Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 53 of 438
Found at i:13570404 original size:29 final size:31
Alignment explanation
Indices: 13570340--13570405 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
13570330 ATATGTTGCT
*
13570340 AGTCCCTATACTTTGAAAAAAATTCAAAATTT
1 AGTCCCTATACTTT-AAAAAAATTCAAAATTA
*
13570372 AGTCCCTATAC-TT-AAAAAGTT-AGAAATTA
1 AGTCCCTATACTTTAAAAAAATTCA-AAATTA
13570401 AGTCC
1 AGTCC
13570406 TCCAACTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 1 0.03
29 17 0.55
31 2 0.06
32 11 0.35
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (31 bp):
AGTCCCTATACTTTAAAAAAATTCAAAATTA
Found at i:13581557 original size:87 final size:86
Alignment explanation
Indices: 13581457--13581618 Score: 256
Period size: 87 Copynumber: 1.9 Consensus size: 86
13581447 TTTAAGTTCG
* * *
13581457 GTGAATTCATCAAG-TCAGTCTCAATAGGACCACCCAAACTTTGGGATATTAACTT-ATTAAGAG
1 GTGAATTCATCAAGTTC-GTCTCAATAGGACCACCCAAACTCTAGGATATGAA-TTCATTAAGAG
13581520 TAAGAAACTCAACCTCACATGTTA
64 TAAG-AACTCAACCTCACATGTTA
13581544 GTGAATTCATCAAGTTCGTCTCAATAGGACCACCCAAACTCTAGGATATGAATTCATTAAGAGTA
1 GTGAATTCATCAAGTTCGTCTCAATAGGACCACCCAAACTCTAGGATATGAATTCATTAAGAGTA
13581609 AGAACTCAAC
66 AGAACTCAAC
13581619 TTTATGCATG
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
86 10 0.14
87 58 0.83
88 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (86 bp):
GTGAATTCATCAAGTTCGTCTCAATAGGACCACCCAAACTCTAGGATATGAATTCATTAAGAGTA
AGAACTCAACCTCACATGTTA
Found at i:13588381 original size:161 final size:161
Alignment explanation
Indices: 13588109--13588413 Score: 493
Period size: 161 Copynumber: 1.9 Consensus size: 161
13588099 TTTGTTGGAA
* * *
13588109 AAATAAATAATGAAGTAACCACTGTGTCGTGGAAGAACAACTGCCTTAAAAGTGAATTCGCCCTG
1 AAATAAATAATGAAGTAACCACTATGTCATGGAAGAACAACTGCCTTAAAAGTGAATTCGCCCTA
* *
13588174 ATTGGTGTAGTCGAGTAATAGACGTCGCCCCCAAGGTTAACACAATACTTCTATATCTGTACAAC
66 ATTGATGTAGTCGAGTAATAGACGTCGCCCCCAAGGTTAACACAATACTTCTATATCTATACAAC
*
13588239 TGAATAAAGAAGGTAAACAAATAATGAGCGT
131 CGAATAAAGAAGGTAAACAAATAATGAGCGT
* * *
13588270 AAATAACTAATGAAGTAATCACTATGTCATGGAAGAACAACTGCCTTAAAAGTGAATTTGCCCTA
1 AAATAAATAATGAAGTAACCACTATGTCATGGAAGAACAACTGCCTTAAAAGTGAATTCGCCCTA
* * * *
13588335 ATTGATGTAGTCGAGTAATGGATGTCGCCCCCAAGGTTAACACAATACTTCTATATTTATACACC
66 ATTGATGTAGTCGAGTAATAGACGTCGCCCCCAAGGTTAACACAATACTTCTATATCTATACAAC
13588400 CGAATAAAGAAGGT
131 CGAATAAAGAAGGT
13588414 GGAACAAAAT
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
161 131 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (161 bp):
AAATAAATAATGAAGTAACCACTATGTCATGGAAGAACAACTGCCTTAAAAGTGAATTCGCCCTA
ATTGATGTAGTCGAGTAATAGACGTCGCCCCCAAGGTTAACACAATACTTCTATATCTATACAAC
CGAATAAAGAAGGTAAACAAATAATGAGCGT
Found at i:13592513 original size:17 final size:18
Alignment explanation
Indices: 13592491--13592525 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13592481 ATTTAGACAT
13592491 TTTAAATTATA-ATAATA
1 TTTAAATTATATATAATA
*
13592508 TTTAAATTCTATATAATA
1 TTTAAATTATATATAATA
13592526 ATTATTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAAATTATATATAATA
Found at i:13593206 original size:21 final size:23
Alignment explanation
Indices: 13593181--13593222 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13593171 CGAAAAATAA
*
13593181 ATTTTA-A-ATTAATTTTTCACG
1 ATTTTATAGATTAATTGTTCACG
13593202 ATTTTATAGATTAATTGTTCA
1 ATTTTATAGATTAATTGTTCA
13593223 AGCCCGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (23 bp):
ATTTTATAGATTAATTGTTCACG
Found at i:13597123 original size:18 final size:18
Alignment explanation
Indices: 13597100--13597138 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
13597090 TAGATGACCA
13597100 AAACTATACTCAAATCGT
1 AAACTATACTCAAATCGT
13597118 AAACTATACTCAAATCGT
1 AAACTATACTCAAATCGT
13597136 AAA
1 AAA
13597139 GTAGATGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (18 bp):
AAACTATACTCAAATCGT
Found at i:13597570 original size:13 final size:13
Alignment explanation
Indices: 13597552--13597579 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13597542 GCGTATACAA
13597552 AATTTATCAAGTC
1 AATTTATCAAGTC
13597565 AATTTATCAAGTC
1 AATTTATCAAGTC
13597578 AA
1 AA
13597580 GTATGCTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (13 bp):
AATTTATCAAGTC
Found at i:13598741 original size:24 final size:25
Alignment explanation
Indices: 13598693--13598742 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
13598683 ACTCTTTTTT
* * *
13598693 AAAATTAATGGTCAAATTTATCAAA
1 AAAAATAATGATCAAATTTAACAAA
13598718 AAAAATAATGATCAAA-TTAACAAA
1 AAAAATAATGATCAAATTTAACAAA
13598742 A
1 A
13598743 GTTATATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.26
Consensus pattern (25 bp):
AAAAATAATGATCAAATTTAACAAA
Found at i:13600138 original size:25 final size:25
Alignment explanation
Indices: 13600108--13600176 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 25
13600098 AGAATATGTG
13600108 GTTGTTGCTTACAAATTGTAATATT
1 GTTGTTGCTTACAAATTGTAATATT
****
13600133 GTTGTT-C--ATGTTTTGTAATATT
1 GTTGTTGCTTACAAATTGTAATATT
13600155 GTTGTTGCTTACAAATTGTAAT
1 GTTGTTGCTTACAAATTGTAAT
13600177 GGGAGAATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 17 0.52
23 1 0.03
24 1 0.03
25 14 0.42
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (25 bp):
GTTGTTGCTTACAAATTGTAATATT
Found at i:13605278 original size:26 final size:27
Alignment explanation
Indices: 13605243--13605299 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
13605233 CATTAATAAC
13605243 AAATGAAACCAAAATCAAAATAACCCA
1 AAATGAAACCAAAATCAAAATAACCCA
* * *
13605270 AAATG-AACCTAAATCGAAATAACCCT
1 AAATGAAACCAAAATCAAAATAACCCA
13605296 AAAT
1 AAAT
13605300 CTAAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.58, C:0.21, G:0.05, T:0.16
Consensus pattern (27 bp):
AAATGAAACCAAAATCAAAATAACCCA
Found at i:13606061 original size:21 final size:20
Alignment explanation
Indices: 13606037--13606075 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13606027 AAAAAAATTG
13606037 ATAATAAAATCTAAAAAATAA
1 ATAATAAAAT-TAAAAAATAA
* *
13606058 ATAATTACATTAAAAAAT
1 ATAATAAAATTAAAAAAT
13606076 TAATCATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAATAAAATTAAAAAATAA
Found at i:13607046 original size:22 final size:22
Alignment explanation
Indices: 13607030--13607074 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13607020 CATTAGTTTT
13607030 CTACCATTTTATTATTATGTTG
1 CTACCATTTTATTATTATGTTG
*
13607052 CTACTATTTTATTATTATTGTTG
1 CTACCATTTTATTATTA-TGTTG
13607075 GGATATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.58
Consensus pattern (22 bp):
CTACCATTTTATTATTATGTTG
Found at i:13607133 original size:30 final size:31
Alignment explanation
Indices: 13607099--13607156 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
13607089 ACTTATTTTA
13607099 TTGTTAATTTTGTTATTATTTTA-AAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAAGACAT
13607129 TTGTTAATTTTGTTATTATTTTAGAAGA
1 TTGTTAATTTTGTTATTATTTTAGAAGA
13607157 GACATTTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (31 bp):
TTGTTAATTTTGTTATTATTTTAGAAGACAT
Found at i:13607278 original size:20 final size:17
Alignment explanation
Indices: 13607253--13607290 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13607243 ATTTATTTTA
13607253 ATAT-TTTTAATATATTAT
1 ATATATTTTAA-A-ATTAT
13607271 ATATATTTTAAAATTAT
1 ATATATTTTAAAATTAT
13607288 ATA
1 ATA
13607291 ACAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATATTTTAAAATTAT
Found at i:13611123 original size:11 final size:11
Alignment explanation
Indices: 13611081--13611129 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
13611071 ACTTAATAAA
13611081 AATAATATTTT
1 AATAATATTTT
* *
13611092 AATAAGATATT
1 AATAATATTTT
*
13611103 --GAAT-TTTT
1 AATAATATTTT
13611111 AATAATATTTT
1 AATAATATTTT
13611122 AATAATAT
1 AATAATAT
13611130 CATAAACTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
8 3 0.10
9 2 0.07
10 3 0.10
11 21 0.72
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (11 bp):
AATAATATTTT
Found at i:13617191 original size:41 final size:41
Alignment explanation
Indices: 13617142--13617222 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
13617132 CCAATAAGTG
13617142 TATATATATCAAATTTGAAAATGGAAAAGGTGTCATAATTA
1 TATATATATCAAATTTGAAAATGGAAAAGGTGTCATAATTA
13617183 TATATATATCAAATTTGAAAATGGAAAAGGTGTCATAATT
1 TATATATATCAAATTTGAAAATGGAAAAGGTGTCATAATT
13617223 TGCTTATATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.35
Consensus pattern (41 bp):
TATATATATCAAATTTGAAAATGGAAAAGGTGTCATAATTA
Found at i:13619400 original size:19 final size:19
Alignment explanation
Indices: 13619357--13619400 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13619347 TATATATTAT
*
13619357 TATATT-TTAAAATGCTTG
1 TATATTATTAAAATGCTAG
13619375 TATATTATTAAAGATGCTAG
1 TATATTATTAAA-ATGCTAG
13619395 TA-ATTA
1 TATATTA
13619401 GCTGAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 9 0.39
20 8 0.35
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (19 bp):
TATATTATTAAAATGCTAG
Found at i:13620698 original size:20 final size:19
Alignment explanation
Indices: 13620675--13620717 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
13620665 TAAATAACAT
13620675 TAATATAAATGATTCTAAAA
1 TAATATAAAT-ATTCTAAAA
*
13620695 TAAT-TAAATATTTTAAAA
1 TAATATAAATATTCTAAAA
13620713 -AATAT
1 TAATAT
13620718 TTTGTAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 9 0.43
19 5 0.24
20 4 0.19
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TAATATAAATATTCTAAAA
Found at i:13622555 original size:35 final size:35
Alignment explanation
Indices: 13622484--13622555 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
13622474 AACTGTGTCG
**
13622484 GTATTTGAAATGGGCTCAGGCCCGAATCTGTTTTT
1 GTATTTGAAATGGGCTCAGGCCCGAATCTGAATTT
* *
13622519 GTATTTGACATGGGCTCAGGCCCGAATGTGAATTT
1 GTATTTGAAATGGGCTCAGGCCCGAATCTGAATTT
13622554 GT
1 GT
13622556 TTGATTTGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (35 bp):
GTATTTGAAATGGGCTCAGGCCCGAATCTGAATTT
Found at i:13624472 original size:93 final size:93
Alignment explanation
Indices: 13624365--13624535 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
13624355 GCCCTTAAGT
* *
13624365 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
13624430 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
13624458 GAACTCGGACTCAACTCAACGAGTTCGGATATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
13624523 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13624536 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13624532 original size:46 final size:46
Alignment explanation
Indices: 13624360--13624533 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
13624350 AACCCGCCCT
* ***
13624360 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCATCCA
* *
13624406 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA----TATTTGCATCCA
* *
13624454 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCATCCA
13624499 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
13624534 GCTCAACCAT
Statistics
Matches: 109, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 7 0.06
44 1 0.01
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCATCCA
Found at i:13627851 original size:37 final size:37
Alignment explanation
Indices: 13627810--13627885 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
13627800 TTTAAGCATC
*
13627810 TTTTAGCAAGGTAAGAAACTGCGACTAGTTCCTCCTT
1 TTTTAGCAAGGTAAGAAACTGCAACTAGTTCCTCCTT
13627847 TTTTAGCAAGGTAAGAAACTGCAACTAGTTCCTCCTT
1 TTTTAGCAAGGTAAGAAACTGCAACTAGTTCCTCCTT
13627884 TT
1 TT
13627886 GGCCATCCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (37 bp):
TTTTAGCAAGGTAAGAAACTGCAACTAGTTCCTCCTT
Found at i:13630584 original size:2 final size:2
Alignment explanation
Indices: 13630577--13630604 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13630567 TATATTCCAA
13630577 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13630605 CAAGAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13631071 original size:33 final size:33
Alignment explanation
Indices: 13631033--13631099 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
13631023 AAAAACATAA
* *
13631033 AATTATTGTTATACACTCTTTCATAGAGAAATT
1 AATTATTATTATACACTCATTCATAGAGAAATT
13631066 AATTATTATTATACACTCATTCATAGAGAAATT
1 AATTATTATTATACACTCATTCATAGAGAAATT
13631099 A
1 A
13631100 TTTTATGAAC
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:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (33 bp):
AATTATTATTATACACTCATTCATAGAGAAATT
Found at i:13631099 original size:29 final size:29
Alignment explanation
Indices: 13631031--13631105 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 29
13631021 TTAAAAACAT
*
13631031 AAAATTATTGTTATACACTCTTTCATAGAG
1 AAAATTATT-TTATACACTCATTCATAGAG
13631061 AAATTAATTATTATTATACACTCATTCATAGAG
1 -AA--AATTATT-TTATACACTCATTCATAGAG
13631094 -AAATTATTTTAT
1 AAAATTATTTTAT
13631106 GAACCTTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 4 0.10
29 7 0.17
31 3 0.08
33 26 0.65
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.43
Consensus pattern (29 bp):
AAAATTATTTTATACACTCATTCATAGAG
Found at i:13643404 original size:27 final size:27
Alignment explanation
Indices: 13643346--13643404 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
13643336 AATAAAACAC
*
13643346 ATTCTCTGTTGCTTTTATATTTTCTTT
1 ATTCTCTGTTGCTTTTATATTTTCCTT
*
13643373 GTTCTCTGTTGCTTTTATATTTTCCTT
1 ATTCTCTGTTGCTTTTATATTTTCCTT
13643400 ATTCT
1 ATTCT
13643405 TTATTCTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.10, C:0.17, G:0.08, T:0.64
Consensus pattern (27 bp):
ATTCTCTGTTGCTTTTATATTTTCCTT
Found at i:13643711 original size:14 final size:14
Alignment explanation
Indices: 13643694--13643724 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13643684 ATATTTTACC
*
13643694 ATATTTTATTTATT
1 ATATTATATTTATT
13643708 ATATTATATTTATT
1 ATATTATATTTATT
13643722 ATA
1 ATA
13643725 GTTGGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATATTATATTTATT
Found at i:13648794 original size:20 final size:20
Alignment explanation
Indices: 13648771--13648810 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13648761 AAATTTTAGG
13648771 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
13648791 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
13648811 TAGAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:13649449 original size:64 final size:64
Alignment explanation
Indices: 13649348--13649476 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
13649338 CAAATTTTAA
13649348 GTCTAAATCTTTGGGGCTAGTAGTCGTAGGCGTCCTCTTCCACTATAACTGGCTTATCCTGCTT
1 GTCTAAATCTTTGGGGCTAGTAGTCGTAGGCGTCCTCTTCCACTATAACTGGCTTATCCTGCTT
*
13649412 GTCTAAATCTTTGGGGCTAGTGGTCGTAGGCGTCCTCTTCCACTATAACTGGCTTATCCTGCTT
1 GTCTAAATCTTTGGGGCTAGTAGTCGTAGGCGTCCTCTTCCACTATAACTGGCTTATCCTGCTT
13649476 G
1 G
13649477 AGAAAGGTTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (64 bp):
GTCTAAATCTTTGGGGCTAGTAGTCGTAGGCGTCCTCTTCCACTATAACTGGCTTATCCTGCTT
Found at i:13649631 original size:17 final size:18
Alignment explanation
Indices: 13649598--13649631 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13649588 TATTTCTCAT
*
13649598 TTTAATTTCTGCAATTTA
1 TTTAATTTCTACAATTTA
13649616 TTTAATTTC-ACAATTT
1 TTTAATTTCTACAATTT
13649632 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTACAATTTA
Found at i:13654113 original size:20 final size:20
Alignment explanation
Indices: 13654080--13654119 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13654070 AAATTTTAGG
*
13654080 ATTTATTTTCATTTATCTTT
1 ATTTATTTTCATTTACCTTT
13654100 ATTTATTTGT-ATTTACCTTT
1 ATTTATTT-TCATTTACCTTT
13654120 TAGAATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTATTTTCATTTACCTTT
Found at i:13666338 original size:17 final size:17
Alignment explanation
Indices: 13666312--13666360 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
13666302 CCAATTAGGC
13666312 CGTGTGGGCCACACAAG
1 CGTGTGGGCCACACAAG
*
13666329 CGTGTAGGCCACACAAG
1 CGTGTGGGCCACACAAG
* *
13666346 TGTGTGGGACACACA
1 CGTGTGGGCCACACA
13666361 GGTGAACCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.33, T:0.14
Consensus pattern (17 bp):
CGTGTGGGCCACACAAG
Found at i:13666864 original size:40 final size:38
Alignment explanation
Indices: 13666819--13666910 Score: 121
Period size: 40 Copynumber: 2.4 Consensus size: 38
13666809 TACCATATGG
* *
13666819 TGTGTAGGGTTGGATGGGTCGATTTTATCCCCATACTTGA
1 TGTGTAGGGTTGGATGGGTCGATTGTAT-CCC-TACATGA
* *
13666859 TGTGTAGGGTTGGGTGGGTCGATTGTATCCCTACATGG
1 TGTGTAGGGTTGGATGGGTCGATTGTATCCCTACATGA
*
13666897 TGTGTTGGGTTGGA
1 TGTGTAGGGTTGGA
13666911 CGGAGATGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 17 0.37
39 3 0.07
40 26 0.57
ACGTcount: A:0.14, C:0.12, G:0.37, T:0.37
Consensus pattern (38 bp):
TGTGTAGGGTTGGATGGGTCGATTGTATCCCTACATGA
Found at i:13680207 original size:63 final size:62
Alignment explanation
Indices: 13680137--13680318 Score: 231
Period size: 63 Copynumber: 2.9 Consensus size: 62
13680127 ACCCATGGAG
**
13680137 AAGGTGTTGATGCGGTGAATGATTGTGTGTGCTGTGGTGCTTGTGTAAAATAAACTGG-TGCTA
1 AAGGTGTTGATGCGG-GAATGATTGTGCATGCTGTGGTGCTTGTGTAAAATAAACTGGATG-TA
* * *
13680200 AATGTGTTGATGCAAGGAATGATTGTGCATGCTGCGGTGCTTGTGTAAAATAAACTGGATGTA
1 AAGGTGTTGATGC-GGGAATGATTGTGCATGCTGTGGTGCTTGTGTAAAATAAACTGGATGTA
* * * * *
13680263 AAGGTGTTGATGCGGGGAATGATTCTGCATGTTGTGATGATTGTGTCAAATAAACT
1 AAGGTGTTGATGC-GGGAATGATTGTGCATGCTGTGGTGCTTGTGTAAAATAAACT
13680319 TGGTTAGAAC
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
63 100 0.97
64 3 0.03
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.34
Consensus pattern (62 bp):
AAGGTGTTGATGCGGGAATGATTGTGCATGCTGTGGTGCTTGTGTAAAATAAACTGGATGTA
Found at i:13681104 original size:6 final size:6
Alignment explanation
Indices: 13681093--13681140 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
13681083 TACAACAATG
13681093 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
13681141 GACAATGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:13681860 original size:12 final size:12
Alignment explanation
Indices: 13681843--13681870 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13681833 ACCTCAAGAT
13681843 GAATGTGTGCGC
1 GAATGTGTGCGC
13681855 GAATGTGTGCGC
1 GAATGTGTGCGC
13681867 GAAT
1 GAAT
13681871 TGTTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.25
Consensus pattern (12 bp):
GAATGTGTGCGC
Found at i:13683941 original size:46 final size:46
Alignment explanation
Indices: 13683886--13684066 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
13683876 TAGGATGGTT
13683886 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
13683932 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
13683978 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
13684025 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13684067 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:13684047 original size:93 final size:93
Alignment explanation
Indices: 13683888--13684058 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
13683878 GGATGGTTGA
* *
13683888 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13683953 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
13683981 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13684046 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13684059 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13687057 original size:15 final size:15
Alignment explanation
Indices: 13687018--13687097 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
13687008 GTATCTTGGG
*
13687018 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
13687033 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
13687048 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
13687063 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
13687078 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
13687092 TTTCTT
1 TTTCTT
13687098 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:13687087 original size:30 final size:30
Alignment explanation
Indices: 13687009--13687096 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
13686999 CATAGTATCG
* * *
13687009 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
13687039 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
13687069 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
13687097 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:13689512 original size:46 final size:46
Alignment explanation
Indices: 13689457--13689637 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
13689447 TAGGATGGTT
13689457 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
13689503 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
13689549 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
13689596 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13689638 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:13689618 original size:93 final size:93
Alignment explanation
Indices: 13689459--13689629 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
13689449 GGATGGTTGA
* *
13689459 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13689524 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
13689552 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13689617 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13689630 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13695650 original size:46 final size:46
Alignment explanation
Indices: 13695600--13695775 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
13695590 ATGGTTGGCA
13695600 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
13695646 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
13695693 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
13695739 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13695776 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:13695755 original size:93 final size:93
Alignment explanation
Indices: 13695596--13695767 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13695586 TAGGATGGTT
* *
13695596 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13695661 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
13695689 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13695754 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
13695768 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:13698764 original size:15 final size:15
Alignment explanation
Indices: 13698725--13698804 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
13698715 GTATCTTGGG
*
13698725 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
13698740 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
13698755 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
13698770 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
13698785 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
13698799 TTTCTT
1 TTTCTT
13698805 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:13698794 original size:30 final size:30
Alignment explanation
Indices: 13698716--13698803 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
13698706 CATAGTATCG
* * *
13698716 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
13698746 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
13698776 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
13698804 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:13701226 original size:46 final size:46
Alignment explanation
Indices: 13701171--13701351 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
13701161 TAGGATGGTT
13701171 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
13701217 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
13701263 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
13701310 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13701352 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:13701332 original size:93 final size:93
Alignment explanation
Indices: 13701173--13701343 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
13701163 GGATGGTTGA
* *
13701173 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13701238 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
13701266 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13701331 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13701344 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13703552 original size:21 final size:21
Alignment explanation
Indices: 13703528--13703586 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
13703518 GTGGGGGTCT
*
13703528 ACACGCCTATGTAGAGGCCAC
1 ACACGCCCATGTAGAGGCCAC
* *
13703549 ACACGCCCGTGT-GAAGGCTAC
1 ACACGCCCATGTAG-AGGCCAC
*
13703570 ACAAGCCCATGTAGAGG
1 ACACGCCCATGTAGAGG
13703587 GGACACACAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.14
Consensus pattern (21 bp):
ACACGCCCATGTAGAGGCCAC
Found at i:13704621 original size:25 final size:24
Alignment explanation
Indices: 13704591--13704638 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
13704581 TGAATATATA
13704591 AACATAAAAAATT-AATAATCTAAAC
1 AACAT-AAAAATTAAATAAT-TAAAC
*
13704616 AACATAATAATTAAATAATTAAA
1 AACATAAAAATTAAATAATTAAA
13704639 ATTTAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (24 bp):
AACATAAAAATTAAATAATTAAAC
Found at i:13704634 original size:8 final size:8
Alignment explanation
Indices: 13704620--13704656 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
13704610 CTAAACAACA
13704620 TAATAATT
1 TAATAATT
*
13704628 AAATAA-T
1 TAATAATT
13704635 TAA-AATT
1 TAATAATT
13704642 TAATAATT
1 TAATAATT
13704650 TAATAAT
1 TAATAAT
13704657 ATTTTGTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
6 2 0.08
7 7 0.28
8 16 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TAATAATT
Found at i:13704847 original size:21 final size:21
Alignment explanation
Indices: 13704792--13704840 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
13704782 TTAAAAAAAT
* *
13704792 AATTGAGAATTAAGAATTCAA
1 AATTGAAAATTGAGAATTCAA
*
13704813 AATTGAAAATTGAGAATTTAA
1 AATTGAAAATTGAGAATTCAA
*
13704834 GATTGAA
1 AATTGAA
13704841 GAATGAGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.16, T:0.31
Consensus pattern (21 bp):
AATTGAAAATTGAGAATTCAA
Found at i:13707163 original size:19 final size:20
Alignment explanation
Indices: 13707127--13707165 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
13707117 ATTTATTTAA
13707127 TATTTTATTTAAAATAATAT
1 TATTTTATTTAAAATAATAT
*
13707147 TATTTTA-TTAAAGTAATAT
1 TATTTTATTTAAAATAATAT
13707166 AATAACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TATTTTATTTAAAATAATAT
Found at i:13711012 original size:19 final size:20
Alignment explanation
Indices: 13710988--13711025 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13710978 GGTACCACCA
13710988 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
13711007 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13711026 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:13711364 original size:93 final size:93
Alignment explanation
Indices: 13711254--13711424 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
13711244 GCCCCTAAGT
* *
13711254 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
13711319 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
13711347 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
13711412 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13711425 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13711421 original size:46 final size:46
Alignment explanation
Indices: 13711249--13711421 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
13711239 AACCCGCCCC
* * * *
13711249 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
13711295 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
13711343 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
13711388 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13711422 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:13718590 original size:19 final size:20
Alignment explanation
Indices: 13718566--13718603 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13718556 GGTACCACCA
13718566 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
13718585 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13718604 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:13718942 original size:93 final size:93
Alignment explanation
Indices: 13718832--13719002 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
13718822 GCCCCTAAGT
* *
13718832 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
13718897 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
13718925 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
13718990 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13719003 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13718999 original size:46 final size:46
Alignment explanation
Indices: 13718827--13718999 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
13718817 AACCCGCCCC
* * * *
13718827 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
13718873 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
13718921 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
13718966 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13719000 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:13720568 original size:7 final size:7
Alignment explanation
Indices: 13720556--13720584 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
13720546 AAAGATTAAT
13720556 TTCAACA
1 TTCAACA
13720563 TTCAACA
1 TTCAACA
13720570 TTCAACA
1 TTCAACA
13720577 TTCAACA
1 TTCAACA
13720584 T
1 T
13720585 CCAATACCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (7 bp):
TTCAACA
Found at i:13722044 original size:33 final size:33
Alignment explanation
Indices: 13722002--13722068 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
13721992 TAGAAAGGGG
13722002 CAGTTATTCGTAGCTCAACCTGGCATGCACATT
1 CAGTTATTCGTAGCTCAACCTGGCATGCACATT
* *
13722035 CAGTTATTCGTAGCTCAACTTGGCATGCATATT
1 CAGTTATTCGTAGCTCAACCTGGCATGCACATT
13722068 C
1 C
13722069 TTCAGGTGGA
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:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (33 bp):
CAGTTATTCGTAGCTCAACCTGGCATGCACATT
Found at i:13727480 original size:25 final size:26
Alignment explanation
Indices: 13727423--13727481 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
13727413 GCTATATCAA
13727423 GAAGCTCACAAAGAGCCAATTAATGG
1 GAAGCTCACAAAGAGCCAATTAATGG
* *
13727449 GAAGCTCACGAAGCGCC-A-TAATTGG
1 GAAGCTCACAAAGAGCCAATTAA-TGG
13727474 GAAGCTCA
1 GAAGCTCA
13727482 TAAGAGCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 3 0.10
25 12 0.40
26 15 0.50
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.15
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCAATTAATGG
Found at i:13727565 original size:23 final size:25
Alignment explanation
Indices: 13727545--13727608 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
13727535 TCCGAAGAGT
13727545 TATAACGGGAAGCTCGTAAGAGCTA
1 TATAACGGGAAGCTCGTAAGAGCTA
* * * *
13727570 TTTAACGGGGAGCTCATGAGAGCTA
1 TATAACGGGAAGCTCGTAAGAGCTA
* *
13727595 -ATAACAGGATGCTC
1 TATAACGGGAAGCTC
13727609 TTTTGATCTA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
24 10 0.32
25 21 0.68
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (25 bp):
TATAACGGGAAGCTCGTAAGAGCTA
Found at i:13727583 original size:25 final size:25
Alignment explanation
Indices: 13727547--13727594 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13727537 CGAAGAGTTA
*
13727547 TAACGGGAAGCTCGTAAGAGCTATT
1 TAACGGGAAGCTCATAAGAGCTATT
* *
13727572 TAACGGGGAGCTCATGAGAGCTA
1 TAACGGGAAGCTCATAAGAGCTA
13727595 ATAACAGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (25 bp):
TAACGGGAAGCTCATAAGAGCTATT
Found at i:13731980 original size:6 final size:6
Alignment explanation
Indices: 13731948--13732003 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
13731938 TAAGAGCATG
* ** * **
13731948 AAAAAT AAAAAC AAAAAT AAACCT AAAAAT AAAAA- GAAAAT AAAAGG
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
13731995 AAAAAT AAA
1 AAAAAT AAA
13732004 GTGAAAAATA
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:13731987 original size:11 final size:12
Alignment explanation
Indices: 13731947--13732015 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
13731937 TTAAGAGCAT
13731947 GAAAAATAAAAA
1 GAAAAATAAAAA
* **
13731959 CAAAAATAAACC
1 GAAAAATAAAAA
*
13731971 TAAAAATAAAAA
1 GAAAAATAAAAA
*
13731983 G-AAAATAAAAG
1 GAAAAATAAAAA
**
13731994 GAAAAATAAAGT
1 GAAAAATAAAAA
13732006 GAAAAATAAA
1 GAAAAATAAA
13732016 TGGACTTAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
11 10 0.22
12 36 0.78
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.12
Consensus pattern (12 bp):
GAAAAATAAAAA
Found at i:13731998 original size:23 final size:24
Alignment explanation
Indices: 13731947--13732003 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
13731937 TTAAGAGCAT
*
13731947 GAAAAATAAAAACAAAAATAAACC
1 GAAAAATAAAAACAAAAATAAAAC
* * *
13731971 TAAAAATAAAAA-GAAAATAAAAG
1 GAAAAATAAAAACAAAAATAAAAC
13731994 GAAAAATAAA
1 GAAAAATAAA
13732004 GTGAAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.11
Consensus pattern (24 bp):
GAAAAATAAAAACAAAAATAAAAC
Found at i:13745259 original size:47 final size:46
Alignment explanation
Indices: 13745186--13745499 Score: 203
Period size: 47 Copynumber: 6.7 Consensus size: 46
13745176 TAATTTTTGC
* * *
13745186 GCCAGTGTAAGACCAGGTCTGGGACATGGCATCAGCATC-CAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCA-CACAGATGAGA
* * * *
13745234 GCTAGTGTAAGACATGTCTGGGACATGCAACAGC-CACATTATGAGG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACACA-GATGAGA
* * *
13745280 GCCAGTGTAAGACCATGTCTGGAACATGGCATC-GACACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CACACAGATGAGA
* * * *
13745328 GCCAGAGTAAGACATGTC-GAGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTG-GGACATGCATCAG-CAC-ACAGATGAGA
* * * * * *
13745375 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGC-TA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACACAGATG-AGA
* * * *
13745419 GCTAGTGTAAGACATGTCTGGGACATGCATCTGCACGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCA--CACAGATGAGA
* *
13745467 GCTACTGTAAGACCATGTCTGGGACATGACATC
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATC
13745500 GGCAAATTTA
Statistics
Matches: 214, Mismatches: 34, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
43 4 0.02
44 32 0.15
45 2 0.01
46 30 0.14
47 72 0.34
48 51 0.24
49 19 0.09
50 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.20
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACACAGATGAGA
Found at i:13745352 original size:94 final size:94
Alignment explanation
Indices: 13745186--13745356 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 94
13745176 TAATTTTTGC
* * *
13745186 GCCAGTGTAAGACCAGGTCTGGGACATGGCATCAGCATCCAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGACCAGGTCTGGAACATGGCATCAGCATCCAGACGAGGGCCAGAGTAAGACATGT
13745251 CTGGGACATGCAACAGCCACATTATGAGG
66 CTGGGACATGCAACAGCCACATTATGAGG
* * * *
13745280 GCCAGTGTAAGACCATGTCTGGAACATGGCATC-GACA-CAGAGATGAGTGCCAGAGTAAGACAT
1 GCCAGTGTAAGACCAGGTCTGGAACATGGCATCAG-CATC-CAGACGAGGGCCAGAGTAAGACAT
13745343 GTC-GAGGACATGCA
64 GTCTG-GGACATGCA
13745357 TCGGCCTCGA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
93 3 0.04
94 64 0.96
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (94 bp):
GCCAGTGTAAGACCAGGTCTGGAACATGGCATCAGCATCCAGACGAGGGCCAGAGTAAGACATGT
CTGGGACATGCAACAGCCACATTATGAGG
Found at i:13745698 original size:33 final size:33
Alignment explanation
Indices: 13745661--13745728 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
13745651 TAATTTAGAA
13745661 AATGAGACTCGAGTAGATGATAATGAGTAAGTT
1 AATGAGACTCGAGTAGATGATAATGAGTAAGTT
*
13745694 AATGAGACTTGAGTAGATGATAATGAGTAAGTT
1 AATGAGACTCGAGTAGATGATAATGAGTAAGTT
13745727 AA
1 AA
13745729 GTTATGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.28
Consensus pattern (33 bp):
AATGAGACTCGAGTAGATGATAATGAGTAAGTT
Found at i:13757381 original size:16 final size:16
Alignment explanation
Indices: 13757357--13757387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13757347 TAGCCATTAT
13757357 TTTTATTTTTATTTAA
1 TTTTATTTTTATTTAA
*
13757373 TTTTGTTTTTATTTA
1 TTTTATTTTTATTTA
13757388 CTAAATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTATTTTTATTTAA
Found at i:13762649 original size:40 final size:39
Alignment explanation
Indices: 13762604--13762811 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
13762594 CGGAATACAA
*
13762604 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13762644 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13762684 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
13762724 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
13762764 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
13762804 CCGGATAT
1 CCGGATAT
13762812 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:13762744 original size:80 final size:80
Alignment explanation
Indices: 13762604--13762810 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
13762594 CGGAATACAA
* * *
13762604 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
13762668 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
13762684 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
13762748 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
13762764 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
13762811 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:13770676 original size:40 final size:39
Alignment explanation
Indices: 13770631--13770838 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
13770621 CGGAATACAA
*
13770631 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13770671 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13770711 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
13770751 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
13770791 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
13770831 CCGGATAT
1 CCGGATAT
13770839 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:13770771 original size:80 final size:80
Alignment explanation
Indices: 13770631--13770837 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
13770621 CGGAATACAA
* * *
13770631 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
13770695 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
13770711 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
13770775 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
13770791 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
13770838 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:13773898 original size:40 final size:39
Alignment explanation
Indices: 13773853--13774060 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
13773843 CGGAATACAA
*
13773853 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13773893 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13773933 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
13773973 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
13774013 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
13774053 CCGGATAT
1 CCGGATAT
13774061 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:13773993 original size:80 final size:80
Alignment explanation
Indices: 13773853--13774059 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
13773843 CGGAATACAA
* * *
13773853 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
13773917 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
13773933 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
13773997 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
13774013 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
13774060 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:13781926 original size:40 final size:39
Alignment explanation
Indices: 13781881--13782088 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
13781871 CGGAATACAA
*
13781881 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13781921 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13781961 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
13782001 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
13782041 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
13782081 CCGGATAT
1 CCGGATAT
13782089 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:13782021 original size:80 final size:80
Alignment explanation
Indices: 13781881--13782087 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
13781871 CGGAATACAA
* * *
13781881 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
13781945 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
13781961 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
13782025 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
13782041 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
13782088 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:13791748 original size:2 final size:2
Alignment explanation
Indices: 13791741--13791788 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
13791731 TTAATCCTTT
13791741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13791783 TA TA TA
1 TA TA TA
13791789 ATTTATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13791893 original size:12 final size:11
Alignment explanation
Indices: 13791865--13791903 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
13791855 TATATTATTT
13791865 TTATTTATATA
1 TTATTTATATA
*
13791876 TTATTTATCATG
1 TTATTTAT-ATA
13791888 TTATTTATATTA
1 TTATTTATA-TA
13791900 TTAT
1 TTAT
13791904 ACATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (11 bp):
TTATTTATATA
Found at i:13791912 original size:21 final size:22
Alignment explanation
Indices: 13791851--13791913 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
13791841 GTAAAAATAG
13791851 TATATA-TATTAT--TTTTATT
1 TATATATTATTATCATTTTATT
*
13791870 TATATATTATTTATCATGTTA-T
1 TATATATTA-TTATCATTTTATT
13791892 T-TATATTATTATACATTTTATT
1 TATATATTATTAT-CATTTTATT
13791914 CATAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 6 0.17
20 6 0.17
21 17 0.47
22 3 0.08
23 4 0.11
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (22 bp):
TATATATTATTATCATTTTATT
Found at i:13791957 original size:44 final size:41
Alignment explanation
Indices: 13791885--13791995 Score: 100
Period size: 42 Copynumber: 2.6 Consensus size: 41
13791875 ATTATTTATC
* *
13791885 ATGTTATTTATATTATTATACATT-TTATTCATAAATTTTATTAT
1 ATGTTA-TTATA-AATTATATATTATTATTCATAAATTTT-TT-T
* * *
13791929 ATGTTA-TATAATTTACTATATATATTATTCCTTAATTTTTTT
1 ATGTTATTATAAATTA-TATAT-TATTATTCATAAATTTTTTT
*
13791971 ATTTTATTATAAATTATATATTATT
1 ATGTTATTATAAATTATATATTATT
13791996 TTATTATTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
41 7 0.12
42 19 0.34
43 11 0.20
44 19 0.34
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (41 bp):
ATGTTATTATAAATTATATATTATTATTCATAAATTTTTTT
Found at i:13792177 original size:2 final size:2
Alignment explanation
Indices: 13792170--13792206 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13792160 TGTAGTGTAT
13792170 TA TA TA TA TA 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 TA TA TA TA TA T
13792207 TAATCATCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13794977 original size:48 final size:48
Alignment explanation
Indices: 13794918--13795185 Score: 437
Period size: 48 Copynumber: 5.6 Consensus size: 48
13794908 TGAAAGTGTA
13794918 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
13794966 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
13795014 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * *
13795062 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * * * *
13795110 TATATGTCGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
13795158 AATATGTGGTAAAGCCGAATGGCTAATG
1 TATATGTGGTAAAGCCGAATGGCTAATG
13795186 AGAATGTTGT
Statistics
Matches: 207, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 207 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
Found at i:13795284 original size:37 final size:37
Alignment explanation
Indices: 13795234--13795319 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
13795224 GGAAATATAT
*
13795234 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
13795271 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
13795308 TCCGGGTAAGAC
1 TCCGGGTAAGAC
13795320 TTCGTAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:13808194 original size:44 final size:44
Alignment explanation
Indices: 13808129--13808807 Score: 899
Period size: 44 Copynumber: 15.4 Consensus size: 44
13808119 GGGACAATGT
*
13808129 AGATCGAAGATAACAGATTTGGTGTCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * * * * **
13808173 ATATCGAAAATAACAGATTTGGTGTCTCTGTATTGACAAAAAAT
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* *
13808217 AGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * *
13808261 AGATCGAAGATAGCAAATTTGGCGTCTCTATATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
** *
13808305 AGATTAAAGATGACAGATTTGGCGTCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* *
13808349 AGATAGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * *
13808393 AGATCGAAGATAGCAGATTTGGCATCTCTTTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * *
13808437 GGATCGAAGATGACAGATTTGGCGTCTCTATATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* **
13808481 AGATCAAAGATAACAGATTTGGCGTCTCTGTATTGTTAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* *
13808525 AGATCGAAAATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * *
13808569 AAATCGAAGATAACAGATTTGGCGTCTCTATATTGACAGAAAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
** * *
13808613 AGATCGAAGATAGGAGATTTGGCATCTTTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * *
13808657 AGATCGAAGATAGCAAATTTGGCGTCTCTGTATTGACAAAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * *
13808701 AGATCCAAGATAACAGATTTGGAGTCTCTGTATTGACAGAGGGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * * * * * *
13808745 AGGTTGAAGATGACAGACTTGGTGTATCTGTATTAGACAGGGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATT-GACAGAGAGC
*
13808790 AGATCGAAGATACCAGAT
1 AGATCGAAGATAACAGAT
13808808 CTGACATTTG
Statistics
Matches: 550, Mismatches: 84, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
44 529 0.96
45 21 0.04
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (44 bp):
AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
Found at i:13809142 original size:19 final size:19
Alignment explanation
Indices: 13809120--13809158 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13809110 TCCCAGGCCC
* * *
13809120 ACAAAATAAATAAATGAAA
1 ACAAAAAAAAGAAAAGAAA
13809139 ACAAAAAAAAGAAAAGAAA
1 ACAAAAAAAAGAAAAGAAA
13809158 A
1 A
13809159 AATACACGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (19 bp):
ACAAAAAAAAGAAAAGAAA
Found at i:13809906 original size:2 final size:2
Alignment explanation
Indices: 13809899--13809937 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13809889 TTAATCCTTT
13809899 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
13809938 TTAATTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13810035 original size:21 final size:21
Alignment explanation
Indices: 13810003--13810069 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
13809993 GTAAAAATAG
13810003 TATATA-TA-TTATTTTTATT
1 TATATATTATTTATTTTTATT
*
13810022 TATATATTATTTATCATGTTATT
1 TATATATTATTTAT--TTTTATT
**
13810045 TATATTATTATACA-TTTTATT
1 TATA-TATTATTTATTTTTATT
13810066 TATA
1 TATA
13810070 AATTTTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 14 0.36
23 10 0.26
24 7 0.18
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (21 bp):
TATATATTATTTATTTTTATT
Found at i:13810045 original size:12 final size:11
Alignment explanation
Indices: 13810017--13810055 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
13810007 TATATTATTT
13810017 TTATTTATATA
1 TTATTTATATA
*
13810028 TTATTTATCATG
1 TTATTTAT-ATA
13810040 TTATTTATATTA
1 TTATTTATA-TA
13810052 TTAT
1 TTAT
13810056 ACATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (11 bp):
TTATTTATATA
Found at i:13810093 original size:19 final size:19
Alignment explanation
Indices: 13810065--13810101 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13810055 TACATTTTAT
*
13810065 TTATAAATTTTATTATATG
1 TTATAAATTTTACTATATG
*
13810084 TTATATATTTTACTATAT
1 TTATAAATTTTACTATAT
13810102 ATATTATTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATAAATTTTACTATATG
Found at i:13810109 original size:44 final size:44
Alignment explanation
Indices: 13810017--13810109 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
13810007 TATATTATTT
* * * *
13810017 TTATTTATATATTATTTATCATGTTATTTATATTATTATACATT
1 TTATTTATAAATTATTTATCATGTTATATATATTACTATACATA
* * *
13810061 TTATTTATAAATTTTATTAT-ATGTTATATATTTTACTATATATA
1 TTATTTATAAATTAT-TTATCATGTTATATATATTACTATACATA
13810105 TTATT
1 TTATT
13810110 CCTTAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 37 0.90
45 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (44 bp):
TTATTTATAAATTATTTATCATGTTATATATATTACTATACATA
Found at i:13810329 original size:2 final size:2
Alignment explanation
Indices: 13810322--13810354 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13810312 TAGTGTATTT
13810322 TA TA TA 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 TA TA TA T
13810355 TAATCATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13833200 original size:30 final size:30
Alignment explanation
Indices: 13833132--13833216 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 30
13833122 GATTAAATAA
** *
13833132 AAATTAAAGTTTCAAATATACATTTGAACC
1 AAATTAAAGTTTCATGTATACAATTGAACC
* * *
13833162 ACAATTAAAGTTTCATGTGTATAATTGCACC
1 A-AATTAAAGTTTCATGTATACAATTGAACC
13833193 AAATTAAAGTTT-ATGTATACAATT
1 AAATTAAAGTTTCATGTATACAATT
13833217 ATACATTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 10 0.22
30 12 0.26
31 24 0.52
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATACAATTGAACC
Found at i:13833456 original size:20 final size:20
Alignment explanation
Indices: 13833403--13833458 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
13833393 TCCAGCTTCA
* *
13833403 TTTAGTTTTTGAAAATATTT
1 TTTATTTTTTAAAAATATTT
* * *
13833423 TCTATTTCTAAAAAATATTT
1 TTTATTTTTTAAAAATATTT
13833443 TTTATTTTTTAAAAAT
1 TTTATTTTTTAAAAAT
13833459 TAAAAAACAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTATTTTTTAAAAATATTT
Found at i:13835661 original size:15 final size:15
Alignment explanation
Indices: 13835636--13835673 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13835626 TTTATACTAC
*
13835636 AAAACATTTATTATT
1 AAAATATTTATTATT
*
13835651 AATATATTTATTATT
1 AAAATATTTATTATT
13835666 AAAATATT
1 AAAATATT
13835674 AATATTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:13835731 original size:15 final size:16
Alignment explanation
Indices: 13835711--13835741 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13835701 AATAACATTG
13835711 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
13835726 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
13835742 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:13852894 original size:17 final size:17
Alignment explanation
Indices: 13852868--13852900 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13852858 GAAAACCATT
13852868 TTTTACATAAAACTGTTG
1 TTTTACATAAAA-TGTTG
13852886 TTTTA-ATAAAATGTT
1 TTTTACATAAAATGTT
13852901 TTACCAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (17 bp):
TTTTACATAAAATGTTG
Found at i:13853231 original size:26 final size:25
Alignment explanation
Indices: 13853186--13853241 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
13853176 AATCACAGAC
* *
13853186 AATAACAGATACAGATTTAGATTCA
1 AATATCAGATACAGAATTAGATTCA
13853211 AATATCAGATTACAGAATTAGATTCA
1 AATATCAGA-TACAGAATTAGATTCA
*
13853237 GATAT
1 AATAT
13853242 TCAAGATCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.30
Consensus pattern (25 bp):
AATATCAGATACAGAATTAGATTCA
Found at i:13855509 original size:23 final size:23
Alignment explanation
Indices: 13855483--13855908 Score: 410
Period size: 23 Copynumber: 18.7 Consensus size: 23
13855473 TTGTAAACTC
* *
13855483 AAATGGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
13855506 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
13855529 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
13855552 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
** *
13855575 AAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAAATGCTGT
*
13855598 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GCTGT
* * *
13855621 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
13855643 TAATT-AAGATG-TTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAA-TGCTGT
13855666 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
13855689 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
13855712 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
*
13855735 AAATTGAAGTGTTTAAATG-TTT
1 AAATTGAAGTGTTTAAATGCTGT
*
13855757 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * *
13855780 AAATTGAAATGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAATGCTGT
**
13855803 AAATTGAAGTGTTTAGTTGCTAG-
1 AAATTGAAGTGTTTAAATGCT-GT
* *
13855826 AAATTG-AGATGTTT-TATCCCTGT
1 AAATTGAAG-TGTTTAAAT-GCTGT
* * *
13855849 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * *
13855871 TAATAG-AGATG-TTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAA-TGCTGT
13855894 AAATTGAAGTGTTTA
1 AAATTGAAGTGTTTA
13855909 GTTGCTGGTT
Statistics
Matches: 334, Mismatches: 46, Indels: 45
0.79 0.11 0.11
Matches are distributed among these distances:
22 68 0.20
23 247 0.74
24 19 0.06
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.39
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGCTGT
Found at i:13855830 original size:91 final size:93
Alignment explanation
Indices: 13855483--13855914 Score: 390
Period size: 91 Copynumber: 4.7 Consensus size: 93
13855473 TTGTAAACTC
* * * *
13855483 AAATGGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATG
1 AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAATGCTGCAAATTGAAGTGTTTAGATG
13855548 -TTGTAAATTGAAG-TGTTTAAATGTTGT
66 CTTGTAAATTGAAGATGTTTAAATG-TGT
** * * * * * * * *
13855575 AAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTT-TATCGCTG-TAATTGAGGTGTATAAAT
1 AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAAT-GCTGCAAATTGAAGTGTTTAGAT
* *
13855638 G-TTGTTAATT-AAGATG-TTAAAGTGCTGC
65 GCTTGTAAATTGAAGATGTTTAAA-TG-TGT
* * * *
13855666 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGT
1 AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAATGCTGCAAATTGAAGTGTTTAGA-T
* *
13855730 GC-TGCAAATTGAAG-TGTTTAAATGTTT
65 GCTTGTAAATTGAAGATGTTTAAATGTGT
* *
13855757 AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTG
1 AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAATGCTGCAAATTGAAGTGTTTAGATG
* * *
13855822 CTAG-AAATTG-AGATGTTT-TATCCCTGT
66 CTTGTAAATTGAAGATGTTTAAAT--GTGT
* * * * * *
13855849 -AATTGAGGTGTATAAATGTTGTTAATAGAGATG-TTAAAGTGCTGCAAATTGAAGTGTTTAGTT
1 AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAA-TGCTGCAAATTGAAGTGTTTAGAT
13855912 GCT
65 GCT
13855915 GGTTGAGGTT
Statistics
Matches: 282, Mismatches: 43, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
90 16 0.06
91 195 0.69
92 63 0.22
93 8 0.03
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (93 bp):
AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAATGCTGCAAATTGAAGTGTTTAGATG
CTTGTAAATTGAAGATGTTTAAATGTGT
Found at i:13855850 original size:137 final size:139
Alignment explanation
Indices: 13855483--13855817 Score: 468
Period size: 137 Copynumber: 2.4 Consensus size: 139
13855473 TTGTAAACTC
* * * *
13855483 AAATGGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATG
1 AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGTTTAAATG
* * * *
13855548 TTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTT-TAGTTGCTGGAAATTGAGATGTTT
66 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTTGCTGCAAATTGAGATGTTT
*
13855612 TATCGCTGT
131 AATCGCTGT
* * * *
13855621 -AATTGAGGTGTATAAATGTTGTTAATT-AAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAAT
1 AAATTGAAGTGTTTAAATGTTGTAAATTGAA-ATGTTTAAGTGCTGCAAATTGAAGTGTTTAAAT
13855684 GCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAG-TGCTGCAAATTGA-AGTGT
65 GCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTTGCTGCAAATTGAGA-TGT
*
13855747 TTAAAT-G-TTT
129 TT-AATCGCTGT
13855757 AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGTTTA
1 AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGTTTA
13855818 GTTGCTAGAA
Statistics
Matches: 173, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
136 5 0.03
137 162 0.94
138 6 0.03
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.40
Consensus pattern (139 bp):
AAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGTTTAAATG
CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTTGCTGCAAATTGAGATGTTT
AATCGCTGT
Found at i:13855898 original size:137 final size:136
Alignment explanation
Indices: 13855482--13855908 Score: 456
Period size: 137 Copynumber: 3.1 Consensus size: 136
13855472 GTTGTAAACT
* * * *
13855482 CAAATGGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAAT
1 CAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGTTTAAAT
* * ** * *
13855547 GTTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTT
66 GCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAGATGTTA
*
13855612 TATCGCTG
130 AAT-GCTG
* * * * *
13855620 -TAATTGAGGTGTATAAATGTTGTTAATT-AAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAA
1 CAAATTGAAGTGTTTAAATGTTGTAAATTGAA-ATGTTTAAGTGCTGCAAATTGAAGTGTTTAAA
13855683 TGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGA-AGTGT
65 TGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAGA-TG-
*
13855747 TTAAATG-TT
127 TTAAATGCTG
* **
13855756 TAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGTTTAGTT
1 CAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGTTTAAAT
* * * * ** *
13855821 GCTAG-AAATTG-AGATGTTT-TATCCCTGT-AATTGAGGTGTATAAATGTTGTTAATAGAGATG
66 GCT-GTAAATTGAAG-TGTTTAAAT-GCTGTAAATTGAAGTGT-TAAATGCTGCAAATTGAGATG
13855882 TTAAAGTGCTG
127 TTAAA-TGCTG
13855893 CAAATTGAAGTGTTTA
1 CAAATTGAAGTGTTTA
13855909 GTTGCTGGTT
Statistics
Matches: 243, Mismatches: 33, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
135 5 0.02
136 34 0.14
137 197 0.81
138 7 0.03
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.39
Consensus pattern (136 bp):
CAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGTTTAAAT
GCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAATGCTGCAAATTGAGATGTTAA
ATGCTG
Found at i:13856630 original size:43 final size:43
Alignment explanation
Indices: 13856583--13856905 Score: 319
Period size: 43 Copynumber: 7.5 Consensus size: 43
13856573 TTTAACGGCG
*
13856583 TTTTTGGGAAAA-CTGCTGCTAAAAGTCATGTTCTTTAGCAGCA
1 TTTTTGGGAAAAGC-GCCGCTAAAAGTCATGTTCTTTAGCAGCA
* *
13856626 TTTTTGGGAAAAGCGCCGCTAAAAGACATGTTCTTTAGCAACA
1 TTTTTGGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCAGCA
* *
13856669 TTTTTGGGAAAAGCGCCGCTAAAAGTCATGTTTTTTAGCGGC-
1 TTTTTGGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCAGCA
* * * *
13856711 TTTTTGGGAAAAGCACCGCTAAAGGTCATGTTCTCTAGCGGCA
1 TTTTTGGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCAGCA
* * ** * * * * *
13856754 TTTGT-AGAGAAAGCATCGTTAAAGGTTATGTTGTTTAGCGGCA
1 TTTTTGGGA-AAAGCGCCGCTAAAAGTCATGTTCTTTAGCAGCA
* * * * * **
13856797 TTTATGGGGAAAGCACCGCTAAAGGTCATGTTCTTTAGCGGTG
1 TTTTTGGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCAGCA
* * * * * *
13856840 TTTGTGGGTAAAGCGTCGCTAAAAGTCATGTTCTATAGCGGCG
1 TTTTTGGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCAGCA
*
13856883 TTTGTGGGAAAAGCGCCGCTAAA
1 TTTTTGGGAAAAGCGCCGCTAAA
13856906 GGTAATGTAA
Statistics
Matches: 240, Mismatches: 36, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
42 40 0.17
43 198 0.82
44 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
TTTTTGGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCAGCA
Found at i:13856829 original size:86 final size:86
Alignment explanation
Indices: 13856600--13856913 Score: 371
Period size: 86 Copynumber: 3.7 Consensus size: 86
13856590 GAAAACTGCT
* * * *
13856600 GCTAAAAGTCATGTTCTTTAGCAGCATTTTTGGGAAAAGCGCCGCTAAAAGACATGTTCTTTAGC
1 GCTAAAAGTCATGTTCTTTAGCGGCATTTTTGGGAAAAGCACCGCTAAAGGTCATGTTCTTTAGC
** * *
13856665 AACATTTTTGGGAAAAGCGCC
66 GGCATTTGTGGGAAAAGCGTC
* *
13856686 GCTAAAAGTCATGTTTTTTAGCGGC-TTTTTGGGAAAAGCACCGCTAAAGGTCATGTTCTCTAGC
1 GCTAAAAGTCATGTTCTTTAGCGGCATTTTTGGGAAAAGCACCGCTAAAGGTCATGTTCTTTAGC
* *
13856750 GGCATTTGT-AGAGAAAGCATC
66 GGCATTTGTGGGA-AAAGCGTC
* * * * * *
13856771 GTTAAAGGTTATGTTGTTTAGCGGCATTTATGGGGAAAGCACCGCTAAAGGTCATGTTCTTTAGC
1 GCTAAAAGTCATGTTCTTTAGCGGCATTTTTGGGAAAAGCACCGCTAAAGGTCATGTTCTTTAGC
** *
13856836 GGTGTTTGTGGGTAAAGCGTC
66 GGCATTTGTGGGAAAAGCGTC
* * * * *
13856857 GCTAAAAGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAATGT
1 GCTAAAAGTCATGTTCTTTAGCGGCATTTTTGGGAAAAGCACCGCTAAAGGTCATGT
13856914 AAAAATGTCG
Statistics
Matches: 191, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
84 2 0.01
85 68 0.36
86 120 0.63
87 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (86 bp):
GCTAAAAGTCATGTTCTTTAGCGGCATTTTTGGGAAAAGCACCGCTAAAGGTCATGTTCTTTAGC
GGCATTTGTGGGAAAAGCGTC
Found at i:13859999 original size:22 final size:24
Alignment explanation
Indices: 13859957--13860007 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
13859947 TTGATTTTTT
*
13859957 TAAAAAAATTTCTTAACAATAATTA
1 TAAAAAAATTTC-TAACAATAAATA
13859982 TAAAAAAATTTC-AA-AATAAATA
1 TAAAAAAATTTCTAACAATAAATA
13860004 TAAA
1 TAAA
13860008 TTATTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 11 0.44
23 2 0.08
25 12 0.48
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAAAAAATTTCTAACAATAAATA
Found at i:13860476 original size:69 final size:69
Alignment explanation
Indices: 13860360--13860497 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
13860350 TGATTCTAAC
13860360 TAATCCATATCTTTAGTGCAATTGGACAATGAATCAAGTGACTTGTGATCAAATAAAGAATCTAG
1 TAATCCATATCTTTAGTGCAATTGGACAATGAATCAAGTGACTTGTGATCAAATAAAGAATCTAG
13860425 AAAA
66 AAAA
* * *
13860429 TAATTCATATCTTTAGTGCCATTGGACAATGAATCAAGTGACTTGTGATCAAATAAAGAATCTGG
1 TAATCCATATCTTTAGTGCAATTGGACAATGAATCAAGTGACTTGTGATCAAATAAAGAATCTAG
13860494 AAAA
66 AAAA
13860498 GGTAGAGGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (69 bp):
TAATCCATATCTTTAGTGCAATTGGACAATGAATCAAGTGACTTGTGATCAAATAAAGAATCTAG
AAAA
Found at i:13861794 original size:2 final size:2
Alignment explanation
Indices: 13861787--13861818 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13861777 TCATTTAACC
13861787 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13861819 CATGACTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13862333 original size:27 final size:27
Alignment explanation
Indices: 13862288--13862388 Score: 89
Period size: 27 Copynumber: 3.6 Consensus size: 27
13862278 GAATATCCAA
*
13862288 CCCAAACACACCCGGAATAATATAAATCCT
1 CCCAAACACA-CC--AATAATATATATCCT
* *
13862318 CCCTAACACACCAAT-ATAATATAGCCT
1 CCCAAACACACCAATAAT-ATATATCCT
* **
13862345 CCCAAACACATCGGTAA-ATCATATCCT
1 CCCAAACACACCAATAATAT-ATATCCT
13862372 CCCAAACACACCAATAA
1 CCCAAACACACCAATAA
13862389 GGCATTAAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
26 4 0.07
27 41 0.72
28 1 0.02
29 2 0.04
30 9 0.16
ACGTcount: A:0.43, C:0.35, G:0.05, T:0.18
Consensus pattern (27 bp):
CCCAAACACACCAATAATATATATCCT
Found at i:13862915 original size:17 final size:18
Alignment explanation
Indices: 13862885--13862918 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13862875 AATTTTTATT
*
13862885 CAATTTATTCCCTAATTC
1 CAATTTAATCCCTAATTC
13862903 CAATTTAAT-CCTAATT
1 CAATTTAATCCCTAATT
13862919 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTAATCCCTAATTC
Found at i:13863346 original size:18 final size:18
Alignment explanation
Indices: 13863323--13863358 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13863313 TTTTCTTCCC
13863323 CTGTTTCCGTTTTGTTCT
1 CTGTTTCCGTTTTGTTCT
**
13863341 CTGTTTCTTTTTTGTTCT
1 CTGTTTCCGTTTTGTTCT
13863359 TCTTTCTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.14, T:0.67
Consensus pattern (18 bp):
CTGTTTCCGTTTTGTTCT
Found at i:13863364 original size:17 final size:18
Alignment explanation
Indices: 13863332--13863367 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13863322 CCTGTTTCCG
*
13863332 TTTTGTTCTCTGTTTCTT
1 TTTTGTTCTCTCTTTCTT
13863350 TTTTGTTCT-TCTTTCTT
1 TTTTGTTCTCTCTTTCTT
13863367 T
1 T
13863368 CATTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.00, C:0.17, G:0.08, T:0.75
Consensus pattern (18 bp):
TTTTGTTCTCTCTTTCTT
Found at i:13863528 original size:14 final size:14
Alignment explanation
Indices: 13863509--13863543 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13863499 TATAAAAAAA
13863509 TATTATAATTTAAT
1 TATTATAATTTAAT
* *
13863523 TATTATCATTTACT
1 TATTATAATTTAAT
13863537 TATTATA
1 TATTATA
13863544 TAAGAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATAATTTAAT
Found at i:13863684 original size:2 final size:2
Alignment explanation
Indices: 13863677--13863705 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13863667 AAATATACAA
13863677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13863706 CACATATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13865574 original size:17 final size:17
Alignment explanation
Indices: 13865554--13865607 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
13865544 TTAGTATATC
13865554 ATTAATATTATTATTTT
1 ATTAATATTATTATTTT
* *
13865571 ATTACTATTATTGTTTT
1 ATTAATATTATTATTTT
* *
13865588 ATTAACATAATTATTTT
1 ATTAATATTATTATTTT
13865605 ATT
1 ATT
13865608 TTGTTAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTAATATTATTATTTT
Found at i:13866548 original size:17 final size:17
Alignment explanation
Indices: 13866528--13866603 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
13866518 GGCGAACTGC
13866528 GAGCTCACTAGAACTAT
1 GAGCTCACTAGAACTAT
*
13866545 GAGCTCACCA-AA-TAT
1 GAGCTCACTAGAACTAT
*
13866560 ACGAGCTCTA-TAAAACTAT
1 --GAGCTC-ACTAGAACTAT
*
13866579 GAGCTCACTAAGACCT-T
1 GAGCTCACT-AGAACTAT
13866596 GAGCTCAC
1 GAGCTCAC
13866604 CAAGCTTGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
15 3 0.06
16 3 0.06
17 32 0.67
18 7 0.15
19 3 0.06
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (17 bp):
GAGCTCACTAGAACTAT
Found at i:13867792 original size:21 final size:21
Alignment explanation
Indices: 13867768--13867808 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13867758 TTTTTTCTTA
13867768 AATTGAGTTGAATTGAATTTG
1 AATTGAGTTGAATTGAATTTG
** *
13867789 AATTTTGTTTAATTGAATTT
1 AATTGAGTTGAATTGAATTT
13867809 TTGGATTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (21 bp):
AATTGAGTTGAATTGAATTTG
Found at i:13868242 original size:22 final size:22
Alignment explanation
Indices: 13868216--13868275 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
13868206 ATAATAAAAC
13868216 AATAACGACAAAATAGTAGCAA
1 AATAACGACAAAATAGTAGCAA
* ** * *
13868238 TATAATAACGAAATTGTAGCAA
1 AATAACGACAAAATAGTAGCAA
*
13868260 AACAACGACAAAATAG
1 AATAACGACAAAATAG
13868276 CAGTGAAATG
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (22 bp):
AATAACGACAAAATAGTAGCAA
Found at i:13871682 original size:16 final size:16
Alignment explanation
Indices: 13871661--13871692 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13871651 TTTATAATAT
13871661 AAATTTAGTACTTACA
1 AAATTTAGTACTTACA
*
13871677 AAATTTAGTTCTTACA
1 AAATTTAGTACTTACA
13871693 TTTTTAGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
AAATTTAGTACTTACA
Done.