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 72 of 438
Found at i:18928219 original size:40 final size:39
Alignment explanation
Indices: 18928116--18928228 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
18928106 TGCTGGAAAT
* * **
18928116 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
18928156 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
*
18928196 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
18928229 ACATGTTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:18936146 original size:40 final size:40
Alignment explanation
Indices: 18936087--18936228 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
18936077 AAATTGAATG
* * *
18936087 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
18936127 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
18936167 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
18936207 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
18936229 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:18936229 original size:40 final size:39
Alignment explanation
Indices: 18936126--18936238 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
18936116 TGCTGGAAAT
* * **
18936126 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
18936166 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
*
18936206 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
18936239 ACATGTTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:18941809 original size:38 final size:39
Alignment explanation
Indices: 18941758--18941866 Score: 141
Period size: 38 Copynumber: 2.8 Consensus size: 39
18941748 CTGGAAATTA
* *
18941758 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAGGC
**
18941796 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGT-AGGC
*
18941836 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
18941867 ACATGTTATA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
37 3 0.05
38 29 0.47
40 28 0.45
41 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAGGC
Found at i:18949787 original size:40 final size:40
Alignment explanation
Indices: 18949728--18949869 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
18949718 AAATTGAATG
* * *
18949728 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
18949768 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
18949808 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
18949848 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
18949870 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:18949893 original size:40 final size:39
Alignment explanation
Indices: 18949766--18949895 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
18949756 ATGCTGGAAA
* * *
18949766 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
18949807 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
18949845 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
18949886 TTATATCCGG
1 TTATATCCGG
18949896 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:18953561 original size:2 final size:2
Alignment explanation
Indices: 18953554--18953578 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18953544 ACAAATTAAA
18953554 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
18953579 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:18954150 original size:14 final size:14
Alignment explanation
Indices: 18954131--18954170 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18954121 ATTAAACCTG
* *
18954131 CTTAAACCATATAT
1 CTTAAACCATAAAC
18954145 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
18954159 CTTAAACTATAA
1 CTTAAACCATAA
18954171 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:18954464 original size:40 final size:41
Alignment explanation
Indices: 18954332--18954466 Score: 209
Period size: 41 Copynumber: 3.3 Consensus size: 41
18954322 ATTGAATTTG
* * *
18954332 TAGCGGTGTTTTACCAAAAGCGTCGCTAATGCTCTGGCTTT
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
*
18954373 TAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGTTTT
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
* *
18954414 TAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCT-GTTTT
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
18954454 TAGCGGCGTTTTA
1 TAGCGGCGTTTTA
18954467 GTAAAAAACG
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 18 0.20
41 70 0.80
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (41 bp):
TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
Found at i:18954503 original size:81 final size:82
Alignment explanation
Indices: 18954332--18954506 Score: 194
Period size: 82 Copynumber: 2.1 Consensus size: 82
18954322 ATTGAATTTG
* * * ** *
18954332 TAGCGGTGTTTTACCAAAAGCGTCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCCAAAGCGCC
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCCCTGGCTTTTAGCGGCGTTTTACAAAAAACGCC
18954397 GCTAATGCTCTGGTTTT
66 GCTAATGCTCTGGTTTT
* * * *
18954414 TAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCT-GTTTTTAGCGGCGTTTTAGTAAAAAACGT
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCCCTGGCTTTTAGCGGCGTTTTA-CAAAAAACGC
** *
18954478 CGCTTTTGTTCT-GTTTT
65 CGCTAATGCTCTGGTTTT
18954495 TA-CTGGCGTTTT
1 TAGC-GGCGTTTT
18954507 TTTTAGAACG
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.01
81 32 0.41
82 45 0.58
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (82 bp):
TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCCCTGGCTTTTAGCGGCGTTTTACAAAAAACGCC
GCTAATGCTCTGGTTTT
Found at i:18957376 original size:13 final size:13
Alignment explanation
Indices: 18957358--18957383 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18957348 AATTTGTGAC
18957358 TAATGTTAAAATG
1 TAATGTTAAAATG
18957371 TAATGTTAAAATG
1 TAATGTTAAAATG
18957384 ATTTGATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
TAATGTTAAAATG
Found at i:18957480 original size:41 final size:41
Alignment explanation
Indices: 18957435--18957518 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
18957425 AAAGAATGAT
18957435 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATAAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATAAAATG
*
18957476 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATAAAATG
18957517 TA
1 TA
18957519 GATATATTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (41 bp):
TATGCGAGAATGTTTCATTATGGTATTGAGGTAATAAAATG
Found at i:18959405 original size:28 final size:28
Alignment explanation
Indices: 18959367--18959473 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
18959357 GAATCATTCG
* *
18959367 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
18959395 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
18959423 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
18959451 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
18959474 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:18964459 original size:28 final size:28
Alignment explanation
Indices: 18964416--18964634 Score: 181
Period size: 28 Copynumber: 7.8 Consensus size: 28
18964406 TGCCCCAACA
* * * *
18964416 ACCGATCTTGCACACACAGTGCTTGGTT
1 ACCGAACTCGCACACACAGTGCTCGATT
* * **
18964444 ACGGAACTCGCACACACAGTGCCTCAACA
1 ACCGAACTCGCACACACAGTG-CTCGATT
* *
18964473 ACCGATCTCGCACACACAGTGCTCGGTT
1 ACCGAACTCGCACACACAGTGCTCGATT
* * * **
18964501 ACGGAACTCGCGCACACAGTGCCTCAACA
1 ACCGAACTCGCACACACAGTG-CTCGATT
* * *
18964530 ACCGATCTCGCACACACAGTGCTTGGTT
1 ACCGAACTCGCACACACAGTGCTCGATT
* **
18964558 A-CGAACTCGCACACACAGTGCCTCAACA
1 ACCGAACTCGCACACACAGTG-CTCGATT
*
18964586 ACCG-ATTCGCACACACAGTGCTCGATT
1 ACCGAACTCGCACACACAGTGCTCGATT
* *
18964613 ACGGAACTCACACACACAGTGC
1 ACCGAACTCGCACACACAGTGC
18964635 CTATGTTCAC
Statistics
Matches: 144, Mismatches: 42, Indels: 10
0.73 0.21 0.05
Matches are distributed among these distances:
27 25 0.17
28 75 0.52
29 44 0.31
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.17
Consensus pattern (28 bp):
ACCGAACTCGCACACACAGTGCTCGATT
Found at i:18964465 original size:57 final size:57
Alignment explanation
Indices: 18964395--18964636 Score: 389
Period size: 57 Copynumber: 4.2 Consensus size: 57
18964385 GATCTCATTT
* * *
18964395 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
18964454 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
18964511 CGCACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTAC-GAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
18964567 CACACACAGTGCCTCAACAACCGAT-TCGCACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
18964623 CACACACAGTGCCT
1 CACACACAGTGCCT
18964637 ATGTTCACTT
Statistics
Matches: 173, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
55 21 0.12
56 51 0.29
57 94 0.54
59 7 0.04
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:18966652 original size:28 final size:28
Alignment explanation
Indices: 18966614--18966776 Score: 245
Period size: 28 Copynumber: 5.8 Consensus size: 28
18966604 GAATCATTCG
* *
18966614 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
18966642 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
18966670 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
18966698 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
18966726 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
18966754 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
18966777 ATTTGATTGC
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 123 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:18966675 original size:56 final size:56
Alignment explanation
Indices: 18966614--18966776 Score: 272
Period size: 56 Copynumber: 2.9 Consensus size: 56
18966604 GAATCATTCG
18966614 ATATTTTGCACACTAAGTGTCATTCTCAATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTTGCACACTAAGTGTCATTCTCAATATCTCGCACACTAAGTGCCATTCTCA
18966670 ATATTTTGCACACTAAGTGTCATTCTCAATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTTGCACACTAAGTGTCATTCTCAATATCTCGCACACTAAGTGCCATTCTCA
* * * * * *
18966726 ATATTTCGTACACTAAGTGCCATTCTCAATATTTCGTACACTAAGTACCAT
1 ATATTTTGCACACTAAGTGTCATTCTCAATATCTCGCACACTAAGTGCCAT
18966777 ATTTGATTGC
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 101 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (56 bp):
ATATTTTGCACACTAAGTGTCATTCTCAATATCTCGCACACTAAGTGCCATTCTCA
Found at i:18970240 original size:41 final size:41
Alignment explanation
Indices: 18970195--18970319 Score: 241
Period size: 41 Copynumber: 3.0 Consensus size: 41
18970185 AAAGAATGAT
18970195 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
18970236 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
*
18970277 TATGCGAGAATGTTTCATTATGGTATTGGGGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
18970318 TA
1 TA
18970320 GATATATTTA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (41 bp):
TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
Found at i:18972451 original size:13 final size:13
Alignment explanation
Indices: 18972433--18972458 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18972423 AATTTGTGAC
18972433 TAATGTTAAAATG
1 TAATGTTAAAATG
18972446 TAATGTTAAAATG
1 TAATGTTAAAATG
18972459 ATTTGATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
TAATGTTAAAATG
Found at i:18972555 original size:41 final size:41
Alignment explanation
Indices: 18972510--18972593 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
18972500 AAAGAATGAT
18972510 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
18972551 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
18972592 TA
1 TA
18972594 GATATATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (41 bp):
TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
Found at i:18975907 original size:86 final size:86
Alignment explanation
Indices: 18975750--18975908 Score: 185
Period size: 86 Copynumber: 1.8 Consensus size: 86
18975740 ACATAGATAT
* * * * * * ** * *
18975750 TTGTTGGTCTAACTAACTAGTGTTGGTCACACATATATGTTTATTGTCAGGTTAACCGACCAGTG
1 TTGTTGGTATAACAAACTAGTGCTGGGCACACACACATGTAGATTGTCAGGTTAACCGACAAGTA
*
18975815 CTAGGCACTAATATAATTATA
66 CGAGGCACTAATATAATTATA
* *
18975836 TTGTTGGTATAACAAACTAGTGCTGGGCAGACACACATGTAGATTGTTA-GTTCAACCGACAAGT
1 TTGTTGGTATAACAAACTAGTGCTGGGCACACACACATGTAGATTGTCAGGTT-AACCGACAAGT
18975900 ACGAGGCAC
65 ACGAGGCAC
18975909 ATGTATTGTC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
85 3 0.05
86 56 0.95
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (86 bp):
TTGTTGGTATAACAAACTAGTGCTGGGCACACACACATGTAGATTGTCAGGTTAACCGACAAGTA
CGAGGCACTAATATAATTATA
Found at i:18977339 original size:26 final size:26
Alignment explanation
Indices: 18977302--18977437 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
18977292 TGATACAAAT
*
18977302 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18977328 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18977354 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18977380 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18977406 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18977432 TGATAA
1 TGATAA
18977438 GAATATCATG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18979470 original size:137 final size:137
Alignment explanation
Indices: 18979222--18979508 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
18979212 GAGTAGTCTC
18979222 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
18979287 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCCGAAAAGGGCTCTGGCCCAGTACC
18979352 ACTGTTA
131 ACTGTTA
18979359 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
18979424 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCCGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCCGAAAAGGGCTCTGGCCCAGTACC
18979489 ACTGTTA
131 ACTGTTA
**
18979496 CCTGAATGGGCTT
1 CCCAAATGGGCTT
18979509 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCCGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:18981072 original size:23 final size:23
Alignment explanation
Indices: 18981046--18981093 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
18981036 GAGATAAGTC
*
18981046 TAATGACTTGATAATAATATATA
1 TAATGACTTGATAACAATATATA
*
18981069 TAATGACTTGATAACAATATTTA
1 TAATGACTTGATAACAATATATA
18981092 TA
1 TA
18981094 TATATAGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (23 bp):
TAATGACTTGATAACAATATATA
Found at i:18981579 original size:25 final size:25
Alignment explanation
Indices: 18981551--18981613 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
18981541 ATCATAATGG
*
18981551 TTCT-AATAATGAAATGTCATCCTGA
1 TTCTCAATAATGAAATGTCATACT-A
* * *
18981576 TTCTGAA-AAGGATATGTCATACTA
1 TTCTCAATAATGAAATGTCATACTA
18981600 TT-TCAATAATGAAA
1 TTCTCAATAATGAAA
18981614 CATCACTGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
23 3 0.10
24 8 0.27
25 17 0.57
26 2 0.07
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (25 bp):
TTCTCAATAATGAAATGTCATACTA
Found at i:18984473 original size:49 final size:49
Alignment explanation
Indices: 18984401--18984498 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
18984391 CAGAGGAGCT
18984401 ATGTCCCAAGACCATGAGAGTTATTGTCTCGAGACTTGAGACATGGACA
1 ATGTCCCAAGACCATGAGAGTTATTGTCTCGAGACTTGAGACATGGACA
18984450 ATGTCCCAAGACCATGAGAGTTATTGTCTCGAGACTTGAGACATGGACA
1 ATGTCCCAAGACCATGAGAGTTATTGTCTCGAGACTTGAGACATGGACA
18984499 TCATGTCTCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (49 bp):
ATGTCCCAAGACCATGAGAGTTATTGTCTCGAGACTTGAGACATGGACA
Found at i:18988299 original size:49 final size:49
Alignment explanation
Indices: 18988128--18988352 Score: 261
Period size: 49 Copynumber: 4.5 Consensus size: 49
18988118 TGAGGTCGCA
* * * * *
18988128 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * * **
18988179 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
* *
18988229 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * * *
18988278 TGTGTAGTACTAAGTGCAGGCTACTACGTGCATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
18988327 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
18988353 TGCGTACCAG
Statistics
Matches: 151, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
49 74 0.49
50 43 0.28
51 34 0.23
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:18991985 original size:40 final size:40
Alignment explanation
Indices: 18991940--18992069 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
18991930 CGGAATACAA
18991940 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
18991980 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
18992020 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
18992060 CCGGATATAA
1 CCGGATATAA
18992070 TTTCCAGCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:19000037 original size:40 final size:40
Alignment explanation
Indices: 18999992--19000158 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
18999982 CGGAATACAA
18999992 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
19000032 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
19000072 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
19000112 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
19000151 CCGGATAT
1 CCGGATAT
19000159 CATTCAATTG
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 25 0.23
40 82 0.77
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:19001402 original size:57 final size:58
Alignment explanation
Indices: 19001313--19001433 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 58
19001303 CTCCACACCC
** ** * *
19001313 AGTGCCGTATTTTTCCAGCTTGCACACATAGTGTTATATTTTTCCAGCATGCACACTT
1 AGTGCCGTATTTTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTT
* *
19001371 AGTGCCTTA-TTTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCGTATTTTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTT
19001428 AGTGCC
1 AGTGCC
19001434 AATTCTCGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 47 0.85
58 8 0.15
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (58 bp):
AGTGCCGTATTTTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTT
Found at i:19001433 original size:29 final size:29
Alignment explanation
Indices: 19001313--19001434 Score: 156
Period size: 29 Copynumber: 4.2 Consensus size: 29
19001303 CTCCACACCC
* ** *
19001313 AGTGCCGTATTTTTCCAGCTTGCACACAT
1 AGTGCCATATTTTTCCAGCACGCACACTT
** *
19001342 AGTGTTATATTTTTCCAGCATGCACACTT
1 AGTGCCATATTTTTCCAGCACGCACACTT
*
19001371 AGTGCCTTA-TTTTCCAGCACGCACACTT
1 AGTGCCATATTTTTCCAGCACGCACACTT
*
19001399 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATTTTTCCAGCACGCACACTT
19001428 AGTGCCA
1 AGTGCCA
19001435 ATTCTCGTCA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 26 0.32
29 55 0.68
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (29 bp):
AGTGCCATATTTTTCCAGCACGCACACTT
Found at i:19008687 original size:40 final size:40
Alignment explanation
Indices: 19008642--19008809 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
19008632 CGGAATATAA
19008642 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
19008682 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
19008722 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
19008762 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
19008802 CCGGATAT
1 CCGGATAT
19008810 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19008792 original size:80 final size:80
Alignment explanation
Indices: 19008658--19008807 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
19008648 ATAACCACGT
* *
19008658 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
19008723 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
19008738 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
19008801 CCCGGAT
64 CCCGGAT
19008808 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:19012938 original size:37 final size:37
Alignment explanation
Indices: 19012860--19012958 Score: 108
Period size: 37 Copynumber: 2.7 Consensus size: 37
19012850 GTATGGAATG
* *
19012860 TAAGACCATAGCTAGGCTATGGCATTGTAATGACATG
1 TAAGACCATAGCTGGGCTATGGCATTGTAATGACATA
* * ****
19012897 TAAGACCATAGCTGGGCCATGGCATTGTGATTTTGTA
1 TAAGACCATAGCTGGGCTATGGCATTGTAATGACATA
* *
19012934 TAAGACCATAGTTGGACTATGGCAT
1 TAAGACCATAGCTGGGCTATGGCAT
19012959 CAAGTAAACG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (37 bp):
TAAGACCATAGCTGGGCTATGGCATTGTAATGACATA
Found at i:19016466 original size:48 final size:48
Alignment explanation
Indices: 19016410--19016629 Score: 296
Period size: 48 Copynumber: 4.6 Consensus size: 48
19016400 TTGTAACCGC
**
19016410 GTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
*
19016458 GTAAGACCATGTCTAGGACATGGCATCGGCATCATTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
* * * *
19016506 GTCAGACCATGTCTAGGACATGGCATCGACATCATTATGTGAACCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
* ** ** * *
19016554 CTAAGACCATGTCTGGGACATGGCATTAGCATTGTTAAGTTAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
* *
19016602 GTAAGAACATGTCCGGGACATGGCATCG
1 GTAAGACCATGTCTGGGACATGGCATCG
19016630 ACATGAGGCA
Statistics
Matches: 150, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 150 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
Found at i:19016712 original size:43 final size:42
Alignment explanation
Indices: 19016601--19016713 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 42
19016591 AGTTAGCCAG
* * * *
19016601 TGTAAGAACATGTCCGGGACATGGCATCGACATGAGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATGAGACATCA
* **
19016643 TGTAAGACCATAG-CTGGG-CTATTGGCATCGATATGAGATTTCCA
1 TGTAAGACCAT-GTCTGGGAC-A-TGGCATCGACATGAGACAT-CA
19016687 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
19016714 TGGTACGATA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
41 1 0.02
42 15 0.26
43 23 0.40
44 18 0.31
45 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACATGAGACATCA
Found at i:19023650 original size:49 final size:49
Alignment explanation
Indices: 19023583--19023682 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
19023573 GTTTGTAGAA
19023583 ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTAAGTGCTTCTTTGT
1 ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTAAGTGCTTCTTTGT
* *
19023632 ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTGAGTGTTTCTTTGT
1 ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTAAGTGCTTCTTTGT
19023681 AC
1 AC
19023683 CTTTCAAGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (49 bp):
ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTAAGTGCTTCTTTGT
Found at i:19025025 original size:27 final size:27
Alignment explanation
Indices: 19024989--19025040 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
19024979 AAGTGTATTA
19024989 TACTGATGGCTTCACCACATATACTAT
1 TACTGATGGCTTCACCACATATACTAT
* **
19025016 TACTGGTGGCTTTGCCACATATACT
1 TACTGATGGCTTCACCACATATACT
19025041 GATAATGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (27 bp):
TACTGATGGCTTCACCACATATACTAT
Found at i:19025057 original size:27 final size:27
Alignment explanation
Indices: 19025003--19025057 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
19024993 GATGGCTTCA
* * *
19025003 CCACATATACTATTACTGGTGGCTTTG
1 CCACATATACTATTAATGGTAGCATTG
19025030 CCACATATACTGA-TAATGGTAGCATTG
1 CCACATATACT-ATTAATGGTAGCATTG
19025057 C
1 C
19025058 TGAGATACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
CCACATATACTATTAATGGTAGCATTG
Found at i:19025083 original size:26 final size:26
Alignment explanation
Indices: 19025036--19025090 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
19025026 TTTGCCACAT
*
19025036 ATACTGATAATGGTAGCATTGCTGAG
1 ATACTGATAATGGCAGCATTGCTGAG
* * * *
19025062 ATACTGTTACTGGCAGCCTTGCTGCG
1 ATACTGATAATGGCAGCATTGCTGAG
19025088 ATA
1 ATA
19025091 ATGGTGTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (26 bp):
ATACTGATAATGGCAGCATTGCTGAG
Found at i:19032383 original size:27 final size:27
Alignment explanation
Indices: 19032345--19032397 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
19032335 AAGGGTATTA
19032345 TACTAGTGGCTTCGCCACATATACTGT
1 TACTAGTGGCTTCGCCACATATACTGT
*
19032372 TACTAGTGGCTTTGCCACATATACTG
1 TACTAGTGGCTTCGCCACATATACTG
19032398 ATATTGGCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (27 bp):
TACTAGTGGCTTCGCCACATATACTGT
Found at i:19032410 original size:27 final size:27
Alignment explanation
Indices: 19032344--19032411 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
19032334 GAAGGGTATT
** *
19032344 ATACTAGTGGCTTCGCCACATATACTG
1 ATACTAGCAGCTTTGCCACATATACTG
* **
19032371 TTACTAGTGGCTTTGCCACATATACTG
1 ATACTAGCAGCTTTGCCACATATACTG
* *
19032398 ATATTGGCAGCTTT
1 ATACTAGCAGCTTT
19032412 ACTGCGATAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
ATACTAGCAGCTTTGCCACATATACTG
Found at i:19039652 original size:40 final size:40
Alignment explanation
Indices: 19039608--19039684 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
19039598 ACGGTACCAT
* * * *
19039608 TTGGTGTGTAGGG-TTGGATGGGTTGATTTTATCCCCATAC
1 TTGGTATGTAGGGCTAGG-TGGGTCGATTCTATCCCCATAC
19039648 TTGGTATGTAGGGCTAGGTGGGTCGATTCTATCCCCA
1 TTGGTATGTAGGGCTAGGTGGGTCGATTCTATCCCCA
19039685 CATGGTATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (40 bp):
TTGGTATGTAGGGCTAGGTGGGTCGATTCTATCCCCATAC
Found at i:19048731 original size:49 final size:48
Alignment explanation
Indices: 19048580--19048758 Score: 175
Period size: 49 Copynumber: 3.7 Consensus size: 48
19048570 TGTGTGTGCT
* * * *
19048580 AGTGTAAGACTTGTCTGGGATATGGCAT-TAGCACCGATAGAT-AAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CACAGATAG-TGAA-AGCC
* * * * * * *
19048629 AGTGTAAGACCTGTTTGGGACATAGTATCGGCCTCAAGATA-TGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACAC-AGATAGTGAAAGCC
19048678 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGAT-AGTGAAAGCC
*
19048727 AGTGTAAAACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
19048759 TTAAATGTGA
Statistics
Matches: 105, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
47 4 0.04
48 4 0.04
49 90 0.86
50 3 0.03
51 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAGTGAAAGCC
Found at i:19059913 original size:20 final size:20
Alignment explanation
Indices: 19059890--19059950 Score: 50
Period size: 22 Copynumber: 2.9 Consensus size: 20
19059880 TATGGTAGTA
19059890 TATCTAAATATCTGGTGGTT
1 TATCTAAATATCTGGTGGTT
* * * *
19059910 TATCCACATAATTCTAGTAGTT
1 TATCTAAAT-A-TCTGGTGGTT
*
19059932 TATCTACAATTTCTGGTGG
1 TATCTA-AATATCTGGTGG
19059951 CTTGTCCACA
Statistics
Matches: 29, Mismatches: 9, Indels: 5
0.67 0.21 0.12
Matches are distributed among these distances:
20 7 0.24
21 7 0.24
22 13 0.45
23 2 0.07
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (20 bp):
TATCTAAATATCTGGTGGTT
Found at i:19062152 original size:39 final size:39
Alignment explanation
Indices: 19062019--19062180 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
19062009 TATGGTAACC
** *
19062019 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
19062059 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
19062098 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
19062136 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
19062175 CGCACA
1 CGCACA
19062181 TTCATTCTCA
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
38 35 0.31
39 62 0.55
40 16 0.14
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:19065983 original size:40 final size:40
Alignment explanation
Indices: 19065938--19066105 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
19065928 CGGAATATAA
19065938 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
19065978 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
19066018 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19066058 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
19066098 CCGGATAT
1 CCGGATAT
19066106 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19066088 original size:80 final size:80
Alignment explanation
Indices: 19065954--19066103 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
19065944 ATAATCACGT
*
19065954 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
19066018 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
19066034 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
19066097 CCCGGAT
64 CCCGGAT
19066104 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:19073325 original size:38 final size:39
Alignment explanation
Indices: 19073218--19073379 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
19073208 TATGGTAACC
** *
19073218 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
19073258 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
19073297 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
19073335 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
19073374 CGCACA
1 CGCACA
19073380 TTCATTCACA
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
38 35 0.31
39 62 0.55
40 16 0.14
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:19073342 original size:77 final size:79
Alignment explanation
Indices: 19073218--19073368 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 79
19073208 TATGGTAACC
19073218 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
19073283 CGGATATCATAGCT
66 CGGATATCATAGCT
** * *
19073297 CGCACAATTGCCTTC-GG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
19073360 CGGATATCA
66 CGGATATCA
19073369 CAATTCGCAC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 53 0.78
78 2 0.03
79 13 0.19
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (79 bp):
CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:19074114 original size:25 final size:25
Alignment explanation
Indices: 19074086--19074135 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19074076 CATATTTATC
19074086 ACTTACTTCATAACCAAAACATCAT
1 ACTTACTTCATAACCAAAACATCAT
19074111 ACTTACTTCATAACCAAAACATCAT
1 ACTTACTTCATAACCAAAACATCAT
19074136 GTGCAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (25 bp):
ACTTACTTCATAACCAAAACATCAT
Found at i:19079045 original size:29 final size:29
Alignment explanation
Indices: 19079005--19079112 Score: 155
Period size: 29 Copynumber: 3.7 Consensus size: 29
19078995 GTTGAGAGAT
*
19079005 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
19079034 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
19079063 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
19079092 TGGCACTAAGTGTGCGCAGCT
1 TGGCACTAAGTGTGCG-AGCT
19079113 GATTATTAAG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
28 5 0.07
29 64 0.89
30 2 0.03
31 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:19094238 original size:48 final size:48
Alignment explanation
Indices: 19094185--19094356 Score: 168
Period size: 48 Copynumber: 3.6 Consensus size: 48
19094175 TCATATCAAC
*
19094185 GCCATATCCCAGATATGGTCTTACA-TGAAATCACATACCAA-ACTTGAT
1 GCCATATCCCAGATATGGTCTTACACTGAAA-CACATACCAATAC-CGAT
* ** * *
19094233 GCCATATCCTAGATATGGTCTTACACTGGCACACATATCAATGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTGAAACACATACCAATACCGAT
* * *** * * *
19094281 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTGAAACACATACCAATACCGAT
* *
19094329 GCCATGTCCCAGACATGGTCTTACACTG
1 GCCATATCCCAGATATGGTCTTACACTG
19094357 GATCTCATAA
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
48 107 0.96
49 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACTGAAACACATACCAATACCGAT
Found at i:19094357 original size:48 final size:48
Alignment explanation
Indices: 19094230--19094365 Score: 218
Period size: 48 Copynumber: 2.8 Consensus size: 48
19094220 TACCAAACTT
* * * * *
19094230 GATGCCATATCCTAGATATGGTCTTACACTGGCACACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATGCC
19094278 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATGCC
*
19094326 GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
19094366 AATCGTGGTG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATGCC
Found at i:19097980 original size:24 final size:24
Alignment explanation
Indices: 19097953--19097999 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
19097943 ATATGTTGAC
19097953 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
19097977 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
19098000 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:19098033 original size:24 final size:24
Alignment explanation
Indices: 19097963--19098025 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
19097953 ATTCAAATCA
* * * *
19097963 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
19097987 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
19098011 GCACACATAGTGCCA
1 GCACACATAGTGCCA
19098026 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:19099850 original size:20 final size:20
Alignment explanation
Indices: 19099801--19099850 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
19099791 ACGTGAAAAT
19099801 CATACATTTCACAATCATAA
1 CATACATTTCACAATCATAA
*
19099821 CATTCAATTT-ACACAT-ATAAA
1 CATAC-ATTTCACA-ATCAT-AA
19099842 CATACATTT
1 CATACATTT
19099851 TAGTTACACG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (20 bp):
CATACATTTCACAATCATAA
Found at i:19099852 original size:21 final size:20
Alignment explanation
Indices: 19099801--19099852 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
19099791 ACGTGAAAAT
*
19099801 CATACATTTCACAATCATAA
1 CATACATTTTACAATCATAA
* *
19099821 CATTCAATTTACACAT-ATAAA
1 CATACATTTTACA-ATCAT-AA
19099842 CATACATTTTA
1 CATACATTTTA
19099853 GTTACACGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (20 bp):
CATACATTTTACAATCATAA
Found at i:19104498 original size:43 final size:42
Alignment explanation
Indices: 19104419--19104589 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 42
19104409 TCTGAATTCA
* *
19104419 TTCACCGGCATT-T-CCTCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGC-CTGCTAGGC-CGAAGCCCGATATCAT
* * * *
19104461 TTCACCGGCATTATAGCCTACTAGGATCGAGGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGG-CCGAAGCCCGATATCAT
*
19104504 CTCACCGGCATTATAGCCTGCTAGGCCGGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCC-GAAGCCCGATATCAT
19104547 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGTATATCA
1 TTCACCGGCATTATAGCCTGCTAGG-CCGAAGCCCG-ATATCA
19104590 CATTTCGATA
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
42 13 0.12
43 89 0.80
44 9 0.08
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (42 bp):
TTCACCGGCATTATAGCCTGCTAGGCCGAAGCCCGATATCAT
Found at i:19111661 original size:3 final size:3
Alignment explanation
Indices: 19111655--19111704 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
19111645 ACTACTTTCA
19111655 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19111703 AA
1 AA
19111705 CATAACGATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19112214 original size:19 final size:18
Alignment explanation
Indices: 19112174--19112216 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
19112164 CAAATAATTT
* **
19112174 AAAATTTATAAAAAAATT
1 AAAAATTATAAAAAAAAA
19112192 AAAAATTATAAAAAGAAAA
1 AAAAATTATAAAAA-AAAA
19112211 AAAAAT
1 AAAAAT
19112217 GAAGCACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAAATTATAAAAAAAAA
Found at i:19117593 original size:43 final size:42
Alignment explanation
Indices: 19117521--19117764 Score: 215
Period size: 43 Copynumber: 5.7 Consensus size: 42
19117511 ACATTTATTG
* * *
19117521 CTATAGAACATGACCTTCAGCGACACTTTTACTACAAACGCTA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGC-A
* *
19117564 ATATAGAACATGACCTTTAGCGGTGCTTTTA-TCACAAACGCCA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTACT-ACAAACG-CA
* * * *
19117607 CTATAGAACATGACCTTTAGCTGTGATTTCT-CTACAAACGCCG
1 CTATAGAACATGACCTTTAGCGGCGCTTT-TACTACAAACG-CA
* ** *
19117650 CTATAGAACGTGACCTTTAGCGGCGCTTTCCCAACAAACGCA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCA
* * * ** *
19117692 GCTATAGAACGTGACATTTAGCGGCACTTTCCCGACAAACGCA
1 -CTATAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCA
* *
19117735 GCTATAAAACATGACCTTTAGTGGCG-TTTT
1 -CTATAGAACATGACCTTTAGCGGCGCTTTT
19117765 CACAAAAAAC
Statistics
Matches: 170, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
42 5 0.03
43 162 0.95
44 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
CTATAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCA
Found at i:19117712 original size:129 final size:129
Alignment explanation
Indices: 19117520--19117755 Score: 289
Period size: 129 Copynumber: 1.8 Consensus size: 129
19117510 GACATTTATT
* * *
19117520 GCTATAGAACATGACCTTCAGCGACACTTTTACTACAAACGCTAATATAGAACATGACCTTTAGC
1 GCTATAGAACATGACCTTCAGCGACACTTTCACAACAAACGCTAATATAGAACATGACATTTAGC
** * *
19117585 GGTGCTTTTATC-ACAAACGCCA-CTATAGAACATGACCTTTAGCTGTGATTTCTCTACAAACGC
66 GGCAC-TTTACCGACAAACG-CAGCTATAAAACATGACCTTTAGCTGTGATTTCTCTACAAACGC
19117648 C
129 C
* * * * * * *
19117649 GCTATAGAACGTGACCTTTAGCGGCGCTTTCCCAACAAACGC-AGCTATAGAACGTGACATTTAG
1 GCTATAGAACATGACCTTCAGCGACACTTTCACAACAAACGCTA-ATATAGAACATGACATTTAG
*
19117713 CGGCACTTTCCCGACAAACGCAGCTATAAAACATGACCTTTAG
65 CGGCACTTTACCGACAAACGCAGCTATAAAACATGACCTTTAG
19117756 TGGCGTTTTC
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
128 7 0.08
129 82 0.92
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (129 bp):
GCTATAGAACATGACCTTCAGCGACACTTTCACAACAAACGCTAATATAGAACATGACATTTAGC
GGCACTTTACCGACAAACGCAGCTATAAAACATGACCTTTAGCTGTGATTTCTCTACAAACGCC
Found at i:19117943 original size:19 final size:19
Alignment explanation
Indices: 19117919--19117955 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19117909 TTTTTGTAAC
*
19117919 AGCAAATACAAATCCAACT
1 AGCAAATACAAAGCCAACT
19117938 AGCAAATACAAAGCCAAC
1 AGCAAATACAAAGCCAAC
19117956 CAAAAATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.27, G:0.08, T:0.11
Consensus pattern (19 bp):
AGCAAATACAAAGCCAACT
Found at i:19118644 original size:13 final size:14
Alignment explanation
Indices: 19118618--19118646 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19118608 AACAAAGACG
19118618 AATTAAACCATTAT
1 AATTAAACCATTAT
19118632 AATTAAA-CATTAT
1 AATTAAACCATTAT
19118645 AA
1 AA
19118647 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:19123702 original size:9 final size:9
Alignment explanation
Indices: 19123688--19123839 Score: 91
Period size: 9 Copynumber: 17.1 Consensus size: 9
19123678 TTGATTTAAA
*
19123688 TTATGTTAG
1 TTATGTAAG
*
19123697 TTATGTAAA
1 TTATGTAAG
19123706 TTATGTAAG
1 TTATGTAAG
19123715 TTATGTAAG
1 TTATGTAAG
* *
19123724 TTATAATATG
1 TTAT-GTAAG
* * *
19123734 ATAT-TTAT
1 TTATGTAAG
19123742 TTATGT-A-
1 TTATGTAAG
*
19123749 TTATATAAG
1 TTATGTAAG
19123758 TTATGTAAG
1 TTATGTAAG
*
19123767 TTATGATATG
1 TTATG-TAAG
* * *
19123777 ATATAT-AT
1 TTATGTAAG
19123785 TTATGTAAG
1 TTATGTAAG
19123794 TTATGTAAG
1 TTATGTAAG
19123803 TTATG-ATA-
1 TTATGTA-AG
* * *
19123811 TGATATACAT
1 TTATGTA-AG
19123821 TTATGTAAG
1 TTATGTAAG
19123830 TTATGTAAG
1 TTATGTAAG
19123839 T
1 T
19123840 CCATAGATAT
Statistics
Matches: 108, Mismatches: 26, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
7 5 0.05
8 14 0.13
9 72 0.67
10 17 0.16
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:19123760 original size:43 final size:44
Alignment explanation
Indices: 19123697--19123807 Score: 170
Period size: 43 Copynumber: 2.5 Consensus size: 44
19123687 ATTATGTTAG
*
19123697 TTATGTAAATTATGTAAGTTATGTAAGTTATAATATGATATTTAT
1 TTATGT-AATTATGTAAGTTATGTAAGTTATAATATGATATATAT
* *
19123742 TTATGT-ATTATATAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAATTATGTAAGTTATGTAAGTTATAATATGATATATAT
19123785 TTATGTAAGTTATGTAAGTTATG
1 TTATGTAA-TTATGTAAGTTATG
19123808 ATATGATATA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 40 0.67
44 1 0.02
45 19 0.32
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (44 bp):
TTATGTAATTATGTAAGTTATGTAAGTTATAATATGATATATAT
Found at i:19123851 original size:79 final size:77
Alignment explanation
Indices: 19123706--19123858 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 77
19123696 GTTATGTAAA
** * *
19123706 TTATGTAAGTTATGTAAGTTATAATATGATATTTATTTATGTATTATATAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATAATATGATATACATTTATGTATTATATAAGTCA-GTAAGATAT
19123771 GATATGATATATAT
65 GATAT-ATATATAT
* *
19123785 TTATGTAAGTTATGTAAGTTATGATATGATATACATTTATGTAAGTTATGTAAGTCCA-T-AGAT
1 TTATGTAAGTTATGTAAGTTATAATATGATATACATTTATGT-A-TTATATAAGT-CAGTAAGAT
19123848 ATGATATATAT
63 ATGATATATAT
19123859 TTATCTATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
78 4 0.06
79 49 0.75
80 2 0.03
81 9 0.14
82 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (77 bp):
TTATGTAAGTTATGTAAGTTATAATATGATATACATTTATGTATTATATAAGTCAGTAAGATATG
ATATATATATAT
Found at i:19123870 original size:36 final size:36
Alignment explanation
Indices: 19123749--19123862 Score: 183
Period size: 36 Copynumber: 3.1 Consensus size: 36
19123739 TATTTATGTA
*
19123749 TTATATAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
*
19123785 TTATGTAAGTTATGTAAGTTATGATATGATATACAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
*
19123821 TTATGTAAGTTATGTAAGTCCATAGATATGATATATAT
1 TTATGTAAGTTATGTAAGT-TAT-GATATGATATATAT
19123859 TTAT
1 TTAT
19123863 CTATTATGAT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 53 0.74
37 2 0.03
38 17 0.24
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.46
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:19127241 original size:7 final size:7
Alignment explanation
Indices: 19127231--19127376 Score: 113
Period size: 7 Copynumber: 20.6 Consensus size: 7
19127221 GGTTTAGAAT
19127231 TTTAAGG
1 TTTAAGG
19127238 TTTAAGG
1 TTTAAGG
19127245 TTT-AGG
1 TTTAAGG
19127251 ATTTAATGG
1 -TTTAA-GG
19127260 TTTAAGGG
1 TTTAA-GG
19127268 TTT-AGTG
1 TTTAAG-G
19127275 TTT-AGAG
1 TTTAAG-G
19127282 TTT-AGTG
1 TTTAAG-G
*
19127289 TTTATGG
1 TTTAAGG
*
19127296 TTTAGGG
1 TTTAAGG
* *
19127303 TTTATGA
1 TTTAAGG
19127310 TTTAAGG
1 TTTAAGG
19127317 TTTAAGG
1 TTTAAGG
*
19127324 TTTAGGG
1 TTTAAGG
*
19127331 TTTAGGG
1 TTTAAGG
*
19127338 TTTAGGG
1 TTTAAGG
19127345 TTT-AGG
1 TTTAAGG
*
19127351 ATTTAGGG
1 -TTTAAGG
19127359 TTTAAGG
1 TTTAAGG
*
19127366 TTTAATG
1 TTTAAGG
19127373 TTTA
1 TTTA
19127377 CAATTTAGGG
Statistics
Matches: 118, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
6 6 0.05
7 96 0.81
8 14 0.12
9 2 0.02
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (7 bp):
TTTAAGG
Found at i:19127246 original size:22 final size:22
Alignment explanation
Indices: 19127216--19127272 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
19127206 GAAAGTTATT
*
19127216 TTTAGGGTTTAGAATTTTAA-GG
1 TTTAAGGTTTAGAA-TTTAATGG
*
19127238 TTTAAGGTTTAGGATTTAATGG
1 TTTAAGGTTTAGAATTTAATGG
19127260 TTTAAGGGTTTAG
1 TTTAA-GGTTTAG
19127273 TGTTTAGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 5 0.16
22 19 0.61
23 7 0.23
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (22 bp):
TTTAAGGTTTAGAATTTAATGG
Found at i:19127382 original size:28 final size:27
Alignment explanation
Indices: 19127296--19127386 Score: 92
Period size: 28 Copynumber: 3.3 Consensus size: 27
19127286 GTGTTTATGG
* * *
19127296 TTTAGGGTTTATGATTTAAGGTTTAAGG
1 TTTAGGGTTTAAGGTTTAAGGTTTAA-A
* * *
19127324 TTTAGGGTTTAGGGTTTAGGGTTTAGGA
1 TTTAGGGTTTAAGGTTTAAGGTTTA-AA
*
19127352 TTTAGGGTTTAAGGTTTAATGTTTACAA
1 TTTAGGGTTTAAGGTTTAAGGTTTA-AA
19127380 TTTAGGG
1 TTTAGGG
19127387 GTTAGGGATA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.45
Consensus pattern (27 bp):
TTTAGGGTTTAAGGTTTAAGGTTTAAA
Found at i:19127965 original size:41 final size:40
Alignment explanation
Indices: 19127919--19128108 Score: 188
Period size: 41 Copynumber: 4.7 Consensus size: 40
19127909 CGTTTGGATA
*
19127919 AAAAACACCACTATTGCTCAACCTTTT-GTGGCGTTTTGAAC
1 AAAAACACCACTATTGCTCAA-TTTTTAGTGGCG-TTTGAAC
* *
19127960 AAAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAA-
1 AAAAACACCACTATTGCTCAATTTTTAGTGGCGTTTGAAC
* *
19127999 ACAAAGCACCACTATTGCTCAATTTTTAGCT-GCGTTTGGAC
1 A-AAAACACCACTATTGCTCAATTTTTAG-TGGCGTTTGAAC
* * ** **
19128040 GAAGAACACCACTATTGCTCAGTTTTTAGCAGCGTTTGTTC
1 -AAAAACACCACTATTGCTCAATTTTTAGTGGCGTTTGAAC
*
19128081 AAAAAACGCCACTATTGCTCAACTTTTT
1 -AAAAACACCACTATTGCTCAA-TTTTT
19128109 GCGGCTTTTT
Statistics
Matches: 125, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 43 0.34
41 75 0.60
42 6 0.05
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (40 bp):
AAAAACACCACTATTGCTCAATTTTTAGTGGCGTTTGAAC
Found at i:19128059 original size:81 final size:80
Alignment explanation
Indices: 19127917--19128118 Score: 232
Period size: 81 Copynumber: 2.5 Consensus size: 80
19127907 CGCGTTTGGA
*
19127917 TAAAAAACACCACTATTGCTCAACCTTTTGTGGCGTTTTGAACAAAAACACCACTATTGCTCAAT
1 TAAAAAACACCACTATTGCTCAACTTTTTGTGGCGTTTTGAACAAAAACACCACTATTGCTCAAT
*
19127982 TTTTAGCGGCATTTG
66 TTTTAGCAGCATTTG
* *
19127997 -AAACAAAGCACCACTATTGCTCAA-TTTTTAGCT-GCG-TTTGGACGAAGAACACCACTATTGC
1 TAAA-AAA-CACCACTATTGCTCAACTTTTT-G-TGGCGTTTTGAAC-AAAAACACCACTATTGC
* *
19128058 TCAGTTTTTAGCAGCGTTTG
61 TCAATTTTTAGCAGCATTTG
* * *
19128078 TTCAAAAAACGCCACTATTGCTCAACTTTTTGCGGCTTTTT
1 -T-AAAAAACACCACTATTGCTCAACTTTTTGTGGCGTTTT
19128119 TGTTTAAGCG
Statistics
Matches: 102, Mismatches: 9, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
79 3 0.03
80 13 0.13
81 53 0.52
82 19 0.19
83 11 0.11
84 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (80 bp):
TAAAAAACACCACTATTGCTCAACTTTTTGTGGCGTTTTGAACAAAAACACCACTATTGCTCAAT
TTTTAGCAGCATTTG
Found at i:19130553 original size:22 final size:22
Alignment explanation
Indices: 19130512--19130553 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19130502 TGAATATCAC
*
19130512 TAAAATAAAAATTTGTAGAATT
1 TAAAATAAAAATTAGTAGAATT
19130534 TAAAATAAAACATTAG-AGAA
1 TAAAATAAAA-ATTAGTAGAA
19130554 AAAAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (22 bp):
TAAAATAAAAATTAGTAGAATT
Found at i:19137349 original size:20 final size:20
Alignment explanation
Indices: 19137324--19137362 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19137314 CATTAGTGCC
19137324 CCTGTTTGTACTTCGGTACT
1 CCTGTTTGTACTTCGGTACT
*
19137344 CCTGTTTGTACTTTGGTAC
1 CCTGTTTGTACTTCGGTAC
19137363 CCTTGAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (20 bp):
CCTGTTTGTACTTCGGTACT
Found at i:19137464 original size:40 final size:40
Alignment explanation
Indices: 19137342--19137456 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 40
19137332 TACTTCGGTA
* *
19137342 CTCCTGTTTGTACTTTGGTACCCTTGAATGCACATACGTG
1 CTCCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTG
* * *
19137382 CTCCTGTTTGTACTTCAGTACCCCTGAATGCACATGCCTG
1 CTCCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTG
* * *
19137422 CTCCGGTTTGTACTTCGGTACCCCTAAATGGACAT
1 CTCCTGTTTGTACTTCGGTACCCCTGAATGCACAT
19137457 TTGTGCTCTG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (40 bp):
CTCCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTG
Found at i:19140153 original size:49 final size:50
Alignment explanation
Indices: 19140100--19140204 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
19140090 TAGCTCTCTT
** *
19140100 GAGCTTCCCGTT-TATGGCTCATATGAGCCTCCAGATA-ATTGGCTCGCAA
1 GAGCTTCCCGTTATACAGCTCACATGAGCCTCCAGATACA-TGGCTCGCAA
* * * *
19140149 GAGCTTCCCGTTATACAGCTCACATGAGCTTCCTGTTACATGGCTCGGAA
1 GAGCTTCCCGTTATACAGCTCACATGAGCCTCCAGATACATGGCTCGCAA
19140199 GAGCTT
1 GAGCTT
19140205 GCTGATTACA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
49 12 0.26
50 34 0.72
51 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.29
Consensus pattern (50 bp):
GAGCTTCCCGTTATACAGCTCACATGAGCCTCCAGATACATGGCTCGCAA
Found at i:19140169 original size:25 final size:25
Alignment explanation
Indices: 19140141--19140204 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
19140131 CAGATAATTG
*
19140141 GCTCGCAAGAGCTTCCCGTTATACA
1 GCTCGCAAGAGCTTCCCGTTACACA
* * * **
19140166 GCTCACATGAGCTTCCTGTTACATG
1 GCTCGCAAGAGCTTCCCGTTACACA
*
19140191 GCTCGGAAGAGCTT
1 GCTCGCAAGAGCTT
19140205 GCTGATTACA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (25 bp):
GCTCGCAAGAGCTTCCCGTTACACA
Found at i:19144669 original size:20 final size:20
Alignment explanation
Indices: 19144640--19144684 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19144630 AGCACATGTA
* *
19144640 TTCATAAAATTTTATAATTT
1 TTCATAAAATTTTACAACTT
*
19144660 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
19144680 TTCAT
1 TTCAT
19144685 TTTAGTCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:19148734 original size:44 final size:44
Alignment explanation
Indices: 19148673--19148844 Score: 201
Period size: 43 Copynumber: 4.0 Consensus size: 44
19148663 ACATAGGATC
* * *
19148673 CGATATGTG-TTTTCGTGTAAGACCATGTCTGGGACATTAGCAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
* *
19148716 CGACT-TTTGATTTACGTGTAAGACCATGTCTGGGACATCGACAT
1 CGA-TATTTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
* * * *
19148760 CG-TATTTGATTT-CGTATAAGACCCTGTCTGGGACAATGGTAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
* *
19148802 CGATATTTGA-TTACATGTAACACCATGTCTGGGACATTGGCAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
19148845 TGTACGAGCT
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
42 29 0.27
43 45 0.42
44 33 0.31
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (44 bp):
CGATATTTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
Found at i:19161193 original size:19 final size:18
Alignment explanation
Indices: 19161169--19161207 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
19161159 AAAGAGCGAG
19161169 AAATGGGCCAAAATAGAGA
1 AAATGGGCCAAAAT-GAGA
* *
19161188 AAATGGGTCAACATGAGA
1 AAATGGGCCAAAATGAGA
19161206 AA
1 AA
19161208 TCGACCCGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.51, C:0.10, G:0.26, T:0.13
Consensus pattern (18 bp):
AAATGGGCCAAAATGAGA
Found at i:19163274 original size:29 final size:29
Alignment explanation
Indices: 19163241--19163401 Score: 178
Period size: 29 Copynumber: 5.6 Consensus size: 29
19163231 GTGACGAGAT
*
19163241 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
19163270 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
19163299 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
19163328 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* ** * * ***
19163357 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
19163386 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
19163402 GGCTTAAATT
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 115 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:19170005 original size:7 final size:7
Alignment explanation
Indices: 19169983--19170020 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
19169973 CACTAACATA
*
19169983 TTTTGAT
1 TTTTTAT
19169990 TTCTTTAT
1 TT-TTTAT
19169998 TTTTTAT
1 TTTTTAT
19170005 TTTTTAT
1 TTTTTAT
19170012 TTTTTAT
1 TTTTTAT
19170019 TT
1 TT
19170021 CTAACATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:19170015 original size:14 final size:15
Alignment explanation
Indices: 19169983--19170022 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
19169973 CACTAACATA
*
19169983 TTTTGATTTCTTTAT
1 TTTTTATTTCTTTAT
19169998 TTTTTATTT-TTTAT
1 TTTTTATTTCTTTAT
19170012 TTTTTATTTCT
1 TTTTTATTTCT
19170023 AACATTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTATTTCTTTAT
Found at i:19172339 original size:6 final size:6
Alignment explanation
Indices: 19172323--19172368 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
19172313 TTGAATCCTC
*
19172323 TTATCTT TTATTT TTATTT TTA--T TT-TTT TTATTT TTATTT TCATTT
1 TTAT-TT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
19172369 CAATTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
4 3 0.09
5 3 0.09
6 25 0.71
7 4 0.11
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:19172353 original size:15 final size:15
Alignment explanation
Indices: 19172333--19172363 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19172323 TTATCTTTTA
19172333 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
19172348 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
19172363 T
1 T
19172364 CATTTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:19172354 original size:21 final size:21
Alignment explanation
Indices: 19172328--19172368 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19172318 TCCTCTTATC
*
19172328 TTTTATTTTTATTTTTATTTT
1 TTTTATTTTTATTTTCATTTT
19172349 TTTTATTTTTATTTTCATTT
1 TTTTATTTTTATTTTCATTT
19172369 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTATTTTTATTTTCATTTT
Found at i:19172374 original size:27 final size:26
Alignment explanation
Indices: 19172328--19172383 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
19172318 TCCTCTTATC
* * * *
19172328 TTTTATTTTTATTTTTATTTTTTTTAT
1 TTTTATTTTCA-TTTCAATTTTATTAT
19172355 TTTTATTTTCATTTCAATTTTATTAT
1 TTTTATTTTCATTTCAATTTTATTAT
19172381 TTT
1 TTT
19172384 CTTTTGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTATTTTCATTTCAATTTTATTAT
Found at i:19177932 original size:22 final size:20
Alignment explanation
Indices: 19177893--19177932 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
19177883 ATCATTTTGC
19177893 AAAAAAAAAAAAAAACAAAG
1 AAAAAAAAAAAAAAACAAAG
*
19177913 AAAAAGAAAGAAAAATACAA
1 AAAAA-AAA-AAAAAAACAA
19177933 GCTAGTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 3 0.18
22 9 0.53
ACGTcount: A:0.85, C:0.05, G:0.07, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAAAAAACAAAG
Found at i:19178883 original size:43 final size:43
Alignment explanation
Indices: 19178726--19178884 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
19178716 ATTGTGTTTT
* *
19178726 CATGTAAGACCACGTCTGAGACGTTGGCATC-A-ACTTATTATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATA-TT-TGA-TTA
** * * * * *
19178770 TTTGTAAGACCATGTTTGGGACATTGGCATTG-TATTTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
*
19178812 CATGTAAGACC-CAGTCTGCGACAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
*
19178855 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
19178885 TGTATGAGCT
Statistics
Matches: 89, Mismatches: 19, Indels: 15
0.72 0.15 0.12
Matches are distributed among these distances:
42 26 0.29
43 35 0.39
44 27 0.30
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:19194823 original size:36 final size:36
Alignment explanation
Indices: 19194771--19194843 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
19194761 CTCGAGACAT
19194771 AAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 AAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
* *
19194807 AAGTTAGTGTAAGACCATGTTTGGGACATGGCATCG
1 AAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
19194843 A
1 A
19194844 CTTGAGATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (36 bp):
AAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
Found at i:19194867 original size:83 final size:81
Alignment explanation
Indices: 19194729--19194887 Score: 212
Period size: 83 Copynumber: 1.9 Consensus size: 81
19194719 GTGTGTGGGC
* *
19194729 TAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGACATAAGTCAGTGTAAGACCATGTCTG
1 TAGTGTAAGACATGTTTGGGACATGCATCGGACTCGAGACATAAGCCAGTGTAAGACCATGTCTG
19194794 GGACATGGCATCGAAGT
66 GG-CATGGCATCGAAGT
* ** * * *
19194811 TAGTGTAAGACCATGTTTGGGACATGGCATC-GACTTGAGATGTGAGCCAGTGTAAGATCGTGTC
1 TAGTGTAAGA-CATGTTTGGGACAT-GCATCGGACTCGAGACATAAGCCAGTGTAAGACCATGTC
19194875 TGGGCATGGCATC
64 TGGGCATGGCATC
19194888 AGCACCTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
82 19 0.28
83 43 0.64
84 5 0.07
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (81 bp):
TAGTGTAAGACATGTTTGGGACATGCATCGGACTCGAGACATAAGCCAGTGTAAGACCATGTCTG
GGCATGGCATCGAAGT
Found at i:19205038 original size:24 final size:24
Alignment explanation
Indices: 19204945--19205043 Score: 94
Period size: 25 Copynumber: 4.0 Consensus size: 24
19204935 ATGAGTATCT
**
19204945 CGTTATATGGCTCTCACAAGCTTCC
1 CGTT-TATGGCTCTCATGAGCTTCC
19204970 CGATATT-TGGCTCTCATGAGCTTCC
1 CG-T-TTATGGCTCTCATGAGCTTCC
* * *
19204995 CAATTAATGGCTCTCTTGAGCTTCC
1 C-GTTTATGGCTCTCATGAGCTTCC
19205020 CGTTTATGGCTCGT-ATGAGCTTCC
1 CGTTTATGGCTC-TCATGAGCTTCC
19205044 AGATAATTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
24 19 0.31
25 39 0.64
26 2 0.03
27 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.35
Consensus pattern (24 bp):
CGTTTATGGCTCTCATGAGCTTCC
Found at i:19213179 original size:19 final size:20
Alignment explanation
Indices: 19213129--19213179 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
19213119 GTTAAGTGAC
*
19213129 AGGTTAATTAGATTTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
19213150 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
19213169 AGGTTAATTAG
1 AGGTTAATTAG
19213180 GTATAAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 12 0.48
20 8 0.32
21 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:19213511 original size:17 final size:20
Alignment explanation
Indices: 19213474--19213515 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 20
19213464 GAATGAGCAA
19213474 GGAAAGAAAGAAGGAAAAAG
1 GGAAAGAAAGAAGGAAAAAG
19213494 GGAAAGAAA-AA-G-AAAAG
1 GGAAAGAAAGAAGGAAAAAG
19213511 GGAAA
1 GGAAA
19213516 ATTAGGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 1 0.05
19 2 0.09
20 9 0.41
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
GGAAAGAAAGAAGGAAAAAG
Found at i:19213856 original size:24 final size:26
Alignment explanation
Indices: 19213828--19213881 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
19213818 GAAACTTGTT
19213828 TAAAGAA-AG-TATTAAATGAAAATA
1 TAAAGAAGAGTTATTAAATGAAAATA
*
19213852 TAAAGAATGTGTTATTAAATGAAAATA
1 TAAAGAA-GAGTTATTAAATGAAAATA
19213879 TAA
1 TAA
19213882 GATTTATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
26 1 0.04
27 18 0.69
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (26 bp):
TAAAGAAGAGTTATTAAATGAAAATA
Found at i:19215920 original size:39 final size:40
Alignment explanation
Indices: 19215790--19215956 Score: 212
Period size: 40 Copynumber: 4.2 Consensus size: 40
19215780 TGAATGATAC
*
19215790 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
19215830 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * ** *
19215870 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
19215909 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
19215949 CC-GGCTAA
1 CCGGGCTAA
19215957 ATTCCGAAGA
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 37 0.33
40 74 0.67
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:19215948 original size:79 final size:80
Alignment explanation
Indices: 19215790--19215956 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 80
19215780 TGAATGATAC
* * ** * * *
19215790 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTA
19215855 TGCTAGTGATTATAT
66 TGCTAGTGATTATAT
* * *
19215870 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-ACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTA
* *
19215934 TGCTTGTGGTTATAT
66 TGCTAGTGATTATAT
19215949 CC-GGCTAA
1 CCGGGCTAA
19215957 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
78 6 0.08
79 40 0.53
80 29 0.39
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTA
TGCTAGTGATTATAT
Found at i:19223938 original size:40 final size:40
Alignment explanation
Indices: 19223883--19224050 Score: 221
Period size: 40 Copynumber: 4.2 Consensus size: 40
19223873 TGAATGATAC
*
19223883 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
19223923 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * ** *
19223963 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
19224003 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
19224043 CC-GGCTAA
1 CCGGGCTAA
19224051 ATTCCGAAGA
Statistics
Matches: 111, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 5 0.05
40 106 0.95
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:19232016 original size:40 final size:40
Alignment explanation
Indices: 19231961--19232137 Score: 212
Period size: 40 Copynumber: 4.5 Consensus size: 40
19231951 TGAATGATAC
19231961 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
19232001 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* * * * ** *
19232041 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* * * * * *
19232081 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* *
19232121 CC-GGCTAAATTCCGAAG
1 CCGGGCTAAGTCCCGAAG
19232138 AAGCTCGGTT
Statistics
Matches: 117, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 11 0.09
40 106 0.91
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:19236323 original size:42 final size:40
Alignment explanation
Indices: 19236163--19236315 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 40
19236153 TGAGTTTACG
* * * * *
19236163 TGTAAGACCATATCCGGAATATGGCATTATTATGATATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGA--TCA
* * * **
19236205 TGTAAAACCATGTCTGGGACATGGCATCAATATGAGAATTG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAG-ATCA
* * *
19236246 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATATGAGAT--CA
19236289 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
19236316 TGGTATGATT
Statistics
Matches: 87, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 19 0.22
42 48 0.55
43 20 0.23
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (40 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATCA
Found at i:19242974 original size:20 final size:20
Alignment explanation
Indices: 19242946--19242986 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19242936 AGTGCATATA
*
19242946 TTCTACAAAATTCAGAATTT
1 TTCTACAAAATTCACAATTT
* *
19242966 TTCTTCAAATTTCACAATTT
1 TTCTACAAAATTCACAATTT
19242986 T
1 T
19242987 ACATTTTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.46
Consensus pattern (20 bp):
TTCTACAAAATTCACAATTT
Found at i:19247388 original size:20 final size:20
Alignment explanation
Indices: 19247355--19247427 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
19247345 CTTCAGCACC
19247355 CCTGTTTGTACTTTGGTACT
1 CCTGTTTGTACTTTGGTACT
19247375 CCTGTTTGTACTTTGGTAGC-
1 CCTGTTTGTACTTTGGTA-CT
** * *
19247395 CCTGAATGCACTTTAGTACT
1 CCTGTTTGTACTTTGGTACT
19247415 CCTGTTTGTACTT
1 CCTGTTTGTACTT
19247428 CAGTACCCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (20 bp):
CCTGTTTGTACTTTGGTACT
Found at i:19247432 original size:20 final size:20
Alignment explanation
Indices: 19247339--19247433 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
19247329 AGTGACCCTA
* * *
19247339 TTTGTACTTCAGCACCCCTG
1 TTTGTACTTTAGTACTCCTG
*
19247359 TTTGTACTTTGGTACTCCTG
1 TTTGTACTTTAGTACTCCTG
*
19247379 TTTGTACTTTGGTAGC-CCTG
1 TTTGTACTTTAGTA-CTCCTG
** *
19247399 AATGCACTTTAGTACTCCTG
1 TTTGTACTTTAGTACTCCTG
*
19247419 TTTGTACTTCAGTAC
1 TTTGTACTTTAGTAC
19247434 CCCAGAGTGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.02
20 59 0.97
21 1 0.02
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (20 bp):
TTTGTACTTTAGTACTCCTG
Found at i:19247495 original size:40 final size:40
Alignment explanation
Indices: 19247319--19247495 Score: 149
Period size: 40 Copynumber: 4.4 Consensus size: 40
19247309 ATGTTACTGA
* * * *
19247319 AATGCACATTAGTGAC-CCTATTTGTACTTCAGCACCCCTG
1 AATGCACATTCGTG-CTCCTGTTTGTACTTCGGTACCCCTG
** * * * * * *
19247359 TTTGTACTTTGGTACTCCTGTTTGTACTTTGGTAGCCCTG
1 AATGCACATTCGTGCTCCTGTTTGTACTTCGGTACCCCTG
* * * * *
19247399 AATGCACTTTAGTACTCCTGTTTGTACTTCAGTACCCCAG
1 AATGCACATTCGTGCTCCTGTTTGTACTTCGGTACCCCTG
* * * *
19247439 AGTGCACATGCATGCTCCTGTTTGTACTTCGGTATCCCTG
1 AATGCACATTCGTGCTCCTGTTTGTACTTCGGTACCCCTG
19247479 AATGCACATTCGTGCTC
1 AATGCACATTCGTGCTC
19247496 TGAAGGCTCT
Statistics
Matches: 105, Mismatches: 31, Indels: 2
0.76 0.22 0.01
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.36
Consensus pattern (40 bp):
AATGCACATTCGTGCTCCTGTTTGTACTTCGGTACCCCTG
Found at i:19248982 original size:22 final size:22
Alignment explanation
Indices: 19248951--19248998 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
19248941 GCACTAAGTC
*
19248951 AACAGAACAGCTCA-AGGCCGTA
1 AACAGAACAGCACATA-GCCGTA
*
19248973 AACAGGACAGCACATAGCCGTA
1 AACAGAACAGCACATAGCCGTA
19248995 AACA
1 AACA
19248999 TCGCAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.44, C:0.27, G:0.21, T:0.08
Consensus pattern (22 bp):
AACAGAACAGCACATAGCCGTA
Found at i:19249229 original size:22 final size:22
Alignment explanation
Indices: 19249201--19249265 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
19249191 GCAAATATGT
19249201 TTGGCACACAGCCATAATCAGG
1 TTGGCACACAGCCATAATCAGG
*
19249223 TTGGCACACAGCCAT-ATGTAGG
1 TTGGCACACAGCCATAAT-CAGG
*
19249245 TTGGCACAAAGCCATAATCAG
1 TTGGCACACAGCCATAATCAG
19249266 AATAATTGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACACAGCCATAATCAGG
Found at i:19249757 original size:27 final size:27
Alignment explanation
Indices: 19249727--19249791 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
19249717 TTCACTTTAT
* *
19249727 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTCGGTAAATCTACAAACC
* *
19249754 AAGGGTATTTCGGTAATTTTACAAACC
1 AAGGGTATTTCGGTAAATCTACAAACC
*
19249781 AATGGTATTTC
1 AAGGGTATTTC
19249792 TATAATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (27 bp):
AAGGGTATTTCGGTAAATCTACAAACC
Found at i:19249797 original size:27 final size:27
Alignment explanation
Indices: 19249746--19250089 Score: 117
Period size: 27 Copynumber: 12.7 Consensus size: 27
19249736 TTGGTAAATC
*
19249746 TACAAACCAAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* *
19249773 TACAAACCAATGGTATTTCTATAATTTT
1 TACAAACCAAGGGTATTTCGATAA-TTT
** *
19249801 TA-AAAGTTAAGGGTATTTTTG-TAATTT
1 TACAAA-CCAAGGGTA-TTTCGATAATTT
**** * **
19249828 TGTTTATCAAAAGTATTTCTG-TAATTT
1 TACAAACCAAGGGTATTTC-GATAATTT
* * *
19249855 T-CTAAATCAAGGGTATTTCGGTTATTT
1 TAC-AAACCAAGGGTATTTCGATAATTT
* * * *
19249882 TCCAAATCAAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* * * *
19249909 TACAAATCGAGGGTATTTTGATAGTTT
1 TACAAACCAAGGGTATTTCGATAATTT
* **** * *
19249936 TATAAGTTGAGGGCATTT-TAGTAATTT
1 TACAAACCAAGGGTATTTCGA-TAATTT
* ** * *
19249963 TATAGGTCGAA-GGTATTTCGGTAATTT
1 TACA-AACCAAGGGTATTTCGATAATTT
* ** * * *
19249990 CACAAATTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* * *
19250017 TACAAACTAAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* *
19250044 TACAAACC-AGTGGTATTTTGGTAATTT
1 TACAAACCAAG-GGTATTTCGATAATTT
* * *
19250071 TGCAAATCGAGGGTATTTC
1 TACAAACCAAGGGTATTTC
19250090 TTATTTTTTG
Statistics
Matches: 247, Mismatches: 56, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
26 8 0.03
27 217 0.88
28 19 0.08
29 3 0.01
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCGATAATTT
Found at i:19249845 original size:82 final size:81
Alignment explanation
Indices: 19249758--19249909 Score: 189
Period size: 82 Copynumber: 1.9 Consensus size: 81
19249748 CAAACCAAGG
* * * * *
19249758 GTATTTCGGTAATTTTAC-AAACCAATGGTATTTCTATAATTTTTAAAAGTTAAGGGTATTTTTG
1 GTATTTCGGTAATTTT-CTAAACCAAGGGTATTTCGATAATTTTCAAAA-TCAAGGGTATTTTGG
19249822 TAATTTTGTTTATCAAAA
64 TAATTTTGTTTATCAAAA
* * * * *
19249840 GTATTTCTGTAATTTTCTAAATCAAGGGTATTTCGGTTATTTTCCAAATCAAGGGTATTTTGGTA
1 GTATTTCGGTAATTTTCTAAACCAAGGGTATTTCGATAATTTTCAAAATCAAGGGTATTTTGGTA
19249905 ATTTT
66 ATTTT
19249910 ACAAATCGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 21 0.36
82 38 0.64
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (81 bp):
GTATTTCGGTAATTTTCTAAACCAAGGGTATTTCGATAATTTTCAAAATCAAGGGTATTTTGGTA
ATTTTGTTTATCAAAA
Found at i:19249891 original size:54 final size:54
Alignment explanation
Indices: 19249753--19250089 Score: 181
Period size: 54 Copynumber: 6.2 Consensus size: 54
19249743 ATCTACAAAC
* * *
19249753 CAAGGGTATTTCGGTAATTTTACAAACCAATGGTATTTCTATAATTTT-TAAAAGT
1 CAAGGGTATTTCGGTAATTTTACAAATCAAAGGTATTTCTGTAATTTTCT-AAA-T
* ** **** *
19249808 TAAGGGTATTTTTGTAATTTTGTTTATCAAAAGTATTTCTGTAATTTTCTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAATCAAAGGTATTTCTGTAATTTTCTAAAT
* * *
19249862 CAAGGGTATTTCGGTTATTTTCCAAATCAAGGGTATTT-TGGTAATTTTAC-AAAT
1 CAAGGGTATTTCGGTAATTTTACAAATCAAAGGTATTTCT-GTAATTTT-CTAAAT
* * * * * * ** * * * **
19249916 CGAGGGTATTTTGATAGTTTTATAAGTTGAGGGCATTT-TAGTAATTTTATAGGT
1 CAAGGGTATTTCGGTAATTTTACAAATCAAAGGTATTTCT-GTAATTTTCTAAAT
* * **
19249970 CGAA-GGTATTTCGGTAATTTCACAAATTAGGGGTATTT-TGGTAATTTTAC-AAA-
1 C-AAGGGTATTTCGGTAATTTTACAAATCAAAGGTATTTCT-GTAATTTT-CTAAAT
* * **
19250023 CTAAGGGTATTTTGGTAATTTTACAAACCAGTGGTATTT-TGGTAATTTTGC-AAAT
1 C-AAGGGTATTTCGGTAATTTTACAAATCAAAGGTATTTCT-GTAATTTT-CTAAAT
*
19250078 CGAGGGTATTTC
1 CAAGGGTATTTC
19250090 TTATTTTTTG
Statistics
Matches: 215, Mismatches: 59, Indels: 17
0.74 0.20 0.06
Matches are distributed among these distances:
53 4 0.02
54 167 0.78
55 43 0.20
56 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCGGTAATTTTACAAATCAAAGGTATTTCTGTAATTTTCTAAAT
Found at i:19249963 original size:81 final size:81
Alignment explanation
Indices: 19249727--19250088 Score: 227
Period size: 81 Copynumber: 4.5 Consensus size: 81
19249717 TTCACTTTAT
* * * * * * * * * *
19249727 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGGTAATTTTACAAACCAATGGTATTTC
1 AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAACTAAGGGCATTT-
*
19249792 TA-TAATTTTTA-AAAGTT
65 TAGTAA-TTTTACAAA-TC
* **** * ** *
19249809 AAGGGTATTTTTGTAATTTTGTTTATCAAAAGTATTTCTG-TAATTTT-CTAAA-TCAAGGGTAT
1 AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTT-TGATAATTTTAC-AAACT-AAGGGCAT
** * *
19249871 TTCGGTTATTTTCCAAATC
63 TTTAGTAATTTTACAAATC
* * ** *
19249890 AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGATAGTTTTATAAGTTGAGGGCATTTT
1 AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAACTAAGGGCATTTT
* **
19249955 AGTAATTTTATAGGTC
66 AGTAATTTTACAAATC
* * * * *
19249971 GAA-GGTATTTCGGTAATTTCACAAAT-TAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATT
1 -AAGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGATAATTTTACAAACTAAGGGCATT
*
19250034 TTGGTAATTTTACAAA-C
64 TTAGTAATTTTACAAATC
* *
19250051 CAGTGGTATTTTGGTAATTTTGCAAATCGAGGGTATTT
1 AAG-GGTATTTTGGTAATTTTACAAATCGAGGGTATTT
19250089 CTTATTTTTT
Statistics
Matches: 209, Mismatches: 58, Indels: 27
0.71 0.20 0.09
Matches are distributed among these distances:
79 1 0.00
80 4 0.02
81 149 0.71
82 54 0.26
83 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (81 bp):
AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAACTAAGGGCATTTT
AGTAATTTTACAAATC
Found at i:19252893 original size:41 final size:41
Alignment explanation
Indices: 19252833--19252957 Score: 196
Period size: 41 Copynumber: 3.0 Consensus size: 41
19252823 CTTAAAAGCC
** * *
19252833 ATCGGTGGATCCAATGTCGTCAAGCAACCATGCGATCCTTA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCA
19252874 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCA
* *
19252915 ATCGATGGATCCACGATCGTCAAGCAACCATGCAATCCTCA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCA
19252956 AT
1 AT
19252958 TTCTTCCTCC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
ATCGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCA
Found at i:19253035 original size:29 final size:29
Alignment explanation
Indices: 19252993--19253053 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
19252983 CCCATGTGCA
19252993 ACATAATATTATATAAATGCAACAAATAT
1 ACATAATATTATATAAATGCAACAAATAT
* *
19253022 ACATAATATTATATGAATGCAGCAAATAT
1 ACATAATATTATATAAATGCAACAAATAT
19253051 ACA
1 ACA
19253054 CACGACATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (29 bp):
ACATAATATTATATAAATGCAACAAATAT
Found at i:19253255 original size:27 final size:27
Alignment explanation
Indices: 19253225--19253294 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
19253215 TTCACCCTAC
* *
19253225 AAGGGTGTTTTGGTAAATTTACAAACT
1 AAGGGTATTTCGGTAAATTTACAAACT
* * *
19253252 AAGGGTATTTCGGTAATTTTGCAAACC
1 AAGGGTATTTCGGTAAATTTACAAACT
* *
19253279 AATGGTATTTCTGTAA
1 AAGGGTATTTCGGTAA
19253295 TTTTTGAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
AAGGGTATTTCGGTAAATTTACAAACT
Found at i:19253295 original size:27 final size:27
Alignment explanation
Indices: 19253252--19253434 Score: 144
Period size: 27 Copynumber: 6.8 Consensus size: 27
19253242 TTTACAAACT
* *
19253252 AAGGGTATTTCGGTAATTTTGCAAACC
1 AAGGGTATTTCTGTAATTTTGCAAATC
* *
19253279 AATGGTATTTCTGTAATTTTTG-AATGTC
1 AAGGGTATTTCTGTAA-TTTTGCAA-ATC
* *
19253307 AAGGGTGTTTCTGTAATTTTGTAAATC
1 AAGGGTATTTCTGTAATTTTGCAAATC
* *
19253334 -AGGGATATTTTTGTAATTTTCCAAATC
1 AAGGG-TATTTCTGTAATTTTGCAAATC
* * * *
19253361 AAAGGTATTTCGGTCATTTTCCAAATC
1 AAGGGTATTTCTGTAATTTTGCAAATC
* * *
19253388 AGGGGTATTT-TGGTAATTTT-AAAACC
1 AAGGGTATTTCT-GTAATTTTGCAAATC
19253414 AAGGGT-TTT-TGGTAATTTTGC
1 AAGGGTATTTCT-GTAATTTTGC
19253435 TAATTTTGTA
Statistics
Matches: 126, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
25 13 0.10
26 13 0.10
27 75 0.60
28 25 0.20
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTCTGTAATTTTGCAAATC
Found at i:19253464 original size:35 final size:34
Alignment explanation
Indices: 19253394--19253465 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 34
19253384 AATCAGGGGT
* * **
19253394 ATTTTGGTAATTTTAAAACCAAGGGTTTTTGGTA
1 ATTTTGCTAATTTTAAAACCAAGGGTATTCAGTA
*
19253428 ATTTTGCTAATTTTGTAAACCAAGGGTATTCAGTA
1 ATTTTGCTAATTTT-AAAACCAAGGGTATTCAGTA
19253463 ATT
1 ATT
19253466 CTATCCTACA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 13 0.41
35 19 0.59
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (34 bp):
ATTTTGCTAATTTTAAAACCAAGGGTATTCAGTA
Found at i:19253487 original size:27 final size:27
Alignment explanation
Indices: 19253456--19253530 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
19253446 ACCAAGGGTA
*
19253456 TTCAGTAATTCTATCCTACAGGGGCAT
1 TTCAGTAATTCTACCCTACAGGGGCAT
19253483 TTCAGTAATTCTACCCTACAGGGGCAT
1 TTCAGTAATTCTACCCTACAGGGGCAT
* * *
19253510 TTCAATAATACTAGCCTACAG
1 TTCAGTAATTCTACCCTACAG
19253531 ATATGAGATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (27 bp):
TTCAGTAATTCTACCCTACAGGGGCAT
Found at i:19270524 original size:28 final size:28
Alignment explanation
Indices: 19270463--19270560 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
19270453 TCACAAATTG
** * *
19270463 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
19270492 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
19270520 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
19270548 GCACTAAGTGTGC
1 GCACTAAGTGTGC
19270561 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Done.