Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 131 of 228
Found at i:39168570 original size:27 final size:28
Alignment explanation
Indices: 39168531--39168584 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
39168521 CTTAAATGTG
*
39168531 AAGGGAGTTGCTAAGTGCTGATTCCCCC
1 AAGGGAGTTGCTAAGTGATGATTCCCCC
39168559 AAGGG-GTTGCTAAGTGATGATTCCCC
1 AAGGGAGTTGCTAAGTGATGATTCCCC
39168585 GACTCATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (28 bp):
AAGGGAGTTGCTAAGTGATGATTCCCCC
Found at i:39168605 original size:102 final size:102
Alignment explanation
Indices: 39168429--39168761 Score: 558
Period size: 102 Copynumber: 3.3 Consensus size: 102
39168419 AGTGAATAAA
* * *
39168429 AAGGGGGTTGCTAAGTGCTGATTCTCCCGAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
39168494 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
* * * *
39168531 AAGGGAGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGATGATTCCCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
39168596 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
* *
39168633 AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGAGGTTGCTAAGTGCTGATTCCCCGAATTATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
**
39168698 GGTTGCTAAGTGCTGAACCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
*
39168735 AAAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
39168762 GACTCATTAG
Statistics
Matches: 216, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 216 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
Found at i:39171035 original size:17 final size:17
Alignment explanation
Indices: 39171013--39171052 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
39171003 GTGATTCAGC
*
39171013 CGTGTGAGGAACATGAT
1 CGTGTGAGGAACACGAT
* *
39171030 CGTGTGAGGCACACGGT
1 CGTGTGAGGAACACGAT
39171047 CGTGTG
1 CGTGTG
39171053 TCATCTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.17, G:0.40, T:0.23
Consensus pattern (17 bp):
CGTGTGAGGAACACGAT
Found at i:39175349 original size:51 final size:51
Alignment explanation
Indices: 39175273--39175456 Score: 185
Period size: 51 Copynumber: 3.6 Consensus size: 51
39175263 CCGGTTCACA
* * * * *
39175273 TAGTAGCCTACGCATAGTACTACACATGTGACGATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACGAATATCATCTGATACACG
* ** * * *
39175324 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCT-ATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CGAATATCATCTGATACACG
* * * *
39175375 TAGTAGCCTGCACATAGTACTACACATGCGAC--CTATCATTTTGCTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACGAATATCA-TCTGATACACG
*
39175425 TAGTAGCCTGTACATAGTACTACACATGTGAC
1 TAGTAGCCTGCACATAGTACTACACATGTGAC
39175457 CTAGCAACTT
Statistics
Matches: 109, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 38 0.35
51 65 0.60
52 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACGAATATCATCTGATACACG
Found at i:39177038 original size:41 final size:41
Alignment explanation
Indices: 39176992--39177097 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
39176982 ACCAGAATGT
* *
39176992 AAACAGGGGCACGTATGTGCTATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTAC
* *
39177033 AAACAGGGGCACGCATGTGCAATTCAAGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTAC
*
39177074 AAACAGGGGCACGTATGTGAAATT
1 AAACAGGGGCACGTATGTGCAATT
39177098 TAGGGAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTAC
Found at i:39177041 original size:20 final size:19
Alignment explanation
Indices: 39177016--39177082 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
39177006 ATGTGCTATT
39177016 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACC-AAGTACAAA
* * * *
39177036 CAGGGGCACGCATGTGCAATT
1 CAGGGGTAC-CAAGTACAA-A
*
39177057 CAAGGGTACCGAAGTACAAA
1 CAGGGGTACC-AAGTACAAA
39177077 CAGGGG
1 CAGGGG
39177083 CACGTATGTG
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
20 20 0.59
21 14 0.41
ACGTcount: A:0.36, C:0.21, G:0.31, T:0.12
Consensus pattern (19 bp):
CAGGGGTACCAAGTACAAA
Found at i:39180825 original size:40 final size:41
Alignment explanation
Indices: 39180781--39180894 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 41
39180771 GCGTTTGGAT
39180781 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCG-CTTTAG
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAG
* * * * * * *
39180821 AAAAAACACCGCTAAAGATCCAGTATTAGCAGTGTTTTTAG
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAG
* *
39180862 -GAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGT
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGT
39180895 TTTCCAAAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
39 11 0.19
40 43 0.73
41 5 0.08
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAG
Found at i:39181005 original size:41 final size:40
Alignment explanation
Indices: 39180956--39181305 Score: 475
Period size: 41 Copynumber: 8.5 Consensus size: 40
39180946 TTTCGGGGCG
*
39180956 TTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGGCT
1 TTAGCGGCGTTTTTAAA-AAGCGCCGCTAATGCTCGGGTCT
* * *
39180997 TTAGCGGCGTTTTTGAAGAAGCGCCTCTAATGCTCTGGTCT
1 TTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCGGGTCT
* *
39181038 TTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCGGGTCT
1 TTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCGGGTCT
* *
39181079 TTAGCGGAGTTTTTGAAGAAGCGCCGCTAATGCTCGGGTCTT
1 TTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCGGGTC-T
*
39181121 TTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGGTCT
1 TTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCGGGTCT
*
39181162 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGTCT
1 TTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCGGGTCT
*
39181203 TTAGCGGCGTTTTTAGAAAAGCGCCGCTAGTGCTCGGGTCT
1 TTAGCGGCGTTTTTA-AAAAGCGCCGCTAATGCTCGGGTCT
* * *
39181244 TTAGCGGCGTTTTTTAAAAAGCTCCGCTAATGCTCAGGCCT
1 TTAGCGGCG-TTTTTAAAAAGCGCCGCTAATGCTCGGGTCT
*
39181285 TTAGTGGCGTTTTTGAAAAAG
1 TTAGCGGCGTTTTT-AAAAAG
39181306 TGCTACAAAA
Statistics
Matches: 283, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
40 6 0.02
41 231 0.82
42 46 0.16
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (40 bp):
TTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCGGGTCT
Found at i:39181093 original size:82 final size:82
Alignment explanation
Indices: 39180956--39181301 Score: 523
Period size: 82 Copynumber: 4.2 Consensus size: 82
39180946 TTTCGGGGCG
* * *
39180956 TTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAGAAGCGC
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGC
* *
39181021 CTCTAATGCTCTGGTCT
66 CGCTAATGCTCAGGTCT
* * *
39181038 TTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCGGAGTTTTTGAAGAAGCGC
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGC
*
39181103 CGCTAATGCTCGGGTCTT
66 CGCTAATGCTCAGGTC-T
* *
39181121 TTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGC
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGC
39181186 CGCTAATGCTCAGGTCT
66 CGCTAATGCTCAGGTCT
* * *
39181203 TTAGCGGCGTTTTTAGAA-AAGCGCCGCTAGTGCTCGGGTCTTTAGCGGCGTTTTTTAAAAAGCT
1 TTAGCGGCGTTTTT-GAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGAAAAAGCG
*
39181267 CCGCTAATGCTCAGGCCT
65 CCGCTAATGCTCAGGTCT
*
39181285 TTAGTGGCGTTTTTGAA
1 TTAGCGGCGTTTTTGAA
39181302 AAAGTGCTAC
Statistics
Matches: 246, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
81 3 0.01
82 162 0.66
83 81 0.33
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (82 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGC
CGCTAATGCTCAGGTCT
Found at i:39181228 original size:165 final size:164
Alignment explanation
Indices: 39180956--39181305 Score: 533
Period size: 165 Copynumber: 2.1 Consensus size: 164
39180946 TTTCGGGGCG
*
39180956 TTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAGAAGCG
1 TTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCG
* *
39181020 CCTCTAATGCTCTGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCG
65 CCGCTAATGCTCAGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCG
* * *
39181085 GAGTTTTTGAAGAAGCGCCGCTAATGCTCGGGTCTT
130 GAGTTTTTGAAAAAGCGCCGCTAATGCTCAGG-CCT
* *
39181121 TTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGC
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGC
* *
39181186 CGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGAA-AAGCGCCGCTAGTGCTCGGGTCTTTAGCG
66 CGCTAATGCTCAGGTCTTTAGCGGCATTTTT-GAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCG
* * *
39181250 GCGTTTTTTAAAAAGCTCCGCTAATGCTCAGGCCT
130 GAGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCCT
*
39181285 TTAGTGGCGTTTTTGAAAAAG
1 TTAGCGGCGTTTTTGAAAAAG
39181306 TGCTACAAAA
Statistics
Matches: 168, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
164 21 0.12
165 141 0.84
166 6 0.04
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (164 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGC
CGCTAATGCTCAGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCGG
AGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCCT
Found at i:39182532 original size:15 final size:15
Alignment explanation
Indices: 39182512--39182550 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
39182502 ATTATAGTTC
39182512 AGGGATTATGGGTTT
1 AGGGATTATGGGTTT
39182527 AGGGATTATGGGTTT
1 AGGGATTATGGGTTT
39182542 AGGGATTAT
1 AGGGATTAT
39182551 TGTTTATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (15 bp):
AGGGATTATGGGTTT
Found at i:39182650 original size:7 final size:7
Alignment explanation
Indices: 39182521--39182679 Score: 70
Period size: 7 Copynumber: 22.0 Consensus size: 7
39182511 CAGGGATTAT
39182521 GGGTTTA
1 GGGTTTA
*
39182528 GGGATTA
1 GGGTTTA
39182535 TGGGTTTA
1 -GGGTTTA
*
39182543 GGGATTA
1 GGGTTTA
**
39182550 TTGTTTA
1 GGGTTTA
**
39182557 TAGTTTA
1 GGGTTTA
*
39182564 CGGTTTAA
1 GGGTTT-A
39182572 GGG-TT-
1 GGGTTTA
39182577 GGAGTTTA
1 GG-GTTTA
**
39182585 AAGTTTA
1 GGGTTTA
39182592 GGGGTTTAA
1 -GGGTTT-A
39182601 GGGTTTA
1 GGGTTTA
*
39182608 GGATTTA
1 GGGTTTA
*
39182615 GGGGTTA
1 GGGTTTA
39182622 GGTGTTTA
1 GG-GTTTA
* *
39182630 TGTTTTA
1 GGGTTTA
* *
39182637 TGATTTA
1 GGGTTTA
39182644 GGGTTTA
1 GGGTTTA
* *
39182651 GGGGATAA
1 -GGGTTTA
* *
39182659 AGGTTAA
1 GGGTTTA
39182666 GGGTTTA
1 GGGTTTA
39182673 GGGTTTA
1 GGGTTTA
39182680 AATTAATTAG
Statistics
Matches: 114, Mismatches: 29, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
5 2 0.02
6 1 0.01
7 81 0.71
8 29 0.25
9 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:39183162 original size:21 final size:22
Alignment explanation
Indices: 39183137--39183178 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
39183127 TGCCTTTTTT
39183137 CCCTAAAT-TTCCCCCTAAAAC
1 CCCTAAATCTTCCCCCTAAAAC
* *
39183158 CCCTAATTCTTTCCCCTAAAA
1 CCCTAAATCTTCCCCCTAAAA
39183179 TTTGTATCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.31, C:0.40, G:0.00, T:0.29
Consensus pattern (22 bp):
CCCTAAATCTTCCCCCTAAAAC
Found at i:39186780 original size:43 final size:43
Alignment explanation
Indices: 39186720--39186810 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
39186710 TTTTGAGTTC
* * * *
39186720 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
39186762 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
39186805 ATTACC
1 ATTACC
39186811 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:39186924 original size:13 final size:14
Alignment explanation
Indices: 39186908--39186938 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
39186898 AATTTATTAT
39186908 TTTAAATTC-TAAA
1 TTTAAATTCATAAA
39186921 TTTAAATTCATAAA
1 TTTAAATTCATAAA
39186935 TTTA
1 TTTA
39186939 TATTTATATT
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:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAAATTCATAAA
Found at i:39187037 original size:24 final size:23
Alignment explanation
Indices: 39187000--39187052 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
39186990 TAATAATTTT
*
39187000 TATTTATCCTTAAAACATAATATAA
1 TATTTATCCATAAAA-ATAA-ATAA
*
39187025 TATTTAT-CATAAAAATAAATAT
1 TATTTATCCATAAAAATAAATAA
39187047 TATTTA
1 TATTTA
39187053 AAAAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 4 0.15
24 6 0.23
25 7 0.27
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (23 bp):
TATTTATCCATAAAAATAAATAA
Found at i:39187300 original size:42 final size:43
Alignment explanation
Indices: 39187123--39187302 Score: 152
Period size: 43 Copynumber: 4.2 Consensus size: 43
39187113 AGGCCTATTT
* * * *
39187123 TATAGCGGCGTTTGTACGAAAAAGTGTCGCTAAATATC-TGCTC
1 TATAGCGGCGTTTGTA-GAAAAAGCGCCGCTAAAGATCATGGTC
* * * * **
39187166 TATAGTGGCATTTGT-GAGAAAATCACCGCTAAA-AGTCATGACC
1 TATAGCGGCGTTTGTAGA-AAAAGCGCCGCTAAAGA-TCATGGTC
* * * * *
39187209 TATAGCGGCGTTTGTGGGAGAAGCGCTGCTAAAGGTCATGGTC
1 TATAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGATCATGGTC
*
39187252 TATAGCGGCGTTTGT-GAAAAAACGCCGCTAAAGATCATGGTC
1 TATAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGATCATGGTC
*
39187294 TTTAGCGGC
1 TATAGCGGC
39187303 ATTTTTTTAT
Statistics
Matches: 108, Mismatches: 24, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
41 3 0.03
42 43 0.40
43 61 0.56
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (43 bp):
TATAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGATCATGGTC
Found at i:39187396 original size:22 final size:22
Alignment explanation
Indices: 39187371--39187413 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
39187361 TTGCGGCGCT
*
39187371 AAAAAGTGTCGCTAAAGGCCTA
1 AAAAAGTGCCGCTAAAGGCCTA
*
39187393 AAAAAGTGCCTCTAAAGGCCT
1 AAAAAGTGCCGCTAAAGGCCT
39187414 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (22 bp):
AAAAAGTGCCGCTAAAGGCCTA
Found at i:39190577 original size:69 final size:69
Alignment explanation
Indices: 39190376--39190578 Score: 199
Period size: 69 Copynumber: 2.9 Consensus size: 69
39190366 CAAATCCTAG
* ** * * * * *
39190376 CTGTCATATTAAGGCTTACAAGTGAAGAGCCGCAATCTTCAACACAGTTAACGAGAGTAAAGCTC
1 CTGTCATATGAAGGCTCGCAGGAGAAGAGCCGCAACCTTCAACATAGTTAGCGAGAGTAAAGCTC
39190441 CCAA
66 CCAA
* * * * * * * * *
39190445 CTGTTATATGAAGGCTTGCAGGCGAAAAACCACAACCTTCAACTTAGTTAGCAAGAGCAAAGCTC
1 CTGTCATATGAAGGCTCGCAGGAGAAGAGCCGCAACCTTCAACATAGTTAGCGAGAGTAAAGCTC
39190510 CCAA
66 CCAA
** * * * *
39190514 CTGTCATATTTAGGCTCGTAGGAGAAGAGCCGCAACCTCCAACATAGTTAGTGAGAGTGAAGCTC
1 CTGTCATATGAAGGCTCGCAGGAGAAGAGCCGCAACCTTCAACATAGTTAGCGAGAGTAAAGCTC
39190579 TTAGTTGTAG
Statistics
Matches: 105, Mismatches: 29, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
69 105 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (69 bp):
CTGTCATATGAAGGCTCGCAGGAGAAGAGCCGCAACCTTCAACATAGTTAGCGAGAGTAAAGCTC
CCAA
Found at i:39190746 original size:59 final size:59
Alignment explanation
Indices: 39190649--39191007 Score: 362
Period size: 59 Copynumber: 6.1 Consensus size: 59
39190639 ATTAAAAAAT
* * *
39190649 CCCAGCTATGCTACCTTTCAAAATTTTCTTAAGTATAAAATAGCTCGCGGAGTAACATC
1 CCCAACTATGTTATCTTTCAAAATTTTCTTAAGTATAAAATAGCTCGCGGAGTAACATC
* *
39190708 CCCAACTATGTTATCTTTCAAAATTTTCTTAAGTATAAAATAGCTCCCGGAGTAACATT
1 CCCAACTATGTTATCTTTCAAAATTTTCTTAAGTATAAAATAGCTCGCGGAGTAACATC
* * ** * * * * *
39190767 ACTAGTTGTGTTATCTTTTAAAAATTCCTTAAGTATAAAATAGCTCGCGAAGTAACATC
1 CCCAACTATGTTATCTTTCAAAATTTTCTTAAGTATAAAATAGCTCGCGGAGTAACATC
* * *
39190826 CCCAACTATGTTATCTTTCAAAATTTTCTTCAA-TATAAAACAACTCACGGAGTAACATC
1 CCCAACTATGTTATCTTTCAAAATTTTCTT-AAGTATAAAATAGCTCGCGGAGTAACATC
* * * * * * * * * *
39190885 CCTAGCTGTGTTATATTTCAAAATTTTCTTAAGTATGAAACAGCTTGCGAATTCACATC
1 CCCAACTATGTTATCTTTCAAAATTTTCTTAAGTATAAAATAGCTCGCGGAGTAACATC
* * * * * * * *
39190944 CTCAA-TTTATTATCTATGCAAGATTTTTCTGAAGTATAAAATAGCTCGCGGATTAACATT
1 CCCAACTATGTTATCT-TTCAA-AATTTTCTTAAGTATAAAATAGCTCGCGGAGTAACATC
39191004 CCCA
1 CCCA
39191008 GCTAAAGATT
Statistics
Matches: 241, Mismatches: 55, Indels: 7
0.80 0.18 0.02
Matches are distributed among these distances:
58 9 0.04
59 197 0.82
60 35 0.15
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.35
Consensus pattern (59 bp):
CCCAACTATGTTATCTTTCAAAATTTTCTTAAGTATAAAATAGCTCGCGGAGTAACATC
Found at i:39192689 original size:18 final size:19
Alignment explanation
Indices: 39192649--39192694 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
39192639 TTGTCCAGAT
*
39192649 TTTAAA-TAAATTAATTAA
1 TTTAAACTAAATTAACTAA
*
39192667 CTTAAACTAAA-TAACTAA
1 TTTAAACTAAATTAACTAA
39192685 TTT-AACTAAA
1 TTTAAACTAAA
39192695 AACAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 7 0.29
18 13 0.54
19 4 0.17
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
TTTAAACTAAATTAACTAA
Found at i:39192784 original size:10 final size:11
Alignment explanation
Indices: 39192758--39192786 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
39192748 AAACGAGCTC
39192758 ATTGAGCTAAG
1 ATTGAGCTAAG
39192769 ATTGAGCTAA-
1 ATTGAGCTAAG
39192779 ATTGAGCT
1 ATTGAGCT
39192787 CAACCAGCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (11 bp):
ATTGAGCTAAG
Found at i:39194701 original size:9 final size:10
Alignment explanation
Indices: 39194678--39194704 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
39194668 TACAACTTTT
39194678 TTTTTTACGA
1 TTTTTTACGA
39194688 TTTTTTACGA
1 TTTTTTACGA
39194698 TTTTTTA
1 TTTTTTA
39194705 TAACGAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (10 bp):
TTTTTTACGA
Found at i:39196112 original size:36 final size:39
Alignment explanation
Indices: 39196035--39196112 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 39
39196025 CACCTTGTAA
*
39196035 TAATTTCAGACATATTTAAAAAACACAATTAATTAAGTATT
1 TAATTTCAGACATAATT-AAAAACAC-ATTAATTAAGTATT
*
39196076 TAATTT-AGACATAATT-AAAACAC-TTAATTAATTATT
1 TAATTTCAGACATAATTAAAAACACATTAATTAAGTATT
39196112 T
1 T
39196113 GTCCAGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
38 7 0.20
40 9 0.26
41 6 0.17
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (39 bp):
TAATTTCAGACATAATTAAAAACACATTAATTAAGTATT
Found at i:39196161 original size:18 final size:19
Alignment explanation
Indices: 39196121--39196166 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
39196111 TTGTCCAGAT
*
39196121 TTTAAAC-AAATTAATTAA
1 TTTAAACTAAATTAACTAA
*
39196139 ATTAAACTAAA-TAACTAA
1 TTTAAACTAAATTAACTAA
39196157 TTT-AACTAAA
1 TTTAAACTAAA
39196167 AGAAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 7 0.29
18 14 0.58
19 3 0.12
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAACTAAATTAACTAA
Found at i:39196238 original size:20 final size:21
Alignment explanation
Indices: 39196213--39196257 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
39196203 AACTAAAGTA
*
39196213 AGCTAAAAATGAGCT-CATTG
1 AGCTAAAAATGAGCTAAATTG
* *
39196233 AGCTAAGATTGAGCTAAATTG
1 AGCTAAAAATGAGCTAAATTG
39196254 AGCT
1 AGCT
39196258 CAACCAGCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (21 bp):
AGCTAAAAATGAGCTAAATTG
Found at i:39196255 original size:10 final size:11
Alignment explanation
Indices: 39196229--39196257 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
39196219 AAATGAGCTC
39196229 ATTGAGCTAAG
1 ATTGAGCTAAG
39196240 ATTGAGCTAA-
1 ATTGAGCTAAG
39196250 ATTGAGCT
1 ATTGAGCT
39196258 CAACCAGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (11 bp):
ATTGAGCTAAG
Found at i:39203050 original size:19 final size:20
Alignment explanation
Indices: 39203026--39203063 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
39203016 TGAGCTGATT
39203026 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAACTGAGCTAAG
39203045 GGAGCTGAAACTGAGCTAA
1 GGAGCTGAAACTGAGCTAA
39203064 AGTCAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.13, G:0.34, T:0.16
Consensus pattern (20 bp):
GGAGCTGAAACTGAGCTAAG
Found at i:39205393 original size:21 final size:21
Alignment explanation
Indices: 39205343--39205385 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
39205333 AAAGTTTTGT
*
39205343 TGAAAAATGTTAATGTTTCGA
1 TGAAAAATTTTAATGTTTCGA
39205364 TGAAAAATTTTAATGTTTCGA
1 TGAAAAATTTTAATGTTTCGA
39205385 T
1 T
39205386 AATTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (21 bp):
TGAAAAATTTTAATGTTTCGA
Found at i:39209286 original size:37 final size:37
Alignment explanation
Indices: 39209236--39209314 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39209226 TTATTACGAA
* * *
39209236 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39209273 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39209310 GTCTT
1 GTCTT
39209315 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39209702 original size:49 final size:47
Alignment explanation
Indices: 39209433--39210025 Score: 915
Period size: 47 Copynumber: 12.7 Consensus size: 47
39209423 CCCTTCGGGA
* * * * * *
39209433 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39209480 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39209527 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39209574 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39209621 CTTATCACAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39209667 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39209716 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39209765 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39209812 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39209861 CTTATCACATATATACACTTTCACATTCAT--CA----CC-----GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39209897 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39209944 CTTATCACATATATAGACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39209991 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
39210026 AGAATCCTAA
Statistics
Matches: 511, Mismatches: 18, Indels: 34
0.91 0.03 0.06
Matches are distributed among these distances:
36 32 0.06
38 2 0.00
41 2 0.00
42 2 0.00
45 2 0.00
46 44 0.09
47 286 0.56
48 2 0.00
49 139 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39209824 original size:96 final size:96
Alignment explanation
Indices: 39209433--39210004 Score: 896
Period size: 96 Copynumber: 6.1 Consensus size: 96
39209423 CCCTTCGGGA
* * * * * * *
39209433 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39209496 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
39209527 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39209590 ACTTTCACATTCATCACATCGACCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
39209621 CTTATCAC--AT-TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
39209683 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
39209716 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39209781 ACTTTCACATTCATCACATCGGCCATTGGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
39209812 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39209877 ACTTTCACATTCAT--CA----CC-----GC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
39209897 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAG
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39209960 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
39209991 CTTATCACATATAT
1 CTTATCACATATAT
39210005 GCATGTTCAC
Statistics
Matches: 447, Mismatches: 11, Indels: 38
0.90 0.02 0.08
Matches are distributed among these distances:
83 68 0.15
85 12 0.03
89 2 0.00
90 2 0.00
93 45 0.10
94 105 0.23
95 46 0.10
96 121 0.27
97 2 0.00
98 44 0.10
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39209886 original size:16 final size:16
Alignment explanation
Indices: 39209865--39209922 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
39209855 TTAGGCCTTA
39209865 TCACATATATACACTT
1 TCACATATATACACTT
*
39209881 TCACAT-TCATCACCGCCTT
1 TCACATAT-AT-A-C-ACTT
39209900 ATCACATATATACACTT
1 -TCACATATATACACTT
39209917 TCACAT
1 TCACAT
39209923 TCATCACATC
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 1 0.03
16 14 0.41
17 4 0.12
18 2 0.06
19 4 0.12
20 8 0.24
21 1 0.03
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.34
Consensus pattern (16 bp):
TCACATATATACACTT
Found at i:39209906 original size:36 final size:36
Alignment explanation
Indices: 39209859--39209929 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
39209849 CGGCCATTAG
39209859 GCCTTATCACATATATACACTTTCACATTCATCACC
1 GCCTTATCACATATATACACTTTCACATTCATCACC
39209895 GCCTTATCACATATATACACTTTCACATTCATCAC
1 GCCTTATCACATATATACACTTTCACATTCATCAC
39209930 ATCGGCCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.32, G:0.03, T:0.34
Consensus pattern (36 bp):
GCCTTATCACATATATACACTTTCACATTCATCACC
Found at i:39209921 original size:83 final size:84
Alignment explanation
Indices: 39209810--39209976 Score: 309
Period size: 83 Copynumber: 2.0 Consensus size: 84
39209800 CGGCCATTGG
39209810 GCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 GCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
39209875 ACACTTTCACATTCATCACC
65 ACACTTTCACATTCATCACC
39209895 GCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
39209959 GACTTTCACATTCATCAC
66 CACTTTCACATTCATCAC
39209977 ATCGGCCATT
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
83 71 0.88
85 10 0.12
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (84 bp):
GCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
CACTTTCACATTCATCACC
Found at i:39215756 original size:40 final size:40
Alignment explanation
Indices: 39215711--39215945 Score: 176
Period size: 40 Copynumber: 5.9 Consensus size: 40
39215701 CGAATACACG
* * * *
39215711 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * ** *
39215751 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
39215791 TCACTAGCACGAATGCTCTTCGGAACGTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
39215831 TCACTAGCATGAATGC-CTTTCGGGACTTAGCCCGGATTTA
1 TCACCAGCACGAATGCTC-TTCGGGACTTAGCCCGGATATA
* * * * *
39215871 GTAACTC--CACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT-A
* *
39215911 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
39215946 CATCATTCGA
Statistics
Matches: 153, Mismatches: 36, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
39 23 0.15
40 124 0.81
41 6 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:39216343 original size:43 final size:43
Alignment explanation
Indices: 39216282--39216407 Score: 245
Period size: 43 Copynumber: 3.0 Consensus size: 43
39216272 TGCATTTCAA
39216282 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
39216325 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
39216368 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAAC-CTTA
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTA
39216408 CCTTATTTGA
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
42 4 0.05
43 79 0.95
ACGTcount: A:0.28, C:0.36, G:0.14, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:39222182 original size:47 final size:47
Alignment explanation
Indices: 39222129--39222575 Score: 696
Period size: 47 Copynumber: 9.5 Consensus size: 47
39222119 ATTCAGCCAA
39222129 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
39222176 GAAAGTGTATATGTGTGATAAGGGCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
39222223 GAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
39222270 GAAAGTGTATATATATGTGACAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
39222319 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
39222366 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
39222413 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
39222460 GAAAGTGTATATATGTGATAAGGCCTAGTGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
39222507 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
39222554 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
39222576 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 329 0.88
49 44 0.12
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:39222452 original size:190 final size:188
Alignment explanation
Indices: 39222129--39222575 Score: 723
Period size: 190 Copynumber: 2.4 Consensus size: 188
39222119 ATTCAGCCAA
39222129 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
39222194 TAAGGGCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGAT
66 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
39222259 GTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAATAGCCGATGTGATGAATGT
131 GTGATGAATGTGAAAGTG--TATATATGTGACAAGGCCTAATAGCCGATGTGATGAATGT
* *
39222319 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
39222384 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
66 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
39222449 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAGTGGCCGATGTGATGAATGT
131 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * * * **
39222507 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
39222572 TAAG
66 TAAG
39222576 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
188 94 0.39
190 144 0.61
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:39222750 original size:37 final size:37
Alignment explanation
Indices: 39222694--39222772 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
39222684 CCGAGCTCTA
* *
39222694 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
39222731 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39222768 AAGAC
1 AAGAC
39222773 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39224687 original size:43 final size:43
Alignment explanation
Indices: 39224626--39224728 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
39224616 TTAGTTTTCA
39224626 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
39224669 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
39224712 GCACTAAGTCTGCGGGC
1 GCACTAAGTGTGCGGGC
39224729 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:39224743 original size:29 final size:29
Alignment explanation
Indices: 39224710--39224783 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
39224700 GTTGTGAGAT
* * *
39224710 TGGCACTAAGTCTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
39224739 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39224768 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39224784 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39225190 original size:40 final size:40
Alignment explanation
Indices: 39225094--39225274 Score: 181
Period size: 40 Copynumber: 4.5 Consensus size: 40
39225084 GAATGATGTT
* *
39225094 CGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATC
* * * * * *
39225134 CGGACTAAGAT-TCGAAG-GCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATATC
* *
39225174 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATC
*
39225214 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATC
* *
39225254 CGTGCTAAATCCCGAAGAGCA
1 CGGGCTAAGTCCCGAAGAGCA
39225275 ATCATGCTGG
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 96 0.83
41 19 0.16
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATC
Found at i:39225230 original size:80 final size:81
Alignment explanation
Indices: 39225094--39225288 Score: 211
Period size: 80 Copynumber: 2.4 Consensus size: 81
39225084 GAATGATGTT
**
39225094 CGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATTCGAAG-GCATT
1 CGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATTCGAAGAGCATT
* *
39225156 GGTGCGAGTTACTAAATC
65 CGTGCGAGTGA-TAAATC
** *
39225174 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAG-TTCCGAAGAGCATT
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATT-CGAAGAGCATT
* *
39225237 CGTGCTAGTGATATATC
65 CGTGCGAGTGATAAATC
* * * *
39225254 CGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
39225289 GTGTATTCGG
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
79 2 0.02
80 69 0.71
81 20 0.21
82 6 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATTCGAAGAGCATTC
GTGCGAGTGATAAATC
Found at i:39228411 original size:27 final size:27
Alignment explanation
Indices: 39228381--39228558 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
39228371 ATATTGAGTC
* * *
39228381 CGCACACTCAGTGATATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
39228408 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
39228435 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
39228463 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
39228490 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
39228517 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
39228544 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39228559 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39228522 original size:82 final size:81
Alignment explanation
Indices: 39228402--39228557 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39228392 TGATATATAA
* *
39228402 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39228467 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39228484 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39228548 CACTTAGTGC
65 CACTTAGTGC
39228558 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39233088 original size:27 final size:27
Alignment explanation
Indices: 39233058--39233234 Score: 185
Period size: 27 Copynumber: 6.5 Consensus size: 27
39233048 AAATTGTACA
39233058 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** * *
39233085 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
39233112 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
39233139 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* *
39233167 GCACTAAGTGTGCGATTTGATTACGTAT
1 GCACTAAGTGTGCGATTTGACTATGT-T
* * * *
39233195 -CACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
39233221 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
39233235 GACTCAATAT
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:39233171 original size:82 final size:81
Alignment explanation
Indices: 39233058--39233213 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39233048 AAATTGTACA
* *
39233058 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAT-CACTAAGTG
39233122 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39233139 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTATCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTATCACTAAGTG
*
39233204 TGCGAGTTGA
65 TGCGAATTGA
39233214 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 50 0.75
83 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTATCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39233225 original size:82 final size:81
Alignment explanation
Indices: 39233054--39233234 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
39233044 GATTAAATTG
* *
39233054 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39233119 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39233135 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAT-CACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-ATGCACT
* **
39233199 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39233217 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39233235 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 17 0.20
82 65 0.77
83 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39243470 original size:17 final size:17
Alignment explanation
Indices: 39243438--39243475 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
39243428 TTCCATTCTA
39243438 ATTTGACCCAAAAAATTT
1 ATTTGACCCAAAAAA-TT
*
39243456 ATTTTACCC-AAAAATT
1 ATTTGACCCAAAAAATT
39243472 ATTT
1 ATTT
39243476 AAAACTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 5 0.26
18 8 0.42
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (17 bp):
ATTTGACCCAAAAAATT
Found at i:39277391 original size:17 final size:17
Alignment explanation
Indices: 39277369--39277404 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39277359 TTCGAAGTTG
* *
39277369 AATAAATGACTAAAATA
1 AATAAATAAATAAAATA
39277386 AATAAATAAATAAAATA
1 AATAAATAAATAAAATA
39277403 AA
1 AA
39277405 AATTGAGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (17 bp):
AATAAATAAATAAAATA
Found at i:39279259 original size:40 final size:40
Alignment explanation
Indices: 39279215--39279438 Score: 366
Period size: 40 Copynumber: 5.7 Consensus size: 40
39279205 GCAAACACAT
* * *
39279215 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
39279255 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39279295 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
39279335 TTGCCTTC-GGTCATAGCCCGGA-ATATCAACTCGC-T-A
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
39279371 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39279411 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
39279439 TCCAATGCTC
Statistics
Matches: 175, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
36 9 0.05
37 14 0.08
38 24 0.14
39 14 0.08
40 114 0.65
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:39279388 original size:116 final size:120
Alignment explanation
Indices: 39279215--39279438 Score: 375
Period size: 116 Copynumber: 1.9 Consensus size: 120
39279205 GCAAACACAT
* *
39279215 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
39279280 TATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
66 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
39279335 TTGCCTTC-GGTCATAGCCCGGA-ATATCAACTCGC-T-ATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
39279396 TATCAACTCGCGTAATTGCCTTCGGGTCTTAGCCCGGATATAT
66 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
39279439 TCCAATGCTC
Statistics
Matches: 99, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
116 67 0.68
117 1 0.01
118 11 0.11
119 12 0.12
120 8 0.08
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (120 bp):
TTGCCTTCGGGTCATAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:39288084 original size:39 final size:40
Alignment explanation
Indices: 39287898--39288122 Score: 384
Period size: 40 Copynumber: 5.7 Consensus size: 40
39287888 GCAAACACAT
* * *
39287898 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
39287938 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39287978 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
39288018 TTGCCTTCGGGTCATAGCCCGGA-ATATCAACTCGC-TAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39288056 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGC-TAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39288095 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
39288123 TCCAATGCTC
Statistics
Matches: 179, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
38 25 0.14
39 55 0.31
40 99 0.55
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:39291182 original size:20 final size:20
Alignment explanation
Indices: 39291157--39291223 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
39291147 ATGTGTAATT
39291157 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* ** * *
39291177 CAGGGGCACATAAGTGCAATT
1 CAGGGGTACCGAAGTACAA-A
*
39291198 CAGGGGTACCGAAGCACAAA
1 CAGGGGTACCGAAGTACAAA
*
39291218 TAGGGG
1 CAGGGG
39291224 CACGTAAGTG
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 20 0.59
21 14 0.41
ACGTcount: A:0.36, C:0.19, G:0.33, T:0.12
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:39291198 original size:41 final size:41
Alignment explanation
Indices: 39291126--39291319 Score: 214
Period size: 41 Copynumber: 4.8 Consensus size: 41
39291116 TAATTCTTGT
* * *
39291126 AAGTACAAAATAGAGGCACATATGTGTAATTCAGGGGTACCG
1 AAGTAC-AAATAGGGGCACATAAGTGCAATTCAGGGGTACCG
*
39291168 AAGTACAAACAGGGGCACATAAGTGCAATTCAGGGGTACCG
1 AAGTACAAATAGGGGCACATAAGTGCAATTCAGGGGTACCG
* * * * * *
39291209 AAGCACAAATAGGGGCACGTAAGTGTAATTTAGAGGTA-CA
1 AAGTACAAATAGGGGCACATAAGTGCAATTCAGGGGTACCG
* * *
39291249 AAGTACAAATAGGGGCACACAAGTGCAATTCCA-GTGT-GCG
1 AAGTACAAATAGGGGCACATAAGTGCAATT-CAGGGGTACCG
* *
39291289 AAGTACAAACAGGGGCACGTAAGTGCAATTC
1 AAGTACAAATAGGGGCACATAAGTGCAATTC
39291320 CTCATTAATT
Statistics
Matches: 128, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 57 0.45
41 64 0.50
42 6 0.05
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (41 bp):
AAGTACAAATAGGGGCACATAAGTGCAATTCAGGGGTACCG
Found at i:39302165 original size:40 final size:40
Alignment explanation
Indices: 39302121--39302250 Score: 233
Period size: 40 Copynumber: 3.2 Consensus size: 40
39302111 GCAAACACAT
* *
39302121 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
39302161 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
*
39302201 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
39302241 TTGCCTTCGG
1 TTGCCTTCGG
39302251 AATATCAACT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
Found at i:39302345 original size:103 final size:103
Alignment explanation
Indices: 39302162--39302353 Score: 357
Period size: 103 Copynumber: 1.9 Consensus size: 103
39302152 CTTGCATAAT
*
39302162 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATAT
39302227 ATCAACTCGCATAATTGCCTTCGGAATATCAACTCTAA
66 ATCAACTCGCATAATTGCCTTCGGAATATCAACTCTAA
*
39302265 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAATTGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATAT
*
39302330 ATCAACTCGCGTAATTGCCTTCGG
66 ATCAACTCGCATAATTGCCTTCGG
39302354 TCTTAGCCCG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 86 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (103 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATAT
ATCAACTCGCATAATTGCCTTCGGAATATCAACTCTAA
Found at i:39302367 original size:39 final size:40
Alignment explanation
Indices: 39302265--39302370 Score: 205
Period size: 40 Copynumber: 2.7 Consensus size: 40
39302255 TCAACTCTAA
39302265 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAAT
39302305 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAAT
39302345 TGCCTTC-GGTCTTAGCCCGGATATAT
1 TGCCTTCGGGTCTTAGCCCGGATATAT
39302371 TCCAATGCTC
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
39 19 0.29
40 47 0.71
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAAT
Found at i:39302393 original size:103 final size:102
Alignment explanation
Indices: 39302183--39302397 Score: 225
Period size: 103 Copynumber: 2.1 Consensus size: 102
39302173 CTTAGCCCGG
*
39302183 ATATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTT
1 ATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTT
* * * * *** * * **
39302248 CGGAATATCAACTCTAATGCCTTCGGGTCTTAGCCCGG
66 CGG-ATATCAACCCGAATACATTCCAATCTCAGCACAC
* *
39302286 ATATATCAACTCGCGTAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAATTGCCTT
1 ATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTT
* * * * *
39302351 CGG-TCTTAGCCCGGATATATTCCAATGCTCATGCACAC
66 CGGATATCAACCCGAATACATTCCAAT-CTCA-GCACAC
39302389 ATATATCAA
1 ATATATCAA
39302398 TAATCATAAC
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
101 11 0.12
102 3 0.03
103 77 0.85
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (102 bp):
ATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTT
CGGATATCAACCCGAATACATTCCAATCTCAGCACAC
Found at i:39308729 original size:51 final size:51
Alignment explanation
Indices: 39308573--39308806 Score: 226
Period size: 51 Copynumber: 4.6 Consensus size: 51
39308563 AGTTGCTAGA
* * * *
39308573 TCACGTGTGTAGCACTATGTGCAGGCTACTACGTGTACTAAAATG-ATA-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCAGATGAAAATGG
* * * * * *** *
39308623 TCGCATGTGTAGTACTATGTGCAAGG-TACTATGCGTA-CCGAAT-AGCTTCGA
1 TCACGTGTGTAGTACTATGTGC-AGGCTACTACGTGTATCAG-ATGAAAAT-GG
* * *
39308674 TCACGTTTGTAGTACTGTGTGCAGGCTACTACGTGTATTAGATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAAAATGG
*
39308725 TCACGCGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAAAATGG
* *
39308776 TCACATGTGTAGTACTATGTACAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
39308807 TGTGAACCTG
Statistics
Matches: 145, Mismatches: 31, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
49 2 0.01
50 31 0.21
51 109 0.75
52 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAAAATGG
Found at i:39311068 original size:295 final size:295
Alignment explanation
Indices: 39310532--39311127 Score: 1156
Period size: 295 Copynumber: 2.0 Consensus size: 295
39310522 CATTTCTGAT
*
39310532 TGTTATTAATATTGATTTTGGCATAAAGTGGATTCTTCAATATTGGATTGATTTAACGGATATAT
1 TGTTACTAATATTGATTTTGGCATAAAGTGGATTCTTCAATATTGGATTGATTTAACGGATATAT
*
39310597 TAAGCATATGAATGAGTATGTATTGGGCCTCGTATTCCCTAATTAGCGACTCGTAGATAATAATT
66 TAAGCATATGAATGAATATGTATTGGGCCTCGTATTCCCTAATTAGCGACTCGTAGATAATAATT
*
39310662 TGAAAGTTTTTAATTTGGATAAAATTGTATAACTCAGTTTACTATGTCTATAAGTGTATTTATTC
131 TGAAAGTTTTTAATTTGGATAAAATTATATAACTCAGTTTACTATGTCTATAAGTGTATTTATTC
39310727 TGGTAATGCCTCGTACCCTATTCCAACGTTGAATACGGGTAAAAGGTGTTACAATGTGACATCAC
196 TGGTAATGCCTCGTACCCTATTCCAACGTTGAATACGGGTAAAAGGTGTTACAATGTGACATCAC
39310792 CAGATTCGGCCCTAATGTTTAGGCCGGGTTTGGGG
261 CAGATTCGGCCCTAATGTTTAGGCCGGGTTTGGGG
39310827 TGTTACTAATATTGATTTTGGCATAAAGTGGATTCTTCAATATTGGATTGATTTAACGGATATAT
1 TGTTACTAATATTGATTTTGGCATAAAGTGGATTCTTCAATATTGGATTGATTTAACGGATATAT
39310892 TAAGCATATGAATGAATATGTATTGGGCCTCGTATTCCCTAATTAGCGACTCGTAGATAATAATT
66 TAAGCATATGAATGAATATGTATTGGGCCTCGTATTCCCTAATTAGCGACTCGTAGATAATAATT
*
39310957 TGAAAGTTTTTAATTTGGATAAAATTATATAACTCGGTTTACTATGTCTATAAGTGTATTTATTC
131 TGAAAGTTTTTAATTTGGATAAAATTATATAACTCAGTTTACTATGTCTATAAGTGTATTTATTC
39311022 TGGTAATGCCTCGTACCCTATTCCAACGTTGAATACGGGTAAAAGGTGTTACAATGTGACATCAC
196 TGGTAATGCCTCGTACCCTATTCCAACGTTGAATACGGGTAAAAGGTGTTACAATGTGACATCAC
39311087 CAGATTCGGCCCTAATGTTTAGGCCGGGTTTGGGG
261 CAGATTCGGCCCTAATGTTTAGGCCGGGTTTGGGG
39311122 TGTTAC
1 TGTTAC
39311128 ATTCAATTCA
Statistics
Matches: 297, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
295 297 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (295 bp):
TGTTACTAATATTGATTTTGGCATAAAGTGGATTCTTCAATATTGGATTGATTTAACGGATATAT
TAAGCATATGAATGAATATGTATTGGGCCTCGTATTCCCTAATTAGCGACTCGTAGATAATAATT
TGAAAGTTTTTAATTTGGATAAAATTATATAACTCAGTTTACTATGTCTATAAGTGTATTTATTC
TGGTAATGCCTCGTACCCTATTCCAACGTTGAATACGGGTAAAAGGTGTTACAATGTGACATCAC
CAGATTCGGCCCTAATGTTTAGGCCGGGTTTGGGG
Found at i:39311410 original size:22 final size:22
Alignment explanation
Indices: 39311385--39311432 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
39311375 AAAGAGACTA
39311385 AGTTGTGAAAGTTCTAAAATCT
1 AGTTGTGAAAGTTCTAAAATCT
39311407 AGTTGTGAAAGTTCTAAAATCT
1 AGTTGTGAAAGTTCTAAAATCT
39311429 AGTT
1 AGTT
39311433 ATAATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (22 bp):
AGTTGTGAAAGTTCTAAAATCT
Found at i:39319724 original size:27 final size:27
Alignment explanation
Indices: 39319694--39319781 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
39319684 ATCCTCGAAA
*
39319694 GGTAAAATAATCGAAATACCCCCGTAG
1 GGTAAAATAATCGAAATACCCCCATAG
* *
39319721 GGTAGAAT-ACCGAAATACCCCCATAG
1 GGTAAAATAATCGAAATACCCCCATAG
* * *
39319747 GGTAAAATGACTC-TAATACCCCTATAG
1 GGTAAAAT-AATCGAAATACCCCCATAG
39319774 GGTAAAAT
1 GGTAAAAT
39319782 GACTATAATG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.45
27 27 0.53
28 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (27 bp):
GGTAAAATAATCGAAATACCCCCATAG
Found at i:39319804 original size:53 final size:54
Alignment explanation
Indices: 39319747--39320060 Score: 218
Period size: 53 Copynumber: 5.9 Consensus size: 54
39319737 ACCCCCATAG
* *
39319747 GGTAAAATGACTCTAATACCCCTATAGGGTAAAATGACT-ATAATG-TCCTGTAA
1 GGTAAAATGAC-CTAATGCCCCTATAGGGTAAAATGACTCATAATGCCCCTGTAA
* * * *
39319800 GGTAAAATGACCGTAATGCCCTTAT-GGCTAAAATGA-TCGTAATGCCCCTGTAG
1 GGTAAAATGACC-TAATGCCCCTATAGGGTAAAATGACTCATAATGCCCCTGTAA
* * * * ** * *
39319853 GGTAAAATAACAGTAATGCCCCTATAGGGTAAAGTGAC-CGTAACACCCCTATAG
1 GGTAAAATGAC-CTAATGCCCCTATAGGGTAAAATGACTCATAATGCCCCTGTAA
* * * * * *
39319907 GGTAAAATAACTGTAATG-TCCTGTAGGGTAAAATGA-TCGTAATG-CCCT-TATG
1 GGTAAAATGAC-CTAATGCCCCTATAGGGTAAAATGACTCATAATGCCCCTGTA-A
* * * * * * *
39319959 GGTAAAATAAACGTAATGCCCTTGTAGTGTAAAATGAC-CGTAATGCCCCTATAA
1 GGTAAAAT-GACCTAATGCCCCTATAGGGTAAAATGACTCATAATGCCCCTGTAA
* * *
39320013 GGTAAAATGACATTAATGCCCTTATAGGGTAAAATGAC-CGTAATGCCC
1 GGTAAAATGAC-CTAATGCCCCTATAGGGTAAAATGACTCATAATGCCC
39320061 TGGTGGGTAA
Statistics
Matches: 219, Mismatches: 28, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
51 3 0.01
52 35 0.16
53 95 0.43
54 84 0.38
55 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
GGTAAAATGACCTAATGCCCCTATAGGGTAAAATGACTCATAATGCCCCTGTAA
Found at i:39320061 original size:27 final size:27
Alignment explanation
Indices: 39319743--39320061 Score: 317
Period size: 27 Copynumber: 12.0 Consensus size: 27
39319733 AAATACCCCC
* *
39319743 ATAGGGTAAAATGACTC-TAATACCCCT
1 ATAGGGTAAAATGAC-CGTAATGCCCTT
** *
39319770 ATAGGGTAAAATGACTATAATGTCCTGT
1 ATAGGGTAAAATGACCGTAATGCCCT-T
39319798 A-A-GGTAAAATGACCGTAATGCCCTT
1 ATAGGGTAAAATGACCGTAATGCCCTT
* * *
39319823 AT-GGCTAAAATGATCGTAATGCCCCT
1 ATAGGGTAAAATGACCGTAATGCCCTT
* * * *
39319849 GTAGGGTAAAATAACAGTAATGCCCCT
1 ATAGGGTAAAATGACCGTAATGCCCTT
* ** *
39319876 ATAGGGTAAAGTGACCGTAACACCCCT
1 ATAGGGTAAAATGACCGTAATGCCCTT
* * *
39319903 ATAGGGTAAAATAACTGTAATGTCC-T
1 ATAGGGTAAAATGACCGTAATGCCCTT
* *
39319929 GTAGGGTAAAATGATCGTAATGCCCTT
1 ATAGGGTAAAATGACCGTAATGCCCTT
* *
39319956 AT-GGGTAAAATAAACGTAATGCCCTT
1 ATAGGGTAAAATGACCGTAATGCCCTT
* * *
39319982 GTAGTGTAAAATGACCGTAATGCCCCT
1 ATAGGGTAAAATGACCGTAATGCCCTT
* **
39320009 ATAAGGTAAAATGACATTAATGCCCTT
1 ATAGGGTAAAATGACCGTAATGCCCTT
39320036 ATAGGGTAAAATGACCGTAATGCCCT
1 ATAGGGTAAAATGACCGTAATGCCCT
39320062 GGTGGGTAAA
Statistics
Matches: 236, Mismatches: 49, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
25 2 0.01
26 84 0.36
27 148 0.63
28 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGTAATGCCCTT
Found at i:39320069 original size:133 final size:131
Alignment explanation
Indices: 39319694--39320071 Score: 470
Period size: 133 Copynumber: 2.8 Consensus size: 131
39319684 ATCCTCGAAA
* * * * * * *
39319694 GGTAAAATAATCGAAATACCCCCGTAGGGTAGAATACCGAAATACCCCCATAGGGTAAAATGACT
1 GGTAAAATAATCGTAATGCCCCTGTAGGGTAAAATACCGTAATGCCCCTATAGGGTAAAATGACT
* *
39319759 CTAATACCCCTATAGGGTAAAATGACTATAATGTCCTGTAAGGTAAAATGACCGTAATGCCCTTA
66 -TAATACCCCTATAGGGTAAAATGACTGTAATGTCCTGTAGGGTAAAATGACCGTAATGCCCTTA
39319824 TG
130 TG
* * * *
39319826 GCTAAAATGATCGTAATGCCCCTGTAGGGTAAAATAACAGTAATGCCCCTATAGGGTAAAGTGAC
1 GGTAAAATAATCGTAATGCCCCTGTAGGGTAAAAT-ACCGTAATGCCCCTATAGGGTAAAATGA-
* * * *
39319891 CGTAACACCCCTATAGGGTAAAATAACTGTAATGTCCTGTAGGGTAAAATGATCGTAATGCCCTT
64 CTTAATACCCCTATAGGGTAAAATGACTGTAATGTCCTGTAGGGTAAAATGACCGTAATGCCCTT
39319956 ATG
129 ATG
* * * *
39319959 GGTAAAATAAACGTAATGCCCTTGTAGTGTAAAATGACCGTAATGCCCCTATAAGGTAAAATGAC
1 GGTAAAATAATCGTAATGCCCCTGTAGGGTAAAAT-ACCGTAATGCCCCTATAGGGTAAAATGAC
* * * *
39320024 ATTAATGCCCTTATAGGGTAAAATGACCGTAATGCCCTGGT-GGGTAAA
65 -TTAATACCCCTATAGGGTAAAATGACTGTAATGTCCT-GTAGGGTAAA
39320072 TTACTATTTT
Statistics
Matches: 209, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
132 30 0.14
133 176 0.84
134 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (131 bp):
GGTAAAATAATCGTAATGCCCCTGTAGGGTAAAATACCGTAATGCCCCTATAGGGTAAAATGACT
TAATACCCCTATAGGGTAAAATGACTGTAATGTCCTGTAGGGTAAAATGACCGTAATGCCCTTAT
G
Found at i:39320149 original size:24 final size:25
Alignment explanation
Indices: 39320121--39320167 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
39320111 CTATGGTTAA
39320121 ATGACTGACTTATCTGTG-TTTGGT
1 ATGACTGACTTATCTGTGATTTGGT
* *
39320145 ATGACTGATTTGTCTGTGATTTG
1 ATGACTGACTTATCTGTGATTTG
39320168 AATGACTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.17, C:0.11, G:0.26, T:0.47
Consensus pattern (25 bp):
ATGACTGACTTATCTGTGATTTGGT
Found at i:39320172 original size:24 final size:24
Alignment explanation
Indices: 39320120--39320179 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
39320110 GCTATGGTTA
*
39320120 AATGACTGACTTATCTGTGTTTGG
1 AATGACTGATTTATCTGTGTTTGG
* *
39320144 TATGACTGATTTGTCTGTGATTT-G
1 AATGACTGATTTATCTGTG-TTTGG
*
39320168 AATGACTAATTT
1 AATGACTGATTT
39320180 TGAGCATGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.23, C:0.10, G:0.22, T:0.45
Consensus pattern (24 bp):
AATGACTGATTTATCTGTGTTTGG
Found at i:39320283 original size:27 final size:27
Alignment explanation
Indices: 39320242--39320305 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
39320232 ATGGAGGAAG
*
39320242 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGATGGCT-TGGCCACATA
39320267 TCACTGTTACTGATGGCTTGGCCACATA
1 T-ACTGTTACTGATGGCTTGGCCACATA
*
39320295 TACTATTACTG
1 TACTGTTACTG
39320306 GCAGCTTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.15
27 25 0.76
28 2 0.06
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (27 bp):
TACTGTTACTGATGGCTTGGCCACATA
Found at i:39320391 original size:32 final size:32
Alignment explanation
Indices: 39320352--39320554 Score: 171
Period size: 32 Copynumber: 6.3 Consensus size: 32
39320342 TGCTATACTT
**
39320352 CTGATGGCTTTGTATCGATCATAGTACTGTTA
1 CTGATGGCTTTGTGCCGATCATAGTACTGTTA
* ** *
39320384 CTAATGGCTTTGTGTTGATCATAGTACTATTA
1 CTGATGGCTTTGTGCCGATCATAGTACTGTTA
* *
39320416 CTGATGGCTTTGTGCCTATCATATTTCACTGTTA
1 CTGATGGCTTTGTGCCGATCATA-GT-ACTGTTA
* * **
39320450 CTGATGGCTGTGTGCCGGTCAT-GTTACCATTA
1 CTGATGGCTTTGTGCCGATCATAG-TACTGTTA
* *
39320482 CTGATGGCTATGTGCCGATCATA-TCACTGCTA
1 CTGATGGCTTTGTGCCGATCATAGT-ACTGTTA
* * *
39320514 CTAATGGCTTTGTG-CGAATCACATTACTG-TA
1 CTGATGGCTTTGTGCCG-ATCATAGTACTGTTA
*
39320545 CTTATGGCTT
1 CTGATGGCTT
39320555 GTAGCCATTC
Statistics
Matches: 139, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
31 14 0.10
32 97 0.70
33 3 0.02
34 25 0.18
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (32 bp):
CTGATGGCTTTGTGCCGATCATAGTACTGTTA
Found at i:39320484 original size:66 final size:64
Alignment explanation
Indices: 39320352--39320528 Score: 205
Period size: 66 Copynumber: 2.7 Consensus size: 64
39320342 TGCTATACTT
** ** *
39320352 CTGATGGCTTTGTATCGATCATAGT-ACTGTTACTAATGGCTTTGTGTTGATCATAGTACTATTA
1 CTGATGGCTTTGTGCCGATCATA-TCACTGTTACTAATGGCTTTGTGCCGATCATAGTACCATTA
* * * *
39320416 CTGATGGCTTTGTGCCTATCATATTTCACTGTTACTGATGGCTGTGTGCCGGTCAT-GTTACCAT
1 CTGATGGCTTTGTGCCGATCATA--TCACTGTTACTAATGGCTTTGTGCCGATCATAG-TACCAT
39320480 TA
63 TA
* *
39320482 CTGATGGCTATGTGCCGATCATATCACTGCTACTAATGGCTTTGTGC
1 CTGATGGCTTTGTGCCGATCATATCACTGTTACTAATGGCTTTGTGC
39320529 GAATCACATT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
64 41 0.43
65 2 0.02
66 52 0.55
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (64 bp):
CTGATGGCTTTGTGCCGATCATATCACTGTTACTAATGGCTTTGTGCCGATCATAGTACCATTA
Found at i:39321967 original size:3 final size:3
Alignment explanation
Indices: 39321952--39321982 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
39321942 ATTAATCAAT
*
39321952 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
39321983 CATCGATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:39326264 original size:13 final size:13
Alignment explanation
Indices: 39326246--39326270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39326236 ATCCAATTTC
39326246 AAAAAATAAAAAT
1 AAAAAATAAAAAT
39326259 AAAAAATAAAAA
1 AAAAAATAAAAA
39326271 AGAGAAGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:39330485 original size:128 final size:128
Alignment explanation
Indices: 39330257--39331275 Score: 1465
Period size: 128 Copynumber: 7.9 Consensus size: 128
39330247 TCGCTGAAAT
* * * *
39330257 CACAAGTCCTATATCCCTGACCAGCAGTGAAATAGGTTGGAAATTACAGATCTTCTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGCCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * * * *
39330322 CAGAAGTGGAGCAGATCGAAAACGGCAAATCTTATCTTCAAGAATAAGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* * *
39330385 CACAAGTCCTATATCCCTGACCAGCAGCGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGCCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * * *
39330450 CAGTAGCAGAGCAGATCGAAAGCGACAAATCTTATCTTCAAGAGTAAGAAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* *
39330513 CACAAGTCCTATGTCCCTGGCCAGCAGTGCAATAGGTTGGAAATTACAGATCTTGTCTCCCGAAG
1 CACAAGTCCTATGTCCCTGGCCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* *
39330578 AAGTAACGGAGCAGATCG-AAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAG-CGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* *
39330641 CATAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGCCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* *
39330706 CAGTAGCGGAGCAGATCGAAAGTGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* * **
39330769 CACAAGTCCTATGTCCCTAGCCAGCAGTGCAATAGGTTGGAAATTACAGATCTTGTCTCCCGGAG
1 CACAAGTCCTATGTCCCTGGCCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * *
39330834 AAGTAACAGAG-ACGATC-AAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCA-GATCGAAAG-CGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
*
39330897 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGCCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * * * * *
39330962 CAATAGCGGAGCAAATCG-AAGATGGTGAATCTTATCTTCAAGTGTAAGGGGAAGAAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAAG-CGGCGAATCTTATCTTCAAGAGTAA--GGAAGCAGATTTAAG
39331026 C
128 C
* *
39331027 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACTGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGCCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * * *
39331092 CAGTAGCGGAGCAGATCG-AAGACGGCTAATCGTATCTTCAAGAGTAAGGAAGAAAATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAG-CGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* * *
39331155 CACAAGTCCTATGTCCCTGGTCAGTAGTGGAACAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGCCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
** * *
39331220 CAGTAGCGGAGCATCTCG-AAGATGGTGAATCTTATCTTCAAGAGTAAGGAAGCAGA
66 CAGTAGCGGAGCAGATCGAAAG-CGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGA
39331276 AATGGCTCAT
Statistics
Matches: 809, Mismatches: 74, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
127 8 0.01
128 678 0.84
129 4 0.00
130 119 0.15
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (128 bp):
CACAAGTCCTATGTCCCTGGCCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
CAGTAGCGGAGCAGATCGAAAGCGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
Found at i:39336231 original size:17 final size:16
Alignment explanation
Indices: 39336196--39336226 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39336186 TTTCCATGAA
39336196 ATTTTTTTTGACTTTT
1 ATTTTTTTTGACTTTT
39336212 ATTTTTTTTGA-TTTT
1 ATTTTTTTTGACTTTT
39336227 TTATTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.13, C:0.03, G:0.06, T:0.77
Consensus pattern (16 bp):
ATTTTTTTTGACTTTT
Found at i:39336306 original size:10 final size:10
Alignment explanation
Indices: 39336293--39336323 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
39336283 ATTTTCTTTC
39336293 TGAATTTTTT
1 TGAATTTTTT
39336303 TGAATTTTTT
1 TGAATTTTTT
39336313 TGAATTTTTT
1 TGAATTTTTT
39336323 T
1 T
39336324 ACAATACCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (10 bp):
TGAATTTTTT
Found at i:39348742 original size:14 final size:14
Alignment explanation
Indices: 39348723--39348752 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39348713 GAGACATGAA
*
39348723 AACAAAAACCTCAC
1 AACAAAAACATCAC
39348737 AACAAAAACATCAC
1 AACAAAAACATCAC
39348751 AA
1 AA
39348753 ATCTCTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.30, G:0.00, T:0.07
Consensus pattern (14 bp):
AACAAAAACATCAC
Found at i:39351147 original size:12 final size:12
Alignment explanation
Indices: 39351126--39351155 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
39351116 TCAAGCAGTT
*
39351126 ACACGGCCTAGC
1 ACACGACCTAGC
39351138 ACACGACCTAGC
1 ACACGACCTAGC
39351150 ACACGA
1 ACACGA
39351156 GAGTATGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.40, G:0.20, T:0.07
Consensus pattern (12 bp):
ACACGACCTAGC
Found at i:39353101 original size:22 final size:23
Alignment explanation
Indices: 39353076--39353124 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
39353066 GTTTGGGGTG
* *
39353076 TTACAG-TGTAATATCCTGAAAA
1 TTACAGTTGTAATACCCTAAAAA
*
39353098 TTACTGTTGTAATACCCTAAAAA
1 TTACAGTTGTAATACCCTAAAAA
39353121 TTAC
1 TTAC
39353125 TACAGTAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (23 bp):
TTACAGTTGTAATACCCTAAAAA
Found at i:39353108 original size:23 final size:23
Alignment explanation
Indices: 39353082--39353125 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
39353072 GGTGTTACAG
* *
39353082 TGTAATATCCTGAAAATTACTGT
1 TGTAATACCCTAAAAATTACTGT
39353105 TGTAATACCCTAAAAATTACT
1 TGTAATACCCTAAAAATTACT
39353126 ACAGTAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (23 bp):
TGTAATACCCTAAAAATTACTGT
Found at i:39353132 original size:23 final size:23
Alignment explanation
Indices: 39353083--39353132 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
39353073 GTGTTACAGT
* * ***
39353083 GTAATATCCTGAAAATTACTGTT
1 GTAATACCCTAAAAATTACTACA
39353106 GTAATACCCTAAAAATTACTACA
1 GTAATACCCTAAAAATTACTACA
39353129 GTAA
1 GTAA
39353133 GAAAGTAGGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (23 bp):
GTAATACCCTAAAAATTACTACA
Found at i:39356807 original size:12 final size:12
Alignment explanation
Indices: 39356790--39356815 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39356780 CCCCACTCAC
39356790 CCGTGTGCTAGG
1 CCGTGTGCTAGG
39356802 CCGTGTGCTAGG
1 CCGTGTGCTAGG
39356814 CC
1 CC
39356816 ATGTAACAGC
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:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:39363306 original size:9 final size:9
Alignment explanation
Indices: 39363292--39363340 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
39363282 TTTGGTTAAA
*
39363292 AATTAACTG
1 AATTAACCG
*
39363301 AATTAACCA
1 AATTAACCG
*
39363310 AATTAACTG
1 AATTAACCG
39363319 AATTAACCG
1 AATTAACCG
*
39363328 AATTACCCG
1 AATTAACCG
39363337 AATT
1 AATT
39363341 GAATCACTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:39363314 original size:18 final size:18
Alignment explanation
Indices: 39363291--39363332 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
39363281 TTTTGGTTAA
39363291 AAATTAACTGAATTAACC
1 AAATTAACTGAATTAACC
39363309 AAATTAACTGAATTAACC
1 AAATTAACTGAATTAACC
*
39363327 GAATTA
1 AAATTA
39363333 CCCGAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (18 bp):
AAATTAACTGAATTAACC
Found at i:39363370 original size:17 final size:17
Alignment explanation
Indices: 39363348--39363408 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
39363338 ATTGAATCAC
39363348 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
39363365 TACATAAGTATTTGAATCAC
1 TACAT-A--ATTAAAAACAT
*
39363385 TACATAGTTAAAAACAT
1 TACATAATTAAAAACAT
39363402 TACATAA
1 TACATAA
39363409 GTCTTGAAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 17 0.55
18 1 0.03
19 1 0.03
20 12 0.39
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:39363386 original size:37 final size:37
Alignment explanation
Indices: 39363339--39363410 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
39363329 ATTACCCGAA
39363339 TTGAATCACTACATAATTAAAAACATTACATAAGTAT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTAT
*
39363376 TTGAATCACTACATAGTTAAAAACATTACATAAGT
1 TTGAATCACTACATAATTAAAAACATTACATAAGT
39363411 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTAT
Found at i:39363427 original size:37 final size:37
Alignment explanation
Indices: 39363339--39363430 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
39363329 ATTACCCGAA
* *
39363339 TTGAATCACTACATAATTAAAAACATTACATAAGTAT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTAC
* *
39363376 TTGAATCACTACATAGTTAAAAACATTACATAAGT-C
1 TTGAATAACTACATAATTAAAAACATTACATAAGTAC
39363412 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
39363431 GAAATGTAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
36 3 0.06
37 43 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.33
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTAC
Found at i:39363586 original size:38 final size:39
Alignment explanation
Indices: 39363542--39363619 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
39363532 GACTTGGAGT
*
39363542 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
39363580 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
39363619 T
1 T
39363620 TAGGTTGGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 27 0.71
39 11 0.29
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:39363631 original size:17 final size:17
Alignment explanation
Indices: 39363604--39363650 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 17
39363594 AGTTTTATTG
39363604 GGTTGGGTAATTGGGTTA
1 GGTT-GGTAATTGGGTTA
*
39363622 GGTTGGTAATTGGGTTG
1 GGTTGGTAATTGGGTTA
39363639 GGTTGGATAATT
1 GGTTGG-TAATT
39363651 TTATTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (17 bp):
GGTTGGTAATTGGGTTA
Found at i:39368873 original size:4 final size:4
Alignment explanation
Indices: 39368864--39368898 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
39368854 TATTTTTATT
*
39368864 TTTA TTTA TTTA TTTA TTTA TTTA TTTA CTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
39368899 TAAATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:39370696 original size:13 final size:14
Alignment explanation
Indices: 39370672--39370701 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
39370662 GTAATGTCAT
39370672 TTTTGTTTTATTTA
1 TTTTGTTTTATTTA
39370686 TTTTG-TTTATTTA
1 TTTTGTTTTATTTA
39370699 TTT
1 TTT
39370702 ATTAAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (14 bp):
TTTTGTTTTATTTA
Found at i:39373225 original size:18 final size:18
Alignment explanation
Indices: 39373198--39373239 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
39373188 TGCTGGAATA
*
39373198 AATTAATTAAGTT-AGTTT
1 AATTAATTAA-TTCAGCTT
*
39373216 AATTAGTTAATTCAGCTT
1 AATTAATTAATTCAGCTT
39373234 AATTAA
1 AATTAA
39373240 ATGTTGAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (18 bp):
AATTAATTAATTCAGCTT
Found at i:39375516 original size:38 final size:38
Alignment explanation
Indices: 39375465--39375576 Score: 145
Period size: 38 Copynumber: 3.0 Consensus size: 38
39375455 CGTACCGCTG
*
39375465 TTATTCGGGCTTTCTACCTAGCAGGCTTTGTGCCGGTC
1 TTATTCGGGCTTTCTGCCTAGCAGGCTTTGTGCCGGTC
*** *
39375503 TTATTCGGGCTTTCTGCCTAGCAGGCTTTGTGTTAGTG
1 TTATTCGGGCTTTCTGCCTAGCAGGCTTTGTGCCGGTC
** *
39375541 TTATTCAAGC-TTGTGCCTAGCAGGCTTTGTGCCGGT
1 TTATTCGGGCTTTCTGCCTAGCAGGCTTTGTGCCGGT
39375577 GTATTAAAAG
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
37 22 0.35
38 41 0.65
ACGTcount: A:0.12, C:0.22, G:0.28, T:0.38
Consensus pattern (38 bp):
TTATTCGGGCTTTCTGCCTAGCAGGCTTTGTGCCGGTC
Found at i:39376421 original size:42 final size:42
Alignment explanation
Indices: 39376347--39376449 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 42
39376337 AAGTCAAGTA
* * *
39376347 GTTACACGGCCTGGCACACAGGCGTGTAAAGCCATTTTGAGT
1 GTTACACGGCCTGACACACAGGCATGTAAAGCCATTTCGAGT
* ** * *
39376389 GTTACACGGCCTGACATATGGGCATGTGAAGCCATTTCGCGT
1 GTTACACGGCCTGACACACAGGCATGTAAAGCCATTTCGAGT
*
39376431 GTTACACGGCCTGGCACAC
1 GTTACACGGCCTGACACAC
39376450 GGAGTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.23
Consensus pattern (42 bp):
GTTACACGGCCTGACACACAGGCATGTAAAGCCATTTCGAGT
Found at i:39377314 original size:28 final size:29
Alignment explanation
Indices: 39377253--39377314 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
39377243 AATAAAATAG
* *
39377253 ATGTCTGATTTTATTATTAAGTGTTTAAT
1 ATGTCTGATTTTAATATCAAGTGTTTAAT
* * *
39377282 TTGTCTTATTTTAATA-CAAGTTTTTAAT
1 ATGTCTGATTTTAATATCAAGTGTTTAAT
39377310 ATGTC
1 ATGTC
39377315 ATAACCTAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.55
Consensus pattern (29 bp):
ATGTCTGATTTTAATATCAAGTGTTTAAT
Found at i:39377324 original size:28 final size:28
Alignment explanation
Indices: 39377293--39377370 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
39377283 TGTCTTATTT
*
39377293 TAATACAAGTTTTTAATATGTCATA-ACC
1 TAATACATGTTTTTAATATGTCATAGA-C
* * *
39377321 TAATACATGTTATTAATTTGTCCTAGAC
1 TAATACATGTTTTTAATATGTCATAGAC
* *
39377349 TAAAACATGTTTTTATTATGTC
1 TAATACATGTTTTTAATATGTC
39377371 CTAGCTGCTA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 40 0.98
29 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.44
Consensus pattern (28 bp):
TAATACATGTTTTTAATATGTCATAGAC
Found at i:39379142 original size:47 final size:47
Alignment explanation
Indices: 39379064--39379454 Score: 539
Period size: 47 Copynumber: 8.1 Consensus size: 47
39379054 CCCTTCGGGA
* * * * * * *
39379064 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
39379111 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39379158 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39379205 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39379252 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACAT---C-----GGCC--A-TTAGGC
* *
39379310 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39379357 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39379404 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39379451 CTTA
1 CTTA
39379455 CTATCATTTC
Statistics
Matches: 315, Mismatches: 18, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
47 264 0.84
48 1 0.00
50 4 0.01
55 5 0.02
57 1 0.00
58 40 0.13
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39379428 original size:152 final size:152
Alignment explanation
Indices: 39379152--39379454 Score: 543
Period size: 152 Copynumber: 2.0 Consensus size: 152
39379142 ACATCGGCCA
* * *
39379152 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATAT
1 TTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT
*
39379217 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
66 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
*
39379282 CACATCGGCTATTAGGCCTTAT
131 CACATCGGCCATTAGGCCTTAT
*
39379304 TTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACAT
1 TTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT
*
39379369 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCAT
66 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
39379434 CACATCGGCCATTAGGCCTTA
131 CACATCGGCCATTAGGCCTTA
39379455 CTATCATTTC
Statistics
Matches: 144, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
152 144 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (152 bp):
TTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
CACATCGGCCATTAGGCCTTAT
Found at i:39382374 original size:13 final size:13
Alignment explanation
Indices: 39382356--39382431 Score: 75
Period size: 13 Copynumber: 5.7 Consensus size: 13
39382346 TTGGAGTAAC
39382356 AAAAAAAA-TC-A
1 AAAAAAAATTCAA
39382367 AAAAAAAATTCGAA
1 AAAAAAAATTC-AA
*
39382381 AAAAAAATTGATTGAA
1 AAAAAAA---ATTCAA
39382397 AAAAAAAATTCAA
1 AAAAAAAATTCAA
* *
39382410 AAAAAAAAGTGAA
1 AAAAAAAATTCAA
39382423 AAAAAAAAT
1 AAAAAAAAT
39382432 CGAGCAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
11 8 0.15
12 2 0.04
13 24 0.44
14 8 0.15
16 9 0.17
17 3 0.06
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:39382411 original size:26 final size:26
Alignment explanation
Indices: 39382366--39382483 Score: 94
Period size: 29 Copynumber: 4.1 Consensus size: 26
39382356 AAAAAAAATC
*
39382366 AAAAAAAAATTCGAAAAAAAAATTGATTGA
1 AAAAAAAAATTC-AAAAAAAAA---AGTGA
39382396 AAAAAAAAATTCAAAAAAAAAAGTGA
1 AAAAAAAAATTCAAAAAAAAAAGTGA
*
39382422 AAAAAAAAATCGAGCAAAAAAAAAAGGTGA
1 AAAAAAAAAT---TCAAAAAAAAAA-GTGA
*
39382452 CCAAAAAAAAA-TCAAGTTAAAAAAAGTGA
1 --AAAAAAAAATTCAA--AAAAAAAAGTGA
39382481 AAA
1 AAA
39382484 GTCTTGCGAG
Statistics
Matches: 76, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
26 14 0.18
27 3 0.04
28 3 0.04
29 24 0.32
30 23 0.30
32 9 0.12
ACGTcount: A:0.70, C:0.06, G:0.11, T:0.13
Consensus pattern (26 bp):
AAAAAAAAATTCAAAAAAAAAAGTGA
Found at i:39383414 original size:15 final size:16
Alignment explanation
Indices: 39383394--39383425 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
39383384 AGAAAATGAA
39383394 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
39383409 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
39383425 A
1 A
39383426 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:39383540 original size:17 final size:18
Alignment explanation
Indices: 39383508--39383541 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39383498 AAAAGAGAGT
*
39383508 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
39383526 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
39383542 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:39388152 original size:25 final size:25
Alignment explanation
Indices: 39388115--39388166 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
39388105 AAGGAATTCG
39388115 CACACACACAGTGCCTCTAATT-ATT
1 CACACACACAGTG-CTCTAATTCATT
* * *
39388140 CACATACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTAATTCATT
39388165 CA
1 CA
39388167 TTAATACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (25 bp):
CACACACACAGTGCTCTAATTCATT
Found at i:39388399 original size:40 final size:40
Alignment explanation
Indices: 39388342--39388524 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
39388332 CCAGCATGAT
* *
39388342 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
39388382 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
39388422 TGCTCTTCGGGACTTAGCCCAGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
39388463 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
39388503 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
39388525 CATCATTCGA
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 94 0.80
41 20 0.17
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:39388869 original size:29 final size:29
Alignment explanation
Indices: 39388830--39388908 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
39388820 CTTAATAATC
*
39388830 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
39388860 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
39388889 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
39388909 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:39388936 original size:28 final size:28
Alignment explanation
Indices: 39388896--39388963 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
39388886 TCAAGCCCGC
39388896 ACACTTAGTGCCAATCTCACAACCGTGA
1 ACACTTAGTGCCAATCTCACAACCGTGA
39388924 ACACTTAGTGCCAATCTCACAACCGTGA
1 ACACTTAGTGCCAATCTCACAACCGTGA
*
39388952 ACACTTATTGCC
1 ACACTTAGTGCC
39388964 CGCACACTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.32, G:0.13, T:0.24
Consensus pattern (28 bp):
ACACTTAGTGCCAATCTCACAACCGTGA
Found at i:39388985 original size:43 final size:43
Alignment explanation
Indices: 39388924--39389020 Score: 194
Period size: 43 Copynumber: 2.3 Consensus size: 43
39388914 ACAACCGTGA
39388924 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGC
1 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGC
39388967 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGC
1 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGC
39389010 ACACTTAGTGC
1 ACACTTAGTGC
39389021 TGAAAACCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (43 bp):
ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGC
Found at i:39391096 original size:45 final size:46
Alignment explanation
Indices: 39391041--39391353 Score: 349
Period size: 47 Copynumber: 6.7 Consensus size: 46
39391031 CACATTTATG
* * * * *
39391041 CACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCAC-ATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAATATA
* **
39391086 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACA-ATATA
* **
39391133 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACA-ATATA
* * * **
39391180 TACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACA-ATATA
* * **
39391227 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACA-ATATA
* * **
39391274 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACA-ATATA
*
39391321 CACTTTCACATTCATCACATCGGCCATTAGGCC
1 CACTTTCACATTCATCACATCGGCCACTAGGCC
39391354 TTACTATCAT
Statistics
Matches: 253, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 32 0.13
47 221 0.87
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.31
Consensus pattern (46 bp):
CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAATATA
Found at i:39391147 original size:47 final size:47
Alignment explanation
Indices: 39391078--39391356 Score: 504
Period size: 47 Copynumber: 5.9 Consensus size: 47
39391068 TCGGCCCCGT
39391078 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
39391125 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
* * *
39391172 CATATATATACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
39391219 CACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
39391266 CACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
39391313 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
39391357 CTATCATTTC
Statistics
Matches: 226, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 226 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:39391217 original size:94 final size:93
Alignment explanation
Indices: 39391026--39391356 Score: 502
Period size: 94 Copynumber: 3.5 Consensus size: 93
39391016 CCCTTCGGGA
** * * * * * * ***
39391026 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCAC-ATATACACT
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACACT
*
39391090 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCTATTAGGC
* *
39391118 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATACAC
39391183 TTTCACATTCATCACATCGGCTATTAGGC
65 TTTCACATTCATCACATCGGCTATTAGGC
*
39391212 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATACAC
39391277 TTTCACATTCATCACATCGGCTATTAGGC
65 TTTCACATTCATCACATCGGCTATTAGGC
39391306 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
39391357 CTATCATTTC
Statistics
Matches: 220, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
92 45 0.20
94 175 0.80
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (93 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACACT
TTCACATTCATCACATCGGCTATTAGGC
Found at i:39394566 original size:25 final size:25
Alignment explanation
Indices: 39394538--39394589 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
39394528 AAGGAATTCG
39394538 CACACACACAGTGCCTCTAATT-ATT
1 CACACACACAGTG-CTCTAATTCATT
* * *
39394563 CACATACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTAATTCATT
39394588 CA
1 CA
39394590 TTAATACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (25 bp):
CACACACACAGTGCTCTAATTCATT
Found at i:39394851 original size:80 final size:80
Alignment explanation
Indices: 39394752--39394909 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 80
39394742 CGAATACACG
* * * * *
39394752 TCACCAGCATGATTGCTCTTCGGGATTTAG-CACGGATATA-TCACTAGCACGAATGCTCTTCGG
1 TCACCAGCATGAATGCTCTTCGGGACTTAGTC-CAGATATAGTAACTAGCACCAATGC-CTTCGG
39394815 AACTTAGCCCGGATACA
64 AACTTAGCCCGGATACA
* * * *
39394832 TCACTAGCATGAATGCTCTTCGGGACTTAGTCCAGATTTAGTAACTCGCACCAATGCCTTCGGAT
1 TCACCAGCATGAATGCTCTTCGGGACTTAGTCCAGATATAGTAACTAGCACCAATGCCTTCGGAA
*
39394897 CTTAGTCCGGATA
66 CTTAGCCCGGATA
39394910 TGGTCACTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
80 52 0.79
81 14 0.21
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (80 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGTCCAGATATAGTAACTAGCACCAATGCCTTCGGAA
CTTAGCCCGGATACA
Found at i:39394947 original size:40 final size:40
Alignment explanation
Indices: 39394765--39394947 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
39394755 CCAGCATGAT
* * *
39394765 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACCAA
* * **
39394805 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACCAA
* * * * *
39394845 TGCTCTTCGGGACTTAGTCCAGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACCAA
* *
39394886 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACCAA
*
39394926 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
39394948 CATCATTCGA
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 95 0.81
41 19 0.16
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACCAA
Found at i:39395292 original size:29 final size:29
Alignment explanation
Indices: 39395253--39395331 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
39395243 CTTAATAATC
*
39395253 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
39395283 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
39395312 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
39395332 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:39395359 original size:28 final size:28
Alignment explanation
Indices: 39395319--39395386 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
39395309 TCAAGCCCGC
39395319 ACACTTAGTGCCAATCTCACAACCGTGA
1 ACACTTAGTGCCAATCTCACAACCGTGA
39395347 ACACTTAGTGCCAATCTCACAACCGTGA
1 ACACTTAGTGCCAATCTCACAACCGTGA
*
39395375 ACACTTATTGCC
1 ACACTTAGTGCC
39395387 CGCACACTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.32, G:0.13, T:0.24
Consensus pattern (28 bp):
ACACTTAGTGCCAATCTCACAACCGTGA
Found at i:39395408 original size:43 final size:43
Alignment explanation
Indices: 39395347--39395443 Score: 194
Period size: 43 Copynumber: 2.3 Consensus size: 43
39395337 ACAACCGTGA
39395347 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGC
1 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGC
39395390 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGC
1 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGC
39395433 ACACTTAGTGC
1 ACACTTAGTGC
39395444 TGAAAACCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (43 bp):
ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGC
Found at i:39397521 original size:45 final size:46
Alignment explanation
Indices: 39397466--39397778 Score: 340
Period size: 47 Copynumber: 6.7 Consensus size: 46
39397456 CACATTTATG
* * * * *
39397466 CACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCAC-ATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAATATA
* **
39397511 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACA-ATATA
* **
39397558 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACA-ATATA
* * * **
39397605 TACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACA-ATATA
* * **
39397652 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACA-ATATA
* * * **
39397699 CACTTTCACATTCATCATATCGGCTATTAGGCCTTATCACACATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACA-ATATA
*
39397746 CACTTTCACATTCATCACATCGGCCATTAGGCC
1 CACTTTCACATTCATCACATCGGCCACTAGGCC
39397779 TTACTATCAT
Statistics
Matches: 251, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
45 32 0.13
47 219 0.87
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (46 bp):
CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAATATA
Found at i:39397572 original size:47 final size:47
Alignment explanation
Indices: 39397503--39397781 Score: 495
Period size: 47 Copynumber: 5.9 Consensus size: 47
39397493 TCGGCCCCGT
39397503 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
39397550 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
* * *
39397597 CATATATATACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
39397644 CACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
* *
39397691 CACATATACACTTTCACATTCATCATATCGGCTATTAGGCCTTATCA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
39397738 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
39397782 CTATCATTTC
Statistics
Matches: 224, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 224 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:39397642 original size:94 final size:93
Alignment explanation
Indices: 39397451--39397781 Score: 493
Period size: 94 Copynumber: 3.5 Consensus size: 93
39397441 CCCTTCGGGA
** * * * * * * ***
39397451 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCAC-ATATACACT
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACACT
*
39397515 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCTATTAGGC
* *
39397543 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATACAC
39397608 TTTCACATTCATCACATCGGCTATTAGGC
65 TTTCACATTCATCACATCGGCTATTAGGC
*
39397637 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATACAC
*
39397702 TTTCACATTCATCATATCGGCTATTAGGC
65 TTTCACATTCATCACATCGGCTATTAGGC
39397731 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
39397782 CTATCATTTC
Statistics
Matches: 219, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
92 45 0.21
94 174 0.79
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (93 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACACT
TTCACATTCATCACATCGGCTATTAGGC
Done.