Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 288 of 322
Found at i:95615096 original size:50 final size:50
Alignment explanation
Indices: 95615039--95615137 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
95615029 CAAACAATCG
* * *
95615039 TCATCATCAATTTGAAATTCGGATTCCATATTCGGAACACATTCAGCCCA
1 TCATCATCAATTTGAAACTCCGATTCCATATTCGGAACACACTCAGCCCA
* *
95615089 TCATCATCAATTTGAAACTCCGATTCCTTGTTCGGAACACACTCAGCCC
1 TCATCATCAATTTGAAACTCCGATTCCATATTCGGAACACACTCAGCCC
95615138 GTTTTGCAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (50 bp):
TCATCATCAATTTGAAACTCCGATTCCATATTCGGAACACACTCAGCCCA
Found at i:95619959 original size:40 final size:40
Alignment explanation
Indices: 95619922--95620173 Score: 400
Period size: 40 Copynumber: 6.3 Consensus size: 40
95619912 GCTACTCGTT
* *
95619922 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
95619962 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
95620002 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
95620042 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
95620082 CAAATGCCTTCGGAACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
95620122 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
95620161 CAAATGCCTTCGG
1 CAAATGCCTTCGG
95620174 ATCTTAGTCC
Statistics
Matches: 199, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.17
40 163 0.82
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:95623485 original size:16 final size:18
Alignment explanation
Indices: 95623453--95623488 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
95623443 TATTTTATGC
95623453 AAAAGAAAGGAAATAAAT
1 AAAAGAAAGGAAATAAAT
95623471 AAAAGAAA-G-AATAAAT
1 AAAAGAAAGGAAATAAAT
95623487 AA
1 AA
95623489 GAAACGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAAGAAAGGAAATAAAT
Found at i:95625265 original size:40 final size:40
Alignment explanation
Indices: 95625186--95625362 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
95625176 CGGATGATAA
* *
95625186 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
95625226 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
95625266 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
95625306 CCGGGCTAAGACCTGAGGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
95625346 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
95625363 ATACTTGGGT
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 101 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:95628058 original size:16 final size:16
Alignment explanation
Indices: 95628037--95628072 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
95628027 ACACGGAAGC
95628037 TTTTGAAACTAAATAA
1 TTTTGAAACTAAATAA
95628053 TTTTGAAACTAAATAA
1 TTTTGAAACTAAATAA
95628069 TTTT
1 TTTT
95628073 CGTAATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
TTTTGAAACTAAATAA
Found at i:95629948 original size:27 final size:27
Alignment explanation
Indices: 95629918--95629969 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
95629908 AACACGCCAA
* *
95629918 TATAATATAGCCTCCCAAGCACACCGG
1 TATAACATAGCCTCCCAAACACACCGG
*
95629945 TATAACATATCCTCCCAAACACACC
1 TATAACATAGCCTCCCAAACACACC
95629970 AATAAGGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.37, G:0.08, T:0.19
Consensus pattern (27 bp):
TATAACATAGCCTCCCAAACACACCGG
Found at i:95630885 original size:17 final size:17
Alignment explanation
Indices: 95630863--95630898 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
95630853 CTTTTTTTCG
95630863 TTTTGTTC-TCTGTTCTT
1 TTTTGTTCTTCT-TTCTT
95630880 TTTTGTTCTTCTTTCTT
1 TTTTGTTCTTCTTTCTT
95630897 TT
1 TT
95630899 ACTTTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.00, C:0.17, G:0.08, T:0.75
Consensus pattern (17 bp):
TTTTGTTCTTCTTTCTT
Found at i:95632759 original size:15 final size:16
Alignment explanation
Indices: 95632739--95632768 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
95632729 CAGCAATCCC
95632739 GTAACAAAA-TCCATA
1 GTAACAAAATTCCATA
95632754 GTAACAAAATTCCAT
1 GTAACAAAATTCCAT
95632769 TTCTATTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (16 bp):
GTAACAAAATTCCATA
Found at i:95636617 original size:39 final size:39
Alignment explanation
Indices: 95636413--95636635 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
95636403 TTGAATGCTG
* * * * *
95636413 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
95636453 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
95636492 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* * *
95636533 TCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
95636573 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
95636612 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
95636636 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 40 0.26
40 101 0.65
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:95639687 original size:44 final size:44
Alignment explanation
Indices: 95639533--95639748 Score: 166
Period size: 47 Copynumber: 4.6 Consensus size: 44
95639523 TGCGCCAGTA
* * *
95639533 TAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGC-TCAAGA-GTGAGCTAGTG
* *
95639581 TAAGACATGTCTGGGACATGCATCGGCCTCGACAAAGAT-AGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGG-CTC-A-AGAG-TGAGCTAGTG
* * *
95639628 TGAGACTTGTCTGGGACATGCATCGGCT-AAGAGTTGTGCTAGTG
1 TAAGACATGTCTGGGACATGCATCGGCTCAAGAG-TGAGCTAGTG
* * * *
95639672 TAAGACATGTCTGGGACATGCATCGGCATACATATATGAGAGTTAGTA
1 TAAGACATGTCTGGGACATGCATCGGC-T-CA-AGA-GTGAGCTAGTG
*
95639720 TAAGACGATGTTTGGGACATGGCATCGGC
1 TAAGAC-ATGTCTGGGACAT-GCATCGGC
95639749 AATTTATCCC
Statistics
Matches: 137, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
43 4 0.03
44 32 0.23
45 1 0.01
46 11 0.08
47 47 0.34
48 21 0.15
49 13 0.09
50 8 0.06
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCGGCTCAAGAGTGAGCTAGTG
Found at i:95642111 original size:16 final size:16
Alignment explanation
Indices: 95642092--95642122 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95642082 CTTTTTCACT
95642092 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
95642108 TACTTACTTACTTAA
1 TACTCACTTACTTAA
95642123 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:95642128 original size:20 final size:20
Alignment explanation
Indices: 95642089--95642128 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
95642079 AAACTTTTTC
* *
95642089 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
95642109 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
95642129 TTATTAATAT
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:95645927 original size:29 final size:30
Alignment explanation
Indices: 95645884--95645941 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
95645874 CTTCCTTTCC
* *
95645884 CTTTTTTAATAAATGACCCAGTATTTTTAA
1 CTTTTTTAATAAATGACCCAATATGTTTAA
* *
95645914 CTTTTTT-GTAAATGGCCCAATATGTTTA
1 CTTTTTTAATAAATGACCCAATATGTTTA
95645942 TGCTTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (30 bp):
CTTTTTTAATAAATGACCCAATATGTTTAA
Found at i:95669688 original size:29 final size:29
Alignment explanation
Indices: 95669654--95669727 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
95669644 TAATCAACCG
*
95669654 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
95669683 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
95669712 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
95669728 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:95675277 original size:37 final size:37
Alignment explanation
Indices: 95675227--95675301 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
95675217 TTTGAAATCC
95675227 CGACAACTTGGTTAAGCTTATTCTAGCAATAATTTAA
1 CGACAACTTGGTTAAGCTTATTCTAGCAATAATTTAA
95675264 CGACAACTTGGTTAAGCTTATTCTAGCAATAATTTAA
1 CGACAACTTGGTTAAGCTTATTCTAGCAATAATTTAA
95675301 C
1 C
95675302 CTAGTGTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (37 bp):
CGACAACTTGGTTAAGCTTATTCTAGCAATAATTTAA
Found at i:95681859 original size:22 final size:22
Alignment explanation
Indices: 95681832--95681875 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
95681822 TGAAGCAGCC
95681832 TTGAAGGTAACTGATGTTCAGG
1 TTGAAGGTAACTGATGTTCAGG
95681854 TTGAAGGTAACTGATGTTCAGG
1 TTGAAGGTAACTGATGTTCAGG
95681876 CTTAACCTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (22 bp):
TTGAAGGTAACTGATGTTCAGG
Found at i:95701000 original size:40 final size:39
Alignment explanation
Indices: 95700956--95701138 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 39
95700946 GCTCCTCGTT
*
95700956 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAATTCGCA
* *
95700996 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGG-TTATAGTAATTCGCA
* *
95701036 CAAATGCCTTCGGGCTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
95701075 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGT-AATTCGCA
95701116 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
95701139 ACATCATTCA
Statistics
Matches: 119, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
38 1 0.01
39 48 0.40
40 61 0.51
41 8 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:95701056 original size:79 final size:80
Alignment explanation
Indices: 95700956--95701139 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 80
95700946 GCTCCTCGTT
* * *
95700956 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTC-GGGCTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
95701018 CGGAT-TTAGTAAC-TCGCA
62 CGGATATT-GTAACTTAGCA
**
95701036 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
95701101 TATTGTCACTTAGCA
66 TATTGTAACTTAGCA
95701116 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
95701140 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 58 0.64
80 19 0.21
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATTGTAACTTAGCA
Found at i:95710431 original size:40 final size:40
Alignment explanation
Indices: 95710394--95710658 Score: 349
Period size: 40 Copynumber: 6.7 Consensus size: 40
95710384 GCTACTCGTT
* *
95710394 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
95710434 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
95710474 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
95710514 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
95710554 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
95710593 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
95710634 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
95710659 CATCATTCAA
Statistics
Matches: 206, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.01
39 33 0.16
40 158 0.77
41 13 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:95710657 original size:119 final size:121
Alignment explanation
Indices: 95710394--95710658 Score: 367
Period size: 119 Copynumber: 2.2 Consensus size: 121
95710384 GCTACTCGTT
*
95710394 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * * *
95710458 GATTTAGTAACTCGCACAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGATATAGTAACTAGCA
* * *
95710514 CAAATGCCTTCGGGCCTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * ** * *
95710577 GAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGATATAGTAAC-TAGCA
95710634 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95710659 CATCATTCAA
Statistics
Matches: 127, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
119 69 0.54
120 56 0.44
121 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGATATAGTAACTAGCA
Found at i:95712501 original size:21 final size:21
Alignment explanation
Indices: 95712477--95712547 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
95712467 TATCACGAAC
95712477 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* **
95712498 TCAGACGTCACATATATC-ATGAAC
1 TCAGAC--CACA-A-CTCAATGAGT
95712522 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
95712543 TCAGA
1 TCAGA
95712548 TTTCATAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
20 2 0.05
21 16 0.41
22 4 0.10
23 4 0.10
24 11 0.28
25 2 0.05
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:95712509 original size:45 final size:45
Alignment explanation
Indices: 95712459--95712547 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
95712449 CAAAACATGT
95712459 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCAGAC
1 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCAGAC
*
95712504 GTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCAGA
95712548 TTTCATAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (45 bp):
GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCAGAC
Found at i:95712525 original size:24 final size:24
Alignment explanation
Indices: 95712459--95712527 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
95712449 CAAAACATGT
*
95712459 GTCACATATATCACGAACTCAGAC
1 GTCACATATATCATGAACTCAGAC
* **
95712483 --CACA-A-CTCAATGAGTTCAGAC
1 GTCACATATATC-ATGAACTCAGAC
95712504 GTCACATATATCATGAACTCAGAC
1 GTCACATATATCATGAACTCAGAC
95712528 CACAACTCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
20 2 0.06
21 10 0.30
22 4 0.12
23 4 0.12
24 11 0.33
25 2 0.06
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.22
Consensus pattern (24 bp):
GTCACATATATCATGAACTCAGAC
Found at i:95725633 original size:93 final size:93
Alignment explanation
Indices: 95725469--95725640 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
95725459 GCCCATAAGT
* * *
95725469 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
95725534 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* *
95725562 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
95725627 CAAGTTCGGATGCC
66 CAAGTTCGGATGCC
95725641 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:95725636 original size:46 final size:46
Alignment explanation
Indices: 95725461--95725636 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
95725451 TGTAACCCGC
* * * *
95725461 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
95725507 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
95725557 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
95725600 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
95725637 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:95725655 original size:46 final size:46
Alignment explanation
Indices: 95725512--95725655 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 46
95725502 CGCATCCATG
* * *
95725512 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * *
95725560 A-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
* *
95725605 AGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
95725651 AGTGA
1 AGTGA
95725656 CATGTCACTC
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 33 0.43
47 29 0.38
48 5 0.07
50 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:95732355 original size:25 final size:25
Alignment explanation
Indices: 95732321--95732371 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
95732311 AAGAAACTAA
95732321 ACATAAAGTAAGAGTAATTCGAGAT
1 ACATAAAGTAAGAGTAATTCGAGAT
95732346 ACATAAAGTAAGAGTAATTCGAGAT
1 ACATAAAGTAAGAGTAATTCGAGAT
95732371 A
1 A
95732372 GTTTAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.24
Consensus pattern (25 bp):
ACATAAAGTAAGAGTAATTCGAGAT
Found at i:95739317 original size:33 final size:33
Alignment explanation
Indices: 95739275--95739342 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
95739265 CCAAATTGAG
*
95739275 TAAGTTTTCTTGTCTCGTTTTTAGTAATTTTAA
1 TAAGTTTTCTTGTCTCATTTTTAGTAATTTTAA
95739308 TAAGTTTTCTTGTCTCATTTTTAGTAATTTTAA
1 TAAGTTTTCTTGTCTCATTTTTAGTAATTTTAA
95739341 TA
1 TA
95739343 TTTTTAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (33 bp):
TAAGTTTTCTTGTCTCATTTTTAGTAATTTTAA
Found at i:95745050 original size:11 final size:11
Alignment explanation
Indices: 95745034--95745059 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95745024 GACTACACCT
95745034 TTAATATAAAA
1 TTAATATAAAA
95745045 TTAATATAAAA
1 TTAATATAAAA
95745056 TTAA
1 TTAA
95745060 ACATTTACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAATATAAAA
Found at i:95748053 original size:21 final size:21
Alignment explanation
Indices: 95748029--95748099 Score: 124
Period size: 21 Copynumber: 3.4 Consensus size: 21
95748019 TCCAGCACAA
95748029 GCGTGTCCTAGGGTCACACGG
1 GCGTGTCCTAGGGTCACACGG
* *
95748050 GCGTGTCCTAAGGTCACATGG
1 GCGTGTCCTAGGGTCACACGG
95748071 GCGTGTCCTAGGGTCACACGG
1 GCGTGTCCTAGGGTCACACGG
95748092 GCGTGTCC
1 GCGTGTCC
95748100 CTTGGACCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (21 bp):
GCGTGTCCTAGGGTCACACGG
Found at i:95748665 original size:21 final size:21
Alignment explanation
Indices: 95748639--95748679 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
95748629 TTCATGAATC
95748639 ATTAATGAGTTCTCTAACTCT
1 ATTAATGAGTTCTCTAACTCT
95748660 ATTAATGAGTTCTCTAACTC
1 ATTAATGAGTTCTCTAACTC
95748680 ATCAATGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (21 bp):
ATTAATGAGTTCTCTAACTCT
Found at i:95750621 original size:47 final size:46
Alignment explanation
Indices: 95750552--95750859 Score: 201
Period size: 46 Copynumber: 6.6 Consensus size: 46
95750542 TAATGCCGAA
* *
95750552 GCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCAT-CATCAAGTCGAT
* * *
95750599 GCCATGTCCCAAACATGGTCTTACACTAGTTTTCA-CAT-ATCTGTACTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG--CTCATCATCA--AGT-C-GAT
* * * * *
95750649 GCCAAGTCCCAGACATGGTCTTACACT-GTCACATC-TCGTAGCCGCT
1 GCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATC-AAGTCGAT
* * *
95750695 G-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC-TCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGC-T-CATCATC-AAGTCGAT
* *
95750741 G-CATGTCCCAGACAT-TTCTTACATTAGCTC-TCATCTCAATGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCATCA--TCAA-GTCGAT
* *
95750787 GCCATGTCCCAGACATGGTCTTACACTAGCTC-TTAT-AATGTGGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCAA-GTCGAT
*
95750832 GTTGCATGTCCCAGACAT-GTCTTACACT
1 G--CCATGTCCCAGACATGGTCTTACACT
95750860 GGCACACAAA
Statistics
Matches: 215, Mismatches: 26, Indels: 41
0.76 0.09 0.15
Matches are distributed among these distances:
43 2 0.01
44 12 0.06
45 25 0.12
46 60 0.28
47 60 0.28
48 22 0.10
49 6 0.03
50 28 0.13
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (46 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCAAGTCGAT
Found at i:95751235 original size:30 final size:30
Alignment explanation
Indices: 95751199--95751278 Score: 142
Period size: 30 Copynumber: 2.6 Consensus size: 30
95751189 ATAATTGGGA
95751199 AAAATGACCATTTTCCCCTTAGGCTTTCAC
1 AAAATGACCATTTTCCCCTTAGGCTTTCAC
*
95751229 AAAATGACCATTTTACCCTTAGGCTTTCAC
1 AAAATGACCATTTTCCCCTTAGGCTTTCAC
95751259 AAAATGACCATTTTACCCCT
1 AAAATGACCATTTT-CCCCT
95751279 AGACCCGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 43 0.91
31 4 0.09
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (30 bp):
AAAATGACCATTTTCCCCTTAGGCTTTCAC
Found at i:95753157 original size:36 final size:36
Alignment explanation
Indices: 95753105--95753177 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
95753095 TAAAAATGGT
* * * *
95753105 TAAACTGACTGTTTTGTCAACTACCCTAAAGTTGAA
1 TAAACTGACTATTTTGTCAACCACCCCAAAATTGAA
*
95753141 TAAATTGACTATTTTGTCAACCACCCCAAAATTGAA
1 TAAACTGACTATTTTGTCAACCACCCCAAAATTGAA
95753177 T
1 T
95753178 GACTATTGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (36 bp):
TAAACTGACTATTTTGTCAACCACCCCAAAATTGAA
Found at i:95769923 original size:40 final size:40
Alignment explanation
Indices: 95769879--95770111 Score: 236
Period size: 40 Copynumber: 5.8 Consensus size: 40
95769869 TAGAGGTACC
* *
95769879 GAAGTACAAATAGGGGCACATATGTGCATTTAGGGGTATT
1 GAAGTACAAACAGGGGCACATATGTGCATTCAGGGGTATT
** * * * *
95769919 GAAGTACAAACAAAGGCACGTATGTACATTCAGGGGCACT
1 GAAGTACAAACAGGGGCACATATGTGCATTCAGGGGTATT
* ** *
95769959 GAAGTACAAATAGGGGCATGCATA--TGCATTCAGGGACATC
1 GAAGTACAAACAGGGGCA--CATATGTGCATTCAGGGGTATT
** *
95769999 GAAGTACAAACAGGTTCACATATGTGCATTCAGGGGTATC
1 GAAGTACAAACAGGGGCACATATGTGCATTCAGGGGTATT
* ** *
95770039 GAAGTACAAACAAGGGCATGTATGTGCATTCAAGGGGTAAT
1 GAAGTACAAACAGGGGCACATATGTGCATTC-AGGGGTATT
* *
95770080 GAAGTACAAATAGGGGCACGTATGTGCATTCA
1 GAAGTACAAACAGGGGCACATATGTGCATTCA
95770112 AAGTACCGAA
Statistics
Matches: 157, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
38 4 0.03
40 115 0.73
41 35 0.22
42 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (40 bp):
GAAGTACAAACAGGGGCACATATGTGCATTCAGGGGTATT
Found at i:95770122 original size:80 final size:80
Alignment explanation
Indices: 95769873--95770124 Score: 276
Period size: 80 Copynumber: 3.1 Consensus size: 80
95769863 CGTTTTTAGA
** * * **
95769873 GGTACCGAAGTACAAATAGGGGCACATATGTGCATTTAGGGGTATTGAAGTACAAACAAAGGCAC
1 GGTACCGAAGTACAAATAGGGGCATGTATGTGCATTCAGGGGTAATGAAGTACAAACAGGGGCAC
*
95769938 GTATGTACATTCAGG
66 GTATGTGCATTCAGG
* * * * **
95769953 GGCACTGAAGTACAAATAGGGGCATGCATATGCATTCA-GGG-ACATCGAAGTACAAACAGGTTC
1 GGTACCGAAGTACAAATAGGGGCATGTATGTGCATTCAGGGGTA-AT-GAAGTACAAACAGGGGC
*
95770016 ACATATGTGCATTCAGG
64 ACGTATGTGCATTCAGG
* * * *
95770033 GGTATCGAAGTACAAACAAGGGCATGTATGTGCATTCAAGGGGTAATGAAGTACAAATAGGGGCA
1 GGTACCGAAGTACAAATAGGGGCATGTATGTGCATTC-AGGGGTAATGAAGTACAAACAGGGGCA
*
95770098 CGTATGTGCATTCA-A
65 CGTATGTGCATTCAGG
*
95770113 AGTACCGAAGTA
1 GGTACCGAAGTA
95770125 AATTCACATA
Statistics
Matches: 139, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
78 1 0.01
79 4 0.03
80 99 0.71
81 29 0.21
82 5 0.04
83 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (80 bp):
GGTACCGAAGTACAAATAGGGGCATGTATGTGCATTCAGGGGTAATGAAGTACAAACAGGGGCAC
GTATGTGCATTCAGG
Found at i:95770122 original size:120 final size:118
Alignment explanation
Indices: 95769874--95770124 Score: 331
Period size: 120 Copynumber: 2.1 Consensus size: 118
95769864 GTTTTTAGAG
* * *
95769874 GTACCGAAGTACAAATAGGGGCACATATGTGCATTTAGGGGTATTGAAGTACAAACAAAGGCACG
1 GTACCGAAGTACAAACAGGGGCACATATGTGCATTCAGGGGTATCGAAGTACAAACAAAGGCACG
* * *
95769939 TATGTACATTCAGGGGCACTGAAGTACAAATAGGGGCATGCATATGCATTCAG
66 TATGTACATTCAGGGGCAATGAAGTACAAATAGGGGCACGCATATGCATTCAA
* ** *
95769992 GGACATCGAAGTACAAACAGGTTCACATATGTGCATTCAGGGGTATCGAAGTACAAACAAGGGCA
1 GTAC--CGAAGTACAAACAGGGGCACATATGTGCATTCAGGGGTATCGAAGTACAAACAAAGGCA
* * * * *
95770057 TGTATGTGCATTCAAGGGGTAATGAAGTACAAATAGGGGCACGTATGTGCATTCAAA
64 CGTATGTACATTC-AGGGGCAATGAAGTACAAATAGGGGCACGCATATGCATTC-AA
95770114 GTACCGAAGTA
1 GTACCGAAGTA
95770125 AATTCACATA
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
118 3 0.03
120 71 0.63
121 35 0.31
122 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (118 bp):
GTACCGAAGTACAAACAGGGGCACATATGTGCATTCAGGGGTATCGAAGTACAAACAAAGGCACG
TATGTACATTCAGGGGCAATGAAGTACAAATAGGGGCACGCATATGCATTCAA
Found at i:95772712 original size:43 final size:44
Alignment explanation
Indices: 95772663--95772835 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 44
95772653 GATTACCGAG
* * *
95772663 ATGTGATTACATGTAAGACCATGTCTGGAACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
** * *
95772707 -TGTGATTACGCGTAAGACCATGTTTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * * * * *
95772749 ATATGATTTCGTGCAAGACTC-TATCTAGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGAC-CATATCTGGGACATTGGCATCGTAT
* * *
95772792 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
95772835 A
1 A
95772836 AGCTTTATGT
Statistics
Matches: 103, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
42 9 0.09
43 93 0.90
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:95777735 original size:24 final size:24
Alignment explanation
Indices: 95777683--95777843 Score: 96
Period size: 24 Copynumber: 6.6 Consensus size: 24
95777673 AATGACATTG
*
95777683 GCACTA-AGTGTGCGGATTTTGAATG
1 GCACTATA-TGTGCGGA-TTTGAATA
*
95777708 GCACTATATGTGCGGAATTGAATA
1 GCACTATATGTGCGGATTTGAATA
* * *
95777732 GCACCATGTGTGCTGATTTGAAT-
1 GCACTATATGTGCGGATTTGAATA
* * * *
95777755 GTCAATATGAGTGTGTGGATTTCTAA-G
1 G-CACTAT-A-TGTGCGGATTT-GAATA
* * * *
95777782 GCACTATGTGTGCGGGTTAGAATG
1 GCACTATATGTGCGGATTTGAATA
*
95777806 GTACTA-AGTGTGCGGATTTGAATA
1 GCACTATA-TGTGCGGATTTGAATA
*
95777830 GCACTATGTGTGCG
1 GCACTATATGTGCG
95777844 AAATCGATTG
Statistics
Matches: 102, Mismatches: 25, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
23 3 0.03
24 67 0.66
25 14 0.14
26 15 0.15
27 3 0.03
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.32
Consensus pattern (24 bp):
GCACTATATGTGCGGATTTGAATA
Found at i:95777834 original size:48 final size:49
Alignment explanation
Indices: 95777683--95777843 Score: 159
Period size: 48 Copynumber: 3.3 Consensus size: 49
95777673 AATGACATTG
* * *
95777683 GCACTAAGTGTGCGGATTTTGAATGGCACTATA-TGTGCGGAATTGAATA
1 GCACTATGTGTGCGGA-TTTGAATGGTACTATAGTGTGCGGATTTGAATA
* * * * * *
95777732 GCACCATGTGTGCTGATTTGAAT-GTCAATATGAGTGTGTGGATTTCTAA-G
1 GCACTATGTGTGCGGATTTGAATGGT-ACTAT-AGTGTGCGGATTT-GAATA
* *
95777782 GCACTATGTGTGCGGGTTAGAATGGTACTA-AGTGTGCGGATTTGAATA
1 GCACTATGTGTGCGGATTTGAATGGTACTATAGTGTGCGGATTTGAATA
95777830 GCACTATGTGTGCG
1 GCACTATGTGTGCG
95777844 AAATCGATTG
Statistics
Matches: 89, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
47 3 0.03
48 37 0.42
49 14 0.16
50 31 0.35
51 4 0.04
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.32
Consensus pattern (49 bp):
GCACTATGTGTGCGGATTTGAATGGTACTATAGTGTGCGGATTTGAATA
Found at i:95784360 original size:24 final size:24
Alignment explanation
Indices: 95784232--95784362 Score: 120
Period size: 24 Copynumber: 5.3 Consensus size: 24
95784222 GGAATGACAT
95784232 TGGCACTAAGTGTGCGGATTTTGAA
1 TGGCACTAAGTGTGCGGA-TTTGAA
* *
95784257 TGGCACTATGTGTGCTGATTTGAA
1 TGGCACTAAGTGTGCGGATTTGAA
* * * *
95784281 TGTCAATACGAGTGTGTGGATTTCTAA
1 TGGCACTA--AGTGTGCGGATTT-GAA
* * * *
95784308 -GGCACTATGTGTGCGGGTTAGCA
1 TGGCACTAAGTGTGCGGATTTGAA
95784331 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTAAGTGTGCGGATTTGAA
*
95784355 TAGCACTA
1 TGGCACTA
95784363 TGAGTGCAAA
Statistics
Matches: 81, Mismatches: 21, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
23 1 0.01
24 47 0.58
25 16 0.20
26 15 0.19
27 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.32
Consensus pattern (24 bp):
TGGCACTAAGTGTGCGGATTTGAA
Found at i:95794839 original size:21 final size:21
Alignment explanation
Indices: 95794813--95794853 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
95794803 CCAAATTAAG
*
95794813 TTCCACTACTTTTACCTAAAT
1 TTCCACTAATTTTACCTAAAT
95794834 TTCCACTAATTTTACCTAAA
1 TTCCACTAATTTTACCTAAA
95794854 AATAGACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (21 bp):
TTCCACTAATTTTACCTAAAT
Found at i:95799521 original size:50 final size:50
Alignment explanation
Indices: 95799398--95799619 Score: 212
Period size: 50 Copynumber: 4.6 Consensus size: 50
95799388 CATCAAGTTT
* * * * *
95799398 ATGCCATGTCCCAAACATGGTCTTACACT-GACTATCA-AAATCAAG-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCACACAT-ATGTGCCG
* *
95799447 ATGCCATGTCCCAGACATGCTCTTACACTAGCTCTCACACATCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACACATATGTGCCG
* * * *
95799497 ATACCATGTCCCAGAAATGGTCTTACACTAGCTCTCGTCTCA-ATGT--CG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ACACATATGTGCCG
* * *
95799545 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTG-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACACATATGTGCCG
*
95799593 ATG-CATGTCCCAGTCAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
95799620 GGAACACAAA
Statistics
Matches: 145, Mismatches: 21, Indels: 17
0.79 0.11 0.09
Matches are distributed among these distances:
46 11 0.08
47 15 0.10
48 40 0.28
49 33 0.23
50 43 0.30
51 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACACATATGTGCCG
Found at i:95799563 original size:98 final size:94
Alignment explanation
Indices: 95799438--95799619 Score: 256
Period size: 98 Copynumber: 1.9 Consensus size: 94
95799428 ACTATCAAAA
95799438 TCAAGGTCGATGCCATGTCCCAGACATGCTCTTACACTAGCTCTCACACATCTGTGCCGATACCA
1 TCAAGGTCGATGCCATGTCCCAGACATGCTCTTACACTAGCTCTCACA-ATCTG-GCCGAT-CCA
95799503 TGTCCCAGAAATGGTCTTACACTAGCTCTCGTC
63 TGTCCCAGAAAT-GTCTTACACTAGCTCTCGTC
* * * * * *
95799536 TCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGT
1 TCAAGGTCGATGCCATGTCCCAGACATGCTCTTACACTAGCTCTCACAATCTGGCCGATCCATGT
**
95799601 CCCAGTCATGTCTTACACT
66 CCCAGAAATGTCTTACACT
95799620 GGAACACAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
94 10 0.13
95 12 0.16
96 6 0.08
97 4 0.05
98 44 0.58
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (94 bp):
TCAAGGTCGATGCCATGTCCCAGACATGCTCTTACACTAGCTCTCACAATCTGGCCGATCCATGT
CCCAGAAATGTCTTACACTAGCTCTCGTC
Found at i:95799565 original size:48 final size:47
Alignment explanation
Indices: 95799398--95799619 Score: 211
Period size: 48 Copynumber: 4.6 Consensus size: 47
95799388 CATCAAGTTT
* * * *
95799398 ATGCCATGTCCCAAACATGGTCTTACACT-GACTATCAAAATCAAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC--ACTCAATGTCG
* * *
95799447 ATGCCATGTCCCAGACATGCTCTTACACTAGCTCTCACACATCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACTCA-ATGT--CG
* * *
95799497 ATACCATGTCCCAGAAATGGTCTTACACTAGCTCTCGTCTCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ACTCAATGTCG
*
95799545 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-T-AATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACTCAATGT---CG
*
95799593 ATG-CATGTCCCAGTCAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
95799620 GGAACACAAA
Statistics
Matches: 147, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
45 5 0.03
46 11 0.07
47 16 0.11
48 42 0.29
49 31 0.21
50 39 0.27
51 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACTCAATGTCG
Found at i:95802184 original size:54 final size:54
Alignment explanation
Indices: 95802111--95802218 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
95802101 TGTCAAATAG
95802111 CTATAGAACATTAAATTAGGGGTCTTTATTGAGTAAATAGACAATAAATATGTT
1 CTATAGAACATTAAATTAGGGGTCTTTATTGAGTAAATAGACAATAAATATGTT
* *
95802165 CTATAGAACATTAAATTAGGGGTCTTTATTGAGTTAATAGACCATAAATATGTT
1 CTATAGAACATTAAATTAGGGGTCTTTATTGAGTAAATAGACAATAAATATGTT
95802219 AGTAGATGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (54 bp):
CTATAGAACATTAAATTAGGGGTCTTTATTGAGTAAATAGACAATAAATATGTT
Found at i:95803370 original size:50 final size:49
Alignment explanation
Indices: 95803311--95804371 Score: 976
Period size: 50 Copynumber: 21.8 Consensus size: 49
95803301 TGATGCTAGG
*
95803311 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * *
95803360 CGAGATATGAGAGCTAGTGTAAGACCATCTCTGGGACATGACATCAG-CT
1 -GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * * * *
95803409 -TGATAT--GTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CT
* * * *
95803456 GATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * * * * * *
95803505 CGATATACGAGAGTCAGTGTAAGACCATGTTTGGGACATGACAT-TGACT
1 -GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
** * *
95803554 TTGATGTGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * *
95803603 CGAGATATGAGAGCTAGTGTAAGACCATCTCTGGGACATGACATCAG-CT
1 -GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * * * *
95803652 -TGATAT--GTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CT
* * * *
95803699 GATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * * * * * *
95803748 CGATATACGAGAGTCAGTGTAAGACCATGTTTGGGACATGACAT-TGACT
1 -GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
** * *
95803797 TTGATGTGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * *
95803846 CGAGATATGAGAGCTAGTGTAAGACCATCTCTGGGACATGACATCAG-CT
1 -GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * * * *
95803895 -TGATAT--GTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CT
* * * *
95803942 GATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * * * * * *
95803991 CGATATACGAGAGTCAGTGTAAGACCATGTTTGGGACATGACAT-TGACT
1 -GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
** * *
95804040 TTGATGTGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * *
95804089 CGAGATATGAGAGCTAGTGTAAGACCATCTCTGGGACATGACATCAG-CT
1 -GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * * * *
95804138 -TGATAT--GTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CT
* * * *
95804185 GATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
* * * * * * *
95804234 CGATATACGAGAGTCAGTGTAAGACCATGTTTGGGACATGACAT-TGACT
1 -GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
** * * * *
95804283 TTGATGTGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
** * *
95804331 TTGATGTGTGAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
95804372 GTTGGCACCT
Statistics
Matches: 812, Mismatches: 169, Indels: 62
0.78 0.16 0.06
Matches are distributed among these distances:
45 120 0.15
47 28 0.03
48 194 0.24
49 37 0.05
50 433 0.53
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
Found at i:95803753 original size:243 final size:243
Alignment explanation
Indices: 95803320--95804369 Score: 2005
Period size: 243 Copynumber: 4.3 Consensus size: 243
95803310 GGAGATATGA
*
95803320 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGAC
95803385 CATCTCTGGGACATGACATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
66 CATCTCTGGGACATGACATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
95803450 GGCACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGATATACGA
131 GGCACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGATATACGA
95803515 GAGTCAGTGTAAGACCATGTTTGGGACATGACATTGACTTTGATGTGT
196 GAGTCAGTGTAAGACCATGTTTGGGACATGACATTGACTTTGATGTGT
95803563 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGAC
95803628 CATCTCTGGGACATGACATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
66 CATCTCTGGGACATGACATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
95803693 GGCACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGATATACGA
131 GGCACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGATATACGA
95803758 GAGTCAGTGTAAGACCATGTTTGGGACATGACATTGACTTTGATGTGT
196 GAGTCAGTGTAAGACCATGTTTGGGACATGACATTGACTTTGATGTGT
95803806 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGAC
95803871 CATCTCTGGGACATGACATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
66 CATCTCTGGGACATGACATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
95803936 GGCACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGATATACGA
131 GGCACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGATATACGA
95804001 GAGTCAGTGTAAGACCATGTTTGGGACATGACATTGACTTTGATGTGT
196 GAGTCAGTGTAAGACCATGTTTGGGACATGACATTGACTTTGATGTGT
95804049 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGAC
95804114 CATCTCTGGGACATGACATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
66 CATCTCTGGGACATGACATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
95804179 GGCACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGATATACGA
131 GGCACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGATATACGA
95804244 GAGTCAGTGTAAGACCATGTTTGGGACATGACATTGACTTTGATGTGT
196 GAGTCAGTGTAAGACCATGTTTGGGACATGACATTGACTTTGATGTGT
* * ** * * *
95804292 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACT-TTGATGTGTGAGCCAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGAC
*
95804355 CATGTCTGGGACATG
66 CATCTCTGGGACATG
95804370 GCGTTGGCAC
Statistics
Matches: 798, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
241 33 0.04
242 3 0.00
243 762 0.95
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (243 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGAC
CATCTCTGGGACATGACATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
GGCACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGATATACGA
GAGTCAGTGTAAGACCATGTTTGGGACATGACATTGACTTTGATGTGT
Found at i:95805097 original size:70 final size:70
Alignment explanation
Indices: 95804984--95805123 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
95804974 GAATAAAACA
*
95804984 TGAAATTAAATATTATTGAGTCTAGTTTCATGTAGAATAAATGATGTAAGCAAAAGAAGTTCATA
1 TGAAATTAAATATTATTGAGTCTAGTTTCATGTAGAATAAATGATGTAAGCAAAAGAAGATCATA
95805049 TTATG
66 TTATG
95805054 TGAAATTAAATATTATTGAGTCTAGTTTCATGTAGAATAAATGATGTAAGCAAAAGAAGATCATA
1 TGAAATTAAATATTATTGAGTCTAGTTTCATGTAGAATAAATGATGTAAGCAAAAGAAGATCATA
95805119 TTATG
66 TTATG
95805124 AGATATTTGA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (70 bp):
TGAAATTAAATATTATTGAGTCTAGTTTCATGTAGAATAAATGATGTAAGCAAAAGAAGATCATA
TTATG
Found at i:95813347 original size:11 final size:11
Alignment explanation
Indices: 95813331--95813356 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95813321 ACCAAGAGTC
95813331 AAAACGAGCCA
1 AAAACGAGCCA
95813342 AAAACGAGCCA
1 AAAACGAGCCA
95813353 AAAA
1 AAAA
95813357 AGGACAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.23, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAACGAGCCA
Found at i:95814341 original size:13 final size:13
Alignment explanation
Indices: 95814323--95814349 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95814313 TAGTTTAATC
95814323 AGTTAATTAGTTT
1 AGTTAATTAGTTT
95814336 AGTTAATTAGTTT
1 AGTTAATTAGTTT
95814349 A
1 A
95814350 ATAAACAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGTTAATTAGTTT
Found at i:95820246 original size:29 final size:29
Alignment explanation
Indices: 95820204--95820260 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
95820194 CTATGGTTGG
95820204 GGGTTACCTGCATGGATAAAATTAAGGGT
1 GGGTTACCTGCATGGATAAAATTAAGGGT
95820233 GGGTTACCTGCATGGATAAAATTAAGGG
1 GGGTTACCTGCATGGATAAAATTAAGGG
95820261 GTGAGTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (29 bp):
GGGTTACCTGCATGGATAAAATTAAGGGT
Found at i:95820571 original size:28 final size:28
Alignment explanation
Indices: 95820539--95820643 Score: 147
Period size: 28 Copynumber: 3.8 Consensus size: 28
95820529 CAGAACAGAG
* * *
95820539 ATTGTGACAGAGTCACCAGATACAGATA
1 ATTGTGGCAGAGCCACCAGAAACAGATA
*
95820567 ATTGTGGCAGGGCCACCAGAAACAGATA
1 ATTGTGGCAGAGCCACCAGAAACAGATA
* *
95820595 TTTGTGGTAGAGCCACCAGAAACAGATA
1 ATTGTGGCAGAGCCACCAGAAACAGATA
*
95820623 TTTGTGGCAGAGCCACCAGAA
1 ATTGTGGCAGAGCCACCAGAA
95820644 CGCTTCCTCC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (28 bp):
ATTGTGGCAGAGCCACCAGAAACAGATA
Found at i:95821792 original size:26 final size:25
Alignment explanation
Indices: 95821763--95821825 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
95821753 AGATTCGGCT
*
95821763 ATAGAGGAAAAGAAGAAGAAGAGAAA
1 ATAGA-GAAAAGAAGAAGAAAAGAAA
* *
95821789 ATAGATGAAAAG-AGGAGAAAAGAAG
1 ATAGA-GAAAAGAAGAAGAAAAGAAA
95821814 A-AGAGAAAAGAA
1 ATAGAGAAAAGAA
95821826 TTGTCAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 6 0.19
24 4 0.12
25 11 0.34
26 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (25 bp):
ATAGAGAAAAGAAGAAGAAAAGAAA
Found at i:95823686 original size:249 final size:249
Alignment explanation
Indices: 95823248--95823744 Score: 958
Period size: 249 Copynumber: 2.0 Consensus size: 249
95823238 ACATCTCATC
* *
95823248 ATATACAATAGGCAGATAAACTTTCACATAAAAGTGAGCTCATGTGACATAGATATATTGTATGA
1 ATATACAATAAGCAGATAAACTTTCACATAAAAGTGAGCTCATGCGACATAGATATATTGTATGA
95823313 TTTCACATAACCTCTCACACTGATCCGATGTCACATAATCATAGGAATAGTCTCATAGATTGTTC
66 TTTCACATAACCTCTCACACTGATCCGATGTCACATAATCATAGGAATAGTCTCATAGATTGTTC
95823378 TCGTATGCATCACATAACTACCTTATGATTTAGTTCAAATCAAGCTCACATATAAACTTGGAGTA
131 TCGTATGCATCACATAACTACCTTATGATTTAGTTCAAATCAAGCTCACATATAAACTTGGAGTA
95823443 CATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACGG
196 CATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACGG
*
95823497 ATATACAATAAGTAGATAAACTTTCACATAAAAGTGAGCTCATGCGACATAGATATATTGTATGA
1 ATATACAATAAGCAGATAAACTTTCACATAAAAGTGAGCTCATGCGACATAGATATATTGTATGA
95823562 TTTCACATAACCTCTCACACTGATCCGATGTCACATAATCATAGGAATAGTCTCATAGATTGTTC
66 TTTCACATAACCTCTCACACTGATCCGATGTCACATAATCATAGGAATAGTCTCATAGATTGTTC
95823627 TCGTATGCATCACATAACTACCTTATGATTTAGTTCAAATCAAGCTCACATATAAACTTGGAGTA
131 TCGTATGCATCACATAACTACCTTATGATTTAGTTCAAATCAAGCTCACATATAAACTTGGAGTA
*
95823692 TATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACG
196 CATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACG
95823745 AAGTCTTATA
Statistics
Matches: 244, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
249 244 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.34
Consensus pattern (249 bp):
ATATACAATAAGCAGATAAACTTTCACATAAAAGTGAGCTCATGCGACATAGATATATTGTATGA
TTTCACATAACCTCTCACACTGATCCGATGTCACATAATCATAGGAATAGTCTCATAGATTGTTC
TCGTATGCATCACATAACTACCTTATGATTTAGTTCAAATCAAGCTCACATATAAACTTGGAGTA
CATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACGG
Found at i:95823847 original size:37 final size:37
Alignment explanation
Indices: 95823797--95824427 Score: 1226
Period size: 37 Copynumber: 17.1 Consensus size: 37
95823787 CTTTAGCTCA
* * *
95823797 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
95823834 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95823871 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95823908 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95823945 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95823982 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824019 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824056 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824093 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824130 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824167 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824204 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824241 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824278 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824315 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824352 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824389 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
95824426 GA
1 GA
95824428 ATATATTTCC
Statistics
Matches: 591, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 591 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:95824625 original size:46 final size:46
Alignment explanation
Indices: 95824572--95824708 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
95824562 TATATATACA
* * *
95824572 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
95824618 CATCTCATACATGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
95824664 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATAT
95824709 ATACATGTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:95824743 original size:47 final size:47
Alignment explanation
Indices: 95824682--95824832 Score: 230
Period size: 47 Copynumber: 3.2 Consensus size: 47
95824672 ACACATTTCG
* * *
95824682 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
95824729 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCCCATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
** *
95824776 CATTGGCCATTCGGCCTTATCACGCATATGCATGGTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
95824823 CATTGGCCAT
1 CATTGGCCAT
95824833 GTGACACCCC
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:95827404 original size:47 final size:46
Alignment explanation
Indices: 95827353--95828066 Score: 1104
Period size: 47 Copynumber: 15.1 Consensus size: 46
95827343 TTAGGATTTT
*
95827353 ATGTGATGAATGCGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGC-GAATGGCCA
*
95827400 ATGTGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95827447 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95827494 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95827541 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
*** *
95827588 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGG-CGAATGGCCA
** **
95827641 ATGTGATGAATGTGAACCCGTATATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95827688 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95827735 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95827782 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95827829 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95827876 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95827923 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95827970 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
** * * *
95828017 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGG-CGAATGGCCA
95828064 ATG
1 ATG
95828067 CGAAACGTGT
Statistics
Matches: 637, Mismatches: 23, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
47 593 0.93
48 2 0.00
52 1 0.00
53 41 0.06
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.26
Consensus pattern (46 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCGAATGGCCA
Found at i:95828129 original size:46 final size:46
Alignment explanation
Indices: 95828040--95828130 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
95828030 GAACATGAAT
* * * *
95828040 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
95828086 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
95828131 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:95828327 original size:37 final size:37
Alignment explanation
Indices: 95828277--95828347 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
95828267 GGAAATATAT
* *
95828277 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTATG
*
95828314 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATT
95828348 TCGTCTGAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACATGTGGAGATTATG
Found at i:95829265 original size:51 final size:47
Alignment explanation
Indices: 95829162--95829352 Score: 292
Period size: 47 Copynumber: 4.0 Consensus size: 47
95829152 GTGTGTTACA
95829162 GGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
1 GGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
***
95829209 GGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATT
1 GGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCACATT
*
95829260 GGCCATTCGGCCTTATCACACATACGCATGTTCATATTCATCACATT
1 GGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
* *
95829307 GGCCATTCAGCCTTATCACACATACGCATGTTCGCATTCATCACAT
1 GGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
95829353 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
47 86 0.66
51 44 0.34
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (47 bp):
GGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
Found at i:95831949 original size:15 final size:16
Alignment explanation
Indices: 95831908--95831939 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
95831898 TCCCCCACTT
95831908 AAGAAATTTTCGTCCC
1 AAGAAATTTTCGTCCC
95831924 AAGAAATTTTCGTCCC
1 AAGAAATTTTCGTCCC
95831940 CGAAAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (16 bp):
AAGAAATTTTCGTCCC
Found at i:95833276 original size:40 final size:40
Alignment explanation
Indices: 95833231--95834501 Score: 2245
Period size: 40 Copynumber: 31.8 Consensus size: 40
95833221 CCAGCATGAT
** *
95833231 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* * *
95833271 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* *
95833311 TGCTCTTTGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* * * *
95833351 TGCTCTTCGAGACTTAGCCCGGATATAACACTAGCATGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* * * *
95833391 TGCTCTTTGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833431 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833471 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833511 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833551 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833591 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833631 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833671 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833711 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833751 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833791 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833831 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833871 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833911 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833951 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95833991 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95834031 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95834071 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* *
95834111 TGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* * *
95834151 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* *
95834191 TGCTCTTTGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95834231 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95834271 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* * * *
95834311 TGCTCTTCGAGACTTAGCCCGGATATAACACTAGCATGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* * * *
95834351 TGCTCTTTGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
*
95834391 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
*
95834431 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGTACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
95834471 TGCTCTTCGGGATTTAGCCCGGATATATCAC
1 TGCTCTTCGGGATTTAGCCCGGATATATCAC
95834502 GCTCAATTCT
Statistics
Matches: 1187, Mismatches: 44, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 1187 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
Found at i:95835774 original size:37 final size:37
Alignment explanation
Indices: 95835718--95835801 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 37
95835708 TTATTACGAA
* * *
95835718 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
*
95835755 GTCTTACCCGAACAAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
95835792 GTCTTACCCG
1 GTCTTACCCG
95835802 GAATATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
Found at i:95835999 original size:46 final size:46
Alignment explanation
Indices: 95835946--95836075 Score: 131
Period size: 46 Copynumber: 2.8 Consensus size: 46
95835936 TATATATACA
* * *
95835946 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
95835992 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT-
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* *
95836037 -AT-TCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
1 CATCTCA--TACACA-TC-TCACATTAGCCATTCGGCCTTA
95836076 TCTCATATAN
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
43 3 0.04
44 2 0.03
45 4 0.06
46 40 0.58
47 20 0.29
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:95838807 original size:3 final size:3
Alignment explanation
Indices: 95838799--95838828 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
95838789 AAACCTACGA
95838799 AAT AAT AAT AAT AAAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA
95838829 CATCCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:95838816 original size:13 final size:13
Alignment explanation
Indices: 95838798--95838825 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95838788 TAAACCTACG
95838798 AAATAATAATAAT
1 AAATAATAATAAT
95838811 AAATAATAATAAT
1 AAATAATAATAAT
95838824 AA
1 AA
95838826 TAACATCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:95840900 original size:28 final size:28
Alignment explanation
Indices: 95840837--95840924 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
95840827 AGCAAGGCTG
* *
95840837 CCAG-AACAGAT-ATTGTGACAGAGTCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* * *
95840863 CTAGATACAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
*
95840891 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
95840919 CCAGAA
1 CCAGAA
95840925 CGCTTCCTCC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.06
27 6 0.12
28 42 0.82
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (28 bp):
CCAGAAACAGATAATTGTGGCAGAGCCA
Found at i:95843050 original size:16 final size:16
Alignment explanation
Indices: 95843029--95843062 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
95843019 TAAACCTACG
*
95843029 AAATAATAATAATAAT
1 AAATAATAATAACAAT
95843045 AAATAATAATAACAAT
1 AAATAATAATAACAAT
95843061 AA
1 AA
95843063 CATCCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATAATAACAAT
Found at i:95845024 original size:79 final size:81
Alignment explanation
Indices: 95844922--95845105 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
95844912 GCTCCTCGTT
* *
95844922 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
95844984 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
* **
95845002 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACGAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
95845066 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
95845082 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95845106 CATCATCCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:95845039 original size:39 final size:41
Alignment explanation
Indices: 95844922--95845105 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
95844912 GCTCCTCGTT
* *
95844922 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
95844962 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
95845002 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * * *
95845041 CGAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
95845082 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95845106 CATCATCCAA
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 47 0.37
40 66 0.52
41 11 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:95849378 original size:13 final size:13
Alignment explanation
Indices: 95849360--95849384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95849350 GTTTAATCAA
95849360 TTAATTAGTTTAG
1 TTAATTAGTTTAG
95849373 TTAATTAGTTTA
1 TTAATTAGTTTA
95849385 ATAAACAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTAATTAGTTTAG
Found at i:95854299 original size:43 final size:43
Alignment explanation
Indices: 95854250--95854422 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
95854240 GATTTTCGAG
* * *
95854250 ATGTGATTACATGTAAGACCATGTCTGGGACACTAGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACA-TGGCATCGTAT
*
95854294 -TGTGATTACGTGTAAGACCATATCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATATCTGGGACA-TGGCATCGTAT
* * * * * *
95854336 ATATGATTTCGTGTAAGTCCTTGTCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACA-TGGCATCGTAT
* * * *
95854379 ACGTGATAACATGTAAGACCATATCTGGGATATGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATGGCATCGTAT
95854422 A
1 A
95854423 AGCTTTATGT
Statistics
Matches: 105, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
42 8 0.08
43 97 0.92
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATGGCATCGTAT
Found at i:95863497 original size:29 final size:26
Alignment explanation
Indices: 95863465--95863535 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
95863455 GTGATATACA
* *
95863465 AAATGATTATGTGCTAAATGTGTAAAATG
1 AAATGATTATATG--AAATG-GTAAAACG
*
95863494 AAATGGTTATATGAAATGGTAAAACG
1 AAATGATTATATGAAATGGTAAAACG
* *
95863520 AAATGGTTTTATGAAA
1 AAATGATTATATGAAA
95863536 ATAGATGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 22 0.58
27 5 0.13
29 11 0.29
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (26 bp):
AAATGATTATATGAAATGGTAAAACG
Found at i:95863509 original size:13 final size:13
Alignment explanation
Indices: 95863491--95863535 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
95863481 AATGTGTAAA
95863491 ATGAAATGGTTAT
1 ATGAAATGGTTAT
* *
95863504 ATGAAATGGTAAA
1 ATGAAATGGTTAT
* *
95863517 ACGAAATGGTTTT
1 ATGAAATGGTTAT
95863530 ATGAAA
1 ATGAAA
95863536 ATAGATGTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.31
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:95863537 original size:27 final size:27
Alignment explanation
Indices: 95863480--95863535 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
95863470 ATTATGTGCT
*
95863480 AAATGTGTAAAATGAAATGGTTATATG
1 AAATGTGTAAAACGAAATGGTTATATG
*
95863507 AAATG-GTAAAACGAAATGGTTTTATG
1 AAATGTGTAAAACGAAATGGTTATATG
95863533 AAA
1 AAA
95863536 ATAGATGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.21, T:0.30
Consensus pattern (27 bp):
AAATGTGTAAAACGAAATGGTTATATG
Found at i:95879062 original size:13 final size:14
Alignment explanation
Indices: 95879024--95879086 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 14
95879014 AGAAAAAAAG
95879024 AGAAAAA-AT-AAA
1 AGAAAAAGATGAAA
*
95879036 AAAATAAAG-TGAAA
1 AGAA-AAAGATGAAA
*
95879050 AGAAAACGA-GAAA
1 AGAAAAAGATGAAA
*
95879063 ACAAAAAGATGAAAA
1 AGAAAAAGATG-AAA
95879078 AGAAAAAGA
1 AGAAAAAGA
95879087 ATGTGAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
12 3 0.08
13 18 0.46
14 7 0.18
15 11 0.28
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.06
Consensus pattern (14 bp):
AGAAAAAGATGAAA
Found at i:95884860 original size:79 final size:81
Alignment explanation
Indices: 95884726--95884908 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
95884716 GAATGATGTT
*
95884726 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
*
95884790 TGCGAGATACTA-ATTC
66 TGCGAGATACTATA-AC
* * * **
95884806 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTT
*
95884868 GTGCGAGTTACTATAAC
65 GTGCGAGATACTATAAC
*
95884885 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
95884909 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 31 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTATAAC
Found at i:95884922 original size:40 final size:40
Alignment explanation
Indices: 95884726--95884908 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
95884716 GAATGATGTT
* * * *
95884726 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAC
* * *
95884766 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-AC
95884806 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
*
95884845 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
*
95884885 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
95884909 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
Found at i:95884930 original size:79 final size:79
Alignment explanation
Indices: 95884777--95884941 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
95884767 GGACTAAGAT
* **
95884777 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
95884842 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
95884856 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
95884919 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
95884935 CCGAAGG
1 CCGAAGG
95884942 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:95888695 original size:39 final size:39
Alignment explanation
Indices: 95888641--95888873 Score: 367
Period size: 39 Copynumber: 6.0 Consensus size: 39
95888631 AAGACACTGA
* *
95888641 AAATGTATCCAGGCTAAAGTCCCGTAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
95888680 AAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
95888719 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
95888758 AAATGTATCCAGACTAAAGTCCCGCAGGCTTCGTGCTAG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
95888797 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
95888836 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
95888874 ATAATATAAT
Statistics
Matches: 176, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 176 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:95897609 original size:55 final size:55
Alignment explanation
Indices: 95897548--95897724 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
95897538 ATATTAAGTC
* * *
95897548 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
95897603 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
95897658 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
95897714 CGCACACTTAG
1 CGCACACTTAG
95897725 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:95897612 original size:28 final size:27
Alignment explanation
Indices: 95897548--95897699 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
95897538 ATATTAAGTC
* *
95897548 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
95897575 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
95897603 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
95897630 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
95897658 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
95897685 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95897700 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:95905167 original size:27 final size:27
Alignment explanation
Indices: 95905137--95905287 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
95905127 ATATCGAGTC
* * *
95905137 CGCACACTCAGTGCTATATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
95905164 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
95905192 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
95905219 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
95905246 CGTACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
95905273 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95905288 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 80 0.77
28 24 0.23
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:95905270 original size:54 final size:55
Alignment explanation
Indices: 95905137--95905287 Score: 171
Period size: 55 Copynumber: 2.8 Consensus size: 55
95905127 ATATCGAGTC
* * * *
95905137 CGCACACTCAGTGCTATATAATCAAATCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTACATAGTCAAACT
** * * * **
95905192 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTC-ATTT
1 CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTA-CATAGTCAAACT
*
95905246 CGTACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT
95905288 GTACAATTTA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 39 0.49
55 40 0.51
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTACATAGTCAAACT
Found at i:95908363 original size:54 final size:53
Alignment explanation
Indices: 95908280--95908388 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 53
95908270 ACACGGCCTC
*
95908280 CCTGCCACGCCCGTGCACCGCTTCTCACTTCATTTTTTGACGCTCAATCTCTTT
1 CCTGCCACGCCCGTGCACCGCTTCCCACTTCATTTTTT-ACGCTCAATCTCTTT
* * * * * *
95908334 CCTGCCATGCTCGTGCGCCGCTTCCCACTTCATTTTTTACTCTCATTCTTTTT
1 CCTGCCACGCCCGTGCACCGCTTCCCACTTCATTTTTTACGCTCAATCTCTTT
95908387 CC
1 CC
95908389 CTTAGCGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 14 0.29
54 34 0.71
ACGTcount: A:0.11, C:0.39, G:0.12, T:0.39
Consensus pattern (53 bp):
CCTGCCACGCCCGTGCACCGCTTCCCACTTCATTTTTTACGCTCAATCTCTTT
Found at i:95913641 original size:40 final size:40
Alignment explanation
Indices: 95913534--95913750 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
95913524 CGGATGATAA
* * *
95913534 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* * *
95913574 CCGGGCTAAG-CCTGAAGGCAATT-GTGCGAGTTATTATAC
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
* * *
95913613 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
95913653 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
95913693 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
95913733 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
95913751 TACTTGGCTT
Statistics
Matches: 153, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 45 0.29
40 108 0.71
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:95913736 original size:80 final size:80
Alignment explanation
Indices: 95913534--95913750 Score: 241
Period size: 79 Copynumber: 2.7 Consensus size: 80
95913524 CGGATGATAA
* * * *
95913534 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAG-CCTGAAGGCAAT
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGGCAAT
*
95913596 TGTGCGAGTTATTATAC
64 TGTGCGAGTTACTATAC
* *
95913613 CCGGGCTAAT-TCCCGAAGGCATTCGTGCGAGTTA-TTATGTCCGGGCTAAGTCCCGAAGGC-AT
1 CCGGGCT-ATGTCCCGAAGGCATTCGTGCGAG-TAGCTATATCCGGGCTAAGTCCCGAAGGCAAT
*
95913675 TGGTGCGAGTTACTATAT
64 T-GTGCGAGTTACTATAC
* * *
95913693 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGG
95913751 TACTTGGCTT
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
79 60 0.51
80 57 0.49
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGCAATTG
TGCGAGTTACTATAC
Found at i:95913746 original size:119 final size:119
Alignment explanation
Indices: 95913534--95913750 Score: 280
Period size: 119 Copynumber: 1.8 Consensus size: 119
95913524 CGGATGATAA
* * * *
95913534 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCTGAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGA
* *
95913599 GCGAGTTATTATACCCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
66 GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
* *
95913653 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATATCCGGGCTATGTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGCAATT
* *
95913716 CGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
64 -GAGCGAGTTA-CTATACCCGGGCTAAATCCCGAAGG
95913751 TACTTGGCTT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 62 0.74
120 20 0.24
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGA
GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
Found at i:95915459 original size:13 final size:13
Alignment explanation
Indices: 95915437--95915469 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
95915427 AAGGTTTTGT
95915437 TTAT-TAAACTAA
1 TTATCTAAACTAA
95915449 TTATCTAAACTAA
1 TTATCTAAACTAA
*
95915462 TTAACTAA
1 TTATCTAA
95915470 TTTAATTAAA
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:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:95918328 original size:6 final size:6
Alignment explanation
Indices: 95918319--95919185 Score: 1655
Period size: 6 Copynumber: 144.3 Consensus size: 6
95918309 AAGAAAATTG
* * * * * *
95918319 AAATGA AAATAA AATTCA AAAGAA AAATAA GAAT-A AAATAA ATAAAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATA-A
95918368 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918416 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918464 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918512 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918560 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918608 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918656 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918704 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918752 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918800 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918848 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918896 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918944 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95918992 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95919040 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95919088 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95919136 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
95919184 AA
1 AA
95919186 TAGGAGGATT
Statistics
Matches: 847, Mismatches: 11, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
5 4 0.00
6 835 0.99
7 6 0.01
8 2 0.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:95918382 original size:1 final size:1
Alignment explanation
Indices: 95918362--95919185 Score: 415
Period size: 1 Copynumber: 824.0 Consensus size: 1
95918352 TAAAATAAAT
* * * * * * * * * * *
95918362 AAAATAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
95918427 AAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * *
95918492 AAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
95918557 TAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
95918622 ATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
95918687 AATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
95918752 AAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
95918817 AAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * *
95918882 AAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
95918947 TAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
95919012 ATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
95919077 AATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
95919142 AAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
95919186 TAGGAGGATT
Statistics
Matches: 549, Mismatches: 274, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 549 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (1 bp):
A
Found at i:95924594 original size:13 final size:13
Alignment explanation
Indices: 95924572--95924604 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
95924562 AAGGGTTTGT
95924572 TTAT-TAAACTAA
1 TTATCTAAACTAA
95924584 TTATCTAAACTAA
1 TTATCTAAACTAA
*
95924597 TTAACTAA
1 TTATCTAA
95924605 TTTAATTAAA
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:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:95926091 original size:14 final size:13
Alignment explanation
Indices: 95926071--95926102 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
95926061 AATATTTAAC
95926071 TTGTTCTTAATTA
1 TTGTTCTTAATTA
95926084 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
95926098 TTGTT
1 TTGTT
95926103 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:95936244 original size:23 final size:23
Alignment explanation
Indices: 95936210--95936268 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
95936200 CAGGTACGGG
95936210 ACACGGGCGTGTGCTCTATATCC
1 ACACGGGCGTGTGCTCTATATCC
*
95936233 ACATGGGCGTGTGCTCTATATCC
1 ACACGGGCGTGTGCTCTATATCC
95936256 ACACGGGCGTGTG
1 ACACGGGCGTGTG
95936269 GAGCCTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (23 bp):
ACACGGGCGTGTGCTCTATATCC
Found at i:95938450 original size:43 final size:43
Alignment explanation
Indices: 95938325--95938474 Score: 148
Period size: 43 Copynumber: 3.5 Consensus size: 43
95938315 CGAAAAGCTC
* * **
95938325 ATACAATGCCAATGTCCTAGACGTGTTCTTACATGT-AATCAA
1 ATACAATGCCAATGTCCCAGACGTGATCTTACACATAAATCAA
* *
95938367 ATATCAATGCCACTGTCCCAGGCAG-GATCTTACACA-AAATCAA
1 ATA-CAATGCCAATGTCCCAGAC-GTGATCTTACACATAAATCAA
95938410 ATACAATGCCAATGTCCCAGACGTTG-TCTTACACATAAATCATA
1 ATACAATGCCAATGTCCCAGACG-TGATCTTACACATAAATCA-A
* *
95938454 AGT-CGATGCCAACGTCCCAGA
1 A-TACAATGCCAATGTCCCAGA
95938475 TATGGTCTTA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.32
43 40 0.44
44 19 0.21
45 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACGTGATCTTACACATAAATCAA
Found at i:95950923 original size:40 final size:40
Alignment explanation
Indices: 95950886--95951017 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
95950876 GCTACTCGTT
*
95950886 CAAATGCCTTCGGGAAATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGAAATAACCCGGATT-TAGTAACTCGCA
* **
95950926 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGAAATAACCCGGATTTAGTAACTCGCA
* ** * * * *
95950966 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGAAATAACCCGGATTTAGTAACTCGCA
95951005 CAAATGCCTTCGG
1 CAAATGCCTTCGG
95951018 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 33 0.41
40 45 0.56
41 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGAAATAACCCGGATTTAGTAACTCGCA
Found at i:95950997 original size:79 final size:80
Alignment explanation
Indices: 95950914--95951068 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 80
95950904 AGCCCGGTTA
* * *
95950914 TAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGGATTTAGT-AACTCGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTCAACTAGCA-CAAAGCCTTC
95950977 GGG-CTTAGCCCGAAAT
64 GGGACTTAGCCCGAAAT
* ** * *
95950993 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCAATTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAAGCCTTCGG
95951058 GACTTAGCCCG
66 GACTTAGCCCG
95951069 GACATCATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.05
79 47 0.72
80 15 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAAGCCTTCGG
GACTTAGCCCGAAAT
Found at i:95951011 original size:39 final size:39
Alignment explanation
Indices: 95950914--95951023 Score: 148
Period size: 39 Copynumber: 2.8 Consensus size: 39
95950904 AGCCCGGTTA
* *
95950914 TAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGACTTAACCCGAAAT
* * *
95950954 TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGAAAT
1 TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGAAAT
*
95950993 TAGTATCTCGCACAAATGCCTTCGGATCTTA
1 TAGTAACTCGCACAAATGCCTTCGGA-CTTA
95951024 GTCCGGATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 35 0.57
40 26 0.43
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGAAAT
Found at i:95958699 original size:40 final size:40
Alignment explanation
Indices: 95958601--95959583 Score: 1756
Period size: 40 Copynumber: 24.6 Consensus size: 40
95958591 TCCTCGTTCA
* * * *
95958601 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* **
95958640 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
95958680 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95958720 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95958760 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95958800 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95958840 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95958880 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95958920 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95958960 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959000 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959040 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959080 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959120 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959160 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959200 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959240 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959280 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959320 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959360 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
95959400 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
95959440 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
95959480 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * * * * *
95959520 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
* *
95959560 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
95959584 CAGCATTCAA
Statistics
Matches: 918, Mismatches: 22, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
39 37 0.04
40 873 0.95
41 8 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:95960839 original size:150 final size:150
Alignment explanation
Indices: 95960680--95960979 Score: 600
Period size: 150 Copynumber: 2.0 Consensus size: 150
95960670 GGGGACAAAC
95960680 ACCACACACACATTTTTTTTTCTTTTGTTTTCCATTTCTTTATTACCCATACTCCTTATTTTATT
1 ACCACACACACATTTTTTTTTCTTTTGTTTTCCATTTCTTTATTACCCATACTCCTTATTTTATT
95960745 CTTCCACTAACAAAACATGTTTCATGACATGTTTTGCCCATCCTTCCTTGTCATGGCCGGCCACT
66 CTTCCACTAACAAAACATGTTTCATGACATGTTTTGCCCATCCTTCCTTGTCATGGCCGGCCACT
95960810 ACTCATTAGGGGGGGAATTT
131 ACTCATTAGGGGGGGAATTT
95960830 ACCACACACACATTTTTTTTTCTTTTGTTTTCCATTTCTTTATTACCCATACTCCTTATTTTATT
1 ACCACACACACATTTTTTTTTCTTTTGTTTTCCATTTCTTTATTACCCATACTCCTTATTTTATT
95960895 CTTCCACTAACAAAACATGTTTCATGACATGTTTTGCCCATCCTTCCTTGTCATGGCCGGCCACT
66 CTTCCACTAACAAAACATGTTTCATGACATGTTTTGCCCATCCTTCCTTGTCATGGCCGGCCACT
95960960 ACTCATTAGGGGGGGAATTT
131 ACTCATTAGGGGGGGAATTT
95960980 GACATGCAAG
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.41
Consensus pattern (150 bp):
ACCACACACACATTTTTTTTTCTTTTGTTTTCCATTTCTTTATTACCCATACTCCTTATTTTATT
CTTCCACTAACAAAACATGTTTCATGACATGTTTTGCCCATCCTTCCTTGTCATGGCCGGCCACT
ACTCATTAGGGGGGGAATTT
Found at i:95961668 original size:40 final size:40
Alignment explanation
Indices: 95961574--95961718 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
95961564 TACTCGAATG
*
95961574 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
95961615 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
95961655 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
95961695 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
95961719 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:95965528 original size:61 final size:61
Alignment explanation
Indices: 95965433--95965553 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
95965423 GCCCTGTCCC
*
95965433 ACAAAAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTTGTTACTTCCTCATA
1 ACAAAAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATA
95965494 ACAAAAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCAT
1 ACAAAAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCAT
95965554 GAAAACAGAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (61 bp):
ACAAAAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATA
Found at i:95966403 original size:27 final size:27
Alignment explanation
Indices: 95966373--95966578 Score: 261
Period size: 27 Copynumber: 7.6 Consensus size: 27
95966363 ATATTGAGTC
* * *
95966373 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
95966400 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
95966428 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
95966455 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
95966483 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
95966510 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
95966537 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
95966564 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95966579 GTACAATTTA
Statistics
Matches: 160, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
27 109 0.68
28 51 0.32
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:95966457 original size:55 final size:55
Alignment explanation
Indices: 95966373--95966578 Score: 272
Period size: 55 Copynumber: 3.8 Consensus size: 55
95966363 ATATTGAGTC
* * *
95966373 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
* *
95966428 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
** * * * *
95966483 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCAT-TT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTA-CATAATCATACT
* *
95966537 CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
95966579 GTACAATTTA
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 39 0.29
55 94 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
Found at i:95966513 original size:82 final size:83
Alignment explanation
Indices: 95966373--95966577 Score: 265
Period size: 82 Copynumber: 2.5 Consensus size: 83
95966363 ATATTGAGTC
* * * *
95966373 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCATACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCACATAATCATACTCGCACACTT
95966437 AGTGC-TACATAGTCAACT
66 AGTGCAT-CATAGTCAACT
* ** *
95966455 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCA-ATTCGCACACTT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCACATAATCATACTCGCACACTT
* **
95966519 AGTGCATCATATTCATTT
66 AGTGCATCATAGTCAACT
*
95966537 CGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGC
95966578 TGTACAATTT
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
81 15 0.14
82 69 0.63
83 25 0.23
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCACATAATCATACTCGCACACTT
AGTGCATCATAGTCAACT
Found at i:95971765 original size:21 final size:21
Alignment explanation
Indices: 95971741--95971789 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
95971731 CAGGGGACAA
95971741 GCCCGTGT-GGAAGGGTAACAC
1 GCCCGTGTAGG-AGGGTAACAC
* *
95971762 GCCCATGTAGGCGGGTAACAC
1 GCCCGTGTAGGAGGGTAACAC
95971783 GCCCGTG
1 GCCCGTG
95971790 CCCCATAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.20, C:0.29, G:0.37, T:0.14
Consensus pattern (21 bp):
GCCCGTGTAGGAGGGTAACAC
Found at i:95972956 original size:47 final size:47
Alignment explanation
Indices: 95972858--95972972 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 47
95972848 CTAATGCTAT
* * *
95972858 GTCCCAGACATGGTCTTACACTGGCTCATAGCTCAAGTCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGACTCATAGCTCAAGCCGATGCCAG
* *
95972905 GTCCCAGACATGGTCTTACACTGACT-ATCATCTCTTAGCCGATG-CAG
1 GTCCCAGACATGGTCTTACACTGACTCAT-AGCTC-AAGCCGATGCCAG
*
95972952 GTCCCAGACAT-GCCTTACACT
1 GTCCCAGACATGGTCTTACACT
95972973 TGCTTACGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
46 11 0.18
47 42 0.70
48 7 0.12
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
GTCCCAGACATGGTCTTACACTGACTCATAGCTCAAGCCGATGCCAG
Found at i:95974159 original size:22 final size:22
Alignment explanation
Indices: 95974134--95974186 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
95974124 TGGCACACAA
*
95974134 CCATAATCAGGTTGCCACAGAG
1 CCATAATCAGGTTGCCACAAAG
* * *
95974156 CCAT-ATGTAGGTTGGCTCAAAG
1 CCATAAT-CAGGTTGCCACAAAG
95974178 CCATAATCA
1 CCATAATCA
95974187 TAATAATTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
21 2 0.08
22 20 0.83
23 2 0.08
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (22 bp):
CCATAATCAGGTTGCCACAAAG
Found at i:95974394 original size:41 final size:41
Alignment explanation
Indices: 95974329--95974451 Score: 183
Period size: 41 Copynumber: 3.0 Consensus size: 41
95974319 TAAAAGCCAC
* * *
95974329 CGGTGGATCCACGATCGTCTAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* *
95974370 CGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAGT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* *
95974411 TGGTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
95974452 TTCTTCCTCC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:95974741 original size:27 final size:27
Alignment explanation
Indices: 95974697--95974914 Score: 181
Period size: 27 Copynumber: 8.1 Consensus size: 27
95974687 TACAATGGTG
* * *
95974697 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
* * *
95974724 TTTTGGTAATTTTTCAAA-TTAGATGTA
1 TTTTGGTAATTTTACAAACTAAG-GGTA
* * * *
95974751 TTTTGTTAATTTTAAAAATTGAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
* * **
95974778 TTTCGATAATTTTACAAGTTAAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
* * *
95974805 TTTCGGTAATTTCACAAA-TCAATGGTA
1 TTTTGGTAATTTTACAAACT-AAGGGTA
*
95974832 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
* *
95974859 TTTTGGTAATTTTTCTAA-TCAAGGGTA
1 TTTTGGTAATTTTACAAACT-AAGGGTA
* **
95974886 TTCTGGTAATTTTGTAAACTAAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
95974913 TT
1 TT
95974915 CAGTAATTTT
Statistics
Matches: 154, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.03
27 145 0.94
28 5 0.03
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACTAAGGGTA
Found at i:95974815 original size:81 final size:81
Alignment explanation
Indices: 95974716--95974898 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
95974706 ATCTACAAAC
* * * * *
95974716 CAAGGGTATTTTGGTAATTTTTCAAATTAGAT-GTATTTTGTTAATTTTAAAAA-TTGAGGGTAT
1 CAAGGGTATTTCGGTAATTTTACAAATCA-ATGGTATTTTGGTAATTTTAAAAACTAG-GGGTAT
95974779 TTCGATAATTTTAC-AAGT
64 TTCGATAATTTTACTAA-T
* * *
95974797 TAAGGGTATTTCGGTAATTTCACAAATCAATGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 CAAGGGTATTTCGGTAATTTTACAAATCAATGGTATTTTGGTAATTTTAAAAACTAGGGGTATTT
* * *
95974862 TGGTAATTTTTCTAAT
66 CGATAATTTTACTAAT
95974878 CAAGGGTA-TTCTGGTAATTTT
1 CAAGGGTATTTC-GGTAATTTT
95974899 GTAAACTAAG
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
80 5 0.06
81 76 0.89
82 4 0.05
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (81 bp):
CAAGGGTATTTCGGTAATTTTACAAATCAATGGTATTTTGGTAATTTTAAAAACTAGGGGTATTT
CGATAATTTTACTAAT
Found at i:95974915 original size:27 final size:27
Alignment explanation
Indices: 95974828--95974937 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
95974818 ACAAATCAAT
* ** *
95974828 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTCTGGTAATTTTGTAAACTAAG
* * *
95974855 GGTATTTTGGTAATTTTTCTAATC-AAG
1 GGTATTCTGGTAA-TTTTGTAAACTAAG
95974882 GGTATTCTGGTAATTTTGTAAACTAAG
1 GGTATTCTGGTAATTTTGTAAACTAAG
* *
95974909 GGTATTC-AGTAATTTTGTAAACCAAG
1 GGTATTCTGGTAATTTTGTAAACTAAG
95974935 GGT
1 GGT
95974938 CTTTCGGTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 28 0.39
27 37 0.51
28 7 0.10
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTATTCTGGTAATTTTGTAAACTAAG
Found at i:95974920 original size:26 final size:27
Alignment explanation
Indices: 95974878--95974937 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
95974868 TTTTTCTAAT
*
95974878 CAAGGGTATTCTGGTAATTTTGTAAAC
1 CAAGGGTATTCTAGTAATTTTGTAAAC
*
95974905 TAAGGGTATTC-AGTAATTTTGTAAAC
1 CAAGGGTATTCTAGTAATTTTGTAAAC
95974931 CAAGGGT
1 CAAGGGT
95974938 CTTTCGGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTCTAGTAATTTTGTAAAC
Found at i:95976391 original size:41 final size:41
Alignment explanation
Indices: 95976299--95976441 Score: 211
Period size: 41 Copynumber: 3.5 Consensus size: 41
95976289 ACCCAAGTAA
* *
95976299 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCAC-AAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAATGC
* *
95976338 CTTCGGGTCTTAGCCTGGATATAGTCACTAGCACAAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGC
95976379 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGC
*
95976420 CTTCGGGTCTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
95976442 CATCCGAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
39 11 0.12
40 16 0.17
41 67 0.71
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGC
Found at i:95981588 original size:19 final size:19
Alignment explanation
Indices: 95981553--95981590 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
95981543 TCCAAAATCC
95981553 CACCATTTCGCACACTTAT
1 CACCATTTCGCACACTTAT
*
95981572 CACCTATTTTGCA-ACTTAT
1 CACC-ATTTCGCACACTTAT
95981591 GAAAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (19 bp):
CACCATTTCGCACACTTAT
Found at i:95989031 original size:93 final size:94
Alignment explanation
Indices: 95988868--95989088 Score: 222
Period size: 93 Copynumber: 2.4 Consensus size: 94
95988858 TTGTGTGTGG
* * * *
95988868 GCCAATGTAAGACCATGTCTAGG-ACATGGCATCG-GTAAT-GA-GACGAGTGCTAGTGTAAGAC
1 GCCAGTGTAAGACCATGTCT-GGAACATGGCATCGACTACTAGATGA-TAGT-C-AGTGTAAGAC
* * *
95988929 ATGTCTGGGACAT-GCATCGGCCTCAAAACGTAA
62 ATATATGGGACATGGCATC-GACTCAAAACGTAA
* *
95988962 TCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACTAGATGATAGTCAGTGTAAGACCATA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGACTACTAGATGATAGTCAGTGTAAGA-CATA
** * *
95989025 TATGGGACATGGCATCGACTTGAGATGTAA
65 TATGGGACATGGCATCGACTCAAAACGTAA
95989055 GCCAGTGTAAGACCATGTCTGGAACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCG
95989089 GCACCATACC
Statistics
Matches: 105, Mismatches: 14, Indels: 15
0.78 0.10 0.11
Matches are distributed among these distances:
92 17 0.16
93 47 0.45
94 33 0.31
95 8 0.08
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (94 bp):
GCCAGTGTAAGACCATGTCTGGAACATGGCATCGACTACTAGATGATAGTCAGTGTAAGACATAT
ATGGGACATGGCATCGACTCAAAACGTAA
Found at i:95989051 original size:47 final size:47
Alignment explanation
Indices: 95988868--95989088 Score: 181
Period size: 47 Copynumber: 4.7 Consensus size: 47
95988858 TTGTGTGTGG
* * * * *
95988868 GCCAATGTAAGACCATGTCTAGGACATGGCATCG-GTAATGAGACG-AGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-AT-AGATGTA-A
* * * *
95988916 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCA-AAACGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACT-ATAGATGTAA
*
95988962 TCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACTAGATG-ATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTA-TAGATGTA-A
* * *
95989008 GTCAGTGTAAGACCATATATGGGACATGGCATCGACT-TGAGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTAT-AGATGTAA
*
95989055 GCCAGTGTAAGACCATGTCTGGAACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
95989089 GCACCATACC
Statistics
Matches: 143, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 53 0.37
47 63 0.44
48 22 0.15
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTATAGATGTAA
Found at i:95990094 original size:126 final size:126
Alignment explanation
Indices: 95989928--95990180 Score: 366
Period size: 126 Copynumber: 2.0 Consensus size: 126
95989918 AAAGCACATA
*
95989928 GGCGTGTGCCTTGGCCATGTGACATCTTGAGCATGATGACGTCAAAAATAGAATGTCCA-TGTTT
1 GGCGTGTGCCTTGGCCATGTGACATCTTGAGCATGATGACGTCAAAAACAGAATGT-CATTGTTT
* * * ** *
95989992 TTTCACACTGGCT-AGTACACGGGCGTGTTGTGGCCGTGTGAGGGACACGGGCCATTGACACG
65 TTGCACACGGGCTGAG-ACACGAGCGTGTCATGGCCGTGTGAGAGACACGGGCCATTGACACG
* * *
95990054 GGCGTGTGCCTTGGCCGTTTGACATCTTGAGCATGCTGACGTCAAAAACAGAATGTCATTGTTTT
1 GGCGTGTGCCTTGGCCATGTGACATCTTGAGCATGATGACGTCAAAAACAGAATGTCATTGTTTT
* *
95990119 TGCACACGGGCTGAGACACGAGCGTGTCATGGCTGTGTGAGAGACATGGGCCATTGACACG
66 TGCACACGGGCTGAGACACGAGCGTGTCATGGCCGTGTGAGAGACACGGGCCATTGACACG
95990180 G
1 G
95990181 ACATGTGACT
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
125 2 0.02
126 109 0.96
127 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (126 bp):
GGCGTGTGCCTTGGCCATGTGACATCTTGAGCATGATGACGTCAAAAACAGAATGTCATTGTTTT
TGCACACGGGCTGAGACACGAGCGTGTCATGGCCGTGTGAGAGACACGGGCCATTGACACG
Done.