Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 12 of 182
Found at i:4067083 original size:18 final size:18
Alignment explanation
Indices: 4067060--4067094 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4067050 AACTAAGGGT
* *
4067060 TAAAAACAAAGTAAAAAA
1 TAAAAAAAAAATAAAAAA
4067078 TAAAAAAAAAATAAAAA
1 TAAAAAAAAAATAAAAA
4067095 GGTTCTAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.03, G:0.03, T:0.11
Consensus pattern (18 bp):
TAAAAAAAAAATAAAAAA
Found at i:4080479 original size:34 final size:35
Alignment explanation
Indices: 4080436--4080519 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 35
4080426 CATCAAAAGT
* **
4080436 TGTTCGTGCACATCAAAT-GACATATCTTCAAGGC
1 TGTTCGTGCACATCAAATAGACATACCAACAAGGC
4080470 TGTTCGTGCACATC-AATAGACATACCAACAAGGC
1 TGTTCGTGCACATCAAATAGACATACCAACAAGGC
* *
4080504 TGTTCGGGCACCTCAA
1 TGTTCGTGCACATCAA
4080520 TGGACAGCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 3 0.07
34 39 0.91
35 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (35 bp):
TGTTCGTGCACATCAAATAGACATACCAACAAGGC
Found at i:4083344 original size:12 final size:12
Alignment explanation
Indices: 4083329--4083368 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
4083319 AAAGTCGAGT
4083329 GAAAATGAAAAA
1 GAAAATGAAAAA
4083341 GAAAAT-AAAAA
1 GAAAATGAAAAA
*
4083352 TGAAAAAGAAAAA
1 -GAAAATGAAAAA
4083365 GAAA
1 GAAA
4083369 GGAGTTCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 5 0.20
12 15 0.60
13 5 0.20
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (12 bp):
GAAAATGAAAAA
Found at i:4084856 original size:18 final size:18
Alignment explanation
Indices: 4084833--4084868 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4084823 CTTAAAGGGA
4084833 CAGCACAAGTTGACTAAG
1 CAGCACAAGTTGACTAAG
4084851 CAGCACAAGTTGACTAAG
1 CAGCACAAGTTGACTAAG
4084869 TGACATGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (18 bp):
CAGCACAAGTTGACTAAG
Found at i:4087148 original size:34 final size:34
Alignment explanation
Indices: 4087082--4087160 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
4087072 CATTAAAACT
* * **
4087082 TGTTCGTGCACATCAAAGGACATATCTTCAAGGC
1 TGTTCGTGCACATCAAAAGACATACCAACAAGGC
*
4087116 TGTTCGTGCACATCAAAAGACATACCAACAAGGT
1 TGTTCGTGCACATCAAAAGACATACCAACAAGGC
*
4087150 TGTTCGGGCAC
1 TGTTCGTGCAC
4087161 CTTAATGGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (34 bp):
TGTTCGTGCACATCAAAAGACATACCAACAAGGC
Found at i:4089371 original size:34 final size:35
Alignment explanation
Indices: 4089307--4089389 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 35
4089297 TCAAAAGTTG
* **
4089307 TTCGTGCACATCAA-ATGACATATCTTCAAGGCTA
1 TTCGTGCACATCAATATGACATACCAACAAGGCTA
*
4089341 TTCGTGCACATCAATA-GACATACCAACAAGGCTG
1 TTCGTGCACATCAATATGACATACCAACAAGGCTA
* *
4089375 TTCGGGCACCTCAAT
1 TTCGTGCACATCAAT
4089390 GGATAGCTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 41 0.98
35 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (35 bp):
TTCGTGCACATCAATATGACATACCAACAAGGCTA
Found at i:4092233 original size:18 final size:19
Alignment explanation
Indices: 4092212--4092251 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
4092202 AAGTCGAGTG
*
4092212 AAAATGAACAAG-AAAAGA
1 AAAATGAAAAAGAAAAAGA
4092230 AAAATGAAAAAGAAAAAGA
1 AAAATGAAAAAGAAAAAGA
4092249 AAA
1 AAA
4092252 GAGTTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAATGAAAAAGAAAAAGA
Found at i:4093735 original size:18 final size:18
Alignment explanation
Indices: 4093712--4093747 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4093702 CTTAAAGGGA
4093712 CAGCACAAGTTGACTAAG
1 CAGCACAAGTTGACTAAG
4093730 CAGCACAAGTTGACTAAG
1 CAGCACAAGTTGACTAAG
4093748 TGACATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (18 bp):
CAGCACAAGTTGACTAAG
Found at i:4096124 original size:34 final size:34
Alignment explanation
Indices: 4096081--4096159 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
4096071 CATCAAAACT
* **
4096081 TGTTCGTGCACATGAAAG-GACATATCTTCAAGGC
1 TGTTCGTGCACAT-AAAGAGACATACCAACAAGGC
*
4096115 TGTTCGTGCACATCAAGAGACATACCAACAAGGC
1 TGTTCGTGCACATAAAGAGACATACCAACAAGGC
*
4096149 TGTTCGGGCAC
1 TGTTCGTGCAC
4096160 CTCAACGGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 3 0.08
34 36 0.92
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (34 bp):
TGTTCGTGCACATAAAGAGACATACCAACAAGGC
Found at i:4102812 original size:37 final size:37
Alignment explanation
Indices: 4102758--4102831 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
4102748 GAACTCGGCA
* *
4102758 TTCGGTGAATCATTTCGAACCTTAGATTATTTTTCTT
1 TTCGGAGAATCACTTCGAACCTTAGATTATTTTTCTT
4102795 TTCGGAGAATCACTTCGAACCTTAGATTATTTTTCTT
1 TTCGGAGAATCACTTCGAACCTTAGATTATTTTTCTT
4102832 AATAAGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.46
Consensus pattern (37 bp):
TTCGGAGAATCACTTCGAACCTTAGATTATTTTTCTT
Found at i:4106215 original size:29 final size:29
Alignment explanation
Indices: 4106173--4106333 Score: 173
Period size: 29 Copynumber: 5.6 Consensus size: 29
4106163 AACGGTTGAA
4106173 ACCATCCCTTTTCATAGTTGATGGTCGTC
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
* ** * * * **
4106202 ATCATCTTTTTTCATAATCGATAG-CGAA
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
* * *
4106230 AGCCATCCCTTTTCTTA-TTCTATGGTCGTT
1 A-CCATCCCTTTTCATAGTT-GATGGTCGTC
*
4106260 ACCATCCCTTTTCATAGTTGATGGTCGTG
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
*
4106289 ACCATCCCTTTCCATAGTTGATGGTCGTC
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
4106318 ACCATCCCTTTTCATA
1 ACCATCCCTTTTCATA
4106334 ATCGATAGCT
Statistics
Matches: 105, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
28 4 0.04
29 96 0.91
30 5 0.05
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATAGTTGATGGTCGTC
Found at i:4106236 original size:58 final size:57
Alignment explanation
Indices: 4106170--4106342 Score: 204
Period size: 58 Copynumber: 3.0 Consensus size: 57
4106160 ATCAACGGTT
* **
4106170 GAAACCATCCCTTTTCATAGTTGATGGTCGTCATCATCTTTTTTCATAATCGATAGC
1 GAAACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGC
* * * * * *
4106227 GAAAGCCATCCCTTTTCTTA-TTCTATGGTCGTTACCATCCCTTTTCATAGTTGATGGTC
1 GAAA-CCATCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAATCGATAG-C
** *
4106286 GTGACCATCCCTTTCCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGC
1 GAAACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGC
4106343 TGATGTTATT
Statistics
Matches: 94, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
57 7 0.07
58 82 0.87
59 5 0.05
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (57 bp):
GAAACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGC
Found at i:4106357 original size:58 final size:58
Alignment explanation
Indices: 4106174--4106361 Score: 186
Period size: 58 Copynumber: 3.2 Consensus size: 58
4106164 ACGGTTGAAA
* ** *
4106174 CCATCCCTTTTCATAGTTGATGGTCGTCATCATCTTTTTTCATAATCGATAGC-GAAAG
1 CCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCTG-ATG
* * * * * *
4106232 CCATCCCTTTTCTTA-TTCTATGGTCGTTACCATCCCTTTTCATAGTTGAT-GGTCG-TG
1 CCATCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAATCGATAGCT-GATG
*
4106289 ACCATCCCTTTCCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGATG
1 -CCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGATG
** *
4106348 TTATTCCTTTTCAT
1 CCATCCCTTTTCAT
4106362 TATGTAAAGG
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
57 4 0.04
58 91 0.89
59 7 0.07
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (58 bp):
CCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGATG
Found at i:4109947 original size:17 final size:17
Alignment explanation
Indices: 4109925--4109958 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4109915 TCTTAACAGT
4109925 TTCAAAAATAGAGGTAC
1 TTCAAAAATAGAGGTAC
4109942 TTCAAAAATAGAGGTAC
1 TTCAAAAATAGAGGTAC
4109959 GGGTTAGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (17 bp):
TTCAAAAATAGAGGTAC
Found at i:4111597 original size:20 final size:20
Alignment explanation
Indices: 4111554--4111605 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4111544 CTACGGTGCC
* *
4111554 CCTATAATGCACTCTGATGC
1 CCTATTATGCACTCTGATGA
*
4111574 CCTATTATGCACTCTGGTGA
1 CCTATTATGCACTCTGATGA
4111594 CCTATT-TGCACT
1 CCTATTATGCACT
4111606 TCGATGCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (20 bp):
CCTATTATGCACTCTGATGA
Found at i:4120827 original size:35 final size:35
Alignment explanation
Indices: 4120775--4120915 Score: 183
Period size: 35 Copynumber: 4.0 Consensus size: 35
4120765 TACTCTCTAT
*
4120775 TTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCA
* * *
4120810 TTGGTGTGTTTCTGTTGGATTAGCTCTTATGAGAA
1 TTGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCA
* * * *
4120845 TTGACGTGCTACAGTTGGATTAACTCTTATGAGCA
1 TTGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCA
* * *
4120880 TTGGCATGTTACAGTTGGATTGGCTCTTATGAGCA
1 TTGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCA
4120915 T
1 T
4120916 CTGATGTGTT
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 91 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (35 bp):
TTGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCA
Found at i:4121671 original size:20 final size:20
Alignment explanation
Indices: 4121622--4121677 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
4121612 AGCTTATGCT
* * *
4121622 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
4121642 AAGTAAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
4121662 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
4121678 TCATAGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:4123068 original size:25 final size:25
Alignment explanation
Indices: 4123001--4123078 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
4122991 CAAATAAAGG
4123001 ATGATATGCATGTGTTTG--AATGA
1 ATGATATGCATGTGTTTGAAAATGA
*
4123024 GTTATGATATG-AT-T-TATGAAAATGA
1 ---ATGATATGCATGTGTTTGAAAATGA
4123049 ATGATATGCATGTGTTTGAAAATGA
1 ATGATATGCATGTGTTTGAAAATGA
4123074 ATGAT
1 ATGAT
4123079 TTAAGTTACG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
22 8 0.18
23 5 0.11
24 2 0.04
25 22 0.49
26 8 0.18
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (25 bp):
ATGATATGCATGTGTTTGAAAATGA
Found at i:4125520 original size:18 final size:19
Alignment explanation
Indices: 4125478--4125520 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
4125468 AATAAAAAAT
*
4125478 GTTTTAAAAATAAATTTCA
1 GTTTTTAAAATAAATTTCA
*
4125497 G-ATTTAAAATAAATTT-A
1 GTTTTTAAAATAAATTTCA
4125514 GTTTTTA
1 GTTTTTA
4125521 TTACTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.85
19 1 0.05
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (19 bp):
GTTTTTAAAATAAATTTCA
Found at i:4125732 original size:19 final size:21
Alignment explanation
Indices: 4125705--4125755 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
4125695 GACATTGATT
*
4125705 TATTTTAAAAATAA-TTTT-A
1 TATTATAAAAATAATTTTTGA
4125724 TATTAT--AAATAATTTTTGA
1 TATTATAAAAATAATTTTTGA
4125743 TATTATAAAAATA
1 TATTATAAAAATA
4125756 TAAAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.22
18 4 0.15
19 12 0.44
21 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTATAAAAATAATTTTTGA
Found at i:4125733 original size:17 final size:18
Alignment explanation
Indices: 4125703--4125751 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
4125693 AAGACATTGA
* *
4125703 TTTATTTTAAAAATAA-T
1 TTTATATTATAAATAATT
4125720 TTTATATTATAAATAATT
1 TTTATATTATAAATAATT
4125738 TTTGATATTATAAA
1 TTT-ATATTATAAA
4125752 AATATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.50
18 4 0.14
19 10 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTATATTATAAATAATT
Found at i:4125939 original size:17 final size:17
Alignment explanation
Indices: 4125887--4125939 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
4125877 TAAAATTTTA
* *
4125887 AAAAAATTTTAAAATAT
1 AAAAAATTATAAAATAC
**
4125904 AAAAAAAAAGTAAAA-AC
1 AAAAAATTA-TAAAATAC
4125921 AAAAAATTATAAAATAC
1 AAAAAATTATAAAATAC
4125938 AA
1 AA
4125940 GAGTTTATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 5 0.18
17 18 0.64
18 5 0.18
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAAAATTATAAAATAC
Found at i:4126419 original size:49 final size:49
Alignment explanation
Indices: 4126324--4126417 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
4126314 TTGTCTCATG
4126324 CTACAGTATAGCTACAGTATCTAATCTCACTCTCATCGTTAGTTTTATA
1 CTACAGTATAGCTACAGTATCTAATCTCACTCTCATCGTTAGTTTTATA
* * * *
4126373 CTACAGTATAGTTATAGTATTTAATCTTACT-TCCATCGTT-GTTTT
1 CTACAGTATAGCTACAGTATCTAATCTCACTCT-CATCGTTAGTTTT
4126418 TACGCTAACC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 6 0.15
49 34 0.85
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.44
Consensus pattern (49 bp):
CTACAGTATAGCTACAGTATCTAATCTCACTCTCATCGTTAGTTTTATA
Found at i:4132770 original size:19 final size:18
Alignment explanation
Indices: 4132721--4132770 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
4132711 AATAGGTAAT
4132721 TGAACATAAAAATTGGACC
1 TGAA-ATAAAAATTGGACC
* *
4132740 TGATATCGAAAATTGGACC
1 TGAAAT-AAAAATTGGACC
4132759 TGAGAATAAAAA
1 TGA-AATAAAAA
4132771 GTCGAGATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 2 0.08
19 21 0.84
20 2 0.08
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (18 bp):
TGAAATAAAAATTGGACC
Found at i:4133603 original size:5 final size:5
Alignment explanation
Indices: 4133593--4133756 Score: 328
Period size: 5 Copynumber: 32.8 Consensus size: 5
4133583 GTTTAAGTAA
4133593 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
4133643 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
4133693 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
4133743 TATAT TATAT TATA
1 TATAT TATAT TATA
4133757 ATAAAACAAA
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 159 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:4134535 original size:41 final size:40
Alignment explanation
Indices: 4134490--4134600 Score: 111
Period size: 41 Copynumber: 2.8 Consensus size: 40
4134480 TGCAATCGAG
*
4134490 TCGATGAGACACTGGGTGTCAAATTACTACTTCAGATTAAT
1 TCGATGAGACACTGGGTGTCAAATTA-TACTTCAGATTAAC
* * * * * * *
4134531 TCGATAAGGCACTAGGTGTC-AATT-TATTTCGGTTTAGC
1 TCGATGAGACACTGGGTGTCAAATTATACTTCAGATTAAC
4134569 T-GATGAGACACTGGGTGTCAAATTATTACTTC
1 TCGATGAGACACTGGGTGTCAAATTA-TACTTC
4134601 GAATTTTTCG
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
37 15 0.27
38 14 0.25
40 9 0.16
41 17 0.31
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAAATTATACTTCAGATTAAC
Found at i:4140720 original size:5 final size:5
Alignment explanation
Indices: 4140710--4141077 Score: 736
Period size: 5 Copynumber: 73.6 Consensus size: 5
4140700 TGTTTAATTA
4140710 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
4140760 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
4140810 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
4140860 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
4140910 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
4140960 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
4141010 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
4141060 ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATA
4141078 ATAAAACAAA
Statistics
Matches: 363, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 363 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:4142770 original size:461 final size:461
Alignment explanation
Indices: 4141901--4142822 Score: 1781
Period size: 461 Copynumber: 2.0 Consensus size: 461
4141891 GGGCATTAAA
*
4141901 ATACTCACCAAAATGTGCAATTGTTAATTCGAGTATACTTGAAAATTATTTGCATAGTATTTGTG
1 ATACTCACCAAAATGTGCAATTGTTAATGCGAGTATACTTGAAAATTATTTGCATAGTATTTGTG
*
4141966 TGTGTTAGATTCCTTAGATGATAATGATAAGACACGTTATGTTTTGAACATTATTTTTATAACTT
66 TGTGTTAGATTCCTTAGATGATAATGATAAGACACATTATGTTTTGAACATTATTTTTATAACTT
4142031 AAAATGTATGAAAATGTGAAGGTGTCTAAAAATCATGTCTTCTGTTCTTAAGAAAAGGAAAATGA
131 AAAATGTATGAAAATGTGAAGGTGTCTAAAAATCATGTCTTCTGTTCTTAAGAAAAGGAAAATGA
4142096 ATTCCAATTCCATGTTCATTAACTATGTTGAAGTTAGTGTTGCACATATATTTCTTGCTATAAAT
196 ATTCCAATTCCATGTTCATTAACTATGTTGAAGTTAGTGTTGCACATATATTTCTTGCTATAAAT
4142161 AGTGATGTGTTTAATTATAATAATATACTTGAGATAAAAATACTGACGTTTTCAGCATATTTTCC
261 AGTGATGTGTTTAATTATAATAATATACTTGAGATAAAAATACTGACGTTTTCAGCATATTTTCC
4142226 TTTAAAAATTGATGATGTTTCCCATGCACCTGTTATACAAAATGATTGTAGATATGAGGATTTGA
326 TTTAAAAATTGATGATGTTTCCCATGCACCTGTTATACAAAATGATTGTAGATATGAGGATTTGA
4142291 GAAGACTTATAAGGCTTGGAACTAAAAAGTCTATTAGAAATATTTTTTTACATTTATTTTGTGAA
391 GAAGACTTATAAGGCTTGGAACTAAAAAGTCTATTAGAAATATTTTTTTACATTTATTTTGTGAA
4142356 AATTGG
456 AATTGG
*
4142362 ATACTCGCCAAAATGTGCAATTGTTAATGCGAGTATACTTGAAAATTATTTGCATAGTATTTGTG
1 ATACTCACCAAAATGTGCAATTGTTAATGCGAGTATACTTGAAAATTATTTGCATAGTATTTGTG
*
4142427 TGTGTTAGATTCCTTAGATGATAATGATAAGACACATTATGTTTTGAACATTATTTTTTTAACTT
66 TGTGTTAGATTCCTTAGATGATAATGATAAGACACATTATGTTTTGAACATTATTTTTATAACTT
*
4142492 AAAATGTATGAAAATGTGGAGGTGTCTAAAAATCATGTCTTCTGTTCTTAAGAAAAGGAAAATGA
131 AAAATGTATGAAAATGTGAAGGTGTCTAAAAATCATGTCTTCTGTTCTTAAGAAAAGGAAAATGA
* *
4142557 ATTCTAGTTCCATGTTCATTAACTATGTTGAAGTTAGTGTTGCACATATATTTCTTGCTATAAAT
196 ATTCCAATTCCATGTTCATTAACTATGTTGAAGTTAGTGTTGCACATATATTTCTTGCTATAAAT
4142622 AGTGATGTGTTTAATTATAATAATATACTTGAGATAAAAATACTGACGTTTTCAGCATATTTTCC
261 AGTGATGTGTTTAATTATAATAATATACTTGAGATAAAAATACTGACGTTTTCAGCATATTTTCC
4142687 TTTAAAAATTGATGATGTTTCCCATGCACCTGTTATACAAAATGATTGTAGATATGAGGATTTGA
326 TTTAAAAATTGATGATGTTTCCCATGCACCTGTTATACAAAATGATTGTAGATATGAGGATTTGA
4142752 GAAGACTTATAAGGCTTGGAACTAAAAAGTCTATTAGAAATATTTTTTTACATTTATTTTGTGAA
391 GAAGACTTATAAGGCTTGGAACTAAAAAGTCTATTAGAAATATTTTTTTACATTTATTTTGTGAA
4142817 AATTGG
456 AATTGG
4142823 TTCATCCACT
Statistics
Matches: 454, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
461 454 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (461 bp):
ATACTCACCAAAATGTGCAATTGTTAATGCGAGTATACTTGAAAATTATTTGCATAGTATTTGTG
TGTGTTAGATTCCTTAGATGATAATGATAAGACACATTATGTTTTGAACATTATTTTTATAACTT
AAAATGTATGAAAATGTGAAGGTGTCTAAAAATCATGTCTTCTGTTCTTAAGAAAAGGAAAATGA
ATTCCAATTCCATGTTCATTAACTATGTTGAAGTTAGTGTTGCACATATATTTCTTGCTATAAAT
AGTGATGTGTTTAATTATAATAATATACTTGAGATAAAAATACTGACGTTTTCAGCATATTTTCC
TTTAAAAATTGATGATGTTTCCCATGCACCTGTTATACAAAATGATTGTAGATATGAGGATTTGA
GAAGACTTATAAGGCTTGGAACTAAAAAGTCTATTAGAAATATTTTTTTACATTTATTTTGTGAA
AATTGG
Found at i:4143916 original size:26 final size:25
Alignment explanation
Indices: 4143867--4143943 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 25
4143857 TTTCTCACCC
4143867 CAATTTTACCCTAGTAAAATTTTGA
1 CAATTTTACCCTAGTAAAATTTTGA
* *
4143892 CAATTTTACCCATTGTAAATTTTTGA
1 CAATTTTACCC-TAGTAAAATTTTGA
* *
4143918 CGATTTTAACCCTGGTAAAATTTTGA
1 CAATTTT-ACCCTAGTAAAATTTTGA
4143944 GAAAATTCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 11 0.24
26 30 0.67
27 4 0.09
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (25 bp):
CAATTTTACCCTAGTAAAATTTTGA
Found at i:4144106 original size:12 final size:13
Alignment explanation
Indices: 4144084--4144112 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4144074 GGATTGCAAG
4144084 TTTCTATTTCCAT
1 TTTCTATTTCCAT
4144097 TTTC-ATTTCCAT
1 TTTCTATTTCCAT
4144109 TTTC
1 TTTC
4144113 GTTTTTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTCTATTTCCAT
Found at i:4150171 original size:49 final size:47
Alignment explanation
Indices: 4150055--4150176 Score: 120
Period size: 49 Copynumber: 2.5 Consensus size: 47
4150045 GAGAAGGGAG
* * *
4150055 CAAGGTGAAAACCCGAAAAAGGGTGCTTTGAGTCCTAAAAAAAGAGAC
1 CAAGGTGAAAACCCG-CAAAGGGCGCTTTGAGTCCTAAAAAAAAAGAC
* ** * * *
4150103 TAAGGCAAAAACTCACAAAGGGCGCTTTGATTCCTAACAAAAAAA-ATGC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAA-AAAAAAAGA--C
4150152 CAAGGTGAAAACCCGCAAAGGGCGC
1 CAAGGTGAAAACCCGCAAAGGGCGC
4150177 CTAGAGACCA
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
47 20 0.35
48 16 0.28
49 21 0.37
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (47 bp):
CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAAAGAC
Found at i:4151435 original size:51 final size:51
Alignment explanation
Indices: 4151359--4151811 Score: 656
Period size: 51 Copynumber: 8.9 Consensus size: 51
4151349 AAGTCATTAT
* * * * *
4151359 AGCGAATATTATTTCTCTGGTGTTACAGTGGAACAGATTAAAGCTAAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
*
4151410 AGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * *
4151461 AGCAAATCTTATTTACCTGGCATTGCAGTGGAACAGATTGAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * *
4151512 AGCGAAT-TTTTTTTCCTAGCATTGCAGTGGAACAGATTAAAGCTGAAGAC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* *
4151562 AGCGAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGACTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
4151613 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * *
4151664 AGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGATTAAAGTTGAAGGT
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * *
4151715 AGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAAAGGT
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * *
4151766 AGCGAATCTTATTTCTCTGGTGTTACAGTGGAATAGATTAAAGCTG
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTG
4151812 CAAATTATGG
Statistics
Matches: 368, Mismatches: 33, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
50 45 0.12
51 323 0.88
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (51 bp):
AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
Found at i:4151607 original size:152 final size:152
Alignment explanation
Indices: 4151384--4151811 Score: 633
Period size: 152 Copynumber: 2.8 Consensus size: 152
4151374 TCTGGTGTTA
* *
4151384 CAGTGGAACAGATTAAAGCTAAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATT
* * *
4151449 AAAGCTGAAGGCAGCAAATCTTATTTACCTGGCATTGCAGTGGAACAGATTGAAGCTGAAGGCAG
66 AAAGCTGAAGGCAGCGAATCTTATTT-CCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAG
* *
4151514 CGAAT-TTTTTTTCCTAGCATTG
130 CGAATCTTATTTCCCTAGCATTG
* * *
4151536 CAGTGGAACAGATTAAAGCTGAAGACAGCGAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGACT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATT
4151601 AAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAG
66 AAAGCTGAAGGCAGCGAATCTTATTT-CCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAG
* *
4151666 CGAATCTTATTTCCCTGGCGTTG
130 CGAATCTTATTTCCCTAGCATTG
* * * *
4151689 TAGTGGAACAGATTAAAGTTGAAGGTAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATT
* * * * *
4151754 AAAGCTAAAGGTAGCGAATCTTATTTCTCTGGTGTTACAGTGGAATAGATTAAAGCTG
66 AAAGCTGAAGGCAGCGAATCTTATTTC-CTGGCGTTGCAGTGGAACAGATTAAAGCTG
4151812 CAAATTATGG
Statistics
Matches: 249, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
152 127 0.51
153 122 0.49
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (152 bp):
CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATT
AAAGCTGAAGGCAGCGAATCTTATTTCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
GAATCTTATTTCCCTAGCATTG
Found at i:4151721 original size:203 final size:204
Alignment explanation
Indices: 4151359--4151811 Score: 683
Period size: 203 Copynumber: 2.2 Consensus size: 204
4151349 AAGTCATTAT
* *
4151359 AGCGAATATTATTTCTCTGGTGTTACAGTGGAACAGATTAAAGCTAAAGGCAGCGAATCTTATTT
1 AGCGAATCTTATTTCTCTGGTGTTACAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT
4151424 CCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTATTTACCTGGCATTGCAG
66 CCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTATTTACCTGGCATTGCAG
* * *
4151489 TGGAACAGATTGAAGCTGAAGGCAGCGAAT-TTTTTTTCCTAGCATTGCAGTGGAACAGATTAAA
131 TGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAGATTAAA
*
4151553 GCTGAAGAC
196 GCTAAAGAC
* * * * *
4151562 AGCGAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGACTAAAGCTGAAGGCAGCGAATCTTATTT
1 AGCGAATCTTATTTCTCTGGTGTTACAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT
* * * * *
4151627 CCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAG
66 CCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTATTTACCTGGCATTGCAG
* * * **
4151692 TGGAACAGATTAAAGTTGAAGGTAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAGATTAAA
131 TGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAGATTAAA
**
4151757 GCTAAAGGT
196 GCTAAAGAC
*
4151766 AGCGAATCTTATTTCTCTGGTGTTACAGTGGAATAGATTAAAGCTG
1 AGCGAATCTTATTTCTCTGGTGTTACAGTGGAACAGATTAAAGCTG
4151812 CAAATTATGG
Statistics
Matches: 220, Mismatches: 29, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
203 145 0.66
204 75 0.34
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (204 bp):
AGCGAATCTTATTTCTCTGGTGTTACAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT
CCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTATTTACCTGGCATTGCAG
TGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAGATTAAA
GCTAAAGAC
Found at i:4151921 original size:44 final size:44
Alignment explanation
Indices: 4151827--4151934 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
4151817 TATGGCGGAT
* * *
4151827 CTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCATCAGC
1 CTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGC
* *
4151871 CTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGTCACCAATC
1 CTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACC-AGC
4151916 C-TATC-TCCTTGAAGTTGCA
1 CTTATCTTCC-TGAAGTTGCA
4151935 ATGGGGCGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 3 0.05
44 51 0.89
45 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGC
Found at i:4153665 original size:21 final size:20
Alignment explanation
Indices: 4153614--4153665 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4153604 GTTGAAGCTT
4153614 AATATTATTTTAAATTCATC
1 AATATTATTTTAAATTCATC
* * *
4153634 ATTAATATTTTAAATTTATC
1 AATATTATTTTAAATTCATC
4153654 ACATATTATTTT
1 A-ATATTATTTT
4153666 TCTTAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATTATTTTAAATTCATC
Found at i:4153671 original size:25 final size:25
Alignment explanation
Indices: 4153643--4153690 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
4153633 CATTAATATT
4153643 TTAAATTTATCACATATTATTTTTC
1 TTAAATTTATCACATATTATTTTTC
**
4153668 TTAAATTTATCATGTATTATTTT
1 TTAAATTTATCACATATTATTTT
4153691 ATATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.58
Consensus pattern (25 bp):
TTAAATTTATCACATATTATTTTTC
Found at i:4154196 original size:33 final size:35
Alignment explanation
Indices: 4154150--4154215 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 35
4154140 ATTTCAAATT
4154150 CATATATATATTGTTTAT-T-TTGA-AATTTTATG
1 CATATATATATTGTTTATATATTGATAATTTTATG
*
4154182 CATATAATTTATTGTTTATATATTGATAATTTTA
1 CATAT-ATATATTGTTTATATATTGATAATTTTA
4154216 AATTTCCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 5 0.17
33 12 0.41
34 1 0.03
35 4 0.14
36 7 0.24
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (35 bp):
CATATATATATTGTTTATATATTGATAATTTTATG
Found at i:4164254 original size:28 final size:28
Alignment explanation
Indices: 4164205--4164272 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 28
4164195 GCTGAACGTG
* * * *
4164205 TTTTAACAAAATCGGCCCATTTTCGTCA
1 TTTTAAAAAAATCAGCCCATTTCCGTAA
* *
4164233 TTTTAAAAAAATTAGCCTATTTCCGTAA
1 TTTTAAAAAAATCAGCCCATTTCCGTAA
*
4164261 TTGTGAAAAAAA
1 TT-TTAAAAAAA
4164273 GGGCTTTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (28 bp):
TTTTAAAAAAATCAGCCCATTTCCGTAA
Found at i:4165166 original size:18 final size:17
Alignment explanation
Indices: 4165132--4165172 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
4165122 TAACTTCTCT
*
4165132 AATTAAATCTTGTTAAA
1 AATTAAATCTTGGTAAA
*
4165149 AATTCAAATGTTGGTAAA
1 AATT-AAATCTTGGTAAA
4165167 AATTAA
1 AATTAA
4165173 TCCATTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (17 bp):
AATTAAATCTTGGTAAA
Found at i:4169207 original size:40 final size:40
Alignment explanation
Indices: 4169144--4169228 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
4169134 TAATCGAGTT
* *
4169144 TGATATACTTATATTATTATTTTTAATTATTTTTCATATA
1 TGATATACTTATATTATTATTTTTAATTATTGTGCATATA
* *
4169184 TGATATACTTATATTA-TATTTTTTTATTATTGTGCATATT
1 TGATATACTTATATTATTA-TTTTTAATTATTGTGCATATA
4169224 TGATA
1 TGATA
4169229 AAGAATTATG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.59
Consensus pattern (40 bp):
TGATATACTTATATTATTATTTTTAATTATTGTGCATATA
Found at i:4170931 original size:63 final size:62
Alignment explanation
Indices: 4170850--4170973 Score: 149
Period size: 63 Copynumber: 2.0 Consensus size: 62
4170840 CTTTTTATTT
* * ***
4170850 AATTTTTCCGTCTCTTTTAATTTTTAAACTTGTGTTATTTATCAAATCAATTTAAAATAGATA
1 AATTTTTCCATCTCTTTTAATATTTAAACTTGTACGATTTATCAAATCAATTT-AAATAGATA
* * * * *
4170913 AATTTTTCTATCTTTTTTAATATTTAGACTTGTACGATTTGTCAAATCACTTTAAATAGAT
1 AATTTTTCCATCTCTTTTAATATTTAAACTTGTACGATTTATCAAATCAATTTAAATAGAT
4170974 GGAATATCTT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
62 8 0.16
63 43 0.84
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.49
Consensus pattern (62 bp):
AATTTTTCCATCTCTTTTAATATTTAAACTTGTACGATTTATCAAATCAATTTAAATAGATA
Found at i:4173601 original size:5 final size:5
Alignment explanation
Indices: 4173591--4173619 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4173581 TTCAACAGCA
4173591 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
4173620 AAGGAAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:4173952 original size:30 final size:30
Alignment explanation
Indices: 4173916--4173973 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4173906 AAAAAAAATA
* *
4173916 TTAAAATCATATTTATATTGTACAATAACT
1 TTAAAATCATATTAATATTGAACAATAACT
* *
4173946 TTAAAATTATATTAATGTTGAACAATAA
1 TTAAAATCATATTAATATTGAACAATAA
4173974 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (30 bp):
TTAAAATCATATTAATATTGAACAATAACT
Found at i:4176794 original size:50 final size:52
Alignment explanation
Indices: 4176684--4176801 Score: 150
Period size: 50 Copynumber: 2.3 Consensus size: 52
4176674 ATGAACAAAT
* * * *
4176684 GAGTTACTTAATGCATGACTTAATTTAAAGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAAAGATACAAACTTTAACTAACATGA
* * * *
4176736 GAATTACATAATGCATGACATAATTT-ATGATATAATC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAAAGATACAAACTTTAACTAACATGA
4176786 GAGTTACATAATGCAT
1 GAGTTACATAATGCAT
4176802 AACTTTATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 27 0.47
51 7 0.12
52 23 0.40
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAAAGATACAAACTTTAACTAACATGA
Found at i:4178036 original size:18 final size:18
Alignment explanation
Indices: 4178013--4178051 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4178003 TGTTGATATT
*
4178013 TTTTAATA-TTTATTTCAA
1 TTTTAATAGTGTATTT-AA
4178031 TTTTAATAGTGTATTTAA
1 TTTTAATAGTGTATTTAA
4178049 TTT
1 TTT
4178052 GTAAAAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTAATAGTGTATTTAA
Found at i:4184732 original size:16 final size:16
Alignment explanation
Indices: 4184700--4184751 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
4184690 GGACAAGGTA
*
4184700 ATTTGGTTT-TTATTTT
1 ATTTGTTTTATTA-TTT
4184716 ATTTGTTTTATTATTT
1 ATTTGTTTTATTATTT
* * *
4184732 AATTATTTAATTATTT
1 ATTTGTTTTATTATTT
4184748 ATTT
1 ATTT
4184752 ACTTATATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 27 0.90
17 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
ATTTGTTTTATTATTT
Found at i:4189850 original size:41 final size:41
Alignment explanation
Indices: 4189800--4189879 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
4189790 CCAAATAATT
* * *
4189800 TCACTGGCATTAAGCCTGCTAGACAATGAGTCTGAATTATA
1 TCACCGGCATCAAGCCTGCTAGACAATAAGTCTGAATTATA
4189841 TCACCGGCATCAAGCCTGCTAGACAATAAGTCTGAATTA
1 TCACCGGCATCAAGCCTGCTAGACAATAAGTCTGAATTA
4189880 CATTCGATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (41 bp):
TCACCGGCATCAAGCCTGCTAGACAATAAGTCTGAATTATA
Found at i:4195866 original size:151 final size:154
Alignment explanation
Indices: 4195643--4195953 Score: 520
Period size: 151 Copynumber: 2.0 Consensus size: 154
4195633 TAGAATACCC
*
4195643 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTAGTA
1 TTAGCAGAAATTTGTTTTGGTAAA-GATTA-T-TTATTGTTATTTAAATTTTAATAAGATTAGTA
* * *
4195708 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
63 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4195773 TATATAATTGAATAAAATTCTTAATAA
128 TATATAATTGAATAAAATTCTTAATAA
*
4195800 TTAGCAGAAATTTGTTTTGGT-AA-ATTA-TTATTGTTATTTAAATTTTAATAAGATTATTAATA
1 TTAGCAGAAATTTGTTTTGGTAAAGATTATTTATTGTTATTTAAATTTTAATAAGATTAGTAATA
4195862 TCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATAT
66 TCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATAT
*
4195927 ATAATTTAATAAAATTCTTAATAA
131 ATAATTGAATAAAATTCTTAATAA
4195951 TTA
1 TTA
4195954 ATATTCTTAT
Statistics
Matches: 148, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
151 122 0.82
154 4 0.03
156 2 0.01
157 20 0.14
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (154 bp):
TTAGCAGAAATTTGTTTTGGTAAAGATTATTTATTGTTATTTAAATTTTAATAAGATTAGTAATA
TCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATAT
ATAATTGAATAAAATTCTTAATAA
Found at i:4195924 original size:16 final size:16
Alignment explanation
Indices: 4195887--4195928 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4195877 TTAATCATAT
*
4195887 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4195903 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4195918 TTAAAATATAT
1 TTAAAATATAT
4195929 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4195935 original size:14 final size:15
Alignment explanation
Indices: 4195896--4195937 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4195886 TTTAAACATA
*
4195896 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4195911 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4195925 A-TATAATTTAATA
1 ATTATAATTAAATA
4195938 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4195936 original size:76 final size:76
Alignment explanation
Indices: 4195709--4195937 Score: 175
Period size: 76 Copynumber: 3.0 Consensus size: 76
4195699 AGATTAGTAT
* *
4195709 TATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAAT
1 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
*
4195774 ATATAATTGAA
66 ATATAATTTAA
* ** * * * ***** **
4195785 TA-AAATTCTTAATAA-TTAGCA-GAAATTTGTTTTGGTAAATTATTATT-GTTAT-TTA-AATT
1 TATCAATAATAAATAATTTA--ATCATA-TT-TAAACAT-AATTATTATTAAATATATTATAATT
** * *
4195844 TTAATA-AGATTATTAA
61 AAAATATATAAT-TTAA
4195860 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
1 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
4195925 ATATAATTTAA
66 ATATAATTTAA
4195936 TA
1 TA
4195938 AAATTCTTAA
Statistics
Matches: 103, Mismatches: 37, Indels: 26
0.62 0.22 0.16
Matches are distributed among these distances:
73 10 0.10
74 11 0.11
75 29 0.28
76 32 0.31
77 11 0.11
78 10 0.10
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (76 bp):
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAA
Found at i:4196085 original size:37 final size:38
Alignment explanation
Indices: 4195923--4196211 Score: 115
Period size: 44 Copynumber: 7.3 Consensus size: 38
4195913 TATAATTAAA
*
4195923 ATATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 ATATATAATTTAATAAAATTCTTAATAAATAATATTCT
* * * * * * *
4195961 -TATATGAATTTACTCAAA-TCATAATATATGATACTGT
1 ATATAT-AATTTAATAAAATTCTTAATAAATAATATTCT
* * * * * *
4195998 AAAATATAAATTAACACAATTATTACTAAATATATTATAAT-T
1 -ATATATAATTTAATAAAATTCTTAATAAATA-A-TAT--TCT
4196040 AAAATATATAATTTAATAAAATTCTTAATAAATAATATTCT
1 ---ATATATAATTTAATAAAATTCTTAATAAATAATATTCT
* * * * * * *
4196081 -TATATGAATTTACTGAAA-TCATAATATATGATACTAT
1 ATATAT-AATTTAATAAAATTCTTAATAAATAATATTCT
* * * * * *
4196118 AAATATAAATTAACATAATTATTATTAAATATATTATAAT-T
1 ATATATAATTTAATAAAATTCTTAATAAATA-A-TAT--TCT
*
4196159 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 ---ATATATAATTTAATAAAATTCTTAATAAATAATATTCT
4196200 -TATATGAATTTA
1 ATATAT-AATTTA
4196212 CTCAAATCAT
Statistics
Matches: 176, Mismatches: 52, Indels: 46
0.64 0.19 0.17
Matches are distributed among these distances:
37 49 0.28
38 44 0.25
39 12 0.07
40 5 0.03
41 5 0.03
42 8 0.05
43 3 0.02
44 50 0.28
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (38 bp):
ATATATAATTTAATAAAATTCTTAATAAATAATATTCT
Found at i:4196174 original size:14 final size:15
Alignment explanation
Indices: 4196125--4196176 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4196115 TATAAATATA
4196125 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4196140 TATTAAATATATTAT
1 AATTAAATATATTAT
4196155 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4196168 AATTTAATA
1 AATTAAATA
4196177 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4196312 original size:120 final size:119
Alignment explanation
Indices: 4195890--4196301 Score: 702
Period size: 120 Copynumber: 3.4 Consensus size: 119
4195880 ATCATATTTA
4195890 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
4195955 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATATAAATT
* * *
4196010 AACACAATTATTACTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
4196075 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATATAAATT
4196129 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4196194 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAT-ATAAA-TT
* * *
4196249 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
4196302 TAAAATAATT
Statistics
Matches: 277, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
119 122 0.44
120 153 0.55
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (119 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATATAAATT
Found at i:4196388 original size:24 final size:25
Alignment explanation
Indices: 4196342--4196389 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
4196332 TATGAATTTG
4196342 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
4196368 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
4196390 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:4196393 original size:92 final size:92
Alignment explanation
Indices: 4196297--4196525 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
4196287 TGATTTAATA
* * *
4196297 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
4196359 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
4196389 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
4196454 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
4196479 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
4196526 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:4203966 original size:18 final size:18
Alignment explanation
Indices: 4203945--4203992 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
4203935 TCCATCAATT
* *
4203945 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAAAG
4203963 TGAACATCATTTAAAAAG
1 TGAACATCATTTAAAAAG
4203981 TGAACATCATTT
1 TGAACATCATTT
4203993 CTCATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTAAAAAG
Found at i:4206906 original size:19 final size:19
Alignment explanation
Indices: 4206882--4206920 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4206872 GTGGTGGAGA
*
4206882 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
4206901 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
4206920 A
1 A
4206921 TCAAACAGGC
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:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:4207752 original size:14 final size:14
Alignment explanation
Indices: 4207733--4207760 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4207723 CAACTTTTAG
4207733 TTAGTATTTAGCAA
1 TTAGTATTTAGCAA
4207747 TTAGTATTTAGCAA
1 TTAGTATTTAGCAA
4207761 ATGTATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TTAGTATTTAGCAA
Found at i:4214226 original size:18 final size:18
Alignment explanation
Indices: 4214200--4214241 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4214190 ATTACAAAAA
*
4214200 AAAAATCAATATAATTT-T
1 AAAAATCAAAAT-ATTTAT
*
4214218 AAAATTCAAAATATTTAT
1 AAAAATCAAAATATTTAT
4214236 AAAAAT
1 AAAAAT
4214242 TCCAAAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:4214659 original size:30 final size:30
Alignment explanation
Indices: 4214617--4214676 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
4214607 CTCGAGCCTT
4214617 GCCATGAGCTTGCT-TTTCAGCAACCATGGC
1 GCCATGAGCTTGCTCTTT-AGCAACCATGGC
*
4214647 GCCATGCA-CTTGCTCTTTGGCAACCATGGC
1 GCCATG-AGCTTGCTCTTTAGCAACCATGGC
4214677 TTCTTCTCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.18, C:0.32, G:0.23, T:0.27
Consensus pattern (30 bp):
GCCATGAGCTTGCTCTTTAGCAACCATGGC
Found at i:4216858 original size:6 final size:6
Alignment explanation
Indices: 4216849--4216903 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
4216839 ATTTTTATTT
4216849 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
4216897 AATATA A
1 AATATA A
4216904 CTTTATTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:4222334 original size:24 final size:25
Alignment explanation
Indices: 4222282--4222344 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
4222272 GTACATGTAT
* * *
4222282 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTGTGAAACGGTAA
*
4222307 GCTCTTACGAGCTGT-AAACGGTAA
1 GCTCATACGAGCTGTGAAACGGTAA
*
4222331 GCTCATATGAGCTG
1 GCTCATACGAGCTG
4222345 AATATCGGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGTGAAACGGTAA
Found at i:4225455 original size:22 final size:22
Alignment explanation
Indices: 4225427--4225471 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4225417 AATGGTAAGC
4225427 ATTGTTTATGATTTATGAACTT
1 ATTGTTTATGATTTATGAACTT
4225449 ATTGTTTATGATTTATGAACTT
1 ATTGTTTATGATTTATGAACTT
4225471 A
1 A
4225472 CTAAGCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (22 bp):
ATTGTTTATGATTTATGAACTT
Found at i:4226925 original size:26 final size:26
Alignment explanation
Indices: 4226896--4226970 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
4226886 TCTCATCTCT
*
4226896 ATTTTACCCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACG
* * *
4226922 ATTTTACCCCTAATAAGATTTTAACG
1 ATTTTACCCCTAGTAAAATTTTGACG
4226948 ATTTTA-CCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
4226971 GAAAATATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 14 0.33
26 28 0.67
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:4228628 original size:23 final size:23
Alignment explanation
Indices: 4228572--4228628 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
4228562 AAAAACTACA
*
4228572 GCGAAACAACATAATAAAAAATT
1 GCGAAACAACACAATAAAAAATT
* * * * *
4228595 ACAAAATAACACAATAAACAGTT
1 GCGAAACAACACAATAAAAAATT
4228618 GCGAAACAACA
1 GCGAAACAACA
4228629 ATAAAACAAC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.60, C:0.18, G:0.09, T:0.14
Consensus pattern (23 bp):
GCGAAACAACACAATAAAAAATT
Found at i:4239200 original size:11 final size:11
Alignment explanation
Indices: 4239182--4239221 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
4239172 AGAAAAGTTG
4239182 TAGA-AAAACT
1 TAGAGAAAACT
4239192 TAGAGAAAACT
1 TAGAGAAAACT
4239203 TAGAGAAAACT
1 TAGAGAAAACT
4239214 TAGAGAAA
1 TAGAGAAA
4239222 CTAAAGCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 4 0.14
11 25 0.86
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.17
Consensus pattern (11 bp):
TAGAGAAAACT
Found at i:4242295 original size:51 final size:51
Alignment explanation
Indices: 4242234--4242419 Score: 209
Period size: 51 Copynumber: 3.7 Consensus size: 51
4242224 CCGATTCACA
*
4242234 TAGTAGCCTGCACATAGTACTACACATGTGA-CAATCACTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAATCA-TATCTGGTACACG
* * * * * * *
4242285 TAGTATCCTGCACATAGTACTATACACGTGATCGAAGT--TATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCAA-TCATATCTGGTACACG
* * *
4242336 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCAT-TCTGGCACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAATCATATCTGGTACACG
*
4242386 TAGTAGCATGCACATAGTACTACACATGTGACCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA
4242420 TCACTTTCAC
Statistics
Matches: 109, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
49 1 0.01
50 40 0.37
51 65 0.60
53 2 0.02
54 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCAATCATATCTGGTACACG
Found at i:4242440 original size:101 final size:102
Alignment explanation
Indices: 4242228--4242416 Score: 247
Period size: 101 Copynumber: 1.9 Consensus size: 102
4242218 ATGATACCGA
* * * *
4242228 TTCACATAGTAGCCTGCACATAGTACTACACATGTGACAATCACTATCTGATACACGTAGTATCC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACAATCACTATCTGACACACGTAGTAGCA
* * *
4242293 TGCACATAGTACTATACACGTGATCGAAGTTATCCGG
66 TGCACATAGTACTACACACGTGATCCAACTTATCCGG
* * * *
4242330 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGCACACGTAGTAGC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGA-CAATCACTATCTGACACACGTAGTAGC
*
4242393 ATGCACATAGTACTACACATGTGA
65 ATGCACATAGTACTACACACGTGA
4242417 CCATCACTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
101 36 0.47
102 35 0.46
103 5 0.07
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (102 bp):
TTCACATAGTAGCCTGCACATAGTACTACACATGCGACAATCACTATCTGACACACGTAGTAGCA
TGCACATAGTACTACACACGTGATCCAACTTATCCGG
Found at i:4253439 original size:38 final size:38
Alignment explanation
Indices: 4253384--4253464 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
4253374 AAAAGGACCA
* *
4253384 GAAA-AGGGAAAGGTAGCAAGGTGAAGGTTTGGCTAGG
1 GAAAGAGGGAAAGGTAGCAAGGCGAAGGTTCGGCTAGG
*
4253421 GAAAGAGGGAAATGTAGCAAGGCGAAGGTTCGGCTAGG
1 GAAAGAGGGAAAGGTAGCAAGGCGAAGGTTCGGCTAGG
4253459 GAAAGA
1 GAAAGA
4253465 ATAGGGAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 4 0.10
38 36 0.90
ACGTcount: A:0.37, C:0.07, G:0.42, T:0.14
Consensus pattern (38 bp):
GAAAGAGGGAAAGGTAGCAAGGCGAAGGTTCGGCTAGG
Found at i:4265996 original size:50 final size:51
Alignment explanation
Indices: 4265916--4266107 Score: 187
Period size: 50 Copynumber: 3.7 Consensus size: 51
4265906 TTTCTTGTAC
* * * *
4265916 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGGG-TTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGGGACTCTCATATCGG
* * * *
4265966 TGCCCATGTCATGTCCGAGACATGGTCTTAC--GGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGGGA-CTCTCATATCGG
* *
4266016 TGCCAATGCCATTTCCCAGACATGGTCTTACAT--GGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGGGA-CTCTCAT-A--TC---GG
4266072 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
4266108 ATCTCTTTAC
Statistics
Matches: 115, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
48 5 0.04
50 74 0.64
53 2 0.02
56 33 0.29
58 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGGGACTCTCATATCGG
Found at i:4279677 original size:40 final size:39
Alignment explanation
Indices: 4279646--4279855 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
4279636 GGACTAAGAT
* *
4279646 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
4279686 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
4279726 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
4279766 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
4279806 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
4279845 CCGAAGGCATT
1 CCGAAGGCATT
4279856 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:4279809 original size:120 final size:120
Alignment explanation
Indices: 4279593--4279855 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
4279583 TTGAATGCTG
* *
4279593 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
4279657 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
4279713 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
4279776 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
4279832 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4279856 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:4279875 original size:79 final size:80
Alignment explanation
Indices: 4279646--4279890 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
4279636 GGACTAAGAT
* * * * * * * ** *
4279646 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
4279709 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
4279726 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
4279791 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
4279806 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
4279870 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
4279884 CCGAAGG
1 CCGAAGG
4279891 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:4287627 original size:40 final size:39
Alignment explanation
Indices: 4287596--4287805 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
4287586 GGACTAAGAT
* *
4287596 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
4287636 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
4287676 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
4287716 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
4287756 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
4287795 CCGAAGGCATT
1 CCGAAGGCATT
4287806 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:4287759 original size:120 final size:120
Alignment explanation
Indices: 4287543--4287805 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
4287533 TTGAATGCTG
* *
4287543 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
4287607 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
4287663 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
4287726 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
4287782 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4287806 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:4287825 original size:79 final size:80
Alignment explanation
Indices: 4287596--4287840 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
4287586 GGACTAAGAT
* * * * * * * ** *
4287596 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
4287659 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
4287676 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
4287741 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
4287756 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
4287820 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
4287834 CCGAAGG
1 CCGAAGG
4287841 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:4291614 original size:22 final size:22
Alignment explanation
Indices: 4291558--4291616 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
4291548 ATCTTTTAAC
4291558 ACATAA-ACATTCAATTATATTG
1 ACATAATACA-TCAATTATATTG
*
4291580 ACACAAT-CAATCAATTATATTG
1 ACATAATAC-ATCAATTATATTG
4291602 ACATAATACATCAAT
1 ACATAATACATCAAT
4291617 GGCAATAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.32
Consensus pattern (22 bp):
ACATAATACATCAATTATATTG
Found at i:4292939 original size:22 final size:22
Alignment explanation
Indices: 4292914--4292955 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4292904 ATTTTAACTA
*
4292914 ATTTTAAACATAAAAACCCTCC
1 ATTTAAAACATAAAAACCCTCC
* *
4292936 ATTTAAAATATCAAAACCCT
1 ATTTAAAACATAAAAACCCT
4292956 TTTAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (22 bp):
ATTTAAAACATAAAAACCCTCC
Found at i:4297159 original size:16 final size:16
Alignment explanation
Indices: 4297138--4297168 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4297128 TAATGGTTAA
4297138 GCATTACAAGTTTGTG
1 GCATTACAAGTTTGTG
4297154 GCATTACAAGTTTGT
1 GCATTACAAGTTTGT
4297169 ATCAAAGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (16 bp):
GCATTACAAGTTTGTG
Found at i:4301411 original size:79 final size:82
Alignment explanation
Indices: 4301300--4301484 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
4301290 GCTACTCGTT
* *
4301300 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
4301363 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
4301380 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
4301443 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
4301460 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4301485 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:4301484 original size:40 final size:40
Alignment explanation
Indices: 4301281--4301484 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
4301271 CGGAATTTAA
** *
4301281 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
4301321 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
4301361 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
4301400 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
4301440 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
4301480 CCGGA
1 CCGGA
4301485 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:4304343 original size:59 final size:59
Alignment explanation
Indices: 4304251--4304369 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
4304241 GATCGGCTGG
4304251 AGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATCAAACATCTCGA
1 AGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATCAAACATCTCGA
* * *
4304310 AGTAATCCTGAGGGCACTTGATGTTCTGCTTTCACTTGTTGACATATTAAACATCTCGA
1 AGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATCAAACATCTCGA
4304369 A
1 A
4304370 ACAAAGTCGG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (59 bp):
AGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATCAAACATCTCGA
Found at i:4309485 original size:79 final size:82
Alignment explanation
Indices: 4309374--4309558 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
4309364 GCTACTCGTT
* *
4309374 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
4309437 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
4309454 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
4309517 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
4309534 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4309559 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:4309558 original size:40 final size:40
Alignment explanation
Indices: 4309355--4309558 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
4309345 CGGAATTTAA
** *
4309355 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
4309395 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
4309435 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
4309474 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
4309514 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
4309554 CCGGA
1 CCGGA
4309559 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:4313549 original size:30 final size:30
Alignment explanation
Indices: 4313492--4313551 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4313482 GCTTTTTGAA
* *
4313492 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCAACAAATTTTT
4313522 AATATTTACAAAAAGA-GCAACAAAATTTTT
1 AATATTTACAAAAAGAGGCAAC-AAATTTTT
4313552 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCAACAAATTTTT
Found at i:4326184 original size:40 final size:40
Alignment explanation
Indices: 4326130--4326477 Score: 572
Period size: 40 Copynumber: 8.7 Consensus size: 40
4326120 AGCATTTGAA
*
4326130 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4326170 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4326210 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
4326250 ATATAATCCGGGCTAAGACCCGAAGG-AATTATGCGAGTTA
1 ATAT-ATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
4326290 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
4326330 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
4326370 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
4326410 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
4326450 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
4326478 AGGTGTTTGC
Statistics
Matches: 286, Mismatches: 20, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
39 19 0.07
40 246 0.86
41 21 0.07
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:4328452 original size:12 final size:12
Alignment explanation
Indices: 4328435--4328459 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4328425 CCTACTATTG
4328435 GTGGAGTACTCT
1 GTGGAGTACTCT
4328447 GTGGAGTACTCT
1 GTGGAGTACTCT
4328459 G
1 G
4328460 ACTTCTGTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (12 bp):
GTGGAGTACTCT
Found at i:4335278 original size:40 final size:40
Alignment explanation
Indices: 4335194--4335377 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
4335184 TTGAATGCTG
* * * *
4335194 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
4335233 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
4335274 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
4335314 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
4335354 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
4335378 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:4335331 original size:80 final size:81
Alignment explanation
Indices: 4335194--4335374 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
4335184 TTGAATGCTG
* *
4335194 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
4335258 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
4335274 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
4335335 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
4335354 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
4335375 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:4336851 original size:37 final size:37
Alignment explanation
Indices: 4336801--4336879 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
4336791 TTATTACGAA
* *
4336801 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
4336838 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
4336875 GTCTT
1 GTCTT
4336880 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:4337118 original size:47 final size:47
Alignment explanation
Indices: 4336998--4337593 Score: 933
Period size: 47 Copynumber: 12.4 Consensus size: 47
4336988 CCCTTCGGGA
* * * * * * *
4336998 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
4337046 CTGTTATCACACT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 C--TTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
4337095 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4337142 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
4337191 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4337238 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4337285 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4337334 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4337383 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4337432 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4337481 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4337528 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4337575 CTTATCACATATATACACT
1 CTTATCACATATATACACT
4337594 GTCTTGGCTG
Statistics
Matches: 526, Mismatches: 14, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 246 0.47
48 1 0.00
49 240 0.46
50 37 0.07
51 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:4337175 original size:49 final size:49
Alignment explanation
Indices: 4336998--4337589 Score: 933
Period size: 49 Copynumber: 12.3 Consensus size: 49
4336988 CCCTTCGGGA
* * * * * *
4336998 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
*
4337046 CTGTTATCACA-CT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 C--TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4337095 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4337142 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
4337191 CTTATTAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4337238 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4337285 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4337334 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4337383 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4337432 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4337481 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4337528 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4337575 CTTATCACATATATA
1 CTTATCACATATATA
4337590 CACTGTCTTG
Statistics
Matches: 519, Mismatches: 15, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 234 0.45
48 1 0.00
49 245 0.47
50 38 0.07
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:4339482 original size:53 final size:53
Alignment explanation
Indices: 4339420--4339523 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
4339410 CAACTAAAAC
4339420 ATGCATGCATCTCATGGAACATCATCAAACATACCTTAGCCTAGTTACATGAG
1 ATGCATGCATCTCATGGAACATCATCAAACATACCTTAGCCTAGTTACATGAG
4339473 ATGCATGCATCTCATGGAACATCATCAAACATACCTTAGCCTAGTTACATG
1 ATGCATGCATCTCATGGAACATCATCAAACATACCTTAGCCTAGTTACATG
4339524 CATGGCCGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (53 bp):
ATGCATGCATCTCATGGAACATCATCAAACATACCTTAGCCTAGTTACATGAG
Found at i:4341215 original size:50 final size:51
Alignment explanation
Indices: 4341140--4341241 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 51
4341130 GGTTCATGGC
* *
4341140 ACCATATTGTGTAAGACCATAGCTGGT-GGGCTATAGCATCATATGGAAAG
1 ACCATATCGTATAAGACCATAGCTGGTAGGGCTATAGCATCATATGGAAAG
** *
4341190 ACCATATCGTATAAGACCATAGCTGGTAGGTTTATGGCATCATATGGAAAG
1 ACCATATCGTATAAGACCATAGCTGGTAGGGCTATAGCATCATATGGAAAG
4341241 A
1 A
4341242 ACTAAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 25 0.54
51 21 0.46
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (51 bp):
ACCATATCGTATAAGACCATAGCTGGTAGGGCTATAGCATCATATGGAAAG
Found at i:4341365 original size:27 final size:27
Alignment explanation
Indices: 4341321--4341381 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
4341311 CACGCCAAAA
4341321 AAAGGAAGCCTTTCTGGCAATCTAT-G
1 AAAGGAAGCCTTTCTGGCAATCTATGG
* *
4341347 AAATGGAAGCCTTTGTGGCTATCTATGG
1 AAA-GGAAGCCTTTCTGGCAATCTATGG
4341375 AAAGGAA
1 AAAGGAA
4341382 TTATGAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.10
27 24 0.77
28 4 0.13
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (27 bp):
AAAGGAAGCCTTTCTGGCAATCTATGG
Found at i:4341581 original size:27 final size:27
Alignment explanation
Indices: 4341455--4341582 Score: 114
Period size: 27 Copynumber: 4.7 Consensus size: 27
4341445 GAAGAATTAC
* *
4341455 ATATATGGTAAACTATGAAGGAATAGT
1 ATATATGGTGAACTCTGAAGGAATAGT
** ** *
4341482 AGCTATGGCAAACACTGAAGGAATAGT
1 ATATATGGTGAACTCTGAAGGAATAGT
* * * * * *
4341509 ATATGTTGTGTACTCTAAATGAATAAT
1 ATATATGGTGAACTCTGAAGGAATAGT
4341536 ATATATGGTGAA-TACTGAAGGAATAGT
1 ATATATGGTGAACT-CTGAAGGAATAGT
*
4341563 ATATATGGTGAACTTTGAAG
1 ATATATGGTGAACTCTGAAG
4341583 AAACGATTCT
Statistics
Matches: 76, Mismatches: 23, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
26 1 0.01
27 74 0.97
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
ATATATGGTGAACTCTGAAGGAATAGT
Found at i:4343040 original size:26 final size:25
Alignment explanation
Indices: 4343006--4343086 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
4342996 AATATGTGAT
*
4343006 TTAATTTGGTCTTAGTTTAGAACAAA
1 TTAAATTGGTCTTAGTTTAG-ACAAA
*
4343032 TTAAATTGGTCTTA-TTTCAGACACA
1 TTAAATTGGTCTTAGTTT-AGACAAA
* *
4343057 TT-AATTATGTCTATTGTTTAGACAAA
1 TTAAATT-GGTCT-TAGTTTAGACAAA
4343083 TTAA
1 TTAA
4343087 TTGTGTCCAG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
24 4 0.09
25 13 0.29
26 24 0.53
27 4 0.09
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (25 bp):
TTAAATTGGTCTTAGTTTAGACAAA
Found at i:4343087 original size:26 final size:27
Alignment explanation
Indices: 4343050--4343102 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
4343040 GTCTTATTTC
* *
4343050 AGACACATTAATTATGTCTA-TTGTTT
1 AGACAAATTAATTATGTCCAGTTGTTT
*
4343076 AGACAAATTAATTGTGTCCAGTTGTTT
1 AGACAAATTAATTATGTCCAGTTGTTT
4343103 GTTTTGACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (27 bp):
AGACAAATTAATTATGTCCAGTTGTTT
Found at i:4345963 original size:20 final size:19
Alignment explanation
Indices: 4345940--4345990 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
4345930 TCCAGCTCCT
4345940 TTAGCTCGTTTCAGCTCCAA
1 TTAGCTCGTTTCAGCT-CAA
* *
4345960 TTAGCTCATTTGAGCTCAA
1 TTAGCTCGTTTCAGCTCAA
4345979 TTCAGCTCGTTT
1 TT-AGCTCGTTT
4345991 AAGCCTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (19 bp):
TTAGCTCGTTTCAGCTCAA
Found at i:4346000 original size:20 final size:19
Alignment explanation
Indices: 4345940--4346005 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
4345930 TCCAGCTCCT
* *
4345940 TTAGCTCGTTTCAGCTCCAA
1 TTAGCTCGTTTAAGC-CTAA
* *
4345960 TTAGCTCATTTGAG-CTCAA
1 TTAGCTCGTTTAAGCCT-AA
4345979 TTCAGCTCGTTTAAGCCTAA
1 TT-AGCTCGTTTAAGCCTAA
4345999 TTTAGCT
1 -TTAGCT
4346006 TTCTTTCAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 4 0.11
20 28 0.76
21 4 0.11
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (19 bp):
TTAGCTCGTTTAAGCCTAA
Found at i:4350012 original size:40 final size:40
Alignment explanation
Indices: 4349967--4350115 Score: 271
Period size: 40 Copynumber: 3.7 Consensus size: 40
4349957 GCAAACACAT
*
4349967 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
4350007 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
*
4350047 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
*
4350087 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGACATATC
4350116 CCAATGCTCA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
Found at i:4364992 original size:25 final size:25
Alignment explanation
Indices: 4364958--4365008 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
4364948 AGATAAAATC
*
4364958 AGAAACCATGCTTGCATTTGATCTA
1 AGAAACCATGCTTGCATTTGAGCTA
4364983 AGAAACCATGCTTGCATTTGAGCTA
1 AGAAACCATGCTTGCATTTGAGCTA
4365008 A
1 A
4365009 CTTATGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (25 bp):
AGAAACCATGCTTGCATTTGAGCTA
Found at i:4365704 original size:18 final size:18
Alignment explanation
Indices: 4365664--4365704 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4365654 ATTGAACATA
4365664 AAAATAAAATTAAAATTG
1 AAAATAAAATTAAAATTG
*
4365682 GAAATAAAAATTAAAA-TG
1 AAAAT-AAAATTAAAATTG
4365700 AAAAT
1 AAAAT
4365705 GTAAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (18 bp):
AAAATAAAATTAAAATTG
Found at i:4365709 original size:13 final size:12
Alignment explanation
Indices: 4365661--4365711 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
4365651 CTTATTGAAC
4365661 ATAAAAA-TAAA
1 ATAAAAATTAAA
* *
4365672 ATTAAAATTGGAA
1 ATAAAAATT-AAA
4365685 ATAAAAATTAAA
1 ATAAAAATTAAA
*
4365697 ATGAAAATGTAAA
1 ATAAAAAT-TAAA
4365710 AT
1 AT
4365712 TTCTTTTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 6 0.19
12 10 0.31
13 16 0.50
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (12 bp):
ATAAAAATTAAA
Found at i:4365710 original size:19 final size:19
Alignment explanation
Indices: 4365663--4365712 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
4365653 TATTGAACAT
*
4365663 AAAAATAAAATTAAAATTG
1 AAAATTAAAATTAAAATTG
* *
4365682 GAAATAAAAATTAAAA-TG
1 AAAATTAAAATTAAAATTG
4365700 AAAATGTAAAATT
1 AAAAT-TAAAATT
4365713 TCTTTTAGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (19 bp):
AAAATTAAAATTAAAATTG
Found at i:4372316 original size:21 final size:22
Alignment explanation
Indices: 4372291--4372334 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4372281 ACATATTAAT
*
4372291 AATTA-ACATGAAAATAATATA
1 AATTATACATAAAAATAATATA
* *
4372312 AATTATGCATAAAAATCATATA
1 AATTATACATAAAAATAATATA
4372334 A
1 A
4372335 TACAACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
AATTATACATAAAAATAATATA
Found at i:4372753 original size:23 final size:24
Alignment explanation
Indices: 4372709--4372753 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
4372699 AATCATGTTA
* * *
4372709 TAAAACTTAATTAAATTTATAAGC
1 TAAAACATAATTAAAATAATAAGC
4372733 TAAAACATAA-TAAAATAATAA
1 TAAAACATAATTAAAATAATAA
4372754 TGTAACGCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (24 bp):
TAAAACATAATTAAAATAATAAGC
Found at i:4374416 original size:27 final size:27
Alignment explanation
Indices: 4374379--4374463 Score: 127
Period size: 27 Copynumber: 3.1 Consensus size: 27
4374369 GAGGTCAATT
* *
4374379 AAATGATCGAAATACCCTCGTAGGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
*
4374406 AAATGACCGAAATATCCC-CATAGGATA
1 AAATGACCGAAATA-CCCTCATAGGGTA
4374433 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
4374460 AAAT
1 AAAT
4374464 AACTATTATA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 3 0.06
27 46 0.88
28 3 0.06
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCATAGGGTA
Found at i:4376040 original size:27 final size:27
Alignment explanation
Indices: 4376020--4376246 Score: 264
Period size: 27 Copynumber: 8.4 Consensus size: 27
4376010 GGGGTGTAAT
4376020 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
4376047 -GATCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
*
4376074 GGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
4376101 AGTCATTCTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
4376128 GGTCATTTTACCTTATGAGGGTATTT-
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
4376154 TGATCA-TTTACCCTATGAGGGTATTTT
1 AG-TCATTTTACCCTATGGGGGTATTTC
* * *
4376181 GGTTATTTTACCCTATTGGGGTATTT-
1 AGTCATTTTACCCTATGGGGGTATTTC
** *
4376207 AGGTCATTTTACCCTATTAGGGTATTTT
1 A-GTCATTTTACCCTATGGGGGTATTTC
*
4376235 GGTCATTTTACC
1 AGTCATTTTACC
4376247 TATTTTACGG
Statistics
Matches: 177, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
26 23 0.13
27 153 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTC
Found at i:4376068 original size:54 final size:54
Alignment explanation
Indices: 4376021--4376246 Score: 312
Period size: 54 Copynumber: 4.2 Consensus size: 54
4376011 GGGTGTAATA
4376021 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
*
4376075 GTCATTTTACCCTATGGGGGTATTTC-AGTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTCG
* * * * *
4376129 GTCATTTTACCTTATGAGGGTATTTTGATCA-TTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * * ** *
4376182 GTTATTTTACCCTATTGGGGTATTTAGGTCATTTTACCCTATTAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
4376236 GTCATTTTACC
1 GTCATTTTACC
4376247 TATTTTACGG
Statistics
Matches: 154, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
53 45 0.29
54 108 0.70
55 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
Found at i:4376213 original size:107 final size:108
Alignment explanation
Indices: 4376021--4376247 Score: 332
Period size: 107 Copynumber: 2.1 Consensus size: 108
4376011 GGGTGTAATA
* * *
4376021 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCTTATGAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACC
*
4376086 CTATGGGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCG
66 CTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCG
* * *
4376129 GTCATTTTACCTTATGAGGGTATTTTGATCA-TTTACCCTATGAGGGTATTTTGGTTATTTTACC
1 GTCATTTTACCTTATGAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACC
* * * *
4376193 CTATTGGGGTATTT-AGGTCATTTTACCCTATTAGGGTATTTTG
66 CTATGGGGGTATTTCA-GTCATTCTACCCTATGAGGGTATTTCG
4376236 GTCATTTTACCT
1 GTCATTTTACCT
4376248 ATTTTACGGT
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
106 1 0.01
107 78 0.73
108 28 0.26
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.44
Consensus pattern (108 bp):
GTCATTTTACCTTATGAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACC
CTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCG
Found at i:4376249 original size:80 final size:81
Alignment explanation
Indices: 4376020--4376246 Score: 330
Period size: 80 Copynumber: 2.8 Consensus size: 81
4376010 GGGGTGTAAT
* * *
4376020 AGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTAC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
*
4376085 CCTATGGGGGTATTTC
66 CCTATGAGGGTATTTC
* * *
4376101 AGTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTTGATCA-TTTAC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
*
4376165 CCTATGAGGGTATTTT
66 CCTATGAGGGTATTTC
* * * * *
4376181 GGTTATTTTACCCTATTGGGGTATTTAGGTCATTTTACCCTATTAGGGTATTTTGGTCATTTTAC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
4376246 C
66 C
4376247 TATTTTACGG
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 70 0.54
81 59 0.46
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (81 bp):
AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
CCTATGAGGGTATTTC
Found at i:4382692 original size:19 final size:19
Alignment explanation
Indices: 4382670--4382707 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4382660 AACCACTGTC
*
4382670 ACCCATCGTAATCAAATTT
1 ACCCACCGTAATCAAATTT
4382689 ACCCACCGTAATCAAATTT
1 ACCCACCGTAATCAAATTT
4382708 GTTATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
ACCCACCGTAATCAAATTT
Found at i:4383299 original size:30 final size:31
Alignment explanation
Indices: 4383253--4383314 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
4383243 GGGGGTGGGA
* *
4383253 TGGGAGGGGTGTAAAAGTTTTAAGGGGAAAG
1 TGGGAGGGGAGTAAAAGTATTAAGGGGAAAG
**
4383284 TGGGA-GGGAGTAAAAGTATTGGGGGGAAAG
1 TGGGAGGGGAGTAAAAGTATTAAGGGGAAAG
4383314 T
1 T
4383315 AAAAAGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.47, T:0.21
Consensus pattern (31 bp):
TGGGAGGGGAGTAAAAGTATTAAGGGGAAAG
Found at i:4384567 original size:25 final size:25
Alignment explanation
Indices: 4384531--4384580 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4384521 TGCAGATTTT
* * *
4384531 AGAAAATTATTATTAAATTAATTAA
1 AGAAAATAATTACTAAACTAATTAA
4384556 AGAAAATAATTACTAAACTAATTAA
1 AGAAAATAATTACTAAACTAATTAA
4384581 TTTACAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (25 bp):
AGAAAATAATTACTAAACTAATTAA
Found at i:4387715 original size:13 final size:13
Alignment explanation
Indices: 4387697--4387726 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4387687 AAACTAGATT
4387697 TTAACTAAGAAAA
1 TTAACTAAGAAAA
4387710 TTAACTAAGAAAA
1 TTAACTAAGAAAA
4387723 TTAA
1 TTAA
4387727 AAGGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:4393921 original size:23 final size:23
Alignment explanation
Indices: 4393855--4393922 Score: 127
Period size: 23 Copynumber: 3.0 Consensus size: 23
4393845 GCACACTAAT
*
4393855 ATGTAGCCGAAGCTACCACTGAT
1 ATGTAGCCGAAGCTACCACTGAA
4393878 ATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
4393901 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
4393923 TCAATAACAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.19
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:4394175 original size:18 final size:17
Alignment explanation
Indices: 4394149--4394187 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4394139 ATTTTCCTTC
4394149 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
4394166 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
4394184 CACA
1 CACA
4394188 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Done.