Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 245 of 425
Found at i:75259252 original size:37 final size:37
Alignment explanation
Indices: 75259194--75259264 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
75259184 GCTCAGACGA
*
75259194 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
*
75259231 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGA
75259265 ATACATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
Found at i:75259370 original size:48 final size:48
Alignment explanation
Indices: 75259309--75259982 Score: 1060
Period size: 48 Copynumber: 14.0 Consensus size: 48
75259299 TGTTACAACA
* *
75259309 TTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
75259357 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
75259405 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
75259453 TTCACATTAGCCATTCGGCTTTACCGCATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
75259501 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
75259549 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
75259597 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * **
75259645 TTCACATTCGCCATTTGGCTTTACCACATATACATATCACACGTATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
** *
75259693 TTCACATTCCCCATTCGACTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
75259741 TTCACATTAGTCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
75259789 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
75259837 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
75259885 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
75259933 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
75259981 TT
1 TT
75259983 ATCTTGTACA
Statistics
Matches: 569, Mismatches: 57, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 569 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:75265371 original size:40 final size:40
Alignment explanation
Indices: 75265322--75265448 Score: 157
Period size: 40 Copynumber: 3.2 Consensus size: 40
75265312 GAGCAATATT
*
75265322 TACTGAATCTACTGAAATGTATACACTATCGAGCCATACC
1 TACTGAATCTACTGAAATGTATGCACTATCGAGCCATACC
* ** *
75265362 TACTAAATCTACTGAAATGTATGCGTTTTCGAGCCATACC
1 TACTGAATCTACTGAAATGTATGCACTATCGAGCCATACC
* * *
75265402 TA-TCGAATCCACTGAAAAGTATGCTCTATCGAGCCATACC
1 TACT-GAATCTACTGAAATGTATGCACTATCGAGCCATACC
*
75265442 TATTGAA
1 TACTGAA
75265449 AGTTGCTCAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (40 bp):
TACTGAATCTACTGAAATGTATGCACTATCGAGCCATACC
Found at i:75268351 original size:18 final size:19
Alignment explanation
Indices: 75268328--75268365 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
75268318 TAAACAAGAA
75268328 TGTTTTTAAATAAA-AATT
1 TGTTTTTAAATAAAGAATT
*
75268346 TGTTTTTGAATAAAGAATT
1 TGTTTTTAAATAAAGAATT
75268365 T
1 T
75268366 ATAAAGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (19 bp):
TGTTTTTAAATAAAGAATT
Found at i:75273775 original size:27 final size:28
Alignment explanation
Indices: 75273719--75273788 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
75273709 AAATTTGTAC
75273719 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
75273747 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
75273774 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
75273789 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:75273799 original size:27 final size:27
Alignment explanation
Indices: 75273719--75273800 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
75273709 AAATTTGTAC
* *
75273719 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
75273747 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
75273774 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
75273801 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:75281543 original size:27 final size:28
Alignment explanation
Indices: 75281487--75281556 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
75281477 AAATTTGTAC
75281487 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
75281515 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
75281542 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
75281557 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:75281567 original size:27 final size:27
Alignment explanation
Indices: 75281487--75281568 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
75281477 AAATTTGTAC
* *
75281487 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
75281515 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
75281542 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
75281569 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:75283338 original size:50 final size:50
Alignment explanation
Indices: 75283279--75283379 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
75283269 CCGGGTAAGT
75283279 TTGTACGGTTTAAAATTTAACATCTATATAAATTGTTGAATAGTATAACA
1 TTGTACGGTTTAAAATTTAACATCTATATAAATTGTTGAATAGTATAACA
75283329 TTGTACGGTTTAAAATTTAACATCTATATAAATTGTTGAATAGTATAACA
1 TTGTACGGTTTAAAATTTAACATCTATATAAATTGTTGAATAGTATAACA
75283379 T
1 T
75283380 GGTAAAATAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.41
Consensus pattern (50 bp):
TTGTACGGTTTAAAATTTAACATCTATATAAATTGTTGAATAGTATAACA
Found at i:75283651 original size:35 final size:35
Alignment explanation
Indices: 75283602--75283713 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 35
75283592 CTTTGTTTGA
* * **
75283602 TGTGTTCCGCAGGGATTAAATCTTATGAGCATTGG
1 TGTGTTTCGAAGGGATTAGCTCTTATGAGCATTGG
* *
75283637 TGTGTTTCGAAGGGATTAGCTCTTATGAGCAATGA
1 TGTGTTTCGAAGGGATTAGCTCTTATGAGCATTGG
** * *
75283672 TGTGTTT-GGTGGGATTGGCTCGTATGAGCATCTGG
1 TGTGTTTCGAAGGGATTAGCTCTTATGAGCAT-TGG
75283707 TGTGTTT
1 TGTGTTT
75283714 TGGGTGTATT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 19 0.30
35 45 0.70
ACGTcount: A:0.19, C:0.12, G:0.32, T:0.38
Consensus pattern (35 bp):
TGTGTTTCGAAGGGATTAGCTCTTATGAGCATTGG
Found at i:75285417 original size:21 final size:21
Alignment explanation
Indices: 75285391--75285446 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
75285381 TGTCAATTTT
* *
75285391 CACACGGGCGTGTGCCTTGGC
1 CACACGGGCGTGTGCCCTAGC
* * *
75285412 CACACGGCCCTGTCCCCTAGC
1 CACACGGGCGTGTGCCCTAGC
*
75285433 CACACGGGTGTGTG
1 CACACGGGCGTGTG
75285447 AGATTTCCAC
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.38, G:0.32, T:0.18
Consensus pattern (21 bp):
CACACGGGCGTGTGCCCTAGC
Found at i:75293494 original size:93 final size:93
Alignment explanation
Indices: 75293382--75293553 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
75293372 GCCCATAAGT
* *
75293382 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
75293447 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
75293475 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
75293540 TGAGTTCGGATGCC
66 CGAGTTCGGATGCC
75293554 CAAATATCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:75293549 original size:46 final size:46
Alignment explanation
Indices: 75293374--75293549 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
75293364 TGTAACCCGC
* * *
75293374 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
75293420 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
75293470 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
75293513 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
75293550 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:75296323 original size:21 final size:21
Alignment explanation
Indices: 75296298--75296337 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
75296288 ACCGGTACAT
75296298 TTTAAAAAATATCGATACTCA
1 TTTAAAAAATATCGATACTCA
* *
75296319 TTTAAAAAGTATTGATACT
1 TTTAAAAAATATCGATACT
75296338 TGTTGGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTAAAAAATATCGATACTCA
Found at i:75299131 original size:40 final size:40
Alignment explanation
Indices: 75299053--75299275 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
75299043 ACCCAAGTAT
* *
75299053 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
75299092 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
75299132 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
75299172 CTTCGGGACTTAGCCCGG-TATAG-CAACTACTCACACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
75299214 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
75299254 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
75299276 CATCCGAATA
Statistics
Matches: 164, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.01
39 20 0.12
40 107 0.65
41 1 0.01
42 27 0.16
43 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:75299235 original size:82 final size:80
Alignment explanation
Indices: 75299053--75299275 Score: 301
Period size: 82 Copynumber: 2.8 Consensus size: 80
75299043 ACCCAAGTAT
* * *
75299053 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* **
75299116 TCACTAGCATGAATGC
65 TCACTAACACAAATGC
75299132 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG-TATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
75299195 CAACTACTCACACAAATGC
66 C-ACTA---ACACAAATGC
* *
75299214 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
75299276 CATCCGAATA
Statistics
Matches: 129, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
78 1 0.01
79 21 0.16
80 40 0.31
81 1 0.01
82 63 0.49
83 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAACACAAATGC
Found at i:75299267 original size:122 final size:119
Alignment explanation
Indices: 75299053--75299275 Score: 340
Period size: 122 Copynumber: 1.8 Consensus size: 119
75299043 ACCCAAGTAT
* * * *
75299053 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGCAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
**
75299118 ACTAGCATGAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
75299172 CTTCGGGACTTAGCCCGG-TATAGCAACTACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATATAGC-A--ACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
*
75299236 AGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
62 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
75299276 CATCCGAATA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
119 18 0.19
120 5 0.05
122 70 0.75
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCGGATATAGCAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:75307251 original size:40 final size:40
Alignment explanation
Indices: 75307178--75307278 Score: 168
Period size: 40 Copynumber: 2.5 Consensus size: 40
75307168 ACCCAAGTAT
*
75307178 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
75307217 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
75307257 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
75307279 CATCTGAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
39 12 0.21
40 46 0.79
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:75318496 original size:40 final size:40
Alignment explanation
Indices: 75318459--75318636 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
75318449 GCTACTCGTT
*
75318459 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
75318499 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
*
75318539 C-AATGCCTTC-GG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
75318576 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
75318617 CAAA-GCCTTCGGGACTTAGC
1 CAAATGCCTTCGGGACTTAGC
75318637 TCGGACATCA
Statistics
Matches: 120, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
37 22 0.18
38 13 0.11
39 9 0.08
40 62 0.52
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:75318579 original size:77 final size:79
Alignment explanation
Indices: 75318461--75318628 Score: 209
Period size: 77 Copynumber: 2.1 Consensus size: 79
75318451 TACTCGTTCA
*
75318461 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTC-GGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
75318525 TTTAGTAAC-TCGCAC
64 TATAGTAACTTAGCAC
* **
75318540 AATGCCTTCGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
75318603 ATAGTCACTTAGCAC
65 ATAGTAACTTAGCAC
*
75318618 AAAGCCTTCGG
1 AATGCCTTCGG
75318629 GACTTAGCTC
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
76 4 0.05
77 48 0.62
78 17 0.22
79 9 0.12
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:75320024 original size:39 final size:39
Alignment explanation
Indices: 75319970--75320046 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
75319960 TCTCTCTTCC
75319970 TTAGAACATTCGGCCAAGAGCTATGAAGAAAGAGGGACT
1 TTAGAACATTCGGCCAAGAGCTATGAAGAAAGAGGGACT
75320009 TTAGAACATTCGGCCAAGAGCTATGAAGAAAGAGGGAC
1 TTAGAACATTCGGCCAAGAGCTATGAAGAAAGAGGGAC
75320047 ACTTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.17
Consensus pattern (39 bp):
TTAGAACATTCGGCCAAGAGCTATGAAGAAAGAGGGACT
Found at i:75322527 original size:14 final size:15
Alignment explanation
Indices: 75322500--75322529 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
75322490 TGGACTTAAG
75322500 GATTAATGCATAAAA
1 GATTAATGCATAAAA
75322515 GATTAAT-CATAAAA
1 GATTAATGCATAAAA
75322529 G
1 G
75322530 GTTACGTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
GATTAATGCATAAAA
Found at i:75328945 original size:12 final size:12
Alignment explanation
Indices: 75328928--75328954 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
75328918 GTACAAGGTT
75328928 GTGTGCTAGGCC
1 GTGTGCTAGGCC
75328940 GTGTGCTAGGCC
1 GTGTGCTAGGCC
75328952 GTG
1 GTG
75328955 CCAATCCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.44, T:0.26
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:75343112 original size:44 final size:46
Alignment explanation
Indices: 75343063--75343178 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 46
75343053 TATGCGTATT
*
75343063 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-GTC
1 GATGCATGTCCCAGACATGTCTTACACTAG-ACAACTCTGTCAGGCC
* * * * *
75343107 GATGCATGTCCCTGACACGTCTTACACTAGATATCTTTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGACAACTCTGTC-AGGCC
75343154 GATGCATGTCCCAGACATGTCTTAC
1 GATGCATGTCCCAGACATGTCTTAC
75343179 TCTGGCACTC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 5 0.08
44 29 0.48
46 1 0.02
47 25 0.42
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGACAACTCTGTCAGGCC
Found at i:75343408 original size:15 final size:17
Alignment explanation
Indices: 75343388--75343419 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
75343378 TATAACTTAA
75343388 CAATTC-AT-ACAATAT
1 CAATTCAATGACAATAT
75343403 CAATTCAATGACAATAT
1 CAATTCAATGACAATAT
75343420 GAATACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (17 bp):
CAATTCAATGACAATAT
Found at i:75359182 original size:84 final size:84
Alignment explanation
Indices: 75358989--75359174 Score: 354
Period size: 84 Copynumber: 2.2 Consensus size: 84
75358979 CGACCTTAGG
*
75358989 CACGGGCGTGTGCCTTAGGCATGTGAAGTCTACACCTTTTTTATGAAAAATTTGAAAAATTAAAT
1 CACGGGCTTGTGCCTTAGGCATGTGAAGTCTACACCTTTTTTATGAAAAATTTGAAAAATTAAAT
75359054 CGAGCAAACAACCTAAGCA
66 CGAGCAAACAACCTAAGCA
75359073 CACGGGCTTGTGCCTTAGGCATGTGAAGTCTACACCTTTTTTATGAAAAATTTGAAAAATTAAAT
1 CACGGGCTTGTGCCTTAGGCATGTGAAGTCTACACCTTTTTTATGAAAAATTTGAAAAATTAAAT
*
75359138 CGAGCAGACAACCTAAGCA
66 CGAGCAAACAACCTAAGCA
75359157 CACGGGCTTGTGCCTTAG
1 CACGGGCTTGTGCCTTAG
75359175 CCGTGTGACT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 100 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (84 bp):
CACGGGCTTGTGCCTTAGGCATGTGAAGTCTACACCTTTTTTATGAAAAATTTGAAAAATTAAAT
CGAGCAAACAACCTAAGCA
Found at i:75369172 original size:44 final size:45
Alignment explanation
Indices: 75369079--75369210 Score: 167
Period size: 44 Copynumber: 3.0 Consensus size: 45
75369069 CCAAAACATG
* * * * **
75369079 TGTCATATATATCATGAACCCATACCTCAACTCAATGAGTTTGGA
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
* * *
75369124 TGTCACATATATCATGAACTCA-AACACATCTCAATAAGTTCAGA
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
*
75369168 TGTCACATGTATCATGAACTCAGACCACAACTCAATGAGTTCA
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCA
75369211 AATTACATAA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 37 0.50
45 37 0.50
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.28
Consensus pattern (45 bp):
TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:75380472 original size:2 final size:2
Alignment explanation
Indices: 75380465--75380492 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
75380455 GACATTGTAC
75380465 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75380493 TCGGCCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75381034 original size:28 final size:28
Alignment explanation
Indices: 75380965--75381065 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
75380955 GACAAGATTG
* * * *
75380965 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
75380995 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
75381023 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
*
75381052 GCACTAAGTTTGCG
1 GCACTAAGTGTGCG
75381066 GATTCACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 19 0.30
30 18 0.29
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:75388793 original size:28 final size:28
Alignment explanation
Indices: 75388724--75388824 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
75388714 GACAAGATTG
* * * *
75388724 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
75388754 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
75388782 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
75388811 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
75388825 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:75388818 original size:29 final size:28
Alignment explanation
Indices: 75388753--75388824 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
75388743 AAAATTGTAC
*
75388753 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
75388781 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
75388810 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
75388825 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:75397122 original size:48 final size:47
Alignment explanation
Indices: 75397024--75397393 Score: 318
Period size: 47 Copynumber: 7.8 Consensus size: 47
75397014 TTTGTGTGCC
* *
75397024 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-TATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTATGA-GAGAGCT
75397070 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-ATGA-GAGAGCT
* * * * *
75397118 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGC--TACGAGATGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATGAGA-GAGCT
* *
75397162 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGAG-GTGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTATGAGAGAG-CT
* * *
75397209 CAGTGTAAGACCATGTCTGGGACATGGCATCAGTACAGATATGTGAGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-G-GCA-TTATGAGAGAGCT
* * *
75397260 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTTTGATAG-TC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG---C-ATTATGAGAGAGCT
* *
75397309 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATG-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-ATGAGA-GAGCT
* *
75397356 AGTGCAAGACCATGTCTGGGACATGGCATCGGTATTAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAT
75397394 ACCTTATGTT
Statistics
Matches: 269, Mismatches: 29, Indels: 51
0.77 0.08 0.15
Matches are distributed among these distances:
43 3 0.01
44 18 0.07
45 16 0.06
46 26 0.10
47 63 0.23
48 59 0.22
49 36 0.13
50 36 0.13
51 10 0.04
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATGAGAGAGCT
Found at i:75398093 original size:49 final size:49
Alignment explanation
Indices: 75398021--75398120 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
75398011 TGTGATGTAG
75398021 GTTAGTGCAAGTAAGGGTGGCAAAAAGGCTTGGTAAATAGCCTTATTTT
1 GTTAGTGCAAGTAAGGGTGGCAAAAAGGCTTGGTAAATAGCCTTATTTT
75398070 GTTAGTGCAAGTAAGGGTGGCAAAAAGGCTTGGTAAATAGCCTTATTTT
1 GTTAGTGCAAGTAAGGGTGGCAAAAAGGCTTGGTAAATAGCCTTATTTT
75398119 GT
1 GT
75398121 CCACACGGGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.31
Consensus pattern (49 bp):
GTTAGTGCAAGTAAGGGTGGCAAAAAGGCTTGGTAAATAGCCTTATTTT
Found at i:75398358 original size:43 final size:43
Alignment explanation
Indices: 75398286--75398370 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
75398276 CAGCCGTGTG
* * *
75398286 GAGGACACGGCCTCCGGCCATGGGTGTGTGCCTTGGCCATGTA
1 GAGGACACGGCCTCCGGCAACGGGCGTGTGCCTTGGCCATGTA
*
75398329 GAGGACACGGCCTCTGGCAACGGGCGTGTGCCTTGGCCATGT
1 GAGGACACGGCCTCCGGCAACGGGCGTGTGCCTTGGCCATGT
75398371 GCCCCTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.14, C:0.28, G:0.38, T:0.20
Consensus pattern (43 bp):
GAGGACACGGCCTCCGGCAACGGGCGTGTGCCTTGGCCATGTA
Found at i:75398688 original size:28 final size:28
Alignment explanation
Indices: 75398625--75398688 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
75398615 GCCACACGGG
* *
75398625 CATGTTGCCCTTCCACAAAGGTGTGTTC
1 CATGTTTCCCTTCCACAAAGGCGTGTTC
* * * *
75398653 CCTATTTCCCTTCTACACAGGCGTGTTC
1 CATGTTTCCCTTCCACAAAGGCGTGTTC
75398681 CATGTTTC
1 CATGTTTC
75398689 AAGGGTCATT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (28 bp):
CATGTTTCCCTTCCACAAAGGCGTGTTC
Found at i:75406797 original size:27 final size:27
Alignment explanation
Indices: 75406767--75407036 Score: 207
Period size: 27 Copynumber: 9.6 Consensus size: 27
75406757 AAAGTATCCC
* *
75406767 CGATTTACATAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* * *
75406794 CGATTTATAGAAGTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
** * **
75406821 TAATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* * *
75406848 TGATTTACAAAATTACCATTTTACCCC
1 CGATTTACAGAATTACCATTTTACCCT
* *
75406875 CGATTTACATAATTACCATTTTACCCC
1 CGATTTACAGAATTACCATTTTACCCT
* * *
75406902 CGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCT
1 CG-ATT----T--AC--AG--AATTACCATTTTACCCT
* * *
75406940 CGATTTACAAAATTATCATTTTACCGT
1 CGATTTACAGAATTACCATTTTACCCT
* *
75406967 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
75406994 TGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
*
75407021 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
75407037 AGAAATACCC
Statistics
Matches: 199, Mismatches: 33, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
27 170 0.85
28 2 0.01
29 1 0.01
31 2 0.01
32 1 0.01
33 1 0.01
34 2 0.01
36 1 0.01
37 2 0.01
38 17 0.09
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCATTTTACCCT
Found at i:75406908 original size:38 final size:38
Alignment explanation
Indices: 75406866--75406947 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
75406856 AAAATTACCA
* *
75406866 TTTTACCCCCGATTTACATAATTACCATTTTACCCCCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
* * *
75406904 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
*
75406942 ATTTAC
1 TTTTAC
75406948 AAAATTATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.23, C:0.32, G:0.07, T:0.38
Consensus pattern (38 bp):
TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
Found at i:75406909 original size:65 final size:65
Alignment explanation
Indices: 75406838--75406964 Score: 191
Period size: 65 Copynumber: 2.0 Consensus size: 65
75406828 TAGAATTACT
* * *
75406838 GTTTTACCCTTGATTTACAAAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCCCC
1 GTTTTACCCTCGACTTACAAAATTACCATTTTACCCCCGATTTACAAAATTACCATTTTACCCCC
* * * *
75406903 GTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCATTTTACC
1 GTTTTACCCTCGACTTACAAAATTACCATTTTACCCCCGATTTACAAAATTACCATTTTACC
75406965 GTCGATTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (65 bp):
GTTTTACCCTCGACTTACAAAATTACCATTTTACCCCCGATTTACAAAATTACCATTTTACCCCC
Found at i:75406928 original size:92 final size:92
Alignment explanation
Indices: 75406809--75406992 Score: 260
Period size: 92 Copynumber: 2.0 Consensus size: 92
75406799 TATAGAAGTA
* * * * *
75406809 CCGTTTTACCCTTAATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTACCATTTTACCC
1 CCGTTTTACCCTCAACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCC
*
75406874 CCGATTTACATAATTACCATTTTACCC
66 CCGATTTACAGAATTACCATTTTACCC
* * *
75406901 CCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCATTTTACCG
1 CCGTTTTACCCTCAACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCC
* * *
75406966 TCGATTTATAGAATTACTATTTTACCC
66 CCGATTTACAGAATTACCATTTTACCC
75406993 TTGATTTACA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (92 bp):
CCGTTTTACCCTCAACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCC
CCGATTTACAGAATTACCATTTTACCC
Found at i:75406946 original size:119 final size:119
Alignment explanation
Indices: 75406782--75407028 Score: 307
Period size: 119 Copynumber: 2.1 Consensus size: 119
75406772 TACATAATTA
* * * * * *
75406782 CCGTTTTACCCTCGATTTATAGAAGTACCGTTTTACCCTTAATTTATAGAATTA-CTGTTTTACC
1 CCGTTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCAATTTACAAAATTATC-ATTTTACC
* *
75406846 CTTGATTTACAAAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCC
65 CTCGATTTACAAAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCC
* * *
75406901 CCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCATTTTACCG
1 CCGTTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCAATTTACAAAATTATCATTTTACCC
* * * ** *
75406966 TCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCC
66 TCGATTTACAAAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCC
* *
75407020 TCGATTTAC
1 CCGTTTTAC
75407029 AAAATTACAG
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
119 107 0.99
120 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (119 bp):
CCGTTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCAATTTACAAAATTATCATTTTACCC
TCGATTTACAAAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCC
Found at i:75407025 original size:146 final size:146
Alignment explanation
Indices: 75406771--75407036 Score: 406
Period size: 146 Copynumber: 1.8 Consensus size: 146
75406761 TATCCCCGAT
* * * * *
75406771 TTACATAATTACCGTTTTACCCTCGATTTATAGAAGTACCGTTTTACCCTTAATTTATAGAATTA
1 TTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCATTTTACCCTCAATTTATAGAATTA
* *
75406836 CTGTTTTACCCTTGATTTACAAAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCC
66 CTATTTTACCCTTGATTTACAAAATTACCATTTTACCCCCGATTTACAAAATTACCATTTTACCC
75406901 CCGTTTTACCCTCGAC
131 CCGTTTTACCCTCGAC
* * * *
75406917 TTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCATTTTACCGTCGATTTATAGAATTA
1 TTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCATTTTACCCTCAATTTATAGAATTA
* * *
75406982 CTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
66 CTATTTTACCCTTGATTTACAAAATTACCATTTTACCCCCGATTTACAAAATTAC
75407037 AGAAATACCC
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
146 106 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (146 bp):
TTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCATTTTACCCTCAATTTATAGAATTA
CTATTTTACCCTTGATTTACAAAATTACCATTTTACCCCCGATTTACAAAATTACCATTTTACCC
CCGTTTTACCCTCGAC
Found at i:75407045 original size:27 final size:27
Alignment explanation
Indices: 75407015--75407238 Score: 145
Period size: 27 Copynumber: 8.2 Consensus size: 27
75407005 ATTACTATTT
*
75407015 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTCGATTTGCAAAATTACAGAAA
* *
75407042 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTCGATTTGCAAAATTA-CAGAAA
* *
75407069 TACCC-CTAGTTTGTAAAATTATCA-AAA
1 TACCCTCGA-TTTGCAAAATTA-CAGAAA
* * ** *
75407096 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTGCAAAATTACAGAAA
* *
75407123 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTCGATTTGCAAAATTA-CAGAAA
* *
75407150 TACCC-CTGATTTACAAAGTTACAGAAA
1 TACCCTC-GATTTGCAAAATTACAGAAA
* *
75407177 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTCGA-TTTGC--AAAATTACAGAAA
* * * * *
75407206 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTGCAAAATTACAGAAA
75407233 TACCCT
1 TACCCT
75407239 TGGTTTGTAG
Statistics
Matches: 158, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
26 6 0.04
27 124 0.78
28 9 0.06
29 19 0.12
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGCAAAATTACAGAAA
Found at i:75407073 original size:81 final size:81
Alignment explanation
Indices: 75406907--75407164 Score: 209
Period size: 81 Copynumber: 3.2 Consensus size: 81
75406897 ACCCCCGTTT
* * ** *** * *
75406907 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCA-TTTTACCGTCGAT
1 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTA-CAGAAATACCCTCAAT
* * * ***
75406971 TTATAGAATTACTATTT
65 TTGTAAAATTACCAAAA
75406988 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
1 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
75407053 TGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
* * *** * * *** *
75407069 TACCCCTAGTTTGTA-A-AATTA-TCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTCA
1 TA-CCCTTGATT-TACAGAATTACT-ATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCA
75407131 ATTTGTAAAATTACCAAAA
63 ATTTGTAAAATTACCAAAA
*
75407150 TACCCCTGATTTACA
1 TACCCTTGATTTACA
75407165 AAGTTACAGA
Statistics
Matches: 143, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
79 2 0.01
80 10 0.07
81 121 0.85
82 8 0.06
83 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (81 bp):
TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
TGTAAAATTACCAAAA
Found at i:75407178 original size:81 final size:81
Alignment explanation
Indices: 75407030--75407184 Score: 244
Period size: 81 Copynumber: 1.9 Consensus size: 81
75407020 TCGATTTACA
*
75407030 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
1 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
75407095 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
*
75407111 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTATCA
75407173 GAAATACCCTTG
64 -AAATACCCTTG
75407185 ACTTTCTAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
79 2 0.03
80 8 0.12
81 59 0.86
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
ATACCCTTGGTTTGTG
Found at i:75407244 original size:27 final size:27
Alignment explanation
Indices: 75406988--75407240 Score: 129
Period size: 27 Copynumber: 9.3 Consensus size: 27
75406978 ATTACTATTT
* **
75406988 TACCCTTGATTTACAGAATTACT-ATTT
1 TACCCTTGATTTACAAAATTACTGA-AA
* *
75407015 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
** ** **
75407042 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* ** *
75407069 TACCCCT-AGTTTGTAAAATTA-TCAAAA
1 TACCCTTGA-TTTACAAAATTACT-GAAA
* *** *
75407096 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
** ** **
75407123 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * *
75407150 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
75407177 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
75407206 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
75407233 TACCCTTG
1 TACCCTTG
75407241 GTTTGTAGAT
Statistics
Matches: 178, Mismatches: 37, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.01
27 151 0.85
28 8 0.04
29 18 0.10
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:75408747 original size:40 final size:39
Alignment explanation
Indices: 75408702--75408907 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
75408692 CGGAATACAA
*
75408702 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
75408742 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
75408782 CCGGATTTAACAACTTGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
75408821 CCGGATGT-GTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
75408860 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
75408900 CCGGATAT
1 CCGGATAT
75408908 CATTCAATTG
Statistics
Matches: 139, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
37 4 0.03
38 12 0.09
39 30 0.22
40 90 0.65
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:75408890 original size:78 final size:80
Alignment explanation
Indices: 75408702--75408906 Score: 213
Period size: 78 Copynumber: 2.6 Consensus size: 80
75408692 CGGAATACAA
* * *
75408702 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAT
*
75408766 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * **
75408782 CCGGATTTAACAACTTGCACGAATGCCTTC-GGTCTTAGCCCGGAT-GTGTC-ACTAGCAC-AAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAG-AACGACTAGCACAAAT
*
75408843 GGCCTTCGGGTCTTAAC
65 -GCCTTCGGGTATTAAC
** * * *
75408860 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
75408907 TCATTCAATT
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
77 3 0.03
78 45 0.43
79 30 0.29
80 26 0.25
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:75412725 original size:29 final size:28
Alignment explanation
Indices: 75412637--75412738 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 28
75412627 TACTCAATCA
* *
75412637 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * *
75412666 CGCACACATAGTGCCATATAGTCCCAA-CT
1 CGCACACTTAGTGCCGTACA-T-TCAAGCT
75412695 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
75412724 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
75412739 AATCTCGTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 47 0.81
30 3 0.05
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:75414954 original size:25 final size:25
Alignment explanation
Indices: 75414925--75414972 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
75414915 TTATAATATG
* *
75414925 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
75414950 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
75414973 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:75415039 original size:20 final size:20
Alignment explanation
Indices: 75415016--75415099 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
75415006 TAAACATGTT
75415016 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
75415036 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
75415056 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
75415076 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
75415096 ATGT
1 ATGT
75415100 TCATAAATGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:75415056 original size:11 final size:11
Alignment explanation
Indices: 75415020--75415094 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
75415010 CATGTTATGT
75415020 ATGATATGCAC
1 ATGATATGCAC
* *
75415031 ATGACATG--T
1 ATGATATGCAC
75415040 ATGATATGCAC
1 ATGATATGCAC
*
75415051 ATGATATG--T
1 ATGATATGCAC
75415060 ATGATATGCAC
1 ATGATATGCAC
* *
75415071 ATGACATG--T
1 ATGATATGCAC
75415080 ATGATATGCAC
1 ATGATATGCAC
75415091 ATGA
1 ATGA
75415095 GATGTTCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:75415237 original size:24 final size:24
Alignment explanation
Indices: 75415146--75415338 Score: 252
Period size: 25 Copynumber: 8.0 Consensus size: 24
75415136 AGGAAGTGCA
75415146 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
75415169 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
75415192 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
75415217 AAAGGGCTTATG-CCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
75415241 GAAGGGCTTATGCCCCAGTTGTGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
75415266 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
75415290 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
75415314 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
75415339 GATAAAGCAG
Statistics
Matches: 155, Mismatches: 8, Indels: 12
0.89 0.05 0.07
Matches are distributed among these distances:
23 45 0.29
24 54 0.35
25 56 0.36
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:75415259 original size:49 final size:49
Alignment explanation
Indices: 75415146--75415310 Score: 257
Period size: 49 Copynumber: 3.4 Consensus size: 49
75415136 AGGAAGTGCA
75415146 AAAGGGCTTATGCCCCAGTTAT--TAAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATAT
75415192 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATG-CCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT-AT
* * *
75415241 GAAGGGCTTATGCCCCAGTTGTGATAAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATAT
*
75415290 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
75415311 CTAAAAGAGG
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
46 22 0.20
47 9 0.08
48 13 0.12
49 55 0.51
50 9 0.08
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATAT
Found at i:75415581 original size:29 final size:31
Alignment explanation
Indices: 75415530--75415591 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
75415520 CGTTTACAGT
*
75415530 AAAGGCTTCGGCCCAGTAATATGAAAT-TGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
75415560 AAAGGCTTCAG-CCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
75415590 AA
1 AA
75415592 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:75416890 original size:29 final size:30
Alignment explanation
Indices: 75416837--75416894 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
75416827 CGAAAGTTTT
75416837 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
75416867 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
75416895 CGGCTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:75421376 original size:28 final size:28
Alignment explanation
Indices: 75421344--75421412 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
75421334 CAATGCCTCA
* *
75421344 CACACTAAGTGCCATACTGGATATCTTG
1 CACACTAAGTGCCACACTCGATATCTTG
75421372 CACACTAAGTGCCACACTCGATATCTTG
1 CACACTAAGTGCCACACTCGATATCTTG
75421400 CACACTAAGTGCC
1 CACACTAAGTGCC
75421413 GTACATAGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (28 bp):
CACACTAAGTGCCACACTCGATATCTTG
Found at i:75421461 original size:40 final size:40
Alignment explanation
Indices: 75421400--75421493 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 40
75421390 CGATATCTTG
* *
75421400 CACACTAAGTGCCGTACATAGCCGAAGCTATCTCCAATCA
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCCAATCA
* * * * *
75421440 CACACTAAGTTCCATATATAGCCAAAGCTATGTCGAATCG
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCCAATCA
*
75421480 CACACCAAGTGCCA
1 CACACTAAGTGCCA
75421494 CAAATAGTCG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCAAAGCTATCTCCAATCA
Found at i:75423983 original size:30 final size:30
Alignment explanation
Indices: 75423947--75424030 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
75423937 GTATGCTAAA
*
75423947 CGATGGTCGAAACCATCCCTTTTCTTTAAT
1 CGATGGTCAAAACCATCCCTTTTCTTTAAT
*
75423977 CGATGGTCAAAACCATCCATTTTCTTTAAT
1 CGATGGTCAAAACCATCCCTTTTCTTTAAT
*
75424007 CGATAGTCAAAACCATCCCTTTTC
1 CGATGGTCAAAACCATCCCTTTTC
75424031 ATATTTGATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (30 bp):
CGATGGTCAAAACCATCCCTTTTCTTTAAT
Found at i:75425024 original size:25 final size:25
Alignment explanation
Indices: 75424990--75425039 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
75424980 TGGATCTAAA
75424990 AACTAAACCTCATCCCCAAACTATC
1 AACTAAACCTCATCCCCAAACTATC
75425015 AACTAAACCTCATCCCCAAACTATC
1 AACTAAACCTCATCCCCAAACTATC
75425040 TTTTTTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (25 bp):
AACTAAACCTCATCCCCAAACTATC
Found at i:75426179 original size:28 final size:28
Alignment explanation
Indices: 75426139--75426198 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
75426129 CTTTAATTAA
75426139 GTATTGTACGATTGTTTTGAACATTTCC
1 GTATTGTACGATTGTTTTGAACATTTCC
75426167 GTATTGTACGATTGTTTTGAACATTTCC
1 GTATTGTACGATTGTTTTGAACATTTCC
75426195 GTAT
1 GTAT
75426199 AACCAATTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (28 bp):
GTATTGTACGATTGTTTTGAACATTTCC
Found at i:75427241 original size:20 final size:20
Alignment explanation
Indices: 75427200--75427240 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
75427190 TATTATAATT
*
75427200 ATTTTAATAAATATATTAAA
1 ATTTTAATAAATATAATAAA
*
75427220 ATTTTAATAAAATGTAATAAA
1 ATTTTAAT-AAATATAATAAA
75427241 TAATTAAAAT
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:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTTAATAAATATAATAAA
Found at i:75437325 original size:40 final size:39
Alignment explanation
Indices: 75437281--75437505 Score: 263
Period size: 40 Copynumber: 5.7 Consensus size: 39
75437271 GCCACTAGCT
* *
75437281 CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
75437321 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* * * *
75437360 CAAATGCCTTCGGGACTTAGCCCAGATATAATAGCTCGCG
1 CAAATGCCTTCGGGACTTAGCCC-GGTATAGTAACTCGCA
* *
75437400 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
75437440 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
75437480 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
75437506 TATCATCCGA
Statistics
Matches: 161, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 39 0.24
40 122 0.76
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:75437409 original size:79 final size:80
Alignment explanation
Indices: 75437281--75437462 Score: 258
Period size: 79 Copynumber: 2.3 Consensus size: 80
75437271 GCCACTAGCT
* * * * * *
75437281 CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
75437346 -TATAATAACTCGCA
66 ATATAATAACTCGCA
* *
75437360 CAAATGCCTTCGGGACTTAGCCCAGATATAATAGCTCGCGCAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* *
75437425 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
75437440 CGAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
75437463 GGAATTAGCC
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 57 0.63
80 34 0.37
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:75457242 original size:32 final size:33
Alignment explanation
Indices: 75457161--75457239 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 33
75457151 TCATTTTTAG
* *
75457161 AAAATAAAAAGTTACAAAAAATTATTGAAATTATA
1 AAAATAAAAA-TT-TAAAAAATTACTGAAATTATA
75457196 AAAATAAAAATTTAAAAAATTACT-AAATTA-A
1 AAAATAAAAATTTAAAAAATTACTGAAATTATA
*
75457227 AAAGTAAAAATTT
1 AAAATAAAAATTT
75457240 TAATATTTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 13 0.32
32 6 0.15
33 10 0.24
34 2 0.05
35 10 0.24
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.29
Consensus pattern (33 bp):
AAAATAAAAATTTAAAAAATTACTGAAATTATA
Found at i:75457255 original size:15 final size:15
Alignment explanation
Indices: 75457235--75457287 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
75457225 AAAAAGTAAA
75457235 AATTTTAATATTTTG
1 AATTTTAATATTTTG
* ** *
75457250 AATTTTATAAATCATA
1 AATTTTA-ATATTTTG
75457266 AATTTTAATATTTTG
1 AATTTTAATATTTTG
75457281 AATTTTA
1 AATTTTA
75457288 TAAATCATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (15 bp):
AATTTTAATATTTTG
Found at i:75457269 original size:31 final size:31
Alignment explanation
Indices: 75457234--75457296 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
75457224 TAAAAAGTAA
75457234 AAATTTTAATATTTTGAATTTTATAAATCAT
1 AAATTTTAATATTTTGAATTTTATAAATCAT
75457265 AAATTTTAATATTTTGAATTTTATAAATCAT
1 AAATTTTAATATTTTGAATTTTATAAATCAT
75457296 A
1 A
75457297 TTTGTTAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (31 bp):
AAATTTTAATATTTTGAATTTTATAAATCAT
Found at i:75457647 original size:17 final size:18
Alignment explanation
Indices: 75457625--75457662 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
75457615 CCTTAAAAAA
*
75457625 TTTGAATCC-TAATGTTT
1 TTTGAATCCTTAATATTT
75457642 TTTGAATCCTTAATATTT
1 TTTGAATCCTTAATATTT
75457660 TTT
1 TTT
75457663 TTATCACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.58
Consensus pattern (18 bp):
TTTGAATCCTTAATATTT
Found at i:75463581 original size:37 final size:37
Alignment explanation
Indices: 75463525--75463627 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
75463515 CGAATAGTCC
*
75463525 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* * *
75463562 CCATACGTAGTCATTGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
75463599 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
75463628 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:75463826 original size:48 final size:48
Alignment explanation
Indices: 75463768--75464454 Score: 1221
Period size: 48 Copynumber: 14.3 Consensus size: 48
75463758 ATATACACAC
* * *
75463768 ATCTCCTACATATTCCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
75463816 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
75463864 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
75463912 ATCTCATATATATTTCACATTAACCATCCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
75463960 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
75464008 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
75464056 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
75464104 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACAACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
75464152 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
75464200 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
75464248 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
75464296 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
75464344 ATCTCATAAATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
75464392 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
75464440 ATCTCATACATATTT
1 ATCTCATACATATTT
75464455 ATCTTGTACA
Statistics
Matches: 617, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 617 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:75467864 original size:40 final size:40
Alignment explanation
Indices: 75467818--75468136 Score: 539
Period size: 40 Copynumber: 8.0 Consensus size: 40
75467808 GAATGCACAT
* * *
75467818 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
75467858 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
75467898 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
75467938 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
75467978 CACCAGCACGAATGCTCTTCGGGACTTAGCCTGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
75468018 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
75468058 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACAAAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
75468098 CACCAGCACGAATACTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
75468137 TAACTCTCAA
Statistics
Matches: 264, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:75469462 original size:37 final size:37
Alignment explanation
Indices: 75469409--75469547 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
75469399 CGAATAGTCC
*
75469409 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
75469446 CCACACGTAGTCATCGGGTCTTACCCGGAC-AAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
75469482 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
75469519 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
75469548 ATATATTTCC
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
36 36 0.36
37 63 0.64
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:75469528 original size:73 final size:73
Alignment explanation
Indices: 75469409--75469547 Score: 260
Period size: 73 Copynumber: 1.9 Consensus size: 73
75469399 CGAATAGTCC
*
75469409 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
75469474 ACAAATCT
66 ACAAATCT
*
75469482 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCGG
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
75469547 A
66 A
75469548 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (73 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
ACAAATCT
Found at i:75469711 original size:48 final size:48
Alignment explanation
Indices: 75469653--75469989 Score: 606
Period size: 48 Copynumber: 7.1 Consensus size: 48
75469643 AATACACACC
* *
75469653 TTTCACACTAGCCATTCGGCTTTACCACATATACTTATCTCATGCATA
1 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
*
75469701 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATA
1 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
*
75469749 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATA
1 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
75469797 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
1 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
*
75469845 TTT--CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATA
1 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
75469891 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
1 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
*
75469939 TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
1 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
75469987 TTT
1 TTT
75469990 ATCTTGTACA
Statistics
Matches: 281, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
46 45 0.16
48 236 0.84
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.36
Consensus pattern (48 bp):
TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
Found at i:75469911 original size:142 final size:143
Alignment explanation
Indices: 75469653--75469990 Score: 624
Period size: 142 Copynumber: 2.4 Consensus size: 143
75469643 AATACACACC
* *
75469653 TTTCACACTAGCCATTCGGCTTTACCACATATACTTATCTCATGCATATTTCACACTAGCCATTC
1 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT-ACACTAGCCATTC
75469718 GGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATAC
65 GGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATAC
*
75469783 ATATCTCATTCATA
130 ATATCTCATACATA
75469797 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT-CACTAGCCATTCG
1 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTACACTAGCCATTCG
75469861 GCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACA
75469926 TATCTCATACATA
131 TATCTCATACATA
*
75469939 TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTA
1 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTA
75469991 TCTTGTACAT
Statistics
Matches: 189, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
142 140 0.74
144 49 0.26
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.36
Consensus pattern (143 bp):
TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTACACTAGCCATTCG
GCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACA
TATCTCATACATA
Found at i:75477063 original size:40 final size:40
Alignment explanation
Indices: 75476993--75477174 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
75476983 AACCCAAGTA
*
75476993 CCTTCGGGAATTAG-CCGGATATAG-CAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
75477032 CCTTCGGGTCTTAGCCCGGATACAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
75477072 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
75477112 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
75477152 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
75477175 CATCCGAATA
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.09
40 119 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:75484961 original size:40 final size:40
Alignment explanation
Indices: 75484887--75485148 Score: 402
Period size: 40 Copynumber: 6.6 Consensus size: 40
75484877 AACCCAAGTA
* *
75484887 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
75484926 CCTTCGGGTCTTAGCCCGGATACAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
75484966 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
75485006 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
75485046 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
75485086 CCTTCGGGACTTAGCTCAGATACAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
75485126 CCTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
75485149 CATCCGAATA
Statistics
Matches: 204, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.06
40 191 0.94
41 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:75490780 original size:3 final size:3
Alignment explanation
Indices: 75490772--75490802 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
75490762 ATATTTATAA
*
75490772 ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
75490803 GATAGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:75491750 original size:13 final size:13
Alignment explanation
Indices: 75491729--75491776 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
75491719 AGGATTCAGT
*
75491729 TTTTTTCTTCTTC
1 TTTTCTCTTCTTC
*
75491742 TTTTCTCTTCATC
1 TTTTCTCTTCTTC
75491755 TACTTTCTCTTCTTC
1 T--TTTCTCTTCTTC
75491770 TTTTCTC
1 TTTTCTC
75491777 CAATAGCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 18 0.60
15 12 0.40
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTCTCTTCTTC
Found at i:75505096 original size:53 final size:53
Alignment explanation
Indices: 75504914--75505120 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 53
75504904 ATTAGGGTTT
* * * * * * *
75504914 AAGGATACCAAGTAAGAACATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATGGTAAG-TTCATAAGGC
* * * * * *
75504968 AAGGAAATCATGTAAGACCATGTCAAGAG-ATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAG-GCATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
75505023 AAAGATCCCATATAAGACCATGTCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATGGTAAGTTCATAAGGC
* *
75505076 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATGGTAAGTT
75505121 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
53 46 0.38
54 36 0.30
55 40 0.33
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATGGTAAGTTCATAAGGC
Found at i:75514364 original size:27 final size:27
Alignment explanation
Indices: 75514334--75514647 Score: 385
Period size: 27 Copynumber: 11.6 Consensus size: 27
75514324 TTAGTTTACC
*
75514334 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
75514361 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
75514388 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
75514415 AAATTACTAGAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
75514442 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
75514469 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
75514496 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * *
75514523 AAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
75514550 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
75514577 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
75514604 AAATTACCAAAATACCTCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
75514631 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
75514648 TCGACCTGTA
Statistics
Matches: 248, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 248 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:75514397 original size:54 final size:54
Alignment explanation
Indices: 75514334--75514648 Score: 443
Period size: 54 Copynumber: 5.8 Consensus size: 54
75514324 TTAGTTTACC
* *
75514334 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
75514388 AAATCACCAAAATACCCTTGGTTTGTAAAATTACTAGAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
75514442 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
75514496 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
75514550 AAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCCTTGGTTTATA
* ** * *
75514604 AAATTACCAAAATACCTCTAATTTGTGAAATTACTGAAATACCCT
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
75514649 CGACCTGTAA
Statistics
Matches: 239, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
53 1 0.00
54 237 0.99
55 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:75514658 original size:81 final size:81
Alignment explanation
Indices: 75514334--75514708 Score: 328
Period size: 81 Copynumber: 4.6 Consensus size: 81
75514324 TTAGTTTACC
* * * * ** * *
75514334 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTAGAATACC-CTTGGTTTATAAAATCACCAA
1 AAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTC-TAATTTGTAAAATTACCAA
* *
75514398 AATACCCTTGGTTTGTA
65 AATACCCTCGATTTGTA
* * * * **
75514415 AAATTA-CTAGAATACCCCTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AAATTATC-AAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTAATTTGTAAAATTACCAA
* * *
75514479 AATACCCTTGGTTTATA
65 AATACCCTCGATTTGTA
* * * ** *
75514496 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTTGTTTATAAAATTACCAAA
1 AAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTAATTTGTAAAATTACCAAA
*
75514561 ATACCC-CTAGTTTGTA
66 ATACCCTCGA-TTTGTA
* * **
75514577 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAATTTGTGAAATTACTGAA
1 AAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTAATTTGTAAAATTACCAAA
**
75514642 ATACCCTCGACCTGTA
66 ATACCCTCGATTTGTA
* ** ** *
75514658 AATTTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACC-CTTAATTT
1 AAATTATCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCTC-TAATTT
75514709 ACAGAATTAC
Statistics
Matches: 246, Mismatches: 41, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
80 6 0.02
81 236 0.96
82 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (81 bp):
AAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTAATTTGTAAAATTACCAAA
ATACCCTCGATTTGTA
Found at i:75514700 original size:27 final size:27
Alignment explanation
Indices: 75514334--75514702 Score: 275
Period size: 27 Copynumber: 13.7 Consensus size: 27
75514324 TTAGTTTACC
* *
75514334 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * * *
75514361 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
75514388 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
75514415 AAATTACTAGAATACCC-CTGGTTTATA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
75514442 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
75514469 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
75514496 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
75514523 AAATTACTAAAATACCTTTTG-TTTATA
1 AAATTACCAAAATACC-CTCGATTTGTA
*
75514550 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
75514577 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
75514604 AAATTACCAAAATA-CCTCTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
75514631 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** *
75514658 AATTTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
75514685 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
75514703 TAATTTACAG
Statistics
Matches: 284, Mismatches: 48, Indels: 20
0.81 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 276 0.97
28 6 0.02
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:75514777 original size:27 final size:27
Alignment explanation
Indices: 75514740--75514937 Score: 270
Period size: 27 Copynumber: 7.3 Consensus size: 27
75514730 TGATTTACAA
*
75514740 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
75514767 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
75514794 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
75514821 AATTACTAAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
75514848 AATTACTGAAATACCCCTATAAGGTTG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
75514875 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
75514902 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
75514929 ACTTACTGA
1 AATTACTGA
75514938 GAACCTTTGT
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:75515336 original size:27 final size:27
Alignment explanation
Indices: 75515272--75515355 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
75515262 TCTCGCTGCA
* *
75515272 ATCTGGTGGCTTAGCCACATATATATATCT
1 ATCTGGTGGCTTAGCCAC--A-ATATCTGT
*
75515302 ATTCTGGTGGCCTAGCCACAATATCTGT
1 A-TCTGGTGGCTTAGCCACAATATCTGT
* * *
75515330 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGGCTTAGCCACAATATCTG
75515356 GCAGCCTTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 21 0.46
28 7 0.15
29 1 0.02
30 1 0.02
31 16 0.35
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
ATCTGGTGGCTTAGCCACAATATCTGT
Found at i:75515511 original size:6 final size:6
Alignment explanation
Indices: 75515474--75515561 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
75515464 TTGCATTCAC
* * *
75515474 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
75515523 -TCACCTG ATTCTG ATTTTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
75515562 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:75515519 original size:31 final size:31
Alignment explanation
Indices: 75515474--75515552 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
75515464 TTGCATTCAC
* * *
75515474 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
75515505 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
75515536 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
75515553 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:75515561 original size:18 final size:18
Alignment explanation
Indices: 75515474--75515561 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
75515464 TTGCATTCAC
* *
75515474 ATTCTAATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
*
75515492 -TTACCTGATACTGATTCTG
1 ATT--CTGATTCTGATTCTG
*
75515511 ATTCTGATTCTG-TCACCTG
1 ATTCTGATTCTGAT--TCTG
*
75515530 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
75515548 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
75515562 AATGTTTCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
17 4 0.07
18 22 0.40
19 26 0.47
20 3 0.05
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:75520706 original size:31 final size:31
Alignment explanation
Indices: 75520663--75520726 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
75520653 ACAAATCTTA
75520663 GTAAGAAAAATATTTTAATCTTATTTTCTGT
1 GTAAGAAAAATATTTTAATCTTATTTTCTGT
*
75520694 GTAATAAAAATATTTTAATCTTATTTTCTGT
1 GTAAGAAAAATATTTTAATCTTATTTTCTGT
75520725 GT
1 GT
75520727 TTACAGCATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.50
Consensus pattern (31 bp):
GTAAGAAAAATATTTTAATCTTATTTTCTGT
Found at i:75525097 original size:28 final size:28
Alignment explanation
Indices: 75525065--75525163 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
75525055 GCCATAAGCC
*
75525065 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
75525093 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
75525121 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
75525150 CGCACACTTAGTGC
1 CGCACACTTAGTGC
75525164 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:75532768 original size:28 final size:28
Alignment explanation
Indices: 75532736--75532834 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
75532726 TGCATAAGCC
*
75532736 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
75532764 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
75532792 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
75532821 CGCACACTTAGTGC
1 CGCACACTTAGTGC
75532835 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:75539371 original size:37 final size:36
Alignment explanation
Indices: 75539318--75539407 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 36
75539308 TATAAAAGAA
75539318 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATC-G
* *
75539355 GTCTTACCCGGTCATAATTTCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
75539391 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
75539408 TTCCAAGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 11 0.23
37 37 0.77
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:75539556 original size:49 final size:49
Alignment explanation
Indices: 75539502--75539815 Score: 562
Period size: 49 Copynumber: 6.5 Consensus size: 49
75539492 TTTTGCATTA
* *
75539502 GCCATTAGGCCTTATCACATGTACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
75539551 GCCATTAGGCCTTATCACATATACATACACTTCCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
75539600 GCCATTAGGCCTTATCACATAT--ATACACTTTCACATTCATCACAT-G
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
75539646 GCCATTAGGCCTTATCATATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
75539695 GCCATTAGGCCTTATCATATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
75539744 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
75539793 GCCATTAGGCCTTATCACATATA
1 GCCATTAGGCCTTATCACATATA
75539816 TATGTATATC
Statistics
Matches: 256, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
46 22 0.09
47 22 0.09
48 23 0.09
49 189 0.74
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
Found at i:75539657 original size:144 final size:146
Alignment explanation
Indices: 75539502--75539815 Score: 560
Period size: 144 Copynumber: 2.2 Consensus size: 146
75539492 TTTTGCATTA
*
75539502 GCCATTAGGCCTTATCACATGTACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
75539567 ACATATACATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATAT-ATACACTTT
66 ACATATACATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATAATACACTTT
75539631 CACATTCATCACAT-G
131 CACATTCATCACATCG
* *
75539646 GCCATTAGGCCTTATCATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
* *
75539711 ATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTT
66 ACATATACATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATA-ATACACTT
75539776 TCACATTCATCACATCG
130 TCACATTCATCACATCG
75539793 GCCATTAGGCCTTATCACATATA
1 GCCATTAGGCCTTATCACATATA
75539816 TATGTATATC
Statistics
Matches: 161, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
144 115 0.71
146 23 0.14
147 23 0.14
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (146 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
ACATATACATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATAATACACTTT
CACATTCATCACATCG
Found at i:75547773 original size:13 final size:13
Alignment explanation
Indices: 75547755--75547779 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75547745 TATGTGATAT
75547755 GTGTGAAAATTTC
1 GTGTGAAAATTTC
75547768 GTGTGAAAATTT
1 GTGTGAAAATTT
75547780 TATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:75554905 original size:28 final size:28
Alignment explanation
Indices: 75554873--75554942 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
75554863 AATGAGATTG
75554873 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
75554901 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
75554929 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
75554943 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:75559933 original size:43 final size:43
Alignment explanation
Indices: 75559886--75560041 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 43
75559876 TGAGATTACA
*
75559886 TGTAAGACCATGTCTGGGACATTGGCATTG-TACTGTGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATA-TGTGATTATG
* * * * *
75559929 TGTAAGACCATGTTTAGGACATCGGCATCGTTATATGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAT-G
* * **
75559972 TGTAAGACCATGTCTGGGACATTGGCATCGATATGCGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTATG
* *
75560015 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
75560042 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 7 0.07
43 85 0.90
44 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTATG
Found at i:75563387 original size:33 final size:33
Alignment explanation
Indices: 75563343--75563420 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
75563333 TAAGTTGCCG
* *
75563343 AATAAGACCATAGCTGGGCTATGGAAATCGAAT
1 AATAAGACCATAGCTAGACTATGGAAATCGAAT
* * *
75563376 AATAAGGCCATAGCTAGACTATGGCAATCGACT
1 AATAAGACCATAGCTAGACTATGGAAATCGAAT
*
75563409 AAAAAGACCATA
1 AATAAGACCATA
75563421 ATCGGGTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (33 bp):
AATAAGACCATAGCTAGACTATGGAAATCGAAT
Found at i:75565712 original size:20 final size:20
Alignment explanation
Indices: 75565687--75565727 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
75565677 TGTACATTTA
75565687 TTCTCAAAAGTATATGTGAT
1 TTCTCAAAAGTATATGTGAT
*
75565707 TTCTCAGAAGTATATGTGAT
1 TTCTCAAAAGTATATGTGAT
75565727 T
1 T
75565728 GCTTAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (20 bp):
TTCTCAAAAGTATATGTGAT
Found at i:75567211 original size:33 final size:33
Alignment explanation
Indices: 75567169--75567235 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
75567159 ACGGATAAAG
*
75567169 TATGGCTTACATGACATGAGATCCTGCATGTGT
1 TATGGCTTACACGACATGAGATCCTGCATGTGT
75567202 TATGGCTTACACGACATGAGATCCTGCATGTGT
1 TATGGCTTACACGACATGAGATCCTGCATGTGT
75567235 T
1 T
75567236 GCAGAAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (33 bp):
TATGGCTTACACGACATGAGATCCTGCATGTGT
Found at i:75572214 original size:43 final size:42
Alignment explanation
Indices: 75572070--75572242 Score: 161
Period size: 43 Copynumber: 4.1 Consensus size: 42
75572060 GATTACCGAG
* * * *
75572070 ATGAGATTACATGTAAGACCATGCCCGGGACATTAGCATTGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* ** *
75572112 ACTGTGATTATGTGTAAGACCATGTCTGGGACATCGGCATCGTT
1 A-TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * *
75572156 AT-ATGATTTCGTGTAAGACCATGTCTGAGACATTGGCATCGAT
1 ATGA-GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * *
75572199 ATGAGATAACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
75572240 ATG
1 ATG
75572243 TGCTTTATGT
Statistics
Matches: 106, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
41 4 0.04
42 8 0.08
43 91 0.86
44 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:75572712 original size:33 final size:34
Alignment explanation
Indices: 75572670--75572747 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 34
75572660 TAAGTTGCCG
**
75572670 AATAAGACCATAGCTGGGCTATGGAAATCGA-AA
1 AATAAGACCATAGCTGAACTATGGAAATCGACAA
* *
75572703 AATAAGACCATAGCTGAACTATGGCAATCGACTA
1 AATAAGACCATAGCTGAACTATGGAAATCGACAA
75572737 AA-AAGACCATA
1 AATAAGACCATA
75572748 ATCGGGTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 37 0.93
34 3 0.08
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.18
Consensus pattern (34 bp):
AATAAGACCATAGCTGAACTATGGAAATCGACAA
Found at i:75578878 original size:21 final size:21
Alignment explanation
Indices: 75578854--75578894 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
75578844 TATAGGAAAC
*
75578854 CAAAACATGTCAATTCATATA
1 CAAAACATGCCAATTCATATA
* *
75578875 CAAATCATGCCATTTCATAT
1 CAAAACATGCCAATTCATAT
75578895 TCAACTATTT
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:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (21 bp):
CAAAACATGCCAATTCATATA
Found at i:75579327 original size:13 final size:13
Alignment explanation
Indices: 75579309--75579338 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
75579299 TCAACTAATT
75579309 CATACCATATTTA
1 CATACCATATTTA
75579322 CATACCATATTTA
1 CATACCATATTTA
75579335 CATA
1 CATA
75579339 GCATCAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (13 bp):
CATACCATATTTA
Found at i:75579859 original size:43 final size:43
Alignment explanation
Indices: 75579796--75579886 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
75579786 CCTTACATGA
* * * * *
75579796 AATCAAATAACAATGTCAATGTTCCAGACATGGTTTTACTCGT
1 AATCAAATAACAATGCCAATGTCCCAGACATGGTCTTACACAT
*
75579839 AATCAAATAACGATGCCAATGTCCCAGACATGGTCTTACACAT
1 AATCAAATAACAATGCCAATGTCCCAGACATGGTCTTACACAT
75579882 AATCA
1 AATCA
75579887 CATCTCGTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (43 bp):
AATCAAATAACAATGCCAATGTCCCAGACATGGTCTTACACAT
Found at i:75582758 original size:6 final size:6
Alignment explanation
Indices: 75582738--75582869 Score: 92
Period size: 6 Copynumber: 21.3 Consensus size: 6
75582728 AAGAAACATT
* *
75582738 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
75582785 GTGACAGA ATCAGA ATCAAA ATCAGT ATCAGGCA A-CAGA ATCAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
75582836 ATCAGT ATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
75582870 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
5 6 0.06
6 75 0.77
7 14 0.14
8 3 0.03
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:75582796 original size:31 final size:31
Alignment explanation
Indices: 75582758--75582869 Score: 152
Period size: 31 Copynumber: 3.6 Consensus size: 31
75582748 GAATCAAAAT
* * * *
75582758 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
* * *
75582789 CAGAATCAGAATCAAAATCAGTATCAGGCAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
75582820 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
75582851 CAGAATCAAAAATCAGAAT
1 CAGAATC-AAAATCAGAAT
75582870 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 61 0.85
32 11 0.15
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:75583047 original size:27 final size:24
Alignment explanation
Indices: 75583006--75583096 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 24
75582996 CTCAGTTATT
*
75583006 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCA-AG-CACCAGA-AC
75583033 AGATATTGTGGC-AG-ACCAGAAC
1 AGATATTGTGGCAAGCACCAGAAC
75583055 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATA-TTGTGGCA-AG-CACCAG-AAC
* *
75583083 TGATAATGTGGCAA
1 AGATATTGTGGCAA
75583097 AGCCACTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
22 7 0.13
23 13 0.24
25 4 0.07
26 1 0.02
27 23 0.42
28 7 0.13
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (24 bp):
AGATATTGTGGCAAGCACCAGAAC
Found at i:75583058 original size:22 final size:24
Alignment explanation
Indices: 75583024--75583068 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
75583014 TGACAGAGTC
75583024 ACCAGATACAGATA-TTGTGGCAG
1 ACCAGATACAGATATTTGTGGCAG
75583047 ACCAGA-ACAGATATTTGTGGCA
1 ACCAGATACAGATATTTGTGGCA
75583069 TAGCCACCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (24 bp):
ACCAGATACAGATATTTGTGGCAG
Found at i:75583295 original size:22 final size:22
Alignment explanation
Indices: 75583261--75583325 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
75583251 GCAAATACGT
*
75583261 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
75583283 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
75583305 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
75583326 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:75583774 original size:27 final size:26
Alignment explanation
Indices: 75583724--75583946 Score: 207
Period size: 27 Copynumber: 8.3 Consensus size: 26
75583714 TGGGCAAAAT
* *
75583724 GGTAATTTTACCCCATA-AGGGTATCTC
1 GGTAATTCTA-CCC-TACAGGGTATTTC
*
75583751 GGTAATTCTACCTTACAGGAGTATTGT-
1 GGTAATTCTACCCTACAGG-GTATT-TC
*
75583778 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
* *
75583805 GGTAATTCTACCCTGCAGGGGTATTTT
1 GGTAATTCTACCCTACA-GGGTATTTC
* *
75583832 AGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTAC-AGGGTATTTC
* *
75583859 GGTATTTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
* *
75583886 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTAC-AGGGTATTTC
* *
75583913 GGCATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTAC-AGGGTATTTC
*
75583940 AGTAATT
1 GGTAATT
75583947 TTGTAAATTG
Statistics
Matches: 165, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.01
26 7 0.04
27 151 0.92
28 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (26 bp):
GGTAATTCTACCCTACAGGGTATTTC
Found at i:75583790 original size:54 final size:54
Alignment explanation
Indices: 75583725--75583946 Score: 284
Period size: 54 Copynumber: 4.1 Consensus size: 54
75583715 GGGCAAAATG
* * * * * *
75583725 GTAATTTTACCCCATAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTGT-A
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATT-TCA
* * *
75583779 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTGCAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
75583833 GTAATTCTACCTTACAAGGGTATTTCGGTATTTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * *
75583887 GTATTTCTACCCTACAAGGGTATTTCGGCATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
75583941 GTAATT
1 GTAATT
75583947 TTGTAAATTG
Statistics
Matches: 147, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 1 0.01
54 146 0.99
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:75583868 original size:81 final size:81
Alignment explanation
Indices: 75583725--75583946 Score: 259
Period size: 81 Copynumber: 2.7 Consensus size: 81
75583715 GGGCAAAATG
* * * * *
75583725 GTAATTTTACCCCATAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTGT-AGTAATTCTA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAAGG-GTATT-TCAGTAATTCTA
*
75583788 CCCTACAGGGGTATTTCG
64 CCCTACAGGGGTATTTCA
* * * * *
75583806 GTAATTCTACCCTGCAGGGGTATTTTAGTAATTCTACCTTACAAGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAAGGGTATTTCAGTAATTCTACC
*
75583871 CTATAGGGGTATTTCA
66 CTACAGGGGTATTTCA
* * * * *
75583887 GTATTTCTACCCTACAAGGGTATTTCGGCATTTCTACCCTACAAGGGTATTTCAGTAATT
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAAGGGTATTTCAGTAATT
75583947 TTGTAAATTG
Statistics
Matches: 117, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.01
81 113 0.97
82 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAAGGGTATTTCAGTAATTCTACC
CTACAGGGGTATTTCA
Found at i:75583960 original size:27 final size:27
Alignment explanation
Indices: 75583930--75584276 Score: 122
Period size: 27 Copynumber: 12.9 Consensus size: 27
75583920 CTACCCTACA
** *
75583930 AGGGTATTTCAGTAATTTTGTAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
** * * * *
75583957 AGGGTAAAAT-GGTAATTCTATAAATCA
1 AGGGT-ATTTCAGTAATTTTACAAATCG
* *
75583984 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* ** *
75584011 AGGGTATTTCAATAATTTTACAGGTTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
75584038 AGGGTATTTCAGTAATTTCACAAAT-T
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
75584064 AGGGGTATTT-TGATAATTTTACAAA-CC
1 A-GGGTATTTCAG-TAATTTTACAAATCG
** *
75584091 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCAGTAATTTTACAAATCG
** * *
75584118 AGGGGTATTTTGGTAATTTTATAAA-CC
1 A-GGGTATTTCAGTAATTTTACAAATCG
** * *
75584145 AATGTATTTTAGTAATTTTACAAA-CC
1 AGGGTATTTCAGTAATTTTACAAATCG
** ** * *
75584171 AGGGGTATTTTGGTAAATTTTGTAAACCA
1 A-GGGTATTTCAGT-AATTTTACAAATCG
**
75584200 AGGGTATTTTGGTAATTTTACAAA-C-
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * * *
75584225 AGGGGTACTTT-GGTGATTTTATAAACCA
1 A-GGGTA-TTTCAGTAATTTTACAAATCG
* *
75584253 AGGGTTTTTTAGTAATTTTACAAA
1 AGGGTATTTCAGTAATTTTACAAA
75584277 CCAGGGGTAT
Statistics
Matches: 258, Mismatches: 47, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 49 0.19
27 181 0.70
28 25 0.10
29 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:75584097 original size:54 final size:54
Alignment explanation
Indices: 75584038--75584297 Score: 362
Period size: 54 Copynumber: 4.8 Consensus size: 54
75584028 TTACAGGTTG
* * ** * *
75584038 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGATAATTTTACAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * *
75584092 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* *
75584146 A-TGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT-AATTTTATAAACCA
* * *
75584200 AGGGTATTTTGGTAATTTTACAAA-CAGGGGTACTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
75584253 AGGGTTTTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
75584298 GGTAAACTAA
Statistics
Matches: 182, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
53 69 0.38
54 93 0.51
55 20 0.11
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:75584277 original size:27 final size:27
Alignment explanation
Indices: 75584039--75584297 Score: 315
Period size: 27 Copynumber: 9.6 Consensus size: 27
75584029 TACAGGTTGA
** * **
75584039 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
75584066 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
75584093 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
75584120 GGGTATTTTGGTAATTTTATAAACCA-
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
75584146 ATGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
75584173 GGGTATTTTGGTAAATTTTGTAAACCAA
1 GGGTATTTTGGT-AATTTTACAAACCAG
75584201 GGGTATTTTGGTAATTTTACAAA-CAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
75584227 GGGTACTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
75584254 GGGTTTTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
75584281 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
75584298 GGTAAACTAA
Statistics
Matches: 194, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
26 44 0.23
27 126 0.65
28 24 0.12
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:75594208 original size:27 final size:27
Alignment explanation
Indices: 75594149--75594222 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
75594139 ACCCTGGTTT
* * * * *
75594149 GTAAAATCACCGAAATACCCTTGTAGT
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
75594176 GCAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
75594203 GTAAAATGACC-TAATAGCCC
1 GTAAAATGACCGTAAT-GCCC
75594223 TATATGGTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCCTGTAGG
Found at i:75594231 original size:26 final size:27
Alignment explanation
Indices: 75594178--75594238 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
75594168 CTTGTAGTGC
*
75594178 AAAATGACCGTAATGCCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTATAGGGT
*
75594205 AAAATGACC-TAATAG-CCCTATATGGT
1 AAAATGACCGTAAT-GCCCCTATAGGGT
*
75594231 AGAATGAC
1 AAAATGAC
75594239 GATTATGCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
AAAATGACCGTAATGCCCCTATAGGGT
Found at i:75594507 original size:22 final size:22
Alignment explanation
Indices: 75594472--75594527 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
75594462 CTGTGATCTT
* * * *
75594472 TACGGCCTTTAGTCATTCTGTC
1 TACGGCGTTGAGTCATCCTATC
*
75594494 TACGGCGTTGAGTCGTCCTATC
1 TACGGCGTTGAGTCATCCTATC
75594516 TACGGCGTTGAG
1 TACGGCGTTGAG
75594528 CCGTCTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.14, C:0.25, G:0.27, T:0.34
Consensus pattern (22 bp):
TACGGCGTTGAGTCATCCTATC
Found at i:75596544 original size:16 final size:15
Alignment explanation
Indices: 75596520--75596549 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
75596510 AACGGTTTTT
75596520 TTACAAATTTCACTC
1 TTACAAATTTCACTC
75596535 TTACATAATTTCACT
1 TTACA-AATTTCACT
75596550 TTCTCCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Done.