Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 39 of 255
Found at i:10305801 original size:10 final size:10
Alignment explanation
Indices: 10305776--10305834 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
10305766 CACTTGTATA
10305776 ATTTTTATTT
1 ATTTTTATTT
*
10305786 AATTTTATTT
1 ATTTTTATTT
*
10305796 CTTTTTTATTT
1 -ATTTTTATTT
*
10305807 ATTTTCATGTCT
1 ATTTTTAT-T-T
*
10305819 ATTTATATTT
1 ATTTTTATTT
10305829 ATTTTT
1 ATTTTT
10305835 TTACACATTC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 21 0.55
11 10 0.26
12 7 0.18
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:10305801 original size:21 final size:23
Alignment explanation
Indices: 10305776--10305834 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 23
10305766 CACTTGTATA
*
10305776 ATTTTTATTTAATTTT-ATTTCT
1 ATTTTTATTTAATTTTCATGTCT
10305798 -TTTTTATTT-ATTTTCATGTCT
1 ATTTTTATTTAATTTTCATGTCT
* *
10305819 ATTTATATTTATTTTT
1 ATTTTTATTTAATTTT
10305835 TTACACATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 5 0.16
21 14 0.45
22 8 0.26
23 4 0.13
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (23 bp):
ATTTTTATTTAATTTTCATGTCT
Found at i:10307395 original size:19 final size:17
Alignment explanation
Indices: 10307371--10307417 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 17
10307361 TTCATAACAA
10307371 TCATTTATCAAATATCATG
1 TCATTTAT-AAATATCA-G
10307390 TCATTTCAATAAATATCAG
1 TCATTT--ATAAATATCAG
10307409 TCATTTATA
1 TCATTTATA
10307418 TTCAATATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.12
19 13 0.50
20 8 0.31
21 2 0.08
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (17 bp):
TCATTTATAAATATCAG
Found at i:10311480 original size:60 final size:59
Alignment explanation
Indices: 10311343--10311491 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 59
10311333 CTATTCAGAA
* *
10311343 ATCAGAGCTAT-CTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAG
1 ATCAGAG-TATACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG
* * *
10311403 TATCAGAGTATACTGGGCCTAGCCTATATCAATATCAATCTGGGCCGTAGCCCTATTCCA-
1 -ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAG
* *
10311463 AGTC-GAGATATATTGGGCCTTGCCCATAT
1 A-TCAGAG-TATACTGGGCCTAGCCCATAT
10311492 TAACACAGTT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
59 4 0.05
60 54 0.71
61 18 0.24
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (59 bp):
ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG
Found at i:10312156 original size:8 final size:8
Alignment explanation
Indices: 10312142--10312171 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10312132 ACAAATGTCA
10312142 GCTTTTCG
1 GCTTTTCG
*
10312150 ACTTTTCG
1 GCTTTTCG
10312158 GCTTTTCG
1 GCTTTTCG
10312166 GCTTTT
1 GCTTTT
10312172 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.20, T:0.53
Consensus pattern (8 bp):
GCTTTTCG
Found at i:10314080 original size:15 final size:15
Alignment explanation
Indices: 10314060--10314092 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10314050 TATTCCTATC
10314060 TAATAATAATAATTA
1 TAATAATAATAATTA
*
10314075 TAATAATAATATTTA
1 TAATAATAATAATTA
10314090 TAA
1 TAA
10314093 ATATATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:10314212 original size:19 final size:18
Alignment explanation
Indices: 10314175--10314218 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
10314165 ATACATACAG
10314175 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
10314192 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
10314211 TACTAATT
1 TAATAATT
10314219 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:10323146 original size:40 final size:40
Alignment explanation
Indices: 10323055--10323338 Score: 405
Period size: 40 Copynumber: 7.1 Consensus size: 40
10323045 CGGAATTTAA
** * *
10323055 CCGGATATAGCT-ACTCGTTCAAATGCTTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
10323095 TCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
10323135 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
10323174 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
10323214 CCGGATATAGTAACTTGCACAAATGCATTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
10323254 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
10323294 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
10323334 CCGGA
1 CCGGA
10323339 CATCATTCGA
Statistics
Matches: 218, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.15
40 179 0.82
41 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:10353250 original size:44 final size:44
Alignment explanation
Indices: 10353202--10353540 Score: 236
Period size: 44 Copynumber: 7.6 Consensus size: 44
10353192 CTTATCTATT
* * *
10353202 TGAAGTTGCAGTAAAGCGGGTTGAAGTAACAAGTCTTATCTCCC
1 TGAAGTTGCAGTAGAGCAGATTGAAGTAACAAGTCTTATCTCCC
* * * * *
10353246 TGAAGTTGCAGTGGAGCAGACTGAAGATAGC-AGATCTTGTCTACC
1 TGAAGTTGCAGTAGAGCAGATTGAAG-TAACAAG-TCTTATCTCCC
* * ** ** *
10353291 TGAAGTTGCAGTGGAGCAGATCGAAGCCACAAACCTTATCTCTC
1 TGAAGTTGCAGTAGAGCAGATTGAAGTAACAAGTCTTATCTCCC
* ** * *
10353335 TGAAGTTGTAGTAGAGTGGGTTGAAATAACAAGTCTTATCTCCC
1 TGAAGTTGCAGTAGAGCAGATTGAAGTAACAAGTCTTATCTCCC
* * * * * *
10353379 TGAAGTTGTAGTGGAGCAAACTGAAGATAGC-AGATCTTGTCTCCC
1 TGAAGTTGCAGTAGAGCAGATTGAAG-TAACAAG-TCTTATCTCCC
* * ** *
10353424 TGAAGTTGCAGTGGAGCAGATCGAAGCCACAA-TCCTTATCTCTC
1 TGAAGTTGCAGTAGAGCAGATTGAAGTAACAAGT-CTTATCTCCC
* ** * **
10353468 TGAAGTTGCAGTTGAGCAGGATAAAAATACACAAACCTTATCTCCC
1 TGAAGTTGCAGTAGAGCA-GATTGAAGTA-ACAAGTCTTATCTCCC
* *
10353514 TGAAGTTGCAGTGGAGCAG-TTGCAGTA
1 TGAAGTTGCAGTAGAGCAGATTGAAGTA
10353541 GAGCAGATTA
Statistics
Matches: 224, Mismatches: 61, Indels: 20
0.73 0.20 0.07
Matches are distributed among these distances:
43 1 0.00
44 114 0.51
45 79 0.35
46 30 0.13
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
TGAAGTTGCAGTAGAGCAGATTGAAGTAACAAGTCTTATCTCCC
Found at i:10353301 original size:45 final size:45
Alignment explanation
Indices: 10353235--10353532 Score: 252
Period size: 44 Copynumber: 6.7 Consensus size: 45
10353225 AAGTAACAAG
10353235 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* * ** *
10353280 TCTTGTCTACCTGAAGTTGCAGTGGAGCAGA-TCGAAGCCA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCAGA
* * * * ** ** *
10353324 CCTTATCTCTCTGAAGTTGTAGTAGAGTGGGTTGAA-ATAACA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* *
10353367 GTCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTGAAGATAGCAGA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* **
10353413 TCTTGTCTCCCTGAAGTTGCAGTGGAGCAGA-TCGAAGCCA-CA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCAGA
* * * * * *
10353456 TCCTTATCTCTCTGAAGTTGCAGTTGAGCAGGA-TAAAAATACACAAA
1 T-CTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTGAAGATA-GCAGA
*
10353503 CCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
10353533 TTGCAGTAGA
Statistics
Matches: 201, Mismatches: 40, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
43 4 0.02
44 90 0.45
45 77 0.38
46 29 0.14
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
Found at i:10353338 original size:89 final size:85
Alignment explanation
Indices: 10353236--10353532 Score: 265
Period size: 89 Copynumber: 3.3 Consensus size: 85
10353226 AGTAACAAGT
*
10353236 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGTCTACCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGATA-CA-ATCTTATCT-CCTGAAGTTGCA
*
10353301 GTGGAGCAGATCGAAGCCACAAAC
62 GTGGAGCAGATCGAAGACACAAAC
* * * ** * *
10353325 CTTATCTCTCTGAAGTTGTAGTAGAGTGGGTTGAA-ATAACAAGTCTTATCTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAG-CAGATGAAGAT-ACAA-TCTTATCT-CCTGAAGTTGCA
* * * *
10353389 GTGGAGCA-AACTGAAGATAGCAGAT
62 GTGGAGCAGATC-GAAGACA-CAAAC
* **
10353414 CTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-GAAGATACAAT-CTTATCTC-CTGAAGTTGCAG
* ** *
10353479 TTGAGCAGGATAAAAATACACAAAC
63 TGGAGCA-GAT-CGAAGACACAAAC
10353504 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
10353533 TTGCAGTAGA
Statistics
Matches: 163, Mismatches: 33, Indels: 23
0.74 0.15 0.11
Matches are distributed among these distances:
87 3 0.02
88 39 0.24
89 84 0.52
90 32 0.20
91 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (85 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGATACAATCTTATCTCCTGAAGTTGCAGTGG
AGCAGATCGAAGACACAAAC
Found at i:10353426 original size:133 final size:133
Alignment explanation
Indices: 10353187--10353531 Score: 519
Period size: 133 Copynumber: 2.6 Consensus size: 133
10353177 TAAAAATATG
* * * * *
10353187 CAAACCTTATCTATTTGAAGTTGCAGTAAAGCGGGTTGAAGTAACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCTCTGAAGTTGCAGTAGAGAGGGTTGAAATAACAAGTCTTATCTCCCTGAAGT
*
10353252 TGCAGTGGAGCAGACTGAAGATAGCAGATCTTGTCTACCTGAAGTTGCAGTGGAGCAGATCGAAG
66 TGCAGTGGAGCAAACTGAAGATAGCAGATCTTGTCTACCTGAAGTTGCAGTGGAGCAGATCGAAG
10353317 CCA
131 CCA
* *
10353320 CAAACCTTATCTCTCTGAAGTTGTAGTAGAGTGGGTTGAAATAACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCTCTGAAGTTGCAGTAGAGAGGGTTGAAATAACAAGTCTTATCTCCCTGAAGT
* *
10353385 TGTAGTGGAGCAAACTGAAGATAGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAG
66 TGCAGTGGAGCAAACTGAAGATAGCAGATCTTGTCTACCTGAAGTTGCAGTGGAGCAGATCGAAG
10353450 CCA
131 CCA
* * * ** **
10353453 CAATCCTTATCTCTCTGAAGTTGCAGTTGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAA
1 CAAACCTTATCTCTCTGAAGTTGCAGTAGAG-AGGGTTGAAATA-ACAAGTCTTATCTCCCTGAA
10353518 GTTGCAGTGGAGCA
64 GTTGCAGTGGAGCA
10353532 GTTGCAGTAG
Statistics
Matches: 191, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
133 152 0.80
134 8 0.04
135 31 0.16
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (133 bp):
CAAACCTTATCTCTCTGAAGTTGCAGTAGAGAGGGTTGAAATAACAAGTCTTATCTCCCTGAAGT
TGCAGTGGAGCAAACTGAAGATAGCAGATCTTGTCTACCTGAAGTTGCAGTGGAGCAGATCGAAG
CCA
Found at i:10353536 original size:14 final size:14
Alignment explanation
Indices: 10353517--10353546 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10353507 ATCTCCCTGA
*
10353517 AGTTGCAGTGGAGC
1 AGTTGCAGTAGAGC
10353531 AGTTGCAGTAGAGC
1 AGTTGCAGTAGAGC
10353545 AG
1 AG
10353547 ATTAAGAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (14 bp):
AGTTGCAGTAGAGC
Found at i:10365468 original size:40 final size:39
Alignment explanation
Indices: 10365404--10365615 Score: 237
Period size: 40 Copynumber: 5.3 Consensus size: 39
10365394 TCTTCGGAAT
* * * *
10365404 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCAGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
10365443 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
10365483 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
10365523 TTATCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * * *
10365563 TTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
10365603 TTAGCCCGGATAT
1 TTAGCCCGGATAT
10365616 CATTCAAATG
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 10 0.07
40 127 0.88
41 7 0.05
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:10365531 original size:80 final size:80
Alignment explanation
Indices: 10365404--10365615 Score: 318
Period size: 80 Copynumber: 2.7 Consensus size: 80
10365394 TCTTCGGAAT
* * * * * * *
10365404 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCAGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
10365468 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
10365483 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
10365548 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
10365563 TTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
10365616 CATTCAAATG
Statistics
Matches: 119, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 4 0.03
80 115 0.97
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:10373529 original size:40 final size:39
Alignment explanation
Indices: 10373465--10373676 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 39
10373455 TCTTCGGAAT
* * *
10373465 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
10373504 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
10373544 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
10373584 TTATCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * * *
10373624 TTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
10373664 TTAGCCCGGATAT
1 TTAGCCCGGATAT
10373677 CATTCAAATG
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 10 0.07
40 128 0.88
41 7 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:10373592 original size:80 final size:80
Alignment explanation
Indices: 10373465--10373676 Score: 327
Period size: 80 Copynumber: 2.7 Consensus size: 80
10373455 TCTTCGGAAT
* * * * * *
10373465 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
10373529 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
10373544 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
10373609 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
10373624 TTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
10373677 CATTCAAATG
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.03
80 116 0.97
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:10377736 original size:3 final size:3
Alignment explanation
Indices: 10377728--10377780 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
10377718 ATTCAGTGAC
10377728 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
10377776 TCT TC
1 TCT TC
10377781 CTCTGTTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:10377859 original size:21 final size:21
Alignment explanation
Indices: 10377835--10377876 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10377825 CAACGTGGCA
10377835 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACGTCAGCT
*
10377856 AGTTAACTTGCCACGTCAGCT
1 AGTTAACTGGCCACGTCAGCT
10377877 GTTCTGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (21 bp):
AGTTAACTGGCCACGTCAGCT
Found at i:10377975 original size:30 final size:31
Alignment explanation
Indices: 10377906--10377978 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
10377896 GGAAACTGTT
* *
10377906 AGTTAGTGACTGTTTTGTCACTTTTTTATAG
1 AGTTAGTGACTGTTTTGTCACTTTTTCATAA
* *
10377937 CGTTAGTGACTGTTTTGTTA-TTTTTCA-AA
1 AGTTAGTGACTGTTTTGTCACTTTTTCATAA
10377966 AGTTGAGTGACTG
1 AGTT-AGTGACTG
10377979 AAATGAAACC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 4 0.11
30 14 0.39
31 18 0.50
ACGTcount: A:0.21, C:0.10, G:0.22, T:0.48
Consensus pattern (31 bp):
AGTTAGTGACTGTTTTGTCACTTTTTCATAA
Found at i:10383456 original size:21 final size:21
Alignment explanation
Indices: 10383430--10383471 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10383420 GTCAATAACC
10383430 AAATGTTCACACAAATAGACA
1 AAATGTTCACACAAATAGACA
***
10383451 AAATGTTTTGACAAATAGACA
1 AAATGTTCACACAAATAGACA
10383472 TATATTCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (21 bp):
AAATGTTCACACAAATAGACA
Found at i:10397305 original size:18 final size:20
Alignment explanation
Indices: 10397270--10397315 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
10397260 TATGAGAGAG
* *
10397270 AAAAAAAGTGCAACAAAATA
1 AAAAAAAATGCAACAAAAGA
10397290 AAAAAAAATG-AA-AAAAGA
1 AAAAAAAATGCAACAAAAGA
10397308 AAAGAAAA
1 AAA-AAAA
10397316 GTGTAAGCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 8 0.35
19 6 0.26
20 9 0.39
ACGTcount: A:0.78, C:0.04, G:0.11, T:0.07
Consensus pattern (20 bp):
AAAAAAAATGCAACAAAAGA
Found at i:10397933 original size:27 final size:26
Alignment explanation
Indices: 10397903--10397963 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
10397893 TAAAATTGAA
*
10397903 AAAAAAATGAAAAATATTTTAAAAATT
1 AAAAAAATGAAAAATATTAT-AAAATT
* * *
10397930 AAAAACATTAAAATTATTATAAAATT
1 AAAAAAATGAAAAATATTATAAAATT
*
10397956 ATAAAAAT
1 AAAAAAAT
10397964 ATTTTTTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAAAAATGAAAAATATTATAAAATT
Found at i:10400973 original size:26 final size:26
Alignment explanation
Indices: 10400937--10401045 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
10400927 ATGAAATTCC
10400937 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAAACCAT
*
10400963 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAAACCAT
* *
10400989 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAAACCAT
10401015 TATCATGGAACATTTACCT-AACTCAT
1 TATCATGGAACATTTACCTAAAC-CAT
10401041 TATCA
1 TATCA
10401046 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 75 0.97
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAAACCAT
Found at i:10406358 original size:26 final size:26
Alignment explanation
Indices: 10406312--10406364 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
10406302 TCAAACATGC
*
10406312 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
10406338 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
10406364 A
1 A
10406365 AAACTGTAAA
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:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:10407886 original size:26 final size:26
Alignment explanation
Indices: 10407850--10407958 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
10407840 ATGAAATTCC
*
10407850 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
10407876 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
10407902 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
10407928 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
10407954 TATCA
1 TATCA
10407959 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:10409192 original size:28 final size:28
Alignment explanation
Indices: 10409147--10409228 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
10409137 TGAGCAGCCT
* * *
10409147 AAATATCACAGCTTGTGTGAGCAAATTC
1 AAATATCACAACTCGTGTGAGAAAATTC
10409175 AAATATCACAACTCGTGTGAGAAAATTC
1 AAATATCACAACTCGTGTGAGAAAATTC
* * * *
10409203 AAATATTATAACTTGTGTGGGAAAAT
1 AAATATCACAACTCGTGTGAGAAAAT
10409229 CAATCCCATG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (28 bp):
AAATATCACAACTCGTGTGAGAAAATTC
Found at i:10416279 original size:27 final size:27
Alignment explanation
Indices: 10416227--10416300 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
10416217 ATTTTTTAAA
10416227 ATTTT-AAAATTGAAAAAAAATGAAAAAT
1 ATTTTAAAAATT--AAAAAAATGAAAAAT
* * *
10416255 ATTTTAAAAATTAAAAACATTAAAATT
1 ATTTTAAAAATTAAAAAAATGAAAAAT
* *
10416282 ATTAT-AAAATTATAAAAAT
1 ATTTTAAAAATTAAAAAAAT
10416301 ATTTTTTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 12 0.31
27 16 0.41
28 5 0.13
29 6 0.15
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (27 bp):
ATTTTAAAAATTAAAAAAATGAAAAAT
Found at i:10417581 original size:28 final size:28
Alignment explanation
Indices: 10417548--10417601 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
10417538 TGAGCAGCCT
10417548 AAATATCACAACTTGTGTGAGAAAATTC
1 AAATATCACAACTTGTGTGAGAAAATTC
* *
10417576 AAATATTATAACTTGTGTGAGAAAAT
1 AAATATCACAACTTGTGTGAGAAAAT
10417602 CAATCTCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.31
Consensus pattern (28 bp):
AAATATCACAACTTGTGTGAGAAAATTC
Found at i:10421654 original size:12 final size:12
Alignment explanation
Indices: 10421639--10421665 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10421629 TTTTTATATG
10421639 TTTTTTAGAATT
1 TTTTTTAGAATT
10421651 TTTTTTAGAATT
1 TTTTTTAGAATT
10421663 TTT
1 TTT
10421666 ATATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTTTTAGAATT
Found at i:10421736 original size:9 final size:9
Alignment explanation
Indices: 10421651--10421739 Score: 51
Period size: 9 Copynumber: 10.0 Consensus size: 9
10421641 TTTTAGAATT
10421651 TTTTTTAGAA
1 TTTTTTA-AA
*
10421661 -TTTTTATA
1 TTTTTTAAA
10421669 TTTTTTAAA
1 TTTTTTAAA
* *
10421678 --ATATAAA
1 TTTTTTAAA
*
10421685 -TTTTGAAA
1 TTTTTTAAA
10421693 TTTTTATAAA
1 TTTTT-TAAA
* *
10421703 TATTTTGAA
1 TTTTTTAAA
**
10421712 TTTTAAAAA
1 TTTTTTAAA
10421721 TTATTTTAAA
1 TT-TTTTAAA
10421731 TTTTTTAAA
1 TTTTTTAAA
10421740 ATTATTTTGA
Statistics
Matches: 58, Mismatches: 16, Indels: 11
0.68 0.19 0.13
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
9 34 0.59
10 14 0.24
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:10421741 original size:10 final size:11
Alignment explanation
Indices: 10421711--10421747 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
10421701 AATATTTTGA
10421711 ATTTTAAAAATT
1 ATTTT-AAAATT
10421723 ATTTT-AAATT
1 ATTTTAAAATT
10421733 -TTTTAAAATT
1 ATTTTAAAATT
10421743 ATTTT
1 ATTTT
10421748 GACTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.17
10 10 0.43
11 4 0.17
12 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:10421754 original size:20 final size:20
Alignment explanation
Indices: 10421668--10421756 Score: 92
Period size: 20 Copynumber: 4.3 Consensus size: 20
10421658 GAATTTTTAT
10421668 ATTTTTTAAAATATAAATTTTGA
1 ATTTTTTAAAAT-T--ATTTTGA
*
10421691 AATTTTTATAAA-TATTTTGA
1 ATTTTTTA-AAATTATTTTGA
* *
10421711 A-TTTTAAAAATTATTTTAA
1 ATTTTTTAAAATTATTTTGA
10421730 ATTTTTTAAAATTATTTTGA
1 ATTTTTTAAAATTATTTTGA
*
10421750 CTTTTTT
1 ATTTTTT
10421757 TGTAAATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
18 3 0.05
19 13 0.23
20 30 0.53
22 1 0.02
23 7 0.12
24 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (20 bp):
ATTTTTTAAAATTATTTTGA
Found at i:10425243 original size:5 final size:5
Alignment explanation
Indices: 10425235--10425277 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
10425225 GAATTTTATT
10425235 TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTT
1 TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTT
10425278 TAAAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.63
Consensus pattern (5 bp):
TTTGA
Found at i:10425858 original size:15 final size:14
Alignment explanation
Indices: 10425832--10425903 Score: 65
Period size: 15 Copynumber: 5.0 Consensus size: 14
10425822 TATTCTAATA
*
10425832 CTATTATTATTTAT
1 CTATTTTTATTTAT
10425846 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
10425861 CTATTTATATTTCAA
1 CTATTTTTATTT-AT
*
10425876 CTATTATTATATT-T
1 CTATTTTTAT-TTAT
*
10425890 CTATTTATATTTAT
1 CTATTTTTATTTAT
10425904 ATACTAATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
13 2 0.04
14 20 0.43
15 22 0.48
16 2 0.04
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:10425871 original size:29 final size:28
Alignment explanation
Indices: 10425790--10425903 Score: 79
Period size: 29 Copynumber: 4.0 Consensus size: 28
10425780 TTATTGCTAT
* * * *
10425790 TATTATTATGTCTCTATTTATGTTTATTT
1 TATTATTATATTTCTATTTATATTTA-TC
* * * *
10425819 TGTTATTCTAATACTA-TTATTATTTATC
1 TATTATTATATTTCTATTTA-TATTTATC
* *
10425847 TAATTTTTAT-TTATCTATTTATATTTCAAC
1 T-ATTATTATATT-TCTATTTATATTT-ATC
10425877 TATTATTATATTTCTATTTATATTTAT
1 TATTATTATATTTCTATTTATATTTAT
10425904 ATACTAATAT
Statistics
Matches: 63, Mismatches: 16, Indels: 13
0.68 0.17 0.14
Matches are distributed among these distances:
28 7 0.11
29 48 0.76
30 8 0.13
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (28 bp):
TATTATTATATTTCTATTTATATTTATC
Found at i:10425917 original size:29 final size:29
Alignment explanation
Indices: 10425860--10425920 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
10425850 TTTTTATTTA
*
10425860 TCTATTTATATTTCAACTATTATTATATT
1 TCTATTTATATTTCAACTAATATTATATT
*
10425889 TCTATTTATATTTATATACTAATATTAT-TT
1 TCTATTTATATTT-CA-ACTAATATTATATT
10425919 TC
1 TC
10425921 ATTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.46
30 5 0.18
31 10 0.36
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (29 bp):
TCTATTTATATTTCAACTAATATTATATT
Found at i:10434251 original size:24 final size:24
Alignment explanation
Indices: 10434224--10434271 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10434214 ATGATGAATA
*
10434224 AATTAAAAAATTCAATAAATTTAT
1 AATTAAAAAATTCAAAAAATTTAT
* * *
10434248 AATTATAATATTTAAAAAATTTAT
1 AATTAAAAAATTCAAAAAATTTAT
10434272 TTTTAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AATTAAAAAATTCAAAAAATTTAT
Found at i:10436740 original size:23 final size:23
Alignment explanation
Indices: 10436710--10436755 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10436700 AATGTTAATG
10436710 TAGGTTAAACTAATACTCAGCTA
1 TAGGTTAAACTAATACTCAGCTA
10436733 TAGGTTAAACTAATACTCAGCTA
1 TAGGTTAAACTAATACTCAGCTA
10436756 AGTAAATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (23 bp):
TAGGTTAAACTAATACTCAGCTA
Found at i:10439448 original size:23 final size:23
Alignment explanation
Indices: 10439398--10439450 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
10439388 TTTAGTCTGG
*
10439398 ACCTAAATAAACCAAACCAATCA
1 ACCTAAATAAACCAAACCAACCA
* *
10439421 ACCTAAATAAACCAAGCCAGCCA
1 ACCTAAATAAACCAAACCAACCA
*
10439444 GCCTAAA
1 ACCTAAA
10439451 CAAAAAACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.32, G:0.06, T:0.11
Consensus pattern (23 bp):
ACCTAAATAAACCAAACCAACCA
Found at i:10440809 original size:28 final size:28
Alignment explanation
Indices: 10440776--10440833 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
10440766 TATGTTGTTC
** *
10440776 ATATTTGTATTTTTTTCGCTAGTTATTT
1 ATATTTGTACATTTTTCGCTACTTATTT
*
10440804 ATATTTGTACATTTTTCGCTCCTTATTT
1 ATATTTGTACATTTTTCGCTACTTATTT
10440832 AT
1 AT
10440834 TTATATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.09, T:0.60
Consensus pattern (28 bp):
ATATTTGTACATTTTTCGCTACTTATTT
Found at i:10440940 original size:3 final size:3
Alignment explanation
Indices: 10440927--10440981 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
10440917 ATTACCTTAT
** *
10440927 TTA TT- TTA TTA TTA TTA TGC TT- TGA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10440973 TTG TTA TTA
1 TTA TTA TTA
10440982 CATTAGTATT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:10443584 original size:47 final size:47
Alignment explanation
Indices: 10443492--10443584 Score: 105
Period size: 47 Copynumber: 2.0 Consensus size: 47
10443482 CTAAACAACC
* ** * *
10443492 ATAACTCTATATTCAATCATGATAATCATGATAATGTTTTTTAAATT
1 ATAACTCTATATTCAATCAAGATAATCATGATAAAATTATATAAATT
** **
10443539 ATAACTCTATATTCAATCAAGATAATTTTTTTAAAATTATATAAAT
1 ATAACTCTATATTCAATCAAGATAATCATGATAAAATTATATAAAT
10443585 ATTTTCTTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (47 bp):
ATAACTCTATATTCAATCAAGATAATCATGATAAAATTATATAAATT
Found at i:10443587 original size:36 final size:38
Alignment explanation
Indices: 10443515--10443587 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
10443505 CAATCATGAT
* **
10443515 AATCATGATAATGTTTTTTAAATTATAACTCTATATTC
1 AATCAAGATAATGTTTTTTAAATTATAACTAAATATTC
10443553 AATCAAGATAAT-TTTTTTAAAATTAT-A-TAAATATT
1 AATCAAGATAATGTTTTTT-AAATTATAACTAAATATT
10443588 TTCTTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 6 0.19
37 7 0.23
38 18 0.58
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (38 bp):
AATCAAGATAATGTTTTTTAAATTATAACTAAATATTC
Found at i:10445870 original size:3 final size:3
Alignment explanation
Indices: 10445862--10445979 Score: 87
Period size: 3 Copynumber: 38.7 Consensus size: 3
10445852 AATTTAAAAT
* * *
10445862 TAA TAA TAA TAA TAA TAA TAA TACGC TAA TAA TGA TAA TAA TAA GAA
1 TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA
* ** * * *
10445909 TAA TGA T-A TGT TAA TAA TAA T-A TGAA TAG TAA TAA AAGA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA-A TAA TAA
* *
10445954 TAA TAA TAA TAA TAG TAA TAC TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
10445980 TTAAACTAAT
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
2 4 0.04
3 79 0.89
4 4 0.04
5 2 0.02
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:10448829 original size:12 final size:12
Alignment explanation
Indices: 10448812--10448837 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10448802 TTTGTTTAGT
10448812 ATGAAATATAAA
1 ATGAAATATAAA
10448824 ATGAAATATAAA
1 ATGAAATATAAA
10448836 AT
1 AT
10448838 TAATTAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (12 bp):
ATGAAATATAAA
Found at i:10451811 original size:24 final size:24
Alignment explanation
Indices: 10451784--10451839 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
10451774 TATATTCTAA
* *
10451784 TTATATTTTATAAATAATTAATAT
1 TTATATTTTAAAAATAATTAAAAT
* *
10451808 TTAT-TACTTAAAAATATTTAAAAT
1 TTATAT-TTTAAAAATAATTAAAAT
10451832 TTATATTT
1 TTATATTT
10451840 CATATATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
23 1 0.04
24 23 0.92
25 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATATTTTAAAAATAATTAAAAT
Found at i:10457580 original size:5 final size:5
Alignment explanation
Indices: 10457572--10457671 Score: 184
Period size: 5 Copynumber: 20.2 Consensus size: 5
10457562 AATGAAATGA
*
10457572 GATAT GATAT GATAT GATAT GATAT GATAA GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT
10457622 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT -ATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT
10457671 G
1 G
10457672 TGAATTGGTT
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
4 4 0.04
5 88 0.96
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:10459093 original size:18 final size:19
Alignment explanation
Indices: 10459067--10459106 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10459057 AAAATTTACA
*
10459067 AAAGAAGAAGATAG-AAAG
1 AAAGAAGAAGAAAGAAAAG
*
10459085 AAAGGAGAAGAAAGAAAAG
1 AAAGAAGAAGAAAGAAAAG
10459104 AAA
1 AAA
10459107 AGGTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (19 bp):
AAAGAAGAAGAAAGAAAAG
Found at i:10465510 original size:13 final size:13
Alignment explanation
Indices: 10465492--10465544 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 13
10465482 TTTGGTATTT
10465492 ATTTTATTTTCAA
1 ATTTTATTTTCAA
*
10465505 ATTTTATTTTTTAAA
1 ATTTTA--TTTTCAA
*
10465520 ATATATTATTTTCAT
1 AT-T-TTATTTTCAA
10465535 ATTTTATTTT
1 ATTTTATTTT
10465545 TTATATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 13 0.39
14 1 0.03
15 15 0.45
16 1 0.03
17 3 0.09
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTTATTTTCAA
Found at i:10465513 original size:30 final size:29
Alignment explanation
Indices: 10465487--10465557 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
10465477 TATATTTTGG
10465487 TATTTATTTTATTTTCAAATTTTATTTTT
1 TATTTATTTTATTTTCAAATTTTATTTTT
** * *
10465516 TAAAATATATTATTTTCATATTTTATTTTT
1 T-ATTTATTTTATTTTCAAATTTTATTTTT
10465546 TATATTATTTTA
1 TAT-TTATTTTA
10465558 GCACATAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 2 0.06
30 31 0.94
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (29 bp):
TATTTATTTTATTTTCAAATTTTATTTTT
Found at i:10465550 original size:14 final size:14
Alignment explanation
Indices: 10465491--10465551 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
10465481 TTTTGGTATT
*
10465491 TATTTTA-TTTTCA
1 TATTTTATTTTTTA
*
10465504 AATTTTATTTTTTA
1 TATTTTATTTTTTA
* * *
10465518 AAATATATTATTTTCA
1 TATTTTATT-TTTT-A
10465534 TATTTTATTTTTTA
1 TATTTTATTTTTTA
10465548 TATT
1 TATT
10465552 ATTTTAGCAC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 6 0.16
14 17 0.45
15 8 0.21
16 7 0.18
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTATTTTTTA
Found at i:10465650 original size:150 final size:147
Alignment explanation
Indices: 10465489--10465814 Score: 544
Period size: 150 Copynumber: 2.2 Consensus size: 147
10465479 TATTTTGGTA
* *
10465489 TTTATTTTATTTTCAAATTTTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTAT
* *
10465554 TTTAGCACATAATGTTTCAAATGTATTGTTTTTGTATTTTTTATATTAATTTAGTAAAAAAACTC
66 TTTAGCACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGT-AAAAAACTC
* *
10465619 TGATTTTGGCCGTTTGTTTT
129 TAATTTTGGCCGTTT-ATTT
*
10465639 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTAT
*
10465704 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTA
66 TTTAGCACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTA
10465769 ATTTTGGCCGTTTATTT
131 ATTTTGGCCGTTTATTT
*
10465786 TTTATTTTATTTTCGGATTTTATTTTTTA
1 TTTATTTTATTTTCAGATTTTATTTTTTA
10465815 TTATTGTTTT
Statistics
Matches: 167, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
147 31 0.19
148 23 0.14
149 19 0.11
150 94 0.56
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.60
Consensus pattern (147 bp):
TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTAT
TTTAGCACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTA
ATTTTGGCCGTTTATTT
Found at i:10465809 original size:117 final size:116
Alignment explanation
Indices: 10465676--10465930 Score: 397
Period size: 118 Copynumber: 2.2 Consensus size: 116
10465666 TAAAATATAC
*
10465676 TATTTTCGTATTTTATTTTTTA-TATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
1 TATTTTCGGATTTTATTTTTTATTATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
* * * * *
10465740 TTTTTATATTAATTTAG-TAAAAAACTCTAATTTTGGCCGTTTATTTTTTATTT
66 TTTTTATATTAATTTAGAAAAAAAACTATAATTTTGACC-CTT-TTTTAT-TTT
*
10465793 TATTTTCGGATTTTATTTTTTATTATTGTTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
1 TATTTTCGGATTTTATTTTTTATTATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
*
10465858 TTTTTATATTAATTTAGAAAAAAAACTATGATTTTGACCCTTTTTTATTTT
66 TTTTTATATTAATTTAGAAAAAAAACTATAATTTTGACCCTTTTTTATTTT
10465909 TATTTTCGGATTTTATTTTTTA
1 TATTTTCGGATTTTATTTTTTA
10465931 AAATATACTA
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
116 25 0.20
117 26 0.20
118 60 0.47
119 17 0.13
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (116 bp):
TATTTTCGGATTTTATTTTTTATTATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
TTTTTATATTAATTTAGAAAAAAAACTATAATTTTGACCCTTTTTTATTTT
Found at i:10465971 original size:146 final size:144
Alignment explanation
Indices: 10465793--10466639 Score: 1318
Period size: 146 Copynumber: 5.9 Consensus size: 144
10465783 TTTTTTATTT
* *
10465793 TATTTTCGGATTTTATTTTTTATTATTGTTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
1 TATTTTCGTATTTTATTTTTTA-TATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
* * * * *
10465858 TTTTTATATTAATTTAGAAAAAAAACTATGATTTTGACCCTTTTTTATTTTTATTTTCGGATTTT
65 TTTTTATATTAATTTAG-TAAAAAACTCTGATTTTGGCCATTTTTTATTTTTATTTTTGGATTTT
10465923 ATTTTTTAAAATATAC
129 ATTTTTTAAAATATAC
10465939 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTT
1 TATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
** * *
10466002 TTTTTATATTAATTTAGTAAAAATTTGTGA-TTTGGCCATTTTTTAATTTTATTTTTGGATTTTA
65 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTTTTATTTTTATTTTTGGATTTTA
10466066 TTTTTTAAAATATAC
130 TTTTTTAAAATATAC
*
10466081 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTTT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTT
* *
10466146 TTTTATATTAATTTAGTAAAAAAATCTGATTTTGGCCATTTATTTTTATTTTATTTTTGGATTTT
66 TTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTT-TTTAT-TTTTATTTTTGGATTTT
*
10466211 ATTTTTCAAAATATAC
129 ATTTTTTAAAATATAC
10466227 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTC--ATGTATTATTTTAG-T
1 TATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
* * *
10466289 TTTTTATATTAATTTAGTAAAAATCTGTGATTTTGGCCATTTTTTAATTTTATTTTTGGATTTTA
65 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTTTTATTTTTATTTTTGGATTTTA
10466354 TTTTTTAAAATATAC
130 TTTTTTAAAATATAC
*
10466369 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTT
1 TATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
*
10466434 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTATTTTTATTTTATTTTTGGATTT
65 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTT-TTTAT-TTTTATTTTTGGATTT
*
10466499 TATTTTTCAAAATATAC
128 TATTTTTTAAAATATAC
* *
10466516 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCATATGTATTATTTTAGTAT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTT
* *
10466581 ATTTATATTAATTTAGT-AAAAACTCTGATTTTGGCC--TTTTTA-TTTTATTTTCGGATTTT
66 TTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTTTTATTTTTATTTTTGGATTTT
10466640 TTAAAATATA
Statistics
Matches: 653, Mismatches: 36, Indels: 30
0.91 0.05 0.04
Matches are distributed among these distances:
140 16 0.02
141 30 0.05
142 141 0.22
143 57 0.09
144 98 0.15
145 77 0.12
146 150 0.23
147 84 0.13
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.59
Consensus pattern (144 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTT
TTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTTTTATTTTTATTTTTGGATTTTAT
TTTTTAAAATATAC
Found at i:10466024 original size:262 final size:261
Alignment explanation
Indices: 10465525--10466072 Score: 820
Period size: 267 Copynumber: 2.1 Consensus size: 261
10465515 TTAAAATATA
** * *
10465525 TTATTTTCATATTTTATTTTTTATATTATTTTAGCACATAATGTTTCAAATGTATTGTTTTTGTA
1 TTATTTTCGGATTTTATTTTTTATATTATTTTAGCACATAATGTTTCAAATGTATTATTTTAGTA
* * * * *
10465590 TTTTTTATATTAATTTAGTAAAAAAACTCTGATTTTGGCCGTTTGTTTTTTTATTTTATTTTCAG
66 TTTTTTATATTAATTTAGAAAAAAAACTATGATTTTGACCG-CTGTTTTTATATTTTATTTTCAG
10465655 ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTT
130 ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTT
10465720 TCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTAATTTTGGCCGTTTATT
195 TC-AATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTAA-TTTGGCC----ATT
10465785 TTTT-ATT
254 TTTTAATT
* *
10465792 TTATTTTCGGATTTTATTTTTTATTATTGTTTTAGTACATAATGTTTCAAATGTATTATTTTAGT
1 TTATTTTCGGATTTTATTTTTTA-TATTATTTTAGCACATAATGTTTCAAATGTATTATTTTAGT
*
10465857 -TTTTTTATATTAATTTAGAAAAAAAACTATGATTTTGACC-CT-TTTTTAT-TTTTATTTTCGG
65 ATTTTTTATATTAATTTAGAAAAAAAACTATGATTTTGACCGCTGTTTTTATATTTTATTTTCAG
10465918 ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGT
130 ATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGT
** * *
10465983 TTC-ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATTTGTGATTTGGCCATTTTTTA
194 TTCAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTAATTTGGCCATTTTTTA
10466047 ATT
259 ATT
*
10466050 TTATTTTTGGATTTTATTTTTTA
1 TTATTTTCGGATTTTATTTTTTA
10466073 AAATATACTA
Statistics
Matches: 261, Mismatches: 17, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
257 7 0.03
258 25 0.10
261 7 0.03
262 42 0.16
263 47 0.18
264 37 0.14
265 1 0.00
267 58 0.22
268 37 0.14
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (261 bp):
TTATTTTCGGATTTTATTTTTTATATTATTTTAGCACATAATGTTTCAAATGTATTATTTTAGTA
TTTTTTATATTAATTTAGAAAAAAAACTATGATTTTGACCGCTGTTTTTATATTTTATTTTCAGA
TTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTT
CAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTAATTTGGCCATTTTTTAAT
T
Found at i:10466057 original size:13 final size:13
Alignment explanation
Indices: 10466039--10466073 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
10466029 TGATTTGGCC
10466039 ATTTTTTAATTTT
1 ATTTTTTAATTTT
**
10466052 ATTTTTGGATTTT
1 ATTTTTTAATTTT
10466065 ATTTTTTAA
1 ATTTTTTAA
10466074 AATATACTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
ATTTTTTAATTTT
Found at i:10466345 original size:13 final size:13
Alignment explanation
Indices: 10466327--10466361 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
10466317 GATTTTGGCC
10466327 ATTTTTTAATTTT
1 ATTTTTTAATTTT
**
10466340 ATTTTTGGATTTT
1 ATTTTTTAATTTT
10466353 ATTTTTTAA
1 ATTTTTTAA
10466362 AATATACTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
ATTTTTTAATTTT
Found at i:10466467 original size:289 final size:288
Alignment explanation
Indices: 10465793--10466639 Score: 1440
Period size: 288 Copynumber: 2.9 Consensus size: 288
10465783 TTTTTTATTT
* * *
10465793 TATTTTCGGATTTTATTTTTTATTATTGTTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
1 TATTTTCGTATTTTATTTTTTA-TATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTT
* * * * * *
10465858 TTTTTATATTAATTTAGAAAAAAAACTATGATTTTGACCCTTT-TTTAT-TTTTATTTTCGGATT
65 TTTTTATATTAATTTAG-TAAAAAACTCTGATTTTGGCCATTTATTTTTATTTTATTTTTGGATT
*
10465921 TTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTC
129 TTATTTTTCAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTC
*
10465986 ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATTTGTGA-TTTGGCCATTTTTTAATT
194 ATGTATTATTTTAG-TTTTTTATATTAATTTAGTAAAAATCTGTGATTTTGGCCATTTTTTAATT
10466050 TTATTTTTGGATTTTATTTTTTAAAATATAC
258 TTATTTTTGGATTTTATTTTTTAAAATATAC
10466081 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTTT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTTT
*
10466146 TTTTATATTAATTTAGTAAAAAAATCTGATTTTGGCCATTTATTTTTATTTTATTTTTGGATTTT
66 TTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTATTTTTATTTTATTTTTGGATTTT
10466211 ATTTTTCAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAT
131 ATTTTTCAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAT
10466276 GTATTATTTTAGTTTTTTATATTAATTTAGTAAAAATCTGTGATTTTGGCCATTTTTTAATTTTA
196 GTATTATTTTAGTTTTTTATATTAATTTAGTAAAAATCTGTGATTTTGGCCATTTTTTAATTTTA
10466341 TTTTTGGATTTTATTTTTTAAAATATAC
261 TTTTTGGATTTTATTTTTTAAAATATAC
10466369 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTT
1 TATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTT
10466434 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTATTTTTATTTTATTTTTGGATTT
65 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTATTTTTATTTTATTTTTGGATTT
10466499 TATTTTTCAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCA
130 TATTTTTCAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTC-
* *
10466563 TATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAA-CTCTGATTTTGGCC--TTTTT-AT
194 -ATGTATTATTTTAGT-TTTTTATATTAATTTAGTAAAAATCTGTGATTTTGGCCATTTTTTAAT
*
10466624 TTTATTTTCGGATTTT
257 TTTATTTTTGGATTTT
10466640 TTAAAATATA
Statistics
Matches: 536, Mismatches: 16, Indels: 15
0.95 0.03 0.03
Matches are distributed among these distances:
286 20 0.04
287 108 0.20
288 213 0.40
289 145 0.27
290 28 0.05
291 22 0.04
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.59
Consensus pattern (288 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTTT
TTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTATTTTTATTTTATTTTTGGATTTT
ATTTTTCAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAT
GTATTATTTTAGTTTTTTATATTAATTTAGTAAAAATCTGTGATTTTGGCCATTTTTTAATTTTA
TTTTTGGATTTTATTTTTTAAAATATAC
Found at i:10466655 original size:14 final size:15
Alignment explanation
Indices: 10466638--10466668 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
10466628 TTTTCGGATT
10466638 TTTTAAAATATA-TA
1 TTTTAAAATATACTA
10466652 TTTTAAAATATACTA
1 TTTTAAAATATACTA
10466667 TT
1 TT
10466669 AAGCTATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAATATACTA
Found at i:10466687 original size:146 final size:144
Alignment explanation
Indices: 10465808--10466669 Score: 826
Period size: 142 Copynumber: 6.0 Consensus size: 144
10465798 TCGGATTTTA
*
10465808 TTTTTTATTATTGTTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTT
1 TTTTTTA-TATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTT
* * *
10465873 AGAAAAAAAACTATGATTTTGACCCTTTTTTATTTTTATTTTCGGA--TTT----TAT-TTTTTA
65 AG--TAAAAACTCTGATTTTG-GCCTTTTTTATTTTTATTTT-GGATTTTTAAAATATATTTTTA
*
10465931 AAATATACTATTTTCGTATTTTAT
126 AAATATACTATTATCG-----TAT
10465955 TTTTTTATATTATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTA
1 TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTA
* * *
10466018 GTAAAAATTTGTGA-TTTGGCCATTTTTTAATTTTATTTTTGGA--TTT----TAT-TTTTTAAA
66 GTAAAAA-CTCTGATTTTGGCC-TTTTTTATTTTTA-TTTTGGATTTTTAAAATATATTTTTAAA
*
10466075 ATATACTATTTTCGTATTTT
128 ATATACTATTATCGTA---T
*
10466095 ATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTTTTTTTATATTAATTT
1 -TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTT
* * ** * *
10466160 AGTAAAAAAATCTGATTTTGGCC--ATTTATTTTTATTTT--ATTTTTGGATTTTATTTTTCAAA
65 AGT-AAAAACTCTGATTTTGGCCTTTTTTATTTTTATTTTGGATTTTTAAAATATATTTTT-AAA
*
10466221 ATATACTATTTTCGTATTTTAT
128 ATATACTATTATCG-----TAT
10466243 TTTTTTATATTATTTTAGTACATAATGTTTC--ATGTATTATTTTAG-TTTTTTATATTAATTTA
1 TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTA
* *
10466305 GTAAAAATCTGTGATTTTGGCCATTTTTTAATTTTATTTTTGGA--TTT----TAT-TTTTTAAA
66 GTAAAAA-CTCTGATTTTGGCC-TTTTTTATTTTTA-TTTTGGATTTTTAAAATATATTTTTAAA
*
10466363 ATATACTATTTTCGTATTTTAT
128 ATATACTATTATCG-----TAT
*
10466385 TTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTA
1 TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTA
* ** * *
10466450 GTAAAAAACTCTGATTTTGGCC--ATTTATTTTTATTTT--ATTTTTGGATTTTATTTTTCAAAA
66 GT-AAAAACTCTGATTTTGGCCTTTTTTATTTTTATTTTGGATTTTTAAAATATATTTTT-AAAA
*
10466511 TATACTATTTTCGTATTTT
129 TATACTATTATCGTA---T
* * *
10466530 ATTTTTTATATTATTTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTT
1 -TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTT
10466595 AGTAAAAACTCTGATTTTGGCC-TTTTTA-TTTTATTTTCGGATTTTTTAAAATATATATTTTAA
65 AGTAAAAACTCTGATTTTGGCCTTTTTTATTTTTATTTT-GGA-TTTTTAAAATATAT-TTTTAA
10466658 AATATACTATTA
127 AATATACTATTA
10466670 AGCTATTCTT
Statistics
Matches: 629, Mismatches: 33, Indels: 104
0.82 0.04 0.14
Matches are distributed among these distances:
137 2 0.00
138 1 0.00
139 1 0.00
140 8 0.01
141 48 0.08
142 118 0.19
143 56 0.09
144 94 0.15
145 82 0.13
146 117 0.19
147 63 0.10
148 9 0.01
149 23 0.04
150 5 0.01
151 2 0.00
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (144 bp):
TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTA
GTAAAAACTCTGATTTTGGCCTTTTTTATTTTTATTTTGGATTTTTAAAATATATTTTTAAAATA
TACTATTATCGTAT
Found at i:10467135 original size:6 final size:6
Alignment explanation
Indices: 10467126--10467162 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
10467116 CTTCTCCTTC
*
10467126 TCTTTT TCTTTT TCTTTC TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
10467163 TCTTCCCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TCTTTT
Found at i:10467146 original size:18 final size:18
Alignment explanation
Indices: 10467123--10467160 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
10467113 GTTCTTCTCC
10467123 TTCTCTTTTTCTTTTTCT
1 TTCTCTTTTTCTTTTTCT
10467141 TTCTCTTTTTCTTTTTCT
1 TTCTCTTTTTCTTTTTCT
10467159 TT
1 TT
10467161 TTTCTTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTCTCTTTTTCTTTTTCT
Found at i:10467261 original size:3 final size:3
Alignment explanation
Indices: 10467192--10467231 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
10467182 CCTCCTCCTC
10467192 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-T CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
10467232 CTTTCTCTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:10467357 original size:22 final size:22
Alignment explanation
Indices: 10467329--10467373 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10467319 CAAAAGAAAA
* * *
10467329 GGCAGTGGGTAGTCCCGTCGGT
1 GGCAGTGAGCAGTCCCATCGGT
10467351 GGCAGTGAGCAGTCCCATCGGT
1 GGCAGTGAGCAGTCCCATCGGT
10467373 G
1 G
10467374 CAGAGCAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.42, T:0.20
Consensus pattern (22 bp):
GGCAGTGAGCAGTCCCATCGGT
Found at i:10468973 original size:20 final size:20
Alignment explanation
Indices: 10468928--10468973 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
10468918 GCATTTATAT
*
10468928 AAAAATTTTATATTTAAAAA
1 AAAAATTTCATATTTAAAAA
10468948 ATAAAATTTCATATTTAAAAGA
1 A-AAAATTTCATATTTAAAA-A
10468970 AAAA
1 AAAA
10468974 GAGTGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 20 0.87
22 2 0.09
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATTTCATATTTAAAAA
Found at i:10476532 original size:6 final size:7
Alignment explanation
Indices: 10476513--10476538 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10476503 AATAAATATA
10476513 TATTTTT
1 TATTTTT
10476520 TATTTTT
1 TATTTTT
10476527 TATTTTT
1 TATTTTT
10476534 TATTT
1 TATTT
10476539 GATATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:10479263 original size:25 final size:26
Alignment explanation
Indices: 10479217--10479265 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
10479207 TTAAAAAAAT
***
10479217 ATTTTTATATTTTTATGGTTTTAATA
1 ATTTTTATATTTTTAAAATTTTAATA
10479243 ATTTTTA-ATTTTTAAAATTTTAA
1 ATTTTTATATTTTTAAAATTTTAA
10479266 AAAATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
ATTTTTATATTTTTAAAATTTTAATA
Found at i:10480456 original size:24 final size:24
Alignment explanation
Indices: 10480410--10480457 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10480400 CAAACCCCAT
* **
10480410 TTTTCTCTTCTTCCACACCCCAAA
1 TTTTCTCTTCTTCCAAAAACCAAA
*
10480434 TTTTCTCTTCTTCTAAAAACCAAA
1 TTTTCTCTTCTTCCAAAAACCAAA
10480458 AGAAAAAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTTCTCTTCTTCCAAAAACCAAA
Found at i:10481351 original size:20 final size:20
Alignment explanation
Indices: 10481326--10481366 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
10481316 TAAATAGAAA
10481326 TATTTAAAAATCGCCAACTT
1 TATTTAAAAATCGCCAACTT
*
10481346 TATTTAAAAATCTCCAACTT
1 TATTTAAAAATCGCCAACTT
10481366 T
1 T
10481367 TTAAGAAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (20 bp):
TATTTAAAAATCGCCAACTT
Found at i:10484181 original size:25 final size:24
Alignment explanation
Indices: 10484135--10484181 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
10484125 TTTAATTTGA
* *
10484135 TTTAAATATTTATTTATTTTATTT
1 TTTAAATATTTATATATATTATTT
*
10484159 TTTAATTATCTTATATATATTAT
1 TTTAAATAT-TTATATATATTAT
10484182 AATTATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTAAATATTTATATATATTATTT
Found at i:10484577 original size:20 final size:20
Alignment explanation
Indices: 10484531--10484583 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
10484521 TTTTCTTTTT
10484531 TATAAAAAA-TATAAAAAAA
1 TATAAAAAATTATAAAAAAA
* * **
10484550 TTTTAAAAATTATAAAATTA
1 TATAAAAAATTATAAAAAAA
10484570 TATAAAAAATTATA
1 TATAAAAAATTATA
10484584 GAATAATTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TATAAAAAATTATAAAAAAA
Found at i:10485071 original size:12 final size:12
Alignment explanation
Indices: 10485039--10485072 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10485029 ATTTTATCTT
10485039 AAATTTAATATTA
1 AAATTTAA-ATTA
10485052 AAA-TTAAATTA
1 AAATTTAAATTA
10485063 AAATTTAAAT
1 AAATTTAAAT
10485073 ATATAACGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.35
12 10 0.50
13 3 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAATTTAAATTA
Found at i:10486652 original size:17 final size:17
Alignment explanation
Indices: 10486632--10486664 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10486622 CACTTCAATT
10486632 TAAAAAATATTTTAATA
1 TAAAAAATATTTTAATA
10486649 TAAAAAATATTTTAAT
1 TAAAAAATATTTTAAT
10486665 TTTATAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAAAATATTTTAATA
Found at i:10488194 original size:30 final size:30
Alignment explanation
Indices: 10488160--10488245 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 30
10488150 TCTTTTATAA
*
10488160 AAATAACCTTAAAATTTTAATTAATTATGT
1 AAATAACCTTAAAATTTTAATTAAATATGT
* *** *
10488190 AAATAA-TTTACTTTTTTTTATTAAATATGT
1 AAATAACCTTA-AAATTTTAATTAAATATGT
*
10488220 AAATAACC-TAAAATTTATAATAAAAT
1 AAATAACCTTAAAATTT-TAATTAAAT
10488246 TTAGTGGAGC
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
29 6 0.15
30 35 0.85
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (30 bp):
AAATAACCTTAAAATTTTAATTAAATATGT
Found at i:10488832 original size:22 final size:22
Alignment explanation
Indices: 10488791--10488849 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
10488781 TTATCATATA
10488791 AAAAGATAAAAA--TAACTTTAT
1 AAAA-ATAAAAATTTAACTTTAT
*
10488812 AAAAATAAAAATTTAATTTTAT
1 AAAAATAAAAATTTAACTTTAT
*
10488834 ACAAATTAAATAATTT
1 A-AAAATAAA-AATTT
10488850 GTATAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 7 0.22
21 4 0.12
22 9 0.28
23 7 0.22
24 5 0.16
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAAATAAAAATTTAACTTTAT
Found at i:10490446 original size:29 final size:29
Alignment explanation
Indices: 10490399--10490505 Score: 142
Period size: 29 Copynumber: 3.7 Consensus size: 29
10490389 CATAAATGCT
* *
10490399 TCATATATCAGAATTAACCACAAAGACTC
1 TCATATAACAGAATCAACCACAAAGACTC
* * * *
10490428 ACATATAACAAAATCAACCCCAAAGGCTC
1 TCATATAACAGAATCAACCACAAAGACTC
*
10490457 TCATATAGCAGAATCAACCACAAAGACTC
1 TCATATAACAGAATCAACCACAAAGACTC
*
10490486 TCATATAACAGAATTAACCA
1 TCATATAACAGAATCAACCA
10490506 AAAATGCTCC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.47, C:0.26, G:0.07, T:0.20
Consensus pattern (29 bp):
TCATATAACAGAATCAACCACAAAGACTC
Found at i:10491387 original size:54 final size:54
Alignment explanation
Indices: 10491284--10491387 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 54
10491274 CTAAATGATA
* * **
10491284 GATCACATAAACTCATCAAGATCTGTACATTTGACTCATTCCTCTTTCCACTTT
1 GATCACAGAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCACTTT
10491338 GATCACAGAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCA
1 GATCACAGAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCA
10491388 TCGAGTAGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.33
Consensus pattern (54 bp):
GATCACAGAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCACTTT
Found at i:10499333 original size:15 final size:15
Alignment explanation
Indices: 10499313--10499346 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10499303 GTATGTGTAT
*
10499313 TTTAGTTAGTTATAC
1 TTTAGTTACTTATAC
*
10499328 TTTAGTTACTTTTAC
1 TTTAGTTACTTATAC
10499343 TTTA
1 TTTA
10499347 TTATTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (15 bp):
TTTAGTTACTTATAC
Found at i:10501659 original size:29 final size:31
Alignment explanation
Indices: 10501605--10501662 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
10501595 GTGTGTAATT
10501605 ACACGAGCAATTCTAGTAGGCCGTGTGCCCC
1 ACACGAGCAATTCTAGTAGGCCGTGTGCCCC
* *
10501636 ACACGAGC-A-TCTAGTTGGCTGTGTGCC
1 ACACGAGCAATTCTAGTAGGCCGTGTGCC
10501663 AGGTCGTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
30 1 0.04
31 8 0.32
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.22
Consensus pattern (31 bp):
ACACGAGCAATTCTAGTAGGCCGTGTGCCCC
Found at i:10506788 original size:21 final size:21
Alignment explanation
Indices: 10506740--10506780 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10506730 GAAGAAGAAC
*
10506740 AAAAAAAGAAAAGAACGTGAA
1 AAAAAAAGAAAAGAACGTAAA
10506761 AAAAAAAGAAAA-AA-GTAAA
1 AAAAAAAGAAAAGAACGTAAA
10506780 A
1 A
10506781 TAACAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (21 bp):
AAAAAAAGAAAAGAACGTAAA
Found at i:10519725 original size:15 final size:16
Alignment explanation
Indices: 10519705--10519744 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
10519695 CTGTTCATAT
10519705 TTTATTTTAT-ATGT-A
1 TTTATTTTATAAT-TAA
10519720 TTTA-TTTATAATTAA
1 TTTATTTTATAATTAA
10519735 TTTATTTTAT
1 TTTATTTTAT
10519745 TCGCTAACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.27
15 11 0.50
16 5 0.23
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTATTTTATAATTAA
Found at i:10529259 original size:43 final size:43
Alignment explanation
Indices: 10529127--10529265 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 43
10529117 TCCCTAACTC
10529127 ACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCTT
1 ACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCTT
* ** ** * * * * *
10529170 ACAC--GAGTGTGTATTTCCTCAAACGGTCATGTCCCTAACTC--
1 ACACGGGCGTGTGCCTTAGC-CACACGATCGTCTGCCT-ACTCTT
10529211 ACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCTT
1 ACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCTT
*
10529254 ACACGGGTGTGT
1 ACACGGGCGTGT
10529266 ATTTTCTCAC
Statistics
Matches: 69, Mismatches: 21, Indels: 12
0.68 0.21 0.12
Matches are distributed among these distances:
41 17 0.25
42 24 0.35
43 28 0.41
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.27
Consensus pattern (43 bp):
ACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCTT
Found at i:10529306 original size:84 final size:84
Alignment explanation
Indices: 10529104--10529286 Score: 330
Period size: 84 Copynumber: 2.2 Consensus size: 84
10529094 CATGACCTAT
10529104 TCACACGGTCATGTCCCTAACTCACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCT
1 TCACACGGTCATGTCCCTAACTCACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCT
10529169 TACACGAGTGTGTATTTCC
66 TACACGAGTGTGTATTTCC
*
10529188 TCAAACGGTCATGTCCCTAACTCACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCT
1 TCACACGGTCATGTCCCTAACTCACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCT
* *
10529253 TACACGGGTGTGTATTTTC
66 TACACGAGTGTGTATTTCC
*
10529272 TCACACGGACATGTC
1 TCACACGGTCATGTC
10529287 TCTCCCTCAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 94 1.00
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (84 bp):
TCACACGGTCATGTCCCTAACTCACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCT
TACACGAGTGTGTATTTCC
Found at i:10529986 original size:24 final size:24
Alignment explanation
Indices: 10529954--10530002 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
10529944 GAGAGGTGTG
*
10529954 TTAGCTGGATGGGCGGGTTTTTAC
1 TTAGCTGGATAGGCGGGTTTTTAC
*
10529978 TTAGCTGGATAGGTGGGTTTTTAC
1 TTAGCTGGATAGGCGGGTTTTTAC
10530002 T
1 T
10530003 ACTTGACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.10, G:0.35, T:0.41
Consensus pattern (24 bp):
TTAGCTGGATAGGCGGGTTTTTAC
Found at i:10532799 original size:21 final size:21
Alignment explanation
Indices: 10532773--10532818 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10532763 GTCCCTGACT
10532773 CACACGGGCGTGTGCCATAAC
1 CACACGGGCGTGTGCCATAAC
* * *
10532794 CACACGGTCGTGTGCCTTAGC
1 CACACGGGCGTGTGCCATAAC
10532815 CACA
1 CACA
10532819 TAGTCATGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.17
Consensus pattern (21 bp):
CACACGGGCGTGTGCCATAAC
Found at i:10532828 original size:21 final size:21
Alignment explanation
Indices: 10532783--10532852 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
10532773 CACACGGGCG
* * * *
10532783 TGTGCCATAACCACACGGTCG
1 TGTGCCTTAGCCACACAGTCA
*
10532804 TGTGCCTTAGCCACATAGTCA
1 TGTGCCTTAGCCACACAGTCA
*
10532825 TGTGCCTTAGCCACACAGTCG
1 TGTGCCTTAGCCACACAGTCA
10532846 TGTGCCT
1 TGTGCCT
10532853 CCTTTCACAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (21 bp):
TGTGCCTTAGCCACACAGTCA
Found at i:10535174 original size:81 final size:81
Alignment explanation
Indices: 10535035--10535191 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
10535025 TTTAGCGGTG
* * * * *
10535035 TCAATAGCGGCGTTTTTGTTAACACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTTGTTAAAA
1 TCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTCTTTTGGTAAAA
*
10535100 CGACGCTAAAAATAGA
66 CGACACTAAAAATAGA
* *
10535116 TCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCG-CTTTTGGTAAA
1 TCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA-ACAGAGCAATAGCGGCGTCTTTTGGTAAA
*
10535180 ACGCCACTAAAA
65 ACGACACTAAAA
10535192 GTCATATAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
81 51 0.77
82 15 0.23
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (81 bp):
TCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTCTTTTGGTAAAA
CGACACTAAAAATAGA
Found at i:10535192 original size:41 final size:41
Alignment explanation
Indices: 10535036--10535195 Score: 198
Period size: 41 Copynumber: 3.9 Consensus size: 41
10535026 TTAGCGGTGT
* * * *
10535036 CAATAGCGGCGTTTTTGTTAACACGCCGCTAAAA-ACAGAG
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAG
* * * * *
10535076 CAATAGCGGCGTTTTTTGTTAAAACGACGCTAAAAAT-AGAT
1 CAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAGTCAGAG
*
10535117 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAG
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAG
*
10535158 CAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAGTCA
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCA
10535196 TATAACCCCT
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
40 32 0.30
41 73 0.70
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (41 bp):
CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAG
Found at i:10535490 original size:15 final size:15
Alignment explanation
Indices: 10535446--10535496 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
10535436 CGGTTTAATA
*
10535446 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
10535460 TCTATAGTTTAGGGT
1 TTTATGGTTTAAGGT
10535475 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
10535490 TTAATGG
1 TTTATGG
10535497 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:10536083 original size:7 final size:7
Alignment explanation
Indices: 10536073--10536131 Score: 59
Period size: 7 Copynumber: 8.3 Consensus size: 7
10536063 CATTAAACCG
10536073 AAATAAA
1 AAATAAA
10536080 AAAT--A
1 AAATAAA
*
10536085 AACTCAAA
1 AAAT-AAA
10536093 AAATAAA
1 AAATAAA
*
10536100 AATTAAA
1 AAATAAA
10536107 AAATAAAA
1 AAAT-AAA
10536115 AAATAAAA
1 AAAT-AAA
10536123 AAATAAA
1 AAATAAA
10536130 AA
1 AA
10536132 CTTAAAAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.09
7 21 0.48
8 19 0.43
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:10536095 original size:13 final size:13
Alignment explanation
Indices: 10536073--10536114 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10536063 CATTAAACCG
10536073 AAAT-AAAAAATA
1 AAATCAAAAAATA
*
10536085 AACTCAAAAAATAA
1 AAATCAAAAAAT-A
*
10536099 AAATTAAAAAATA
1 AAATCAAAAAATA
10536112 AAA
1 AAA
10536115 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.12
13 11 0.44
14 11 0.44
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATCAAAAAATA
Found at i:10536108 original size:8 final size:8
Alignment explanation
Indices: 10536097--10536152 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 8
10536087 CTCAAAAAAT
10536097 AAAAATTA
1 AAAAATTA
10536105 AAAAA-TA
1 AAAAATTA
*
10536112 AAAAAATA
1 AAAAATTA
*
10536120 AAAAAATA
1 AAAAATTA
*
10536128 AAAACTTA
1 AAAAATTA
*
10536136 AAAACTTA
1 AAAAATTA
*
10536144 AAAATTTA
1 AAAAATTA
10536152 A
1 A
10536153 TATTTAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
7 7 0.16
8 37 0.84
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATTA
Found at i:10536152 original size:16 final size:14
Alignment explanation
Indices: 10536076--10536149 Score: 69
Period size: 16 Copynumber: 5.1 Consensus size: 14
10536066 TAAACCGAAA
*
10536076 TAAAAAAT-AAACT
1 TAAAAAATAAAAAT
*
10536089 CAAAAAATAAAAAT
1 TAAAAAATAAAAAT
10536103 TAAAAAATAAAAAAAT
1 TAAAAAAT--AAAAAT
*
10536119 AAAAAAATAAAAACT
1 TAAAAAATAAAAA-T
*
10536134 TAAAAACTTAAAAAT
1 TAAAAA-ATAAAAAT
10536149 T
1 T
10536150 TAATATTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
13 7 0.14
14 16 0.32
15 8 0.16
16 19 0.38
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAAAAATAAAAAT
Found at i:10536244 original size:18 final size:16
Alignment explanation
Indices: 10536223--10536260 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
10536213 TCCAAAAGAG
10536223 AAAAATAAAAAATATGTT
1 AAAAATAAAAAA-AT-TT
10536241 AAAAATAAAAAAATTT
1 AAAAATAAAAAAATTT
10536257 AAAA
1 AAAA
10536261 TTAATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTT
Found at i:10540770 original size:39 final size:38
Alignment explanation
Indices: 10540726--10540805 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 38
10540716 AATTTTTATA
*
10540726 TTTATATCATTCAATATTTTGATAATGAATTTTA-AATTT
1 TTTATATCATTCAAGATTTTGATAAT--ATTTTATAATTT
** * *
10540765 TTTATATTTTTCACGATTTTTATAATATTTTATAATTT
1 TTTATATCATTCAAGATTTTGATAATATTTTATAATTT
10540803 TTT
1 TTT
10540806 TTGAATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 6 0.17
38 8 0.23
39 21 0.60
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (38 bp):
TTTATATCATTCAAGATTTTGATAATATTTTATAATTT
Found at i:10545135 original size:32 final size:32
Alignment explanation
Indices: 10545099--10545163 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
10545089 TGTATGCATT
10545099 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
10545131 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
10545163 T
1 T
10545164 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:10549927 original size:6 final size:6
Alignment explanation
Indices: 10549916--10549940 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10549906 AAACGCCTTC
10549916 TCCCCT TCCCCT TCCCCT TCCCCT T
1 TCCCCT TCCCCT TCCCCT TCCCCT T
10549941 TGGTTGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCCCCT
Found at i:10552827 original size:19 final size:19
Alignment explanation
Indices: 10552803--10552839 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10552793 TCCAAACACC
10552803 AGAAAAGTAAATCATTTTT
1 AGAAAAGTAAATCATTTTT
10552822 AGAAAAGTAAATCATTTT
1 AGAAAAGTAAATCATTTT
10552840 CCAGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (19 bp):
AGAAAAGTAAATCATTTTT
Found at i:10557432 original size:60 final size:60
Alignment explanation
Indices: 10557337--10557481 Score: 218
Period size: 60 Copynumber: 2.4 Consensus size: 60
10557327 GCGTCTTAAA
* ** **
10557337 ACCAAGGATGGATTTGAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGTGATTATAATT
1 ACCAAGGGTGGATTCAAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGCAATTATAATT
* * *
10557397 ACCAAGGGTGGATTCAAGTTGAAAACCCAACTAGTGGAGCTAGAATGTGCAATTATGATT
1 ACCAAGGGTGGATTCAAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGCAATTATAATT
10557457 ACCAAGGGTGGATTCAAGTTGAAAA
1 ACCAAGGGTGGATTCAAGTTGAAAA
10557482 TCCTATATGT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 77 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.26
Consensus pattern (60 bp):
ACCAAGGGTGGATTCAAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGCAATTATAATT
Found at i:10557762 original size:76 final size:75
Alignment explanation
Indices: 10557683--10557934 Score: 285
Period size: 76 Copynumber: 3.3 Consensus size: 75
10557673 TTTATTTAAA
* * * * *
10557683 AAAAATCAAATATGTTTTCAAGAAATGGGTCGAGCCTCGAGATTGCTATTGAGGTCTTTTAATTT
1 AAAAATCGAATATGTTTTCAAGAAATGGGTCGAGCCTTGAGATTGCTGTTGAGGTCTTTTAGTTA
10557748 TCATTTTATC
66 TCATTTTATC
* * ** **
10557758 AAAAATCGAAT-TCATTTT-AAGAAATGGGTTGAGCCTTGAGATTATTGTCAAGGTCTTTTTAGT
1 AAAAATCGAATAT-GTTTTCAAGAAATGGGTCGAGCCTTGAGATTGCTGTTGAGGTC-TTTTAGT
*
10557821 TGTCATTTTATC
64 TATCATTTTATC
* * *
10557833 AAAAATTGAATATGTTTTCAAGAAATGGATCGAGCCTTGAGATTGAC-GTTGAGGTCCTTTCAGT
1 AAAAATCGAATATGTTTTCAAGAAATGGGTCGAGCCTTGAGATTG-CTGTTGAGGT-CTTTTAGT
*
10557897 TATCATTTTACC
64 TATCATTTTATC
* *
10557909 AAAAATTGAATTTGTTTTCAAGAAAT
1 AAAAATCGAATATGTTTTCAAGAAAT
10557935 AAGCTAAGCT
Statistics
Matches: 148, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
74 31 0.21
75 45 0.30
76 71 0.48
77 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (75 bp):
AAAAATCGAATATGTTTTCAAGAAATGGGTCGAGCCTTGAGATTGCTGTTGAGGTCTTTTAGTTA
TCATTTTATC
Found at i:10561108 original size:16 final size:16
Alignment explanation
Indices: 10561087--10561136 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
10561077 TATAACATTT
10561087 TCATCATCTAAAGTTG
1 TCATCATCTAAAGTTG
10561103 TCATCA--T----TT-
1 TCATCATCTAAAGTTG
10561112 TCATCATCTAAAGTTG
1 TCATCATCTAAAGTTG
10561128 TCATCATCT
1 TCATCATCT
10561137 TTTCTCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 14
0.66 0.00 0.34
Matches are distributed among these distances:
9 6 0.22
10 2 0.07
11 1 0.04
14 1 0.04
15 2 0.07
16 15 0.56
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (16 bp):
TCATCATCTAAAGTTG
Found at i:10561150 original size:27 final size:25
Alignment explanation
Indices: 10561082--10561134 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
10561072 CAATTTATAA
10561082 CATTTTCATCATCTAAAGTTGTCAT
1 CATTTTCATCATCTAAAGTTGTCAT
10561107 CATTTTCATCATCTAAAGTTGTCAT
1 CATTTTCATCATCTAAAGTTGTCAT
10561132 CAT
1 CAT
10561135 CTTTTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (25 bp):
CATTTTCATCATCTAAAGTTGTCAT
Found at i:10564011 original size:66 final size:67
Alignment explanation
Indices: 10563926--10564054 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 67
10563916 AAGAAGCCTA
* * * *
10563926 AATTTACCAAATCATGCAAT-CTAATATTTTTGGTT-TGAAT-GAATAGATAAACGTTAAAAGCA
1 AATTTACCAAATCAAGCAATGC-AATATTTTT-ATTGTGAATCAAATAGATAAACGTCAAAAGCA
10563988 AGAG
64 AGAG
* *
10563992 AATTTGCCAAATCAAGCAATGCAATATTTTTATTGTTAATCAAATAGATAAACGTCAAAAGCA
1 AATTTACCAAATCAAGCAATGCAATATTTTTATTGTGAATCAAATAGATAAACGTCAAAAGCA
10564055 TGGTGTGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
65 2 0.04
66 31 0.57
67 21 0.39
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (67 bp):
AATTTACCAAATCAAGCAATGCAATATTTTTATTGTGAATCAAATAGATAAACGTCAAAAGCAAG
AG
Found at i:10564242 original size:16 final size:16
Alignment explanation
Indices: 10564217--10564248 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10564207 GATATGTGTC
*
10564217 TTTTTTAAATATTTTA
1 TTTTTGAAATATTTTA
10564233 TTTTTGAAATATTTTA
1 TTTTTGAAATATTTTA
10564249 CTATACTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTTGAAATATTTTA
Found at i:10567140 original size:3 final size:3
Alignment explanation
Indices: 10567134--10567160 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10567124 GATAAAATTG
10567134 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
10567161 AATTGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10576836 original size:21 final size:20
Alignment explanation
Indices: 10576810--10576849 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10576800 TTAATTATTT
10576810 TTTTTAAAAAATTTAAAAGTC
1 TTTTT-AAAAATTTAAAAGTC
* *
10576831 TTTTTATACATTTAAAAGT
1 TTTTTAAAAATTTAAAAGT
10576850 TTAATTACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTTAAAAATTTAAAAGTC
Found at i:10584855 original size:15 final size:14
Alignment explanation
Indices: 10584821--10584858 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
10584811 CTATCCAAAA
10584821 TAATA-TAAAATAT
1 TAATATTAAAATAT
10584834 T-ATATTAATAATAT
1 TAATATTAA-AATAT
10584848 TAATATTAAAA
1 TAATATTAAAA
10584859 ATAAATAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 4 0.18
14 8 0.36
15 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATATTAAAATAT
Found at i:10584861 original size:15 final size:14
Alignment explanation
Indices: 10584827--10584861 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
10584817 AAAATAATAT
10584827 AAAATATTATATTA
1 AAAATATTATATTA
*
10584841 ATAATATTAATATTA
1 AAAATATT-ATATTA
10584856 AAAATA
1 AAAATA
10584862 AATAATCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAATATTATATTA
Found at i:10596085 original size:142 final size:142
Alignment explanation
Indices: 10595750--10596166 Score: 610
Period size: 142 Copynumber: 3.0 Consensus size: 142
10595740 TAGAAAAATG
* * * * *
10595750 AATTATATTATTTCCAAAATAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAC
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * *
10595815 TATGATTGTTTATATTAATAAA-TCTGGTAAAATATATACAATTAATATTTTATATGAATCAAAT
66 TATAACTGTTTATATTAATAAATTC-GGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
10595879 TC----ATATATT
130 TCATATATATATT
* * * *
10595888 AATTATACTCTGTCCTAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * * *
10595953 TATAACTATTTATATTAATAAATTCGGTAAAACATATACACTTAATATTTTGTATTAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
10596018 CATATATATATT
131 CATATATATATT
10596030 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* **
10596095 TATAACTGTTTTTATTAATAAATTATGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
10596160 TATATAT
131 CATATAT
10596167 TAATTATATC
Statistics
Matches: 246, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
138 112 0.46
139 2 0.01
142 132 0.54
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (142 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATATATT
Found at i:10596258 original size:16 final size:16
Alignment explanation
Indices: 10596237--10596268 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10596227 TTTAACTATC
10596237 AAATTAAATTAATTCA
1 AAATTAAATTAATTCA
*
10596253 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
10596269 TGTGACAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTAAATTAATTCA
Found at i:10598554 original size:28 final size:28
Alignment explanation
Indices: 10598522--10598587 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
10598512 TGGAAAGTAG
* * *
10598522 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTAATAGGCCATATGAACGAGA
* *
10598550 TTGGGCCTGATAGGCCATGTGAACGAGA
1 TTGGGCCTAATAGGCCATATGAACGAGA
10598578 TTGGGCCTAA
1 TTGGGCCTAA
10598588 AAGGGTCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATAGGCCATATGAACGAGA
Found at i:10598933 original size:27 final size:27
Alignment explanation
Indices: 10598903--10599374 Score: 523
Period size: 27 Copynumber: 17.6 Consensus size: 27
10598893 TAACAAAGAG
* * *
10598903 AAATTACCTAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
10598930 AAATTA-CTGAAATACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
10598956 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
10598983 AAATTA-CTGAAA-ACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
*
10599008 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
10599035 AAATTATCGAAATATCCC-CAATTTGTG
1 AAATTATCGAAATA-CCCTCGATTTGTA
* *
10599062 GAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
10599089 AAATTA-CTAAAATACCCCCGATTTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
10599116 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
10599143 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
10599170 AAATTATCGAAATATCCTCGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
10599197 AAATTATCAAAACACCC-CTAATTTGTG
1 AAATTATCGAAATACCCTC-GATTTGTA
* *
10599224 AAATTATCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
10599251 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
10599278 AAATTATTGAAATGCCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
10599305 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * * *
10599332 AAATTACCGAAACACCCCCGACTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
10599359 AAATTATCGAAATACC
1 AAATTATCGAAATACC
10599375 TTTGTAGTGT
Statistics
Matches: 382, Mismatches: 50, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
25 14 0.04
26 47 0.12
27 316 0.83
28 5 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:10599385 original size:27 final size:27
Alignment explanation
Indices: 10599328--10599419 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
10599318 ACCCTCGATT
* * * *
10599328 TGTAAAATTACCGAAACACCCCCG-ACT
1 TGTAAAATGACCGAAATACCCCTGTA-G
* * **
10599355 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATGACCGAAATACCCCTGTAG
*
10599382 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATGACCGAAATACCCCTGTAG
*
10599409 GGTAAAATGAC
1 TGTAAAATGAC
10599420 TGTTTTACCC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCCTGTAG
Found at i:10608127 original size:28 final size:28
Alignment explanation
Indices: 10608095--10608196 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
10608085 CTTCGATGTT
* *
10608095 TCGCACACTATGTACCATACTCGATACC
1 TCGCACACTAAGTGCCATACTCGATACC
* * * * ***
10608123 TCGCACGCTAAGTGCTATTCTGGATGTT
1 TCGCACACTAAGTGCCATACTCGATACC
*
10608151 TCGCACACTAAGTGCCATCCTCGATACC
1 TCGCACACTAAGTGCCATACTCGATACC
*
10608179 TTGCACACTAAGTGCCAT
1 TCGCACACTAAGTGCCAT
10608197 TTATATATAT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATACTCGATACC
Found at i:10621064 original size:34 final size:34
Alignment explanation
Indices: 10621009--10621079 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
10620999 GTATGCATTT
10621009 CTGATACTGCCACTGTAATGGGCTAAGGCCCACA
1 CTGATACTGCCACTGTAATGGGCTAAGGCCCACA
* * * *
10621043 CTGATATTGCTACTG-ATATGGGCTTAGGCCCAGA
1 CTGATACTGCCACTGTA-ATGGGCTAAGGCCCACA
10621077 CTG
1 CTG
10621080 TTCAACACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
CTGATACTGCCACTGTAATGGGCTAAGGCCCACA
Found at i:10628763 original size:40 final size:40
Alignment explanation
Indices: 10628540--10628749 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
10628530 TCCTCGTTCA
* * * * *
10628540 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10628579 AATGCCTTCGGGACGTAACCCGGTTTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10628619 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10628659 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10628699 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10628739 AAGGCCTTCGG
1 AATGCCTTCGG
10628750 ATCTTAGTCC
Statistics
Matches: 157, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 34 0.22
40 123 0.78
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10628786 original size:80 final size:80
Alignment explanation
Indices: 10628543--10628802 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
10628533 TCGTTCAAAT
* * * * * * * * *
10628543 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACGTAACCCGGTTTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* * *
10628607 ACAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * * *
10628622 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
10628687 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * **
10628702 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* **
10628766 ATTCGCTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
10628782 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
10628803 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 34 0.22
80 117 0.75
81 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:10628786 original size:120 final size:118
Alignment explanation
Indices: 10628538--10628802 Score: 289
Period size: 120 Copynumber: 2.2 Consensus size: 118
10628528 GCTCCTCGTT
* * * *
10628538 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGT
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGA
* * * * *
10628603 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * * *
10628657 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACGTAACCCGG
** * ** * **
10628722 ATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
10628778 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
10628803 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
119 35 0.29
120 79 0.66
121 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:10646621 original size:50 final size:49
Alignment explanation
Indices: 10646490--10646628 Score: 181
Period size: 49 Copynumber: 2.8 Consensus size: 49
10646480 ACATAGGGTA
*
10646490 TGATGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAAT
1 TGATGCCGACGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAAT
* * * * * *
10646539 TGAGGCTGACGCCACGTCCCAGACATGGTCTTACACTAGCTCTCACATAT
1 TGATGCCGACGCCATGTCCCAGACATGGTCTTACACTAACTATCA-AAAT
*
10646589 CTG-TGCCGACGCCATGTCCCAGACATGATCTTACACTAAC
1 -TGATGCCGACGCCATGTCCCAGACATGGTCTTACACTAAC
10646629 ACCTCTATAC
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 39 0.51
50 35 0.46
51 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (49 bp):
TGATGCCGACGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAAT
Done.