Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 140 of 438
Found at i:41769082 original size:32 final size:32
Alignment explanation
Indices: 41769042--41769102 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
41769032 CCCATGGTTG
*
41769042 TGTGCCGATCATATTA-CAGCTACTGATGGCTT
1 TGTGCCGATCAAATTACCA-CTACTGATGGCTT
41769074 TGTGCCGATCAAATTACCACTACTGATGG
1 TGTGCCGATCAAATTACCACTACTGATGG
41769103 TTGTAAGCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 25 0.93
33 2 0.07
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (32 bp):
TGTGCCGATCAAATTACCACTACTGATGGCTT
Found at i:41779363 original size:40 final size:40
Alignment explanation
Indices: 41779289--41779507 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
41779279 AACCCAAGTA
* *
41779289 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
41779328 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
41779368 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
41779408 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
41779448 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
41779487 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
41779508 GTCATCCGAA
Statistics
Matches: 170, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 36 0.21
40 133 0.78
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:41784014 original size:29 final size:30
Alignment explanation
Indices: 41783979--41784038 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
41783969 TCCTTAACTC
41783979 AAACTTTT-CAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
41784008 AAACTTTTGCATATTTTCACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
41784038 A
1 A
41784039 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:41787307 original size:40 final size:39
Alignment explanation
Indices: 41787256--41787484 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 39
41787246 GGATACAGCT
*
41787256 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATAGTA
**
41787296 GTTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATAGTA
*
41787336 ACTCGCACAAATGCCTTCGGGAATTAGCCCGGAAATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATAGTA
*
41787376 ACTTGCACAAACT-CCTTCGGGACTTAGCCCGGAATTAGT-
1 ACTCGCACAAA-TGCCTTCGGGACTTAGCCCGGAA-TAGTA
*
41787415 ACTCACACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-TAGTA
41787455 ACTCGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
41787485 CGTTATCATC
Statistics
Matches: 173, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 37 0.21
40 133 0.77
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTA
Found at i:41787384 original size:80 final size:79
Alignment explanation
Indices: 41787230--41787484 Score: 347
Period size: 79 Copynumber: 3.2 Consensus size: 79
41787220 AAACCAAGTA
* * * * *
41787230 CCTTCGGGATTTA-ACCGGATACAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAG
*
41787294 T-AGTTCGCACAAATG
65 TAACTT-GCACAAATG
*
41787309 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGAAATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAG
41787374 TAACTTGCACAAACT-
65 TAACTTGCACAAA-TG
* *
41787389 CCTTCGGGACTTAGCCCGGA-ATTAGTACTCACACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATA-TAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAG
*
41787453 TAACTCGCACAAATG
65 TAACTTGCACAAATG
41787468 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
41787485 CGTTATCATC
Statistics
Matches: 159, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
78 1 0.01
79 78 0.49
80 76 0.48
81 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGT
AACTTGCACAAATG
Found at i:41787441 original size:119 final size:120
Alignment explanation
Indices: 41787269--41787484 Score: 366
Period size: 119 Copynumber: 1.8 Consensus size: 120
41787259 CGCTCAAATG
* *
41787269 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATA
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
41787333 GTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGAAATAGTAACTTGCACAAACT
65 GTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGAAATAGTAACTTGCACAAACT
41787389 CCTTCGGGACTTAGCCCGGA-ATTAGTA-CTCACACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAGCTCACACAAATGCCTTCGGGACTTAGCCCGGAATTA
*
41787452 GTAACTCGCACAAATGCCTTCGGGACTTAGCCC
65 GTAACTCGCACAAATGCCTTCGGGAATTAGCCC
41787485 CGTTATCATC
Statistics
Matches: 91, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
119 64 0.70
120 27 0.30
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTCGCACAAATGCCTTCGGGAATTAGCCCGGAAATAGTAACTTGCACAAACT
Found at i:41790350 original size:48 final size:48
Alignment explanation
Indices: 41790288--41790584 Score: 522
Period size: 48 Copynumber: 6.2 Consensus size: 48
41790278 TATATATGTG
*
41790288 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
41790336 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
41790384 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATCTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
41790432 TGTGGTAAAGCTGAATGGCTAGTGTGAAATATCTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
41790480 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
41790528 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
41790576 CGTGGTAAA
1 TGTGGTAAA
41790585 TATGAGATAT
Statistics
Matches: 241, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 241 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:41790593 original size:24 final size:24
Alignment explanation
Indices: 41790561--41790608 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
41790551 GTGAAATATG
41790561 TATGAGATATGTATACGTGGTAAA
1 TATGAGATATGTATACGTGGTAAA
41790585 TATGAGATATGTATACGTGGTAAA
1 TATGAGATATGTATACGTGGTAAA
41790609 GCTGAATGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (24 bp):
TATGAGATATGTATACGTGGTAAA
Found at i:41790618 original size:120 final size:120
Alignment explanation
Indices: 41790465--41790704 Score: 417
Period size: 120 Copynumber: 2.0 Consensus size: 120
41790455 GTGAAATATC
* *
41790465 TATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATACG
1 TATGAGATATGTATACGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATACA
* *
41790530 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAA
66 TGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATACGTGGTAAA
**
41790585 TATGAGATATGTATACGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTATACA
1 TATGAGATATGTATACGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATACA
*
41790650 TGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAA
66 TGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATACGTGGTAAA
41790705 GCCGAATGGC
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 113 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (120 bp):
TATGAGATATGTATACGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATACA
TGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATACGTGGTAAA
Found at i:41790630 original size:72 final size:72
Alignment explanation
Indices: 41790513--41790656 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
41790503 GTGAAATATG
*
41790513 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACA
41790578 TGGTAAA
66 TGGTAAA
*
41790585 TATGAGATATGTATACGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTATACA
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACA
41790650 TGGTAAA
66 TGGTAAA
41790657 GCCGAATGGC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (72 bp):
TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACA
TGGTAAA
Found at i:41790654 original size:48 final size:48
Alignment explanation
Indices: 41790585--41790719 Score: 225
Period size: 48 Copynumber: 2.8 Consensus size: 48
41790575 ACGTGGTAAA
* *
41790585 TATGAGATATGTATACGTGGTAAAGCTGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGCGAAATATG
* *
41790633 TATGAGATATGTATACATGGTAAAGCCGAATGGCTAATGCGAAATATG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGCGAAATATG
*
41790681 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTG
41790720 ATTCGGCTAG
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGCGAAATATG
Found at i:41790695 original size:168 final size:168
Alignment explanation
Indices: 41790417--41790719 Score: 534
Period size: 168 Copynumber: 1.8 Consensus size: 168
41790407 GTGAAATATC
* **
41790417 TATGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATCTATGAGATATGTATATG
1 TATGAGATATGTATACGTGGTAAAGCTGAATGGCTAGTGTGAAATATCTATGAGATATGTATACA
* *
41790482 TGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGC
66 TGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGC
41790547 TAGTGTGAAATATGTATGAGATATGTATACGTGGTAAA
131 TAGTGTGAAATATGTATGAGATATGTATACGTGGTAAA
*
41790585 TATGAGATATGTATACGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTATACA
1 TATGAGATATGTATACGTGGTAAAGCTGAATGGCTAGTGTGAAATATCTATGAGATATGTATACA
* *
41790650 TGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
66 TGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGC
41790715 TAGTG
131 TAGTG
41790720 ATTCGGCTAG
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
168 127 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (168 bp):
TATGAGATATGTATACGTGGTAAAGCTGAATGGCTAGTGTGAAATATCTATGAGATATGTATACA
TGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGC
TAGTGTGAAATATGTATGAGATATGTATACGTGGTAAA
Found at i:41790944 original size:37 final size:37
Alignment explanation
Indices: 41790889--41790991 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
41790879 GGAAATATAT
41790889 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
41790926 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
41790963 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
41790992 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:41791730 original size:12 final size:13
Alignment explanation
Indices: 41791706--41791739 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
41791696 AACGTTCTTT
41791706 ATAAAAAATAATA
1 ATAAAAAATAATA
41791719 ATAAAAAA-AATA
1 ATAAAAAATAATA
41791731 A-AAAAAATA
1 ATAAAAAATA
41791740 TTCAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.30
12 6 0.30
13 8 0.40
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
ATAAAAAATAATA
Found at i:41799250 original size:40 final size:39
Alignment explanation
Indices: 41799199--41799427 Score: 343
Period size: 40 Copynumber: 5.8 Consensus size: 39
41799189 AGATATAGCT
* *
41799199 ACTCGCTCAAATGCCTTTGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATAGTA
**
41799239 GTTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATAGTA
*
41799279 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-GAATAGTA
*
41799319 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT-
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-TAGTA
41799358 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-TAGTA
*
41799398 ACTCGCACAAATGCCTTTGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
41799428 CGTTATCATC
Statistics
Matches: 175, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 40 0.23
40 134 0.77
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTA
Found at i:41799384 original size:119 final size:120
Alignment explanation
Indices: 41799206--41799427 Score: 378
Period size: 119 Copynumber: 1.9 Consensus size: 120
41799196 GCTACTCGCT
* *
41799206 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGG
41799271 -ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTTGCA
66 AAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTTGCA
41799326 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCG
*
41799389 GAATTAGTAACTCGCACAAATGCCTTTGGGACTTAGCCC
65 GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
41799428 CGTTATCATC
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
119 65 0.67
120 32 0.33
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTTGCA
Found at i:41799398 original size:79 final size:79
Alignment explanation
Indices: 41799173--41799427 Score: 347
Period size: 79 Copynumber: 3.2 Consensus size: 79
41799163 AAACCAAGTA
* * * * *
41799173 CCTTCGGGATTTA-ACCAGATATAGCTACTCGCTCAAATGCCTTTGGGACTTAGCCCGG-ATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
*
41799236 GT-AGTTCGCACAAATG
64 GTAACTT-GCACAAATG
* *
41799252 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
41799317 TAACTTGCACAAATG
65 TAACTTGCACAAATG
41799332 CCTTCGGGACTTAGCCCGGA-ATTAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATA-TAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
*
41799396 TAACTCGCACAAATG
65 TAACTTGCACAAATG
*
41799411 CCTTTGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
41799428 CGTTATCATC
Statistics
Matches: 159, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
79 80 0.50
80 75 0.47
81 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
AACTTGCACAAATG
Found at i:41806882 original size:20 final size:20
Alignment explanation
Indices: 41806857--41806927 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
41806847 ATTTTGATAA
**
41806857 ACATGATATGTATGGCATGC
1 ACATGATATGTATGATATGC
*
41806877 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
41806897 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41806917 ACATGAGATGT
1 ACATGATATGT
41806928 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:41807005 original size:23 final size:23
Alignment explanation
Indices: 41806974--41807139 Score: 260
Period size: 23 Copynumber: 7.1 Consensus size: 23
41806964 AGGAAGTGCA
* *
41806974 AAAGAGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
41806997 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
41807020 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
41807043 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
41807067 AAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTATT
41807090 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
41807113 GAAAGGGCTTTTGCCCCAGTTACT
1 -AAAGGGCTTATGCCCCAGTTATT
41807137 AAA
1 AAA
41807140 AGAGGCTAGG
Statistics
Matches: 135, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 92 0.68
24 43 0.32
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:41807046 original size:46 final size:46
Alignment explanation
Indices: 41806974--41807139 Score: 260
Period size: 47 Copynumber: 3.6 Consensus size: 46
41806964 AGGAAGTGCA
* *
41806974 AAAGAGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
41807020 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-T
*
41807067 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
* *
41807113 GAAAGGGCTTTTGCCCCAGTTACTAAA
1 -AAAGGGCTTATGCCCCAGTTATTAAA
41807140 AGAGGCTAGG
Statistics
Matches: 110, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
46 43 0.39
47 67 0.61
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:41807075 original size:24 final size:23
Alignment explanation
Indices: 41806973--41807161 Score: 254
Period size: 23 Copynumber: 8.0 Consensus size: 23
41806963 GAGGAAGTGC
* *
41806973 AAAAGAGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
41806996 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
41807019 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
41807042 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
41807065 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
41807089 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
41807113 GAAAGGGCTTTTGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
41807137 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41807161 A
1 A
41807162 TGATAAAGCA
Statistics
Matches: 152, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
23 88 0.58
24 54 0.36
25 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:41807094 original size:47 final size:47
Alignment explanation
Indices: 41806972--41807160 Score: 256
Period size: 47 Copynumber: 4.0 Consensus size: 47
41806962 GGAGGAAGTG
* * *
41806972 CAAAAGAGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* *
41807019 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
41807065 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
** * *
41807112 TGAAAGGGCTTTTGCCCCAGTTACTAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
41807161 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
46 43 0.33
47 64 0.50
48 11 0.09
49 11 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:41807386 original size:29 final size:29
Alignment explanation
Indices: 41807353--41807412 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
41807343 GTTTACAGTA
41807353 AAGGCTTCGGCCCAGTAATATGAAATATG
1 AAGGCTTCGGCCCAGTAATATGAAATATG
** *
41807382 AAGGCTTCGGCCCAGTGTTATGGAATATG
1 AAGGCTTCGGCCCAGTAATATGAAATATG
41807411 AA
1 AA
41807413 ACATAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (29 bp):
AAGGCTTCGGCCCAGTAATATGAAATATG
Found at i:41813549 original size:17 final size:18
Alignment explanation
Indices: 41813522--41813564 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
41813512 GGCGTGTGAC
*
41813522 CTTTTAAAAGTT-GAAAA
1 CTTTTATAAGTTCGAAAA
* *
41813539 TTTTTATAAGTTCTAAAA
1 CTTTTATAAGTTCGAAAA
41813557 CTTTTATA
1 CTTTTATA
41813565 TGTTATTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (18 bp):
CTTTTATAAGTTCGAAAA
Found at i:41821611 original size:47 final size:47
Alignment explanation
Indices: 41821539--41822076 Score: 797
Period size: 47 Copynumber: 11.3 Consensus size: 47
41821529 CCCTTCGGGA
* * * * * *
41821539 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
41821586 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
41821633 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
41821680 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
41821729 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTCGGC
* *
41821778 CTTATCACATATATATGCACTTTCGCATTCATCACATCGGTCATTCGGC
1 CTTATCACATATATA--CACTTTCACATTCATCACATCGGCCATTCGGC
* * *
41821827 CTTATCTCATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
41821874 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
41821921 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
41821968 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
41822015 CTCATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
41822062 CTTATCACATATATA
1 CTTATCACATATATA
41822077 TATCTCATAC
Statistics
Matches: 450, Mismatches: 35, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
47 317 0.70
49 133 0.30
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:41821617 original size:25 final size:25
Alignment explanation
Indices: 41821589--41821667 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
41821579 ACTCGGCCCT
*
41821589 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
41821614 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
41821636 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
41821661 ATCACAT
1 ATCACAT
41821668 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:41824454 original size:24 final size:24
Alignment explanation
Indices: 41824422--41824627 Score: 333
Period size: 24 Copynumber: 8.6 Consensus size: 24
41824412 TATCTCAAAT
*
41824422 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
41824446 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
41824470 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
41824494 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
41824518 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
41824542 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
41824566 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
41824590 GCACTATGT-TGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
41824613 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
41824628 ACATAATAAG
Statistics
Matches: 175, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
23 22 0.13
24 153 0.87
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:41831695 original size:2 final size:2
Alignment explanation
Indices: 41831690--41831715 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
41831680 CACAATCGGG
41831690 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
41831716 AGTATGCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:41832195 original size:24 final size:24
Alignment explanation
Indices: 41832163--41832369 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
41832153 TATCTCAAAT
*
41832163 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
41832187 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
41832211 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
41832235 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
41832259 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
41832283 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
41832307 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
41832331 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
41832355 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
41832370 ACATAATAAG
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:41836992 original size:2 final size:2
Alignment explanation
Indices: 41836987--41837016 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41836977 CACAATCGGG
41836987 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41837017 AGTATGCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:41837498 original size:24 final size:24
Alignment explanation
Indices: 41837466--41837672 Score: 310
Period size: 24 Copynumber: 8.6 Consensus size: 24
41837456 TATCTCAAAT
*
41837466 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
41837490 GCACTATGTGTGCGA-TTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
41837513 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
41837537 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
41837561 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
41837585 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
41837609 GCACTATGTGTGCGATTTGCTATATA
1 GCACTATGTGTGCGATTTAC--TATG
* *
41837635 G-ACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
41837658 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
41837673 ACATAATAAG
Statistics
Matches: 173, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
23 27 0.16
24 123 0.71
25 18 0.10
26 5 0.03
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:41837693 original size:121 final size:119
Alignment explanation
Indices: 41837466--41837694 Score: 300
Period size: 121 Copynumber: 1.9 Consensus size: 119
41837456 TATCTCAAAT
* *
41837466 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTC
1 GCACTATGTGTGCGATTCACTATAGCACTATGTGTGCGATTACTATAGCACTATGTGTGCGATTC
* ** * *
41837531 ACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
66 ACTATAGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTTACTATG
* *
41837585 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTGCTATATAG-ACTATGTGTGCGA
1 GCACTATGTGTGCGATTCACTATAGCACTATGTGTGCGA-TTAC--TATAGCACTATGTGTGCGA
** *
41837649 TTTGCTATAGCTCTATGTGTGCGAACATAATA-AGCACTATGTGTGC
63 TTCACTATAGCACTATGTGTGCG-ACATAATATAGCACTATGTGTGC
41837695 CACATTCGGT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
119 37 0.39
120 3 0.03
121 45 0.48
122 9 0.10
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (119 bp):
GCACTATGTGTGCGATTCACTATAGCACTATGTGTGCGATTACTATAGCACTATGTGTGCGATTC
ACTATAGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTTACTATG
Found at i:41841378 original size:55 final size:54
Alignment explanation
Indices: 41841291--41841545 Score: 278
Period size: 55 Copynumber: 4.8 Consensus size: 54
41841281 ATTAGGGTTT
*
41841291 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
41841346 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
41841401 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
41841454 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
41841503 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
41841546 GTACCCGTGT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:41841497 original size:108 final size:110
Alignment explanation
Indices: 41841298--41841498 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
41841288 TTTAAGGATA
*
41841298 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
41841363 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
41841408 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
41841470 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
41841499 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:41841640 original size:23 final size:24
Alignment explanation
Indices: 41841614--41841658 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
41841604 AAGGTAAGGT
*
41841614 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
41841637 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
41841659 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:41841758 original size:16 final size:16
Alignment explanation
Indices: 41841737--41841767 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41841727 ATAAATTTGA
41841737 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
41841753 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
41841768 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:41847245 original size:29 final size:29
Alignment explanation
Indices: 41847213--41847285 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
41847203 TGTAATGTAC
* *
41847213 GGCACTAAGTGTGCGAGTTTGGA-CTATAT
1 GGCACTAAGTGTGCGAGCTTGAATC-ATAT
* *
41847242 GGCACTATGTGTGCGGGCTTGAATCATAT
1 GGCACTAAGTGTGCGAGCTTGAATCATAT
41847271 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
41847286 TGATTGAGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTTGAATCATAT
Found at i:41851465 original size:23 final size:24
Alignment explanation
Indices: 41851439--41851483 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
41851429 AAGGTAAGGT
*
41851439 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
41851462 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
41851484 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:41851583 original size:16 final size:16
Alignment explanation
Indices: 41851562--41851592 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41851552 ATAAATTTGA
41851562 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
41851578 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
41851593 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:41857944 original size:20 final size:20
Alignment explanation
Indices: 41857878--41857944 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
41857868 ATTTTGATAA
*
41857878 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41857898 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
41857918 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41857938 ACGTGAT
1 ACATGAT
41857945 GTAATCATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:41858062 original size:46 final size:47
Alignment explanation
Indices: 41857995--41858090 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 47
41857985 AGGAAGTGAA
41857995 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTATT
**
41858041 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTATT
41858088 AAA
1 AAA
41858091 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 23 0.49
47 24 0.51
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTATT
Found at i:41858073 original size:24 final size:24
Alignment explanation
Indices: 41857994--41858097 Score: 167
Period size: 23 Copynumber: 4.4 Consensus size: 24
41857984 GAGGAAGTGA
41857994 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
41858018 -AAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
41858041 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
41858064 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
41858088 AAAAGAGGCT
1 AAAAG-GGCT
41858098 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
23 44 0.59
24 27 0.36
25 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:41858340 original size:31 final size:31
Alignment explanation
Indices: 41858305--41858368 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41858295 CGTTTACAGT
*
41858305 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
41858336 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
41858367 AA
1 AA
41858369 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:41860180 original size:9 final size:9
Alignment explanation
Indices: 41860168--41860224 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
41860158 TTTGATAAAC
41860168 ATGATATGT
1 ATGATATGT
*
41860177 ATGATATGCAC
1 ATGATATG--T
*
41860188 ATGACATGT
1 ATGATATGT
*
41860197 ATGATATGCAC
1 ATGATATG--T
41860208 ATGATATGT
1 ATGATATGT
41860217 ATGATATG
1 ATGATATG
41860225 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:41860191 original size:20 final size:20
Alignment explanation
Indices: 41860166--41860236 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
41860156 ATTTTGATAA
41860166 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41860186 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
41860206 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41860226 ACATGAGATGT
1 ACATGATATGT
41860237 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:41860213 original size:11 final size:11
Alignment explanation
Indices: 41860177--41860231 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
41860167 CATGATATGT
41860177 ATGATATGCAC
1 ATGATATGCAC
* *
41860188 ATGACATG--T
1 ATGATATGCAC
41860197 ATGATATGCAC
1 ATGATATGCAC
*
41860208 ATGATATG--T
1 ATGATATGCAC
41860217 ATGATATGCAC
1 ATGATATGCAC
41860228 ATGA
1 ATGA
41860232 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:41860313 original size:23 final size:23
Alignment explanation
Indices: 41860283--41860449 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
41860273 AGGAAGTGCA
*
41860283 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
41860306 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
** *
41860330 AAAGGGCTTATGCCATAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
41860354 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
41860377 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
41860400 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
41860423 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
41860447 AAA
1 AAA
41860450 AGAGGCTAGG
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 69 0.52
24 63 0.48
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:41860338 original size:24 final size:23
Alignment explanation
Indices: 41860282--41860471 Score: 238
Period size: 24 Copynumber: 8.0 Consensus size: 23
41860272 GAGGAAGTGC
*
41860282 AAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
41860305 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
**
41860328 CAAAAGGGCTTATGCCATAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
41860352 CAAAAGGGCTTATGCCCCAATTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
41860376 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
41860399 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
41860423 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
41860447 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41860471 A
1 A
41860472 TGATAAACCA
Statistics
Matches: 149, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
23 64 0.43
24 75 0.50
25 10 0.07
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:41860350 original size:47 final size:47
Alignment explanation
Indices: 41860281--41860449 Score: 250
Period size: 47 Copynumber: 3.6 Consensus size: 47
41860271 GGAGGAAGTG
*
41860281 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
** * *
41860328 CAAAAGGGCTTATGCCATAGTTATCAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
41860376 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
41860422 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
41860450 AGAGGCTAGG
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 21 0.19
47 68 0.62
48 21 0.19
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:41867835 original size:21 final size:21
Alignment explanation
Indices: 41867809--41867850 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
41867799 CTCTCTCTCT
*
41867809 TTTTTTGTTTAAATTT-TTTTC
1 TTTTTTATTT-AATTTGTTTTC
41867830 TTTTTTATTTAATTTGTTTTC
1 TTTTTTATTTAATTTGTTTTC
41867851 AAATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTTTTATTTAATTTGTTTTC
Found at i:41869070 original size:40 final size:39
Alignment explanation
Indices: 41869009--41869086 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
41868999 TTAGACAAAC
*
41869009 ATTAATGATGTCAAAATTAAGACACATAATTAAA-ACACAT
1 ATTAATGATGTCAAAACTAAG--ACATAATTAAATACACAT
*
41869049 ATTAATGATGTTC-AAACTAAGATATAATTAAATACACA
1 ATTAATGATG-TCAAAACTAAGACATAATTAAATACACA
41869087 AACTAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 10 0.29
39 5 0.15
40 17 0.50
41 2 0.06
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (39 bp):
ATTAATGATGTCAAAACTAAGACATAATTAAATACACAT
Found at i:41870710 original size:16 final size:16
Alignment explanation
Indices: 41870667--41870712 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
41870657 AGTGGGTGTT
41870667 TTATAAGTTAAAATAG
1 TTATAAGTTAAAATAG
*
41870683 TTAATAAATTAATAATA-
1 TT-ATAAGTTAA-AATAG
41870700 TTATAAGTTAAAA
1 TTATAAGTTAAAA
41870713 ACATAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 10 0.38
17 10 0.38
18 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (16 bp):
TTATAAGTTAAAATAG
Found at i:41871656 original size:40 final size:39
Alignment explanation
Indices: 41871601--41871692 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 39
41871591 TCCTAAAAAA
* * *
41871601 GTGCTCCTTG-TAGTACTTTCGTACTCCTGTTAGCACTATG
1 GTGCT-CTTGATAGTACATTCATACTCCTGTTAGCACTA-C
* *
41871641 GTGCTCTTGATAGTACATTCATGCTCTTGTTAGCACTAC
1 GTGCTCTTGATAGTACATTCATACTCCTGTTAGCACTAC
*
41871680 ATGCTCTTGATAG
1 GTGCTCTTGATAG
41871693 CACACTTGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 16 0.36
40 29 0.64
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (39 bp):
GTGCTCTTGATAGTACATTCATACTCCTGTTAGCACTAC
Found at i:41871684 original size:19 final size:19
Alignment explanation
Indices: 41871642--41871695 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
41871632 AGCACTATGG
* *
41871642 TGCTCTTGATAGTACATTCA
1 TGCTCTTGATAGCAC-TACA
*
41871662 TGCTCTTGTTAGCACTACA
1 TGCTCTTGATAGCACTACA
41871681 TGCTCTTGATAGCAC
1 TGCTCTTGATAGCAC
41871696 ACTTGTGCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (19 bp):
TGCTCTTGATAGCACTACA
Found at i:41871803 original size:20 final size:20
Alignment explanation
Indices: 41871714--41871805 Score: 71
Period size: 20 Copynumber: 4.6 Consensus size: 20
41871704 TACTGTTGGA
* *
41871714 ACTACGGTGCTCCTGTTACC
1 ACTACGGTGCTCCTATTAGC
* * *
41871734 ACTATGGTGCACCTACTAGC
1 ACTACGGTGCTCCTATTAGC
*
41871754 ACTACAGG-GCTCCTAATAGC
1 ACTAC-GGTGCTCCTATTAGC
** *
41871774 AC-ATTTGTGCTCCTTTTAGC
1 ACTA-CGGTGCTCCTATTAGC
41871794 ACTACGGTGCTC
1 ACTACGGTGCTC
41871806 TTGATAGCAT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.04
20 49 0.91
21 3 0.06
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (20 bp):
ACTACGGTGCTCCTATTAGC
Found at i:41871813 original size:20 final size:20
Alignment explanation
Indices: 41871631--41871814 Score: 60
Period size: 20 Copynumber: 9.2 Consensus size: 20
41871621 GTACTCCTGT
*
41871631 TAGCACTATGGTGCTCTTGA
1 TAGCACTACGGTGCTCTTGA
* * * *
41871651 TAGTACATTC-ATGCTCTTGT
1 TAGCAC-TACGGTGCTCTTGA
*
41871671 TAGCACTAC-ATGCTCTTGA
1 TAGCACTACGGTGCTCTTGA
* *
41871690 TAGCAC-ACTTGTGCTAC-TGT
1 TAGCACTAC-GGTGCT-CTTGA
* * * *
41871710 TGGAACTACGGTGCTCCTGT
1 TAGCACTACGGTGCTCTTGA
* * * *
41871730 TACCACTATGGTGCACCT-A
1 TAGCACTACGGTGCTCTTGA
* *
41871749 CTAGCACTACAGG-GCTCCTAA
1 -TAGCACTAC-GGTGCTCTTGA
** *
41871770 TAGCAC-ATTTGTGCTCCTT-T
1 TAGCACTA-CGGTGCT-CTTGA
41871790 TAGCACTACGGTGCTCTTGA
1 TAGCACTACGGTGCTCTTGA
41871810 TAGCA
1 TAGCA
41871815 TATTTATGCA
Statistics
Matches: 121, Mismatches: 29, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
18 2 0.02
19 23 0.19
20 86 0.71
21 10 0.08
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (20 bp):
TAGCACTACGGTGCTCTTGA
Found at i:41871813 original size:40 final size:40
Alignment explanation
Indices: 41871624--41871860 Score: 167
Period size: 40 Copynumber: 6.0 Consensus size: 40
41871614 TACTTTCGTA
* * **
41871624 CTCCTGTTAGCACTATGGTGCTCTTGATAGTACATTCATG
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCACATTTGTG
* * *
41871664 CTCTTGTTAGCACTAC-ATGCTCTTGATAGCACACTTGTG
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCACATTTGTG
* * * * * * *
41871703 CTACTGTTGGAACTACGGTGCTCCTGTTACCAC-TATGGTG
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCACAT-TTGTG
* ** * *
41871743 CACCTACTAGCACTACAGG-GCTCCTAATAGCACATTTGTG
1 CTCCTGTTAGCACTAC-GGTGCTCTTGATAGCACATTTGTG
* * *
41871783 CTCCTTTTAGCACTACGGTGCTCTTGATAGCATATTTATG
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCACATTTGTG
* * * * * * *
41871823 CACTTGTTTGCATTACGATGC-CCTGATTGCACATTTGT
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCACATTTGT
41871861 TCCCAGTTAT
Statistics
Matches: 148, Mismatches: 44, Indels: 11
0.73 0.22 0.05
Matches are distributed among these distances:
39 45 0.30
40 100 0.68
41 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (40 bp):
CTCCTGTTAGCACTACGGTGCTCTTGATAGCACATTTGTG
Found at i:41871825 original size:80 final size:79
Alignment explanation
Indices: 41871624--41871825 Score: 190
Period size: 80 Copynumber: 2.5 Consensus size: 79
41871614 TACTTTCGTA
* * * * * ** * * *
41871624 CTCCTGTTAGCACTATGGTGCTCTTGATAGTACATTCATGCTCTTGTTAGCACTACATGCTCTTG
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCATATTCATGCACCTACTAGCACTACAGGCTCCTA
41871689 ATAGCACACTTGTG
66 ATAGCACACTTGTG
* * * * * * **
41871703 CTACTGTTGGAACTACGGTGCTCCTGTTACCACTA-TGGTGCACCTACTAGCACTACAGGGCTCC
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCA-TATTCATGCACCTACTAGCACTACA-GGCTCC
*
41871767 TAATAGCACATTTGTG
64 TAATAGCACACTTGTG
* *
41871783 CTCCTTTTAGCACTACGGTGCTCTTGATAGCATATTTATGCAC
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCATATTCATGCAC
41871826 TTGTTTGCAT
Statistics
Matches: 92, Mismatches: 28, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
79 42 0.46
80 50 0.54
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (79 bp):
CTCCTGTTAGCACTACGGTGCTCTTGATAGCATATTCATGCACCTACTAGCACTACAGGCTCCTA
ATAGCACACTTGTG
Found at i:41877850 original size:28 final size:28
Alignment explanation
Indices: 41877785--41877885 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
41877775 ATAGTGAATC
*
41877785 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
41877814 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
41877842 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
41877872 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41877886 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41885774 original size:28 final size:28
Alignment explanation
Indices: 41885709--41885809 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
41885699 ATAGTGAATC
*
41885709 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
41885738 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
41885766 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
41885796 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41885810 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41889111 original size:33 final size:34
Alignment explanation
Indices: 41889035--41889121 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 34
41889025 TTCAGTTAGT
* *
41889035 GCCTTAGCCCATTTCAGAATCAGAATCAGTGTGG
1 GCCTAAGCCCATTCCAGAATCAGAATCAGTGTGG
* * *
41889069 GCCTGAGCCCATTCCAGTAA-CAGTATTAGTG-GG
1 GCCTAAGCCCATTCCAG-AATCAGAATCAGTGTGG
* *
41889102 GCCTAAGCCCGTTACAGAAT
1 GCCTAAGCCCATTCCAGAAT
41889122 TAGTGCAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
32 2 0.05
33 16 0.36
34 24 0.55
35 2 0.05
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (34 bp):
GCCTAAGCCCATTCCAGAATCAGAATCAGTGTGG
Found at i:41889566 original size:27 final size:27
Alignment explanation
Indices: 41889491--41889645 Score: 136
Period size: 27 Copynumber: 5.8 Consensus size: 27
41889481 GGCAAGTCAA
* * *
41889491 TCATTTTACCTTATAGGGATATTATAG
1 TCATTTTACCCTATAGGGGTATTACAG
* * *
41889518 TCATTTTACCGTACAGGTGTATTACAG
1 TCATTTTACCCTATAGGGGTATTACAG
* **
41889545 TCATTTTACCTTATAGGGGTATCTTGA-
1 TCATTTTACCCTATAGGGGTAT-TACAG
* * * *
41889572 TCACTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTACAG
* *
41889599 TCATTTTACCCTATGGGGGTATCT-CGG
1 TCATTTTACCCTATAGGGGTAT-TACAG
41889626 TCATTTTACCCTAT-GGGGTA
1 TCATTTTACCCTATAGGGGTA
41889646 GTTCGGTCAT
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.07
27 98 0.90
28 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTACAG
Found at i:41889634 original size:54 final size:53
Alignment explanation
Indices: 41889491--41889655 Score: 161
Period size: 54 Copynumber: 3.1 Consensus size: 53
41889481 GGCAAGTCAA
* * ** * * * * *
41889491 TCATTTTACCTTATAGGGATAT-TATAGTCATTTTACCGTACAGGTGTATTACAG
1 TCATTTTACCCTATAGGGGTATCT-CGGTCATTTTACCCTA-TGGGGTATTTCGG
* * * *
41889545 TCATTTTACCTTATAGGGGTATCTTGATCACTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATCTCGGTCATTTTACCCTAT-GGGGTATTTCGG
* *
41889599 TCATTTTACCCTATGGGGGTATCTCGGTCATTTTACCCTATGGGGTAGTTCGG
1 TCATTTTACCCTATAGGGGTATCTCGGTCATTTTACCCTATGGGGTATTTCGG
41889652 TCAT
1 TCAT
41889656 ACATGGCCCA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
53 15 0.16
54 78 0.83
55 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (53 bp):
TCATTTTACCCTATAGGGGTATCTCGGTCATTTTACCCTATGGGGTATTTCGG
Found at i:41889651 original size:26 final size:27
Alignment explanation
Indices: 41889544--41889655 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 27
41889534 GTGTATTACA
* * *
41889544 GTCATTTTACCTTATAGGGGTATCTTG
1 GTCATTTTACCCTATGGGGGTATCTCG
* * *
41889571 ATCACTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATCTCG
41889598 GTCATTTTACCCTATGGGGGTATCTCG
1 GTCATTTTACCCTATGGGGGTATCTCG
41889625 GTCATTTTACCCTAT-GGGGTAGT-TCG
1 GTCATTTTACCCTATGGGGGTA-TCTCG
41889651 GTCAT
1 GTCAT
41889656 ACATGGCCCA
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 14 0.19
27 61 0.81
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATCTCG
Found at i:41893588 original size:42 final size:43
Alignment explanation
Indices: 41893486--41893599 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
41893476 GGAATTTAGA
* * *
41893486 AATCCAAGCTCGTTGAGCGGTCTGAGTTTGTGATATATGTGAG
1 AATCCAAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
* * *
41893529 AATCCAAACTTGTTGAGTGGTCCAAGTTCGTGATATATGT-AG
1 AATCCAAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
* *
41893571 TATCCAAGCTCCTTGAGTGGTCCGAGTTC
1 AATCCAAGCTCGTTGAGTGGTCCGAGTTC
41893600 ATTATGGATG
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
AATCCAAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
Found at i:41897474 original size:42 final size:42
Alignment explanation
Indices: 41897365--41897485 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
41897355 ACCATACCAT
* * * *
41897365 TGCCATATCCTAGATATGGTCTTAAATGAAATCTCGTATCGA
1 TGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCGA
* * * *
41897407 TGCCAATAGCCCAGCTTTGGTCTTACACGAAGTCTCATATCGA
1 TGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCGA
41897450 TGCCATATCCCAGATATGGTCTTACAC-ATAATCTCA
1 TGCCATATCCCAGATATGGTCTTACACGA-AATCTCA
41897486 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.02
42 30 0.46
43 34 0.52
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
TGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCGA
Found at i:41906667 original size:40 final size:41
Alignment explanation
Indices: 41906589--41906772 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 41
41906579 ACCCAAGTAT
* * *
41906589 CTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATGC
* **
41906628 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATGC
* *
41906668 CTTCGGGACTTAGCCCGGGTAT-GGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCAACTA---GCACAAATGC
* *
41906711 CTTCAGGACTTAGCCCGGATATAGT-AACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATGC
*
41906751 CTTTGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
41906773 CATCCGAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 12 0.10
40 75 0.62
41 1 0.01
43 32 0.26
44 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATGC
Found at i:41906724 original size:83 final size:83
Alignment explanation
Indices: 41906614--41906768 Score: 247
Period size: 83 Copynumber: 1.9 Consensus size: 83
41906604 GGATATAGCA
* * * **
41906614 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTT
41906679 AGCCCGGGTATGGCAACT
66 AGCCCGGGTATGGCAACT
* *
41906697 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTTGGGACTT
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTT
41906762 AGCCCGG
66 AGCCCGG
41906769 ATATCATCCG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 65 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (83 bp):
ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTT
AGCCCGGGTATGGCAACT
Found at i:41917309 original size:40 final size:40
Alignment explanation
Indices: 41917231--41917414 Score: 237
Period size: 40 Copynumber: 4.5 Consensus size: 40
41917221 ACCCAAGTAT
* *
41917231 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* * **
41917270 CTTCAGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
41917310 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
* *
41917353 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
41917393 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
41917415 CATCCGAATA
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 11 0.09
40 78 0.62
41 1 0.01
43 35 0.28
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:41917366 original size:83 final size:80
Alignment explanation
Indices: 41917231--41917414 Score: 262
Period size: 83 Copynumber: 2.3 Consensus size: 80
41917221 ACCCAAGTAT
* *
41917231 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGT
* **
41917295 CACTAGCATGAATGC
66 AACTAGCACAAATGC
* *
41917310 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATAT
*
41917375 AGTAACTTGCACAAATGC
63 AGTAACTAGCACAAATGC
41917393 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
41917415 CATCCGAATA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
79 12 0.13
80 10 0.11
81 1 0.01
83 69 0.75
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGT
AACTAGCACAAATGC
Found at i:41920062 original size:80 final size:80
Alignment explanation
Indices: 41919978--41920126 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
41919968 TATGGTAACC
* * * *
41919978 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
41920042 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
41920058 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
41920123 CCGG
66 CCGG
41920127 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:41920068 original size:40 final size:38
Alignment explanation
Indices: 41920019--41920126 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
41920009 ATCACGATTT
*
41920019 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
41920059 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
41920099 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
41920127 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:41931257 original size:40 final size:40
Alignment explanation
Indices: 41931206--41931355 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
41931196 TATAACACGT
*
41931206 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
41931246 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
41931286 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* *
41931325 AGCATAATTGTCTTCGGG-CTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
41931356 TCATTCAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 1 0.01
39 16 0.18
40 71 0.78
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:41931340 original size:80 final size:79
Alignment explanation
Indices: 41931206--41931354 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
41931196 TATAACACGT
*
41931206 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
41931271 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
41931286 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
41931349 CCGGAT
64 CCGGAT
41931355 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:41939217 original size:40 final size:40
Alignment explanation
Indices: 41939172--41939339 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
41939162 CGGAATATAA
41939172 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
41939212 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
41939252 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
41939292 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
41939332 CCGGATAT
1 CCGGATAT
41939340 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41939322 original size:80 final size:80
Alignment explanation
Indices: 41939188--41939337 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
41939178 ATAACCACGT
* *
41939188 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
41939253 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
41939268 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
41939331 CCCGGAT
64 CCCGGAT
41939338 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:41949761 original size:28 final size:29
Alignment explanation
Indices: 41949730--41949784 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
41949720 CACAGGTGAT
41949730 GACACGGCCATGT-CTAGGCCGTGTGAGG
1 GACACGGCCATGTGCTAGGCCGTGTGAGG
* * *
41949758 GACACGGGCGTGTGCTTGGCCGTGTGA
1 GACACGGCCATGTGCTAGGCCGTGTGA
41949785 AATCCCTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.20
Consensus pattern (29 bp):
GACACGGCCATGTGCTAGGCCGTGTGAGG
Found at i:41960413 original size:139 final size:139
Alignment explanation
Indices: 41960163--41960442 Score: 533
Period size: 139 Copynumber: 2.0 Consensus size: 139
41960153 TAAGAACAGA
*
41960163 TCTGAGATGATAAGTACTTACCCCTTACTCCTACTTGATTTCCTCACAATCCGGTGTAGATTTAA
1 TCTGAGATGATAAGTACTTACCCCTTACTCCTACTTGATTTCCTCACAATCCGGTGCAGATTTAA
*
41960228 CCTTAGAACAATGGTAAAACCCGGATCCAAGGGTTGATGAAATTTCGGCTATAAGCCCCTAAACC
66 CCTTAGAACAATGGTAAAACCCGGATCCAAGGGTTGATGAAATTTCGACTATAAGCCCCTAAACC
41960293 AGTGGTACT
131 AGTGGTACT
*
41960302 TCTGAGATGATAAGTACTTACCCCTTACTCCTACTTGATTTCCTCGCAATCCGGTGCAGATTTAA
1 TCTGAGATGATAAGTACTTACCCCTTACTCCTACTTGATTTCCTCACAATCCGGTGCAGATTTAA
41960367 CCTTAGAACAATGGTAAAACCCGGATCCAAGGGTTGATGAAATTTCGACTATAAGCCCCTAAACC
66 CCTTAGAACAATGGTAAAACCCGGATCCAAGGGTTGATGAAATTTCGACTATAAGCCCCTAAACC
41960432 AGTGGTACT
131 AGTGGTACT
41960441 TC
1 TC
41960443 GGCTTTTGGG
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 138 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (139 bp):
TCTGAGATGATAAGTACTTACCCCTTACTCCTACTTGATTTCCTCACAATCCGGTGCAGATTTAA
CCTTAGAACAATGGTAAAACCCGGATCCAAGGGTTGATGAAATTTCGACTATAAGCCCCTAAACC
AGTGGTACT
Found at i:41971799 original size:11 final size:11
Alignment explanation
Indices: 41971783--41971819 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
41971773 AAGCCCATTG
41971783 GGCCCAGTTTT
1 GGCCCAGTTTT
*
41971794 GGCCCA--TTG
1 GGCCCAGTTTT
41971803 GGCCCAGTTTT
1 GGCCCAGTTTT
41971814 GGCCCA
1 GGCCCA
41971820 TCGAGACCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.11, C:0.32, G:0.30, T:0.27
Consensus pattern (11 bp):
GGCCCAGTTTT
Found at i:41971800 original size:20 final size:20
Alignment explanation
Indices: 41971775--41971820 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
41971765 TGGTCCGTAA
41971775 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCAGTTTTG
41971795 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCAGTTTTG
41971815 GCCCAT
1 GCCCAT
41971821 CGAGACCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.33, G:0.28, T:0.28
Consensus pattern (20 bp):
GCCCATTGGGCCCAGTTTTG
Found at i:41976656 original size:37 final size:37
Alignment explanation
Indices: 41976606--41976718 Score: 181
Period size: 37 Copynumber: 3.1 Consensus size: 37
41976596 ACCTTTAGCT
* * *
41976606 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
41976643 CGGACAAAATCTCCACACGTGGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
41976680 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
41976717 CG
1 CG
41976719 AAATATATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:41976990 original size:48 final size:48
Alignment explanation
Indices: 41976866--41977050 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
41976856 GCACATCGCC
* *
41976866 TACATAATTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
41976916 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
41976964 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
41977012 TACACATTTCACATTAGCCATTCGGCTTTACCATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
41977051 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
48 82 0.66
49 2 0.02
50 41 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:41977055 original size:98 final size:97
Alignment explanation
Indices: 41976866--41977049 Score: 291
Period size: 98 Copynumber: 1.9 Consensus size: 97
41976856 GCACATCGCC
* *
41976866 TACATAATTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATAATTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACACATTTCACATT
41976931 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
* *
41976964 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACACATTTCACATT-
1 TACATAATTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACACATTTCACATTG
*
41977027 AGCCATTCGGCTTTACCATATAT
66 A-CCATTCGGCTTTACCACATAT
41977050 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 34 0.43
98 45 0.56
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (97 bp):
TACATAATTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACACATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:41977099 original size:47 final size:47
Alignment explanation
Indices: 41977020--41977213 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
41977010 CATACACATT
* * * * *
41977020 TCACATTAGCCATTCGGCTTTACCATATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
41977067 CCACATTGGCCATTCGGCGTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
41977114 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
41977161 TCACATTGGCCATTCGGACTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
41977208 TCACAT
1 TCACAT
41977214 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:41987869 original size:28 final size:29
Alignment explanation
Indices: 41987818--41987873 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
41987808 ACAGAGGTTT
* *
41987818 TCACACTGCCGAGCACATGCCCGTGTCCC
1 TCACACGGCCGAGCACACGCCCGTGTCCC
*
41987847 TCACACGGCCTAG-ACACGCCCGTGTCC
1 TCACACGGCCGAGCACACGCCCGTGTCC
41987874 AAAAACCTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.18, C:0.45, G:0.21, T:0.16
Consensus pattern (29 bp):
TCACACGGCCGAGCACACGCCCGTGTCCC
Found at i:41989253 original size:43 final size:43
Alignment explanation
Indices: 41989187--41989272 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
41989177 GTTACATGAA
*
41989187 TCGCATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
* *
41989230 TCGCATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
41989273 CACATATCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
Found at i:42010657 original size:68 final size:68
Alignment explanation
Indices: 42010576--42010731 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
42010566 CATCATGTGT
* * * * * *
42010576 ACAAGA-AGGCTACGAGATACTATATAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-C
1 ACAAGAGA-GCTACGAGAGA-TAAAT-GTAGCTAGGTCACATGCGTGATTCAAGGGAAGGA-CAC
42010637 CATGTAG
62 CATGTAG
* *
42010644 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGCGTGATT-CAAGGGAAGGACACC
42010709 ATGTAG
63 ATGTAG
42010715 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
42010732 CAAATCGGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
68 30 0.41
69 10 0.14
70 6 0.08
71 27 0.37
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGCGTGATTCAAGGGAAGGACACCATG
TAG
Found at i:42012691 original size:28 final size:28
Alignment explanation
Indices: 42012646--42012756 Score: 152
Period size: 28 Copynumber: 4.0 Consensus size: 28
42012636 CATGACTGTA
*
42012646 AATGTGATTGGGCCTAAT-GACCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* *
42012673 AATGTGATTCGGGCCTAATGGGCCACATA
1 AATGTGATT-GGGCCTAATGGGCCATATG
42012702 AATGTGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* * *
42012730 AAAGAGATTGGGCCTAGTGGGCCATAT
1 AATGTGATTGGGCCTAATGGGCCATAT
42012757 ACAAGTATAT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
27 9 0.12
28 50 0.68
29 15 0.20
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:42012711 original size:56 final size:56
Alignment explanation
Indices: 42012644--42012753 Score: 168
Period size: 56 Copynumber: 2.0 Consensus size: 56
42012634 AGCATGACTG
* *
42012644 TAAATGTGATTGGGCCTAAT-GACCATATGAATGTGATTCGGGCCTAATGGGCCACA
1 TAAATGTGATTGGGCCTAATGGACCATATGAAAGAGATT-GGGCCTAATGGGCCACA
* *
42012700 TAAATGTGATTGGGCCTAATGGGCCATATGAAAGAGATTGGGCCTAGTGGGCCA
1 TAAATGTGATTGGGCCTAATGGACCATATGAAAGAGATTGGGCCTAATGGGCCA
42012754 TATACAAGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 34 0.69
57 15 0.31
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (56 bp):
TAAATGTGATTGGGCCTAATGGACCATATGAAAGAGATTGGGCCTAATGGGCCACA
Found at i:42014654 original size:39 final size:39
Alignment explanation
Indices: 42014570--42014725 Score: 174
Period size: 39 Copynumber: 4.0 Consensus size: 39
42014560 CAAATCCAAT
* * * *
42014570 CACCACCAC-AAAGCATGTGGGACTTTAAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TT-AGCCCAGATATAA
*
42014610 TACCAGCAC-AAAGCCTGCGGGACTTTAGCCCAGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TTAGCCCAGATATAA
* * *
42014649 CACCAGCACGAATGCCTTC-GGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCAGATATAA
* *
42014687 CACCAGCACGAATGCCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCAGATATAA
42014726 TTCTCCATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
38 33 0.32
39 42 0.40
40 29 0.28
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTGCGGGACTTAGCCCAGATATAA
Found at i:42014685 original size:38 final size:39
Alignment explanation
Indices: 42014588--42014725 Score: 190
Period size: 39 Copynumber: 3.5 Consensus size: 39
42014578 CAAAGCATGT
* * * *
42014588 GGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTGC
1 GGGAC-TT-AGCCCAGATATAACACCAGCACGAATGCCTTC
42014628 GGGACTTTAGCCCAGATATAACACCAGCACGAATGCCTTC
1 GGGAC-TTAGCCCAGATATAACACCAGCACGAATGCCTTC
*
42014668 -GGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCAGATATAACACCAGCACGAATGCCTTC
42014706 GGGACTTAGCCCAGATATAA
1 GGGACTTAGCCCAGATATAA
42014726 TTCTCCATTA
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
38 33 0.37
39 42 0.47
40 15 0.17
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (39 bp):
GGGACTTAGCCCAGATATAACACCAGCACGAATGCCTTC
Found at i:42016623 original size:26 final size:26
Alignment explanation
Indices: 42016580--42016633 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
42016570 AAACTAGTAA
* * *
42016580 TAAAGGAAAATTACCT-AAATGCCCC
1 TAAAGGAAAAATAACTAAAATACCCC
42016605 TAAAGGAAAAAATAACTAAAATACCCC
1 TAAAGG-AAAAATAACTAAAATACCCC
42016632 TA
1 TA
42016634 TGCGTTGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 8 0.33
27 10 0.42
ACGTcount: A:0.52, C:0.20, G:0.09, T:0.19
Consensus pattern (26 bp):
TAAAGGAAAAATAACTAAAATACCCC
Found at i:42025540 original size:43 final size:43
Alignment explanation
Indices: 42025441--42025542 Score: 100
Period size: 43 Copynumber: 2.3 Consensus size: 43
42025431 CTCGGATAAT
* **
42025441 CACACATATCATACAATGCCAATGTCCCAGACGTGGTCTTACATG
1 CACACATAT-AT-CGATGCCAATGTCCCAGACAAGGTCTTACATG
* * *
42025486 TA-ATCACATATCGATGCCACTGTCCCAGACAAGGTCTTAC-TCG
1 CACA-CATATATCGATGCCAATGTCCCAGACAAGGTCTTACAT-G
42025529 CACACATATATCGA
1 CACACATATATCGA
42025543 AATCCTATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.02
43 36 0.78
44 4 0.09
45 5 0.11
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (43 bp):
CACACATATATCGATGCCAATGTCCCAGACAAGGTCTTACATG
Found at i:42030947 original size:19 final size:20
Alignment explanation
Indices: 42030910--42030947 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
42030900 ATAAGGTGGT
42030910 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
42030930 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
42030948 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:42038432 original size:19 final size:20
Alignment explanation
Indices: 42038395--42038432 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
42038385 ATAAGGTGGT
42038395 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
42038415 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
42038433 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:42044944 original size:22 final size:22
Alignment explanation
Indices: 42044904--42044945 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
42044894 AGGACCTATT
*
42044904 TGTAAAAAGGTTATAAAATGTG
1 TGTAAAAAGGTGATAAAATGTG
* *
42044926 TGTAAAAATGTGATTAAATG
1 TGTAAAAAGGTGATAAAATG
42044946 AAAATGTGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (22 bp):
TGTAAAAAGGTGATAAAATGTG
Found at i:42046868 original size:49 final size:49
Alignment explanation
Indices: 42046759--42046934 Score: 162
Period size: 49 Copynumber: 3.6 Consensus size: 49
42046749 GGTACGATGC
* * * * *
42046759 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA--CATCTAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCACTCATCTGAGG
* * *
42046807 CGATGACATGTCCCAGATAGGTCTTACACTGACTTTCA-TACATC-GAGG
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCACT-CATCTGAGG
* * * * * *
42046855 CTGATGCCATGTCCTAGACAGGCCTTACACTGGCTCTCACTTATCTGTGT
1 C-GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCACTCATCTGAGG
*
42046905 CGATGCCATGTCCCAGACAGGTTTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
42046935 AACACACCTC
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
47 17 0.17
48 18 0.17
49 64 0.62
50 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCACTCATCTGAGG
Found at i:42049865 original size:46 final size:45
Alignment explanation
Indices: 42049771--42049985 Score: 175
Period size: 46 Copynumber: 4.6 Consensus size: 45
42049761 ATATCTGTGT
* * * *
42049771 CAATGCCATGTCCAAGACATGGTCTTACACTGACACATCATGT-A-GC
1 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCATCTGAGGC
*
42049817 CAATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCGAGGC
1 CAATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCT-GAGGC
* * * * * *
42049863 CAATGCATGTCCCAGACACGTCTTACACTAGCTCTCGTCTCAATGT
1 CAATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCT-GAGGC
* * * * *
42049909 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGT
1 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTGAGGC
*
42049957 CGATGCATGTCCCAGACATGTCTTACACT
1 CAATGCATGTCCCAGACATGTCTTACACT
42049986 AGCACACAAA
Statistics
Matches: 140, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 12 0.09
45 14 0.10
46 58 0.41
47 26 0.19
48 24 0.17
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (45 bp):
CAATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGAGGC
Found at i:42049934 original size:94 final size:92
Alignment explanation
Indices: 42049720--42049991 Score: 252
Period size: 94 Copynumber: 2.9 Consensus size: 92
42049710 TACCATTAAT
* * *
42049720 TCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCACATATCTGTGTCAATGCCATGTCCA
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTAT-ACATATC-GGGTCAATG-CATGTCCC
* *
42049785 AGACATGGTCTTACACT-GACACATCATGTAG
63 AGACA-CGTCTTACACTAG-CACATCATCTAG
* * * * * *
42049816 CCAATG-CATGTCCTAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCCAATGCATGTCCCAG
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATACATATCG-GGTCAATGCATGTCCCAG
* *
42049878 ACACGTCTTACACTAGCTC-TCGTCTCAATG
65 ACACGTCTTACACTAGCACATCATCT--A-G
* *
42049908 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGTCGATGCATGTCCCA
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATACAT-ATCG-GGTCAATGCATGTCCCA
*
42049971 GACATGTCTTACACTAGCACA
64 GACACGTCTTACACTAGCACA
42049992 CAAATAACCC
Statistics
Matches: 143, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
89 4 0.03
90 12 0.08
91 15 0.10
92 17 0.12
93 13 0.09
94 64 0.45
95 14 0.10
96 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (92 bp):
TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATACATATCGGGTCAATGCATGTCCCAGA
CACGTCTTACACTAGCACATCATCTAG
Found at i:42056611 original size:47 final size:50
Alignment explanation
Indices: 42056532--42056671 Score: 171
Period size: 47 Copynumber: 2.9 Consensus size: 50
42056522 CAAAAATAGG
* * *
42056532 GTATAA-TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCAG
1 GTATAAGTACTGATGCCATGTCCCAGACATGGTCTTACACTGACTCCCAC
* *
42056581 GT-TAAGT-C-GATGCAATGTCCCAGACATGGTCTTACACTGACTCTCAC
1 GTATAAGTACTGATGCCATGTCCCAGACATGGTCTTACACTGACTCCCAC
** * *
42056628 GTATCCGTACTGATGCCATGTCCTAGACTTGGTCTTACACTGAC
1 GTATAAGTACTGATGCCATGTCCCAGACATGGTCTTACACTGAC
42056672 ACATCATGTA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
47 37 0.47
48 7 0.09
49 4 0.05
50 30 0.38
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
GTATAAGTACTGATGCCATGTCCCAGACATGGTCTTACACTGACTCCCAC
Found at i:42056739 original size:46 final size:46
Alignment explanation
Indices: 42056689--42056855 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 46
42056679 GTAGCCAACT
*
42056689 CATGTCCTAGGCATGTCTTACACTAGCT-TACATCTCAAGGCTGATG
1 CATGTCCTAGACATGTCTTACACTAGCTCT-CATCTCAAGGCTGATG
* * * * * *
42056735 CATGTCCCAAACATGTTTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTCTCATCTCAAGGCTGATG
* * **
42056781 CCATGTTCC-AGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATG
1 -CATG-TCCTAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGCTGATG
42056829 CATGT-CTCAGACATGTCTTACACTAGC
1 CATGTCCT-AGACATGTCTTACACTAGC
42056856 ACACGAATAA
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
45 1 0.01
46 50 0.52
47 20 0.21
48 25 0.26
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTAGCTCTCATCTCAAGGCTGATG
Found at i:42058081 original size:16 final size:16
Alignment explanation
Indices: 42058056--42058089 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
42058046 GACTAGGCCT
*
42058056 AAAATTGGGCTATTAC
1 AAAATCGGGCTATTAC
42058072 AAAATCGGGCTATTAC
1 AAAATCGGGCTATTAC
42058088 AA
1 AA
42058090 TTCTCCCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (16 bp):
AAAATCGGGCTATTAC
Found at i:42059830 original size:35 final size:35
Alignment explanation
Indices: 42059784--42059853 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
42059774 GACTTTTATG
* *
42059784 GTCGGTGAACACTCAACATTTTTCACTATACAAAT
1 GTCGGTGAACACTCAACATTTGTCACCATACAAAT
**
42059819 GTCGGTGAACACTTGACATTTGTCACCATACAAAT
1 GTCGGTGAACACTCAACATTTGTCACCATACAAAT
42059854 CATGTGTCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (35 bp):
GTCGGTGAACACTCAACATTTGTCACCATACAAAT
Found at i:42073303 original size:26 final size:26
Alignment explanation
Indices: 42073274--42073377 Score: 165
Period size: 26 Copynumber: 4.0 Consensus size: 26
42073264 ATTCCCATCT
42073274 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
42073300 TGGAACATTTACCT-AACCAATTATCA
1 TGGAACATTTACCTAAACC-ATTATCA
* *
42073326 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
*
42073352 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
42073378 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.06
26 65 0.90
27 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAAACCATTATCA
Found at i:42079001 original size:42 final size:41
Alignment explanation
Indices: 42078884--42079010 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 41
42078874 CACAGTACCG
* * * *
42078884 TACCAATGACATATCCCAGATATGGTCTTACAGGTAATCTCG
1 TACCGATGCCATATCCCAGATATGGTCTTACACG-AATCTCA
* *
42078926 TACCGATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCA
1 TACCGATGCC-ATATCCCAGATATGGTCTTACACGAA-TCTCA
* *
42078969 TATCGATGCCATATCCTAGATATGGTCTTACACGAATTCTCA
1 TACCGATGCCATATCCCAGATATGGTCTTACACGAA-TCTCA
42079011 ATAACCCTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
42 38 0.53
43 34 0.47
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (41 bp):
TACCGATGCCATATCCCAGATATGGTCTTACACGAATCTCA
Found at i:42082363 original size:21 final size:21
Alignment explanation
Indices: 42082329--42082381 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
42082319 TGTGGTCCAA
*
42082329 AGGACACGCCCGTGTAACCCT
1 AGGACATGCCCGTGTAACCCT
* * *
42082350 GGGACATGCTCGTGTGACCCT
1 AGGACATGCCCGTGTAACCCT
42082371 AGGACATGCCC
1 AGGACATGCCC
42082382 ATGCTACAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.17
Consensus pattern (21 bp):
AGGACATGCCCGTGTAACCCT
Found at i:42085071 original size:40 final size:40
Alignment explanation
Indices: 42084988--42085243 Score: 344
Period size: 40 Copynumber: 6.5 Consensus size: 40
42084978 CAACCAAGTA
** *
42084988 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
42085026 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42085066 CCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
*
42085106 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42085146 CCTTTGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * **
42085186 CCTTCGGGACTT-GCCCGGA-ACTAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
42085225 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42085244 TTATCATCCA
Statistics
Matches: 196, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
38 14 0.07
39 46 0.23
40 134 0.68
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42101977 original size:18 final size:18
Alignment explanation
Indices: 42101954--42101990 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
42101944 TGTGTTTTCA
*
42101954 AATTCAAATAAATCGAAT
1 AATTCAAATAAACCGAAT
42101972 AATTCAAATAAACCGAAT
1 AATTCAAATAAACCGAAT
42101990 A
1 A
42101991 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (18 bp):
AATTCAAATAAACCGAAT
Found at i:42105393 original size:21 final size:21
Alignment explanation
Indices: 42105360--42105411 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
42105350 AGGGTCACAT
*
42105360 GCCCGTATGGCTTTGGGACAC
1 GCCCGTGTGGCTTTGGGACAC
* *
42105381 TCCCTTGTGGCTTTGGGACAC
1 GCCCGTGTGGCTTTGGGACAC
42105402 GCCCGTGTGG
1 GCCCGTGTGG
42105412 GTAGGCCGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.10, C:0.29, G:0.35, T:0.27
Consensus pattern (21 bp):
GCCCGTGTGGCTTTGGGACAC
Found at i:42107648 original size:46 final size:47
Alignment explanation
Indices: 42107517--42107875 Score: 200
Period size: 46 Copynumber: 7.7 Consensus size: 47
42107507 ATATGTGTGT
* * * * *
42107517 TAGTGTAAGACATGTTTAGGACAT-GCATC-AGCCAC-ATTATGATAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGA-CCTCGA-GATGAGAGC
* * * *
42107563 CAGTGTAAGACATGTCTGGGACAT-GCATCAACATTGAGATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGAGATGAGAGC
* *
42107609 TAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGAGATATACAAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGAGAT-GA-GAGC
* * * * * ** * *
42107657 TAGTGCAAGACCTGTCTAGGACATGGCATC-AGCTTGTTATGTG-TC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGAGATGAGAGC
* *
42107702 -AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATGATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGAC-CTCGA-GATGAGAGC
* * * * * * * * * *
42107749 CAGTATAAGACCTGTTTGGGATATGTCATGGGCCTCGTTATATGAAAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCG--AGATGAGAGC
* * * * **
42107798 TTGTGTAAGACCTATCTGGGACATGGCATCGA-CTTGATG-TGTTAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGA-GATGAGAGC
*
42107844 TAATGTAAGACCATGTCTGGGACATGGCATCG
1 TAGTGTAAGA-CATGTCTGGGACATGGCATCG
42107876 GTGTCTTATC
Statistics
Matches: 238, Mismatches: 60, Indels: 29
0.73 0.18 0.09
Matches are distributed among these distances:
44 26 0.11
45 3 0.01
46 89 0.37
47 24 0.10
48 60 0.25
49 35 0.15
50 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (47 bp):
TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGAGATGAGAGC
Found at i:42109154 original size:20 final size:21
Alignment explanation
Indices: 42109115--42109154 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
42109105 GTCAACAGGG
*
42109115 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
*
42109136 CCACATGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
42109155 ATTTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:42109747 original size:42 final size:42
Alignment explanation
Indices: 42109635--42109799 Score: 181
Period size: 42 Copynumber: 3.9 Consensus size: 42
42109625 TACCGTACCA
* * *
42109635 ATGCTATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * * * *
42109677 ATGCCAACAGCCTAGCTATGGTTTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * * *
42109720 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTTATGTTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
42109762 ATGCCATATCCCAGATATGGTCTTACAC-ATAGTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTCAT
42109800 TAACCCTAAT
Statistics
Matches: 101, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 69 0.68
43 32 0.32
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:42111157 original size:49 final size:49
Alignment explanation
Indices: 42111104--42111217 Score: 201
Period size: 49 Copynumber: 2.3 Consensus size: 49
42111094 GTAAAACTTG
42111104 TCTGGGACATGACATCAGCATTGACAGATGAGAGCCTGTGTAAGACCTA
1 TCTGGGACATGACATCAGCATTGACAGATGAGAGCCTGTGTAAGACCTA
* *
42111153 TCTGGGACATGACATCAGCATTGATAGATGAGAGCCTGTGTAAGACCTG
1 TCTGGGACATGACATCAGCATTGACAGATGAGAGCCTGTGTAAGACCTA
*
42111202 TCTGGGACATGGCATC
1 TCTGGGACATGACATC
42111218 GGCCTCAAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
TCTGGGACATGACATCAGCATTGACAGATGAGAGCCTGTGTAAGACCTA
Found at i:42111295 original size:49 final size:51
Alignment explanation
Indices: 42111133--42111316 Score: 148
Period size: 49 Copynumber: 3.7 Consensus size: 51
42111123 ATTGACAGAT
* * * * ** *
42111133 GAGAGCCTGTGTAAGACCTATCTGGGACATGACATCAG-CA-TTGAT-AGAT
1 GAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGACACAAGATAAG-C
* * * *
42111182 GAGAGCCTGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGATATGC
1 GAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGACACAAGATAAGC
** *
42111233 -A-AGCTGGTGTAAGACCTGTCTGGGACATGGCAT-TGACAC-AGATAAGC
1 GAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGACACAAGATAAGC
* * * *
42111280 GAGAGCCAGTTTAAGACTTATCTAGGACATGGCATCG
1 GAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCG
42111317 ACTTAGATGT
Statistics
Matches: 108, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
47 7 0.06
48 4 0.04
49 91 0.84
50 2 0.02
51 3 0.03
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (51 bp):
GAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGACACAAGATAAGC
Found at i:42113716 original size:49 final size:49
Alignment explanation
Indices: 42113658--42113937 Score: 236
Period size: 49 Copynumber: 5.7 Consensus size: 49
42113648 TATGCGTGCT
*
42113658 AGTGTAAGACCTGTCTGGGACATGGCATC-AGCATTGATAGATGAGAGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CATTGATAGATGAAAGAC
* * * * *
42113707 TGTGTAAGACTTGTCTGGGACATGGCATCGGC-TTCA-AGATATGCAAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAG--ATGAAAGAC
* ** * *
42113755 TAGTGTAAGACCTGTCTGGGATATGGCATCGACACAGATA-AGCGAAAGCC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAGA-TGAAAGAC
* *
42113805 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGAT-GTATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAG-ATGAAAGAC
* * *
42113854 AGTGTAAAACCTGTCTGGGACATGGCATCGAC-TTAGAT-G-TGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATT-GATAGATGAAAGAC
* * * * *
42113901 AGTGTAAAACCATGTCTGGAAAATGGCGTCGGCATTG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACATTG
42113938 TACCCTATGT
Statistics
Matches: 190, Mismatches: 28, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
47 19 0.10
48 25 0.13
49 142 0.75
50 3 0.02
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAGATGAAAGAC
Found at i:42113820 original size:98 final size:97
Alignment explanation
Indices: 42113646--42113933 Score: 314
Period size: 98 Copynumber: 2.9 Consensus size: 97
42113636 ACATTTGGGT
** * * *
42113646 GATATGCGTGCTAGTGTAAGACCTGTCTGGGACATGGCATC-AGCATTGATAGATGAGAGACTGT
1 GATATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGA-CATAGATAG-TGAGAGCCAGT
*
42113710 GTAAGACTTGTCTGGGACATGGCATCGGCTTCAA
64 GTAAGACCTGTCTGGGACATGGCATCGGCTTCAA
* * * *
42113744 GATATGCAAGCTAGTGTAAGACCTGTCTGGGATATGGCATCGACACAGATAAGCGAAAGCCAGTG
1 GATATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACATAGAT-AGTGAGAGCCAGTG
* * *
42113809 TAAGACCTGTCTGGGACATGGCATCGACCTTGAT
65 TAAGACCTGTCTGGGACATGGCATCG-GCTTCAA
* * *
42113843 G-TATGAAAG-TCAGTGTAAAACCTGTCTGGGACATGGCATCGACTTAGAT-GTGAGAGCCAGTG
1 GATATGCAAGCT-AGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATAGTGAGAGCCAGTG
* * * *
42113905 TAAAACCATGTCTGGAAAATGGCGTCGGC
65 TAAGACC-TGTCTGGGACATGGCATCGGC
42113934 ATTGTACCCT
Statistics
Matches: 160, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
96 18 0.11
97 17 0.11
98 117 0.73
99 8 0.05
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (97 bp):
GATATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATAGTGAGAGCCAGTGT
AAGACCTGTCTGGGACATGGCATCGGCTTCAA
Found at i:42118404 original size:46 final size:48
Alignment explanation
Indices: 42118268--42118493 Score: 161
Period size: 46 Copynumber: 4.8 Consensus size: 48
42118258 TGGGTAAAGT
* *
42118268 GCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACT-GT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-T-ACGT--CTCGTA
* * *
42118318 GCCGAGGCCATATCCCAGAAATGGTCTTACACT-GAC--ACGTCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTTACGTCTCGTA
* *
42118364 GCCGATG-CATGTCCCAGACAT-GTCTTATACTAGCTTACGTCCCG-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGTA
* * * *
42118409 GGCTGAT-ACATGTCCCAGACAT-GTCTTACACTTGCTCT-CGTCTC-AA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACGTCTCGTA
* * * *
42118455 TGTCGATGCCATGTCTCATACATGGTCTTACACTGGCTT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTT
42118494 TCATAATGTC
Statistics
Matches: 143, Mismatches: 21, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
44 12 0.08
45 16 0.11
46 57 0.40
47 14 0.10
48 13 0.09
49 1 0.01
50 30 0.21
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGTA
Found at i:42118530 original size:32 final size:32
Alignment explanation
Indices: 42118494--42118555 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
42118484 ACACTGGCTT
*
42118494 TCATAATGTCACCGATGCATGTCCCAGACAGG
1 TCATAATATCACCGATGCATGTCCCAGACAGG
***
42118526 TCATAATATGGTCGATGCATGTCCCAGACA
1 TCATAATATCACCGATGCATGTCCCAGACA
42118556 TGTCTTACAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (32 bp):
TCATAATATCACCGATGCATGTCCCAGACAGG
Found at i:42122277 original size:25 final size:25
Alignment explanation
Indices: 42122249--42122300 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
42122239 CGTCCAAAAG
*
42122249 TAGTCTTTGGTACATCTTGCTCTTT
1 TAGTCTTTGGTACATCTTGATCTTT
42122274 TAGTCTTTGGTACATCTTGATCTTT
1 TAGTCTTTGGTACATCTTGATCTTT
42122299 TA
1 TA
42122301 CTCTCAACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.52
Consensus pattern (25 bp):
TAGTCTTTGGTACATCTTGATCTTT
Found at i:42126097 original size:46 final size:47
Alignment explanation
Indices: 42125947--42126167 Score: 195
Period size: 46 Copynumber: 4.7 Consensus size: 47
42125937 GTAAAGTGTC
* * * *
42125947 GATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCACATAACCG-TGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCA-CGAGGCT
* * * *
42125997 GAGGCCATGTCCCAGACATGGTCTTACACTAAC--ACATCTCGTA-GCC
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCTTACATCACG-AGGCT
* *
42126043 GATGCATGTCCCAGACAT-GTCTTATACTAGCTTACATCCCGAGGCT
1 GATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCACGAGGCT
* * * *
42126089 GATGCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCT
1 GATGCATGTCCCAGACATGGTCTTACACTAGCT-TACATCACGAGGCT
*
42126136 GATGCATGTCCCAGAAAT-GTCTTACACTAGCT
1 GATGCATGTCCCAGACATGGTCTTACACTAGCT
42126168 CACACAAATG
Statistics
Matches: 146, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 50 0.34
47 37 0.25
48 1 0.01
50 30 0.21
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCACGAGGCT
Done.