Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 164 of 356
Found at i:53221565 original size:82 final size:80
Alignment explanation
Indices: 53221437--53221591 Score: 195
Period size: 82 Copynumber: 1.9 Consensus size: 80
53221427 TTATTTTCTA
* * * *
53221437 ATGCGAAAGAAAAGAATGGACATGTATCTTTTTACGAAGGCCTTAGGGCTTAACTTTTATACAGT
1 ATGCAAAAGAAAAGAATGGAAATGTATCTTTTAACGAAGGCCTTA-GGCCTAACTTTTATACAGT
53221502 AAGTATAGATTTTTTTG
65 -AGTATAGATTTTTTTG
* * * * *
53221519 ATGCAAAATAAAAGAATGGAAAAT-TATCTTTTAAGGAAGGCTTTAGGCCTATCTTTTATATAGT
1 ATGCAAAAGAAAAGAATGG-AAATGTATCTTTTAACGAAGGCCTTAGGCCTAACTTTTATACAGT
53221583 AGTATAGAT
65 AGTATAGAT
53221592 GTGGATGATT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 9 0.14
81 16 0.25
82 35 0.56
83 3 0.05
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (80 bp):
ATGCAAAAGAAAAGAATGGAAATGTATCTTTTAACGAAGGCCTTAGGCCTAACTTTTATACAGTA
GTATAGATTTTTTTG
Found at i:53230799 original size:41 final size:41
Alignment explanation
Indices: 53230742--53230825 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
53230732 TTGGGAGATG
*
53230742 TGCCTATATTGTAGTAAACATGTGATTGTTTTCTATGTATT
1 TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
53230783 TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
1 TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
53230824 TG
1 TG
53230826 AACAACGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.49
Consensus pattern (41 bp):
TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
Found at i:53233394 original size:68 final size:69
Alignment explanation
Indices: 53233143--53233394 Score: 182
Period size: 68 Copynumber: 3.7 Consensus size: 69
53233133 TAGAGTTATC
* * * * *
53233143 GATTT-AAGATCGTTTCCT-TATTTTGCAGCCCGCTGATTTAAGATCAC-AGCTAATCTACATAG
1 GATTTAAAGATCG-TGCCTCTATTTTACAGTCCGCTAATTTAAGATCACGA-CTAATCTACATAA
* *
53233205 CACGCA
64 CAAGTA
* * * * * * *
53233211 GATTT-AAGATAACGT--CTCTTTTTTATAGTACGCTGATTTTAGGTCACGACTAATCTACATAG
1 GATTTAAAGAT--CGTGCCTCTATTTTACAGTCCGCTAATTTAAGATCACGACTAATCTACATAA
*
53233273 CAAGTT
64 CAAGTA
* * *
53233279 GATTTAAAGATCGTGCCTTTATTTTACAGTCCGCTGATTTAATATCACGAC-AGATCTACATAAC
1 GATTTAAAGATCGTGCCTCTATTTTACAGTCCGCTAATTTAAGATCACGACTA-ATCTACATAAC
*
53233343 ATGTA
65 AAGTA
* *
53233348 GATTT-AAGATCGTGTCC-CTATTTTGCA-TCTTGCTAATTTAAGATCAC
1 GATTTAAAGATCGTG-CCTCTATTTTACAGTC-CGCTAATTTAAGATCAC
53233395 AATTGATCTA
Statistics
Matches: 149, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
67 7 0.05
68 85 0.57
69 55 0.37
70 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (69 bp):
GATTTAAAGATCGTGCCTCTATTTTACAGTCCGCTAATTTAAGATCACGACTAATCTACATAACA
AGTA
Found at i:53233761 original size:29 final size:29
Alignment explanation
Indices: 53233719--53233781 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
53233709 GCATAAACAA
*
53233719 CAATACAACTACTCCCCCCTTTACAGGTT
1 CAATGCAACTACTCCCCCCTTTACAGGTT
53233748 CAATGCAACTACTCCCCCCTTTACAGGTT
1 CAATGCAACTACTCCCCCCTTTACAGGTT
53233777 CAATG
1 CAATG
53233782 GTAGTGGCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.27, C:0.37, G:0.10, T:0.27
Consensus pattern (29 bp):
CAATGCAACTACTCCCCCCTTTACAGGTT
Found at i:53238391 original size:6 final size:6
Alignment explanation
Indices: 53238380--53238417 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
53238370 TTCAAATTCC
*
53238380 CATATA CATATA CCTATA CATATA CATATA CATATA CA
1 CATATA CATATA CATATA CATATA CATATA CATATA CA
53238418 AATCATACCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (6 bp):
CATATA
Found at i:53238903 original size:23 final size:25
Alignment explanation
Indices: 53238856--53238906 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
53238846 GAACAAGAGA
53238856 CTCACAAAGAGCCATTAATCAGGAAG
1 CTCACAAAGAGCCA-TAATCAGGAAG
53238882 CTCACAAAGAGCC-T-ATCAGGAAG
1 CTCACAAAGAGCCATAATCAGGAAG
53238905 CT
1 CT
53238907 TATTCGGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 11 0.44
24 1 0.04
26 13 0.52
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (25 bp):
CTCACAAAGAGCCATAATCAGGAAG
Found at i:53239034 original size:25 final size:25
Alignment explanation
Indices: 53238991--53239063 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 25
53238981 GAGCTAATAT
* * *
53238991 CAGGGAGCTCCAGATAGCCATATAA
1 CAGGAAGCTCAAGAGAGCCATATAA
* *
53239016 CAGGAAGTTCAAGTGAGCCATAT--
1 CAGGAAGCTCAAGAGAGCCATATAA
**
53239039 CAGGAAGCTCTGGAGAGCCATATAA
1 CAGGAAGCTCAAGAGAGCCATATAA
53239064 TATGTGACAC
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
23 19 0.51
25 18 0.49
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.18
Consensus pattern (25 bp):
CAGGAAGCTCAAGAGAGCCATATAA
Found at i:53241538 original size:47 final size:47
Alignment explanation
Indices: 53241484--53242267 Score: 1167
Period size: 47 Copynumber: 16.6 Consensus size: 47
53241474 TATTTGAATA
*
53241484 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53241531 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53241580 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53241627 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
53241676 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
53241725 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
53241776 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
53241825 AATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53241872 AATTTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA--T-ATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53241918 -A--TG-AA-TG---ATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53241957 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53242006 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53242053 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53242100 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53242147 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
53242194 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53242241 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53242268 TCCCGAAGGG
Statistics
Matches: 686, Mismatches: 30, Indels: 42
0.91 0.04 0.06
Matches are distributed among these distances:
36 23 0.03
38 1 0.00
39 3 0.00
40 1 0.00
41 2 0.00
42 4 0.01
43 4 0.01
44 2 0.00
45 1 0.00
46 3 0.00
47 337 0.49
49 256 0.37
51 49 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53241592 original size:96 final size:94
Alignment explanation
Indices: 53241484--53242267 Score: 1167
Period size: 96 Copynumber: 8.3 Consensus size: 94
53241474 TATTTGAATA
*
53241484 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
53241549 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
* *
53241580 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
53241645 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
53241676 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----
*
53241741 TATATATGTGATAAGGCCTAATGGCCGATGTGATG
60 TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
53241776 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53241841 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
*
53241872 AATTTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA--T-ATG-A--TG-AA-TG---A
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53241926 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
53241957 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53242022 TATGTGATAAGGCCTAATAGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
*
53242053 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
53242118 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCAATGTGATG
53242147 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
53242212 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCAATGTGATG
* *
53242241 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53242268 TCCCGAAGGG
Statistics
Matches: 649, Mismatches: 24, Indels: 32
0.92 0.03 0.05
Matches are distributed among these distances:
85 73 0.11
87 1 0.00
88 5 0.01
89 3 0.00
90 2 0.00
91 2 0.00
92 3 0.00
93 5 0.01
94 192 0.30
96 220 0.34
98 45 0.07
100 98 0.15
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:53241936 original size:36 final size:36
Alignment explanation
Indices: 53241889--53241960 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
53241879 AAGTGTATAT
* *
53241889 ATATGTGATAAGGCCTAATGGCCGATATGATGAATG
1 ATATGTGATAAGGCCGAATGGCCAATATGATGAATG
*
53241925 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATATGTGATAAGGCCGAATGGCCAATATGATGAATG
53241961 TGAAAGTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (36 bp):
ATATGTGATAAGGCCGAATGGCCAATATGATGAATG
Found at i:53242524 original size:37 final size:37
Alignment explanation
Indices: 53242386--53242523 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
53242376 CCGAGCTCTA
*
53242386 AAGACCCGATGACTACGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
53242423 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
53242460 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
53242497 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
53242524 TCGTCTGAGC
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:53244020 original size:104 final size:104
Alignment explanation
Indices: 53243840--53244047 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
53243830 TATACGAGTA
53243840 AATTTAACATCAATTTAATACAATTTATACTCAATTCAGTCCAATTCATTTATTAGGCAAAATTA
1 AATTTAACATCAATTTAATACAATTTATACTCAATTCAGTCCAATTCATTTATTAGGCAAAATTA
53243905 CCATTTTGCCCCTATAATTTTAATTAATGACGATTTCAT
66 CCATTTTGCCCCTATAATTTTAATTAATGACGATTTCAT
53243944 AATTTAACATCAATTTAATACAATTTATACTCAATTCAGTCCAATTCATTTATTAGGCAAAATTA
1 AATTTAACATCAATTTAATACAATTTATACTCAATTCAGTCCAATTCATTTATTAGGCAAAATTA
53244009 CCATTTTGCCCCTATAATTTTAATTAATGACGATTTCAT
66 CCATTTTGCCCCTATAATTTTAATTAATGACGATTTCAT
53244048 CCCTAGGCTC
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (104 bp):
AATTTAACATCAATTTAATACAATTTATACTCAATTCAGTCCAATTCATTTATTAGGCAAAATTA
CCATTTTGCCCCTATAATTTTAATTAATGACGATTTCAT
Found at i:53244397 original size:43 final size:43
Alignment explanation
Indices: 53244336--53244419 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
53244326 AGTCCCCGAG
*
53244336 ATAGCTAAATTAAGCTATTACGATCTCAGAAACATGAAAATTA
1 ATAGCTAAATTAAGCTATTACGATCTCAGAAACATAAAAATTA
**
53244379 ATAGCTAAATTAAGCTATTACGATCTTGGAAACATAAAAAT
1 ATAGCTAAATTAAGCTATTACGATCTCAGAAACATAAAAAT
53244420 GACTAAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (43 bp):
ATAGCTAAATTAAGCTATTACGATCTCAGAAACATAAAAATTA
Found at i:53247757 original size:20 final size:18
Alignment explanation
Indices: 53247731--53247780 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
53247721 TAGATGTGTA
53247731 TTTATAATTTTTTAGAAT
1 TTTATAATTTTTTAGAAT
*
53247749 TCATTATAAATTTTTAGAAT
1 T--TTATAATTTTTTAGAAT
53247769 TTT-TAATTTTTT
1 TTTATAATTTTTT
53247781 TATAGTCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 8 0.29
18 3 0.11
20 17 0.61
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTATAATTTTTTAGAAT
Found at i:53252179 original size:23 final size:21
Alignment explanation
Indices: 53252149--53252197 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
53252139 ACTCAATTTC
*
53252149 TTTTATTTTATTATTACATATAA
1 TTTTATTTTAAT-TTACATA-AA
*
53252172 TTTTATTTTAATTTAGATAAA
1 TTTTATTTTAATTTACATAAA
53252193 TTTTA
1 TTTTA
53252198 AATTTGGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 6 0.25
23 11 0.46
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTATTTTAATTTACATAAA
Found at i:53253693 original size:30 final size:30
Alignment explanation
Indices: 53253659--53253719 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
53253649 ATAAGTATGT
53253659 AAATTAAAATGATTAAATTGGAGAACACAC
1 AAATTAAAATGATTAAATTGGAGAACACAC
53253689 AAATTAAAATGATTAAATTGGAGAACACAC
1 AAATTAAAATGATTAAATTGGAGAACACAC
53253719 A
1 A
53253720 CTAAGCCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (30 bp):
AAATTAAAATGATTAAATTGGAGAACACAC
Found at i:53253906 original size:16 final size:16
Alignment explanation
Indices: 53253885--53253917 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
53253875 GATATAACAC
53253885 AAAAACTAATAGCAAA
1 AAAAACTAATAGCAAA
53253901 AAAAACTAATAGCAAA
1 AAAAACTAATAGCAAA
53253917 A
1 A
53253918 TTTTACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.12, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAACTAATAGCAAA
Found at i:53255396 original size:40 final size:35
Alignment explanation
Indices: 53255292--53255397 Score: 86
Period size: 40 Copynumber: 2.9 Consensus size: 35
53255282 CATACATTTT
* * *
53255292 ACATCGTCGGTTTATCTGACTGGCACTGGGCCAAA
1 ACATCGTCGGTTTATCCGACTAGCATTGGGCCAAA
* * * * **
53255327 ATATTGTCGGGTTATCCGAGTAGTTTTGGGCTCATATTCA
1 ACATCGTCGGTTTATCCGACTAGCATTGGGC-CA-A---A
53255367 ACATCGTCGGTTTATCCGACTAGCATTGGGC
1 ACATCGTCGGTTTATCCGACTAGCATTGGGC
53255398 GTAAAACTTT
Statistics
Matches: 51, Mismatches: 15, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
35 22 0.43
36 2 0.04
37 1 0.02
40 26 0.51
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (35 bp):
ACATCGTCGGTTTATCCGACTAGCATTGGGCCAAA
Found at i:53258150 original size:87 final size:87
Alignment explanation
Indices: 53257978--53258143 Score: 287
Period size: 87 Copynumber: 1.9 Consensus size: 87
53257968 GGTGCTTTTT
*
53257978 TATATGCATGATACCACATCAAAGAAGTCGACATAGATTCCGTGAGGTCTCGCTTGTCCCTTCCC
1 TATATGCATGATACCACATCAAAGAAGTCGACATAGATTCCGTGAGGTCTCGCTTGTCCATTCCC
53258043 ACAATATCCATGTTTACCATTC
66 ACAATATCCATGTTTACCATTC
* * * *
53258065 TATATGCATGATACCGCATCAAAGAAGTCGACATAGATTCCGTGATGTCTCGCTTGTCTATTCCT
1 TATATGCATGATACCACATCAAAGAAGTCGACATAGATTCCGTGAGGTCTCGCTTGTCCATTCCC
53258130 ACAATATCCATGTT
66 ACAATATCCATGTT
53258144 AGCCATTGAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (87 bp):
TATATGCATGATACCACATCAAAGAAGTCGACATAGATTCCGTGAGGTCTCGCTTGTCCATTCCC
ACAATATCCATGTTTACCATTC
Found at i:53259356 original size:35 final size:35
Alignment explanation
Indices: 53259311--53259400 Score: 99
Period size: 35 Copynumber: 2.6 Consensus size: 35
53259301 GTGTTACTAT
* *
53259311 GTAGAACTAGTAGATCATTTCCATGATGACACTCC
1 GTAGAGCTAGTAGACCATTTCCATGATGACACTCC
* * ** *
53259346 GTAGAGCTAGTAGACCATTTTCGTGATTCCACTTC
1 GTAGAGCTAGTAGACCATTTCCATGATGACACTCC
* *
53259381 GTAGAGTTAGTAGGCCATTT
1 GTAGAGCTAGTAGACCATTT
53259401 ATCCAACCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (35 bp):
GTAGAGCTAGTAGACCATTTCCATGATGACACTCC
Found at i:53261263 original size:40 final size:38
Alignment explanation
Indices: 53261176--53261271 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 38
53261166 TCTCCGTCTG
* * * *
53261176 ACCCAACACACCATTTGGGGATAAGATCGACCCACCTA
1 ACCCCACACACCATATGGGGATAAAATCAACCCACCTA
* *
53261214 GCCCTACACACACAGTATGGGGATAAAATCAACCCATCC-A
1 ACCCCACACAC-CA-TATGGGGATAAAATCAACCCA-CCTA
53261254 ACCCCACACACCATATGG
1 ACCCCACACACCATATGG
53261272 TACTGTGAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
38 14 0.29
39 4 0.08
40 28 0.58
41 2 0.04
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (38 bp):
ACCCCACACACCATATGGGGATAAAATCAACCCACCTA
Found at i:53261634 original size:17 final size:18
Alignment explanation
Indices: 53261592--53261643 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
53261582 TCAAACAAGT
* *
53261592 TGGGCTCACATGCCCATG
1 TGGGCCCACACGCCCATG
*
53261610 TGGGCCCACACGCCCGTG
1 TGGGCCCACACGCCCATG
53261628 T-GGCCCACACAGCCCA
1 TGGGCCCACAC-GCCCA
53261644 AATTGGCCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.17, C:0.42, G:0.27, T:0.13
Consensus pattern (18 bp):
TGGGCCCACACGCCCATG
Found at i:53265415 original size:47 final size:47
Alignment explanation
Indices: 53265361--53265622 Score: 350
Period size: 47 Copynumber: 5.6 Consensus size: 47
53265351 TATTTGAATA
* *
53265361 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGACCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53265408 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53265455 AATGTGAACATGCATATAT-TAGATTAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGT-GATAAGGCCGAATGGCCAATGTGATG
* * *
53265502 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53265549 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53265596 GATGTGGAA-GTGTATAAATGTGATAAG
1 AATGT-GAACATGTATATATGTGATAAG
53265623 TCCCGAAGGG
Statistics
Matches: 188, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
46 1 0.01
47 182 0.97
48 5 0.03
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:53265522 original size:94 final size:94
Alignment explanation
Indices: 53265361--53265601 Score: 387
Period size: 94 Copynumber: 2.6 Consensus size: 94
53265351 TATTTGAATA
* * *
53265361 AATGTGAA-AGTGTATATATGT-GATAAGGCCTAATGACCAATGTGATGAATGTGAACATGTGTA
1 AATGTGAACA-TGCATATAT-TAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
*
53265424 TGTGTGATAAGGCCGAATGGCCAATGTGATG
64 TGTGTGATAAGGCCGAATGACCAATGTGATG
*
53265455 AATGTGAACATGCATATATTAGATTAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 AATGTGAACATGCATATATTAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
53265520 TGTGATAAGGCCGAATGACCAATGTGATG
66 TGTGATAAGGCCGAATGACCAATGTGATG
* *
53265549 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 AATGTGAACATGCATATATTAGATAAGGCCGAATGGCCAATGTGATGAATGTG
53265602 GAAGTGTATA
Statistics
Matches: 137, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
93 1 0.01
94 135 0.99
95 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (94 bp):
AATGTGAACATGCATATATTAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
TGTGATAAGGCCGAATGACCAATGTGATG
Found at i:53275968 original size:17 final size:17
Alignment explanation
Indices: 53275943--53275976 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
53275933 CTAAATTAAC
*
53275943 TTTACAATCTAATCTTT
1 TTTACAATCTAAGCTTT
*
53275960 TTTATAATCTAAGCTTT
1 TTTACAATCTAAGCTTT
53275977 ATATCCATCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.15, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTACAATCTAAGCTTT
Found at i:53283785 original size:11 final size:11
Alignment explanation
Indices: 53283769--53283802 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
53283759 AACCCAAAAT
*
53283769 AAATTAGATTA
1 AAATTAAATTA
53283780 AAATTAAAATTA
1 AAATT-AAATTA
53283792 AAATTAAATTA
1 AAATTAAATTA
53283803 TATTATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AAATTAAATTA
Found at i:53287912 original size:35 final size:35
Alignment explanation
Indices: 53287886--53288151 Score: 320
Period size: 35 Copynumber: 7.6 Consensus size: 35
53287876 CATGGCAAAG
53287886 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* *
53287921 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
53287956 TGTGAAACATAGGTAGGGTATCATCCATATTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* *
53287991 TGTGAAACGTAGGTATGGTAATAAT-CATACCGAGT
1 TGTGAAACGTAGGTATGGT-ATCATCCATACTGAGT
* * * *
53288026 TGTTAAATGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
53288061 TGTGAAACGTAGTTATAGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
** * * *
53288096 TAAGAAACGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCAT-CCATACTGAGT
*
53288131 TGTGAAATGTAGGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
53288152 TTCAATGAGG
Statistics
Matches: 195, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
34 4 0.02
35 187 0.96
36 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
Found at i:53288055 original size:105 final size:105
Alignment explanation
Indices: 53287886--53288152 Score: 365
Period size: 105 Copynumber: 2.5 Consensus size: 105
53287876 CATGGCAAAG
* * *
53287886 TGTGAAACGTAGGTATGGT-ATCATCCATACTGAGTTGTGAAACGTAGGTATGGTATTAACCATA
1 TGTGAAACGTAGGTATGGTAATAAT-CATACCGAGTTGTGAAATGTAGGTATGGTATTAACCATA
* *
53287950 CTGAGTTGTGAAACATAGGTAGGGTATCATCCATATTGAGT
65 CTGAGTTGTGAAACATAGGTAGAGTATCATCCATACTGAGT
*
53287991 TGTGAAACGTAGGTATGGTAATAATCATACCGAGTTGTTAAATGTAGGTATGGTATTAACCATAC
1 TGTGAAACGTAGGTATGGTAATAATCATACCGAGTTGTGAAATGTAGGTATGGTATTAACCATAC
* * * *
53288056 TGAGTTGTGAAACGTAGTTATAGTATTATCCATACTGAGT
66 TGAGTTGTGAAACATAGGTAGAGTATCATCCATACTGAGT
** * * ***
53288096 TAAGAAACGTAGGTATGGCATTTCCCATACCGAGTTGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTAATAATCATACCGAGTTGTGAAATGTAGGTATGGTATT
53288153 TCAATGAGGA
Statistics
Matches: 143, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
105 139 0.97
106 4 0.03
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (105 bp):
TGTGAAACGTAGGTATGGTAATAATCATACCGAGTTGTGAAATGTAGGTATGGTATTAACCATAC
TGAGTTGTGAAACATAGGTAGAGTATCATCCATACTGAGT
Found at i:53288285 original size:31 final size:31
Alignment explanation
Indices: 53288247--53288331 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
53288237 AATAAGTAAT
53288247 CTGATCAGTGAAAAGTGGTAGCTCTAGCTAC
1 CTGATCAGTGAAAAGTGGTAGCTCTAGCTAC
* *
53288278 CTGATCAGTGAGAAGTGGTAGCTCTGGCTAC
1 CTGATCAGTGAAAAGTGGTAGCTCTAGCTAC
* *
53288309 CTGATCAGTGAATAGTGATAGCT
1 CTGATCAGTGAAAAGTGGTAGCT
53288332 TCGGCTACAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (31 bp):
CTGATCAGTGAAAAGTGGTAGCTCTAGCTAC
Found at i:53300880 original size:13 final size:13
Alignment explanation
Indices: 53300862--53300899 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
53300852 ATGCAGGGGA
53300862 CACACGACCATGC
1 CACACGACCATGC
53300875 CACACGACCATGC
1 CACACGACCATGC
*
53300888 CACACGCCCATG
1 CACACGACCATG
53300900 GGTGTGGCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.29, C:0.47, G:0.16, T:0.08
Consensus pattern (13 bp):
CACACGACCATGC
Found at i:53306126 original size:40 final size:40
Alignment explanation
Indices: 53306071--53306295 Score: 414
Period size: 40 Copynumber: 5.6 Consensus size: 40
53306061 AGCATTGGAT
53306071 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53306111 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53306151 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
53306191 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53306231 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
53306271 TATGTCCGGGTTAAGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
53306296 TAATGTGTTT
Statistics
Matches: 179, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:53313824 original size:40 final size:40
Alignment explanation
Indices: 53313769--53314073 Score: 574
Period size: 40 Copynumber: 7.6 Consensus size: 40
53313759 AGCATTGGAT
53313769 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53313809 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53313849 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53313889 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53313929 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
53313969 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53314009 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
53314049 TATGTCCGGGTTAAGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
53314074 TAATGTGTTT
Statistics
Matches: 259, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 259 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:53320429 original size:41 final size:39
Alignment explanation
Indices: 53320386--53320522 Score: 161
Period size: 40 Copynumber: 3.4 Consensus size: 39
53320376 TATTATAATC
*
53320386 TCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTC-AGT
1 TCGCACACTAAGTGCCTTT-ATAGCCGAAACTATCTCGA-T
* * *
53320426 CTCGCACACTAAGTGCCATATATAGCCGAATCTATTTCGAT
1 -TCGCACACTAAGTGCC-TTTATAGCCGAAACTATCTCGAT
53320467 TCGCACACTAAGTG-CTTTATAGAGCCGAAACTATCTCGAT
1 TCGCACACTAAGTGCCTTTAT--AGCCGAAACTATCTCGAT
*
53320507 ACGCACACTAAGTGCC
1 TCGCACACTAAGTGCC
53320523 AAACGAAATT
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
38 4 0.05
39 1 0.01
40 43 0.51
41 33 0.39
42 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (39 bp):
TCGCACACTAAGTGCCTTTATAGCCGAAACTATCTCGAT
Found at i:53320493 original size:81 final size:83
Alignment explanation
Indices: 53320341--53320525 Score: 213
Period size: 81 Copynumber: 2.3 Consensus size: 83
53320331 AATACTTGAT
*
53320341 ATCTCGCACACTAAGTGCCAAAGCATAGCTAAAGCTATTATAATCTCGCACACTAAGTGCCTTTC
1 ATCTCGCACACTAAGTGCCAAAGCATAGCCAAAGCTATTATAATCTCGCACACTAAGTGCCTTTC
*
53320406 ATAGCCGAAGCTATCTC-
66 ATAGCCGAAACTATCTCG
* * * * *
53320423 AGTCTCGCACACTAAGTGCCATA-TATAGCCGAATCTATT-TCGAT-TCGCACACTAAGTG-CTT
1 A-TCTCGCACACTAAGTGCCAAAGCATAGCCAAAGCTATTAT-AATCTCGCACACTAAGTGCCTT
53320484 T-ATAGAGCCGAAACTATCTCG
64 TCAT--AGCCGAAACTATCTCG
*
53320505 AT-ACGCACACTAAGTGCCAAA
1 ATCTCGCACACTAAGTGCCAAA
53320526 CGAAATTGAT
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
79 2 0.02
80 21 0.24
81 30 0.34
82 16 0.18
83 20 0.22
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (83 bp):
ATCTCGCACACTAAGTGCCAAAGCATAGCCAAAGCTATTATAATCTCGCACACTAAGTGCCTTTC
ATAGCCGAAACTATCTCG
Found at i:53322092 original size:37 final size:37
Alignment explanation
Indices: 53322042--53322120 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
53322032 TTATTACGAA
* * *
53322042 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
53322079 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
53322116 GTCTT
1 GTCTT
53322121 TGGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:53322317 original size:47 final size:47
Alignment explanation
Indices: 53322239--53322512 Score: 388
Period size: 47 Copynumber: 5.7 Consensus size: 47
53322229 CCCTTCGGGA
* * ** * * *
53322239 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53322286 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53322333 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53322380 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53322429 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
53322478 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
53322513 AGAATCCTAA
Statistics
Matches: 210, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 114 0.54
49 95 0.45
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53322413 original size:49 final size:49
Alignment explanation
Indices: 53322239--53322491 Score: 383
Period size: 49 Copynumber: 5.3 Consensus size: 49
53322229 CCCTTCGGGA
* ** * * *
53322239 CTTATCACAT-T-TATACACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53322286 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53322333 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53322380 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53322429 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53322478 CTTATCTCATATAT
1 CTTATCACATATAT
53322492 GCATGTTCAC
Statistics
Matches: 191, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.01
47 89 0.47
49 101 0.53
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53322501 original size:96 final size:96
Alignment explanation
Indices: 53322239--53322512 Score: 387
Period size: 96 Copynumber: 2.9 Consensus size: 96
53322229 CCCTTCGGGA
* ** * * * * *
53322239 CTTATCACAT-T-TATACACTTTCACATCCATCATGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
53322302 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
53322333 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
53322396 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53322429 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
53322494 A-TGTTCACATCCATCACAT
66 ACT-TTCACATTCATCACAT
53322513 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
93 1 0.01
94 44 0.27
95 1 0.01
96 70 0.43
98 46 0.28
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53328591 original size:40 final size:40
Alignment explanation
Indices: 53328536--53328680 Score: 256
Period size: 40 Copynumber: 3.6 Consensus size: 40
53328526 TGGATGATAA
*
53328536 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
53328576 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
*
53328616 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
53328656 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53328681 AGCAGTAGCT
Statistics
Matches: 101, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
39 2 0.02
40 97 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53336637 original size:40 final size:40
Alignment explanation
Indices: 53336539--53336729 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
53336529 TGGATGATAA
** * * * **
53336539 CCGGGCTAAGTCCCGAAGGCAACTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
53336579 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
53336618 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
53336658 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
53336698 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
53336730 AGCTATATCC
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 32 0.23
40 103 0.75
41 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:53352375 original size:13 final size:13
Alignment explanation
Indices: 53352353--53352385 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
53352343 AAGAGTTTGT
53352353 TTAT-TAAACTAA
1 TTATCTAAACTAA
53352365 TTATCTAAACTAA
1 TTATCTAAACTAA
*
53352378 TTAACTAA
1 TTATCTAA
53352386 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:53355234 original size:6 final size:6
Alignment explanation
Indices: 53355219--53355271 Score: 70
Period size: 6 Copynumber: 8.7 Consensus size: 6
53355209 CTTTCAAAAG
* * *
53355219 AAAATAA AAAACA AAAATA AGAAGA AAAATA AAAATA AAAATA AAAATA
1 AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
53355268 AAAA
1 AAAA
53355272 GATAAGAGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
6 36 0.90
7 4 0.10
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (6 bp):
AAAATA
Found at i:53356790 original size:23 final size:21
Alignment explanation
Indices: 53356764--53356810 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
53356754 AAGAAAAGGC
*
53356764 TGTTGTATGGCGGCGCACGGGCG
1 TGTTG-ATGG-GGAGCACGGGCG
*
53356787 TGTTGATGGTGAGCACGGGCG
1 TGTTGATGGGGAGCACGGGCG
53356808 TGT
1 TGT
53356811 GACGCGAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 4 0.18
23 5 0.23
ACGTcount: A:0.11, C:0.17, G:0.47, T:0.26
Consensus pattern (21 bp):
TGTTGATGGGGAGCACGGGCG
Found at i:53359889 original size:40 final size:40
Alignment explanation
Indices: 53359830--53359974 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
53359820 CTCACACAAG
* * * * * *
53359830 GCCTTCCGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
53359870 GCCTTCGGGACTTAGCCCGGATTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
53359910 GCCTTC-GGATCTTAGTCCGAATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
53359951 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
53359975 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.64
41 26 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:53367873 original size:39 final size:40
Alignment explanation
Indices: 53367828--53367995 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
53367818 CGGGGTTTAG
* * *
53367828 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
53367867 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
53367907 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
53367947 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
53367988 CCGGATAT
1 CCGGATAT
53367996 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:53367978 original size:41 final size:40
Alignment explanation
Indices: 53367851--53367995 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
53367841 CTCGCACAAG
* * * * *
53367851 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
53367891 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
53367931 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
53367972 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
53367996 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:53378493 original size:27 final size:28
Alignment explanation
Indices: 53378462--53378524 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 28
53378452 TGTCTTGACC
53378462 GTGTGTG-ACACACGGTCAGCTCCATGG
1 GTGTGTGTACACACGGTCAGCTCCATGG
*
53378489 GTGTGTGGTATACACGGTCAGCTCCATGG
1 GTGTGT-GTACACACGGTCAGCTCCATGG
53378518 GTGTGTG
1 GTGTGTG
53378525 GTATGGCCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 6 0.18
28 2 0.06
29 25 0.76
ACGTcount: A:0.16, C:0.21, G:0.37, T:0.27
Consensus pattern (28 bp):
GTGTGTGTACACACGGTCAGCTCCATGG
Found at i:53378503 original size:29 final size:29
Alignment explanation
Indices: 53378471--53378528 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
53378461 CGTGTGTGAC
53378471 ACACGGTCAGCTCCATGGGTGTGTGGTAT
1 ACACGGTCAGCTCCATGGGTGTGTGGTAT
53378500 ACACGGTCAGCTCCATGGGTGTGTGGTAT
1 ACACGGTCAGCTCCATGGGTGTGTGGTAT
53378529 GGCCGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.21, G:0.34, T:0.28
Consensus pattern (29 bp):
ACACGGTCAGCTCCATGGGTGTGTGGTAT
Found at i:53382919 original size:10 final size:11
Alignment explanation
Indices: 53382904--53382948 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
53382894 ATTTTGATAT
*
53382904 ACATGATTTG-
1 ACATGATATGC
53382914 ACATGATATGC
1 ACATGATATGC
53382925 ACATGATATG-
1 ACATGATATGC
*
53382935 -TATGATATGC
1 ACATGATATGC
53382945 ACAT
1 ACAT
53382949 CATGTATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
9 8 0.28
10 9 0.31
11 12 0.41
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:53382930 original size:11 final size:10
Alignment explanation
Indices: 53382898--53382948 Score: 52
Period size: 9 Copynumber: 5.1 Consensus size: 10
53382888 CATGAGATTT
53382898 TGATAT-ACA
1 TGATATGACA
*
53382907 TGATTTGACA
1 TGATATGACA
53382917 TGATATGCACA
1 TGATATG-ACA
*
53382928 TGATATG-TA
1 TGATATGACA
53382937 TGATATGCACA
1 TGATATG-ACA
53382948 T
1 T
53382949 CATGTATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 13 0.38
10 9 0.26
11 12 0.35
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:53383050 original size:25 final size:26
Alignment explanation
Indices: 53382998--53383093 Score: 117
Period size: 26 Copynumber: 3.8 Consensus size: 26
53382988 GAGGAAGTGC
* *
53382998 AAAAGGGC-TATGCCCCAG-TTACAG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
53383022 AAAAGGGC-TTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* * *
53383047 AAAAGGGCTTTTGCCCCAATTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTACCG
*
53383073 AAAAGGGCTTTTGCCCTAGTT
1 AAAAGGGCTTTTGCCCCAGTT
53383094 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
24 17 0.27
25 13 0.21
26 33 0.52
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:53383106 original size:25 final size:26
Alignment explanation
Indices: 53383022--53383106 Score: 65
Period size: 25 Copynumber: 3.4 Consensus size: 26
53383012 CCAGTTACAG
*
53383022 AAAAG-GGC-TTTGCCCC-AGTTTACC
1 AAAAGAGGCTTTTGCCCCAAG-TTATC
*
53383046 GAAAAG-GGCTTTTGCCCCAATTTATC
1 -AAAAGAGGCTTTTGCCCCAAGTTATC
* *
53383072 AAAA-AGGGCTTTTG-CCCTAGTTATT
1 AAAAGA-GGCTTTTGCCCCAAGTTATC
53383097 AAAAGAGGCT
1 AAAAGAGGCT
53383107 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
25 28 0.56
26 21 0.42
27 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGAGGCTTTTGCCCCAAGTTATC
Found at i:53383351 original size:31 final size:31
Alignment explanation
Indices: 53383313--53383396 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
53383303 TTGTTACAGT
53383313 AAAGGCTTCAGCCCAGTGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
* *
53383344 AAAGGCTTCAGCCCAATGATATGAATAATGT
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
**
53383375 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
53383397 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGAATAATGA
Found at i:53394682 original size:13 final size:13
Alignment explanation
Indices: 53394664--53394689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53394654 GTCGATGCCA
53394664 GAACACTTTTACT
1 GAACACTTTTACT
53394677 GAACACTTTTACT
1 GAACACTTTTACT
53394690 AACGGTACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
GAACACTTTTACT
Found at i:53401403 original size:47 final size:46
Alignment explanation
Indices: 53401338--53401464 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 46
53401328 TATACGTGCT
* *
53401338 GATGCATGTCCCAGACATGTCTTACACTGGCACTTAT-CTCTACACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATCTAC-CA
* * * * *
53401384 GATGCCATGTCCCAGACATGGTCTTACGCTGGCAATCATAATGTGCCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATCTACCA
*
53401432 GATGCATGTCCCAGACATGTCTTACTCTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
53401465 ACAAGAAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 17 0.25
47 28 0.41
48 21 0.30
49 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATCTACCA
Found at i:53401462 original size:94 final size:95
Alignment explanation
Indices: 53401288--53401464 Score: 250
Period size: 94 Copynumber: 1.9 Consensus size: 95
53401278 CATCGAGGCT
* ** *
53401288 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATACGTGCTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCAATCG-ATATACGTGCCGATGCATGTCCCAGA
53401353 CATGTCTTACACTGGCACTTATCTCTACACA
65 CATGTCTTACACTGGCACTTATCTCTACACA
* * *
53401384 GATGCCATGTCCCAGACATGGTCTTACGCTGGCAATC-ATA-ATGTGCCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCAATCGATATACGTG-CCGATGCATGTCCCAGA
*
53401447 CATGTCTTACTCTGGCAC
65 CATGTCTTACACTGGCAC
53401465 ACAAGAAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
93 4 0.06
94 36 0.50
96 32 0.44
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (95 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCAATCGATATACGTGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGCACTTATCTCTACACA
Found at i:53402196 original size:12 final size:12
Alignment explanation
Indices: 53402179--53402203 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53402169 CAAAAATATA
53402179 AAAATCATCAAG
1 AAAATCATCAAG
53402191 AAAATCATCAAG
1 AAAATCATCAAG
53402203 A
1 A
53402204 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:53405957 original size:16 final size:16
Alignment explanation
Indices: 53405936--53405967 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53405926 TTTATATCCC
53405936 GAGAATATATTAAATA
1 GAGAATATATTAAATA
53405952 GAGAATATATTAAATA
1 GAGAATATATTAAATA
53405968 TTCTCTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (16 bp):
GAGAATATATTAAATA
Found at i:53406537 original size:17 final size:17
Alignment explanation
Indices: 53406515--53406565 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
53406505 CAAGTTGGAA
53406515 TTAAGAATTTATAATAT
1 TTAAGAATTTATAATAT
* *
53406532 TTAAGATTTTTCTAAT-T
1 TTAAGA-ATTTATAATAT
*
53406549 CTAA-AATTTATAATAT
1 TTAAGAATTTATAATAT
53406565 T
1 T
53406566 CAAGTTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 7 0.27
16 2 0.08
17 10 0.38
18 7 0.27
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (17 bp):
TTAAGAATTTATAATAT
Found at i:53413279 original size:47 final size:46
Alignment explanation
Indices: 53413071--53413381 Score: 197
Period size: 47 Copynumber: 6.6 Consensus size: 46
53413061 TTACCGATAT
*
53413071 CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATG
1 CATGTCCCAGAC-TTGTCTTACACTGGC-ATCATCATCGAGGCCGATG
* * * * * * *
53413119 CCATGTCCTAGACATGGTCTTATACTAGCTCTCGTAT-ATACG-TGCTGATG
1 -CATGTCCCAGAC-TTGTCTTACACTGGC-ATC--ATCAT-CGAGGCCGATG
* * * *
53413169 CATGTCCCAGACATGTCTTACACTGGCA-CAAC-TCTTAGG-CAATG
1 CATGTCCCAGACTTGTCTTACACTGGCATCATCATC-GAGGCCGATG
* *
53413213 CATGCCCCAGA-TATGTCTTACACTGGCTATCATCGTCGAGGCCGATG
1 CATGTCCCAGACT-TGTCTTACACTGGC-ATCATCATCGAGGCCGATG
* * * *
53413260 CATGTCCCAAACTTGTCTTACACTGGCACTCATC-TCTACGCCAATG
1 CATGTCCCAGACTTGTCTTACACTGGCA-TCATCATCGAGGCCGATG
* * * * * *
53413306 CTATGTCCCAAAAATGGTCTTACACTGGCACTCATAAT-GTGCCCGATG
1 C-ATGTCCC-AGACTTGTCTTACACTGGCA-TCATCATCGAGGCCGATG
* *
53413354 CATGTTCCAGACATGTCTTACACTGGCA
1 CATGTCCCAGACTTGTCTTACACTGGCA
53413382 CACAAGAAAT
Statistics
Matches: 206, Mismatches: 40, Indels: 35
0.73 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 2 0.01
46 34 0.17
47 47 0.23
48 41 0.20
49 40 0.19
50 8 0.04
51 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACTTGTCTTACACTGGCATCATCATCGAGGCCGATG
Found at i:53414112 original size:12 final size:12
Alignment explanation
Indices: 53414095--53414119 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53414085 CAAAAATGTA
53414095 AAAATCATCAAG
1 AAAATCATCAAG
53414107 AAAATCATCAAG
1 AAAATCATCAAG
53414119 A
1 A
53414120 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:53414945 original size:44 final size:44
Alignment explanation
Indices: 53414873--53414969 Score: 149
Period size: 44 Copynumber: 2.2 Consensus size: 44
53414863 TCACATTTAT
* * *
53414873 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTAATCAAATAAGTGTAGCTAAAGCTAC
* *
53414917 CACTTATCACTTGTCACTAATCAAATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTGTCACTAATCAAATAAGTGTAGCTAAAGCTAC
53414961 CACTTATCA
1 CACTTATCA
53414970 TTTATCATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (44 bp):
CACTTATCACTTGTCACTAATCAAATAAGTGTAGCTAAAGCTAC
Found at i:53421609 original size:245 final size:245
Alignment explanation
Indices: 53421179--53421916 Score: 1431
Period size: 245 Copynumber: 3.0 Consensus size: 245
53421169 TAAATTATCC
*
53421179 TTTTTGATCAATAAAGTACATTTTCTATTGCTTTCATATTTTTTTTTGTTCTTTATTCTTCTCAT
1 TTTTTGATCAATAAAATACATTTTCTATTGCTTTCATATTTTTTTTTGTTCTTTATTCTTCTCAT
53421244 TTCTCTTTATTTTATAACAATTGTTTCGTTTATTTTCAATACAGTGTGATCTACAGTTTCGAATA
66 TTCTCTTTATTTTATAACAATTGTTTCGTTTATTTTCAATACAGTGTGATCTACAGTTTCGAATA
53421309 AAAAAAATTTTAATATCTACATAAATTTTTAATAAATTAAATATAATTAATTATTACATTATAAT
131 AAAAAAATTTTAATATCTACATAAATTTTTAATAAATTAAATATAATTAATTATTACATTATAAT
53421374 CAAAATATATAATTTACATATTTTAATCTTAAATAAATCAAAATATATAA
196 CAAAATATATAATTTACATATTTTAATCTTAAATAAATCAAAATATATAA
53421424 TTTTTGATCAATAAAATACATTTTCTATTGCTTTCATATTTTTTTTTGTTCTTTATTCTTCTCAT
1 TTTTTGATCAATAAAATACATTTTCTATTGCTTTCATATTTTTTTTTGTTCTTTATTCTTCTCAT
53421489 TTCTCTTTATTTTATAACAATTGTTTCGTTTATTTTCAATACAGTGTGATCTACAGTTTCGAATA
66 TTCTCTTTATTTTATAACAATTGTTTCGTTTATTTTCAATACAGTGTGATCTACAGTTTCGAATA
53421554 AAAAAAATTTTAATATCTACATAAATTTTTAATAAATTAAATATAATTAATTATTACATTATAAT
131 AAAAAAATTTTAATATCTACATAAATTTTTAATAAATTAAATATAATTAATTATTACATTATAAT
53421619 CAAAATATATAATTTACATATTTTAATCTTAAATAAATCAAAATATATAA
196 CAAAATATATAATTTACATATTTTAATCTTAAATAAATCAAAATATATAA
53421669 TTTTTGATCAATAAAATACATTTTCTATTGCTTTCATATTTTTTTTTGTTCTTTATTCTTCTCAT
1 TTTTTGATCAATAAAATACATTTTCTATTGCTTTCATATTTTTTTTTGTTCTTTATTCTTCTCAT
53421734 TTCTCTTTATTTTATAACAATTGTTTCGTTTATTTTCAATACAGTGTGATCTACAGTTTCGAATA
66 TTCTCTTTATTTTATAACAATTGTTTCGTTTATTTTCAATACAGTGTGATCTACAGTTTCGAATA
53421799 AAAAAAATTTTAATATCTACATAAATTTTTAATAAATTAAATATAATTAATTATTACATTATAAT
131 AAAAAAATTTTAATATCTACATAAATTTTTAATAAATTAAATATAATTAATTATTACATTATAAT
* *
53421864 CAAAATATATAATTTACATATTTTAATCGTAAATAAATCCAACATAATATAA
196 CAAAATATATAATTTACATATTTTAATCTTAAATAAAT-CAAAAT-ATATAA
53421916 T
1 T
53421917 AAACTAATAT
Statistics
Matches: 488, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
245 476 0.98
246 5 0.01
247 7 0.01
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.48
Consensus pattern (245 bp):
TTTTTGATCAATAAAATACATTTTCTATTGCTTTCATATTTTTTTTTGTTCTTTATTCTTCTCAT
TTCTCTTTATTTTATAACAATTGTTTCGTTTATTTTCAATACAGTGTGATCTACAGTTTCGAATA
AAAAAAATTTTAATATCTACATAAATTTTTAATAAATTAAATATAATTAATTATTACATTATAAT
CAAAATATATAATTTACATATTTTAATCTTAAATAAATCAAAATATATAA
Found at i:53427020 original size:21 final size:21
Alignment explanation
Indices: 53426981--53427021 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
53426971 ATCTGCTCAA
* *
53426981 ACTCCACCTGTTTTAGAGTAC
1 ACTCCACCTGCTGTAGAGTAC
*
53427002 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTAGAGTA
53427022 TTGCTCATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTAGAGTAC
Found at i:53430366 original size:20 final size:21
Alignment explanation
Indices: 53430327--53430367 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53430317 CAATTTTGAC
*
53430327 AAAAAAATCATATATCAATTT
1 AAAAAAAACATATATCAATTT
*
53430348 AAAAAAAACAT-TATTAATTT
1 AAAAAAAACATATATCAATTT
53430368 CAAGTAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAAAACATATATCAATTT
Found at i:53432572 original size:17 final size:17
Alignment explanation
Indices: 53432550--53432583 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53432540 ATCCACTAAT
*
53432550 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
53432567 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
53432584 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:53437209 original size:17 final size:17
Alignment explanation
Indices: 53437187--53437220 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53437177 ATCCACTAAT
*
53437187 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
53437204 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
53437221 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:53440494 original size:14 final size:14
Alignment explanation
Indices: 53440475--53440508 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
53440465 ATACATATGT
53440475 ACATATGCATGCAC
1 ACATATGCATGCAC
*
53440489 ACATATGCATGCAT
1 ACATATGCATGCAC
53440503 ACATAT
1 ACATAT
53440509 ATGTTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (14 bp):
ACATATGCATGCAC
Found at i:53441400 original size:20 final size:19
Alignment explanation
Indices: 53441343--53441402 Score: 79
Period size: 18 Copynumber: 3.2 Consensus size: 19
53441333 ATAAAAATTG
53441343 AATATATAAACAATTCAAAA
1 AATATATAAA-AATTCAAAA
*
53441363 AATATTTTAAAAA-T-AAAA
1 AATA-TATAAAAATTCAAAA
53441381 AATATATAAAAATTCAAAA
1 AATATATAAAAATTCAAAA
53441400 AAT
1 AAT
53441403 TTAAATTACG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 7 0.20
18 9 0.26
19 8 0.23
20 6 0.17
21 5 0.14
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
AATATATAAAAATTCAAAA
Found at i:53441407 original size:17 final size:17
Alignment explanation
Indices: 53441349--53441407 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 17
53441339 ATTGAATATA
53441349 TAAACAATTCAAAAAATATTT
1 TAAA-AATTC-AAAAA-A-TT
53441370 TAAAAA-T-AAAAAATAT
1 TAAAAATTCAAAAAAT-T
53441386 ATAAAAATTCAAAAAATT
1 -TAAAAATTCAAAAAATT
53441404 TAAA
1 TAAA
53441408 TTACGAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
15 1 0.03
16 2 0.06
17 15 0.44
18 2 0.06
19 8 0.24
20 2 0.06
21 4 0.12
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATTCAAAAAATT
Found at i:53441976 original size:26 final size:26
Alignment explanation
Indices: 53441947--53441999 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
53441937 AAGATTAGCA
*
53441947 TGTTCATATTTACTTTTGTATGAGTT
1 TGTTCATATTTACTTTTATATGAGTT
53441973 TGTTCATATTTACTTTTATATGAGTT
1 TGTTCATATTTACTTTTATATGAGTT
53441999 T
1 T
53442000 CTTTCAGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (26 bp):
TGTTCATATTTACTTTTATATGAGTT
Found at i:53445624 original size:23 final size:21
Alignment explanation
Indices: 53445605--53445648 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
53445595 TACTAAAATA
*
53445605 TAATATAATAATATAATAAAACA
1 TAATATAA-AATA-AATAAAATA
*
53445628 TAATATAAAATAAATGAAATA
1 TAATATAAAATAAATAAAATA
53445649 AAGTTAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
TAATATAAAATAAATAAAATA
Found at i:53447652 original size:241 final size:241
Alignment explanation
Indices: 53447225--53447708 Score: 844
Period size: 241 Copynumber: 2.0 Consensus size: 241
53447215 AGGTCGTTAT
*
53447225 ATTAACAGTTTTGACATGTTTTAGATGTATTTGATCATCTTTTGGATTGATTGAAAGATTGGAAT
1 ATTAACAGTTTTGACATGTTTTAGATGTATTTAATCATCTTTTGGATTGATTGAAAGATTGGAAT
* *
53447290 TTAAGTTTCTTGTTATTTAAGGTTTGCAGGGTTGGTAAACTTGAATTGAAAGGCTCATTTTTGAG
66 TTAAGTTGCTTGTTATTTAAGGTTTGCAAGGTTGGTAAACTTGAATTGAAAGGCTCATTTTTGAG
* *
53447355 TCCACACGGCCTGACACACGGGCGTGTGATCAGACCGTATGAGACACACGGCTTATACAC-GGGC
131 TCCACACGGCCTGACACACGGGCATGTGATCAGACCGTATGAGACACACAGCTTATAC-CTGGGC
53447419 ATGTGGTTAGGCCGTGTGTCCCCGGCACCTTAAATGTTGTAAACAGA
195 ATGTGGTTAGGCCGTGTGTCCCCGGCACCTTAAATGTTGTAAACAGA
*
53447466 ATTAACAGTTTTGACATGTTTTAGATGTATTTAATCATGTTTTGGATTGATTGAAAGATTGGAAT
1 ATTAACAGTTTTGACATGTTTTAGATGTATTTAATCATCTTTTGGATTGATTGAAAGATTGGAAT
53447531 TTAAGTTGCTTGTTATTTAAGGTTTGCAAGGTTGGTAAACTTGAATTGAAAGGCTCATTTTTGAG
66 TTAAGTTGCTTGTTATTTAAGGTTTGCAAGGTTGGTAAACTTGAATTGAAAGGCTCATTTTTGAG
* * * *
53447596 TCCACACGGCCTGGCACACGGGCATGTGATCAGACTGTGTGAGACACATAGCTTATACCTGGGCA
131 TCCACACGGCCTGACACACGGGCATGTGATCAGACCGTATGAGACACACAGCTTATACCTGGGCA
* *
53447661 TGTGGTTAGGCCGTGTGTCCCCTGCACCTTAAATGTTGTAAATAGA
196 TGTGGTTAGGCCGTGTGTCCCCGGCACCTTAAATGTTGTAAACAGA
53447707 AT
1 AT
53447709 GCCCAGTAAT
Statistics
Matches: 230, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
240 1 0.00
241 229 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (241 bp):
ATTAACAGTTTTGACATGTTTTAGATGTATTTAATCATCTTTTGGATTGATTGAAAGATTGGAAT
TTAAGTTGCTTGTTATTTAAGGTTTGCAAGGTTGGTAAACTTGAATTGAAAGGCTCATTTTTGAG
TCCACACGGCCTGACACACGGGCATGTGATCAGACCGTATGAGACACACAGCTTATACCTGGGCA
TGTGGTTAGGCCGTGTGTCCCCGGCACCTTAAATGTTGTAAACAGA
Found at i:53457084 original size:63 final size:63
Alignment explanation
Indices: 53456985--53457112 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 63
53456975 AAGACCATAC
* * * ** *
53456985 AAGTTTTAATTTTTATTAACAGTGGGTCTACACACAATTTCATAGTTGATACCATTATGAAAG
1 AAGTTTTAATTCTTATTAACAATGGCTCTACACACAATTTCATAGTCAATACCATTATCAAAG
* * *
53457048 AAGTTTTAATTCTTATTGATAATGGCTCTACACACAATTTCATAGTCAATACCATTGTCAAAG
1 AAGTTTTAATTCTTATTAACAATGGCTCTACACACAATTTCATAGTCAATACCATTATCAAAG
53457111 AA
1 AA
53457113 TTGAATATGA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (63 bp):
AAGTTTTAATTCTTATTAACAATGGCTCTACACACAATTTCATAGTCAATACCATTATCAAAG
Found at i:53464487 original size:148 final size:148
Alignment explanation
Indices: 53464218--53464511 Score: 462
Period size: 148 Copynumber: 2.0 Consensus size: 148
53464208 CACCTTGATC
*
53464218 AAGACCGTCAGATCAGGTTCACCTTTTCACCATCAGATCAGATTGGGAGAAAATATATCTAAATT
1 AAGACCGTCAGATCAGGTTCACCTTTACACCATCAGATCAGATTGGGAGAAAATATATCTAAATT
* * ** * **
53464283 TAAACAGTAATAGATCTAAAATATGGACTGAATTTTAACTTGATTATTATTAGTATTATTGCTAC
66 TAAACAATAATAAATCTAAAATATCCACTAAATTTTAACTCAATTATTATTAGTATTATTGCTAC
53464348 ATAAATTTGAATATATCT
131 ATAAATTTGAATATATCT
* *
53464366 AAGACCGTCAGATCAGGTTCACCTTTACTCCCTCAGATCAGATTGGGAGAAAATATATCTAAATT
1 AAGACCGTCAGATCAGGTTCACCTTTACACCATCAGATCAGATTGGGAGAAAATATATCTAAATT
* * * *
53464431 TAAATAATAATAAATCTAAAATATCCATTAAATTTTAACTCAATTATTATTGGTATTGTTGCTAC
66 TAAACAATAATAAATCTAAAATATCCACTAAATTTTAACTCAATTATTATTAGTATTATTGCTAC
53464496 ATAAATTTGAATATAT
131 ATAAATTTGAATATAT
53464512 TAAAATATAT
Statistics
Matches: 132, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
148 132 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (148 bp):
AAGACCGTCAGATCAGGTTCACCTTTACACCATCAGATCAGATTGGGAGAAAATATATCTAAATT
TAAACAATAATAAATCTAAAATATCCACTAAATTTTAACTCAATTATTATTAGTATTATTGCTAC
ATAAATTTGAATATATCT
Found at i:53467723 original size:28 final size:27
Alignment explanation
Indices: 53467691--53467745 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
53467681 TTTCTTTGAA
53467691 ATTTTCTA-AAAATTTAACTAAAATTTTT
1 ATTTT-TATAAAATTTAAC-AAAATTTTT
* *
53467719 ATTTTTATAAATTTTAACAATATTTTT
1 ATTTTTATAAAATTTAACAAAATTTTT
53467746 TTAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTTTATAAAATTTAACAAAATTTTT
Found at i:53468823 original size:10 final size:9
Alignment explanation
Indices: 53468795--53468824 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
53468785 TCTTAATAAT
*
53468795 AATTCTAAA
1 AATTTTAAA
53468804 AATTTTAAA
1 AATTTTAAA
53468813 AATTTTAAA
1 AATTTTAAA
53468822 AAT
1 AAT
53468825 AAAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTTTAAA
Found at i:53474616 original size:16 final size:15
Alignment explanation
Indices: 53474595--53474642 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
53474585 GATGTGAATA
53474595 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
53474611 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
53474626 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
53474642 A
1 A
53474643 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:53474618 original size:24 final size:24
Alignment explanation
Indices: 53474591--53474646 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
53474581 TAATGATGTG
*
53474591 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
53474615 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
53474639 AATAATAA
1 AATAATAA
53474647 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:53474625 original size:8 final size:8
Alignment explanation
Indices: 53474591--53474642 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
53474581 TAATGATGTG
*
53474591 AATAATAA
1 AATATTAA
53474599 AATATATAA
1 AATAT-TAA
53474608 AATA-TAA
1 AATATTAA
53474615 AATATTAA
1 AATATTAA
*
53474623 AATATCAA
1 AATATTAA
*
53474631 AATATTAG
1 AATATTAA
53474639 AATA
1 AATA
53474643 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:53474708 original size:23 final size:24
Alignment explanation
Indices: 53474682--53474727 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
53474672 AAAATAGAAA
*
53474682 TAAAAAT-GTACATAATATAGTGT
1 TAAAAATAATACATAATATAGTGT
53474705 TAAAAATACATACATAATATAGT
1 TAAAAATA-ATACATAATATAGT
53474728 TAAGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
25 13 0.65
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.33
Consensus pattern (24 bp):
TAAAAATAATACATAATATAGTGT
Found at i:53474742 original size:22 final size:24
Alignment explanation
Indices: 53474690--53474743 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
53474680 AATAAAAATG
53474690 TACATAATATAGTGTTAAAAATACA
1 TACATAATATAG-GTTAAAAATACA
* *
53474715 TACATAATATA-GTT-AAGATATA
1 TACATAATATAGGTTAAAAATACA
53474737 TACATAA
1 TACATAA
53474744 GATAACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 13 0.48
23 3 0.11
25 11 0.41
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (24 bp):
TACATAATATAGGTTAAAAATACA
Found at i:53474770 original size:32 final size:31
Alignment explanation
Indices: 53474732--53474804 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 31
53474722 TATAGTTAAG
*
53474732 ATATATACATAAGATAACATGTAAAAATATAT
1 ATATATAAATAAGATAACAT-TAAAAATATAT
* * *
53474764 ATATATAAATAATATAATATTAAAGATATAT
1 ATATATAAATAAGATAACATTAAAAATATAT
*
53474795 ACATA-AAATA
1 ATATATAAATA
53474805 GTATAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 5 0.14
31 14 0.39
32 17 0.47
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (31 bp):
ATATATAAATAAGATAACATTAAAAATATAT
Found at i:53474787 original size:15 final size:16
Alignment explanation
Indices: 53474753--53474795 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
53474743 AGATAACATG
53474753 TAAAAATATATATATA
1 TAAAAATATATATATA
53474769 TAAATAATATA-ATAT-
1 TAAA-AATATATATATA
*
53474784 TAAAGATATATA
1 TAAAAATATATA
53474796 CATAAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 8 0.33
17 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAAATATATATATA
Found at i:53474800 original size:25 final size:25
Alignment explanation
Indices: 53474764--53474899 Score: 72
Period size: 25 Copynumber: 5.6 Consensus size: 25
53474754 AAAAATATAT
*
53474764 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATTAAAG
* * * *
53474789 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAATAT-TAA-AG
*
53474816 ATATATACACGTAATATAGA-ATTTAA-
1 ATATATACA--TAATATA-ATATTAAAG
* * *
53474842 A-ATGTACCTAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
53474864 A-ATATATATAATATAATA-TAAAG
1 ATATATACATAATATAATATTAAAG
*
53474887 AAATATA-ATAATA
1 ATATATACATAATA
53474900 ACAAAAAAGG
Statistics
Matches: 84, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
21 4 0.05
22 11 0.13
23 19 0.23
24 5 0.06
25 22 0.26
26 3 0.04
27 11 0.13
28 1 0.01
29 8 0.10
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:53474878 original size:22 final size:23
Alignment explanation
Indices: 53474850--53474899 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
53474840 AAAATGTACC
*
53474850 TAATATATTA-AAAG-AATATATA
1 TAATATAATATAAAGAAATATA-A
53474872 TAATATAATATAAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
53474895 TAATA
1 TAATA
53474900 ACAAAAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 9 0.36
23 10 0.40
24 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:53475423 original size:30 final size:30
Alignment explanation
Indices: 53475387--53475561 Score: 305
Period size: 30 Copynumber: 5.8 Consensus size: 30
53475377 TAGGTACAAG
*
53475387 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
53475417 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
53475447 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
53475477 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
53475507 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
53475537 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
53475562 TGAGAAAAGT
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 136 1.00
ACGTcount: A:0.22, C:0.03, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:53476367 original size:75 final size:75
Alignment explanation
Indices: 53476269--53476454 Score: 261
Period size: 75 Copynumber: 2.5 Consensus size: 75
53476259 CGACATGTAA
* * * *
53476269 ACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGA-TTTTTGAAAAGTAGAAATTGAAAA-CG
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGAAGAAATTGAAAATAG
53476332 CCTCAGCGTGT
66 -CTCAGCGTGT
53476343 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGAAGAAATTGAAAATA
1 -ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGAAGAAATTGAAAATA
*
53476408 GCTTAGCGTGT
65 GCTCAGCGTGT
* * *
53476419 -CCTGAGGCTCAATTCACCTCTCGCAATATGAATTGA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
53476455 AAAAAATACC
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
74 33 0.33
75 35 0.35
76 32 0.32
77 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (75 bp):
ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGAAGAAATTGAAAATAG
CTCAGCGTGT
Found at i:53476568 original size:208 final size:206
Alignment explanation
Indices: 53476276--53476665 Score: 541
Period size: 208 Copynumber: 1.9 Consensus size: 206
53476266 TAAACCCAAG
* ** * * *
53476276 GCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAGTAGAAATTGAAAACGCCTCAGCGT
1 GCTCAACTCACATCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAACACCTCAGCAT
* *
53476341 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAGAAGAAATTGAAA
66 GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAA-AAGAAATTGAAA
* * * *
53476405 ATAGCTTAGCGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAA-TTGAAAAAAATACCACAG
130 ATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT-AAGTTGAAAAAAATACCACAG
53476469 TGTGTAATCTGAA
194 TGTGTAATCTGAA
* * *
53476482 GCTCAACTCACCTCTCGAAATATGAGTTGATTTTTTTTAAAAACAGAAATTAAAAATACCTCAGC
1 GCTCAACTCACATCTCGAAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAACACCTCAGC
*
53476547 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTG
64 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TTTTTTTGAAAAAAGAAATTG
* **
53476612 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAA
127 AAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAA
53476666 TTTTTTTTTG
Statistics
Matches: 159, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
206 28 0.18
208 66 0.42
209 2 0.01
210 52 0.33
211 11 0.07
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (206 bp):
GCTCAACTCACATCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAACACCTCAGCAT
GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAAAAGAAATTGAAAA
TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAAAAAAATACCACAGTG
TGTAATCTGAA
Found at i:53476587 original size:77 final size:75
Alignment explanation
Indices: 53476482--53476829 Score: 433
Period size: 77 Copynumber: 4.7 Consensus size: 75
53476472 GTAATCTGAA
** * * * *
53476482 GCTCAACTCACCTCTCGAAATATGAGTTGATTTTTTTTAAAAACAGAAATTAAAAATACCTCAGC
1 GCTCAACTCATTTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCA--
* *
53476547 ATGTGAAC-CGAG
64 ACGTG-TCTCGAG
**
53476559 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 GCTCAACTCATTTCTCGCAATATAAGTTGA-TTTTTTTTGAAAACAGAAATTGAAAATACCTCAA
*
53476624 CGTGTCTTGAG
65 CGTGTCTCGAG
53476635 GCTCAACTCATTTCTCGCAATATAAGTTGAATTTTTTTTTGAAAACAGAAATTGAAAATACCTCA
1 GCTCAACTCATTTCTCGCAATATAAGTTG-A-TTTTTTTTGAAAACAGAAATTGAAAATACCTCA
*
53476700 ACGTGTCTTGAG
64 ACGTGTCTCGAG
* * *
53476712 GCTCAACTCATTTCTCGCAATATAAGTTGA---ATTTTGAAAACAGAAATTGAAATTACCTCAGC
1 GCTCAACTCATTTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAAC
53476774 GTGTC-CTGAG
66 GTGTCTC-GAG
*
53476784 GCTCAACTCATTTCTCGCAATATAAGTTGA---ATTTTGAAAACAGAAA
1 GCTCAACTCATTTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAA
53476830 NNNNNNNNNN
Statistics
Matches: 254, Mismatches: 13, Indels: 13
0.91 0.05 0.05
Matches are distributed among these distances:
72 83 0.33
75 1 0.00
76 35 0.14
77 104 0.41
78 31 0.12
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (75 bp):
GCTCAACTCATTTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAAC
GTGTCTCGAG
Found at i:53476788 original size:72 final size:72
Alignment explanation
Indices: 53476516--53476829 Score: 414
Period size: 72 Copynumber: 4.2 Consensus size: 72
53476506 AGTTGATTTT
* * * * **
53476516 TTTTAAAAACAGAAATTAAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAAT
1 TTTTGAAAACAGAAATTGAAAATACCTCA--ACGTG-TCCTGAGGCTCAACTCATTTCTCGCAAT
*
53476580 ATAAGTTGATTTTT
63 ATAAGTTGA----A
*
53476594 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATA
1 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATA
53476659 AGTTGAA
66 AGTTGAA
*
53476666 TTTTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
1 -----TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCA
53476731 ATATAAGTTGAA
61 ATATAAGTTGAA
* *
53476743 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATA
1 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATA
53476808 AGTTGAA
66 AGTTGAA
53476815 TTTTGAAAACAGAAA
1 TTTTGAAAACAGAAA
53476830 NNNNNNNNNN
Statistics
Matches: 219, Mismatches: 11, Indels: 18
0.88 0.04 0.07
Matches are distributed among these distances:
72 84 0.38
75 1 0.00
76 35 0.16
77 72 0.33
78 27 0.12
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (72 bp):
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATA
AGTTGAA
Found at i:53476799 original size:149 final size:151
Alignment explanation
Indices: 53476477--53476818 Score: 460
Period size: 149 Copynumber: 2.3 Consensus size: 151
53476467 AGTGTGTAAT
* ** * *
53476477 CTGAAGCTCAACTCACCTCTCGAAATATGAGTTG-A-TTTTTTTTAAAAACAGAAATTAAAAATA
1 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTTTTTTAAAAACAGAAATTAAAAATA
* *
53476540 CCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACA
66 CCTCA-CACGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA---TATTTTGAAAACA
53476605 GAAATTGAAAATACCTCAACGTGTC
127 GAAATTGAAAATACCTCAACGTGTC
* * *
53476630 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTTTTTTGAAAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTTTTTTAAAAACAGAAATTAAAAATA
* * **
53476695 CCTCA-ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAA
66 CCTCACACGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAA
* *
53476757 ATTGAAATTACCTCAGCGTGTC
130 ATTGAAAATACCTCAACGTGTC
53476779 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTT
1 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTT
53476819 GAAAACAGAA
Statistics
Matches: 169, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
149 73 0.43
152 1 0.01
153 63 0.37
154 1 0.01
155 31 0.18
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (151 bp):
CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTTTTTTAAAAACAGAAATTAAAAATA
CCTCACACGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAAA
TTGAAAATACCTCAACGTGTC
Found at i:53492828 original size:11 final size:11
Alignment explanation
Indices: 53492770--53492837 Score: 61
Period size: 11 Copynumber: 6.5 Consensus size: 11
53492760 AAAAAATACT
*
53492770 TTGATCAATAG
1 TTGACCAATAG
53492781 TTGACC-ATAG
1 TTGACCAATAG
*
53492791 TTGATCAAT-G
1 TTGACCAATAG
**
53492801 TTGACTGATAG
1 TTGACCAATAG
*
53492812 TTGACCAATAT
1 TTGACCAATAG
*
53492823 TTGACCGAT-G
1 TTGACCAATAG
53492833 TTGAC
1 TTGAC
53492838 TAGGTATTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
10 21 0.47
11 24 0.53
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (11 bp):
TTGACCAATAG
Found at i:53492837 original size:21 final size:22
Alignment explanation
Indices: 53492770--53492837 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 22
53492760 AAAAAATACT
*
53492770 TTGATCAATAGTTGACC-ATAG
1 TTGACCAATAGTTGACCGATAG
* *
53492791 TTGATCAAT-GTTGACTGATAG
1 TTGACCAATAGTTGACCGATAG
*
53492812 TTGACCAATATTTGACCGAT-G
1 TTGACCAATAGTTGACCGATAG
53492833 TTGAC
1 TTGAC
53492838 TAGGTATTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.15
21 27 0.66
22 8 0.20
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (22 bp):
TTGACCAATAGTTGACCGATAG
Found at i:53498893 original size:53 final size:53
Alignment explanation
Indices: 53498812--53498962 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
53498802 CTTACACGGT
* *
53498812 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
53498867 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
53498920 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
53498963 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:53502533 original size:58 final size:57
Alignment explanation
Indices: 53502384--53502535 Score: 157
Period size: 58 Copynumber: 2.7 Consensus size: 57
53502374 AATAGTTATG
* * * **
53502384 ATTTT-TT-AATT-TATATAATAATAATTATATTAAGAATTTTATTAAATTATATATT
1 ATTTTATTAAATTATATTTAATAATAACTATATTAA-AATATGGTTAAATTATATATT
* * *
53502439 ATTTTATTAAGTTATATTTAATAATAACTATGTTAAAATATGGTTAAATTATTTATT
1 ATTTTATTAAATTATATTTAATAATAACTATATTAAAATATGGTTAAATTATATATT
* * * *
53502496 ATTTTTATTAAATTATTTTTAATAGTAATTTTATTAAAAT
1 A-TTTTATTAAATTATATTTAATAATAACTATATTAAAAT
53502536 TTAATAACAA
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
55 5 0.06
56 2 0.03
57 21 0.27
58 51 0.65
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (57 bp):
ATTTTATTAAATTATATTTAATAATAACTATATTAAAATATGGTTAAATTATATATT
Found at i:53502718 original size:16 final size:16
Alignment explanation
Indices: 53502697--53502783 Score: 120
Period size: 16 Copynumber: 5.4 Consensus size: 16
53502687 TGAATTACTG
*
53502697 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
53502713 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
53502729 ATTACAGTTCTATTCT
1 ATTACAGCTCTATTCC
*
53502745 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
53502761 ATTACAACTTTATTCC
1 ATTACAGCTCTATTCC
53502777 ATTACAG
1 ATTACAG
53502784 TGAACCAAAC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 62 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:53503082 original size:20 final size:19
Alignment explanation
Indices: 53503054--53503092 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
53503044 TTATAATATC
*
53503054 ATGTTTAAAATGAACATTTT
1 ATGTCTAAAA-GAACATTTT
*
53503074 ATGTCTAAAAGCACATTTT
1 ATGTCTAAAAGAACATTTT
53503093 CACAACACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
ATGTCTAAAAGAACATTTT
Found at i:53503617 original size:237 final size:240
Alignment explanation
Indices: 53503156--53503736 Score: 671
Period size: 236 Copynumber: 2.4 Consensus size: 240
53503146 TTTTTATTTT
* ** *
53503156 TTTTTATAAATTTTAATATTGTACATATTTT-ATGTGTTATTATCAGTTAGTTTCAAACCATATG
1 TTTTT-TAAATTTTAATATTGTACAT-TTTTCATGTGTTATTATTAAATAGTTTCAAACCATATA
* * * * *
53503220 TTTTATTATTTATTATAG-GTTATTTTTAAACATACATTTATGTTCTAAAATTTTGGTTTTTAAT
64 TCTCATTATTTATTGT-GTGTTATTTTTAAAC--AC----ATGTTCGAAAATTTTGGTTTCTAAT
*
53503284 CGTATACACATGTGATAGAAATTCTAGTATTAGTAATGTATTCGATTGAGTTGTTGTCACAAGTT
122 CATATACACATGTGATAGAAATTCTAGTATTAGTAATGTATTCGATTGAGTTGTTGTCACAAGTT
* * * *
53503349 AACTCGACACCAACTTAAGATTGATGACAACATATTGATAAATAATTTAATCTAA
187 AACTCGACACCAACTCAAGATTGATGACAACACAATGATAAACAATTTAATCT-A
* * * *
53503404 TTTTTTAAATTATAATAATGTACATTTTTCATGTGTTATTGTTAAATAGTTTCAAACCATATATG
1 TTTTTTAAATTTTAATATTGTACATTTTTCATGTGTTATTATTAAATAGTTTCAAACCATATATC
* * *
53503469 TCATTATTTATTGTGTGTTATTTTTAAACACA-GTTCGAAATTTTTTGTTTCTACAT-ATATACG
66 TCATTATTTATTGTGTGTTATTTTTAAACACATGTTCGAAAATTTTGGTTTCTA-ATCATATACA
* * *
53503532 CATGTGATA-AGATT-TA-TATTAGTAATGTATTTGATTGAGTTAG-TGTCTCTAA-TTAACTCG
130 CATGTGATAGAAATTCTAGTATTAGTAATGTATTCGATTGAGTT-GTTGTCAC-AAGTTAACTCG
*
53503592 ACACCAACTCAAGATTGATGACAACACAATGATAAACAATTTAATCTT
193 ACACCAACTCAAGATTGATGACAACACAATGATAAACAATTTAATCTA
* * * *
53503640 TTTTTTAAATTTTAATATTATACATATTTCATGTGTTTTTATT-AATCAGTTTCTAACCATA-AG
1 TTTTTTAAATTTTAATATTGTACATTTTTCATGTGTTATTATTAAAT-AGTTTCAAACCATATA-
* *
53503703 TCTCACTATTTATTGTATGTTATTTTTAAACACA
64 TCTCATTATTTATTGTGTGTTATTTTTAAACACA
53503737 AATTTGGGTT
Statistics
Matches: 292, Mismatches: 34, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
235 4 0.01
236 81 0.28
237 80 0.27
238 5 0.02
239 4 0.01
240 31 0.11
241 3 0.01
245 2 0.01
246 5 0.02
247 72 0.25
248 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (240 bp):
TTTTTTAAATTTTAATATTGTACATTTTTCATGTGTTATTATTAAATAGTTTCAAACCATATATC
TCATTATTTATTGTGTGTTATTTTTAAACACATGTTCGAAAATTTTGGTTTCTAATCATATACAC
ATGTGATAGAAATTCTAGTATTAGTAATGTATTCGATTGAGTTGTTGTCACAAGTTAACTCGACA
CCAACTCAAGATTGATGACAACACAATGATAAACAATTTAATCTA
Found at i:53505470 original size:53 final size:53
Alignment explanation
Indices: 53505391--53505497 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
53505381 TAATTGTGTG
*
53505391 TATATATATTATTTATTAAGCTTTTACTGAGTTGGTGTCACCCATCAACTGGA
1 TATATATACTATTTATTAAGCTTTTACTGAGTTGGTGTCACCCATCAACTGGA
*
53505444 TATATATACTATTTATTAAGCTTTTACTGAGTTTGTGTCACCCATCAACTGGA
1 TATATATACTATTTATTAAGCTTTTACTGAGTTGGTGTCACCCATCAACTGGA
53505497 T
1 T
53505498 CCCAACTCAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (53 bp):
TATATATACTATTTATTAAGCTTTTACTGAGTTGGTGTCACCCATCAACTGGA
Found at i:53506125 original size:20 final size:21
Alignment explanation
Indices: 53506102--53506149 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
53506092 AAATTCAAAT
53506102 TAAAATAT-TAAAATTCAGGA
1 TAAAATATCTAAAATTCAGGA
*
53506122 TAAAAT-TCTGAAATTCAGGA
1 TAAAATATCTAAAATTCAGGA
53506142 TAAGAATA
1 TAA-AATA
53506150 CTGATGTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (21 bp):
TAAAATATCTAAAATTCAGGA
Found at i:53507774 original size:21 final size:22
Alignment explanation
Indices: 53507748--53507806 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
53507738 GTTTTAAGAA
*
53507748 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
53507769 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
53507791 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
53507807 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:53507821 original size:26 final size:24
Alignment explanation
Indices: 53507777--53507825 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
53507767 ATTTGTTTTA
*
53507777 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
53507801 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
53507826 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:53508123 original size:25 final size:24
Alignment explanation
Indices: 53508091--53508139 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
53508081 AATATTTTTA
*
53508091 AATTAAAATTTAATTGTTAATATT
1 AATTAAAATATAATTGTTAATATT
* *
53508115 AATTAAAAATATATTTTTTAATATT
1 AATT-AAAATATAATTGTTAATATT
53508140 TTATTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AATTAAAATATAATTGTTAATATT
Found at i:53512791 original size:249 final size:251
Alignment explanation
Indices: 53511827--53512830 Score: 1426
Period size: 252 Copynumber: 4.0 Consensus size: 251
53511817 TGGTTGTACG
* * * * *
53511827 AAGGGTGGGGATGCAGAATCAGAAGTAAGGGAGGATCTGAAACTAGAAAAGAGGGAGGAGGCAGA
1 AAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACTAG-AAAGAGGGAGGAGGCAAA
* *
53511892 AGAACATGATTCTGTTAGAACTTCTACAGATGAAGGAGGCGTTCACCATGAAACTTCTAAGCCTT
65 AGAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCCTT
* * * * *
53511957 CGGAGAAATGTGAAGACCTGATAGCAG-AGAACAAAGTTGATAAGCAACCTCCTTTGCTGATAGT
130 CAGAGAAACGTGAAGACCAGATAGCAGAAG-ACAAAGTTGATAAGCAAGCTCCTTTGCTGACAGT
* * ** * * * * * *
53512021 GGACAACACTCTTGTAAAAGTTGAATCCAAAGAACAGGAAAGAAGGCTAGAAGATGCATCA
194 GG---ACGCTGTTGCCAAAGTTGGATCAAAAGATCAGGAAAGAGGGCAAGAAGATGAATCA
* *
53512082 AAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACGAGAAGAGAGGGAGGAGGCAGA
1 AAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACTAGAA-AGAGGGAGGAGGCAAA
* *
53512147 AGAACATGATTCTGTTAGAACTTCTAAAAATGAAGGAGGTGTTCACCAAGAAACTTCTAAGCCTT
65 AGAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCCTT
* * *
53512212 CAGAGAAACGTGAAGACCAGGTAGCAGAAGAGACAGTTGATAAGCAAGCTCCTTTGCTGACAGTG
130 CAGAGAAACGTGAAGACCAGATAGCAGAAGACAAAGTTGATAAGCAAGCTCCTTTGCTGACAGTG
*
53512277 GACGCTGTTGCCAAAGTTGGATCGAAAGATCAGGAAAGAGGGCAAGAAGATG-ATCCA
195 GACGCTGTTGCCAAAGTTGGATCAAAAGATCAGGAAAGAGGGCAAGAAGATGAAT-CA
* * *
53512334 AAGGGTGGGGATACAGAACCAAAAACAAGGGAGGATCTAAAACTA-AAAGAGGAGGAGGATGCAA
1 AAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACTAGAAAGA-G-GGAGGAGGCAA
*
53512398 AAGAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTGAGCCT
64 AAGAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCCT
* * * * *
53512463 TCAGATAAACATGAAGACCAGGTAGCCGAAGACGAAGTTGATAAGCAAGCTCCTTTGCTGACAGT
129 TCAGAGAAACGTGAAGACCAGATAGCAGAAGACAAAGTTGATAAGCAAGCTCCTTTGCTGACAGT
53512528 GGACGCTGTTGCCAAAGTTGGATCAAAAGATCAGGAAAGAGGGCAAGAAGATGAATCA
194 GGACGCTGTTGCCAAAGTTGGATCAAAAGATCAGGAAAGAGGGCAAGAAGATGAATCA
* *
53512586 AAGGGTGGGGATACAGAACCAAAAGCAAGGGGGGATCTGAAACTAG-AAGA-GGAGGATGCAAAA
1 AAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACTAGAAAGAGGGAGGAGGCAAAA
53512649 GAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCCTTC
66 GAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCCTTC
* * * * *
53512714 GGAGAAATGTGAAGACCTGATAGCAGAAGACAAAGTTGACAAGCAAGCTCCTTTTCTGACCA-TG
131 AGAGAAACGTGAAGACCAGATAGCAGAAGACAAAGTTGATAAGCAAGCTCCTTTGCTGA-CAGTG
* * * *
53512778 GATGCTGTTGCCAAAGTTGGAGCAAAAGACCAGGAAAGAGGGGAAGAAGATGA
195 GACGCTGTTGCCAAAGTTGGATCAAAAGATCAGGAAAGAGGGCAAGAAGATGA
53512831 GCCTGACTGG
Statistics
Matches: 682, Mismatches: 59, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
249 177 0.26
250 5 0.01
251 5 0.01
252 316 0.46
253 2 0.00
254 2 0.00
255 173 0.25
256 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.18
Consensus pattern (251 bp):
AAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACTAGAAAGAGGGAGGAGGCAAAA
GAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCCTTC
AGAGAAACGTGAAGACCAGATAGCAGAAGACAAAGTTGATAAGCAAGCTCCTTTGCTGACAGTGG
ACGCTGTTGCCAAAGTTGGATCAAAAGATCAGGAAAGAGGGCAAGAAGATGAATCA
Found at i:53519131 original size:33 final size:32
Alignment explanation
Indices: 53519079--53519143 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
53519069 AGAAATATCA
* *
53519079 CTAAAATTTCCTTCTACTCATCTTCTCGCCTC
1 CTAAAATTTCCTCCCACTCATCTTCTCGCCTC
53519111 CTAAAATTTTCCTCCCACTCATCTTCTCGCCTC
1 CTAAAA-TTTCCTCCCACTCATCTTCTCGCCTC
53519144 TATTCTGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 6 0.20
33 24 0.80
ACGTcount: A:0.18, C:0.40, G:0.03, T:0.38
Consensus pattern (32 bp):
CTAAAATTTCCTCCCACTCATCTTCTCGCCTC
Found at i:53523435 original size:20 final size:22
Alignment explanation
Indices: 53523391--53523436 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
53523381 TTTTAGTGTC
* *
53523391 ATTTTTATTTGTTTTAATATTT
1 ATTTTTATGTGTTTTAATATAT
53523413 ATTTTTATGT-TTTTAA-ATAT
1 ATTTTTATGTGTTTTAATATAT
53523433 ATTT
1 ATTT
53523437 GATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTTTATGTGTTTTAATATAT
Found at i:53523453 original size:26 final size:24
Alignment explanation
Indices: 53523407--53523466 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
53523397 ATTTGTTTTA
*
53523407 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
53523431 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
53523457 TTTTTTATTT
1 ATATTTATTT
53523467 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:53533915 original size:23 final size:23
Alignment explanation
Indices: 53533880--53533938 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
53533870 TGGGTAAGAG
*
53533880 ACACGGGCGTGTGCATTGCCTCC
1 ACACGGGCATGTGCATTGCCTCC
*
53533903 ACACGGGTATGTGCATTGCCTCC
1 ACACGGGCATGTGCATTGCCTCC
*
53533926 ACACGGGCGTGTG
1 ACACGGGCATGTG
53533939 AGGCTTAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.15, C:0.31, G:0.32, T:0.22
Consensus pattern (23 bp):
ACACGGGCATGTGCATTGCCTCC
Found at i:53536532 original size:129 final size:129
Alignment explanation
Indices: 53536302--53536560 Score: 482
Period size: 129 Copynumber: 2.0 Consensus size: 129
53536292 GAAAAATGTC
53536302 ATCGAAATGTGGAACCCAAAATATACACTTACCCACATTGAATTTGTGATACACACAACTATCAA
1 ATCGAAATGTGGAACCCAAAATATACACTTACCCACATTGAATTTGTGATACACACAACTATCAA
53536367 CAATATTCATCTCAAAACTGAATGAGACAATTACTTGGTGAAACTTGTGGTACCATTGACGGGA
66 CAATATTCATCTCAAAACTGAATGAGACAATTACTTGGTGAAACTTGTGGTACCATTGACGGGA
* * **
53536431 ATCGAAATGTGGAACCTAAAATATATACTTACCCACATTGAATTTGTGATACACACAGTTATCAA
1 ATCGAAATGTGGAACCCAAAATATACACTTACCCACATTGAATTTGTGATACACACAACTATCAA
53536496 CAATATTCATCTCAAAACTGAATGAGACAATTACTTGGTGAAACTTGTGGTACCATTGACGGGA
66 CAATATTCATCTCAAAACTGAATGAGACAATTACTTGGTGAAACTTGTGGTACCATTGACGGGA
53536560 A
1 A
53536561 GCTTGTTTGA
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (129 bp):
ATCGAAATGTGGAACCCAAAATATACACTTACCCACATTGAATTTGTGATACACACAACTATCAA
CAATATTCATCTCAAAACTGAATGAGACAATTACTTGGTGAAACTTGTGGTACCATTGACGGGA
Found at i:53536823 original size:44 final size:44
Alignment explanation
Indices: 53536774--53536906 Score: 257
Period size: 44 Copynumber: 3.0 Consensus size: 44
53536764 AACTAGAGAG
53536774 AAAGCCTCTATAAAATCAATGTATTCTTTCTGAGTATATCCTTT
1 AAAGCCTCTATAAAATCAATGTATTCTTTCTGAGTATATCCTTT
53536818 AAAGCCTCTATAAAATCAATGTATTCTTTCTGAGTATATCCTTT
1 AAAGCCTCTATAAAATCAATGTATTCTTTCTGAGTATATCCTTT
*
53536862 AAAGCCTCTATAAAATCAATGTATTCTTTCTGAGTAGATCCTTT
1 AAAGCCTCTATAAAATCAATGTATTCTTTCTGAGTATATCCTTT
53536906 A
1 A
53536907 GCTATAAGAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 88 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (44 bp):
AAAGCCTCTATAAAATCAATGTATTCTTTCTGAGTATATCCTTT
Found at i:53540223 original size:44 final size:44
Alignment explanation
Indices: 53540175--53540282 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
53540165 GTGTAAGTTC
* ** *
53540175 AGTATTTCACCGATGGGCGAATTGTATAAAGTCTTCTTGTGTAT
1 AGTATTTCACCAATGGGCGAAAGGTATAAAGTCTGCTTGTGTAT
* * *
53540219 AGTATTTCACCAATGGGCTAAAGGTTTAAAGTCTGCTTGTGTCT
1 AGTATTTCACCAATGGGCGAAAGGTATAAAGTCTGCTTGTGTAT
* *
53540263 AGTATTT-GCCAATGAGCGAA
1 AGTATTTCACCAATGGGCGAA
53540283 CTATGTGTTC
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 10 0.19
44 44 0.81
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (44 bp):
AGTATTTCACCAATGGGCGAAAGGTATAAAGTCTGCTTGTGTAT
Found at i:53545496 original size:22 final size:23
Alignment explanation
Indices: 53545470--53545519 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
53545460 AAGTCCAATT
*
53545470 TGGGCCGTGTG-GGCCACACAGG
1 TGGGCCGTGTGTGCCCACACAGG
*
53545492 TGGG-CGTGTGTGCCCACACGGG
1 TGGGCCGTGTGTGCCCACACAGG
*
53545514 TAGGCC
1 TGGGCC
53545520 AAATGGACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.12, C:0.28, G:0.44, T:0.16
Consensus pattern (23 bp):
TGGGCCGTGTGTGCCCACACAGG
Found at i:53557151 original size:26 final size:26
Alignment explanation
Indices: 53557122--53557217 Score: 102
Period size: 26 Copynumber: 3.6 Consensus size: 26
53557112 TAAAGTCATA
53557122 AAAAATTTAGAATTTTCAAAAATTAT
1 AAAAATTTAGAATTTTCAAAAATTAT
* *
53557148 AAAAAATTAGAATTTTCAAAAATAAT
1 AAAAATTTAGAATTTTCAAAAATTAT
* ***
53557174 AAAAATTATAAGAACTGGAAAAAATTAT
1 AAAAATT-T-AGAATTTTCAAAAATTAT
*
53557202 AAAAATATTAAAATTT
1 AAAAAT-TTAGAATTT
53557218 ATTAAAATTC
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
26 30 0.54
27 5 0.09
28 20 0.36
29 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (26 bp):
AAAAATTTAGAATTTTCAAAAATTAT
Found at i:53557169 original size:27 final size:27
Alignment explanation
Indices: 53557119--53557178 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 27
53557109 TTCTAAAGTC
*
53557119 ATAAAAAATTTAGAATTTTCAAAAATT
1 ATAAAAAATTTAGAATTTTCAAAAATA
53557146 ATAAAAAA-TTAGAATTTTCAAAAATA
1 ATAAAAAATTTAGAATTTTCAAAAATA
53557172 ATAAAAA
1 ATAAAAA
53557179 TTATAAGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 24 0.75
27 8 0.25
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (27 bp):
ATAAAAAATTTAGAATTTTCAAAAATA
Found at i:53557274 original size:20 final size:20
Alignment explanation
Indices: 53557228--53557296 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 20
53557218 ATTAAAATTC
*
53557228 AATA-TAAAATTTCAAAAAA
1 AATATTAAAATTGCAAAAAA
*
53557247 AACA--AAAATTGCAAAAAA
1 AATATTAAAATTGCAAAAAA
* * *
53557265 ATTATTAAAAATGGAAAAAA
1 AATATTAAAATTGCAAAAAA
*
53557285 AATATTGAAATT
1 AATATTAAAATT
53557297 TTATATAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
18 15 0.38
19 3 0.08
20 21 0.54
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (20 bp):
AATATTAAAATTGCAAAAAA
Found at i:53558082 original size:20 final size:20
Alignment explanation
Indices: 53558050--53558101 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
53558040 ATTTGTTATT
*
53558050 TTTCATATT-TTTTAAATAAG
1 TTTC-TATTATTTTAAATAAA
*
53558070 TTTCTATTATTTTCAATAAA
1 TTTCTATTATTTTAAATAAA
*
53558090 TTT-TATAATTTT
1 TTTCTATTATTTT
53558102 TGAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTCTATTATTTTAAATAAA
Found at i:53558181 original size:38 final size:36
Alignment explanation
Indices: 53558131--53558225 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 36
53558121 TCAATGGGAA
**
53558131 TTTATATAATTTTTTTAACTTTTTTAACTTTTAATAAT
1 TTTATATAA-TTTTTTAAAATTTTTAA-TTTTAATAAT
* **
53558169 TTTATATTATTTTTTAAAATTTTTAATTTTTTTAA-
1 TTTATATAATTTTTTAAAATTTTTAATTTTAATAAT
* *
53558204 TTT-TAGAATTTTTGAAAATTTT
1 TTTATATAATTTTTTAAAATTTT
53558226 ATTTTTTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 16 0.33
35 3 0.06
36 7 0.14
37 15 0.31
38 8 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (36 bp):
TTTATATAATTTTTTAAAATTTTTAATTTTAATAAT
Found at i:53558201 original size:18 final size:18
Alignment explanation
Indices: 53558137--53558237 Score: 63
Period size: 16 Copynumber: 5.8 Consensus size: 18
53558127 GGAATTTATA
**
53558137 TAATTTTTTTAACTTTTT
1 TAATTTTTTTAAAATTTT
*
53558155 TAA--CTTTTAATAATTTT
1 TAATTTTTTTAA-AATTTT
*
53558172 ATATTATTTTTTAAAATTTT
1 -TAAT-TTTTTTAAAATTTT
53558192 TAATTTTTTT--AA-TTT
1 TAATTTTTTTAAAATTTT
* *
53558207 TAGAATTTTTGAAAA-TTT
1 TA-ATTTTTTTAAAATTTT
53558225 T-ATTTTTTTAAAA
1 TAATTTTTTTAAAA
53558238 ATTTCAAGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
15 5 0.08
16 24 0.37
17 4 0.06
18 17 0.26
19 3 0.05
20 6 0.09
21 6 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TAATTTTTTTAAAATTTT
Found at i:53558238 original size:17 final size:17
Alignment explanation
Indices: 53558178--53558241 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 17
53558168 TTTTATATTA
*
53558178 TTTTTTAAAATTTTTAAT
1 TTTTTTAAAAATTTT-AT
*
53558196 TTTTTT---AATTTTAGA
1 TTTTTTAAAAATTTTA-T
* *
53558211 ATTTTTGAAAATTTTAT
1 TTTTTTAAAAATTTTAT
53558228 TTTTTTAAAAATTT
1 TTTTTTAAAAATTT
53558242 CAAGTTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
14 1 0.03
15 10 0.28
17 12 0.33
18 13 0.36
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTTTAAAAATTTTAT
Done.