Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 116 of 410
Found at i:34661386 original size:38 final size:40
Alignment explanation
Indices: 34661289--34661468 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 40
34661279 CGAATGATGT
* * * * *
34661289 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACAAAAC
* * * *
34661329 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTA-AAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACAAAAC
* *
34661368 CCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACAAAAC
* ** *
34661406 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAC-AAAAC
**
34661446 CCGGGCTTCGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
34661469 TGAGCGAGTC
Statistics
Matches: 111, Mismatches: 22, Indels: 14
0.76 0.15 0.10
Matches are distributed among these distances:
37 12 0.11
38 19 0.17
39 20 0.18
40 51 0.46
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACAAAAC
Found at i:34661450 original size:40 final size:40
Alignment explanation
Indices: 34661368--34661503 Score: 120
Period size: 40 Copynumber: 3.5 Consensus size: 40
34661358 AGTTAAAAAT
* **
34661368 CCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
*
34661405 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* * * * *
34661446 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
34661486 CC-GGTTAAATTCCGAAGG
1 CCGGGTTAAGTCCCGAAGG
34661504 TACGTGATTC
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
38 10 0.12
39 20 0.25
40 46 0.57
41 4 0.05
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:34669510 original size:40 final size:39
Alignment explanation
Indices: 34669348--34669524 Score: 153
Period size: 40 Copynumber: 4.5 Consensus size: 39
34669338 CGAATGATGT
* * * *
34669348 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCTTCGTGC-AAGTTACTAAAC
* * * * *
34669388 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGCTAAG-TCCCGAAGGC-TTCGTGCAAGTTACTAAAC
*
34669428 CCGGGCTAA-TCCCGAAGGCTTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCTTCGTGCAAGTTACTAAAC
* **
34669466 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA-
1 CCGGGCTAAGTCCCGAAGGC-TTCGTGCAAGTTACTA-AAC
**
34669506 CCGGGCTTCGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34669525 TATTTGAGCG
Statistics
Matches: 111, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 24 0.22
39 18 0.16
40 60 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCTTCGTGCAAGTTACTAAAC
Found at i:34669510 original size:78 final size:80
Alignment explanation
Indices: 34669347--34669524 Score: 202
Period size: 78 Copynumber: 2.2 Consensus size: 80
34669337 TCGAATGATG
* * *
34669347 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
34669412 GTGCGAGTTAATAAA
66 GTGCAAGTCAATAAA
* **
34669427 TCCGGGCTAA-TCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
**
34669489 CGTGCAAGTCGCTATAA
65 CGTGCAAGTCAATA-AA
**
34669506 -CCGGGCTTCGTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
34669525 TATTTGAGCG
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
77 1 0.01
78 44 0.53
79 28 0.34
80 10 0.12
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCAAGTCAATAAA
Found at i:34672760 original size:30 final size:30
Alignment explanation
Indices: 34672710--34672778 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
34672700 CATACGGGTA
* *
34672710 GACACATGGGCATGTTTCTAGGACATGTGT
1 GACACACGGGCATGTGTCTAGGACATGTGT
* *
34672740 GACACACGGGCGTGTGTCTAGGCCATGTGT
1 GACACACGGGCATGTGTCTAGGACATGTGT
34672770 GACACACGG
1 GACACACGG
34672779 TCTACCCCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (30 bp):
GACACACGGGCATGTGTCTAGGACATGTGT
Found at i:34683681 original size:11 final size:11
Alignment explanation
Indices: 34683661--34683695 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
34683651 TCATGCTGTA
*
34683661 AATAACAAAAT
1 AATAATAAAAT
34683672 AATAATAAAAT
1 AATAATAAAAT
34683683 AATAATAAAAT
1 AATAATAAAAT
34683694 AA
1 AA
34683696 ATATTTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:34687199 original size:20 final size:20
Alignment explanation
Indices: 34687174--34687212 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34687164 AAAATTGGCC
34687174 TAAGGCCCA-TAATGCGGGCT
1 TAAGG-CCAGTAATGCGGGCT
34687194 TAAGGCCAGTAATGCGGGC
1 TAAGGCCAGTAATGCGGGC
34687213 CCATGTGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.26, C:0.23, G:0.33, T:0.18
Consensus pattern (20 bp):
TAAGGCCAGTAATGCGGGCT
Found at i:34698415 original size:30 final size:30
Alignment explanation
Indices: 34698360--34698490 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
34698350 ATAGTGAATC
*
34698360 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
34698389 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
34698419 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
34698447 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
34698477 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34698491 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:34698470 original size:58 final size:58
Alignment explanation
Indices: 34698359--34698490 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
34698349 TATAGTGAAT
* * * * *
34698359 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
34698418 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
34698476 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
34698491 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:34704082 original size:30 final size:30
Alignment explanation
Indices: 34704027--34704157 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
34704017 ATAGTGAATC
*
34704027 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
34704056 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
34704086 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
34704114 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
34704144 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34704158 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:34704137 original size:58 final size:58
Alignment explanation
Indices: 34704026--34704157 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
34704016 TATAGTGAAT
* * * * *
34704026 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
34704085 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
34704143 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
34704158 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:34706823 original size:17 final size:18
Alignment explanation
Indices: 34706791--34706824 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34706781 TGATCATGGT
*
34706791 ATGTTTGGTGAATGTGAA
1 ATGTTTGGTAAATGTGAA
34706809 ATGTTTGG-AAATGTGA
1 ATGTTTGGTAAATGTGA
34706825 TTTATGGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (18 bp):
ATGTTTGGTAAATGTGAA
Found at i:34708710 original size:68 final size:69
Alignment explanation
Indices: 34708565--34708722 Score: 196
Period size: 68 Copynumber: 2.3 Consensus size: 69
34708555 CTAGCCAATT
* *
34708565 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGGATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTT--GATCACACATGCGACCTAGCTACA
*
34708630 TTTATC
64 TATATC
* * *
34708636 TCTCTCGTAGCTCTCTTGTCTACATGG-GATACATCCCTT-ATCACACATGTGACCTAGCTAC-T
1 TATCTCGTAGCTCTCTTGTCTACATGGTG-TACATCACTTGATCACACATGCGACCTAGCTACAT
*
34708698 ATATAG
65 ATAT-C
34708704 TATCTCGTAGCTCTCTTGT
1 TATCTCGTAGCTCTCTTGT
34708723 ACCCATGATG
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
67 4 0.05
68 39 0.51
70 1 0.01
71 33 0.43
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (69 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGATCACACATGCGACCTAGCTACATA
TATC
Found at i:34714422 original size:68 final size:69
Alignment explanation
Indices: 34714277--34714451 Score: 196
Period size: 68 Copynumber: 2.5 Consensus size: 69
34714267 CTAGCCAATT
* *
34714277 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGGATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTT--GATCACACATGCGACCTAGCTACA
* *
34714342 TTTATC
64 TATAGC
* * *
34714348 TCTCTCGTAGCTCTCTTGTCTACATGG-GATACATCCCTT-ATCACACATGTGACCTAGCTACTA
1 TATCTCGTAGCTCTCTTGTCTACATGGTG-TACATCACTTGATCACACATGCGACCTAGCTAC-A
34714411 TATAGC
64 TATAGC
* *
34714417 -ATCTCGTAGCTCTCTTGTAC-ACATGATGTGCATCA
1 TATCTCGTAGCTCTCTTGT-CTACATGGTGTACATCA
34714452 GCACCTACAT
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
68 48 0.54
69 7 0.08
70 1 0.01
71 33 0.37
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (69 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGATCACACATGCGACCTAGCTACATA
TAGC
Found at i:34722163 original size:40 final size:40
Alignment explanation
Indices: 34722108--34722311 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
34722098 TGAATGATAC
* * * *
34722108 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
34722148 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
34722188 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
34722228 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
34722268 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
34722308 CCGG
1 CCGG
34722312 CTAAATTCCG
Statistics
Matches: 147, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 145 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:34722241 original size:80 final size:80
Alignment explanation
Indices: 34722104--34722315 Score: 320
Period size: 80 Copynumber: 2.7 Consensus size: 80
34722094 CAATTGAATG
* * * *
34722104 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
34722168 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
34722184 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
34722249 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
34722264 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
34722316 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 6 0.05
80 112 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:34730272 original size:39 final size:39
Alignment explanation
Indices: 34730170--34730353 Score: 239
Period size: 39 Copynumber: 4.7 Consensus size: 39
34730160 TGAATGATAC
* * * * *
34730170 CCGGGCTAAG-CCCCAAGGCATTTATGCTAG-TGATTATA
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATA
*
34730208 TCCGGGTTAAGACCCGAAGGCATTTGTGCAAGTTGCTATA
1 -CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA
*
34730248 TCCGGGTTAA-ACCCGAAGGCATTTGTGCGAGTTGTTATA
1 -CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA
*
34730287 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA
*
34730326 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGTTAAGACCCGAAGGCATTTGTGC
34730354 TTGTGGTTAT
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 8 0.06
39 90 0.69
40 31 0.24
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA
Found at i:34730363 original size:78 final size:79
Alignment explanation
Indices: 34730170--34730372 Score: 270
Period size: 78 Copynumber: 2.6 Consensus size: 79
34730160 TGAATGATAC
* * * * *
34730170 CCGGGCTAAG-CCCCAAGGCATTTATGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATA-CCGGGCTAAGACCCGAAGGCATTTG
34730234 TGCAAGTTGCTATAT
65 TGCAAGTTGCTATAT
* *
34730249 CCGGGTTAA-ACCCGAAGGCATTTGTGCGAGTTGTTATACCGGGCTAAGACCCGAAGGCATTTGT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATACCGGGCTAAGACCCGAAGGCATTTGT
*
34730313 GCGAGTTGCTATA-
66 GCAAGTTGCTATAT
* * *
34730326 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATC-GGCTAA
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATACCGGGCTAA
34730373 ATTCCGAAGA
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
77 15 0.14
78 63 0.58
79 31 0.28
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATACCGGGCTAAGACCCGAAGGCATTTGT
GCAAGTTGCTATAT
Found at i:34734022 original size:30 final size:30
Alignment explanation
Indices: 34733986--34734116 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
34733976 GACAAGATTG
* * * * *
34733986 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
34734016 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
34734044 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
34734074 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
34734103 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34734117 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:34734077 original size:58 final size:58
Alignment explanation
Indices: 34733986--34734116 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
34733976 GACAAGATTG
* * * * * *
34733986 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
34734044 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
34734103 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34734117 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:34738868 original size:13 final size:13
Alignment explanation
Indices: 34738850--34738874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34738840 TGTTTGTGAG
34738850 CACGGCCGTGTCA
1 CACGGCCGTGTCA
34738863 CACGGCCGTGTC
1 CACGGCCGTGTC
34738875 TAGCATTGTT
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:0.12, C:0.40, G:0.32, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCA
Found at i:34747115 original size:29 final size:29
Alignment explanation
Indices: 34747082--34747160 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
34747072 CGGTGACGAG
* *
34747082 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCGAGCTGGAAAAAT
*
34747111 ATGGCACTAAGTGTGCAAGCTGGAAAAAT
1 ATGGCACTAAGTGTGCGAGCTGGAAAAAT
* **
34747140 ACGGCACTGGGTGTGCGAGCT
1 ATGGCACTAAGTGTGCGAGCT
34747161 CGGAGGGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTGGAAAAAT
Found at i:34754961 original size:29 final size:29
Alignment explanation
Indices: 34754928--34755006 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
34754918 CGGTGACGAG
* *
34754928 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCGAGCTGGAAAAAT
*
34754957 ATGGCACTAAGTGTGCAAGCTGGAAAAAT
1 ATGGCACTAAGTGTGCGAGCTGGAAAAAT
* **
34754986 ACGGCACTGGGTGTGCGAGCT
1 ATGGCACTAAGTGTGCGAGCT
34755007 CGGAGGGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTGGAAAAAT
Found at i:34758922 original size:40 final size:40
Alignment explanation
Indices: 34758856--34759006 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
34758846 AAATTGAATG
* * *
34758856 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
34758895 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
34758935 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
34758975 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
34759007 ACATGGTTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:34759020 original size:40 final size:40
Alignment explanation
Indices: 34758893--34759022 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
34758883 ATGCTGGAAA
* * * *
34758893 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
34758933 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
34758973 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
34759013 TTATATCCGG
1 TTATATCCGG
34759023 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:34759975 original size:286 final size:285
Alignment explanation
Indices: 34759463--34760036 Score: 1123
Period size: 286 Copynumber: 2.0 Consensus size: 285
34759453 ACTTGAGATG
34759463 GCATGTATAGGACTACCCCTTGTTGGTTAAATATGTTGTGATGTATATATGTACGGCCATGCGAA
1 GCATGTATAGGACTACCCCTTGTTGGTTAAATATGTTGTGATGTATATATGTACGGCCATGCGAA
34759528 AATGGCTCGAAAAGGAAGCATGAACTTAGACTATTTGTGGTTTGTATGTATATATTTGGTGTCAT
66 AATGGCTCGAAAAGGAAGCATGAACTTAGACTATTTGTGGTTTGTATGTATATATTTGGTGTCAT
34759593 GATGTGGCTATGGATTGGAAATGGGAATGTTGGTCACATGATCAGCCATTGGCATGGTTAAAATG
131 GATGTGGCTATGGATTGGAAATGGGAATGTTGGTCACATGATCAGCCATTGGCATGGTTAAAATG
34759658 ATCATATATGAACCTATGTATGGCAAGACTAGTTGGTTCATGGAGACTACCAAATAGGTAAGACC
196 ATCATATATGAACCTATGTATGGCAAGACTAGTT-GTTCATGGAGACTACCAAATAGGTAAGACC
34759723 TACCTTAAAAACAGATGCTGCCAGCT
260 TACCTTAAAAACAGATGCTGCCAGCT
34759749 GCATGTATAGGACTACCCCTTGTTGGTTAAATATGTTGTGATGTATATATGTACGGCCATGCGAA
1 GCATGTATAGGACTACCCCTTGTTGGTTAAATATGTTGTGATGTATATATGTACGGCCATGCGAA
34759814 AATGGCTCGAAAAAGGAAGCATGAACTTAGACTATTTGTGGTTTGTATGTATATATTTGGTGTCA
66 AATGGCTCG-AAAAGGAAGCATGAACTTAGACTATTTGTGGTTTGTATGTATATATTTGGTGTCA
34759879 TGATGTGGCTATGGATTGG-AATGGGAATGTTGGTCACATGATCAGCCATTGGCATGGTTAAAAT
130 TGATGTGGCTATGGATTGGAAATGGGAATGTTGGTCACATGATCAGCCATTGGCATGGTTAAAAT
34759943 GATCATATATGAACCTATGTATGGCAAGACTAGTTGTTCATGGAGACTACCAAATAGGTAAGACC
195 GATCATATATGAACCTATGTATGGCAAGACTAGTTGTTCATGGAGACTACCAAATAGGTAAGACC
34760008 TACCTTAAAAACAGATGCTGCCAGCT
260 TACCTTAAAAACAGATGCTGCCAGCT
34760034 GCA
1 GCA
34760037 GTGACGTGAA
Statistics
Matches: 287, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
285 59 0.21
286 154 0.54
287 74 0.26
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (285 bp):
GCATGTATAGGACTACCCCTTGTTGGTTAAATATGTTGTGATGTATATATGTACGGCCATGCGAA
AATGGCTCGAAAAGGAAGCATGAACTTAGACTATTTGTGGTTTGTATGTATATATTTGGTGTCAT
GATGTGGCTATGGATTGGAAATGGGAATGTTGGTCACATGATCAGCCATTGGCATGGTTAAAATG
ATCATATATGAACCTATGTATGGCAAGACTAGTTGTTCATGGAGACTACCAAATAGGTAAGACCT
ACCTTAAAAACAGATGCTGCCAGCT
Found at i:34764741 original size:40 final size:40
Alignment explanation
Indices: 34764656--34764806 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
34764646 AATTGAATGA
* * *
34764656 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
34764696 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
34764737 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
34764776 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
34764807 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:34764820 original size:40 final size:40
Alignment explanation
Indices: 34764693--34764822 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
34764683 ATGCTGGAAA
* * * *
34764693 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
34764733 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
34764773 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
34764813 TTATATCCGG
1 TTATATCCGG
34764823 TTATATTTCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:34768451 original size:16 final size:16
Alignment explanation
Indices: 34768426--34768466 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
34768416 ACACATCACC
*
34768426 GGTACAAAGCCTGCTA
1 GGTACGAAGCCTGCTA
34768442 GGTACGAAGCCTGCTA
1 GGTACGAAGCCTGCTA
*
34768458 GGCACGAAG
1 GGTACGAAG
34768467 GCCCAAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.32, T:0.15
Consensus pattern (16 bp):
GGTACGAAGCCTGCTA
Found at i:34768509 original size:45 final size:44
Alignment explanation
Indices: 34768445--34768563 Score: 168
Period size: 43 Copynumber: 2.7 Consensus size: 44
34768435 CCTGCTAGGT
* *
34768445 ACGAAGCCTGCTAGGCACGAAGGCCCAAATACACACATCATCGGC
1 ACGAAGCCTGCTAGGCACGAAGGCCCGAATA-ACACATCACCGGC
**
34768490 ACGAAGCCTGCTAGGCACGAAGGGGCGAAT-ACACATCACCGGC
1 ACGAAGCCTGCTAGGCACGAAGGCCCGAATAACACATCACCGGC
* *
34768533 ACAAAGCATGCTAGGCACGAAGGCCCGAATA
1 ACGAAGCCTGCTAGGCACGAAGGCCCGAATA
34768564 TAATACTAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
43 38 0.58
45 27 0.42
ACGTcount: A:0.34, C:0.30, G:0.26, T:0.10
Consensus pattern (44 bp):
ACGAAGCCTGCTAGGCACGAAGGCCCGAATAACACATCACCGGC
Found at i:34769841 original size:2 final size:2
Alignment explanation
Indices: 34769834--34769867 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34769824 CACTTTCAAA
34769834 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
34769868 TTGACATTCA
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:34776061 original size:93 final size:93
Alignment explanation
Indices: 34775955--34776125 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
34775945 GCCCCTAAGT
* *
34775955 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34776020 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
34776048 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34776113 CGAGTTCGGATGC
66 CGAGTTCGGATGC
34776126 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:34776122 original size:46 final size:46
Alignment explanation
Indices: 34775950--34776122 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
34775940 AACCCGCCCC
* * *
34775950 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
34775996 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
34776044 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
34776089 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34776123 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:34793451 original size:2 final size:2
Alignment explanation
Indices: 34793444--34793474 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
34793434 TCGATCGGAG
34793444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34793475 GTACGCACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34793597 original size:29 final size:29
Alignment explanation
Indices: 34793573--34793666 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
34793563 TCGCACACCC
*
34793573 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
34793602 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
34793631 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
34793660 AGTGCCA
1 AGTGCCA
34793667 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:34793598 original size:58 final size:58
Alignment explanation
Indices: 34793535--34793666 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
34793525 GATTTAAGCC
* * * *
34793535 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
34793593 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
34793651 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34793667 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:34804348 original size:40 final size:40
Alignment explanation
Indices: 34804156--34804341 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
34804146 TCGAATGATG
* * *
34804156 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
34804196 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34804236 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34804276 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34804317 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34804342 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34804348 original size:80 final size:80
Alignment explanation
Indices: 34804156--34804374 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
34804146 TCGAATGATG
* * **
34804156 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
34804220 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
34804236 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
*
34804299 TTGTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
34804317 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
34804375 TACGTGATTC
Statistics
Matches: 119, Mismatches: 12, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
79 17 0.14
80 92 0.77
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:34811825 original size:40 final size:40
Alignment explanation
Indices: 34811766--34811973 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
34811756 CAATTGAATG
* * * *
34811766 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
34811806 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
34811846 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
34811886 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
34811926 GTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
34811966 ATATCCGG
1 ATATCCGG
34811974 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:34811904 original size:80 final size:80
Alignment explanation
Indices: 34811768--34811973 Score: 243
Period size: 80 Copynumber: 2.6 Consensus size: 80
34811758 ATTGAATGAT
* * ** * * *
34811768 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
34811833 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
34811848 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* **
34811913 TGTGCAAGTCGTTGT
66 TGTGCAAGTCGCTAC
* *
34811928 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
34811974 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:34815573 original size:39 final size:40
Alignment explanation
Indices: 34815478--34815607 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
34815468 GGGCTCAGTC
* * *
34815478 CCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGAT
*
34815518 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
**
34815558 -CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-T
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
34815596 CCCGAAGGCATT
1 -CCGAAGGCATT
34815608 AACCGGGCTA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 34 0.43
40 39 0.49
41 6 0.08
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
Found at i:34815622 original size:25 final size:25
Alignment explanation
Indices: 34815585--34815632 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
34815575 GTTACTAAAT
*
34815585 CCGGGTTAAGTCCCGAAGGCATTAA
1 CCGGGCTAAGTCCCGAAGGCATTAA
*
34815610 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
34815633 TGAACGAGTA
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:0.23, C:0.27, G:0.29, T:0.21
Consensus pattern (25 bp):
CCGGGCTAAGTCCCGAAGGCATTAA
Found at i:34819904 original size:33 final size:33
Alignment explanation
Indices: 34819862--34819928 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
34819852 GAGCTAATCA
* *
34819862 TGGGCCTGCTCACACAAGCTGATAGTTAGGACG
1 TGGGCCTGCTCACACAAGCTGACAGTCAGGACG
34819895 TGGGCCTGCTCACACAAGCTGACAGTCAGGACG
1 TGGGCCTGCTCACACAAGCTGACAGTCAGGACG
34819928 T
1 T
34819929 AACTACACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.19
Consensus pattern (33 bp):
TGGGCCTGCTCACACAAGCTGACAGTCAGGACG
Found at i:34823030 original size:43 final size:44
Alignment explanation
Indices: 34822973--34823131 Score: 184
Period size: 43 Copynumber: 3.7 Consensus size: 44
34822963 CCATCATCCT
* * * *
34822973 AGACGTGGTGTTACATGTAATCAAATATCGATGCC-ACTGTCCC
1 AGACATGGTCTTACACGAAATCAAATATCGATGCCAACTGTCCC
* * *
34823016 AGATAGGGTCTTACACGAAATCAAATAT-GATGCCGA-TGTCCC
1 AGACATGGTCTTACACGAAATCAAATATCGATGCCAACTGTCCC
*
34823058 AGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCC
1 AGACATGGTCTTACACG-AAATC-AAATATCGATGCCAACTGTCCC
*
34823102 AGACATGGTCTTACACGAAATCACATATCG
1 AGACATGGTCTTACACGAAATCAAATATCG
34823132 TAATCCTATG
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 28 0.29
43 39 0.40
44 31 0.32
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
AGACATGGTCTTACACGAAATCAAATATCGATGCCAACTGTCCC
Found at i:34823102 original size:44 final size:42
Alignment explanation
Indices: 34822999--34823123 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 42
34822989 GTAATCAAAT
* *
34822999 ATCGATGCCACTGTCCCAGATAGGGTCTTACACGAAA--TCAA
1 ATCGATGCCAC-GTCCCAGACATGGTCTTACACGAAATCTCAA
* *
34823040 ATATGATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 AT-CGATGCC-ACGTCCCAGACATGGTCTTACACG-AAATCTCAA
34823085 ATCGATGCCAACGTCCCAGACATGGTCTTACACGAAATC
1 ATCGATGCC-ACGTCCCAGACATGGTCTTACACGAAATC
34823124 ACATATCGTA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
41 2 0.03
42 26 0.36
43 9 0.12
44 29 0.40
45 6 0.08
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATCGATGCCACGTCCCAGACATGGTCTTACACGAAATCTCAA
Found at i:34825613 original size:46 final size:46
Alignment explanation
Indices: 34825561--34825730 Score: 207
Period size: 46 Copynumber: 3.7 Consensus size: 46
34825551 TGTAACCCGC
* *
34825561 CCATAAGTGAACTCGGAATCAACTCAACAAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * *
34825607 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* *** * *
34825653 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
34825700 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
34825731 TTTGGATGCT
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 66 0.65
47 35 0.35
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:34825677 original size:93 final size:93
Alignment explanation
Indices: 34825569--34825739 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
34825559 GCCCATAAGT
*
34825569 GAACTCGGAATCAACTCAACAAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34825634 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
34825662 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
34825727 CGAGTTTGGATGC
66 CGAGCTCGGATGC
34825740 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:34825755 original size:46 final size:45
Alignment explanation
Indices: 34825612--34825755 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
34825602 CGCATCCATA
*
34825612 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
34825661 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
*
34825704 AAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
34825751 AGTGA
1 AGTGA
34825756 CATGTCACTT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 33 0.42
47 29 0.37
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:34827298 original size:29 final size:27
Alignment explanation
Indices: 34827264--34827366 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
34827254 TACTCAATCA
*
34827264 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
34827293 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
34827322 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
34827351 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
34827367 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:34837147 original size:22 final size:23
Alignment explanation
Indices: 34837107--34837153 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
34837097 AACACACATA
* *
34837107 TTAAAACTTAAAACTTTTTTCAC
1 TTAAAACTTAAAACCTTTTTAAC
*
34837130 TTAAAAC-TAAACCCTTTTTAAC
1 TTAAAACTTAAAACCTTTTTAAC
34837152 TT
1 TT
34837154 CTAAATTCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAAAACTTAAAACCTTTTTAAC
Found at i:34853296 original size:254 final size:254
Alignment explanation
Indices: 34852841--34853343 Score: 650
Period size: 254 Copynumber: 2.0 Consensus size: 254
34852831 GGGCACATGG
* * *
34852841 CCAGAGAACATGCCTGTGTTCCCCAATATCAGCCCGTGTGATTCGCGAATTTTGAATTTGAGCGC
1 CCAGAGAACACGCCCGTGTTCCCCAATATCAGCCCGTGTGATTCGCAAATTTTGAATTTGAGCGC
* * * *
34852906 ATCTGACAACTGTTCCACACCTGTGTCCCTTGGGCGTGTGGGTGTACACGACCATATCACATGAT
66 ATCTGACAACTGTTCCACACCCGTGTCCCTTGGGCGTGTGGGTGCACACGACCATATCACACGAC
** * *
34852971 CGTGCTGGACTTCGCTCGCTTCTCCCCCGCCCATGTATGTAGGCCCACGCCCGTGGTAATTTAAT
131 CGTGCTGGACTTCGCTCGCTTCTCCCCCAACCATGTATGTAAGCCCACGCCCGTGGTAATTTAAC
* * *
34853036 AGGTTTGGCCATAGGTGCTAGACACGGGCATGTTGCACACCCGTGTTAATTTGACACGA
196 AGGTTTGACCACAGGTGCTAGACACGGGCATGTCGCACACCCGTGTTAATTTGACACGA
* * *
34853095 CCAGAGAACACGCCCGTGTTCCCTAATTTCAGCCCGTGTGATTTGCAAATTTTGAATTT-AGGCG
1 CCAGAGAACACGCCCGTGTTCCCCAATATCAGCCCGTGTGATTCGCAAATTTTGAATTTGA-GCG
* * * ** * * * ***
34853159 CGTTTGACAATTGTTCCATGCCCGTGTCCCTTGGTCGTGTGGGTGCACACGACCGTGTTGTACGA
65 CATCTGACAACTGTTCCACACCCGTGTCCCTTGGGCGTGTGGGTGCACACGACCATATCACACGA
* * * *
34853224 CCGTGCCT-GACTTCGTTCGCTTCTCCCCCAACCGTGTATGTAAGCCCATGCTCGTGGTAATTTA
130 CCGTG-CTGGACTTCGCTCGCTTCTCCCCCAACCATGTATGTAAGCCCACGCCCGTGGTAATTTA
* * **
34853288 ACAGGTTTGACCACGGGTGCTAGACACGGGCGTGTCGCATGCCCGTGTTAATTTGA
194 ACAGGTTTGACCACAGGTGCTAGACACGGGCATGTCGCACACCCGTGTTAATTTGA
34853344 TAGGTTTGGC
Statistics
Matches: 211, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
253 1 0.00
254 208 0.99
255 2 0.01
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.28
Consensus pattern (254 bp):
CCAGAGAACACGCCCGTGTTCCCCAATATCAGCCCGTGTGATTCGCAAATTTTGAATTTGAGCGC
ATCTGACAACTGTTCCACACCCGTGTCCCTTGGGCGTGTGGGTGCACACGACCATATCACACGAC
CGTGCTGGACTTCGCTCGCTTCTCCCCCAACCATGTATGTAAGCCCACGCCCGTGGTAATTTAAC
AGGTTTGACCACAGGTGCTAGACACGGGCATGTCGCACACCCGTGTTAATTTGACACGA
Found at i:34863575 original size:45 final size:45
Alignment explanation
Indices: 34863523--34863609 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
34863513 TATGTTATCT
*
34863523 GAACTCATTGAGTTGTGGTTTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
*
34863568 GAACTCATTGAGTTGTGGTCTGAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACA
34863610 CATGTTTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (45 bp):
GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
Found at i:34872321 original size:44 final size:44
Alignment explanation
Indices: 34872263--34872349 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
34872253 AGCTTTTCTT
* * *
34872263 TTTTCTAATCTCACATTTTCTGAAATGTACAATTCAGCCAACTC
1 TTTTCCAATATCACAATTTCTGAAATGTACAATTCAGCCAACTC
34872307 TTTTCCAATATCACAATTTCTGAAATGTACAATTCAGCCAACT
1 TTTTCCAATATCACAATTTCTGAAATGTACAATTCAGCCAACT
34872350 TATTGAGTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (44 bp):
TTTTCCAATATCACAATTTCTGAAATGTACAATTCAGCCAACTC
Found at i:34879626 original size:27 final size:27
Alignment explanation
Indices: 34879563--34879827 Score: 188
Period size: 27 Copynumber: 9.9 Consensus size: 27
34879553 TAAAACCCCC
*
34879563 GATTTGTAAAATTAGT-GAAATGCCC--
1 GATTTGTAAAATTA-TCGAAATACCCTT
*
34879588 GAGTTGTAAAATTATCGAAATACCCTT
1 GATTTGTAAAATTATCGAAATACCCTT
* *
34879615 GATTTATAAAATTACCGAAATACCCTT
1 GATTTGTAAAATTATCGAAATACCCTT
* * *
34879642 AATTTGTTAAATTA-CTGAAATA-CCTC
1 GATTTGTAAAATTATC-GAAATACCCTT
* * * *
34879668 CAGGTTGTAAAATTACCAAAATACCCTT
1 GA-TTTGTAAAATTATCGAAATACCCTT
* **
34879696 GATTTGTGAAATTATCGAAATACCCCC
1 GATTTGTAAAATTATCGAAATACCCTT
* ** *
34879723 GACTTGT-AAATTATTAAAATACCCTC
1 GATTTGTAAAATTATCGAAATACCCTT
* * *
34879749 GATTTGTAAAACTACCGAAATACCCCT
1 GATTTGTAAAATTATCGAAATACCCTT
* *
34879776 AACTTGTAAAATTAGT-GAAATACCAC-T
1 GATTTGTAAAATTA-TCGAAATACC-CTT
* *
34879803 AATTTATAAAATTA-CTGAAATACCC
1 GATTTGTAAAATTATC-GAAATACCC
34879828 CTGTAGGGTA
Statistics
Matches: 190, Mismatches: 38, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.01
25 21 0.11
26 28 0.15
27 134 0.71
28 6 0.03
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (27 bp):
GATTTGTAAAATTATCGAAATACCCTT
Found at i:34879829 original size:54 final size:53
Alignment explanation
Indices: 34879566--34879829 Score: 214
Period size: 54 Copynumber: 4.9 Consensus size: 53
34879556 AACCCCCGAT
* * * * * *
34879566 TTGTAAAATTAGTGAAATGCCC-GAGTTGTAAAATTA-TCGAAATACCCTTGAT
1 TTGTAAAATTACTGAAATACCCTGATTTGTAAAATTACT-GAAATACCCCTAAC
* * * * **
34879618 TTATAAAATTACCGAAATACCCTTAATTTGTTAAATTACTGAAATACCTCC-AGG
1 TTGTAAAATTACTGAAATACCC-TGATTTGTAAAATTACTGAAATACC-CCTAAC
** * **
34879672 TTGTAAAATTACCAAAATACCCTTGATTTGTGAAATTA-TCGAAATACCCCCGAC
1 TTGTAAAATTACTGAAATACCC-TGATTTGTAAAATTACT-GAAATACCCCTAAC
* * * *
34879726 TTGT-AAATTATTAAAATACCCTCGATTTGTAAAACTACCGAAATACCCCTAAC
1 TTGTAAAATTACTGAAATACCCT-GATTTGTAAAATTACTGAAATACCCCTAAC
* * *
34879779 TTGTAAAATTAGTGAAATACCACTAATTTATAAAATTACTGAAATACCCCT
1 TTGTAAAATTACTGAAATACC-CTGATTTGTAAAATTACTGAAATACCCCT
34879830 GTAGGGTAGG
Statistics
Matches: 171, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
52 19 0.11
53 46 0.27
54 102 0.60
55 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.32
Consensus pattern (53 bp):
TTGTAAAATTACTGAAATACCCTGATTTGTAAAATTACTGAAATACCCCTAAC
Found at i:34879843 original size:27 final size:27
Alignment explanation
Indices: 34879813--34879906 Score: 129
Period size: 27 Copynumber: 3.5 Consensus size: 27
34879803 AATTTATAAA
34879813 ATTACTGAAATACCCCTGTAGGGTAGG
1 ATTACTGAAATACCCCTGTAGGGTAGG
34879840 ATTACTGAAATA-CCCTGTAGGGTAGG
1 ATTACTGAAATACCCCTGTAGGGTAGG
* * *
34879866 ATT-GTCGAAATACCCTTATAGGGTAGG
1 ATTACT-GAAATACCCCTGTAGGGTAGG
*
34879893 ATTACCGAAATACC
1 ATTACTGAAATACC
34879907 TTTGTTAGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
25 1 0.02
26 23 0.39
27 35 0.59
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (27 bp):
ATTACTGAAATACCCCTGTAGGGTAGG
Found at i:34879854 original size:134 final size:135
Alignment explanation
Indices: 34879585--34879830 Score: 305
Period size: 134 Copynumber: 1.8 Consensus size: 135
34879575 TAGTGAAATG
* * * * * * *
34879585 CCCGAGTTGTAAAATTATCGAAATACCCTTGATTTATAAAATTACCGAAATACCCTTAATTTGTT
1 CCCGACTTGTAAAATTATCAAAATACCCTCGATTTATAAAACTACCGAAATACCCCTAACTTGTA
* * * * **
34879650 AAATTACTGAAATACCTCCAGGTTGTAAAATTACCAAAATACCCTTGATTTGTGAAATTATCGAA
66 AAATTACTGAAATACCACCAAGTTATAAAATTACCAAAATACCCCTGATGGGTGAAATTATCGAA
34879715 ATACC
131 ATACC
* *
34879720 CCCGACTTGT-AAATTATTAAAATACCCTCGATTTGTAAAACTACCGAAATACCCCTAACTTGTA
1 CCCGACTTGTAAAATTATCAAAATACCCTCGATTTATAAAACTACCGAAATACCCCTAACTTGTA
* * * **
34879784 AAATTAGTGAAATACCACTAATTTATAAAATTACTGAAATACCCCTG
66 AAATTACTGAAATACCACCAAGTTATAAAATTACCAAAATACCCCTG
34879831 TAGGGTAGGA
Statistics
Matches: 93, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
134 84 0.90
135 9 0.10
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (135 bp):
CCCGACTTGTAAAATTATCAAAATACCCTCGATTTATAAAACTACCGAAATACCCCTAACTTGTA
AAATTACTGAAATACCACCAAGTTATAAAATTACCAAAATACCCCTGATGGGTGAAATTATCGAA
ATACC
Found at i:34880529 original size:32 final size:32
Alignment explanation
Indices: 34880461--34880529 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 32
34880451 CGTTGCTGAT
* * *
34880461 GGCTATGTGCCAAACATAATACAGTTACCAAT
1 GGCTTTGTGCCAAACATAATACAGCTACCAAA
** * *
34880493 GGCTTTGTGCCAATTATAATACTGCTACTAAA
1 GGCTTTGTGCCAAACATAATACAGCTACCAAA
34880525 GGCTT
1 GGCTT
34880530 AGAGCCGCAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (32 bp):
GGCTTTGTGCCAAACATAATACAGCTACCAAA
Found at i:34882736 original size:44 final size:44
Alignment explanation
Indices: 34882659--34882760 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
34882649 TCCTAAACAG
* *
34882659 GGTCTTACACGAAA--TCAAATACGATGCCGATGTCCCAGACT-T
1 GGTCTTACACGAAATCTCAAATACGATGCCAATGTCCCACA-TGT
*
34882701 GGTCTTACACGTAAATCTCAAAT-CGATGCCAATGTCGCACATGT
1 GGTCTTACACG-AAATCTCAAATACGATGCCAATGTCCCACATGT
34882745 GGTCTTACACGAAATC
1 GGTCTTACACGAAATC
34882761 ACATATCGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 11 0.21
43 9 0.17
44 27 0.51
45 6 0.11
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
GGTCTTACACGAAATCTCAAATACGATGCCAATGTCCCACATGT
Found at i:34882780 original size:44 final size:43
Alignment explanation
Indices: 34882605--34882768 Score: 134
Period size: 43 Copynumber: 3.8 Consensus size: 43
34882595 CATTGCCATC
* * * * * * * *
34882605 GTCCCAGACGTGGTCTTACATGCAATCAAATATCAATGTCACT
1 GTCCCACACTTGGTCTTACACGAAATCACATATCGATGCCAAT
* * ** * *
34882648 GTCCTAAACAGGGTCTTACACGAAATCAAATA-CGATGCCGAT
1 GTCCCACACTTGGTCTTACACGAAATCACATATCGATGCCAAT
* * *
34882690 GTCCCAGACTTGGTCTTACACGTAAATCTCAAATCGATGCCAAT
1 GTCCCACACTTGGTCTTACACG-AAATCACATATCGATGCCAAT
*
34882734 GTCGCACA-TGTGGTCTTACACGAAATCACATATCG
1 GTCCCACACT-TGGTCTTACACGAAATCACATATCG
34882769 TAATCCTATG
Statistics
Matches: 96, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 24 0.25
43 45 0.47
44 27 0.28
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCACACTTGGTCTTACACGAAATCACATATCGATGCCAAT
Found at i:34887268 original size:40 final size:40
Alignment explanation
Indices: 34887209--34887377 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
34887199 CGGGACTTTA
* * *
34887209 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
34887249 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
34887289 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
34887329 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
34887369 CCCGGATAT
1 CCCGGATAT
34887378 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:34895191 original size:40 final size:40
Alignment explanation
Indices: 34895132--34895300 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
34895122 CGGGACTTTA
* * *
34895132 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
34895172 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
34895212 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
34895252 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
34895292 CCCGGATAT
1 CCCGGATAT
34895301 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:34901701 original size:39 final size:38
Alignment explanation
Indices: 34901651--34901802 Score: 155
Period size: 39 Copynumber: 3.9 Consensus size: 38
34901641 ATATCACGAT
*
34901651 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAAAAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAAAAC
**
34901690 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATA-AAAC
* * *
34901730 TAGCACAATTGCCTTCGGGTCTTAACCCGGATAT-AAAT
1 TTGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAAAAC
* *
34901768 TTCAGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 TT--GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
34901803 CATTCAATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 48 0.50
40 46 0.48
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (38 bp):
TTGCACAATGCCTTCGGGTCTTAGCCCGGATATAAAAC
Found at i:34901719 original size:79 final size:80
Alignment explanation
Indices: 34901622--34901804 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
34901612 CCGCACCAAG
* * * * *
34901622 GCCTACGGGACTTA-CCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATTT
1 GCCTTCGGG-CTTAGCCCGGATATCAGCGACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAT
34901685 AAAACTTGCA-C-GAA-T
65 -AAA-TTGCAGCAGAATT
* *
34901700 GCCTTCGGGTCTTAGCCCGGATAT-AGCTACTAGCACAATTGCCTTCGGGTCTTAACCCGGATAT
1 GCCTTCGGG-CTTAGCCCGGATATCAGCGACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAT
* *
34901764 AAATTTCAGCATAATT
65 AAATTGCAGCAGAATT
*
34901780 GTCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
34901805 TTCAATTTCT
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
77 4 0.05
78 17 0.19
79 57 0.65
80 10 0.11
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (80 bp):
GCCTTCGGGCTTAGCCCGGATATCAGCGACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATA
AATTGCAGCAGAATT
Found at i:34901759 original size:40 final size:38
Alignment explanation
Indices: 34901653--34901802 Score: 158
Period size: 40 Copynumber: 3.8 Consensus size: 38
34901643 ATCACGATTT
* *
34901653 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAAAACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAAAACTA
**
34901692 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATA-AAACTA
* **
34901732 GCACAATTGCCTTCGGGTCTTAACCCGGATATAAATTTCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAAAACT-A
* *
34901772 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
34901803 CATTCAATTT
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
39 47 0.49
40 48 0.51
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAAAACTA
Found at i:34908209 original size:40 final size:40
Alignment explanation
Indices: 34908150--34908318 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
34908140 CGGGACTTTA
* * *
34908150 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
34908190 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
34908230 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
34908270 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
34908310 CCCGGATAT
1 CCCGGATAT
34908319 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:34914383 original size:43 final size:42
Alignment explanation
Indices: 34914333--34914441 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
34914323 AATGCCAGCG
* * *
34914333 TCCCAGACGTGGTCTTACATGTAATCAAATATCAATGTC-ACTA
1 TCCCAGACATGGTCTTACACGTAATCAAATA-CAATGCCGA-TA
* * * *
34914376 TCCCAGACAAGGTATTACACGTAATCAAATACGATGCCGATG
1 TCCCAGACATGGTCTTACACGTAATCAAATACAATGCCGATA
34914418 TCCCAGACATGGTCTTACACGTAA
1 TCCCAGACATGGTCTTACACGTAA
34914442 ATTTCAAATC
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAATCAAATACAATGCCGATA
Found at i:34914436 original size:42 final size:43
Alignment explanation
Indices: 34914322--34914441 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
34914312 AAAGCTAGTA
* *
34914322 CAATGCCAGC-GTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCA-CTGTCCCAGACATGGTCTTACACGTAATCAAATAT
* * * *
34914365 CAATGTCACTATCCCAGACAAGGTATTACACGTAATCAAATA-
1 CAATGCCACTGTCCCAGACATGGTCTTACACGTAATCAAATAT
*
34914407 CGATGCCGA-TGTCCCAGACATGGTCTTACACGTAA
1 CAATGCC-ACTGTCCCAGACATGGTCTTACACGTAA
34914442 ATTTCAAATC
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCACTGTCCCAGACATGGTCTTACACGTAATCAAATAT
Found at i:34923815 original size:28 final size:28
Alignment explanation
Indices: 34923774--34923867 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 28
34923764 AGGAAGCGTC
* *
34923774 CTGGAGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
* *
34923802 CTGGTGGCTCTGCCACATA-TATCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
** *
34923829 CTGGTGGCTCAACCAC-GATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATTATCTG-AT
*
34923857 CTGGTGACTCT
1 CTGGTGGCTCT
34923868 ATCACATTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 27 0.50
28 26 0.48
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAATTATCTGAT
Found at i:34923832 original size:27 final size:26
Alignment explanation
Indices: 34923792--34923886 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
34923782 TATGCCACAA
* *
34923792 ATTATCTGATCTGGTGGCTCTGCCAC
1 ATTATCTGTTCTGGTGGCTCTACCAC
*
34923818 ATATATCTGTTCTGGTGGCTCAACCAC
1 AT-TATCTGTTCTGGTGGCTCTACCAC
* *
34923845 GATTATCTGTATCTGGTGACTCTATCAC
1 -ATTATCTGT-TCTGGTGGCTCTACCAC
34923873 ATTATCTGTTCTGG
1 ATTATCTGTTCTGG
34923887 CAGCCATGCT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
26 7 0.12
27 37 0.62
28 16 0.27
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
ATTATCTGTTCTGGTGGCTCTACCAC
Found at i:34927166 original size:48 final size:48
Alignment explanation
Indices: 34927089--34927311 Score: 201
Period size: 48 Copynumber: 4.8 Consensus size: 48
34927079 TGGTAGGATA
* * *
34927089 CCAATCCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
* **
34927137 CCAATGCCATGTCCTAGAC-TCGGTCTTACATGGGATTGCA-AGTCGATG
1 CCAATGCCATGTCCCAGACAT-GGTCTTACATGGGATCACATA-TCGATG
* *
34927185 CCAATGCCATGTCCCAGACATGGTCTTACATGCGATCACATATTGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
** * **** * *
34927233 -C--TGGTA-G-CACAG-CTATGGTCTTACACAATATTACATATCAATG
1 CCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATCGATG
*
34927276 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGAT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
34927312 TGTACATAAC
Statistics
Matches: 135, Mismatches: 29, Indels: 22
0.73 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 26 0.19
44 2 0.01
45 3 0.02
46 2 0.01
47 4 0.03
48 94 0.70
49 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (48 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
Found at i:34933175 original size:40 final size:40
Alignment explanation
Indices: 34932954--34933171 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
34932944 AAGCCAAGTA
* * * *
34932954 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34932993 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34933033 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34933073 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34933113 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34933153 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34933172 TTATCATCCA
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 12 0.07
40 155 0.93
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34947928 original size:39 final size:40
Alignment explanation
Indices: 34947801--34947930 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
34947791 TATGCTGGAA
* * *
34947801 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
34947841 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
34947881 ATTCTATCCGGGCT-AGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
34947920 ATTATATCCGG
1 ATTATATCCGG
34947931 TTATATTCCG
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.03
39 30 0.41
40 41 0.55
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:34951169 original size:28 final size:28
Alignment explanation
Indices: 34951131--34951237 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
34951121 GAATCATTCG
* *
34951131 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
34951159 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
34951187 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
34951215 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
34951238 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:34954657 original size:29 final size:29
Alignment explanation
Indices: 34954622--34954721 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 29
34954612 GGTTACGGAA
34954622 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** ** *
34954651 CTCG--CACACAGTG-CTCGGTTATGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
34954677 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
34954706 CTCGCACACACAGTGC
1 CTCGCACACACAGTGC
34954722 TCGATTACGG
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
26 10 0.19
27 9 0.17
28 9 0.17
29 26 0.48
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:34954658 original size:57 final size:56
Alignment explanation
Indices: 34954568--34954751 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 56
34954558 GATCTCATTT
* * *
34954568 CACACACTTAGTGCC-CAACAACCAATCTTGCACATACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACA-ACAGTGCTCGGTTACGGAACTCG
*
34954626 CACACACAGTGCCTCAACAACCGATCTCGCAC-ACAGTGCTCGGTTATGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACAACAGTGCTCGGTTACGGAACTCG
* *
34954681 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACA-ACAGTGCTCGGTTACGGAACTCG
34954738 CACACACAGTGCCT
1 CACACACAGTGCCT
34954752 ATGTTCACTT
Statistics
Matches: 116, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
55 53 0.46
56 6 0.05
57 50 0.43
58 7 0.06
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.18
Consensus pattern (56 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACAACAGTGCTCGGTTACGGAACTCG
Found at i:34954671 original size:55 final size:55
Alignment explanation
Indices: 34954568--34954751 Score: 253
Period size: 57 Copynumber: 3.3 Consensus size: 55
34954558 GATCTCATTT
* * *
34954568 CACACACTTAGTGCC-CAACAACCAATCTTGCACATACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCAC--ACAGTGCTCGGTTACGGAACTCG
*
34954626 CACACACAGTGCCTCAACAACCGATCTCGCACACAGTGCTCGGTTATGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACAGTGCTCGGTTACGGAACTCG
* *
34954681 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCG--CACACAGTGCTCGGTTACGGAACTCG
34954738 CACACACAGTGCCT
1 CACACACAGTGCCT
34954752 ATGTTCACTT
Statistics
Matches: 116, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
55 50 0.43
56 6 0.05
57 53 0.46
58 7 0.06
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.18
Consensus pattern (55 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACAGTGCTCGGTTACGGAACTCG
Found at i:34956758 original size:28 final size:28
Alignment explanation
Indices: 34956720--34956826 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
34956710 GAATCATTCG
* *
34956720 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
34956748 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
34956776 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
34956804 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
34956827 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:34966093 original size:40 final size:40
Alignment explanation
Indices: 34966037--34966280 Score: 321
Period size: 40 Copynumber: 6.1 Consensus size: 40
34966027 CGGAGTTTAA
** *
34966037 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34966077 CCGGTTATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
34966117 CTGGATATAGTAACTCGTACGAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
34966157 CCGGATATAGTAACTCGCACAAATGCCTTCAAGATTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
34966197 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34966237 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
34966277 CCGG
1 CCGG
34966281 TTATCATCCA
Statistics
Matches: 180, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 2 0.01
40 178 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34970435 original size:49 final size:49
Alignment explanation
Indices: 34970382--34970939 Score: 901
Period size: 47 Copynumber: 11.7 Consensus size: 49
34970372 GATTTTATGC
* *
34970382 GATGAATGTGAAAGTGTATATATATGAGATAAGGCCGAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
34970431 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
34970480 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
34970529 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
34970578 GATGAATGTG-AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
34970626 GATGAATGTG-AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
34970674 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
34970721 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
34970768 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* * *
34970815 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
34970862 GATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
34970909 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
34970940 TCCCGAAGGG
Statistics
Matches: 489, Mismatches: 12, Indels: 18
0.94 0.02 0.03
Matches are distributed among these distances:
45 1 0.00
46 3 0.01
47 222 0.45
48 106 0.22
49 157 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:34977200 original size:15 final size:15
Alignment explanation
Indices: 34977156--34977202 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
34977146 CATGATAATG
34977156 TAAGTGACTAAAACA
1 TAAGTGACTAAAACA
* *
34977171 TAA-T-ATTCCAAACA
1 TAAGTGACT-AAAACA
34977185 TAAGTGACTAAAACA
1 TAAGTGACTAAAACA
34977200 TAA
1 TAA
34977203 TACGAGACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 12 0.48
16 2 0.08
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.23
Consensus pattern (15 bp):
TAAGTGACTAAAACA
Found at i:34977221 original size:31 final size:29
Alignment explanation
Indices: 34977157--34977225 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
34977147 ATGATAATGT
*** *
34977157 AAGTGACTAAAACATAATATTCCAAACAT
1 AAGTGACTAAAACATAATAAGACAAACAA
34977186 AAGTGACTAAAACATAATACGAGACAAACAA
1 AAGTGACTAAAACATAATA--AGACAAACAA
34977217 AAGTGACTA
1 AAGTGACTA
34977226 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.54, C:0.16, G:0.12, T:0.19
Consensus pattern (29 bp):
AAGTGACTAAAACATAATAAGACAAACAA
Found at i:34977940 original size:21 final size:22
Alignment explanation
Indices: 34977914--34977954 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34977904 ATTTCTCTTC
* *
34977914 CAAACTTAGAAAA-TAAAATCT
1 CAAACTCAAAAAAGTAAAATCT
34977935 CAAACTCAAAAAAGTAAAAT
1 CAAACTCAAAAAAGTAAAAT
34977955 TCATTGCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.61, C:0.15, G:0.05, T:0.20
Consensus pattern (22 bp):
CAAACTCAAAAAAGTAAAATCT
Found at i:34980397 original size:40 final size:39
Alignment explanation
Indices: 34980232--34980415 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
34980222 AAATTGAATG
* * *
34980232 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
34980272 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
34980312 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
34980352 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
34980391 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
34980416 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:34980440 original size:80 final size:81
Alignment explanation
Indices: 34980272--34980460 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
34980262 GCTGGAAATT
* * * *
34980272 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
34980337 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
34980353 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
34980416 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
34980432 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
34980461 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:34988515 original size:40 final size:39
Alignment explanation
Indices: 34988350--34988533 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
34988340 AAATTGAATG
* * *
34988350 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
34988390 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
34988430 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
34988470 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
34988509 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
34988534 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:34988558 original size:80 final size:81
Alignment explanation
Indices: 34988390--34988578 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
34988380 GCTGGAAATT
* * * *
34988390 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
34988455 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
34988471 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
34988534 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
34988550 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
34988579 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:34991742 original size:21 final size:21
Alignment explanation
Indices: 34991718--34991759 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34991708 AAATCTGTCG
34991718 AAAATAATAAAAATTAATTAT
1 AAAATAATAAAAATTAATTAT
* *
34991739 AAAATAATTAAAATTCATTAT
1 AAAATAATAAAAATTAATTAT
34991760 GTTAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATAATAAAAATTAATTAT
Found at i:34994626 original size:25 final size:24
Alignment explanation
Indices: 34994576--34994646 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
34994566 TTTTCTCAAA
* *
34994576 AATTAAATTAATATAAACTATT-AAT
1 AATTAAATAAAT-TAAAAT-TTAAAT
*
34994601 AATTCAATAAATTGAAAATTTAAAT
1 AATTAAATAAATT-AAAATTTAAAT
34994626 AATTAAATAAATTAAAATTTA
1 AATTAAATAAATTAAAATTTA
34994647 GGAGAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 11 0.28
25 29 0.73
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (24 bp):
AATTAAATAAATTAAAATTTAAAT
Found at i:35003563 original size:44 final size:41
Alignment explanation
Indices: 35003515--35003632 Score: 148
Period size: 44 Copynumber: 2.8 Consensus size: 41
35003505 TGTGATTTTT
35003515 TGTAAGACCATGTCTGGGATGTTGGCATCGATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGATGTTGGCATCGATTT--GATTT-CG
**
35003559 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGATGTTGGCATCG-ATTTGATTTCG
* *
35003601 TTTAAGACCCTGTCTGGGATAG-TGGCATCGAT
1 TGTAAGACCATGTCTGGGAT-GTTGGCATCGAT
35003633 ATTTGGTTAC
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
41 2 0.03
42 27 0.41
43 5 0.08
44 28 0.42
45 4 0.06
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGATGTTGGCATCGATTTGATTTCG
Found at i:35003627 original size:42 final size:43
Alignment explanation
Indices: 35003515--35003659 Score: 154
Period size: 42 Copynumber: 3.4 Consensus size: 43
35003505 TGTGATTTTT
35003515 TGTAAGACCATGTCTGGGAT-GTTGGCATCG-ATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGATAG-TGGCATCGTATTT--GATTTACG
* *
35003559 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT-CG
1 TGTAAGACCATGTCTGGGATAGTGGCATCGTATTTGATTTACG
* * * *
35003601 TTTAAGACCCTGTCTGGGATAGTGGCATCGATATTTG-GTTACA
1 TGTAAGACCATGTCTGGGATAGTGGCATCG-TATTTGATTTACG
* *
35003644 TGTAGGACCACGTCTG
1 TGTAAGACCATGTCTG
35003660 AGACATTGGC
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
42 30 0.35
43 24 0.28
44 27 0.32
45 4 0.05
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGATAGTGGCATCGTATTTGATTTACG
Found at i:35003670 original size:43 final size:42
Alignment explanation
Indices: 35003515--35003676 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
35003505 TGTGATTTTT
* **
35003515 TGTAAGACCATGTCTGGGATGTTGGCATCG-ATTTGAGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTT--GA-TTACG
* *
35003559 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTACG
* * * * *
35003601 TTTAAGACC-CTGTCTGGGATAGTGGCATCGATATTTGGTTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATTACG
* * *
35003644 TGTAGGACCACGTCTGAGACATTGGCATTGTAT
1 TGTAAGACCACGTCTGGGACATTGGCATCGTAT
35003677 GAGCTTTTCG
Statistics
Matches: 98, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 32 0.33
43 33 0.34
44 29 0.30
45 4 0.04
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTACG
Found at i:35003687 original size:86 final size:85
Alignment explanation
Indices: 35003517--35003679 Score: 197
Period size: 85 Copynumber: 1.9 Consensus size: 85
35003507 TGATTTTTTG
* * *
35003517 TAAGACCATGTCTGGGATGTTGGCATCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATT
1 TAAGACCATGTCTGGGATGTTGGCATCGATTTGAGA-TTACATGTAAGACCACGTCTGAGACATT
**
35003582 GGCATCGTATTTGATTTCGTT
65 GGCATCGTATGAGATTTCGTT
* *
35003603 TAAGACCCTGTCTGGGATAG-TGGCATCGATATTTG-G-TTACATGTAGGACCACGTCTGAGACA
1 TAAGACCATGTCTGGGAT-GTTGGCATCG--ATTTGAGATTACATGTAAGACCACGTCTGAGACA
*
35003665 TTGGCATTGTATGAG
63 TTGGCATCGTATGAG
35003680 CTTTTCGTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
85 34 0.52
86 25 0.38
87 2 0.03
88 5 0.08
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (85 bp):
TAAGACCATGTCTGGGATGTTGGCATCGATTTGAGATTACATGTAAGACCACGTCTGAGACATTG
GCATCGTATGAGATTTCGTT
Found at i:35012054 original size:23 final size:22
Alignment explanation
Indices: 35012017--35012059 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
35012007 TTATGAAACA
**
35012017 TATGATTTGTTATGACTTTGGCT
1 TATGATTTGGCATGA-TTTGGCT
35012040 TATGATTTGGCATGATTTGG
1 TATGATTTGGCATGATTTGG
35012060 TATGGATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.19, C:0.07, G:0.26, T:0.49
Consensus pattern (22 bp):
TATGATTTGGCATGATTTGGCT
Found at i:35012630 original size:21 final size:23
Alignment explanation
Indices: 35012601--35012642 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
35012591 CCTGATGTTG
*
35012601 ATATTTGAC-TTTGA-TATGATA
1 ATATATGACTTTTGATTATGATA
35012622 ATATATGACTTTTGATTATGA
1 ATATATGACTTTTGATTATGA
35012643 AATGATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (23 bp):
ATATATGACTTTTGATTATGATA
Found at i:35013623 original size:40 final size:41
Alignment explanation
Indices: 35013544--35013627 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 41
35013534 GAGTTACATG
35013544 TTGACATATTCAATTCGTTGAATGGTATATTTATAATCAAA
1 TTGACATATTCAATTCGTTGAATGGTATATTTATAATCAAA
* * *
35013585 TTGATATATTCAATTTGTTG-ATGGTATATTTATTATCAAA
1 TTGACATATTCAATTCGTTGAATGGTATATTTATAATCAAA
35013625 TTG
1 TTG
35013628 CATTTATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 22 0.55
41 18 0.45
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (41 bp):
TTGACATATTCAATTCGTTGAATGGTATATTTATAATCAAA
Found at i:35019085 original size:23 final size:24
Alignment explanation
Indices: 35019009--35019152 Score: 186
Period size: 24 Copynumber: 6.0 Consensus size: 24
35018999 GCTTTATCAT
*
35019009 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
35019034 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
35019059 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
35019082 ATAACTGGGGCGTAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
35019106 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* * *
35019130 ATAACTGCGGTATAAGGCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
35019153 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
23 23 0.21
24 54 0.50
25 25 0.23
26 6 0.06
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:35019225 original size:9 final size:9
Alignment explanation
Indices: 35019211--35019287 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
35019201 ATCTCGTGTG
35019211 CATATCATA
1 CATATCATA
*
35019220 CATATCATGTG
1 CATATCA--TA
35019231 CATATCATA
1 CATATCATA
* *
35019240 CATGTCATGTG
1 CATATCA--TA
35019251 CATATCATA
1 CATATCATA
*
35019260 CATATCATGTG
1 CATATCA--TA
35019271 CATATCATA
1 CATATCATA
35019280 CATATCAT
1 CATATCAT
35019288 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:35019230 original size:20 final size:20
Alignment explanation
Indices: 35019207--35019289 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
35019197 GAACATCTCG
35019207 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
35019227 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
35019247 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
35019267 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
35019287 TGT
1 TGT
35019290 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:35019236 original size:11 final size:11
Alignment explanation
Indices: 35019207--35019278 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
35019197 GAACATCTCG
35019207 TGTGCATATCA
1 TGTGCATATCA
*
35019218 --TACATATCA
1 TGTGCATATCA
35019227 TGTGCATATCA
1 TGTGCATATCA
* *
35019238 --TACATGTCA
1 TGTGCATATCA
35019247 TGTGCATATCA
1 TGTGCATATCA
*
35019258 --TACATATCA
1 TGTGCATATCA
35019267 TGTGCATATCA
1 TGTGCATATCA
35019278 T
1 T
35019279 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:35019354 original size:25 final size:25
Alignment explanation
Indices: 35019326--35019373 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
35019316 ATGTATAAAC
* *
35019326 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
35019351 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
35019374 CATATTATAA
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:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:35026018 original size:46 final size:46
Alignment explanation
Indices: 35025968--35026143 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35025958 TGGTTGAGCA
35025968 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35026014 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35026059 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35026107 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35026144 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35026124 original size:93 final size:93
Alignment explanation
Indices: 35025965--35026136 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35025955 GGATGGTTGA
* *
35025965 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35026030 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35026058 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35026123 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35026137 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35033595 original size:46 final size:46
Alignment explanation
Indices: 35033545--35033720 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35033535 TGGTTGAGCA
35033545 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35033591 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35033636 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35033684 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35033721 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35033701 original size:93 final size:93
Alignment explanation
Indices: 35033542--35033713 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35033532 GGATGGTTGA
* *
35033542 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35033607 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35033635 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35033700 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35033714 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35037566 original size:23 final size:24
Alignment explanation
Indices: 35037491--35037632 Score: 227
Period size: 24 Copynumber: 6.0 Consensus size: 24
35037481 GCTTTATCAT
*
35037491 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
35037516 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
35037540 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
35037563 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
35037587 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
35037611 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
35037633 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
23 39 0.35
24 61 0.54
25 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:35037566 original size:47 final size:48
Alignment explanation
Indices: 35037491--35037632 Score: 227
Period size: 47 Copynumber: 3.0 Consensus size: 48
35037481 GCTTTATCAT
* *
35037491 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
35037540 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
35037587 ATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
35037633 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
47 62 0.70
48 15 0.17
49 12 0.13
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:35037704 original size:9 final size:9
Alignment explanation
Indices: 35037690--35037766 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
35037680 ATCTCATGTG
35037690 CATATCATA
1 CATATCATA
*
35037699 CATATCATGTG
1 CATATCA--TA
35037710 CATATCATA
1 CATATCATA
* *
35037719 CATGTCATGTG
1 CATATCA--TA
35037730 CATATCATA
1 CATATCATA
*
35037739 CATATCATGTG
1 CATATCA--TA
35037750 CATATCATA
1 CATATCATA
35037759 CATATCAT
1 CATATCAT
35037767 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:35037706 original size:20 final size:20
Alignment explanation
Indices: 35037678--35037768 Score: 164
Period size: 20 Copynumber: 4.5 Consensus size: 20
35037668 GCATTTATGA
*
35037678 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
35037698 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
35037718 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
35037738 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
35037758 ACATATCATGT
1 ACATATCATGT
35037769 TTATCAAAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:35037713 original size:11 final size:11
Alignment explanation
Indices: 35037683--35037757 Score: 72
Period size: 11 Copynumber: 7.4 Consensus size: 11
35037673 TATGAACATC
35037683 TCATGTGCATA
1 TCATGTGCATA
*
35037694 TCA--TACATA
1 TCATGTGCATA
35037703 TCATGTGCATA
1 TCATGTGCATA
* *
35037714 TCA--TACATG
1 TCATGTGCATA
35037723 TCATGTGCATA
1 TCATGTGCATA
*
35037734 TCA--TACATA
1 TCATGTGCATA
35037743 TCATGTGCATA
1 TCATGTGCATA
35037754 TCAT
1 TCAT
35037758 ACATATCATG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 23 0.46
11 27 0.54
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:35037832 original size:25 final size:25
Alignment explanation
Indices: 35037803--35037850 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35037793 CATTATAAAC
* * *
35037803 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
35037828 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
35037851 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:35045619 original size:47 final size:49
Alignment explanation
Indices: 35045566--35045686 Score: 198
Period size: 47 Copynumber: 2.6 Consensus size: 49
35045556 CCTAGCCTCT
35045566 TTTAATAACTGGGGCA-AAGCCCTTTTTTAATAACT-AGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTTAATAACTGAGGCATAAGCCC
*
35045613 TTTAATAACTGGGGCATAAGCCC--TTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTTAATAACTGAGGCATAAGCCC
35045660 TTTAATAACTGGGGCATAAG-CCTTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTT
35045687 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
46 13 0.19
47 47 0.68
48 9 0.13
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (49 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTTAATAACTGAGGCATAAGCCC
Found at i:35045632 original size:23 final size:24
Alignment explanation
Indices: 35045545--35045686 Score: 186
Period size: 24 Copynumber: 6.0 Consensus size: 24
35045535 GCTTTATCAT
*
35045545 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
35045570 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
*
35045595 ATAACT-AGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
35045617 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
35045641 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
35045664 ATAACTGGGGCATAAGCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTT
35045687 GCACTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 15
0.85 0.03 0.12
Matches are distributed among these distances:
22 10 0.09
23 34 0.32
24 37 0.35
25 25 0.24
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:35045764 original size:20 final size:20
Alignment explanation
Indices: 35045741--35045803 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
35045731 GAACATCTCG
35045741 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
35045761 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
*
35045781 TGTGCATATGATACATATCA
1 TGTGCATATCATACATATCA
35045801 TGT
1 TGT
35045804 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:35047983 original size:2 final size:2
Alignment explanation
Indices: 35047976--35048005 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
35047966 ATTGAAAGGG
*
35047976 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35048006 GTATTAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:35055129 original size:40 final size:40
Alignment explanation
Indices: 35055021--35055230 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
35055011 CGGGATTTAA
* * * * *
35055021 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
35055061 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
35055101 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
35055141 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
35055181 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
35055221 CCGGATATAT
1 CCGGATATAT
35055231 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:35063316 original size:80 final size:80
Alignment explanation
Indices: 35063232--35063380 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
35063222 TATGGTAACC
* * * *
35063232 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
35063296 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
35063312 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
35063377 CCGG
66 CCGG
35063381 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:35063322 original size:40 final size:38
Alignment explanation
Indices: 35063273--35063380 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
35063263 ATCACGATTT
*
35063273 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
35063313 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
35063353 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
35063381 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:35071431 original size:80 final size:80
Alignment explanation
Indices: 35071347--35071495 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
35071337 TATGGTAACC
* * * *
35071347 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
35071411 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
35071427 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
35071492 CCGG
66 CCGG
35071496 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:35071437 original size:40 final size:38
Alignment explanation
Indices: 35071388--35071495 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
35071378 ATCACGATTT
*
35071388 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
35071428 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
35071468 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
35071496 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Done.