Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 56 of 235
Found at i:18899444 original size:52 final size:52
Alignment explanation
Indices: 18899379--18899591 Score: 277
Period size: 52 Copynumber: 4.1 Consensus size: 52
18899369 AATTCCAAAC
*
18899379 CACTCATACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAAT
1 CACTCACACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAAT
* * * *
18899431 CACTCACATTTTTATAAGCTTAGTATAGAACATACTCATAACGGAGCCCAAT
1 CACTCACACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAAT
* * * *
18899483 CACTCCCACTTTTAAAAG-TTAGTAAAGAAAATACTCATAA-TAGAGCCTAAT
1 CACTCACACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGA-AGCCCAAT
* * * * *
18899534 CACTCACACTTTTATAAGCTTAGTAAATAGCATACTCATAACGGAGCCCGAT
1 CACTCACACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAAT
18899586 CACTCA
1 CACTCA
18899592 TCGAAAAATG
Statistics
Matches: 136, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
51 43 0.32
52 93 0.68
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (52 bp):
CACTCACACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAAT
Found at i:18899539 original size:103 final size:104
Alignment explanation
Indices: 18899386--18899590 Score: 315
Period size: 103 Copynumber: 2.0 Consensus size: 104
18899376 AACCACTCAT
* * *
18899386 ACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAATCACTCACATTTTTATAAGCT
1 ACTTTTAAAAGCTTAGTAAAGAAAATACTCATAAAGAAGCCCAATCACTCACACTTTTATAAGCT
*
18899451 TAGTATAGAACATACTCATAACGGAGCCCAATCACTCCC
66 TAGTAAAGAACATACTCATAACGGAGCCCAATCACTCCC
*
18899490 ACTTTTAAAAG-TTAGTAAAGAAAATACTCATAATAG-AGCCTAATCACTCACACTTTTATAAGC
1 ACTTTTAAAAGCTTAGTAAAGAAAATACTCATAA-AGAAGCCCAATCACTCACACTTTTATAAGC
* * *
18899553 TTAGTAAATAGCATACTCATAACGGAGCCCGATCACTC
65 TTAGTAAAGAACATACTCATAACGGAGCCCAATCACTC
18899591 ATCGAAAAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
103 80 0.87
104 12 0.13
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (104 bp):
ACTTTTAAAAGCTTAGTAAAGAAAATACTCATAAAGAAGCCCAATCACTCACACTTTTATAAGCT
TAGTAAAGAACATACTCATAACGGAGCCCAATCACTCCC
Found at i:18903287 original size:40 final size:35
Alignment explanation
Indices: 18903214--18903282 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
18903204 ATAAGTATTT
18903214 TACCCATGCAAGACACTTCAATTGCACATCTTTAA
1 TACCCATGCAAGACACTTCAATTGCACATCTTTAA
*
18903249 TACCCATGCAAGACACTTCACTTGCACATCTTTA
1 TACCCATGCAAGACACTTCAATTGCACATCTTTA
18903283 CTTTATCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.29
Consensus pattern (35 bp):
TACCCATGCAAGACACTTCAATTGCACATCTTTAA
Found at i:18906357 original size:323 final size:324
Alignment explanation
Indices: 18905077--18906690 Score: 2824
Period size: 325 Copynumber: 5.0 Consensus size: 324
18905067 GTTGATGAAG
18905077 ACCCTGGCATGTTTTTGACTCTCTCTCTTC-T-TT-GAAACAATCATTGTATCAAGACAATAATT
1 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
18905139 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAGCATTTAGAG
66 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAGCATTTAGAG
18905204 AGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAGG
131 AGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAGG
* ** *
18905269 AGGTTGAGACACTTATTATTGTATGGGGTAATTTATAAATATAGGAACTGGTCGAGTAAATGCCG
196 AGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCGAGTAAATGCCT
18905334 TTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
261 TTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
*
18905398 ACCCTGGCATGTTTTTGCCTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
1 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
**
18905463 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAATATTTTAGA
66 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAGCA-TTTAGA
* *
18905528 GGGATAATAATGAAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
130 GAGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
* * *
18905593 GAGGTTGAGACACTTATTGTTTTATGGGGTAATTTATCCATATGGGAACTGGTCTAGTAAATGCC
195 GAGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCGAGTAAATGCC
* * * *
18905658 TTTATGATCAGTTGAATCTTAAATAACCTTGGGGCTTGCCCCATGCGTGGTTACCTTTTTATTTT
260 TTTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
18905723 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
1 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
**
18905788 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAATATTTTAGA
66 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAGCA-TTTAGA
* *
18905853 GGGATAATAATGAAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
130 GAGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
* * *
18905918 GAGGTTGAGACACTTATTGTTTTATGGGGTAATTTATCCATATGGGAACTGGTCTAGTAAATGCC
195 GAGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCGAGTAAATGCC
* * * *
18905983 TTTATGATCAGTTGAATCTTAAATAACCTTGGGGCTTGCCCCATGCGTGGTTACCTTTTTATTTT
260 TTTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
18906048 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
1 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
18906113 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAGCATTTAGAG
66 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAGCATTTAGAG
18906178 AGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAA-CAACAGAGG
131 AGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAGG
* ** *
18906242 AGGTTGAGACACTTATTATTGTATGGGGTAATTTATAAATATAGGAACTGGTCGAGTAAATGCCG
196 AGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCGAGTAAATGCCT
18906307 TTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
261 TTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
*
18906371 ACCCTGGCATGTTTTTGCCTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
1 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
18906436 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAGCATTTAGAG
66 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAGCATTTAGAG
18906501 AGATAATAATGTAGAGAAGGGAAATCATAGTG-TTTTTTATTTTATTTCAAGCAAGCAACAGAGG
131 AGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAGG
* * * *
18906565 AGGTTGAAACACTTACTGTTGTATGGGGTAATTTATCCATATAGCAACTGTTCTTGAGTAAATGC
196 AGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTC--GAGTAAATGC
*
18906630 CTTTCTGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTT
259 CTTTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTT
18906691 CTCCAAAGGG
Statistics
Matches: 1244, Mismatches: 42, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
321 29 0.02
322 23 0.02
323 345 0.28
324 145 0.12
325 702 0.56
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (324 bp):
ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAGCATTTAGAG
AGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAGG
AGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCGAGTAAATGCCT
TTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
Found at i:18920596 original size:24 final size:24
Alignment explanation
Indices: 18920569--18920615 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18920559 TTTTTACTTT
*
18920569 TTTATGTGATTG-ATATTTTAATAA
1 TTTAT-TGATTGAATATATTAATAA
*
18920593 TTTATTTATTGAATATATTAATA
1 TTTATTGATTGAATATATTAATA
18920616 TAATTGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (24 bp):
TTTATTGATTGAATATATTAATAA
Found at i:18921613 original size:18 final size:19
Alignment explanation
Indices: 18921569--18921617 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
18921559 GGTATCAATT
**
18921569 TCACATTTTATTTCTAAAA
1 TCACATTTTATTTAAAAAA
*
18921588 TAAC-TTTTA-TTAAAAAA
1 TCACATTTTATTTAAAAAA
18921605 TCACATTTT-TTTA
1 TCACATTTTATTTA
18921618 TATTTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TCACATTTTATTTAAAAAA
Found at i:18921954 original size:19 final size:20
Alignment explanation
Indices: 18921921--18921975 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
18921911 TTTAAAAAAA
*
18921921 TATAAA-ATTTGGAATTT-T
1 TATAAATATTTTGAATTTAT
18921939 TATAAATATTTTGAATTTAT
1 TATAAATATTTTGAATTTAT
*
18921959 GA-AAATTATTTTGAATT
1 TATAAA-TATTTTGAATT
18921976 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.19
19 13 0.41
20 13 0.41
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (20 bp):
TATAAATATTTTGAATTTAT
Found at i:18926565 original size:27 final size:27
Alignment explanation
Indices: 18926535--18926712 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18926525 ATATTGAGTC
* * * *
18926535 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18926562 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18926589 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18926617 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18926644 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18926671 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18926698 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18926713 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18926674 original size:82 final size:81
Alignment explanation
Indices: 18926556--18926711 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18926546 TGCTATATAA
* *
18926556 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18926621 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18926638 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18926702 CACTTAGTGC
65 CACTTAGTGC
18926712 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:18934627 original size:27 final size:27
Alignment explanation
Indices: 18934597--18934774 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
18934587 ATATTGAGCC
* *
18934597 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
18934624 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
18934651 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
18934679 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
18934706 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
18934733 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
18934760 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18934775 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18934709 original size:55 final size:54
Alignment explanation
Indices: 18934597--18934774 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
18934587 ATATTGAGCC
* * * * *
18934597 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
18934651 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
18934706 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
18934760 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18934775 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:18942631 original size:27 final size:27
Alignment explanation
Indices: 18942601--18942778 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18942591 ATATTGAGTC
* * * *
18942601 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18942628 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18942655 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18942683 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18942710 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18942737 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18942764 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18942779 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18942740 original size:82 final size:81
Alignment explanation
Indices: 18942622--18942777 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18942612 TGCTATATAA
* *
18942622 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18942687 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18942704 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18942768 CACTTAGTGC
65 CACTTAGTGC
18942778 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:18945129 original size:17 final size:15
Alignment explanation
Indices: 18945092--18945121 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18945082 GGTGATAAAC
18945092 CTATTAATATGTGTG
1 CTATTAATATGTGTG
18945107 CTATTAATATGTGTG
1 CTATTAATATGTGTG
18945122 TTTGATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
CTATTAATATGTGTG
Found at i:18946727 original size:48 final size:48
Alignment explanation
Indices: 18946675--18946889 Score: 430
Period size: 48 Copynumber: 4.5 Consensus size: 48
18946665 ATGTCGAGGC
18946675 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
18946723 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
18946771 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
18946819 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
18946867 CGATGCCATGTCCCAGACATGGT
1 CGATGCCATGTCCCAGACATGGT
18946890 GGCTCTAATT
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 167 1.00
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
Found at i:18954451 original size:46 final size:45
Alignment explanation
Indices: 18954375--18954590 Score: 236
Period size: 46 Copynumber: 4.6 Consensus size: 45
18954365 GTAAGGTGTT
* * *
18954375 GATGCCATGTCCCAGAAATAGTCTTACACTGACTATCATCTTGAGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCGAGGCC
*
18954423 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCC
* * * * * *
18954469 GATGCATGTCCTAGACATGCCTTACACTAGTCTTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACT-GGCTTCATCTCGAGGCC
* *
18954515 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCC
18954563 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
18954591 AGCTCACACA
Statistics
Matches: 145, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
45 1 0.01
46 73 0.50
47 47 0.32
48 23 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCC
Found at i:18954563 original size:94 final size:92
Alignment explanation
Indices: 18954420--18954592 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 92
18954410 TCATCTTGAG
* * *
18954420 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCTAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGAC
18954485 ATGCCTTACACTAGTCTTCGTCTCAAT
66 ATGCCTTACACTAGTCTTCGTCTCAAT
*
18954512 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATGTCCC
*
18954575 AGACATGTCTTACACTAG
62 AGACATGCCTTACACTAG
18954593 CTCACACATG
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 49 0.68
95 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGAC
ATGCCTTACACTAGTCTTCGTCTCAAT
Found at i:18962095 original size:46 final size:46
Alignment explanation
Indices: 18962006--18962222 Score: 169
Period size: 46 Copynumber: 4.6 Consensus size: 46
18961996 GGTAAGGTGT
* **
18962006 CGATGCCATGTCCCAAACATGGTCTTACATTAACTATCA-TCTCGTA-GC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-AGTCTCGTAGGC
*
18962054 CGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCG-AGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTTA-GTCTCGTAGGC
* * * *
18962100 CGATGCATGTCCCAAACATGTCTTACACTAGCCCTAGTCTC-AATGC
1 CGATGCATGTCCCAAACATGTCTTACACT-GGCTTAGTCTCGTAGGC
* * * *
18962146 CGATGCCATGTCCCAAACAAGGTCTTACATTGGCTCTCGTAAT-GT-GGC
1 CGATG-CATGTCCCAAAC-ATGTCTTACACTGGCT-TAGT-CTCGTAGGC
*
18962194 CGATGCATGT-CCAAGACATTTCTTACACT
1 CGATGCATGTCCCAA-ACATGTCTTACACT
18962223 AGCTCACACA
Statistics
Matches: 139, Mismatches: 19, Indels: 24
0.76 0.10 0.13
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 72 0.52
47 38 0.27
48 25 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTTAGTCTCGTAGGC
Found at i:18967189 original size:47 final size:48
Alignment explanation
Indices: 18967116--18967219 Score: 147
Period size: 47 Copynumber: 2.2 Consensus size: 48
18967106 CCAATTCAAA
* * *
18967116 TAAGACCATGTCTGGGACATGGCATCGGC-GTGATATGAGAGCCAGTG
1 TAAGACCATGTCTGAGACATGACATCGGCAGTGATATGAGAGCCAATG
* * *
18967163 TAAGACCATGTCTGAGACATGACATCGGCATTGATATGTGTGCCAATG
1 TAAGACCATGTCTGAGACATGACATCGGCAGTGATATGAGAGCCAATG
18967211 TAAGACCAT
1 TAAGACCAT
18967220 AGCTGGGATA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
47 27 0.54
48 23 0.46
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTGAGACATGACATCGGCAGTGATATGAGAGCCAATG
Found at i:18967250 original size:48 final size:47
Alignment explanation
Indices: 18967116--18967239 Score: 160
Period size: 48 Copynumber: 2.6 Consensus size: 47
18967106 CCAATTCAAA
* * * *
18967116 TAAGACCATGTCTGGGACATGGCATCGGCGTGATATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATGATATGTGTGCCAATG
* *
18967163 TAAGACCATGTCTGAGACATGACATCGGCATTGATATGTGTGCCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCA-TGATATGTGTGCCAATG
*
18967211 TAAGACCATAG-CTGGGATATGGCATCGGC
1 TAAGACCAT-GTCTGGGACATGGCATCGGC
18967240 CTCGGTATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
47 27 0.41
48 38 0.58
49 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATGATATGTGTGCCAATG
Found at i:18967323 original size:42 final size:42
Alignment explanation
Indices: 18967277--18967370 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
18967267 CATCTGGGAT
* *
18967277 ATGGCATTGATATGAGACT-TCGTGTAAGACCATGTATAGGAC
1 ATGGCATCGATATG-GACTCTCGTATAAGACCATGTATAGGAC
** * *
18967319 ATGGCATCGATATGGGGTCTCGTATAAGACCATGTTTGGGAC
1 ATGGCATCGATATGGACTCTCGTATAAGACCATGTATAGGAC
*
18967361 ATGACATCGA
1 ATGGCATCGA
18967371 CATCAACATA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (42 bp):
ATGGCATCGATATGGACTCTCGTATAAGACCATGTATAGGAC
Found at i:18972075 original size:34 final size:34
Alignment explanation
Indices: 18972032--18972097 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
18972022 AAGAAATGGA
*
18972032 TATTTAGGGCATTAGTTTAAAATGGAGTTATAGT
1 TATTAAGGGCATTAGTTTAAAATGGAGTTATAGT
18972066 TATTAAGGGCATTAGTTTAAAATGGAGTTATA
1 TATTAAGGGCATTAGTTTAAAATGGAGTTATA
18972098 ATATAGAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (34 bp):
TATTAAGGGCATTAGTTTAAAATGGAGTTATAGT
Found at i:18972293 original size:5 final size:5
Alignment explanation
Indices: 18972283--18972310 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
18972273 AATGTACTAG
18972283 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
18972311 CAAACAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:18981791 original size:137 final size:137
Alignment explanation
Indices: 18981545--18981818 Score: 539
Period size: 137 Copynumber: 2.0 Consensus size: 137
18981535 TATCATATAG
18981545 ATGCTTCATTAACTTAATCCTTATATTACAGTTGTGGGGCTTTGTATATGGATCAAAATATGATG
1 ATGCTTCATTAACTTAATCCTTATATTACAGTTGTGGGGCTTTGTATATGGATCAAAATATGATG
18981610 AAATACTTGCTTTAAGTAGAACAGAGATGCCTGGAATTTGCCGATGGTAAAACACCCTTCGAGCA
66 AAATACTTGCTTTAAGTAGAACAGAGATGCCTGGAATTTGCCGATGGTAAAACACCCTTCGAGCA
18981675 TGATGCT
131 TGATGCT
18981682 ATGCTTCATTAACTTAATCCTTATATTACAGTTGTGGGGCTTTGTATATGGATCAAAATATGATG
1 ATGCTTCATTAACTTAATCCTTATATTACAGTTGTGGGGCTTTGTATATGGATCAAAATATGATG
*
18981747 AAATACTTGCTTTAAGTAGAACAGAGATGCCTGGAATTTGCCGATGGTAAAACACCCTTTGAGCA
66 AAATACTTGCTTTAAGTAGAACAGAGATGCCTGGAATTTGCCGATGGTAAAACACCCTTCGAGCA
18981812 TGATGCT
131 TGATGCT
18981819 GTTTTTACTT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 136 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (137 bp):
ATGCTTCATTAACTTAATCCTTATATTACAGTTGTGGGGCTTTGTATATGGATCAAAATATGATG
AAATACTTGCTTTAAGTAGAACAGAGATGCCTGGAATTTGCCGATGGTAAAACACCCTTCGAGCA
TGATGCT
Found at i:18993126 original size:30 final size:30
Alignment explanation
Indices: 18993092--18993188 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
18993082 TAAACTAAAA
**
18993092 TGAGCTAAATTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
18993122 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
18993152 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
18993181 ATGAGCTA
1 -TGAGCTA
18993189 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:19004676 original size:13 final size:13
Alignment explanation
Indices: 19004658--19004682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19004648 TTTTTCATAA
19004658 ATTTTAAATTTAT
1 ATTTTAAATTTAT
19004671 ATTTTAAATTTA
1 ATTTTAAATTTA
19004683 ATAAAATAAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTAAATTTAT
Found at i:19006472 original size:48 final size:48
Alignment explanation
Indices: 19006417--19006591 Score: 196
Period size: 48 Copynumber: 3.7 Consensus size: 48
19006407 TGATATGTAT
* * *
19006417 GCTAGTGTAAGACATGTTTGAAACATGCATCGACCTCGAGATATACCA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGAGATATACAA
* * * * *
19006465 GCCAGTGTAAGACATGTCTGGGACATGCATC-AGCATTGA-A-ATGA-GA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGA-CCTCGAGATAT-ACAA
* *
19006511 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGAGATATACAA
*
19006559 GCTAGTGTAAGACCTGTCTGAGACATGGCATCG
1 GCTAGTGTAAGACATGTCTGAGACAT-GCATCG
19006592 GCACCGATAG
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
46 37 0.35
47 5 0.05
48 58 0.55
49 6 0.06
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGAGATATACAA
Found at i:19006578 original size:94 final size:94
Alignment explanation
Indices: 19006417--19006737 Score: 331
Period size: 94 Copynumber: 3.3 Consensus size: 94
19006407 TGATATGTAT
* ** * * * *
19006417 GCTAGTGTAAGACATGTTTGAAACATGCATCGACCTCGAGATATACCAGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGT
19006482 CTGGGACAT-GCATCAGCATTGAAATGAGA
66 CTGGGACATGGCATC-GCATTGAAATGAGA
19006511 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGT
* **
19006576 CTGAGACATGGCATCGGCACCGATAGATGAGA
66 CTGGGACATGGCATC-GCATTGA-A-ATGAGA
* * * * * * * *
19006608 GATAGTGTAATACCTGTCTAGGACACGGCATCGGCCTCAATATATGA-AAGTTAGTGTAAGACCT
1 GCTAGTGTAAGACATGTCTGGGACA-TGCATCGGCCTCGAGATAT-ACAAGCTAGTGTAAGACCT
* ** **
19006672 GTCTGGGACATGGCATCGACTTTGATGTGCTA
64 GTCTGGGACATGGCATCG-CATTGAAATGAGA
*
19006704 ACTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
19006738 TCATCTTATC
Statistics
Matches: 186, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
94 66 0.35
95 10 0.05
96 13 0.07
97 45 0.24
98 51 0.27
99 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGT
CTGGGACATGGCATCGCATTGAAATGAGA
Found at i:19006615 original size:49 final size:49
Alignment explanation
Indices: 19006417--19006737 Score: 259
Period size: 49 Copynumber: 6.7 Consensus size: 49
19006407 TGATATGTAT
* * ** * * *
19006417 GCTAGTGTAAGACATGTTTGAAACAT-GCATCGACCTCGAGATAT-ACCA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AA
* * * * * *
19006465 GCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCATTGA-A-ATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
* *
19006511 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AA
* * *
19006559 GCTAGTGTAAGACCTGTCTGAGACATGGCATCGGCAC-CGATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATATGAAA
* * * * *
19006608 GATAGTGTAATACCTGTCTAGGACACGGCATCGGCCTCAATATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
* * * * * *
19006657 GTTAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTG--ATGTGCTAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATG-AAA
19006705 -CTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCG
19006738 TCATCTTATC
Statistics
Matches: 225, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
46 38 0.17
47 20 0.09
48 80 0.36
49 85 0.38
50 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
Found at i:19010410 original size:24 final size:24
Alignment explanation
Indices: 19010381--19010432 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19010371 TTTCTAGAAG
* *
19010381 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
19010405 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
19010429 ATTT
1 ATTT
19010433 CACCTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:19011906 original size:25 final size:25
Alignment explanation
Indices: 19011878--19011951 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
19011868 AGTTATTGAT
19011878 TTCAGCTCGTATGAGCTTACCGTTA
1 TTCAGCTCGTATGAGCTTACCGTTA
* *
19011903 TTCAGCTTGTATGAGCTTACCATTA
1 TTCAGCTCGTATGAGCTTACCGTTA
* *
19011928 TTCAACTCAG-AGGAGCTTACCGTT
1 TTCAGCTC-GTATGAGCTTACCGTT
19011952 TATAGCTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
TTCAGCTCGTATGAGCTTACCGTTA
Found at i:19015972 original size:25 final size:25
Alignment explanation
Indices: 19015936--19015983 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
19015926 CACAAACGCA
19015936 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTGATATAG
* *
19015961 GCTCTTCT-TGAGCTTTCTGATAT
1 GCTCTT-TATGAGCGTCCTGATAT
19015984 GACTCGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.42
Consensus pattern (25 bp):
GCTCTTTATGAGCGTCCTGATATAG
Found at i:19028185 original size:18 final size:18
Alignment explanation
Indices: 19028162--19028197 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19028152 CCATATATTT
19028162 CATTAATTTCACATTTTA
1 CATTAATTTCACATTTTA
19028180 CATTAATTTCACATTTTA
1 CATTAATTTCACATTTTA
19028198 GTCCCTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (18 bp):
CATTAATTTCACATTTTA
Found at i:19033654 original size:27 final size:27
Alignment explanation
Indices: 19033624--19033801 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19033614 ATATTGAGCC
* * * *
19033624 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19033651 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19033678 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19033706 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19033733 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19033760 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19033787 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19033802 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19033763 original size:82 final size:81
Alignment explanation
Indices: 19033645--19033800 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19033635 TGCTATATAA
* *
19033645 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19033710 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19033727 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19033791 CACTTAGTGC
65 CACTTAGTGC
19033801 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:19044554 original size:24 final size:26
Alignment explanation
Indices: 19044527--19044580 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
19044517 GCCTAGCCTC
19044527 TTTTAAT-AACTGGGGCAAAG-CCCT
1 TTTTAATAAACTGGGGCAAAGCCCCT
*
19044551 TTTTGATAAACTGGGGCAAAGCCCCT
1 TTTTAATAAACTGGGGCAAAGCCCCT
19044577 TTTT
1 TTTT
19044581 GCACTTCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 6 0.22
25 13 0.48
26 8 0.30
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (26 bp):
TTTTAATAAACTGGGGCAAAGCCCCT
Found at i:19044654 original size:21 final size:21
Alignment explanation
Indices: 19044630--19044670 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19044620 AATGAGTATA
*
19044630 TCATAGCATATCATGTGCATG
1 TCATAACATATCATGTGCATG
19044651 TCATAACATATCATGTGCAT
1 TCATAACATATCATGTGCAT
19044671 ATTAGGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (21 bp):
TCATAACATATCATGTGCATG
Found at i:19049699 original size:67 final size:67
Alignment explanation
Indices: 19049586--19049711 Score: 234
Period size: 67 Copynumber: 1.9 Consensus size: 67
19049576 CAACTCTAAG
*
19049586 TCTCCACATCACGGCTCACCTGTAAAGATAAAGAAAAGGGGATGAGTTTGGAAACTCAGGCTCCA
1 TCTCCACATCACAGCTCACCTGTAAAGATAAAGAAAAGGGGATGAGTTTGGAAACTCAGGCTCCA
19049651 AT
66 AT
*
19049653 TCTCCACATCACAGCTCACCTGTAAAGATAAAGAAAAGGGGGTGAGTTTGGAAACTCAG
1 TCTCCACATCACAGCTCACCTGTAAAGATAAAGAAAAGGGGATGAGTTTGGAAACTCAG
19049712 TGTGCAACAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (67 bp):
TCTCCACATCACAGCTCACCTGTAAAGATAAAGAAAAGGGGATGAGTTTGGAAACTCAGGCTCCA
AT
Found at i:19050113 original size:25 final size:25
Alignment explanation
Indices: 19050085--19050156 Score: 126
Period size: 25 Copynumber: 2.9 Consensus size: 25
19050075 CTCTTTTAAT
19050085 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
19050110 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
19050135 AACTGGGGCAAAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
19050157 CACTTCCTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:19050229 original size:21 final size:21
Alignment explanation
Indices: 19050205--19050245 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19050195 AATGAGTATA
*
19050205 TCATACCATATCATGTGCATG
1 TCATAACATATCATGTGCATG
19050226 TCATAACATATCATGTGCAT
1 TCATAACATATCATGTGCAT
19050246 ATCAGGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (21 bp):
TCATAACATATCATGTGCATG
Found at i:19050256 original size:21 final size:21
Alignment explanation
Indices: 19050202--19050262 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
19050192 TATAATGAGT
* *
19050202 ATATCATACCATATCATGTGC
1 ATATCAGAACATATCATGTGC
* *
19050223 ATGTCATAACATATCATGTGC
1 ATATCAGAACATATCATGTGC
**
19050244 ATATCAGGTCATATCATGT
1 ATATCAGAACATATCATGT
19050263 ATATCAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (21 bp):
ATATCAGAACATATCATGTGC
Found at i:19054219 original size:16 final size:18
Alignment explanation
Indices: 19054186--19054226 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19054176 AAATAAATCG
* *
19054186 AAAGGGAAATAGGAG-AA
1 AAAGGAAAAGAGGAGAAA
19054203 AAAGGAAAAGAGG-GAAA
1 AAAGGAAAAGAGGAGAAA
19054220 AAAGGAA
1 AAAGGAA
19054227 TTTGATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.02
Consensus pattern (18 bp):
AAAGGAAAAGAGGAGAAA
Found at i:19059808 original size:26 final size:25
Alignment explanation
Indices: 19059754--19059821 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
19059744 ACACACCTTA
* *
19059754 GCTCTTATGAGCTTGCCGATTATATG
1 GCTCTTATGAGCTT-CAGATTATAAG
19059780 GCTCTTCATGAGCTTCTAGATT-TAAG
1 GCTCTT-ATGAGCTTC-AGATTATAAG
*
19059806 GCTCTTTGTGAGCTTC
1 GCTC-TTATGAGCTTC
19059822 CCGATAGTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.40
Consensus pattern (25 bp):
GCTCTTATGAGCTTCAGATTATAAG
Found at i:19059932 original size:25 final size:25
Alignment explanation
Indices: 19059873--19059932 Score: 95
Period size: 24 Copynumber: 2.4 Consensus size: 25
19059863 GAGTCCTGTT
19059873 TTATGGCTCTTTGTGAGCTTCCCAA
1 TTATGGCTCTTTGTGAGCTTCCCAA
* *
19059898 -TATGGTTCTTTGTGAGCTTCCTAA
1 TTATGGCTCTTTGTGAGCTTCCCAA
19059922 TTATGGCTCTT
1 TTATGGCTCTT
19059933 ATAAGCGTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 22 0.71
25 9 0.29
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGGCTCTTTGTGAGCTTCCCAA
Found at i:19065723 original size:42 final size:42
Alignment explanation
Indices: 19065662--19065828 Score: 219
Period size: 42 Copynumber: 4.0 Consensus size: 42
19065652 GAAAATATTT
**
19065662 GAGATAGCTTTAGCTATGCATTGGCACTTAGTGTGCGAGATA
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATA
* *
19065704 GGGATAGCTTCGGCTATGCATTGGCACTTAGTGTACGAGATCA
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT-A
* * *
19065747 -AGATAGCTTCGGCTATGCATTGGCACTTTGTGTGCGTGATT
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATA
* * * *
19065788 GAGTTAGCTTCGGCTACGTATTGACACTTAGTGTGCGAGAT
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT
19065829 TCTGAGTAAC
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 107 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (42 bp):
GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATA
Found at i:19065929 original size:32 final size:32
Alignment explanation
Indices: 19065893--19065959 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
19065883 TGAGTATGAG
*
19065893 ATTGGTACGAGATGGTATAGGTATGTACGGAA
1 ATTGGTACAAGATGGTATAGGTATGTACGGAA
*
19065925 ATTGGTACAAGATGGTATAGGTATGTATGGAA
1 ATTGGTACAAGATGGTATAGGTATGTACGGAA
19065957 ATT
1 ATT
19065960 CAATTGAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.31
Consensus pattern (32 bp):
ATTGGTACAAGATGGTATAGGTATGTACGGAA
Found at i:19068730 original size:46 final size:46
Alignment explanation
Indices: 19068678--19068796 Score: 186
Period size: 46 Copynumber: 2.6 Consensus size: 46
19068668 ACATCTCTCA
* *
19068678 CATTAGCCATTTGGCTTTACCATATATCCATCTCATACACGTTTCG
1 CATTAGCCATTCGGCTTTACCATATATCCATCTCATACACATTTCG
*
19068724 CATTAGCCATTCGGCTTTACC-TCATACCCATCTCATACACATTTCG
1 CATTAGCCATTCGGCTTTACCAT-ATATCCATCTCATACACATTTCG
*
19068770 CATTAGCCATTCGGCTTTACCACATAT
1 CATTAGCCATTCGGCTTTACCATATAT
19068797 ATGCACTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 1 0.02
46 65 0.98
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATTAGCCATTCGGCTTTACCATATATCCATCTCATACACATTTCG
Found at i:19068844 original size:47 final size:47
Alignment explanation
Indices: 19068770--19069054 Score: 410
Period size: 47 Copynumber: 6.1 Consensus size: 47
19068760 ACACATTTCG
* * * * * **
19068770 CATTAGCCATTCGGCTTTACCACATATATGCACT-TCCACGTTTGTCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
** **
19068817 CATTGGCCATTTTGCCTTATCACATATATGCATGTTCTTATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
19068864 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
19068911 CATTGGCCATTCGGCCTTATGACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
19068958 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
19069005 CATTGGCTATTCGGCCTTATCACATATATGCACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
19069052 CAT
1 CAT
19069055 AAAATCCTAA
Statistics
Matches: 215, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.00
47 214 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:19068888 original size:22 final size:22
Alignment explanation
Indices: 19068860--19068982 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
19068850 GTTCTTATTC
19068860 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
19068882 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
19068906 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
19068929 ATGACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
19068953 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
19068976 ATCACAT
1 ATCACAT
19068983 ATATGCATGT
Statistics
Matches: 75, Mismatches: 10, Indels: 32
0.64 0.09 0.27
Matches are distributed among these distances:
22 23 0.31
23 18 0.24
24 18 0.24
25 16 0.21
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:19072434 original size:28 final size:28
Alignment explanation
Indices: 19072402--19072558 Score: 120
Period size: 28 Copynumber: 5.5 Consensus size: 28
19072392 CTGACTGATT
*
19072402 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
19072430 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
* * *
19072459 TCGTACACATAGTGATCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
19072487 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * *
19072516 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
*
19072544 TTC-CACACACAGTGC
1 -TCGCACACATAGTGC
19072559 CTCATAATTC
Statistics
Matches: 96, Mismatches: 28, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
27 1 0.01
28 51 0.53
29 43 0.45
30 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:19072466 original size:29 final size:29
Alignment explanation
Indices: 19072429--19072530 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
19072419 GATTAAAGAA
19072429 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* * * **
19072458 CTCGTACACATAGTG-ATCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
19072486 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
19072515 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
19072531 TCGGTTGAAG
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:19072478 original size:57 final size:57
Alignment explanation
Indices: 19072402--19072562 Score: 216
Period size: 57 Copynumber: 2.8 Consensus size: 57
19072392 CTGACTGATT
* * *
19072402 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * **
19072459 TCGTACACATAGTGATCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * *
19072516 TGGCACACATAGTGCTCGGTTGAAGAACTTC-CACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGATTGAAGAAC-TCGCACACATAGTGCCTCA
19072563 TAATTCCAGC
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
57 89 0.98
58 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:19072640 original size:40 final size:40
Alignment explanation
Indices: 19072596--19073648 Score: 1815
Period size: 40 Copynumber: 26.3 Consensus size: 40
19072586 AGGTTTAGCT
* * * *
19072596 CGGATATACCACTAGCACGAATGCTCTTCAGAACTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
* * * *
19072636 CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19072676 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
*
19072716 CGGATACATCACTAGCACGAATGCTCTTC-GAAACTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAA-TTAGAC
19072756 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19072796 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19072836 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19072876 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19072916 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19072956 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19072996 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073036 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073076 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073116 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073156 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073196 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073236 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073276 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073316 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073356 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073396 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
* * *
19073436 CGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
* *
19073476 CGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-C
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
* * *
19073515 CTGGATACATCACTAGCACAAATGCTCTTCGGAACTTAG-C
1 C-GGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
* * * ** *
19073555 TTGGATACATCACTAGTACGAATGCTCTTCGGAACGTAGCC
1 -CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
* * * *
19073596 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
19073636 CGGATACATCACT
1 CGGATACATCACT
19073649 CTCAATTCTC
Statistics
Matches: 988, Mismatches: 20, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
39 6 0.01
40 977 0.99
41 5 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (40 bp):
CGGATACATCACTAGCACGAATGCTCTTCAGAAATTAGAC
Found at i:19074766 original size:19 final size:19
Alignment explanation
Indices: 19074730--19074768 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19074720 TTTTCATCAT
* *
19074730 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
19074749 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
19074768 A
1 A
19074769 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:19087896 original size:27 final size:26
Alignment explanation
Indices: 19087865--19088042 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
19087855 TAAATTGTAC
19087865 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
19087892 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
19087918 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
19087946 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
19087974 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
19088001 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
19088028 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19088043 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:19087981 original size:82 final size:81
Alignment explanation
Indices: 19087866--19088021 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
19087856 AAATTGTACA
* * *
19087866 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
19087930 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19087947 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
19088012 TGCGAGTTGA
65 TGCGAATTGA
19088022 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19088033 original size:82 final size:81
Alignment explanation
Indices: 19087862--19088042 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
19087852 GATTAAATTG
* * *
19087862 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19087927 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19087943 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19088007 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19088025 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19088043 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19093286 original size:55 final size:56
Alignment explanation
Indices: 19093221--19093335 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
19093211 AGCATGGCTG
* * *
19093221 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
19093277 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
19093332 CCAG
1 CCAG
19093336 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:19093332 original size:28 final size:27
Alignment explanation
Indices: 19093246--19093335 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
19093236 GTGACAGAGT
*
19093246 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
19093275 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
19093302 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
19093330 CACCAG
1 CACCAG
19093336 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:19093488 original size:28 final size:28
Alignment explanation
Indices: 19093441--19093505 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
19093431 AAATTAACCC
*
19093441 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
19093469 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
19093497 TAGGGGTAT
1 TAGGGGTAT
19093506 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:19096068 original size:46 final size:46
Alignment explanation
Indices: 19096015--19096133 Score: 202
Period size: 46 Copynumber: 2.6 Consensus size: 46
19096005 ACATCTCTCA
* *
19096015 CATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTTTCG
1 CATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCG
* *
19096061 CATTAGCCATTCGACTTTACCTCATATCCATCTCATACACATTTCG
1 CATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCG
19096107 CATTAGCCATTCGGCTTTACCACATAT
1 CATTAGCCATTCGGCTTTACCACATAT
19096134 ATACACTTCC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCG
Found at i:19096178 original size:47 final size:47
Alignment explanation
Indices: 19096107--19096532 Score: 611
Period size: 47 Copynumber: 9.1 Consensus size: 47
19096097 ACACATTTCG
* * * * * * *
19096107 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCGTCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
** *
19096154 CATTGGCCATTTTGCCTTATCACATATATGCATGTTCTCATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
19096201 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
19096248 CATTGGTCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
** * **
19096295 CATTGGCCATTTTGCGTTATCACATATATGCATGTTCTTATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
19096342 CATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
19096389 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
** *
19096436 CATTGGCCATTTAGCCTTATCACATATATGCATGTTCACATTCCTCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
19096483 CATTGGCTATTCGGCCTTATCACATATATGCACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
19096530 CAT
1 CAT
19096533 AAAATCCTAA
Statistics
Matches: 339, Mismatches: 39, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.00
47 338 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:19096303 original size:141 final size:141
Alignment explanation
Indices: 19096107--19096532 Score: 674
Period size: 141 Copynumber: 3.0 Consensus size: 141
19096097 ACACATTTCG
* * * * * * * *
19096107 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCGTCACATTGGCCATTTTGCCT
1 CATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTCATCACATTGGCCATTTTGCCT
19096171 TATCACATATATGCATGTTCTCATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGT
65 TATCACATATATGCATGTTCTCATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGT
19096236 TCACATTCATCA
130 TCACATTCATCA
* *
19096248 CATTGGTCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTTTGCGTT
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTTTGCCTT
* *
19096313 ATCACATATATGCATGTTCTTATTCATCACATTGGCCATTCAGCCTTATCACATATATGCATGTT
66 ATCACATATATGCATGTTCTCATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
19096378 CACATTCATCA
131 CACATTCATCA
*
19096389 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTTAGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTTTGCCTT
* * * **
19096454 ATCACATATATGCATGTTCACATTCCTCACATTGGCTATTCGGCCTTATCACATATATGCACATT
66 ATCACATATATGCATGTTCTCATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
19096519 CACATTCATCA
131 CACATTCATCA
19096530 CAT
1 CAT
19096533 AAAATCCTAA
Statistics
Matches: 262, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
140 1 0.00
141 261 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (141 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTTTGCCTT
ATCACATATATGCATGTTCTCATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
CACATTCATCA
Found at i:19096366 original size:22 final size:22
Alignment explanation
Indices: 19096338--19096460 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
19096328 GTTCTTATTC
19096338 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* *
19096360 ATCACATATATG-CATGTTCA-CATT
1 ATCACAT-T-GGCCA--TTCAGCCTT
*
19096384 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
*
19096407 ATCACACATAT-G-CATGTTCA-CATT
1 AT--CACAT-TGGCCA--TTCAGCCTT
*
19096431 CATCACATTGGCCATTTAGCCTT
1 -ATCACATTGGCCATTCAGCCTT
19096454 ATCACAT
1 ATCACAT
19096461 ATATGCATGT
Statistics
Matches: 76, Mismatches: 9, Indels: 32
0.65 0.08 0.27
Matches are distributed among these distances:
22 23 0.30
23 18 0.24
24 18 0.24
25 17 0.22
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:19101104 original size:43 final size:43
Alignment explanation
Indices: 19100950--19101103 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 43
19100940 CATCCATTAT
* * ** * *
19100950 GAACTCGGACCACTCAACGAGCTCAGATGCTCGCATCCATAAT
1 GAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCAC
*
19100993 GAACTCAGACCACTCAACGAG-T-GGATGC-CACATATATCAC
1 GAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCAC
* ** * *
19101033 GAACTTGGACCACTCAATAAGTTCGGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCAC
**
19101076 GAACTCGGACTGCTCAACGAGCTCGGAT
1 GAACTCGGACCACTCAACGAGCTCGGAT
19101104 TTCTTAATTC
Statistics
Matches: 90, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
40 24 0.27
41 6 0.07
42 6 0.07
43 54 0.60
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
GAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCAC
Found at i:19104166 original size:40 final size:40
Alignment explanation
Indices: 19104121--19104785 Score: 1107
Period size: 40 Copynumber: 16.6 Consensus size: 40
19104111 CAAGCTCAAT
* * * * *
19104121 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
19104161 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
19104201 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
19104241 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
19104281 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
19104321 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
19104361 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
19104401 TGCCTTTGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
** * *
19104441 TGCCTTTAGGTCTTAGCTCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
19104481 TGCCTTCGGGTCTTATCCCGGATATATCATTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
19104521 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
19104561 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
19104601 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
19104641 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
19104681 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
19104721 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
19104761 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
19104786 CATTCAAATG
Statistics
Matches: 591, Mismatches: 32, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 588 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:19116038 original size:55 final size:56
Alignment explanation
Indices: 19115966--19116097 Score: 146
Period size: 55 Copynumber: 2.4 Consensus size: 56
19115956 CACATCCTCA
* * * *
19115966 ACTCGTGTGCAACACTGACTTTA-GGGCAC-GATCATGACACACGCCCGTGTGGCCT
1 ACTCGTGGGCAATACTGACTTTATGGACACGGCT-ATGACACACGCCCGTGTGGCCT
* *
19116021 ACTCGTGGGCAATACTGAC-TTATTGACACGGCTATGGCACACGCCCGTGTGGCCT
1 ACTCGTGGGCAATACTGACTTTATGGACACGGCTATGACACACGCCCGTGTGGCCT
* * *
19116076 AATCGTGGACAATATTGA-TTTA
1 ACTCGTGGGCAATACTGACTTTA
19116098 AAAGTTTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
54 3 0.05
55 60 0.92
56 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (56 bp):
ACTCGTGGGCAATACTGACTTTATGGACACGGCTATGACACACGCCCGTGTGGCCT
Found at i:19117011 original size:44 final size:46
Alignment explanation
Indices: 19116961--19117126 Score: 149
Period size: 47 Copynumber: 3.6 Consensus size: 46
19116951 TATACGTGCT
*
19116961 GATGCATGTACCAGACATGTCTTACACTAGCACAAAACT-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACAAAACTCTACGCC
* * * * * * *
19117005 GATGCATGTCGCAGACACGTCTTACACCAG-ATAACATCATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACAA-AAC-TCTACGCC
* * ** *
19117052 GATGCATGTCCCAAACATGTCTTACACTGGCACTCACCTCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACAAAACTCTACGCC
*
19117098 GATGCCATGTCCCAGACGTGGTCTTACAC
1 GATG-CATGTCCCAGACAT-GTCTTACAC
19117127 GGGCTATCAT
Statistics
Matches: 95, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
43 3 0.03
44 28 0.29
45 1 0.01
46 11 0.12
47 42 0.44
48 10 0.11
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACAAAACTCTACGCC
Found at i:19125938 original size:40 final size:40
Alignment explanation
Indices: 19125894--19126008 Score: 203
Period size: 40 Copynumber: 2.9 Consensus size: 40
19125884 ATGGTCACTA
* *
19125894 GCACAAATACCTTCGGGACTTAGCCCGGATTTAGTAACAC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACAC
*
19125934 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACAC
19125974 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
19126009 CATTCAGGAC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACAC
Found at i:19133878 original size:34 final size:33
Alignment explanation
Indices: 19133786--19133879 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 33
19133776 TTGTATATTG
* *
19133786 TACTAATTCTGTAATGGGCTTAGGCCCCACTGA
1 TACTGATTCTGAAATGGGCTTAGGCCCCACTGA
*
19133819 TACTG-TTACTGAAATGAGCTTAGGCCCACACT-A
1 TACTGATT-CTGAAATGGGCTTAGGCCC-CACTGA
* *
19133852 TTTCTGATTCTGAAATGGGCTAAGGCCC
1 -TACTGATTCTGAAATGGGCTTAGGCCC
19133880 TAACTGAAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
32 2 0.04
33 22 0.43
34 25 0.49
35 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (33 bp):
TACTGATTCTGAAATGGGCTTAGGCCCCACTGA
Found at i:19135401 original size:71 final size:71
Alignment explanation
Indices: 19135293--19135439 Score: 258
Period size: 71 Copynumber: 2.1 Consensus size: 71
19135283 TTAAAATTTC
19135293 AAAATAATTTTTCAGTTCAGGGAGACTATCCCATGTCTTAAAGTATAAATCACACAATGCACAAA
1 AAAATAATTTTTCAGTTCAGGGAGACTATCCCATGTCTTAAAGTATAAATCACACAATGCACAAA
19135358 AATCCA
66 AATCCA
* * *
19135364 AAAATAATTTTTCAGTTCAGGGGGACTATCTCATGTCTTAAAGTATGAATCACACAATGCACAAA
1 AAAATAATTTTTCAGTTCAGGGAGACTATCCCATGTCTTAAAGTATAAATCACACAATGCACAAA
19135429 AATCCA
66 AATCCA
*
19135435 CAAAT
1 AAAAT
19135440 TATTCCAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.27
Consensus pattern (71 bp):
AAAATAATTTTTCAGTTCAGGGAGACTATCCCATGTCTTAAAGTATAAATCACACAATGCACAAA
AATCCA
Found at i:19135900 original size:32 final size:31
Alignment explanation
Indices: 19135844--19135904 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
19135834 AATAAAATAA
** *
19135844 ACAAAAACAAAAGTATAGACAAAAAATAAAAG
1 ACAAAAACAAAAACATAAAC-AAAAATAAAAG
*
19135876 ACAAAAACAAAAACATAAATAAAAATAAA
1 ACAAAAACAAAAACATAAACAAAAATAAA
19135905 TAAAATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.75, C:0.10, G:0.05, T:0.10
Consensus pattern (31 bp):
ACAAAAACAAAAACATAAACAAAAATAAAAG
Found at i:19135914 original size:17 final size:17
Alignment explanation
Indices: 19135894--19135927 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19135884 AAAAACATAA
19135894 ATAAAAATAAATAAAAT
1 ATAAAAATAAATAAAAT
* *
19135911 ATAAAAGTAAATGAAAT
1 ATAAAAATAAATAAAAT
19135928 CACTTTGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
ATAAAAATAAATAAAAT
Found at i:19136039 original size:30 final size:29
Alignment explanation
Indices: 19135981--19136051 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
19135971 AGAGAAAAAT
*
19135981 ATGGCCATGTGCTAGGCCATGTGAGCCAC
1 ATGGCCATGTGGTAGGCCATGTGAGCCAC
* * *
19136010 ATGGCCGTGTGGTCAGGTCATGTGCGCCAC
1 ATGGCCATGTGGT-AGGCCATGTGAGCCAC
19136040 ATGGCCATGTGG
1 ATGGCCATGTGG
19136052 AATCACCCAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 11 0.31
30 25 0.69
ACGTcount: A:0.17, C:0.25, G:0.35, T:0.23
Consensus pattern (29 bp):
ATGGCCATGTGGTAGGCCATGTGAGCCAC
Found at i:19136396 original size:13 final size:12
Alignment explanation
Indices: 19136375--19136453 Score: 52
Period size: 12 Copynumber: 6.3 Consensus size: 12
19136365 GTTTTTTCAA
19136375 AAATTCTTTTTC
1 AAATTCTTTTTC
*
19136387 AAATTCCTTTTTG
1 AAATT-CTTTTTC
* *
19136400 ACATTTTTTTTC
1 AAATTCTTTTTC
*
19136412 AAAAGTTTTTTTTTC
1 -AAA--TTCTTTTTC
*
19136427 AATTTCTTTTTC
1 AAATTCTTTTTC
* *
19136439 -ATTTCTTTTTT
1 AAATTCTTTTTC
19136450 AAAT
1 AAAT
19136454 CAAATATTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
11 10 0.19
12 20 0.38
13 12 0.23
14 2 0.04
15 9 0.17
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.62
Consensus pattern (12 bp):
AAATTCTTTTTC
Found at i:19136449 original size:39 final size:38
Alignment explanation
Indices: 19136366--19136448 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 38
19136356 GACCACTTTG
19136366 TTTTTTCAAAAATTCTTTTTCAAATTCCTTTTTGACATT
1 TTTTTTCAAAAATTCTTTTTCAAATTCCTTTTT-ACATT
* * *
19136405 TTTTTTCAAAAGTTTTTTTTTC-AATTTCTTTTT-CATT
1 TTTTTTCAAAA-ATTCTTTTTCAAATTCCTTTTTACATT
19136442 TCTTTTT
1 T-TTTTT
19136449 TAAATCAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
37 5 0.13
38 5 0.13
39 21 0.54
40 8 0.21
ACGTcount: A:0.20, C:0.13, G:0.02, T:0.64
Consensus pattern (38 bp):
TTTTTTCAAAAATTCTTTTTCAAATTCCTTTTTACATT
Found at i:19141028 original size:93 final size:93
Alignment explanation
Indices: 19140921--19141091 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
19140911 GACCATAAGT
* *
19140921 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19140986 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
19141014 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19141079 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19141092 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:19141088 original size:46 final size:46
Alignment explanation
Indices: 19140913--19141088 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
19140903 TGTAACCCGA
* * *
19140913 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
19140959 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
19141009 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
19141052 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19141089 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:19141545 original size:30 final size:30
Alignment explanation
Indices: 19141511--19141570 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19141501 ATTTAATACG
19141511 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
19141541 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
19141571 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:19162123 original size:27 final size:27
Alignment explanation
Indices: 19162093--19162270 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19162083 ATATTGAGCC
* * * *
19162093 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19162120 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19162147 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19162175 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19162202 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19162229 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19162256 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19162271 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19162232 original size:82 final size:81
Alignment explanation
Indices: 19162114--19162269 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19162104 TGCTATATAA
* *
19162114 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19162179 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19162196 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19162260 CACTTAGTGC
65 CACTTAGTGC
19162270 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:19181166 original size:38 final size:37
Alignment explanation
Indices: 19181081--19181184 Score: 109
Period size: 38 Copynumber: 2.7 Consensus size: 37
19181071 GAAGATTGTG
* * * *
19181081 GAATATTATTGGATGGAATAGCTCTTATGAGCTTACTG
1 GAATATTATCGGAT-GAATAGCTCTTATAAGCATACTA
* *
19181119 GCATTTTATCGGATAGAATAGCTCTTATAAGCATACTA
1 GAATATTATCGGAT-GAATAGCTCTTATAAGCATACTA
* *
19181157 GAATGTTATCGAATGTAATAGCTCTTAT
1 GAATATTATCGGATG-AATAGCTCTTAT
19181185 GAGGATATGG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.02
38 54 0.98
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (37 bp):
GAATATTATCGGATGAATAGCTCTTATAAGCATACTA
Found at i:19181202 original size:38 final size:38
Alignment explanation
Indices: 19181160--19181239 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
19181150 CATACTAGAA
* * *
19181160 TGTTATCGAATGTAATAGCTCTTATGAGGATATGGGTG
1 TGTTATCGAATGGAATAGCTCTTATGAGCAAATGGGTG
* * * *
19181198 TGTTATCGGATGGAATAGTTCTTCTGAGCAAATTGGTG
1 TGTTATCGAATGGAATAGCTCTTATGAGCAAATGGGTG
19181236 TGTT
1 TGTT
19181240 CCAGTTGGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.39
Consensus pattern (38 bp):
TGTTATCGAATGGAATAGCTCTTATGAGCAAATGGGTG
Found at i:19190268 original size:22 final size:23
Alignment explanation
Indices: 19190240--19190294 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
19190230 TATAAATCCG
19190240 AATAAAAATAAG-ATGAAAGA-AA
1 AATAAAAATAAGTATGAAA-ATAA
* *
19190262 AATAAAAATTAGTATTAAAATAA
1 AATAAAAATAAGTATGAAAATAA
19190285 AATAAAAATA
1 AATAAAAATA
19190295 TAAACATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (23 bp):
AATAAAAATAAGTATGAAAATAA
Found at i:19192380 original size:55 final size:55
Alignment explanation
Indices: 19192293--19192418 Score: 155
Period size: 55 Copynumber: 2.3 Consensus size: 55
19192283 TGTTAGTTTA
* * * * *
19192293 ACAGGTTTGACCACGGTTTCTTGGCACAGGCGTGTCGCACACCCGTGTTGATTTG
1 ACAGGTTCGACCACGGGTTCTAGACACAGGCGTGTCGAACACCCGTGTTGATTTG
* * * *
19192348 ACAGGTTCGGCCACGGGTTCTAGACACGGGCGTGTCGAACGCCCGTGTTGTTTTG
1 ACAGGTTCGACCACGGGTTCTAGACACAGGCGTGTCGAACACCCGTGTTGATTTG
19192403 ACAGGTTC-ACCCACGG
1 ACAGGTTCGA-CCACGG
19192419 CCATATCGCA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (55 bp):
ACAGGTTCGACCACGGGTTCTAGACACAGGCGTGTCGAACACCCGTGTTGATTTG
Found at i:19193577 original size:46 final size:46
Alignment explanation
Indices: 19193510--19193601 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
19193500 ATTAAGCAAG
19193510 GAATCATAAAACTCCCTAGATCTTTTAGCTTGTTGGGTAGTTTATT
1 GAATCATAAAACTCCCTAGATCTTTTAGCTTGTTGGGTAGTTTATT
* *
19193556 GAATCGTAAAACTCCCTAGATCTTTTAGTTTGTTGGGTAGTTTATT
1 GAATCATAAAACTCCCTAGATCTTTTAGCTTGTTGGGTAGTTTATT
19193602 CTGTAGAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (46 bp):
GAATCATAAAACTCCCTAGATCTTTTAGCTTGTTGGGTAGTTTATT
Found at i:19198032 original size:25 final size:25
Alignment explanation
Indices: 19198004--19198084 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
19197994 ACATAAATGC
** *
19198004 GAAGCTGATGTGAGCCATGTAACGA
1 GAAGCTGATCCGAGCCATATAACGA
* *
19198029 GAAGCTTATCCGAGCTATATAACGA
1 GAAGCTGATCCGAGCCATATAACGA
* * ***
19198054 GAAGCTTATCCGGGTTGTATAACGA
1 GAAGCTGATCCGAGCCATATAACGA
19198079 GAAGCT
1 GAAGCT
19198085 CATAAGAGCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (25 bp):
GAAGCTGATCCGAGCCATATAACGA
Found at i:19198109 original size:24 final size:24
Alignment explanation
Indices: 19198079--19198292 Score: 75
Period size: 25 Copynumber: 8.6 Consensus size: 24
19198069 TGTATAACGA
19198079 GAAGCTCATAAGAGCCATAATCAG
1 GAAGCTCATAAGAGCCATAATCAG
**
19198103 GAAGCTCATGCGAGCCAATAA-CAG
1 GAAGCTCATAAGAGCC-ATAATCAG
* *
19198127 GTAA-CTTC-GAAGAGCCATTAATTAG
1 G-AAGC-TCATAAGAGCCA-TAATCAG
*** *
19198152 GAAGCTCCGGATAGCCATATATC-G
1 GAAGCTCATAAGAGCCATA-ATCAG
* *
19198176 AGAAGTTC--AAGCAAGCCA-ATATCGG
1 -GAAGCTCATAAG--AGCCATA-ATCAG
*
19198201 GAAGCTC-TAGAGAGCCATTAATCAA
1 GAAGCTCATA-AGAGCCA-TAATCAG
* * *
19198226 GAAGCTCACAAAGAGCCTTTAATCGG
1 GAAGCTCA-TAAGAGCC-ATAATCAG
* * *
19198252 GAATCTCACGAAGAGCCATATATCGG
1 GAAGCTCA-TAAGAGCCATA-ATCAG
*
19198278 GATGCTCATAAGAGC
1 GAAGCTCATAAGAGC
19198293 TGTGGTGTGT
Statistics
Matches: 145, Mismatches: 25, Indels: 39
0.69 0.12 0.19
Matches are distributed among these distances:
23 2 0.01
24 50 0.34
25 52 0.36
26 40 0.28
27 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCATAATCAG
Found at i:19198276 original size:26 final size:26
Alignment explanation
Indices: 19198134--19198285 Score: 86
Period size: 26 Copynumber: 6.0 Consensus size: 26
19198124 CAGGTAACTT
**
19198134 CGAAGAGCCAT-TAATTAGGAAGCTC-
1 CGAAGAGCCATAT-ATCGGGAAGCTCA
* * * *
19198159 CGGATAGCCATATATCGAGAAGTTCA
1 CGAAGAGCCATATATCGGGAAGCTCA
* *
19198185 AGCA-AGCCA-ATATCGGGAAGCTCTA
1 CGAAGAGCCATATATCGGGAAGCTC-A
**
19198210 -G-AGAGCCAT-TAATCAAGAAGCTCA
1 CGAAGAGCCATAT-ATCGGGAAGCTCA
* * *
19198234 CAAAGAGCC-TTTAATCGGGAATCTCA
1 CGAAGAGCCATAT-ATCGGGAAGCTCA
*
19198260 CGAAGAGCCATATATCGGGATGCTCA
1 CGAAGAGCCATATATCGGGAAGCTCA
19198286 TAAGAGCTGT
Statistics
Matches: 97, Mismatches: 20, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
23 1 0.01
24 20 0.21
25 34 0.35
26 40 0.41
27 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
CGAAGAGCCATATATCGGGAAGCTCA
Found at i:19201835 original size:25 final size:26
Alignment explanation
Indices: 19201807--19201858 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
19201797 AACATAATTA
* *
19201807 AATAATAAGGATCAAAATAAAA-TAG
1 AATAAGAAAGATCAAAATAAAAGTAG
*
19201832 AATAAGAAAGTTCAAAATAAAAGTAG
1 AATAAGAAAGATCAAAATAAAAGTAG
19201858 A
1 A
19201859 TTTAACCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.13, T:0.19
Consensus pattern (26 bp):
AATAAGAAAGATCAAAATAAAAGTAG
Found at i:19204684 original size:107 final size:107
Alignment explanation
Indices: 19204484--19204686 Score: 325
Period size: 107 Copynumber: 1.9 Consensus size: 107
19204474 AACGCCATAA
19204484 TTTTATGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATT
1 TTTTATGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATT
* **
19204549 AGCGGCGCTTTCTGAAAAACGCCGCAAAAAAATTAAGCACCG
66 AGCGGCCCTTTCTGAAAAACGCAACAAAAAAATTAAGCACCG
* * *
19204591 TTTTATGTTGATCTTTAGTGGCATTAGCGGCGCTTTTTTAAAAACGTCGCTATAGATCGAGCATT
1 TTTTATGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATT
* * *
19204656 AGCGGCCCTTTTTTAAAATCGCAACAAAAAA
66 AGCGGCCCTTTCTGAAAAACGCAACAAAAAA
19204687 CATTTTATGT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (107 bp):
TTTTATGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATT
AGCGGCCCTTTCTGAAAAACGCAACAAAAAAATTAAGCACCG
Found at i:19205598 original size:15 final size:15
Alignment explanation
Indices: 19205580--19205620 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
19205570 AAAAAAATTT
19205580 AAAATTAAAAAATAA
1 AAAATTAAAAAATAA
*
19205595 AAAAAT-AAAAATAA
1 AAAATTAAAAAATAA
19205609 AAAACTTAAAAA
1 AAAA-TTAAAAA
19205621 TTTAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 12 0.55
15 6 0.27
16 4 0.18
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATTAAAAAATAA
Found at i:19207573 original size:15 final size:15
Alignment explanation
Indices: 19207553--19207584 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
19207543 TTTTTTATGT
19207553 ACTTACAACAATTTA
1 ACTTACAACAATTTA
19207568 ACTTACAACAATTTA
1 ACTTACAACAATTTA
19207583 AC
1 AC
19207585 CCATTATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (15 bp):
ACTTACAACAATTTA
Found at i:19208077 original size:28 final size:28
Alignment explanation
Indices: 19208052--19208115 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
19208042 TAAAATATAG
*
19208052 TTGGTATCCCAAGTATTCCGTCATATAAA
1 TTGGTAT-CCAAGTACTCCGTCATATAAA
**
19208081 TTGGTATTTAAGTACTCCGTCATATAAA
1 TTGGTATCCAAGTACTCCGTCATATAAA
19208109 TTGGTAT
1 TTGGTAT
19208116 TTATGCACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (28 bp):
TTGGTATCCAAGTACTCCGTCATATAAA
Found at i:19208116 original size:28 final size:28
Alignment explanation
Indices: 19208062--19208118 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
19208052 TTGGTATCCC
*
19208062 AAGTATTCCGTCATATAAATTGGTATTT
1 AAGTACTCCGTCATATAAATTGGTATTT
19208090 AAGTACTCCGTCATATAAATTGGTATTT
1 AAGTACTCCGTCATATAAATTGGTATTT
19208118 A
1 A
19208119 TGCACTAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (28 bp):
AAGTACTCCGTCATATAAATTGGTATTT
Found at i:19209202 original size:41 final size:41
Alignment explanation
Indices: 19209154--19209232 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
19209144 TAATTTTAAT
19209154 ATGTTTAGATTAAGACAGATTTATTAGCTGCTGTTAATAAA
1 ATGTTTAGATTAAGACAGATTTATTAGCTGCTGTTAATAAA
**
19209195 ATGTTTAGATTAAGACAGATTTATTAGCTTTTGTTAAT
1 ATGTTTAGATTAAGACAGATTTATTAGCTGCTGTTAAT
19209233 CAATGTGTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.43
Consensus pattern (41 bp):
ATGTTTAGATTAAGACAGATTTATTAGCTGCTGTTAATAAA
Found at i:19219603 original size:26 final size:28
Alignment explanation
Indices: 19219556--19219612 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
19219546 ATTAAATCAT
19219556 AAAATCGTATAAAATCCAAATT-TA-CA
1 AAAATCGTATAAAATCCAAATTATAGCA
19219582 AAAATC-TAT-AAATGCCATAATTATAGCA
1 AAAATCGTATAAAAT-CCA-AATTATAGCA
19219610 AAA
1 AAA
19219613 TACTCCCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 4 0.15
25 6 0.22
26 10 0.37
27 2 0.07
28 5 0.19
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.26
Consensus pattern (28 bp):
AAAATCGTATAAAATCCAAATTATAGCA
Found at i:19234145 original size:50 final size:50
Alignment explanation
Indices: 19234066--19234160 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
19234056 AACGAAGGCT
*
19234066 TTCCAAAGAATTCGCCACAAAGACATTTCAGAAAATTCGCCACAAAGACA
1 TTCCAAAGAATTCGCCACAAAGACATTTCAGAAAATTCACCACAAAGACA
* ** * * *
19234116 TTCCAAAGTATTTTCCACAAAGGCTTTTCAGAGAATTCACCACAA
1 TTCCAAAGAATTCGCCACAAAGACATTTCAGAAAATTCACCACAA
19234161 CTATGTTTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (50 bp):
TTCCAAAGAATTCGCCACAAAGACATTTCAGAAAATTCACCACAAAGACA
Found at i:19234158 original size:25 final size:25
Alignment explanation
Indices: 19234060--19234228 Score: 105
Period size: 25 Copynumber: 6.8 Consensus size: 25
19234050 GTTCATAACG
* *
19234060 AAGGCTTTCCAAAGAATTCGCCACA
1 AAGGCTTTTCAGAGAATTCGCCACA
* * *
19234085 AAGACATTTCAGAAAATTCGCCACA
1 AAGGCTTTTCAGAGAATTCGCCACA
* * * * * **
19234110 AAGACATTCCAAAGTATTTTCCACA
1 AAGGCTTTTCAGAGAATTCGCCACA
*
19234135 AAGGCTTTTCAGAGAATTCACCACA
1 AAGGCTTTTCAGAGAATTCGCCACA
* * *
19234160 ACTATG--TTTCAAAAAAATT-GCCACA
1 A--AGGCTTTTC-AGAGAATTCGCCACA
*
19234185 AAGG-TGTTCCAGAGTAATT-GCCACA
1 AAGGCT-TTTCAGAG-AATTCGCCACA
19234210 AAGGCTTTTCAGAGAATTC
1 AAGGCTTTTCAGAGAATTC
19234229 CGTGTTTACC
Statistics
Matches: 109, Mismatches: 27, Indels: 16
0.72 0.18 0.11
Matches are distributed among these distances:
23 2 0.02
24 6 0.06
25 92 0.84
26 7 0.06
27 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (25 bp):
AAGGCTTTTCAGAGAATTCGCCACA
Found at i:19237235 original size:18 final size:17
Alignment explanation
Indices: 19237214--19237252 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
19237204 TTTTCTATAA
19237214 TTTTA-TATATTTAGAATT
1 TTTTATTAT-TTTA-AATT
19237232 TTTTATTATTTTAAATT
1 TTTTATTATTTTAAATT
19237249 TTTT
1 TTTT
19237253 TATTTTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 9 0.45
19 3 0.15
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTATTATTTTAAATT
Found at i:19237241 original size:17 final size:18
Alignment explanation
Indices: 19237214--19237252 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
19237204 TTTTCTATAA
19237214 TTTTATATA-TTTAGAATT
1 TTTTATATATTTTA-AATT
19237232 TTTTAT-TATTTTAAATT
1 TTTTATATATTTTAAATT
19237249 TTTT
1 TTTT
19237253 TATTTTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATATATTTTAAATT
Found at i:19237306 original size:21 final size:22
Alignment explanation
Indices: 19237282--19237330 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
19237272 AATATTCTAT
* *
19237282 AATTT-ATATATTATAAAAATA
1 AATTTCATAAATTAAAAAAATA
19237303 AATTTTCATAAATTAAAAAAATA
1 AA-TTTCATAAATTAAAAAAATA
19237326 AATTT
1 AATTT
19237331 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 6 0.25
23 16 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTCATAAATTAAAAAAATA
Found at i:19241956 original size:28 final size:28
Alignment explanation
Indices: 19241924--19241979 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
19241914 CAAACTGTGA
*
19241924 CAGCAATTGAGAAGCACGCTATCTTTTG
1 CAGCAATTGACAAGCACGCTATCTTTTG
19241952 CAGCAATTGACAAGCACGCTATCTTTTG
1 CAGCAATTGACAAGCACGCTATCTTTTG
19241980 TGTATTCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (28 bp):
CAGCAATTGACAAGCACGCTATCTTTTG
Found at i:19243886 original size:27 final size:27
Alignment explanation
Indices: 19243856--19244033 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19243846 ATATTGAGTC
* * * *
19243856 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19243883 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19243910 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19243938 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19243965 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19243992 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19244019 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19244034 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19243995 original size:82 final size:81
Alignment explanation
Indices: 19243877--19244032 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19243867 TGCTATATAA
* *
19243877 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19243942 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19243959 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19244023 CACTTAGTGC
65 CACTTAGTGC
19244033 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:19250144 original size:46 final size:46
Alignment explanation
Indices: 19250094--19250204 Score: 222
Period size: 46 Copynumber: 2.4 Consensus size: 46
19250084 TGGTTGAGCA
19250094 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19250140 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19250186 TCCGAACTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGA
19250205 ATTTGAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19264469 original size:46 final size:46
Alignment explanation
Indices: 19264419--19264591 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
19264409 TGGTTGAGCA
19264419 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
19264465 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19264510 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
19264558 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19264592 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19264575 original size:93 final size:93
Alignment explanation
Indices: 19264416--19264586 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
19264406 GGATGGTTGA
* *
19264416 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19264481 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
19264509 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19264574 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
19264587 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:19267191 original size:48 final size:48
Alignment explanation
Indices: 19267120--19267334 Score: 213
Period size: 48 Copynumber: 4.5 Consensus size: 48
19267110 AGGGGATATA
* *
19267120 TTGATTTGGCTTCGGGCCATGATATTGGAACTTCGGGTGCGAGTTACT
1 TTGATTTGGCTTTGGGCCATGATATTGGAACTTCAGGTGCGAGTTACT
* *
19267168 TTGATTTGGCTTTGGGCCATGATATTGGCACTTCAGGTGCGAGTTATT
1 TTGATTTGGCTTTGGGCCATGATATTGGAACTTCAGGTGCGAGTTACT
* * * *
19267216 TTAATTTGGCTTTGAGCCATGATA-TCGACACTTCAGGTGCGAGCTT-CA
1 TTGATTTGGCTTTGGGCCATGATATTGGA-ACTTCAGGTGCGAG-TTACT
* ** * * ** *
19267264 TTGATTTGGCTATGACCCATGATATTAGCACTTTGGGTGCGAGATA-T
1 TTGATTTGGCTTTGGGCCATGATATTGGAACTTCAGGTGCGAGTTACT
*
19267311 ATTG-TGTTGGCTTCGGGCCATGAT
1 -TTGAT-TTGGCTTTGGGCCATGAT
19267335 GTGAGCACTT
Statistics
Matches: 138, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
47 4 0.03
48 130 0.94
49 4 0.03
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (48 bp):
TTGATTTGGCTTTGGGCCATGATATTGGAACTTCAGGTGCGAGTTACT
Found at i:19267344 original size:96 final size:95
Alignment explanation
Indices: 19267114--19267344 Score: 252
Period size: 96 Copynumber: 2.4 Consensus size: 95
19267104 GTCATTAGGG
* * *
19267114 GATATATTGATTTGGCTTCGGGCCATGATATTG-GAACTTCGGGTGCGAGTTACTTTGATTTGGC
1 GATATATTG-TTTGGCTTCGGGCCATGATA-TGAGCACTTCAGGTGCGAGTTACATTGATTTGGC
* ** *
19267178 TTTGGGCCATGATATTGGCACTTCAGGTGCGA
64 TATGACCCATGATATTAGCACTTCAGGTGCGA
* * * * *
19267210 GTTATTTTAATTTGGCTTTGAGCCATGATATCGA-CACTTCAGGTGCGAGCTT-CATTGATTTGG
1 GATATATT-GTTTGGCTTCGGGCCATGATAT-GAGCACTTCAGGTGCGAG-TTACATTGATTTGG
**
19267273 CTATGACCCATGATATTAGCACTTTGGGTGCGA
63 CTATGACCCATGATATTAGCACTTCAGGTGCGA
*
19267306 GATATATTGTGTTGGCTTCGGGCCATGATGTGAGCACTT
1 GATATATTGT-TTGGCTTCGGGCCATGATATGAGCACTT
19267345 AGTGTGCAAG
Statistics
Matches: 109, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
95 4 0.04
96 103 0.94
97 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (95 bp):
GATATATTGTTTGGCTTCGGGCCATGATATGAGCACTTCAGGTGCGAGTTACATTGATTTGGCTA
TGACCCATGATATTAGCACTTCAGGTGCGA
Found at i:19268935 original size:14 final size:14
Alignment explanation
Indices: 19268918--19268946 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19268908 AATAACTAAA
19268918 ATAAGTATTTTTGG
1 ATAAGTATTTTTGG
19268932 ATAAGTATTTTTGG
1 ATAAGTATTTTTGG
19268946 A
1 A
19268947 CTTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (14 bp):
ATAAGTATTTTTGG
Found at i:19271908 original size:19 final size:19
Alignment explanation
Indices: 19271874--19271910 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19271864 GGAAAAAATA
**
19271874 AAAAAAATAATTAGAAAAC
1 AAAAAAATAAAGAGAAAAC
19271893 AAAAAAATAAAGAGAAAA
1 AAAAAAATAAAGAGAAAA
19271911 TGAAGAATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (19 bp):
AAAAAAATAAAGAGAAAAC
Found at i:19273411 original size:4 final size:4
Alignment explanation
Indices: 19273402--19273452 Score: 59
Period size: 4 Copynumber: 12.5 Consensus size: 4
19273392 ATTTAATTGA
* *
19273402 TTAT TTAT TTAT TTAGT TAAT TTAAT TGA- TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTA-T TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TTAT
19273451 TT
1 TT
19273453 TTGAAAATAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 32 0.80
5 6 0.15
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:19273421 original size:29 final size:29
Alignment explanation
Indices: 19273388--19273445 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
19273378 TCTACAAATG
19273388 GTTAATTTAATTGATTATTTATTTATTTA
1 GTTAATTTAATTGATTATTTATTTATTTA
19273417 GTTAATTTAATTGATTATTTATTTATTTA
1 GTTAATTTAATTGATTATTTATTTATTTA
19273446 TTTATTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (29 bp):
GTTAATTTAATTGATTATTTATTTATTTA
Found at i:19279068 original size:3 final size:3
Alignment explanation
Indices: 19279060--19279084 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19279050 CGATTGCTCC
19279060 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
19279085 TTCAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19280929 original size:40 final size:40
Alignment explanation
Indices: 19280862--19280949 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
19280852 CGTTTGGTTA
* *
19280862 AAAAACGCCTCCATATATCGAGCATTAGCGACGCTTTCTG
1 AAAAACGCCGCCATAGATCGAGCATTAGCGACGCTTTCTG
* * * * *
19280902 AAAAACGCCGCTATAGATTGAGTATTAGCGATGCTTTTTG
1 AAAAACGCCGCCATAGATCGAGCATTAGCGACGCTTTCTG
*
19280942 ATAAACGC
1 AAAAACGC
19280950 TGCAAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCCATAGATCGAGCATTAGCGACGCTTTCTG
Found at i:19282107 original size:28 final size:28
Alignment explanation
Indices: 19282051--19282116 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
19282041 TTTTAGCCCT
* * *
19282051 TAAACCCTAAACTCTAAAGCCTAATCCC
1 TAAACCCTAAAATCTAAAGCCAAACCCC
* *
19282079 TAAACCTTAAAATCTAAAGGCAAACCCC
1 TAAACCCTAAAATCTAAAGCCAAACCCC
*
19282107 TAAATCCTAA
1 TAAACCCTAA
19282117 CCCATGAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.44, C:0.30, G:0.05, T:0.21
Consensus pattern (28 bp):
TAAACCCTAAAATCTAAAGCCAAACCCC
Found at i:19282167 original size:15 final size:14
Alignment explanation
Indices: 19282149--19282236 Score: 63
Period size: 15 Copynumber: 5.9 Consensus size: 14
19282139 TTTAAACCCC
19282149 AAACCATAAACCCTA
1 AAACC-TAAACCCTA
*
19282164 AAACCTTAAACTCTA
1 AAACC-TAAACCCTA
* *
19282179 GAAA-CTAAATCCTT
1 -AAACCTAAACCCTA
*
19282193 AAACCTTTAAACCC-C
1 AAACC--TAAACCCTA
19282208 AAACCATAAACCCTA
1 AAACC-TAAACCCTA
19282223 AAACTCTAAACCCT
1 AAAC-CTAAACCCT
19282237 GATAATAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
13 3 0.05
14 14 0.24
15 31 0.53
16 10 0.17
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (14 bp):
AAACCTAAACCCTA
Found at i:19283041 original size:148 final size:148
Alignment explanation
Indices: 19282773--19283074 Score: 362
Period size: 148 Copynumber: 2.0 Consensus size: 148
19282763 AACAAAAATG
* * * *
19282773 CCGCAAACATGTGTTAAGTGTTAGCAAAATGACGTCATTTTATGCTTTGTTTTTAGTGGCGCTTC
1 CCGCAAACATATGTTAAGTGTTACCAAAATGACGCCATTTTATGCTTTGTATTTAGTGGCGCTTC
* * *
19282838 GTTAAAAATGCCGCAAATATGTATTAGGAGTTCTCGAAACGACATCGTTTAGCCTTGTTATTAGT
66 GATAAAAATGCCACAAATATGTATTAAGAGTTCTCGAAACGACATCGTTTAGCCTTGTTATTAGT
*
19282903 GACATTTTGCCCAAAACA
131 GACATTTTGCACAAAACA
* * *
19282921 CCGCAAATATATGTTAAGTGTTTCCAAAATTG-CGCCGTTTTATGCTTTGTATTTAGTGGCGCTT
1 CCGCAAACATATGTTAAGTGTTACCAAAA-TGACGCCATTTTATGCTTTGTATTTAGTGGCGCTT
* * *
19282985 AC-AT-AAAATGCCACAAGTATGTATTAAGA-TT-TCGGAAAACGTCGTCGTTTTAGCCTTGTTA
65 -CGATAAAAATGCCACAAATATGTATTAAGAGTTCTC-G-AAACGACATCG-TTTAGCCTTGTTA
* * *
19283046 TTAGTGGCGTTTTGTACAAAACA
126 TTAGTGACATTTTGCACAAAACA
*
19283069 CTGCAA
1 CCGCAA
19283075 TGGACTATGC
Statistics
Matches: 131, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
145 2 0.02
146 3 0.02
147 31 0.24
148 92 0.70
149 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (148 bp):
CCGCAAACATATGTTAAGTGTTACCAAAATGACGCCATTTTATGCTTTGTATTTAGTGGCGCTTC
GATAAAAATGCCACAAATATGTATTAAGAGTTCTCGAAACGACATCGTTTAGCCTTGTTATTAGT
GACATTTTGCACAAAACA
Found at i:19283310 original size:19 final size:20
Alignment explanation
Indices: 19283286--19283336 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
19283276 CTTAACAAAA
19283286 TTTCCCCAAATCCCT-AACT
1 TTTCCCCAAATCCCTAAACT
* *
19283305 TTTCCCCTAATCCCTAAATT
1 TTTCCCCAAATCCCTAAACT
19283325 TTTCCCCAAATC
1 TTTCCCCAAATC
19283337 AAAGTTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.25, C:0.39, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTCCCCAAATCCCTAAACT
Done.