Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 697 of 770
Found at i:219776367 original size:40 final size:40
Alignment explanation
Indices: 219776275--219776424 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
219776265 AATTGAATGA
* * * *
219776275 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAAT-T
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
219776314 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
219776355 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
219776394 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
219776425 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 54 0.59
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:219776438 original size:40 final size:40
Alignment explanation
Indices: 219776314--219776440 Score: 148
Period size: 40 Copynumber: 3.2 Consensus size: 40
219776304 GCTGGAAATT
* * * *
219776314 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTA
* * *** *
219776354 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTA
219776394 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGGTTA
219776434 TATCCGG
1 TATCCGG
219776441 TTATGTTCCG
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTA
Found at i:219778628 original size:29 final size:30
Alignment explanation
Indices: 219778557--219778693 Score: 117
Period size: 29 Copynumber: 4.7 Consensus size: 30
219778547 GTGCCCACTG
**
219778557 ACCGATCTCGCACACATAGTG-CTCGGTTGA
1 ACCGATCTCGCACACATAGTGCCTCAATT-A
* *
219778587 A--GAACTCGCACACACAGTGCCTCAATT-
1 ACCGATCTCGCACACATAGTGCCTCAATTA
***
219778614 ACCGATCTCGCACACATAGTG-CTTGGTTA
1 ACCGATCTCGCACACATAGTGCCTCAATTA
** *
219778643 AAGGAAT-TCGCACACACAGTGCCTCAATT-
1 ACCG-ATCTCGCACACATAGTGCCTCAATTA
219778672 ACCGATCTCGCACACATAGTGC
1 ACCGATCTCGCACACATAGTGC
219778694 TCGGTTAAAG
Statistics
Matches: 82, Mismatches: 18, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
27 1 0.01
28 22 0.27
29 52 0.63
30 7 0.09
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (30 bp):
ACCGATCTCGCACACATAGTGCCTCAATTA
Found at i:219778672 original size:58 final size:58
Alignment explanation
Indices: 219778557--219778725 Score: 295
Period size: 58 Copynumber: 2.9 Consensus size: 58
219778547 GTGCCCACTG
* *
219778557 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
*
219778614 ACCGATCTCGCACACATAGTGCTTGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
*
219778672 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
219778726 TAATCATTCG
Statistics
Matches: 106, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
57 29 0.27
58 77 0.73
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
Found at i:219778713 original size:29 final size:29
Alignment explanation
Indices: 219778564--219778722 Score: 112
Period size: 29 Copynumber: 5.5 Consensus size: 29
219778554 CTGACCGATC
* * *
219778564 TCGCACACATAGTGCTCGGTTGAA-GAAC
1 TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
219778592 TCGCACACACAGTGCCTCAATT-ACCG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
* *
219778620 CTCGCACACATAGTGCTTGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
219778650 TCGCACACACAGTGCCTCAATT-ACCG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
*
219778678 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
*
219778708 TTGCACACACAGTGC
1 TCGCACACACAGTGC
219778723 CTCTAATCAT
Statistics
Matches: 98, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
28 26 0.27
29 64 0.65
30 8 0.08
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (29 bp):
TCGCACACACAGTGCTCGGTTAAAGGAAT
Found at i:219779010 original size:43 final size:43
Alignment explanation
Indices: 219778907--219779010 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 43
219778897 GGCATGAAGA
** * *
219778907 CCCGAATACACATCACTAGCACGAAGCCTACTAGGTACGAAGG
1 CCCGAATACACATCACCGGCACGAAGCCTACTAGGCACAAAGG
* *
219778950 CACGAATACACATCACCGGCACGAAGCCTGCTAGGCACAAAGG
1 CCCGAATACACATCACCGGCACGAAGCCTACTAGGCACAAAGG
219778993 CCCGAATACACATCACCG
1 CCCGAATACACATCACCG
219779011 AGTTTCATGC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.35, C:0.34, G:0.20, T:0.12
Consensus pattern (43 bp):
CCCGAATACACATCACCGGCACGAAGCCTACTAGGCACAAAGG
Found at i:219781865 original size:68 final size:68
Alignment explanation
Indices: 219781737--219781884 Score: 199
Period size: 68 Copynumber: 2.2 Consensus size: 68
219781727 AAATCAAAAG
* * * *
219781737 ATTCGGACAGCTACATTTACTAAATAAAACAGCATATATGGTAGTGCATCGAACAATGAATTTAA
1 ATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAACAATGAATCTAA
219781802 CAC
66 CAC
* * * *
219781805 ATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGAT-GATGCTTTGAATAGTGAATCTA
1 ATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAG-TGCATCGAACAATGAATCTA
219781869 ACAC
65 ACAC
*
219781873 ATTCGAACAGCT
1 ATTCGGACAGCT
219781885 TAATTTTAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
67 1 0.01
68 69 0.99
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (68 bp):
ATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAACAATGAATCTAA
CAC
Found at i:219783568 original size:10 final size:10
Alignment explanation
Indices: 219783553--219783578 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
219783543 TAAGTCGTTT
219783553 TGGGCCTCAA
1 TGGGCCTCAA
219783563 TGGGCCTCAA
1 TGGGCCTCAA
219783573 TGGGCC
1 TGGGCC
219783579 CTGTGGGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (10 bp):
TGGGCCTCAA
Found at i:219786168 original size:46 final size:46
Alignment explanation
Indices: 219786115--219786290 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
219786105 TATTTGGGCA
219786115 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
219786161 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
219786208 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
219786254 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
219786291 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:219786270 original size:93 final size:93
Alignment explanation
Indices: 219786111--219786282 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
219786101 GGGATATTTG
* *
219786111 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
219786176 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
219786204 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
219786269 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
219786283 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:219789279 original size:15 final size:15
Alignment explanation
Indices: 219789240--219789318 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
219789230 GTATCTTGGG
*
219789240 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
219789255 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
219789270 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
219789284 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
219789299 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
219789313 TTTCTT
1 TTTCTT
219789319 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:219789303 original size:29 final size:29
Alignment explanation
Indices: 219789231--219789317 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
219789221 CATAGTATCG
* * * *
219789231 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
219789261 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
219789290 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
219789318 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:219791752 original size:46 final size:46
Alignment explanation
Indices: 219791699--219791874 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
219791689 TATTTGGGCA
219791699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
219791745 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
219791792 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
219791838 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
219791875 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:219791854 original size:93 final size:93
Alignment explanation
Indices: 219791695--219791866 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
219791685 GGGATATTTG
* *
219791695 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
219791760 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
219791788 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
219791853 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
219791867 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:219796067 original size:40 final size:39
Alignment explanation
Indices: 219796022--219796151 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
219796012 CGGAATATAA
219796022 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
219796062 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
219796102 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
219796142 CCGGATATAA
1 CCGGATATAA
219796152 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:219796166 original size:40 final size:40
Alignment explanation
Indices: 219796038--219796189 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
219796028 ATAACCATGT
* * *
219796038 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
219796078 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
219796118 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
219796158 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
219796190 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:219796172 original size:80 final size:80
Alignment explanation
Indices: 219796038--219796187 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
219796028 ATAACCATGT
*
219796038 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
219796102 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
219796118 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
219796181 CCCGGAT
64 CCCGGAT
219796188 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:219804068 original size:40 final size:39
Alignment explanation
Indices: 219804023--219804152 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
219804013 CGGAATATAA
219804023 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
219804063 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
219804103 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
219804143 CCGGATATAA
1 CCGGATATAA
219804153 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:219804167 original size:40 final size:40
Alignment explanation
Indices: 219804039--219804190 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
219804029 ATAACCATGT
* * *
219804039 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
219804079 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
219804119 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
219804159 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
219804191 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:219804173 original size:80 final size:80
Alignment explanation
Indices: 219804039--219804188 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
219804029 ATAACCATGT
*
219804039 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
219804103 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
219804119 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
219804182 CCCGGAT
64 CCCGGAT
219804189 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:219808436 original size:19 final size:19
Alignment explanation
Indices: 219808404--219808449 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
219808394 ACAACATATA
* * *
219808404 ATAATGTCACATTATTTAC
1 ATAATATCAAATTATTCAC
219808423 ATAATATCAAATTATTCAC
1 ATAATATCAAATTATTCAC
219808442 ATATATAT
1 ATA-ATAT
219808450 ACTTACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATATCAAATTATTCAC
Found at i:219810267 original size:27 final size:27
Alignment explanation
Indices: 219810235--219810598 Score: 414
Period size: 27 Copynumber: 13.6 Consensus size: 27
219810225 CTTTAATCGA
*
219810235 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
219810262 TGAAATGACTGTTTTGCCCTTATAAGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* **
219810289 TAAAATGACTGTTTTACCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATATGG
*
219810316 TAAAATGACTGTTTTGCCATTATGA-GG
1 TAAAATGACTGTTTTGCCCTTAT-ATGG
*
219810343 TAAAATGA--GTATTTCCCCTTATATGG
1 TAAAATGACTGT-TTTGCCCTTATATGG
* **
219810369 TAAAATGACTGTTTTGCCTTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATATGG
**
219810396 TAAAATGACTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
219810423 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* * *
219810450 TAAAATGATTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* ***
219810477 TAAAATGACTTTTTTGCCCTTACGGGG
1 TAAAATGACTGTTTTGCCCTTATATGG
**
219810504 TAAAATGACTGTTTTGCCCTTATCA-AA
1 TAAAATGACTGTTTTGCCCTTAT-ATGG
*
219810531 TAAAATGACTGTTTTACCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
*
219810558 TAAAATGATTGTTTTGCCCTT-TATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
219810584 TAAGATGATTGTTTT
1 TAAAATGACTGTTTT
219810599 ACCCCTATGT
Statistics
Matches: 295, Mismatches: 35, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
25 3 0.01
26 39 0.13
27 251 0.85
28 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATATGG
Found at i:219814026 original size:27 final size:27
Alignment explanation
Indices: 219813988--219814295 Score: 370
Period size: 27 Copynumber: 11.4 Consensus size: 27
219813978 GACCCTTGAT
219813988 TGTTTTGCCCTTATGAGGTAAAATGAC
1 TGTTTTGCCCTTATGAGGTAAAATGAC
* *
219814015 TGTTTTTCCCTTATGA-GAAAAATGAC
1 TGTTTTGCCCTTATGAGGTAAAATGAC
* *
219814041 TGTTTTTCCCTTATGTGGTAAAATGAC
1 TGTTTTGCCCTTATGAGGTAAAATGAC
* *
219814068 TGTTTTTCCCTTATGGGGTAAAATGAC
1 TGTTTTGCCCTTATGAGGTAAAATGAC
* * * *
219814095 TATTTTGCCTCTTATGGGGTAAACTGAT
1 TGTTTTGCC-CTTATGAGGTAAAATGAC
* * *
219814123 TGTTTTGCCGTTATGTGGTAAAATGAT
1 TGTTTTGCCCTTATGAGGTAAAATGAC
*
219814150 TGTTTTGCCCTTATGGGGTAAAATGAC
1 TGTTTTGCCCTTATGAGGTAAAATGAC
* *
219814177 TGTTTTGCCCTTATGGGGTAAAATGAT
1 TGTTTTGCCCTTATGAGGTAAAATGAC
* *
219814204 TGTTTTTCCCTTA-GAGGGTAAAATGAT
1 TGTTTTGCCCTTATGA-GGTAAAATGAC
219814231 TGTTTTGCCCTTA-GAGGGTAAAATGAC
1 TGTTTTGCCCTTATGA-GGTAAAATGAC
* * *
219814258 TGTTTTACCCTTATGCGGTAATATGAC
1 TGTTTTGCCCTTATGAGGTAAAATGAC
*
219814285 TGTTTTACCCT
1 TGTTTTGCCCT
219814296 CTGTGATGTA
Statistics
Matches: 253, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
26 25 0.10
27 203 0.80
28 25 0.10
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (27 bp):
TGTTTTGCCCTTATGAGGTAAAATGAC
Found at i:219814230 original size:81 final size:81
Alignment explanation
Indices: 219813984--219814295 Score: 423
Period size: 81 Copynumber: 3.9 Consensus size: 81
219813974 CCTAGACCCT
* * * *
219813984 TGATTGTTTTGCCCTTATGAGGTAAAATGACTGTTTTTCCCTTAT-GAGAAAAATGACTGTTTTT
1 TGATTGTTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATGGGGTAAAATGACTGTTTTT
219814048 CCCTTATGTGGTAAAA
66 CCCTTATGTGGTAAAA
* * * * *
219814064 TGACTGTTTTTCCCTTATGGGGTAAAATGACTATTTTGCCTCTTATGGGGTAAACTGATTGTTTT
1 TGATTGTTTTGCCCTTATGGGGTAAAATGACTGTTTTGCC-CTTATGGGGTAAAATGACTGTTTT
* *
219814129 GCCGTTATGTGGTAAAA
65 TCCCTTATGTGGTAAAA
*
219814146 TGATTGTTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATGGGGTAAAATGATTGTTTTT
1 TGATTGTTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATGGGGTAAAATGACTGTTTTT
*
219814211 CCCTTA-GAGGGTAAAA
66 CCCTTATG-TGGTAAAA
* * *
219814227 TGATTGTTTTGCCCTTA-GAGGGTAAAATGACTGTTTTACCCTTATGCGGTAATATGACTGTTTT
1 TGATTGTTTTGCCCTTATG-GGGTAAAATGACTGTTTTGCCCTTATGGGGTAAAATGACTGTTTT
*
219814291 ACCCT
65 TCCCT
219814296 CTGTGATGTA
Statistics
Matches: 205, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
80 37 0.18
81 102 0.50
82 66 0.32
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (81 bp):
TGATTGTTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATGGGGTAAAATGACTGTTTTT
CCCTTATGTGGTAAAA
Found at i:219819113 original size:22 final size:22
Alignment explanation
Indices: 219819082--219819125 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
219819072 ATAGGAAAGA
*
219819082 AAACTACATAAGCATATAATGC
1 AAACTACATAAGCACATAATGC
*
219819104 AAACTTCATAAGCACATAATGC
1 AAACTACATAAGCACATAATGC
219819126 TTAGTAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (22 bp):
AAACTACATAAGCACATAATGC
Found at i:219822941 original size:29 final size:29
Alignment explanation
Indices: 219822908--219823039 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
219822898 GTGACGAGAT
219822908 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
219822937 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
219822966 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
219822995 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
219823024 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
219823040 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:219830875 original size:29 final size:29
Alignment explanation
Indices: 219830842--219830973 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
219830832 GTGACGAGAT
219830842 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
219830871 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
219830900 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
219830929 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
219830958 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
219830974 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:219842251 original size:40 final size:40
Alignment explanation
Indices: 219842206--219842373 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
219842196 CGGAATATAA
219842206 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
219842246 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
219842286 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
219842326 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
219842366 CCGGATAT
1 CCGGATAT
219842374 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:219842356 original size:80 final size:80
Alignment explanation
Indices: 219842222--219842371 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
219842212 ATAATCACGT
*
219842222 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
219842286 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
219842302 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
219842365 CCCGGAT
64 CCCGGAT
219842372 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:219848763 original size:40 final size:40
Alignment explanation
Indices: 219848704--219848845 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
219848694 AAATTGAATG
* * *
219848704 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
219848744 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
219848784 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
219848824 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
219848846 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:219848846 original size:40 final size:39
Alignment explanation
Indices: 219848743--219848855 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
219848733 TGCTGGAAAT
* * **
219848743 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
219848783 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
*
219848823 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
219848856 ACATGTTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:219856619 original size:12 final size:12
Alignment explanation
Indices: 219856602--219856629 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
219856592 TCCCGAAGGC
219856602 GATTATGCTAAT
1 GATTATGCTAAT
219856614 GATTATGCTAAT
1 GATTATGCTAAT
219856626 GATT
1 GATT
219856630 TATGTATGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (12 bp):
GATTATGCTAAT
Found at i:219856745 original size:40 final size:40
Alignment explanation
Indices: 219856679--219856829 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
219856669 AAATTGAATG
* * *
219856679 ATATCCGGGCTAA-CCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
219856718 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
**
219856758 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
219856798 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
219856830 ACATGCTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 15 0.16
40 74 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:219856843 original size:40 final size:39
Alignment explanation
Indices: 219856716--219856845 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
219856706 ATGCTGGAAA
* * *
219856716 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
219856757 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
219856795 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
219856836 TTATATCCGG
1 TTATATCCGG
219856846 TTATATCCGA
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:219867925 original size:39 final size:39
Alignment explanation
Indices: 219867730--219867923 Score: 271
Period size: 39 Copynumber: 4.9 Consensus size: 39
219867720 TCGTTCAAAC
* * * * * *
219867730 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
219867770 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
219867810 GCCTTCGGGCTTAGCTCGGATATCACAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
* *
219867849 GCCTTCGGGCTTAGCCCGGATATCACAACTCGTACATTT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
*
219867888 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
219867924 TTCATACACA
Statistics
Matches: 140, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 98 0.70
40 42 0.30
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:219870324 original size:38 final size:39
Alignment explanation
Indices: 219870239--219870367 Score: 215
Period size: 39 Copynumber: 3.3 Consensus size: 39
219870229 TGTGTATGAA
* * *
219870239 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTGTGATATCTGGGCTAAGCCCGAAGGCAAT
*
219870278 TGTACGAGTTGTGATATCTGGGCTAAG-CCGAAGGCAAT
1 TGTGCGAGTTGTGATATCTGGGCTAAGCCCGAAGGCAAT
219870316 TGTGCGAGTTGTGATATCTGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCTGGGCTAAGCCCGAAGGCAAT
219870355 TGTGCGAGTTGTG
1 TGTGCGAGTTGTG
219870368 TGACAGCCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
38 36 0.43
39 48 0.57
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCTGGGCTAAGCCCGAAGGCAAT
Found at i:219872138 original size:40 final size:41
Alignment explanation
Indices: 219872093--219872203 Score: 142
Period size: 40 Copynumber: 2.8 Consensus size: 41
219872083 CTGGAAATTA
* *
219872093 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATAC
*
219872134 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
219872173 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC
219872204 ACGGGTTATA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 58 0.91
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
Found at i:219875253 original size:39 final size:39
Alignment explanation
Indices: 219875202--219875353 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
219875192 TATGGTAACC
* * * *
219875202 CGCACAAATGCCTTCGGGACTTA-ACCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
219875241 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
219875280 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
219875319 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAT
219875354 TCGAACATTC
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 4 0.04
39 102 0.96
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:219881213 original size:29 final size:29
Alignment explanation
Indices: 219881180--219881340 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
219881170 GTGACGAGAT
219881180 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
219881209 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
219881238 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
219881267 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
219881296 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
219881325 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
219881341 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:219888667 original size:29 final size:29
Alignment explanation
Indices: 219888634--219888794 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
219888624 GTGACGAGAT
219888634 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
219888663 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
219888692 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
219888721 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
219888750 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
219888779 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
219888795 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:219894068 original size:39 final size:39
Alignment explanation
Indices: 219893957--219894100 Score: 180
Period size: 39 Copynumber: 3.6 Consensus size: 39
219893947 GTTCAAAACA
* * ** * *
219893957 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
219893997 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
219894037 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
219894076 CCTTCGGGCTTAGCCCGGATATCAT
1 CCTTCGGGCTTAGCCCGGATATCAT
219894101 TCGAACATTC
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 51 0.56
40 40 0.44
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:219896653 original size:79 final size:80
Alignment explanation
Indices: 219896485--219896669 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
219896475 ACGACTCGCT
* ** * * *
219896485 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCAGGACTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGGACCTAACCCG
* *
219896549 GGTTTAGTAACTTGCA
65 GATATAGTAACTTGCA
* **
219896565 CAAATGCCTTCAGG-CTTAGCGCGGATTTATTAACTCGCACGAATGCCTTC-GGATCCTAGTCCG
1 CAAATGCCTTCAGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGGA-CCTAACCCG
*
219896628 GATATAGTCACTTAGCA
65 GATATAGTAACTT-GCA
*
219896645 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCAGGACTTAGCCCGGA
219896670 CATCATTCGA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.60
80 32 0.37
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCAGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGGACCTAACCCGG
ATATAGTAACTTGCA
Found at i:219896669 original size:40 final size:39
Alignment explanation
Indices: 219896478--219896669 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 39
219896468 GGATATAACG
* ** * *
219896478 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
219896518 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
219896558 ACTTGCACAAATGCCTTCAGG-CTTAGCGCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
219896597 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
219896637 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
219896670 CATCATTCGA
Statistics
Matches: 118, Mismatches: 27, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 77 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:219898420 original size:47 final size:47
Alignment explanation
Indices: 219898351--219898575 Score: 407
Period size: 47 Copynumber: 4.8 Consensus size: 47
219898341 GGCTGTCACA
219898351 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
219898398 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* * * *
219898445 CGAATGGCCAATGTGATGAATGTGAAAGTGCATATATGAGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
219898492 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
219898539 CTAATGGCCGATGTGATG-ATGTGAAAGTGTATATATG
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
219898576 NNNNNNNNNN
Statistics
Matches: 170, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 19 0.11
47 151 0.89
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
Found at i:219901706 original size:27 final size:28
Alignment explanation
Indices: 219901650--219901719 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
219901640 AAATTTGTAC
219901650 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
219901678 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
219901705 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
219901720 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:219901730 original size:27 final size:27
Alignment explanation
Indices: 219901650--219901731 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
219901640 AAATTTGTAC
* *
219901650 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
219901678 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
219901705 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
219901732 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:219909530 original size:27 final size:28
Alignment explanation
Indices: 219909474--219909543 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
219909464 AAATTTGTAC
219909474 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
219909502 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
219909529 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
219909544 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:219909554 original size:27 final size:27
Alignment explanation
Indices: 219909474--219909555 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
219909464 AAATTTGTAC
* *
219909474 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
219909502 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
219909529 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
219909556 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:219914063 original size:29 final size:29
Alignment explanation
Indices: 219914030--219914160 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
219914020 TGACGAGATC
*
219914030 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
219914059 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
219914088 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
219914117 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
219914146 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
219914161 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:219922168 original size:29 final size:29
Alignment explanation
Indices: 219922135--219922265 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
219922125 TGACGAGATC
*
219922135 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
219922164 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
219922193 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
219922222 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
219922251 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
219922266 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:219932017 original size:40 final size:40
Alignment explanation
Indices: 219931943--219932088 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 40
219931933 CCGCACCAAG
* * * * * *
219931943 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
219931983 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* ** * *
219932023 GCCTTCGGGTCTTAGCCCGGATATAGCTGCTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
219932063 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
219932089 TTTCCAGCAT
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:219932103 original size:40 final size:40
Alignment explanation
Indices: 219931975--219932126 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
219931965 ATCACGATTT
* * ** **
219931975 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTGCCA
* *
219932015 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTGCCA
* * * *
219932055 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTGCCA
* * *
219932095 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
219932127 CATTCAATTT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.02
40 90 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTGCCA
Found at i:219940354 original size:40 final size:40
Alignment explanation
Indices: 219940275--219940432 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
219940265 TTCGAATGAT
* * * *
219940275 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
219940315 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
219940355 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
219940395 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
219940433 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:219940453 original size:80 final size:80
Alignment explanation
Indices: 219940275--219940462 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
219940265 TTCGAATGAT
* *
219940275 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
219940340 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
219940355 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
219940416 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
219940436 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
219940463 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:219943315 original size:40 final size:40
Alignment explanation
Indices: 219943219--219943397 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
219943209 CGAATGGTAT
* * * *
219943219 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
219943260 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
219943300 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
219943340 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
219943380 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
219943398 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
40 93 0.79
41 25 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:219943360 original size:80 final size:81
Alignment explanation
Indices: 219943219--219943397 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
219943209 CGAATGGTAT
* *
219943219 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
219943284 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
219943300 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
219943363 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
219943380 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
219943398 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.69
81 26 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:219943410 original size:80 final size:80
Alignment explanation
Indices: 219943253--219943437 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
219943243 GTGCTAAGTG
* * * *
219943253 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * *
219943318 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTT
* * *
219943333 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
*
219943397 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTT
* * * *
219943413 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
219943438 TACGTGATTC
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
79 8 0.09
80 79 0.91
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTT
Found at i:219943418 original size:40 final size:40
Alignment explanation
Indices: 219943340--219943423 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
219943330 GTTACTAAAT
* * *
219943340 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
219943380 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
219943420 CCGG
1 CCGG
219943424 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:219953739 original size:64 final size:64
Alignment explanation
Indices: 219953658--219953840 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
219953648 AGACATTATG
* *
219953658 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
219953722 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
219953787 AA
63 AA
* * * *
219953789 ATG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
219953841 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
61 1 0.01
62 19 0.19
63 1 0.01
64 24 0.24
65 18 0.18
66 2 0.02
67 33 0.34
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:219958285 original size:40 final size:39
Alignment explanation
Indices: 219958240--219958371 Score: 122
Period size: 40 Copynumber: 3.2 Consensus size: 39
219958230 CGGAATATAA
*
219958240 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAATTGCCTTCGGGTCTTAGC
* *
219958280 CCGGATAGAATAGCCACTAGCACCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAT---CACT-GCA-CAATTGCCTTCGGGTCTTAGC
* * * *
219958324 CCGGATATAATTTC-CAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAA--TCACTGCACAATTGCCTTCGGGTCTTAGC
219958364 CCGGATAT
1 CCGGATAT
219958372 CATTCAATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
40 35 0.46
41 3 0.04
42 2 0.03
43 7 0.09
44 28 0.37
46 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAATTGCCTTCGGGTCTTAGC
Found at i:219965577 original size:40 final size:39
Alignment explanation
Indices: 219965451--219965617 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
219965441 CGGAATATAA
219965451 CCGGATATAATC-ACGT-GCACAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCACAATGCCTTCGGGTCTTAGC
* * *
219965490 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
219965530 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * * *
219965570 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
219965610 CCGGATAT
1 CCGGATAT
219965618 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 17 0.16
40 89 0.83
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:219965600 original size:80 final size:79
Alignment explanation
Indices: 219965467--219965617 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
219965457 ATAATCACGT
* *
219965467 GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GCACAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCCC
219965532 GGATATAGCCACTA
66 GGATATAGCCACTA
* ** * *
219965546 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAA-TGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGGCTTAG
219965609 CCCGGATAT
63 CCCGGATAT
219965618 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 9 0.15
80 53 0.85
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCCC
GGATATAGCCACTA
Found at i:219968050 original size:13 final size:13
Alignment explanation
Indices: 219968034--219968066 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
219968024 TTTAATTAAA
*
219968034 TTAGTTAATTAGT
1 TTAGATAATTAGT
219968047 TTAGATAATTAGT
1 TTAGATAATTAGT
219968060 TTA-ATAA
1 TTAGATAA
219968067 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:219985413 original size:40 final size:40
Alignment explanation
Indices: 219985368--219985538 Score: 209
Period size: 40 Copynumber: 4.3 Consensus size: 40
219985358 CGGAATATAA
* *
219985368 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-TCGCACAAATGCCTTCGGGTCTTAAC
* *
219985408 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGTCTTAAC
* * *
219985448 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGTCTTAAC
*** * **
219985488 CCGGATATAGCCACTAGCACATTTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGTCTTAAC
219985528 CCGGATATAAT
1 CCGGATATAAT
219985539 TTCCAGCATA
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 113 0.99
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATAACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:219985558 original size:40 final size:40
Alignment explanation
Indices: 219985368--219985574 Score: 172
Period size: 40 Copynumber: 5.2 Consensus size: 40
219985358 CGGAATATAA
* ** * *
219985368 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
*
219985408 CCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGTCTTAAC
1 CCGGATATAATAAC-CAGCAC-AATTGCCTTCGGGTCTTAAC
* *
219985448 CCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-CAGCAC-AATTGCCTTCGGGTCTTAAC
*** * *
219985488 CCGGATATAGCCACTAGCACATTTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
** * * * *
219985528 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CCTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
219985567 CCGGATAT
1 CCGGATAT
219985575 CATTCAATTT
Statistics
Matches: 141, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 13 0.09
40 126 0.89
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
Found at i:219990108 original size:41 final size:41
Alignment explanation
Indices: 219990063--219990180 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
219990053 TGAAAGATAA
219990063 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
219990104 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
219990134 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
219990175 ATGTAG
1 ATGTAG
219990181 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:219990119 original size:71 final size:71
Alignment explanation
Indices: 219990031--219990194 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
219990021 GAGATGTATC
219990031 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
219990096 AGGACA
66 AGGACA
219990102 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
219990167 AGGACA
66 AGGACA
219990173 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
219990195 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:219997684 original size:41 final size:41
Alignment explanation
Indices: 219997639--219997756 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
219997629 TGAAAGATAA
219997639 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
219997680 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
219997710 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
219997751 ATGTAG
1 ATGTAG
219997757 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:219997695 original size:71 final size:71
Alignment explanation
Indices: 219997607--219997770 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
219997597 GAGATGTATC
219997607 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
219997672 AGGACA
66 AGGACA
219997678 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
219997743 AGGACA
66 AGGACA
219997749 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
219997771 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:220001101 original size:16 final size:16
Alignment explanation
Indices: 220001060--220001107 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
220001050 TTTCACAAAT
* *
220001060 AAATCCCTAACCATTA
1 AAATCACTAAACATTA
220001076 AAAT-ATCTAAACATTA
1 AAATCA-CTAAACATTA
*
220001092 AAATCACTAAAAATTA
1 AAATCACTAAACATTA
220001108 CTTAACAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATCACTAAACATTA
Found at i:220014014 original size:26 final size:26
Alignment explanation
Indices: 220013978--220014027 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
220013968 ATGAATTTTC
220013978 TCAAAATTTTATCGAGG-GTAAAATCA
1 TCAAAATTTTAT-GAGGAGTAAAATCA
220014004 TCAAAATTTTATGAGGAGTAAAAT
1 TCAAAATTTTATGAGGAGTAAAAT
220014028 TGGAGTGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTATGAGGAGTAAAATCA
Found at i:220018525 original size:40 final size:39
Alignment explanation
Indices: 220018468--220018618 Score: 119
Period size: 40 Copynumber: 3.8 Consensus size: 39
220018458 CGGAGTTTAA
* * * *
220018468 CCGGATATAGCTACTCGTTCAAATACCTTCGAGACATAGC
1 CCGGTTATAG-TACTCGTACAAATGCCTTCGAGACATAAC
* *
220018508 CCGGTTATAGTAGCTCGTACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTA-CTCGTACAAATGCCTTCGAGACATAAC
* * **
220018548 CCGGATT-TAGTAACTCGCACAAATGCCTTCG-GATCTTAGT
1 CCGG-TTATAGT-ACTCGTACAAATGCCTTCGAGA-CATAAC
*
220018588 CCGGATT-TAGTAACTCGCACAAATGCCTTCG
1 CCGG-TTATAGT-ACTCGTACAAATGCCTTCG
220018619 GATCTTAGTC
Statistics
Matches: 98, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 4 0.04
40 91 0.93
41 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (39 bp):
CCGGTTATAGTACTCGTACAAATGCCTTCGAGACATAAC
Found at i:220018564 original size:80 final size:79
Alignment explanation
Indices: 220018464--220018637 Score: 185
Period size: 80 Copynumber: 2.2 Consensus size: 79
220018454 CCTTCGGAGT
** * *
220018464 TTAACCGGATATAGCTACTCGTTCAAATACCTTCGAGA-CATAGCCCGG-TTATAGTAGCTCGTA
1 TTAACCGGATATAGCTACTCGCACAAATACCTTCG-GATCATAGCCCGGATT-TAGTAACTCGCA
220018527 CAAATGCCTTCGGGAC
64 CAAATGCCTTCGGGAC
* * * *
220018543 TTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 TTAA-CCGGATATAGCT-ACTCGCACAAATACCTTCGGATCATAGCCCGGATTTAGTAACTCGCA
220018607 CAAATGCCTTC-GGATC
64 CAAATGCCTTCGGGA-C
*
220018623 TTAGTCCGGATATAG
1 TTA-ACCGGATATAG
220018638 TCACTTAGCA
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
79 10 0.13
80 67 0.85
81 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (79 bp):
TTAACCGGATATAGCTACTCGCACAAATACCTTCGGATCATAGCCCGGATTTAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:220018619 original size:40 final size:40
Alignment explanation
Indices: 220018487--220018672 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
220018477 GCTACTCGTT
* * * * *
220018487 CAAATACCTTCGAGACATAGCCCGG-TTATAGTAGCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
220018527 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
220018567 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
220018607 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
220018648 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
220018673 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:220026621 original size:40 final size:40
Alignment explanation
Indices: 220026482--220026624 Score: 146
Period size: 40 Copynumber: 3.6 Consensus size: 40
220026472 GCTACTCGTT
* * * * * *
220026482 CAAATACCTTCGGGACATAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTAGCA
* * * *
220026522 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTAGCA
* *
220026562 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCAGATATAGTAAC-TAGCA
220026603 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
220026625 GGACATCATT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 73 0.84
41 11 0.13
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTAGCA
Found at i:220027345 original size:2 final size:2
Alignment explanation
Indices: 220027338--220027363 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
220027328 ATGTGCAAAC
220027338 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
220027364 GTGCAAGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:220028234 original size:25 final size:25
Alignment explanation
Indices: 220028200--220028247 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
220028190 AATTTCAACA
220028200 TCATAATTACATATTCTAGACAAAT
1 TCATAATTACATATTCTAGACAAAT
220028225 TCATAATTACATATTCTAGACAA
1 TCATAATTACATATTCTAGACAA
220028248 TAATATTACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (25 bp):
TCATAATTACATATTCTAGACAAAT
Found at i:220035883 original size:27 final size:28
Alignment explanation
Indices: 220035793--220035906 Score: 110
Period size: 27 Copynumber: 4.2 Consensus size: 28
220035783 AGCATGGCTT
* * *
220035793 CCAG-AATAGATA-TTATGACAGAGTCA
1 CCAGAAATAGATATTTGTGGCAGAGCCA
* * *
220035819 CCAGATACAGATA-TTATGGCAGAGCCA
1 CCAGAAATAGATATTTGTGGCAGAGCCA
220035846 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAGAAATAGATATTTGTGGCAGAGCCA
* * * *
220035874 CTAG-ATTAGATATTTGTAGCAAAGCCA
1 CCAGAAATAGATATTTGTGGCAGAGCCA
220035901 CCAGAA
1 CCAGAA
220035907 CGCTTCCTCC
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 4 0.05
27 52 0.71
28 17 0.23
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (28 bp):
CCAGAAATAGATATTTGTGGCAGAGCCA
Found at i:220035885 original size:54 final size:54
Alignment explanation
Indices: 220035793--220035906 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 54
220035783 AGCATGGCTT
* *
220035793 CCAG-AATAGATATTATGACAGAGTCACCAGATACAGATATTATG-GCAGAGCCA
1 CCAGAAATAGATATTATGACAGAGCCACCAGATACAGATATT-TGAGCAAAGCCA
* * * *
220035846 CCAGAAATAGATATTTGTGGCAGAGCCACTAGAT-TAGATATTTGTAGCAAAGCCA
1 CCAGAAATAGATA-TTATGACAGAGCCACCAGATACAGATATTTG-AGCAAAGCCA
220035901 CCAGAA
1 CCAGAA
220035907 CGCTTCCTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
53 6 0.12
54 15 0.29
55 30 0.59
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (54 bp):
CCAGAAATAGATATTATGACAGAGCCACCAGATACAGATATTTGAGCAAAGCCA
Found at i:220036029 original size:24 final size:26
Alignment explanation
Indices: 220036002--220036055 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
220035992 TTTCAGTCAA
*
220036002 AATTAT-C-CCTAGAGGTATAATGGT
1 AATTATGCACCTAGAGGTATAAAGGT
* *
220036026 AATTTTGCACCTAGGGGTATAAAGGT
1 AATTATGCACCTAGAGGTATAAAGGT
220036052 AATT
1 AATT
220036056 TTCATACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
25 1 0.04
26 19 0.76
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (26 bp):
AATTATGCACCTAGAGGTATAAAGGT
Found at i:220038330 original size:40 final size:39
Alignment explanation
Indices: 220038162--220038332 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
220038152 AGAAATTGAA
* *
220038162 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
220038202 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
220038242 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
220038282 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
220038322 TGATATCCGGG
1 TGATATCCGGG
220038333 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:220046354 original size:40 final size:39
Alignment explanation
Indices: 220046186--220046356 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
220046176 AGAAATTGAA
* *
220046186 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
220046226 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
220046266 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
220046306 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
220046346 TGATATCCGGG
1 TGATATCCGGG
220046357 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:220049994 original size:40 final size:40
Alignment explanation
Indices: 220049950--220050140 Score: 339
Period size: 40 Copynumber: 4.8 Consensus size: 40
220049940 GAGAATTGAG
220049950 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
220049990 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
220050030 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
220050070 AGTGATGTA-CCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
220050109 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
220050141 ATCATGCTGG
Statistics
Matches: 147, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
39 38 0.26
40 109 0.74
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:220050135 original size:79 final size:80
Alignment explanation
Indices: 220049950--220050140 Score: 339
Period size: 79 Copynumber: 2.4 Consensus size: 80
220049940 GAGAATTGAG
*
220049950 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
220050015 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
220050030 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA-CCGGACTAAGTCCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
220050094 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* * *
220050109 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
220050141 ATCATGCTGG
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
79 58 0.54
80 49 0.46
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
AAGAGCATTCGTGCT
Found at i:220053846 original size:49 final size:49
Alignment explanation
Indices: 220053793--220054083 Score: 302
Period size: 49 Copynumber: 5.7 Consensus size: 49
220053783 GATTTTACGC
* * *
220053793 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
220053842 GATGAATGTGAAAGTGTATATATATGTGATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAA--G--------TGT-ATATATATGTGATAAGGCCTAATGGCCGATGT
220053902 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
220053951 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* * * * * * *
220053998 GATGAATGTGAAGAATGTGAAAGTGTATTATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTG-A-AA-GTG-TA-TATA-TATGTGATAAGGCCTAATGGCCGATGT
*
220054053 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
220054084 TCCCGAAGGG
Statistics
Matches: 210, Mismatches: 13, Indels: 40
0.80 0.05 0.15
Matches are distributed among these distances:
47 50 0.24
48 1 0.00
49 63 0.30
50 7 0.03
51 2 0.01
52 3 0.01
53 2 0.01
54 4 0.02
55 31 0.15
58 1 0.00
59 3 0.01
60 43 0.20
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:220053875 original size:11 final size:11
Alignment explanation
Indices: 220053859--220053883 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
220053849 GTGAAAGTGT
220053859 ATATATATGTG
1 ATATATATGTG
220053870 ATATATATGTG
1 ATATATATGTG
220053881 ATA
1 ATA
220053884 AGGCCTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (11 bp):
ATATATATGTG
Found at i:220053924 original size:47 final size:47
Alignment explanation
Indices: 220053871--220054083 Score: 264
Period size: 47 Copynumber: 4.3 Consensus size: 47
220053861 ATATATGTGA
220053871 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
220053918 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
220053967 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGAATGTGAAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-A-AA-GT----G
* * * * * * *
220054021 TGTATTATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATA-TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
220054069 TATAAATGTGATAAG
1 TATATATGTGATAAG
220054084 TCCCGAAGGG
Statistics
Matches: 146, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
47 50 0.34
48 5 0.03
49 49 0.34
50 2 0.01
52 2 0.01
53 2 0.01
54 5 0.03
55 31 0.21
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:220054055 original size:55 final size:56
Alignment explanation
Indices: 220053947--220054064 Score: 166
Period size: 55 Copynumber: 2.1 Consensus size: 56
220053937 CTAATGGCCG
* * * *
220053947 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
* * *
220054003 ATGTGAAGAATGTGAAAGTGTAT-TATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
220054058 ATGTGAA
1 ATGTGAA
220054065 AGTGTATAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 33 0.60
56 22 0.40
ACGTcount: A:0.31, C:0.08, G:0.33, T:0.28
Consensus pattern (56 bp):
ATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
Found at i:220064285 original size:29 final size:29
Alignment explanation
Indices: 220064252--220064411 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
220064242 GTGACGAGAT
220064252 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
220064281 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
220064310 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
220064339 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
220064368 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
220064397 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
220064412 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:220066869 original size:15 final size:15
Alignment explanation
Indices: 220066849--220066878 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
220066839 CAACACTTGT
220066849 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
220066864 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
220066879 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:220080174 original size:47 final size:47
Alignment explanation
Indices: 220080121--220080307 Score: 295
Period size: 47 Copynumber: 4.0 Consensus size: 47
220080111 AAGATATGTA
*
220080121 TATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
*
220080168 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
220080215 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
220080262 TATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTAT
1 TATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
220080308 AACTGTGATA
Statistics
Matches: 130, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
47 127 0.98
48 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.27
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
Found at i:220090958 original size:39 final size:39
Alignment explanation
Indices: 220090877--220091039 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
220090867 TATGGTAACC
* *
220090877 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
220090917 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
220090956 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
220090995 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
220091034 CGCACA
1 CGCACA
220091040 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:220098059 original size:40 final size:40
Alignment explanation
Indices: 220097987--220098206 Score: 345
Period size: 40 Copynumber: 5.5 Consensus size: 40
220097977 CCAAGCCAAG
* * * *
220097987 TGCCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAA
1 TGCCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAA
* *
220098026 TGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
**
220098066 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTGCAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
220098106 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
220098146 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
220098186 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
220098207 TTATCATCCA
Statistics
Matches: 168, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.08
40 154 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
Found at i:220112933 original size:3 final size:3
Alignment explanation
Indices: 220112925--220112961 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
220112915 CAGTTTTGCA
220112925 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
220112962 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:220131404 original size:12 final size:12
Alignment explanation
Indices: 220131387--220131416 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
220131377 AGTTTACGAA
220131387 TTAATTTTTTTT
1 TTAATTTTTTTT
220131399 TTAATTTTTTTT
1 TTAATTTTTTTT
*
220131411 TCAATT
1 TTAATT
220131417 CAACATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (12 bp):
TTAATTTTTTTT
Found at i:220136039 original size:46 final size:46
Alignment explanation
Indices: 220135986--220136162 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
220135976 TATTTGGGCA
220135986 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
220136032 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
220136080 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
220136126 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
220136163 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 65 0.58
47 4 0.04
48 31 0.28
49 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:220136143 original size:94 final size:94
Alignment explanation
Indices: 220135982--220136154 Score: 319
Period size: 94 Copynumber: 1.8 Consensus size: 94
220135972 GGGATATTTG
* *
220135982 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
220136047 TTGAGTCCGAGTTCGTGAGAATGTAACTA
66 TTGAGTCCGAGTTCGTGAGAATGTAACTA
*
220136076 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
220136141 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
220136155 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (94 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGAATGTAACTA
Found at i:220139131 original size:15 final size:15
Alignment explanation
Indices: 220139111--220139179 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
220139101 GTATCTTGGG
220139111 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
220139126 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
220139141 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
220139156 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
220139171 TTTCTTTAT
1 TTTCTTTAT
220139180 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:220139180 original size:30 final size:30
Alignment explanation
Indices: 220139102--220139189 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
220139092 CATAGTATCG
* * * *
220139102 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
220139132 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
220139162 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
220139190 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:220141626 original size:46 final size:46
Alignment explanation
Indices: 220141573--220141748 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
220141563 TATTTGGGCA
220141573 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
220141619 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
220141666 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
220141712 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
220141749 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:220141728 original size:93 final size:93
Alignment explanation
Indices: 220141569--220141740 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
220141559 GGGATATTTG
* *
220141569 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
220141634 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
220141662 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
220141727 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
220141741 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:220147106 original size:46 final size:46
Alignment explanation
Indices: 220146875--220147102 Score: 429
Period size: 46 Copynumber: 5.0 Consensus size: 46
220146865 AGTTAAATAT
220146875 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
220146921 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
220146967 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
220147013 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
220147059 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
220147103 AGATGTATAT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:220147160 original size:47 final size:47
Alignment explanation
Indices: 220147106--220147216 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
220147096 ATGTATGAGA
* * *
220147106 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
220147153 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
220147200 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
220147217 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:220149881 original size:40 final size:40
Alignment explanation
Indices: 220149774--220150036 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
220149764 CTCGACGATG
*
220149774 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
220149814 ATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
220149853 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
220149893 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
220149933 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
220149973 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
220150013 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
220150037 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.18
40 174 0.82
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:220150764 original size:40 final size:40
Alignment explanation
Indices: 220150700--220150800 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
220150690 AATGGTATCT
* ** * *
220150700 GGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTA-AATCC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA-CC
*
220150740 GGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAACC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
*
220150780 GGGCT-ATGTCCCGAAGACAAT
1 GGGCTAAT-TCCCGAAGGCAAT
220150801 CGAGTGAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.04
40 48 0.92
41 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
Found at i:220150816 original size:40 final size:40
Alignment explanation
Indices: 220150738--220150834 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
220150728 GTTACTAAAT
* * *
220150738 CCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
* * *
220150778 CCGGGCT-ATGTCCCGAAGACAATCGAGTGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGTGAATCACTATAA
* *
220150818 CC-GGTTAAATCCCGAAG
1 CCGGGCTAATTCCCGAAG
220150835 GTACGTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
39 13 0.28
40 34 0.72
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
Found at i:220153552 original size:46 final size:46
Alignment explanation
Indices: 220153501--220153682 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
220153491 AGTTAAATAT
220153501 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
220153547 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
220153593 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
220153639 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
220153683 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:220153740 original size:47 final size:47
Alignment explanation
Indices: 220153686--220153796 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
220153676 ATGTATGAGA
* * *
220153686 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
220153733 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
220153780 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
220153797 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:220156447 original size:40 final size:40
Alignment explanation
Indices: 220156356--220156617 Score: 420
Period size: 40 Copynumber: 6.6 Consensus size: 40
220156346 CTCGACGATG
*
220156356 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG--AT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
220156394 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
220156434 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
220156474 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
220156514 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
220156554 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
220156594 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
220156618 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
38 35 0.17
40 177 0.83
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:220157344 original size:40 final size:40
Alignment explanation
Indices: 220157279--220157415 Score: 118
Period size: 40 Copynumber: 3.5 Consensus size: 40
220157269 CGAATGGTAT
* ** *
220157279 CGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAAATC
1 CGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAAATC
* *
220157319 CGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA-C
1 CGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTA-AATC
* * * * *
220157359 CGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATATC
1 CGGGCTAAT-TCCCGAAGGCAATTGTGCGAGTCACTAAATC
* *
220157399 C-GGTTAAATCCCGAAGG
1 CGGGCTAATTCCCGAAGG
220157416 TACGTGATTC
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
39 14 0.18
40 61 0.79
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAAATC
Found at i:220160295 original size:46 final size:46
Alignment explanation
Indices: 220160070--220160291 Score: 375
Period size: 46 Copynumber: 5.0 Consensus size: 46
220160060 CAAGTTATAT
220160070 ATATATGTGTGGT--AGCCAAAT-G-TAG-GTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
220160111 ATATA-GTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
220160156 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
220160202 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
220160248 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
220160292 AGATGTATAT
Statistics
Matches: 172, Mismatches: 3, Indels: 7
0.95 0.02 0.04
Matches are distributed among these distances:
40 7 0.04
41 5 0.03
42 8 0.05
43 1 0.01
44 3 0.02
45 21 0.12
46 127 0.74
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:220160388 original size:46 final size:47
Alignment explanation
Indices: 220160295--220160404 Score: 152
Period size: 46 Copynumber: 2.4 Consensus size: 47
220160285 ATGTATGAGA
* * * *
220160295 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
220160342 TGTATATAAGTGATAAGG-CGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
220160388 TGTATA-AATGTGATAAG
1 TGTATATAA-GTGATAAG
220160405 TCCCGAGGGC
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
45 2 0.04
46 38 0.67
47 17 0.30
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:220169260 original size:26 final size:25
Alignment explanation
Indices: 220169217--220169323 Score: 178
Period size: 26 Copynumber: 4.2 Consensus size: 25
220169207 TGGTACAAAT
220169217 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
220169242 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
220169268 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
220169294 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
220169320 TGAT
1 TGAT
220169324 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
25 11 0.14
26 64 0.83
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:220170835 original size:26 final size:26
Alignment explanation
Indices: 220170806--220170858 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
220170796 TTTACAGTTT
220170806 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
220170832 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
220170858 T
1 T
220170859 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:220176855 original size:80 final size:80
Alignment explanation
Indices: 220176771--220176919 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
220176761 TATGGTAACC
* * * *
220176771 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
220176835 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
220176851 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
220176916 CCGG
66 CCGG
220176920 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:220176861 original size:40 final size:38
Alignment explanation
Indices: 220176812--220176919 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
220176802 ATCACGATTT
*
220176812 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
220176852 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
220176892 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
220176920 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:220184976 original size:40 final size:38
Alignment explanation
Indices: 220184927--220185034 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
220184917 ATCACGATTT
*
220184927 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
220184967 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
220185007 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
220185035 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:220184994 original size:80 final size:80
Alignment explanation
Indices: 220184886--220185034 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
220184876 TATGGTAACC
* * * *
220184886 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
220184950 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
220184966 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
220185031 CCGG
66 CCGG
220185035 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:220188360 original size:21 final size:21
Alignment explanation
Indices: 220188330--220188379 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
220188320 TTTCTTTAGT
*
220188330 TTTAGGGTTTAAGATTTGGGG
1 TTTAGAGTTTAAGATTTGGGG
* * *
220188351 TTTGGAGTTTAGGGTTTGGGG
1 TTTAGAGTTTAAGATTTGGGG
220188372 TTTAGAGT
1 TTTAGAGT
220188380 CATGGTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (21 bp):
TTTAGAGTTTAAGATTTGGGG
Found at i:220188365 original size:14 final size:14
Alignment explanation
Indices: 220188330--220188376 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
220188320 TTTCTTTAGT
*
220188330 TTTAGGGTTT-AAG
1 TTTAGGGTTTGGAG
*
220188343 ATTTGGGGTTTGGAG
1 -TTTAGGGTTTGGAG
*
220188358 TTTAGGGTTTGGGG
1 TTTAGGGTTTGGAG
220188372 TTTAG
1 TTTAG
220188377 AGTCATGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 26 0.93
15 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTGGAG
Done.