Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 188 of 190
Found at i:32725959 original size:12 final size:12
Alignment explanation
Indices: 32725944--32726002 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
32725934 AAAAGAAAAG
32725944 AAAAAAAATACT
1 AAAAAAAATACT
*
32725956 AAAAAAAAAAACT
1 -AAAAAAAATACT
*
32725969 AAGAAAAATACT
1 AAAAAAAATACT
* *
32725981 AAATAAAA-ACC
1 AAAAAAAATACT
32725992 AAAGAAAAATA
1 AAA-AAAAATA
32726003 AAAAACACTC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
11 5 0.14
12 20 0.54
13 12 0.32
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAAAAAATACT
Found at i:32725960 original size:13 final size:13
Alignment explanation
Indices: 32725944--32725989 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
32725934 AAAAGAAAAG
32725944 AAAAAAAATACTA
1 AAAAAAAATACTA
*
32725957 AAAAAAAAAACT-
1 AAAAAAAATACTA
*
32725969 AAGAAAAATACTA
1 AAAAAAAATACTA
32725982 AATAAAAA
1 AA-AAAAA
32725990 CCAAAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 10 0.37
13 13 0.48
14 4 0.15
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.13
Consensus pattern (13 bp):
AAAAAAAATACTA
Found at i:32725966 original size:24 final size:24
Alignment explanation
Indices: 32725934--32726000 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 24
32725924 TTTAATCATC
*
32725934 AAAAGAAAAGAAAAAAAATACTAA
1 AAAAAAAAAGAAAAAAAATACTAA
* *
32725958 AAAAAAAAACTAAGAAAAATACTAA
1 AAAAAAAAA-GAAAAAAAATACTAA
32725983 ATAAAAACCAAAGAAAAA
1 A-AAAAA--AAAGAAAAA
32726001 TAAAAAACAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
24 8 0.24
25 14 0.41
26 5 0.15
27 4 0.12
28 3 0.09
ACGTcount: A:0.78, C:0.07, G:0.06, T:0.09
Consensus pattern (24 bp):
AAAAAAAAAGAAAAAAAATACTAA
Found at i:32726001 original size:24 final size:25
Alignment explanation
Indices: 32725934--32726002 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
32725924 TTTAATCATC
* *
32725934 AAAAGAAAAGAAA-AAAAATACTAA
1 AAAAAAAAACAAAGAAAAATACTAA
*
32725958 AAAAAAAAACTAAGAAAAATACT-A
1 AAAAAAAAACAAAGAAAAATACTAA
* *
32725982 AATAAAAACCAAAGAAAAATA
1 AAAAAAAAACAAAGAAAAATA
32726003 AAAAACACTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 29 0.76
25 9 0.24
ACGTcount: A:0.77, C:0.07, G:0.06, T:0.10
Consensus pattern (25 bp):
AAAAAAAAACAAAGAAAAATACTAA
Found at i:32726262 original size:16 final size:15
Alignment explanation
Indices: 32726238--32726268 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
32726228 CTCATTTATC
32726238 TTCTCTCTCTTCCCT
1 TTCTCTCTCTTCCCT
32726253 TTCTCTTCTCTTCCCT
1 TTCTC-TCTCTTCCCT
32726269 CTCTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (15 bp):
TTCTCTCTCTTCCCT
Found at i:32726465 original size:12 final size:12
Alignment explanation
Indices: 32726448--32726475 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
32726438 GTCGAAATCT
32726448 AAAAATTTTTCA
1 AAAAATTTTTCA
32726460 AAAAATTTTTCA
1 AAAAATTTTTCA
32726472 AAAA
1 AAAA
32726476 CAATTCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAAATTTTTCA
Found at i:32727748 original size:28 final size:29
Alignment explanation
Indices: 32727716--32727783 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
32727706 TAACTAATGT
* *
32727716 AATATTAGATAAAAATAGT-AAGATATAA
1 AATATTAAAAAAAAATAGTAAAGATATAA
**
32727744 AATATTAAAAAAAAAATTTTAAAGATATAA
1 AATATT-AAAAAAAAATAGTAAAGATATAA
32727774 AATATTAAAA
1 AATATTAAAA
32727784 TTTAAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.18
29 13 0.38
30 15 0.44
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (29 bp):
AATATTAAAAAAAAATAGTAAAGATATAA
Found at i:32728840 original size:20 final size:20
Alignment explanation
Indices: 32728802--32728840 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32728792 TAAATAATTG
* *
32728802 TTTATAATTTAATACTATTA
1 TTTAAAATTTAAAACTATTA
*
32728822 TTTAAAATTTAAAATTATT
1 TTTAAAATTTAAAACTATT
32728841 TCATTTCAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAAAATTTAAAACTATTA
Found at i:32729305 original size:15 final size:14
Alignment explanation
Indices: 32729285--32729322 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
32729275 TATTATGATT
32729285 TAATATTTTTAATTA
1 TAATATTTTTAA-TA
*
32729300 TAATATTTATAATA
1 TAATATTTTTAATA
32729314 T-ATATTTTT
1 TAATATTTTT
32729323 TGAACATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TAATATTTTTAATA
Found at i:32731768 original size:25 final size:22
Alignment explanation
Indices: 32731715--32731773 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
32731705 TAATTGAATT
*
32731715 AAAATTAAATTAAAACAATATG
1 AAAATTAAATTTAAACAATATG
* *
32731737 AAGATTAAATTTAAATAATAATAG
1 AAAATTAAATTTAAACAAT-AT-G
32731761 AGAAATTAAATTT
1 A-AAATTAAATTT
32731774 TTAAATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 16 0.53
23 2 0.07
24 2 0.07
25 10 0.33
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAATTAAATTTAAACAATATG
Found at i:32738683 original size:25 final size:26
Alignment explanation
Indices: 32738633--32738688 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
32738623 AACTTCTAGA
*
32738633 TATTTATTTATATAATTATAAAAA-T
1 TATTTATTTATATAAGTATAAAAATT
* *
32738658 TATTTA-TTATAGTAAGTCTAAGAATT
1 TATTTATTTATA-TAAGTATAAAAATT
32738684 TATTT
1 TATTT
32738689 GAAAATTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (26 bp):
TATTTATTTATATAAGTATAAAAATT
Found at i:32743689 original size:14 final size:14
Alignment explanation
Indices: 32743672--32743703 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
32743662 GTATTATACG
*
32743672 TATACATATATATA
1 TATACATATACATA
32743686 TATACATATACATA
1 TATACATATACATA
32743700 TATA
1 TATA
32743704 TAGCATACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (14 bp):
TATACATATACATA
Found at i:32743695 original size:20 final size:20
Alignment explanation
Indices: 32743666--32743705 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
32743656 CAGTGAGTAT
*
32743666 TATACGTATACATATATATA
1 TATACATATACATATATATA
32743686 TATACATATACATATATATA
1 TATACATATACATATATATA
32743706 GCATACTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (20 bp):
TATACATATACATATATATA
Found at i:32744995 original size:16 final size:17
Alignment explanation
Indices: 32744974--32745005 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
32744964 TATTTAATTA
32744974 TAAAATTAAA-TAAAAT
1 TAAAATTAAATTAAAAT
32744990 TAAAATTAAATTAAAA
1 TAAAATTAAATTAAAA
32745006 CGATATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAATTAAATTAAAAT
Found at i:32745000 original size:11 final size:11
Alignment explanation
Indices: 32744973--32745005 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
32744963 ATATTTAATT
32744973 ATAAAATT-AA
1 ATAAAATTAAA
32744983 ATAAAATTAAA
1 ATAAAATTAAA
*
32744994 ATTAAATTAAA
1 ATAAAATTAAA
32745005 A
1 A
32745006 CGATATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
ATAAAATTAAA
Found at i:32745036 original size:23 final size:21
Alignment explanation
Indices: 32744976--32745038 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
32744966 TTTAATTATA
*
32744976 AAATTAAATAAAAT-TAAAATT
1 AAATTAAA-ACAATATAAAATT
*
32744997 AAATTAAAACGATATAAAGATT
1 AAATTAAAACAATATAAA-ATT
32745019 AAATTTAAAA-AATAATAAAA
1 AAA-TTAAAACAAT-ATAAAA
32745039 ATTTTAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 3 0.09
21 12 0.34
22 9 0.26
23 11 0.31
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (21 bp):
AAATTAAAACAATATAAAATT
Found at i:32752096 original size:26 final size:25
Alignment explanation
Indices: 32752067--32752122 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
32752057 CAAATGACAT
*
32752067 ATTAACATATTTAAAA-AATATATAAA
1 ATTAACA-AATTAAAATAATATA-AAA
**
32752093 ATTATTAAATTAAAATAATATAAAA
1 ATTAACAAATTAAAATAATATAAAA
32752118 ATTAA
1 ATTAA
32752123 ATTTAAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATTAACAAATTAAAATAATATAAAA
Found at i:32752124 original size:22 final size:22
Alignment explanation
Indices: 32752081--32752130 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
32752071 ACATATTTAA
32752081 AAAATATATAAAATTATTAAATT
1 AAAATATATAAAA-TATTAAATT
32752104 AAAATAATATAAAA-ATTAAATT
1 AAAAT-ATATAAAATATTAAATT
*
32752126 TAAAT
1 AAAAT
32752131 GGATAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 12 0.48
23 5 0.20
24 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATATATAAAATATTAAATT
Found at i:32754861 original size:61 final size:60
Alignment explanation
Indices: 32754796--32754910 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
32754786 TTCATAACGG
* * * * *
32754796 TATTTTTATAATTATGATAAGAGATATATTATAGTAGTTTTGATTAATTATAAGAGAACAA
1 TATTTATATAATTATGATAAGAGA-ATATTATAGTAATGTTGATCAATAATAAGAGAACAA
* *
32754857 TATTTATGTAATTATGATAATAGAATATTATAGTAATGTTGATCAATAATAAGA
1 TATTTATATAATTATGATAAGAGAATATTATAGTAATGTTGATCAATAATAAGA
32754911 AAAAAAGTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 26 0.55
61 21 0.45
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.42
Consensus pattern (60 bp):
TATTTATATAATTATGATAAGAGAATATTATAGTAATGTTGATCAATAATAAGAGAACAA
Found at i:32754899 original size:25 final size:26
Alignment explanation
Indices: 32754855--32754904 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
32754845 ATAAGAGAAC
32754855 AATATTTATGTAATTATGAT-AATAG
1 AATATTTATGTAATTATGATCAATAG
32754880 AATA-TTATAGTAATGT-TGATCAATA
1 AATATTTAT-GTAAT-TATGATCAATA
32754905 ATAAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
24 4 0.18
25 13 0.59
26 5 0.23
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (26 bp):
AATATTTATGTAATTATGATCAATAG
Found at i:32754930 original size:61 final size:61
Alignment explanation
Indices: 32754803--32754930 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 61
32754793 CGGTATTTTT
* * * * * * *
32754803 ATAATTATGATAAGAGATATATTATAGTAGTTTTGATTAATTATAAGAGAACAATATTTAT
1 ATAATTATGATAAGAGATATATTATAGTAATGTTGATCAATAATAAGAAAAAAATATTTAC
* * *
32754864 GTAATTATGATAATAGA-ATATTATAGTAATGTTGATCAATAATAAGAAAAAAAGTATTTCC
1 ATAATTATGATAAGAGATATATTATAGTAATGTTGATCAATAATAAGAAAAAAA-TATTTAC
32754925 ATAATT
1 ATAATT
32754931 CAATAATAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 30 0.55
61 25 0.45
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.38
Consensus pattern (61 bp):
ATAATTATGATAAGAGATATATTATAGTAATGTTGATCAATAATAAGAAAAAAATATTTAC
Found at i:32755019 original size:37 final size:37
Alignment explanation
Indices: 32754946--32755023 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
32754936 ATAAATGAAG
* * *
32754946 AAATATTTTTATAATTATGATACGAGGATATTATAAT
1 AAATAATTTTATAATTATGATACGAGGACATGATAAT
* *
32754983 AAATAATTTTGTAATTATGATATGATGG-CATGATAAT
1 AAATAATTTTATAATTATGATACGA-GGACATGATAAT
32755020 AAAT
1 AAAT
32755024 TTATGAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 33 0.94
38 2 0.06
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (37 bp):
AAATAATTTTATAATTATGATACGAGGACATGATAAT
Found at i:32755057 original size:51 final size:53
Alignment explanation
Indices: 32754994--32755113 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 53
32754984 AATAATTTTG
* ** * * *
32754994 TAATTATGATATGATGGCATGATAATAAAT-TTATGAAAAGA-GATATTTTCA
1 TAATTATAATATGAAAGCATGATAAAAAATATTATAAAAAAATGATATTTTCA
* * * *
32755045 TAATTATAATATGAAAGTATTATAAAAAATAATTATAAAAAAATGATGTTTTCG
1 TAATTATAATATGAAAGCATGATAAAAAAT-ATTATAAAAAAATGATATTTTCA
32755099 TAATTATAATATGAA
1 TAATTATAATATGAA
32755114 GATAAAATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
51 24 0.43
53 9 0.16
54 23 0.41
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.38
Consensus pattern (53 bp):
TAATTATAATATGAAAGCATGATAAAAAATATTATAAAAAAATGATATTTTCA
Found at i:32756245 original size:3 final size:3
Alignment explanation
Indices: 32756237--32756263 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32756227 TAGAAGCTCC
32756237 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
32756264 TTTCAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32756692 original size:12 final size:13
Alignment explanation
Indices: 32756669--32756697 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
32756659 AAATGATTAA
32756669 AATATATAGGGTC
1 AATATATAGGGTC
32756682 AATAT-TAGGGTC
1 AATATATAGGGTC
32756694 AATA
1 AATA
32756698 ATTCAATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (13 bp):
AATATATAGGGTC
Found at i:32757164 original size:31 final size:30
Alignment explanation
Indices: 32757119--32757185 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 30
32757109 ATCAATATTA
* *
32757119 TAAAAACAATGTTTTATAAAATGATAATTT
1 TAAAAACAACGTTTTATAAAATGACAATTT
32757149 TAGAAAACAACGTTTTATAAAATGACAATTT
1 TA-AAAACAACGTTTTATAAAATGACAATTT
32757180 TAAAAA
1 TAAAAA
32757186 GATAAATTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 6 0.18
31 28 0.82
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.34
Consensus pattern (30 bp):
TAAAAACAACGTTTTATAAAATGACAATTT
Found at i:32757185 original size:15 final size:16
Alignment explanation
Indices: 32757130--32757185 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
32757120 AAAAACAATG
*
32757130 TTTTATAAAATGATAA
1 TTTTATAAAATGACAA
* ** *
32757146 TTTTAGAAAACAAC-G
1 TTTTATAAAATGACAA
32757161 TTTTATAAAATGACAA
1 TTTTATAAAATGACAA
32757177 TTTTA-AAAA
1 TTTTATAAAA
32757186 GATAAATTAC
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
15 15 0.50
16 15 0.50
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (16 bp):
TTTTATAAAATGACAA
Found at i:32764612 original size:2 final size:2
Alignment explanation
Indices: 32764605--32764629 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32764595 ATATGCTTTG
32764605 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32764630 AACAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32764786 original size:23 final size:25
Alignment explanation
Indices: 32764750--32764806 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
32764740 AATTATGTCA
*
32764750 TATTTTTATAATA-TCTAAAATTTT
1 TATTTTTATAATATTCTAAAATTAT
* *
32764774 TATTTTTGT-ATATTTTAAAATTAT
1 TATTTTTATAATATTCTAAAATTAT
32764798 T-TTTTTATA
1 TATTTTTATA
32764807 GAGTTTTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TATTTTTATAATATTCTAAAATTAT
Found at i:32764955 original size:3 final size:3
Alignment explanation
Indices: 32764947--32764977 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
32764937 GAAAGGAGAT
32764947 TTA TTA TTA TTA TTA TTA TTA TTA TTGA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
32764978 AGATTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:32773212 original size:16 final size:16
Alignment explanation
Indices: 32773191--32773223 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32773181 CCCAGGTTAA
*
32773191 CTCTCTCTCTATCTTT
1 CTCTCTCTCTAGCTTT
32773207 CTCTCTCTCTAGCTTT
1 CTCTCTCTCTAGCTTT
32773223 C
1 C
32773224 ACATGCACGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.03, T:0.52
Consensus pattern (16 bp):
CTCTCTCTCTAGCTTT
Found at i:32778790 original size:2 final size:2
Alignment explanation
Indices: 32778774--32778806 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
32778764 AGCATCATGC
*
32778774 AT AT A- AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32778807 TTGAGGGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:32784634 original size:78 final size:78
Alignment explanation
Indices: 32784499--32784654 Score: 267
Period size: 78 Copynumber: 2.0 Consensus size: 78
32784489 CCTGCACACT
* *
32784499 TAGCAACTATTCCAAGTTTCTTCTGCTTCAACTAGCCATCCCACGCCATACGCTTGGTATGAAAA
1 TAGCAACTATTCCAAGTTTCTTCTGCTTCAACTAGCCATCCCACGCCATACGATTGGTACGAAAA
32784564 TGTGTAAAAAATA
66 TGTGTAAAAAATA
* **
32784577 TAGCAACTATTCCAAGTTTCTTCTGCTTCAACTAGCCATCCTACGCCATTTGATTGGTACGAAAA
1 TAGCAACTATTCCAAGTTTCTTCTGCTTCAACTAGCCATCCCACGCCATACGATTGGTACGAAAA
32784642 TGTGTAAAAAATA
66 TGTGTAAAAAATA
32784655 CCCCTTACCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (78 bp):
TAGCAACTATTCCAAGTTTCTTCTGCTTCAACTAGCCATCCCACGCCATACGATTGGTACGAAAA
TGTGTAAAAAATA
Found at i:32785410 original size:18 final size:17
Alignment explanation
Indices: 32785386--32785432 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
32785376 TTTGATTATA
32785386 ATTAATTTTTTAAATTG
1 ATTAATTTTTTAAATTG
** *
32785403 ATTAAATTAATTAATTTG
1 ATT-AATTTTTTAAATTG
32785421 ATTAATTTTTTA
1 ATTAATTTTTTA
32785433 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
ATTAATTTTTTAAATTG
Found at i:32787788 original size:21 final size:21
Alignment explanation
Indices: 32787764--32787803 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32787754 TATAATGAAA
* *
32787764 ATTAATTTTACTAAAAAAAAG
1 ATTAAATTTAATAAAAAAAAG
*
32787785 ATTAAATTTAATATAAAAA
1 ATTAAATTTAATAAAAAAA
32787804 TAAAAGCTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
ATTAAATTTAATAAAAAAAAG
Found at i:32788024 original size:13 final size:13
Alignment explanation
Indices: 32788008--32788034 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32787998 AAAACTTACG
32788008 GACTCAACTCTGA
1 GACTCAACTCTGA
32788021 GACTCAACTCTGA
1 GACTCAACTCTGA
32788034 G
1 G
32788035 GCCGCTTCGA
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:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (13 bp):
GACTCAACTCTGA
Found at i:32804796 original size:13 final size:13
Alignment explanation
Indices: 32804771--32804807 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
32804761 TGATATGATG
32804771 ATATAATAT--AA
1 ATATAATATAAAA
32804782 ATATAATATAAAA
1 ATATAATATAAAA
*
32804795 ATAAAATATAAAA
1 ATATAATATAAAA
32804808 TTAATACGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 9 0.39
13 14 0.61
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATAATATAAAA
Found at i:32804813 original size:11 final size:12
Alignment explanation
Indices: 32804771--32804813 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
32804761 TGATATGATG
32804771 ATATAATAT-AA
1 ATATAATATAAA
32804782 ATATAATATAAAA
1 ATATAATAT-AAA
*
32804795 ATAAAATATAAA
1 ATATAATATAAA
32804807 AT-TAATA
1 ATATAATA
32804814 CGATTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 13 0.46
12 5 0.18
13 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATAATATAAA
Found at i:32806298 original size:21 final size:22
Alignment explanation
Indices: 32806260--32806311 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
32806250 TTCGAAATTA
32806260 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
32806282 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
32806303 AT-AAATATT
1 ATAAAATATT
32806312 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 11 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:32806320 original size:30 final size:30
Alignment explanation
Indices: 32806284--32806340 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
32806274 TTTTAAATAT
* * *
32806284 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
32806314 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
32806341 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:32811236 original size:15 final size:15
Alignment explanation
Indices: 32811216--32811244 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32811206 AAAGGATTGA
32811216 AATTGCAATATCATC
1 AATTGCAATATCATC
32811231 AATTGCAATATCAT
1 AATTGCAATATCAT
32811245 TATCTCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (15 bp):
AATTGCAATATCATC
Found at i:32817039 original size:159 final size:159
Alignment explanation
Indices: 32816693--32817328 Score: 1061
Period size: 159 Copynumber: 4.0 Consensus size: 159
32816683 TATTTGACTT
* *
32816693 TGATTTTGATCTTGATTTATTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTA
1 TGATTTTGAT-TT--TTT-TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTA
32816758 GTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCCT-AAAGTATTAGAGTC
61 GTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTG-CTAAAAGTATTAGAGTC
32816822 AATTGAGAATAATTTCCGATAATTAATTACTTGGC
125 AATTGAGAATAATTTCCGATAATTAATTACTTGGC
32816857 TGATTTTGATTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAG-TTT
1 TGATTTTGATTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTT
32816921 TCTTGCATTACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTA-TAGAGTCAATTG
66 TCTTGCA-TACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
32816985 AGAATAATTTCCGATAATTAATTACTTGGC
130 AGAATAATTTCCGATAATTAATTACTTGGC
32817015 TGATTTTGATTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAG-TT
1 TGATTTTGA-TTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTT
32817079 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
65 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
* * *
32817144 AGAATAATTTTCGATAATTAATTAATTGGT
130 AGAATAATTTCCGATAATTAATTACTTGGC
*
32817174 TGATCTTGA---TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTT
1 TGATTTTGATTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTT
* *
32817236 TCTTGCATACTCTTGAGGTGAGGAAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
66 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
* *
32817301 GAATAATTTCCAATAACTAATTACTTGG
131 GAATAATTTCCGATAATTAATTACTTGG
32817329 TAAAATTTTA
Statistics
Matches: 455, Mismatches: 12, Indels: 18
0.94 0.02 0.04
Matches are distributed among these distances:
155 49 0.11
156 90 0.20
158 107 0.24
159 159 0.35
160 35 0.08
161 3 0.01
163 2 0.00
164 10 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (159 bp):
TGATTTTGATTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTT
TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
GAATAATTTCCGATAATTAATTACTTGGC
Found at i:32819303 original size:15 final size:15
Alignment explanation
Indices: 32819283--32819311 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32819273 AAAGGATTGA
32819283 AATTGCAATATCATC
1 AATTGCAATATCATC
32819298 AATTGCAATATCAT
1 AATTGCAATATCAT
32819312 TATCTCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (15 bp):
AATTGCAATATCATC
Found at i:32824083 original size:12 final size:12
Alignment explanation
Indices: 32824068--32824134 Score: 68
Period size: 12 Copynumber: 5.6 Consensus size: 12
32824058 AAATAAATCT
32824068 TATAATATAAAA
1 TATAATATAAAA
*
32824080 TATAATACGAAAA
1 TATAATA-TAAAA
32824093 TATAATAT-AAA
1 TATAATATAAAA
32824104 TATGAA-ATAAAA
1 TAT-AATATAAAA
*
32824116 AATAAATATAAAA
1 TAT-AATATAAAA
32824129 -ATAATA
1 TATAATA
32824135 CGATTTAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
11 12 0.26
12 18 0.38
13 17 0.36
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (12 bp):
TATAATATAAAA
Found at i:32824111 original size:18 final size:18
Alignment explanation
Indices: 32824057--32824124 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
32824047 ATAGTATAAA
* *
32824057 AAAATAAATCTTATAATAT
1 AAAATAAATATGA-AATAT
*
32824076 AAAATATAATACGAAAATAT
1 AAAATA-AATATG-AAATAT
* *
32824096 AATATAAATATGAAATAA
1 AAAATAAATATGAAATAT
32824114 AAAATAAATAT
1 AAAATAAATAT
32824125 AAAAATAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
18 15 0.38
19 11 0.28
20 13 0.32
21 1 0.03
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAATAAATATGAAATAT
Found at i:32824261 original size:32 final size:32
Alignment explanation
Indices: 32824219--32824289 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
32824209 AAATTATAAC
32824219 ATAT-AATTTTTAAATAAAATATAATATAAAT
1 ATATAAATTTTTAAATAAAATATAATATAAAT
* ***
32824250 ATATAAATTTTTATATTTTATATAATATAAAT
1 ATATAAATTTTTAAATAAAATATAATATAAAT
*
32824282 ACATAAAT
1 ATATAAAT
32824290 GATTAGGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 4 0.12
32 30 0.88
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (32 bp):
ATATAAATTTTTAAATAAAATATAATATAAAT
Found at i:32824811 original size:11 final size:11
Alignment explanation
Indices: 32824795--32824821 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32824785 AGGCTGTGAC
32824795 AATGAGGTATA
1 AATGAGGTATA
32824806 AATGAGGTATA
1 AATGAGGTATA
32824817 AATGA
1 AATGA
32824822 AGTAGTAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (11 bp):
AATGAGGTATA
Found at i:32835304 original size:2 final size:2
Alignment explanation
Indices: 32835291--32835320 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
32835281 TCATTGTGCG
*
32835291 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32835321 CATCCATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32837083 original size:21 final size:21
Alignment explanation
Indices: 32837059--32837128 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
32837049 AAATGCTTCC
32837059 TCATTTTGGCTTACTGCTTTT
1 TCATTTTGGCTTACTGCTTTT
* *
32837080 TCATTTTGGCTCT-GTGCCTTT
1 TCATTTTGGCT-TACTGCTTTT
*
32837101 TCACTTTGG-TTCACTGCTTTT
1 TCATTTTGGCTT-ACTGCTTTT
32837122 TCATTTT
1 TCATTTT
32837129 TGGCCAATGC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 37 0.93
22 1 0.03
ACGTcount: A:0.09, C:0.21, G:0.14, T:0.56
Consensus pattern (21 bp):
TCATTTTGGCTTACTGCTTTT
Found at i:32838447 original size:14 final size:14
Alignment explanation
Indices: 32838428--32838455 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32838418 TTTAATTAAT
32838428 TTTAAATTAAATTA
1 TTTAAATTAAATTA
32838442 TTTAAATTAAATTA
1 TTTAAATTAAATTA
32838456 AATTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAATTAAATTA
Found at i:32838711 original size:16 final size:16
Alignment explanation
Indices: 32838674--32838726 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
32838664 TGAAATAAAA
* *
32838674 TGATTTATTTAATGTAT
1 TGATTTATTTTATAT-T
32838691 T-ATTTATTTTATATT
1 TGATTTATTTTATATT
32838706 TGATTT-TTTTATATT
1 TGATTTATTTTATATT
32838721 TCGATT
1 T-GATT
32838727 AAAATTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 12 0.38
16 19 0.59
17 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (16 bp):
TGATTTATTTTATATT
Found at i:32838717 original size:15 final size:17
Alignment explanation
Indices: 32838692--32838726 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
32838682 TTAATGTATT
32838692 ATTTATTTTATATTT-G
1 ATTTATTTTATATTTCG
32838708 ATTT-TTTTATATTTCG
1 ATTTATTTTATATTTCG
32838724 ATT
1 ATT
32838727 AAAATTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTTATTTTATATTTCG
Found at i:32838778 original size:14 final size:13
Alignment explanation
Indices: 32838759--32838800 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 13
32838749 AAAAATCATA
32838759 AATTTTAAAAAATT
1 AATTTT-AAAAATT
32838773 AATTTTAAAAATT
1 AATTTTAAAAATT
32838786 AA---TAAAAATT
1 AATTTTAAAAATT
32838796 AATTT
1 AATTT
32838801 AATAATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.40
13 9 0.36
14 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTTTAAAAATT
Found at i:32842799 original size:6 final size:6
Alignment explanation
Indices: 32842758--32842798 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
32842748 AAAGGATATG
* * *
32842758 AAGAAG AAGAAC AAGAAC AAGAAC AGGAAC AAGAAA AAGAA
1 AAGAAC AAGAAC AAGAAC AAGAAC AAGAAC AAGAAC AAGAA
32842799 AGAGAAGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.10, G:0.22, T:0.00
Consensus pattern (6 bp):
AAGAAC
Found at i:32846053 original size:33 final size:32
Alignment explanation
Indices: 32846016--32846087 Score: 81
Period size: 34 Copynumber: 2.2 Consensus size: 32
32846006 TTTATTAATT
* * *
32846016 TATAATTTTTAAAATTTTTAAATATTATTTTAA
1 TATAAATTTTAAAATATTTAAATA-GATTTTAA
* *
32846049 TATAAAATTTTAATATATTTAAGTAGATTTTAA
1 TAT-AAATTTTAAAATATTTAAATAGATTTTAA
32846082 TATAAA
1 TATAAA
32846088 ATTATTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 3 0.09
33 13 0.39
34 17 0.52
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
TATAAATTTTAAAATATTTAAATAGATTTTAA
Found at i:32846070 original size:34 final size:33
Alignment explanation
Indices: 32846022--32846090 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
32846012 AATTTATAAT
* *
32846022 TTTTAAAATTTTTAAATATTATTTTAATATAAAA
1 TTTTAAAATATTTAAATA-GATTTTAATATAAAA
* *
32846056 TTTTAATATATTTAAGTAGATTTTAATATAAAA
1 TTTTAAAATATTTAAATAGATTTTAATATAAAA
32846089 TT
1 TT
32846091 ATTATTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 16 0.52
34 15 0.48
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (33 bp):
TTTTAAAATATTTAAATAGATTTTAATATAAAA
Found at i:32846915 original size:13 final size:13
Alignment explanation
Indices: 32846895--32846926 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
32846885 TTAATAATTT
32846895 AAAATATGATATA
1 AAAATATGATATA
*
32846908 ATAATATGATATA
1 AAAATATGATATA
32846921 AAAATA
1 AAAATA
32846927 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (13 bp):
AAAATATGATATA
Found at i:32854338 original size:14 final size:14
Alignment explanation
Indices: 32854294--32854341 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
32854284 AGCGGCTGTC
*
32854294 CAAGGTACGTCTTT
1 CAAGGTACGTATTT
*
32854308 CAACAGATACGTATTT
1 C-A-AGGTACGTATTT
*
32854324 CAAGGTACGTTTTT
1 CAAGGTACGTATTT
32854338 CAAG
1 CAAG
32854342 AAGAAACCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 15 0.54
15 2 0.07
16 11 0.39
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (14 bp):
CAAGGTACGTATTT
Found at i:32854571 original size:31 final size:31
Alignment explanation
Indices: 32854535--32854593 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
32854525 GAAAAATGGA
*
32854535 AGTGAAACGCA-CTTACCCGGAAAAAGAGGAG
1 AGTGAAAAGCAGC-TACCCGGAAAAAGAGGAG
*
32854566 AGTGAAAAGCAGCTACCTGGAAAAAGAG
1 AGTGAAAAGCAGCTACCCGGAAAAAGAG
32854594 AGGAGAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.44, C:0.17, G:0.29, T:0.10
Consensus pattern (31 bp):
AGTGAAAAGCAGCTACCCGGAAAAAGAGGAG
Found at i:32869465 original size:2 final size:2
Alignment explanation
Indices: 32869460--32869496 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32869450 AAAAAAAGAA
32869460 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
32869497 AACGCGAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32870854 original size:13 final size:13
Alignment explanation
Indices: 32870836--32870860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32870826 GACAAATAAA
32870836 ATAGATAAAGTTT
1 ATAGATAAAGTTT
32870849 ATAGATAAAGTT
1 ATAGATAAAGTT
32870861 GATAAAGTTT
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:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATAGATAAAGTTT
Found at i:32877664 original size:23 final size:22
Alignment explanation
Indices: 32877638--32877687 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
32877628 AAAAAAATTA
**
32877638 TATTTTTATCATTTATTATATAT
1 TATTTTTAAAATTTATT-TATAT
32877661 TA-TTTTAAAATTTATTTATAT
1 TATTTTTAAAATTTATTTATAT
32877682 TCATTT
1 T-ATTT
32877688 AAATTTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.26
22 13 0.57
23 4 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTTAAAATTTATTTATAT
Found at i:32877699 original size:21 final size:20
Alignment explanation
Indices: 32877635--32877690 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
32877625 AATAAAAAAA
**
32877635 TTATATT-TTTATCATTTAT
1 TTATATTATTTAAAATTTAT
32877654 TATATATTATTTTAAAATTTAT
1 T-TATATTA-TTTAAAATTTAT
32877676 TTATATTCATTTAAA
1 TTATATT-ATTTAAA
32877691 TTTTGTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 1 0.03
20 6 0.19
21 12 0.39
22 12 0.39
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATATTATTTAAAATTTAT
Found at i:32877708 original size:21 final size:21
Alignment explanation
Indices: 32877664--32877708 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
32877654 TATATATTAT
*
32877664 TTTAAAATTTATTTATATTCA
1 TTTAAAATTTATTTAAATTCA
* * *
32877685 TTTAAATTTTGTTTAAATTTA
1 TTTAAAATTTATTTAAATTCA
32877706 TTT
1 TTT
32877709 GATTATAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTAAAATTTATTTAAATTCA
Found at i:32877752 original size:14 final size:13
Alignment explanation
Indices: 32877730--32877775 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
32877720 TTATTATTAA
32877730 TTAATATATTTGT
1 TTAATATATTTGT
*
32877743 TTACATATA-TTCT
1 TTA-ATATATTTGT
*
32877756 TAAATATATTTGT
1 TTAATATATTTGT
32877769 TTAATAT
1 TTAATAT
32877776 TTATAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 5 0.19
13 17 0.63
14 5 0.19
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (13 bp):
TTAATATATTTGT
Found at i:32877753 original size:26 final size:25
Alignment explanation
Indices: 32877724--32877795 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
32877714 TAAATTTTAT
32877724 TATTAATT-AATATATTTGTTTACATA
1 TATT-ATTAAATATATTTGTTTA-ATA
*
32877750 TATTCTTAAATATATTTGTTTAATA
1 TATTATTAAATATATTTGTTTAATA
* *
32877775 T-TTA-TAAATAAATTTATTTAA
1 TATTATTAAATATATTTGTTTAA
32877796 CTTGATCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 15 0.37
24 2 0.05
25 6 0.15
26 18 0.44
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (25 bp):
TATTATTAAATATATTTGTTTAATA
Found at i:32877782 original size:23 final size:25
Alignment explanation
Indices: 32877732--32877795 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
32877722 ATTATTAATT
*
32877732 AATATATTTGTTTACATATATTCTTA
1 AATATATTTGTTTA-ATATATTCATA
32877758 AATATATTTGTTTAATAT-TT-ATA
1 AATATATTTGTTTAATATATTCATA
* *
32877781 AATAAATTTATTTAA
1 AATATATTTGTTTAA
32877796 CTTGATCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.43
24 2 0.06
25 4 0.11
26 14 0.40
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (25 bp):
AATATATTTGTTTAATATATTCATA
Found at i:32889962 original size:9 final size:9
Alignment explanation
Indices: 32889945--32889976 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
32889935 TGCTAGAAGA
32889945 TGCTGTTGC
1 TGCTGTTGC
*
32889954 TGTTGTTGC
1 TGCTGTTGC
32889963 TGCTGTTGC
1 TGCTGTTGC
32889972 TGCTG
1 TGCTG
32889977 ATGGTGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.34, T:0.47
Consensus pattern (9 bp):
TGCTGTTGC
Found at i:32891522 original size:30 final size:30
Alignment explanation
Indices: 32891486--32891543 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
32891476 TTTTAGTTTC
*
32891486 TATTAAAAGAAAGTTTCTTTTGGAGTTTTG
1 TATTAAAAAAAAGTTTCTTTTGGAGTTTTG
*
32891516 TATTAAAAAAAATTTTCTTTTGGAGTTT
1 TATTAAAAAAAAGTTTCTTTTGGAGTTT
32891544 AGTTTTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (30 bp):
TATTAAAAAAAAGTTTCTTTTGGAGTTTTG
Found at i:32892595 original size:32 final size:32
Alignment explanation
Indices: 32892559--32892625 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
32892549 TGTGAGACGT
*
32892559 AATTTTTATATAAAATATAATATAAATACATA
1 AATTTTAATATAAAATATAATATAAATACATA
*** *
32892591 AATTTTAATATTTTATATAATATAAATATATA
1 AATTTTAATATAAAATATAATATAAATACATA
32892623 AAT
1 AAT
32892626 CATTAAATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (32 bp):
AATTTTAATATAAAATATAATATAAATACATA
Found at i:32892622 original size:40 final size:38
Alignment explanation
Indices: 32892558--32892633 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 38
32892548 TTGTGAGACG
*
32892558 TAATTTTTATATAAAATATAATATAAATACA-TAAATTT
1 TAATTTTTATATAAAATAAAATATAAAT-CATTAAATTT
*
32892596 TAATATTTTATATAATATAAATATATAAATCATTAAAT
1 TAAT-TTTTATATAAAATAAA-ATATAAATCATTAAAT
32892634 CTACTCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 4 0.12
39 16 0.48
40 13 0.39
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (38 bp):
TAATTTTTATATAAAATAAAATATAAATCATTAAATTT
Found at i:32894956 original size:19 final size:19
Alignment explanation
Indices: 32894934--32894992 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
32894924 TTATACCATA
32894934 ATTTATA-TTTATATAAAAT
1 ATTTATATTTTAT-TAAAAT
*
32894953 ATTT-TATTTTATTAAATTT
1 ATTTATATTTTATTAAA-AT
32894972 ATTTATAATTTTTATTAAAAT
1 ATTTAT-A-TTTTATTAAAAT
32894993 TTAAAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 6 0.18
19 14 0.42
20 1 0.03
21 2 0.06
22 10 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATATTTTATTAAAAT
Found at i:32902442 original size:40 final size:40
Alignment explanation
Indices: 32902386--32902464 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
32902376 CTAAGTGGGG
32902386 CATTTGTGATTATAGTAACATAGTTTTGCATTATGTCTGA
1 CATTTGTGATTATAGTAACATAGTTTTGCATTATGTCTGA
* * *
32902426 CATTTGTGATTTTAGTAACGTAGTTTTGCGTTATGTCTG
1 CATTTGTGATTATAGTAACATAGTTTTGCATTATGTCTG
32902465 GTGCTAAGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.47
Consensus pattern (40 bp):
CATTTGTGATTATAGTAACATAGTTTTGCATTATGTCTGA
Found at i:32905384 original size:15 final size:16
Alignment explanation
Indices: 32905364--32905394 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32905354 ATGTTCCATC
32905364 TATATAA-TATTTTTA
1 TATATAATTATTTTTA
32905379 TATATAATTATTTTTA
1 TATATAATTATTTTTA
32905395 AAAATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATAATTATTTTTA
Found at i:32907447 original size:119 final size:119
Alignment explanation
Indices: 32907304--32907546 Score: 470
Period size: 119 Copynumber: 2.0 Consensus size: 119
32907294 ATACAATATA
32907304 TTTTTATTTTTTATACTTTTATTAATATTAAGCTTTTCTATTCTAATTAATAAGAAATTAATAAT
1 TTTTTATTTTTTATACTTTTATTAATATTAAGCTTTTCTATTCTAATTAATAAGAAATTAATAAT
32907369 ATAATTAATAATAATAATATTACGAATATTATAAATAACACAAATAAACTAAT-
66 ATAATTAATAATAATAATATTACGAATATTATAAATAACACAAATAAACTAATC
32907422 TTTTTATTTTTTTATACTTTTATTAATATTAAGCTTTTCTATTCTAATTAATAAGAAATTAATAA
1 TTTTTA-TTTTTTATACTTTTATTAATATTAAGCTTTTCTATTCTAATTAATAAGAAATTAATAA
32907487 TATAATTAATAATAATAATATTACGAATATTATAAATAACACAAATAAACTAATC
65 TATAATTAATAATAATAATATTACGAATATTATAAATAACACAAATAAACTAATC
32907542 TTTTT
1 TTTTT
32907547 GAATCTGCCT
Statistics
Matches: 123, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
118 6 0.05
119 112 0.91
120 5 0.04
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (119 bp):
TTTTTATTTTTTATACTTTTATTAATATTAAGCTTTTCTATTCTAATTAATAAGAAATTAATAAT
ATAATTAATAATAATAATATTACGAATATTATAAATAACACAAATAAACTAATC
Found at i:32907586 original size:17 final size:17
Alignment explanation
Indices: 32907564--32907597 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
32907554 CCTTGCATCT
32907564 TCAAATAACTCGATAGA
1 TCAAATAACTCGATAGA
32907581 TCAAATAACTCGATAGA
1 TCAAATAACTCGATAGA
32907598 ATAGATTCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
TCAAATAACTCGATAGA
Found at i:32908011 original size:38 final size:38
Alignment explanation
Indices: 32907960--32908038 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
32907950 ATCGCTATCA
*
32907960 CTTCCCAAGTATGAA-TCAATTGAAGGTCAAGGGTCATC
1 CTTCCCAAGTATGAACT-AATTGAAGGTCAAGGGCCATC
* *
32907998 CTTCCTAATTATGAACTAATTGAAGGTCAAGGGCCATC
1 CTTCCCAAGTATGAACTAATTGAAGGTCAAGGGCCATC
32908036 CTT
1 CTT
32908039 AAATCCAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 36 0.97
39 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (38 bp):
CTTCCCAAGTATGAACTAATTGAAGGTCAAGGGCCATC
Found at i:32913114 original size:20 final size:20
Alignment explanation
Indices: 32913084--32913126 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
32913074 AAGTTAATTA
32913084 TTTTTAAAA-TTAATAAAAT
1 TTTTTAAAATTTAATAAAAT
*
32913103 TTTTTAATAATTTAATAAGAT
1 TTTTTAA-AATTTAATAAAAT
32913124 TTT
1 TTT
32913127 ATTTCGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 2 0.10
21 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTTTAAAATTTAATAAAAT
Found at i:32913220 original size:17 final size:17
Alignment explanation
Indices: 32913200--32913308 Score: 53
Period size: 17 Copynumber: 6.1 Consensus size: 17
32913190 AAAAGAATCA
32913200 TTAAATTTTTTAATAAT
1 TTAAATTTTTTAATAAT
32913217 TTAATAAGTTTTAATGTAA-AAT
1 TT-A-AA-TTTT--T-TAATAAT
*
32913239 TTAAATTCTTTAATAAT
1 TTAAATTTTTTAATAAT
*** *
32913256 TT-AATAAAATTAAAAAT
1 TTAAAT-TTTTTAATAAT
* * *
32913273 TT-TATTTTTATAAAAAA
1 TTAAATTTTT-TAATAAT
32913290 TTAAATTTTTTAATAAT
1 TTAAATTTTTTAATAAT
32913307 TT
1 TT
32913309 GATGAGTTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 20
0.68 0.13 0.20
Matches are distributed among these distances:
16 7 0.10
17 34 0.49
18 7 0.10
19 5 0.07
20 6 0.09
21 1 0.01
22 6 0.09
23 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAAATTTTTTAATAAT
Found at i:32913680 original size:89 final size:90
Alignment explanation
Indices: 32913524--32913786 Score: 342
Period size: 89 Copynumber: 2.9 Consensus size: 90
32913514 GTTCGGAAGT
* * * * * *
32913524 GGCTATTCTTTTGGTTTCTGTCCAAAGGACG-ATACGATAATTAA-TGGCCATGCTTTTGG-TTC
1 GGCTATCCTTTTGGTTTCAGTCCAAAGGAGGTA-ATGATAATTAATTGG-TATCCTTTTGGTTTC
32913586 TGTCCAAAGGAGGTAATGATAATCAA-C
64 -GTCCAAAGGAGGTAATGATAATCAATC
*
32913613 GGCTATGCTTTTGGTTTCAGTCCAAA-GAGGTAATGATAATTAATTGGTATCCTTTTGGTTTCAG
1 GGCTATCCTTTTGGTTTCAGTCCAAAGGAGGTAATGATAATTAATTGGTATCCTTTTGGTTTC-G
* *
32913677 TCCAAA-GAGGTAATGATAATTAATT
65 TCCAAAGGAGGTAATGATAATCAATC
*
32913702 GG-TATCCTTTTGGTTTCAGTCCAAAGGAGGTAATGTTAATTAATTGGTATCCTTTTGGCTTTCG
1 GGCTATCCTTTTGGTTTCAGTCCAAAGGAGGTAATGATAATTAATTGGTATCCTTTTGG-TTTCG
32913766 TCCAAAGGAGGTAATGATAAT
65 TCCAAAGGAGGTAATGATAAT
32913787 TACTAGCAGA
Statistics
Matches: 156, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
88 60 0.38
89 78 0.50
90 18 0.12
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (90 bp):
GGCTATCCTTTTGGTTTCAGTCCAAAGGAGGTAATGATAATTAATTGGTATCCTTTTGGTTTCGT
CCAAAGGAGGTAATGATAATCAATC
Found at i:32913747 original size:45 final size:45
Alignment explanation
Indices: 32913531--32913788 Score: 341
Period size: 44 Copynumber: 5.8 Consensus size: 45
32913521 AGTGGCTATT
* * * * *
32913531 CTTTTGGTTTCTGTCCAAAGGACG-ATACGATAATTAA-TGGCCATG
1 CTTTTGGTTTCAGTCCAAAGGAGGTA-ATGATAATTAATTGG-TATC
* * * *
32913576 CTTTTGG-TTCTGTCCAAAGGAGGTAATGATAATCAA-CGGCTATG
1 CTTTTGGTTTCAGTCCAAAGGAGGTAATGATAATTAATTGG-TATC
32913620 CTTTTGGTTTCAGTCCAAA-GAGGTAATGATAATTAATTGGTATC
1 CTTTTGGTTTCAGTCCAAAGGAGGTAATGATAATTAATTGGTATC
32913664 CTTTTGGTTTCAGTCCAAA-GAGGTAATGATAATTAATTGGTATC
1 CTTTTGGTTTCAGTCCAAAGGAGGTAATGATAATTAATTGGTATC
*
32913708 CTTTTGGTTTCAGTCCAAAGGAGGTAATGTTAATTAATTGGTATC
1 CTTTTGGTTTCAGTCCAAAGGAGGTAATGATAATTAATTGGTATC
32913753 CTTTTGGCTTTC-GTCCAAAGGAGGTAATGATAATTA
1 CTTTTGG-TTTCAGTCCAAAGGAGGTAATGATAATTA
32913789 CTAGCAGATG
Statistics
Matches: 197, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
44 119 0.60
45 74 0.38
46 4 0.02
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (45 bp):
CTTTTGGTTTCAGTCCAAAGGAGGTAATGATAATTAATTGGTATC
Found at i:32915283 original size:6 final size:6
Alignment explanation
Indices: 32915251--32915277 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
32915241 ACGTTATTAC
32915251 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
32915278 ACAAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:32915283 original size:12 final size:12
Alignment explanation
Indices: 32915256--32915328 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 12
32915246 ATTACAAATA
32915256 AAAATAAAAATA-
1 AAAATAAAAA-AC
32915268 AAAATAAAAAAC
1 AAAATAAAAAAC
*
32915280 AAAACAAACAAAC
1 AAAATAAA-AAAC
*
32915293 AAACA-AACAAAATT
1 AAA-ATAA-AAAA-C
*
32915307 AAAGATAAAAAAT
1 AAA-ATAAAAAAC
32915320 AAAATAAAA
1 AAAATAAAA
32915329 TAAATAAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
11 1 0.02
12 23 0.44
13 16 0.31
14 10 0.19
15 2 0.04
ACGTcount: A:0.79, C:0.08, G:0.01, T:0.11
Consensus pattern (12 bp):
AAAATAAAAAAC
Found at i:32915922 original size:8 final size:8
Alignment explanation
Indices: 32915909--32915949 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
32915899 TTAATTATTT
32915909 TATTTATA
1 TATTTATA
32915917 TATTTATA
1 TATTTATA
*
32915925 TAATTATA
1 TATTTATA
*
32915933 TATTTTAAA
1 TA-TTTATA
32915942 TATTTATA
1 TATTTATA
32915950 ATATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTTATA
Found at i:32915930 original size:25 final size:25
Alignment explanation
Indices: 32915890--32915949 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
32915880 ATGATATAAA
* *
32915890 AAATATTT-TTTAATTAT-TTTATTT
1 AAATATTTATATAATTATATAT-TTT
*
32915914 ATATATTTATATAATTATATATTTT
1 AAATATTTATATAATTATATATTTT
32915939 AAATATTTATA
1 AAATATTTATA
32915950 ATATAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 21 0.70
26 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
AAATATTTATATAATTATATATTTT
Found at i:32915970 original size:21 final size:20
Alignment explanation
Indices: 32915940--32915989 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
32915930 ATATATTTTA
32915940 AATA-TTTATAATATAAAAAT
1 AATATTTTAT-ATATAAAAAT
*
32915960 AATATTTTATATTTAAAAAT
1 AATATTTTATATATAAAAAT
32915980 AATATTTTAT
1 AATATTTTAT
32915990 TAATTCATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATTTTATATATAAAAAT
Found at i:32916616 original size:17 final size:17
Alignment explanation
Indices: 32916578--32916610 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32916568 ACAAGAGTGT
32916578 ATTTTATCCCTTTTATC
1 ATTTTATCCCTTTTATC
*
32916595 ATTTTATCCTTTTTAT
1 ATTTTATCCCTTTTAT
32916611 TTTTTTCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTATCCCTTTTATC
Found at i:32916749 original size:28 final size:28
Alignment explanation
Indices: 32916708--32916784 Score: 136
Period size: 28 Copynumber: 2.8 Consensus size: 28
32916698 CCCTATTGCG
* *
32916708 ATTTAAATATTAATTATGTTTGTATCAA
1 ATTTAAATAATAATTGTGTTTGTATCAA
32916736 ATTTAAATAATAATTGTGTTTGTATCAA
1 ATTTAAATAATAATTGTGTTTGTATCAA
32916764 ATTTAAATAATAATTGTGTTT
1 ATTTAAATAATAATTGTGTTT
32916785 ACATACCTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (28 bp):
ATTTAAATAATAATTGTGTTTGTATCAA
Found at i:32922397 original size:4 final size:4
Alignment explanation
Indices: 32922388--32922412 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
32922378 TAACTAGCAA
32922388 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
32922413 GTCAAGTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:32924753 original size:24 final size:23
Alignment explanation
Indices: 32924721--32924771 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
32924711 TAAAATGTTA
* *
32924721 TAAAATTATT-TTTTTAATA-TT
1 TAAAATTCTTATTTTTTATACTT
32924742 TAAAATTCTTATTTTTTATACTT
1 TAAAATTCTTATTTTTTATACTT
32924765 TAAAATT
1 TAAAATT
32924772 ATTTTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TAAAATTCTTATTTTTTATACTT
Found at i:32926087 original size:14 final size:15
Alignment explanation
Indices: 32926057--32926090 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
32926047 AAGTTTTGTC
*
32926057 AATATTTTTACAAAA
1 AATATTTATACAAAA
32926072 AATATTTATA-AAAA
1 AATATTTATACAAAA
32926086 AATAT
1 AATAT
32926091 ATCAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATTTATACAAAA
Found at i:32926439 original size:11 final size:11
Alignment explanation
Indices: 32926395--32926459 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 11
32926385 TTCGAGTCAA
*
32926395 TTTATTAATAT
1 TTTAATAATAT
32926406 TTTAAT--T-T
1 TTTAATAATAT
*
32926414 TTTATATATTAT
1 TTTA-ATAATAT
32926426 TTTAATAATATT
1 TTTAATAATA-T
32926438 TTTAAT-ATAT
1 TTTAATAATAT
*
32926448 TTAAATAA-AT
1 TTTAATAATAT
32926458 TT
1 TT
32926460 ATATATAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
8 5 0.11
9 3 0.07
10 10 0.22
11 15 0.33
12 12 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:32927085 original size:18 final size:18
Alignment explanation
Indices: 32927062--32927113 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
32927052 TGGGCCCATT
32927062 CACATGACTGATGATAGG
1 CACATGACTGATGATAGG
*
32927080 CACATGACTTATGATAGG
1 CACATGACTGATGATAGG
* *
32927098 CACGTGACGGATGATA
1 CACATGACTGATGATA
32927114 ATTCTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (18 bp):
CACATGACTGATGATAGG
Found at i:32930452 original size:4 final size:4
Alignment explanation
Indices: 32930443--32930480 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
32930433 TAACTAGCAA
*
32930443 AATT AATT AATT AATT AATT AATT AATT AATT AGTT AA
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AA
32930481 GTGAAGGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:32930686 original size:41 final size:42
Alignment explanation
Indices: 32930580--32930928 Score: 490
Period size: 41 Copynumber: 8.4 Consensus size: 42
32930570 GGCTGCGTGC
* * *
32930580 AAAGTAAATTGTTCCTCTGAACAGAGGCACCACGACTTTTGG
1 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGA
* * *
32930622 AAAGTAAATTGTTCCTCTCAACAGAGGCACCACGA-TTTTAA
1 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGA
* * *
32930663 AAAATAAATTGCTCCTCTAAACAGAGGTACCGCGA-TTTTGA
1 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGA
* *
32930704 AAAGTAAATTGTTCCTCTAAACAGAGGCACCATGAC-TTTGA
1 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGA
* * *
32930745 AAAATAAATTGCTCCTCTAAACAGAGGTACCATGACTTTTGA
1 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGA
* *
32930787 AAAGTAAATTGCTCCTCTAAACAGAGGCACCATGATTTTTGGA
1 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTT-GA
*
32930830 AAAGTAAATTGCTCCTCTAAACAGAAGCACCACGAC-TTTGA
1 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGA
*
32930871 AAAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTTGA
1 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGA
*
32930913 AAAATAAATTGCTCCT
1 AAAGTAAATTGCTCCT
32930929 TAACAATCCT
Statistics
Matches: 277, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
41 143 0.52
42 99 0.36
43 35 0.13
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (42 bp):
AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGA
Found at i:32932227 original size:23 final size:24
Alignment explanation
Indices: 32932181--32932229 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
32932171 CTTTTTTTCA
*
32932181 TTTTTTCATTCATTCATTCTTTTT
1 TTTTTTCATTCATTCATTCCTTTT
**
32932205 TTTTTTCA-TCATTTTTTCCTTTT
1 TTTTTTCATTCATTCATTCCTTTT
32932228 TT
1 TT
32932230 CTCATTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTTCATTCATTCATTCCTTTT
Found at i:32936343 original size:59 final size:59
Alignment explanation
Indices: 32936146--32936429 Score: 295
Period size: 59 Copynumber: 4.7 Consensus size: 59
32936136 TTGTGCAGAG
* ** * * *
32936146 AAAATTGATACTTTCAACTTTTTTCCACAAATTTATTTTTTTTGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAAC--TTTTCCTCAAAAATA-TTTTTTTGAAAACTTTATTTTCAAGA
* * *
32936208 AAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTTTGAAAA-TTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAA----ATATTTTTTTGAAAACTTTATTTTCAAGA
* * * *
32936270 AAAATTGATGCTTTCAACTTTTCCTCAAAAATATTTTTTGGAAAACTTTAGTTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTTATTTTCAAGA
* * * * *
32936329 AAAATTGATACTTTCAACTTTTCCCCAGAAACTCTTTTTTTG-AAATTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCA-AAAATATTTTTTTGAAAACTTTATTTTCAAGA
*
32936388 AAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTTGA
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGA
32936430 TTTTTATTTA
Statistics
Matches: 187, Mismatches: 27, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
58 24 0.13
59 72 0.39
60 21 0.11
62 56 0.30
63 12 0.06
64 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTTATTTTCAAGA
Found at i:32936504 original size:21 final size:22
Alignment explanation
Indices: 32936465--32936524 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 22
32936455 AATAAAAGTG
32936465 AAAAT-AA-ATAAAG-ATAAACA
1 AAAATAAAGATAAAGTA-AAACA
32936485 AAAATAAAGA-AAAGTAAAACA
1 AAAATAAAGATAAAGTAAAACA
32936506 AAAATAAAGATAAAGTAAA
1 AAAATAAAGATAAAGTAAA
32936525 GATAAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.14
21 21 0.58
22 10 0.28
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.13
Consensus pattern (22 bp):
AAAATAAAGATAAAGTAAAACA
Found at i:32936574 original size:4 final size:4
Alignment explanation
Indices: 32936553--32936604 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
32936543 AATCTAATCT
* * *
32936553 AATA AATTA AAAA AATA AATA AATAA AACA AATA AACA AATA AATA AA-A
1 AATA AA-TA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA
32936602 AAT
1 AAT
32936605 TTCCAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 3 0.08
4 29 0.74
5 7 0.18
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (4 bp):
AATA
Found at i:32936575 original size:17 final size:18
Alignment explanation
Indices: 32936553--32936593 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
32936543 AATCTAATCT
32936553 AATAAATTAAAA-AAATA
1 AATAAATTAAAACAAATA
32936570 AATAAA-TAAAACAAATA
1 AATAAATTAAAACAAATA
*
32936587 AACAAAT
1 AATAAAT
32936594 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (18 bp):
AATAAATTAAAACAAATA
Found at i:32936594 original size:17 final size:16
Alignment explanation
Indices: 32936560--32936601 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
32936550 TCTAATAAAT
*
32936560 TAAAAAAATAAATAAA
1 TAAAAAAATAAACAAA
32936576 TAAAACAAATAAACAAA
1 TAAAA-AAATAAACAAA
32936593 TAAATAAAA
1 TAAA-AAAA
32936602 AATTTCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 17 0.74
18 1 0.04
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (16 bp):
TAAAAAAATAAACAAA
Found at i:32937477 original size:16 final size:17
Alignment explanation
Indices: 32937445--32937493 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
32937435 AAAAATAATA
*
32937445 ATAATAATAATAATCAG
1 ATAATAATAAAAATCAG
32937462 ATAATAA-AAAAATCAG
1 ATAATAATAAAAATCAG
32937478 ATAAATGAATAAAAAT
1 AT-AAT-AATAAAAAT
32937494 AAAATTAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 10 0.36
17 10 0.36
18 2 0.07
19 6 0.21
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.24
Consensus pattern (17 bp):
ATAATAATAAAAATCAG
Found at i:32937573 original size:14 final size:16
Alignment explanation
Indices: 32937556--32937590 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
32937546 AGATAAAAAA
32937556 AAATATATAA-TA-AT
1 AAATATATAACTATAT
32937570 AAATATATAACTATAT
1 AAATATATAACTATAT
32937586 AAATA
1 AAATA
32937591 AAATACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.53
15 2 0.11
16 7 0.37
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATATATAACTATAT
Found at i:32937621 original size:5 final size:5
Alignment explanation
Indices: 32937611--32937642 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
32937601 AAATATTAAC
32937611 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
32937643 TAGATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:32937629 original size:15 final size:14
Alignment explanation
Indices: 32937611--32937654 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
32937601 AAATATTAAC
32937611 AAAATAAAATAAAAT
1 AAAATAAAAT-AAAT
32937626 AAAATAAAATAAAT
1 AAAATAAAATAAAT
*
32937640 -AAAT-AGATAAAT
1 AAAATAAAATAAAT
32937652 AAA
1 AAA
32937655 GATATACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 7 0.26
13 6 0.22
14 4 0.15
15 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:32938290 original size:8 final size:8
Alignment explanation
Indices: 32938277--32938320 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
32938267 TAAATTATTT
32938277 TATTTATA
1 TATTTATA
32938285 TATTTATA
1 TATTTATA
*
32938293 TAATTATA
1 TATTTATA
*
32938301 TATTTAAA
1 TATTTATA
32938309 TA-TTATA
1 TATTTATA
32938316 T-TTTA
1 TATTTA
32938321 AAAATAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
7 8 0.26
8 23 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTTATA
Found at i:32938301 original size:16 final size:15
Alignment explanation
Indices: 32938280--32938337 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 15
32938270 ATTATTTTAT
32938280 TTATATATTTATATAA
1 TTATAT-TTTATATAA
*
32938296 TTATATATTTAAAT-A
1 TTATAT-TTTATATAA
*
32938311 TTATATTTTA-AAAA
1 TTATATTTTATATAA
*
32938325 TAATATTTTATAT
1 TTATATTTTATAT
32938338 TTAAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 1 0.03
14 14 0.39
15 8 0.22
16 13 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATATTTTATATAA
Found at i:32938342 original size:20 final size:19
Alignment explanation
Indices: 32938307--32938356 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 19
32938297 TATATATTTA
*
32938307 AATATTATATTTTAAAAAT
1 AATATTTTATTTTAAAAAT
32938326 AATATTTTATATTTAAAAAT
1 AATATTTTAT-TTTAAAAAT
32938346 AATATTTTATT
1 AATATTTTATT
32938357 AATTCATGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATTTTATTTTAAAAAT
Found at i:32939206 original size:28 final size:28
Alignment explanation
Indices: 32939165--32939269 Score: 192
Period size: 28 Copynumber: 3.8 Consensus size: 28
32939155 CCCTACTGCG
*
32939165 ATTTAAATATTAATTGTGTTTGTATCAA
1 ATTTAAATAGTAATTGTGTTTGTATCAA
*
32939193 ATTTAAATAATAATTGTGTTTGTATCAA
1 ATTTAAATAGTAATTGTGTTTGTATCAA
32939221 ATTTAAATAGTAATTGTGTTTGTATCAA
1 ATTTAAATAGTAATTGTGTTTGTATCAA
32939249 ATTTAAATAGTAATTGTGTTT
1 ATTTAAATAGTAATTGTGTTT
32939270 ATATACCTAG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 75 1.00
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (28 bp):
ATTTAAATAGTAATTGTGTTTGTATCAA
Found at i:32945290 original size:16 final size:17
Alignment explanation
Indices: 32945271--32945303 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
32945261 CAAAAATTAT
32945271 TATTTTTTAA-AAAATA
1 TATTTTTTAATAAAATA
32945287 TATTTTTTAATAAAATA
1 TATTTTTTAATAAAATA
32945304 ATAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTTTTTAATAAAATA
Found at i:32945328 original size:31 final size:26
Alignment explanation
Indices: 32945287--32945356 Score: 68
Period size: 31 Copynumber: 2.5 Consensus size: 26
32945277 TTAAAAAATA
*
32945287 TATTTTTTAATAAAATAATAATATATAATT
1 TATTTATTAATAAAATAAT-AT-TAT--TT
* *
32945317 TATTTCATTAATTAGATAATATTATTT
1 TATTT-ATTAATAAAATAATATTATTT
32945344 TATTTATTAATAA
1 TATTTATTAATAA
32945357 TATATAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 7 0.20
27 7 0.20
29 3 0.09
30 7 0.20
31 11 0.31
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (26 bp):
TATTTATTAATAAAATAATATTATTT
Found at i:32945336 original size:28 final size:26
Alignment explanation
Indices: 32945302--32945382 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 26
32945292 TTTAATAAAA
32945302 TAATAATATATAATTTATTTCATTAAT
1 TAATAATATATAATTTATTT-ATTAAT
*
32945329 TAGATAATAT-TATTTTATTTATTAA-
1 TA-ATAATATATAATTTATTTATTAAT
* *
32945354 TAAT-ATATAAAATTTATATATTAA-
1 TAATAATATATAATTTATTTATTAAT
32945378 TAATA
1 TAATA
32945383 CGTCAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
23 4 0.09
24 18 0.38
25 2 0.04
26 5 0.11
27 11 0.23
28 7 0.15
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (26 bp):
TAATAATATATAATTTATTTATTAAT
Found at i:32950806 original size:25 final size:25
Alignment explanation
Indices: 32950771--32950825 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
32950761 GAGAGAGAGA
*
32950771 GAGAGAGAAAAAAAAAGATGATTTT
1 GAGAGAAAAAAAAAAAGATGATTTT
32950796 GAGAGAAAAAAAAAAAGATGATTTT
1 GAGAGAAAAAAAAAAAGATGATTTT
32950821 GAGAG
1 GAGAG
32950826 CTTTTAGCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.18
Consensus pattern (25 bp):
GAGAGAAAAAAAAAAAGATGATTTT
Found at i:32951692 original size:24 final size:25
Alignment explanation
Indices: 32951648--32951694 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
32951638 AATTTTTTTA
*
32951648 TATTAAAAAAATGAAACTTTAATTT
1 TATTAAAAAAATGAAAATTTAATTT
32951673 TATTAAAAAAAT-AAAATTTAAT
1 TATTAAAAAAATGAAAATTTAAT
32951695 ACTAAATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
TATTAAAAAAATGAAAATTTAATTT
Found at i:32953254 original size:23 final size:23
Alignment explanation
Indices: 32953228--32953272 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32953218 TGTTATAAAA
*
32953228 TTATTTTTTAATA-TTTAAAATTC
1 TTATCTTTT-ATACTTTAAAATTC
*
32953251 TTATCTTTTGTACTTTAAAATT
1 TTATCTTTTATACTTTAAAATT
32953273 ATTTTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATCTTTTATACTTTAAAATTC
Found at i:32957404 original size:2 final size:2
Alignment explanation
Indices: 32957397--32957434 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
32957387 TTAGAGATTT
*
32957397 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
32957435 TGATTTTGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32958225 original size:21 final size:21
Alignment explanation
Indices: 32958182--32958257 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
32958172 TTTTCTTTCT
*
32958182 TTATTTTTTTAGAATGTTCTAAAA
1 TTATTTTTTT--AATATT-TAAAA
32958206 TTATTTTTTTAATATTTAAAA
1 TTATTTTTTTAATATTTAAAA
* * **
32958227 TTCTTATTTTTCATACTAAAAAA
1 TTATT-TTTTTAATA-TTTAAAA
32958250 TTATTTTT
1 TTATTTTT
32958258 ATATTTTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 9 0.20
22 16 0.36
23 9 0.20
24 10 0.23
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (21 bp):
TTATTTTTTTAATATTTAAAA
Found at i:32959589 original size:12 final size:12
Alignment explanation
Indices: 32959572--32959596 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32959562 TTATTTGAAC
32959572 ATCTTGATAATT
1 ATCTTGATAATT
32959584 ATCTTGATAATT
1 ATCTTGATAATT
32959596 A
1 A
32959597 CTAGAGATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
ATCTTGATAATT
Found at i:32959678 original size:2 final size:2
Alignment explanation
Indices: 32959671--32959714 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
32959661 TGTTGCGTGC
32959671 AG AG AG AG AG AG AG A- AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
32959712 AG A
1 AG A
32959715 AAAAGATGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32960667 original size:24 final size:24
Alignment explanation
Indices: 32960636--32960696 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
32960626 TATTAATTTT
*
32960636 TAAATTTTTATATAT-TATTTTAA
1 TAAATTTTTATATATATATTTAAA
*
32960659 TAAGATTTTTTTA-ATATATTTAAA
1 TAA-ATTTTTATATATATATTTAAA
*
32960683 TAAATTTATATATA
1 TAAATTTTTATATA
32960697 AAATAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TAAATTTTTATATATATATTTAAA
Done.