Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 71 of 131
Found at i:23833580 original size:109 final size:109
Alignment explanation
Indices: 23833432--23833881 Score: 873
Period size: 109 Copynumber: 4.1 Consensus size: 109
23833422 AATTTCACAA
*
23833432 AAAAATTGAAAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGC
1 AAAAA-TGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGC
23833497 AAAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
65 AAAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
23833542 AAAAATGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGCA
1 AAAAATGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGCA
23833607 AAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
66 AAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
23833651 AAAAATGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGCA
1 AAAAATGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGCA
23833716 AAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
66 AAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
23833760 AAAAATGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGCA
1 AAAAATGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGCA
23833825 AAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
66 AAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
*
23833869 ATAAATGATAAAA
1 AAAAATGATAAAA
23833882 GAAAAGGTTG
Statistics
Matches: 338, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
109 333 0.99
110 5 0.01
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.25
Consensus pattern (109 bp):
AAAAATGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGCA
AAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
Found at i:23838073 original size:5 final size:5
Alignment explanation
Indices: 23838063--23838087 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23838053 TCCAAATATG
23838063 TGAAT TGAAT TGAAT TGAAT TGAAT
1 TGAAT TGAAT TGAAT TGAAT TGAAT
23838088 ATAAATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TGAAT
Found at i:23838655 original size:25 final size:27
Alignment explanation
Indices: 23838599--23838663 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
23838589 CCGGAGCTTT
* * *
23838599 CCGATTAAAGGCTCTTTCATGAGCTTC
1 CCGATTAATGGCTCTTCCATGAGCTAC
*
23838626 TCGATTAATGGCTC-TCCA-GAGCTAC
1 CCGATTAATGGCTCTTCCATGAGCTAC
*
23838651 CCGA-TATTGGCTC
1 CCGATTAATGGCTC
23838664 ACATGAGCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 8 0.25
25 9 0.28
26 3 0.09
27 12 0.38
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (27 bp):
CCGATTAATGGCTCTTCCATGAGCTAC
Found at i:23840472 original size:15 final size:16
Alignment explanation
Indices: 23840452--23840486 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
23840442 TTACATCGGT
23840452 TAATTCAGTT-AATGA
1 TAATTCAGTTCAATGA
*
23840467 TAATTCGGTTCAATGA
1 TAATTCAGTTCAATGA
23840483 TAAT
1 TAAT
23840487 CGAATTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (16 bp):
TAATTCAGTTCAATGA
Found at i:23853333 original size:48 final size:48
Alignment explanation
Indices: 23853262--23853356 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
23853252 TGCAGATCGA
23853262 TGAACTAGATGAATGGCGAATGAAAGTTGATGAGAAACCGAGAAAACT
1 TGAACTAGATGAATGGCGAATGAAAGTTGATGAGAAACCGAGAAAACT
* **
23853310 TGAACTAGATGAATGGCGAATGAAGGTTGATGAGAAATTGAGAAAAC
1 TGAACTAGATGAATGGCGAATGAAAGTTGATGAGAAACCGAGAAAAC
23853357 ACAAGGAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.43, C:0.08, G:0.28, T:0.20
Consensus pattern (48 bp):
TGAACTAGATGAATGGCGAATGAAAGTTGATGAGAAACCGAGAAAACT
Found at i:23853748 original size:10 final size:10
Alignment explanation
Indices: 23853735--23853768 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
23853725 TAATTTTTTT
23853735 AAAAATTG-A
1 AAAAATTGAA
*
23853744 AAAAATTTAA
1 AAAAATTGAA
23853754 AAAAATTGAA
1 AAAAATTGAA
23853764 AAAAA
1 AAAAA
23853769 AAACTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAAAATTGAA
Found at i:23853806 original size:18 final size:17
Alignment explanation
Indices: 23853783--23853824 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
23853773 TTCAAAAAAA
*
23853783 TTTATTATATTTATTTTT
1 TTTATTA-ATTAATTTTT
*
23853801 TTTATTACTTAATTTTT
1 TTTATTAATTAATTTTT
23853818 TTT-TTAA
1 TTTATTAA
23853825 ATTTTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 11 0.52
18 7 0.33
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTAATTAATTTTT
Found at i:23854533 original size:14 final size:14
Alignment explanation
Indices: 23854514--23854575 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
23854504 ACTTCTCCCC
*
23854514 TTCTTTTTTTATTT
1 TTCTTTTATTATTT
23854528 TTCTTTTATTATTAT
1 TTCTTTTATTATT-T
23854543 TAT-TTATTATTATTAT
1 T-TCTT-TTATTATT-T
* *
23854559 TACTATTATTATTT
1 TTCTTTTATTATTT
23854573 TTC
1 TTC
23854576 CAAAAGTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 15 0.38
15 12 0.30
16 13 0.32
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCTTTTATTATTT
Found at i:23854539 original size:3 final size:3
Alignment explanation
Indices: 23854533--23854571 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
23854523 TATTTTTCTT
*
23854533 TTA TTA TTA TTA TTTA TTA TTA TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
23854572 TTTCCAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23859047 original size:45 final size:46
Alignment explanation
Indices: 23858983--23859240 Score: 277
Period size: 45 Copynumber: 5.7 Consensus size: 46
23858973 GAAGGAAACA
23858983 AATAAGACCATGGTTGAAAGACACTATGGCA-CTATACCG-GAACTG
1 AATAAGACCATGGTTGAAAGACACTATGGCATC-ATACCGAGAACTG
* *
23859028 AATAAGACCATAGTTGAAAGACACTATGGCATCATACCGAAAACATG
1 AATAAGACCATGGTTGAAAGACACTATGGCATCATACCGAGAAC-TG
* * ** * *
23859075 --TAAGACCATAGCTGAAAGACGTTATGGCATCATGAATC-AG-AC-A
1 AATAAGACCATGGTTGAAAGACACTATGGCATCAT--ACCGAGAACTG
*
23859118 AATAAGACCATGGTTGAAAGACACTATGGCATCA-AGGCGAGAA-TG
1 AATAAGACCATGGTTGAAAGACACTATGGCATCATA-CCGAGAACTG
* * *
23859163 TATAAGACCATGGTTGAAAGACACTATGGCATTA-AGACGAGAA-TG
1 AATAAGACCATGGTTGAAAGACACTATGGCATCATA-CCGAGAACTG
23859208 AATAAGACCATGGTTGAAAGACACTATGGCATC
1 AATAAGACCATGGTTGAAAGACACTATGGCATC
23859241 TTTCAGTCAT
Statistics
Matches: 183, Mismatches: 19, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 2 0.01
45 170 0.93
46 5 0.03
47 4 0.02
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.20
Consensus pattern (46 bp):
AATAAGACCATGGTTGAAAGACACTATGGCATCATACCGAGAACTG
Found at i:23859226 original size:135 final size:135
Alignment explanation
Indices: 23858980--23859240 Score: 336
Period size: 135 Copynumber: 1.9 Consensus size: 135
23858970 CTTGAAGGAA
23858980 ACAAATAAGACCATGGTTGAAAGACACTATGGCACTATACCGGAACTGAATAAGACCATAGTTGA
1 ACAAATAAGACCATGGTTGAAAGACACTATGGCACTATACCGGAACTGAATAAGACCATAGTTGA
* **
23859045 AAGACACTATGGCATCATACCGAAAACATGTAAGACCATAGCTGAAAGACGTTATGGCATCATGA
66 AAGACACTATGGCATCATAACGAAAACATGTAAGACCATAGCTGAAAGACACTATGGCATCATGA
23859110 ATCAG
131 ATCAG
* * *
23859115 ACAAATAAGACCATGGTTGAAAGACACTATGGCA-TCA-AGGCGAGAA-TGTATAAGACCATGGT
1 ACAAATAAGACCATGGTTGAAAGACACTATGGCACT-ATA-CCG-GAACTGAATAAGACCATAGT
* * * *
23859177 TGAAAGACACTATGGCATTA-AGACG-AGA-ATGAATAAGACCATGGTTGAAAGACACTATGGCA
63 TGAAAGACACTATGGCATCATA-ACGAAAACATG--TAAGACCATAGCTGAAAGACACTATGGCA
23859239 TC
125 TC
23859241 TTTCAGTCAT
Statistics
Matches: 110, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
133 3 0.03
134 5 0.05
135 99 0.90
136 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.20
Consensus pattern (135 bp):
ACAAATAAGACCATGGTTGAAAGACACTATGGCACTATACCGGAACTGAATAAGACCATAGTTGA
AAGACACTATGGCATCATAACGAAAACATGTAAGACCATAGCTGAAAGACACTATGGCATCATGA
ATCAG
Found at i:23869547 original size:10 final size:10
Alignment explanation
Indices: 23869532--23869686 Score: 90
Period size: 10 Copynumber: 15.3 Consensus size: 10
23869522 AAAGGAGAGG
23869532 GAAAGAAGAA
1 GAAAGAAGAA
23869542 GAAAG-A-AA
1 GAAAGAAGAA
*
23869550 GAAAGAAAAA
1 GAAAGAAGAA
* *
23869560 GAGAGAAGAG
1 GAAAGAAGAA
* *
23869570 GAAAGGAGAG
1 GAAAGAAGAA
23869580 GAAAGAAAGAAA
1 GAAAG-AAG-AA
23869592 GAAA-AAGAA
1 GAAAGAAGAA
23869601 GGAAAGAA-AA
1 -GAAAGAAGAA
**
23869611 GGAAAGGGGAA
1 -GAAAGAAGAA
*
23869622 GAAAAAAGAAA
1 GAAAGAAG-AA
23869633 GAAA-AAGAA
1 GAAAGAAGAA
23869642 GGAAAGAA-AA
1 -GAAAGAAGAA
23869652 GGAAA-AGAGAA
1 -GAAAGA-AGAA
* *
23869663 GAAAAAAAAAA
1 G-AAAGAAGAA
23869674 GAAAGAAGAA
1 GAAAGAAGAA
23869684 GAA
1 GAA
23869687 GATGAGGGAA
Statistics
Matches: 116, Mismatches: 15, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
8 7 0.06
9 7 0.06
10 73 0.63
11 23 0.20
12 6 0.05
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:23869584 original size:38 final size:40
Alignment explanation
Indices: 23869531--23869718 Score: 199
Period size: 41 Copynumber: 4.7 Consensus size: 40
23869521 AAAAGGAGAG
* *
23869531 GGAAAGAAGAAGAAAGAAAGAAAGAAAAAG-A-G-AGAAGA
1 GGAAAGGAGAAGAAA-AAAGAAAGAAAAAGAAGGAAGAAAA
*
23869569 GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAAGGAGAAGAAA-AAAGAAAGAAAAAGAAGG-AAGAAAA
*
23869611 GGAAAGGGGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGG-AAGAAAA
* * **
23869652 GGAAAAGAGAAGAAAAAAAAAAGAAAGAAGAA-GAAGATGA
1 GGAAAGGAGAAGAAAAAAGAAAGAAA-AAGAAGGAAGAAAA
*
23869692 GGGAA-G-GAAGAAAAAAAGAAAGAAAAA
1 GGAAAGGAGAAG-AAAAAAGAAAGAAAAA
23869719 AGGGTAATTT
Statistics
Matches: 132, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
38 34 0.26
39 15 0.11
40 10 0.08
41 50 0.38
42 23 0.17
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (40 bp):
GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAGAAAA
Found at i:23869657 original size:31 final size:31
Alignment explanation
Indices: 23869578--23869718 Score: 69
Period size: 31 Copynumber: 4.6 Consensus size: 31
23869568 AGGAAAGGAG
23869578 AGGAAAGAAAGAAAGAAAAAGAAGGAAAGAAA
1 AGGAAA-AAAGAAAGAAAAAGAAGGAAAGAAA
** * *
23869610 AGG-AAAGGGGAAGAAAAAAGAAAGAAA-AAGA
1 AGGAAAAAAGAAAG-AAAAAGAAGGAAAGAA-A
* * * *
23869641 AGGAAAGAA-AAGGAAAAGAGAAGAAAAAAAA
1 AGGAAAAAAGAAAGAAAA-AGAAGGAAAGAAA
* * * * * *
23869672 AAGAAAGAAG-AAGAAGATG-AGGGAAG-GA
1 AGGAAAAAAGAAAGAAAAAGAAGGAAAGAAA
*
23869700 AGAAAAAAAGAAAGAAAAA
1 AGGAAAAAAGAAAGAAAAA
23869719 AGGGTAATTT
Statistics
Matches: 78, Mismatches: 24, Indels: 17
0.66 0.20 0.14
Matches are distributed among these distances:
28 8 0.10
29 10 0.13
30 12 0.15
31 41 0.53
32 7 0.09
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (31 bp):
AGGAAAAAAGAAAGAAAAAGAAGGAAAGAAA
Found at i:23870416 original size:161 final size:151
Alignment explanation
Indices: 23870049--23870491 Score: 437
Period size: 161 Copynumber: 2.8 Consensus size: 151
23870039 AAAAATGATA
* *
23870049 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
* * **
23870114 AAATTAGAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGTTG
66 AAA-TAGAATAATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAATGGCAG
23870179 AAATAAGAGTGTTTTACTAAAT
130 AAATAAGAGTGTTTTACTAAAT
* * * * *
23870201 TA-TTTAGAAATTCAGA-AATAATTAATATAAATATTTCAAACAAAATGTACTGAAATAATATAA
1 TATTTTA-AAA-ACACACTA-AATT-A-AT-AA-ATTTCAAACATAATGTACTGAAATAATGTAA
* *
23870264 AATAATAAAATACGAAAATAAT-ATATTTTTATTGAAAGTAATAAAATTC-AAGAAAATAATACG
59 AATAATAAAATA-G--AATAATGATA-TTTT-TT-AAAGTAATAAAATGCGAAGAAAAAAATACG
* * * *
23870327 AGCAAA-GTGCAGGAATAAGGGTTTTTTTTTACACTAAAT
118 AACAAATG-GCAGAAATAAGAG---TGTTTT--ACTAAAT
* *
23870366 TAATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTAT
1 T-ATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAAT
* * * *
23870431 AAAATTAGAAATTATGATATTTTTTAAATTAATAAAATGCGGAGAAAAAACTACGAACAAA
65 AAAA-TAG-AATAATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAA
23870492 GGGCCTAGTT
Statistics
Matches: 235, Mismatches: 31, Indels: 43
0.76 0.10 0.14
Matches are distributed among these distances:
151 3 0.01
152 6 0.03
153 7 0.03
154 1 0.00
155 2 0.01
156 4 0.02
157 39 0.17
158 16 0.07
159 28 0.12
160 38 0.16
161 55 0.23
162 4 0.02
163 7 0.03
164 1 0.00
165 15 0.06
166 5 0.02
167 4 0.02
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (151 bp):
TATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
AAATAGAATAATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAATGGCAGA
AATAAGAGTGTTTTACTAAAT
Found at i:23870545 original size:21 final size:21
Alignment explanation
Indices: 23870519--23870561 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
23870509 TTTACTAAAT
*
23870519 TTTTTAAAAATTTAGAAATAA
1 TTTTTAAAAATTCAGAAATAA
23870540 TTTTTAAAAATTCAGAAATAA
1 TTTTTAAAAATTCAGAAATAA
23870561 T
1 T
23870562 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (21 bp):
TTTTTAAAAATTCAGAAATAA
Found at i:23870673 original size:13 final size:12
Alignment explanation
Indices: 23870657--23870703 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
23870647 AAAGATAATG
23870657 TAAAATAATATA
1 TAAAATAATATA
*
23870669 TTAAAATAATGTA
1 -TAAAATAATATA
23870682 CTAAAATAATA-A
1 -TAAAATAATATA
23870694 TAAAATAATA
1 TAAAATAATA
23870704 AAATACGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 10 0.32
12 1 0.03
13 20 0.65
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (12 bp):
TAAAATAATATA
Found at i:23873064 original size:57 final size:58
Alignment explanation
Indices: 23872982--23873096 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 58
23872972 GATACAATTT
23872982 AAGCATTATCATAAGTTGAATAATTTTAATTATTTCAAATGAATTATACTTTTTATAA
1 AAGCATTATCATAAGTTGAATAATTTTAATTATTTCAAATGAATTATACTTTTTATAA
23873040 AAGCATTATCAT-AGTTGAATAATTTTAATTATTTCAAATGAATTATACTTTTTATAA
1 AAGCATTATCATAAGTTGAATAATTTTAATTATTTCAAATGAATTATACTTTTTATAA
23873097 CATTACACAT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 45 0.79
58 12 0.21
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (58 bp):
AAGCATTATCATAAGTTGAATAATTTTAATTATTTCAAATGAATTATACTTTTTATAA
Found at i:23873487 original size:5 final size:5
Alignment explanation
Indices: 23873459--23873528 Score: 90
Period size: 5 Copynumber: 14.2 Consensus size: 5
23873449 TTTTTATGTT
*
23873459 TTATA -TATA TTATT TTAT- TATATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
* *
23873508 TTATA TTGTT TTATA TTATA T
1 TTATA TTATA TTATA TTATA T
23873529 AAATTAAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
4 5 0.09
5 51 0.89
6 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:23875584 original size:24 final size:27
Alignment explanation
Indices: 23875544--23875612 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 27
23875534 NNNNNTTTGT
*
23875544 GAAATAATTATTG-ATTGAAAG-GTG-
1 GAAATAATGATTGAATTGAAAGTGTGA
23875568 GAAA-AATGATTGAATTGAAAGTGTGA
1 GAAATAATGATTGAATTGAAAGTGTGA
**
23875594 GAAATTGTGATTGAATTGA
1 GAAATAATGATTGAATTGA
23875613 GAATATATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 7 0.18
24 12 0.32
25 3 0.08
26 4 0.11
27 12 0.32
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (27 bp):
GAAATAATGATTGAATTGAAAGTGTGA
Found at i:23875815 original size:37 final size:39
Alignment explanation
Indices: 23875756--23875851 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
23875746 CGGATAGATT
* * * *
23875756 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
23875793 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
23875832 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
23875852 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:23879651 original size:42 final size:41
Alignment explanation
Indices: 23879576--23879686 Score: 113
Period size: 39 Copynumber: 2.7 Consensus size: 41
23879566 CCACTAATCC
* * *
23879576 TAATAACTAACACAATAACAATAACAATA-GTTTTATACTCAAAA
1 TAATAACTAAC-C-ATAACAATAATATTAGGGTTT-TACT-AAAA
23879620 TAAT-ACTAA-C-TAACAATAATAATTAGGGTTTTACTAAAA
1 TAATAACTAACCATAACAATAAT-ATTAGGGTTTTACTAAAA
*
23879659 TAATAACTAACCATAATAATAATATTAG
1 TAATAACTAACCATAACAATAATATTAG
23879687 TTTTTTAACA
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
39 17 0.29
40 12 0.21
41 11 0.19
42 9 0.16
43 5 0.09
44 4 0.07
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.31
Consensus pattern (41 bp):
TAATAACTAACCATAACAATAATATTAGGGTTTTACTAAAA
Found at i:23879690 original size:39 final size:38
Alignment explanation
Indices: 23879576--23879706 Score: 106
Period size: 39 Copynumber: 3.2 Consensus size: 38
23879566 CCACTAATCC
* *
23879576 TAATAACTAACACAATAACAATAACAATAGTTTTATACTCAAAA
1 TAAT-ACTAAC-C-ATAACAATAATATTAG-TTT-TACT-AAAA
23879620 TAATACTAA-C-TAACAATAATAATTAGGGTTTTACTAAAA
1 TAATACTAACCATAACAATAAT-ATTA--GTTTTACTAAAA
* *
23879659 TAATAACTAACCATAATAATAATATTAGTTTT-TTAACAA
1 TAAT-ACTAACCATAACAATAATATTAGTTTTACTAA-AA
23879698 TAATACTAA
1 TAATACTAA
23879707 GTAACATCTA
Statistics
Matches: 76, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
38 8 0.11
39 28 0.37
40 12 0.16
41 9 0.12
42 10 0.13
43 5 0.07
44 4 0.05
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (38 bp):
TAATACTAACCATAACAATAATATTAGTTTTACTAAAA
Found at i:23879899 original size:10 final size:10
Alignment explanation
Indices: 23879871--23879907 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
23879861 AAATACATTT
23879871 TTTTTCTCTTC
1 TTTTTCTC-TC
*
23879882 TCTTTCTCTC
1 TTTTTCTCTC
23879892 TTTTTCTCTC
1 TTTTTCTCTC
23879902 TTTTTC
1 TTTTTC
23879908 CGGCAGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:23880413 original size:46 final size:45
Alignment explanation
Indices: 23880327--23880415 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
23880317 ATTAAAATTT
* *
23880327 TTATTATTTATTTGAAAAATAATAATTTTAAGATATATTTTAAAG
1 TTATTATTTATTTGAAAAATAATAAATTTAAAATATATTTTAAAG
23880372 TTATTA-TTATTTGTACCAAAA-AATAAATTTAAAATATATTTTAA
1 TTATTATTTATTTG-A--AAAATAATAAATTTAAAATATATTTTAA
23880416 TTTTAATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 7 0.18
45 7 0.18
46 21 0.54
47 4 0.10
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (45 bp):
TTATTATTTATTTGAAAAATAATAAATTTAAAATATATTTTAAAG
Found at i:23880446 original size:26 final size:25
Alignment explanation
Indices: 23880417--23880481 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
23880407 ATATTTTAAT
23880417 TTTAATTATTTAATTATTGAGATTTA
1 TTTAATTATTTAATTATTGA-ATTTA
*
23880443 TTT-ATCATTT-ATT-TTGAATTTA
1 TTTAATTATTTAATTATTGAATTTA
* *
23880465 TTGAATTA-TGAATTATT
1 TTTAATTATTTAATTATT
23880482 ATATGCAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
22 8 0.25
23 10 0.31
24 5 0.16
25 6 0.19
26 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTAATTATTTAATTATTGAATTTA
Found at i:23881323 original size:9 final size:9
Alignment explanation
Indices: 23881309--23881342 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
23881299 TTTAAAATTC
23881309 AAAAATTAA
1 AAAAATTAA
23881318 AAAAATTAA
1 AAAAATTAA
23881327 AAAAATTAA
1 AAAAATTAA
23881336 AAAAATT
1 AAAAATT
23881343 TTCAAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Found at i:23883261 original size:15 final size:17
Alignment explanation
Indices: 23883231--23883262 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
23883221 ATTAATATGG
23883231 TAAAATAATATTAAAAA
1 TAAAATAATATTAAAAA
23883248 TAAAA-AAT-TTAAAAA
1 TAAAATAATATTAAAAA
23883263 AATTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAATAATATTAAAAA
Found at i:23883379 original size:8 final size:8
Alignment explanation
Indices: 23883366--23883394 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
23883356 AATATTGTAA
23883366 AAAATATT
1 AAAATATT
23883374 AAAATATT
1 AAAATATT
23883382 AAAATATT
1 AAAATATT
23883390 AAAAT
1 AAAAT
23883395 GAAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATATT
Found at i:23883401 original size:16 final size:15
Alignment explanation
Indices: 23883363--23883408 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
23883353 CCAAATATTG
23883363 TAAAAAATATTAAAA
1 TAAAAAATATTAAAA
*
23883378 TATTAAAATATTAAAA
1 TA-AAAAATATTAAAA
23883394 TGAAAAAATA-TAAAA
1 T-AAAAAATATTAAAA
23883409 CAATTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 7 0.26
16 19 0.70
17 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
TAAAAAATATTAAAA
Found at i:23884076 original size:18 final size:18
Alignment explanation
Indices: 23884055--23884110 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
23884045 ATTTATGATA
*
23884055 TTTATAATTTTTACCATT
1 TTTATAATTTTTACAATT
*
23884073 TTTAATATTTTTTACAATT
1 TTT-ATAATTTTTACAATT
* * *
23884092 CTTATAATATTTAAAATT
1 TTTATAATTTTTACAATT
23884110 T
1 T
23884111 ATGTCTGGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATAATTTTTACAATT
Found at i:23884086 original size:19 final size:21
Alignment explanation
Indices: 23884062--23884103 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
23884052 ATATTTATAA
*
23884062 TTTTTACCATT-TT-TAATAT
1 TTTTTACAATTCTTATAATAT
23884081 TTTTTACAATTCTTATAATAT
1 TTTTTACAATTCTTATAATAT
23884102 TT
1 TT
23884104 AAAATTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 8 0.40
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTACAATTCTTATAATAT
Found at i:23887038 original size:4 final size:4
Alignment explanation
Indices: 23887029--23887054 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
23887019 TATTTTAGAT
23887029 TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA
23887055 TTAGTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:23889873 original size:35 final size:35
Alignment explanation
Indices: 23889826--23889951 Score: 164
Period size: 35 Copynumber: 3.6 Consensus size: 35
23889816 ACTCTCTATT
23889826 TTGGTGTGTTTCGGATGGATTAGCTCT-TATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCT-TGTATGAGCA
* * *
23889861 ATGGTGTATTTCGGATGGTTTAGCTTGTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTTGTATGAGCA
* * *
23889896 TTGGTGTGTTTCAGATGGTTTAGTTTGTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTTGTATGAGCA
* *
23889931 TTGGTGTGTTTTGGTTGGATT
1 TTGGTGTGTTTCGGATGGATT
23889952 GTCGATGTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
34 1 0.01
35 78 0.99
ACGTcount: A:0.16, C:0.07, G:0.33, T:0.44
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTTGTATGAGCA
Found at i:23894432 original size:20 final size:20
Alignment explanation
Indices: 23894407--23894467 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
23894397 AATTAGGTTT
23894407 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATTAA
* *
23894427 ATTTAAATTAAAAATA-AAA
1 ATTTAAAATAAAAATATTAA
* *
23894446 ATTTATAATATTAAATATTAA
1 ATTTAAAATA-AAAATATTAA
23894467 A
1 A
23894468 AACCCACTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.30
20 20 0.61
21 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTAAAATAAAAATATTAA
Found at i:23897700 original size:20 final size:20
Alignment explanation
Indices: 23897661--23897701 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23897651 TTAAATTATT
* * *
23897661 ATTATTATTTGTTATTATAA
1 ATTATAATTTGTGATCATAA
23897681 ATTATAATTTGTGATCATAA
1 ATTATAATTTGTGATCATAA
23897701 A
1 A
23897702 ATCTACAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
ATTATAATTTGTGATCATAA
Found at i:23899263 original size:12 final size:12
Alignment explanation
Indices: 23899248--23899276 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
23899238 AATTTAAATT
23899248 TTATTGTTAAGA
1 TTATTGTTAAGA
23899260 TTATTGTTAAGA
1 TTATTGTTAAGA
23899272 TTATT
1 TTATT
23899277 ATGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (12 bp):
TTATTGTTAAGA
Found at i:23902451 original size:176 final size:176
Alignment explanation
Indices: 23902157--23902513 Score: 678
Period size: 176 Copynumber: 2.0 Consensus size: 176
23902147 GACATTTATC
*
23902157 TAAAATCAATTTAACAATACGGGCAGAGGGATGACCAAGTCGGTAGTGCCATAGTGCAAAAATGT
1 TAAAATCAATTTAACAATACGGGCAGAGGGATGACCAAGTCGGCAGTGCCATAGTGCAAAAATGT
*
23902222 CATAGGTGTTGGAGCAAGTTTGAAGTCTTGTGTTATGAACAGAAGAGAAAACACCCTTTGACTAG
66 CATAGGTGTTGGAGCAAGTTTGAAGTCTTATGTTATGAACAGAAGAGAAAACACCCTTTGACTAG
23902287 TAGCAACCGGTGAAAAATGATAGAGCCCATCACGAGTGTGACCTAG
131 TAGCAACCGGTGAAAAATGATAGAGCCCATCACGAGTGTGACCTAG
*
23902333 TAAAATCGATTTAACAATACGGGCAGAGGGATGACCAAGTCGGCAGTGCCATAGTGCAAAAATGT
1 TAAAATCAATTTAACAATACGGGCAGAGGGATGACCAAGTCGGCAGTGCCATAGTGCAAAAATGT
23902398 CATAGGTGTTGGAGCAAGTTTGAAGTCTTATGTTATGAACAGAAGAGAAAACACCCTTTGACTAG
66 CATAGGTGTTGGAGCAAGTTTGAAGTCTTATGTTATGAACAGAAGAGAAAACACCCTTTGACTAG
*
23902463 TAGCAACTGGTGAAAAATGATAGAGCCCATCACGAGTGTGACCTAG
131 TAGCAACCGGTGAAAAATGATAGAGCCCATCACGAGTGTGACCTAG
23902509 TAAAA
1 TAAAA
23902514 AAATTTCTCG
Statistics
Matches: 177, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 177 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (176 bp):
TAAAATCAATTTAACAATACGGGCAGAGGGATGACCAAGTCGGCAGTGCCATAGTGCAAAAATGT
CATAGGTGTTGGAGCAAGTTTGAAGTCTTATGTTATGAACAGAAGAGAAAACACCCTTTGACTAG
TAGCAACCGGTGAAAAATGATAGAGCCCATCACGAGTGTGACCTAG
Found at i:23904900 original size:403 final size:403
Alignment explanation
Indices: 23904153--23904960 Score: 1616
Period size: 403 Copynumber: 2.0 Consensus size: 403
23904143 AGGTTTGCTA
23904153 ATCCACCCCAATACAGAGTAAAAATTACTCTTACATCCCCTATTTCGAGTCTACGGGACTTTAAA
1 ATCCACCCCAATACAGAGTAAAAATTACTCTTACATCCCCTATTTCGAGTCTACGGGACTTTAAA
23904218 AGTAGTTTAAAAATAGGCAGAGACTAATTTGAAACAATTCTGGAAGTTTAGGAAATAACTACAAA
66 AGTAGTTTAAAAATAGGCAGAGACTAATTTGAAACAATTCTGGAAGTTTAGGAAATAACTACAAA
23904283 AAATTTGATTATAGGGGTCACACACCCGTGTGGCCAGGCCGTGTAATTCTCTGACTTGGGTTACA
131 AAATTTGATTATAGGGGTCACACACCCGTGTGGCCAGGCCGTGTAATTCTCTGACTTGGGTTACA
23904348 CGCCCATGTGTGTTGCCCGTGTGTGATACACGCCCATGTGGCCAGGTCATGTGCACTTAAAAGTA
196 CGCCCATGTGTGTTGCCCGTGTGTGATACACGCCCATGTGGCCAGGTCATGTGCACTTAAAAGTA
23904413 CCTTAAAACTCAAGTTCATCATTTCCTAAGTACGTGGGCACTAAGCGACTCAATTACCAATCGTT
261 CCTTAAAACTCAAGTTCATCATTTCCTAAGTACGTGGGCACTAAGCGACTCAATTACCAATCGTT
23904478 TAACCCATTCAAAACATGATTAAACATGACCAAAATACACCAAATTCGTCACTTAATATGCCTAA
326 TAACCCATTCAAAACATGATTAAACATGACCAAAATACACCAAATTCGTCACTTAATATGCCTAA
23904543 CCAATGTACCTTC
391 CCAATGTACCTTC
23904556 ATCCACCCCAATACAGAGTAAAAATTACTCTTACATCCCCTATTTCGAGTCTACGGGACTTTAAA
1 ATCCACCCCAATACAGAGTAAAAATTACTCTTACATCCCCTATTTCGAGTCTACGGGACTTTAAA
23904621 AGTAGTTTAAAAATAGGCAGAGACTAATTTGAAACAATTCTGGAAGTTTAGGAAATAACTACAAA
66 AGTAGTTTAAAAATAGGCAGAGACTAATTTGAAACAATTCTGGAAGTTTAGGAAATAACTACAAA
23904686 AAATTTGATTATAGGGGTCACACACCCGTGTGGCCAGGCCGTGTAATTCTCTGACTTGGGTTACA
131 AAATTTGATTATAGGGGTCACACACCCGTGTGGCCAGGCCGTGTAATTCTCTGACTTGGGTTACA
23904751 CGCCCATGTGTGTTGCCCGTGTGTGATACACGCCCATGTGGCCAGGTCATGTGCACTTAAAAGTA
196 CGCCCATGTGTGTTGCCCGTGTGTGATACACGCCCATGTGGCCAGGTCATGTGCACTTAAAAGTA
23904816 CCTTAAAACTCAAGTTCATCATTTCCTAAGTACGTGGGCACTAAGCGACTCAATTACCAATCGTT
261 CCTTAAAACTCAAGTTCATCATTTCCTAAGTACGTGGGCACTAAGCGACTCAATTACCAATCGTT
23904881 TAACCCATTCAAAACATGATTAAACATGACCAAAATACACCAAATTCGTCACTTAATATGCCTAA
326 TAACCCATTCAAAACATGATTAAACATGACCAAAATACACCAAATTCGTCACTTAATATGCCTAA
23904946 CCAATGTACCTTC
391 CCAATGTACCTTC
23904959 AT
1 AT
23904961 TGGTACCACA
Statistics
Matches: 405, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
403 405 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (403 bp):
ATCCACCCCAATACAGAGTAAAAATTACTCTTACATCCCCTATTTCGAGTCTACGGGACTTTAAA
AGTAGTTTAAAAATAGGCAGAGACTAATTTGAAACAATTCTGGAAGTTTAGGAAATAACTACAAA
AAATTTGATTATAGGGGTCACACACCCGTGTGGCCAGGCCGTGTAATTCTCTGACTTGGGTTACA
CGCCCATGTGTGTTGCCCGTGTGTGATACACGCCCATGTGGCCAGGTCATGTGCACTTAAAAGTA
CCTTAAAACTCAAGTTCATCATTTCCTAAGTACGTGGGCACTAAGCGACTCAATTACCAATCGTT
TAACCCATTCAAAACATGATTAAACATGACCAAAATACACCAAATTCGTCACTTAATATGCCTAA
CCAATGTACCTTC
Found at i:23905681 original size:43 final size:43
Alignment explanation
Indices: 23905634--23905720 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
23905624 TCATATCTCA
* *
23905634 TTTCTCATATCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATATCATAATCATTTATCATATTTACCATTTCAATAT
* *
23905677 TTTCTCATATCATAGTCATTTATCATCTTTACCATTTCAATAT
1 TTTCTCATATCATAATCATTTATCATATTTACCATTTCAATAT
23905720 T
1 T
23905721 AATCACATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.21, G:0.01, T:0.51
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTATCATATTTACCATTTCAATAT
Found at i:23914554 original size:37 final size:37
Alignment explanation
Indices: 23914506--23914724 Score: 262
Period size: 37 Copynumber: 5.9 Consensus size: 37
23914496 CCGTATATCC
* * *
23914506 GTAGATTTTGCTCGTTTAAACTTCATTCAGTATAACA
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* * * * *
23914543 GTAGAAATTGCTTGTTTAACCTTCATTCAGTATAATA
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* *
23914580 GT-GAAATTTGCTCGTTTGAGCTTCATTTAGTATAATA
1 GTAG-AATTTGCTCGTTTGAGCTTCATTCAGTATAACA
*
23914617 GTAGAATTTGCTCGCTTGAGCTTCATTCAGTATAACA
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* *
23914654 GTAGAATTTGCTCATTTGAGCTTCATTTAGTATAAC-
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* * *
23914690 GATAGAATTTGCTCATTTTAGCTCCATTCAGTATA
1 G-TAGAATTTGCTCGTTTGAGCTTCATTCAGTATA
23914725 CAACATCATA
Statistics
Matches: 160, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
36 2 0.01
37 157 0.98
38 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (37 bp):
GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
Found at i:23919551 original size:100 final size:101
Alignment explanation
Indices: 23919445--23919658 Score: 288
Period size: 100 Copynumber: 2.1 Consensus size: 101
23919435 GTAAAAATTA
* * *
23919445 TGGATGAACCACTGATATTTTTAGTAAAAAGTTTGTAGAAAAGCTACTAGTAGGATATGGAAGCA
1 TGGATGAACCACAGA-ATTTTCAGTAAAAAATTTGTAGAAAAGCTACTAGTAGGATATGGAAGCA
* *
23919510 GAACA-TTTTTGT-AGATAAAAGCTGCTAGTAATTTG
65 CAACATTTTTTGTAAAATAAAAGCTGCTAGTAATTTG
* * * * *
23919545 TGGATGAACCACCAGAATTTTCAGTAAAAAATTTGTAGACAAGCTGCTAGTAGGTTGTGGATGCA
1 TGGATGAACCA-CAGAATTTTCAGTAAAAAATTTGTAGAAAAGCTACTAGTAGGATATGGAAGCA
*
23919610 CAACATTTTTTTTAAAATAAAAGCTGCTAGTAATTTG
65 CAACATTTTTTGTAAAATAAAAGCTGCTAGTAATTTG
*
23919647 TGAATGAACCAC
1 TGGATGAACCAC
23919659 CAGTGTTGCA
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
100 57 0.58
101 10 0.10
102 32 0.32
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (101 bp):
TGGATGAACCACAGAATTTTCAGTAAAAAATTTGTAGAAAAGCTACTAGTAGGATATGGAAGCAC
AACATTTTTTGTAAAATAAAAGCTGCTAGTAATTTG
Found at i:23925213 original size:56 final size:57
Alignment explanation
Indices: 23925119--23925288 Score: 240
Period size: 56 Copynumber: 3.0 Consensus size: 57
23925109 TCAAATTTGA
* *
23925119 AAATAAAATAAAATCTTGTT-AGACAGTGGGAATAAATCCTGAAACAGATTTTATTT
1 AAATCAAATAAAATCTTGTTAAGACAGTGGGAATAAATCCCGAAACAGATTTTATTT
* *
23925175 AAATCAAATAAAATCTTGTTAAGA-GGTGGGAATCAATCCCGAAACAGATTTTATTT
1 AAATCAAATAAAATCTTGTTAAGACAGTGGGAATAAATCCCGAAACAGATTTTATTT
** *
23925231 AAATCAAATAAAATCTTGTTAA-ACA-TCGAAAATAAATCCCGAAATAGATTTTATTT
1 AAATCAAATAAAATCTTGTTAAGACAGT-GGGAATAAATCCCGAAACAGATTTTATTT
23925287 AA
1 AA
23925289 TTCTATTATA
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
55 2 0.02
56 97 0.95
57 3 0.03
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (57 bp):
AAATCAAATAAAATCTTGTTAAGACAGTGGGAATAAATCCCGAAACAGATTTTATTT
Found at i:23927347 original size:14 final size:14
Alignment explanation
Indices: 23927328--23927354 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23927318 CATTTCTTGA
23927328 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
23927342 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
23927355 ACTGGATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:23932196 original size:56 final size:56
Alignment explanation
Indices: 23932106--23932219 Score: 156
Period size: 56 Copynumber: 2.0 Consensus size: 56
23932096 AAACAAAATA
* * * * * * *
23932106 AAATCAAATAAAATTTTGTTAAGCGGTGGGAATAAATCCCGAAATAGATTTTATTT
1 AAATAAAATAAAATCTTGTTAAACGATGGCAATAAATCCCAAAACAGATTTTATTT
*
23932162 AAATAAAATAAAATCTTGTTAAACGATGGCAATAAGTCCCAAAACAGATTTTATTT
1 AAATAAAATAAAATCTTGTTAAACGATGGCAATAAATCCCAAAACAGATTTTATTT
23932218 AA
1 AA
23932220 TTCTATTCTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (56 bp):
AAATAAAATAAAATCTTGTTAAACGATGGCAATAAATCCCAAAACAGATTTTATTT
Found at i:23932451 original size:87 final size:87
Alignment explanation
Indices: 23932162--23932508 Score: 349
Period size: 84 Copynumber: 4.0 Consensus size: 87
23932152 GATTTTATTT
* * * * * *
23932162 AAATAAAATAAAATCTTGTTAAACGATG-GCAATAAGTCCCAAAACAGATTTTATTTAATTCT-A
1 AAATCAAATAAAATCTTGTTAAAAGGTGTG-AATAAATCCCGAAATAGATTTTATTTAATT-TAA
* **
23932225 -TTCT-A-ATTTGAAAACAAAATA
64 TTTCTCATTTTTGGCAACAAAATA
*
23932246 AAATCAAATAAAATCTTGTTAAACAGTTG-GAATAAATCCCGAAATAGATTTTATTTAATTCT-A
1 AAATCAAATAAAATCTTGTTAAA-AGGTGTGAATAAATCCCGAAATAGATTTTATTTAATT-TAA
* * *
23932309 -TTCT-A-ATTTGGGAACAAGATA
64 TTTCTCATTTTTGGCAACAAAATA
* ** * *
23932330 AAATCAAATAAAATCTTGGTAAACAGCAGT-AATAAATCCCGAAACAGATTTTATTTTATTTAAT
1 AAATCAAATAAAATCTTGTTAAA-AGGTGTGAATAAATCCCGAAATAGATTTTATTTAATTTAAT
*
23932394 TTCTCATTTTTGGCAACAAAATC
65 TTCTCATTTTTGGCAACAAAATA
* *
23932417 AAATCAAAT-AAATCTTTATTAAATGGTGTGAATAAATCCCGAAATAGATTTTATTTAATTTAAT
1 AAATCAAATAAAATC-TTGTTAAAAGGTGTGAATAAATCCCGAAATAGATTTTATTTAATTTAAT
*
23932481 TTCTCATTTTTAGCAACAAAATCA
65 TTCTCATTTTTGGCAACAAAAT-A
23932505 AAAT
1 AAAT
23932509 GTAATAAATT
Statistics
Matches: 227, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
83 1 0.00
84 125 0.55
85 8 0.04
86 9 0.04
87 80 0.35
88 4 0.02
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (87 bp):
AAATCAAATAAAATCTTGTTAAAAGGTGTGAATAAATCCCGAAATAGATTTTATTTAATTTAATT
TCTCATTTTTGGCAACAAAATA
Found at i:23932453 original size:171 final size:167
Alignment explanation
Indices: 23932162--23932476 Score: 404
Period size: 171 Copynumber: 1.9 Consensus size: 167
23932152 GATTTTATTT
* *
23932162 AAATAAAATAAAATCTTGTTAAACGATGGCAATAAGTCCCAAAACAGATTTTATTTAATTCTATT
1 AAATAAAATAAAATCTTGGTAAACGA-GGCAATAAATCCCAAAACAGATTTTATTTAATTCTATT
*
23932227 CTAATTTGAAAACAAAATAAAATCAAATAAAATCTTGTTAAACAGTTGGAATAAATCCCGAAATA
65 CTAATTTGAAAACAAAATAAAATCAAATAAAATCTTATTAAACAGTTGGAATAAATCCCGAAATA
23932292 GATTTTATTTAATTCTATTCTAATTTGGGAACAAGATA
130 GATTTTATTTAATTCTATTCTAATTTGGGAACAAGATA
* * * *
23932330 AAATCAAATAAAATCTTGGTAAAC-AGCAGTAATAAATCCCGAAACAGATTTTATTTTATT-TAA
1 AAATAAAATAAAATCTTGGTAAACGAG--GCAATAAATCCCAAAACAGATTTTATTTAATTCT-A
* ** * * *
23932393 TTTCTCATTTTTGGCAACAAAATCAAATCAAAT-AAATCTTTATTAAA-TGGTGTGAATAAATCC
63 -TTCT-A-ATTTGAAAACAAAATAAAATCAAATAAAATC-TTATTAAACAGTTG-GAATAAATCC
23932456 CGAAATAGATTTTATTTAATT
123 CGAAATAGATTTTATTTAATT
23932477 TAATTTCTCA
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
166 1 0.01
167 2 0.02
168 51 0.40
169 4 0.03
170 9 0.07
171 59 0.47
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.35
Consensus pattern (167 bp):
AAATAAAATAAAATCTTGGTAAACGAGGCAATAAATCCCAAAACAGATTTTATTTAATTCTATTC
TAATTTGAAAACAAAATAAAATCAAATAAAATCTTATTAAACAGTTGGAATAAATCCCGAAATAG
ATTTTATTTAATTCTATTCTAATTTGGGAACAAGATA
Found at i:23932647 original size:79 final size:79
Alignment explanation
Indices: 23932511--23932716 Score: 295
Period size: 79 Copynumber: 2.6 Consensus size: 79
23932501 ATCAAAATGT
* * * *
23932511 AATAAATTCGTTGAACAGCGAGAATCAATCCCAAAATGGATTTTATTTTACTCGTTTTTGGAAAT
1 AATAAAATCGTTGAACGGCGAGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAAT
*
23932576 AAAACAAAATTTGG
66 AAAACAAAATTTAG
* * *
23932590 AATAAAATCATTGAACGGCGAAAATCAATCCCGAAACGGATTTTATTTTACTTGTTTTTGGAAAT
1 AATAAAATCGTTGAACGGCGAGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAAT
23932655 AAAACAAAATTTAG
66 AAAACAAAATTTAG
* * * * *
23932669 AATAAAATCGTTAAACGGTGGGAATAAATCCCGAAACCGATTTTATTT
1 AATAAAATCGTTGAACGGCGAGAATCAATCCCGAAACGGATTTTATTT
23932717 ACCTTTAATT
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 112 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (79 bp):
AATAAAATCGTTGAACGGCGAGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAAT
AAAACAAAATTTAG
Found at i:23934979 original size:25 final size:27
Alignment explanation
Indices: 23934932--23934988 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 27
23934922 TAAAAAATGG
23934932 AATTTTTAGAATTTTTGCTTTTT-T-T
1 AATTTTTAGAATTTTTGCTTTTTATAT
23934957 AATTTTT-GAATTATTT-CTATTTTATAT
1 AATTTTTAGAATT-TTTGCT-TTTTATAT
23934984 AATTT
1 AATTT
23934989 ATATTATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 7 0.25
25 14 0.50
26 1 0.04
27 6 0.21
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (27 bp):
AATTTTTAGAATTTTTGCTTTTTATAT
Found at i:23935059 original size:19 final size:19
Alignment explanation
Indices: 23935035--23935125 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 19
23935025 TTAATTTAAT
*
23935035 ATTTTTTATATTTTATATA
1 ATTTTATATATTTTATATA
* *
23935054 ATTTTTTAGGA-TTTATAT-
1 ATTTTATA-TATTTTATATA
* * *
23935072 ATTATAAATAATTTTTTATA
1 ATTTTATAT-ATTTTATATA
* *
23935092 ATTTTATATATTTTTTAAA
1 ATTTTATATATTTTATATA
* *
23935111 ATTATACATATTTTA
1 ATTTTATATATTTTA
23935126 AAGTTTCACA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
18 6 0.11
19 42 0.75
20 8 0.14
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTATATATTTTATATA
Found at i:23935082 original size:28 final size:29
Alignment explanation
Indices: 23935035--23935103 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
23935025 TTAATTTAAT
* * * *
23935035 ATTTTTTATATTTTATATAATTTTTTAGG
1 ATTTTATATATTATAAATAATTTTTTAGA
*
23935064 A-TTTATATATTATAAATAATTTTTTATA
1 ATTTTATATATTATAAATAATTTTTTAGA
23935092 ATTTTATATATT
1 ATTTTATATATT
23935104 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (29 bp):
ATTTTATATATTATAAATAATTTTTTAGA
Found at i:23935098 original size:8 final size:9
Alignment explanation
Indices: 23935029--23935105 Score: 50
Period size: 9 Copynumber: 8.3 Consensus size: 9
23935019 AAATTTTTAA
23935029 TTTA-ATAT
1 TTTATATAT
*
23935037 TTTTTATAT
1 TTTATATAT
23935046 TTTATATAAT
1 TTTATAT-AT
* *
23935056 TTTTTAGGA-
1 TTTATA-TAT
23935065 TTTATATAT
1 TTTATATAT
* *
23935074 TATAAATAAT
1 TTTATAT-AT
*
23935084 TTTTTATAAT
1 TTTATAT-AT
23935094 TTTATATAT
1 TTTATATAT
23935103 TTT
1 TTT
23935106 TTAAAATTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 9
0.71 0.16 0.12
Matches are distributed among these distances:
8 4 0.08
9 25 0.48
10 23 0.44
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTATATAT
Found at i:23935122 original size:48 final size:47
Alignment explanation
Indices: 23935035--23935127 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
23935025 TTAATTTAAT
** *
23935035 ATTTTTTATATTTTATATAATTTTTTAGGATTTATATATTATAAATA
1 ATTTTTTATATTTTATATAATTTTTTAAAATTTACATATTATAAATA
*
23935082 ATTTTTTATAATTTTATAT-ATTTTTTAAAATTATACATATTTTAAA
1 ATTTTTTAT-ATTTTATATAATTTTTTAAAATT-TACATATTATAAA
23935128 GTTTCACAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 20 0.50
48 20 0.50
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (47 bp):
ATTTTTTATATTTTATATAATTTTTTAAAATTTACATATTATAAATA
Found at i:23936443 original size:25 final size:25
Alignment explanation
Indices: 23936391--23936478 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
23936381 TTACCGATTC
*
23936391 CAGCTCTTATGAGCTTA-CTTATACT
1 CAGCTCGTATGAGCTTACCTTATA-T
23936416 CAGCTCGTATGAGCTTACCGTTAT-T
1 CAGCTCGTATGAGCTTACC-TTATAT
* * *
23936441 CAGCTTGGAGGAGCTTACCATT-TAT
1 CAGCTCGTATGAGCTTACC-TTATAT
*
23936466 C-TCTCGTATGAGC
1 CAGCTCGTATGAGC
23936479 ATACATGTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
24 9 0.18
25 37 0.73
26 1 0.02
27 4 0.08
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCTTATAT
Found at i:23938285 original size:16 final size:16
Alignment explanation
Indices: 23938264--23938332 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
23938254 GCGTTTTCGC
23938264 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23938280 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23938296 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
23938313 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23938329 TGTA
1 TGTA
23938333 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23938310 original size:33 final size:32
Alignment explanation
Indices: 23938264--23938332 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
23938254 GCGTTTTCGC
23938264 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
23938296 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
23938329 TGTA
1 TGTA
23938333 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:23938397 original size:44 final size:45
Alignment explanation
Indices: 23938313--23938402 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
23938303 GGATTAGAGG
* * *
23938313 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
23938358 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
23938402 T
1 T
23938403 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:23947225 original size:29 final size:30
Alignment explanation
Indices: 23947193--23947254 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
23947183 GTTTCACGTG
*
23947193 TATAATTGCATA-AAATTAAAGTTCATGTA
1 TATAATTGCATATAAATCAAAGTTCATGTA
*
23947222 TATAATTGCATATTAAATCAATGTTCATGTA
1 TATAATTGCATA-TAAATCAAAGTTCATGTA
23947253 TA
1 TA
23947255 ATTTTGAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 12 0.41
31 17 0.59
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (30 bp):
TATAATTGCATATAAATCAAAGTTCATGTA
Found at i:23947255 original size:29 final size:27
Alignment explanation
Indices: 23947191--23947257 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 27
23947181 GAGTTTCACG
*
23947191 TGTATAATTGCATAAAATTAAAGTTCA
1 TGTATAATTGCATAAAATCAAAGTTCA
*
23947218 TGTATATAATTGCATATTAAATCAATGTTCA
1 TG--TATAATTGCATA--AAATCAAAGTTCA
23947249 TGTATAATT
1 TGTATAATT
23947258 TTGAGATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 2 0.06
29 19 0.56
31 13 0.38
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (27 bp):
TGTATAATTGCATAAAATCAAAGTTCA
Found at i:23948468 original size:13 final size:13
Alignment explanation
Indices: 23948423--23948473 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
23948413 TAAAATTAAA
*
23948423 AAAATAGAATATT
1 AAAATATAATATT
23948436 AACAATATTAATATT
1 AA-AATA-TAATATT
23948451 AAAATA-AATATAT
1 AAAATATAATAT-T
23948464 AAAATA-AATA
1 AAAATATAATA
23948474 ATTTGTAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 5 0.15
13 13 0.38
14 8 0.24
15 8 0.24
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (13 bp):
AAAATATAATATT
Found at i:23949305 original size:9 final size:9
Alignment explanation
Indices: 23949276--23949360 Score: 125
Period size: 9 Copynumber: 9.4 Consensus size: 9
23949266 TTTGGTTAAA
23949276 AATTAACCG
1 AATTAACCG
* *
23949285 AATTATCTG
1 AATTAACCG
23949294 AATTAACCG
1 AATTAACCG
23949303 AATTAACCG
1 AATTAACCG
23949312 AATTAACCG
1 AATTAACCG
23949321 AATTAACCG
1 AATTAACCG
** *
23949330 GGTTACCCG
1 AATTAACCG
23949339 AATTAACCG
1 AATTAACCG
23949348 AATTAACCG
1 AATTAACCG
23949357 AATT
1 AATT
23949361 GAATCACTAC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:23955991 original size:20 final size:20
Alignment explanation
Indices: 23955966--23956005 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23955956 TACCCATGTT
23955966 CAAATACCTGTTTGATACTC
1 CAAATACCTGTTTGATACTC
23955986 CAAATACCTGTTTGATACTC
1 CAAATACCTGTTTGATACTC
23956006 TTGCCGGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (20 bp):
CAAATACCTGTTTGATACTC
Found at i:23957549 original size:18 final size:19
Alignment explanation
Indices: 23957507--23957550 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
23957497 TCCATTGATG
23957507 TTTATAACTCCATTAATTA
1 TTTATAACTCCATTAATTA
23957526 TCTTATAA-TCC-TTAAATTA
1 T-TTATAACTCCATT-AATTA
23957545 TTTATA
1 TTTATA
23957551 GGGTACGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 7 0.30
19 10 0.43
20 6 0.26
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTATAACTCCATTAATTA
Found at i:23957704 original size:17 final size:18
Alignment explanation
Indices: 23957664--23957705 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
23957654 GAAAGCTGAA
* *
23957664 TCATCCTTTTATTTTTTT
1 TCATTCTTTTATTTTTGT
*
23957682 TTATTCTTTTA-TTTTGT
1 TCATTCTTTTATTTTTGT
23957699 TCATTCT
1 TCATTCT
23957706 ATAATTCTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (18 bp):
TCATTCTTTTATTTTTGT
Found at i:23960000 original size:126 final size:127
Alignment explanation
Indices: 23959839--23960092 Score: 501
Period size: 126 Copynumber: 2.0 Consensus size: 127
23959829 ATCTTGCTAA
23959839 TGTTGATGAGTTTATATCTCAGACTTTTATTGATTGTTGTATATGAGTTTGAAAAACTTTTATAA
1 TGTTGATGAGTTTATATCTCAGACTTTTATTGATTGTTGTATATGAGTTTGAAAAACTTTTATAA
23959904 AGCCTGTTACTATATGCATAATGGTTTAAAGAAATTATTGATTTAACGTCTTTGGTTAATAT
66 AGCCTGTTACTATATGCATAATGGTTTAAAGAAATTATTGATTTAACGTCTTTGGTTAATAT
23959966 TGTTGATGAG-TTATATCTCAGACTTTTATTGATTGTTGTATATGAGTTTGAAAAACTTTTATAA
1 TGTTGATGAGTTTATATCTCAGACTTTTATTGATTGTTGTATATGAGTTTGAAAAACTTTTATAA
23960030 AGCCTGTTACTATATGCATAATGGTTTAAAGAAATTATTGATTTAACGTCTTTGGTTAATAT
66 AGCCTGTTACTATATGCATAATGGTTTAAAGAAATTATTGATTTAACGTCTTTGGTTAATAT
23960092 T
1 T
23960093 TAAACCACTA
Statistics
Matches: 127, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 117 0.92
127 10 0.08
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.45
Consensus pattern (127 bp):
TGTTGATGAGTTTATATCTCAGACTTTTATTGATTGTTGTATATGAGTTTGAAAAACTTTTATAA
AGCCTGTTACTATATGCATAATGGTTTAAAGAAATTATTGATTTAACGTCTTTGGTTAATAT
Found at i:23962873 original size:47 final size:50
Alignment explanation
Indices: 23962780--23962875 Score: 126
Period size: 47 Copynumber: 2.0 Consensus size: 50
23962770 ATCCATGATA
* * * *
23962780 AATGGATGTCCATAACCCCTCTCAAATTTATTCTATTGTAATCCCTAAAG
1 AATGAATGTCCATAACCCCTCTCAAATTCATTATATTGTAACCCCTAAAG
*
23962830 AATGAATGTCCATAA-CCC-CT-AAATTCATTATCTTGTAACCCCTAAA
1 AATGAATGTCCATAACCCCTCTCAAATTCATTATATTGTAACCCCTAAA
23962876 TCATTTATAG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 22 0.54
48 2 0.05
49 3 0.07
50 14 0.34
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.32
Consensus pattern (50 bp):
AATGAATGTCCATAACCCCTCTCAAATTCATTATATTGTAACCCCTAAAG
Found at i:23974089 original size:22 final size:22
Alignment explanation
Indices: 23974064--23974107 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
23974054 GAAAACCCGA
23974064 AAACA-AAGAACTCTCAAAATGT
1 AAACACAA-AACTCTCAAAATGT
* *
23974086 AAACACAAAATTCTCTAAATGT
1 AAACACAAAACTCTCAAAATGT
23974108 GTTATGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.23
Consensus pattern (22 bp):
AAACACAAAACTCTCAAAATGT
Found at i:23982592 original size:21 final size:22
Alignment explanation
Indices: 23982544--23982594 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
23982534 TTAATTATTG
23982544 TTAAAAAT-TTTAAAATATATA
1 TTAAAAATATTTAAAATATATA
*
23982565 TT-TAAATATTT-AAATATACT-
1 TTAAAAATATTTAAAATATA-TA
23982585 TTAAAAATAT
1 TTAAAAATAT
23982595 ATTTTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAAAATATTTAAAATATATA
Found at i:23989294 original size:45 final size:46
Alignment explanation
Indices: 23989230--23989441 Score: 254
Period size: 45 Copynumber: 4.7 Consensus size: 46
23989220 TATCGGAGTG
* *
23989230 TGCCATGGTATCTTTCAACCATGGTATTATTTATTCTC-ATCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTATTATTTATTCTCGATCTTGA
* *
23989275 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCG-TCTTGG
1 TGCCATAGTGTCTTTCAACCATGGTATTATTTATTCTCGATCTTGA
* *
23989320 TGCCACAGTGTCTTTCAACCATTGTCA-TATTTATTCTCGA-CTTGA
1 TGCCATAGTGTCTTTCAACCATGGT-ATTATTTATTCTCGATCTTGA
* * * * * *
23989365 TGCCATAGTGTCTTTCAAACATGGTTTTATTCATTTTCTG-TCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTATTATTTATTCTC-GATCTTGA
*
23989411 TGCCATAGTGTCTTTCAACCATGGTCTTATT
1 TGCCATAGTGTCTTTCAACCATGGTATTATT
23989442 CATTTAATTT
Statistics
Matches: 143, Mismatches: 18, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
45 110 0.77
46 33 0.23
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACCATGGTATTATTTATTCTCGATCTTGA
Found at i:23989382 original size:90 final size:91
Alignment explanation
Indices: 23989240--23989441 Score: 284
Period size: 90 Copynumber: 2.2 Consensus size: 91
23989230 TGCCATGGTA
*
23989240 TCTTTCAACCATGGT-ATTATTTATTCTCATCTTGATGCCATAGTGTCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCA-TATTTATTCTCATCTTGATGCCATAGTGTCTTTCAAACATGGTCTTA
* *
23989304 TTTATTCTC-GTCTTGGTGCCACAGTG
65 TTCATTCTCTGTCGTGGTGCCACAGTG
* *
23989330 TCTTTCAACCATTGTCATATTTATTCTCGA-CTTGATGCCATAGTGTCTTTCAAACATGGTTTTA
1 TCTTTCAACCATGGTCATATTTATTCTC-ATCTTGATGCCATAGTGTCTTTCAAACATGGTCTTA
* * *
23989394 TTCATTTTCTGTCGTGTTGCCATAGTG
65 TTCATTCTCTGTCGTGGTGCCACAGTG
*
23989421 TCTTTCAACCATGGTCTTATT
1 TCTTTCAACCATGGTCATATT
23989442 CATTTAATTT
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
90 64 0.65
91 35 0.35
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (91 bp):
TCTTTCAACCATGGTCATATTTATTCTCATCTTGATGCCATAGTGTCTTTCAAACATGGTCTTAT
TCATTCTCTGTCGTGGTGCCACAGTG
Found at i:23989480 original size:91 final size:89
Alignment explanation
Indices: 23989229--23989484 Score: 264
Period size: 90 Copynumber: 2.8 Consensus size: 89
23989219 TTATCGGAGT
* * * * *
23989229 GTGCCATGGTATCTTTCAACCATGGTATTATTTATTCTCATCTTGATGCCATAGTGTCTTTCAAC
1 GTGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTAATCTTGATGCCATAGTGTCTTT-AAA
* *
23989294 CATGGTCTTATTTATTCTCGTCTTG
65 CATGGTCTTATTCATTCTCGTCGTG
* * * *
23989319 GTGCCACAGTGTCTTTCAACCATTGTCATATTTATTCTCGA-CTTGATGCCATAGTGTCTTTCAA
1 GTGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCT-AATCTTGATGCCATAGTGTCTTT-AA
* *
23989383 ACATGGTTTTATTCATTTTCTGTCGTG
64 ACATGGTCTTATTCATTCTC-GTCGTG
* * * * * * *
23989410 TTGCCATAGTGTCTTTCAACCATGGTCTTATTCATT-TAATTTGTGATGTCATAGCGTCTTTTAG
1 GTGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTAATCT-TGATGCCATAGTGTCTTTAAA
23989474 CTATGGTCTTA
65 C-ATGGTCTTA
23989485 CTCAATAGAA
Statistics
Matches: 137, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
89 1 0.01
90 75 0.55
91 61 0.45
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (89 bp):
GTGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTAATCTTGATGCCATAGTGTCTTTAAAC
ATGGTCTTATTCATTCTCGTCGTG
Found at i:23999053 original size:20 final size:20
Alignment explanation
Indices: 23999028--23999074 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
23999018 ATAGAGGTAG
*
23999028 TAAAATGTATACAATAAA-AT
1 TAAAATGTATA-AAAAAATAT
*
23999048 TAAAATATATAAAAAAATAT
1 TAAAATGTATAAAAAAATAT
23999068 TAAAATG
1 TAAAATG
23999075 AAGTTGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAAATGTATAAAAAAATAT
Found at i:23999437 original size:2 final size:2
Alignment explanation
Indices: 23999430--23999455 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23999420 GCGAGAAGGG
23999430 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23999456 GAGTGAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24016024 original size:43 final size:43
Alignment explanation
Indices: 24015977--24016060 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
24015967 TACTAGGAAA
24015977 ACCAAGCAACAACTAATGTAGGAGAGGCTTGAGTGCCCACTAG
1 ACCAAGCAACAACTAATGTAGGAGAGGCTTGAGTGCCCACTAG
24016020 ACCAAGCAACAACTAATGTAGGAGAGGCTTGAGTGCCCACT
1 ACCAAGCAACAACTAATGTAGGAGAGGCTTGAGTGCCCACT
24016061 TCCATTAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.17
Consensus pattern (43 bp):
ACCAAGCAACAACTAATGTAGGAGAGGCTTGAGTGCCCACTAG
Found at i:24018003 original size:959 final size:936
Alignment explanation
Indices: 24016019--24017899 Score: 3321
Period size: 959 Copynumber: 2.0 Consensus size: 936
24016009 GTGCCCACTA
* ** * * *
24016019 GACCAAGCAACAACTAATGTAGGAGAGGCTTGAGTGCCCACTTCCATTAACACATTGAGTAATTT
1 GACCAAGCAACAACTATTGTACCAGAGGCTTAAGTGCCCACTTCCATTAACACATTAAGAAATTT
24016084 TTAAGGATTCAATAAAAGATGATCGATCATCTAACATCATCTATTAAATCTCATGAATGAGTGAT
66 TTAAGGATTCAATAAAAGATGATCGATCATCTAACATCATCTATTAAATCTCATGAATGAGTGAT
* *
24016149 TTTTAGGATTTGTTTAGAGATTAGGGTTATACAACAGATCTGTGATAGGGAGTAACATTAAGGAA
131 TTTTAGGATGTGTTCAGAGATTAGGGTTATACAACAGATCTGTGATAGGGAGTAACATTAAGGAA
* *
24016214 TGATCTACAACGCAAGTGATCCTTGAAAAGTTGTTCACTTAATCCAGTAATCTTGTACTCCTGAT
196 TAATCTACAACGCAAGTGATCCTTGAAAAGTTGTTCACTTAATCCAGTAATCTTGTACTACTGAT
24016279 TTAATAGGCCGACTTACTTCTGATTTGATGGATTGTTTTAATCATCATATTCTTCAACATTTGCT
261 TTAATAGGCCGACTTACTTCTGATTTGATGGATTGTTTTAATCATCATATTCTTCAACATTTGCT
24016344 TTGTCTTAGTCTAGTTAATAGATTAAGGGTTTTTGGCATTCTGATTGGCAAGTTTCTTGAACAAA
326 TTGTCTTAGTCTAGTTAATAGATTAAGGGTTTTTGGCATTCTGATTGGCAAGTTTCTTGAACAAA
*
24016409 AAGAGGAAGTAGAAGAGTATGCTATGGAATCTAAAGTTATGTTGAGTGATGTTGGTTGTTGAATT
391 AAGAGGAAGTAGAAAAGTATGCTATGGAATCTAAAGTTATGTTGAGTGATGTTGGTTGTTGAATT
24016474 TTTGAAGCTCTAATTGTTGTTGTTTTGCTATAGGGGAAGTATATGTCCTTTTGCATTTGAAGCTG
456 TTTGAAGCTCTAATTGTTGTTGTTTTGCTATAGGGGAAGTATATGTCCTTTTGCATTTGAAGCTG
24016539 CTTATGTTTGCTAAATAAGATGTTGAACTGGAGATGGTGCTGACTTTGTGTGGTGATGAATTTTT
521 CTTATGTTTGCTAAATAAGATGTTGAACTGGAGATGGTGCTGACTTTGTGTGGTGATGAATTTTT
24016604 TTTTTCCTTTTTGAACTTTTATTTTGATGGGTTTGTATAATCTTTGAGATGATGATATTGATTTG
586 TTTTTCCTTTTTGAACTTTTATTTTGATGGGTTTGTATAATCTTTGAGATGATGATATTGATTTG
24016669 ATGATGCTAATGCTACTGTGATATTGAAACTAATATGAAACTATGATATTATGCTAAGGTGATTT
651 ATGATGCTAATGCTACTGTGATATTGAAACTAATATGAAACTATGATATTATGCTAAGGTGATTT
24016734 TTACTTTCTGCATTATACCTTATTTTCAACTTACTTAGATATAATCTAGTATTTTGATTATTGGT
716 TTACTTTCTG------A-C-TA-TTT-AAC-TAC---------A-CTA-TA-TTTGATTATTGGT
24016799 GCGAATTCTAGATATGGAGTTAATATTTAAAATTACTATATTATATTCTAATTTGAGTTTAGTAT
758 GCGAATTCTAGATATGGAGTTAATATTTAAAATTACTATATTATATTCTAATTTGAGTTTAGTAT
24016864 GGGGAGGTTTGTACTAAAGGGGAGTTATTGGTGACTATTATGTTTAACTTCTTGTATTGTTTGAT
823 GGGGAGGTTTGTACTAAAGGGGAGTTATTGGTGACTATTATGTTTAACTTCTTGTATTGTTTGAT
24016929 TTTGTTAAATAAATTACCAAAAGGGGAGATTTTTGAGGAAAAATAAGAT
888 TTTGTTAAATAAATTACCAAAAGGGGAGATTTTTGAGGAAAAATAAGAT
** * * *
24016978 GACCAAGCAACAACTATTGTAGGAGAGGCTTGAGTGCCCACTTCCATTAACACATTGAGCAATTT
1 GACCAAGCAACAACTATTGTACCAGAGGCTTAAGTGCCCACTTCCATTAACACATTAAGAAATTT
24017043 TTAAGGATTCAATAAAAGATGATCGATCATCTAACATCATCTATTAAATCTCATGAATGAGTGAT
66 TTAAGGATTCAATAAAAGATGATCGATCATCTAACATCATCTATTAAATCTCATGAATGAGTGAT
24017108 TTTTAGGATGTGTTCAGAGATTAGGGTTATACAACAGATCTGTGATAGGGAGTAACATTAAGGAA
131 TTTTAGGATGTGTTCAGAGATTAGGGTTATACAACAGATCTGTGATAGGGAGTAACATTAAGGAA
*
24017173 TAATCTACAACGCAAGTGATCCTTGAAAAGTTGTTCACTTAATCCAGTAATCTTGTACTATTGAT
196 TAATCTACAACGCAAGTGATCCTTGAAAAGTTGTTCACTTAATCCAGTAATCTTGTACTACTGAT
*
24017238 TTAATAGGCCGACTTACTTCTGATTTGATGGATTGTTTTAATCATCCTATTCTTCAACATTTGCT
261 TTAATAGGCCGACTTACTTCTGATTTGATGGATTGTTTTAATCATCATATTCTTCAACATTTGCT
24017303 TTGTCTTAGTCTAGTTAATAGATTAAGGGTTTTTGGCATTCTGATTGGCAAGTTTCTTGAACAAA
326 TTGTCTTAGTCTAGTTAATAGATTAAGGGTTTTTGGCATTCTGATTGGCAAGTTTCTTGAACAAA
24017368 AAGAGGAAGTAGAAAAGTATGCTATGGAATCTAAAGTTATGTTGAGTGATGTTGGTTGTTGAATT
391 AAGAGGAAGTAGAAAAGTATGCTATGGAATCTAAAGTTATGTTGAGTGATGTTGGTTGTTGAATT
24017433 TTTGAAGCTCTAATTGTTGTTGTTTTGCTATAGGGGAAGTATATGTCCTTTTGCATTTGAAGCTG
456 TTTGAAGCTCTAATTGTTGTTGTTTTGCTATAGGGGAAGTATATGTCCTTTTGCATTTGAAGCTG
24017498 CTTATGTTTGCTAAATAAGATGTTGAACTGGAGATGGTGCTGACTTTGTGTGGTGATGAA-TTTT
521 CTTATGTTTGCTAAATAAGATGTTGAACTGGAGATGGTGCTGACTTTGTGTGGTGATGAATTTTT
24017562 TTTTTCCTTTTTGAACTTTTATTTTGATGGGTTTGTATAATCTTTGAGATGATGATATTGATTTG
586 TTTTTCCTTTTTGAACTTTTATTTTGATGGGTTTGTATAATCTTTGAGATGATGATATTGATTTG
24017627 ATGATGCTAATGCTACTGTGATATTGAAACTAATATGAAACTATGATATTATGCTAAGGTGATTT
651 ATGATGCTAATGCTACTGTGATATTGAAACTAATATGAAACTATGATATTATGCTAAGGTGATTT
*
24017692 TTACTTTCTG-C-A-TT-A-TAC-CT-TA-TTGATTATTGGTGCGAATTCTAGGTATGGAGTTAA
716 TTACTTTCTGACTATTTAACTACACTATATTTGATTATTGGTGCGAATTCTAGATATGGAGTTAA
24017749 TATTTAAAATTACTATATTATATTCTAATTTGAGTTTAGTATGGGGAGGTTTGTACTAAAGGGGA
781 TATTTAAAATTACTATATTATATTCTAATTTGAGTTTAGTATGGGGAGGTTTGTACTAAAGGGGA
24017814 GTTATTGGTGACTATTATGTTTAACTTCTTGTATTGTTTGATTTTGTTAAATAAATTACCAAAAG
846 GTTATTGGTGACTATTATGTTTAACTTCTTGTATTGTTTGATTTTGTTAAATAAATTACCAAAAG
24017879 GGGAGATTTTTGAGGAAAAAT
911 GGGAGATTTTTGAGGAAAAAT
24017900 GCGTTGAATG
Statistics
Matches: 912, Mismatches: 10, Indels: 32
0.96 0.01 0.03
Matches are distributed among these distances:
927 185 0.20
929 2 0.00
931 2 0.00
942 3 0.00
944 1 0.00
946 2 0.00
948 1 0.00
950 1 0.00
958 144 0.16
959 571 0.63
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (936 bp):
GACCAAGCAACAACTATTGTACCAGAGGCTTAAGTGCCCACTTCCATTAACACATTAAGAAATTT
TTAAGGATTCAATAAAAGATGATCGATCATCTAACATCATCTATTAAATCTCATGAATGAGTGAT
TTTTAGGATGTGTTCAGAGATTAGGGTTATACAACAGATCTGTGATAGGGAGTAACATTAAGGAA
TAATCTACAACGCAAGTGATCCTTGAAAAGTTGTTCACTTAATCCAGTAATCTTGTACTACTGAT
TTAATAGGCCGACTTACTTCTGATTTGATGGATTGTTTTAATCATCATATTCTTCAACATTTGCT
TTGTCTTAGTCTAGTTAATAGATTAAGGGTTTTTGGCATTCTGATTGGCAAGTTTCTTGAACAAA
AAGAGGAAGTAGAAAAGTATGCTATGGAATCTAAAGTTATGTTGAGTGATGTTGGTTGTTGAATT
TTTGAAGCTCTAATTGTTGTTGTTTTGCTATAGGGGAAGTATATGTCCTTTTGCATTTGAAGCTG
CTTATGTTTGCTAAATAAGATGTTGAACTGGAGATGGTGCTGACTTTGTGTGGTGATGAATTTTT
TTTTTCCTTTTTGAACTTTTATTTTGATGGGTTTGTATAATCTTTGAGATGATGATATTGATTTG
ATGATGCTAATGCTACTGTGATATTGAAACTAATATGAAACTATGATATTATGCTAAGGTGATTT
TTACTTTCTGACTATTTAACTACACTATATTTGATTATTGGTGCGAATTCTAGATATGGAGTTAA
TATTTAAAATTACTATATTATATTCTAATTTGAGTTTAGTATGGGGAGGTTTGTACTAAAGGGGA
GTTATTGGTGACTATTATGTTTAACTTCTTGTATTGTTTGATTTTGTTAAATAAATTACCAAAAG
GGGAGATTTTTGAGGAAAAATAAGAT
Found at i:24024928 original size:42 final size:42
Alignment explanation
Indices: 24024868--24024951 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
24024858 TCATATGAAG
* *
24024868 CAAATAGCAACGAGAGGTAGAAATAATATATTTATTTGTTAA
1 CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
24024910 CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
1 CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
24024952 AATATTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (42 bp):
CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
Found at i:24040531 original size:22 final size:21
Alignment explanation
Indices: 24040506--24040554 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
24040496 AATTATTAAC
*
24040506 ATATTGAATTTTAATTAATTTT
1 ATATTAAATTTT-ATTAATTTT
*
24040528 ATATCAAAATTTTATTAATTTT
1 ATAT-TAAATTTTATTAATTTT
24040550 -TATTA
1 ATATTA
24040555 TTTTCGACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.04
21 3 0.13
22 13 0.57
23 6 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATTAAATTTTATTAATTTT
Found at i:24043462 original size:16 final size:15
Alignment explanation
Indices: 24043435--24043468 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
24043425 ATAACTAGTA
*
24043435 TATAATTATATTTAT
1 TATAATTATATTAAT
24043450 TATAATATATATTAAT
1 TATAAT-TATATTAAT
24043466 TAT
1 TAT
24043469 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:24044239 original size:24 final size:25
Alignment explanation
Indices: 24044194--24044241 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
24044184 CAATTTCAAT
*
24044194 TTTATTTAATTATTTAAAATTTTAG
1 TTTATTGAATTATTTAAAATTTTAG
*
24044219 TTTATTGAATTA-TTAATATTTTA
1 TTTATTGAATTATTTAAAATTTTA
24044242 TACTCATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTATTGAATTATTTAAAATTTTAG
Found at i:24045900 original size:19 final size:19
Alignment explanation
Indices: 24045876--24045914 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24045866 GTTCGTATGG
*
24045876 TTAAACTTTAAATTTTATA
1 TTAAACTTTAAAGTTTATA
24045895 TTAAACTTTAAAGTTTATA
1 TTAAACTTTAAAGTTTATA
24045914 T
1 T
24045915 ATATGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
TTAAACTTTAAAGTTTATA
Found at i:24046246 original size:42 final size:43
Alignment explanation
Indices: 24046176--24046303 Score: 172
Period size: 42 Copynumber: 3.0 Consensus size: 43
24046166 TGAGTTTTCG
* * * *
24046176 TTCAACCCTTACGGGTTT-TCGTTCAGCTCTTTTGAGCTTCTGT
1 TTCAACCCTTATGGGTTTCT-TTTTAGCTCTTATGAGCTTCTGT
* *
24046219 TT-AACCCTTATGGGTTTCTTTTTAGCTCTTACGAGCTT-TTT
1 TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
24046260 TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
1 TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
24046303 T
1 T
24046304 CAGCCTTCGG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.05
42 64 0.86
43 6 0.08
ACGTcount: A:0.13, C:0.22, G:0.16, T:0.48
Consensus pattern (43 bp):
TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
Found at i:24046300 original size:21 final size:21
Alignment explanation
Indices: 24046200--24046300 Score: 87
Period size: 21 Copynumber: 4.8 Consensus size: 21
24046190 GTTTTCGTTC
* *
24046200 AGCTCTTTTGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTTTTT
* * * *
24046221 AACCCTTATGGGTTTCTTTTT
1 AGCTCTTATGAGCTTCTTTTT
*
24046242 AGCTCTTACGAGCTT-TTTTT
1 AGCTCTTATGAGCTTCTTTTT
* * * *
24046262 CAACCCTTATGGGTTTCTTTTT
1 -AGCTCTTATGAGCTTCTTTTT
24046284 AGCTCTTATGAGCTTCT
1 AGCTCTTATGAGCTTCT
24046301 GTTCAGCCTT
Statistics
Matches: 58, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 5 0.09
21 48 0.83
22 5 0.09
ACGTcount: A:0.14, C:0.21, G:0.16, T:0.50
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTTTTT
Found at i:24047884 original size:25 final size:22
Alignment explanation
Indices: 24047836--24047884 Score: 53
Period size: 25 Copynumber: 2.1 Consensus size: 22
24047826 CATACTTCTA
**
24047836 GAACATAAAAAATTAGAATTTT
1 GAACATAAAAAATTAGAAAATT
24047858 GAACATAATAAAAGTGTAGAAAATT
1 GAACATAA-AAAA-T-TAGAAAATT
24047883 GA
1 GA
24047885 GTAATAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 4 0.18
24 1 0.05
25 9 0.41
ACGTcount: A:0.55, C:0.04, G:0.14, T:0.27
Consensus pattern (22 bp):
GAACATAAAAAATTAGAAAATT
Found at i:24062881 original size:17 final size:17
Alignment explanation
Indices: 24062859--24062891 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24062849 TATAACTTCC
24062859 TTTGAAAGCTT-TAAAAA
1 TTTGAAA-CTTCTAAAAA
24062876 TTTGAAACTTCTAAAA
1 TTTGAAACTTCTAAAA
24062892 GAAGTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (17 bp):
TTTGAAACTTCTAAAAA
Found at i:24072791 original size:15 final size:15
Alignment explanation
Indices: 24072771--24072823 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
24072761 AGCTTCACCT
24072771 TCTATACCTGTTACC
1 TCTATACCTGTTACC
* *
24072786 TCTATATCTCCTTCACCC
1 TCTATACCT-GTT-A-CC
*
24072804 TCTATACCGGTTACC
1 TCTATACCTGTTACC
24072819 TCTAT
1 TCTAT
24072824 TTCACCTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 15 0.50
16 3 0.10
17 3 0.10
18 9 0.30
ACGTcount: A:0.19, C:0.36, G:0.06, T:0.40
Consensus pattern (15 bp):
TCTATACCTGTTACC
Found at i:24072864 original size:33 final size:33
Alignment explanation
Indices: 24072763--24072850 Score: 131
Period size: 33 Copynumber: 2.7 Consensus size: 33
24072753 GAGACTTTAG
* *
24072763 CTTCACCTTCTATACCTGTTACCTCTATATCTC
1 CTTCACCTTCTATACCTGTTACCTCTATTTCAC
* *
24072796 CTTCACCCTCTATACCGGTTACCTCTATTTCAC
1 CTTCACCTTCTATACCTGTTACCTCTATTTCAC
*
24072829 CTTCATCTTCTATACCTGTTAC
1 CTTCACCTTCTATACCTGTTAC
24072851 TCCTTCTTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.18, C:0.36, G:0.05, T:0.41
Consensus pattern (33 bp):
CTTCACCTTCTATACCTGTTACCTCTATTTCAC
Found at i:24076301 original size:43 final size:44
Alignment explanation
Indices: 24076213--24076338 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 44
24076203 AGCTCGTACA
* *
24076213 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATACCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACACGTAAACACATACCG
*
24076256 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACACGTAAACACATA-CCG
* * *
24076299 ATGCCGACAT-T-CCAGATGTGGTCTTACACGAAAACACATA
1 ATGCCAAC-TGTCCCAGACGTGGTCTTACACGTAAACACATA
24076339 TCGGAGTCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 4 0.06
43 61 0.86
44 5 0.07
45 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACACGTAAACACATACCG
Found at i:24077720 original size:33 final size:33
Alignment explanation
Indices: 24077678--24077744 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
24077668 CGTTGTATTT
24077678 ATAATTTGATAAAGGGCCAAATTTTAAACACCC
1 ATAATTTGATAAAGGGCCAAATTTTAAACACCC
* *
24077711 ATAATTTGATAAGGGGCCAAATTTTAAATACCC
1 ATAATTTGATAAAGGGCCAAATTTTAAACACCC
24077744 A
1 A
24077745 AAACTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.28
Consensus pattern (33 bp):
ATAATTTGATAAAGGGCCAAATTTTAAACACCC
Found at i:24078564 original size:21 final size:21
Alignment explanation
Indices: 24078540--24078580 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
24078530 AGGGAGTGAC
24078540 ACTTACAATTTCATTATTGAA
1 ACTTACAATTTCATTATTGAA
*
24078561 ACTTACAATTTTATTATTGA
1 ACTTACAATTTCATTATTGA
24078581 TAAAGGTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (21 bp):
ACTTACAATTTCATTATTGAA
Found at i:24081840 original size:88 final size:90
Alignment explanation
Indices: 24081624--24081840 Score: 215
Period size: 90 Copynumber: 2.4 Consensus size: 90
24081614 AACCAAAAAC
* ** * * * * ***
24081624 GTTGCAGGTTAATACGTTGCCAAATGGTTGTGAATACACAACATATTTGCAAATAAGAGCTTTTA
1 GTTGCAGATTAATACACTACCAGATGGTTGTGAATACACAACATATTCGCAAATAAGAACTGCCA
* *
24081689 GATATTGGATGGATGAACCAACGAT
66 GAAAGTGGATGGATGAACCAACGAT
* * * * *
24081714 GTTGCAGGTTAATACACTGCTAGATGGTTGTGAGTACACAACATATTCGCAGATAAGAACTGCCA
1 GTTGCAGATTAATACACTACCAGATGGTTGTGAATACACAACATATTCGCAAATAAGAACTGCCA
* *
24081779 -AAAGTGGGTGGATGAACC-AC-CT
66 GAAAGTGGATGGATGAACCAACGAT
* *
24081801 GTTTTCAGATTTATACACTACCAGATGGTTGTGAATACAC
1 G-TTGCAGATTAATACACTACCAGATGGTTGTGAATACAC
24081841 CATAGGGTTG
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
87 2 0.02
88 34 0.32
89 15 0.14
90 54 0.51
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (90 bp):
GTTGCAGATTAATACACTACCAGATGGTTGTGAATACACAACATATTCGCAAATAAGAACTGCCA
GAAAGTGGATGGATGAACCAACGAT
Found at i:24085974 original size:17 final size:18
Alignment explanation
Indices: 24085936--24085976 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
24085926 AAACATAATG
24085936 AAAATTTTGTATCGATAT
1 AAAATTTTGTATCGATAT
24085954 AAAATTTTGGTATC-A-AT
1 AAAATTTT-GTATCGATAT
24085971 AAAATT
1 AAAATT
24085977 CAATAGGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 9 0.41
19 5 0.23
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (18 bp):
AAAATTTTGTATCGATAT
Found at i:24088278 original size:20 final size:20
Alignment explanation
Indices: 24088233--24088282 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
24088223 ATAAAATTTT
24088233 GGTATCGATAAAATTCAATA
1 GGTATCGATAAAATTCAATA
* *
24088253 GATATCGATAAAATTTTAA-A
1 GGTATCGATAAAA-TTCAATA
24088273 GGTATCGATA
1 GGTATCGATA
24088283 CTCAATGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (20 bp):
GGTATCGATAAAATTCAATA
Found at i:24088509 original size:20 final size:19
Alignment explanation
Indices: 24088468--24088509 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 19
24088458 GTCAAAATTA
24088468 TTCTAAGTGTTTAAAGCATT
1 TTCTAAGTGTTTAAAG-ATT
24088488 TTCTAAGCTGTTTGAAAG-TT
1 TTCTAAG-TGTTT-AAAGATT
24088508 TT
1 TT
24088510 GAAATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 11 0.55
21 5 0.25
22 4 0.20
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.48
Consensus pattern (19 bp):
TTCTAAGTGTTTAAAGATT
Found at i:24098868 original size:17 final size:17
Alignment explanation
Indices: 24098846--24098878 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24098836 TTCTACTACA
24098846 AAATATTTATTATTAAT
1 AAATATTTATTATTAAT
*
24098863 AAATATTTTTTATTAA
1 AAATATTTATTATTAA
24098879 AACATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATATTTATTATTAAT
Found at i:24103576 original size:34 final size:35
Alignment explanation
Indices: 24103532--24103598 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
24103522 CCAGTAAATA
*
24103532 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
24103566 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
24103599 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:24105678 original size:21 final size:22
Alignment explanation
Indices: 24105634--24105689 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
24105624 CTTGTTCAGT
24105634 TCATTTATGTTCATTCACAAGC
1 TCATTTATGTTCATTCACAAGC
* *
24105656 TCATTTATGTTCGTTTA-AAGC
1 TCATTTATGTTCATTCACAAGC
*
24105677 TCTTTTATTGTTC
1 TCATTTA-TGTTC
24105690 CATTAGTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.50
Consensus pattern (22 bp):
TCATTTATGTTCATTCACAAGC
Found at i:24106476 original size:13 final size:13
Alignment explanation
Indices: 24106458--24106486 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24106448 TGAAAGGAAG
24106458 ACTACCTTAGTTA
1 ACTACCTTAGTTA
24106471 ACTACCTTAGTTA
1 ACTACCTTAGTTA
24106484 ACT
1 ACT
24106487 GGGCTGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (13 bp):
ACTACCTTAGTTA
Found at i:24109930 original size:40 final size:40
Alignment explanation
Indices: 24109807--24109947 Score: 144
Period size: 40 Copynumber: 3.6 Consensus size: 40
24109797 CGACTTTGAG
* *
24109807 TCGATGAGACACTAGGTGTCAAATTATTACTTCCAATATAT
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGAAT-TAT
* * * ** *
24109848 TCAATGAGGCATTGGGTGTC-AA-T-TTACTTCGGTTTAG
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
*
24109885 CCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
* * *
24109925 TCGATGAGGCAGTGGGTGCCAAA
1 TCGATGAGACACTGGGTGTCAAA
24109948 CTGGTGTGTA
Statistics
Matches: 78, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 18 0.23
38 10 0.13
39 2 0.03
40 32 0.41
41 16 0.21
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
Found at i:24119222 original size:48 final size:47
Alignment explanation
Indices: 24119055--24119225 Score: 238
Period size: 48 Copynumber: 3.6 Consensus size: 47
24119045 TATATACAAC
* * *
24119055 AAATTGG-CAGCAAATATACAACGAATTGAGCAGCATTTTTGCACCA
1 AAATTGGACAGCTAATATACAACAAATTGAGCAGCATTTTTACACCA
* *
24119101 AAATTGGACAGC-AATTACACAACAATTTGAGCAGCATTTTTACACCAA
1 AAATTGGACAGCTAA-TATACAACAAATTGAGCAGCATTTTTACACC-A
*
24119149 AAATTGGACAGCTTATATACAACAAATTGAGCAGCATTTTTTACACCA
1 AAATTGGACAGCTAATATACAACAAATTGAGCAGCA-TTTTTACACCA
*
24119197 AAATTGGACAGCTTATATACAACAAATTG
1 AAATTGGACAGCTAATATACAACAAATTG
24119226 GCAACAAATA
Statistics
Matches: 113, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
46 9 0.08
47 31 0.27
48 62 0.55
49 11 0.10
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (47 bp):
AAATTGGACAGCTAATATACAACAAATTGAGCAGCATTTTTACACCA
Found at i:24119261 original size:95 final size:95
Alignment explanation
Indices: 24119046--24119282 Score: 263
Period size: 95 Copynumber: 2.5 Consensus size: 95
24119036 TGGACAGCTT
* *
24119046 ATATACAACAAATTGGCAGCA-A-ATATACAACGAATTGAGCAGCA-TTTTTGCACCAAAATTGG
1 ATATACAACAAATTGGCAGCATATATATACAACAAATTGAGCAGCATTTTTTACACCAAAATTGG
* * *
24119108 ACAGCAATTACACAACAATTTGAGCAGCAT
66 ACAGCAATTACACAACAAATTGAGCAACAA
* * *
24119138 TTTTACACCAAAAATTGGACAGC-T-TATATACAACAAATTGAGCAGCATTTTTTACACCAAAAT
1 ATATACA--ACAAATTGG-CAGCATATATATACAACAAATTGAGCAGCATTTTTTACACCAAAAT
* *
24119201 TGGACAGC-TTATATACAACAAATTG-GCAACAA
63 TGGACAGCAAT-TACACAACAAATTGAGCAACAA
* * *
24119233 ATATACAACAAATTGAGCAGCATATATATACAAGAAATTGTGCCGCATTT
1 ATATACAACAAATTG-GCAGCATATATATACAACAAATTGAGCAGCATTT
24119283 AAGCATAAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
92 5 0.04
93 11 0.09
94 10 0.08
95 59 0.50
96 34 0.29
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (95 bp):
ATATACAACAAATTGGCAGCATATATATACAACAAATTGAGCAGCATTTTTTACACCAAAATTGG
ACAGCAATTACACAACAAATTGAGCAACAA
Found at i:24119280 original size:25 final size:25
Alignment explanation
Indices: 24119045--24119272 Score: 143
Period size: 23 Copynumber: 9.6 Consensus size: 25
24119035 TTGGACAGCT
24119045 TATATACAACAAATTG-GCAGCA-A
1 TATATACAACAAATTGAGCAGCATA
*
24119068 -ATATACAACGAATTGAGCAGCAT-
1 TATATACAACAAATTGAGCAGCATA
* * *
24119091 T-TTTGCACCAAAATTG-GACAGCA-A
1 TATATACAAC-AAATTGAG-CAGCATA
* * *
24119115 T-TACACAACAATTTGAGCAGCATT
1 TATATACAACAAATTGAGCAGCATA
* *
24119139 TTTACACCAA-AAATTG-GACAGC-T-
1 TATATA-CAACAAATTGAG-CAGCATA
24119162 TATATACAACAAATTGAGCAGCAT-
1 TATATACAACAAATTGAGCAGCATA
* * *
24119186 TTTTTACACCAAAATTG-GACAGC-T-
1 TATATACAAC-AAATTGAG-CAGCATA
*
24119210 TATATACAACAAATTG-GCAACA-A
1 TATATACAACAAATTGAGCAGCATA
24119233 -ATATACAACAAATTGAGCAGCATA
1 TATATACAACAAATTGAGCAGCATA
*
24119257 TATATACAAGAAATTG
1 TATATACAACAAATTG
24119273 TGCCGCATTT
Statistics
Matches: 161, Mismatches: 23, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
22 35 0.22
23 48 0.30
24 38 0.24
25 37 0.23
26 3 0.02
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (25 bp):
TATATACAACAAATTGAGCAGCATA
Found at i:24120852 original size:11 final size:12
Alignment explanation
Indices: 24120835--24120863 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
24120825 TTTATGTTTT
24120835 TTATTAACATTA
1 TTATTAACATTA
24120847 -TATTAACATTA
1 TTATTAACATTA
24120858 TTATTA
1 TTATTA
24120864 TTTTACTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATTAACATTA
Found at i:24127316 original size:27 final size:28
Alignment explanation
Indices: 24127256--24127317 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
24127246 CACAAAAAAG
*
24127256 TTCCTTTCATAATTCGCCACAAAGGACT
1 TTCCTTTCATAATTCACCACAAAGGACT
* *
24127284 TT-CTTTCATATTTCACCACAAAGG-GT
1 TTCCTTTCATAATTCACCACAAAGGACT
24127310 TTCCTTTC
1 TTCCTTTC
24127318 CTTATGTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 3 0.10
27 25 0.83
28 2 0.07
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (28 bp):
TTCCTTTCATAATTCACCACAAAGGACT
Found at i:24144246 original size:3 final size:3
Alignment explanation
Indices: 24144240--24144265 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24144230 GTTATTTATT
24144240 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
24144266 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:24145407 original size:7 final size:7
Alignment explanation
Indices: 24145395--24145421 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24145385 AATTCTAAAA
24145395 TTAATAT
1 TTAATAT
24145402 TTAATAT
1 TTAATAT
24145409 TTAATAT
1 TTAATAT
24145416 TTAATA
1 TTAATA
24145422 CTTTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAATAT
Found at i:24152040 original size:3 final size:3
Alignment explanation
Indices: 24152032--24152066 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
24152022 CTGTTGAACT
24152032 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24152067 GGTGTTTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24152277 original size:44 final size:43
Alignment explanation
Indices: 24152210--24152707 Score: 233
Period size: 44 Copynumber: 11.5 Consensus size: 43
24152200 CAAGTAGCCT
*
24152210 CACTGCAACTTCAAGAGG-G-TAAGACTTGTTTACTTAGTCTGCTC
1 CACTGCAACTTC-AG-GGAGATAAGACTTG-TTACTTAATCTGCTC
* * * *
24152254 CACTGCAACTTCAGGGAGATAAGACTAGATGC--GATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGACTTGTTACTTAATCTGCTC
* * * * ** *
24152294 CTCTACAACTTCAGAGAGATAAAATCCAAGATT--TTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGA--CTTG-TTACTTAATCTGCTC
* * * * * *
24152338 CATTGCAACTTCAGGGAAAT-AGAATTATTGGCTTTAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTTGTT-AC-TTAATCTGCTC
** * *
24152382 CACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTCAGTCTGC-C
1 CACTGCAACTTCAGGGAGATAAGACTTGTTA-CTT-AATCTGCTC
* *
24152426 TCACTGCAACTTCA-GGAGGATAAGACCTGCTTACTTAGTCTGCTC
1 -CACTGCAACTTCAGGGA-GATAAGACTTG-TTACTTAATCTGCTC
* * **
24152471 TACTGCAACTTCAGGGAGATAAGACTAG--A-TGGGATCTGC-C
1 CACTGCAACTTCAGGGAGATAAGACTTGTTACT-TAATCTGCTC
* * ** **
24152511 CTCTGCAACTTCAGAGAGATAAGATCCAAGATT--TTAATCCACTC
1 CACTGCAACTTCAGGGAGATAAGA--CTTG-TTACTTAATCTGCTC
* * * * * *
24152555 CACTTCAACTTCAGGGAAATAGGA-TTATTGGCTTTAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTTGTT-AC-TTAATCTGCTC
* * * *
24152599 CACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTAC-C
1 CACTGCAACTTCAGGGAGATAAGACTTGTTA-CTT-AATCTGCTC
* *
24152643 TCGCTGTAACTTCA-GGAGGATAAGACTTGCTTACTTAATCTGCTC
1 -CACTGCAACTTCAGGGA-GATAAGACTTG-TTACTTAATCTGCTC
24152688 CACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAGAT
24152708 GGGATTATTG
Statistics
Matches: 335, Mismatches: 80, Indels: 78
0.68 0.16 0.16
Matches are distributed among these distances:
40 47 0.14
41 12 0.04
42 8 0.02
43 18 0.05
44 171 0.51
45 75 0.22
46 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGACTTGTTACTTAATCTGCTC
Found at i:24152584 original size:217 final size:217
Alignment explanation
Indices: 24152206--24152707 Score: 844
Period size: 217 Copynumber: 2.3 Consensus size: 217
24152196 TCTTCAAGTA
* * *
24152206 GCCTCACTGCAACTTCAAGAGGGTAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
1 GCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* *
24152271 GATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAAATCCAAGATTTTAATCCGC
66 GATAAGACTAGATGCGATCTGCCCTCTACAACTTCAGAGAGATAAAATCCAAGATTTTAATCCAC
24152336 TCCATTGCAACTTCAGGGAAATAGAATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
131 TCCATTGCAACTTCAGGGAAATAGAATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
*
24152401 TAAGGTTTGTCATCTTCAGTCT
196 TAAGATTTGTCATCTTCAGTCT
* *
24152423 GCCTCACTGCAACTTCAGGAGGATAAGACCTGCTTACTTAGTCTGCTCTACTGCAACTTCAGGGA
1 GCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* * *
24152488 GATAAGACTAGATGGGATCTGCCCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCAC
66 GATAAGACTAGATGCGATCTGCCCTCTACAACTTCAGAGAGATAAAATCCAAGATTTTAATCCAC
*
24152553 TCCACTT-CAACTTCAGGGAAATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGGAG
131 TCCA-TTGCAACTTCAGGGAAATAGAATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGGAG
24152617 ATAAGATTTGTCATCTTCAGTCT
195 ATAAGATTTGTCATCTTCAGTCT
* * * *
24152640 ACCTCGCTGTAACTTCAGGAGGATAAGACTTGCTTACTTAATCTGCTCCACTGCAACTTCAGGGA
1 GCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
24152705 GAT
66 GAT
24152708 GGGATTATTG
Statistics
Matches: 266, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
217 264 0.99
218 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (217 bp):
GCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
GATAAGACTAGATGCGATCTGCCCTCTACAACTTCAGAGAGATAAAATCCAAGATTTTAATCCAC
TCCATTGCAACTTCAGGGAAATAGAATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTTGTCATCTTCAGTCT
Found at i:24164850 original size:18 final size:18
Alignment explanation
Indices: 24164810--24164851 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
24164800 AAAAAAAGGG
24164810 TATAAATACGTACATAATA
1 TATAAATAC-TACATAATA
24164829 -ATAAATA-TACATATATA
1 TATAAATACTACATA-ATA
24164846 TATAAA
1 TATAAA
24164852 ATAATAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.29
17 3 0.14
18 12 0.57
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (18 bp):
TATAAATACTACATAATA
Found at i:24167799 original size:2 final size:2
Alignment explanation
Indices: 24167792--24167818 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24167782 AAAACAAGTT
24167792 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
24167819 TTAAGATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24180061 original size:90 final size:93
Alignment explanation
Indices: 24179931--24180114 Score: 232
Period size: 90 Copynumber: 2.0 Consensus size: 93
24179921 TATTTTTAAG
* *
24179931 GCTCGTTGATTTACGATCACAGTCTAAGTTCATTGATTTACAATTATGAACAAGTTT-TCCTGAG
1 GCTCGGTGATTTACGAT-ACAGTCTAAGTTCATTGATTTACAATCATGAACAA-TTTCTCCTGAG
24179995 TTTGCTGACTTACAATCACAACTCCAAATA
64 TTTGCTGACTTACAATCACAACTCCAAATA
* * * *
24180025 GCTCGGTGATTTACGAT-C-G-CTAAGTTTATTGATTTACGATCATGAATAATTTCTCTTGAGTT
1 GCTCGGTGATTTACGATACAGTCTAAGTTCATTGATTTACAATCATGAACAATTTCTCCTGAGTT
* * **
24180087 TGTTGATTTATTATCACAACTCCAAATA
66 TGCTGACTTACAATCACAACTCCAAATA
24180115 ACTCACTAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
89 3 0.04
90 58 0.73
91 1 0.01
92 1 0.01
94 16 0.20
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (93 bp):
GCTCGGTGATTTACGATACAGTCTAAGTTCATTGATTTACAATCATGAACAATTTCTCCTGAGTT
TGCTGACTTACAATCACAACTCCAAATA
Found at i:24180226 original size:63 final size:63
Alignment explanation
Indices: 24180159--24180299 Score: 196
Period size: 63 Copynumber: 2.2 Consensus size: 63
24180149 AGGCCTTTTT
* * *
24180159 ATTTACGATCACAACCTAAGTTCATTAATTAACGATCATGAACAAT-TTCTCCTGAGTTCGCT-G
1 ATTTACGATCACAACCTAAATTCATTAATTAACGATCATGAACAATATT-TCCCGAGTTAG-TGG
* *
24180222 ATTTACGATCACAACCTAAATTCATTAATTTACGATCATGAATAATATTTCCCGAGTTAGTGG
1 ATTTACGATCACAACCTAAATTCATTAATTAACGATCATGAACAATATTTCCCGAGTTAGTGG
*
24180285 ATTCACGATCACAAC
1 ATTTACGATCACAAC
24180300 TTAGGTACGA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
62 1 0.01
63 67 0.96
64 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (63 bp):
ATTTACGATCACAACCTAAATTCATTAATTAACGATCATGAACAATATTTCCCGAGTTAGTGG
Found at i:24186178 original size:5 final size:6
Alignment explanation
Indices: 24186160--24186184 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24186150 AAACTTTCGC
24186160 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
24186185 CGTTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:24187888 original size:16 final size:16
Alignment explanation
Indices: 24187863--24187896 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
24187853 TAATGAATAT
*
24187863 ATGTGTAAATATGATA
1 ATGTGCAAATATGATA
24187879 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
24187895 AT
1 AT
24187897 TAGATATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:24189716 original size:27 final size:27
Alignment explanation
Indices: 24189686--24189750 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
24189676 CGAGCTAGGT
* *
24189686 TTCGCCAGTCTATTTGGTGAACT-GGGG
1 TTCGCCAGTCTATTTGGCGAA-TAAGGG
* **
24189713 TTCGCTAGTCGGTTTGGCGAATAAGGG
1 TTCGCCAGTCTATTTGGCGAATAAGGG
24189740 TTCGCCAGTCT
1 TTCGCCAGTCT
24189751 TATTGTGGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.15, C:0.20, G:0.32, T:0.32
Consensus pattern (27 bp):
TTCGCCAGTCTATTTGGCGAATAAGGG
Found at i:24196626 original size:5 final size:6
Alignment explanation
Indices: 24196608--24196632 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24196598 AAACTTTCGC
24196608 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
24196633 CGTTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:24198336 original size:16 final size:16
Alignment explanation
Indices: 24198311--24198344 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
24198301 TAATGAATAT
*
24198311 ATGTGTAAATATGATA
1 ATGTGCAAATATGATA
24198327 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
24198343 AT
1 AT
24198345 TAGATATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:24200174 original size:27 final size:27
Alignment explanation
Indices: 24200144--24200208 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
24200134 CGAGCTAGGT
* *
24200144 TTCGCCAGTCTATTTGGTGAACT-GGGG
1 TTCGCCAGTCTATTTGGCGAA-TAAGGG
* **
24200171 TTCGCTAGTCGGTTTGGCGAATAAGGG
1 TTCGCCAGTCTATTTGGCGAATAAGGG
24200198 TTCGCCAGTCT
1 TTCGCCAGTCT
24200209 TATTGTGGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.15, C:0.20, G:0.32, T:0.32
Consensus pattern (27 bp):
TTCGCCAGTCTATTTGGCGAATAAGGG
Found at i:24216057 original size:19 final size:21
Alignment explanation
Indices: 24216019--24216058 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
24216009 CTTGTTTTGA
*
24216019 TTAAATAAATTATTTAAAATT
1 TTAAATAAATTATATAAAATT
24216040 TTAAA-AAA-TATATAAAATT
1 TTAAATAAATTATATAAAATT
24216059 GATTAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAATAAATTATATAAAATT
Found at i:24221921 original size:25 final size:25
Alignment explanation
Indices: 24221888--24221955 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
24221878 CGGTAAACAA
* *
24221888 TAAGTTCTTCCGAGCTGAATAACGG
1 TAAGCTCTTCCAAGCTGAATAACGG
* *
24221913 TAAGCTCTTTCAAGCTGCATAACGG
1 TAAGCTCTTCCAAGCTGAATAACGG
* *
24221938 TAAGCTCATACAAGCTGA
1 TAAGCTCTTCCAAGCTGA
24221956 GTATCGATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (25 bp):
TAAGCTCTTCCAAGCTGAATAACGG
Done.