Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 54 of 235
Found at i:18071298 original size:150 final size:150
Alignment explanation
Indices: 18071027--18071327 Score: 602
Period size: 150 Copynumber: 2.0 Consensus size: 150
18071017 TTTTGTTTAG
18071027 TGTCACATTGTTTTGGGACCAAATGTGTTGACTTGTTTTAGTAATTGACACCATTTTGTATTAGG
1 TGTCACATTGTTTTGGGACCAAATGTGTTGACTTGTTTTAGTAATTGACACCATTTTGTATTAGG
18071092 TCATGTAAAATGGCTAATGTTGAAGGTTGTTATATGAATACAAGAGGTTCTTTCATGAATGAGTA
66 TCATGTAAAATGGCTAATGTTGAAGGTTGTTATATGAATACAAGAGGTTCTTTCATGAATGAGTA
18071157 ATTCGTTGGTTGCTTCGATA
131 ATTCGTTGGTTGCTTCGATA
18071177 TGTCACATTGTTTTGGGACCAAATGTGTTGACTTGTTTTAGTAATTGACACCATTTTGTATTAGG
1 TGTCACATTGTTTTGGGACCAAATGTGTTGACTTGTTTTAGTAATTGACACCATTTTGTATTAGG
18071242 TCATGTAAAATGGCTAATGTTGAAGGTTGTTATATGAATACAAGAGGTTCTTTCATGAATGAGTA
66 TCATGTAAAATGGCTAATGTTGAAGGTTGTTATATGAATACAAGAGGTTCTTTCATGAATGAGTA
18071307 ATTCGTTGGTTGCTTCGATA
131 ATTCGTTGGTTGCTTCGATA
18071327 T
1 T
18071328 ATATATATAT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.40
Consensus pattern (150 bp):
TGTCACATTGTTTTGGGACCAAATGTGTTGACTTGTTTTAGTAATTGACACCATTTTGTATTAGG
TCATGTAAAATGGCTAATGTTGAAGGTTGTTATATGAATACAAGAGGTTCTTTCATGAATGAGTA
ATTCGTTGGTTGCTTCGATA
Found at i:18075396 original size:40 final size:40
Alignment explanation
Indices: 18075298--18075560 Score: 334
Period size: 40 Copynumber: 6.6 Consensus size: 40
18075288 TCCTCGTTCA
* * * * *
18075298 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
18075337 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18075377 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18075417 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
18075457 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
18075497 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
18075537 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
18075561 CAGCATTCAA
Statistics
Matches: 202, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 38 0.19
40 156 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:18081137 original size:451 final size:451
Alignment explanation
Indices: 18080295--18081193 Score: 1672
Period size: 451 Copynumber: 2.0 Consensus size: 451
18080285 CGACCCAAGG
*
18080295 GATTTGACACCCGAATTACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTT
1 GATTTGACACCCGAATTACAAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTT
18080360 TCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGT
66 TCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGT
18080425 GAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAG
131 GAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAG
18080490 CAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTG
196 CAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTG
* *
18080555 CCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTTTCCCACTCTGATTTTCATT
261 CCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATT
* * *
18080620 CTGTTCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCCACTGATCCGCATTTGTAACAGGAGC
326 CTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGC
18080685 GGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTTCTGTC
391 GGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTTCTGTC
18080746 GATTTGACACCCGAATTACAAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTT
1 GATTTGACACCCGAATTACAAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTT
* *
18080811 TCACATATGTAGGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGGGT
66 TCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGT
18080876 GAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAG
131 GAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAG
*
18080941 CAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACTAGCATTG
196 CAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTG
*
18081006 CCCGTATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATT
261 CCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATT
**
18081071 CTGTCCCGACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGC
326 CTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGC
* *
18081136 GGTCAGGGAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACATTTCGTTCT
391 GGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTTCT
18081194 ATCTCGACGT
Statistics
Matches: 434, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
451 434 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (451 bp):
GATTTGACACCCGAATTACAAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTT
TCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGT
GAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAG
CAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTG
CCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATT
CTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGC
GGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTTCTGTC
Found at i:18083743 original size:39 final size:40
Alignment explanation
Indices: 18083698--18083869 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
18083688 GCTCCTCGTT
* * *
18083698 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
18083738 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
18083777 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
18083817 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
18083857 CAAATGCCTTCGG
1 CAAATGCCTTCGG
18083870 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:18083798 original size:40 final size:39
Alignment explanation
Indices: 18083700--18083922 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
18083690 TCCTCGTTCA
* * * *
18083700 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
18083739 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
18083778 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
18083818 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
18083858 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
18083899 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
18083923 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:18083882 original size:80 final size:79
Alignment explanation
Indices: 18083698--18083922 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
18083688 GCTCCTCGTT
* * * * *
18083698 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
18083762 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
18083777 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
18083842 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
18083857 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
18083921 GA
63 GA
18083923 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:18083931 original size:41 final size:41
Alignment explanation
Indices: 18083854--18083931 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
18083844 TTTGTATCTC
* * *
18083854 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
18083895 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
18083932 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:18086362 original size:11 final size:11
Alignment explanation
Indices: 18086346--18086373 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18086336 AACCGATTCA
18086346 TAATTTCACTC
1 TAATTTCACTC
18086357 TAATTTCACTC
1 TAATTTCACTC
18086368 TAATTT
1 TAATTT
18086374 AAAACTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTTCACTC
Found at i:18098389 original size:47 final size:46
Alignment explanation
Indices: 18098309--18098478 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 46
18098299 AGGGTATAAT
* *
18098309 GCCGATACCATG-CCCTAGACATGGTCTTTCACTGGCTC-TCACGTTAA
1 GCCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCATCACG-T-A
* * * *
18098356 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCATGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGTA
* *
18098402 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATCTCG-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCACGTA
**
18098447 GGCAAATG-CATGTCCCAGACAT-GTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
18098479 AGTTCTCGTC
Statistics
Matches: 103, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
44 12 0.12
45 14 0.14
46 40 0.39
47 30 0.29
48 7 0.07
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGTA
Found at i:18098520 original size:47 final size:46
Alignment explanation
Indices: 18098406--18098528 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 46
18098396 CATGTAGCCG
* * *
18098406 ATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAGGCAA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGCAA
* * * *
18098452 ATGCATGTCCCAGACATGTCTTACACTAG-TTCTCGTCTCAATGCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTT-ACATCTCAAGGCAA
*
18098498 ATGCCATGTCCCAGACATGTCTTCCACTAGC
1 ATG-CATGTCCCAGACATGTCTTACACTAGC
18098529 ACGCAAATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
45 2 0.03
46 39 0.59
47 25 0.38
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGCAA
Found at i:18105775 original size:137 final size:137
Alignment explanation
Indices: 18105623--18105896 Score: 548
Period size: 137 Copynumber: 2.0 Consensus size: 137
18105613 AATATATGCA
18105623 CATTAAATTATTAATGCTATTAATTTATTTAAAAAAATGAGATATGATTAAAACTAATCCTAATT
1 CATTAAATTATTAATGCTATTAATTTATTTAAAAAAATGAGATATGATTAAAACTAATCCTAATT
18105688 CTATGCTAAATTGATAAAAATTAATATATAAATTATAATAGATATAATTATATATTAAAGATTAT
66 CTATGCTAAATTGATAAAAATTAATATATAAATTATAATAGATATAATTATATATTAAAGATTAT
18105753 TATTATT
131 TATTATT
18105760 CATTAAATTATTAATGCTATTAATTTATTTAAAAAAATGAGATATGATTAAAACTAATCCTAATT
1 CATTAAATTATTAATGCTATTAATTTATTTAAAAAAATGAGATATGATTAAAACTAATCCTAATT
18105825 CTATGCTAAATTGATAAAAATTAATATATAAATTATAATAGATATAATTATATATTAAAGATTAT
66 CTATGCTAAATTGATAAAAATTAATATATAAATTATAATAGATATAATTATATATTAAAGATTAT
18105890 TATTATT
131 TATTATT
18105897 AAAAACTTAT
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (137 bp):
CATTAAATTATTAATGCTATTAATTTATTTAAAAAAATGAGATATGATTAAAACTAATCCTAATT
CTATGCTAAATTGATAAAAATTAATATATAAATTATAATAGATATAATTATATATTAAAGATTAT
TATTATT
Found at i:18109815 original size:16 final size:17
Alignment explanation
Indices: 18109794--18109826 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18109784 CACATTGAAC
18109794 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
18109810 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
18109827 CTTCTTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:18110639 original size:27 final size:28
Alignment explanation
Indices: 18110601--18110714 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 28
18110591 CTATTCAGAA
* *
18110601 ATCAGTGTTAAT-TGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
18110628 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCCATAGCCCAT
* *
18110655 ATTACAATATCAGAGCATACTGGGCC-TAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCATAGCCCAT
* * *
18110689 ATCAGTATCATTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCATAGCCC
18110715 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 20 0.29
28 20 0.29
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCATAGCCCAT
Found at i:18111415 original size:8 final size:8
Alignment explanation
Indices: 18111401--18111440 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
18111391 TCACAAATGC
18111401 CGGCTTTT
1 CGGCTTTT
*
18111409 TGGCTTTT
1 CGGCTTTT
*
18111417 CGACTTTT
1 CGGCTTTT
*
18111425 TGGCTTTT
1 CGGCTTTT
18111433 CGGCTTTT
1 CGGCTTTT
18111441 ACCGATCTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.55
Consensus pattern (8 bp):
CGGCTTTT
Found at i:18111425 original size:16 final size:16
Alignment explanation
Indices: 18111404--18111440 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
18111394 CAAATGCCGG
18111404 CTTTTTGGCTTTTCGA
1 CTTTTTGGCTTTTCGA
*
18111420 CTTTTTGGCTTTTCGG
1 CTTTTTGGCTTTTCGA
18111436 CTTTT
1 CTTTT
18111441 ACCGATCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.03, C:0.19, G:0.19, T:0.59
Consensus pattern (16 bp):
CTTTTTGGCTTTTCGA
Found at i:18113120 original size:15 final size:15
Alignment explanation
Indices: 18113083--18113111 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18113073 TTTTTCTATC
18113083 TAATAATAATAATTA
1 TAATAATAATAATTA
18113098 TAATAATAATAATT
1 TAATAATAATAATT
18113112 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:18131703 original size:51 final size:50
Alignment explanation
Indices: 18131575--18131769 Score: 232
Period size: 49 Copynumber: 3.9 Consensus size: 50
18131565 TAGACAAGGC
* * **
18131575 TATCTGGTCCGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAG-
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
* * *
18131624 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAAGT
* * * *
18131675 TATCGGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAA-T
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
* * * *
18131724 TATCCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
18131770 TCACAATAGA
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 78 0.63
50 7 0.06
51 38 0.31
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
Found at i:18131757 original size:100 final size:100
Alignment explanation
Indices: 18131575--18131767 Score: 305
Period size: 100 Copynumber: 1.9 Consensus size: 100
18131565 TAGACAAGGC
* * * *
18131575 TATCTGGTCCGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAGTATCTGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAGTATCCGATACACGTAG
*
18131640 TAGCCTACACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTACACTTAGTACTACACACGTGATCGAAGT
* * *
18131675 TATCGGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGATACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAGTATCCGATACACGTAG
*
18131740 TAGCCTGCACTTAGTACTACACACGTGA
66 TAGCCTACACTTAGTACTACACACGTGA
18131768 CCTCACAATA
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAGTATCCGATACACGTAG
TAGCCTACACTTAGTACTACACACGTGATCGAAGT
Found at i:18132035 original size:27 final size:27
Alignment explanation
Indices: 18131995--18132048 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18131985 AGGTACAACC
* *
18131995 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
18132022 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
18132049 TCATATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:18135381 original size:689 final size:689
Alignment explanation
Indices: 18134064--18135441 Score: 2756
Period size: 689 Copynumber: 2.0 Consensus size: 689
18134054 ATAAATAATT
18134064 CACACAGATTAAACACTCGAGCTGATTTAAACACCGTTAAATGACATTTCAAGTAATCCTTTCTT
1 CACACAGATTAAACACTCGAGCTGATTTAAACACCGTTAAATGACATTTCAAGTAATCCTTTCTT
18134129 CTAGTTACTAAACAATTCATCATGCAGTCCTTTACTATTCATTCCTTACGCTAATCAAAACCATC
66 CTAGTTACTAAACAATTCATCATGCAGTCCTTTACTATTCATTCCTTACGCTAATCAAAACCATC
18134194 TCAATTGCATTAGCTCAAGTAACCAAAATATCTAAATTGAAGACATTAACTATAATTGACTTACT
131 TCAATTGCATTAGCTCAAGTAACCAAAATATCTAAATTGAAGACATTAACTATAATTGACTTACT
18134259 TGAGAGAAGTAATCCACCATACCGATTGAAACTCGCGCTTTTATCACTTATGCCTTTACTGTTGT
196 TGAGAGAAGTAATCCACCATACCGATTGAAACTCGCGCTTTTATCACTTATGCCTTTACTGTTGT
18134324 CAAATCCTTACACGAAAATTTGAGAAATTCCAATACTAAAATCACCACATTACCAAGATCAAATC
261 CAAATCCTTACACGAAAATTTGAGAAATTCCAATACTAAAATCACCACATTACCAAGATCAAATC
18134389 GGAAGTATAGTCATGCTTGTCATGATTATCACGAGCTGAAGAACGCACTTCGAACATAAATCATA
326 GGAAGTATAGTCATGCTTGTCATGATTATCACGAGCTGAAGAACGCACTTCGAACATAAATCATA
18134454 ATTGACAAATTATGGAATAAAGATAACAAGAAAACCGAATAAAGAAATCCAAGATACGATACCAA
391 ATTGACAAATTATGGAATAAAGATAACAAGAAAACCGAATAAAGAAATCCAAGATACGATACCAA
18134519 GCCGGAAAATCGAAAACCAAACTCATAGGAAAATATAGAAGATCTCAAAAATTCCTCAGAGAAAA
456 GCCGGAAAATCGAAAACCAAACTCATAGGAAAATATAGAAGATCTCAAAAATTCCTCAGAGAAAA
18134584 TAATTCTGGAAGAAAACATCATTTAATCCCATTAGAATCAAATATAACAAGAATAATGTATCTTC
521 TAATTCTGGAAGAAAACATCATTTAATCCCATTAGAATCAAATATAACAAGAATAATGTATCTTC
18134649 CCATCCATATATATCAAATAGAGCATCAAGTAGAAGAAACAGTATCATAATATCATACATATCTT
586 CCATCCATATATATCAAATAGAGCATCAAGTAGAAGAAACAGTATCATAATATCATACATATCTT
18134714 CTCATCAATTCTTATCAGACGAAATGTAATAAAATGCCC
651 CTCATCAATTCTTATCAGACGAAATGTAATAAAATGCCC
18134753 CACACAGATTAAACACTCGAGCTGATTTAAACACCGTTAAATGACATTTCAAGTAATCCTTTCTT
1 CACACAGATTAAACACTCGAGCTGATTTAAACACCGTTAAATGACATTTCAAGTAATCCTTTCTT
18134818 CTAGTTACTAAACAATTCATCATGCAGTCCTTTACTATTCATTCCTTACGCTAATCAAAACCATC
66 CTAGTTACTAAACAATTCATCATGCAGTCCTTTACTATTCATTCCTTACGCTAATCAAAACCATC
18134883 TCAATTGCATTAGCTCAAGTAACCAAAATATCTAAATTGAAGACATTAACTATAATTGACTTACT
131 TCAATTGCATTAGCTCAAGTAACCAAAATATCTAAATTGAAGACATTAACTATAATTGACTTACT
18134948 TGAGAGAAGTAATCCACCATACCGATTGAAACTCGCGCTTTTATCACTTATGCCTTTACTGTTGT
196 TGAGAGAAGTAATCCACCATACCGATTGAAACTCGCGCTTTTATCACTTATGCCTTTACTGTTGT
18135013 CAAATCCTTACACGAAAATTTGAGAAATTCCAATACTAAAATCACCACATTACCAAGATCAAATC
261 CAAATCCTTACACGAAAATTTGAGAAATTCCAATACTAAAATCACCACATTACCAAGATCAAATC
18135078 GGAAGTATAGTCATGCTTGTCATGATTATCACGAGCTGAAGAACGCACTTCGAACATAAATCATA
326 GGAAGTATAGTCATGCTTGTCATGATTATCACGAGCTGAAGAACGCACTTCGAACATAAATCATA
18135143 ATTGACAAATTATGGAATAAAGATAACAAGAAAACCGAATAAAGAAATCCAAGATACGATACCAA
391 ATTGACAAATTATGGAATAAAGATAACAAGAAAACCGAATAAAGAAATCCAAGATACGATACCAA
18135208 GCCGGAAAATCGAAAACCAAACTCATAGGAAAATATAGAAGATCTCAAAAATTCCTCAGAGAAAA
456 GCCGGAAAATCGAAAACCAAACTCATAGGAAAATATAGAAGATCTCAAAAATTCCTCAGAGAAAA
18135273 TAATTCTGGAAGAAAACATCATTTAATCCCATTAGAATCAAATATAACAAGAATAATGTATCTTC
521 TAATTCTGGAAGAAAACATCATTTAATCCCATTAGAATCAAATATAACAAGAATAATGTATCTTC
18135338 CCATCCATATATATCAAATAGAGCATCAAGTAGAAGAAACAGTATCATAATATCATACATATCTT
586 CCATCCATATATATCAAATAGAGCATCAAGTAGAAGAAACAGTATCATAATATCATACATATCTT
18135403 CTCATCAATTCTTATCAGACGAAATGTAATAAAATGCCC
651 CTCATCAATTCTTATCAGACGAAATGTAATAAAATGCCC
18135442 GAGGAAATAC
Statistics
Matches: 689, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
689 689 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (689 bp):
CACACAGATTAAACACTCGAGCTGATTTAAACACCGTTAAATGACATTTCAAGTAATCCTTTCTT
CTAGTTACTAAACAATTCATCATGCAGTCCTTTACTATTCATTCCTTACGCTAATCAAAACCATC
TCAATTGCATTAGCTCAAGTAACCAAAATATCTAAATTGAAGACATTAACTATAATTGACTTACT
TGAGAGAAGTAATCCACCATACCGATTGAAACTCGCGCTTTTATCACTTATGCCTTTACTGTTGT
CAAATCCTTACACGAAAATTTGAGAAATTCCAATACTAAAATCACCACATTACCAAGATCAAATC
GGAAGTATAGTCATGCTTGTCATGATTATCACGAGCTGAAGAACGCACTTCGAACATAAATCATA
ATTGACAAATTATGGAATAAAGATAACAAGAAAACCGAATAAAGAAATCCAAGATACGATACCAA
GCCGGAAAATCGAAAACCAAACTCATAGGAAAATATAGAAGATCTCAAAAATTCCTCAGAGAAAA
TAATTCTGGAAGAAAACATCATTTAATCCCATTAGAATCAAATATAACAAGAATAATGTATCTTC
CCATCCATATATATCAAATAGAGCATCAAGTAGAAGAAACAGTATCATAATATCATACATATCTT
CTCATCAATTCTTATCAGACGAAATGTAATAAAATGCCC
Found at i:18139245 original size:20 final size:20
Alignment explanation
Indices: 18139179--18139245 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
18139169 ATTTTAGTAA
*
18139179 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
18139199 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
18139219 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
18139239 ACATGAT
1 ACATGAT
18139246 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:18139326 original size:23 final size:23
Alignment explanation
Indices: 18139296--18139368 Score: 110
Period size: 23 Copynumber: 3.1 Consensus size: 23
18139286 AGGAAGTGCA
*
18139296 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCTAGTTATT
18139319 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCTAGTTATT
* *
18139342 AAAAGAGCTTTTGCCCTAGTTATT
1 -AAAGGGCTTATGCCCTAGTTATT
18139366 AAA
1 AAA
18139369 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 25 0.54
24 21 0.46
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (23 bp):
AAAGGGCTTATGCCCTAGTTATT
Found at i:18139351 original size:24 final size:24
Alignment explanation
Indices: 18139295--18139372 Score: 113
Period size: 24 Copynumber: 3.3 Consensus size: 24
18139285 GAGGAAGTGC
* *
18139295 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGAGCTTATGCCCTAGTTATT
*
18139319 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGAGCTTATGCCCTAGTTATT
*
18139342 AAAAGAGCTTTTGCCCTAGTTATT
1 AAAAGAGCTTATGCCCTAGTTATT
18139366 AAAAGAG
1 AAAAGAG
18139373 GCTAGGCCTC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
23 22 0.44
24 28 0.56
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (24 bp):
AAAAGAGCTTATGCCCTAGTTATT
Found at i:18141356 original size:24 final size:24
Alignment explanation
Indices: 18141327--18141378 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
18141317 TCGTGAAAGG
* *
18141327 TATGTATGTATGTGCTTT-TGTGTA
1 TATGTATGGATGTG-TTTACGTGTA
18141351 TATGTATGGATGTGTTTACGTGTA
1 TATGTATGGATGTGTTTACGTGTA
18141375 TATG
1 TATG
18141379 GGTATAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.19, C:0.04, G:0.27, T:0.50
Consensus pattern (24 bp):
TATGTATGGATGTGTTTACGTGTA
Found at i:18144931 original size:40 final size:40
Alignment explanation
Indices: 18144837--18144981 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
18144827 TACTCGAATG
* *
18144837 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAACCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
18144878 ACATCCAGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
18144918 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
18144958 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
18144982 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:18146936 original size:28 final size:28
Alignment explanation
Indices: 18146872--18146936 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
18146862 TCAGTGTACG
*
18146872 AAATATTGAGAATGACACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* * *
18146900 AGATCTTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
18146928 AAATATTGA
1 AAATATTGA
18146937 ATGATTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:18147108 original size:40 final size:40
Alignment explanation
Indices: 18147009--18147125 Score: 168
Period size: 39 Copynumber: 3.0 Consensus size: 40
18146999 GACTTTATAA
* *
18147009 TGGTGTTATATCCGGGC-T-AAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTTAAAGTCCCGCAGGC-TTTGTGC
18147048 TGGTGTTATATCCGGG-TTAAAGTCCCGCAGGCTTTGTGC
1 TGGTGTTATATCCGGGCTTAAAGTCCCGCAGGCTTTGTGC
* *
18147087 TGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTG
1 TGGTGTTATATCCGGGCTTAAAGTCCCGCAGGCTTTGTG
18147126 GTGGAGATTG
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
39 38 0.54
40 33 0.46
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.32
Consensus pattern (40 bp):
TGGTGTTATATCCGGGCTTAAAGTCCCGCAGGCTTTGTGC
Found at i:18147247 original size:39 final size:40
Alignment explanation
Indices: 18147188--18147335 Score: 203
Period size: 39 Copynumber: 3.8 Consensus size: 40
18147178 AGTAAGATTA
* *
18147188 TGCTGGTGTTATATCTGGGCT-AAGTCCCAAAGGCATTCG
1 TGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTCG
*
18147227 TGCTGGTGTTATATCCGGGCT-AAGCCCCGAAGGCATTCG
1 TGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTCG
* * *
18147266 TGCTGGTGTTATATCTGGGCTAAAGTCCCGCAGGC-TTTG
1 TGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTCG
*
18147305 TGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 TGCTGGTGTTATATCCGGGC-TAAAGTCCCG
18147336 CATGCTTTGT
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 77 0.79
40 21 0.21
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.30
Consensus pattern (40 bp):
TGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTCG
Found at i:18147392 original size:221 final size:221
Alignment explanation
Indices: 18147009--18147410 Score: 777
Period size: 221 Copynumber: 1.8 Consensus size: 221
18146999 GACTTTATAA
* *
18147009 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGTTAAAGTCCC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCC
18147074 GCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGAGATTGGAT
66 GCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGAGATTGGAT
18147139 TTGGGTTTTAAACCTAGCAGACTTAATGCCGATGATTCGAGTAAGATTATGCTGGTGTTATATCT
131 TTGGGTTTTAAACCTAGCAGACTTAATGCCGATGATTCGAGTAAGATTATGCTGGTGTTATATCT
18147204 GGGCTAAGTCCCAAAGGCATTCGTGC
196 GGGCTAAGTCCCAAAGGCATTCGTGC
*
18147230 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCTGGGCTAAAGTCCC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCC
18147295 GCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGAGATTGGAT
66 GCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGAGATTGGAT
18147360 TTGGGTTTTAAACCTAGCAGACTTAATGCCGATGATTCGAGTAAGATTATG
131 TTGGGTTTTAAACCTAGCAGACTTAATGCCGATGATTCGAGTAAGATTATG
18147411 ATTTCGAATG
Statistics
Matches: 178, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
221 178 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (221 bp):
TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCC
GCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGAGATTGGAT
TTGGGTTTTAAACCTAGCAGACTTAATGCCGATGATTCGAGTAAGATTATGCTGGTGTTATATCT
GGGCTAAGTCCCAAAGGCATTCGTGC
Found at i:18153511 original size:28 final size:28
Alignment explanation
Indices: 18153477--18153541 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
18153467 TCAGTGTACG
*
18153477 AAATATTGAGAATGGCACTTAATGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
* * *
18153505 AGATATTAAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
18153533 AAATATTGA
1 AAATATTGA
18153542 ATGATTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:18153668 original size:39 final size:39
Alignment explanation
Indices: 18153622--18153875 Score: 384
Period size: 39 Copynumber: 6.5 Consensus size: 39
18153612 AATGGTGCTC
*
18153622 TATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
*
18153661 TATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
**
18153700 TATTTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
*
18153739 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
*
18153778 TATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
* * * *
18153817 TATCCGGGTTAAAGTCCCGCAGGC-TTTGTGCTGGTATTA
1 TATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTGTTA
18153856 TATCCGGGCTTAAAGTCCCG
1 TATCCGGGC-T-AAGTCCCG
18153876 CATGCTTTGT
Statistics
Matches: 197, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 176 0.89
40 21 0.11
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
Found at i:18156563 original size:40 final size:40
Alignment explanation
Indices: 18156508--18156593 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
18156498 ACCACAATTG
*
18156508 GGCTATGTAAGGCACTTAGTGTGCGATTCAAGATAGCTTT
1 GGCTATGTAAGGCACTTAGTGTGCGATTCAAGATAGCTTC
*
18156548 GGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGCTTC
1 GGCTATGTAAGGCACTTAGTGTGCGATTCAAGATAGCTTC
18156588 GGCTAT
1 GGCTAT
18156594 ATATTGGAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (40 bp):
GGCTATGTAAGGCACTTAGTGTGCGATTCAAGATAGCTTC
Found at i:18158332 original size:24 final size:24
Alignment explanation
Indices: 18158300--18158347 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18158290 AAGACATGGC
18158300 ATCGGCATTGATTAAGGACTCCAT
1 ATCGGCATTGATTAAGGACTCCAT
18158324 ATCGGCATTGATTAAGGACTCCAT
1 ATCGGCATTGATTAAGGACTCCAT
18158348 GTACGACCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATCGGCATTGATTAAGGACTCCAT
Found at i:18158566 original size:55 final size:54
Alignment explanation
Indices: 18158440--18158639 Score: 185
Period size: 54 Copynumber: 3.7 Consensus size: 54
18158430 ATAAGGATAT
* ** *
18158440 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATCGGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGAAAC
* **
18158494 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC-AAGGAAAC
* * * *
18158549 CATTTAAGACCATGCCAAGACAT-GCAATT-AGTGAGTTC-ATAAGGCAGGGATAC
1 CATGTAAGACCATGCCAAGACATGGC-ATTGA-TAAGTTCTATAAGGCAAGGAAAC
* * * *
18158602 CACGTAAGACTATGTCAAGACATTGCAATTG-TAAGTTC
1 CATGTAAGACCATGCCAAGACATGGC-ATTGATAAGTTC
18158640 AAAAAGGAAA
Statistics
Matches: 124, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
52 3 0.02
53 34 0.27
54 45 0.36
55 38 0.31
56 4 0.03
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGAAAC
Found at i:18175014 original size:40 final size:40
Alignment explanation
Indices: 18174940--18175150 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
18174930 TCTTCGGAAT
** * *
18174940 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * * *
18174978 TTAGCCCGGATATGGTCACTGGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
18175018 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCAGATC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
18175058 TTAGCCCGGATATAG-CAACTAGCACAAATGCCTACGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
18175098 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
18175138 TTAGCCCGGATAT
1 TTAGCCCGGATAT
18175151 CATTCGAATA
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 124 0.86
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:18177458 original size:40 final size:40
Alignment explanation
Indices: 18177399--18177570 Score: 247
Period size: 40 Copynumber: 4.3 Consensus size: 40
18177389 CATTTGAATG
*
18177399 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* * * *
18177439 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
*
18177479 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* * * *
18177519 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
18177559 ATATCC-GGCTAA
1 ATATCCGGGCTAA
18177571 ATTCCGAAGA
Statistics
Matches: 116, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 6 0.05
40 110 0.95
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
Found at i:18177566 original size:80 final size:80
Alignment explanation
Indices: 18177399--18177551 Score: 306
Period size: 80 Copynumber: 1.9 Consensus size: 80
18177389 CATTTGAATG
18177399 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
18177464 TTTGTGCTAGCGACT
66 TTTGTGCTAGCGACT
18177479 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
18177544 TTTGTGCT
66 TTTGTGCT
18177552 TGTGGTTATA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCTAGCGACT
Found at i:18184415 original size:48 final size:48
Alignment explanation
Indices: 18184357--18184805 Score: 711
Period size: 48 Copynumber: 9.3 Consensus size: 48
18184347 ATATACACAC
* * *
18184357 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
* * *
18184405 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
*
18184453 TTCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCAC--ATATACAT
* * * *
18184503 TTCTCATACATATTTCACATTAGACATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
*
18184551 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
*
18184599 ATCTCATATATTTTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
*
18184647 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
*
18184695 ATCTCATATATTTTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
* *
18184743 ATCTCATACT-TATTTCACATTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATA-TATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
18184791 ATCTCATATATATTT
1 ATCTCATATATATTT
18184806 ATCTTGTACA
Statistics
Matches: 373, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 1 0.00
48 326 0.87
49 1 0.00
50 45 0.12
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.37
Consensus pattern (48 bp):
ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
Found at i:18189828 original size:79 final size:79
Alignment explanation
Indices: 18189697--18189854 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
18189687 TTATTATCTA
18189697 CCCTAAAAATAAAAAGGTTTGTTTTAATTAACTAATTATTTAAACTAAGAACGCACAGAGAAAAG
1 CCCTAAAAATAAAAAGGTTTGTTTTAATTAACTAATTATTTAAACTAAGAACGCACAGAGAAAAG
18189762 AATTGGGGAATTAC
66 AATTGGGGAATTAC
18189776 CCCTAAAAATAAAAAGGTTTGTTTTAATTAACTAATTATTTAAACTAAGAACGCACAGAGAAAAG
1 CCCTAAAAATAAAAAGGTTTGTTTTAATTAACTAATTATTTAAACTAAGAACGCACAGAGAAAAG
18189841 AATTGGGGAATTAC
66 AATTGGGGAATTAC
18189855 TTTTGGGAAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (79 bp):
CCCTAAAAATAAAAAGGTTTGTTTTAATTAACTAATTATTTAAACTAAGAACGCACAGAGAAAAG
AATTGGGGAATTAC
Found at i:18192771 original size:13 final size:13
Alignment explanation
Indices: 18192755--18192787 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18192745 TTTAATTAAA
*
18192755 TTAGTTAATTAGT
1 TTAGATAATTAGT
18192768 TTAGATAATTAGT
1 TTAGATAATTAGT
18192781 TTA-ATAA
1 TTAGATAA
18192788 ACAAACCATT
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:18197969 original size:28 final size:28
Alignment explanation
Indices: 18197906--18198056 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
18197896 ATATTAAGTC
*
18197906 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
18197933 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
18197961 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
18197989 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
18198017 CGCACACTTAGTCCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
18198046 CGCACACTTAG
1 CGCACACTTAG
18198057 CGCCAATCTC
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 22 0.20
28 74 0.66
29 16 0.14
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:18205612 original size:169 final size:169
Alignment explanation
Indices: 18205333--18205669 Score: 674
Period size: 169 Copynumber: 2.0 Consensus size: 169
18205323 AGTTGAGTCC
18205333 GAGTTCACTTAGGGGCTGGTTACATGATTTCTTAATTACATATGAGGCACTTATGTGCAAATTAT
1 GAGTTCACTTAGGGGCTGGTTACATGATTTCTTAATTACATATGAGGCACTTATGTGCAAATTAT
18205398 CCGTGTATCTGAGTTTTATTTCGATGTGTTCAACGGGTAAAATTCTACTCAAATGAAAGAACACT
66 CCGTGTATCTGAGTTTTATTTCGATGTGTTCAACGGGTAAAATTCTACTCAAATGAAAGAACACT
18205463 TAAGATGCAAGCGACGTTTTGGTAAGTGTTGTGAAATGT
131 TAAGATGCAAGCGACGTTTTGGTAAGTGTTGTGAAATGT
18205502 GAGTTCACTTAGGGGCTGGTTACATGATTTCTTAATTACATATGAGGCACTTATGTGCAAATTAT
1 GAGTTCACTTAGGGGCTGGTTACATGATTTCTTAATTACATATGAGGCACTTATGTGCAAATTAT
18205567 CCGTGTATCTGAGTTTTATTTCGATGTGTTCAACGGGTAAAATTCTACTCAAATGAAAGAACACT
66 CCGTGTATCTGAGTTTTATTTCGATGTGTTCAACGGGTAAAATTCTACTCAAATGAAAGAACACT
18205632 TAAGATGCAAGCGACGTTTTGGTAAGTGTTGTGAAATG
131 TAAGATGCAAGCGACGTTTTGGTAAGTGTTGTGAAATG
18205670 GACACTTTGG
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 168 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (169 bp):
GAGTTCACTTAGGGGCTGGTTACATGATTTCTTAATTACATATGAGGCACTTATGTGCAAATTAT
CCGTGTATCTGAGTTTTATTTCGATGTGTTCAACGGGTAAAATTCTACTCAAATGAAAGAACACT
TAAGATGCAAGCGACGTTTTGGTAAGTGTTGTGAAATGT
Found at i:18208928 original size:8 final size:7
Alignment explanation
Indices: 18208915--18208994 Score: 78
Period size: 8 Copynumber: 11.3 Consensus size: 7
18208905 CATTGAATCC
18208915 TTTTATCT
1 TTTTAT-T
18208923 TTTTATT
1 TTTTATT
*
18208930 CTTATATT
1 -TTTTATT
18208938 TTTTATT
1 TTTTATT
18208945 TTTTATT
1 TTTTATT
18208952 ATTTTATT
1 -TTTTATT
18208960 TATTT-TAT
1 T-TTTAT-T
18208968 TTTTA-T
1 TTTTATT
18208974 TTTTA-T
1 TTTTATT
18208980 TTTTA-T
1 TTTTATT
18208986 TTTTATT
1 TTTTATT
18208993 TT
1 TT
18208995 CATTTCAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 13
0.81 0.03 0.16
Matches are distributed among these distances:
6 18 0.28
7 22 0.34
8 24 0.38
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTATT
Found at i:18208946 original size:6 final size:6
Alignment explanation
Indices: 18208922--18208999 Score: 79
Period size: 6 Copynumber: 12.5 Consensus size: 6
18208912 TCCTTTTATC
*
18208922 TTTTTA TTCTTATA TTTTTTA TTTTTTA TTATTT- TATTTA -TTTTA TTTTTA
1 TTTTTA TT-TT-TA -TTTTTA -TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA
*
18208973 TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
18209000 CAATTTTATT
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
5 7 0.11
6 36 0.57
7 14 0.22
8 4 0.06
9 2 0.03
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:18208949 original size:30 final size:30
Alignment explanation
Indices: 18208915--18209026 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 30
18208905 CATTGAATCC
*
18208915 TTTTATCT-TTTTA-TTCTTATATTTTTTATT
1 TTTTAT-TATTTTATTTATTATA-TTTTTATT
*
18208945 TTTTATTATTTTATTTATTTTATTTTTATTT
1 TTTTATTATTTTATTTATTATATTTTTA-TT
* *
18208976 TTATTTTTATTTTTATTTTCATT-TCAATTTTATT
1 TT-TTATTA-TTTTA-TTT-ATTAT-ATTTTTATT
18209010 ATTTTATTATTTTATTT
1 -TTTTATTATTTTATTT
18209027 TGAAAGACAT
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
29 1 0.01
30 17 0.25
31 10 0.15
32 8 0.12
33 10 0.15
34 11 0.16
35 11 0.16
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (30 bp):
TTTTATTATTTTATTTATTATATTTTTATT
Found at i:18208958 original size:5 final size:5
Alignment explanation
Indices: 18208923--18209027 Score: 74
Period size: 6 Copynumber: 19.8 Consensus size: 5
18208913 CCTTTTATCT
*
18208923 TTTTA TTCTTA TATT- TTTTA TTTT- TTATTA TTTTA -TTTA TTTTA TTTTTA
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA -TTTTA
*
18208973 TTTTTA TTTTTA TTTTTA TTTTCA TTTCAA TTTTA TTATT- TTATTA TTTTA
1 -TTTTA -TTTTA -TTTTA TTTT-A TTT-TA TTTTA TT-TTA TT-TTA TTTTA
18209024 TTTT
1 TTTT
18209028 GAAAGACATA
Statistics
Matches: 86, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
4 9 0.10
5 36 0.42
6 41 0.48
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:18211952 original size:13 final size:13
Alignment explanation
Indices: 18211936--18211968 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18211926 TTTAATTAAA
*
18211936 TTAGTTAATTAGT
1 TTAGATAATTAGT
18211949 TTAGATAATTAGT
1 TTAGATAATTAGT
18211962 TTA-ATAA
1 TTAGATAA
18211969 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:18212553 original size:44 final size:44
Alignment explanation
Indices: 18212505--18212593 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
18212495 GCTAATAAAG
18212505 TATAAAAAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
1 TATAAAAAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
*
18212549 TATAAACAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
1 TATAAAAAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
18212593 T
1 T
18212594 CAGCTTGGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.35
Consensus pattern (44 bp):
TATAAAAAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
Found at i:18212766 original size:60 final size:60
Alignment explanation
Indices: 18212695--18212817 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 60
18212685 GATAATTAGT
* *
18212695 TGATTATTTGAGAAGTACAGAGATGGATGATAACTTGATTTAGTTATACTAGTAAGAGTG
1 TGATTATTTGAGAAGTAAAGAGATGGATGATAACTTGATTTAGTTATACTAGTAAGAGCG
*
18212755 TGATTATTTGAGAAGTAAAGAGATGGATGATAACTTGATTTAGTTATACTAGTAGGAGCG
1 TGATTATTTGAGAAGTAAAGAGATGGATGATAACTTGATTTAGTTATACTAGTAAGAGCG
18212815 TGA
1 TGA
18212818 AATGTTATGT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (60 bp):
TGATTATTTGAGAAGTAAAGAGATGGATGATAACTTGATTTAGTTATACTAGTAAGAGCG
Found at i:18248644 original size:46 final size:46
Alignment explanation
Indices: 18248482--18248654 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 46
18248472 AACCCGCCCC
* * *
18248482 TAAGTGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* * * *
18248528 TAAGTGAACTCGGACTCAACTCAATGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * * *
18248576 TTA-CGAACTTGGGCTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
18248621 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18248655 TGCTCAACCA
Statistics
Matches: 98, Mismatches: 19, Indels: 20
0.72 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 54 0.55
47 25 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:18249106 original size:30 final size:30
Alignment explanation
Indices: 18249072--18249131 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18249062 ATTTAATATG
*
18249072 AACTTTGGAAAAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
18249102 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
18249132 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:18256196 original size:93 final size:93
Alignment explanation
Indices: 18256068--18256238 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
18256058 GCCCCTAAGT
*
18256068 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
18256133 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
18256161 GAACTTGGGCTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
18256225 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
18256239 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:18256226 original size:46 final size:46
Alignment explanation
Indices: 18256063--18256235 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
18256053 AACCCGCCCC
* *
18256063 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* * * *
18256109 TAAGTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * * *
18256157 TCA-CGAACTTGGGCTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
18256202 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18256236 TGCTCAACCA
Statistics
Matches: 99, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 55 0.56
47 25 0.25
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:18256692 original size:30 final size:30
Alignment explanation
Indices: 18256658--18256717 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18256648 ATTTAATACG
18256658 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
18256688 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
18256718 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:18275890 original size:42 final size:42
Alignment explanation
Indices: 18275797--18275941 Score: 159
Period size: 43 Copynumber: 3.4 Consensus size: 42
18275787 AACATCTGAT
* * *
18275797 ACATGGTCTTACATGTAATCAAATATCGATG-CCACTGTCCCAG
1 ACATGGTCTTACACGAAATCATATATCGATGCCCA-TGT-CCAG
* *
18275840 GCAAGGTCTTACACGAAATCATATA-CGATGCCCATGTCCTAG
1 ACATGGTCTTACACGAAATCATATATCGATGCCCATGTCC-AG
* *
18275882 ACATGGTCTTACACGTAAATCATATATTGATGCCAATGTTCCAG
1 ACATGGTCTTACACG-AAATCATATATCGATGCCCATG-TCCAG
*
18275926 ACATGCTCTTACACGA
1 ACATGGTCTTACACGA
18275942 TAACACATAT
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
41 2 0.02
42 23 0.26
43 34 0.39
44 25 0.29
45 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
ACATGGTCTTACACGAAATCATATATCGATGCCCATGTCCAG
Found at i:18279196 original size:28 final size:27
Alignment explanation
Indices: 18279133--18279284 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
18279123 ATATTAGGTC
* * *
18279133 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
18279160 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
18279188 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
18279215 CGCACACTTAGTGCTAAATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
18279243 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
18279270 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18279285 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:18279217 original size:55 final size:55
Alignment explanation
Indices: 18279133--18279284 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
18279123 ATATTAGGTC
* * * *
18279133 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTAAATAATCAAACT
*
18279188 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTAAATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTAAATAATCAAACT
*
18279243 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
18279285 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTAAATAATCAAACT
Found at i:18292327 original size:20 final size:21
Alignment explanation
Indices: 18292304--18292343 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18292294 CTCATGAAAC
*
18292304 AGGGC-ACACGCCCATGTGGA
1 AGGGCAACACACCCATGTGGA
*
18292324 AGGGCAACACACCCGTGTGG
1 AGGGCAACACACCCATGTGG
18292344 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.30, G:0.35, T:0.10
Consensus pattern (21 bp):
AGGGCAACACACCCATGTGGA
Found at i:18307336 original size:13 final size:13
Alignment explanation
Indices: 18307318--18307353 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
18307308 CCGACTACAC
18307318 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
18307331 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
18307344 GCCCGTGTCC
1 GCCCGTGTCC
18307354 CTCACACGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.00, C:0.42, G:0.31, T:0.28
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:18309122 original size:93 final size:93
Alignment explanation
Indices: 18309010--18309180 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
18309000 ACCCCTAAGT
* * *
18309010 GAACTCGGACTCAACTCAACGAGATCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
18309075 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
18309103 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
18309168 CGAGTTCGGATGC
66 CGAGTTCGGATGC
18309181 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:18309177 original size:46 final size:46
Alignment explanation
Indices: 18309005--18309177 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
18308995 AACCCACCCC
* * *
18309005 TAAGTGAACTCGGACTCAACTCAACGAGATCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
18309051 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
18309099 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
18309144 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18309178 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:18316172 original size:93 final size:93
Alignment explanation
Indices: 18316059--18316228 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
18316049 CCCCTAAGTG
* * *
18316059 AACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
18316124 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
*
18316152 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
18316217 GAGTTCGGATGC
66 GAGTTCGGATGC
18316229 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:18316225 original size:46 final size:46
Alignment explanation
Indices: 18316053--18316225 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
18316043 AACCCGCCCC
* * * *
18316053 TAAGTGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
18316099 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATTTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCA-TCCA
*
18316150 -CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
18316192 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18316226 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 1 0.01
46 59 0.56
47 28 0.26
49 1 0.01
50 3 0.03
51 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:18320437 original size:29 final size:28
Alignment explanation
Indices: 18320391--18320447 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
18320381 GTGAAATAAA
18320391 CTGATTTGGATTCAGGCCATGCATATCAG
1 CTGATTTGGATTCAGGCCATG-ATATCAG
* **
18320420 CTGATTTGGCTTTTGGCCATGATATCAG
1 CTGATTTGGATTCAGGCCATGATATCAG
18320448 TATTTCAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (28 bp):
CTGATTTGGATTCAGGCCATGATATCAG
Found at i:18323425 original size:28 final size:28
Alignment explanation
Indices: 18323385--18323454 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
18323375 GATGAGATTG
18323385 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
18323413 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
18323441 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
18323455 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:18336045 original size:29 final size:27
Alignment explanation
Indices: 18335959--18336065 Score: 117
Period size: 29 Copynumber: 3.8 Consensus size: 27
18335949 TACATACGTG
18335959 CATATGGCCCACTAGGCCCAATCTTATT
1 CATATGGCCCACTAGGCCCAATC-TATT
* *
18335987 CAAATGGCCCATCT-GGCCCAGCTCATATT
1 CATATGGCCCA-CTAGGCCCA-ATC-TATT
*
18336016 CTTATGGCCCACTAGGCCCAATTCTCATT
1 CATATGGCCCACTAGGCCCAA-TCT-ATT
*
18336045 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
18336066 ATCATATTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (27 bp):
CATATGGCCCACTAGGCCCAATCTATT
Found at i:18336064 original size:58 final size:57
Alignment explanation
Indices: 18335961--18336073 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 57
18335951 CATACGTGCA
* **
18335961 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAGCTCATATTCT
1 TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCT
*
18336018 TATGGCCCACTAGGCCCAATTCTCATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCTCATTCAAATGGCCCATCT-GGCCCAAATCATATT
18336074 ATATTCATGC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 20 0.40
58 30 0.60
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCT
Found at i:18337567 original size:16 final size:16
Alignment explanation
Indices: 18337546--18337578 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18337536 AAAAATTCAA
*
18337546 GATTTCGAGATTTTTG
1 GATTTCAAGATTTTTG
18337562 GATTTCAAGATTTTTG
1 GATTTCAAGATTTTTG
18337578 G
1 G
18337579 GGCGTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.48
Consensus pattern (16 bp):
GATTTCAAGATTTTTG
Found at i:18338804 original size:15 final size:15
Alignment explanation
Indices: 18338776--18338822 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
18338766 TACTATTAAT
18338776 TTATTAAGATAAAAAC
1 TTATTAA-ATAAAAAC
18338792 TTATTAAATAAAATA-
1 TTATTAAATAAAA-AC
* *
18338807 TGATTAAATTAAAAC
1 TTATTAAATAAAAAC
18338822 T
1 T
18338823 AATCCTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 1 0.04
15 18 0.67
16 8 0.30
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (15 bp):
TTATTAAATAAAAAC
Found at i:18339000 original size:30 final size:30
Alignment explanation
Indices: 18338942--18339000 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
18338932 GTCTTTTGAA
* * *
18338942 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAATTTTT
18338972 AATATTTACAAAAAGA-ACAACCACATTTT
1 AATATTTACAAAAAGAGACAACCA-ATTTT
18339001 GGAAATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAATTTTT
Found at i:18340881 original size:40 final size:40
Alignment explanation
Indices: 18340816--18340903 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
18340806 GTGTAATAAA
* *
18340816 AATAAAGTCCAACAAATCAATAATTAACTAAGATGAGCTT
1 AATAAAGTCCAACAAATCAAAAATTAACTAAGATAAGCTT
* *
18340856 AATAAAGTCCAACAACTCAAAAATTAACTAAGATAAGTTT
1 AATAAAGTCCAACAAATCAAAAATTAACTAAGATAAGCTT
18340896 AATAAAGT
1 AATAAAGT
18340904 TCAGCACAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (40 bp):
AATAAAGTCCAACAAATCAAAAATTAACTAAGATAAGCTT
Found at i:18345792 original size:40 final size:40
Alignment explanation
Indices: 18345737--18345914 Score: 268
Period size: 40 Copynumber: 4.5 Consensus size: 40
18345727 CGGATGATAG
*
18345737 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
*
18345777 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
18345817 CCGGGCTAAGTCCCGAGGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
18345857 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
18345897 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
18345915 TACTTGGCTT
Statistics
Matches: 129, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 14 0.11
40 115 0.89
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:18355050 original size:40 final size:40
Alignment explanation
Indices: 18354995--18355201 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
18354985 NNNNNNNNNN
* * *
18354995 TCCCGAAGGCATTTGTGCTAGTGACTAGATCCGGGCTAAG
1 TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG
* * * * *
18355035 TCCCGAAGGCATTTGTGCGATTTATTACATTCGGGGTAAG
1 TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG
* * *
18355075 TCCCGAGGGCATTTGTACGAGCTACTATATCCGGGCTAAG
1 TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG
* *
18355115 TCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATG
1 TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG
* * *
18355155 TCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-GGTTAAA
1 TCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAG
18355193 TCCCGAAGG
1 TCCCGAAGG
18355202 TACTTGGCTT
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
38 15 0.11
39 15 0.11
40 111 0.79
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG
Found at i:18361545 original size:6 final size:6
Alignment explanation
Indices: 18361534--18361581 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
18361524 TTTGAGTCCC
* * *
18361534 TTTTAT TTTTAT TTTTAT TTTCAA TTTTAT TTTTCTT TATTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT T-TTTAT TTTT
18361582 GAAGACTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 27 0.79
7 4 0.12
8 3 0.09
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:18362569 original size:4 final size:4
Alignment explanation
Indices: 18362560--18362589 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
18362550 TTCTTTAAAA
18362560 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
18362590 GTTTATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:18364456 original size:40 final size:40
Alignment explanation
Indices: 18364387--18364571 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
18364377 AAACCAAGTA
* * *
18364387 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
18364426 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACAA-G
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA-AATG
* * * * * *
18364466 CCTTCGGGTCTTAGCCCAGAAATAGTCACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
18364506 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
18364549 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
18364572 CATCCGAATA
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 14 0.12
40 71 0.59
41 2 0.02
43 33 0.28
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:18371558 original size:40 final size:40
Alignment explanation
Indices: 18371497--18371721 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
18371487 AAATCAAGTA
* * *
18371497 CCTTAGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * * *
18371536 CCTTCGGGACTTAACCCAGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
18371576 CCTTCGGGTCTTAGCCCGGAAATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
*
18371616 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATG
* *
18371659 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
18371699 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
18371722 CAGCCGAATA
Statistics
Matches: 159, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 12 0.08
40 110 0.69
42 1 0.01
43 36 0.23
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:18371675 original size:83 final size:80
Alignment explanation
Indices: 18371522--18371721 Score: 283
Period size: 83 Copynumber: 2.5 Consensus size: 80
18371512 CGGATATCGC
* * * * * *
18371522 AACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAGTAACTCGCACACATGCCTTCGGGTCT
1 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACT
18371587 TAGCCCGGAAATAGT
66 TAGCCCGGAAATAGT
* *
18371602 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGG
1 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG-AA--ACTCGCACAAATGCCTTCGGG
*
18371667 ACTTAGCCCGGATATAGT
63 ACTTAGCCCGGAAATAGT
*
18371685 AACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
18371722 CAGCCGAATA
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
80 34 0.32
81 1 0.01
83 70 0.67
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACT
TAGCCCGGAAATAGT
Found at i:18374141 original size:42 final size:42
Alignment explanation
Indices: 18374086--18374172 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
18374076 TGGTAATCAA
*
18374086 TGTAAATTCTCCATCCCGTAACCATTCTAGTCGATATCAACT
1 TGTAAATTATCCATCCCGTAACCATTCTAGTCGATATCAACT
18374128 TGTAAATTATCCATCCCGTAACCATTCTAGTCGATATCAACT
1 TGTAAATTATCCATCCCGTAACCATTCTAGTCGATATCAACT
18374170 TGT
1 TGT
18374173 TATTCCCATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (42 bp):
TGTAAATTATCCATCCCGTAACCATTCTAGTCGATATCAACT
Found at i:18376227 original size:16 final size:16
Alignment explanation
Indices: 18376203--18376233 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18376193 TTTCTTCACT
18376203 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
18376219 TACTTACTTACTTAA
1 TACTCACTTACTTAA
18376234 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:18376239 original size:20 final size:20
Alignment explanation
Indices: 18376200--18376239 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18376190 AAATTTCTTC
* *
18376200 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
18376220 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
18376240 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:18376554 original size:53 final size:54
Alignment explanation
Indices: 18376426--18376644 Score: 211
Period size: 53 Copynumber: 4.1 Consensus size: 54
18376416 CGCGGGTATG
* * * *
18376426 TTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAAC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAAC
* * *
18376475 TTACCATTGCCATGTCTCGATATGGTCTTACATGGTATCCTTGCCTTATG-AAC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAAC
* * * * *
18376528 TCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAAC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAAC
* * * *
18376583 TTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAGACC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA-AAC
18376637 TTACCAAT
1 TTACCAAT
18376645 TTAATCATAA
Statistics
Matches: 138, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
49 35 0.25
50 1 0.01
52 2 0.01
53 45 0.33
54 12 0.09
55 41 0.30
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
TTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAAC
Found at i:18379280 original size:19 final size:20
Alignment explanation
Indices: 18379256--18379293 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18379246 GGTACCACCA
18379256 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
18379275 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
18379294 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:18384137 original size:42 final size:42
Alignment explanation
Indices: 18384068--18384189 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
18384058 TAGGGTTAGT
*
18384068 TGAGATTACGTGTAAAACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
18384110 TGAGATTTCGTGTAAGACCACAGCTGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
** * *
18384153 TGAGATCCCATGTAAGACCATATTTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
18384190 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:18384300 original size:20 final size:20
Alignment explanation
Indices: 18384272--18384318 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
18384262 CGACAATGTT
*
18384272 TAAGTTGTGCAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
18384292 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
18384312 TAAGTTG
1 TAAGTTG
18384319 CAAGTTGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:18388604 original size:47 final size:48
Alignment explanation
Indices: 18388538--18388717 Score: 180
Period size: 47 Copynumber: 3.8 Consensus size: 48
18388528 GTATAATGTC
* *
18388538 GATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATGCTAAGTC-
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATGCTAAGTCT
* *
18388585 GATGCCATGTCCCAGACATGGTCTTATACTGACTCTCACG-TATCCA-TGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATGCTA---AGT-CT
* * *
18388635 GATGCCATGTCCTAGACATGGTCTTATACTGACACATCAT-CT-AG-CT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCATGCTAAGTCT
18388681 GATG-CATGTCCCAGACAT-GTCTTACACT-AGCTCTCAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCAT
18388718 CTCAATGCCA
Statistics
Matches: 114, Mismatches: 10, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
43 5 0.04
44 11 0.10
45 13 0.11
46 8 0.07
47 37 0.32
48 1 0.01
49 2 0.02
50 33 0.29
51 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATGCTAAGTCT
Found at i:18389637 original size:16 final size:16
Alignment explanation
Indices: 18389618--18389648 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18389608 CTTCTTCACT
18389618 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
18389634 TACTTACTTACTTAA
1 TACTCACTTACTTAA
18389649 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:18389654 original size:20 final size:20
Alignment explanation
Indices: 18389615--18389654 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18389605 AAACTTCTTC
* *
18389615 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
18389635 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
18389655 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:18395704 original size:28 final size:28
Alignment explanation
Indices: 18395646--18395705 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
18395636 CCCTGGCCCA
* *
18395646 TGTCCCTCACACGGTCTAGACACGCCTG
1 TGTCCCTCACACGGCCTAGACACACCTG
18395674 TGTCCCTCACACGGCCTAGACACTACC-G
1 TGTCCCTCACACGGCCTAGACAC-ACCTG
18395702 TGTC
1 TGTC
18395706 ATCGCCCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.18, C:0.40, G:0.20, T:0.22
Consensus pattern (28 bp):
TGTCCCTCACACGGCCTAGACACACCTG
Found at i:18398336 original size:47 final size:45
Alignment explanation
Indices: 18398230--18398338 Score: 130
Period size: 47 Copynumber: 2.4 Consensus size: 45
18398220 TGCACACTTT
* * *
18398230 TCACAATTGGTCATTCGGCCTTATCACATATTCACTTACATATATA
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACTTACACATATA
* *
18398276 TCACATTGACCATTCGGCCTTATCACATATACACACTTTCACAT-TCA
1 TCACATTGGCCATTCGGCCTTATCACATAT--ACACTTACACATAT-A
18398323 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
18398339 ATCTTAAGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
45 24 0.44
46 5 0.09
47 25 0.46
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (45 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACTTACACATATA
Found at i:18400934 original size:22 final size:20
Alignment explanation
Indices: 18400894--18400934 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
18400884 AGTCCTATTA
*
18400894 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
18400914 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
18400935 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:18406725 original size:46 final size:46
Alignment explanation
Indices: 18406658--18406832 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
18406648 TGTAACCCGC
*
18406658 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
18406704 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * * *
18406754 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
18406797 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
18406833 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 61 0.58
47 26 0.25
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:18406778 original size:93 final size:93
Alignment explanation
Indices: 18406666--18406837 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
18406656 GCCCATAAGT
* * *
18406666 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
18406731 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
18406759 GAACTCGGACTCAACTCAACGAGTTCAGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
18406824 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
18406838 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:18406852 original size:46 final size:45
Alignment explanation
Indices: 18406663--18406852 Score: 125
Period size: 46 Copynumber: 4.1 Consensus size: 45
18406653 CCCGCCCATA
* ** ** * *
18406663 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* * **
18406709 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * * *
18406757 A-CGAACTCGGACTCAACTCAACGAGTTCAGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
18406802 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
18406848 AGTGA
1 AGTGA
18406853 CATGTCACTT
Statistics
Matches: 107, Mismatches: 28, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
43 3 0.03
45 1 0.01
46 66 0.62
47 29 0.27
48 5 0.05
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:18416895 original size:9 final size:9
Alignment explanation
Indices: 18416881--18416991 Score: 71
Period size: 10 Copynumber: 11.8 Consensus size: 9
18416871 TTTTAGTAAA
*
18416881 AAAAAACAT
1 AAAAAATAT
*
18416890 AAAAAAACATT
1 -AAAAAATA-T
18416901 AAAAAATATT
1 AAAAAATA-T
18416911 AAAAAATAT
1 AAAAAATAT
*
18416920 TAAAAATAT
1 AAAAAATAT
*
18416929 AAAATAT-T
1 AAAAAATAT
18416937 AAAAAAATAT
1 -AAAAAATAT
***
18416947 ATAATCTTAT
1 A-AAAAATAT
*
18416957 AAAAATTCAT
1 AAAAAAT-AT
18416967 AAAAAATAT
1 AAAAAATAT
* *
18416976 AAATATTAT
1 AAAAAATAT
18416985 AAAAAAT
1 AAAAAAT
18416992 CAAATTAATT
Statistics
Matches: 81, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
8 1 0.01
9 39 0.48
10 40 0.49
11 1 0.01
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAAATAT
Found at i:18416943 original size:18 final size:18
Alignment explanation
Indices: 18416893--18416962 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
18416883 AAAACATAAA
* *
18416893 AAAACATTAAAAAATATTAA
1 AAAATATTAAAAAA-A-TAT
18416913 AAAATATT--AAAAATAT
1 AAAATATTAAAAAAATAT
18416929 AAAATATTAAAAAAATAT
1 AAAATATTAAAAAAATAT
* * *
18416947 ATAATCTTATAAAAAT
1 AAAATATTAAAAAAAT
18416963 TCATAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
16 10 0.23
17 1 0.02
18 25 0.58
20 7 0.16
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAATATTAAAAAAATAT
Found at i:18416976 original size:19 final size:18
Alignment explanation
Indices: 18416900--18417012 Score: 70
Period size: 19 Copynumber: 6.1 Consensus size: 18
18416890 AAAAAAACAT
*
18416900 TAAAAAATATTAAAAAATA
1 TAAAAATTA-TAAAAAATA
*
18416919 TTAAAAA-TATAAAATAT-
1 -TAAAAATTATAAAAAATA
* ***
18416936 TAAAAAAATATATAATCTTA
1 T-AAAAATTATA-AAAAATA
18416956 TAAAAATTCATAAAAAATA
1 TAAAAATT-ATAAAAAATA
*
18416975 TAAATATTATAAAAAATCA
1 TAAAAATTATAAAAAAT-A
*
18416994 -AATTAATTATAAAAAATA
1 TAA-AAATTATAAAAAATA
18417012 T
1 T
18417013 TTTTTTAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
16 1 0.01
17 5 0.07
18 23 0.31
19 35 0.47
20 10 0.14
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAATTATAAAAAATA
Found at i:18416989 original size:28 final size:28
Alignment explanation
Indices: 18416900--18416989 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
18416890 AAAAAAACAT
* * *
18416900 TAAAAAATATTAAAAAATATTAAA-AATA
1 TAAAAATTAATAAAAAATA-TAAATATTA
* * *
18416928 TAAAATATTAAAAAAATATAT-AATCTTA
1 TAAAA-ATTAATAAAAAATATAAATATTA
*
18416956 TAAAAATTCATAAAAAATATAAATATTA
1 TAAAAATTAATAAAAAATATAAATATTA
18416984 TAAAAA
1 TAAAAA
18416990 ATCAAATTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
27 14 0.29
28 25 0.51
29 10 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (28 bp):
TAAAAATTAATAAAAAATATAAATATTA
Found at i:18417047 original size:19 final size:18
Alignment explanation
Indices: 18416954--18417046 Score: 64
Period size: 19 Copynumber: 5.0 Consensus size: 18
18416944 TATATAATCT
*
18416954 TATAAAAATTCATAAAAAA
1 TATATAAATT-ATAAAAAA
18416973 TATA-AATATTATAAAAAA
1 TATATAA-ATTATAAAAAA
* *
18416991 TCAAATTAATTATAAAAAA
1 T-ATATAAATTATAAAAAA
*** *
18417010 TAT-TTTTTTAAATATAAAA
1 TATATAAATT--ATAAAAAA
18417029 TATATAAATTATAAAAAA
1 TATATAAATTATAAAAAA
18417047 AGTCATTTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
17 4 0.07
18 19 0.33
19 31 0.53
20 4 0.07
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TATATAAATTATAAAAAA
Found at i:18417764 original size:23 final size:23
Alignment explanation
Indices: 18417738--18417787 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
18417728 ATGAGAAGAA
18417738 ATAAATGATTTTTTATA-ATTTTT
1 ATAAAT-ATTTTTTATATATTTTT
* *
18417761 ATAAATTTTTTTTTTATATTTTT
1 ATAAATATTTTTTATATATTTTT
18417784 ATAA
1 ATAA
18417788 GTTTTTATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
ATAAATATTTTTTATATATTTTT
Found at i:18417792 original size:23 final size:24
Alignment explanation
Indices: 18417746--18417793 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
18417736 AAATAAATGA
18417746 TTTTTTATAATTTTTATAAATTTT
1 TTTTTTATAATTTTTATAAATTTT
*
18417770 TTTTTTAT-ATTTTTATAAGTTTT
1 TTTTTTATAATTTTTATAAATTTT
18417793 T
1 T
18417794 ATACGTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTTTATAATTTTTATAAATTTT
Found at i:18417794 original size:18 final size:18
Alignment explanation
Indices: 18417771--18417891 Score: 64
Period size: 18 Copynumber: 6.3 Consensus size: 18
18417761 ATAAATTTTT
18417771 TTTTTATATTTTTATAAG
1 TTTTTATATTTTTATAAG
** *
18417789 TTTTTATACGTTTACAAG
1 TTTTTATATTTTTATAAG
* ** *
18417807 TTTTTAAACGTTTATAATT
1 TTTTTATATTTTTATAA-G
*
18417826 TTTTTCAATATTTTTATAAA
1 TTTTT--ATATTTTTATAAG
* *
18417846 TTATTAATATTTTATAATAAAT
1 TT-TTTATATTTT-T-AT-AAG
*
18417868 TTTTTAATTTTTTTATAA-
1 TTTTT-ATATTTTTATAAG
18417886 TTTTTA
1 TTTTTA
18417892 GTAAAAGAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 17
0.72 0.12 0.15
Matches are distributed among these distances:
17 1 0.01
18 35 0.43
19 14 0.17
20 5 0.06
21 16 0.20
22 10 0.12
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTTATATTTTTATAAG
Found at i:18417842 original size:21 final size:20
Alignment explanation
Indices: 18417817--18417890 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
18417807 TTTTTAAACG
18417817 TTTATAATTTTTTTCAATATT
1 TTTATAATTTTTTT-AATATT
* *
18417838 TTTATAA-ATTATTAATATT
1 TTTATAATTTTTTTAATATT
* *
18417857 TTATAATAAATTTTTTAATTTT
1 TT-T-ATAATTTTTTTAATATT
18417879 TTTATAATTTTT
1 TTTATAATTTTT
18417891 AGTAAAAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 8 0.18
20 13 0.30
21 12 0.27
22 11 0.25
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATAATTTTTTTAATATT
Found at i:18432758 original size:150 final size:150
Alignment explanation
Indices: 18432487--18432782 Score: 592
Period size: 150 Copynumber: 2.0 Consensus size: 150
18432477 TTCATCCTCT
18432487 TTTGACCGAAAATTCTAAGGGAGGAGGAAGGAGTTCTTGCTTCATGTTTGGTTTGGAAGAGAATT
1 TTTGACCGAAAATTCTAAGGGAGGAGGAAGGAGTTCTTGCTTCATGTTTGGTTTGGAAGAGAATT
18432552 AGGAGGAAGTTTGGCCATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCA
66 AGGAGGAAGTTTGGCCATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCA
18432617 TGTATATTTTAAGTTGCTCA
131 TGTATATTTTAAGTTGCTCA
18432637 TTTGACCGAAAATTCTAAGGGAGGAGGAAGGAGTTCTTGCTTCATGTTTGGTTTGGAAGAGAATT
1 TTTGACCGAAAATTCTAAGGGAGGAGGAAGGAGTTCTTGCTTCATGTTTGGTTTGGAAGAGAATT
18432702 AGGAGGAAGTTTGGCCATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCA
66 AGGAGGAAGTTTGGCCATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCA
18432767 TGTATATTTTAAGTTG
131 TGTATATTTTAAGTTG
18432783 TAAGTTTGAA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 146 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.37
Consensus pattern (150 bp):
TTTGACCGAAAATTCTAAGGGAGGAGGAAGGAGTTCTTGCTTCATGTTTGGTTTGGAAGAGAATT
AGGAGGAAGTTTGGCCATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCA
TGTATATTTTAAGTTGCTCA
Found at i:18433772 original size:29 final size:28
Alignment explanation
Indices: 18433736--18433813 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
18433726 TCATGAGATT
18433736 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
18433766 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
18433793 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
18433814 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:18434031 original size:174 final size:174
Alignment explanation
Indices: 18433766--18434267 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
18433756 AAATTGTACA
*
18433766 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
18433831 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTTGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTTGA
*
18433896 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGTATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
18433940 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
18434005 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTTGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTTGA
18434070 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
18434114 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* * **
18434179 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTTGA
18434244 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
18434268 ACCTTGAGTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTTGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:18444957 original size:48 final size:48
Alignment explanation
Indices: 18444890--18445117 Score: 263
Period size: 48 Copynumber: 4.9 Consensus size: 48
18444880 TACATGGTAG
* * *
18444890 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** **
18444938 GATGCCAATACCATGTCCCAAACATGGTCTTACATGGGATCGTAGGTC
1 GATGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
18444986 AATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** *
18445034 GATGCCGAT---A-G-CCCAG-CTATGGTCTTACATGAAATTACATATC
1 GATGCCAATACCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
18445077 GATGCCAA-AGCCATGTCCCAGACATGGTCTTACATGGGATC
1 GATGCCAATA-CCATGTCCCAGACATGGTCTTACATGGGATC
18445118 GTACATAACC
Statistics
Matches: 148, Mismatches: 24, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
42 1 0.01
43 34 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 108 0.73
49 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (48 bp):
GATGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:18445103 original size:91 final size:93
Alignment explanation
Indices: 18444890--18445117 Score: 286
Period size: 91 Copynumber: 2.4 Consensus size: 93
18444880 TACATGGTAG
* *
18444890 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCCAATACCATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAAT--CATGTC
** *
18444955 CCAAACATGGTCTTACATGGGATCGTAGGTC
64 CCAAACATGGTCTTACATGAAATCATA-GTC
* *
18444986 AATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCGAT-A-G-CCC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATCATGTCCC
*
18445048 -AGCTATGGTCTTACATGAAATTACATA-TC
66 AAAC-ATGGTCTTACATGAAA-T-CATAGTC
*
18445077 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
18445118 GTACATAACC
Statistics
Matches: 119, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
90 2 0.02
91 58 0.49
92 2 0.02
93 4 0.03
96 53 0.45
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (93 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATCATGTCCC
AAACATGGTCTTACATGAAATCATAGTC
Found at i:18448454 original size:24 final size:24
Alignment explanation
Indices: 18448422--18448492 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
18448412 CTGTCAGGAA
18448422 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
18448446 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
18448470 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
18448493 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:18448504 original size:48 final size:48
Alignment explanation
Indices: 18448422--18448515 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
18448412 CTGTCAGGAA
** * *
18448422 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
18448470 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
18448516 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:18449954 original size:27 final size:27
Alignment explanation
Indices: 18449914--18450025 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
18449904 AGGAAGCGTC
*
18449914 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
18449941 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
18449968 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
18449996 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
18450022 CTGG
1 CTGG
18450026 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:18450020 original size:54 final size:54
Alignment explanation
Indices: 18449914--18450025 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
18449904 AGGAAGCGTC
* *
18449914 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
18449968 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
18450022 CTGG
1 CTGG
18450026 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:18456329 original size:24 final size:24
Alignment explanation
Indices: 18456297--18456364 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
18456287 TCAGGAGAGC
18456297 ATTTAGGAGTTGATAAGGGATAGG
1 ATTTAGGAGTTGATAAGGGATAGG
18456321 ATTTAGGAGTTGATAAGGGATAGG
1 ATTTAGGAGTTGATAAGGGATAGG
* **
18456345 ATTTAGAAGCAGATAAGGGA
1 ATTTAGGAGTTGATAAGGGA
18456365 GGAAATCTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.37, C:0.01, G:0.35, T:0.26
Consensus pattern (24 bp):
ATTTAGGAGTTGATAAGGGATAGG
Found at i:18460044 original size:46 final size:46
Alignment explanation
Indices: 18459977--18460105 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
18459967 TGTAACCCGC
* * *
18459977 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18460023 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
18460069 CCATAAGTGAACTCAGACTCAACTCAGCGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18460106 TGCCCAAACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18462573 original size:15 final size:15
Alignment explanation
Indices: 18462498--18462575 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
18462488 AGAAAACCGA
*
18462498 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
* **
18462513 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
18462527 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
18462542 AATAAAGAGATCTAAG
1 -ATAAAGAAATCCAAG
*
18462558 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
18462573 ATA
1 ATA
18462576 CCATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 43 0.86
16 4 0.08
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:18465576 original size:46 final size:46
Alignment explanation
Indices: 18465509--18465730 Score: 297
Period size: 46 Copynumber: 4.8 Consensus size: 46
18465499 TGTAACCCGC
* * * *
18465509 CCATAAGCGAACTCGGGCTCAACTCAACGAGCTCGGGCGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
18465555 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* * *
18465605 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
18465648 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
18465694 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18465731 TGCCCAAATA
Statistics
Matches: 155, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
43 3 0.02
44 1 0.01
45 2 0.01
46 112 0.72
47 31 0.20
48 2 0.01
49 1 0.01
50 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:18465631 original size:93 final size:93
Alignment explanation
Indices: 18465516--18465684 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
18465506 CGCCCATAAG
* * *
18465516 CGAACTCGGGCTCAACTCAACGAGCTCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
18465581 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
18465609 CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
18465674 ACGAGTTCGGA
66 ACGAGCTCGGA
18465685 CGCTCGCATC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:18469703 original size:46 final size:46
Alignment explanation
Indices: 18469649--18469824 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
18469639 TGGTTGAGCA
18469649 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
18469695 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
18469740 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
18469788 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18469825 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 63 0.58
47 27 0.25
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18469805 original size:93 final size:93
Alignment explanation
Indices: 18469646--18469816 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
18469636 GGATGGTTGA
*
18469646 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAGT
18469711 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
18469739 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CAAACTCGTTGAG
18469803 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
18469817 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:18478729 original size:34 final size:32
Alignment explanation
Indices: 18478683--18478746 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
18478673 GCTACTGAAT
* *
18478683 TGGGCTAAGGCCCTCACTGATATTGATACTATAA
1 TGGGCTAAGGCCCTAACT-AAATTGA-ACTATAA
*
18478717 TGGGCTAGGGCCCTAACTAAATTGAACTAT
1 TGGGCTAAGGCCCTAACTAAATTGAACTAT
18478747 TACTGAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 5 0.19
33 6 0.22
34 16 0.59
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (32 bp):
TGGGCTAAGGCCCTAACTAAATTGAACTATAA
Done.