Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 34 of 344
Found at i:11615760 original size:20 final size:21
Alignment explanation
Indices: 11615737--11615784 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
11615727 TTTTTCACTT
** *
11615737 TTTAATTTTCTTTTATT-AAC
1 TTTAATTTAATTTAATTAAAC
11615757 TTTAATTTAATTTAATTAAAC
1 TTTAATTTAATTTAATTAAAC
11615778 TTTAATT
1 TTTAATT
11615785 ATTAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTAATTTAATTTAATTAAAC
Found at i:11615766 original size:11 final size:11
Alignment explanation
Indices: 11615752--11615784 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11615742 TTTTCTTTTA
11615752 TTAACTTTAAT
1 TTAACTTTAAT
11615763 TTAA-TTTAAT
1 TTAACTTTAAT
*
11615773 TAAACTTTAAT
1 TTAACTTTAAT
11615784 T
1 T
11615785 ATTAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (11 bp):
TTAACTTTAAT
Found at i:11620490 original size:27 final size:27
Alignment explanation
Indices: 11620458--11620512 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11620448 TTTGAGATGT
11620458 TAATTTTTCATATCATCTTTCTTGAGG
1 TAATTTTTCATATCATCTTTCTTGAGG
11620485 TAATTTTTCATATCATCTTTCTTGAGG
1 TAATTTTTCATATCATCTTTCTTGAGG
11620512 T
1 T
11620513 TCATTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.53
Consensus pattern (27 bp):
TAATTTTTCATATCATCTTTCTTGAGG
Found at i:11624414 original size:14 final size:14
Alignment explanation
Indices: 11624392--11624427 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
11624382 TTGGGGCATT
11624392 TGCATACATACATC
1 TGCATACATACATC
*
11624406 TGTATACATACATC
1 TGCATACATACATC
11624420 TGCATACA
1 TGCATACA
11624428 AAGTTTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (14 bp):
TGCATACATACATC
Found at i:11626661 original size:43 final size:42
Alignment explanation
Indices: 11626611--11626717 Score: 123
Period size: 41 Copynumber: 2.6 Consensus size: 42
11626601 TATGTGTTCT
* *
11626611 CGTGTAAGACCGCAT-T-TGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACC-CATGTCTGGGACATCGGCATC-ATAT-TGATTA
* *
11626654 CGTGTAAGA-CCATGTCTGGGACATCGGCATCATATTTATTT
1 CGTGTAAGACCCATGTCTGGGACATCGGCATCATATTGATTA
11626695 CGTGTAAGACCC-TGTCTGGGACA
1 CGTGTAAGACCCATGTCTGGGACA
11626718 ATGGCAATGA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
41 27 0.47
42 8 0.14
43 22 0.39
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCCATGTCTGGGACATCGGCATCATATTGATTA
Found at i:11626711 original size:41 final size:43
Alignment explanation
Indices: 11626600--11626735 Score: 133
Period size: 43 Copynumber: 3.2 Consensus size: 43
11626590 AGGATTTCCT
* *
11626600 ATATGTG-TTCTCGTGTAAGACCGCAT-T-TGGGACGTTGGCATCG
1 ATATGTGATT-TCGTGTAAGACC-C-TGTCTGGGACATCGGCATCG
* *
11626643 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATC-
1 ATATGTGATTTCGTGTAAGACCCTGTCTGGGACATCGGCATCG
*
11626685 ATAT-TTATTTCGTGTAAGACCCTGTCTGGGACAAT-GGCAAT-G
1 ATATGTGATTTCGTGTAAGACCCTGTCTGGGAC-ATCGGC-ATCG
11626727 ATATGTGAT
1 ATATGTGAT
11626736 AGCATGTAAC
Statistics
Matches: 78, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
41 29 0.37
42 13 0.17
43 34 0.44
44 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
ATATGTGATTTCGTGTAAGACCCTGTCTGGGACATCGGCATCG
Found at i:11626974 original size:20 final size:21
Alignment explanation
Indices: 11626939--11626977 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11626929 TTGCAAATCA
11626939 TATATGATGTAAATGAAAAAT
1 TATATGATGTAAATGAAAAAT
*
11626960 TATATG-TGTATATGAAAA
1 TATATGATGTAAATGAAAA
11626978 GTACATTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (21 bp):
TATATGATGTAAATGAAAAAT
Found at i:11629138 original size:25 final size:24
Alignment explanation
Indices: 11629000--11629140 Score: 95
Period size: 25 Copynumber: 5.8 Consensus size: 24
11628990 AGTCATGTAA
* * *
11629000 CGGGAAGCTCATAAAAGCCGTAAT
1 CGGGAAGCTCATAAGAGCCATTAT
* * * *
11629024 CTGGAAGTTCA-AGCGAGCCAATAT
1 CGGGAAGCTCATA-AGAGCCATTAT
***
11629048 CGGGAAGCTCCGGAGAGCCATTAAT
1 CGGGAAGCTCATAAGAGCCATT-AT
* *
11629073 CAGGAAGCTCATAAAAGCCAGTTAT
1 CGGGAAGCTCATAAGAGCCA-TTAT
* **
11629098 TGGGAAGCTCCCAAGAGCCATATAT
1 CGGGAAGCTCATAAGAGCCAT-TAT
*
11629123 CGGGACGCTCATAAGAGC
1 CGGGAAGCTCATAAGAGC
11629141 TGTGGTGTGT
Statistics
Matches: 85, Mismatches: 27, Indels: 9
0.70 0.22 0.07
Matches are distributed among these distances:
23 1 0.01
24 31 0.36
25 51 0.60
26 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (24 bp):
CGGGAAGCTCATAAGAGCCATTAT
Found at i:11631182 original size:47 final size:47
Alignment explanation
Indices: 11631108--11631206 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
11631098 ACCTAGACAC
* *
11631108 CCCAATTTGTTCGCAGGAATTCAAACACAACACGGCCAATTCGTTTT
1 CCCAATTTCTTCGCAGGAATTCAAACACAACACGGCCAATTCGTCTT
* * *
11631155 CCCAATTTCTTCGCGGGGATTCGAACACAACACGGCCAATTCGTCTT
1 CCCAATTTCTTCGCAGGAATTCAAACACAACACGGCCAATTCGTCTT
11631202 CCCAA
1 CCCAA
11631207 CCATACGCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (47 bp):
CCCAATTTCTTCGCAGGAATTCAAACACAACACGGCCAATTCGTCTT
Found at i:11631705 original size:13 final size:13
Alignment explanation
Indices: 11631687--11631742 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
11631677 TTGAATAATT
11631687 CTAAATATTATCA
1 CTAAATATTATCA
11631700 CTAAATATTATCA
1 CTAAATATTATCA
*
11631713 CTAAATA--AT-T
1 CTAAATATTATCA
11631723 CTAAATATTATCA
1 CTAAATATTATCA
11631736 CTAAATA
1 CTAAATA
11631743 ATTCTAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 7 0.18
11 2 0.05
12 2 0.05
13 27 0.71
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:11631720 original size:36 final size:36
Alignment explanation
Indices: 11631664--11631742 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
11631654 TAGATTTTTC
* * *
11631664 CTAAATATTATTATTGAATAATTCTAAATATTATCA
1 CTAAATATTATCACTAAATAATTCTAAATATTATCA
11631700 CTAAATATTATCACTAAATAATTCTAAATATTATCA
1 CTAAATATTATCACTAAATAATTCTAAATATTATCA
11631736 CTAAATA
1 CTAAATA
11631743 ATTCTAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (36 bp):
CTAAATATTATCACTAAATAATTCTAAATATTATCA
Found at i:11631726 original size:23 final size:23
Alignment explanation
Indices: 11631700--11631751 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
11631690 AATATTATCA
11631700 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
11631723 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
11631746 CTAAAT
1 CTAAAT
11631752 TTAAAAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:11631764 original size:23 final size:23
Alignment explanation
Indices: 11631700--11631764 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
11631690 AATATTATCA
** *
11631700 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
** *
11631723 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
11631746 CTAAAT-TTAAAAATCAAAT
1 CTAAATATTAAAAAT-AAAT
11631765 TTAAACTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 5 0.13
23 33 0.87
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTAAAAATAAATAATT
Found at i:11636336 original size:139 final size:139
Alignment explanation
Indices: 11636109--11636388 Score: 551
Period size: 139 Copynumber: 2.0 Consensus size: 139
11636099 AAATATTTTT
11636109 AAGATAAAAATATTGCTAAATAATATGCTTTTAAGCTTTTCAAAAGTGCTTTTAAAACAAAAAAA
1 AAGATAAAAATATTGCTAAATAATATGCTTTTAAGCTTTTCAAAAGTGCTTTTAAAACAAAAAAA
11636174 TACTTTACAAAAACACTTTTTTAGTCAAAAGTAGAAATATAAAATTTCAACTTTTGCTTTAAAAA
66 TACTTTACAAAAACACTTTTTTAGTCAAAAGTAGAAATATAAAATTTCAACTTTTGCTTTAAAAA
11636239 CACTTTTGA
131 CACTTTTGA
11636248 AAGATAAAAATATTGCTAAATAATATGCTTTTAAGCTTTTCAAAAGTGCTTTTAAAACAAAAAAA
1 AAGATAAAAATATTGCTAAATAATATGCTTTTAAGCTTTTCAAAAGTGCTTTTAAAACAAAAAAA
*
11636313 TACTTTGCAAAAACACTTTTTTAGTCAAAAGTAGAAATATAAAATTTCAACTTTTGCTTTAAAAA
66 TACTTTACAAAAACACTTTTTTAGTCAAAAGTAGAAATATAAAATTTCAACTTTTGCTTTAAAAA
11636378 CACTTTTGA
131 CACTTTTGA
11636387 AA
1 AA
11636389 AGCAATACTG
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 140 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (139 bp):
AAGATAAAAATATTGCTAAATAATATGCTTTTAAGCTTTTCAAAAGTGCTTTTAAAACAAAAAAA
TACTTTACAAAAACACTTTTTTAGTCAAAAGTAGAAATATAAAATTTCAACTTTTGCTTTAAAAA
CACTTTTGA
Found at i:11636582 original size:5 final size:5
Alignment explanation
Indices: 11636574--11636604 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
11636564 TATTAAATTA
*
11636574 ATTTT ATTTT ATTTT ATTTT ATTTC ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
11636605 CATGTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:11637138 original size:39 final size:39
Alignment explanation
Indices: 11637085--11637160 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
11637075 CGATCGGCGT
* *
11637085 TGTTTTTGGAGAGAG-ATAAAAATGTGCCCTGTAGGACG
1 TGTTTTTGGAGAGAGAATAAAAACGCGCCCTGTAGGACG
*
11637123 TGTTTTTAGGAGAGAGAATAAAAGCGCGCCCTGTAGGA
1 TGTTTTT-GGAGAGAGAATAAAAACGCGCCCTGTAGGA
11637161 TGCGTTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 7 0.21
39 8 0.24
40 18 0.55
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (39 bp):
TGTTTTTGGAGAGAGAATAAAAACGCGCCCTGTAGGACG
Found at i:11639150 original size:22 final size:22
Alignment explanation
Indices: 11639115--11639157 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11639105 CTACGATATT
* *
11639115 TACGGCCTTTAGCCGTTCTGTC
1 TACGGCATTAAGCCGTTCTGTC
11639137 TACGGCATTAAGCCGTTCTGT
1 TACGGCATTAAGCCGTTCTGT
11639158 TGACTTAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.28, G:0.23, T:0.35
Consensus pattern (22 bp):
TACGGCATTAAGCCGTTCTGTC
Found at i:11644575 original size:25 final size:25
Alignment explanation
Indices: 11644541--11644598 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
11644531 GAAAATTGAA
* * *
11644541 AAAAAAAAGTGTACATTTGGGATGT
1 AAAACAAAGTATACATTTGAGATGT
11644566 AAAACAAAGTATACATTTGAGATGT
1 AAAACAAAGTATACATTTGAGATGT
11644591 AAAACAAA
1 AAAACAAA
11644599 CTATGTGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.52, C:0.07, G:0.17, T:0.24
Consensus pattern (25 bp):
AAAACAAAGTATACATTTGAGATGT
Found at i:11646794 original size:12 final size:12
Alignment explanation
Indices: 11646777--11646802 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11646767 GAAAATAGGG
11646777 TTTTAGCGGCAT
1 TTTTAGCGGCAT
11646789 TTTTAGCGGCAT
1 TTTTAGCGGCAT
11646801 TT
1 TT
11646803 ATTCAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCAT
Found at i:11646903 original size:41 final size:41
Alignment explanation
Indices: 11646858--11647117 Score: 423
Period size: 41 Copynumber: 6.4 Consensus size: 41
11646848 CGTTTTACCA
* * *
11646858 AAAACGCCGCTAAAAACCACAGCATTGGCGACGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
11646899 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * *
11646940 AAAACGTCGC-AAAACCCAGAGCATTAGCGGCGCTTTTGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
11646980 AAAACGCCGCTAAAAACCAGAGCATTAACGGCGTTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
11647021 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
11647062 AAAACGCCGCTATAAACCAGAGCATTAGCGGCGCTTTTTGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
11647103 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
11647118 GTCATATAAC
Statistics
Matches: 202, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 37 0.18
41 165 0.82
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:11647045 original size:122 final size:123
Alignment explanation
Indices: 11646858--11647117 Score: 427
Period size: 122 Copynumber: 2.1 Consensus size: 123
11646848 CGTTTTACCA
**
11646858 AAAACGCCGCTAAAAACCACAGCATTGGCGACGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCACAGCATTAACGACGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
*
11646923 TTAGCGGCGCTTTTGGTAAAACGTCGC-A-AAACCCAGAGCATTAGCGGCGC-TTTTGAT
66 TTAGCGGCGCTTTTGGTAAAACGCCGCTATAAA-CCAGAGCATTAGCGGCGCTTTTTG-T
* * *
11646980 AAAACGCCGCTAAAAACCAGAGCATTAACGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCACAGCATTAACGACGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
11647045 TTAGCGGCGCTTTTGGTAAAACGCCGCTATAAACCAGAGCATTAGCGGCGCTTTTTGT
66 TTAGCGGCGCTTTTGGTAAAACGCCGCTATAAACCAGAGCATTAGCGGCGCTTTTTGT
11647103 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
11647118 GTCATATAAC
Statistics
Matches: 129, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
122 86 0.67
123 35 0.27
124 8 0.06
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (123 bp):
AAAACGCCGCTAAAAACCACAGCATTAACGACGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTTGGTAAAACGCCGCTATAAACCAGAGCATTAGCGGCGCTTTTTGT
Found at i:11647699 original size:7 final size:7
Alignment explanation
Indices: 11647685--11647739 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
11647675 TTGGGGTTTA
11647685 AGGT-TT
1 AGGTGTT
11647691 AGGTGTT
1 AGGTGTT
11647698 AGGTGTT
1 AGGTGTT
11647705 AGGTGTT
1 AGGTGTT
*
11647712 AGGGGTT
1 AGGTGTT
*
11647719 AGGAGTT
1 AGGTGTT
11647726 AAGG-GTT
1 -AGGTGTT
*
11647733 AAGTGTT
1 AGGTGTT
11647740 CATGATTCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
6 6 0.14
7 34 0.79
8 3 0.07
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (7 bp):
AGGTGTT
Found at i:11647713 original size:21 final size:22
Alignment explanation
Indices: 11647682--11647739 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
11647672 GGGTTGGGGT
*
11647682 TTAAGGT-TTAGGTGTTAGGTG
1 TTAAGGTGTTAGGTGTTAGGAG
*
11647703 TT-AGGTGTTAGGGGTTAGGAG
1 TTAAGGTGTTAGGTGTTAGGAG
*
11647724 TTAAGG-GTTAAGTGTT
1 TTAAGGTGTTAGGTGTT
11647740 CATGATTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.13
21 24 0.77
22 3 0.10
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
TTAAGGTGTTAGGTGTTAGGAG
Found at i:11648585 original size:33 final size:34
Alignment explanation
Indices: 11648539--11648610 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
11648529 AGTAGATATT
11648539 GAAGA-GAAGGAGAACGA-GGAAGAAGAAGAAGAA
1 GAAGAGGAAGGAGAA-GACGGAAGAAGAAGAAGAA
* * *
11648572 GAAGAGGAA-GAGAAGACGGGAGAGGAGGAAGAA
1 GAAGAGGAAGGAGAAGACGGAAGAAGAAGAAGAA
11648605 GAAGAG
1 GAAGAG
11648611 AGTGAAGATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 2 0.06
33 29 0.85
34 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.44, T:0.00
Consensus pattern (34 bp):
GAAGAGGAAGGAGAAGACGGAAGAAGAAGAAGAA
Found at i:11652926 original size:19 final size:19
Alignment explanation
Indices: 11652904--11652944 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11652894 TTTATTGATA
11652904 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
11652922 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
11652941 TTTT
1 TTTT
11652945 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:11653227 original size:43 final size:43
Alignment explanation
Indices: 11653180--11653386 Score: 261
Period size: 43 Copynumber: 4.8 Consensus size: 43
11653170 ATTTCATGGC
* *
11653180 CTTTAGCGGCATTTGTAGGAAAAGTGCCGCTAAAGGTCATGAT
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
* * ** *
11653223 CTTTAGTGGCGTTTGTGGGAAAAGCGTTGCCAAAGGTCATGAT
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
* * *
11653266 TTTTAGCGGCATTTGTGGGAAAAGTGCTGCTAAAGGTCATGAT
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
* * * *
11653309 CTTTAGCGGCATTTGTGGGAAAAGCGTCACTAAAGGCCATTAT
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
* * *
11653352 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTAAAG
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAG
11653387 ATTTTTCAAA
Statistics
Matches: 139, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 139 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
Found at i:11653324 original size:86 final size:86
Alignment explanation
Indices: 11653180--11653386 Score: 288
Period size: 86 Copynumber: 2.4 Consensus size: 86
11653170 ATTTCATGGC
* * *
11653180 CTTTAGCGGCATTTGTAGGAAAAGTGCCGCTAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAA
1 CTTTAGCGGCATTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGAAA
** *
11653245 AGCGTTGCCAAAGGTCATGAT
66 AGCGTCACCAAAGGCCATGAT
* *
11653266 TTTTAGCGGCATTTGTGGGAAAAGTGCTGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGAAA
1 CTTTAGCGGCATTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGAAA
* *
11653331 AGCGTCACTAAAGGCCATTAT
66 AGCGTCACCAAAGGCCATGAT
* * * *
11653352 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTAAAG
1 CTTTAGCGGCATTTGTGGGAAAAGTGCCGCTAAAG
11653387 ATTTTTCAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 105 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (86 bp):
CTTTAGCGGCATTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGAAA
AGCGTCACCAAAGGCCATGAT
Found at i:11654249 original size:16 final size:17
Alignment explanation
Indices: 11654227--11654276 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
11654217 TTGCTAAAAA
*
11654227 ATAAATAATAAAATTGC
1 ATAAATAATAAAATTAC
*
11654244 -TAAATATTAAAATATAC
1 ATAAATAATAAAAT-TAC
11654261 ATAAATAATAATAATT
1 ATAAATAATAA-AATT
11654277 CAACCAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 12 0.44
17 2 0.07
18 10 0.37
19 3 0.11
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
ATAAATAATAAAATTAC
Found at i:11660040 original size:26 final size:25
Alignment explanation
Indices: 11660011--11660173 Score: 78
Period size: 26 Copynumber: 6.6 Consensus size: 25
11660001 AATTACATGA
11660011 AAAAAAGATAATTTAAATGAAATAAG
1 AAAAAA-ATAATTTAAATGAAATAAG
* * *
11660037 --AAAAA-AATTTAAATTTACAT-GG
1 AAAAAAATAATTTAAA-TGAAATAAG
*
11660059 AATAAAATAATTTAAATGAAAT--G
1 AAAAAAATAATTTAAATGAAATAAG
* * *
11660082 -ACAAAA-AA-TTAAATTAAAATAGG
1 AAAAAAATAATTTAAA-TGAAATAAG
* *
11660105 AAGATAGATAATTTAAATGAAAT--G
1 AA-AAAAATAATTTAAATGAAATAAG
11660129 AAAAAAATTTAAATTTAAATGAAATAAGG
1 AAAAAAA--T-AATTTAAATGAAATAA-G
* *
11660158 AAAAAATTAAATTAAA
1 AAAAAAATAATTTAAA
11660174 ATGGAAAGAA
Statistics
Matches: 104, Mismatches: 16, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
20 5 0.05
21 7 0.07
22 14 0.13
23 10 0.10
24 16 0.15
25 11 0.11
26 28 0.27
27 6 0.06
29 7 0.07
ACGTcount: A:0.62, C:0.01, G:0.10, T:0.27
Consensus pattern (25 bp):
AAAAAAATAATTTAAATGAAATAAG
Found at i:11660069 original size:47 final size:45
Alignment explanation
Indices: 11660007--11660155 Score: 176
Period size: 47 Copynumber: 3.2 Consensus size: 45
11659997 AAAAAATTAC
* *
11660007 ATGAAAAAAAGATAATTTAAATGAAATAAGAAAAAAATTTAAATTTAC
1 ATGAAATAAA-ATAATTTAAATGAAAT--GAAAAAAATTTAAATTTAA
* *
11660055 ATGGAATAAAATAATTTAAATGAAATGACAAAAAA-TTAAATTAAA
1 ATGAAATAAAATAATTTAAATGAAATGA-AAAAAATTTAAATTTAA
*
11660100 ATAGGAAGAT-AGATAATTTAAATGAAATGAAAAAAATTTAAATTTAA
1 AT--GAA-ATAAAATAATTTAAATGAAATGAAAAAAATTTAAATTTAA
11660147 ATGAAATAA
1 ATGAAATAA
11660156 GGAAAAAATT
Statistics
Matches: 88, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
44 2 0.02
45 16 0.18
46 12 0.14
47 48 0.55
48 10 0.11
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (45 bp):
ATGAAATAAAATAATTTAAATGAAATGAAAAAAATTTAAATTTAA
Found at i:11660279 original size:19 final size:20
Alignment explanation
Indices: 11660243--11660283 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11660233 GTATATTAGG
*
11660243 AAAAAAATAAATTTAAATGA
1 AAAAAAATAAATTGAAATGA
*
11660263 AAAAAAATCAA-TGAAATGA
1 AAAAAAATAAATTGAAATGA
11660282 AA
1 AA
11660284 TGTAATTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAAAAATAAATTGAAATGA
Found at i:11660282 original size:5 final size:5
Alignment explanation
Indices: 11660272--11660319 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
11660262 AAAAAAAATC
* *
11660272 AATGA AATGA AATGTA ATTTGT AATGA ATATGA AATGA AATGA AATGA
1 AATGA AATGA AATG-A A-ATGA AATGA A-ATGA AATGA AATGA AATGA
11660320 TGATTATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 26 0.72
6 8 0.22
7 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (5 bp):
AATGA
Found at i:11660377 original size:19 final size:20
Alignment explanation
Indices: 11660355--11660439 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 20
11660345 AAATAAAAAT
11660355 AAAT-TATAAATTTAAATGA
1 AAATATATAAATTTAAATGA
* * *
11660374 AAATGAAAATAAAAACTGAAATGA
1 AAAT----ATATAAATTTAAATGA
*
11660398 TAAATAAATAAATTTAAATAGA
1 -AAATATATAAATTTAAAT-GA
11660420 AAAT-T-TAAATTTAAATGA
1 AAATATATAAATTTAAATGA
11660438 AA
1 AA
11660440 TGAAATGTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
18 4 0.08
19 15 0.29
21 14 0.27
22 2 0.04
24 12 0.24
25 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.29
Consensus pattern (20 bp):
AAATATATAAATTTAAATGA
Found at i:11660442 original size:5 final size:5
Alignment explanation
Indices: 11660432--11660462 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
11660422 ATTTAAATTT
11660432 AAATG AAATG AAATG TAAATG AAATG AAATG
1 AAATG AAATG AAATG -AAATG AAATG AAATG
11660463 GATATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (5 bp):
AAATG
Found at i:11660450 original size:16 final size:16
Alignment explanation
Indices: 11660390--11660462 Score: 69
Period size: 16 Copynumber: 4.4 Consensus size: 16
11660380 AAATAAAAAC
11660390 TGAAATGATAAAT-AAA
1 TGAAATG-TAAATGAAA
*
11660406 T-AAATTTAAATAGAAAA
1 TGAAATGTAAAT-G-AAA
* *
11660423 TTTAAATTTAAATGAAA
1 -TGAAATGTAAATGAAA
11660440 TGAAATGTAAATGAAA
1 TGAAATGTAAATGAAA
11660456 TGAAATG
1 TGAAATG
11660463 GATATTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
14 5 0.10
15 4 0.08
16 22 0.45
17 6 0.12
18 2 0.04
19 10 0.20
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (16 bp):
TGAAATGTAAATGAAA
Found at i:11661227 original size:52 final size:49
Alignment explanation
Indices: 11661169--11661294 Score: 135
Period size: 49 Copynumber: 2.5 Consensus size: 49
11661159 ATCATGTCTA
11661169 CATTACATGGTCAGCACCAAAAAAAATTTTTTTTTACATCTCTAGTGCCGAC
1 CATTACATGGTCAGCACC---AAAAATTTTTTTTTACATCTCTAGTGCCGAC
* * * * * * * *
11661221 TATTACATGGCCAGTACCCAAATTTTTTTTTTACATCTCTGGTGTCGGC
1 CATTACATGGTCAGCACCAAAAATTTTTTTTTACATCTCTAGTGCCGAC
*
11661270 CATTACATGGTCAGCATTCAAAAAT
1 CATTACATGGTCAGCA-CCAAAAAT
11661295 ATATATATTT
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
49 39 0.66
50 5 0.08
52 15 0.25
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (49 bp):
CATTACATGGTCAGCACCAAAAATTTTTTTTTACATCTCTAGTGCCGAC
Found at i:11670207 original size:19 final size:20
Alignment explanation
Indices: 11670164--11670207 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
11670154 AATACCTGGT
*
11670164 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATAC-TTCTG
*
11670185 AAAAGGTATTGATA-TTCTG
1 AAAAGGTATCGATACTTCTG
11670204 AAAA
1 AAAA
11670208 CTATCTATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (20 bp):
AAAAGGTATCGATACTTCTG
Found at i:11674425 original size:17 final size:17
Alignment explanation
Indices: 11674403--11674439 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
11674393 GCTACGAAAA
11674403 TAATTATAATAAATAAT
1 TAATTATAATAAATAAT
11674420 TAATTATAATAAATAAT
1 TAATTATAATAAATAAT
11674437 TAA
1 TAA
11674440 ATTTCTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATTATAATAAATAAT
Found at i:11674877 original size:12 final size:12
Alignment explanation
Indices: 11674862--11674892 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11674852 TTCTCTTTTA
11674862 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
11674874 TTTTTCTTTCTC
1 TTTTTCTTTCCC
11674886 TTTTTCT
1 TTTTTCT
11674893 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:11678564 original size:48 final size:49
Alignment explanation
Indices: 11678431--11678575 Score: 177
Period size: 50 Copynumber: 2.9 Consensus size: 49
11678421 TATGGCGTTG
*
11678431 ATATGAAATCCCATGTAGGACCATGTCTGGGACATGGCATTGGCATCGAC
1 ATATG-AATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAC
* *
11678481 ATATGAGATCCCATGTAAGACCATGTATGGGACATGTCATTGGCATCGA-
1 ATATGA-ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAC
* * * * *
11678530 GT-GGTAATCCCATGTAAGACCATATCTGGAACATGGCGTTGGCATC
1 ATATG-AATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
11678576 TTATTATGTG
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
48 36 0.43
49 3 0.04
50 44 0.53
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (49 bp):
ATATGAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAC
Found at i:11679550 original size:30 final size:30
Alignment explanation
Indices: 11679515--11679582 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
11679505 ACACAAAGGA
* *
11679515 AGAGACACGGTCGTGTGTCTCAACCGTGTG
1 AGAGACACGGCCATGTGTCTCAACCGTGTG
* *
11679545 AGAGACACGGCCATGTGTCTCGATCGTGTG
1 AGAGACACGGCCATGTGTCTCAACCGTGTG
11679575 AGAGACAC
1 AGAGACAC
11679583 AGCCTCAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.21
Consensus pattern (30 bp):
AGAGACACGGCCATGTGTCTCAACCGTGTG
Found at i:11682403 original size:23 final size:23
Alignment explanation
Indices: 11682373--11682427 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
11682363 TGCTTTGCCG
11682373 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
11682396 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
11682419 TTCAGGCAC
1 ATCAGGCAC
11682428 CTCATGTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:11682434 original size:23 final size:23
Alignment explanation
Indices: 11682374--11682459 Score: 97
Period size: 23 Copynumber: 3.9 Consensus size: 23
11682364 GCTTTGCCGA
* *
11682374 TCAGGCACTTTATGTGTCGTATA
1 TCAGGCACCTTATGTGTCGTATT
*
11682397 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
* * *
11682420 TCAGGCACCTCATGTATAGTA-T
1 TCAGGCACCTTATGTGTCGTATT
11682442 T-AGGCACC-TATGTGTCGT
1 TCAGGCACCTTATGTGTCGT
11682460 CTACTGATCA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 7 0.13
21 7 0.13
22 2 0.04
23 39 0.71
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:11685248 original size:12 final size:12
Alignment explanation
Indices: 11685231--11685255 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11685221 ATATCTAGAA
11685231 TTCTCTTCATTT
1 TTCTCTTCATTT
11685243 TTCTCTTCATTT
1 TTCTCTTCATTT
11685255 T
1 T
11685256 CATCAGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTCTTCATTT
Found at i:11688383 original size:16 final size:16
Alignment explanation
Indices: 11688364--11688398 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11688354 AATCTTTTAA
*
11688364 AAATTATAAAAATTAT
1 AAATTATAAAAATAAT
*
11688380 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
11688396 AAA
1 AAA
11688399 ATTACATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:11691181 original size:12 final size:12
Alignment explanation
Indices: 11691154--11691183 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
11691144 TTATAAAAAA
11691154 ATTAAAAATATT
1 ATTAAAAATATT
11691166 -TTAAAAATATT
1 ATTAAAAATATT
11691177 ATTAAAA
1 ATTAAAA
11691184 CTTCATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAAAAATATT
Found at i:11692324 original size:17 final size:15
Alignment explanation
Indices: 11692299--11692338 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
11692289 ATTTTTTGAA
11692299 TTTTTTATTTCTCATT
1 TTTTTTATTTCT-ATT
11692315 TTTTTATATTTCTATT
1 TTTTT-TATTTCTATT
11692331 TTTTTTAT
1 TTTTTTAT
11692339 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.13
16 13 0.57
17 7 0.30
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTATTTCTATT
Found at i:11693747 original size:16 final size:16
Alignment explanation
Indices: 11693726--11693757 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11693716 TTGGGTTCAA
11693726 TTATTAGACTTAATTT
1 TTATTAGACTTAATTT
11693742 TTATTAGACTTAATTT
1 TTATTAGACTTAATTT
11693758 GAGTTTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATTAGACTTAATTT
Found at i:11695427 original size:18 final size:21
Alignment explanation
Indices: 11695387--11695434 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
11695377 ATATTTAAAG
11695387 AAAA-AATTAAATAAATCATT
1 AAAATAATTAAATAAATCATT
11695407 AAAATAATTAAA-AAAT-A-T
1 AAAATAATTAAATAAATCATT
*
11695425 AAAATTATTA
1 AAAATAATTA
11695435 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 1 0.04
20 8 0.31
21 7 0.27
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATAATTAAATAAATCATT
Found at i:11701652 original size:21 final size:22
Alignment explanation
Indices: 11701612--11701652 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11701602 TTCTAAATAA
* *
11701612 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
11701634 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
11701653 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:11703525 original size:20 final size:20
Alignment explanation
Indices: 11703500--11703544 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
11703490 TTTTATTTAT
11703500 TAAAATAATAAAT-TTATAAA
1 TAAAATAAT-AATCTTATAAA
11703520 TAAAATAATAATCTTATAAA
1 TAAAATAATAATCTTATAAA
11703540 TAAAA
1 TAAAA
11703545 CAAATTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:11705285 original size:20 final size:21
Alignment explanation
Indices: 11705257--11705305 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
11705247 ACTTGACACT
* *
11705257 AAATCATTTGAGAAATAA-AA
1 AAATTATTTGAAAAATAATAA
*
11705277 AAATTATTTTAAAAATAATAA
1 AAATTATTTGAAAAATAATAA
*
11705298 ATATTATT
1 AAATTATT
11705306 ATAAAGGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
AAATTATTTGAAAAATAATAA
Found at i:11705305 original size:21 final size:20
Alignment explanation
Indices: 11705269--11705310 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
11705259 ATCATTTGAG
*
11705269 AAATAAAAAAATTATTTTAA
1 AAATAAAAAAATTATTATAA
*
11705289 AAATAATAAATATTATTATAA
1 AAATAA-AAAAATTATTATAA
11705310 A
1 A
11705311 GGTAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATAAAAAAATTATTATAA
Found at i:11709779 original size:31 final size:32
Alignment explanation
Indices: 11709744--11709810 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
11709734 TTTTTAGCTA
*
11709744 AATTTGACTCCCAATCTTTA-AAAAAA-AGTTG
1 AATTTGACTACCAAT-TTTACAAAAAAGAGTTG
**
11709775 AATTTGACTATTAATTTTACAAAAAAGAGTTG
1 AATTTGACTACCAATTTTACAAAAAAGAGTTG
11709807 AATT
1 AATT
11709811 ATTTTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.13
31 18 0.58
32 9 0.29
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (32 bp):
AATTTGACTACCAATTTTACAAAAAAGAGTTG
Found at i:11709927 original size:22 final size:22
Alignment explanation
Indices: 11709892--11709942 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
11709882 TATTTTATAT
11709892 ATTTTT-TTTAATTTTCATGAAC
1 ATTTTTATTTAATTTT-ATGAAC
* *
11709914 -TTTTTATTTTATTTTTTGAAC
1 ATTTTTATTTAATTTTATGAAC
11709935 ATTTTTAT
1 ATTTTTAT
11709943 AATTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (22 bp):
ATTTTTATTTAATTTTATGAAC
Found at i:11709949 original size:21 final size:20
Alignment explanation
Indices: 11709894--11709950 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
11709884 TTTTATATAT
* *
11709894 TTTTTTTAATTTTCATGAAC
1 TTTTTATAATTTTTATGAAC
*
11709914 TTTTTATTTTATTTTT-TGAAC
1 TTTTTA--TAATTTTTATGAAC
11709935 ATTTTTATAATTTTTA
1 -TTTTTATAATTTTTA
11709951 AATTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
20 12 0.41
21 5 0.17
22 12 0.41
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTATAATTTTTATGAAC
Found at i:11718169 original size:178 final size:178
Alignment explanation
Indices: 11717870--11719043 Score: 1533
Period size: 178 Copynumber: 6.6 Consensus size: 178
11717860 GACATCGGTG
* * * *
11717870 AAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGGTTGAAAATGGCGAGTCTTATCTC
1 AAATTTACAGATCTTATCTCCATGTATCGGCTATGAAGTAGATCGAAAATGGCGAGTCTTATCTC
* * * * * * *
11717935 TATGTATCAGCTATGGAGCAGATTTTGGCTACCAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAG
66 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAG
* *
11718000 CTTGAAGATACATGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
131 GTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * *
11718048 AAATTTACAGATATTATCTCCATGTATCGGCTATGAAGTAGATTGAAAATGGCGAGTCTTGTCTC
1 AAATTTACAGATCTTATCTCCATGTATCGGCTATGAAGTAGATCGAAAATGGCGAGTCTTATCTC
**
11718113 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTAAGGTAGCAAGAGAGCAG
66 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAG
* *
11718178 GTTGAAGATACAGGTCTTATCTTCCTAAGGTAGCTAA-GAAGCAGACTG
131 GTTGAAGATACAGGTCTTATCTTCCTGAGGTAGC-AAGGAAGCAGACTA
* * *
11718226 AAATTTACAGAT-TTATCTCCATGTATTGGCTATGGAA-TAGATCAAAAATGACGAGTCTTATCT
1 AAATTTACAGATCTTATCTCCATGTATCGGCTAT-GAAGTAGATCGAAAATGGCGAGTCTTATCT
* * * * *
11718289 CTATGTATCAGCTATGGAGTAGATTTTAGCCACTAACCTTATTTCTCTAAGGTAGCAAGAGAGCA
65 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCA
* * *
11718354 GGTTGAAGATATAGGTCTTATCTTCCTGAGTTAGCAAGGAAGCAGACTG
130 GGTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* *
11718403 AAATTTACAGATCTTATCTCCATGTATCGGCTAT-AGAGTAGATCAAAAATAGCGAGTCTTATCT
1 AAATTTACAGATCTTATCTCCATGTATCGGCTATGA-AGTAGATCGAAAATGGCGAGTCTTATCT
* *
11718467 CCATGTATCGACTATGGAGCAGATTTTAGCCACTAACCTTATCTCTCTAAGGTAGCAAGAGAGCA
65 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCA
* * *
11718532 TGTTGAAGATACAGGTCTTCTCTTCCTAAGGTAGCAAGGAAGCAGACTA
130 GGTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * * * *
11718581 AAATTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGATCGAAAATGGCGATTCTTATTTC
1 AAATTTACAGATCTTATCTCCATGTATCGGCTATGAAGTAGATCGAAAATGGCGAGTCTTATCTC
* *
11718646 CATGTATCGGCTATGCAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAG
66 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAG
* * * *
11718711 GTTGAAGATATAAGTCTTATCTTTCTGAGGTAGCAAGTAAGCAGACTA
131 GTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* *
11718759 AAATTTACAGATCTTATCTCCATGTATCGGCTATAGAA-TAGATCGAAAATGGTGACTCTTATCT
1 AAATTTACAGATCTTATCTCCATGTATCGGCTAT-GAAGTAGATCGAAAATGGCGAGTCTTATCT
* * * * *
11718823 CTATGTATCGGCTATGGAGCAGATTTTGGCCACCAACCTTATCTCTTTGAGGTAGTAAGAGAGCA
65 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCA
* * * * *
11718888 GGTTGAAGATACAAGTCTTAT-TGTCCTGAGTTA-C-AGTGGAGTAGACTG
130 GGTTGAAGATACAGGTCTTATCT-TCCTGAGGTAGCAAG-GAAGCAGACTA
* * * * * * * *
11718936 AAAGTTACAGATCTTATCTCC-T-TAAGCAG-TAGTGGAGCAGATCGAAGACGGCGAATCTTATC
1 AAATTTACAGATCTTATCTCCATGT-ATCGGCTA-TGAAGTAGATCGAAAATGGCGAGTCTTATC
* * * * *
11718998 TCCATGTATCAGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTC
64 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTC
11719044 CCTGAAGTTG
Statistics
Matches: 886, Mismatches: 97, Indels: 28
0.88 0.10 0.03
Matches are distributed among these distances:
175 5 0.01
176 69 0.08
177 185 0.21
178 623 0.70
179 4 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (178 bp):
AAATTTACAGATCTTATCTCCATGTATCGGCTATGAAGTAGATCGAAAATGGCGAGTCTTATCTC
CATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAG
GTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
Found at i:11718539 original size:355 final size:356
Alignment explanation
Indices: 11717868--11719048 Score: 1651
Period size: 355 Copynumber: 3.3 Consensus size: 356
11717858 GCGACATCGG
* *
11717868 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGGTTGAAAATGGCGAGTCTTATC
1 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * *
11717933 TCTATGTATCAGCTATGGAGCAGATTTTGGCTACCAGCCTTATCTCTCTGAGGTAGCAAAAGAGC
66 TCTATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGC
* * * *
11717998 AGCTTGAAGATACATGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATATT
131 AGGTTGAAGATATAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATCTT
* *
11718063 ATCTCCATGTATCGGCTAT-GAAGTAGATTGAAAATGGCGAGTCTTGTCTCCATGTATCGGCTAT
196 ATCTCCATGTATCGGCTATAG-AGTAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTAT
**
11718127 GGAGCAGATTTTAGCCACCAGTCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGG
260 GGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGG
11718192 TCTTATCTTCCTAAGGTAGCTAA-GAAGCAGAC
325 TCTTATCTTCCTAAGGTAGC-AAGGAAGCAGAC
* ** * *
11718224 TGAAATTTACAGAT-TTATCTCCATGTATTGGCTATGGAATAGATCAAAAATGACGAGTCTTATC
1 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * *
11718288 TCTATGTATCAGCTATGGAGTAGATTTTAGCCACTAACCTTATTTCTCTAAGGTAGCAAGAGAGC
66 TCTATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGC
* * *
11718353 AGGTTGAAGATATAGGTCTTATCTTCCTGAGTTAGCAAGGAAGCAGACTGAAATTTACAGATCTT
131 AGGTTGAAGATATAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATCTT
* * *
11718418 ATCTCCATGTATCGGCTATAGAGTAGATCAAAAATAGCGAGTCTTATCTCCATGTATCGACTATG
196 ATCTCCATGTATCGGCTATAGAGTAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
* *
11718483 GAGCAGATTTTAGCCACTAACCTTATCTCTCTAAGGTAGCAAGAGAGCATGTTGAAGATACAGGT
261 GAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGGT
*
11718548 CTTCTCTTCCTAAGGTAGCAAGGAAGCAGAC
326 CTTATCTTCCTAAGGTAGCAAGGAAGCAGAC
* * * *
11718579 TAAAATTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGATCGAAAATGGCGATTCTTATT
1 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * *
11718644 TCCATGTATCGGCTATGCAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGC
66 TCTATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGC
* *
11718709 AGGTTGAAGATATAAGTCTTATCTTTCTGAGGTAGCAAGTAAGCAGACTAAAATTTACAGATCTT
131 AGGTTGAAGATATAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATCTT
* * * *
11718774 ATCTCCATGTATCGGCTATAGAATAGATCGAAAATGGTGACTCTTATCTCTATGTATCGGCTATG
196 ATCTCCATGTATCGGCTATAGAGTAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
* * * * *
11718839 GAGCAGATTTTGGCCACCAACCTTATCTCTTTGAGGTAGTAAGAGAGCAGGTTGAAGATACAAGT
261 GAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGGT
* * * *
11718904 CTTAT-TGTCCTGAGTTA-C-AGTGGAGTAGAC
326 CTTATCT-TCCTAAGGTAGCAAG-GAAGCAGAC
* * * * * *
11718934 TGAAAGTTACAGATCTTATCTCC-T-TAAGCAG-TAGTGGAGCAGATCGAAGACGGCGAATCTTA
1 TGAAATTTACAGATCTTATCTCCATGT-ATCGGCTA-TGGAGCAGATCGAAAATGGCGAGTCTTA
* * * * * *
11718996 TCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGA
64 TCTCTATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGA
11719049 AGTTGCAGTG
Statistics
Matches: 732, Mismatches: 86, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
353 3 0.00
354 78 0.11
355 348 0.48
356 303 0.41
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (356 bp):
TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
TCTATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGC
AGGTTGAAGATATAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATCTT
ATCTCCATGTATCGGCTATAGAGTAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
GAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGGT
CTTATCTTCCTAAGGTAGCAAGGAAGCAGAC
Found at i:11718936 original size:533 final size:533
Alignment explanation
Indices: 11717868--11719043 Score: 1686
Period size: 533 Copynumber: 2.2 Consensus size: 533
11717858 GCGACATCGG
* *
11717868 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGGTTGAAAATGGCGAGTCTTATC
1 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * * *
11717933 TCTATGTATCAGCTATGGAGCAGATTTTGGCTACCAGCCTTATCTCTCTGAGGTAGCAAAAGAGC
66 TCCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTAAGGTAGCAAAAGAGC
* *
11717998 AGCTTGAAGATACATGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATATT
131 AGCTTGAAGATACAGGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTAAAATTTACAGATATT
* * * *
11718063 ATCTCCATGTATCGGCTATGAAGTAGATTGAAAATGGCGAGTCTTGTCTCCATGTATCGGCTATG
196 ATCTCCATATATCGGCTATGAAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
* ** *
11718128 GAGCAGATTTTAGCCACCAGTCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGGT
261 CAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
* *
11718193 CTTATCTTCCTAAGGTAGCTAAGAAGCAGACTGAAATTTACAGATTTATCTCCATGTATTGGCTA
326 CTTATCTTCCTAAGGTAGCTAAGAAGCAGACTAAAATTTACAGATTTATCTCCATGTATCGGCTA
* * * *
11718258 TGGAATAGATCAAAAATGACGAGTCTTATCTCTATGTATCAGCTATGGAGTAGATTTTAGCCACT
391 TAGAATAGATCAAAAATGACGACTCTTATCTCTATGTATCAGCTATGGAGCAGATTTTAGCCACC
* * *
11718323 AACCTTATTTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATATAGGTCTTATCTTCCTGAGTTAG
456 AACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGTTAG
11718388 CAAGGAAGCAGAC
521 CAAGGAAGCAGAC
* * * *
11718401 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATAGAGTAGATCAAAAATAGCGAGTCTTATC
1 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* *
11718466 TCCATGTATC-GACTATGGAGCAGATTTTAGCCACTAACCTTATCTCTCTAAGGTAGCAAGAGAG
66 TCCATGTATCAG-CTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTAAGGTAGCAAAAGAG
* *
11718530 CATG-TTGAAGATACAGGTCTTCTCTTCCTAAGGTAGCAAGGAAGCAGACTAAAATTTACAGATC
130 CA-GCTTGAAGATACAGGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTAAAATTTACAGATA
* * *
11718594 TTATCTCCATATATCGGCTATGGAGCAGATCGAAAATGGCGATTCTTATTTCCATGTATCGGCTA
194 TTATCTCCATATATCGGCTATGAAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTA
* *
11718659 TGCAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATATAA
259 TGCAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAA
* *
11718724 GTCTTATCTTTCTGAGGTAGC-AAGTAAGCAGACTAAAATTTACAGATCTTATCTCCATGTATCG
324 GTCTTATCTTCCTAAGGTAGCTAAG-AAGCAGACTAAAATTTACAGAT-TTATCTCCATGTATCG
* ** * *
11718788 GCTATAGAATAGATCGAAAATGGTGACTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTGGC
387 GCTATAGAATAGATCAAAAATGACGACTCTTATCTCTATGTATCAGCTATGGAGCAGATTTTAGC
* * *
11718853 CACCAACCTTATCTCTTTGAGGTAGTAAGAGAGCAGGTTGAAGATACAAGTCTTAT-TGTCCTGA
452 CACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCT-TCCTGA
* *
11718917 GTTA-C-AGTGGAGTAGAC
516 GTTAGCAAG-GAAGCAGAC
* * * * * *
11718934 TGAAAGTTACAGATCTTATCTCC-T-TAAGCAG-TAGTGGAGCAGATCGAAGACGGCGAATCTTA
1 TGAAATTTACAGATCTTATCTCCATGT-ATCGGCTA-TGGAGCAGATCGAAAATGGCGAGTCTTA
* *
11718996 TCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTC
64 TCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTC
11719044 CCTGAAGTTG
Statistics
Matches: 570, Mismatches: 64, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
531 3 0.01
532 74 0.13
533 361 0.63
534 132 0.23
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (533 bp):
TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
TCCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTAAGGTAGCAAAAGAGC
AGCTTGAAGATACAGGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTAAAATTTACAGATATT
ATCTCCATATATCGGCTATGAAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
CAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
CTTATCTTCCTAAGGTAGCTAAGAAGCAGACTAAAATTTACAGATTTATCTCCATGTATCGGCTA
TAGAATAGATCAAAAATGACGACTCTTATCTCTATGTATCAGCTATGGAGCAGATTTTAGCCACC
AACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGTTAG
CAAGGAAGCAGAC
Found at i:11725272 original size:44 final size:45
Alignment explanation
Indices: 11725219--11725321 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
11725209 TGTCTTTGAC
* * * *
11725219 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
11725263 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
11725309 ATGGACTTACATG
1 ATGGACTTACATG
11725322 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:11725320 original size:46 final size:44
Alignment explanation
Indices: 11725241--11725326 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
11725231 GAATTATTCT
*
11725241 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
*
11725285 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
11725327 TTTCTGTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
Found at i:11727416 original size:16 final size:16
Alignment explanation
Indices: 11727395--11727432 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11727385 TTAGGGTTAA
11727395 GGTTTTGAGAATTTT-G
1 GGTTTTGA-AATTTTAG
*
11727411 GGTTTTTAAATTTTAG
1 GGTTTTGAAATTTTAG
11727427 GGTTTT
1 GGTTTT
11727433 AAGGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.55
Consensus pattern (16 bp):
GGTTTTGAAATTTTAG
Found at i:11727549 original size:96 final size:99
Alignment explanation
Indices: 11727429--11727605 Score: 236
Period size: 96 Copynumber: 1.8 Consensus size: 99
11727419 AATTTTAGGG
* * ** *
11727429 TTTTAAGGAAAAAAATAAAATAAATTAAGGTCTAGTATTTGTTAATTAAATTAATTACT-AA-TT
1 TTTTAAAGAAAAAAATAAAATAAATTAAGGTCTAGGATTACTTAAGTAAATTAATTA-TAAATTT
11727492 T-AAAAAAATTAGATTATGGCTTAGTGTTTATGGT
65 TAAAAAAAATTAGATTATGGCTTAGTGTTTATGGT
* * * *
11727526 TTTTAAAG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTT
1 TTTTAAAGAAAAAAATAAAATAAATTAAGGTCTAGGATTACTTAAGTAAATTAATTATAAATTTT
11727590 AAAAAAAATTAGATTA
66 AAAAAAAATTAGATTA
11727606 GGATTTTAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
95 1 0.01
96 42 0.62
97 10 0.15
98 15 0.22
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.38
Consensus pattern (99 bp):
TTTTAAAGAAAAAAATAAAATAAATTAAGGTCTAGGATTACTTAAGTAAATTAATTATAAATTTT
AAAAAAAATTAGATTATGGCTTAGTGTTTATGGT
Found at i:11727623 original size:15 final size:15
Alignment explanation
Indices: 11727603--11727632 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11727593 AAAAATTAGA
11727603 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
11727618 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
11727633 ATTTAAAAAA
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:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:11727998 original size:126 final size:126
Alignment explanation
Indices: 11727713--11728250 Score: 821
Period size: 125 Copynumber: 4.3 Consensus size: 126
11727703 AAAAGCTTCT
* *
11727713 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTACGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
11727778 ATAGTGTCAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGT-AAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
11727840 ACGTGGATGCTCTTTTCCTACAGTA-TATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
** *
11727904 ATAGTGTAAAAAATACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
11727965 ACGTGAACGCTCTTTTGCTACAATAGTCTCTG-AAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
11728029 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * **
11728090 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGATGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
11728155 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
11728216 ACGTGGACGCTCTTTTGCTATAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
11728251 TAACTTGGGC
Statistics
Matches: 374, Mismatches: 33, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
125 185 0.49
126 166 0.44
127 23 0.06
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:11728159 original size:251 final size:251
Alignment explanation
Indices: 11727705--11728235 Score: 841
Period size: 251 Copynumber: 2.1 Consensus size: 251
11727695 TAATATAAAA
* *
11727705 AAGCTTCTACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAAATTTGAGAAGACGTGT
11727770 CTACGCAAATAGTGTCAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAG
66 CTACGCAAATAGTGT-AAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAG
*
11727835 CTCCCACGTGGATGCTCTTTTCCTACAGTATATCTGAAAAAATAATTTTGAGAAGACGTGTCTGT
130 CTCCCACGTGGATGCTCTTTTCCTACAGTATATCTGAAAAAATAATTTTGAGAAGACGTGTCTGC
* *
11727900 GCAAATAGTGTAAAAAATACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
195 ACAAATAGTGTAAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* *
11727957 AAGCTTCCACGTGAACGCTCTTTTGCTACAATAGTCTCTG-AAAAATAATTTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAAATTTGAGAAGACGTGT
* * * *
11728021 CTGCGCAAATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAG
66 CTACGCAAATAGT-GTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAG
* * * *
11728085 CTCCCACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGATGTGTCTG
130 CTCCCACGTGGATGCTCTTTTCCTACAGT-ATATCTGAAAAAATAATTTTGAGAAGACGTGTCTG
* * * *
11728150 CATAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAG
194 CACAAATAGTGTAAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
*
11728208 AAGCTCCCACGTGGACGCTCTTTTGCTA
1 AAGCTTCCACGTGGACGCTCTTTTGCTA
11728236 TAGTGGTTTC
Statistics
Matches: 256, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
250 73 0.29
251 144 0.56
252 39 0.15
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (251 bp):
AAGCTTCCACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAAATTTGAGAAGACGTGT
CTACGCAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGC
TCCCACGTGGATGCTCTTTTCCTACAGTATATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCA
CAAATAGTGTAAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:11731699 original size:18 final size:18
Alignment explanation
Indices: 11731672--11731709 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
11731662 GAAAAAGAAA
*
11731672 ACATATAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
11731690 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
11731708 AC
1 AC
11731710 GTACCTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.18
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:11733519 original size:22 final size:22
Alignment explanation
Indices: 11733507--11733556 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
11733497 TAACGAGAGT
11733507 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
* *
11733529 TTTGAGA-G-ATTTGAGAGGAA
1 TTTGAGAGGAATTTAAGAGAAA
11733549 TTTGAGAG
1 TTTGAGAG
11733557 AATATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.68
21 1 0.04
22 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:11733564 original size:11 final size:10
Alignment explanation
Indices: 11733507--11733564 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
11733497 TAACGAGAGT
11733507 TTTGAGAGGAA
1 TTTGAGA-GAA
*
11733518 TTTAAGAGAAA
1 TTTGAGAG-AA
11733529 TTTGAGAG-A
1 TTTGAGAGAA
11733538 TTTGAGAGGAA
1 TTTGAGA-GAA
11733549 TTTGAGAGAA
1 TTTGAGAGAA
11733559 TATTGA
1 T-TTGA
11733565 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 8 0.20
10 6 0.15
11 27 0.66
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:11733570 original size:31 final size:31
Alignment explanation
Indices: 11733507--11733570 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
11733497 TAACGAGAGT
*
11733507 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
*
11733538 TTTGAGAGGAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGGAATTTAAGAGAAAT-TTGAAAGA
11733569 TT
1 TT
11733571 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
Found at i:11740346 original size:4 final size:4
Alignment explanation
Indices: 11740337--11740361 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11740327 AGGATATTAT
11740337 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
11740362 CAGGCGTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:11743101 original size:78 final size:77
Alignment explanation
Indices: 11742948--11743206 Score: 297
Period size: 78 Copynumber: 3.3 Consensus size: 77
11742938 CAACAAGAGA
* ** * * * * *
11742948 TTGTTTGATTTCTGTTTCAAACATAAAGCCAATTAAACATTCCTGTTTTAGGATTTTACTCTTGC
1 TTGTTTGATTTCTGTTTCAAACAGAAATTCAATTGAACACTCCTGTTTCAGGA-TTTATTCCTGC
* *
11743013 CATTTTACAGGAT
65 CGTTTAACAGGAT
* * *
11743026 TTGTTTGATTTCTGTTTCAAACAGAAATTCAATTGAACACTCTTGTTTCAAGACTCTATTCCTGC
1 TTGTTTGATTTCTGTTTCAAACAGAAATTCAATTGAACACTCCTGTTTCAGGA-TTTATTCCTGC
11743091 CGTTTAACAGGAT
65 CGTTTAACAGGAT
* * * *
11743104 TTGTTTGACTTCTATTTCAAAACA-AGAATT-AATTGAACACTCCCGTTTCAGGATTTTTTCCTG
1 TTGTTTGATTTCTGTTTC-AAACAGA-AATTCAATTGAACACTCCTGTTTCAGGATTTATTCCTG
*
11743167 CCGTTTAATAGGAT
64 CCGTTTAACAGGAT
*
11743181 TTGTTTGATTTTTGTTTCAAACAGAA
1 TTGTTTGATTTCTGTTTCAAACAGAA
11743207 TCTCTATTGT
Statistics
Matches: 153, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
76 6 0.04
77 37 0.24
78 101 0.66
79 9 0.06
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (77 bp):
TTGTTTGATTTCTGTTTCAAACAGAAATTCAATTGAACACTCCTGTTTCAGGATTTATTCCTGCC
GTTTAACAGGAT
Found at i:11752588 original size:30 final size:30
Alignment explanation
Indices: 11752554--11752613 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
11752544 ACTTAACAAG
*
11752554 CAAATGCCTCTAAAATAATAACAGAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
11752584 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
11752614 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:11752671 original size:22 final size:22
Alignment explanation
Indices: 11752645--11752693 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11752635 ATATCCAAAC
11752645 AATAACAATAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
* * * *
11752667 CATAATAGTAAAATGGTAGCAA
1 AATAACAATAAAATAGTAGCAA
11752689 AATAA
1 AATAA
11752694 GGAGAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.20
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:11752701 original size:22 final size:22
Alignment explanation
Indices: 11752653--11752703 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
11752643 ACAATAACAA
* *
11752653 TAAAATAGTAGCAACATAATAG
1 TAAAATAGTAGCAAAATAAGAG
*
11752675 TAAAATGGTAGCAAAATAAGGAG
1 TAAAATAGTAGCAAAATAA-GAG
11752698 -AAAATA
1 TAAAATA
11752704 ACAAGAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.57, C:0.06, G:0.18, T:0.20
Consensus pattern (22 bp):
TAAAATAGTAGCAAAATAAGAG
Found at i:11762837 original size:22 final size:22
Alignment explanation
Indices: 11762806--11762850 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11762796 AGGCCGGGTT
*
11762806 GGGGAAGTTACACTTTCACACG
1 GGGGAAGTTACACTCTCACACG
*
11762828 GGGGAGGTTACACTCTCACACG
1 GGGGAAGTTACACTCTCACACG
11762850 G
1 G
11762851 AAACCATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.20
Consensus pattern (22 bp):
GGGGAAGTTACACTCTCACACG
Found at i:11770259 original size:18 final size:18
Alignment explanation
Indices: 11770224--11770258 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11770214 TTTCCTGTTA
11770224 ATTTCTCACTCAAATTTT
1 ATTTCTCACTCAAATTTT
*
11770242 ATTTCTCTCTC-AATTTT
1 ATTTCTCACTCAAATTTT
11770259 TTTATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTCTCACTCAAATTTT
Found at i:11773247 original size:43 final size:43
Alignment explanation
Indices: 11773189--11773354 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
11773179 GTTATCGAGA
* * * *
11773189 TGTGGTTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
11773232 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *** * *
11773275 TATGATTTTGTGTAAGACCCTATCTGGGACAATGGCATCG-AT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
11773317 ATGTGATAACATGTAAGACCATATTTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
11773355 TGTACGAGAT
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
42 8 0.08
43 96 0.92
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:11776129 original size:24 final size:24
Alignment explanation
Indices: 11776102--11776150 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
11776092 AGTGGCGCTG
*
11776102 TACAGATTTTAAGTCATGATGCTA
1 TACAAATTTTAAGTCATGATGCTA
*
11776126 TACAAATTTTGAGTCATGATGCTA
1 TACAAATTTTAAGTCATGATGCTA
11776150 T
1 T
11776151 GTTTAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (24 bp):
TACAAATTTTAAGTCATGATGCTA
Found at i:11778181 original size:24 final size:25
Alignment explanation
Indices: 11778143--11778193 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
11778133 AATTATTCAA
*
11778143 TTTATTTTATTTTTATATATATTTG
1 TTTATTTTATATTTATATATATTTG
*
11778168 TTTA-TTTATATTTATATATTTTTG
1 TTTATTTTATATTTATATATATTTG
11778192 TT
1 TT
11778194 CGCTAACGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (25 bp):
TTTATTTTATATTTATATATATTTG
Found at i:11786754 original size:18 final size:18
Alignment explanation
Indices: 11786727--11786761 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11786717 TTTATCATAC
11786727 TTATATTTTTTATAGTAAT
1 TTATATTTTTTAT-GTAAT
11786746 TTATA-TTTTTATGTAA
1 TTATATTTTTTATGTAA
11786762 CTATGGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
TTATATTTTTTATGTAAT
Found at i:11789685 original size:19 final size:19
Alignment explanation
Indices: 11789661--11789704 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
11789651 TTGGCATTTT
11789661 AATGAAATAAAATGGGAAA
1 AATGAAATAAAATGGGAAA
11789680 AATGAAATAAAATGGGAAA
1 AATGAAATAAAATGGGAAA
11789699 AATGAA
1 AATGAA
11789705 CCAAAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (19 bp):
AATGAAATAAAATGGGAAA
Found at i:11789710 original size:19 final size:19
Alignment explanation
Indices: 11789661--11789710 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
11789651 TTGGCATTTT
*
11789661 AATGAAATAAAATGGGAAA
1 AATGAAACAAAATGGGAAA
*
11789680 AATGAAATAAAATGGGAAA
1 AATGAAACAAAATGGGAAA
*
11789699 AATGAACCAAAA
1 AATGAAACAAAA
11789711 ATCATCTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.64, C:0.04, G:0.18, T:0.14
Consensus pattern (19 bp):
AATGAAACAAAATGGGAAA
Found at i:11792828 original size:5 final size:5
Alignment explanation
Indices: 11792811--11792875 Score: 60
Period size: 5 Copynumber: 12.6 Consensus size: 5
11792801 TAGGAAAGTC
*
11792811 TTATT TTACT TTATT TTATT TTA-T TTATTT TTATT TTATTT TTGATT
1 TTATT TTATT TTATT TTATT TTATT TTA-TT TTATT TTA-TT TT-ATT
* **
11792858 TTATA TTAAA TTATT TTA
1 TTATT TTATT TTATT TTA
11792876 GGCTAAATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
4 4 0.08
5 33 0.66
6 12 0.24
7 1 0.02
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (5 bp):
TTATT
Found at i:11794966 original size:17 final size:17
Alignment explanation
Indices: 11794944--11794989 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
11794934 ACATGCACGC
11794944 TTGTATGAGATACA-TGA
1 TTGTATGAGATA-AGTGA
11794961 TTGTAT-AGGATAAGTGA
1 TTGTATGA-GATAAGTGA
11794978 TTGTATGGAGAT
1 TTGTAT-GAGAT
11794990 CATTACAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 2 0.08
17 19 0.76
18 3 0.12
19 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.37
Consensus pattern (17 bp):
TTGTATGAGATAAGTGA
Found at i:11799515 original size:15 final size:15
Alignment explanation
Indices: 11799495--11799524 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11799485 ATATGTAAGA
11799495 GTAGTGGATGCTGAT
1 GTAGTGGATGCTGAT
11799510 GTAGTGGATGCTGAT
1 GTAGTGGATGCTGAT
11799525 TTCAATATAA
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:0.20, C:0.07, G:0.40, T:0.33
Consensus pattern (15 bp):
GTAGTGGATGCTGAT
Found at i:11801260 original size:20 final size:20
Alignment explanation
Indices: 11801235--11801281 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
11801225 AATAAGAAAG
11801235 ATATAAATAATA-TCAATAT-A
1 ATATAAAT-ATAGT-AATATCA
11801255 ATATAAATATAGTAATATCA
1 ATATAAATATAGTAATATCA
11801275 ATATAAA
1 ATATAAA
11801282 AACAAATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATAAATATAGTAATATCA
Found at i:11803211 original size:86 final size:87
Alignment explanation
Indices: 11803099--11803332 Score: 251
Period size: 88 Copynumber: 2.7 Consensus size: 87
11803089 CAGGGAGATC
** * * *
11803099 AGATCTGCAATTCTTCAACCAGCTCCACTGTAATCGATG-GATGCAAGGCTTTGT-T-TTCGATC
1 AGATCTGC--TTCTTCAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTGTGTCTTCGACC
* * *
11803161 TGCTTCGCTATTAATGTAGGAAGGCA
62 TGCTTCACTATCAATGCAGGAAGGCA
* *
11803187 AGATCTGCTTCTTTAACCAGCTCCACTACAACCGAGAGAGGTAAGGTTTGTGTCTTCGACCTGCT
1 AGATCTGCTTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCT
*
11803252 TCACTGTCAATGCAGGAAGGCA
66 TCACTATCAATGCAGGAAGGCA
** * *
11803274 AGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAAAGAGGCACGGTTTGTGTCTTCG
1 AGATCTGCT-TCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGTGTCTTCG
11803333 CTTCCATCTA
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
85 6 0.05
86 31 0.25
87 36 0.29
88 51 0.41
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
AGATCTGCTTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCT
TCACTATCAATGCAGGAAGGCA
Found at i:11803543 original size:44 final size:43
Alignment explanation
Indices: 11803494--11803846 Score: 178
Period size: 44 Copynumber: 8.2 Consensus size: 43
11803484 ATCTACTCTG
* *
11803494 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTT-TTTTAATCTGCTCCA
* * ** * ** *
11803538 CTGTAACTTCAGGGAGATAGGATAGTGTTTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTTAATCTGCTCCA
* ***
11803581 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTTAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-CTTTTTTTAATCTGCTCCA
* * ** **
11803625 CTGTAACCTCAGGGAGATAAGATCCGAAATTCTTTGGTCTATTCCA
1 CTGTAACCTCAGGGAGATAAGATCC---TTTTTTTAATCTGCTCCA
* **** * * *
11803671 CTGTAATCTCAGGGAGATAAGA-CC-TGACGTGATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTTAATCTGCTCCA
* * *
11803712 CTGTAACTTCAGAGAGATAAGATCC----TTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTTAATCTGCTCCA
* * * * * * * * * *
11803751 TTGTAATCTCAAGGAGATAGGATTACTATCTCTGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCTTTTTTTAATCTGCTCCA
* ** * * *
11803795 CTGTAATCTCAGGGAGATAAGATCCGAATCTTTAACCAGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCC-TTTTTTTAATCTGCTCCA
11803839 CTGTAACC
1 CTGTAACC
11803847 AATGAAGGCA
Statistics
Matches: 230, Mismatches: 68, Indels: 22
0.72 0.21 0.07
Matches are distributed among these distances:
39 24 0.10
40 2 0.01
41 28 0.12
42 2 0.01
43 34 0.15
44 106 0.46
45 2 0.01
46 32 0.14
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTTTTTAATCTGCTCCA
Found at i:11803598 original size:87 final size:87
Alignment explanation
Indices: 11803482--11803643 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 87
11803472 AGACCTGATG
* * * *
11803482 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTTAATCCGCTCCACTGTAACC
11803546 TCAGGGAGATAGGATAGTGTTTT
65 TCAGGGAGATAGGATAGTGTTTT
* * * * *
11803569 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTTAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTTAATCCGCTCCACTGTAACCT
11803634 CAGGGAGATA
66 CAGGGAGATA
11803644 AGATCCGAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
87 64 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTTAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTTTT
Found at i:11808670 original size:19 final size:20
Alignment explanation
Indices: 11808641--11808689 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
11808631 CACTTCGTGA
* *
11808641 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
11808660 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
11808680 AAATG-AATGC
1 AAATGTAATGC
11808690 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:11810831 original size:20 final size:20
Alignment explanation
Indices: 11810806--11810852 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
11810796 AATAAGAAAG
11810806 ATATAAATAATA-TCAATAT-A
1 ATATAAAT-ATAGT-AATATCA
11810826 ATATAAATATAGTAATATCA
1 ATATAAATATAGTAATATCA
11810846 ATATAAA
1 ATATAAA
11810853 AACAAATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATAAATATAGTAATATCA
Found at i:11811716 original size:33 final size:34
Alignment explanation
Indices: 11811665--11811735 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
11811655 ACGGAAAAGA
11811665 AAAAAAAACACCCTTTTTTATTTCTGTTTTCTTC
1 AAAAAAAACACCCTTTTTTATTTCTGTTTTCTTC
11811699 AAAAAAAACACCCTTTTTTATTTCTGTTTTCTTC
1 AAAAAAAACACCCTTTTTTATTTCTGTTTTCTTC
11811733 AAA
1 AAA
11811736 TCTTGCAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.45
Consensus pattern (34 bp):
AAAAAAAACACCCTTTTTTATTTCTGTTTTCTTC
Found at i:11813341 original size:5 final size:5
Alignment explanation
Indices: 11813331--11813358 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11813321 CTCCATTTTC
11813331 TCCCA TCCCA TCCCA TCCCA TCCCA TCC
1 TCCCA TCCCA TCCCA TCCCA TCCCA TCC
11813359 TATGCTTTGA
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:0.18, C:0.61, G:0.00, T:0.21
Consensus pattern (5 bp):
TCCCA
Found at i:11822154 original size:5 final size:5
Alignment explanation
Indices: 11822144--11822176 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
11822134 TTTTAGTTAT
11822144 TATAA TATAA TATAA TATAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATA
11822177 CTTAACATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:11822229 original size:41 final size:40
Alignment explanation
Indices: 11822159--11822235 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
11822149 TATAATATAA
*
11822159 TATAATATAATATATATACTTAACATTTAAGTTTTAATAT
1 TATAATATAATATATATACTTAACATTTAAATTTTAATAT
* *
11822199 TATAATATTATGATATATATTTTAAC-TTTAAATTTTA
1 TATAATATAAT-ATATATA-CTTAACATTTAAATTTTA
11822236 TAAATATCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 10 0.31
41 17 0.53
42 5 0.16
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (40 bp):
TATAATATAATATATATACTTAACATTTAAATTTTAATAT
Found at i:11822796 original size:39 final size:39
Alignment explanation
Indices: 11822753--11822831 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
11822743 TGACTCTTTT
*
11822753 AAGATGTTTTGGTTTCTCATTTCCTTCATTTGAAATCAG
1 AAGATGTTTTGGTTTCTCATTTCCCTCATTTGAAATCAG
11822792 AAGATGTTTTGGTTTCTCATTTCCCTCATTTGAAATCAG
1 AAGATGTTTTGGTTTCTCATTTCCCTCATTTGAAATCAG
11822831 A
1 A
11822832 TCACAGTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.44
Consensus pattern (39 bp):
AAGATGTTTTGGTTTCTCATTTCCCTCATTTGAAATCAG
Found at i:11824517 original size:17 final size:19
Alignment explanation
Indices: 11824490--11824529 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
11824480 AGGCCAAATT
11824490 GGGCTGTGTGA-GCCACAC
1 GGGCTGTGTGAGGCCACAC
*
11824508 GGGC-GTGTGAGGTCACAC
1 GGGCTGTGTGAGGCCACAC
11824526 GGGC
1 GGGC
11824530 AGGCTACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.15, C:0.25, G:0.45, T:0.15
Consensus pattern (19 bp):
GGGCTGTGTGAGGCCACAC
Found at i:11828249 original size:24 final size:24
Alignment explanation
Indices: 11828220--11828275 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
11828210 CAGTATATAA
*
11828220 ATTTTAAATTGACTT-ATATTACTT
1 ATTTTAAATT-ACTTCATATGACTT
* *
11828244 ATTTTAAATTATTTCATATGCCTT
1 ATTTTAAATTACTTCATATGACTT
11828268 ATTTTAAA
1 ATTTTAAA
11828276 CTCTTTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTTAAATTACTTCATATGACTT
Found at i:11828372 original size:32 final size:31
Alignment explanation
Indices: 11828317--11828399 Score: 105
Period size: 32 Copynumber: 2.7 Consensus size: 31
11828307 TAATATTCTT
* * * *
11828317 TATA-ATATTTATTTTACACTTTTATATTTA
1 TATATATATCTATTTTAAAATTTTATATATA
11828347 TATATATTATCTATTTTAAAATTTTATATATA
1 TATATA-TATCTATTTTAAAATTTTATATATA
*
11828379 TATATATATCTATTTTTAAAT
1 TATATATATCTATTTTAAAAT
11828400 CGTTCTATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.09
31 15 0.33
32 27 0.59
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (31 bp):
TATATATATCTATTTTAAAATTTTATATATA
Found at i:11833978 original size:51 final size:51
Alignment explanation
Indices: 11833888--11833985 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
11833878 TCTACCATAG
* *
11833888 CAAATCTTATCCCTCTGAAATTGCAGTGGGGCAGATTGAAGCTACAAATCA
1 CAAACCTTATCCCTCTGAAATTGCAGTGGAGCAGATTGAAGCTACAAATCA
* * *
11833939 CAAACCTTATCTCC-CTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAA
1 CAAACCTTATC-CCTCTGAAATTGCAGTGGAGCAGATTGAAGCTACAA
11833986 GTCTTATCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 39 0.95
52 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (51 bp):
CAAACCTTATCCCTCTGAAATTGCAGTGGAGCAGATTGAAGCTACAAATCA
Found at i:11834007 original size:44 final size:44
Alignment explanation
Indices: 11833938--11834777 Score: 552
Period size: 44 Copynumber: 18.6 Consensus size: 44
11833928 GCTACAAATC
* *
11833938 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * **
11833982 ACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * * *
11834026 AGCGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* ** * * * *
11834071 ATAAAT-TCTATAC-CTGTGAAATTGCAGCAGGTTAGATCAAATCT-ACCA-TG
1 ACAAATCT-TAT-CTCCCTGAAGTTGCAG-TGG--AG--CAGAT-TGA--AGTT
* * * ***
11834121 GCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* *
11834165 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * *
11834209 ACAAATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATCGAAAATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGTT
* * *
11834254 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CA--T
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * *
11834294 AGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * *
11834339 ACAAGTCTTATCTCCCTGAAATTGCAGTGG-GACAGACTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGTT
* * *
11834383 AGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGTT
* * * * * * *
11834435 ACAAGTCTTATATCTCTGAATTTGCAGTGG-GTCGGA-TCAAATCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGT-T
* * *
11834479 ATCATGTTGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGAT
1 A-CA-----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* *
11834529 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-TAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-T
* * * ***
11834573 AACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACC
1 -ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
** *
11834618 ACAAATCTTATCTCCCTGAAGTTTTAGTGGAGCAGGTTGAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * ***
11834662 ACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAACC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * * * *
11834706 ACAAACCTTATCCCCCTAAAATTGCAGTGGGGCAGGTTGGAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * **
11834750 ACGATTATTATCTTTCTGAAGTTGCAGT
1 ACAAATCTTATCTCCCTGAAGTTGCAGT
11834778 TGAGTGGATC
Statistics
Matches: 612, Mismatches: 140, Indels: 88
0.73 0.17 0.10
Matches are distributed among these distances:
40 2 0.00
41 32 0.05
42 2 0.00
43 7 0.01
44 320 0.52
45 148 0.24
47 4 0.01
48 1 0.00
49 10 0.02
50 48 0.08
51 33 0.05
52 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
Found at i:11834060 original size:89 final size:89
Alignment explanation
Indices: 11833939--11834702 Score: 620
Period size: 89 Copynumber: 8.4 Consensus size: 89
11833929 CTACAAATCA
* * *
11833939 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGT
* *
11834004 TGCAGCGGAGCAGACTGAAAATAG
66 TGCAGTGGAGCAGACTGAAGATAG
* * * * * **
11834028 CGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCTATA-AATTC-TATAC-CTGTGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-T-TACAAGTCTTAT-CTCCCTGA
* * * ** *
11834090 AATTGCAGCAGGTTAGATCAAATCT-ACCATGG
63 AGTTGCAG-TGG--AG--CAGA-CTGAAGATAG
* ***
11834122 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCACAAGTCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGT
** *
11834187 TGCAGTGGAGCAGGTTGAAGTTA-
66 TGCAGTGGAGCAGACTGAAGATAG
* * * * * *
11834210 CAAATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATCGAAAATTACAAATCTTATCTCTCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTG-AAGTTACAAGTCTTATCTCCCTGAAG
* *
11834275 TTGCAGTAGAGCAGA-T---CATAG
65 TTGCAGTGGAGCAGACTGAAGATAG
* * *
11834296 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGT
11834361 TGCAGTGG-GACAGACTGAAGATAG
66 TGCAGTGGAG-CAGACTGAAGATAG
* * * * * *
11834385 CAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAGTCTTATATCT
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT---G----AAGTTACAAGTCTTATCTCC
* * * *
11834450 CTGAATTTGCAGTGG-GTCGGA-TCAA-ATCTAT
59 CTGAAGTTGCAGTGGAG-CAGACTGAAGA--TAG
* * * *
11834481 CATGTTGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCT
1 CA-----AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAGTCTTATCTCCCT
* *
11834546 GAAGTTGCAGTGGAGCAGACTGAATATAA
61 GAAGTTGCAGTGGAGCAGACTGAAGATAG
* * *** *
11834575 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACCACAAATCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGT
** ** *
11834640 TTTAGTGGAGCAGGTTGAAGTTA-
66 TGCAGTGGAGCAGACTGAAGATAG
*
11834663 CAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAA
11834703 ACCACAAACC
Statistics
Matches: 540, Mismatches: 98, Indels: 75
0.76 0.14 0.11
Matches are distributed among these distances:
84 1 0.00
85 36 0.07
86 34 0.06
88 73 0.14
89 195 0.36
90 8 0.01
91 4 0.01
92 4 0.01
93 7 0.01
94 97 0.18
95 9 0.02
96 41 0.08
98 1 0.00
101 30 0.06
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (89 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGT
TGCAGTGGAGCAGACTGAAGATAG
Found at i:11834263 original size:227 final size:230
Alignment explanation
Indices: 11833872--11834287 Score: 610
Period size: 227 Copynumber: 1.8 Consensus size: 230
11833862 AGTAGGCCAA
* * *
11833872 ATCAAATCTACCATAGCAAATCTTATCCCTCTGAAATTGCAGTGGGGCAGATTGAAGCTACAAAT
1 ATCAAATCTACCATAGCAAATCTTATCCCTCTGAAATTGCAGTAGAGCAGATT--A--TACAAAC
*
11833937 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAA
62 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAA
* *
11834002 GTTGCAGCGGAGCAGACTGAAAATAGCGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAA
127 GTTGCAGCAGAGCAGACTGAAAATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAA
11834067 AGCTATAAATTCTATACCTGTGAAATTGCAGCAGGTTAG
192 AGCTATAAATTCTATACCTGTGAAATTGCAGCAGGTTAG
* *
11834106 ATCAAATCTACCATGGCAAATCTTATCTCC-CTGAAGTTGCAGTAGAGCAGA-T-TA-AAACCAC
1 ATCAAATCTACCATAGCAAATCTTATC-CCTCTGAAATTGCAGTAGAGCAGATTATACAAACCAC
** *
11834167 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAATCTTATCTCCTTGAAGTT
65 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTT
* *
11834232 GCAGTAGAGTAGA-TCGAAAATTA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA
130 GCAGCAGAGCAGACT-GAAAA-TAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA
11834288 GATCATAGCA
Statistics
Matches: 166, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
226 1 0.01
227 114 0.69
228 4 0.02
233 1 0.01
234 44 0.27
235 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (230 bp):
ATCAAATCTACCATAGCAAATCTTATCCCTCTGAAATTGCAGTAGAGCAGATTATACAAACCACA
AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTG
CAGCAGAGCAGACTGAAAATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCT
ATAAATTCTATACCTGTGAAATTGCAGCAGGTTAG
Found at i:11834336 original size:130 final size:133
Alignment explanation
Indices: 11833938--11834787 Score: 454
Period size: 133 Copynumber: 6.3 Consensus size: 133
11833928 GCTACAAATC
* * * * * * * *
11833938 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG-AAGTTACAAGTCTTATCTCCCTGAA
1 ACAAATCTTATCTCCCTGAAATTGCAGTAGAGTAGATCGAAAATTACAAATCTTATCTCCCTGAA
** * * * * **
11834002 GTTGCAGCGGAGCAGACTGAAAA-TAGCGAA-TCTTATCTCTCTGAAGTTGCAGTAGAGCAAATT
66 GTTGCAGTAGAGCAGA-TTAAAACCA-C-AAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTT
* *
11834065 AAAGCT
128 GAAGTT
* ** * * **
11834071 ATAAAT-TCTATAC-CTGTGAAATTGCAGCAG-GTTAGATCAAATCTACCATGGCAAATCTTATC
1 ACAAATCT-TAT-CTCCCTGAAATTGCAGTAGAG-TAGATCGAA---A--ATTACAAATCTTATC
* *
11834133 TCCCTGAAGTTGCAGTAGAGCAGATTAAAACCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
58 TCCCTGAAGTTGCAGTAGAGCAGATTAAAACCACAAGCCTTATCTCCCTGAAGTTGCAGTAGAGC
11834198 AGGTTGAAGTT
123 AGGTTGAAGTT
* * *
11834209 ACAAATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATCGAAAATTACAAATCTTATCTCTCTGAA
1 ACAAATCTTATCTCCCTGAAATTGCAGTAGAGTAGATCGAAAATTACAAATCTTATCTCCCTGAA
* * *
11834274 GTTGCAGTAGAGCAGA-TCATAGCA-AA-CCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA
66 GTTGCAGTAGAGCAGATTAAAACCACAAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA
11834336 GTT
131 GTT
* * * * *
11834339 ACAAGTCTTATCTCCCTGAAATTGCAGT-GGGACAGA-CTGAAGA-TAGCAAATCTTATTTCCCT
1 ACAAATCTTATCTCCCTGAAATTGCAGTAGAG-TAGATC-GAAAATTA-CAAATCTTATCTCCCT
* * * * * * * * *
11834401 GAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAGTCTTATATCTCTGAATTTGCAGT-GG
63 GAAGTTGCAGTAGAGCAGATTAAA---AC----CACAAGCCTTATCTCCCTGAAGTTGCAGTAGA
* * *
11834465 GTC-GGATCAAATCT
121 G-CAGGTTGAAGT-T
* * * * * * * *
11834479 ATCATGTTGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGA-TACAAGTCTTATCTC
1 A-CA-----AATCTTATCTCCCTGAAATTGCAGTAGAGTAGATCGAAAATTACAAATCTTATCTC
* * * ** ** *
11834543 CCTGAAGTTGCAGTGGAGCAGACTGAATATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA
60 CCTGAAGTTGCAGTAGAGCAGA-TTAAAACCACAAGCCTTATCTCCCTGAAGTTGCAGTAGAGCA
* * ***
11834608 GATTAAAACC
124 GGTTGAAGTT
* ** * * * * * *
11834618 ACAAATCTTATCTCCCTGAAGTTTTAGTGGAGCAGGTTG-AAGTTACAAGTCTTATCTCCCTGAA
1 ACAAATCTTATCTCCCTGAAATTGCAGTAGAGTAGATCGAAAATTACAAATCTTATCTCCCTGAA
* * * * * * * *
11834682 GTTGCAGTAGAGCAGATTGAAACCACAAACCTTATCCCCCTAAAATTGCAGTGGGGCAGGTTGGA
66 GTTGCAGTAGAGCAGATTAAAACCACAAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA
11834747 GTT
131 GTT
* * * ** * * *
11834750 ACGATTATTATCTTTCTGAAGTTGCAGTTGAGTGGATC
1 ACAAATCTTATCTCCCTGAAATTGCAGTAGAGTAGATC
11834788 AAAGCAACAA
Statistics
Matches: 555, Mismatches: 121, Indels: 83
0.73 0.16 0.11
Matches are distributed among these distances:
129 5 0.01
130 99 0.18
131 4 0.01
132 68 0.12
133 127 0.23
134 3 0.01
135 1 0.00
137 4 0.01
138 71 0.13
139 73 0.13
140 29 0.05
141 2 0.00
143 1 0.00
145 31 0.06
146 35 0.06
147 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (133 bp):
ACAAATCTTATCTCCCTGAAATTGCAGTAGAGTAGATCGAAAATTACAAATCTTATCTCCCTGAA
GTTGCAGTAGAGCAGATTAAAACCACAAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA
GTT
Found at i:11835414 original size:22 final size:22
Alignment explanation
Indices: 11835389--11835430 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11835379 TTTTAAAAGG
*
11835389 TTTTGCTTT-GTTCTTTTTCTT
1 TTTTTCTTTCGTTCTTTTTCTT
*
11835410 TTTTTCTTTCTTTCTTTTTCT
1 TTTTTCTTTCGTTCTTTTTCT
11835431 GTAGATCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTTTCTTTCGTTCTTTTTCTT
Found at i:11836512 original size:24 final size:24
Alignment explanation
Indices: 11836483--11836564 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
11836473 CAGTGTATAA
11836483 ATTTTAAATTGACTTATATCACTT
1 ATTTTAAATTGACTTATATCACTT
*
11836507 ATTTTAAATT-ATTTCATATGC-CTT
1 ATTTTAAATTGACTT-ATAT-CACTT
* *
11836531 ATTTTAAACTGATCTT-T-TCATTT
1 ATTTTAAATTGA-CTTATATCACTT
11836554 ATTTTAAATTG
1 ATTTTAAATTG
11836565 TTTTACTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.02
23 16 0.33
24 27 0.56
25 2 0.04
26 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.54
Consensus pattern (24 bp):
ATTTTAAATTGACTTATATCACTT
Found at i:11836638 original size:32 final size:29
Alignment explanation
Indices: 11836583--11836662 Score: 83
Period size: 32 Copynumber: 2.7 Consensus size: 29
11836573 TAATATTCTT
* * *
11836583 TATA-ATATTTATTTTACACTTTTATATTTA
1 TATATATATCTATTTTAAAATTTTATA--TA
11836613 TATATATTATCTATTTTAAAATTTTATATA
1 TATATA-TATCTATTTTAAAATTTTATATA
*
11836643 TATATA-ATCTATTTTTAAAT
1 TATATATATCTATTTTAAAAT
11836663 CGTTCTATAC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
28 13 0.30
30 12 0.27
31 1 0.02
32 18 0.41
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (29 bp):
TATATATATCTATTTTAAAATTTTATATA
Found at i:11839011 original size:18 final size:18
Alignment explanation
Indices: 11838966--11839011 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
11838956 TACCTATTGG
*
11838966 AATTTGTGGAAACAAAGA
1 AATTTGTGGGAACAAAGA
11838984 AATTTGTGGGAACAAAGA
1 AATTTGTGGGAACAAAGA
11839002 AATTTGTGGG
1 AATTTGTGGG
11839012 TGTTTCAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.28, T:0.26
Consensus pattern (18 bp):
AATTTGTGGGAACAAAGA
Found at i:11841791 original size:33 final size:31
Alignment explanation
Indices: 11841754--11841859 Score: 108
Period size: 33 Copynumber: 3.2 Consensus size: 31
11841744 AATTAATTTT
11841754 ATATTTTATGTATCACTATGTT-AAATTATTTAA
1 ATATTTTAT-TATCA-TAT-TTAAAATTATTTAA
*
11841787 ATATTCTATATATCATTATATTAAAATTATTTAA
1 ATATTTTAT-TATCA-TAT-TTAAAATTATTTAA
*
11841821 ATATCATTTATTATCATATTTAAAATT-TTAAA
1 ATAT--TTTATTATCATATTTAAAATTATTTAA
11841853 ATATTTT
1 ATATTTT
11841860 GTAAATCATT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
30 3 0.05
32 8 0.12
33 26 0.41
34 18 0.28
35 5 0.08
36 4 0.06
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (31 bp):
ATATTTTATTATCATATTTAAAATTATTTAA
Found at i:11841808 original size:25 final size:24
Alignment explanation
Indices: 11841779--11841833 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
11841769 CTATGTTAAA
* *
11841779 TTATTTAAA-TATTCTATATATCAT
1 TTATTAAAATTATT-TAAATATCAT
11841803 TATATTAAAATTATTTAAATATCAT
1 T-TATTAAAATTATTTAAATATCAT
11841828 TTATTA
1 TTATTA
11841834 TCATATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.22
25 17 0.63
26 4 0.15
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
TTATTAAAATTATTTAAATATCAT
Found at i:11841936 original size:28 final size:28
Alignment explanation
Indices: 11841869--11841936 Score: 66
Period size: 30 Copynumber: 2.4 Consensus size: 28
11841859 TGTAAATCAT
* * *
11841869 TAATTTTATAAATATTTTATATTTCATG
1 TAATTTTTTAAATATTATATATTTCAAG
*
11841897 TACCATTATTTAAATATTATATAATTT-AAG
1 TA--ATTTTTTAAATATTATAT-ATTTCAAG
11841927 TAATTTTTTA
1 TAATTTTTTA
11841937 TTTTTTACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
28 9 0.28
30 19 0.59
31 4 0.12
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (28 bp):
TAATTTTTTAAATATTATATATTTCAAG
Found at i:11848945 original size:210 final size:209
Alignment explanation
Indices: 11848419--11849040 Score: 882
Period size: 210 Copynumber: 2.9 Consensus size: 209
11848409 AATTATTTAA
* *
11848419 AAAAAATAATTTTTATTCTTTAATTTTAAAAATTATAAAATATTATGTTTGTTAAATGAAAATG-
1 AAAAAATAATTTTGATTCTTTAATTTTAAAAATTA-AAAA-ATCATGTTTGTTAAATGAAAATGA
*
11848483 AAA-ATG-AAA---ATATGATACTTATTTTTCACAATAAAAACATATAAAATAATTACTAAATAT
64 AAATATGAAAATGCATATGATACTTATTTTTCACAATAAAAACATGTAAAATAATTACTAAATAT
11848543 AATCAAATTAAAAATATGATTTTAGATAAATAAAAATGTTACTAATATAATAAAAATAAATTAAA
129 --T-AAATTAAAAATATGATTTTAGATAAATAAAAATGTTACTAATATAATAAAAATAAATTAAA
* *
11848608 TAAAATTATTTATTTTTGTTTTT
191 T--AA--AGTTATTTTTATTTTT
**
11848631 AAAAAATGTTTTTGATTCTTTAATTTTAAAAATTAAAAAAAATCATGTTTGTTAAATGAAAATGA
1 AAAAAATAATTTTGATTCTTTAATTTTAAAAATT--AAAAAATCATGTTTGTTAAATGAAAATGA
* ** *
11848696 AAATATCAAAATGCATATGATACTTATTTTTCACAATAAAAACATGTAAGCTAACTACTAAATAT
64 AAATATGAAAATGCATATGATACTTATTTTTCACAATAAAAACATGTAAAATAATTACTAAATAT
*
11848761 TAAATTAAAAAT-TTATTTTAGATAAATAAAAATGTTACTAATATAATAAAAATAAATTAAATAA
129 TAAATTAAAAATATGATTTTAGATAAATAAAAATGTTACTAATATAATAAAAATAAATTAAATAA
11848825 AGTTATTTTTATTTTT
194 AGTTATTTTTATTTTT
11848841 AAAAAATAATTTTGATTCTTTAATTTTAAAAATTGAAAAAATCATGTTTGTTAAATGAAAATGAA
1 AAAAAATAATTTTGATTCTTTAATTTTAAAAATT-AAAAAATCATGTTTGTTAAATGAAAATGAA
11848906 AATATGAAAATGCATATGATACTTATTTTTTCACAATAAAAACATGTAAAATAATTACTAAATAT
65 AATATGAAAATGCATATGATACTTA-TTTTTCACAATAAAAACATGTAAAATAATTACT-AA-AT
* * * *
11848971 AGTTAAATT-AAAATATGATTTTACATAAATAAAAATGTTATTAATATAGTAAAAAAATAAATAA
127 A-TTAAATTAAAAATATGATTTTAGATAAATAAAAATGTTACTAATATA--ATAAAAATAAATTA
11849035 AATAAA
189 AATAAA
11849041 CAAGAGGTAT
Statistics
Matches: 371, Mismatches: 24, Indels: 27
0.88 0.06 0.06
Matches are distributed among these distances:
209 54 0.15
210 76 0.20
211 2 0.01
212 63 0.17
213 44 0.12
214 52 0.14
215 32 0.09
216 1 0.00
218 47 0.13
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (209 bp):
AAAAAATAATTTTGATTCTTTAATTTTAAAAATTAAAAAATCATGTTTGTTAAATGAAAATGAAA
ATATGAAAATGCATATGATACTTATTTTTCACAATAAAAACATGTAAAATAATTACTAAATATTA
AATTAAAAATATGATTTTAGATAAATAAAAATGTTACTAATATAATAAAAATAAATTAAATAAAG
TTATTTTTATTTTT
Found at i:11857414 original size:4 final size:4
Alignment explanation
Indices: 11857405--11857560 Score: 303
Period size: 4 Copynumber: 39.0 Consensus size: 4
11857395 TTTTGTTTTT
*
11857405 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
11857453 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
11857501 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
11857549 ATAC ATAC ATAC
1 ATAC ATAC ATAC
11857561 TTACTTATTA
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 150 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:11857866 original size:15 final size:15
Alignment explanation
Indices: 11857843--11857872 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11857833 ATGACTAAAC
*
11857843 TTCACCAACAATGCA
1 TTCAACAACAATGCA
11857858 TTCAACAACAATGCA
1 TTCAACAACAATGCA
11857873 CACACAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.30, G:0.07, T:0.20
Consensus pattern (15 bp):
TTCAACAACAATGCA
Found at i:11864532 original size:26 final size:25
Alignment explanation
Indices: 11864475--11864546 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
11864465 AATGACAATG
11864475 ATAATAATAATAATAATAATAATAAT
1 ATAATAATAATAATAAT-ATAATAAT
11864501 ATAATAATAATAATAATATAACGTAGA-
1 ATAATAATAATAATAATATAA--TA-AT
*
11864528 A-AATAATGATAATAATATA
1 ATAATAATAATAATAATATA
11864547 TGAATTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
25 4 0.10
26 34 0.81
27 3 0.07
28 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (25 bp):
ATAATAATAATAATAATATAATAAT
Found at i:11864544 original size:3 final size:3
Alignment explanation
Indices: 11864475--11864518 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
11864465 AATGACAATG
11864475 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11864519 TAACGTAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11864743 original size:11 final size:11
Alignment explanation
Indices: 11864715--11864762 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
11864705 GTGATATTAA
11864715 AATATATACAT
1 AATATATACAT
*
11864726 AAAATATA-AT
1 AATATATACAT
11864736 AGATATAT--AT
1 A-ATATATACAT
11864746 AATATATACAT
1 AATATATACAT
11864757 AATATA
1 AATATA
11864763 GTATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 6 0.19
10 6 0.19
11 20 0.62
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (11 bp):
AATATATACAT
Found at i:11864758 original size:24 final size:24
Alignment explanation
Indices: 11864731--11864777 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11864721 TACATAAAAT
*
11864731 ATAATAGA-TATATATAATATATAC
1 ATAATAGAGTAT-TAAAATATATAC
*
11864755 ATAATATAGTATTAAAATATATA
1 ATAATAGAGTATTAAAATATATA
11864778 TAATACATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAATAGAGTATTAAAATATATAC
Found at i:11864775 original size:31 final size:31
Alignment explanation
Indices: 11864715--11864786 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
11864705 GTGATATTAA
*
11864715 AATATATACATAAAATATAATAGATATATAT
1 AATATATACATAAAATATAATAGAAATATAT
* *
11864746 AATATATACATAATATAGTATTA-AAATATAT
1 AATATATACATAAAATA-TAATAGAAATATAT
11864777 -ATA-ATACATA
1 AATATATACATA
11864787 CACATTAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 7 0.19
30 3 0.08
31 23 0.62
32 4 0.11
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (31 bp):
AATATATACATAAAATATAATAGAAATATAT
Done.