Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 162 of 196
Found at i:47462095 original size:73 final size:72
Alignment explanation
Indices: 47461977--47462180 Score: 273
Period size: 73 Copynumber: 2.8 Consensus size: 72
47461967 TTAGTAAATA
* * * * *
47461977 GATGGCTTGAGATCCAACATGTGTTGTGGATTCTTTGGAGCTTGTGTGAGCGGCATCAAATCATT
1 GATGGCTTGAGATCCAACACGTGTTGCGGATTCTTTGAAGCTTGTGTGAACAGCATCAAATCATT
*
47462042 CTTTATT
66 CTTTATC
* *
47462049 GATGGCTTGAGATCCAAACACGTGTTGCGGATTCTTTGAAGCTTGTGTGAATAGCATCGAATCAT
1 GATGGCTTGAGATCC-AACACGTGTTGCGGATTCTTTGAAGCTTGTGTGAACAGCATCAAATCAT
47462114 TCTTTATC
65 TCTTTATC
* * * ** *
47462122 GATGGCTTAAGATCCAGCACGTGTTGCAGATTCTCGGAAGCTTGTTTGAACAGCATCAA
1 GATGGCTTGAGATCCAACACGTGTTGCGGATTCTTTGAAGCTTGTGTGAACAGCATCAA
47462181 TAAAGCTTAT
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
72 52 0.45
73 63 0.55
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (72 bp):
GATGGCTTGAGATCCAACACGTGTTGCGGATTCTTTGAAGCTTGTGTGAACAGCATCAAATCATT
CTTTATC
Found at i:47463444 original size:36 final size:36
Alignment explanation
Indices: 47463404--47463475 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
47463394 ATTTTTTTTA
* **
47463404 TTTGTTAAGATTTTTCTAAACATTGAAGCTAATAAT
1 TTTGTTAAGATTTTTATAAACATCAAAGCTAATAAT
47463440 TTTGTTAAGATTTTTATAAACATCAAAGCTAATAAT
1 TTTGTTAAGATTTTTATAAACATCAAAGCTAATAAT
47463476 GTTATCGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (36 bp):
TTTGTTAAGATTTTTATAAACATCAAAGCTAATAAT
Found at i:47468114 original size:3 final size:3
Alignment explanation
Indices: 47468106--47468133 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
47468096 TCCAAAAAAT
47468106 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
47468134 CCAAACCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:47477867 original size:40 final size:40
Alignment explanation
Indices: 47477810--47477911 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
47477800 TAACGATAAA
* *
47477810 TCGGCTATGTT-TAGCACTTAGTATGAAATTTGAGATAACT
1 TCGGCTAT-TTATGGCACTTAGTATGAAATTTGAAATAACT
* ** *
47477850 TCGGCTATTTATGGCACTTAGTGTGCGATTTGAAATAGCT
1 TCGGCTATTTATGGCACTTAGTATGAAATTTGAAATAACT
* *
47477890 TCGACTATATATGGCACTTAGT
1 TCGGCTATTTATGGCACTTAGT
47477912 GTACGAGAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.04
40 51 0.96
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (40 bp):
TCGGCTATTTATGGCACTTAGTATGAAATTTGAAATAACT
Found at i:47477912 original size:40 final size:41
Alignment explanation
Indices: 47477839--47477996 Score: 167
Period size: 41 Copynumber: 3.9 Consensus size: 41
47477829 AGTATGAAAT
* * * *
47477839 TTGAGATAACTTCGGCTATTTATGGCACTTAGTGTGCGA-T
1 TTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGA
* *
47477879 TTGAAATAGCTTCGACTATATATGGCACTTAGTGTACGAGA
1 TTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGA
* * * * *
47477920 ATGAGATAGTTTCGGCTATGTAAGGCACTTAGTGTGCGAGA
1 TTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGA
* *
47477961 TT-ATAATAGCTTCGGCTATACGATGGCAATTAGTGT
1 TTGA-AATAGCTTCGGCTATA-TATGGCACTTAGTGT
47477997 ACGAAACATT
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
40 35 0.37
41 48 0.51
42 12 0.13
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (41 bp):
TTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGA
Found at i:47479271 original size:18 final size:18
Alignment explanation
Indices: 47479250--47479285 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47479240 TTAGTCATAT
*
47479250 TTATTGTTGAAAATAAGA
1 TTATTGTTAAAAATAAGA
47479268 TTATTGTTAAAAATAAGA
1 TTATTGTTAAAAATAAGA
47479286 AATTGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (18 bp):
TTATTGTTAAAAATAAGA
Found at i:47479290 original size:17 final size:18
Alignment explanation
Indices: 47479252--47479290 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47479242 AGTCATATTT
* *
47479252 ATTGTTGAAAATAAGATT
1 ATTGTTAAAAATAAGATA
47479270 ATTGTTAAAAATAAGA-A
1 ATTGTTAAAAATAAGATA
47479287 ATTG
1 ATTG
47479291 AATTGAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (18 bp):
ATTGTTAAAAATAAGATA
Found at i:47483394 original size:9 final size:9
Alignment explanation
Indices: 47483380--47483422 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
47483370 GTTTTCAAAT
47483380 TCGAATAAC
1 TCGAATAAC
47483389 TCGAATAAC
1 TCGAATAAC
*
47483398 TCGAATAAT
1 TCGAATAAC
*
47483407 TCGAATAAT
1 TCGAATAAC
47483416 TCGAATA
1 TCGAATA
47483423 TCAAATTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:47483960 original size:9 final size:9
Alignment explanation
Indices: 47483946--47483974 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
47483936 AATTTCACAT
47483946 TTTATATTA
1 TTTATATTA
47483955 TTTATATTA
1 TTTATATTA
47483964 TTTATATTA
1 TTTATATTA
47483973 TT
1 TT
47483975 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:47489308 original size:21 final size:21
Alignment explanation
Indices: 47489284--47489327 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47489274 GATTCATTCT
47489284 AAATCTACCAAATA-TATTAAA
1 AAATCTACCAAATATTA-TAAA
*
47489305 AAATCTATCAAATATTATAAA
1 AAATCTACCAAATATTATAAA
47489326 AA
1 AA
47489328 TGAAACATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATCTACCAAATATTATAAA
Found at i:47497513 original size:91 final size:91
Alignment explanation
Indices: 47497409--47497595 Score: 365
Period size: 91 Copynumber: 2.1 Consensus size: 91
47497399 TCCCATTGGA
47497409 GCCATTTCTTCTTAAACTGCTTTGTTTCATGTTTCAGCTTTTCTTTATTCGTGCTGCTGTATTTC
1 GCCATTTCTTCTTAAACTGCTTTGTTTCATGTTTCAGCTTTTCTTTATTCGTGCTGCTGTATTTC
47497474 TCTTGCCATGCTACATCATGGCCTGG
66 TCTTGCCATGCTACATCATGGCCTGG
*
47497500 GCCATTTCTTCTTAAATTGCTTTGTTTCATGTTTCAGCTTTTCTTTATTCGTGCTGCTGTATTTC
1 GCCATTTCTTCTTAAACTGCTTTGTTTCATGTTTCAGCTTTTCTTTATTCGTGCTGCTGTATTTC
47497565 TCTTGCCATGCTACATCATGGCCTGG
66 TCTTGCCATGCTACATCATGGCCTGG
47497591 GCCAT
1 GCCAT
47497596 CAGTATATTA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 95 1.00
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (91 bp):
GCCATTTCTTCTTAAACTGCTTTGTTTCATGTTTCAGCTTTTCTTTATTCGTGCTGCTGTATTTC
TCTTGCCATGCTACATCATGGCCTGG
Found at i:47504186 original size:24 final size:24
Alignment explanation
Indices: 47504141--47504191 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
47504131 TGAGAGTTAT
*
47504141 ATATCGAGTAGCTCAAGTGAGACA
1 ATATCGAGTAGCTCAAGAGAGACA
* *
47504165 ATATCGAG-ATGCTCATGAGAGATA
1 ATATCGAGTA-GCTCAAGAGAGACA
47504189 ATA
1 ATA
47504192 ATGGGACGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.24
Consensus pattern (24 bp):
ATATCGAGTAGCTCAAGAGAGACA
Found at i:47506811 original size:45 final size:43
Alignment explanation
Indices: 47506758--47506907 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 43
47506748 TATGTGTTCT
47506758 CGTGTAAGACCACGTCTGGGAC-GATGGCATCAATATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACAG-TGGCATC--TATATGTGATTA
* * * *
47506803 CGTGTAAGACCATGTCTAGGACATTGACATCGTAT-T-TGATT-
1 CGTGTAAGACCACGTCTGGGACAGTGGCATC-TATATGTGATTA
* *
47506844 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGAGA-TA
1 CGTGTAAGACCAC-GTCTGGGACAGTGGCATCTATATGTGATTA
*
47506886 GCATGTAAGACCACGTCTGGGA
1 -CGTGTAAGACCACGTCTGGGA
47506908 TGTTGGTATT
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
40 2 0.02
41 28 0.33
42 7 0.08
43 19 0.22
44 4 0.05
45 26 0.30
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACAGTGGCATCTATATGTGATTA
Found at i:47516490 original size:68 final size:68
Alignment explanation
Indices: 47516406--47516533 Score: 184
Period size: 68 Copynumber: 1.9 Consensus size: 68
47516396 TCCCCAAGTC
* *
47516406 AAGTACTTCGTCTTCTCATGCACTTAGCTTTTCAAAGCTTTTGGCCTGCCCAGGTCACATACTTC
1 AAGTACTTCGTCTTCTCAAGCACTTAGCTTTTCAAAGCTTTTGACCTGCCCAGGTCACATACTTC
47516471 TTA
66 TTA
* * * * **
47516474 AAGTACTTTGTCTTCTCAAGCGCTTGGCTTTTTAAAGCTTTTGACCTGCTTAGGTCACAT
1 AAGTACTTCGTCTTCTCAAGCACTTAGCTTTTCAAAGCTTTTGACCTGCCCAGGTCACAT
47516534 TCACCTTCTC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 52 1.00
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.38
Consensus pattern (68 bp):
AAGTACTTCGTCTTCTCAAGCACTTAGCTTTTCAAAGCTTTTGACCTGCCCAGGTCACATACTTC
TTA
Found at i:47519818 original size:17 final size:16
Alignment explanation
Indices: 47519792--47519830 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
47519782 TTTTGATTGA
*
47519792 TTATTTTTTGAATGTT
1 TTATTTTTTGAATATT
47519808 TTATATTTTTGAATATT
1 TTAT-TTTTTGAATATT
47519825 TTATTT
1 TTATTT
47519831 ATAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (16 bp):
TTATTTTTTGAATATT
Found at i:47531805 original size:21 final size:22
Alignment explanation
Indices: 47531779--47531820 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
47531769 TTCGTGTAAC
*
47531779 TAAATTGTATATT-TATATGTT
1 TAAATTGAATATTATATATGTT
*
47531800 TAAATTGAATGTTATATATGT
1 TAAATTGAATATTATATATGT
47531821 GAATTGTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
TAAATTGAATATTATATATGTT
Found at i:47532256 original size:24 final size:23
Alignment explanation
Indices: 47532205--47532287 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
47532195 TGGCTATCCA
* * **
47532205 GAGCTTCCCGTTAATGACTTTTCG
1 GAGCTTCCCGTT-ATGGCTCTTAT
*
47532229 GAGCTACCCGTTATTGGCTCTTAT
1 GAGCTTCCCGTTA-TGGCTCTTAT
*
47532253 GAGCTTCCTGATTATGGCTCTTAT
1 GAGCTTCCCG-TTATGGCTCTTAT
47532277 GAGCTTCCCGT
1 GAGCTTCCCGT
47532288 AATACAGCCC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 2 0.04
24 44 0.90
25 3 0.06
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (23 bp):
GAGCTTCCCGTTATGGCTCTTAT
Found at i:47532331 original size:25 final size:24
Alignment explanation
Indices: 47532101--47532347 Score: 101
Period size: 25 Copynumber: 10.0 Consensus size: 24
47532091 ACCGCAACTT
* *
47532101 TTATGAGCATCCTGTTATATGGCTC
1 TTATGAGCTTCCCGTTA-ATGGCTC
* * *
47532126 TTCGTGAGCTTCCCAATTAAAGGCTC
1 TT-ATGAGCTTCCC-GTTAATGGCTC
* * *
47532152 TTTGTGAGCTTCCCGAT-ATGACT-
1 -TTATGAGCTTCCCGTTAATGGCTC
* * *
47532175 TGCT-TGAACTTCCCGATATATGGCTA
1 T--TATGAGCTTCCCGTTA-ATGGCTC
* * *
47532201 TCCA-GAGCTTCCCGTTAATGACTT
1 T-TATGAGCTTCCCGTTAATGGCTC
** * *
47532225 TTCGGAGCTACCCGTTATTGGCTC
1 TTATGAGCTTCCCGTTAATGGCTC
*
47532249 TTATGAGCTTCCTGATT-ATGGCTC
1 TTATGAGCTTCCCG-TTAATGGCTC
* *
47532273 TTATGAGCTTCCCG-TAATACAGCCC
1 TTATGAGCTTCCCGTTAAT--GGCTC
** *
47532298 GGATAAGCTTCCCGTTACATGGCTC
1 TTATGAGCTTCCCGTTA-ATGGCTC
* *
47532323 ATATGAGCTTCCTGTTATATGGCTC
1 TTATGAGCTTCCCGTTA-ATGGCTC
47532348 GAGAGAAGGC
Statistics
Matches: 166, Mismatches: 40, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
22 2 0.01
23 14 0.08
24 56 0.34
25 59 0.36
26 28 0.17
27 7 0.04
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (24 bp):
TTATGAGCTTCCCGTTAATGGCTC
Found at i:47533540 original size:26 final size:27
Alignment explanation
Indices: 47533511--47533561 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
47533501 TTTGAATGGG
* *
47533511 CACACGGCCTGA-GACACGGGTGTGCT
1 CACACAGCCTGACCACACGGGTGTGCT
47533537 CACACAGCCTGACCACACGGGTGTG
1 CACACAGCCTGACCACACGGGTGTG
47533562 TGTCCCCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.22, C:0.33, G:0.31, T:0.14
Consensus pattern (27 bp):
CACACAGCCTGACCACACGGGTGTGCT
Found at i:47543939 original size:56 final size:51
Alignment explanation
Indices: 47543778--47543975 Score: 283
Period size: 50 Copynumber: 3.8 Consensus size: 51
47543768 GATAATAACA
* * *
47543778 TGCCAAAGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTC-ATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCGG
*
47543828 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCG-TCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCGG
*
47543878 TGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--GATCTC--GG
*
47543933 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47543976 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
50 87 0.65
52 1 0.01
53 4 0.03
55 2 0.01
56 40 0.30
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.25
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCGG
Found at i:47543968 original size:106 final size:100
Alignment explanation
Indices: 47543778--47543975 Score: 288
Period size: 106 Copynumber: 1.9 Consensus size: 100
47543768 GATAATAACA
*
47543778 TGCCAAAGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTC
47543843 CCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
66 CCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * * *
47543878 TGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAATGC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATCTC--GG-TGCCAACGC
*
47543943 CATGTCCCAGACATGGTCTTACATGGGATCTCT
60 CATGTCCCAGACATGGTCTTACATGGGACCTCT
47543976 TTACCCAAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
100 39 0.45
103 5 0.06
105 2 0.02
106 40 0.47
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.25
Consensus pattern (100 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTC
CCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:47546870 original size:9 final size:9
Alignment explanation
Indices: 47546856--47546916 Score: 86
Period size: 9 Copynumber: 6.8 Consensus size: 9
47546846 TTTGGTTAAA
47546856 AATTACCCG
1 AATTACCCG
47546865 AATTACCCG
1 AATTACCCG
47546874 AATTACCCG
1 AATTACCCG
*
47546883 AATTAACCG
1 AATTACCCG
*
47546892 AATTAACCG
1 AATTACCCG
**
47546901 AATTAATCG
1 AATTACCCG
47546910 AATTACC
1 AATTACC
47546917 GAAAAATACC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:47546879 original size:18 final size:18
Alignment explanation
Indices: 47546856--47546916 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
47546846 TTTGGTTAAA
*
47546856 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
47546874 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
* *
47546892 AATTAACCGAATTAATCG
1 AATTACCCGAATTAACCG
47546910 AATTACC
1 AATTACC
47546917 GAAAAATACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.25
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:47553071 original size:24 final size:24
Alignment explanation
Indices: 47552960--47553072 Score: 86
Period size: 25 Copynumber: 4.6 Consensus size: 24
47552950 GTCTCGTTCT
47552960 ATGGCTCTTCGTGAGCTTCCCGAATA
1 ATGGCTCTTCG-GAGCTTCCCG-ATA
* * *
47552986 AAGGCTCTTTGTGAGCTTCCTGAT-
1 ATGGCTCTTCG-GAGCTTCCCGATA
* *
47553010 ATGGCTCGTT-TGAACTTCCCGATA
1 ATGGCTC-TTCGGAGCTTCCCGATA
* * * *
47553034 TATGGCTATCCGGAGCTTCCAGTTA
1 -ATGGCTCTTCGGAGCTTCCCGATA
47553059 ATGGCTCTTCGGAG
1 ATGGCTCTTCGGAG
47553073 TTACCTGTTA
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
23 10 0.15
24 19 0.28
25 20 0.29
26 19 0.28
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.33
Consensus pattern (24 bp):
ATGGCTCTTCGGAGCTTCCCGATA
Found at i:47553103 original size:24 final size:24
Alignment explanation
Indices: 47553076--47553131 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
47553066 TTCGGAGTTA
*
47553076 CCTGTTATTGGCTCGTATGAGCTT
1 CCTGTTATTAGCTCGTATGAGCTT
*
47553100 CCTGATTA-TAGCTCTTATGAGCTT
1 CCTG-TTATTAGCTCGTATGAGCTT
*
47553124 CCCGTTAT
1 CCTGTTAT
47553132 ACAGCCCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 21 0.78
25 3 0.11
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (24 bp):
CCTGTTATTAGCTCGTATGAGCTT
Found at i:47575770 original size:48 final size:48
Alignment explanation
Indices: 47575716--47575863 Score: 199
Period size: 48 Copynumber: 3.1 Consensus size: 48
47575706 AGAGCCTGAC
** *
47575716 TACCCGTTTGGGTTAAACCTACATGAACAATAAATAATAGTGCCTAGT
1 TACCCGTTTGGGTTAAACCTACACAAATAATAAATAATAGTGCCTAGT
* *
47575764 TACCCGTTAGGGTTAAACCTACACAAATAATAAATAATAGTGCCTGGT
1 TACCCGTTTGGGTTAAACCTACACAAATAATAAATAATAGTGCCTAGT
* * **
47575812 TACCC-TTTAGGGTTAAACTTACACAAATAATGAATAATAGTGTTTAGT
1 TACCCGTTT-GGGTTAAACCTACACAAATAATAAATAATAGTGCCTAGT
47575860 TACC
1 TACC
47575864 TATTACGTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 2 0.02
48 86 0.98
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (48 bp):
TACCCGTTTGGGTTAAACCTACACAAATAATAAATAATAGTGCCTAGT
Found at i:47577330 original size:46 final size:46
Alignment explanation
Indices: 47577272--47577562 Score: 492
Period size: 46 Copynumber: 6.3 Consensus size: 46
47577262 TTTTATATGT
*
47577272 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCTAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* *
47577318 TATAATGTTGTCCATTTTGAGTATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
47577364 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * *
47577410 TATAATGCTGTCCAATTTGAGCATATTAAAGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* *
47577456 TATAATGCTATCCATTTTGAGCAAATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
*
47577502 TATAATGCTGTCCATTTTGAGCATATTAATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
47577548 TATAAATGCTGTCCA
1 TAT-AATGCTGTCCA
47577563 AAACAGGGTA
Statistics
Matches: 228, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
46 217 0.95
47 11 0.05
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.41
Consensus pattern (46 bp):
TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
Found at i:47583990 original size:40 final size:40
Alignment explanation
Indices: 47583946--47584034 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
47583936 GCGATGTTTA
* *
47583946 GCACTTAGTATAAAATTCGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTATAAAATTCGAAATAGCTTCGGCTATATATG
* *** *
47583986 GCACTTAGTGTGCGATTTGAAATAGCTTCGGCTATATATG
1 GCACTTAGTATAAAATTCGAAATAGCTTCGGCTATATATG
47584026 GCACTTAGT
1 GCACTTAGT
47584035 GTGCGAGACT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (40 bp):
GCACTTAGTATAAAATTCGAAATAGCTTCGGCTATATATG
Found at i:47584035 original size:40 final size:41
Alignment explanation
Indices: 47583967--47584103 Score: 179
Period size: 41 Copynumber: 3.4 Consensus size: 41
47583957 AAAATTCGAG
* *
47583967 ATAGCTTCGGCTATTTATGGCACTTAGTGTGCGA-TTTGAA
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAA
* *
47584007 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGACTGAG
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAA
** * *
47584048 ATAGCTTCGGCTATGCAAGGCACTTGGTGTGCGAGATT-ATA
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGA-A
47584089 ATAGCTTCGGCTATA
1 ATAGCTTCGGCTATA
47584104 CGATGACAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 34 0.40
41 50 0.60
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (41 bp):
ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAA
Found at i:47586050 original size:50 final size:50
Alignment explanation
Indices: 47585908--47586204 Score: 285
Period size: 50 Copynumber: 5.8 Consensus size: 50
47585898 GATAATAACA
* * * *
47585908 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCT-CGG
* * * * * *
47585957 TGCCAATGTCATATCCTAGATATGGTCTTACATGGGAGT-TCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-TCTCTCATCTCGG
* * * **
47586007 CGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGATCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
* * *
47586057 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
* * * *
47586107 TGCCAACGTCATGTCCAAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA--TCTC-TCATCTC--G-G
* *
47586163 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
47586205 TTACCCAAAT
Statistics
Matches: 205, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.00
49 39 0.19
50 117 0.57
52 3 0.01
53 6 0.03
54 4 0.02
56 35 0.17
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
Found at i:47587620 original size:46 final size:46
Alignment explanation
Indices: 47587550--47587656 Score: 151
Period size: 46 Copynumber: 2.3 Consensus size: 46
47587540 TTTTATATGT
* *
47587550 TATAATGATGTCCATTTTGTGCATACTGATGCTATCCAATTTGATG
1 TATAATGATGTCCATTTTGAGCATACTAATGCTATCCAATTTGATG
* * *
47587596 TATAATGCTGTCCATTTTGAGCATATTAATGCTGTCCAATTTGATG
1 TATAATGATGTCCATTTTGAGCATACTAATGCTATCCAATTTGATG
*
47587642 TATAAATGTTGTCCA
1 TAT-AATGATGTCCA
47587657 AAACAAGGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
46 44 0.81
47 10 0.19
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (46 bp):
TATAATGATGTCCATTTTGAGCATACTAATGCTATCCAATTTGATG
Found at i:47587630 original size:24 final size:23
Alignment explanation
Indices: 47587550--47587657 Score: 87
Period size: 24 Copynumber: 4.7 Consensus size: 23
47587540 TTTTATATGT
* * *
47587550 TATAATGATGTCCATTTTGTGCA
1 TATAATGCTGTCCAATTTGAGCA
* *
47587573 TACTGATGCTATCCAATTTGATG--
1 TA-TAATGCTGTCCAATTTGA-GCA
*
47587596 TATAATGCTGTCCATTTTGAGCA
1 TATAATGCTGTCCAATTTGAGCA
*
47587619 TATTAATGCTGTCCAATTTGATGTA
1 TA-TAATGCTGTCCAATTTGA-GCA
*
47587644 TA-AATGTTGTCCAA
1 TATAATGCTGTCCAA
47587658 AACAAGGTAG
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
21 1 0.01
22 15 0.22
23 17 0.25
24 30 0.44
25 5 0.07
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (23 bp):
TATAATGCTGTCCAATTTGAGCA
Found at i:47587654 original size:23 final size:22
Alignment explanation
Indices: 47587578--47587657 Score: 90
Period size: 24 Copynumber: 3.5 Consensus size: 22
47587568 GTGCATACTG
*
47587578 ATGCTATCCAATTTGATGTATA
1 ATGCTGTCCAATTTGATGTATA
*
47587600 ATGCTGTCCATTTTGA-GCATATTA
1 ATGCTGTCCAATTTGATG--TA-TA
47587624 ATGCTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTAT-A
*
47587647 ATGTTGTCCAA
1 ATGCTGTCCAA
47587658 AACAAGGTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.02
22 15 0.31
23 15 0.31
24 17 0.35
25 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (22 bp):
ATGCTGTCCAATTTGATGTATA
Found at i:47595345 original size:24 final size:24
Alignment explanation
Indices: 47595318--47595396 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
47595308 AAATGAAATA
47595318 TGTTGAAAAGAGTTATACGCCAAT
1 TGTTGAAAAGAGTTATACGCCAAT
* *
47595342 TGTTTAAAATGA---A-ATG--AAGT
1 TGTTGAAAA-GAGTTATACGCCAA-T
47595362 ATGTTGAAAAGAGTTATACGCCAAT
1 -TGTTGAAAAGAGTTATACGCCAAT
*
47595387 TGTTTAAAAG
1 TGTTGAAAAG
47595397 TTTATGCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
19 2 0.05
20 3 0.07
21 10 0.24
22 1 0.02
23 1 0.02
24 19 0.46
25 3 0.07
26 2 0.05
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.32
Consensus pattern (24 bp):
TGTTGAAAAGAGTTATACGCCAAT
Found at i:47595365 original size:45 final size:45
Alignment explanation
Indices: 47595300--47595395 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 45
47595290 AAAACCTTTA
47595300 TTAAAATAAAATGAAATATGTTGAAAAGAGTTATACGCCAATTGT
1 TTAAAATAAAATGAAATATGTTGAAAAGAGTTATACGCCAATTGT
* *
47595345 TTAAAATGAAATGAAGTATGTTGAAAAGAGTTATACGCCAATTGT
1 TTAAAATAAAATGAAATATGTTGAAAAGAGTTATACGCCAATTGT
47595390 TTAAAA
1 TTAAAA
47595396 GTTTATGCTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (45 bp):
TTAAAATAAAATGAAATATGTTGAAAAGAGTTATACGCCAATTGT
Found at i:47597594 original size:2 final size:2
Alignment explanation
Indices: 47597587--47597618 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
47597577 TTTTCACACG
*
47597587 CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
47597619 TTGCGGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:47604917 original size:19 final size:19
Alignment explanation
Indices: 47604893--47604935 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
47604883 CTGTTTTTGT
47604893 TGAAGTTTTAGATTTCTGA
1 TGAAGTTTTAGATTTCTGA
* *
47604912 TGAAGTTTTTGCTTTCTGA
1 TGAAGTTTTAGATTTCTGA
47604931 TGAAG
1 TGAAG
47604936 AAAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (19 bp):
TGAAGTTTTAGATTTCTGA
Found at i:47611602 original size:23 final size:23
Alignment explanation
Indices: 47611576--47611621 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
47611566 GTAATTATAA
47611576 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
47611599 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
47611622 CCATACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:47612755 original size:20 final size:20
Alignment explanation
Indices: 47612730--47612768 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47612720 TTCAATTAAG
*
47612730 TCTTTCATT-AAGTGTTTTTT
1 TCTTTC-TTCAAGTATTTTTT
47612750 TCTTTCTTCAAGTATTTTT
1 TCTTTCTTCAAGTATTTTT
47612769 CATCTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.15, C:0.13, G:0.08, T:0.64
Consensus pattern (20 bp):
TCTTTCTTCAAGTATTTTTT
Found at i:47612792 original size:12 final size:12
Alignment explanation
Indices: 47612757--47612888 Score: 50
Period size: 12 Copynumber: 10.2 Consensus size: 12
47612747 TTTTCTTTCT
47612757 TCAAGTATTTTTCA
1 TCAAGT-TTTTT-A
*
47612771 TCTAGTTTTTTTA
1 TCAAG-TTTTTTA
47612784 TCAAGTTTTTAATTA
1 TCAAG-TTTT--TTA
*
47612799 CCAAGTTTTTTTTA
1 TCAAG--TTTTTTA
**
47612813 TCAAGTTTTGCA
1 TCAAGTTTTTTA
*
47612825 GCAAGTTCTTTT-
1 TCAAGTT-TTTTA
* *
47612837 TAAAGTTTTTCA
1 TCAAGTTTTTTA
*
47612849 TCAAGTCTTTTCA
1 TCAAGT-TTTTTA
* * **
47612862 TAAAATTTTCCA
1 TCAAGTTTTTTA
*
47612874 TCAAGTTTTTAA
1 TCAAGTTTTTTA
47612886 TCA
1 TCA
47612889 TTTCGTTTTT
Statistics
Matches: 91, Mismatches: 20, Indels: 16
0.72 0.16 0.13
Matches are distributed among these distances:
11 3 0.03
12 37 0.41
13 22 0.24
14 16 0.18
15 8 0.09
16 5 0.05
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (12 bp):
TCAAGTTTTTTA
Found at i:47612805 original size:15 final size:14
Alignment explanation
Indices: 47612774--47612821 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
47612764 TTTTTCATCT
*
47612774 AGTTTTT-TTATCA
1 AGTTTTTATTACCA
47612787 AGTTTTTAATTACCA
1 AGTTTTT-ATTACCA
* *
47612802 AGTTTTTTTTATCA
1 AGTTTTTATTACCA
47612816 AGTTTT
1 AGTTTT
47612822 GCAGCAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 7 0.23
14 11 0.37
15 12 0.40
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (14 bp):
AGTTTTTATTACCA
Found at i:47612865 original size:25 final size:23
Alignment explanation
Indices: 47612815--47612883 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
47612805 TTTTTTTATC
* *
47612815 AAGTTTTGCAGCAAGTTCTTTTTA
1 AAGTTTTCCATCAAG-TCTTTTTA
*
47612839 AAGTTTTTCATCAAGTCTTTTCATA
1 AAGTTTTCCATCAAGTCTTTT--TA
*
47612864 AAATTTTCCATCAAGT-TTTT
1 AAGTTTTCCATCAAGTCTTTT
47612884 AATCATTTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.15
24 17 0.44
25 16 0.41
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (23 bp):
AAGTTTTCCATCAAGTCTTTTTA
Found at i:47614206 original size:25 final size:25
Alignment explanation
Indices: 47614178--47614304 Score: 158
Period size: 25 Copynumber: 5.3 Consensus size: 25
47614168 ACTTTAGCGC
47614178 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
47614203 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
47614228 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACATCAGT
*
47614253 GCTCTCTG--T-TTAGCACATCTGT
1 GCTCTCTGATTATTAGCACATCAGT
*
47614275 GCTCTCTG--TA-TAGCACTTCAGT
1 GCTCTCTGATTATTAGCACATCAGT
47614297 GCTCTCTG
1 GCTCTCTG
47614305 TTCATTAATG
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
22 37 0.40
23 1 0.01
25 54 0.59
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAGT
Found at i:47614276 original size:22 final size:22
Alignment explanation
Indices: 47614190--47614306 Score: 126
Period size: 22 Copynumber: 5.0 Consensus size: 22
47614180 TCTCTGATTA
47614190 TTAGCACATCAGTGCTCTCTGATT
1 TTAGCACATCAGTGCTCTCTG--T
* *
47614214 ATTAGCACGTTAGTGCTCTCTGAT
1 -TTAGCACATCAGTGCTCTCTG-T
*
47614238 TACTAGCACGTCAGTGCTCTCTGT
1 T--TAGCACATCAGTGCTCTCTGT
*
47614262 TTAGCACATCTGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* *
47614284 ATAGCACTTCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
47614306 T
1 T
47614307 CATTAATGCA
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
22 38 0.47
23 1 0.01
24 3 0.04
25 38 0.47
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.38
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:47620372 original size:16 final size:16
Alignment explanation
Indices: 47620335--47620376 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47620325 TTAATCATAT
*
47620335 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
47620351 TT-AAATATATTATAA
1 TTAAAATATATTATAA
47620366 TTAAAATATAT
1 TTAAAATATAT
47620377 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:47620383 original size:14 final size:15
Alignment explanation
Indices: 47620344--47620385 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47620334 TTTAAACATA
*
47620344 ATTATTATTAAATAT
1 ATTATAATTAAATAT
47620359 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
47620373 A-TATAATTTAATA
1 ATTATAATTAAATA
47620386 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:47620558 original size:47 final size:46
Alignment explanation
Indices: 47620507--47620657 Score: 136
Period size: 47 Copynumber: 3.3 Consensus size: 46
47620497 GATTTAATAA
47620507 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
47620554 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
47620595 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
47620642 AATTTAAAATAATTAT
1 AATTTAAAATAATTAT
47620658 TATTAAATAT
Statistics
Matches: 80, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.16
42 11 0.14
43 5 0.06
44 4 0.05
45 5 0.06
46 11 0.14
47 30 0.38
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:47620609 original size:88 final size:88
Alignment explanation
Indices: 47620517--47620677 Score: 270
Period size: 88 Copynumber: 1.8 Consensus size: 88
47620507 AATTTAAAAT
* *
47620517 AATTA-TAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATA
1 AATTATTAA-TAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTATTATTAAATATA
47620581 ATTTAATAAGATATAATTTCATAA
65 ATTTAATAAGATATAATTTCATAA
* *
47620605 AATTATTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTATTATTAAATATAA
1 AATTATTAATAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTATTATTAAATATAA
47620670 TTTAATAA
66 TTTAATAA
47620678 TAAAATGTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
88 66 0.97
89 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (88 bp):
AATTATTAATAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTATTATTAAATATAA
TTTAATAAGATATAATTTCATAA
Found at i:47620653 original size:34 final size:34
Alignment explanation
Indices: 47620613--47620700 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 34
47620603 AAAATTATTG
47620613 ATAATAAATTTTCTTATATGAATTTATATAATTTA
1 ATAATAAA-TTTCTTATATGAATTTATATAATTTA
*
47620648 A-AAT-AA-TTATTAT-T-AA---ATATAATTTA
1 ATAATAAATTTCTTATATGAATTTATATAATTTA
47620674 ATAATAAAATGTTCTTATATGAATTTA
1 ATAAT-AAAT-TTCTTATATGAATTTA
47620701 CTAAAATCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 19
0.66 0.03 0.31
Matches are distributed among these distances:
26 11 0.27
27 3 0.07
29 4 0.10
30 1 0.02
31 12 0.29
32 1 0.02
33 4 0.10
34 3 0.07
35 1 0.02
36 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (34 bp):
ATAATAAATTTCTTATATGAATTTATATAATTTA
Found at i:47631383 original size:15 final size:15
Alignment explanation
Indices: 47631365--47631433 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
47631355 AATAAAAAGT
47631365 TAATTAATATTTATA
1 TAATTAATATTTATA
*
47631380 TAATTAACTA-TTAAA
1 TAATTAA-TATTTATA
47631395 TAATT-ATATTTAGTA
1 TAATTAATATTTA-TA
47631410 TATATT-ATA-TTATA
1 TA-ATTAATATTTATA
* *
47631424 AAAATAATAT
1 TAATTAATAT
47631434 ACATACACGT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
13 4 0.09
14 10 0.23
15 22 0.50
16 8 0.18
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (15 bp):
TAATTAATATTTATA
Found at i:47636912 original size:13 final size:12
Alignment explanation
Indices: 47636888--47636920 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
47636878 GGTCTGCTGC
47636888 TTTTTT-TTTCT
1 TTTTTTCTTTCT
47636899 TTTTCTTCTTTCT
1 TTTT-TTCTTTCT
47636912 TTTTTTCTT
1 TTTTTTCTT
47636921 CTTCTTCGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 7 0.35
13 9 0.45
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTTCT
Found at i:47636922 original size:18 final size:19
Alignment explanation
Indices: 47636887--47636926 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
47636877 TGGTCTGCTG
* *
47636887 CTTTTTTTTTCTTTTTCTT
1 CTTTCTTTTTCTTCTTCTT
47636906 CTTTCTTTTT-TTCTTCTT
1 CTTTCTTTTTCTTCTTCTT
47636924 CTT
1 CTT
47636927 CGGGCCAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
CTTTCTTTTTCTTCTTCTT
Found at i:47637061 original size:18 final size:17
Alignment explanation
Indices: 47637038--47637088 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
47637028 CGCTCCCTTC
47637038 TCTTTTTTCTTCTTTTCT
1 TCTTTTTTCTT-TTTTCT
47637056 TCTTTTTT-TTTTCTCTCT
1 TCTTTTTTCTTTT-T-TCT
*
47637074 TCTCTTTTCTTTTTT
1 TCTTTTTTCTTTTTT
47637089 TGTCTTTTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.07
17 4 0.14
18 19 0.66
19 4 0.14
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TCTTTTTTCTTTTTTCT
Found at i:47637068 original size:22 final size:22
Alignment explanation
Indices: 47637038--47637097 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
47637028 CGCTCCCTTC
47637038 TCTTTTTTCTTCTTTTCTTCTTT
1 TCTTTTTTCTTCTTTTC-TCTTT
*
47637061 T-TTTTTTC-TCTCTTCTCTTT
1 TCTTTTTTCTTCTTTTCTCTTT
47637081 TCTTTTTT-TGTCTTTTC
1 TCTTTTTTCT-TCTTTTC
47637098 GAAAAGCCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 6 0.19
21 12 0.38
22 13 0.41
23 1 0.03
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.77
Consensus pattern (22 bp):
TCTTTTTTCTTCTTTTCTCTTT
Found at i:47637088 original size:7 final size:7
Alignment explanation
Indices: 47637038--47637088 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
47637028 CGCTCCCTTC
47637038 TCTTTTT
1 TCTTTTT
47637045 TCTTCTTT
1 TCTT-TTT
47637053 TCTTCTTT
1 TCTT-TTT
47637061 T-TTTTT
1 TCTTTTT
* *
47637067 TCTCTCT
1 TCTTTTT
*
47637074 TCTCTTT
1 TCTTTTT
47637081 TCTTTTT
1 TCTTTTT
47637088 T
1 T
47637089 TGTCTTTTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
6 4 0.11
7 22 0.58
8 12 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
TCTTTTT
Found at i:47637094 original size:20 final size:18
Alignment explanation
Indices: 47637034--47637094 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 18
47637024 CCAGCGCTCC
47637034 CTTCTCTTTTTTCTTCTTTT
1 CTTCTCTTTTTT-TT-TTTT
*
47637054 CTTCT-TTTTTTTTTCTCT
1 CTTCTCTTTTTTTTT-TTT
47637072 CTTCTCTTTTCTTTTTTTGT
1 CTTCTCTTTT-TTTTTTT-T
47637092 CTT
1 CTT
47637095 TTCGAAAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 1 0.03
18 9 0.26
19 11 0.31
20 14 0.40
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (18 bp):
CTTCTCTTTTTTTTTTTT
Found at i:47637502 original size:29 final size:30
Alignment explanation
Indices: 47637470--47637597 Score: 136
Period size: 29 Copynumber: 4.3 Consensus size: 30
47637460 CATAATTGTG
* *
47637470 GAAAAATAT-GGGTCTAAAATGCAATTTAT
1 GAAAAATTTAGGGTCTAAAATGTAATTTAT
* *
47637499 GAAAATTTTAGGG-CTCAAATGTAATTTAT
1 GAAAAATTTAGGGTCTAAAATGTAATTTAT
*
47637528 GAAAAGTTTAGGGTCTAAAATGTAATTTAT
1 GAAAAATTTAGGGTCTAAAATGTAATTTAT
* * *
47637558 -AAAAAGTTTAGGGGCTAAAATATATATTTTT
1 GAAAAA-TTTAGGGTCTAAAATGTA-ATTTAT
*
47637589 TAAAAATTT
1 GAAAAATTT
47637598 GTATTTTCTG
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
29 37 0.44
30 34 0.40
31 8 0.10
32 5 0.06
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (30 bp):
GAAAAATTTAGGGTCTAAAATGTAATTTAT
Found at i:47637551 original size:30 final size:30
Alignment explanation
Indices: 47637479--47637578 Score: 148
Period size: 30 Copynumber: 3.4 Consensus size: 30
47637469 GGAAAAATAT
* *
47637479 GGGTCTAAAATGCAATTTATGAAAATTTTA
1 GGGTCTAAAATGTAATTTATGAAAAGTTTA
*
47637509 GGG-CTCAAATGTAATTTATGAAAAGTTTA
1 GGGTCTAAAATGTAATTTATGAAAAGTTTA
*
47637538 GGGTCTAAAATGTAATTTATAAAAAGTTTA
1 GGGTCTAAAATGTAATTTATGAAAAGTTTA
*
47637568 GGGGCTAAAAT
1 GGGTCTAAAAT
47637579 ATATATTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 26 0.41
30 37 0.59
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (30 bp):
GGGTCTAAAATGTAATTTATGAAAAGTTTA
Found at i:47637638 original size:17 final size:18
Alignment explanation
Indices: 47637610--47637647 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
47637600 ATTTTCTGAT
47637610 TTATTATTGTTATTATCA
1 TTATTATTGTTATTATCA
*
47637628 TTATT-TTGTTATTATTA
1 TTATTATTGTTATTATCA
47637645 TTA
1 TTA
47637648 AAATTAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (18 bp):
TTATTATTGTTATTATCA
Found at i:47637676 original size:5 final size:5
Alignment explanation
Indices: 47637666--47637699 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
47637656 AAAGCATAAC
*
47637666 AACAA AACAA AAC-A AACAA AACAA AAAAA AACAA
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA
47637700 TAAGGGGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:47639421 original size:28 final size:28
Alignment explanation
Indices: 47639389--47639445 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
47639379 AATAAATATA
47639389 TTTATT-TTTTAAATTTTAAAATACTTTT
1 TTTATTATTTTAAATTTTAAAATA-TTTT
*
47639417 TTTATTATTTTTAATTTTAAAATATTTT
1 TTTATTATTTTAAATTTTAAAATATTTT
47639445 T
1 T
47639446 AAAATACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTATTATTTTAAATTTTAAAATATTTT
Found at i:47639456 original size:29 final size:29
Alignment explanation
Indices: 47639394--47639459 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
47639384 ATATATTTAT
** *
47639394 TTTTTAAATTTTAAAATACTTTTTTTATTA
1 TTTTT-AATTTTAAAATACTTTTTAAAATA
47639424 TTTTTAATTTTAAAATA-TTTTTAAAATA
1 TTTTTAATTTTAAAATACTTTTTAAAATA
47639452 CTTTTTAA
1 -TTTTTAA
47639460 AATTTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 8 0.25
29 19 0.59
30 5 0.16
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTTAATTTTAAAATACTTTTTAAAATA
Found at i:47639458 original size:12 final size:11
Alignment explanation
Indices: 47639431--47639472 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
47639421 TTATTTTTAA
47639431 TTTTAAAATAT
1 TTTTAAAATAT
47639442 TTTTAAAATACT
1 TTTTAAAATA-T
47639454 TTTT-AAA-AT
1 TTTTAAAATAT
47639463 TTTTAAAATA
1 TTTTAAAATA
47639473 AATTTTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.18
10 4 0.14
11 14 0.50
12 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:47639466 original size:21 final size:22
Alignment explanation
Indices: 47639431--47639472 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
47639421 TTATTTTTAA
47639431 TTTTAAAATATTTTTAAAATAC
1 TTTTAAAATATTTTTAAAATAC
*
47639453 TTTTTAAA-ATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATA
47639473 AATTTTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAAATATTTTTAAAATAC
Found at i:47639478 original size:21 final size:23
Alignment explanation
Indices: 47639429--47639478 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
47639419 TATTATTTTT
47639429 AATTTTAAAATATTTTTAAAAT-
1 AATTTTAAAATATTTTTAAAATA
* *
47639451 ACTTTTTAAA-ATTTTTAAAATA
1 AATTTTAAAATATTTTTAAAATA
47639473 AATTTT
1 AATTTT
47639479 TGTATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTAAAATATTTTTAAAATA
Found at i:47639485 original size:21 final size:22
Alignment explanation
Indices: 47639437--47639496 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
47639427 TTAATTTTAA
*
47639437 AATATTTTTAAAAT-ACTTTTT
1 AATATTTTTAAAATAAATTTTT
*
47639458 AAAATTTTTAAAATAAATTTTT
1 AATATTTTTAAAATAAATTTTT
*
47639480 -GTATTTATTAAAA-AAAT
1 AATATTT-TTAAAATAAAT
47639497 GGGCAGGGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AATATTTTTAAAATAAATTTTT
Found at i:47640127 original size:8 final size:8
Alignment explanation
Indices: 47640114--47640140 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
47640104 TTATCATTGT
47640114 TTTTTTTA
1 TTTTTTTA
47640122 TTTTTTTA
1 TTTTTTTA
47640130 TTTTTTTA
1 TTTTTTTA
47640138 TTT
1 TTT
47640141 ACGTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTA
Found at i:47649457 original size:21 final size:21
Alignment explanation
Indices: 47649394--47649466 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 21
47649384 CAGAAATCTC
*
47649394 CCCTCGTTCTTGCTGGTTTCT
1 CCCTCGTTTTTGCTGGTTTCT
* * *
47649415 CCCT--TGTTTACTGGTTTGT
1 CCCTCGTTTTTGCTGGTTTCT
*
47649434 CCCTCGTTTTTGCTAGTTTCT
1 CCCTCGTTTTTGCTGGTTTCT
*
47649455 CCCCTCTTTTTT
1 -CCCTCGTTTTT
47649467 ACTTTGTTCT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
19 15 0.38
21 15 0.38
22 10 0.25
ACGTcount: A:0.03, C:0.30, G:0.15, T:0.52
Consensus pattern (21 bp):
CCCTCGTTTTTGCTGGTTTCT
Found at i:47651975 original size:13 final size:12
Alignment explanation
Indices: 47651951--47651981 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
47651941 TATTGTTGAT
47651951 AATGGGAATGGG
1 AATGGGAATGGG
47651963 AATGGGAAATGGG
1 AATGGG-AATGGG
47651976 AATGGG
1 AATGGG
47651982 TATTGCATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.48, T:0.16
Consensus pattern (12 bp):
AATGGGAATGGG
Found at i:47651997 original size:6 final size:6
Alignment explanation
Indices: 47651951--47651981 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
47651941 TATTGTTGAT
47651951 AATGGG AATGGG AATGGG AAATGGG AATGGG
1 AATGGG AATGGG AATGGG -AATGGG AATGGG
47651982 TATTGCATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.48, T:0.16
Consensus pattern (6 bp):
AATGGG
Found at i:47652063 original size:60 final size:59
Alignment explanation
Indices: 47651988--47652180 Score: 209
Period size: 60 Copynumber: 3.3 Consensus size: 59
47651978 TGGGTATTGC
47651988 ATGGGAATG-GAAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATCGATGGAAAAGGGGAG
1 ATGGGAATGAG-AAATGGGAGGAGGGCACGGTGGAAGAGGGGAAT-GATGGAAAAGGGGAG
* * * * * *
47652048 ATGGGAATGAGAAATGGGAGGACGGCACAGTGGAA-TGGGAAAT--TGG-AATGGGTATTG
1 ATGGGAATGAGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAAAGGGGA--G
* *
47652105 CATGGGAAT-AGGAAATGGGAGGAGGGAACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
1 -ATGGGAATGA-GAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAAAGGGGAG
47652165 ATGGGAATGGAGAAAT
1 ATGGGAAT-GAGAAAT
47652181 TGCATTGTAT
Statistics
Matches: 108, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
55 6 0.06
56 3 0.03
57 2 0.02
58 30 0.28
59 20 0.19
60 37 0.34
61 5 0.05
62 5 0.05
ACGTcount: A:0.35, C:0.04, G:0.47, T:0.13
Consensus pattern (59 bp):
ATGGGAATGAGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAAAGGGGAG
Found at i:47652178 original size:118 final size:118
Alignment explanation
Indices: 47651961--47652180 Score: 381
Period size: 118 Copynumber: 1.9 Consensus size: 118
47651951 AATGGGAATG
*
47651961 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATGGAAAATGGGAGGAGGGCACGGTGGAAGAG
1 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATGGAAAATGGGAGGAGGGAACGGTGGAAGAG
47652026 GGGAATCGATGGAAAAGGGGAGATGGGAATGAGAAATGGGAGGACGGCACAGT
66 GGGAATCGATGGAAAAGGGGAGATGGGAATGAGAAATGGGAGGACGGCACAGT
*
47652079 GGAATGGGAAATTGGAATGGGTATTGCATGGGAATAGG-AAATGGGAGGAGGGAACGGTGGAAGA
1 GGAATGGGAAATGGGAATGGGTATTGCATGGGAAT-GGAAAATGGGAGGAGGGAACGGTGGAAGA
*
47652143 GGGGAAT-GATGGAAGAGGGGAGATGGGAATGGAGAAAT
65 GGGGAATCGATGGAAAAGGGGAGATGGGAAT-GAGAAAT
47652181 TGCATTGTAT
Statistics
Matches: 97, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
117 22 0.23
118 73 0.75
119 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.47, T:0.15
Consensus pattern (118 bp):
GGAATGGGAAATGGGAATGGGTATTGCATGGGAATGGAAAATGGGAGGAGGGAACGGTGGAAGAG
GGGAATCGATGGAAAAGGGGAGATGGGAATGAGAAATGGGAGGACGGCACAGT
Found at i:47655818 original size:21 final size:21
Alignment explanation
Indices: 47655778--47655818 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47655768 TTATCATTGT
* **
47655778 TATAAAAAATTTAATTATAAC
1 TATAAAAAAATTAAAAATAAC
47655799 TATAAAAAAATTAAAAATAA
1 TATAAAAAAATTAAAAATAA
47655819 TTATCATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TATAAAAAAATTAAAAATAAC
Found at i:47656084 original size:21 final size:21
Alignment explanation
Indices: 47656060--47656112 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
47656050 CATTATTTCT
*
47656060 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
47656081 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
47656102 AATCTCACCGC
1 AATCTCACCGC
47656113 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:47656262 original size:17 final size:16
Alignment explanation
Indices: 47656240--47656279 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
47656230 TAAAAAATTA
*
47656240 TATTTTTTTCATCTTTC
1 TATTTTTTT-ACCTTTC
47656257 TATTTTTTTACCTTTC
1 TATTTTTTTACCTTTC
*
47656273 AATTTTT
1 TATTTTT
47656280 ATATTTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTTTTTACCTTTC
Found at i:47656294 original size:16 final size:16
Alignment explanation
Indices: 47656243--47656294 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 16
47656233 AAAATTATAT
*
47656243 TTTTTTCATCTTTCTAT
1 TTTTTT-ATCTTTCTAA
*
47656260 TTTTTTACCTTTC-AA
1 TTTTTTATCTTTCTAA
*
47656275 -TTTTTATATTTCTAA
1 TTTTTTATCTTTCTAA
47656290 TTTTT
1 TTTTT
47656295 ATGAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 10 0.34
15 3 0.10
16 10 0.34
17 6 0.21
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTATCTTTCTAA
Found at i:47665162 original size:46 final size:45
Alignment explanation
Indices: 47665095--47665252 Score: 257
Period size: 46 Copynumber: 3.5 Consensus size: 45
47665085 TGATCAGTGA
47665095 CAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCT-AGCTACACTTATCTGAT
* *
47665141 CAAGTGAAAAAGTTATAAGTGGTAGCCTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGAT
47665187 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
*
47665232 C-AGGGAC-AAGTGATAAGTGGT
1 CAAGTGACAAAGTGATAAGTGGT
47665253 CATACGTAAG
Statistics
Matches: 106, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
43 14 0.13
44 5 0.05
45 19 0.18
46 67 0.63
47 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (45 bp):
CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
Found at i:47684756 original size:31 final size:31
Alignment explanation
Indices: 47684721--47684781 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
47684711 TAACAACCAG
*
47684721 TGACTTCAATAAAACCTATCGAATAGTTCAA
1 TGACTTAAATAAAACCTATCGAATAGTTCAA
* * * *
47684752 TGACTTAAATGAAAGCTTTTGAATAGTTCA
1 TGACTTAAATAAAACCTATCGAATAGTTCA
47684782 GTGATATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (31 bp):
TGACTTAAATAAAACCTATCGAATAGTTCAA
Found at i:47685239 original size:22 final size:23
Alignment explanation
Indices: 47685214--47685256 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
47685204 AATTGAATTT
47685214 TTAAA-TCTGAAAAATAAAAGGA
1 TTAAATTCTGAAAAATAAAAGGA
*
47685236 TTAAATTTTGAAAAATAAAAG
1 TTAAATTCTGAAAAATAAAAG
47685257 TAAGAGGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.28
Consensus pattern (23 bp):
TTAAATTCTGAAAAATAAAAGGA
Found at i:47690917 original size:31 final size:31
Alignment explanation
Indices: 47690881--47690959 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
47690871 GGACCCCAAA
* *
47690881 AAGTTTAAGTACCAACTTAAGAAGAA-GTGTC
1 AAGTTTAAGTACCAAATT-AGAAAAAGGTGTC
* *
47690912 AAGTTTAGGTATCAAATTAGAAAAAGGTGTC
1 AAGTTTAAGTACCAAATTAGAAAAAGGTGTC
*
47690943 AAGTTCAAGTACCAAAT
1 AAGTTTAAGTACCAAAT
47690960 GTTATATTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 6 0.15
31 34 0.85
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGAAAAAGGTGTC
Found at i:47697234 original size:21 final size:23
Alignment explanation
Indices: 47697201--47697252 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
47697191 ATAAAAAAAG
* *
47697201 TTAAAAAT-TTTATAA-T-TTAT
1 TTAAAAATAATTATAATTATTAA
47697221 TTAAAAATAATTATAATTATTAA
1 TTAAAAATAATTATAATTATTAA
47697244 TTAAAAATA
1 TTAAAAATA
47697253 TTGTACTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 1 0.04
23 12 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAAAAATAATTATAATTATTAA
Found at i:47697551 original size:19 final size:20
Alignment explanation
Indices: 47697524--47697572 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
47697514 ATTCAAAATT
*
47697524 TAAATATATGAATTTA-TAA
1 TAAAAATATGAATTTAGTAA
* *
47697543 TAAAAATATTAATTTAGTGA
1 TAAAAATATGAATTTAGTAA
*
47697563 TAAAATTATG
1 TAAAAATATG
47697573 TAAACTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
TAAAAATATGAATTTAGTAA
Found at i:47702652 original size:107 final size:105
Alignment explanation
Indices: 47702442--47703171 Score: 859
Period size: 107 Copynumber: 6.8 Consensus size: 105
47702432 TCTAATTGAT
* * *
47702442 GCAATATTTAGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCATTC
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTT-CGATTTCTCGTTC
* * * *
47702507 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAAT-ATG
65 AACCAAATAGCTAAATATCC-TTTCAAAATTATCAAAATGA-G
* * * *
47702549 GCAATATTTTGCGTTTGGAGATTCGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
1 GCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGT-TCGA--TTTCTCG
*
47702614 TTCAACCAAATAGCTAAATATCCTTTC-AATTTAT-AAAATGAG
62 TTCAACCAAATAGCTAAATATCCTTTCAAAATTATCAAAATGAG
47702656 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTT-CGATTTCTCGTTC
* * * *
47702721 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAAT-ATG
65 AACCAAATAGCTAAATATCC-TTTCAAAATTATCAAAATGA-G
* *
47702763 GCAATGTTTTGCGTTT-GAAGATTCGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
1 GCAATGTTTTGCGTTTGGAA-ATTCGAG-GAACGTGCCCTAAGGTGCTGGGT-TCGA--TTTCTC
*
47702827 GTTCAACCAAATAGCTAAATATCCTTTC-AATTTAT-AAAATGAG
61 GTTCAACCAAATAGCTAAATATCCTTTCAAAATTATCAAAATGAG
47702870 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTT-CGATTTCTCGTTC
* * * *
47702935 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAAT-ATG
65 AACCAAATAGCTAAATATCC-TTTCAAAATTATCAAAATGA-G
* *
47702977 GCAATGTTTTGCGTTT-GAAGATTCGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
1 GCAATGTTTTGCGTTTGGAA-ATTCGAG-GAACGTGCCCTAAGGTGCTGGGT-TCGA--TTTCTC
*
47703041 GTTCAACCAAATAGCAAAATATCCTTTCAAAAGTTAT-AAAATGAG
61 GTTCAACCAAATAGCTAAATATCCTTTCAAAA-TTATCAAAATGAG
** * * * *
47703086 GCAACATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGTTGGGTTCCAATTTCTTGTTT
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTT-CGATTTCTCGTTC
* *
47703151 AACCAAATTGTTAAATATCCT
65 AACCAAATAGCTAAATATCCT
47703172 CTTGAATTTT
Statistics
Matches: 541, Mismatches: 51, Indels: 63
0.83 0.08 0.10
Matches are distributed among these distances:
104 56 0.10
105 10 0.02
106 90 0.17
107 144 0.27
108 107 0.20
109 46 0.09
110 88 0.16
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (105 bp):
GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTCGATTTCTCGTTCA
ACCAAATAGCTAAATATCCTTTCAAAATTATCAAAATGAG
Found at i:47702821 original size:214 final size:214
Alignment explanation
Indices: 47702442--47703171 Score: 1291
Period size: 214 Copynumber: 3.4 Consensus size: 214
47702432 TCTAATTGAT
* *
47702442 GCAATATTTAGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCATTC
1 GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
* *
47702507 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATATTTTGCGTTTGGAGATT
66 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATGTTTTGCGTTTGAAGATT
47702572 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
131 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
47702637 TTTCAATTTATAAAATGAG
196 TTTCAATTTATAAAATGAG
*
47702656 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
47702721 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATGTTTTGCGTTTGAAGATT
66 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATGTTTTGCGTTTGAAGATT
47702786 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
131 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
47702851 TTTCAATTTATAAAATGAG
196 TTTCAATTTATAAAATGAG
*
47702870 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
47702935 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATGTTTTGCGTTTGAAGATT
66 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATGTTTTGCGTTTGAAGATT
*
47703000 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCAAAATATCC
131 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
*
47703065 TTTCAAAAGTTATAAAATGAG
196 TTTC--AATTTATAAAATGAG
* * * * * *
47703086 GCAACATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGTTGGGTTCCAATTTCTTGTTT
1 GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
*
47703151 AACCAAATTG-TTAAATATCCT
66 AACCAAATGGCTT-AATATCCT
47703172 CTTGAATTTT
Statistics
Matches: 498, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
214 407 0.82
215 2 0.00
216 89 0.18
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (214 bp):
GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATGTTTTGCGTTTGAAGATT
CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
TTTCAATTTATAAAATGAG
Found at i:47715089 original size:44 final size:44
Alignment explanation
Indices: 47714849--47715320 Score: 287
Period size: 44 Copynumber: 10.9 Consensus size: 44
47714839 GGTAAATATT
*
47714849 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAC
** * * * * * *
47714893 A-CTATCCTATCTCCCTGA-AGTTACAGTAGAACGGAT-TAA-AA
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAC
* * * * **
47714934 AG-GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TT
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAC
* * * *
47714976 AG-G-TCTTATCACTCTGAGGTTACAGTGGAGCAGACCGAAGA-
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAC
* * * * * *
47715017 ATTTCAGATCTTATCTCTCTGAGGTTACAGTGGAACAGATTGAAGCC
1 A---GAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAC
*
47715064 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAC
** * * * * *
47715108 A-CTATCCTATCTCCCTGA-AGTTACAGTGGAACAGAT-TAAAAT
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAC
* * * * * *
47715150 AAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TC
1 AGA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAC
* * * *
47715194 AG-G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAC
* * * * *
47715235 ATTTTAGATTTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
1 A---GAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAC
47715282 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCG
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCG
47715321 CATCAAGTCT
Statistics
Matches: 330, Mismatches: 75, Indels: 46
0.73 0.17 0.10
Matches are distributed among these distances:
41 92 0.28
42 13 0.04
43 54 0.16
44 101 0.31
45 3 0.01
46 65 0.20
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAC
Found at i:47715188 original size:87 final size:87
Alignment explanation
Indices: 47715028--47715189 Score: 202
Period size: 87 Copynumber: 1.9 Consensus size: 87
47715018 TTTCAGATCT
* * * ** *
47715028 TATCTCTCTGAGGTTACAGTGGAACAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAACAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
47715093 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
* *
47715115 TATCTCCCTGAAGTTACAGTGGAACAGATTAAAATAAAG-GATCTTATCTCTCTGA-AGTTACAG
1 TATCTCCCTGAAGTTACAGTGGAACAGATT-AAAGAAAGAGATCTTATCTCCCTGAGA-TTACAG
* *
47715178 TAGAGTAGATCG
64 CAGAGCAGATCG
47715190 CATCAGGTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 1 0.02
87 58 0.92
88 4 0.06
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAACAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:47715231 original size:218 final size:215
Alignment explanation
Indices: 47714849--47715320 Score: 827
Period size: 218 Copynumber: 2.2 Consensus size: 215
47714839 GGTAAATATT
47714849 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
* *
47714914 TACAGTAGAACGGATTAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATTAGG
66 TACAGTAGAACAGATTAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
*
47714979 TCTTATCACTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCTCTGAGGTTA
131 TCTTATCACTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
47715044 CAGTGGAACAGATTGAAGCC
196 CAGTGGAACAGATTGAAGCC
47715064 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
*
47715129 TACAGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
66 TACAGTAGAACAGATT--AA-AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
* * * *
47715194 AGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAGATTTTATCTCCCTGAGG
128 AGGTCTTATCACTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
*
47715259 TTACAGTGGAGCAGATTGAAGCC
193 TTACAGTGGAACAGATTGAAGCC
*
47715282 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCG
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
47715321 CATCAAGTCT
Statistics
Matches: 244, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
215 79 0.32
217 2 0.01
218 163 0.67
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (215 bp):
AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
TACAGTAGAACAGATTAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
TCTTATCACTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAACAGATTGAAGCC
Found at i:47715478 original size:40 final size:41
Alignment explanation
Indices: 47715307--47715485 Score: 150
Period size: 44 Copynumber: 4.3 Consensus size: 41
47715297 CTGAGATTAC
47715307 AGTGGAGCAGATCG-CATCAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGACATCAAGTCTTATCTCCCTAAGCAGT
* * * *
47715347 AGTGGAGTAGACAGA-AGAAATCAAGTCCTATCTTCCTAAGCAGT
1 AGT-G-G-AG-CAGATCGACATCAAGTCTTATCTCCCTAAGCAGT
* * * * * * *
47715391 AATGGAGTAGGTTGAACCTTGC-AGATTTTATATCCCTAAGCAGT
1 AGTGGAGCAGATCG-A-CAT-CAAG-TCTTATCTCCCTAAGCAGT
*
47715435 AGTGGAGCAGATCG-CATCAAGTCTTATCTCCCTAAGTAGT
1 AGTGGAGCAGATCGACATCAAGTCTTATCTCCCTAAGCAGT
47715475 AGTGGAGCAGA
1 AGTGGAGCAGA
47715486 CAGAACCAAT
Statistics
Matches: 106, Mismatches: 22, Indels: 22
0.71 0.15 0.15
Matches are distributed among these distances:
40 33 0.31
41 8 0.08
42 3 0.03
43 7 0.07
44 55 0.52
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (41 bp):
AGTGGAGCAGATCGACATCAAGTCTTATCTCCCTAAGCAGT
Found at i:47717847 original size:107 final size:105
Alignment explanation
Indices: 47717630--47718145 Score: 596
Period size: 107 Copynumber: 4.8 Consensus size: 105
47717620 TCTAATTGAT
* *
47717630 GCAATATTTAGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
* * ** *
47717695 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAAT-ATG
66 AACCAAATAGCTAAATATCC-TTTCAAATTTAT-AAAATGA-G
* * * * * *
47717737 GCAATGTTTTACGTTTGGAGATTCGAGATAACATGCCTTAAGGTGTTGGG-TGTCGATTTTTCTC
1 GCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTG-CGA--TTTCTC
47717801 GTTCAACCAAATAGCTAAATATCCTTTC-AATTTATAAAATGAG
62 GTTCAACCAAATAGCTAAATATCCTTTCAAATTTATAAAATGAG
47717844 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
* *
47717909 AACCAAATGGCTTAATATCCTTTTCAAAAATCTTA-AAATATGA-
66 AACCAAATAGCTAAATATCC-TTTC--AAAT-TTATAAA-ATGAG
* * *
47717952 -CAATGTTTTGCGTTTGGAGATTCGAGATAACATGCCCTAAGGTGCTGGG-TGTCGATTTTTCTC
1 GCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTG-CGA--TTTCTC
*
47718015 GTTCAACCAAATAGCTAAATATCCTTTCAAAAGTTATAAAATGAG
62 GTTCAACCAAATAGCTAAATATCCTTTC-AAATTTATAAAATGAG
* * * * *
47718060 GCAACGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGTTGGGTTCCGATTTCTCATTT
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
* *
47718125 AACCAAATTGTTAAATATCCT
66 AACCAAATAGCTAAATATCCT
47718146 CTTGAATTTT
Statistics
Matches: 352, Mismatches: 37, Indels: 41
0.82 0.09 0.10
Matches are distributed among these distances:
104 28 0.08
105 4 0.01
106 48 0.14
107 92 0.26
108 84 0.24
109 40 0.11
110 56 0.16
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (105 bp):
GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
AACCAAATAGCTAAATATCCTTTCAAATTTATAAAATGAG
Found at i:47718009 original size:214 final size:215
Alignment explanation
Indices: 47717630--47718145 Score: 874
Period size: 214 Copynumber: 2.4 Consensus size: 215
47717620 TCTAATTGAT
* *
47717630 GCAATATTTAGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
*
47717695 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATGTTTTACGTTTGGAGATT
66 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGACAATGTTTTACGTTTGGAGATT
* *
47717760 CGAGATAACATGCCTTAAGGTGTTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
131 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
*
47717825 TTTC-AATTTATAAAATGAG
196 TTTCAAAGTTATAAAATGAG
47717844 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
* *
47717909 AACCAAATGGCTTAATATCCTTTTCAAAAATCTTAAAATATGACAATGTTTTGCGTTTGGAGATT
66 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGACAATGTTTTACGTTTGGAGATT
47717974 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
131 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
47718039 TTTCAAAAGTTATAAAATGAG
196 TTTC-AAAGTTATAAAATGAG
* * * * *
47718060 GCAACGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGTTGGGTTCCGATTTCTCATTT
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
*
47718125 AACCAAATTG-TTAAATATCCT
66 AACCAAATGGCTT-AATATCCT
47718146 CTTGAATTTT
Statistics
Matches: 285, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
214 192 0.67
215 2 0.01
216 91 0.32
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (215 bp):
GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGACAATGTTTTACGTTTGGAGATT
CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
TTTCAAAGTTATAAAATGAG
Found at i:47721971 original size:25 final size:24
Alignment explanation
Indices: 47721917--47721987 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
47721907 CAACTCACAT
* * *
47721917 GAGCTTACCGTTACTCAGCTCGGA
1 GAGCTTACCATTATTCAGCTCGAA
47721941 GTAGCTTACCATTATTCAGCTCGAAA
1 G-AGCTTACCATTATTCAGCTCG-AA
*
47721967 GAGCTTACCATT-TACAGCTCG
1 GAGCTTACCATTATTCAGCTCG
47721988 TACAAGCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.22
25 30 0.73
26 2 0.05
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (24 bp):
GAGCTTACCATTATTCAGCTCGAA
Found at i:47726351 original size:18 final size:18
Alignment explanation
Indices: 47726325--47726359 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47726315 TCATCCATGT
*
47726325 TTTGAATGTTAATGTTGC
1 TTTGAATGTTAAGGTTGC
*
47726343 TTTGTATGTTAAGGTTG
1 TTTGAATGTTAAGGTTG
47726360 ATTTTGCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.26, T:0.51
Consensus pattern (18 bp):
TTTGAATGTTAAGGTTGC
Found at i:47735194 original size:20 final size:20
Alignment explanation
Indices: 47735155--47735199 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
47735145 TATTAAATTG
*
47735155 TTTTATTTATAAGACCATTA
1 TTTTATTTATAAAACCATTA
**
47735175 TTTTATTTATAAAATTATTA
1 TTTTATTTATAAAACCATTA
47735195 TTTTA
1 TTTTA
47735200 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTATTTATAAAACCATTA
Found at i:47735278 original size:20 final size:20
Alignment explanation
Indices: 47735255--47735302 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
47735245 ATTTATCAAT
*
47735255 ATTTTTAT-AATTTTGTATGC
1 ATTTTTATAAAATTT-TATGC
*
47735275 ATTTTTATAAAATTTTATGT
1 ATTTTTATAAAATTTTATGC
47735295 ATTTTTAT
1 ATTTTTAT
47735303 CGAAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.62
Consensus pattern (20 bp):
ATTTTTATAAAATTTTATGC
Found at i:47735324 original size:12 final size:12
Alignment explanation
Indices: 47735307--47735331 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47735297 TTTTATCGAA
47735307 AAATAAATTTTT
1 AAATAAATTTTT
47735319 AAATAAATTTTT
1 AAATAAATTTTT
47735331 A
1 A
47735332 TTCTTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAAATTTTT
Found at i:47735342 original size:26 final size:22
Alignment explanation
Indices: 47735310--47735361 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 22
47735300 TATCGAAAAA
47735310 TAAATTTTTAAATAAATTTTTATTCT
1 TAAATTTTT-AA-AAA-TTTTATT-T
47735336 TAAATTTTTAAAAATTTTATTT
1 TAAATTTTTAAAAATTTTATTT
47735358 TAAA
1 TAAA
47735362 AATAAGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.19
23 7 0.27
24 3 0.12
25 2 0.08
26 9 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TAAATTTTTAAAAATTTTATTT
Found at i:47739496 original size:6 final size:6
Alignment explanation
Indices: 47739485--47739513 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47739475 TTCATATCAC
47739485 TTATAT TTATAT TTATAT TTATAT TTATA
1 TTATAT TTATAT TTATAT TTATAT TTATA
47739514 CAAGAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:47740689 original size:6 final size:6
Alignment explanation
Indices: 47740678--47740719 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
47740668 CTCATCATTA
47740678 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC
47740720 AGAGTATCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCTTTC
Found at i:47756135 original size:18 final size:17
Alignment explanation
Indices: 47756112--47756155 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
47756102 TGCTTTGAAG
*
47756112 TTTTTAATTGTTATAATA
1 TTTTTAATTATT-TAATA
47756130 TTTTTAATTATTTAATA
1 TTTTTAATTATTTAATA
47756147 TATTTTAAT
1 T-TTTTAAT
47756156 AGATTCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTTAATTATTTAATA
Found at i:47763255 original size:166 final size:166
Alignment explanation
Indices: 47762981--47763315 Score: 661
Period size: 166 Copynumber: 2.0 Consensus size: 166
47762971 CAAACCGAAA
*
47762981 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCTAATTAGTTCAACTTGTTTACTTCTTT
1 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
47763046 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
66 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
47763111 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
131 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
47763147 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
1 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
47763212 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
66 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
47763277 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
131 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
47763313 TTA
1 TTA
47763316 TTAAACATAC
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 168 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (166 bp):
TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
Found at i:47767445 original size:24 final size:24
Alignment explanation
Indices: 47767418--47767469 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
47767408 TTTTTAGAAG
* **
47767418 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
47767442 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
47767466 ATTT
1 ATTT
47767470 GACTTTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:47774550 original size:11 final size:11
Alignment explanation
Indices: 47774529--47774557 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47774519 CTATTGTCAA
47774529 ATTTTTA-AAT
1 ATTTTTATAAT
47774539 ATTTTTATAAT
1 ATTTTTATAAT
47774550 ATTTTTAT
1 ATTTTTAT
47774558 CATAATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTTTTATAAT
Found at i:47774612 original size:20 final size:20
Alignment explanation
Indices: 47774566--47774618 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
47774556 ATCATAATCA
*
47774566 TTAATAATTAATTACAAAATT
1 TTAATAATT-TTTACAAAATT
* **
47774587 TAAATAATTTTTACAACTTT
1 TTAATAATTTTTACAAAATT
47774607 TTAATAAATTTT
1 TTAAT-AATTTT
47774619 GTAATATCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAATAATTTTTACAAAATT
Found at i:47781222 original size:3 final size:3
Alignment explanation
Indices: 47781214--47781239 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47781204 GTAGATCATT
47781214 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
47781240 GCAGATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:47788696 original size:28 final size:28
Alignment explanation
Indices: 47788655--47788724 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
47788645 AGTATTAATA
* * *
47788655 ATTTTATAT-TTTTTTACACTTTTCTAT
1 ATTTTAAATATTTTTAACAATTTTCTAT
* *
47788682 ATTTTTAAATATTTTTAATAATTTTCTGT
1 A-TTTTAAATATTTTTAACAATTTTCTAT
47788711 ATTTTAAA-ATTTTT
1 ATTTTAAATATTTTT
47788725 GTATATTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 7 0.19
28 14 0.39
29 15 0.42
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (28 bp):
ATTTTAAATATTTTTAACAATTTTCTAT
Found at i:47788717 original size:18 final size:16
Alignment explanation
Indices: 47788694--47788728 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
47788684 TTTTAAATAT
47788694 TTTTAATAATTTTCTGTA
1 TTTTAA-AATTTT-TGTA
47788712 TTTTAAAATTTTTGTA
1 TTTTAAAATTTTTGTA
47788728 T
1 T
47788729 ATTGAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (16 bp):
TTTTAAAATTTTTGTA
Found at i:47804990 original size:25 final size:25
Alignment explanation
Indices: 47804962--47805009 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
47804952 TACAGCTCTT
47804962 ATGAGCTTACC-GTTACATGGCTCAC
1 ATGAGCTT-CCTGTTACATGGCTCAC
*
47804987 ATGAGCTTCCTGTTATATGGCTC
1 ATGAGCTTCCTGTTACATGGCTC
47805010 GAAAGAGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCTGTTACATGGCTCAC
Found at i:47813945 original size:110 final size:110
Alignment explanation
Indices: 47813751--47814156 Score: 642
Period size: 110 Copynumber: 3.7 Consensus size: 110
47813741 TACTTCAAAA
* *
47813751 TTAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTG
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTG
47813816 CTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
65 CTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
*
47813862 TTAAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
47813927 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
*
47813972 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGC
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
* * * * *
47814037 TAGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATA-CC-CC
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
* *
47814080 TTCAAAAATTTCAAAATAAGGCAATGTTTTGC-TTT-GAAATTTCGAG-GAACGTGCCCTAAGGT
1 TT-AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAA-TTCGAGAAAACATGCCCTAAGGT
*
47814142 GCTGGGTTTCGATTT
64 GCTGGGTGTCGATTT
47814157 CTCGTTTATC
Statistics
Matches: 278, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
107 31 0.11
108 11 0.04
109 31 0.11
110 172 0.62
111 33 0.12
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (110 bp):
TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
Found at i:47815706 original size:57 final size:57
Alignment explanation
Indices: 47815607--47815720 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
47815597 GATCCTATCC
* *
47815607 TGATATAGCCCTCCCGAAGAATATGTGTGAAAAATATCTAGCCCGGATGGGTGATCT
1 TGATATAGCCCTCCCGAAGAATATGTGTGAAAAATATCTAGCCCGGACGGGTAATCT
*
47815664 TGATATAGCCCTCCCGAAGAATATGTG-G-AAAATGGATTTAGCCCGGACGGGTAATCT
1 TGATATAGCCCTCCCGAAGAATATGTGTGAAAAAT--ATCTAGCCCGGACGGGTAATCT
47815721 GAATTAGGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
55 5 0.10
56 1 0.02
57 46 0.88
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (57 bp):
TGATATAGCCCTCCCGAAGAATATGTGTGAAAAATATCTAGCCCGGACGGGTAATCT
Found at i:47829629 original size:50 final size:49
Alignment explanation
Indices: 47829562--47829658 Score: 149
Period size: 50 Copynumber: 2.0 Consensus size: 49
47829552 TTAACTATTA
* * *
47829562 TCATTCGATACACGTAGTAGCCTTCACATAGTACTATACATGTGACCTT
1 TCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCTT
*
47829611 TCATTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACC
1 TCATT-CGATACACGTAGTAGCCTACACATAGTACTACACACGTGACC
47829659 ATCACTTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 5 0.12
50 38 0.88
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (49 bp):
TCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCTT
Found at i:47831126 original size:2 final size:2
Alignment explanation
Indices: 47831119--47831148 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47831109 CGGAAGCACA
47831119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47831149 TAAGTGGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47837236 original size:21 final size:21
Alignment explanation
Indices: 47837211--47837251 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47837201 TAAAAGGCCA
* *
47837211 AAAAAATACAATTTAAAAATT
1 AAAAAATAAAAATTAAAAATT
*
47837232 AAAAATTAAAAATTAAAAAT
1 AAAAAATAAAAATTAAAAAT
47837252 ATGAAGGGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAAATAAAAATTAAAAATT
Found at i:47837242 original size:6 final size:7
Alignment explanation
Indices: 47837223--47837251 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
47837213 AAAATACAAT
47837223 TTAAAAA
1 TTAAAAA
47837230 TTAAAAA
1 TTAAAAA
47837237 TTAAAAA
1 TTAAAAA
47837244 TTAAAAA
1 TTAAAAA
47837251 T
1 T
47837252 ATGAAGGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:47845381 original size:24 final size:24
Alignment explanation
Indices: 47845302--47845386 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
47845292 TTGAGTCATT
* *
47845302 TAACGGGAAGCTCATGTGAGCCATG
1 TAACGGGAAGCTCATGAGAGCC-TA
* * * *
47845327 TAACGGGAAGCTTATAATAGTC-A
1 TAACGGGAAGCTCATGAGAGCCTA
47845350 TAATCGGGAAGCTCATGAGAGCCTA
1 TAA-CGGGAAGCTCATGAGAGCCTA
*
47845375 TAACGGGTAGCT
1 TAACGGGAAGCT
47845387 TCGAAGAGCC
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
23 3 0.06
24 23 0.49
25 21 0.45
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (24 bp):
TAACGGGAAGCTCATGAGAGCCTA
Found at i:47845402 original size:49 final size:49
Alignment explanation
Indices: 47845305--47845402 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
47845295 AGTCATTTAA
* * * * *
47845305 CGGGAAGCTCATGTGAGCCATGTAACGGGAAGCTTATAATAGTCATAAT
1 CGGGAAGCTCATGAGAGCCATATAACGGGAAGCTTAGAAGAGCCATAAT
* *
47845354 CGGGAAGCTCATGAGAGCC-TATAACGGGTAGCTTCGAAGAGCCAATAAT
1 CGGGAAGCTCATGAGAGCCATATAACGGGAAGCTTAGAAGAGCC-ATAAT
47845403 TAGGAGCTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 18 0.44
49 23 0.56
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (49 bp):
CGGGAAGCTCATGAGAGCCATATAACGGGAAGCTTAGAAGAGCCATAAT
Found at i:47848300 original size:47 final size:47
Alignment explanation
Indices: 47848230--47848325 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 47
47848220 ATATATATAA
* * * *
47848230 ATGTATTTGTTATGCATGAAAATGAGTTAATCTATAGCTAAATGTAT
1 ATGTAATTGTTATGCATGAAAATGAATTAAACTATAGCCAAATGTAT
* *
47848277 ATGTAATTGTTATGCA-GAGAAATGAATTAAACTATGGCCGAATGTAT
1 ATGTAATTGTTATGCATGA-AAATGAATTAAACTATAGCCAAATGTAT
47848324 AT
1 AT
47848326 ATATATATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 2 0.05
47 40 0.95
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (47 bp):
ATGTAATTGTTATGCATGAAAATGAATTAAACTATAGCCAAATGTAT
Found at i:47848519 original size:41 final size:41
Alignment explanation
Indices: 47848460--47848575 Score: 169
Period size: 41 Copynumber: 2.8 Consensus size: 41
47848450 TTTTGTAAGT
47848460 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* *
47848501 TTGGGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* * * * *
47848542 TCGGGCTTTGTGTCTAGAAGGCTTTATGCCGGTG
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTG
47848576 TTTTATATAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
Found at i:47852324 original size:18 final size:18
Alignment explanation
Indices: 47852301--47852336 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47852291 ACTATTTTAG
*
47852301 ATCAAGAAAAAGTGAAAA
1 ATCAAGAAAAAGAGAAAA
*
47852319 ATCAAGGAAAAGAGAAAA
1 ATCAAGAAAAAGAGAAAA
47852337 TTACAGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (18 bp):
ATCAAGAAAAAGAGAAAA
Found at i:47855127 original size:25 final size:24
Alignment explanation
Indices: 47855048--47855128 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
47855038 TTTGTGAACC
* *
47855048 TCCCATTAAAGGCTTTTTGGAGCT
1 TCCCGTTAAAGGCTCTTTGGAGCT
* *
47855072 TCCCGTT-AAGTTCTCTTCGGAGCT
1 TCCCGTTAAAG-GCTCTTTGGAGCT
*
47855096 ACCCGTTAAAGGCTCTTTGTGAGCT
1 TCCCGTTAAAGGCTCTTTG-GAGCT
*
47855121 TCTCGTTA
1 TCCCGTTA
47855129 CTTGCTCATA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
23 3 0.07
24 28 0.62
25 14 0.31
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (24 bp):
TCCCGTTAAAGGCTCTTTGGAGCT
Found at i:47857809 original size:34 final size:35
Alignment explanation
Indices: 47857765--47857831 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
47857755 AAGTAAAATA
*
47857765 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
47857799 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
47857832 CCGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Done.