Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 202 of 425
Found at i:61640720 original size:27 final size:26
Alignment explanation
Indices: 61640617--61640735 Score: 107
Period size: 27 Copynumber: 4.4 Consensus size: 26
61640607 TTTAGTTTAC
*
61640617 TAAAATTACCGAAATACC-CTTAGTTTG
1 TAAAATTACCGAAATACCTC-GA-TTTG
* *
61640644 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATA-CCTCGATTTG
* *
61640671 TAAATTTACCGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACC-TCGATTTG
*
61640698 TAAAATTACC-AAAGTACTCTCGATTTA
1 TAAAATTACCGAAA-TAC-CTCGATTTG
*
61640725 TAGAATTACCG
1 TAAAATTACCG
61640736 TTTTACCCTC
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
26 5 0.07
27 65 0.87
28 4 0.05
29 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (26 bp):
TAAAATTACCGAAATACCTCGATTTG
Found at i:61641218 original size:27 final size:27
Alignment explanation
Indices: 61640716--61641217 Score: 647
Period size: 27 Copynumber: 18.7 Consensus size: 27
61640706 CCAAAGTACT
*
61640716 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
61640743 CTC-AGTTTATAGAATTACTGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
** *
61640770 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
61640797 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
61640824 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
61640851 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
61640878 CTC-AGTTTACAGAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
61640905 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
61640932 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
61640959 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
61640986 CTTGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
61641013 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
61641040 CTCGATTTACAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
61641067 C-CGATTTACATAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
61641093 C-CGATTTACATAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
61641119 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
61641146 CTCGATTTATAGAATTATTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
61641173 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
61641200 CCCGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
61641218 TAAAATACCC
Statistics
Matches: 420, Mismatches: 46, Indels: 18
0.87 0.10 0.04
Matches are distributed among these distances:
26 54 0.13
27 362 0.86
28 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:61641233 original size:27 final size:27
Alignment explanation
Indices: 61641169--61641234 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
61641159 ATTATTGTTT
* ****
61641169 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
**
61641196 TACCCCCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
61641223 TACCCTTGATTT
1 TACCCTTGATTT
61641235 GTGAAATTAC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:61641241 original size:27 final size:27
Alignment explanation
Indices: 61641210--61641281 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
61641200 CCCGATTTAC
* **
61641210 AAAATTACTAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTCAATTTGT
* **
61641237 GAAATTACCGCAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTCAATTTGT
*
61641264 AAAACTACCAAAATACCC
1 AAAATTACCAAAATACCC
61641282 CTGTATGGTA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCAATTTGT
Found at i:61642457 original size:20 final size:20
Alignment explanation
Indices: 61642432--61642490 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
61642422 TAAATATGGT
61642432 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
61642452 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
61642472 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
61642491 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:61642568 original size:24 final size:24
Alignment explanation
Indices: 61642541--61642683 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
61642531 GAGGAAGTGA
61642541 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
61642565 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
61642589 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
61642612 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
61642636 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
61642660 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61642684 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:61642634 original size:47 final size:47
Alignment explanation
Indices: 61642541--61642683 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
61642531 GAGGAAGTGA
61642541 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
61642589 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
61642636 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
61642684 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:61642657 original size:71 final size:72
Alignment explanation
Indices: 61642541--61642684 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
61642531 GAGGAAGTGA
*
61642541 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
61642604 CCAGTTAT
65 CCAGTTAT
** * *
61642612 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
61642677 CAGTTAT
66 CAGTTAT
61642684 A
1 A
61642685 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:61645754 original size:28 final size:26
Alignment explanation
Indices: 61645721--61645798 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 26
61645711 TTAGAATACT
61645721 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-CTAAAA-TACCGAAATACCC
* *
61645749 TTAGTTTGTAAAATACTGAAATA-CC
1 TTAGTTTCTAAAATACCGAAATACCC
* * *
61645774 -TCGATTTGTAAATTACCGAAATACC
1 TTAG-TTTCTAAAATACCGAAATACC
61645799 TCGACTTGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 2 0.05
25 19 0.44
26 10 0.23
27 5 0.12
28 7 0.16
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
TTAGTTTCTAAAATACCGAAATACCC
Found at i:61645785 original size:25 final size:24
Alignment explanation
Indices: 61645753--61645831 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 24
61645743 ATACCCTTAG
61645753 TTTGTAAAATACTGAAATACCTCGA
1 TTTGTAAAATAC-GAAATACCTCGA
*
61645778 TTTGTAAATTACCGAAATACCTCGA
1 TTTGTAAAATA-CGAAATACCTCGA
* *
61645803 CTTGTAAAATTACCAAAGTACCTCGA
1 TTTGTAAAA-TACGAAA-TACCTCGA
61645829 TTT
1 TTT
61645832 AGAATTACCG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 33 0.72
26 13 0.28
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (24 bp):
TTTGTAAAATACGAAATACCTCGA
Found at i:61645824 original size:26 final size:24
Alignment explanation
Indices: 61645730--61645840 Score: 93
Period size: 25 Copynumber: 4.4 Consensus size: 24
61645720 TTTAGTTTAC
* *
61645730 TAAAATTACCGAAATACCCTTAGTTTG
1 TAAAATTACC-AAATA-CC-TCGATTG
*
61645757 TAAAA-TACTGAAATACCTCGATTTG
1 TAAAATTAC-CAAATACCTCGA-TTG
61645782 T-AAATTACCGAAATACCTCGACTTG
1 TAAAATTACC-AAATACCTCGA-TTG
61645807 TAAAATTACCAAAGTACCTCGATT-
1 TAAAATTACCAAA-TACCTCGATTG
*
61645831 TAGAATTACC
1 TAAAATTACC
61645841 GTTTTACCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 15
0.77 0.06 0.16
Matches are distributed among these distances:
24 14 0.19
25 29 0.40
26 24 0.33
27 5 0.07
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (24 bp):
TAAAATTACCAAATACCTCGATTG
Found at i:61645825 original size:51 final size:51
Alignment explanation
Indices: 61645732--61645831 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
61645722 TAGTTTACTA
* * *
61645732 AAATTACCGAAATACCCTTAGTTTGTAAAATACTGAAATACCTCGATTTGT
1 AAATTACCGAAATACCCTGAGCTTGTAAAATACTCAAATACCTCGATTTGT
61645783 AAATTACCGAAATA-CCTCGA-CTTGTAAAATTAC-CAAAGTACCTCGATTT
1 AAATTACCGAAATACCCT-GAGCTTGTAAAA-TACTCAAA-TACCTCGATTT
61645832 AGAATTACCG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
50 14 0.33
51 29 0.67
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (51 bp):
AAATTACCGAAATACCCTGAGCTTGTAAAATACTCAAATACCTCGATTTGT
Found at i:61645865 original size:27 final size:27
Alignment explanation
Indices: 61645823--61646322 Score: 649
Period size: 27 Copynumber: 18.7 Consensus size: 27
61645813 TACCAAAGTA
61645823 CCTCGATTT--AGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
61645848 CCTC-AGTTTATAGAATTACTGTTTTAC
1 CCTCGA-TTTACAGAATTACCGTTTTAC
** *
61645875 CCTCGATTTGTAAAATTA-CGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
61645901 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
**
61645928 CCTC-AGTTTACAGAATTACTATTTTAC
1 CCTCGA-TTTACAGAATTACCGTTTTAC
61645955 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
**
61645982 CCTC-AGTTTACAGAATTATTGTTTTAC
1 CCTCGA-TTTACAGAATTACCGTTTTAC
* *
61646009 CCTTGATTTACAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
61646036 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
** *
61646063 CCTCGATTTGTAAAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
61646090 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* **
61646117 CCTC-AGTTTACAAAATTACTATTTTAC
1 CCTCGA-TTTACAGAATTACCGTTTTAC
61646144 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
61646171 CCCCGATTTACATAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
61646198 CC-CGATTTACATAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
61646224 CCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* **
61646251 CCTCGATTTATAGAATTATTGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
61646278 CCTTGATTTACAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
61646305 CC-CGATTTACAAAATTAC
1 CCTCGATTTACAGAATTAC
61646323 TAAAATACCC
Statistics
Matches: 421, Mismatches: 42, Indels: 23
0.87 0.09 0.05
Matches are distributed among these distances:
24 1 0.00
25 7 0.02
26 65 0.15
27 344 0.82
28 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCGTTTTAC
Found at i:61646361 original size:107 final size:106
Alignment explanation
Indices: 61645783--61646339 Score: 416
Period size: 108 Copynumber: 5.2 Consensus size: 106
61645773 CTCGATTTGT
* *
61645783 AAATTACCGAAATA-CCTCGACTTGTA-A-AATTACCAAAGTA-CCTCGATTT--AGAATTACCG
1 AAATTACCAAAATACCCTCGA-TT-TACAGAATTACCATA-TACCCTCGATTTACAGAATTACCG
* * * **
61645842 TTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCTCGATTTGTA
63 TTTTACCCCCGA-TTTACAGAATTACCGTTTTACCC-CGATTTACA
**** * * **
61645887 AAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTAT
1 AAATTACCAAAATACCCTCGATTTACAGAATTACC-ATATACCCTCGA-TTTACAGAATTACCGT
*
61645950 TTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTACA
64 TTTACCCCCGATTTACAGAATTACCGTTTTACCC-CGA-TTTACA
* ****** * ** * *
61645994 GAATTATTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTT
1 AAATTACCAAAATACCCTCGATTTACAGAATTAC-CATATACCCTCGATTTACAGAATTACCGTT
* ** *
61646059 TTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACA
65 TTACCCCCGATTTACAGAATTACCGTTTTACCC-CGATTTACA
* **** * * *
61646102 GAATTACCGTTTTACCCTC-AGTTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGT
1 AAATTACCAAAATACCCTCGA-TTTACAGAATTACCA-TATACCCTCGATTTACAGAATTACCGT
*
61646166 TTTACCCCCGATTTACATAATTACCGTTTTACCCCGATTTACA
64 TTTACCCCCGATTTACAGAATTACCGTTTTACCCCGATTTACA
* **** * * **
61646209 TAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTATTGTT
1 AAATTACCAAAATACCCTCGATTTACAGAATTACCA-TATACCCTCGATTTACAGAATTACCGTT
** *
61646274 TTACCCTTGATTTACAGAATTACTGTTTTACCCCGATTTACA
65 TTACCCCCGATTTACAGAATTACCGTTTTACCCCGATTTACA
* *
61646316 AAATTACTAAAATACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
61646340 GTGAAATTAT
Statistics
Matches: 386, Mismatches: 50, Indels: 31
0.83 0.11 0.07
Matches are distributed among these distances:
102 2 0.01
103 7 0.02
104 22 0.06
105 7 0.02
106 1 0.00
107 172 0.45
108 173 0.45
109 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (106 bp):
AAATTACCAAAATACCCTCGATTTACAGAATTACCATATACCCTCGATTTACAGAATTACCGTTT
TACCCCCGATTTACAGAATTACCGTTTTACCCCGATTTACA
Found at i:61647474 original size:25 final size:25
Alignment explanation
Indices: 61647445--61647492 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61647435 TTATAATATG
* * *
61647445 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61647470 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61647493 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:61647561 original size:20 final size:20
Alignment explanation
Indices: 61647536--61647594 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
61647526 TAAATATGGT
61647536 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
61647556 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
61647576 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
61647595 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:61647672 original size:24 final size:24
Alignment explanation
Indices: 61647645--61647787 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
61647635 GAGGAAGTGA
61647645 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
61647669 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
61647693 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
61647716 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
61647740 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
61647764 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61647788 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:61647738 original size:47 final size:47
Alignment explanation
Indices: 61647645--61647787 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
61647635 GAGGAAGTGA
61647645 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
61647693 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
61647740 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
61647788 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:61647761 original size:71 final size:72
Alignment explanation
Indices: 61647645--61647788 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
61647635 GAGGAAGTGA
*
61647645 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
61647708 CCAGTTAT
65 CCAGTTAT
** * *
61647716 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
61647781 CAGTTAT
66 CAGTTAT
61647788 A
1 A
61647789 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:61648033 original size:31 final size:31
Alignment explanation
Indices: 61647979--61648042 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
61647969 CGTTTACAGT
*
61647979 AAAGGCTTCGGCCCAATAATATGAAATTTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* ** *
61648010 AAAGGCTTCGGCCCAGTGTTATGAGATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
61648041 AA
1 AA
61648043 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:61654051 original size:50 final size:51
Alignment explanation
Indices: 61653930--61654065 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 51
61653920 ATCTGGTACG
* **
61653930 CATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACAGTCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACA
* *
61653979 CATAGTAG-CT-CACTTAGTACTACACACGTGACCTCACCA-TCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACA
*
61654027 CGTAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
61654066 AATAGATCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
47 19 0.25
48 17 0.23
49 14 0.19
50 25 0.33
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACA
Found at i:61658014 original size:43 final size:41
Alignment explanation
Indices: 61657952--61658104 Score: 189
Period size: 43 Copynumber: 3.6 Consensus size: 41
61657942 TACCGTACCA
*
61657952 ATGCCATATCCCAGATATGGTCTTACATGTAATGTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AATGTCATATCG
* * * *
61657994 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATACCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAA-TGTCATATCG
*
61658037 ATGCCATATCCCATATATGGTCTTACATGAATGTCTAATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAATGTC--ATATCG
* *
61658080 ATACCATATCCTAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
61658105 AATGTAATCT
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
41 3 0.03
42 30 0.32
43 61 0.65
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATGTCATATCG
Found at i:61658099 original size:85 final size:85
Alignment explanation
Indices: 61657947--61658104 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 85
61657937 CACAGTACCG
* * *
61657947 TACCAATGCCATATCCCAGATATGGTCTTACATGTAATGTCGTATCGATGCCAATAGCCCAGCTA
1 TACCAATGCCATATCCCAGATATGGTCTTACATGTAATGTCATATCGATACCAATAGCCCAGATA
61658012 TGGTCTTACATGAAGTCTCA
66 TGGTCTTACATGAAGTCTCA
* * * *
61658032 TACCGATGCCATATCCCATATATGGTCTTACATG-AATGTCTAATATCGATACC-ATATCCTAGA
1 TACCAATGCCATATCCCAGATATGGTCTTACATGTAATGTC--ATATCGATACCAATAGCCCAGA
61658095 TATGGTCTTA
64 TATGGTCTTA
61658105 AATGTAATCT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
84 6 0.09
85 49 0.77
86 9 0.14
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (85 bp):
TACCAATGCCATATCCCAGATATGGTCTTACATGTAATGTCATATCGATACCAATAGCCCAGATA
TGGTCTTACATGAAGTCTCA
Found at i:61659755 original size:40 final size:40
Alignment explanation
Indices: 61659696--61659899 Score: 156
Period size: 40 Copynumber: 5.3 Consensus size: 40
61659686 ATATCTCGTG
* * *
61659696 CACTAAGTGTCATACATAGCCGAAGCTATCTCAAATCACA
1 CACTAAGTGCCATATATAGCAGAAGCTATCTCAAATCACA
* * *
61659736 CAATAAGTGCCATATATAGCAGAAACTATGTCAAATCACA
1 CACTAAGTGCCATATATAGCAGAAGCTATCTCAAATCACA
* ** *
61659776 CACTAAGTTCCATACT-T----G-A--TATCTC-TCTCGCA
1 CACTAAGTGCCATA-TATAGCAGAAGCTATCTCAAATCACA
*** * * * *
61659808 CACTAAGTGTGGTACATAGCCGAGGCTATCTCAAATCGCA
1 CACTAAGTGCCATATATAGCAGAAGCTATCTCAAATCACA
* * *
61659848 CACTAAGTGCCATATATAGTAGAAGCTATGTCGAATCACA
1 CACTAAGTGCCATATATAGCAGAAGCTATCTCAAATCACA
61659888 CACTAAGTGCCA
1 CACTAAGTGCCA
61659900 CAAATAACCA
Statistics
Matches: 124, Mismatches: 30, Indels: 20
0.71 0.17 0.11
Matches are distributed among these distances:
32 15 0.12
33 5 0.04
35 1 0.01
36 2 0.02
39 6 0.05
40 94 0.76
41 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (40 bp):
CACTAAGTGCCATATATAGCAGAAGCTATCTCAAATCACA
Found at i:61659859 original size:112 final size:108
Alignment explanation
Indices: 61659666--61659899 Score: 333
Period size: 112 Copynumber: 2.1 Consensus size: 108
61659656 CAATGTCTCG
*
61659666 CACACTAAGTGCCAGACTTGATATCTCGTGCACTAAGTGTCATACATAGCCGAAGCTATCTCAAA
1 CACACTAAGTGCCAGACTTGATATCTCCTGCACTAAGTGTCATACATAGCCGAAGCTATCTCAAA
61659731 TCACACAATAAGTGCCATATATAGCAGAAACTATGTCAAATCA
66 TCACACAATAAGTGCCATATATAGCAGAAACTATGTCAAATCA
* * ** *
61659774 CACACTAAGTTCCATACTTGATATCTCTCTCGCACACTAAGTGTGGTACATAGCCGAGGCTATCT
1 CACACTAAGTGCCAGACTTGATATCTC-CT-G--CACTAAGTGTCATACATAGCCGAAGCTATCT
* * * * *
61659839 CAAATCGCACACTAAGTGCCATATATAGTAGAAGCTATGTCGAATCA
62 CAAATCACACAATAAGTGCCATATATAGCAGAAACTATGTCAAATCA
61659886 CACACTAAGTGCCA
1 CACACTAAGTGCCA
61659900 CAAATAACCA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
108 25 0.23
109 1 0.01
110 1 0.01
112 83 0.75
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (108 bp):
CACACTAAGTGCCAGACTTGATATCTCCTGCACTAAGTGTCATACATAGCCGAAGCTATCTCAAA
TCACACAATAAGTGCCATATATAGCAGAAACTATGTCAAATCA
Found at i:61660364 original size:17 final size:18
Alignment explanation
Indices: 61660325--61660364 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
61660315 TTTAACCACT
*
61660325 ACATTTCACCTTTTTCTG
1 ACATTTAACCTTTTTCTG
61660343 A-ATTTAACCTTTTT-TG
1 ACATTTAACCTTTTTCTG
61660359 ACATTT
1 ACATTT
61660365 TTGTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 16 0.80
18 1 0.05
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.53
Consensus pattern (18 bp):
ACATTTAACCTTTTTCTG
Found at i:61667241 original size:140 final size:140
Alignment explanation
Indices: 61666989--61667246 Score: 353
Period size: 140 Copynumber: 1.8 Consensus size: 140
61666979 TGTGTGAGCT
*
61666989 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTGG
* * *
61667054 GACATGGCATTGACATGGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
66 GAAATGACATCGACATGGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
61667119 GACGTAAGCC
131 GACGTAAGCC
** *
61667129 AGTGTAAGACATGTCTGGGACATGCA-CTGGTTACGA-GATGATAG-TCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCCAC-ATGATGAGAGCT-AGTGTAAGACCATGTC
* * * *
61667191 TGGGAAATTACATCGAC-TTGAGATGTGAGCTAGTGTAAGACCATGTCTGGGACATG
63 TGGGAAATGACATCGACATGGAGACGAGAGCTAGTGTAAGA-CATGTCTGGGACATG
61667247 ACACCAGCAC
Statistics
Matches: 103, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
139 22 0.21
140 80 0.78
141 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTGG
GAAATGACATCGACATGGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
GACGTAAGCC
Found at i:61667543 original size:17 final size:17
Alignment explanation
Indices: 61667521--61667560 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
61667511 TTATATGCAA
61667521 CTTACTAAGCTTTTATG
1 CTTACTAAGCTTTTATG
61667538 CTTACTAAGCTTTTATG
1 CTTACTAAGCTTTTATG
61667555 CTTACT
1 CTTACT
61667561 CCTTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (17 bp):
CTTACTAAGCTTTTATG
Found at i:61670148 original size:40 final size:40
Alignment explanation
Indices: 61670104--61670213 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
61670094 TACATAGCTG
*
61670104 AAGCTATCCCAAATCAGACACTAAGTGCCATATATACCCA
1 AAGCTATCTCAAATCAGACACTAAGTGCCATATATACCCA
* * *
61670144 AAGCTATGTTGAAAT--GCACACTAAGTGCCATATATACCCG
1 AAGCTAT-CTCAAATCAG-ACACTAAGTGCCATATATACCCA
* * *
61670184 AAGCTATGTCGAATCACACACTAAGTGCCA
1 AAGCTATCTCAAATCAGACACTAAGTGCCA
61670214 CAAATAATTG
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
39 5 0.09
40 49 0.84
41 4 0.07
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (40 bp):
AAGCTATCTCAAATCAGACACTAAGTGCCATATATACCCA
Found at i:61672004 original size:2 final size:2
Alignment explanation
Indices: 61671997--61672034 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
61671987 ACCAGAACAG
61671997 AT 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 AT
61672035 GTGGCGAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61672744 original size:26 final size:27
Alignment explanation
Indices: 61672715--61672768 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
61672705 TCACACAAGT
*
61672715 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
61672741 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
61672768 T
1 T
61672769 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:61672856 original size:54 final size:54
Alignment explanation
Indices: 61672769--61672941 Score: 233
Period size: 54 Copynumber: 3.2 Consensus size: 54
61672759 GGGGCAAAAT
* * *
61672769 GGTAATTTTATCCC-ACAAGGGTATCTCGATAATTCTTTCCTACAGGGGTATTTC
1 GGTAATTCTA-CCCTACAAGGGTATTTCGGTAATTCTTTCCTACAGGGGTATTTC
* * * *
61672823 GGTATTTCTACCCTACAAGGGCATTTCGGTAATTCTATCCTAAAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTTTCCTACAGGGGTATTTC
* *
61672877 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTC-TACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTTTCC-TACAGGGGTATTTC
61672931 GGTAATTCTAC
1 GGTAATTCTAC
61672942 AACTTATCCT
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 5 0.05
54 99 0.95
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTTTCCTACAGGGGTATTTC
Found at i:61672872 original size:81 final size:81
Alignment explanation
Indices: 61672769--61672940 Score: 238
Period size: 81 Copynumber: 2.1 Consensus size: 81
61672759 GGGGCAAAAT
* ** *
61672769 GGTAATTTTATCCCACAAGGGTATCTCGATAATTCTTTCCTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTCTATCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
61672834 CCTACAAGGGCATTTC
66 CCTACAAGGGCATTTC
* * *
61672850 GGTAATTCTATCCTA-AAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 GGTAATTCTATCCCACAA-GGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
* * *
61672914 CCTTACAGGGGTATTTC
65 CCCTACAAGGGCATTTC
61672931 GGTAATTCTA
1 GGTAATTCTA
61672941 CAACTTATCC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 2 0.03
81 78 0.98
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (81 bp):
GGTAATTCTATCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAAGGGCATTTC
Found at i:61672938 original size:27 final size:26
Alignment explanation
Indices: 61672769--61672941 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 26
61672759 GGGGCAAAAT
* * * *
61672769 GGTAATTTTATCCCACAAGGGTATCTC
1 GGTAATTCTA-CCTACAGGGGTATTTC
* *
61672796 GATAATTCTTTCCTACAGGGGTATTTC
1 GGTAATTC-TACCTACAGGGGTATTTC
* * *
61672823 GGTATTTCTACCCTACAAGGGCATTTC
1 GGTAATTCTA-CCTACAGGGGTATTTC
*
61672850 GGTAATTCTATCCTAAAGGGGTATTTC
1 GGTAATTCTA-CCTACAGGGGTATTTC
61672877 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTA-CCTACAGGGGTATTTC
61672904 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACC-TACAGGGGTATTTC
61672931 GGTAATTCTAC
1 GGTAATTCTAC
61672942 AACTTATCCT
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.02
27 121 0.97
28 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (26 bp):
GGTAATTCTACCTACAGGGGTATTTC
Found at i:61678899 original size:27 final size:26
Alignment explanation
Indices: 61678851--61678902 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
61678841 GCGAGGCTGC
*
61678851 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
61678877 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
61678903 TTGCAGCGAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:61682351 original size:15 final size:15
Alignment explanation
Indices: 61682331--61682359 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
61682321 ATGCCTCACA
61682331 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
61682346 CACCGTGTTATCAA
1 CACCGTGTTATCAA
61682360 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:61683555 original size:15 final size:17
Alignment explanation
Indices: 61683524--61683555 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
61683514 TGCCCCTTAA
61683524 TAACATCAACACACAAC
1 TAACATCAACACACAAC
61683541 TAAC-TCAAC-CACAAC
1 TAACATCAACACACAAC
61683556 CAAGTGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (17 bp):
TAACATCAACACACAAC
Found at i:61689092 original size:18 final size:18
Alignment explanation
Indices: 61689044--61689093 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
61689034 AACTTTGTTG
* *
61689044 TTGAAAGCTTGTGTTCTT
1 TTGAAAGCTCGTGTTATT
* *
61689062 TAGAAA-ATCGTGTTATT
1 TTGAAAGCTCGTGTTATT
61689079 TTGAAAGCTCGTGTT
1 TTGAAAGCTCGTGTT
61689094 TTCCTAGACT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (18 bp):
TTGAAAGCTCGTGTTATT
Found at i:61689395 original size:33 final size:33
Alignment explanation
Indices: 61689352--61689461 Score: 175
Period size: 33 Copynumber: 3.3 Consensus size: 33
61689342 AGTAAATAAC
* *
61689352 ACAGTATCAGTACAGTCTGGGCCAAAGCCCTAT
1 ACAGTATCAGTATAGTCTGGGCCTAAGCCCTAT
* *
61689385 TCAGTATCAGTATAGTTTGGGCCTAAGCCCTAT
1 ACAGTATCAGTATAGTCTGGGCCTAAGCCCTAT
61689418 ACAGTATCAGTATAGTCTGGGCCTAAGCCCTAT
1 ACAGTATCAGTATAGTCTGGGCCTAAGCCCTAT
*
61689451 ACAGTAGCAGT
1 ACAGTATCAGT
61689462 GTGGGCCTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (33 bp):
ACAGTATCAGTATAGTCTGGGCCTAAGCCCTAT
Found at i:61689467 original size:28 final size:31
Alignment explanation
Indices: 61689368--61689474 Score: 112
Period size: 33 Copynumber: 3.4 Consensus size: 31
61689358 TCAGTACAGT
* * *
61689368 CTGGGCCAAAGCCCTATTCAGTATCAGTATAG
1 CTGGGCCTAAGCCCTATACAGTAGCAG-ATAG
* *
61689400 TTTGGGCCTAAGCCCTATACAGTATCAGTATAG
1 -CTGGGCCTAAGCCCTATACAGTAGCAG-ATAG
61689433 TCTGGGCCTAAGCCCTATACAGTAGCAG-T-G
1 -CTGGGCCTAAGCCCTATACAGTAGCAGATAG
61689463 -TGGGCCTAAGCC
1 CTGGGCCTAAGCC
61689475 TAATGCAGTA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
28 12 0.17
30 1 0.01
31 1 0.01
33 55 0.80
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (31 bp):
CTGGGCCTAAGCCCTATACAGTAGCAGATAG
Found at i:61689627 original size:23 final size:24
Alignment explanation
Indices: 61689601--61689653 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
61689591 CCAGCACACC
61689601 AATAT-CGCAGCAAAGCTGCCAGA
1 AATATACGCAGCAAAGCTGCCAGA
* *
61689624 AATAATGATGCAGCATAGCTGCCAGA
1 AAT-AT-ACGCAGCAAAGCTGCCAGA
61689650 AATA
1 AATA
61689654 GTAATTGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 3 0.12
24 2 0.08
25 1 0.04
26 19 0.76
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.17
Consensus pattern (24 bp):
AATATACGCAGCAAAGCTGCCAGA
Found at i:61689875 original size:27 final size:26
Alignment explanation
Indices: 61689845--61689922 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
61689835 GGGCATAATC
*
61689845 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* *
61689872 GTCACTTTACCCTATAGGGGCATTACG
1 GTCATTTTA-CCTATAGGGGTATTACG
61689899 GTC-TTTCTACCTATTAGGGGTATT
1 GTCATTT-TACCTA-TAGGGGTATT
61689923 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 6 0.14
27 35 0.81
28 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:61690103 original size:27 final size:27
Alignment explanation
Indices: 61689961--61690101 Score: 117
Period size: 27 Copynumber: 5.2 Consensus size: 27
61689951 GGTAAATCTA
* * *
61689961 CAAACCAAGGGTATTTCAATAATTTTG
1 CAAATCAAGGGTATTTCAGTAATTTTC
* * *
61689988 CAAACCAATGGTATTTCTA-TAATTTTTA
1 CAAATCAAGGGTATTTC-AGTAA-TTTTC
* * *
61690016 GAAAGTCAAGGTTATTTCTGTAATTTGT-
1 CAAA-TCAAGGGTATTTCAGTAATTT-TC
* *
61690044 -AAATCAGGGGTATTTCTGTAATTTTC
1 CAAATCAAGGGTATTTCAGTAATTTTC
*
61690070 CAAATTAAGGGTATTTCAGTAATTTTC
1 CAAATCAAGGGTATTTCAGTAATTTTC
61690097 CAAAT
1 CAAAT
61690102 TAGGGTTGTA
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
25 1 0.01
26 19 0.20
27 50 0.53
28 11 0.12
29 14 0.15
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCAGTAATTTTC
Found at i:61691602 original size:40 final size:40
Alignment explanation
Indices: 61691490--61691642 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
61691480 GGATATAGCG
* * * * ***
61691490 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
61691530 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
61691570 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
61691610 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
61691643 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:61699631 original size:40 final size:40
Alignment explanation
Indices: 61699519--61699671 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
61699509 GGATATAGCG
* * * * ***
61699519 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
61699559 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
61699599 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
61699639 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
61699672 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:61703850 original size:40 final size:40
Alignment explanation
Indices: 61703803--61703914 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
61703793 GTTATAATAT
* *
61703803 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGAA
* **
61703843 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAA
*
61703883 CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
61703915 CTCATTCGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.05
40 48 0.77
41 11 0.18
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGAA
Found at i:61705674 original size:27 final size:27
Alignment explanation
Indices: 61705607--61705758 Score: 125
Period size: 27 Copynumber: 5.7 Consensus size: 27
61705597 GGCTGTCACA
* *
61705607 AGGGTTATTTTGATAATTTTAC-AATT
1 AGGGGTATTTTGGTAATTTTACAAATT
* * *
61705633 -GAGGTATTTTAGTAATTTTACAAGTT
1 AGGGGTATTTTGGTAATTTTACAAATT
* **
61705659 AGGGGTATTTCT-GTAATTTTATAGGTT
1 AGGGGTATTT-TGGTAATTTTACAAATT
* * **
61705686 -GAGGGTA-TTTCGTAATTTCACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAATT
**
61705712 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAATT
61705739 AGGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
61705759 GTAAACCAAG
Statistics
Matches: 103, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
25 18 0.17
26 20 0.19
27 64 0.62
28 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAATT
Found at i:61705703 original size:53 final size:53
Alignment explanation
Indices: 61705607--61705732 Score: 132
Period size: 53 Copynumber: 2.4 Consensus size: 53
61705597 GGCTGTCACA
* * * * * ***
61705607 AGGGTTATTTTGATAATTTTACA-ATTGAGGTATTTTAGTAATTTTACAAGTT
1 AGGGGTATTTTGGTAATTTTATAGGTTGAGGTATTTTAGTAATTTCACAAACC
*
61705659 AGGGGTATTTCT-GTAATTTTATAGGTTGAGGGTA-TTTCGTAATTTCACAAACC
1 AGGGGTATTT-TGGTAATTTTATAGGTTGA-GGTATTTTAGTAATTTCACAAACC
61705712 AGGGGTATTTTGGTAATTTTA
1 AGGGGTATTTTGGTAATTTTA
61705733 CAAACCAGGG
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
52 19 0.31
53 38 0.62
54 4 0.07
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.44
Consensus pattern (53 bp):
AGGGGTATTTTGGTAATTTTATAGGTTGAGGTATTTTAGTAATTTCACAAACC
Found at i:61705764 original size:27 final size:27
Alignment explanation
Indices: 61705688--61705774 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
61705678 TATAGGTTGA
* *
61705688 GGGTA-TTTCGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
61705714 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
61705741 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
61705768 GGGTATT
1 GGGTATT
61705775 CAGTAATTCT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 5 0.09
27 50 0.91
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:61705808 original size:27 final size:26
Alignment explanation
Indices: 61705765--61705844 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
61705755 TTTTGTAAAC
* *
61705765 CAAGGGTATTCAGTAATTCTACCCTG
1 CAAGGGCATTCAGTAATTCTACCCTA
*
61705791 CAAGGGCATTTCAGTAATTCTATCCTA
1 CAAGGGCA-TTCAGTAATTCTACCCTA
* * * *
61705818 TAGGGGCAATTCAGTAATACTAGCCTA
1 CAAGGGC-ATTCAGTAATTCTACCCTA
61705845 TAGATATGAG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.16
27 37 0.82
28 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (26 bp):
CAAGGGCATTCAGTAATTCTACCCTA
Found at i:61705845 original size:27 final size:27
Alignment explanation
Indices: 61705794--61705847 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
61705784 TACCCTGCAA
* * *
61705794 GGGCATTTCAGTAATTCTATCCTATAG
1 GGGCAATTCAGTAATACTAGCCTATAG
61705821 GGGCAATTCAGTAATACTAGCCTATAG
1 GGGCAATTCAGTAATACTAGCCTATAG
61705848 ATATGAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (27 bp):
GGGCAATTCAGTAATACTAGCCTATAG
Found at i:61710570 original size:31 final size:31
Alignment explanation
Indices: 61710532--61710595 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
61710522 CCTTTTCATA
61710532 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
61710563 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
61710594 TT
1 TT
61710596 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:61710838 original size:24 final size:24
Alignment explanation
Indices: 61710787--61710953 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
61710777 GCTTTATCAT
* *
61710787 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
61710812 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
61710836 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
61710859 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
61710883 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
61710907 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
61710931 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61710954 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:61710887 original size:71 final size:71
Alignment explanation
Indices: 61710786--61710953 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
61710776 TGCTTTATCA
*
61710786 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
61710850 AGCCCTTT
64 AGCCCTTT
* * **
61710858 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
61710923 CCCTTT
66 CCCTTT
61710929 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
61710954 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:61711034 original size:11 final size:11
Alignment explanation
Indices: 61711004--61711057 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61710994 TATGATTACC
61711004 TCATGTGCATA
1 TCATGTGCATA
*
61711015 TCA--TACATA
1 TCATGTGCATA
61711024 TCATGTGCATA
1 TCATGTGCATA
*
61711035 TCA--TACAT-
1 TCATGTGCATA
61711043 TCATGTGCATA
1 TCATGTGCATA
61711054 TCAT
1 TCAT
61711058 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:61711048 original size:19 final size:20
Alignment explanation
Indices: 61711004--61711062 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
61710994 TATGATTACC
61711004 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
61711024 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
61711043 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
61711063 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:61711137 original size:25 final size:25
Alignment explanation
Indices: 61711105--61711152 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61711095 ATACATAAAC
* * *
61711105 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61711130 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61711153 CATGGTATAA
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:61718697 original size:38 final size:35
Alignment explanation
Indices: 61718638--61718755 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
61718628 TCAATCATGC
*
61718638 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
61718677 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
61718708 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
61718739 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
61718756 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:61718699 original size:31 final size:31
Alignment explanation
Indices: 61718661--61718755 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
61718651 CCTTTTCATA
*
61718661 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
61718692 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
61718723 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
61718754 TT
1 TT
61718756 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:61718998 original size:24 final size:24
Alignment explanation
Indices: 61718947--61719113 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
61718937 GCTTTATCAT
* *
61718947 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
61718972 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
61718996 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
61719019 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
61719043 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
61719067 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
61719091 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61719114 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:61719047 original size:71 final size:71
Alignment explanation
Indices: 61718946--61719113 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
61718936 TGCTTTATCA
*
61718946 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
61719010 AGCCCTTT
64 AGCCCTTT
* * **
61719018 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
61719083 CCCTTT
66 CCCTTT
61719089 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
61719114 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:61719189 original size:20 final size:20
Alignment explanation
Indices: 61719164--61719221 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
61719154 TATGATTACC
61719164 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
61719184 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
61719204 TCATGTGC--ATCATACATA
1 TCATGTGCATATCATACATA
61719222 CCATATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.25
20 27 0.75
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:61719296 original size:25 final size:25
Alignment explanation
Indices: 61719264--61719311 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61719254 ATACATAAAC
* * *
61719264 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61719289 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61719312 CATGGTATAA
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:61726581 original size:10 final size:10
Alignment explanation
Indices: 61726566--61726596 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
61726556 AATTAGTGCT
61726566 ATAATAATTA
1 ATAATAATTA
61726576 ATAATAATTA
1 ATAATAATTA
*
61726586 ATAATACTTA
1 ATAATAATTA
61726596 A
1 A
61726597 GGACAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (10 bp):
ATAATAATTA
Found at i:61726927 original size:45 final size:45
Alignment explanation
Indices: 61726875--61726989 Score: 203
Period size: 45 Copynumber: 2.6 Consensus size: 45
61726865 ATAAATACAT
*
61726875 CAATTAGACCCTCCCTTTGAAAACACAATAAAGGAACCAAAACAG
1 CAATTAGACCCTCCCCTTGAAAACACAATAAAGGAACCAAAACAG
* *
61726920 CTATTAGACCCTCCCCTTGAAAACACGATAAAGGAACCAAAACAG
1 CAATTAGACCCTCCCCTTGAAAACACAATAAAGGAACCAAAACAG
61726965 CAATTAGACCCTCCCCTTGAAAACA
1 CAATTAGACCCTCCCCTTGAAAACA
61726990 TACGGATCCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.17
Consensus pattern (45 bp):
CAATTAGACCCTCCCCTTGAAAACACAATAAAGGAACCAAAACAG
Found at i:61727912 original size:15 final size:16
Alignment explanation
Indices: 61727892--61727921 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61727882 CTTGTTTGTT
61727892 TTTATTT-ATTTTTTA
1 TTTATTTGATTTTTTA
61727907 TTTATTTGATTTTTT
1 TTTATTTGATTTTTT
61727922 TGGTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTATTTGATTTTTTA
Found at i:61729290 original size:78 final size:78
Alignment explanation
Indices: 61729208--61729360 Score: 195
Period size: 78 Copynumber: 2.0 Consensus size: 78
61729198 TTAAACCTAG
* * * *
61729208 TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAG-CTCGGACATATTTCCAGCACGTAGCCTGC
1 TATAATACCAGCAC-ATAGCCTGC-GGACCTTAAGTC-CGGACATAATTCCAGCACATAGCCTGC
*
61729270 GGACCTTAAGTCCGGT
63 GGACCCTAAGTCCGGT
* *
61729286 TATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGA
1 TATAATACCAGCACATAGCCTGCGGACCTTAAGTCCGGACATAATTCCAGCACATAGCCTGCGGA
61729351 CCCTAAGTCC
66 CCCTAAGTCC
61729361 AGATAAACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
77 4 0.06
78 60 0.92
79 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (78 bp):
TATAATACCAGCACATAGCCTGCGGACCTTAAGTCCGGACATAATTCCAGCACATAGCCTGCGGA
CCCTAAGTCCGGT
Found at i:61729295 original size:39 final size:39
Alignment explanation
Indices: 61729243--61729365 Score: 192
Period size: 39 Copynumber: 3.2 Consensus size: 39
61729233 GACTTTAGCT
* * *
61729243 CGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGTC
*
61729282 CGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGTC
*
61729321 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGTC
*
61729360 CAGATA
1 CGGATA
61729366 AACATCACTA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
CGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGTC
Found at i:61731744 original size:39 final size:39
Alignment explanation
Indices: 61731690--61731942 Score: 398
Period size: 39 Copynumber: 6.5 Consensus size: 39
61731680 AAGCCAGCAA
*
61731690 GACTTCAGCCCGGATATAATACCAGCACGAATGCCTTCGG
1 GACTT-AGCCCGGATATAACACCAGCACGAATGCCTTCGG
* * * *
61731730 GGCTTAACCTGGATATAACACCAGCATGAATGCCTTCGG
1 GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGG
* * *
61731769 GGCTTAACCCGGATATAACACCAGCACGAATGCTTTCGG
1 GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGG
61731808 GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGG
1 GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGG
*
61731847 GACTTAGCCCGAATATAACACCAGCACGAATGCCTTCGG
1 GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGG
* *
61731886 GACTTAGCCCGAATATAACACCAGCACGAATGCCTTCAG
1 GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGG
61731925 GACTTAGCCCGGATATAA
1 GACTTAGCCCGGATATAA
61731943 TTCTCCATTA
Statistics
Matches: 199, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
39 195 0.98
40 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGG
Found at i:61732474 original size:110 final size:110
Alignment explanation
Indices: 61732281--61732500 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
61732271 TGTGGATAGG
*
61732281 CTACTCGATTGCTTTCGCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCAATTGCTTTCGCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
61732346 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
* *
61732391 CTACTCAATTGCTTTCTCTTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCAATTGCTTTCGCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
61732456 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
61732501 AATAGTCAGA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.46
Consensus pattern (110 bp):
CTACTCAATTGCTTTCGCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:61735434 original size:44 final size:44
Alignment explanation
Indices: 61735251--61735435 Score: 119
Period size: 44 Copynumber: 4.1 Consensus size: 44
61735241 AGATTTGTTG
* ** *
61735251 TTGTAGTTTCAATCTAT-TCCACTGTAACTTCAGGGATAT-AGAAT
1 TTGTAGCTTC-ATCTATCTCCACTACAACTTCAGGGAGATAAG-AT
61735295 TTGTAGCTTCATCT-TGCTCCACTACAACTTCAGGGAGATAAGATT
1 TTGTAGCTTCATCTAT-CTCCACTACAACTTCAGGGAGATAAGA-T
* * * * * *
61735340 AAAAATTGAAGCTTTATTCCAAC-CCACTACAACTTCAAGGG-TATAGGAT
1 -----TTGTAGCTTCA-TCTATCTCCACTACAACTTC-AGGGAGATAAGAT
* **
61735389 TTGTAGCTTCATCTTTCTCCACTGTAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCATCTATCTCCACTACAACTTCAGGGAGATAAGAT
61735433 TTG
1 TTG
61735436 CTATTGTGAC
Statistics
Matches: 108, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
42 1 0.01
43 11 0.10
44 58 0.54
45 3 0.03
49 1 0.01
50 27 0.25
51 7 0.06
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
TTGTAGCTTCATCTATCTCCACTACAACTTCAGGGAGATAAGAT
Found at i:61739777 original size:28 final size:29
Alignment explanation
Indices: 61739679--61739777 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
61739669 TCACAAATTG
* *
61739679 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
61739708 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
61739736 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
61739764 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
61739778 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:61744279 original size:43 final size:43
Alignment explanation
Indices: 61744160--61744280 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
61744150 TCACATATCG
* * * * * *
61744160 ATGCCACTGTCCCAGACAGGGTCTTACACGAAAT-TGATTAACA
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCAAT-ACA
*
61744203 ATACCAATGTCCTAGACATGGTCTTACACGTAATCTCAATACA
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCAATACA
*
61744246 ATGCCAATGTCCTAGACATGGTCTTACATGTAATC
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATC
61744281 ACATCTCGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 65 0.96
44 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCAATACA
Found at i:61744830 original size:28 final size:30
Alignment explanation
Indices: 61744771--61744830 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
61744761 TTTATTTCAA
*
61744771 AATTTAACTCCCTCAATTTACACTTTTCTC
1 AATTTAACTCCCTCAATTGACACTTTTCTC
* *
61744801 AATTTAA-TCCCTC-ATTGACATTTTTGTC
1 AATTTAACTCCCTCAATTGACACTTTTCTC
61744829 AA
1 AA
61744831 AAATCACTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 14 0.52
29 6 0.22
30 7 0.26
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.43
Consensus pattern (30 bp):
AATTTAACTCCCTCAATTGACACTTTTCTC
Found at i:61765047 original size:43 final size:41
Alignment explanation
Indices: 61764987--61765151 Score: 134
Period size: 41 Copynumber: 3.9 Consensus size: 41
61764977 CACATATATC
* * * * * *
61764987 ATACAATGCCAACGTCCCATACGTGGTCTTACATGCTATCAC
1 ATACGATGCCAATGTCCCAAACGTGGTCTTACACG-AATCAA
* *
61765029 ATATCGATGCCATTGTCCCAGACAG-GGTCTTACACGAATCAA
1 ATA-CGATGCCAATGTCCCAAAC-GTGGTCTTACACGAATCAA
* *
61765071 ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAACCACA
1 ATACGATGCCAATGTCCCAAACGTGGTCTTACACG-AATCA-A
* * **
61765114 TATATCAATGGCAATGTCCCAGGCGTGGTCTTACACGA
1 -ATA-CGATGCCAATGTCCCAAACGTGGTCTTACACGA
61765152 GAACACATTA
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
41 28 0.28
42 14 0.14
43 26 0.26
44 5 0.05
45 27 0.27
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
ATACGATGCCAATGTCCCAAACGTGGTCTTACACGAATCAA
Found at i:61771382 original size:29 final size:28
Alignment explanation
Indices: 61771348--61771450 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
61771338 TACTCAATCA
*
61771348 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
61771377 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
61771406 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
61771435 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
61771451 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:61779142 original size:29 final size:28
Alignment explanation
Indices: 61779108--61779210 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
61779098 TACTCAATCA
*
61779108 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
61779137 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
61779166 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
61779195 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
61779211 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:61782269 original size:13 final size:14
Alignment explanation
Indices: 61782251--61782281 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
61782241 TCTAAATCCT
61782251 TTGATTCAA-AATC
1 TTGATTCAATAATC
61782264 TTGATTCAATAATC
1 TTGATTCAATAATC
61782278 TTGA
1 TTGA
61782282 GAAATTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (14 bp):
TTGATTCAATAATC
Found at i:61785262 original size:40 final size:40
Alignment explanation
Indices: 61785179--61785386 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
61785169 CGGGATTTAA
* * * * * *
61785179 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
61785219 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
61785259 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
61785299 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
61785339 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
61785379 CCGGATAT
1 CCGGATAT
61785387 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:61785299 original size:80 final size:80
Alignment explanation
Indices: 61785205--61785386 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
61785195 GCTCGATTGT
* * *** * * * **
61785205 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
61785270 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
61785285 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
61785350 TACTAGCATAATTGC
66 AACTAGCACAAATGC
61785365 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
61785387 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:61789526 original size:5 final size:6
Alignment explanation
Indices: 61789510--61789534 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
61789500 AATTTGTTGG
61789510 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
61789535 CATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:61794895 original size:40 final size:40
Alignment explanation
Indices: 61794871--61794955 Score: 143
Period size: 40 Copynumber: 2.1 Consensus size: 40
61794861 GCTATGAATA
61794871 GCACTTACTATGCGAATTGGAATAGCTTCAGCTATATAAG
1 GCACTTACTATGCGAATTGGAATAGCTTCAGCTATATAAG
* * *
61794911 GCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATATGAG
1 GCACTTACTATGCGAATTGGAATAGCTTCAGCTATATAAG
61794951 GCACT
1 GCACT
61794956 AAGTGTGCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (40 bp):
GCACTTACTATGCGAATTGGAATAGCTTCAGCTATATAAG
Found at i:61794961 original size:40 final size:40
Alignment explanation
Indices: 61794881--61794965 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
61794871 GCACTTACTA
*
61794881 TGCGAATTGGAATAGCTTCAGCTATATAAGGCACTTAGTG
1 TGCGAATTGGAATAGCTTCAGCTATATAAGGCACTAAGTG
*
61794921 TGCGAATTGGAATAGCTTCAGCTATATGAGGCACTAAGTG
1 TGCGAATTGGAATAGCTTCAGCTATATAAGGCACTAAGTG
61794961 TGCGA
1 TGCGA
61794966 TACTGAGATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (40 bp):
TGCGAATTGGAATAGCTTCAGCTATATAAGGCACTAAGTG
Found at i:61796261 original size:46 final size:46
Alignment explanation
Indices: 61796211--61796386 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
61796201 TGGTTGAGCA
61796211 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61796257 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
61796302 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61796350 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61796387 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61796367 original size:93 final size:93
Alignment explanation
Indices: 61796208--61796379 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61796198 GGATGGTTGA
* *
61796208 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61796273 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
61796301 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61796366 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
61796380 CTTATGGGCG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61799553 original size:19 final size:19
Alignment explanation
Indices: 61799529--61799568 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61799519 TGTGTCATCA
*
61799529 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
61799548 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
61799567 TA
1 TA
61799569 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:61800121 original size:25 final size:25
Alignment explanation
Indices: 61800093--61800148 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
61800083 GTTCACAAGG
* *
61800093 TCATTCTCATTGACCATAATATCGA
1 TCATACTCATTGACCATAATACCGA
61800118 TCATACTCATTGACCATAATACCGA
1 TCATACTCATTGACCATAATACCGA
61800143 TCATAC
1 TCATAC
61800149 ACTTATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (25 bp):
TCATACTCATTGACCATAATACCGA
Found at i:61803816 original size:6 final size:6
Alignment explanation
Indices: 61803803--61803860 Score: 73
Period size: 6 Copynumber: 9.8 Consensus size: 6
61803793 AAAGAACTAA
* * *
61803803 AAAAAT AAACAT AAAAAT AAACAT AAAAAT -AAAGT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
61803850 AAAACT AAAAA
1 AAAAAT AAAAA
61803861 AATAATCAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:61803840 original size:23 final size:24
Alignment explanation
Indices: 61803803--61803858 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
61803793 AAAGAACTAA
*
61803803 AAAAATAAACATAAAAATAAACAT
1 AAAAATAAACATAAAAATAAAAAT
*
61803827 AAAAATAAA-GTAAAAATAAAAAT
1 AAAAATAAACATAAAAATAAAAAT
*
61803850 AAAACTAAA
1 AAAAATAAA
61803859 AAAATAATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (24 bp):
AAAAATAAACATAAAAATAAAAAT
Found at i:61811631 original size:38 final size:38
Alignment explanation
Indices: 61811583--61811686 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
61811573 GGCACGAAAG
* * *
61811583 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGAATATAATACCAGCACAAAGCCTGCAGGATTTAA
* **
61811621 CCCGCATATAATACCAGCACAAAGCCTGTGGGATTTAA
1 CCCGAATATAATACCAGCACAAAGCCTGCAGGATTTAA
* ** *
61811659 CCCGGATATTTTACCAGCACGAAGCCTG
1 CCCGAATATAATACCAGCACAAAGCCTG
61811687 AGGGTCTTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACAAAGCCTGCAGGATTTAA
Found at i:61816961 original size:43 final size:43
Alignment explanation
Indices: 61816913--61817023 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
61816903 CCGGCATTAC
61816913 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
*
61816956 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
61816999 GCCTGCTAGGCACGAAGG-CCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
61817024 TAATACCAGC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
42 7 0.10
43 60 0.90
ACGTcount: A:0.31, C:0.33, G:0.26, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
Found at i:61817096 original size:38 final size:38
Alignment explanation
Indices: 61817021--61817138 Score: 157
Period size: 38 Copynumber: 3.1 Consensus size: 38
61817011 CGAAGGCCGA
* * *
61817021 ATATAATACCAGCACTAGGCCTGC-GGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
61817058 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
** *
61817096 ATATTTTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
61817136 ATA
1 ATA
61817139 CACATCAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
37 22 0.31
38 37 0.51
39 5 0.07
40 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:61828185 original size:6 final size:6
Alignment explanation
Indices: 61828174--61828254 Score: 71
Period size: 6 Copynumber: 13.3 Consensus size: 6
61828164 TTTGAGTCCA
61828174 TTTATT TTTATT TTTATT TTTATT TTTATCT TTT-TCT CTTT-TCT TTTATCT
1 TTTATT TTTATT TTTATT TTTATT TTTAT-T TTTAT-T -TTTAT-T TTTAT-T
* *
61828225 TCT-TT TTTATT TTTA-T TTTATG TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
61828255 ACAGACTTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
5 8 0.12
6 43 0.65
7 15 0.23
ACGTcount: A:0.12, C:0.07, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:61832592 original size:8 final size:8
Alignment explanation
Indices: 61832499--61832622 Score: 58
Period size: 8 Copynumber: 14.6 Consensus size: 8
61832489 AAGACCAAAG
61832499 AATAAAAT
1 AATAAAAT
61832507 AAAATAAAAT
1 --AATAAAAT
61832517 AACTAAATAT
1 AA-TAAA-AT
* *
61832527 CATAAACAA
1 AATAAA-AT
61832536 AATAAAAT
1 AATAAAAT
61832544 AAATAAACATGT
1 -AATAAA-A--T
61832556 GAATAAAA-
1 -AATAAAAT
*
61832564 AATTAAAAG
1 AA-TAAAAT
61832573 AAT--AA-
1 AATAAAAT
61832578 AATAAAAT
1 AATAAAAT
*
61832586 AAGAAAAT
1 AATAAAAT
*
61832594 AATAAACT
1 AATAAAAT
61832602 AATAAAAT
1 AATAAAAT
*
61832610 AAAAAAAT
1 AATAAAAT
*
61832618 CATAA
1 AATAA
61832623 TAACAAAAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
5 3 0.03
6 2 0.02
7 4 0.04
8 39 0.43
9 22 0.24
10 12 0.13
11 1 0.01
12 7 0.08
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (8 bp):
AATAAAAT
Found at i:61832592 original size:13 final size:12
Alignment explanation
Indices: 61832557--61832615 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
61832547 TAAACATGTG
61832557 AATAAAAAATTAA
1 AATAAAAAA-TAA
*
61832570 AAGAATAAAATAA
1 AATAA-AAAATAA
61832583 AATAAGAAAAT--
1 AATAA-AAAATAA
*
61832594 AATAAACTAATAA
1 AATAAA-AAATAA
61832607 AATAAAAAA
1 AATAAAAAA
61832616 ATCATAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
10 1 0.03
11 8 0.22
12 2 0.05
13 22 0.59
14 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:61832622 original size:16 final size:16
Alignment explanation
Indices: 61832557--61832632 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
61832547 TAAACATGTG
*
61832557 AATAAAAAATTAA-AA
1 AATAAAAAAATAATAA
*
61832572 GAATAAAATAAAATAAGAA
1 -AAT-AAA-AAAATAATAA
* *
61832591 AATAATAAACTAATAA
1 AATAAAAAAATAATAA
*
61832607 AATAAAAAAATCATAA
1 AATAAAAAAATAATAA
*
61832623 TAACAAAAAA
1 -AATAAAAAA
61832633 TTAGGGAAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
16 24 0.50
17 13 0.27
18 9 0.19
19 2 0.04
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.18
Consensus pattern (16 bp):
AATAAAAAAATAATAA
Found at i:61836507 original size:17 final size:18
Alignment explanation
Indices: 61836466--61836505 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
61836456 ATTACAAAGT
61836466 AAAAATTAAACTAAAAAC
1 AAAAATTAAACTAAAAAC
*
61836484 AAAAATTATAA-TAAAAAT
1 AAAAATTA-AACTAAAAAC
61836502 AAAA
1 AAAA
61836506 TTGCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATTAAACTAAAAAC
Found at i:61837232 original size:53 final size:53
Alignment explanation
Indices: 61837151--61837257 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
61837141 AATTAAGCAC
* * * *
61837151 ATTAAATATGAATTAATATCCTCAAAATATTAAAATAAGAAATAAGTATACAT
1 ATTAAACATGAATTAATATCCTCAAAATAGTAAAACAAGAAATAAATATACAT
*
61837204 ATTAAACATGAATTGATATCCT-AGAAATAGTAAAACAAGAAATAAATATACAT
1 ATTAAACATGAATTAATATCCTCA-AAATAGTAAAACAAGAAATAAATATACAT
61837257 A
1 A
61837258 ATTGAGAGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 1 0.02
53 47 0.98
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.29
Consensus pattern (53 bp):
ATTAAACATGAATTAATATCCTCAAAATAGTAAAACAAGAAATAAATATACAT
Found at i:61853984 original size:24 final size:23
Alignment explanation
Indices: 61853952--61854036 Score: 107
Period size: 24 Copynumber: 3.6 Consensus size: 23
61853942 ACCAAACGTT
* **
61853952 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
61853976 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
61854000 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
61854024 GCACACATAGTGC
1 GCACACATAGTGC
61854037 ATTTGAGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.02
24 48 0.89
25 5 0.09
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:61857113 original size:40 final size:40
Alignment explanation
Indices: 61857057--61857156 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
61857047 GGATATAGCG
* * * *
61857057 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAGA
* * *
61857097 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGAGA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
61857137 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
61857157 ATCTTAGTCC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 49 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
Found at i:61859792 original size:27 final size:28
Alignment explanation
Indices: 61859736--61859803 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 28
61859726 AAATTTGTAC
61859736 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
61859764 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
61859791 AGCACTAAGTGTG
1 AGCACTAAGTGTG
61859804 TGGACTCACT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:61859816 original size:27 final size:27
Alignment explanation
Indices: 61859736--61859817 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
61859726 AAATTTGTAC
* *
61859736 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
61859764 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
61859791 AGCACTAAGTGTGTG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
61859818 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:61864774 original size:32 final size:32
Alignment explanation
Indices: 61864738--61864801 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
61864728 TCCATACTTG
61864738 AATTC-ATTTCAATATTCACATCTCAT-TTCATC
1 AATTCAATTTC-AT-TTCACATCTCATATTCATC
*
61864770 AATTCATATTTCATTTCCCATCTCATATTCAT
1 AATTCA-ATTTCATTTCACATCTCATATTCAT
61864802 TTTTTATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 16 0.57
33 7 0.25
34 5 0.18
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (32 bp):
AATTCAATTTCATTTCACATCTCATATTCATC
Found at i:61871203 original size:15 final size:15
Alignment explanation
Indices: 61871183--61871213 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61871173 TCTTGGTTAG
61871183 ATTAATTAGAGTTTT
1 ATTAATTAGAGTTTT
61871198 ATTAATTAGAGTTTT
1 ATTAATTAGAGTTTT
61871213 A
1 A
61871214 GCATACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (15 bp):
ATTAATTAGAGTTTT
Found at i:61871622 original size:14 final size:13
Alignment explanation
Indices: 61871582--61871623 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
61871572 GTCTATTTAT
*
61871582 TTATTTTTATATTT
1 TTATTTTTAT-TTG
61871596 TTATTTTTA-TTG
1 TTATTTTTATTTG
61871608 TTATTTGTTATTTG
1 TTATTT-TTATTTG
61871622 TT
1 TT
61871624 CTCAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 8 0.32
13 3 0.12
14 14 0.56
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (13 bp):
TTATTTTTATTTG
Found at i:61872023 original size:15 final size:16
Alignment explanation
Indices: 61871994--61872026 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
61871984 AAAGTGATAA
61871994 AAAATACAGAAAAAAG
1 AAAATACAGAAAAAAG
61872010 AAAATACA-AAAAAAG
1 AAAATACAGAAAAAAG
61872025 AA
1 AA
61872027 GATAATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAATACAGAAAAAAG
Found at i:61872790 original size:3 final size:3
Alignment explanation
Indices: 61872782--61872808 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
61872772 CTTACAATGG
61872782 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
61872809 GCAACATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:61873816 original size:23 final size:23
Alignment explanation
Indices: 61873786--61873832 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
61873776 AAATGGGTTG
*
61873786 AATGAAAATATCATTAAGATTTT
1 AATGAAAATATCACTAAGATTTT
61873809 AATGAAAATATCACTAAGATTTT
1 AATGAAAATATCACTAAGATTTT
61873832 A
1 A
61873833 GATATTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (23 bp):
AATGAAAATATCACTAAGATTTT
Found at i:61878075 original size:18 final size:18
Alignment explanation
Indices: 61878052--61878087 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
61878042 CAATATTGTA
61878052 TTTATTATCTCTTATTAT
1 TTTATTATCTCTTATTAT
* *
61878070 TTTATTATTTTTTATTAT
1 TTTATTATCTCTTATTAT
61878088 AATTTTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTATCTCTTATTAT
Found at i:61878193 original size:38 final size:40
Alignment explanation
Indices: 61878150--61878229 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 40
61878140 AAGAAAGTTT
**
61878150 TGTTTAAAACTA-T-TTTTTTAGACTAATTCGAGTTTTAG
1 TGTTTAAAACTACTCTTTTTTAGACTAATTAAAGTTTTAG
61878188 TGTTTAAAACTACTTCTTTTTTAGACTAATTAAAGTTTTAG
1 TGTTTAAAACTAC-TCTTTTTTAGACTAATTAAAGTTTTAG
61878229 T
1 T
61878230 ATACTTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 12 0.32
40 1 0.03
41 24 0.65
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (40 bp):
TGTTTAAAACTACTCTTTTTTAGACTAATTAAAGTTTTAG
Found at i:61882146 original size:3 final size:3
Alignment explanation
Indices: 61882140--61882210 Score: 108
Period size: 3 Copynumber: 23.7 Consensus size: 3
61882130 GATGATGATG
61882140 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
**
61882188 ATA A-A AGTA ATA GCA ATA ATA AT
1 ATA ATA A-TA ATA ATA ATA ATA AT
61882211 GTAAATAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 58 0.94
4 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:61882300 original size:3 final size:3
Alignment explanation
Indices: 61882289--61882413 Score: 68
Period size: 3 Copynumber: 42.7 Consensus size: 3
61882279 TGATGATAGC
* * *
61882289 AAT AGT AAT AAT -AT AAT AAT AA- AGT AA- AA- AAT AAT AAT AAT ACGTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT
* * * * *
61882335 AAT AAA AAT AAT AAT AGT -AT ACT AAT AAT AAC AAT AAT AGA- AAGG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T
*
61882380 AAT GAT AA- AAT AAT AAAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
61882414 AGAATAGTGT
Statistics
Matches: 93, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
2 13 0.14
3 72 0.77
4 6 0.06
5 2 0.02
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:61882360 original size:23 final size:23
Alignment explanation
Indices: 61882315--61882375 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
61882305 TAATAAAGTA
61882315 AAAAATAATAATA-ATACGTTAAT
1 AAAAATAATAATAGATACG-TAAT
61882338 AAAAATAATAATAGTATAC-TAAT
1 AAAAATAATAATAG-ATACGTAAT
* *
61882361 AATAACAATAATAGA
1 AAAAATAATAATAGA
61882376 AAGGAATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 1 0.03
23 29 0.85
25 4 0.12
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (23 bp):
AAAAATAATAATAGATACGTAAT
Found at i:61883156 original size:46 final size:46
Alignment explanation
Indices: 61883096--61883360 Score: 316
Period size: 46 Copynumber: 6.0 Consensus size: 46
61883086 TTTAACGTGA
* * * * * *
61883096 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
61883142 TGCCATGGTATCTTTCAA-CATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
61883187 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
61883233 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
61883279 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
61883317 TACCATGGTATCTTTAAACAATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
61883361 AGAGCACACT
Statistics
Matches: 193, Mismatches: 16, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
38 30 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 7 0.04
45 37 0.19
46 113 0.59
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:61883296 original size:92 final size:90
Alignment explanation
Indices: 61883096--61883360 Score: 319
Period size: 91 Copynumber: 3.0 Consensus size: 90
61883086 TTTAACGTGA
* * * * * *
61883096 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAA-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA--TTCTATCAGGTTGCCATGGTATCTTTCAAC
** * * *
61883160 CATGGTCTTATTCTTTTCATGTCACGT
64 CATGGTCTTACACATTTCATATCAGGT
61883187 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TC-TATCAGGTTGCCATGGTATCTTTCAAC
61883252 CATGGTCTTACACATTTCATATCAGGT
64 CATGGTCTTACACATTTCATATCAGGT
* * *
61883279 TGCCATGGTATCTTTCAACCATGGTCTT--ACA--C-A-CAGGTTACCATGGTATCTTTAAACAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCTATCAGGTTGCCATGGTATCTTTCAACCA
61883338 TGGTCTTACACATTTCATATCAG
66 TGGTCTTACACATTTCATATCAG
61883361 AGAGCACACT
Statistics
Matches: 157, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
84 46 0.29
85 1 0.01
87 1 0.01
89 1 0.01
90 5 0.03
91 53 0.34
92 50 0.32
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (90 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTCTATCAGGTTGCCATGGTATCTTTCAACCA
TGGTCTTACACATTTCATATCAGGT
Found at i:61883325 original size:38 final size:38
Alignment explanation
Indices: 61883274--61883349 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
61883264 CATTTCATAT
* * *
61883274 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTACCATGGTATCTTTAAACAATGGTCTTACACA
61883312 CAGGTTACCATGGTATCTTTAAACAATGGTCTTACACA
1 CAGGTTACCATGGTATCTTTAAACAATGGTCTTACACA
61883350 TTTCATATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (38 bp):
CAGGTTACCATGGTATCTTTAAACAATGGTCTTACACA
Found at i:61885499 original size:11 final size:11
Alignment explanation
Indices: 61885483--61885530 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
61885473 CTTTACATAC
61885483 TAATAAAATAA
1 TAATAAAATAA
*
61885494 TAATAAAATATCT
1 TAATAAAATA--A
* *
61885507 TATTAAAATAT
1 TAATAAAATAA
61885518 TAATAAAATAA
1 TAATAAAATAA
61885529 TA
1 TA
61885531 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:61886187 original size:18 final size:16
Alignment explanation
Indices: 61886147--61886190 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
61886137 ATGAAGGTAT
*
61886147 AAAAAATAAGTAAAGA
1 AAAAAATAAGCAAAGA
*
61886163 AATAAATAAGCAACGAGA
1 AAAAAATAAGCAA--AGA
61886181 AAAAAATAAG
1 AAAAAATAAG
61886191 AATAATGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 11 0.48
18 12 0.52
ACGTcount: A:0.70, C:0.05, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAAATAAGCAAAGA
Found at i:61889605 original size:30 final size:30
Alignment explanation
Indices: 61889558--61889616 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
61889548 TTTACGAGCC
* *
61889558 TAGGGGCTAAATCGTAAATATGTGAAAGTT
1 TAGGGGCAAAATCGTAAATATGTAAAAGTT
*
61889588 TAGGGGTCAAAAT-GTAAATTTGTAAAAGT
1 TAGGGG-CAAAATCGTAAATATGTAAAAGT
61889617 ACAGTTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATCGTAAATATGTAAAAGTT
Found at i:61890140 original size:43 final size:43
Alignment explanation
Indices: 61890060--61890141 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
61890050 AGATATGTGG
*
61890060 CATCTGAGCTCGTTGAAAGGTTCGAGTTCATTATGGATGCAAA
1 CATCTGAGCTCGTTGAAAGGTTCGAGTTCATGATGGATGCAAA
* * *
61890103 CATCTGAGCTCGTTGAGAGGTTTGAGTTCATGGTGGATG
1 CATCTGAGCTCGTTGAAAGGTTCGAGTTCATGATGGATG
61890142 TGATTCATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (43 bp):
CATCTGAGCTCGTTGAAAGGTTCGAGTTCATGATGGATGCAAA
Done.