Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 61 of 433
Found at i:17445821 original size:54 final size:54
Alignment explanation
Indices: 17445507--17445839 Score: 470
Period size: 54 Copynumber: 6.2 Consensus size: 54
17445497 ACCAAATCAT
* *
17445507 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTAT
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTAC
* * *
17445561 CAAAATACCCCTGGTTTGTAAAATTACTACAATACCCTTGGTTTATAAAATCAC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTAC
* *
17445615 CAAAATACCCTTGG-TTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTAC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTAC
** *
17445668 CAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTAC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTAC
* * *
17445722 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTAT
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTAC
* * * * * *
17445776 CAAAATACCCCTAGTTTGTAAAATTACCAAACTACCATTGATTTGTGAAATTAC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTAC
**
17445830 TGAAATACCC
1 CAAAATACCC
17445840 TCGACCTGTA
Statistics
Matches: 248, Mismatches: 30, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
53 46 0.19
54 202 0.81
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTAC
Found at i:17445850 original size:81 final size:81
Alignment explanation
Indices: 17445507--17445896 Score: 390
Period size: 81 Copynumber: 4.8 Consensus size: 81
17445497 ACCAAATCAT
* * * ** * *
17445507 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTATCAAAATACCCC
1 CAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT
17445572 TGGTTTGTAAAATTAC
66 TGGTTTGTAAAATTAC
* * * * * * * *
17445588 TACAATACCCTTGGTTTATAAAATCACCAAAATA-CCCTTGGTTGTAAAATTACCAAAATACCCT
1 CAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT
**
17445652 TGGTTTACAAAATTAC
66 TGGTTTGTAAAATTAC
* * * * * *
17445668 CAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCC
1 CAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT
17445733 TGGTTTGTAAAATTAC
66 TGGTTTGTAAAATTAC
* * * *
17445749 CAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAACTACCAT
1 CAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT
* *
17445814 TGATTTGTGAAATTAC
66 TGGTTTGTAAAATTAC
** ** *** ** *
17445830 TGAAATA-CCCTCGACCTGTAAAATTATTGAAATA-CCCTCAACTTGTAAAATTACCAAAGTACC
1 CAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACC
17445893 CTTG
64 CTTG
17445897 ATTTACAGAA
Statistics
Matches: 254, Mismatches: 52, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
80 71 0.28
81 183 0.72
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
CAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT
TGGTTTGTAAAATTAC
Found at i:17445892 original size:27 final size:28
Alignment explanation
Indices: 17445507--17445900 Score: 345
Period size: 27 Copynumber: 14.6 Consensus size: 28
17445497 ACCAAATCAT
*
17445507 CAAAATACCC-CTGGTTTGTAAAATTAC
1 CAAAATACCCTCTGATTTGTAAAATTAC
* ** *
17445534 CAAAATACCCT-TGGTTTACAAAATTAT
1 CAAAATACCCTCTGATTTGTAAAATTAC
*
17445561 CAAAATACCC-CTGGTTTGTAAAATTAC
1 CAAAATACCCTCTGATTTGTAAAATTAC
* * * * *
17445588 TACAATACCCT-TGGTTTATAAAATCAC
1 CAAAATACCCTCTGATTTGTAAAATTAC
*
17445615 CAAAATACCCT-TG-GTTGTAAAATTAC
1 CAAAATACCCTCTGATTTGTAAAATTAC
* **
17445641 CAAAATACCCT-TGGTTTACAAAATTAC
1 CAAAATACCCTCTGATTTGTAAAATTAC
*
17445668 CAAAATACCC-CTAATTTGTAAAATTAC
1 CAAAATACCCTCTGATTTGTAAAATTAC
* * *
17445695 TAAAATACCCT-TGGTTTATAAAATTAC
1 CAAAATACCCTCTGATTTGTAAAATTAC
*
17445722 CAAAATACCC-CTGGTTTGTAAAATTAC
1 CAAAATACCCTCTGATTTGTAAAATTAC
* *
17445749 CAAAATACCC-CTGGTTTGTAAAATTAT
1 CAAAATACCCTCTGATTTGTAAAATTAC
17445776 CAAAATACCC-CT-AGTTTGTAAAATTAC
1 CAAAATACCCTCTGA-TTTGTAAAATTAC
* * *
17445803 CAAACTACCAT-TGATTTGTGAAATTAC
1 CAAAATACCCTCTGATTTGTAAAATTAC
** ** *
17445830 TGAAATACCCTC-GACCTGTAAAATTAT
1 CAAAATACCCTCTGATTTGTAAAATTAC
** * *
17445857 TGAAATACCCTC-AACTTGTAAAATTAC
1 CAAAATACCCTCTGATTTGTAAAATTAC
*
17445884 CAAAGTACCCT-TGATTT
1 CAAAATACCCTCTGATTT
17445901 ACAGAATTAC
Statistics
Matches: 305, Mismatches: 50, Indels: 24
0.80 0.13 0.06
Matches are distributed among these distances:
26 23 0.08
27 281 0.92
28 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (28 bp):
CAAAATACCCTCTGATTTGTAAAATTAC
Found at i:17445908 original size:27 final size:26
Alignment explanation
Indices: 17445876--17445950 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
17445866 CTCAACTTGT
17445876 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* *** *
17445903 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACC-AAATACCCTTGATTTAC
17445930 AAAATTACCGAAATACCCTTG
1 AAAATTACC-AAATACCCTTG
17445951 TAGGGTAGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:17445969 original size:27 final size:27
Alignment explanation
Indices: 17445935--17446177 Score: 292
Period size: 27 Copynumber: 9.0 Consensus size: 27
17445925 TTTACAAAAT
17445935 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
**
17445962 TATTGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
17445989 TACCAAAATACCCCTGTAAGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
17446016 TACCGAAATACCCCTT-TAGGGTAGAAT
1 TACCGAAATA-CCCTTGTAGGGTAGAAA
** * *
17446043 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
17446070 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
17446097 TACCGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
17446124 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
17446151 TACTGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
17446177 T
1 T
17446178 TACCATTTTA
Statistics
Matches: 187, Mismatches: 27, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
26 7 0.04
27 176 0.94
28 4 0.02
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:17446193 original size:81 final size:81
Alignment explanation
Indices: 17445935--17446177 Score: 353
Period size: 81 Copynumber: 3.0 Consensus size: 81
17445925 TTTACAAAAT
* * * * * * *
17445935 TACCGAAATACCCTTGTAGGGTAGAAATATTGAAATACCCTTGTAGGGTAGAAATACCAAAATAC
1 TACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
* *
17446000 CCCTGTAAGGTAGAAA
66 CCTTGTAGGGTAGAAA
* *
17446016 TACCGAAATACCCCTTTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATAC
1 TACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
17446081 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
* *
17446097 TACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAGATAC
1 TACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
*
17446162 CCTTGTGGGGTA-AAA
66 CCTTGTAGGGTAGAAA
17446177 T
1 T
17446178 TACCATTTTA
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 4 0.03
81 143 0.97
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (81 bp):
TACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
CCTTGTAGGGTAGAAA
Found at i:17446470 original size:27 final size:26
Alignment explanation
Indices: 17446426--17446477 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
17446416 CTCACTGCAA
*
17446426 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
17446453 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
17446478 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:17446545 original size:26 final size:26
Alignment explanation
Indices: 17446516--17446572 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 26
17446506 CCACATATAT
*
17446516 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
17446542 ATATC--TTCTGGTGACTTCGTCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
17446566 ATATCTG
1 ATATCTG
17446573 GCAGCTTCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 20 0.80
26 5 0.20
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:17446700 original size:6 final size:6
Alignment explanation
Indices: 17446691--17446861 Score: 116
Period size: 6 Copynumber: 27.8 Consensus size: 6
17446681 TTGCATTCAC
* * *
17446691 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCAG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * * *
17446741 ATTCTT ATTCTG GTTCTG ATTTTG ATTCTG -TTACCTA ATACTG ATACTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * *
17446790 ATTCTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
17446839 ATTCTG ATTCTT ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
17446862 AGTTTTGATA
Statistics
Matches: 130, Mismatches: 23, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
5 7 0.05
6 108 0.83
7 10 0.08
8 5 0.04
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:17446722 original size:25 final size:25
Alignment explanation
Indices: 17446694--17446758 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
17446684 CATTCACATT
*
17446694 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
* *
17446719 CTGATTCAGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
* *
17446744 CTTATTCTGGTTCTG
1 CTGATTCTGATTCTG
17446759 ATTTTGATTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:17446744 original size:19 final size:19
Alignment explanation
Indices: 17446722--17446785 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
17446712 CCTGATACTG
*
17446722 ATTCAGATTCTGTTACCTA
1 ATTCTGATTCTGTTACCTA
* *
17446741 ATTCTTATTCTGGTT--CTG
1 ATTCTGATTCT-GTTACCTA
*
17446759 ATTTTGATTCTGTTACCTA
1 ATTCTGATTCTGTTACCTA
*
17446778 ATACTGAT
1 ATTCTGAT
17446786 ACTGATTCTG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
17 3 0.09
18 11 0.32
19 17 0.50
20 3 0.09
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.48
Consensus pattern (19 bp):
ATTCTGATTCTGTTACCTA
Found at i:17446760 original size:37 final size:37
Alignment explanation
Indices: 17446713--17446804 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
17446703 ATTCTGTTAC
* * * * *
17446713 CTGATACTGATTCAGATTCTGTTACCTAATTCTTATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATA
* *
17446750 CTGGTTCTGATTTTGATTCTGTTACCTAATACTGATA
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATA
17446787 CTGATTCTGATTCTGATT
1 CTGATTCTGATTCTGATT
17446805 TTGATTTTGA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATA
Found at i:17446768 original size:43 final size:43
Alignment explanation
Indices: 17446694--17446861 Score: 155
Period size: 43 Copynumber: 3.9 Consensus size: 43
17446684 CATTCACATT
** *
17446694 CTGATTCTGATTCTG-TTACCTGATACTGATTCAGATTCTGTTAC
1 CTGATTCTGATTCTGATT--CTGATTTTGATTCTGATTCTGTTAC
* * * **
17446738 CTAATTCTTATTCTGGTTCTGATTTTGATTCTG-TTACCTAATA-
1 CTGATTCTGATTCTGATTCTGATTTTGATTCTGATT--CTGTTAC
* * *
17446781 CTGATACTGATTCTGATTCTGATTTTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGATTTTGATTCTGATTCTGTTAC
*
17446824 CTGATTCTGATTCTGATTCTGATTCTT-ATTTTGATTCT
1 CTGATTCTGATTCTGATTCTGATT-TTGATTCTGATTCT
17446862 AGTTTTGATA
Statistics
Matches: 102, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
42 5 0.05
43 74 0.73
44 21 0.21
45 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (43 bp):
CTGATTCTGATTCTGATTCTGATTTTGATTCTGATTCTGTTAC
Found at i:17446801 original size:49 final size:49
Alignment explanation
Indices: 17446741--17446859 Score: 157
Period size: 49 Copynumber: 2.4 Consensus size: 49
17446731 CTGTTACCTA
* * *
17446741 ATTCTTATTCTGGTTCTGATTTTGATTCTGTTACCTAATACTGATACTG
1 ATTCTGATTCTGATTCTGATTTTGATTCTGTCACCTAATACTGATACTG
* * * *
17446790 ATTCTGATTCTGATTTTGATTTTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGATTTTGATTCTGTCACCTAATACTGATACTG
* *
17446839 ATTCTGATTCTTATTTTGATT
1 ATTCTGATTCTGATTCTGATT
17446860 CTAGTTTTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.18, C:0.15, G:0.14, T:0.52
Consensus pattern (49 bp):
ATTCTGATTCTGATTCTGATTTTGATTCTGTCACCTAATACTGATACTG
Found at i:17447575 original size:29 final size:28
Alignment explanation
Indices: 17447528--17447587 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
17447518 AAAAAATGTC
*
17447528 AATTTTGGATTAAATTGTGAAA-TGTGGA
1 AATTTTGGATTAAAATGTGAAATTGT-GA
*
17447556 AATTTTGTGGTTAAAATGTGAAATTGTGA
1 AATTTTG-GATTAAAATGTGAAATTGTGA
17447585 AAT
1 AAT
17447588 ATATGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 18 0.64
30 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (28 bp):
AATTTTGGATTAAAATGTGAAATTGTGA
Found at i:17447596 original size:29 final size:29
Alignment explanation
Indices: 17447537--17447596 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
17447527 CAATTTTGGA
* *
17447537 TTAAATTGTGAAATGTGGAAATTTTGTGG
1 TTAAAATGTGAAATGTGGAAATTATGTGG
17447566 TTAAAATGTGAAAT-TGTGAAATATATG-GG
1 TTAAAATGTGAAATGTG-GAAAT-TATGTGG
17447595 TT
1 TT
17447597 TTGTGAGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 22 0.81
30 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (29 bp):
TTAAAATGTGAAATGTGGAAATTATGTGG
Found at i:17448795 original size:43 final size:43
Alignment explanation
Indices: 17448737--17448850 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 43
17448727 GCTGGTGAAT
* * *
17448737 AATATTATAGGGCTTCGGGCCAAGCAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCGAGCCAAGCAGGCTATAATGCCAGTGA
* * * *
17448780 GATAATATCGGGCTTCGAGCCTAGCAGGCTATTATGCCGGTGA
1 AATAATATCGGGCTTCGAGCCAAGCAGGCTATAATGCCAGTGA
* * *
17448823 AATGATATCGGGCTTCAAGCCTAGCAGG
1 AATAATATCGGGCTTCGAGCCAAGCAGG
17448851 AGAAATGCCG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (43 bp):
AATAATATCGGGCTTCGAGCCAAGCAGGCTATAATGCCAGTGA
Found at i:17456742 original size:35 final size:35
Alignment explanation
Indices: 17456692--17456759 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
17456682 AAGATGCTAT
*
17456692 TGAGGTCATCGTTCGAAAGAAAAAGGTACCTCTAC
1 TGAGGTCATCATTCGAAAGAAAAAGGTACCTCTAC
*
17456727 TGAGGTCATCATTCGAAAGAAAATGGTACCTCT
1 TGAGGTCATCATTCGAAAGAAAAAGGTACCTCT
17456760 TACTTCTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (35 bp):
TGAGGTCATCATTCGAAAGAAAAAGGTACCTCTAC
Found at i:17466672 original size:17 final size:18
Alignment explanation
Indices: 17466650--17466683 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17466640 CCCATTGAAG
17466650 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
17466667 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
17466684 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:17468684 original size:39 final size:39
Alignment explanation
Indices: 17468610--17468828 Score: 254
Period size: 39 Copynumber: 5.6 Consensus size: 39
17468600 GCTACTCGTT
*
17468610 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
* *
17468650 TAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
*
17468689 CAAATGCCTT-GGGCTTAG-CCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
*
17468725 CAAATGCCTTCGGATCTTAGTCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
17468764 CAAATGCCTTC-GATCTTAGTCCGGATCTAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
17468804 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
17468829 CATCATTCGA
Statistics
Matches: 160, Mismatches: 11, Indels: 16
0.86 0.06 0.09
Matches are distributed among these distances:
36 23 0.14
37 7 0.04
38 25 0.16
39 73 0.46
40 30 0.19
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:17468755 original size:75 final size:78
Alignment explanation
Indices: 17468610--17468828 Score: 268
Period size: 75 Copynumber: 2.8 Consensus size: 78
17468600 GCTACTCGTT
* * * *
17468610 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCATAAATGCCTTCGGACTTAACCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
17468675 TTTAGTAACTCGCA
65 TTTAGTAACTCGCA
*
17468689 CAAATGCCTT-GGGCTTAG-CCGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGCCCGGA
17468751 -TTAGTAACTCGCA
65 TTTAGTAACTCGCA
** * * * *
17468764 CAAATGCCTTCGATCTTAGTCCGGATCTAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTC-GGACTTAGCCCGG
17468828 A
64 A
17468829 CATCATTCGA
Statistics
Matches: 124, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
75 48 0.39
76 20 0.16
77 10 0.08
78 25 0.20
79 21 0.17
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:17468812 original size:114 final size:117
Alignment explanation
Indices: 17468610--17468824 Score: 280
Period size: 114 Copynumber: 1.9 Consensus size: 117
17468600 GCTACTCGTT
* *
17468610 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCATAAATGCCTTCGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
* *
17468675 TTTAGTAACTCGCACAAATGCCTT-GGG-CTTAGCCGGATTAGTAACTCGCA
66 TCTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCGGATTAGTAACTCGCA
* * **
17468725 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTAACTCGCACAAATGCCTTC-GATCTTAGTCCG
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCG
*
17468787 GATCTAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
64 GATCTAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCC
17468825 CGGACATCAT
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
113 2 0.02
114 46 0.53
115 31 0.36
116 7 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (117 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
TCTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCGGATTAGTAACTCGCA
Found at i:17476895 original size:37 final size:39
Alignment explanation
Indices: 17476778--17476997 Score: 281
Period size: 40 Copynumber: 5.7 Consensus size: 39
17476768 GCTACTCGTT
* *
17476778 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
17476818 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
17476858 CAAATGCCTTCGGG-CTTA-CCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
17476895 CAAATGCCTTC-GG-CTTAGTCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
17476932 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
17476973 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17476998 CATCATTCGA
Statistics
Matches: 164, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
36 6 0.04
37 55 0.34
38 6 0.04
39 16 0.10
40 69 0.42
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:17483414 original size:28 final size:29
Alignment explanation
Indices: 17483377--17483443 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
17483367 AAGTCTACAT
* *
17483377 ACATGCATATGGCCCACTAGG-CCTAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
17483405 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
17483434 ACATTCATAT
1 ACATTCATAT
17483444 ACATGCTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 18 0.55
29 15 0.45
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:17485640 original size:30 final size:30
Alignment explanation
Indices: 17485585--17485715 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
17485575 ATAGTGAATC
*
17485585 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
17485614 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
17485644 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
17485672 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
17485702 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17485716 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:17485695 original size:58 final size:58
Alignment explanation
Indices: 17485584--17485715 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
17485574 TATAGTGAAT
* * * * *
17485584 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
17485643 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
17485701 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
17485716 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:17487870 original size:7 final size:7
Alignment explanation
Indices: 17487858--17487882 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17487848 TGCATGTAAC
17487858 GCCACTT
1 GCCACTT
17487865 GCCACTT
1 GCCACTT
17487872 GCCACTT
1 GCCACTT
17487879 GCCA
1 GCCA
17487883 ATTCTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.44, G:0.16, T:0.24
Consensus pattern (7 bp):
GCCACTT
Found at i:17494820 original size:27 final size:29
Alignment explanation
Indices: 17494790--17494860 Score: 101
Period size: 27 Copynumber: 2.5 Consensus size: 29
17494780 ATAATAAGTC
*
17494790 CGCACACTTAGTGCTATATA-ATC-AGCT
1 CGCACACTTAGTGCTATATATATCAAACT
* *
17494817 CGCACACATAGTGCTATATATATCAAATT
1 CGCACACTTAGTGCTATATATATCAAACT
17494846 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17494861 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 19 0.50
28 3 0.08
29 16 0.42
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATCAAACT
Found at i:17494837 original size:29 final size:28
Alignment explanation
Indices: 17494790--17494860 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
17494780 ATAATAAGTC
*
17494790 CGCACACTTAGTGC-TATATAATC-AGCT
1 CGCACACTTAGTGCTTATAT-ATCAAACT
* *
17494817 CGCACACATAGTGCTATATATATCAAATT
1 CGCACACTTAGTGCT-TATATATCAAACT
17494846 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17494861 GTACAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.35
28 3 0.08
29 21 0.57
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTTATATATCAAACT
Found at i:17499466 original size:27 final size:28
Alignment explanation
Indices: 17499409--17499478 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
17499399 AAATTTGTAC
**
17499409 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
17499437 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
17499464 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
17499479 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:17499487 original size:27 final size:27
Alignment explanation
Indices: 17499409--17499490 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
17499399 AAATTTGTAC
* *
17499409 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
17499437 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
17499464 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
17499491 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:17507541 original size:27 final size:28
Alignment explanation
Indices: 17507484--17507553 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
17507474 AAATTTGTAC
**
17507484 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
17507512 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
17507539 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
17507554 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:17507562 original size:27 final size:27
Alignment explanation
Indices: 17507484--17507565 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
17507474 AAATTTGTAC
* *
17507484 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
17507512 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
17507539 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
17507566 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:17510183 original size:50 final size:50
Alignment explanation
Indices: 17510077--17510308 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
17510067 CTAGTACGCA
* *
17510077 TAGTAGCCTGCACTTAGTACTACACATGCGA-CTAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
* * * ** *
17510126 TAGTAGCCTGCACTTAATACTACACACATGACCTAATCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
* * * * *
17510176 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCCGGTACACG
* *
17510227 TAGTAGCCTG-ACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
*
17510275 TAGTAGCGTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
17510309 CACAATAGAT
Statistics
Matches: 152, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
48 20 0.13
49 49 0.32
50 65 0.43
51 18 0.12
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
Found at i:17510273 original size:99 final size:99
Alignment explanation
Indices: 17510077--17510306 Score: 293
Period size: 99 Copynumber: 2.3 Consensus size: 99
17510067 CTAGTACGCA
* * * *
17510077 TAGTAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACGAATTATCCGGTACACATAGTAGCCTGCACTTA
* **
17510142 ATACTACACACATGACCTAATCATTTGATACACG
66 ATACTACACACACGACCTAATCATCCGATACACG
* *
17510176 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTG-ACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CGAA-TTATCCGGTACACATAGTAGCCTGCACT
* ** * *
17510240 TAGTACTACACATGCGACC-AATTATCCGGTACACG
64 TAATACTACACACACGACCTAATCATCCGATACACG
*
17510275 TAGTAGCGTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
17510307 CTCACAATAG
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
98 1 0.01
99 71 0.62
100 21 0.18
101 21 0.18
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACGAATTATCCGGTACACATAGTAGCCTGCACTTA
ATACTACACACACGACCTAATCATCCGATACACG
Found at i:17514851 original size:48 final size:48
Alignment explanation
Indices: 17514799--17515114 Score: 427
Period size: 48 Copynumber: 6.6 Consensus size: 48
17514789 TCTCGGTGCT
* *
17514799 GATGCCATGTCCCAGACATGGTCTTATACTAGCACACATATC-ATCACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAT-ACC
* * * *
17514847 GATGCCATGTCCCAGACATGGTCTTATACTGACACATATATCAATACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATACC
* * *
17514895 GATGCCATGTCCTAGACATGGTATTACACTGGCACACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATACC
* *
17514943 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATACC
* *
17514991 AATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATACC
* * * * ** *
17515039 GATGTCATGTCCCAGACATGGTCTTACACTGGCTCCCATCTTGGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACAT-ATCAATACC
17515088 GATGCCATGTCCCAGACATGGTCTTAC
1 GATGCCATGTCCCAGACATGGTCTTAC
17515115 GCGGGATCTC
Statistics
Matches: 240, Mismatches: 26, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
48 208 0.87
49 32 0.13
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATACC
Found at i:17517635 original size:2 final size:2
Alignment explanation
Indices: 17517628--17517663 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17517618 TCAACCACTA
17517628 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17517664 GTACCATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17520572 original size:17 final size:17
Alignment explanation
Indices: 17520550--17520584 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17520540 TCCGGGCTAA
17520550 GTCCTGAAGGCATTTGT
1 GTCCTGAAGGCATTTGT
17520567 GTCCTGAAGGCATTTGT
1 GTCCTGAAGGCATTTGT
17520584 G
1 G
17520585 CGAGTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (17 bp):
GTCCTGAAGGCATTTGT
Found at i:17520615 original size:56 final size:57
Alignment explanation
Indices: 17520510--17520623 Score: 203
Period size: 56 Copynumber: 2.0 Consensus size: 57
17520500 ACCGGGCTAA
*
17520510 GTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCTGAAGGCATTTGT
1 GTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
*
17520567 GTCCTGAAGGCATTTGTGCGAGTTA-TATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 GTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
17520623 G
1 G
17520624 CGAGTTACTA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 31 0.56
57 24 0.44
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (57 bp):
GTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
Found at i:17520647 original size:40 final size:40
Alignment explanation
Indices: 17520567--17520734 Score: 279
Period size: 40 Copynumber: 4.2 Consensus size: 40
17520557 AGGCATTTGT
*
17520567 GTCCTGAAGGCATTTGTGCGAGTTA-TATATCCGGGCTAA
1 GTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAA
17520606 GTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAA
1 GTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAA
17520646 GTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAA
1 GTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAA
*
17520686 GTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAA
1 GTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAA
*
17520725 ATCCCGAAGG
1 GTCCCGAAGG
17520735 TACTTAGGTT
Statistics
Matches: 124, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
39 41 0.33
40 83 0.67
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAA
Found at i:17521002 original size:22 final size:22
Alignment explanation
Indices: 17520962--17521003 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17520952 GAATGTGCAT
*
17520962 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
17520984 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
17521004 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:17523755 original size:29 final size:28
Alignment explanation
Indices: 17523721--17523823 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
17523711 TACTCAATCA
*
17523721 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
17523750 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
17523779 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
17523808 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
17523824 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:17531770 original size:29 final size:28
Alignment explanation
Indices: 17531736--17531838 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
17531726 TACTCAATCA
*
17531736 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
17531765 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
17531794 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
17531823 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
17531839 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:17535500 original size:58 final size:58
Alignment explanation
Indices: 17535374--17535486 Score: 181
Period size: 58 Copynumber: 1.9 Consensus size: 58
17535364 CGATATGATG
* *
17535374 CAGTGGTGAATTGTAAACAGAAATATATTGTATTCAAATGTAAGAGTGGTGAATTATT
1 CAGTGGTGAATTCTAAACAGAAATATATTGTATTCAAATGTAAGAGTAGTGAATTATT
* * *
17535432 CAGTGGTGAATTCTAAACAGAAGTATATTGTATTGAAATGTGAGAGTAGTGAATT
1 CAGTGGTGAATTCTAAACAGAAATATATTGTATTCAAATGTAAGAGTAGTGAATT
17535487 GCTTCATGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (58 bp):
CAGTGGTGAATTCTAAACAGAAATATATTGTATTCAAATGTAAGAGTAGTGAATTATT
Found at i:17538274 original size:30 final size:30
Alignment explanation
Indices: 17538240--17538300 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17538230 TCCTTAACTC
17538240 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
17538270 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
17538300 A
1 A
17538301 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:17542725 original size:30 final size:30
Alignment explanation
Indices: 17542691--17542751 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17542681 TCCTTAACTC
17542691 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
17542721 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
17542751 A
1 A
17542752 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:17552547 original size:31 final size:31
Alignment explanation
Indices: 17552509--17552572 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17552499 CCTTTTCATA
17552509 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
17552540 TTTCATATTTCATATTACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
17552571 TT
1 TT
17552573 ACTGTAAACG
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:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:17552817 original size:24 final size:24
Alignment explanation
Indices: 17552766--17552860 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
17552756 GCTTTATCAT
*
17552766 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
17552791 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17552815 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17552838 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17552861 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 30 0.46
25 12 0.18
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17552841 original size:23 final size:23
Alignment explanation
Indices: 17552787--17552859 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
17552777 CCTAGCCTCT
*
17552787 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17552810 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17552834 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17552857 TTT
1 TTT
17552860 TTCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:17552935 original size:20 final size:20
Alignment explanation
Indices: 17552910--17552976 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
17552900 TTATGATTAC
17552910 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
17552930 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17552950 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17552970 ACCATGT
1 ATCATGT
17552977 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17552941 original size:11 final size:11
Alignment explanation
Indices: 17552910--17552965 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17552900 TTATGATTAC
17552910 ATCATGTGCAT
1 ATCATGTGCAT
*
17552921 ATCA--TACAT
1 ATCATGTGCAT
17552930 ATCATGTGCAT
1 ATCATGTGCAT
*
17552941 ATCA--TACAT
1 ATCATGTGCAT
*
17552950 GTCATGTGCAT
1 ATCATGTGCAT
17552961 ATCAT
1 ATCAT
17552966 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:17553045 original size:25 final size:25
Alignment explanation
Indices: 17553013--17553060 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17553003 ATACATAAAC
* * *
17553013 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17553038 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17553061 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17555907 original size:40 final size:40
Alignment explanation
Indices: 17555858--17555938 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
17555848 AGACAGGGTC
17555858 TTACATGAAATCAAATACGACGCCGATGTCCCTGACATGG
1 TTACATGAAATCAAATACGACGCCGATGTCCCTGACATGG
17555898 TTACATGAAATCAAATACGACGCCGATGTCCCTGACATGG
1 TTACATGAAATCAAATACGACGCCGATGTCCCTGACATGG
17555938 T
1 T
17555939 CTTACACGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (40 bp):
TTACATGAAATCAAATACGACGCCGATGTCCCTGACATGG
Found at i:17559643 original size:43 final size:43
Alignment explanation
Indices: 17559486--17559644 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 43
17559476 TATGTATTTT
*
17559486 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * * * *
17559530 CGTG-ACAGACCATGTCTGGGACATCGACATCG-TATTTGATTT
1 CGTGTA-AGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
*
17559572 CGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATTTGATTA
* *
17559615 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
17559645 TGTAAGAGCC
Statistics
Matches: 92, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
42 27 0.29
43 38 0.41
44 27 0.29
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:17563454 original size:42 final size:43
Alignment explanation
Indices: 17563377--17563499 Score: 126
Period size: 44 Copynumber: 2.9 Consensus size: 43
17563367 TACATGTAAT
* * *
17563377 CAAATATCGATGCCACTGT-CCAGACAGGGTATTACA-AGAAAC
1 CAAATA-CGATGCCAATGTCCCAGACATGGTCTTACACAGAAAC
* * *
17563419 CAAATACGATGCCAATGTCCCGGACATGGTCTTACACATAAAT
1 CAAATACGATGCCAATGTCCCAGACATGGTCTTACACAGAAAC
* *
17563462 CATAAGT-CGATGCCAATATCCCAGACGTGGTCTTACAC
1 CA-AA-TACGATGCCAATGTCCCAGACATGGTCTTACAC
17563500 GATAACACAT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 11 0.16
42 20 0.29
43 6 0.09
44 30 0.44
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (43 bp):
CAAATACGATGCCAATGTCCCAGACATGGTCTTACACAGAAAC
Found at i:17576604 original size:12 final size:12
Alignment explanation
Indices: 17576587--17576612 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17576577 TTGTTTATTA
17576587 AACTAATTAACT
1 AACTAATTAACT
17576599 AACTAATTAACT
1 AACTAATTAACT
17576611 AA
1 AA
17576613 TTAAACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (12 bp):
AACTAATTAACT
Found at i:17579519 original size:5 final size:6
Alignment explanation
Indices: 17579500--17579539 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
17579490 AATAAAATTG
* *
17579500 AAATGA AAAGAA AAATAA AAATAA AAATAAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AAA
17579540 GATAAGAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (6 bp):
AAATAA
Found at i:17581070 original size:19 final size:20
Alignment explanation
Indices: 17581046--17581086 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
17581036 ACTACTGTAG
17581046 GGTGGC-GCACGGGCGTGTT
1 GGTGGCAGCACGGGCGTGTT
*
17581065 GGTGGCGAGCATGGGCGTGTT
1 GGTGGC-AGCACGGGCGTGTT
17581086 G
1 G
17581087 CATGGGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
21 13 0.68
ACGTcount: A:0.07, C:0.17, G:0.54, T:0.22
Consensus pattern (20 bp):
GGTGGCAGCACGGGCGTGTT
Found at i:17584929 original size:8 final size:8
Alignment explanation
Indices: 17584916--17584954 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
17584906 TTGTTTATTA
17584916 AACTAATT
1 AACTAATT
17584924 AACT-A--
1 AACTAATT
17584929 AACTAATT
1 AACTAATT
17584937 AACTAATT
1 AACTAATT
17584945 AACTAATT
1 AACTAATT
17584953 AA
1 AA
17584955 ACAAAAGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 4 0.14
6 1 0.04
7 1 0.04
8 22 0.79
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (8 bp):
AACTAATT
Found at i:17584932 original size:13 final size:13
Alignment explanation
Indices: 17584914--17584942 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
17584904 GGTTGTTTAT
17584914 TAAACTAATTAAC
1 TAAACTAATTAAC
17584927 TAAACTAATTAAC
1 TAAACTAATTAAC
17584940 TAA
1 TAA
17584943 TTAACTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:17588511 original size:44 final size:44
Alignment explanation
Indices: 17588462--17588550 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
17588452 ACCGAAAAGT
17588462 AAACTTACCAAGTAATTAGTATACATCCATACTTAATCCATGAA
1 AAACTTACCAAGTAATTAGTATACATCCATACTTAATCCATGAA
17588506 AAACTTACCAAGTAATTAGTATACATCCATACTTAATCCATGAA
1 AAACTTACCAAGTAATTAGTATACATCCATACTTAATCCATGAA
17588550 A
1 A
17588551 TCATCCATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (44 bp):
AAACTTACCAAGTAATTAGTATACATCCATACTTAATCCATGAA
Found at i:17594390 original size:68 final size:70
Alignment explanation
Indices: 17594318--17594515 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
17594308 ACACCCTGTA
* * * *
17594318 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
17594380 ATAAAT
65 ATAAAT
*
17594386 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
17594451 ATAAAT
65 ATAAAT
*
17594457 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
17594516 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:17594429 original size:41 final size:41
Alignment explanation
Indices: 17594384--17594501 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
17594374 TGAAAGATAA
17594384 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
17594425 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
17594455 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
17594496 ATGTAG
1 ATGTAG
17594502 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:17594441 original size:71 final size:71
Alignment explanation
Indices: 17594352--17594515 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17594342 GAGATGTATC
17594352 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17594417 AGGACA
66 AGGACA
17594423 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17594488 AGGACA
66 AGGACA
17594494 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
17594516 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:17601951 original size:68 final size:70
Alignment explanation
Indices: 17601879--17602076 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
17601869 ACACCCTGTA
* * * *
17601879 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
17601941 ATAAAT
65 ATAAAT
*
17601947 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
17602012 ATAAAT
65 ATAAAT
*
17602018 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
17602077 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:17601990 original size:41 final size:41
Alignment explanation
Indices: 17601945--17602062 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
17601935 TGAAAGATAA
17601945 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
17601986 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
17602016 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
17602057 ATGTAG
1 ATGTAG
17602063 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:17602002 original size:71 final size:71
Alignment explanation
Indices: 17601913--17602076 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17601903 GAGATGTATC
17601913 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17601978 AGGACA
66 AGGACA
17601984 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17602049 AGGACA
66 AGGACA
17602055 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
17602077 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:17608866 original size:21 final size:21
Alignment explanation
Indices: 17608836--17608881 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
17608826 GTTTAGGATC
*
17608836 CATTTGCACATTTCATATAAT
1 CATTTACACATTTCATATAAT
17608857 CATTTACACATTTCATATAAT
1 CATTTACACATTTCATATAAT
17608878 CATT
1 CATT
17608882 CATTTCTCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (21 bp):
CATTTACACATTTCATATAAT
Found at i:17609060 original size:42 final size:42
Alignment explanation
Indices: 17608947--17609108 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 42
17608937 CAGAAAGCTC
* * *
17608947 ATACAATGCCAACGTCCCAAACGTGGTCTTACATGT-AATCAA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACAT-TAAATCAA
* * *
17608989 ATATTGATGCC-ACTGTCCCAGGCAGGGTCTTACATTAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGACATGGTCTTACATTAAATCAA
* *
17609032 ATACGATGCCAATGTCCCAGACATGGTCTTACACATAAATCATA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACA-TTAAATCA-A
* *
17609076 AGT-CGATGCCAACGTCCCAGACGTAGTCTTACA
1 A-TACGATGCCAACGTCCCAGACATGGTCTTACA
17609109 CGATAACACA
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 30 0.30
43 39 0.39
44 29 0.29
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACATGGTCTTACATTAAATCAA
Found at i:17615496 original size:93 final size:93
Alignment explanation
Indices: 17615384--17615555 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17615374 CGCCCATAAG
* *
17615384 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17615449 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
17615477 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17615542 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17615556 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17615552 original size:46 final size:46
Alignment explanation
Indices: 17615377--17615552 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17615367 TGTAACCCGC
* * *
17615377 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17615423 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
17615473 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17615516 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17615553 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17623066 original size:93 final size:93
Alignment explanation
Indices: 17622954--17623125 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17622944 CGCCCATAAG
* *
17622954 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17623019 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
17623047 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17623112 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17623126 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17623122 original size:46 final size:46
Alignment explanation
Indices: 17622947--17623122 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17622937 TGTAACCCGC
* * *
17622947 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17622993 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
17623043 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17623086 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17623123 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17631471 original size:38 final size:38
Alignment explanation
Indices: 17631360--17631523 Score: 211
Period size: 38 Copynumber: 4.3 Consensus size: 38
17631350 ATATTCGATG
17631360 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
17631398 TATATCTGGGCTTAAAAACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAT
* **
17631438 AATATCCGGGTTAAATCCTACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
17631476 TATATCTGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
17631514 TATATTCGGG
1 TATATCCGGG
17631524 CCTTCGTGCC
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 70 0.66
39 4 0.04
40 32 0.30
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:17631561 original size:41 final size:42
Alignment explanation
Indices: 17631516--17631624 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
17631506 GCTGGTATTA
* *
17631516 TATTCGGGCCTTCGTGCCTAGCAGGCTT-GTGCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGTGATATG
17631557 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGTGATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGTGATATG
17631599 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
17631625 GTAATGCCAG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 28 0.43
42 37 0.57
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.30
Consensus pattern (42 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGTGATATG
Found at i:17632027 original size:45 final size:43
Alignment explanation
Indices: 17631978--17632075 Score: 112
Period size: 45 Copynumber: 2.3 Consensus size: 43
17631968 GCTTAGCAAA
*
17631978 CTATAATGCCGGTGAGA-T-ACTATTTGGGCCTTCGAGCCTAACAGG
1 CTATAATGCCGGTGA-ACTGA-TA-TCGGGCC-TCGAGCCTAACAGG
*
17632023 CTATAATGTCGGTGAACTGATATCGGGCCTCGAGCCTAACAGG
1 CTATAATGCCGGTGAACTGATATCGGGCCTCGAGCCTAACAGG
*
17632066 CGA-AATGCCG
1 CTATAATGCCG
17632076 ATGATTTGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
42 6 0.13
43 16 0.34
44 7 0.15
45 17 0.36
46 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (43 bp):
CTATAATGCCGGTGAACTGATATCGGGCCTCGAGCCTAACAGG
Found at i:17635890 original size:46 final size:46
Alignment explanation
Indices: 17635840--17636015 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
17635830 TGGTTGAGCA
17635840 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17635886 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17635931 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
17635979 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17636016 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17635996 original size:93 final size:93
Alignment explanation
Indices: 17635837--17636007 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
17635827 GGATGGTTGA
* *
17635837 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17635902 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
17635930 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17635995 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
17636008 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17638990 original size:15 final size:15
Alignment explanation
Indices: 17638970--17639038 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
17638960 GTATCTTGGG
17638970 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
17638985 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
17639000 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
17639015 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
17639030 TTTCTTTAT
1 TTTCTTTAT
17639039 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:17639039 original size:30 final size:30
Alignment explanation
Indices: 17638961--17639048 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
17638951 CATAGTATCG
* * * *
17638961 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
17638991 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
17639021 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
17639049 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:17641565 original size:93 final size:92
Alignment explanation
Indices: 17641407--17641576 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
17641397 GGATGGTTGA
* *
17641407 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
17641472 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
17641499 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17641564 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
17641577 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 24 0.32
93 50 0.68
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17641575 original size:46 final size:46
Alignment explanation
Indices: 17641411--17641584 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
17641401 GGTTGAGCAT
* *
17641411 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
17641456 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
17641501 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
17641549 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17641585 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 23 0.21
46 42 0.38
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:17647505 original size:37 final size:37
Alignment explanation
Indices: 17647447--17647628 Score: 310
Period size: 37 Copynumber: 4.9 Consensus size: 37
17647437 GCTCAGATGA
* * * *
17647447 AATCTCCACACGAAGTTATTGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
17647484 AATCTCCACACGTAGTCATTGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
17647521 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
17647558 AATCTCCACACGTAGTCCTCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
17647595 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
17647629 ATATATTTCC
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 139 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:17647830 original size:48 final size:48
Alignment explanation
Indices: 17647775--17648407 Score: 1140
Period size: 48 Copynumber: 13.1 Consensus size: 48
17647765 ACACATCGCC
*
17647775 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
17647823 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
*
17647873 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
17647921 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
17647969 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17648017 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
17648065 GACATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCA
1 TAC--ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17648115 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
17648163 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
17648211 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17648259 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17648307 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
17648355 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17648403 TACAT
1 TACAT
17648408 CAATTTTCGC
Statistics
Matches: 567, Mismatches: 14, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
48 475 0.84
50 92 0.16
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:17648104 original size:194 final size:194
Alignment explanation
Indices: 17647775--17648407 Score: 1180
Period size: 194 Copynumber: 3.3 Consensus size: 194
17647765 ACACATCGCC
* *
17647775 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAG
* *
17647840 CCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATTAGCCATTCGGCTTTACC
*
17647905 ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
131 ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17647969 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAG
* *
17648034 CCATTCGGCTTTACCACATATACATATCTCAGACATATATTTCACATTAACCATTCGGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATTAGCCATTCGGCTTTACC
17648099 ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
131 ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17648163 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAG
*
17648228 CCATTCGGCTTTACCACATATACTTATCTCATAC--ATATTTCACATTAGCCATTCGGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATTAGCCATTCGGCTTTACC
17648291 ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
131 ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17648355 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACAT
17648408 CAATTTTCGC
Statistics
Matches: 429, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
192 145 0.34
194 284 0.66
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (194 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATTAGCCATTCGGCTTTACC
ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:17652447 original size:51 final size:51
Alignment explanation
Indices: 17652370--17652517 Score: 226
Period size: 51 Copynumber: 2.9 Consensus size: 51
17652360 TGGATACACG
* * *
17652370 GTGGCCTTCACATAGGACCGCCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
*
17652421 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
17652472 GTGGCCTTCACATAGTACCATACTTGTGTCTAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
17652518 TTAATGTTCA
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 1 0.01
51 88 0.99
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:17662405 original size:38 final size:35
Alignment explanation
Indices: 17662346--17662463 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
17662336 TCAATCATGC
*
17662346 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
17662385 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
*
17662416 ACTGGGCCGATGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
17662447 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
17662464 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 47 0.62
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:17662407 original size:31 final size:31
Alignment explanation
Indices: 17662369--17662463 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
17662359 CCTTTTCATA
*
17662369 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
17662400 TTTCATATTTCATATTACTGGGCCGATGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
17662431 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
17662462 TT
1 TT
17662464 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:17662706 original size:24 final size:24
Alignment explanation
Indices: 17662669--17662797 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
17662659 CTTGAGGCCT
*
17662669 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
17662694 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
17662718 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
17662741 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
17662765 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
17662789 AGCCCTTTT
1 AGCCCTTTT
17662798 TCACTTCCTC
Statistics
Matches: 100, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.23
24 73 0.73
25 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:17662732 original size:47 final size:48
Alignment explanation
Indices: 17662669--17662796 Score: 204
Period size: 47 Copynumber: 2.7 Consensus size: 48
17662659 CTTGAGGCCT
*
17662669 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
**
17662718 AGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
*
17662765 AGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTT
17662797 TTCACTTCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
47 44 0.59
48 27 0.36
49 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
Found at i:17662872 original size:20 final size:20
Alignment explanation
Indices: 17662847--17662907 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
17662837 TTATGATTAC
17662847 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
17662867 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
17662887 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
17662907 A
1 A
17662908 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17665645 original size:27 final size:26
Alignment explanation
Indices: 17665613--17665663 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
17665603 TACAGAAAAA
17665613 CTAAAAT-TGATAATTAAAAATAAAATT
1 CTAAAATCTGATAA-T-AAAATAAAATT
*
17665640 CTAAAATCTGCTAATAAAATAAAA
1 CTAAAATCTGATAATAAAATAAAA
17665664 ATAAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 8 0.36
28 5 0.23
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (26 bp):
CTAAAATCTGATAATAAAATAAAATT
Found at i:17667865 original size:55 final size:55
Alignment explanation
Indices: 17667737--17667866 Score: 127
Period size: 55 Copynumber: 2.4 Consensus size: 55
17667727 CCTATGTTAA
* * * * * *
17667737 TTTAACAGGTTTGACCACGGGTGC-TCCACACGGGCGTGTTGAACGCCTGTGTTGT
1 TTTAACAGGCTCGACCAC-GGTTCTTCCACACGGACGTGTCGAACGCCCGTGTTGT
* * * * *
17667792 TTTAATAGGTTCGCCCACGGTTCTTCCACACGGATGTGTCGCACGCCCGTGTTGT
1 TTTAACAGGCTCGACCACGGTTCTTCCACACGGACGTGTCGAACGCCCGTGTTGT
**
17667847 TTTGGCAGGCTCGACCACGG
1 TTTAACAGGCTCGACCACGG
17667867 CCATATTGCA
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 4 0.07
55 56 0.93
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.28
Consensus pattern (55 bp):
TTTAACAGGCTCGACCACGGTTCTTCCACACGGACGTGTCGAACGCCCGTGTTGT
Found at i:17670564 original size:64 final size:64
Alignment explanation
Indices: 17670483--17670666 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
17670473 AGACATTATG
* *
17670483 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
17670547 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
17670612 AA
63 AA
* * * * *
17670614 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
17670667 CGAACTATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 17 0.17
67 32 0.33
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:17672695 original size:93 final size:93
Alignment explanation
Indices: 17672536--17672706 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
17672526 GCCCATAAGT
* * *
17672536 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATCAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17672601 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17672629 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17672694 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17672707 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17672722 original size:46 final size:46
Alignment explanation
Indices: 17672528--17672708 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
17672518 TGTAACCCGC
* * * *
17672528 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATCAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
17672574 CCATCAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATCAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
17672624 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATCAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
17672667 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATCAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
17672709 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.61
47 32 0.28
48 3 0.03
49 1 0.01
50 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATCAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:17677054 original size:51 final size:51
Alignment explanation
Indices: 17676977--17677175 Score: 217
Period size: 51 Copynumber: 3.9 Consensus size: 51
17676967 TAGATACACT
* * *
17676977 GTGGCCTTCACATAGTACCACCCTTGTAGCCAAAGTTATTTTATTCACTAA
1 GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAAA
* * * *
17677028 GTGGCTTTCACATAGTACCACACTTGT-GTCCAAATCCATTTTATTCAAAAA
1 GTGGCCTTCACATAGTACCACACTTGTAG-CCAAAGCTATTTTATTCACAAA
* * *
17677079 GTGACCTTCACATTA-TACCACACTTCTGTA--TAAAGCTATTATATTCACAAA
1 GTGGCCTTCACA-TAGTACCACAC-T-TGTAGCCAAAGCTATTTTATTCACAAA
* * *
17677130 GTGGCCCTCACATAGTACCACACTTATATCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTC
17677176 CTAAGGTTCA
Statistics
Matches: 121, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
49 3 0.02
50 4 0.03
51 108 0.89
52 3 0.02
53 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAAA
Found at i:17677262 original size:28 final size:27
Alignment explanation
Indices: 17677199--17677290 Score: 100
Period size: 28 Copynumber: 3.4 Consensus size: 27
17677189 AGGAAATTTC
17677199 TCACTTAGCATCATACCATGGACTTATT
1 TCACTTAGCA-CATACCATGGACTTATT
* *
17677227 TTAGTTAGCACATTACCATGGACTTATT
1 TCACTTAGCACA-TACCATGGACTTATT
* *
17677255 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATACCATGGACTTATT
*
17677279 TCACTAAGCACA
1 TCACTTAGCACA
17677291 ATGCCATATC
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
24 20 0.38
25 1 0.02
27 3 0.06
28 29 0.55
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATACCATGGACTTATT
Found at i:17678888 original size:40 final size:40
Alignment explanation
Indices: 17678784--17678946 Score: 166
Period size: 40 Copynumber: 4.1 Consensus size: 40
17678774 AGAATTTAGT
* * * * *
17678784 CGGATATAACCACAAGCACAATTGCCTTCAGGTCTTAACC
1 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
* *** *
17678824 CGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * *
17678864 CGGATATAACAACTCGCACGAATGCCTTCGGGTCTTGGCT
1 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
17678904 CGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGCC
17678944 CGG
1 CGG
17678947 GTATCATTCA
Statistics
Matches: 98, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 97 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:17687893 original size:29 final size:29
Alignment explanation
Indices: 17687869--17687945 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
17687859 ATGTCCCACT
17687869 AGGCCCAA-TCACATTTATATGGTCCATC
1 AGGCCCAATTCACATTTATATGGTCCATC
17687897 AGGCCCAATTCACATTTATATGGTCCATC
1 AGGCCCAATTCACATTTATATGGTCCATC
*
17687926 AAGCCCAATTCACATTTATA
1 AGGCCCAATTCACATTTATA
17687946 GTCATGCTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 8 0.17
29 39 0.83
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (29 bp):
AGGCCCAATTCACATTTATATGGTCCATC
Found at i:17694529 original size:39 final size:40
Alignment explanation
Indices: 17694429--17694610 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
17694419 TCGAATGATG
* * *
17694429 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
17694469 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
17694509 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
17694547 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
17694588 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17694611 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:17694574 original size:78 final size:80
Alignment explanation
Indices: 17694429--17694610 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
17694419 TCGAATGATG
* * * *
17694429 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
17694494 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
17694509 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
17694571 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
17694588 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17694611 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:17698220 original size:39 final size:40
Alignment explanation
Indices: 17698105--17698248 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
17698095 TCGTTCAAAC
* * ** * **
17698105 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
* * * *
17698145 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
17698185 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
17698224 GCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGACTTAGCCCGGATATCA
17698249 CTCGAACATT
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
Found at i:17705744 original size:39 final size:40
Alignment explanation
Indices: 17705644--17705825 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
17705634 TCGAATGATG
* * *
17705644 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
17705684 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
17705724 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
17705762 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
17705803 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17705826 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:17705789 original size:78 final size:80
Alignment explanation
Indices: 17705644--17705825 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
17705634 TCGAATGATG
* * * *
17705644 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
17705709 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
17705724 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
17705786 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
17705803 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17705826 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:17713397 original size:27 final size:27
Alignment explanation
Indices: 17713353--17713776 Score: 205
Period size: 27 Copynumber: 15.7 Consensus size: 27
17713343 TTAGTTCACC
* * * *
17713353 AAATTACTGAAATGCCCTCAAATTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * **
17713380 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
17713407 AAATTACTAAAATACCC-CTGATTTGTA
1 AAATTACTAAAATACCCTC-GATTTGTA
*
17713434 AAATTACTAAAATACCCCTTGATTTGTA
1 AAATTACTAAAATA-CCCTCGATTTGTA
* *
17713462 AAATTACTAAAATACCCTGGACTTGTAA
1 AAATTACTAAAATACCCTCGATTTGT-A
* * * *
17713490 AAATTACCAAAGTACCCTCAATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
* *** **
17713517 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
* * **** * * **
17713544 GAATTAATGTTTTACCCTTGACTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
* *** *
17713571 AAATTACCATTTTACCCTCGA-TTGTG
1 AAATTACTAAAATACCCTCGATTTGTA
* **
17713597 AAATTACTAAAATACCC-CTATAGGGTA
1 AAATTACTAAAATACCCTCGAT-TTGTA
* * * *
17713624 GAATTACCAAAACACCC-CTAGTTTGTA
1 AAATTACTAAAATACCCTCGA-TTTGTA
* * *
17713651 AAATTACCAAAATACCACT-GGTTTGTG
1 AAATTACTAAAATACC-CTCGATTTGTA
* ** *
17713678 AAATTGCCGAAATACCCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* **
17713705 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACTAAAATACCCTC-GATTTGTA
*
17713732 AAATTAC-ATAAATACCCTTGATTTGTA
1 AAATTACTA-AAATACCCTCGATTTGTA
* * * *
17713759 GATTTACCAAAACACCCT
1 AAATTACTAAAATACCCT
17713777 TGTAGGATGA
Statistics
Matches: 309, Mismatches: 74, Indels: 28
0.75 0.18 0.07
Matches are distributed among these distances:
25 2 0.01
26 20 0.06
27 238 0.77
28 49 0.16
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:17714780 original size:25 final size:26
Alignment explanation
Indices: 17714657--17714805 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
17714647 GAGGAAGTGC
* **
17714657 AAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
17714683 AAAAGGGCTTATGCCCCAGTTCATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
17714709 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
17714735 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
17714761 AAAAGGGCTT-TGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
17714786 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
17714806 ATTAAAGAGG
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 35 0.31
26 79 0.69
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:17715009 original size:42 final size:42
Alignment explanation
Indices: 17714950--17715041 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
17714940 TAGTCTCCCC
* ** *
17714950 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
17714992 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
17715034 AAATGGGC
1 AAATGGGC
17715042 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:17717415 original size:27 final size:27
Alignment explanation
Indices: 17717385--17717553 Score: 110
Period size: 27 Copynumber: 6.2 Consensus size: 27
17717375 AAATTGTAAG
* *
17717385 ATTACCAAAGTACCCTCGATTTATAGA
1 ATTACCAAAATACCCTCGATTTATAAA
**** *
17717412 ATTACCGTTTTACCCTCGATTTACAAA
1 ATTACCAAAATACCCTCGATTTATAAA
* *
17717439 ATTACTAAAATACCC-CTGATTTGTAAA
1 ATTACCAAAATACCCTC-GATTTATAAA
* *
17717466 ATTACTAAAATATCCC-CTGATTTGTAAA
1 ATTACCAAAATA-CCCTC-GATTTATAAA
** *
17717494 ATTACTGAAATACCCTGGACTTGTA-AAA
1 ATTACCAAAATACCCTCGA-TT-TATAAA
* ** *
17717522 ATTACCAAAGTACCCTTAATTTATAGA
1 ATTACCAAAATACCCTCGATTTATAAA
17717549 ATTAC
1 ATTAC
17717554 TGTTTTACCC
Statistics
Matches: 114, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.03
27 65 0.57
28 45 0.39
29 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
ATTACCAAAATACCCTCGATTTATAAA
Found at i:17717491 original size:28 final size:27
Alignment explanation
Indices: 17717436--17717554 Score: 132
Period size: 28 Copynumber: 4.3 Consensus size: 27
17717426 CTCGATTTAC
17717436 AAAATTACTAAAATACCCCTGATTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
17717463 AAAATTACTAAAATATCCCCTGATTTGT
1 AAAATTACTAAAATA-CCCCTGATTTGT
* *
17717491 AAAATTACTGAAATA-CCCTGGACTTGT
1 AAAATTACTAAAATACCCCT-GATTTGT
* * * * *
17717518 AAAAATTACCAAAGTACCCTTAATTTAT
1 -AAAATTACTAAAATACCCCTGATTTGT
*
17717546 AGAATTACT
1 AAAATTACT
17717555 GTTTTACCCT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
26 4 0.05
27 28 0.36
28 42 0.55
29 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGATTTGT
Found at i:17717552 original size:55 final size:55
Alignment explanation
Indices: 17717430--17717555 Score: 139
Period size: 55 Copynumber: 2.3 Consensus size: 55
17717420 TTTACCCTCG
* * * * *
17717430 ATTTACAAAATTACTAAAATACCCCTGATTTGTAAAATTACTAAAATATCCCCTG
1 ATTTATAAAATTACTGAAATACCCCTGACTTGTAAAATTACCAAAATATCCCCTA
* * *
17717485 ATTTGTAAAATTACTGAAATA-CCCTGGACTTGTAAAAATTACCAAAGTA-CCCTTA
1 ATTTATAAAATTACTGAAATACCCCT-GACTTGT-AAAATTACCAAAATATCCCCTA
*
17717540 ATTTATAGAATTACTG
1 ATTTATAAAATTACTG
17717556 TTTTACCCTC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 4 0.07
55 42 0.71
56 13 0.22
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.33
Consensus pattern (55 bp):
ATTTATAAAATTACTGAAATACCCCTGACTTGTAAAATTACCAAAATATCCCCTA
Found at i:17717562 original size:27 final size:27
Alignment explanation
Indices: 17717532--17717616 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
17717522 ATTACCAAAG
*
17717532 TACCCTTAATTTATAGAATTACTGTTT
1 TACCCTTAATTTACAGAATTACTGTTT
*** *
17717559 TACCCTCGCTTTACAGAATTACTATTT
1 TACCCTTAATTTACAGAATTACTGTTT
* *
17717586 TACCCTTAATTTACAAAATTACCGTTT
1 TACCCTTAATTTACAGAATTACTGTTT
17717613 TACC
1 TACC
17717617 TTGGACTGTG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.42
Consensus pattern (27 bp):
TACCCTTAATTTACAGAATTACTGTTT
Found at i:17717604 original size:137 final size:136
Alignment explanation
Indices: 17717356--17717607 Score: 342
Period size: 137 Copynumber: 1.8 Consensus size: 136
17717346 TTAGTTTACC
* * *
17717356 AAATTACTGAAATGCCCTCAAATTGTAAGATTACCAAAGTACCCTCGATTTATAGAATTACCGTT
1 AAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTCAATTTATAGAATTACCGTT
* **
17717421 TTACCCTCGATTTACAAAATTACTAAAATACCCCTGATTTGTAAAATTACTAAAATATCCCCTGA
66 TTACCCTCGATTTACAAAATTACTAAAATACCCCTAATTTACAAAATTACTAAAATATCCCCTGA
17717486 TTTGTA
131 TTTGTA
** * * *
17717492 AAATTACTGAAATACCCTGGACTTGTAAAAATTACCAAAGTACCCTTAATTTATAGAATTACTGT
1 AAATTACTGAAATACCCTCAAATTGT-AAAATTACCAAAGTACCCTCAATTTATAGAATTACCGT
* * *** *
17717557 TTTACCCTCGCTTTACAGAATTACTATTTTACCCTTAATTTACAAAATTAC
65 TTTACCCTCGATTTACAAAATTACTAAAATACCCCTAATTTACAAAATTAC
17717608 CGTTTTACCT
Statistics
Matches: 98, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
136 22 0.22
137 76 0.78
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (136 bp):
AAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTCAATTTATAGAATTACCGTT
TTACCCTCGATTTACAAAATTACTAAAATACCCCTAATTTACAAAATTACTAAAATATCCCCTGA
TTTGTA
Found at i:17717685 original size:27 final size:27
Alignment explanation
Indices: 17717655--17717751 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
17717645 TATAGGGTAG
*
17717655 AATTACCAAAACACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
17717682 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
17717709 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
17717736 AATTACCAAAATACCC
1 AATTACCAAAATACCC
17717752 TTGATTTACA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.05
27 53 0.91
28 2 0.03
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:17717752 original size:27 final size:27
Alignment explanation
Indices: 17717655--17717800 Score: 118
Period size: 27 Copynumber: 5.4 Consensus size: 27
17717645 TATAGGGTAG
* *
17717655 AATTACCAAAACACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTC-AATTTGTAA
** *
17717682 AATTACCAAAATACCACT-GGTTTGTGA
1 AATTACCAAAATACC-CTCAATTTGTAA
*
17717709 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTCAATTTGTAA
** **
17717736 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTCAATTTGTAA
* * *
17717763 AATTA-CAGAAATACACTTAATTTGTAG
1 AATTACCA-AAATACCCTCAATTTGTAA
*
17717790 ATTTACCAAAA
1 AATTACCAAAA
17717801 CAACCTTGTA
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
26 4 0.04
27 89 0.93
28 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTGTAA
Found at i:17717765 original size:81 final size:81
Alignment explanation
Indices: 17717623--17717776 Score: 179
Period size: 81 Copynumber: 1.9 Consensus size: 81
17717613 TACCTTGGAC
* * * **
17717623 TGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACCAAAACACCCCTAGTTTGTAAAATTAC
1 TGTGAAATTACCGAAATACCCCAATAGGGTAAAATTACCAAAACACCCCTAGTTTACAAAATTA-
17717688 CA-AAATACCACTGGTT
65 CAGAAATACCACTGGTT
** * *
17717704 TGTGAAATTACCGAAATACCCTCAAT-TTGTAAAATTACCAAAATA-CCCTTGATTTACAAAATT
1 TGTGAAATTACCGAAATACCC-CAATAGGGTAAAATTACCAAAACACCCCTAG-TTTACAAAATT
17717767 ACAGAAATAC
64 ACAGAAATAC
17717777 ACTTAATTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
80 7 0.11
81 51 0.84
82 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (81 bp):
TGTGAAATTACCGAAATACCCCAATAGGGTAAAATTACCAAAACACCCCTAGTTTACAAAATTAC
AGAAATACCACTGGTT
Found at i:17717766 original size:54 final size:54
Alignment explanation
Indices: 17717675--17717800 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 54
17717665 ACACCCCTAG
* *** * *
17717675 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACACTCAA
*
17717729 TTTGTAAAATTACCAAAATACC-CTTGATTTACAAAATTACAGAAATACACTTAA
1 TTTGTAAAATTACCAAAATACCAC-TGATTTACAAAATTACAGAAATACACTCAA
* *
17717783 TTTGTAGATTTACCAAAA
1 TTTGTAAAATTACCAAAA
17717801 CAACCTTGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 61 0.98
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACACTCAA
Found at i:17717869 original size:27 final size:27
Alignment explanation
Indices: 17717826--17717899 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
17717816 AAATGACTAA
*
17717826 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
17717853 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
17717880 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
17717900 TGATGAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:17718733 original size:26 final size:26
Alignment explanation
Indices: 17718704--17718827 Score: 207
Period size: 26 Copynumber: 4.8 Consensus size: 26
17718694 GAGGAAGTGT
17718704 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
17718730 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
17718756 AAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
17718782 AAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
17718808 AAGAA-GGCTT-TGCCCCAGTT
1 AA-AAGGGCTTATGCCCCAGTT
17718828 ATTAAAGAGG
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
25 9 0.09
26 84 0.88
27 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:17719080 original size:31 final size:31
Alignment explanation
Indices: 17719045--17719121 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
17719035 CGTTTACAGT
17719045 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* *
17719076 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
17719107 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
17719122 GTAACCGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Done.