanation
Indices: 87031287--87031337 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
87031277 AATCAATTTA
* *
87031287 ATATTAAATTTAATCTATAAATATT
1 ATATTAAACTTAATAT-TAAATATT
87031312 ATATTAAACTTAATATTAAATATT
1 ATATTAAACTTAATATTAAATATT
87031336 AT
1 AT
87031338 TAAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATTAAACTTAATATTAAATATT
Found at i:87031910 original size:15 final size:15
Alignment explanation
Indices: 87031890--87031919 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87031880 AAATATCATA
87031890 TTAATTTTAATTGAT
1 TTAATTTTAATTGAT
*
87031905 TTAATTTTACTTGAT
1 TTAATTTTAATTGAT
87031920 CAAAATTAAT
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:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTGAT
Found at i:87034276 original size:3 final size:3
Alignment explanation
Indices: 87034257--87034292 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
87034247 TATTTTACAA
87034257 AAT AATT AAT AAAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AA-T AAT -AAT AAT AAT AAT AAT AAT AAT AAT A
87034293 GGGGGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.