Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 280 of 318
Found at i:88556346 original size:10 final size:10
Alignment explanation
Indices: 88556230--88556346 Score: 65
Period size: 10 Copynumber: 11.9 Consensus size: 10
88556220 AATATATAAC
88556230 ATTATATAAAA
1 ATTAT-TAAAA
88556241 ATTTATT-AAA
1 A-TTATTAAAA
88556251 ATTATATAAAA
1 ATTAT-TAAAA
88556262 A-TA-T-AAA
1 ATTATTAAAA
*
88556269 ATTAATAAAA
1 ATTATTAAAA
88556279 CA-TATT-AAA
1 -ATTATTAAAA
*
88556288 A-TATGT-AAC
1 ATTAT-TAAAA
88556297 ATTATATAAAA
1 ATTAT-TAAAA
88556308 ATTTATT-AAA
1 A-TTATTAAAA
88556318 ATTATATAAAA
1 ATTAT-TAAAA
*
88556329 ATCA-TAAAA
1 ATTATTAAAA
88556338 ATTATTAAA
1 ATTATTAAA
88556347 TTGATATAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 29
0.71 0.05 0.24
Matches are distributed among these distances:
7 4 0.05
8 7 0.08
9 24 0.28
10 26 0.30
11 17 0.20
12 8 0.09
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.37
Consensus pattern (10 bp):
ATTATTAAAA
Found at i:88556375 original size:67 final size:67
Alignment explanation
Indices: 88556182--88556377 Score: 270
Period size: 67 Copynumber: 2.9 Consensus size: 67
88556172 AAAAACTAAT
* *
88556182 AAATTATATAAAAATATAAAATAAATAAAACATATTAAAATATATAACATTATATAAAAATTTAT
1 AAATTATATAAAAATATAAAATTAATAAAACATATTAAAATATATAAAATTATATAAAAATTTAT
88556247 TA
66 TA
* *
88556249 AAATTATATAAAAATATAAAATTAATAAAACATATTAAAATATGTAACATTATATAAAAATTTAT
1 AAATTATATAAAAATATAAAATTAATAAAACATATTAAAATATATAAAATTATATAAAAATTTAT
88556314 TA
66 TA
* ** * *
88556316 AAATTATATAAAAATCATAAAAATTATTAAATTGATA-TAAACT-TATAAAATTATAAAAAAAT
1 AAATTATATAAAAAT-AT-AAAATTAATAAA-ACATATTAAAATATATAAAATTATATAAAAAT
88556378 CATAAAAACT
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
67 80 0.68
68 18 0.15
69 16 0.14
70 3 0.03
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (67 bp):
AAATTATATAAAAATATAAAATTAATAAAACATATTAAAATATATAAAATTATATAAAAATTTAT
TA
Found at i:88556826 original size:20 final size:19
Alignment explanation
Indices: 88556803--88556869 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
88556793 ACCTTTTTAT
88556803 ATTTTTTATAATTTATATCA
1 ATTTTTTATAATTTATA-CA
* * *
88556823 A-TTTTAATATTTTTTACA
1 ATTTTTTATAATTTATACA
88556841 ATTTTTTAATAATTGTAATAC-
1 ATTTTTT-ATAATT-T-ATACA
88556862 ATTTTTTA
1 ATTTTTTA
88556870 ATTTAAATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
18 3 0.08
19 16 0.43
20 7 0.19
21 8 0.22
22 3 0.08
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (19 bp):
ATTTTTTATAATTTATACA
Found at i:88556937 original size:28 final size:28
Alignment explanation
Indices: 88556869--88556942 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 28
88556859 TACATTTTTT
*
88556869 AATTTAAATATTTTAAATAAGCTTTACTA
1 AATTTATATATTTT-AATAAGCTTTACTA
*
88556898 AATTTATA-ATTTTAATAAGCTTATA-TC
1 AATTTATATATTTTAATAAGCTT-TACTA
*
88556925 AATTTTTATA-TTTAATAA
1 AATTTATATATTTTAATAA
88556943 TTTTATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 25 0.62
28 8 0.20
29 7 0.17
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (28 bp):
AATTTATATATTTTAATAAGCTTTACTA
Found at i:88556979 original size:18 final size:18
Alignment explanation
Indices: 88556958--88556992 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88556948 TTTTTCTACT
* *
88556958 TTTTTTTTATTTTTATGA
1 TTTTTTATAATTTTATGA
88556976 TTTTTTATAATTTTATG
1 TTTTTTATAATTTTATG
88556993 GGAAAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTTTATAATTTTATGA
Found at i:88558493 original size:23 final size:23
Alignment explanation
Indices: 88558450--88558496 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
88558440 AAAATAATTT
*
88558450 TATTTTTAATTAAATTTAATTAA
1 TATTTTTAATTAAATTAAATTAA
*
88558473 TATTTTTAA-TATATTCAAATTAA
1 TATTTTTAATTAAATT-AAATTAA
88558496 T
1 T
88558497 GATGTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTTTAATTAAATTAAATTAA
Found at i:88558673 original size:20 final size:20
Alignment explanation
Indices: 88558620--88558678 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
88558610 TATAATTTAA
* *
88558620 TAATTTTTAATATATTATTT
1 TAATTTTTAATTTTTTATTT
* *
88558640 TAATTTCTATTTTTTTATTT
1 TAATTTTTAATTTTTTATTT
88558660 TAATTTTTAA-TTTTTATTT
1 TAATTTTTAATTTTTTATTT
88558679 ACTTCAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.27
20 24 0.73
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TAATTTTTAATTTTTTATTT
Found at i:88558936 original size:2 final size:2
Alignment explanation
Indices: 88558929--88558962 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
88558919 AAAACTTAAA
88558929 AT AT AT 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 AT AT AT
88558963 TTAAAAAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88559834 original size:23 final size:22
Alignment explanation
Indices: 88559799--88559858 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
88559789 TAGTTTTTTT
*
88559799 TATAATTTCTTAAAAATTATATAA
1 TATAATTTTTTAAAAA-TAT-TAA
*
88559823 T-TAATTTTTT-AATATATTAA
1 TATAATTTTTTAAAAATATTAA
*
88559843 TATATTTTTTTAAAAA
1 TATAATTTTTTAAAAA
88559859 ATCCTAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.13
21 11 0.37
22 6 0.20
23 8 0.27
24 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TATAATTTTTTAAAAATATTAA
Found at i:88561322 original size:20 final size:23
Alignment explanation
Indices: 88561294--88561340 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
88561284 ATAATGTAAC
88561294 AAATGTTAAC-AT-TTTGTAAAA
1 AAATGTTAACTATATTTGTAAAA
*
88561315 AAAT-TTAACTCTATTTGTAAAA
1 AAATGTTAACTATATTTGTAAAA
88561337 AAAT
1 AAAT
88561341 ATAAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 5 0.22
22 13 0.57
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (23 bp):
AAATGTTAACTATATTTGTAAAA
Found at i:88566276 original size:20 final size:20
Alignment explanation
Indices: 88566235--88566277 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
88566225 ACCCATGTAG
* * *
88566235 TCCAAATATTTTCAACTTTT
1 TCCAAAAATTTTCAAATGTT
88566255 TCCAAAAATTTTCAAATGTT
1 TCCAAAAATTTTCAAATGTT
88566275 TCC
1 TCC
88566278 TATTTAGTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.44
Consensus pattern (20 bp):
TCCAAAAATTTTCAAATGTT
Found at i:88567549 original size:12 final size:12
Alignment explanation
Indices: 88567532--88567557 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88567522 TACGTTTGGC
88567532 AAAAAAAAGAAA
1 AAAAAAAAGAAA
88567544 AAAAAAAAGAAA
1 AAAAAAAAGAAA
88567556 AA
1 AA
88567558 GAGAAGAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:88581868 original size:1 final size:1
Alignment explanation
Indices: 88581864--88581889 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
88581854 AATATGAAGC
88581864 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
88581890 GCAAGTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:88582068 original size:97 final size:98
Alignment explanation
Indices: 88581960--88582155 Score: 367
Period size: 97 Copynumber: 2.0 Consensus size: 98
88581950 TCTAATTACC
88581960 TAAGTAGATTAAAAATAAGTATCTAATCACCTATCATATCAGCTTCCAGATCTGGTGGAATTTTC
1 TAAGTAGATTAAAAATAAGTATCTAATCACCTATCATATCAGCTTCCAGATCTGGTGGAATTTTC
88582025 TGTAATATTTAGATTTTCCCTGATTTTTGGTTT
66 TGTAATATTTAGATTTTCCCTGATTTTTGGTTT
*
88582058 TAAGTA-ATTAAAAATTAGTATCTAATCACCTATCATATCAGCTTCCAGATCTGGTGGAATTTTC
1 TAAGTAGATTAAAAATAAGTATCTAATCACCTATCATATCAGCTTCCAGATCTGGTGGAATTTTC
*
88582122 TGTAATATTTGGATTTTCCCTGATTTTTGGTTT
66 TGTAATATTTAGATTTTCCCTGATTTTTGGTTT
88582155 T
1 T
88582156 TATAAAATAT
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 90 0.94
98 6 0.06
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (98 bp):
TAAGTAGATTAAAAATAAGTATCTAATCACCTATCATATCAGCTTCCAGATCTGGTGGAATTTTC
TGTAATATTTAGATTTTCCCTGATTTTTGGTTT
Found at i:88597111 original size:13 final size:13
Alignment explanation
Indices: 88597093--88597118 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88597083 ACTCAATCGT
88597093 TCATCTAAACTTA
1 TCATCTAAACTTA
88597106 TCATCTAAACTTA
1 TCATCTAAACTTA
88597119 CCTTAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
TCATCTAAACTTA
Found at i:88597626 original size:24 final size:24
Alignment explanation
Indices: 88597599--88597644 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
88597589 ATAATAAAAA
88597599 TATAAATTTAT-TATTTTAATAGTT
1 TATAAATTTATAT-TTTTAATAGTT
**
88597623 TATATCTTTATATTTTTAATAG
1 TATAAATTTATATTTTTAATAG
88597645 ATTAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (24 bp):
TATAAATTTATATTTTTAATAGTT
Found at i:88598194 original size:3 final size:3
Alignment explanation
Indices: 88598186--88598210 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
88598176 TTTACTTAGG
88598186 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
88598211 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:88600065 original size:26 final size:26
Alignment explanation
Indices: 88600036--88600143 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
88600026 TGGTACAAAT
88600036 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
88600062 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88600088 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88600114 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88600140 TGAT
1 TGAT
88600144 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88603769 original size:40 final size:39
Alignment explanation
Indices: 88603724--88603930 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
88603714 CGGAATACAA
*
88603724 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
88603764 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
88603804 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
88603844 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
88603884 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
88603923 CCGGATAT
1 CCGGATAT
88603931 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.22
40 108 0.78
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:88603864 original size:80 final size:80
Alignment explanation
Indices: 88603724--88603929 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
88603714 CGGAATACAA
* * *
88603724 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
88603788 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
88603804 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
88603868 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
88603884 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
88603930 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 36 0.34
80 68 0.64
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:88611820 original size:40 final size:39
Alignment explanation
Indices: 88611775--88611982 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
88611765 CGGAATACAA
*
88611775 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
88611815 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
88611855 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
88611895 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
88611935 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
88611975 CCGGATAT
1 CCGGATAT
88611983 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:88611915 original size:80 final size:80
Alignment explanation
Indices: 88611775--88611981 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
88611765 CGGAATACAA
* * *
88611775 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
88611839 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
88611855 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
88611919 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
88611935 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
88611982 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:88619505 original size:39 final size:39
Alignment explanation
Indices: 88619432--88619515 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
88619422 AAGAGAAGGC
*
88619432 TATAAATATGTTTAATCCATAACCCCTTGCTAACCTTTA
1 TATAAATATGTTTAATCCATAACCCCTTCCTAACCTTTA
* * *
88619471 TATAAATATGTTTAATTCGTAA-CTCTTCCTTAACCTTTA
1 TATAAATATGTTTAATCCATAACCCCTTCC-TAACCTTTA
*
88619510 AATAAA
1 TATAAA
88619516 AGGATAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 5 0.13
39 34 0.87
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (39 bp):
TATAAATATGTTTAATCCATAACCCCTTCCTAACCTTTA
Found at i:88628659 original size:21 final size:21
Alignment explanation
Indices: 88628592--88628659 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
88628582 AAGTGAAATG
*
88628592 ATAATAAAATTGTGAA-AAAAC
1 ATAAAAAAATTGT-AAGAAAAC
*
88628613 A-AAAAAAA-TG-ACAGGAAAC
1 ATAAAAAAATTGTA-AGAAAAC
**
88628632 AGCAAAAAATTGTAAGAAAAC
1 ATAAAAAAATTGTAAGAAAAC
88628653 ATAAAAA
1 ATAAAAA
88628660 GGTTAATAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 7 0.19
20 12 0.33
21 14 0.39
22 1 0.03
ACGTcount: A:0.66, C:0.07, G:0.12, T:0.15
Consensus pattern (21 bp):
ATAAAAAAATTGTAAGAAAAC
Found at i:88628729 original size:77 final size:77
Alignment explanation
Indices: 88628648--88628801 Score: 263
Period size: 77 Copynumber: 2.0 Consensus size: 77
88628638 AAATTGTAAG
*
88628648 AAAACATAAAAAGGTTAATAGTTTTATGTTTTTTTGCAAATTTGGCTAGGATTGGGCTCTACTCA
1 AAAACATAAAAAGGTTAATAGTTTTATGTTTTATTGCAAATTTGGCTAGGATTGGGCTCTACTCA
88628713 AAAAATCCTTAC
66 AAAAATCCTTAC
* * *
88628725 AAAACATAAAAAGGTTAATAGTTTTTTGTTTTATTGCAAATTTGGTTAGGATTGGGCTCTAGTCA
1 AAAACATAAAAAGGTTAATAGTTTTATGTTTTATTGCAAATTTGGCTAGGATTGGGCTCTACTCA
*
88628790 AAAAATTCTTAC
66 AAAAATCCTTAC
88628802 TTGAGGCTTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (77 bp):
AAAACATAAAAAGGTTAATAGTTTTATGTTTTATTGCAAATTTGGCTAGGATTGGGCTCTACTCA
AAAAATCCTTAC
Found at i:88628979 original size:20 final size:19
Alignment explanation
Indices: 88628945--88628992 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
88628935 ATTATTTGAA
*
88628945 TTTTAT-ATTTTATAATTT
1 TTTTATAATTTTATAACTT
88628963 TTTTATAATTCTTATAACTT
1 TTTTATAATT-TTATAACTT
*
88628983 TTTAATAATT
1 TTTTATAATT
88628993 AGTAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 6 0.23
19 3 0.12
20 17 0.65
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTATAACTT
Found at i:88646989 original size:44 final size:44
Alignment explanation
Indices: 88646926--88647010 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
88646916 TTTCTCTCAA
*
88646926 TTTATAATATTTGGTGTGTCAAGGTAAGCCATTTTGTAACCTAG
1 TTTATAATATTTGGTGTGTCAAGGCAAGCCATTTTGTAACCTAG
88646970 TTTATAATATTTGGTGTGTCAAGGCAAGCCATTTTGTAACC
1 TTTATAATATTTGGTGTGTCAAGGCAAGCCATTTTGTAACC
88647011 CATCTTTCGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (44 bp):
TTTATAATATTTGGTGTGTCAAGGCAAGCCATTTTGTAACCTAG
Found at i:88652117 original size:20 final size:20
Alignment explanation
Indices: 88652087--88652124 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88652077 AGAATTATAA
88652087 AAAATATATATATAAAAACTT
1 AAAATATATATA-AAAAACTT
88652108 AAAA-ATATATAAAAAAC
1 AAAATATATATAAAAAAC
88652125 CCTAAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATATATATAAAAAACTT
Found at i:88652130 original size:20 final size:22
Alignment explanation
Indices: 88652086--88652130 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
88652076 AAGAATTATA
*
88652086 AAAAATATATATATAAAAACTT
1 AAAAATATATATATAAAAACCT
*
88652108 AAAAATATATA-A-AAAACCCT
1 AAAAATATATATATAAAAACCT
88652128 AAA
1 AAA
88652131 CTTTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 11 0.52
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAAATATATATATAAAAACCT
Found at i:88652970 original size:17 final size:17
Alignment explanation
Indices: 88652948--88652983 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
88652938 TGTAAAGTAC
* *
88652948 AATTAAACTATTTTAAT
1 AATTAAAATATTATAAT
88652965 AATTAAAATATTATAAT
1 AATTAAAATATTATAAT
88652982 AA
1 AA
88652984 AATTCATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTAAAATATTATAAT
Found at i:88655060 original size:13 final size:13
Alignment explanation
Indices: 88655030--88655059 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
88655020 TGTGTGAGGG
88655030 TTTTTGCTTTTGT
1 TTTTTGCTTTTGT
88655043 TTTTTG-TTTTGT
1 TTTTTGCTTTTGT
88655055 TTTTT
1 TTTTT
88655060 TAACAGTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.83
Consensus pattern (13 bp):
TTTTTGCTTTTGT
Found at i:88660187 original size:43 final size:43
Alignment explanation
Indices: 88660139--88660231 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
88660129 ATTCTAGAAA
88660139 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
88660182 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
88660225 TATTTTC
1 TATTTTC
88660232 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:88662385 original size:241 final size:241
Alignment explanation
Indices: 88661962--88662448 Score: 974
Period size: 241 Copynumber: 2.0 Consensus size: 241
88661952 CTAATTTTTA
88661962 TTATTTAAGATATTTGTTACCTAATCTATTTAAAAATAAAAGTCCTTCTTCATATCATTGTGAAT
1 TTATTTAAGATATTTGTTACCTAATCTATTTAAAAATAAAAGTCCTTCTTCATATCATTGTGAAT
88662027 TTTGTGAATTGGCTAAACATCATCGGTCATTCTTTCCACCTCAAAAATATAAAGCCTCCAAACCT
66 TTTGTGAATTGGCTAAACATCATCGGTCATTCTTTCCACCTCAAAAATATAAAGCCTCCAAACCT
88662092 TTTTCGTTAATTCATAGTGATGTTTGGGGACCTTCAAGAGTCTCGACTTTTTCAGGAAAACGTTG
131 TTTTCGTTAATTCATAGTGATGTTTGGGGACCTTCAAGAGTCTCGACTTTTTCAGGAAAACGTTG
88662157 GTTTGTCACATTTATTGATGATCATACTCGACTTTGTTGGGTGTTT
196 GTTTGTCACATTTATTGATGATCATACTCGACTTTGTTGGGTGTTT
88662203 TTATTTAAGATATTTGTTACCTAATCTATTTAAAAATAAAAGTCCTTCTTCATATCATTGTGAAT
1 TTATTTAAGATATTTGTTACCTAATCTATTTAAAAATAAAAGTCCTTCTTCATATCATTGTGAAT
88662268 TTTGTGAATTGGCTAAACATCATCGGTCATTCTTTCCACCTCAAAAATATAAAGCCTCCAAACCT
66 TTTGTGAATTGGCTAAACATCATCGGTCATTCTTTCCACCTCAAAAATATAAAGCCTCCAAACCT
88662333 TTTTCGTTAATTCATAGTGATGTTTGGGGACCTTCAAGAGTCTCGACTTTTTCAGGAAAACGTTG
131 TTTTCGTTAATTCATAGTGATGTTTGGGGACCTTCAAGAGTCTCGACTTTTTCAGGAAAACGTTG
88662398 GTTTGTCACATTTATTGATGATCATACTCGACTTTGTTGGGTGTTT
196 GTTTGTCACATTTATTGATGATCATACTCGACTTTGTTGGGTGTTT
88662444 TTATT
1 TTATT
88662449 AAAAGATAAG
Statistics
Matches: 246, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 246 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (241 bp):
TTATTTAAGATATTTGTTACCTAATCTATTTAAAAATAAAAGTCCTTCTTCATATCATTGTGAAT
TTTGTGAATTGGCTAAACATCATCGGTCATTCTTTCCACCTCAAAAATATAAAGCCTCCAAACCT
TTTTCGTTAATTCATAGTGATGTTTGGGGACCTTCAAGAGTCTCGACTTTTTCAGGAAAACGTTG
GTTTGTCACATTTATTGATGATCATACTCGACTTTGTTGGGTGTTT
Found at i:88665039 original size:19 final size:19
Alignment explanation
Indices: 88664993--88665040 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
88664983 GTATATATTT
88664993 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
88665011 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
88665030 TAAGTTTTATT
1 TAAATTTTATT
88665041 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:88665102 original size:43 final size:42
Alignment explanation
Indices: 88665054--88665146 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 42
88665044 ATTCTAGAAA
*
88665054 TATTTTTATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTT-TTTTATATTTTAGTAGTTTACTAGAATAAGGGAAC
*
88665097 TATTTTCTTTTTATATTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTT-TTTTTATATTTTAGTAGTTTACTAGAATAAGGGAAC
88665140 TATTTTT
1 TATTTTT
88665147 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 1 0.02
43 45 0.96
44 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (42 bp):
TATTTTTTTTTATATTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:88668650 original size:19 final size:19
Alignment explanation
Indices: 88668620--88668672 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
88668610 AGAAATATAA
88668620 ATTTTAAAATTTTT-ACAAAT
1 ATTTT-AAATTTTTGA-AAAT
88668640 ATTTTAAATTTTTGAAAAT
1 ATTTTAAATTTTTGAAAAT
88668659 AGTTTTAAATTTTT
1 A-TTTTAAATTTTT
88668673 TTGTAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (19 bp):
ATTTTAAATTTTTGAAAAT
Found at i:88668888 original size:53 final size:55
Alignment explanation
Indices: 88668783--88668889 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 55
88668773 ATAAATTATT
*
88668783 TTCATATAATTTATACCTTTCAATAAATCATCAACAACTCAAACATGAAAACTATC
1 TTCATATAATTTATACCTTTCAACAAAT-ATCAACAACTCAAACATGAAAACTATC
*
88668839 TTCATATAATTTATATCC-TTCAACAAAT-T-GACAACTCAAACATGAAAACTA
1 TTCATATAATTTATA-CCTTTCAACAAATATCAACAACTCAAACATGAAAACTA
88668890 CGTTCAAACA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
53 21 0.44
54 1 0.02
56 24 0.50
57 2 0.04
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (55 bp):
TTCATATAATTTATACCTTTCAACAAATATCAACAACTCAAACATGAAAACTATC
Found at i:88695705 original size:2 final size:2
Alignment explanation
Indices: 88695698--88695722 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88695688 CTAATTATTT
88695698 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
88695723 TGTACATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88700802 original size:31 final size:29
Alignment explanation
Indices: 88700767--88700847 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
88700757 AATCTCAAAA
*
88700767 TTATATATGAAATTT-ACTTTAATGTAAAATT
1 TTATACATGAAATTTGA-TTT--TGTAAAATT
* **
88700798 TTATACATGAACTTTGATTTTGTGCAATT
1 TTATACATGAAATTTGATTTTGTAAAATT
88700827 TTATACATGAAATTTTGATTT
1 TTATACATGAAA-TTTGATTT
88700848 GATCCAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 18 0.42
30 8 0.19
31 16 0.37
32 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (29 bp):
TTATACATGAAATTTGATTTTGTAAAATT
Found at i:88700848 original size:29 final size:30
Alignment explanation
Indices: 88700794--88700862 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
88700784 TTTAATGTAA
*
88700794 AATTTTATACATGAACTTTGATTTTG-TGC
1 AATTTTATACATGAACTTTGATTTTGATCC
*
88700823 AATTTTATACATGAAATTTTGA-TTTGATCC
1 AATTTTATACATG-AACTTTGATTTTGATCC
88700853 AATTTT-TACA
1 AATTTTATACA
88700863 AATTATTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (30 bp):
AATTTTATACATGAACTTTGATTTTGATCC
Found at i:88707740 original size:32 final size:32
Alignment explanation
Indices: 88707699--88707763 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
88707689 ATCGAGTAAG
88707699 TTAGAATATCTTATACTTTGTATTGGAGGTCA
1 TTAGAATATCTTATACTTTGTATTGGAGGTCA
88707731 TTAGAATATCTTATACTTTGTATTGGAGGTCA
1 TTAGAATATCTTATACTTTGTATTGGAGGTCA
88707763 T
1 T
88707764 GGAGTGGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (32 bp):
TTAGAATATCTTATACTTTGTATTGGAGGTCA
Found at i:88717966 original size:18 final size:18
Alignment explanation
Indices: 88717943--88717979 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
88717933 ATTTTTACAA
88717943 TTTAATCCCTTAATTAGT
1 TTTAATCCCTTAATTAGT
88717961 TTTAATCCCTTAATTAGT
1 TTTAATCCCTTAATTAGT
88717979 T
1 T
88717980 AATCTATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTAATCCCTTAATTAGT
Found at i:88723032 original size:42 final size:41
Alignment explanation
Indices: 88722968--88723047 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 41
88722958 TTAGGCAGTG
*
88722968 TTTCTCTGTTATAAATCGCTGCTGATAAATGTCATCATGGGA
1 TTTCTCTGTTATAAATCACTGCTGAT-AATGTCATCATGGGA
*
88723010 TTTCTCTGTTATCAATCACTGCTGATAATGTCATCATG
1 TTTCTCTGTTATAAATCACTGCTGATAATGTCATCATG
88723048 TGGTTACTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 12 0.33
42 24 0.67
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (41 bp):
TTTCTCTGTTATAAATCACTGCTGATAATGTCATCATGGGA
Found at i:88725392 original size:3 final size:3
Alignment explanation
Indices: 88725384--88725428 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
88725374 TTGAACATTC
*
88725384 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
88725429 CAAGATTAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:88726079 original size:9 final size:9
Alignment explanation
Indices: 88726067--88726121 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
88726057 ATAAAACATA
88726067 AAAAAATTT
1 AAAAAATTT
88726076 AAAAAA-TT
1 AAAAAATTT
* *
88726084 AAAAAAATC
1 AAAAAATTT
88726093 AAAATTAATTT
1 AAAA--AATTT
88726104 -AAAAATTAT
1 AAAAAATT-T
88726113 AAAAAATTT
1 AAAAAATTT
88726122 GGACACCCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
8 12 0.32
9 13 0.34
10 10 0.26
11 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAAATTT
Found at i:88726083 original size:27 final size:28
Alignment explanation
Indices: 88726052--88726119 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
88726042 ATTCATTTTG
*
88726052 AAATTATAAAACAT-AAAA-AAATTTAAA
1 AAATTATAAAAAATCAAAATAAATTT-AA
*
88726079 AAATTA-AAAAAATCAAAATTAATTTAA
1 AAATTATAAAAAATCAAAATAAATTTAA
88726106 AAATTATAAAAAAT
1 AAATTATAAAAAAT
88726120 TTGGACACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 6 0.17
27 18 0.50
28 12 0.33
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (28 bp):
AAATTATAAAAAATCAAAATAAATTTAA
Found at i:88726120 original size:18 final size:18
Alignment explanation
Indices: 88726052--88726121 Score: 56
Period size: 20 Copynumber: 3.9 Consensus size: 18
88726042 ATTCATTTTG
* **
88726052 AAATTATAAAACATAAAA
1 AAATTATAAAAAATTTAA
88726070 AAATT-TAAAAAA-TTAA
1 AAATTATAAAAAATTTAA
*
88726086 AAA-AATCAAAATTAATTTAA
1 AAATTAT-AAAA--AATTTAA
88726106 AAATTATAAAAAATTT
1 AAATTATAAAAAATTT
88726122 GGACACCCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
16 6 0.15
17 10 0.24
18 10 0.24
19 2 0.05
20 11 0.27
21 2 0.05
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATTATAAAAAATTTAA
Found at i:88732433 original size:11 final size:11
Alignment explanation
Indices: 88732417--88732442 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
88732407 TTAGGAAAGA
88732417 AAAATAAAAAT
1 AAAATAAAAAT
88732428 AAAATAAAAAT
1 AAAATAAAAAT
88732439 AAAA
1 AAAA
88732443 AAGGAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:88734573 original size:2 final size:2
Alignment explanation
Indices: 88734566--88734599 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
88734556 AATAAAAGGG
88734566 GA GA GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
88734600 TTTGTATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:88742605 original size:21 final size:21
Alignment explanation
Indices: 88742581--88742683 Score: 143
Period size: 21 Copynumber: 4.8 Consensus size: 21
88742571 GATACATAAA
* *
88742581 GTGCCTAAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
* *
88742602 GTGCCTGATACGACATACAAG
1 GTGCCTGATACGACACACGAG
*
88742623 GTGCCTGATACGACACATGAG
1 GTGCCTGATACGACACACGAG
88742644 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
88742665 GTGCCTGAAATACGACACA
1 GTGCCTG--ATACGACACA
88742684 TAAAGTGCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
21 62 0.86
23 10 0.14
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:88742648 original size:63 final size:64
Alignment explanation
Indices: 88742567--88742696 Score: 172
Period size: 63 Copynumber: 2.0 Consensus size: 64
88742557 CCTGATCAGT
* * *
88742567 ATACGATACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-ATACGACATACAAGGTGCCTG
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGAATACGACACACAAAGTGCCTG
* * * * *
88742630 ATACGACACATGAGGTGCCTGATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-AATACGACACACAAAGTGCCTG
88742695 AT
1 AT
88742697 CGATAAAGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 37 0.65
65 20 0.35
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (64 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGAATACGACACACAAAGTGCCTG
Found at i:88742899 original size:47 final size:47
Alignment explanation
Indices: 88742841--88742938 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
88742831 ATAATTACAT
*
88742841 ATATTTACCCATTTTAACAATTCATACAATTTCATTCAATTCAACAC
1 ATATTTACCCATTTTAACAATTCATACAATTTCATTCAATTCAACAA
88742888 ATATTTACCCATTTTAACAATTCATACAATTTCATTCAATTCAACAA
1 ATATTTACCCATTTTAACAATTCATACAATTTCATTCAATTCAACAA
88742935 ATAT
1 ATAT
88742939 ATTTCAATTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.39
Consensus pattern (47 bp):
ATATTTACCCATTTTAACAATTCATACAATTTCATTCAATTCAACAA
Found at i:88743143 original size:15 final size:15
Alignment explanation
Indices: 88743123--88743164 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
88743113 TTATATAATA
88743123 CAATCAATATAATTT
1 CAATCAATATAATTT
*
88743138 CAATCAAAATAATTT
1 CAATCAATATAATTT
88743153 CAATCAATATAA
1 CAATCAATATAA
88743165 ATTAATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (15 bp):
CAATCAATATAATTT
Found at i:88744499 original size:8 final size:8
Alignment explanation
Indices: 88744486--88744514 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
88744476 TATCTTTATT
88744486 ATATAATA
1 ATATAATA
88744494 ATATAATA
1 ATATAATA
88744502 ATATAATA
1 ATATAATA
88744510 ATATA
1 ATATA
88744515 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:88748622 original size:10 final size:10
Alignment explanation
Indices: 88748584--88748613 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
88748574 TTCAACCAGC
*
88748584 ATATATATAT
1 ATATATACAT
88748594 ATATATACAT
1 ATATATACAT
88748604 ATATATACAT
1 ATATATACAT
88748614 TTATCTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATACAT
Found at i:88753272 original size:40 final size:40
Alignment explanation
Indices: 88753201--88753313 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 40
88753191 TATCTAGCAC
* * *
88753201 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCAGGTCTTTAAGCCCGGAT-ACAATTCCAACACGA
* *
88753240 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAATACGA
1 AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAACACGA
88753280 AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCA
88753314 CATCAAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 16 0.24
40 50 0.76
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAACACGA
Found at i:88756001 original size:64 final size:64
Alignment explanation
Indices: 88755933--88756139 Score: 143
Period size: 64 Copynumber: 3.1 Consensus size: 64
88755923 CCAGAGCCAT
88755933 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
* * * *** * ** *
88755997 TTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGTACTGG
1 TTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GTA-TGG
* * *
88756059 GCCAGA-GCCCTT
53 CCCATAGGCCC-A
88756071 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
88756135 TTTCA
1 TTTCA
88756140 AAATACATGC
Statistics
Matches: 99, Mismatches: 26, Indels: 36
0.61 0.16 0.22
Matches are distributed among these distances:
63 2 0.02
64 21 0.21
65 9 0.09
66 4 0.04
67 2 0.02
68 12 0.12
69 4 0.04
70 12 0.12
71 2 0.02
72 4 0.04
73 9 0.09
74 16 0.16
75 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (64 bp):
TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
Found at i:88756103 original size:138 final size:137
Alignment explanation
Indices: 88755894--88756181 Score: 531
Period size: 138 Copynumber: 2.1 Consensus size: 137
88755884 TATTGGGCCT
**
88755894 AAGCCCATTCAGGTAACAGTGATACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
88755959 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
88756024 CATATGC
131 CATATGC
* *
88756031 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTTCAGATTACAATAAACTGGGCCT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAG-CCATTTTCAGATTACAATAAACTGGGCCT
88756096 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
65 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
88756161 ACATATGC
130 ACATATGC
88756169 AAGCCCATTTGGG
1 AAGCCCATTTGGG
88756182 GAGACTACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
137 32 0.22
138 114 0.78
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:88758005 original size:26 final size:26
Alignment explanation
Indices: 88757969--88758104 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
88757959 CATGAAATTC
*
88757969 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
88757995 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
88758021 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
88758047 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
88758073 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
88758099 TTATCA
1 TTATCA
88758105 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:88763866 original size:14 final size:15
Alignment explanation
Indices: 88763833--88763877 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
88763823 CCTTTTTTTT
88763833 TAATGATTTTGGTAC
1 TAATGATTTTGGTAC
**
88763848 TTAATTTTTTTGGTA-
1 -TAATGATTTTGGTAC
88763863 TAATGATTTTGGTAC
1 TAATGATTTTGGTAC
88763878 ATATTAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 12 0.50
16 12 0.50
ACGTcount: A:0.24, C:0.04, G:0.18, T:0.53
Consensus pattern (15 bp):
TAATGATTTTGGTAC
Found at i:88767470 original size:35 final size:35
Alignment explanation
Indices: 88767422--88767513 Score: 118
Period size: 34 Copynumber: 2.7 Consensus size: 35
88767412 ATGTTAAACA
88767422 CTGACTCTCTTTCATGTTGTTTTTCTTATACAACT-
1 CTGACTCTCTTTCATGTTGTTTTT-TTATACAACTC
* *
88767457 CTGACT-TCTTTTCATGTTATTTTTTTATGCAACTC
1 CTGACTCTC-TTTCATGTTGTTTTTTTATACAACTC
*
88767492 CT-ACTCTCTCTCATGTTGTTTT
1 CTGACTCTCTTTCATGTTGTTTT
88767514 ATGTGCTATG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
34 26 0.52
35 24 0.48
ACGTcount: A:0.15, C:0.23, G:0.09, T:0.53
Consensus pattern (35 bp):
CTGACTCTCTTTCATGTTGTTTTTTTATACAACTC
Found at i:88769994 original size:26 final size:26
Alignment explanation
Indices: 88769932--88770002 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
88769922 TCTCATCCCT
* ** * *
88769932 ATTTTGCCCCCAACAAAATTTTGATG
1 ATTTTGCCCCTAGTAAAATCTTGACG
*
88769958 ATTTTACCCCTAGTAAAATCTTGACG
1 ATTTTGCCCCTAGTAAAATCTTGACG
88769984 ATTTTGCCCCTAGTAAAAT
1 ATTTTGCCCCTAGTAAAAT
88770003 TATGAGAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (26 bp):
ATTTTGCCCCTAGTAAAATCTTGACG
Found at i:88780834 original size:3 final size:3
Alignment explanation
Indices: 88780828--88780852 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
88780818 GAACAAAAAA
88780828 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
88780853 TTTTGAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:88782000 original size:16 final size:17
Alignment explanation
Indices: 88781968--88782000 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
88781958 TTATTTTATG
*
88781968 TTAATTAATAGAAGCAT
1 TTAATTAATAAAAGCAT
88781985 TTAATT-ATAAAAGCAT
1 TTAATTAATAAAAGCAT
88782001 AAATAATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
TTAATTAATAAAAGCAT
Found at i:88784273 original size:4 final size:4
Alignment explanation
Indices: 88784264--88784303 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
88784254 AAGAAGCAAA
* *
88784264 TATG TATG TATG TTTG TATG TATG TATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88784304 CATACCCCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:88791522 original size:16 final size:15
Alignment explanation
Indices: 88791503--88791541 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
88791493 ATTTAAAAGA
88791503 TTTAAATTCAAAAAAC
1 TTTAAATTC-AAAAAC
* *
88791519 TTTAATTTCAAAAAG
1 TTTAAATTCAAAAAC
88791534 TTTAAATT
1 TTTAAATT
88791542 TAGAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (15 bp):
TTTAAATTCAAAAAC
Found at i:88791542 original size:16 final size:17
Alignment explanation
Indices: 88791497--88791542 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
88791487 TTCAAAATTT
88791497 AAAAGATTTAAA-TTCAA
1 AAAAG-TTTAAATTTCAA
*
88791514 AAAACTTT-AATTTC-A
1 AAAAGTTTAAATTTCAA
88791529 AAAAGTTTAAATTT
1 AAAAGTTTAAATTT
88791543 AGAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 10 0.40
16 11 0.44
17 4 0.16
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (17 bp):
AAAAGTTTAAATTTCAA
Found at i:88794595 original size:13 final size:13
Alignment explanation
Indices: 88794577--88794603 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88794567 TTTCAAACTT
88794577 CCTTTTAACGACC
1 CCTTTTAACGACC
88794590 CCTTTTAACGACC
1 CCTTTTAACGACC
88794603 C
1 C
88794604 TAATATAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.41, G:0.07, T:0.30
Consensus pattern (13 bp):
CCTTTTAACGACC
Found at i:88796010 original size:48 final size:47
Alignment explanation
Indices: 88795931--88796157 Score: 203
Period size: 48 Copynumber: 4.7 Consensus size: 47
88795921 CAGGGTAAAT
* * * **
88795931 TGCCGATGCCATGT-CTCAGACATGATTTTACACTGGCTCACATGTCGA
1 TGCCGATGCCATGTCCT-AAACATGGTCTTACACTGGCTCACATAAC-A
*
88795979 -GCCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTCATAACA
1 TG-CCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATAACA
* * **
88796026 TTGTCGACGCCATGTTCC-AAACATGGTCTTACACTGGCTCTTATAACA
1 -TGCCGATGCCATG-TCCTAAACATGGTCTTACACTGGCTCACATAACA
* * *
88796074 TTGGCGATGTCATGTTCC-AAACATGGTCTTACACTGGCTCTCATAACA
1 -TGCCGATGCCATG-TCCTAAACATGGTCTTACACTGGCTCACATAACA
* *
88796122 TTGGCGATGTCATGTTCC-AAACATGGTCTTACACTG
1 -TGCCGATGCCATG-TCCTAAACATGGTCTTACACTG
88796158 TAACGACCCA
Statistics
Matches: 161, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
47 2 0.01
48 153 0.95
49 6 0.04
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
TGCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATAACA
Found at i:88796097 original size:23 final size:23
Alignment explanation
Indices: 88796070--88796145 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 23
88796060 TGGCTCTTAT
88796070 AACATTGGCGATGTCATGTTCCA
1 AACATTGGCGATGTCATGTTCCA
*
88796093 AACA-TGGTC--T-TACACTGGCTCTCA
1 AACATTGG-CGATGT-CA-T-GTTC-CA
88796117 TAACATTGGCGATGTCATGTTCCA
1 -AACATTGGCGATGTCATGTTCCA
88796141 AACAT
1 AACAT
88796146 GGTCTTACAC
Statistics
Matches: 41, Mismatches: 2, Indels: 20
0.65 0.03 0.32
Matches are distributed among these distances:
20 1 0.02
21 3 0.07
22 4 0.10
23 13 0.32
24 4 0.10
25 8 0.20
26 4 0.10
27 3 0.07
28 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (23 bp):
AACATTGGCGATGTCATGTTCCA
Found at i:88796102 original size:96 final size:96
Alignment explanation
Indices: 88795982--88796157 Score: 300
Period size: 96 Copynumber: 1.8 Consensus size: 96
88795972 ATGTCGAGCC
*
88795982 CGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTCATAACATTGTCGACGCCATGTTCCAAA
1 CGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTCATAACATTGGCGACGCCATGTTCCAAA
88796047 CATGGTCTTACACTGGCTCTTATAACATTGG
66 CATGGTCTTACACTGGCTCTTATAACATTGG
* * *
88796078 CGATGTCATGTTCC-AAACATGGTCTTACACTGGCTCTCATAACATTGGCGATGTCATGTTCCAA
1 CGATGCCATG-TCCTAAACATGGTCTTACACTGGCTCTCATAACATTGGCGACGCCATGTTCCAA
88796142 ACATGGTCTTACACTG
65 ACATGGTCTTACACTG
88796158 TAACGACCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
96 72 0.96
97 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (96 bp):
CGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTCATAACATTGGCGACGCCATGTTCCAAA
CATGGTCTTACACTGGCTCTTATAACATTGG
Found at i:88807271 original size:13 final size:13
Alignment explanation
Indices: 88807255--88807288 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
88807245 TAAATTATAA
*
88807255 ATTATTATTAACT
1 ATTATTATTAAAT
88807268 ATTATTATTAAAT
1 ATTATTATTAAAT
*
88807281 AATATTAT
1 ATTATTAT
88807289 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTATTATTAAAT
Found at i:88807342 original size:17 final size:17
Alignment explanation
Indices: 88807320--88807354 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
88807310 AAATGAAGAA
*
88807320 AAAGAATAAAAAGAAAC
1 AAAGAAGAAAAAGAAAC
*
88807337 AAAGAAGAATAAGAAAC
1 AAAGAAGAAAAAGAAAC
88807354 A
1 A
88807355 GAGAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAGAAGAAAAAGAAAC
Found at i:88808978 original size:39 final size:39
Alignment explanation
Indices: 88808871--88809005 Score: 121
Period size: 39 Copynumber: 3.4 Consensus size: 39
88808861 GACCTCGAGT
* * * *
88808871 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGCTAG-TC
** ** * *
88808912 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
*
88808950 CGATGAGACACTGGGTGTCAATTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAATTATTACTTCG-GCTAGTC
*
88808989 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
88809006 CCATATTGGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
Found at i:88815070 original size:13 final size:13
Alignment explanation
Indices: 88815054--88815112 Score: 84
Period size: 13 Copynumber: 4.6 Consensus size: 13
88815044 TAAATTATAA
88815054 ATTATTATTAACT
1 ATTATTATTAACT
88815067 ATTATTATTAA-T
1 ATTATTATTAACT
*
88815079 AATATTATTAACT
1 ATTATTATTAACT
*
88815092 ATTATTATTAAAT
1 ATTATTATTAACT
*
88815105 AATATTAT
1 ATTATTAT
88815113 ATATATATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
12 11 0.27
13 30 0.73
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTATTATTAACT
Found at i:88815129 original size:26 final size:26
Alignment explanation
Indices: 88815056--88815112 Score: 107
Period size: 25 Copynumber: 2.2 Consensus size: 26
88815046 AATTATAAAT
88815056 TATTATTAACTATTATTATT-AATAA
1 TATTATTAACTATTATTATTAAATAA
88815081 TATTATTAACTATTATTATTAAATAA
1 TATTATTAACTATTATTATTAAATAA
88815107 TATTAT
1 TATTAT
88815113 ATATATATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 20 0.65
26 11 0.35
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
TATTATTAACTATTATTATTAAATAA
Found at i:88815164 original size:17 final size:17
Alignment explanation
Indices: 88815142--88815176 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
88815132 AAATGAAGAA
*
88815142 AAAGAATAAAAAGAAAC
1 AAAGAAGAAAAAGAAAC
*
88815159 AAAGAAGAATAAGAAAC
1 AAAGAAGAAAAAGAAAC
88815176 A
1 A
88815177 GAGAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAGAAGAAAAAGAAAC
Found at i:88816802 original size:39 final size:39
Alignment explanation
Indices: 88816695--88816829 Score: 121
Period size: 39 Copynumber: 3.4 Consensus size: 39
88816685 GACCTCGAGT
* * * *
88816695 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGCTAG-TC
** ** * *
88816736 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
*
88816774 CGATGAGACACTGGGTGTCAATTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAATTATTACTTCG-GCTAGTC
*
88816813 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
88816830 CCATATTGGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
Found at i:88817856 original size:48 final size:48
Alignment explanation
Indices: 88817775--88817876 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
88817765 AGGTGTTACA
* * *
88817775 TACACTGGCTCTCATAACATTGGTGATGTCATGTTCC-AAACATGGTCT
1 TACACTGGCTCTCATAACATTGGCGATGCCATG-TCCTAAACATCGTCT
*
88817823 TACACTGGCTCTCAT-A-ATGTGGCCGATGCCATGTCCTAGACATCGTCT
1 TACACTGGCTCTCATAACAT-TGG-CGATGCCATGTCCTAAACATCGTCT
88817871 TACACT
1 TACACT
88817877 AGCACACATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
46 2 0.04
47 7 0.15
48 38 0.81
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
TACACTGGCTCTCATAACATTGGCGATGCCATGTCCTAAACATCGTCT
Found at i:88825548 original size:48 final size:48
Alignment explanation
Indices: 88825370--88825641 Score: 253
Period size: 48 Copynumber: 5.7 Consensus size: 48
88825360 TAAATTATTA
* * * * **
88825370 ATGCCATGTCCCAAACATGGTTTTACACTGGCTCACGTGTCGA--GCCAG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAAC-ATTGCC-G
* * * * ** * *
88825418 ATGCCTTGTCTCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACATTGCCG
* *
88825466 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATAACATTGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACATTGCCG
* * *
88825514 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTTATAACATTGGCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACATTGCCG
* * * ** *
88825562 ATGCCATGTTCCAAATATGGTCTTAC-CGTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACAC-TAGCTCTCATAACATTGCCG
* *
88825610 ATGCTATGTCCCAGACATGGTCTTACACTAGC
1 ATGCCATGTCCCAAACATGGTCTTACACTAGC
88825642 ACACATATCA
Statistics
Matches: 187, Mismatches: 33, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
47 2 0.01
48 181 0.97
49 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACATTGCCG
Found at i:88829294 original size:18 final size:19
Alignment explanation
Indices: 88829227--88829294 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 19
88829217 TAATAAAGGA
*
88829227 AAATAAAATAAAAAGTACTT
1 AAATAAAATAAAAA-TACAT
* *
88829247 AAATAAGATAAATAA-AGAT
1 AAATAAAATAAA-AATACAT
88829266 AAATGTGAAAATAAAAATA-AT
1 AAA--T-AAAATAAAAATACAT
88829287 AAATAAAA
1 AAATAAAA
88829295 AGTTTTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
18 4 0.10
19 6 0.15
20 11 0.28
21 10 0.26
22 8 0.21
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.22
Consensus pattern (19 bp):
AAATAAAATAAAAATACAT
Found at i:88846021 original size:21 final size:21
Alignment explanation
Indices: 88845982--88846022 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
88845972 CCGGCTTTTA
* *
88845982 AGATGGATCAATTGGCTTTCG
1 AGATGGATCAATCGACTTTCG
*
88846003 AGATGGATTAATCGACTTTC
1 AGATGGATCAATCGACTTTC
88846023 TTCGAGTAAT
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:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (21 bp):
AGATGGATCAATCGACTTTCG
Found at i:88859351 original size:48 final size:48
Alignment explanation
Indices: 88859295--88859390 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
88859285 GGTTGTTGGA
* *
88859295 TCCCCGCTTCGCATCTCGTGGTCTCTCATTGTCACTTGTGCTATCAAT
1 TCCCCGCTTCGCATCTCGTGGTCTCTCATTGCCACTTATGCTATCAAT
* *
88859343 TCCCCGCTTCGCATTTCGTGGTTTCTCATTGCCACTTATGCTATCAAT
1 TCCCCGCTTCGCATCTCGTGGTCTCTCATTGCCACTTATGCTATCAAT
88859391 ACTGTGGCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.14, C:0.32, G:0.16, T:0.39
Consensus pattern (48 bp):
TCCCCGCTTCGCATCTCGTGGTCTCTCATTGCCACTTATGCTATCAAT
Found at i:88867702 original size:46 final size:47
Alignment explanation
Indices: 88867630--88867756 Score: 159
Period size: 46 Copynumber: 2.7 Consensus size: 47
88867620 CATTGGGTGG
*
88867630 TATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-GA
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGGA
* *
88867676 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGA
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-GGA
* * * *
88867724 TATTCA-AGCTAGTGTAAGACCTATCTGGGACAT
1 TA-TGAGAGCCAGTGTAAGACATGTCTGGGACAT
88867757 AGTGTCAGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
46 41 0.58
48 28 0.39
49 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGGA
Found at i:88867897 original size:141 final size:138
Alignment explanation
Indices: 88867643--88867897 Score: 293
Period size: 141 Copynumber: 1.8 Consensus size: 138
88867633 GTGAGCCAGT
*
88867643 GTAAGACATGTCTGGGACATGCATCAGCCACGATATGAGAGCCAGTGTAAGACATGTCTGGGACA
1 GTAAGACATGTCTGGGACATGCATCAGACACGATATGAGAGCCAGTGTAAGACATGTCTGGGACA
* ** * * * *
88867708 TGCATCGGCCTCGGGATATTCAAGCTAGTGTAAGACCTATCTGGGACATAGTGTCAGCTTATTGT
66 GGCATCGGAATCGGAATATACAAGCCAGTGTAAGACCTATCTGAGACATAGTGTCAGCTTATTGT
88867773 TTGTCAGC
131 TTGTCAGC
* *
88867781 GTAAGACCTGTCTGGGACATGTCATC-GACACTGATAGATGAGAGCCAGTGTAAGACTTGTCTGG
1 GTAAGACATGTCTGGGACATG-CATCAGACAC-GAT--ATGAGAGCCAGTGTAAGACATGTCTGG
** * *
88867845 GACACGGCATC-GAAT-TTAATGTACTAGCCAGTGTAAGACC-ATGCCTGAGACAT
62 GACA-GGCATCGGAATCGGAATATACAAGCCAGTGTAAGACCTAT--CTGAGACAT
88867898 GACGTCAGCA
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
138 24 0.25
139 9 0.09
140 18 0.19
141 40 0.42
142 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (138 bp):
GTAAGACATGTCTGGGACATGCATCAGACACGATATGAGAGCCAGTGTAAGACATGTCTGGGACA
GGCATCGGAATCGGAATATACAAGCCAGTGTAAGACCTATCTGAGACATAGTGTCAGCTTATTGT
TTGTCAGC
Found at i:88880624 original size:24 final size:25
Alignment explanation
Indices: 88880583--88880629 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88880573 TTAAAATAAT
*
88880583 TTAAAAAAAATGATAAATTTAAAAA
1 TTAAAAAAAACGATAAATTTAAAAA
*
88880608 TTAAAAAGAACGA-AAATTTAAA
1 TTAAAAAAAACGATAAATTTAAA
88880630 TTAAATGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (25 bp):
TTAAAAAAAACGATAAATTTAAAAA
Found at i:88880740 original size:15 final size:16
Alignment explanation
Indices: 88880706--88880743 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
88880696 AAGGAAAAGG
88880706 AAAGAAATTTGCTCAA
1 AAAGAAATTTGCTCAA
88880722 AAAGAAATATTG-T-AA
1 AAAGAAAT-TTGCTCAA
88880737 AAAGAAA
1 AAAGAAA
88880744 AATTTTCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 9 0.43
17 3 0.14
ACGTcount: A:0.61, C:0.05, G:0.13, T:0.21
Consensus pattern (16 bp):
AAAGAAATTTGCTCAA
Found at i:88883118 original size:19 final size:19
Alignment explanation
Indices: 88883094--88883133 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
88883084 TAAATAATAT
88883094 CAATGTAACCTTTTCAACC
1 CAATGTAACCTTTTCAACC
88883113 CAATGTAACCTTTTCAACC
1 CAATGTAACCTTTTCAACC
88883132 CA
1 CA
88883134 GTCTAGACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.30
Consensus pattern (19 bp):
CAATGTAACCTTTTCAACC
Found at i:88887428 original size:23 final size:22
Alignment explanation
Indices: 88887383--88887428 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
88887373 CAACCAATCC
*
88887383 AATTCAACATATTTTCAAGATA
1 AATTCAACATATTTTCAAAATA
88887405 AATTCATACATATTTAT-AAAATA
1 AATTCA-ACATATTT-TCAAAATA
88887428 A
1 A
88887429 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTCAACATATTTTCAAAATA
Found at i:88893015 original size:138 final size:137
Alignment explanation
Indices: 88892729--88893147 Score: 601
Period size: 138 Copynumber: 3.1 Consensus size: 137
88892719 GAGAATATAG
* *
88892729 ATATAATTAATATATGATTTTGATTCATACAAAATATTAATTATATATA-TTAAT-GAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTATCGAATTTATT
* * ** * * * * * *
88892792 AAAATATATGGTAATATTAATTAATTTTGGCCTAAATAT-AAAGACATGGGAATTATTATTCTTT
66 AATATAAACAGTTATA-TAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
88892856 TGGAAATA
130 TGGAAAGA
* *
88892864 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTATCAAATTTTTT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTATCGAATTTATT
*
88892929 AATATAAACAGTTATACTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAGTTATA-TAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
88892994 TGGAAAGA
130 TGGAAAGA
* * *
88893002 ATATAATTAATATATGAATTTCATTCATACAAAATATTAATTGTATATATATTATCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTATCGAATTTATT
* *
88893067 AATATAAACAATTATATGAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAACAGTTATAT-AATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
88893132 TGGAAAGA
130 TGGAAAGA
88893140 ATATAATT
1 ATATAATT
88893148 CCTTTTTCTA
Statistics
Matches: 255, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
135 48 0.19
136 4 0.02
137 38 0.15
138 165 0.65
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (137 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTATCGAATTTATT
AATATAAACAGTTATATAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTT
GGAAAGA
Found at i:88897693 original size:40 final size:40
Alignment explanation
Indices: 88897648--88897777 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
88897638 CGGAATATAA
88897648 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
88897688 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
88897728 CCGGATGTAGCCACTAGCACAATTGCATTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*
88897768 CAGGATATAA
1 CCGGATATAA
88897778 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88901147 original size:25 final size:27
Alignment explanation
Indices: 88901110--88901162 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
88901100 TCAAACATGC
88901110 ATTTAGGTCAATTCAAC-CCTAGGGGT
1 ATTTAGGTCAATTCAACTCCTAGGGGT
* * *
88901136 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTCAACTCCTAGGGGT
88901162 A
1 A
88901163 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTCAACTCCTAGGGGT
Found at i:88902738 original size:31 final size:32
Alignment explanation
Indices: 88902655--88902746 Score: 168
Period size: 32 Copynumber: 2.9 Consensus size: 32
88902645 GCTTATCATG
88902655 CCATCATCCATTAACTATTAAAATGCTAATGC
1 CCATCATCCATTAACTATTAAAATGCTAATGC
*
88902687 CCATCATTCATTAACTATTAAAATGCTAATGC
1 CCATCATCCATTAACTATTAAAATGCTAATGC
88902719 CCATCATCCATT-ACTATTAAAATGCTAA
1 CCATCATCCATTAACTATTAAAATGCTAA
88902747 AATGCATACA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
31 16 0.28
32 42 0.72
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (32 bp):
CCATCATCCATTAACTATTAAAATGCTAATGC
Found at i:88907579 original size:12 final size:12
Alignment explanation
Indices: 88907562--88907592 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
88907552 AGTACTACCT
88907562 CGGCCTCGACCA
1 CGGCCTCGACCA
88907574 CGGCCTCGACCA
1 CGGCCTCGACCA
88907586 CGGCCTC
1 CGGCCTC
88907593 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:88909293 original size:26 final size:27
Alignment explanation
Indices: 88909255--88909308 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
88909245 TCAAACATGC
88909255 ATTTAGGTCAATTTCAAC-CCTAGGGGT
1 ATTTAGGTCAATTT-AACTCCTAGGGGT
* *
88909282 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
88909308 A
1 A
88909309 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 15 0.62
27 7 0.29
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:88910829 original size:32 final size:32
Alignment explanation
Indices: 88910792--88910888 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
88910782 AATGCTTATC
88910792 ATGCCCATCATCTATTAACTATTAAAATGCTA
1 ATGCCCATCATCTATTAACTATTAAAATGCTA
88910824 ATGCCCATCAT-TCATTAACTATTAAAATGCTA
1 ATGCCCATCATCT-ATTAACTATTAAAATGCTA
*
88910856 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCTATTAACTATTAAAATGCTA
88910888 A
1 A
88910889 AATGCATACA
Statistics
Matches: 62, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
31 1 0.02
32 61 0.98
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (32 bp):
ATGCCCATCATCTATTAACTATTAAAATGCTA
Found at i:88913821 original size:17 final size:18
Alignment explanation
Indices: 88913794--88913827 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88913784 TTGTTCTATT
*
88913794 TTTTTGATGATTTTTACG
1 TTTTTGATGATTGTTACG
88913812 TTTTTG-TGATTGTTAC
1 TTTTTGATGATTGTTAC
88913828 TTAGTAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.06, G:0.18, T:0.62
Consensus pattern (18 bp):
TTTTTGATGATTGTTACG
Found at i:88914645 original size:42 final size:41
Alignment explanation
Indices: 88914533--88914658 Score: 112
Period size: 42 Copynumber: 3.0 Consensus size: 41
88914523 TTCTGATATG
* ** *
88914533 TGATTTCATGTAAGACCAC-GTCTGGGACGTTGGCATCGATT
1 TGATTTCGTGTAAGACC-CTGTCTGGGAAATCGGCATCGATT
* * *
88914574 TGAGATTTAAGTGTAAGACCATGTTTGGGAAATCGGCATCGTATT
1 T--GATTT-CGTGTAAGACCCTGTCTGGGAAATCGGCATCG-ATT
*
88914619 TGATTTCGTGTAAGACCCTGTCTGGGACAGT-GGCATCGAT
1 TGATTTCGTGTAAGACCCTGTCTGGGA-AATCGGCATCGAT
88914659 ACATGATTAC
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
41 3 0.04
42 25 0.37
43 12 0.18
44 24 0.35
45 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTGTCTGGGAAATCGGCATCGATT
Found at i:88914688 original size:43 final size:43
Alignment explanation
Indices: 88914533--88914697 Score: 133
Period size: 43 Copynumber: 3.8 Consensus size: 43
88914523 TTCTGATATG
* **
88914533 TGATTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATTTGA
1 TGATTACATGTAAGACCACGTCTGGGACGTTGGCATCGA-TACA
* * ** * **
88914577 -GATTTA-AGTGTAAGACCATGTTTGGGAAATCGGCATCG-TATT
1 TGA-TTACA-TGTAAGACCACGTCTGGGACGTTGGCATCGATACA
* *
88914619 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATACA
1 TGATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATACA
*
88914662 TGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
88914698 TGTATGAGCT
Statistics
Matches: 91, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 28 0.31
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TGATTACATGTAAGACCACGTCTGGGACGTTGGCATCGATACA
Found at i:88916337 original size:56 final size:56
Alignment explanation
Indices: 88916244--88916351 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
88916234 ATGGCATCGA
* * *
88916244 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATTGATATGTGATTCCGG
1 TATATATGTGCGAGTAAGACCACGTCTAATACATTGGCATCGATATGTGATTCCGG
* * * *
88916300 TATATATGTGCTAGTAAGACTACGTCTAGTACGTTGGCATCGATATGTGATT
1 TATATATGTGCGAGTAAGACCACGTCTAATACATTGGCATCGATATGTGATT
88916352 ACATGTAAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (56 bp):
TATATATGTGCGAGTAAGACCACGTCTAATACATTGGCATCGATATGTGATTCCGG
Found at i:88919834 original size:54 final size:55
Alignment explanation
Indices: 88919737--88919840 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 55
88919727 TTGCGAGACC
88919737 GAGTTTTTCTTCCTGAGGTGCACCGATTTTGTTTGTGAAAAAGAAAGACGGGACT
1 GAGTTTTTCTTCCTGAGGTGCACCGATTTTGTTTGTGAAAAAGAAAGACGGGACT
* *
88919792 GAGTTTTTCTTCTTGAGGTGTACC-ATTTTGTTTGTGAAAAAGAAAGACG
1 GAGTTTTTCTTCCTGAGGTGCACCGATTTTGTTTGTGAAAAAGAAAGACG
88919841 AAACTATGAG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 25 0.53
55 22 0.47
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (55 bp):
GAGTTTTTCTTCCTGAGGTGCACCGATTTTGTTTGTGAAAAAGAAAGACGGGACT
Found at i:88924189 original size:33 final size:33
Alignment explanation
Indices: 88924147--88924209 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
88924137 TCAAAGATAG
*
88924147 ATTTGAGATCAGGTTACTATCAGTTACGAGTAA
1 ATTTGAGATCAAGTTACTATCAGTTACGAGTAA
88924180 ATTTGAGATCAAGTTACTATCAGTTACGAG
1 ATTTGAGATCAAGTTACTATCAGTTACGAG
88924210 AAAAAGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (33 bp):
ATTTGAGATCAAGTTACTATCAGTTACGAGTAA
Found at i:88928158 original size:36 final size:36
Alignment explanation
Indices: 88928117--88928192 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
88928107 TAAAAGCCTC
88928117 ACACATAATCATCTATTAAATTTACCACATAATTAT
1 ACACATAATCATCTATTAAATTTACCACATAATTAT
88928153 ACACATAATCATCTATTAAATTTACCACATAATTAT
1 ACACATAATCATCTATTAAATTTACCACATAATTAT
88928189 ACAC
1 ACAC
88928193 CATAGGTATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (36 bp):
ACACATAATCATCTATTAAATTTACCACATAATTAT
Found at i:88928663 original size:50 final size:50
Alignment explanation
Indices: 88928593--88928837 Score: 321
Period size: 50 Copynumber: 4.9 Consensus size: 50
88928583 ACATTAAAGT
* * *
88928593 CGATGCCATGCCCCAGACATGGTCTTAAACT-GACTCTCGTATATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATATCGAGGC
* * * *
88928643 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTATCGACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGC
* * *
88928693 TGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGC
* * **
88928743 CAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTTAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGC
* * *
88928793 TGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCAAATATC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC
88928838 CCTAGCATCA
Statistics
Matches: 170, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
50 169 0.99
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGC
Found at i:88933848 original size:12 final size:12
Alignment explanation
Indices: 88933831--88933855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88933821 ATAGAGATTA
88933831 TATCATATTAAC
1 TATCATATTAAC
88933843 TATCATATTAAC
1 TATCATATTAAC
88933855 T
1 T
88933856 TCTACAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TATCATATTAAC
Found at i:88940948 original size:30 final size:30
Alignment explanation
Indices: 88940914--88940977 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
88940904 ATAATAAATT
*
88940914 AATAATAAATATCTTATTAAAT-ATTAATAA
1 AATAATAAATATCTAATTAAATAATT-ATAA
** *
88940944 AATAATATTTTTCTAATTAAATAATTATAA
1 AATAATAAATATCTAATTAAATAATTATAA
88940974 AATA
1 AATA
88940978 TCATCAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
AATAATAAATATCTAATTAAATAATTATAA
Found at i:88943684 original size:90 final size:90
Alignment explanation
Indices: 88943590--88943769 Score: 315
Period size: 90 Copynumber: 2.0 Consensus size: 90
88943580 AGCATGTTAG
*
88943590 TCATGTAATTCACATTAATAACAATAAACAAGTATAAACTTATCACTAATCAAATTTCCTTATTC
1 TCATGTAATTCACATGAATAACAATAAACAAGTATAAACTTATCACTAATCAAATTTCCTTATTC
88943655 ATGTACTTTCCACATCATGTATTCA
66 ATGTACTTTCCACATCATGTATTCA
* * *
88943680 TCATGTAATTCACATGAATAACAATAAACAAGTATGAACTTATCATTAATCACATTTCCTTATTC
1 TCATGTAATTCACATGAATAACAATAAACAAGTATAAACTTATCACTAATCAAATTTCCTTATTC
*
88943745 ATGTACTTTCCACATCTTGTATTCA
66 ATGTACTTTCCACATCATGTATTCA
88943770 AACTTCATAT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (90 bp):
TCATGTAATTCACATGAATAACAATAAACAAGTATAAACTTATCACTAATCAAATTTCCTTATTC
ATGTACTTTCCACATCATGTATTCA
Found at i:88944073 original size:24 final size:25
Alignment explanation
Indices: 88944027--88944082 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
88944017 AAGCTTATCC
*
88944027 GAGCTTAATAACAGGAAGCTCATAA
1 GAGCTTAATAACAGAAAGCTCATAA
* **
88944052 GAGCTTAA-ATCAGAAAGCTCATGT
1 GAGCTTAATAACAGAAAGCTCATAA
88944076 GAGCTTA
1 GAGCTTA
88944083 GTGGGTAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (25 bp):
GAGCTTAATAACAGAAAGCTCATAA
Found at i:88945012 original size:30 final size:29
Alignment explanation
Indices: 88944978--88945036 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
88944968 TTTGATTGAC
* *
88944978 CTAGGGGTAAAATGGTCATTTTGTCTAAGT
1 CTAGGGGCAAAATGGTCA-TTTGTCCAAGT
*
88945008 CTAGGGGCAAATTGGTCATTTGTCCAAGT
1 CTAGGGGCAAAATGGTCATTTGTCCAAGT
88945037 ATGAATTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (29 bp):
CTAGGGGCAAAATGGTCATTTGTCCAAGT
Found at i:88945019 original size:29 final size:30
Alignment explanation
Indices: 88944978--88945036 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
88944968 TTTGATTGAC
*
88944978 CTAGGGGTAAAA-TGGTCATTTTGTCTAAGT
1 CTAGGGGTAAAATTGGTCA-TTTGTCCAAGT
*
88945008 CTAGGGG-CAAATTGGTCATTTGTCCAAGT
1 CTAGGGGTAAAATTGGTCATTTGTCCAAGT
88945037 ATGAATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (30 bp):
CTAGGGGTAAAATTGGTCATTTGTCCAAGT
Found at i:88945398 original size:46 final size:45
Alignment explanation
Indices: 88945345--88945600 Score: 200
Period size: 47 Copynumber: 5.5 Consensus size: 45
88945335 ATTGTGGGCT
88945345 AGTGTAAGCCATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGCCATGTCTGGGACATGCATCGG-CACATTATGAGAGCC
* ** *
88945391 AGTGTAAGACAATGTCTGGGAGGTGGCATCGG--CATTGA-GACGAGTGCT
1 AGTGTAAG-CCATGTCTGGGACAT-GCATCGGCACATT-ATGA-GA--GCC
* * *
88945439 AGTGTAAGACATGTCTAGGACATGCATCGGCTACATTATGAAAGCC
1 AGTGTAAGCCATGTCTGGGACATGCATCGGC-ACATTATGAGAGCC
* * *
88945485 AGTGTAAGACCATGTCTGGGACGTGGCATCGG--CATTGAGATGAGTGCT
1 AGTGTAAG-CCATGTCTGGGACAT-GCATCGGCACATT---ATGAGAGCC
* * *
88945533 AGTGCAAGACATG-CGTGGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGCCATGTC-TGGGACATGCATC-GGCACATTATGAGAGCC
*
88945579 AGTGTAAAACCATGTCTGGGAC
1 AGTGT-AAGCCATGTCTGGGAC
88945601 GTGGCATCAG
Statistics
Matches: 163, Mismatches: 26, Indels: 41
0.71 0.11 0.18
Matches are distributed among these distances:
45 10 0.06
46 45 0.28
47 58 0.36
48 40 0.25
49 10 0.06
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGCCATGTCTGGGACATGCATCGGCACATTATGAGAGCC
Found at i:88945443 original size:48 final size:47
Alignment explanation
Indices: 88945342--88945643 Score: 198
Period size: 47 Copynumber: 6.4 Consensus size: 47
88945332 GTTATTGTGG
* *
88945342 GCTAGTGTAAGCCATGTCTGGGACAT-GCATCGGCCACATT-ATGA-GA--
1 GCTAGTGTAAGACATGTCTGGGACGTGGCATCGG---CATTGA-GACGAGT
* *
88945388 GCCAGTGTAAGACAATGTCTGGGAGGTGGCATCGGCATTGAGACGAGT
1 GCTAGTGTAAGAC-ATGTCTGGGACGTGGCATCGGCATTGAGACGAGT
* * ** * * **
88945436 GCTAGTGTAAGACATGTCTAGGACAT-GCATCGGC-TACATTATGAAA
1 GCTAGTGTAAGACATGTCTGGGACGTGGCATCGGCATTGA-GACGAGT
* *
88945482 GCCAGTGTAAGACCATGTCTGGGACGTGGCATCGGCATTGAGATGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACGTGGCATCGGCATTGAGACGAGT
* * *
88945530 GCTAGTGCAAGACATG-CGTGGGACAT-GCATCAGCCACATT-ATGA-GA--
1 GCTAGTGTAAGACATGTC-TGGGACGTGGCATC-G--GCATTGA-GACGAGT
* * * *
88945576 GCCAGTGTAAAACCATGTCTGGGACGTGGCATCAGCATTGAAACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACGTGGCATCGGCATTGAGACGAGT
*
88945624 GCTAGTGTAACACATGTCTG
1 GCTAGTGTAAGACATGTCTG
88945644 AGACATACAT
Statistics
Matches: 199, Mismatches: 35, Indels: 43
0.72 0.13 0.16
Matches are distributed among these distances:
45 13 0.07
46 54 0.27
47 64 0.32
48 60 0.30
49 8 0.04
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACGTGGCATCGGCATTGAGACGAGT
Found at i:88945503 original size:94 final size:94
Alignment explanation
Indices: 88945342--88945796 Score: 489
Period size: 94 Copynumber: 4.8 Consensus size: 94
88945332 GTTATTGTGG
* * *
88945342 GCTAGTGTAAGCCATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACAATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
*
88945407 TGGGAGGTGGCATCGGCATTGAGACGAGT
66 TGGGACGTGGCATCGGCATTGAGACGAGT
* *
88945436 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACATTATGAAAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
*
88945501 TGGGACGTGGCATCGGCATTGAGATGAGT
66 TGGGACGTGGCATCGGCATTGAGACGAGT
* * * *
88945530 GCTAGTGCAAGACATG-CGTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAAACCATGT
1 GCTAGTGTAAGACATGTC-TAGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
* *
88945594 CTGGGACGTGGCATCAGCATTGAAACGAGT
65 CTGGGACGTGGCATCGGCATTGAGACGAGT
* * * * * *
88945624 GCTAGTGTAACACATGTCT-GAGACATACATCGACCTCGA-GATGTA-AGCCAGTGTAATA-CAT
1 GCTAGTGTAAGACATGTCTAG-GACATGCATCGGCCAC-ATTATG-AGAGCCAGTGTAAGACCAT
* * * *
88945685 GTCTGGGACAT-GCATCGGC-TACGAGATGTGT
63 GTCTGGGACGTGGCATCGGCAT-TGAGACGAGT
* * * **
88945716 -C-AGTGTAAGGCTATGTCCAGGACATGGCATCGG-CACAGATATGCTAGAGCTTGTGTAAGACC
1 GCTAGTGTAAGAC-ATGTCTAGGACAT-GCATCGGCCACA-TTATG--AGAGCCAGTGTAAGACC
*
88945778 ATGTCTGGGACATGGCATC
61 ATGTCTGGGACGTGGCATC
88945797 AGTACCTTAC
Statistics
Matches: 306, Mismatches: 40, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
90 9 0.03
91 14 0.05
92 22 0.07
93 17 0.06
94 222 0.73
95 17 0.06
96 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACGTGGCATCGGCATTGAGACGAGT
Found at i:88945710 original size:46 final size:46
Alignment explanation
Indices: 88945345--88945796 Score: 271
Period size: 46 Copynumber: 9.6 Consensus size: 46
88945335 ATTGTGGGCT
* *
88945345 AGTGTAAGCCATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CACGA-GATGAGAGCC
** * * * *
88945391 AGTGTAAGACAATGTCTGGGAGGTGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCA-CGAGATGAGAGCC
* * *
88945439 AGTGTAAGACATGTCTAGGACAT-GCATCGGCTAC-ATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC-ACGA-GATGAGAGCC
* * * *
88945485 AGTGTAAGACCATGTCTGGGACGTGGCATCGGCATTGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA-CGAGATGAGAGCC
* * *
88945533 AGTGCAAGACATG-CGTGGGACAT-GCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTC-TGGGACATGGCATC-GGCACGA-GATGAGAGCC
* * * * * * * *
88945579 AGTGTAAAACCATGTCTGGGACGTGGCATCAGCATTGAAACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA-CGAGATGAGAGCC
* * * * *
88945627 AGTGTAACACATGTCTGAGACAT-ACATCGACCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCG-GCACGAGATG-AGAGCC
* * *
88945673 AGTGTAATACATGTCTGGGACAT-GCATCGGCTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC-ACGAGATGAGAGCC
* ** * *
88945717 AGTGTAAGGCTATGTCCAGGACATGGCATCGGCACAGATATGCTAGAGCT
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCAC-GAGATG--AGAGCC
*
88945767 TGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
88945797 AGTACCTTAC
Statistics
Matches: 304, Mismatches: 72, Indels: 56
0.70 0.17 0.13
Matches are distributed among these distances:
44 10 0.03
45 16 0.05
46 105 0.35
47 78 0.26
48 65 0.21
49 3 0.01
50 26 0.09
51 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCACGAGATGAGAGCC
Found at i:88950139 original size:31 final size:31
Alignment explanation
Indices: 88950098--88950160 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
88950088 TTGGATTATT
* *
88950098 AATTAGAGGTCCTTAATGAGTAATTTTACCA
1 AATTAGAGGTCCTTAATAAGTAATTTGACCA
*
88950129 AATTATAGGTCCTTAATAAGTAATTTGACCA
1 AATTAGAGGTCCTTAATAAGTAATTTGACCA
88950160 A
1 A
88950161 GTTCTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (31 bp):
AATTAGAGGTCCTTAATAAGTAATTTGACCA
Found at i:88950718 original size:15 final size:15
Alignment explanation
Indices: 88950698--88950726 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
88950688 AACACATTTC
88950698 ATTTTACGAGCCTAT
1 ATTTTACGAGCCTAT
88950713 ATTTTACGAGCCTA
1 ATTTTACGAGCCTA
88950727 GGGACTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (15 bp):
ATTTTACGAGCCTAT
Found at i:88951770 original size:8 final size:8
Alignment explanation
Indices: 88951751--88951808 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
88951741 TCGTGGAAGG
*
88951751 TATGTATA
1 TATGTGTA
*
88951759 TATGTGTT
1 TATGTGTA
88951767 TATGTGTA
1 TATGTGTA
* *
88951775 TAAGTATA
1 TATGTGTA
88951783 TATGTGT-
1 TATGTGTA
88951790 TCATGTGTA
1 T-ATGTGTA
*
88951799 TATGTATA
1 TATGTGTA
88951807 TA
1 TA
88951809 AAGGTGTATG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
7 1 0.03
8 38 0.95
9 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (8 bp):
TATGTGTA
Found at i:88951781 original size:24 final size:24
Alignment explanation
Indices: 88951754--88951808 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
88951744 TGGAAGGTAT
*
88951754 GTATATATGTGTTTATGTGTATAA
1 GTATATATGTGTTCATGTGTATAA
*
88951778 GTATATATGTGTTCATGTGTATAT
1 GTATATATGTGTTCATGTGTATAA
88951802 GTATATA
1 GTATATA
88951809 AAGGTGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (24 bp):
GTATATATGTGTTCATGTGTATAA
Found at i:88955203 original size:14 final size:14
Alignment explanation
Indices: 88955184--88955212 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88955174 CTACTCTCAA
88955184 GTGTGATTTAGATG
1 GTGTGATTTAGATG
88955198 GTGTGATTTAGATG
1 GTGTGATTTAGATG
88955212 G
1 G
88955213 ATTGTGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (14 bp):
GTGTGATTTAGATG
Found at i:88967163 original size:6 final size:6
Alignment explanation
Indices: 88967148--88967179 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
88967138 CACTTACCCC
88967148 TTTT-T TTTTCT TTTTCT TTTT-T TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
88967180 TCCGTAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 9 0.36
6 16 0.64
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (6 bp):
TTTTCT
Done.