Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 96 of 127
Found at i:18050641 original size:22 final size:22
Alignment explanation
Indices: 18050616--18050663 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
18050606 AATTTGCAAG
18050616 AAAATGAAAAAAAAAAAGAGCA
1 AAAATGAAAAAAAAAAAGAGCA
**
18050638 AAAATGGTAAAAAAAAAGAGCA
1 AAAATGAAAAAAAAAAAGAGCA
18050660 AAAA
1 AAAA
18050664 AGAGAGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.06
Consensus pattern (22 bp):
AAAATGAAAAAAAAAAAGAGCA
Found at i:18056775 original size:13 final size:12
Alignment explanation
Indices: 18056746--18056782 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
18056736 TTAAGGGGGA
18056746 GTTTTTCAAAAT
1 GTTTTTCAAAAT
18056758 GTTTTTCAAAAT
1 GTTTTTCAAAAT
18056770 GTTTTTTCAAAAT
1 G-TTTTTCAAAAT
18056783 CTTAAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.51
Consensus pattern (12 bp):
GTTTTTCAAAAT
Found at i:18058130 original size:21 final size:22
Alignment explanation
Indices: 18058091--18058131 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18058081 AATTATTCCT
* *
18058091 ATTATTTTGCTAAATATGAACC
1 ATTAATTTGCTAAAAATGAACC
18058113 ATTAATTT-CTAAAAATGAA
1 ATTAATTTGCTAAAAATGAA
18058132 GTATAAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (22 bp):
ATTAATTTGCTAAAAATGAACC
Found at i:18075252 original size:24 final size:26
Alignment explanation
Indices: 18075223--18075273 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
18075213 AATATACATT
18075223 TAGTTTTA-TTCTTAGTTTTTC-ACA
1 TAGTTTTATTTCTTAGTTTTTCTACA
*
18075247 TAGTTTTATTTTTTAGTTTTTCTACA
1 TAGTTTTATTTCTTAGTTTTTCTACA
18075273 T
1 T
18075274 GGTATCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.33
25 12 0.50
26 4 0.17
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.63
Consensus pattern (26 bp):
TAGTTTTATTTCTTAGTTTTTCTACA
Found at i:18075454 original size:100 final size:102
Alignment explanation
Indices: 18075255--18075462 Score: 357
Period size: 100 Copynumber: 2.0 Consensus size: 102
18075245 CATAGTTTTA
* *
18075255 TTTTTTAGTTTTTCTACATGGTATCAAAGCTTTAGGTTCTTATTGGGAAGCAAAACTTTCACCAT
1 TTTTTTAGTTTTTCTACATGATATCAAAGCTTTAGGCTCTTATTGGGAAGCAAAACTTTCA-CAT
18075320 TTATTGCTGACTTCTTTTTAGGTCTTCATTATCGAACC
65 TTATTGCTGACTTCTTTTTAGGTCTTCATTATCGAACC
*
18075358 TTTTTTAGTTTTTCTACATGATATCAAAGCTTTAGGCT-TTATTGGGAAGCAAAACTTTCA-TTT
1 TTTTTTAGTTTTTCTACATGATATCAAAGCTTTAGGCTCTTATTGGGAAGCAAAACTTTCACATT
*
18075421 TATTGTTGACTTCTTTTTAGGTCTTCATTATCGAACC
66 TATTGCTGACTTCTTTTTAGGTCTTCATTATCGAACC
18075458 TTTTT
1 TTTTT
18075463 GTGAAATTCA
Statistics
Matches: 101, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
100 43 0.43
102 22 0.22
103 36 0.36
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (102 bp):
TTTTTTAGTTTTTCTACATGATATCAAAGCTTTAGGCTCTTATTGGGAAGCAAAACTTTCACATT
TATTGCTGACTTCTTTTTAGGTCTTCATTATCGAACC
Found at i:18079673 original size:101 final size:101
Alignment explanation
Indices: 18079498--18079699 Score: 334
Period size: 101 Copynumber: 2.0 Consensus size: 101
18079488 TAAGATTTGC
* * * *
18079498 AGCAAAAGCATTGAAGGTTTCTTCCCTGAGATGAAGAATATTCAGATTCTTCGAATATTCATATA
1 AGCAAAAGCAATGAAGGTTTCTTCCCTGAGAAGAACAATATTCAGATTCTTCGAATATTAATATA
*
18079563 TTTTAAAGAAAAAGATAAGTATATGTTACAGAAAAT
66 TTTTAAAGAAAAAGATAAGTAAATGTTACAGAAAAT
18079599 AGCAAAAGCAATGAAGGTTTCTTCCCTGAGAAGAACAATATTCAGATTCTTC-AGATATTAATAT
1 AGCAAAAGCAATGAAGGTTTCTTCCCTGAGAAGAACAATATTCAGATTCTTCGA-ATATTAATAT
*
18079663 ATTTTAAAGAAAAAGATATGTAAATGTTACAGAAAAT
65 ATTTTAAAGAAAAAGATAAGTAAATGTTACAGAAAAT
18079700 GAAACACTAA
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 1 0.01
101 93 0.99
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (101 bp):
AGCAAAAGCAATGAAGGTTTCTTCCCTGAGAAGAACAATATTCAGATTCTTCGAATATTAATATA
TTTTAAAGAAAAAGATAAGTAAATGTTACAGAAAAT
Found at i:18083327 original size:2 final size:2
Alignment explanation
Indices: 18083320--18083356 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
18083310 GATCAAAATG
* *
18083320 AT AT AT AT GT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18083357 AAACTGGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18087318 original size:13 final size:13
Alignment explanation
Indices: 18087300--18087324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18087290 TTTGACAAAG
18087300 CTAAAATTACTTA
1 CTAAAATTACTTA
18087313 CTAAAATTACTT
1 CTAAAATTACTT
18087325 TTTGTTTATT
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
CTAAAATTACTTA
Found at i:18090864 original size:7 final size:7
Alignment explanation
Indices: 18090852--18090878 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18090842 TATTTTATCA
18090852 TTAAATT
1 TTAAATT
18090859 TTAAATT
1 TTAAATT
18090866 TTAAATT
1 TTAAATT
18090873 TTAAAT
1 TTAAAT
18090879 GCATAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:18090991 original size:293 final size:293
Alignment explanation
Indices: 18090414--18091002 Score: 826
Period size: 292 Copynumber: 2.0 Consensus size: 293
18090404 CCAAAATACA
* *
18090414 ATTACTCTTGATTTAGTTTTTAATTTATTTTAGTCAATTAGTCATTCAACAATAAATAAGATTTT
1 ATTACTCTTGATTTAGTTTTTAATTTATTTTAATCAATTAGTCATTCAAAAATAAATAAGATTTT
* * * *
18090479 TTCTTCACATATTAATAAAAAACATTGAATATCTGTTATAATAATGGAAATAAGATATTTGAAAT
66 TCCTTCACATATTAATAAAAAACATTAAATATCTGTTATAATAATGAAAATAAGATATTTGAAAC
* * * * *
18090544 TAAATTTATTTTACCGTTACATTTTATATTTTAAATTTGAAATGCATAATTAATTTTGAATACAT
131 TAAATTTATTTTACCATTAAATTTTAAATTTTAAATTTGAAATGCATAATTAATTCTAAATACAT
* * * * * *
18090609 GTCAATCTTTTAGATTGTCTATATGTCAAAATATAGATTATACACATCATATTATTTTCTTTTTG
196 GTCAATCTTTTAGATTGCCCACATGTAAAAATATAGACTATACACATCAGATTATTTTCTTTTTG
18090674 TTAGAGGCTTTGACTTTTATATATTTATATAAG
261 TTAGAGGCTTTGACTTTTATATATTTATATAAG
* * *
18090707 ATTATTCTTGATTTGGTTTTTAATTTATTTTAATCAATTAGTCATTCAAAAATACATAAGATTAT
1 ATTACTCTTGATTTAGTTTTTAATTTATTTTAATCAATTAGTCATTCAAAAATAAATAAGATT-T
* * *
18090772 TTCCTT-A-GTATTAATAAGAAACATTAAATATGTGTTATAATAATGAAAATAAGATATTTGAAA
65 TTCCTTCACATATTAATAAAAAACATTAAATATCTGTTATAATAATGAAAATAAGATATTTGAAA
* * **
18090835 CTAAATTTATTTTATCATTAAATTTTAAATTTTAAATTTTAAATGCATAATTAATTCTAAATATT
130 CTAAATTTATTTTACCATTAAATTTTAAATTTTAAATTTGAAATGCATAATTAATTCTAAATACA
* * *
18090900 TGTCAATTTTTTCGATTGCCCACATGTTAAAAATATAGACTAT-CTACATCGGATTATTTTCTTT
195 TGTCAATCTTTTAGATTGCCCACATG-TAAAAATATAGACTATAC-ACATCAGATTATTTTCTTT
**
18090964 TTGTTAGAGG-TGTTGTGTTTTATATATTTATATAAG
258 TTGTTAGAGGCT-TTGACTTTTATATATTTATATAAG
18091000 ATT
1 ATT
18091003 TGTTCTACAC
Statistics
Matches: 260, Mismatches: 32, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
292 129 0.50
293 125 0.48
294 6 0.02
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.46
Consensus pattern (293 bp):
ATTACTCTTGATTTAGTTTTTAATTTATTTTAATCAATTAGTCATTCAAAAATAAATAAGATTTT
TCCTTCACATATTAATAAAAAACATTAAATATCTGTTATAATAATGAAAATAAGATATTTGAAAC
TAAATTTATTTTACCATTAAATTTTAAATTTTAAATTTGAAATGCATAATTAATTCTAAATACAT
GTCAATCTTTTAGATTGCCCACATGTAAAAATATAGACTATACACATCAGATTATTTTCTTTTTG
TTAGAGGCTTTGACTTTTATATATTTATATAAG
Found at i:18094782 original size:3 final size:3
Alignment explanation
Indices: 18094776--18094821 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
18094766 GAAAAACAAA
* *
18094776 AAT AAT AGT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18094822 TGATATGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18095564 original size:20 final size:22
Alignment explanation
Indices: 18095539--18095617 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 22
18095529 TAATTAAAAT
* *
18095539 ATCAAAT-C-CATATAACATTC
1 ATCAAATACACATAAAACATCC
18095559 ATCAAATACATCATAAAACATCC
1 ATCAAATACA-CATAAAACATCC
* *
18095582 ATCAAATA-TC-TATAACATCC
1 ATCAAATACACATAAAACATCC
18095602 AT-AAA-ACATCATAAAA
1 ATCAAATACA-CATAAAA
18095618 TATCTATCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
18 1 0.02
19 3 0.06
20 19 0.40
21 6 0.13
23 18 0.38
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (22 bp):
ATCAAATACACATAAAACATCC
Found at i:18095578 original size:23 final size:23
Alignment explanation
Indices: 18095547--18095617 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
18095537 ATATCAAATC
* *
18095547 CATATAACATTCATCAAATACAT
1 CATAAAACATCCATCAAATACAT
18095570 CATAAAACATCCATCAAAT--AT
1 CATAAAACATCCATCAAATACAT
*
18095591 C-TATAACATCCAT-AAA-ACAT
1 CATAAAACATCCATCAAATACAT
18095611 CATAAAA
1 CATAAAA
18095618 TATCTATCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.07
20 14 0.34
21 7 0.17
23 17 0.41
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (23 bp):
CATAAAACATCCATCAAATACAT
Found at i:18095611 original size:11 final size:11
Alignment explanation
Indices: 18095544--18095640 Score: 58
Period size: 11 Copynumber: 8.6 Consensus size: 11
18095534 AAAATATCAA
*
18095544 ATCCATATAAC
1 ATCCATAAAAC
*
18095555 ATTCATCAAATAC
1 ATCCAT-AAA-AC
18095568 AT-CATAAAAC
1 ATCCATAAAAC
* *
18095578 ATCCATCAAAT
1 ATCCATAAAAC
*
18095589 AT-C-TATAAC
1 ATCCATAAAAC
18095598 ATCCATAAAAC
1 ATCCATAAAAC
18095609 AT-CATAAAATATC
1 ATCCAT-AAA-A-C
18095622 TATCCATAAAAC
1 -ATCCATAAAAC
*
18095634 ATTCATA
1 ATCCATA
18095641 TCAGTCATCT
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
9 5 0.07
10 9 0.13
11 32 0.48
12 7 0.10
13 6 0.09
14 5 0.07
15 3 0.04
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (11 bp):
ATCCATAAAAC
Found at i:18095619 original size:30 final size:30
Alignment explanation
Indices: 18095566--18095624 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18095556 TTCATCAAAT
*
18095566 ACATCATAAAACATCCATCAAATATCTATA
1 ACATCATAAAACATCCATAAAATATCTATA
18095596 ACATCCATAAAACAT-CATAAAATATCTAT
1 ACAT-CATAAAACATCCATAAAATATCTAT
18095625 CCATAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (30 bp):
ACATCATAAAACATCCATAAAATATCTATA
Found at i:18098899 original size:3 final size:3
Alignment explanation
Indices: 18098891--18098918 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18098881 TTTTTGGTGT
18098891 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18098919 TTTTTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:18099059 original size:22 final size:23
Alignment explanation
Indices: 18099034--18099082 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
18099024 ACTTTAAAAG
* *
18099034 AAAATTATAAT-TATATAATATT
1 AAAATTATAATATAAATAATAAT
18099056 AAAA-TATAATATAAATAATAAT
1 AAAATTATAATATAAATAATAAT
18099078 AAAAT
1 AAAAT
18099083 AAAAATAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATTATAATATAAATAATAAT
Found at i:18099082 original size:11 final size:11
Alignment explanation
Indices: 18099034--18099089 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
18099024 ACTTTAAAAG
*
18099034 AAAATTATAAT
1 AAAATAATAAT
* * *
18099045 TATATAATATT
1 AAAATAATAAT
18099056 AAAAT-ATAAT
1 AAAATAATAAT
18099066 ATAAATAATAAT
1 A-AAATAATAAT
*
18099078 AAAATAAAAAT
1 AAAATAATAAT
18099089 A
1 A
18099090 GTAGGTAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
10 5 0.14
11 24 0.69
12 6 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:18099658 original size:26 final size:26
Alignment explanation
Indices: 18099611--18099678 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
18099601 TTTTAAAACT
*
18099611 CTAAAATGAAACC-T-AAATGAAA-C
1 CTAAAGTGAAACCTTAAAATGAAATC
*
18099634 CTTAATGTGAAACCTTAAAATGAAATC
1 C-TAAAGTGAAACCTTAAAATGAAATC
*
18099661 CTAAAGTTAAACCTTAAA
1 CTAAAGTGAAACCTTAAA
18099679 GAGTTGTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.03
24 10 0.27
25 1 0.03
26 23 0.62
27 2 0.05
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (26 bp):
CTAAAGTGAAACCTTAAAATGAAATC
Found at i:18099679 original size:13 final size:13
Alignment explanation
Indices: 18099612--18099679 Score: 70
Period size: 13 Copynumber: 5.4 Consensus size: 13
18099602 TTTAAAACTC
*
18099612 TAAAATGAAACC-
1 TAAAGTGAAACCT
18099624 TAAA-TGAAACCT
1 TAAAGTGAAACCT
*
18099636 TAATGTGAAACCT
1 TAAAGTGAAACCT
*
18099649 TAAAATGAAATCC-
1 TAAAGTGAAA-CCT
*
18099662 TAAAGTTAAACCT
1 TAAAGTGAAACCT
18099675 TAAAG
1 TAAAG
18099680 AGTTGTTTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
11 7 0.15
12 9 0.19
13 29 0.62
14 2 0.04
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (13 bp):
TAAAGTGAAACCT
Found at i:18100890 original size:74 final size:74
Alignment explanation
Indices: 18100798--18100939 Score: 214
Period size: 75 Copynumber: 1.9 Consensus size: 74
18100788 CGACAATGCT
* * *
18100798 TTAAATAAGCCCTTTCAAAGTAA-AAAAGGTATTATTTAATGCATTTTTGGTCCAAAAATGCCTT
1 TTAAATAAGCCCTTTCAAA-AAACAAAAGGTATTATTTAAGGCATTTTTGGTCCAAAAATGACTT
18100862 AAAAATGGGA
65 AAAAATGGGA
* *
18100872 TTAAATAATCTCTTTCAAAAAATCAAAAGGTATTATTTAAGGCATTTTTGGTCCAAAAATGACTT
1 TTAAATAAGCCCTTTCAAAAAA-CAAAAGGTATTATTTAAGGCATTTTTGGTCCAAAAATGACTT
18100937 AAA
65 AAA
18100940 TAATCTCTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
73 2 0.03
74 17 0.28
75 42 0.69
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (74 bp):
TTAAATAAGCCCTTTCAAAAAACAAAAGGTATTATTTAAGGCATTTTTGGTCCAAAAATGACTTA
AAAATGGGA
Found at i:18101258 original size:19 final size:19
Alignment explanation
Indices: 18101203--18101264 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
18101193 CAAATGCCCT
*
18101203 CTAAGTGAAACCTTAAACC
1 CTAAATGAAACCTTAAACC
* * *
18101222 CT-AAGGGAACCTCAAAACC
1 CTAAATGAAACCT-TAAACC
18101241 CTAAATGAAACCTTAAACC
1 CTAAATGAAACCTTAAACC
18101260 CTAAA
1 CTAAA
18101265 ATCTTAGTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
18 7 0.21
19 19 0.56
20 8 0.24
ACGTcount: A:0.45, C:0.27, G:0.10, T:0.18
Consensus pattern (19 bp):
CTAAATGAAACCTTAAACC
Found at i:18102999 original size:3 final size:3
Alignment explanation
Indices: 18102991--18103017 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18102981 TAAAAAGCCG
18102991 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
18103018 TATTATTATT
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:18103934 original size:19 final size:21
Alignment explanation
Indices: 18103899--18103954 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
18103889 TTCAATTTCA
**
18103899 TTTTATT-TTTAGCTTT-TAG
1 TTTTATTATTTAATTTTATAG
*
18103918 TTTTTTTATTTAATTTTACTAG
1 TTTTATTATTTAATTTTA-TAG
18103940 TTTTATTATTTAATT
1 TTTTATTATTTAATT
18103955 ACATGTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 6 0.20
20 7 0.23
22 17 0.57
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTATTATTTAATTTTATAG
Found at i:18104202 original size:24 final size:24
Alignment explanation
Indices: 18104166--18104221 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
18104156 GAAATCCATC
* * *
18104166 CAATTGTTAAAAAATTTTATAAAT
1 CAATTTTTAAAAAAATATATAAAT
* *
18104190 CAATTTTTTAAAAAATATATATAT
1 CAATTTTTAAAAAAATATATAAAT
18104214 -AATTTTTA
1 CAATTTTTA
18104222 TCCTTTAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
CAATTTTTAAAAAAATATATAAAT
Found at i:18107735 original size:11 final size:10
Alignment explanation
Indices: 18107719--18107748 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
18107709 ATGCTCCACC
18107719 AAAAAAAATA
1 AAAAAAAATA
18107729 AAAAAAAATA
1 AAAAAAAATA
18107739 AAAGAAAAAT
1 AAA-AAAAAT
18107749 TGATGGGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:18109102 original size:86 final size:87
Alignment explanation
Indices: 18108911--18109116 Score: 242
Period size: 86 Copynumber: 2.4 Consensus size: 87
18108901 AAATTTGAAA
* *
18108911 TCATA-CGAACTTGAAAT-TTTTATGAATCTAGAACATTTACGAAACATAAAATCTTGTGAATCT
1 TCATAGCGAACTTGAAATCTTTTATGAATCTAGAACATTTACAAAACATAAAATCTTGTGAATAT
* *
18108974 TTATTTCTTATGAATCTAATAG
66 TTATTTCTTACGAATCTAAAAG
* * * * *
18108996 TCCTAGCGAACTTGAAATCTTTT-TGAATCTAGTACCTTTACAAAACTTGAAATCTTGTGAATAT
1 TCATAGCGAACTTGAAATCTTTTATGAATCTAGAACATTTACAAAACATAAAATCTTGTGAATAT
*
18109060 TTCTTTCTTACGAATCTAAAAG
66 TTATTTCTTACGAATCTAAAAG
* * * *
18109082 TCATTGCGAAGC-TGAGATC-TTTACGAATTTAGAAC
1 TCATAGCGAA-CTTGAAATCTTTTATGAATCTAGAAC
18109117 TTTGTAAAAC
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
85 7 0.07
86 89 0.88
87 5 0.05
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (87 bp):
TCATAGCGAACTTGAAATCTTTTATGAATCTAGAACATTTACAAAACATAAAATCTTGTGAATAT
TTATTTCTTACGAATCTAAAAG
Found at i:18109845 original size:120 final size:120
Alignment explanation
Indices: 18109538--18109849 Score: 297
Period size: 120 Copynumber: 2.6 Consensus size: 120
18109528 ACTCGATCCA
* * * * * * *
18109538 GGTCGTTTTATCTTATTGACTCGTGATTTCATCCCGATCATTCTTTTGATATCGACTTAGTCTAT
1 GGTCATTTTATCTTATCGACTTGTGATTTCATCCCAATCATTC----GATCTCGACTCAGTCTAG
* * *
18109603 ATCATTTTTTGACCCGTGGTTCCATCTTGGTCAGTCATCTTTAACCTTGACTTGGTCTT
62 ATCATTTTTTGACCCGTAGTTCCATCTTGGTCAGTCATCTTTAACCTCGACTTGGCCTT
* * * * * * * * *
18109662 AGTTACTTTATCTTGTCGACTTGTGGTTTTATCCCAATCATTTGATCTCGGCTCCA-TCCAGATC
1 GGTCATTTTATCTTATCGACTTGTGATTTCATCCCAATCATTCGATCTCGACT-CAGTCTAGATC
** * * * *
18109726 ATTTTTTGACTTGTAGTTCTAT-TCTGGTTAGTCATCTTTGATCTCGACTTGGCCTT
65 ATTTTTTGACCCGTAGTTCCATCT-TGGTCAGTCATCTTTAACCTCGACTTGGCCTT
* *
18109782 GGTCATTTTATCTTATCAACTTGTGATTTCATCTCC-ATCATTCGATCTTGACTCAGTCTAGATC
1 GGTCATTTTATCTTATCGACTTGTGATTTCATC-CCAATCATTCGATCTCGACTCAGTCTAGATC
18109846 ATTT
65 ATTT
18109850 CTTAACCCAT
Statistics
Matches: 148, Mismatches: 36, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
119 3 0.02
120 110 0.74
121 3 0.02
124 32 0.22
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (120 bp):
GGTCATTTTATCTTATCGACTTGTGATTTCATCCCAATCATTCGATCTCGACTCAGTCTAGATCA
TTTTTTGACCCGTAGTTCCATCTTGGTCAGTCATCTTTAACCTCGACTTGGCCTT
Found at i:18109881 original size:120 final size:120
Alignment explanation
Indices: 18109757--18109975 Score: 264
Period size: 120 Copynumber: 1.8 Consensus size: 120
18109747 TTCTGGTTAG
** * *
18109757 TCATCTTTGATCTCGACTTG-GCCTTGGTCATTTTATCTTATCAACTTGT-GATTTCATCTCCAT
1 TCATCTTCAATCTCGACTCGAGCC-TAGTCATTTTATCTTATCAACTTGTAG-TTTCATCTCCAT
* *
18109820 CATTCGATCTTGACTCAGTCTAGATCA-TTTCTTAACCCATGATTTTATCTCGATTAA
64 CATTCGATCTCGACTCAATCTAGATCAGTTT-TTAACCCATGATTTTATCTCGATTAA
* * * * ** * *
18109877 TCATCTTCAATCTTGACTCGATCCTAGTCGTTTTATCTTGTTGACTTGTAGTTTTATCTCGATCA
1 TCATCTTCAATCTCGACTCGAGCCTAGTCATTTTATCTTATCAACTTGTAGTTTCATCTCCATCA
18109942 TTCGATCTCGACTCAATCTAGATCAGTTTTTAAC
66 TTCGATCTCGACTCAATCTAGATCAGTTTTTAAC
18109976 TCGCTATTTC
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
120 76 0.93
121 6 0.07
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.43
Consensus pattern (120 bp):
TCATCTTCAATCTCGACTCGAGCCTAGTCATTTTATCTTATCAACTTGTAGTTTCATCTCCATCA
TTCGATCTCGACTCAATCTAGATCAGTTTTTAACCCATGATTTTATCTCGATTAA
Found at i:18110052 original size:120 final size:118
Alignment explanation
Indices: 18109779--18110055 Score: 256
Period size: 120 Copynumber: 2.3 Consensus size: 118
18109769 TCGACTTGGC
* * * * *
18109779 CTTGGTCATTTTATCTTATCAACTTGTGATTTCATCTCCATCATTCGATCTTGACTCAGTCTAGA
1 CTTGGTCATTTTATCTTGTTAAC-T-TGATTTTATCTCCATCATTCGATCTCGACTCAATCTAGA
* * * *
18109844 TCATTTCTTAACCCATGATTTTATCTCGATTAATCATCTTCAATCTTGACTCGAT
64 TCATTTCTTAACCCATGATTTCATCTCGACTAACCATCTTCAACCTTGACTCGAT
* * * * *
18109899 CCTAGTCGTTTTATCTTGTTGACTTGTAGTTTTATCTCGATCATTCGATCTCGACTCAATCTAGA
1 CTTGGTCATTTTATCTTGTTAACTTG-A-TTTTATCTCCATCATTCGATCTCGACTCAATCTAGA
* * * * *
18109964 TCAGTTT-TTAACTCGC-T-ATTTCATCTCGGCTAGCCATTTTTAACCTTGGCTCTG-T
64 TCA-TTTCTTAAC-C-CATGATTTCATCTCGACTAACCATCTTCAACCTTGACTC-GAT
*
18110019 TTTGGTCATTTTATCTTGTTAACTCATGATTTTATCT
1 CTTGGTCATTTTATCTTGTTAACT--TGATTTTATCT
18110056 AGGTCACTTA
Statistics
Matches: 125, Mismatches: 24, Indels: 16
0.76 0.15 0.10
Matches are distributed among these distances:
118 2 0.02
119 2 0.02
120 111 0.89
121 7 0.06
122 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (118 bp):
CTTGGTCATTTTATCTTGTTAACTTGATTTTATCTCCATCATTCGATCTCGACTCAATCTAGATC
ATTTCTTAACCCATGATTTCATCTCGACTAACCATCTTCAACCTTGACTCGAT
Found at i:18110557 original size:3 final size:3
Alignment explanation
Indices: 18110544--18110650 Score: 93
Period size: 3 Copynumber: 38.0 Consensus size: 3
18110534 ATAACCAATT
* * * *
18110544 TTA TCA TTA TTA TTA TT- TTA TT- TTA TTA TTA TTA GTA CTA -TA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * *
18110589 -TA ACA TTA -TA TT- TTA -TA CTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18110633 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
18110651 CTACTATTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
2 14 0.16
3 73 0.84
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:18111521 original size:25 final size:25
Alignment explanation
Indices: 18111475--18111522 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
18111465 GTTTTCCTTT
*
18111475 TTTCATTTTTATTTTTATTTTTTGA
1 TTTCATTTTTATTTTTACTTTTTGA
18111500 TTTCA-TTTTATTTTTAGCTTTTT
1 TTTCATTTTTATTTTTA-CTTTTT
18111523 AGCTTTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTCATTTTTATTTTTACTTTTTGA
Found at i:18112342 original size:15 final size:15
Alignment explanation
Indices: 18112322--18112352 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18112312 TCTATACGTT
18112322 ATAACAACAACAACA
1 ATAACAACAACAACA
*
18112337 ATAACAATAACAACA
1 ATAACAACAACAACA
18112352 A
1 A
18112353 CAATAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.23, G:0.00, T:0.10
Consensus pattern (15 bp):
ATAACAACAACAACA
Found at i:18112348 original size:12 final size:12
Alignment explanation
Indices: 18112324--18112358 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18112314 TATACGTTAT
*
18112324 AACAACAACAAC
1 AACAACAATAAC
*
18112336 AATAACAATAAC
1 AACAACAATAAC
18112348 AACAACAATAA
1 AACAACAATAA
18112359 TGATTATACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.09
Consensus pattern (12 bp):
AACAACAATAAC
Found at i:18115109 original size:20 final size:20
Alignment explanation
Indices: 18115073--18115123 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
18115063 AAGAGCATGT
*
18115073 AAAAAAAAAGGCAAAAGAGAG
1 AAAAAAAAAGGCAAAAGA-AA
*
18115094 AAAAAAAAAGG-GAAAGAAA
1 AAAAAAAAAGGCAAAAGAAA
18115113 AAAAGAAAAAG
1 AAAA-AAAAAG
18115124 AAAAATGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 11 0.41
21 11 0.41
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGGCAAAAGAAA
Found at i:18115687 original size:16 final size:16
Alignment explanation
Indices: 18115678--18115708 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18115668 AAAAAAACGA
18115678 AAAGAAAAAACAAAAG
1 AAAGAAAAAACAAAAG
*
18115694 AAAGAAAAAAGAAAA
1 AAAGAAAAAACAAAA
18115709 AGGAAGAAAG
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:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAACAAAAG
Found at i:18115692 original size:12 final size:12
Alignment explanation
Indices: 18115669--18115709 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
18115659 GAAAAAGCGA
18115669 AAAAAACGAAAAG
1 AAAAAAC-AAAAG
18115682 AAAAAACAAAAG
1 AAAAAACAAAAG
*
18115694 AAAGAA-AAAAG
1 AAAAAACAAAAG
18115705 AAAAA
1 AAAAA
18115710 GGAAGAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 9 0.35
12 10 0.38
13 7 0.27
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAG
Found at i:18115692 original size:21 final size:21
Alignment explanation
Indices: 18115646--18115727 Score: 60
Period size: 22 Copynumber: 3.8 Consensus size: 21
18115636 AAAAGAATGA
* *
18115646 AAAAAAATGTAAAGAAAAAGCG
1 AAAAAAA-GAAAAGAAAAAACG
18115668 AAAAAAACGAAAAGAAAAAAC-
1 AAAAAAA-GAAAAGAAAAAACG
*
18115689 AAAAGAAAGAAAA-AAGAAAAAG
1 AAAA-AAAGAAAAGAA-AAAACG
* * *
18115711 GAAGAAAGAAAATAAAA
1 AAAAAAAGAAAAGAAAA
18115728 TAAATGAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.04
21 23 0.46
22 25 0.50
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.04
Consensus pattern (21 bp):
AAAAAAAGAAAAGAAAAAACG
Found at i:18115709 original size:17 final size:16
Alignment explanation
Indices: 18115668--18115727 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 16
18115658 AGAAAAAGCG
*
18115668 AAAAAAACGAAAAGAAA
1 AAAAAAAAG-AAAGAAA
*
18115685 AAACAAAAGAAAGAAA
1 AAAAAAAAGAAAGAAA
*
18115701 AAAGAAAAAGGAAGAAA
1 AAA-AAAAAGAAAGAAA
18115718 GAAAATAAAA
1 -AAAA-AAAA
18115728 TAAATGAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 10 0.28
17 19 0.53
18 7 0.19
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAAAAAGAAAGAAA
Found at i:18117774 original size:41 final size:41
Alignment explanation
Indices: 18117686--18117862 Score: 125
Period size: 41 Copynumber: 4.4 Consensus size: 41
18117676 AGACCTCCAG
* * * **
18117686 GCAAAATTTTAAA-TCT-AAATGA-TTTCCAATACTTCCAA
1 GCAAAATTTTAAATTTTGAAATGATTTTCAAAGACTTCTGA
*
18117724 ACAAAATTTTAAAATTTTGAAA-GATTTTCAAAGAAC-TCTGA
1 GCAAAATTTT-AAATTTTGAAATGATTTTCAAAG-ACTTCTGA
* * * * *
18117765 GCAAAATTTTAGATTTTTAAATGGTTTTTAAAGACTTCTGG
1 GCAAAATTTTAAATTTTGAAATGATTTTCAAAGACTTCTGA
* ** *
18117806 GCAAAATCTTAAA-TTTGTAAATGATTTTCAGCGACCTT-TGG
1 GCAAAATTTTAAATTTTG-AAATGATTTTCAAAGA-CTTCTGA
*
18117847 GCAAAATCTTAAATTT
1 GCAAAATTTTAAATTT
18117863 CTAAAAGATT
Statistics
Matches: 110, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
38 9 0.08
39 3 0.03
40 18 0.16
41 73 0.66
42 7 0.06
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (41 bp):
GCAAAATTTTAAATTTTGAAATGATTTTCAAAGACTTCTGA
Found at i:18120506 original size:6 final size:6
Alignment explanation
Indices: 18120331--18120502 Score: 227
Period size: 6 Copynumber: 28.7 Consensus size: 6
18120321 TAGAGTGGCT
* * * * *
18120331 ATAACA ACAACA ACAACA ATAACA ACAACA ACAACA ATAACA ACAACA
1 ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA
* *
18120379 ACAACA ACAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA
1 ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA
* *
18120427 ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ACAATA
1 ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA
* * * *
18120475 ATAATA ATAATA ATAATA ATAATA ATAA
1 ATAACA ATAACA ATAACA ATAACA ATAA
18120503 TAATTTAAAA
Statistics
Matches: 157, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 157 1.00
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.15
Consensus pattern (6 bp):
ATAACA
Found at i:18120644 original size:4 final size:4
Alignment explanation
Indices: 18120630--18120667 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
18120620 TATAAAATAT
*
18120630 TAAA AAAA TAAA TAAA TAAA TAAA T-AA TAAA -AAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
18120668 AATAGTCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 6 0.20
4 24 0.80
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
TAAA
Found at i:18120743 original size:12 final size:12
Alignment explanation
Indices: 18120724--18120758 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18120714 TTTACATCAT
18120724 TATTATTATTAC
1 TATTATTATTAC
*
18120736 TTTTATTATTAC
1 TATTATTATTAC
*
18120748 TATTGTTATTA
1 TATTATTATTA
18120759 TACTTGCCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:18121256 original size:38 final size:38
Alignment explanation
Indices: 18121186--18121264 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
18121176 AAATATTGAA
*
18121186 AAAAAAAAACCTTAAATGAAACCTTAATGTGAAACCCT
1 AAAAAAAAACCTTAAATGAAACCCTAATGTGAAACCCT
* * *
18121224 AAAACAAAACTTTAAAGTTAAACCCTAA-GTGAAACCCT
1 AAAAAAAAACCTTAAA-TGAAACCCTAATGTGAAACCCT
18121262 AAA
1 AAA
18121265 TCTTAAGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 27 0.75
39 9 0.25
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.20
Consensus pattern (38 bp):
AAAAAAAAACCTTAAATGAAACCCTAATGTGAAACCCT
Found at i:18121303 original size:19 final size:18
Alignment explanation
Indices: 18121241--18121303 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
18121231 AACTTTAAAG
18121241 TTAAACCCTAAGTGAAACC
1 TTAAACCCTAAGTGAAA-C
* * *
18121260 CTAAATCTTAAGTGAAAC
1 TTAAACCCTAAGTGAAAC
*
18121278 TTGAAACCCTAAATGAAATC
1 TT-AAACCCTAAGTGAAA-C
18121298 TTAAAC
1 TTAAAC
18121304 TCTTAAAGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
18 2 0.06
19 30 0.86
20 3 0.09
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.25
Consensus pattern (18 bp):
TTAAACCCTAAGTGAAAC
Found at i:18123387 original size:21 final size:21
Alignment explanation
Indices: 18123350--18123407 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
18123340 CAAAACTTTC
*
18123350 ACAAATAAAAAATAAATTACTCA
1 ACAAAT-AAAAA-AAATTACCCA
*
18123373 ACAAATAAAAAAAATTCCCCA
1 ACAAATAAAAAAAATTACCCA
*
18123394 AC-AATAATAAAAAT
1 ACAAATAAAAAAAAT
18123408 AAATCCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.34
21 10 0.31
22 5 0.16
23 6 0.19
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.19
Consensus pattern (21 bp):
ACAAATAAAAAAAATTACCCA
Found at i:18123502 original size:33 final size:32
Alignment explanation
Indices: 18123460--18123577 Score: 97
Period size: 33 Copynumber: 3.8 Consensus size: 32
18123450 AAATATATAA
*
18123460 CCAACAAATTTCAACAAATATATAACCAAAAC
1 CCAAAAAATTTCAACAAATATATAACCAAAAC
* *
18123492 CCAAATAAATTTCAATAAATATAAAACC--AA-
1 CCAAA-AAATTTCAACAAATATATAACCAAAAC
* *
18123522 -C-AAAAA-CTCAACAAAT-TGGTAACCAAAAC
1 CCAAAAAATTTCAACAAATAT-ATAACCAAAAC
* *
18123551 CCAAACAAATTTTAACAAATAAATAAC
1 CCAAA-AAATTTCAACAAATATATAAC
18123578 TAACAAAAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
25 1 0.02
26 12 0.18
27 3 0.05
28 4 0.06
29 1 0.02
30 1 0.02
31 4 0.06
32 7 0.11
33 32 0.49
ACGTcount: A:0.58, C:0.21, G:0.02, T:0.19
Consensus pattern (32 bp):
CCAAAAAATTTCAACAAATATATAACCAAAAC
Found at i:18123636 original size:59 final size:59
Alignment explanation
Indices: 18123450--18123636 Score: 234
Period size: 59 Copynumber: 3.2 Consensus size: 59
18123440 AATCTAACAA
** *
18123450 AAATATATAACCAAC-AAATTTCAACAAATAT-ATAACCAAAACCCAAATAAATTTCAAT
1 AAATATATAACCAACAAAAACTCAACAAAT-TGATAACCAAAACCCAAACAAATTTCAAT
* * * *
18123508 AAATATAAAACCAACAAAAACTCAACAAATTGGTAACCAAAACCCAAACAAATTTTAAC
1 AAATATATAACCAACAAAAACTCAACAAATTGATAACCAAAACCCAAACAAATTTCAAT
* * * **
18123567 AAATAAATAACTAACAAAAACTCAACACATTGATAACCAAAATTCAAACAAATTTCAAT
1 AAATATATAACCAACAAAAACTCAACAAATTGATAACCAAAACCCAAACAAATTTCAAT
*
18123626 AAATTTATAAC
1 AAATATATAAC
18123637 AAAAAATTAA
Statistics
Matches: 109, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
58 15 0.14
59 94 0.86
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.22
Consensus pattern (59 bp):
AAATATATAACCAACAAAAACTCAACAAATTGATAACCAAAACCCAAACAAATTTCAAT
Found at i:18129628 original size:13 final size:13
Alignment explanation
Indices: 18129610--18129639 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
18129600 TATATCTTTT
18129610 AAAAAATATTTAAA
1 AAAAAATA-TTAAA
18129624 AAAAAATATTAAA
1 AAAAAATATTAAA
18129637 AAA
1 AAA
18129640 TTTTATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAATATTAAA
Found at i:18133123 original size:61 final size:60
Alignment explanation
Indices: 18132983--18133126 Score: 166
Period size: 61 Copynumber: 2.4 Consensus size: 60
18132973 GTTTTTGATC
* **
18132983 AAAAAATACCTTTAATAATCCCTTTCATTTTTTATGAGGAGATTATTGAAGGTGTTTTGTGT
1 AAAAAATACCTTTAATAAT--CTTTCATTTTTTATGAAGAGATTATTGAAGGCATTTTGTGT
** *
18133045 AAAAAACGCTTTTAATAATCTTTCTAATTTTTTATGAAG-GATTATTGAAGGCATTTTAG-GT
1 AAAAAATACCTTTAATAATCTTTC--ATTTTTTATGAAGAGATTATTGAAGGCATTTT-GTGT
*
18133106 AAAAAATACCTTGAATAATCT
1 AAAAAATACCTTTAATAATCT
18133127 GCTCATAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
60 5 0.07
61 35 0.51
62 29 0.42
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (60 bp):
AAAAAATACCTTTAATAATCTTTCATTTTTTATGAAGAGATTATTGAAGGCATTTTGTGT
Found at i:18141446 original size:23 final size:23
Alignment explanation
Indices: 18141426--18141469 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
18141416 CACAATTTGT
*
18141426 AGATAATTAGTGAAGGCATTTAC
1 AGATAATTAATGAAGGCATTTAC
18141449 AGATAATTAATGAAGGCATTT
1 AGATAATTAATGAAGGCATTT
18141470 TCTACGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (23 bp):
AGATAATTAATGAAGGCATTTAC
Found at i:18142390 original size:354 final size:351
Alignment explanation
Indices: 18141515--18142594 Score: 1325
Period size: 355 Copynumber: 3.1 Consensus size: 351
18141505 AGTATTTCGG
* * ** *
18141515 ATTATTAAAGGTATCTTTTATTATGAAATTCCTTTAATATATCATGATAGTTATGAAAGGCATTT
1 ATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATATCATGATAGTTATGAAAGGCATTT
* *
18141580 ATTCAAAAACACACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGTGTTTGTTAAT
66 ATTCAAAAA-ACGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTTAAT
* * *
18141645 AACAGACATCTTCAAATTTTTTTCACTAAAAATTTTGGGAATCATTAAAAGCATCTTTTACTGTA
130 AACAGACACCTTCAAAATTTTTTCACTAAAAATTTT-GGAATCATT-AAAGCATC-TTTACTATA
* * *
18141710 AAATATGTT-TATATATCGCT-ACATAAATTTTAACACTGTTATTGAAGTG--TATATCCAAGAA
192 AAATACGTTCTATATA-C-CTCACACAAATTTTAACACGGTTATTGAAG-GCATATATCCAAGAA
** * *
18141771 AGATGCCTTTAATAATTTCTATCACAACTTGTAAATAATTAGTGAAGGCGGTTGCAAATAACAAC
254 AGATGCCTTTAATAATTTCTATCACAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAAC
* ** *
18141836 ACCTTCAATAATTTTCTTAAAAAATTTTTTTCA
319 GCCTTCAATAATTTTCAAAAAAAATTTTTTTGA
* * ***
18141869 GATTATTAAAGGCATCTTTTATTATAAAACGCCTTCAATATATCATGATAGTTATGGAAGATGTT
1 -ATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATATCATGATAGTTATGAAAGGCATT
* * * *
18141934 TATTCAAAAAAGTGCCTTCAATATACCTTTAAACTTAGTAATCTATTACTAAAGGCATTTGTTAA
65 TATTCAAAAAA-CGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTTAA
* ** * *
18141999 TAACAAATGCCTTCAAAA-TTTTTAACTAAATATTTTGAGAATCATTAAAGTCATCTTCTACTAT
129 TAACAGACACCTTCAAAATTTTTTCACTAAAAATTTTG-GAATCATTAAAG-CATCTT-TACTAT
*
18142063 AAAATACGTTCTATATACCATCACACAAATTTTAATACGGTTATTGAAGGCATATATCCAAGAAA
191 AAAATACGTTCTATATACC-TCACACAAATTTTAACACGGTTATTGAAGGCATATATCCAAGAAA
* *
18142128 GACGCCTTTAATAATTT-TATCACAGTTTGTAGATAATTAGTAAAGGCGGTTGCAGATAACAACG
255 GATGCCTTTAATAATTTCTATCACAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAACG
* *
18142192 CATTCAATAA-TTTAAAAAAAAATTTTTTTTGA
320 CCTTCAATAATTTTCAAAAAAAA-TTTTTTTGA
* * ** *
18142224 ATTATTAAAGGCTTCTTTTATTATAAAACACCTTCAATATACCACAATGGTTATGAAAGGCATTT
1 ATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATATCATGATAGTTATGAAAGGCATTT
18142289 ATTCAAAAAGACGCCTTCAATATA-CTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTTAAT
66 ATTCAAAAA-ACGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTTAAT
*
18142353 AATAGACACCTTCAAAATTTTTTCACTAAAAATTTT-G-------AAA--A---TTA--AT-AAA
130 AACAGACACCTTCAAAATTTTTTCACTAAAAATTTTGGAATCATTAAAGCATCTTTACTATAAAA
** * * * * * *
18142402 GGCG-TCT-TCTA-C-CACACAAATTCTAACATGGTTATTGAAGGCATACATCTAAGAAAGATAC
195 TACGTTCTATATACCTCACACAAATTTTAACACGGTTATTGAAGGCATATATCCAAGAAAGATGC
*
18142463 CTTTAATAATTTCTATCACAGTTTGTAGATAATTAGTGAAGACGGTTGCAGATAACAACGCCTTC
260 CTTTAATAATTTCTATCACAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAACGCCTTC
18142528 AATAATTTCTCAAAAAAAATTTTTTTGA
325 AATAATTT-TCAAAAAAAATTTTTTTGA
18142556 ATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATA
1 ATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATA
18142595 ATTTGTTATA
Statistics
Matches: 636, Mismatches: 74, Indels: 53
0.83 0.10 0.07
Matches are distributed among these distances:
330 54 0.08
331 54 0.08
332 50 0.08
333 12 0.02
334 3 0.00
335 5 0.01
336 2 0.00
338 2 0.00
339 1 0.00
342 1 0.00
345 3 0.00
352 1 0.00
353 58 0.09
354 147 0.23
355 214 0.34
356 29 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (351 bp):
ATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATATCATGATAGTTATGAAAGGCATTT
ATTCAAAAAACGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTTAATA
ACAGACACCTTCAAAATTTTTTCACTAAAAATTTTGGAATCATTAAAGCATCTTTACTATAAAAT
ACGTTCTATATACCTCACACAAATTTTAACACGGTTATTGAAGGCATATATCCAAGAAAGATGCC
TTTAATAATTTCTATCACAGTTTGTAGATAATTAGTGAAGGCGGTTGCAGATAACAACGCCTTCA
ATAATTTTCAAAAAAAATTTTTTTGA
Found at i:18144906 original size:21 final size:21
Alignment explanation
Indices: 18144864--18144906 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18144854 GCAACAAATT
* * *
18144864 AATGACCAAGAGCAATGCCTC
1 AATGACCAACAGCAAAGACTC
18144885 AATGACCAACAGCAAAGACTC
1 AATGACCAACAGCAAAGACTC
18144906 A
1 A
18144907 CTGCTTTGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.16, T:0.12
Consensus pattern (21 bp):
AATGACCAACAGCAAAGACTC
Found at i:18151187 original size:34 final size:34
Alignment explanation
Indices: 18151135--18151239 Score: 99
Period size: 34 Copynumber: 3.1 Consensus size: 34
18151125 AGCGTCTCAA
*
18151135 AAATACAAACG-TCATAATATAGTTACGTTTTTC
1 AAATACAAACGCTGATAATATAGTTACGTTTTTC
** * * **
18151168 AAATGTAAACGCTGCTAATATAATGGCG-TTTTC
1 AAATACAAACGCTGATAATATAGTTACGTTTTTC
18151201 AAGATACAAACGCTGATAATATAG-TAGCGTTTTTTC
1 AA-ATACAAACGCTGATAATATAGTTA-CG-TTTTTC
18151237 AAA
1 AAA
18151240 AATGCCTCTA
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
33 16 0.30
34 30 0.56
35 1 0.02
36 7 0.13
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (34 bp):
AAATACAAACGCTGATAATATAGTTACGTTTTTC
Found at i:18154472 original size:140 final size:140
Alignment explanation
Indices: 18154220--18154498 Score: 540
Period size: 140 Copynumber: 2.0 Consensus size: 140
18154210 GTGAGGTCAG
18154220 TAGCCCATTTCAAGCAGAAGCCATCGCAGCAGTGAAAGCTATAAAGTTTGCATAGGACATGGGTT
1 TAGCCCATTTCAAGCAGAAGCCATCGCAGCAGTGAAAGCTATAAAGTTTGCATAGGACATGGGTT
18154285 TTGCAAAGGTATGGTTGGAAGGGGATTGTTTGAAAGTGAATAAAAAGCCGCAAATGACTGAACCT
66 TTGCAAAGGTATGGTTGGAAGGGGATTGTTTGAAAGTGAATAAAAAGCCGCAAATGACTGAACCT
18154350 GATTACTCAA
131 GATTACTCAA
18154360 TAGCCCATTTCAAGCAGAAGCCATCGCAGCAGTGAAAGCTATAAAGTTTGCATAGGACATGGGTT
1 TAGCCCATTTCAAGCAGAAGCCATCGCAGCAGTGAAAGCTATAAAGTTTGCATAGGACATGGGTT
* *
18154425 TTGCAAAGGTATGGTTGGAAGGGGATTGTTTGACAGTGAATAAAAAGCTGCAAATGACTGAACCT
66 TTGCAAAGGTATGGTTGGAAGGGGATTGTTTGAAAGTGAATAAAAAGCCGCAAATGACTGAACCT
18154490 GATTACTCA
131 GATTACTCA
18154499 TCTATTGGTA
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.25
Consensus pattern (140 bp):
TAGCCCATTTCAAGCAGAAGCCATCGCAGCAGTGAAAGCTATAAAGTTTGCATAGGACATGGGTT
TTGCAAAGGTATGGTTGGAAGGGGATTGTTTGAAAGTGAATAAAAAGCCGCAAATGACTGAACCT
GATTACTCAA
Found at i:18157092 original size:28 final size:28
Alignment explanation
Indices: 18157030--18157092 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
18157020 AACGAACTTT
*
18157030 TTTTTTTTAAATTTTTTTCCGGTTAACG
1 TTTTTTTAAAATTTTTTTCCGGTTAACG
*** *
18157058 AAATTTTAAAATTTTTTTTCCGGTTCA-G
1 TTTTTTTAAAA-TTTTTTTCCGGTTAACG
18157086 TTTTTTT
1 TTTTTTT
18157093 CTTTCTTTCC
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.60
Consensus pattern (28 bp):
TTTTTTTAAAATTTTTTTCCGGTTAACG
Found at i:18194055 original size:185 final size:185
Alignment explanation
Indices: 18193743--18194114 Score: 645
Period size: 185 Copynumber: 2.0 Consensus size: 185
18193733 TAAATGTCTA
* * * * *
18193743 TGATTGAATGTCTACAAATATAGTGCTCGAAAGATAATTCCCCAAACTAAGTGGTCCCATCATAA
1 TGATTGAATGTCTACAAATACAGTACTCGAAAAATAACTCCCCAAACTAAGTGATCCCATCATAA
18193808 ATTTCTACAGAAAAGCATCTATGCAGCATAAAATACACAATTAAATAATTAAGTTAAAAGCAAAA
66 ATTTCTACAGAAAAGCATCTATGCAGCATAAAATACACAATTAAATAATTAAGTTAAAAGCAAAA
*
18193873 AGAATTAGTGTAATTCTAAAAAGGATTTGTACAAAAAACCAATACAAGTATGATT
131 AGAATTAGTGTAATTCTAAAAAGGATTCGTACAAAAAACCAATACAAGTATGATT
*
18193928 TGATTGAATGTCTACAAATACAGTACTCGAAAAATAACTCCCCAAAGTAAGTGATCCCATCATAA
1 TGATTGAATGTCTACAAATACAGTACTCGAAAAATAACTCCCCAAACTAAGTGATCCCATCATAA
*
18193993 ATTTCTACAGAAAAGCATCTATGTAGCATAAAATACACAATTAAATAATTAAGTTAAAAGCAAAA
66 ATTTCTACAGAAAAGCATCTATGCAGCATAAAATACACAATTAAATAATTAAGTTAAAAGCAAAA
* * *
18194058 AGAATTAGTGTAATTTTAAAAATGATTCGTACAAAAAACCAGTACAAGTATGATT
131 AGAATTAGTGTAATTCTAAAAAGGATTCGTACAAAAAACCAATACAAGTATGATT
18194113 TG
1 TG
18194115 TATTTTGCTT
Statistics
Matches: 176, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
185 176 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.27
Consensus pattern (185 bp):
TGATTGAATGTCTACAAATACAGTACTCGAAAAATAACTCCCCAAACTAAGTGATCCCATCATAA
ATTTCTACAGAAAAGCATCTATGCAGCATAAAATACACAATTAAATAATTAAGTTAAAAGCAAAA
AGAATTAGTGTAATTCTAAAAAGGATTCGTACAAAAAACCAATACAAGTATGATT
Found at i:18202654 original size:107 final size:107
Alignment explanation
Indices: 18202468--18202679 Score: 415
Period size: 107 Copynumber: 2.0 Consensus size: 107
18202458 GAGAAATGGT
18202468 ATTAATAGTAAAATCTCATTTTTCCTTAATTAGATCAATATTCATATGTATAATTAATTAAAAAT
1 ATTAATAGTAAAATCTCATTTTTCCTTAATTAGATCAATATTCATATGTATAATTAATTAAAAAT
*
18202533 GATGTGTGCAACTATGCATATATAACTAATTAAATATAAAGC
66 GATGTGTGCAACTATGCATAAATAACTAATTAAATATAAAGC
18202575 ATTAATAGTAAAATCTCATTTTTCCTTAATTAGATCAATATTCATATGTATAATTAATTAAAAAT
1 ATTAATAGTAAAATCTCATTTTTCCTTAATTAGATCAATATTCATATGTATAATTAATTAAAAAT
18202640 GATGTGTGCAACTATGCATAAATAACTAATTAAATATAAA
66 GATGTGTGCAACTATGCATAAATAACTAATTAAATATAAA
18202680 TATACCTAAC
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (107 bp):
ATTAATAGTAAAATCTCATTTTTCCTTAATTAGATCAATATTCATATGTATAATTAATTAAAAAT
GATGTGTGCAACTATGCATAAATAACTAATTAAATATAAAGC
Found at i:18202815 original size:85 final size:85
Alignment explanation
Indices: 18202611--18202840 Score: 355
Period size: 79 Copynumber: 2.8 Consensus size: 85
18202601 TAATTAGATC
* * * * *
18202611 AATATTCATATGTATAATTAATTAAAAATGATGTGTGCAACTATGCATAAATAACTAATTAAATA
1 AATATTCATATGTATAACTAATTAAAAATGGTGTGTGCAATTATGTATATATAACTAATTAAATA
18202676 TAAATATACCTAACCATATA
66 TAAATATACCTAACCATATA
*
18202696 AATATTC--A--TAT--CTAATTAAAAATGGTGCGTGCAATTATGTATATATAACTAATTAAATA
1 AATATTCATATGTATAACTAATTAAAAATGGTGTGTGCAATTATGTATATATAACTAATTAAATA
18202755 TAAATATACCTAACCATATA
66 TAAATATACCTAACCATATA
*
18202775 AATATTCATATGTATAACTAATTAAAAATGGTGTGTGCAATTGTGTATATATAACTAATTAAATA
1 AATATTCATATGTATAACTAATTAAAAATGGTGTGTGCAATTATGTATATATAACTAATTAAATA
18202840 T
66 T
18202841 TCATATATAT
Statistics
Matches: 131, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
79 69 0.53
81 4 0.03
83 4 0.03
85 54 0.41
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.36
Consensus pattern (85 bp):
AATATTCATATGTATAACTAATTAAAAATGGTGTGTGCAATTATGTATATATAACTAATTAAATA
TAAATATACCTAACCATATA
Found at i:18202874 original size:24 final size:24
Alignment explanation
Indices: 18202823--18202875 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
18202813 AATTGTGTAT
* *
18202823 ATATAACTAATTAAATATTCATAT
1 ATATAACTAATTAAAAATTCATAA
18202847 ATATAACTAATTAAAAATGT-ATAA
1 ATATAACTAATTAAAAAT-TCATAA
18202871 ATATA
1 ATATA
18202876 CTTATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATAACTAATTAAAAATTCATAA
Found at i:18202922 original size:66 final size:60
Alignment explanation
Indices: 18202834--18202990 Score: 197
Period size: 60 Copynumber: 2.5 Consensus size: 60
18202824 TATAACTAAT
* * * *
18202834 TAAATATTCATATATATAACTAATTAAAAATGTATAAATATACTTATAAATATACCTAATCATA
1 TAAATATTCATATGTATAACTAATTAAAAATG--TAAACACAC--ATAAATATACCTAACCATA
* *
18202898 TAAATATATTCATATGCATAACTAATTAAAAATGTACACACACATAAATATACCTAACCATA
1 T-AA-ATATTCATATGTATAACTAATTAAAAATGTAAACACACATAAATATACCTAACCATA
*
18202960 TCAATATTCATATGTATAACTAATTAAAAAT
1 TAAATATTCATATGTATAACTAATTAAAAAT
18202991 AGTGTGTGCA
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
60 27 0.33
61 1 0.01
62 19 0.23
64 7 0.08
65 2 0.02
66 27 0.33
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (60 bp):
TAAATATTCATATGTATAACTAATTAAAAATGTAAACACACATAAATATACCTAACCATA
Found at i:18202987 original size:60 final size:60
Alignment explanation
Indices: 18202754--18202990 Score: 226
Period size: 61 Copynumber: 3.8 Consensus size: 60
18202744 CTAATTAAAT
*** *
18202754 ATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATGGTGTGTGCA-
1 ATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAAT-GTAAATACAC
*** ** * * *
18202814 ATTGTGTATATATAACTA-ATTAAATATTCATATATATAACTAATTAAAAATGTATAAATATAC
1 A-TAAATATACCTAACCATA-TAAATATTCATATGTATAACTAATTAAAAATG--TAAATACAC
* * * *
18202877 TTATAAATATACCTAATCATATAAATATATTCATATGCATAACTAATTAAAAATGTACACACAC
1 --ATAAATATACCTAACCATAT-AA-ATATTCATATGTATAACTAATTAAAAATGTAAATACAC
*
18202941 ATAAATATACCTAACCATATCAATATTCATATGTATAACTAATTAAAAAT
1 ATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAAT
18202991 AGTGTGTGCA
Statistics
Matches: 140, Mismatches: 27, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
60 30 0.21
61 41 0.29
62 22 0.16
64 16 0.11
65 4 0.03
66 27 0.19
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (60 bp):
ATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATGTAAATACAC
Found at i:18203017 original size:37 final size:37
Alignment explanation
Indices: 18202974--18203049 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
18202964 TATTCATATG
18202974 TATAACTAATTAAAAATAG-TGTGTGCAACCATGTATA
1 TATAACTAATTAAAAAT-GCTGTGTGCAACCATGTATA
* **
18203011 TATAACTAATTAAAAATGCTGTGTGTAACTGTGTATA
1 TATAACTAATTAAAAATGCTGTGTGCAACCATGTATA
18203048 TA
1 TA
18203050 CCATATCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 34 0.97
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (37 bp):
TATAACTAATTAAAAATGCTGTGTGCAACCATGTATA
Found at i:18203066 original size:95 final size:95
Alignment explanation
Indices: 18202954--18203147 Score: 345
Period size: 95 Copynumber: 2.0 Consensus size: 95
18202944 AATATACCTA
18202954 ACCATATCAATATTCATATGTATAACTAATTAAAAATAGTGTGTGCAACCATGTATATATAACTA
1 ACCATATCAATATTCATATGTATAACTAATTAAAAATAGTGTGTGCAACCATGTATATATAACTA
18203019 ATTAAAAA-TGCTGTGTGTAACTGTGTATAT
66 ATTAAAAATTG-TGTGTGTAACTGTGTATAT
* *
18203049 ACCATATCATTATTCATATGTATAACTAATTAAAAATAGTGTGTGCAACTATGTATATATAACTA
1 ACCATATCAATATTCATATGTATAACTAATTAAAAATAGTGTGTGCAACCATGTATATATAACTA
*
18203114 ATTAAAAATTGTGTGTGTGACTGTGTATAT
66 ATTAAAAATTGTGTGTGTAACTGTGTATAT
18203144 ACCA
1 ACCA
18203148 AACCCTATAA
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 93 0.98
96 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (95 bp):
ACCATATCAATATTCATATGTATAACTAATTAAAAATAGTGTGTGCAACCATGTATATATAACTA
ATTAAAAATTGTGTGTGTAACTGTGTATAT
Found at i:18203113 original size:37 final size:37
Alignment explanation
Indices: 18203069--18203144 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
18203059 TATTCATATG
18203069 TATAACTAATTAAAAATAGTGTGTGCAACTATGTATA
1 TATAACTAATTAAAAATAGTGTGTGCAACTATGTATA
* ** *
18203106 TATAACTAATTAAAAATTGTGTGTGTGACTGTGTATA
1 TATAACTAATTAAAAATAGTGTGTGCAACTATGTATA
18203143 TA
1 TA
18203145 CCAAACCCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (37 bp):
TATAACTAATTAAAAATAGTGTGTGCAACTATGTATA
Found at i:18205529 original size:33 final size:33
Alignment explanation
Indices: 18205487--18205555 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
18205477 TTTAGTTTTC
18205487 AATTTCACCAAAACTAATCTCATTGTCTATCTA
1 AATTTCACCAAAACTAATCTCATTGTCTATCTA
18205520 AATTTCACCAAAACTAATCTCATTGTCTATCTA
1 AATTTCACCAAAACTAATCTCATTGTCTATCTA
18205553 AAT
1 AAT
18205556 GAACACTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (33 bp):
AATTTCACCAAAACTAATCTCATTGTCTATCTA
Found at i:18207050 original size:104 final size:104
Alignment explanation
Indices: 18206870--18207080 Score: 422
Period size: 104 Copynumber: 2.0 Consensus size: 104
18206860 AAACCTATAA
18206870 ACTCATATCTATACTTCTCACCTTCACAATTGCTTTCTCCACTTTTAGCAAGAATGCTTGATGAG
1 ACTCATATCTATACTTCTCACCTTCACAATTGCTTTCTCCACTTTTAGCAAGAATGCTTGATGAG
18206935 CAACCATCGAATCCCTCCAATATGGTTGTGATACCTGTC
66 CAACCATCGAATCCCTCCAATATGGTTGTGATACCTGTC
18206974 ACTCATATCTATACTTCTCACCTTCACAATTGCTTTCTCCACTTTTAGCAAGAATGCTTGATGAG
1 ACTCATATCTATACTTCTCACCTTCACAATTGCTTTCTCCACTTTTAGCAAGAATGCTTGATGAG
18207039 CAACCATCGAATCCCTCCAATATGGTTGTGATACCTGTC
66 CAACCATCGAATCCCTCCAATATGGTTGTGATACCTGTC
18207078 ACT
1 ACT
18207081 AACGTACCAC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 107 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (104 bp):
ACTCATATCTATACTTCTCACCTTCACAATTGCTTTCTCCACTTTTAGCAAGAATGCTTGATGAG
CAACCATCGAATCCCTCCAATATGGTTGTGATACCTGTC
Found at i:18217287 original size:3 final size:3
Alignment explanation
Indices: 18217279--18217347 Score: 120
Period size: 3 Copynumber: 23.0 Consensus size: 3
18217269 TAGAGTAGCA
* *
18217279 TGT TGT TGT TGT TGT TGT TGT TGT TAT TGT TGT TGT TGT TTT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
18217327 TGT TGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT
18217348 AATAGTAGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.01, C:0.00, G:0.30, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:18217977 original size:13 final size:14
Alignment explanation
Indices: 18217954--18217983 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
18217944 TTCCTGTTTT
18217954 AAATAAAAAGTTAA
1 AAATAAAAAGTTAA
18217968 AAAT-AAAAGTTAA
1 AAATAAAAAGTTAA
18217981 AAA
1 AAA
18217984 CATCGATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AAATAAAAAGTTAA
Found at i:18220938 original size:2 final size:2
Alignment explanation
Indices: 18220931--18220960 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18220921 ATTTTAGAAA
*
18220931 AT AT AT AT AA 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
18220961 TTACCTCTTG
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18221273 original size:3 final size:3
Alignment explanation
Indices: 18221265--18221292 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18221255 AAAATCCAAC
18221265 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18221293 GAATCCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:18227627 original size:25 final size:25
Alignment explanation
Indices: 18227573--18227626 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
18227563 TTTATTTTCT
* * *
18227573 AAAAATGAATAAATAAATAAAACTT
1 AAAAATCAATAAATAAACAAAACTA
*
18227598 GAAAATCAATAAATAAACAAAA-TA
1 AAAAATCAATAAATAAACAAAACTA
18227622 AAAAA
1 AAAAA
18227627 AATAAGAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAAATCAATAAATAAACAAAACTA
Found at i:18228150 original size:28 final size:27
Alignment explanation
Indices: 18228119--18228191 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 27
18228109 TTGCTTATAG
**
18228119 AATTTATTATATATTTATGTATTTATT
1 AATTTATTATATATTTATGTATCAATT
* *
18228146 CAATTTTTTAGT-TATTTATTTATCAATT
1 -AATTTATTA-TATATTTATGTATCAATT
* *
18228174 GATTTATTATATAATTAT
1 AATTTATTATATATTTAT
18228192 AAAAATTTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 13 0.36
28 21 0.58
29 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (27 bp):
AATTTATTATATATTTATGTATCAATT
Found at i:18232202 original size:14 final size:13
Alignment explanation
Indices: 18232185--18232228 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
18232175 TTTGTTCTCC
* *
18232185 TTTTGTTTTTCTTT
1 TTTT-TTTTTCATA
18232199 TTTTTTTTTCATA
1 TTTTTTTTTCATA
18232212 TTTTTTTTTCATA
1 TTTTTTTTTCATA
18232225 TTTT
1 TTTT
18232229 AAAATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 24 0.86
14 4 0.14
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTCATA
Found at i:18232281 original size:23 final size:21
Alignment explanation
Indices: 18232211--18232285 Score: 89
Period size: 23 Copynumber: 3.4 Consensus size: 21
18232201 TTTTTTTCAT
*
18232211 ATTTTTTTTTCATATTTTAAA
1 ATTTTTTTTTTATATTTTAAA
18232232 ATTATATTTTTTTA-ATATTTAAA
1 ATT-T-TTTTTTTATAT-TTTAAA
18232255 ATTTTTACTTTTTATATTTTAAA
1 ATTTTT--TTTTTATATTTTAAA
18232278 ATTTTTTT
1 ATTTTTTT
18232286 AATTTTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
21 7 0.15
22 4 0.09
23 34 0.72
24 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTTTTTTATATTTTAAA
Found at i:18232324 original size:34 final size:35
Alignment explanation
Indices: 18232256--18232325 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
18232246 ATATTTAAAA
* * **
18232256 TTTTTACTTTTTATATTTTAAAATTTTTTTAATTT
1 TTTTTACTTTTTATATATTAAAATTTATGAAATTT
18232291 TTTTTACTTTTTA-ATATTAAAATTTATGAAATTT
1 TTTTTACTTTTTATATATTAAAATTTATGAAATTT
18232325 T
1 T
18232326 AATTTTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (35 bp):
TTTTTACTTTTTATATATTAAAATTTATGAAATTT
Found at i:18232366 original size:15 final size:14
Alignment explanation
Indices: 18232348--18232378 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
18232338 AAATTTAATT
18232348 TTAAAATTAAATATA
1 TTAAAATTAAA-ATA
18232363 TTAAAATTAAAATA
1 TTAAAATTAAAATA
18232377 TT
1 TT
18232379 TTTCTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTAAAATTAAAATA
Found at i:18234246 original size:26 final size:23
Alignment explanation
Indices: 18234184--18234242 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 23
18234174 TATTAATATA
18234184 AAAATAATTTTATAATAATTATT
1 AAAATAATTTTATAATAATTATT
*
18234207 -AAATAAATATTATAATTAAATGT-TT
1 AAAAT-AATTTTATAA-T-AAT-TATT
18234232 AAAATAATTTT
1 AAAATAATTTT
18234243 TATATGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
22 4 0.14
23 9 0.31
24 1 0.03
25 10 0.34
26 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AAAATAATTTTATAATAATTATT
Found at i:18235975 original size:123 final size:123
Alignment explanation
Indices: 18235751--18236066 Score: 339
Period size: 123 Copynumber: 2.6 Consensus size: 123
18235741 GAAGCATCAC
* * * * * * * * * **
18235751 CAACACCATCTCCATCCTCAAAAGCAACAGCCTCAGCCCTGATCCTATCGAATCCTGGCAAGCAT
1 CAACACCATCACCAACCTCTACAGCAACAGCCCCAGCTCTGGTCCTATCAAATTCTGGCAAGCGC
* * * * *
18235816 ATTGATAGGATGGGCAGTAGCCTCACCGGTTCCAGTTCCGGTA-T-CACTGAACACTCAG
66 ATTGACAGAATGGCCAGTAGCCTCACCAGTTCCAGTTCCGGTACTGCA--GAACACTCAA
** *** * *
18235874 CAACACCATCACCCTCCTCTACAGCAGTGGCCCCAGCTCTGGTCCTATCCAATTCTGGCAAGCGG
1 CAACACCATCACCAACCTCTACAGCAACAGCCCCAGCTCTGGTCCTATCAAATTCTGGCAAGCGC
* * * * *
18235939 ATTGACAGAATGTCCAGTAGTCTCACCAGTTTCAGTTCTGGTACTGCAGAACCCTCAA
66 ATTGACAGAATGGCCAGTAGCCTCACCAGTTCCAGTTCCGGTACTGCAGAACACTCAA
*
18235997 CAACACCATCACCAACGTCTACAGCAACAGCCCCAGCTCTGGTCCTATCAAATTCTGGCAAGCGC
1 CAACACCATCACCAACCTCTACAGCAACAGCCCCAGCTCTGGTCCTATCAAATTCTGGCAAGCGC
18236062 ATTGA
66 ATTGA
18236067 TCAGGCAAGC
Statistics
Matches: 159, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
123 156 0.98
124 1 0.01
125 2 0.01
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.22
Consensus pattern (123 bp):
CAACACCATCACCAACCTCTACAGCAACAGCCCCAGCTCTGGTCCTATCAAATTCTGGCAAGCGC
ATTGACAGAATGGCCAGTAGCCTCACCAGTTCCAGTTCCGGTACTGCAGAACACTCAA
Found at i:18240650 original size:17 final size:17
Alignment explanation
Indices: 18240628--18240660 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18240618 ATATATTATT
18240628 AACTAATTCTAAAAAAA
1 AACTAATTCTAAAAAAA
18240645 AACTAATTCTAAAAAA
1 AACTAATTCTAAAAAA
18240661 TTTTGAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
AACTAATTCTAAAAAAA
Found at i:18246724 original size:21 final size:21
Alignment explanation
Indices: 18246695--18246885 Score: 117
Period size: 21 Copynumber: 9.1 Consensus size: 21
18246685 TTATTAAAAG
18246695 TTTTG-TAACTTTTGATATAA
1 TTTTGATAACTTTTGATATAA
* **
18246715 TTTTGTTAACTTTCAATATTAA
1 TTTTGATAACTTTTGATA-TAA
*
18246737 -TTTGATAA-TTATGATATAA
1 TTTTGATAACTTTTGATATAA
* * *
18246756 GTTTT-TTAACTATTGATACAA
1 -TTTTGATAACTTTTGATATAA
* * *
18246777 TTTTGATAATTTTTTATAAAA
1 TTTTGATAACTTTTGATATAA
* * *
18246798 TTTTGGTAATCTCTTAATATAA
1 TTTTGATAA-CTTTTGATATAA
* *
18246820 TTTTAATAA-TCTTTCATATAA
1 TTTTGATAACT-TTTGATATAA
*
18246841 TTTTGATAA-TTTATGATATAT
1 TTTTGATAACTTT-TGATATAA
* *
18246862 TTTTTATAA-TTATTGATAAAA
1 TTTTGATAACTT-TTGATATAA
18246883 TTT
1 TTT
18246886 GTATCATTAT
Statistics
Matches: 131, Mismatches: 30, Indels: 19
0.73 0.17 0.11
Matches are distributed among these distances:
19 3 0.02
20 20 0.15
21 89 0.68
22 19 0.15
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (21 bp):
TTTTGATAACTTTTGATATAA
Found at i:18246791 original size:105 final size:105
Alignment explanation
Indices: 18246673--18246885 Score: 258
Period size: 105 Copynumber: 2.0 Consensus size: 105
18246663 TTGACATCTG
* * * **
18246673 TTTTGGTAATTTTTATTAAAAGTTTT-GTAA-CTTTTGATATAATTTTGTTAA-CTTTCAATATT
1 TTTTGATAATTTTTA-TAAAA-TTTTGGTAATCTCTTAATATAATTTTAATAATCTTTC-ATA-T
*
18246735 AA-TTTGATAA-TTATGATATAAGTTTTT-TAACTATTGATACAA
62 AATTTTGATAATTTATGATAT-AGTTTTTATAACTATTGATAAAA
18246777 TTTTGATAATTTTTTATAAAATTTTGGTAATCTCTTAATATAATTTTAATAATCTTTCATATAAT
1 TTTTGATAA-TTTTTATAAAATTTTGGTAATCTCTTAATATAATTTTAATAATCTTTCATATAAT
* *
18246842 TTTGATAATTTATGATATATTTTTTATAATTATTGATAAAA
65 TTTGATAATTTATGATATAGTTTTTATAACTATTGATAAAA
18246883 TTT
1 TTT
18246886 GTATCATTAT
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
103 4 0.04
104 20 0.21
105 40 0.43
106 30 0.32
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (105 bp):
TTTTGATAATTTTTATAAAATTTTGGTAATCTCTTAATATAATTTTAATAATCTTTCATATAATT
TTGATAATTTATGATATAGTTTTTATAACTATTGATAAAA
Found at i:18246829 original size:43 final size:42
Alignment explanation
Indices: 18246775--18246885 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 42
18246765 CTATTGATAC
* * *
18246775 AATTTTGATAATTTTTTATAAAATTTTGGTAATCTCT-TAATAT
1 AATTTTAATAATTTTTCATAAAATTTTGATAAT-T-TATAATAT
* * *
18246818 AATTTTAATAATCTTTCATATAATTTTGATAATTTATGATAT
1 AATTTTAATAATTTTTCATAAAATTTTGATAATTTATAATAT
* * * *
18246860 ATTTTTTATAATTATTGATAAAATTT
1 AATTTTAATAATTTTTCATAAAATTT
18246886 GTATCATTAT
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 1 0.02
42 26 0.47
43 28 0.51
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (42 bp):
AATTTTAATAATTTTTCATAAAATTTTGATAATTTATAATAT
Found at i:18248453 original size:12 final size:12
Alignment explanation
Indices: 18248433--18248461 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18248423 TTATTTAAAT
18248433 TTAAA-TTTTTA
1 TTAAATTTTTTA
18248444 TTAAATTTTTTA
1 TTAAATTTTTTA
18248456 TTAAAT
1 TTAAAT
18248462 AGATTCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:18248707 original size:22 final size:22
Alignment explanation
Indices: 18248613--18248710 Score: 67
Period size: 22 Copynumber: 4.5 Consensus size: 22
18248603 CATATTTTTA
* *
18248613 ATGATTTATTACTAAATTATTG
1 ATGATTTACTACTAATTTATTG
*
18248635 ATAATTTACTA--AATTGTTATTG
1 ATGATTTACTACTAA-T-TTATTG
* ** * *
18248657 ATGATTTATTAAAAAGTTA-TA
1 ATGATTTACTACTAATTTATTG
*
18248678 AGTTATTTACTACTAATTTATTG
1 A-TGATTTACTACTAATTTATTG
18248701 ATGATTTACT
1 ATGATTTACT
18248711 TCAAAACTAA
Statistics
Matches: 56, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
20 2 0.04
21 2 0.04
22 48 0.86
23 2 0.04
24 2 0.04
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (22 bp):
ATGATTTACTACTAATTTATTG
Found at i:18248759 original size:22 final size:22
Alignment explanation
Indices: 18248734--18249178 Score: 142
Period size: 22 Copynumber: 20.2 Consensus size: 22
18248724 TGATTAACTA
*
18248734 ATTTATTATTAAATTATCATTG
1 ATTTACTATTAAATTATCATTG
* * *
18248756 ATTTA-TAACTAAGTTA-CTAGTG
1 ATTTACT-ATTAAATTATC-ATTG
* * *
18248778 ATTTACTTTTACTAAATTATCAATA
1 ATTTAC---TATTAAATTATCATTG
* * *
18248803 ATTTACTATTAAGTTATCACTA
1 ATTTACTATTAAATTATCATTG
* ** *
18248825 ATTTACTAATATGTTAT-TTTG
1 ATTTACTATTAAATTATCATTG
** *
18248846 CATTTACTATTATGTTATCATTT
1 -ATTTACTATTAAATTATCATTG
* * * * *
18248869 ATTTACTACCTCATTTTTAATT-
1 ATTTACTA-TTAAATTATCATTG
* * * *
18248891 ATTTATTATAAAATTACCATAG
1 ATTTACTATTAAATTATCATTG
*
18248913 ATTTA-TATTAAATTATCCA-TA
1 ATTTACTATTAAATTAT-CATTG
* ** * *
18248934 ATTCACTACCAATTTATCACT-
1 ATTTACTATTAAATTATCATTG
*
18248955 ATTTTA-TATTAAATTATCTATAG
1 A-TTTACTATTAAATTATC-ATTG
18248978 -TTTA-TATTAAATTATCATTG
1 ATTTACTATTAAATTATCATTG
* * * *
18248998 ATTAACTATTAAGTTATTAATG
1 ATTTACTATTAAATTATCATTG
*
18249020 ATTTACTACTAAATTAT-ATTG
1 ATTTACTATTAAATTATCATTG
* * * * * *
18249041 ATTTACTTTTAAGTTTTTAATA
1 ATTTACTATTAAATTATCATTG
* * *
18249063 ATTAACTACTAAATTATTATTG
1 ATTTACTATTAAATTATCATTG
* *
18249085 ATTTACTATTAAGTTAT-TTATG
1 ATTTACTATTAAATTATCAT-TG
* * *
18249107 ACTTACTACTAAATTTATCA-AG
1 ATTTACTATTAAA-TTATCATTG
* * ** **
18249129 TAATTACTATTAAACTAAGACAG
1 -ATTTACTATTAAATTATCATTG
* *
18249152 ATTTATTATTAAGTTATCATTG
1 ATTTACTATTAAATTATCATTG
18249174 ATTTA
1 ATTTA
18249179 TTACTAAGTT
Statistics
Matches: 308, Mismatches: 90, Indels: 50
0.69 0.20 0.11
Matches are distributed among these distances:
20 3 0.01
21 69 0.22
22 192 0.62
23 26 0.08
25 16 0.05
26 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAATTATCATTG
Found at i:18248927 original size:21 final size:22
Alignment explanation
Indices: 18248891--18249052 Score: 61
Period size: 21 Copynumber: 7.5 Consensus size: 22
18248881 ATTTTTAATT
* *
18248891 ATTTATTATAAAATTACCATAG
1 ATTTACTATTAAATTACCATAG
18248913 ATTTA-TATTAAATTATCCATA-
1 ATTTACTATTAAATTA-CCATAG
* ** * *
18248934 ATTCACTACCAATTTATCACTA-
1 ATTTACTATTAAATTACCA-TAG
* *
18248956 TTTTA-TATTAAATTATCTATAG
1 ATTTACTATTAAATTA-CCATAG
* *
18248978 -TTTA-TATTAAATTATCATTG
1 ATTTACTATTAAATTACCATAG
* * **
18248998 ATTAACTATTAAGTTATTA-ATG
1 ATTTACTATTAAATTACCATA-G
* * *
18249020 ATTTACTACTAAATTA-TATTG
1 ATTTACTATTAAATTACCATAG
*
18249041 ATTTACTTTTAA
1 ATTTACTATTAA
18249053 GTTTTTAATA
Statistics
Matches: 105, Mismatches: 26, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.03
21 54 0.51
22 48 0.46
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAATTACCATAG
Found at i:18249008 original size:43 final size:42
Alignment explanation
Indices: 18248957--18249121 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 42
18248947 TTATCACTAT
* *
18248957 TTTA-TATTAAATTATCTATAGTTTA-TATTAAATTATCATTGA
1 TTTACTATTAAGTTAT-TATAGTTTACTACTAAATTAT-ATTGA
*
18248999 TTAACTATTAAGTTATTA-ATGATTTACTACTAAATTATATTGA
1 TTTACTATTAAGTTATTATA-G-TTTACTACTAAATTATATTGA
* * * *
18249042 TTTACTTTTAAGTTTTTAATAATTAACTACTAAATTATTATTGA
1 TTTACTATTAAGTTATT-ATAGTTTACTACTAAATTA-TATTGA
*
18249086 TTTACTATTAAGTTATT-TATGACTTACTACTAAATT
1 TTTACTATTAAGTTATTATA-G-TTTACTACTAAATT
18249122 TATCAAGTAA
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 47 0.47
44 44 0.44
45 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.50
Consensus pattern (42 bp):
TTTACTATTAAGTTATTATAGTTTACTACTAAATTATATTGA
Found at i:18249034 original size:44 final size:44
Alignment explanation
Indices: 18248985--18249126 Score: 196
Period size: 44 Copynumber: 3.2 Consensus size: 44
18248975 TAGTTTATAT
*
18248985 TAAATTATCATTGATTAACTATTAAGTTATTAATGATTTACTAC
1 TAAATTATCATTGATTTACTATTAAGTTATTAATGATTTACTAC
* * * *
18249029 TAAATTAT-ATTGATTTACTTTTAAGTTTTTAATAATTAACTAC
1 TAAATTATCATTGATTTACTATTAAGTTATTAATGATTTACTAC
* * *
18249072 TAAATTATTATTGATTTACTATTAAGTTATTTATGACTTACTAC
1 TAAATTATCATTGATTTACTATTAAGTTATTAATGATTTACTAC
18249116 TAAATTTATCA
1 TAAA-TTATCA
18249127 AGTAATTACT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
43 38 0.45
44 41 0.49
45 5 0.06
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (44 bp):
TAAATTATCATTGATTTACTATTAAGTTATTAATGATTTACTAC
Found at i:18249525 original size:22 final size:22
Alignment explanation
Indices: 18249478--18249672 Score: 101
Period size: 22 Copynumber: 8.9 Consensus size: 22
18249468 GTTAAATTTG
* * * *
18249478 ATTTACTACTATATTATTAGTA
1 ATTTATTACTAAATTATCAATA
*
18249500 ATTTATTACTAAATTATCAATG
1 ATTTATTACTAAATTATCAATA
* * * * *
18249522 ATTTAATAATCAATTATCCACA
1 ATTTATTACTAAATTATCAATA
* * *
18249544 ATTTATTACTAATTTATGAATG
1 ATTTATTACTAAATTATCAATA
* * ** *
18249566 ATTTATCATTAAATTATTGATG
1 ATTTATTACTAAATTATCAATA
* * **
18249588 ATTTGTTACTAAGTTATTGATA
1 ATTTATTACTAAATTATCAATA
* *
18249610 ATTTACTA-TAAAGATAT-AATTA
1 ATTTATTACTAAA-TTATCAA-TA
*
18249632 ATTTATTA-TAAATTTATCGATA
1 ATTTATTACTAAA-TTATCAATA
18249654 ATTTATTA-TAAAGTTATCA
1 ATTTATTACTAAA-TTATCA
18249673 TTGATTAACT
Statistics
Matches: 130, Mismatches: 40, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
21 4 0.03
22 125 0.96
23 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (22 bp):
ATTTATTACTAAATTATCAATA
Found at i:18249766 original size:22 final size:22
Alignment explanation
Indices: 18249718--18249768 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
18249708 TTACAACAGG
*
18249718 ATTATTAGTAATTTAATAATAT
1 ATTATTAGTAATTTAATAATAA
* * * *
18249740 GTTATTTGTGATTTAATATTAA
1 ATTATTAGTAATTTAATAATAA
18249762 ATTATTA
1 ATTATTA
18249769 ATTTATTACT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (22 bp):
ATTATTAGTAATTTAATAATAA
Found at i:18249858 original size:11 final size:11
Alignment explanation
Indices: 18249842--18249935 Score: 75
Period size: 11 Copynumber: 8.5 Consensus size: 11
18249832 TAAACCTATG
18249842 TTATTATTAAT
1 TTATTATTAAT
18249853 TTATTACTTAAT
1 TTATTA-TTAAT
*
18249865 TTTTTATT-AT
1 TTATTATTAAT
* * *
18249875 TTATAATAAAA
1 TTATTATTAAT
**
18249886 TTATTATCGAT
1 TTATTATTAAT
* *
18249897 TTACTATTAAA
1 TTATTATTAAT
18249908 TTATT-TATAAT
1 TTATTAT-TAAT
*
18249919 TTATTATTAAA
1 TTATTATTAAT
18249930 TTATTA
1 TTATTA
18249936 CTGATTAACT
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
10 8 0.13
11 44 0.70
12 11 0.17
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (11 bp):
TTATTATTAAT
Found at i:18249890 original size:44 final size:44
Alignment explanation
Indices: 18249842--18249935 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
18249832 TAAACCTATG
* * * *
18249842 TTATTATTAATTTATTACTT-AATTTTTTATTATTTATAATAAAA
1 TTATTATCAATTTACTA-TTAAATTATTTATAATTTATAATAAAA
* * *
18249886 TTATTATCGATTTACTATTAAATTATTTATAATTTATTATTAAA
1 TTATTATCAATTTACTATTAAATTATTTATAATTTATAATAAAA
18249930 TTATTA
1 TTATTA
18249936 CTGATTAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (44 bp):
TTATTATCAATTTACTATTAAATTATTTATAATTTATAATAAAA
Found at i:18249998 original size:22 final size:22
Alignment explanation
Indices: 18249901--18250017 Score: 68
Period size: 22 Copynumber: 5.5 Consensus size: 22
18249891 ATCGATTTAC
* *
18249901 TATTAAATTATTTATAATTTAT
1 TATTAAATTATTAATAATTAAT
* *
18249923 TATTAAATTATTACTGATTAACT
1 TATTAAATTATTAATAATTAA-T
* * *
18249946 AATT---TTCATTGAT--TTACT
1 TATTAAATT-ATTAATAATTAAT
18249964 T-TTAAAATT-TTAATAATTAAT
1 TATT-AAATTATTAATAATTAAT
* * *
18249985 TATTAAATTATTAATTATTTAC
1 TATTAAATTATTAATAATTAAT
18250007 TATTAAATTAT
1 TATTAAATTAT
18250018 CATTAATCCA
Statistics
Matches: 71, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
17 2 0.03
18 1 0.01
19 7 0.10
20 2 0.03
21 16 0.23
22 39 0.55
23 4 0.06
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
TATTAAATTATTAATAATTAAT
Found at i:18250514 original size:26 final size:25
Alignment explanation
Indices: 18250447--18250514 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
18250437 TAACATAAAA
* * *
18250447 ATAATTTTATTATTTTTAATTATTT
1 ATAATTTTATTATATTAAATAATTT
*
18250472 ATTAATTTTATAAATATTAAATAATTT
1 A-TAATTTTAT-TATATTAAATAATTT
18250499 ATAATTTTTATTATAT
1 ATAA-TTTTATTATAT
18250515 ATAATTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.03
26 16 0.46
27 18 0.51
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATAATTTTATTATATTAAATAATTT
Found at i:18250999 original size:22 final size:22
Alignment explanation
Indices: 18250960--18251016 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
18250950 ATTGATTTCT
* *
18250960 TACTAAGTTATCAATTATTGAG
1 TACTAAATTATCAATTATTGAC
* * *
18250982 TACTAAATTATTATTTATTTAC
1 TACTAAATTATCAATTATTGAC
*
18251004 TATTAAATTATCA
1 TACTAAATTATCA
18251017 TAAATTTACT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (22 bp):
TACTAAATTATCAATTATTGAC
Found at i:18251074 original size:22 final size:22
Alignment explanation
Indices: 18251026--18251080 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
18251016 ATAAATTTAC
18251026 TATTAAGTTATTCATGATCTAA
1 TATTAAGTTATTCATGATCTAA
*
18251048 GATTAAGTTATT-ACTGAT-TAA
1 TATTAAGTTATTCA-TGATCTAA
*
18251069 TTATTATGTTAT
1 -TATTAAGTTAT
18251081 CGATACGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (22 bp):
TATTAAGTTATTCATGATCTAA
Found at i:18266328 original size:11 final size:11
Alignment explanation
Indices: 18266312--18266337 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18266302 GCATTTGTGA
18266312 AATTATAATCC
1 AATTATAATCC
18266323 AATTATAATCC
1 AATTATAATCC
18266334 AATT
1 AATT
18266338 TCGTTGATTT
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (11 bp):
AATTATAATCC
Found at i:18268304 original size:27 final size:27
Alignment explanation
Indices: 18268229--18268321 Score: 70
Period size: 27 Copynumber: 3.4 Consensus size: 27
18268219 TAAATTATAG
18268229 TAAAATATTTA-ATATAATATTTAAAATT
1 TAAAA-ATTTATA-ATAATATTTAAAATT
18268257 TAAAAATTTATAATATGATATTT-AAA-T
1 TAAAAATTTATAATA--ATATTTAAAATT
* *
18268284 TATAAATTTATTAAGTAATA--TAATATT
1 TAAAAATTTA-TAA-TAATATTTAAAATT
*
18268311 TAAAAAATTAT
1 TAAAAATTTAT
18268322 TTATTTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 30 0.56
28 12 0.22
29 8 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
TAAAAATTTATAATAATATTTAAAATT
Found at i:18272805 original size:45 final size:44
Alignment explanation
Indices: 18272717--18272802 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
18272707 TCATTTATTT
*
18272717 TTTTTTTTGTGACTAATGGCTTTTCATTTCATTTTTTCTTTTAA
1 TTTTTTTTGTAACTAATGGCTTTTCATTTCATTTTTTCTTTTAA
* * * *
18272761 TTTTTTTTGTAACTTATGGTTTTTCATTTCTTTTTTTTTTTT
1 TTTTTTTTGTAACTAATGGCTTTTCATTTCATTTTTTCTTTT
18272803 TAAGCATAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.13, C:0.09, G:0.08, T:0.70
Consensus pattern (44 bp):
TTTTTTTTGTAACTAATGGCTTTTCATTTCATTTTTTCTTTTAA
Found at i:18275721 original size:12 final size:12
Alignment explanation
Indices: 18275704--18275728 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18275694 GACTCGATGG
18275704 TGATGATGATAA
1 TGATGATGATAA
18275716 TGATGATGATAA
1 TGATGATGATAA
18275728 T
1 T
18275729 AATAATAATA
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:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TGATGATGATAA
Found at i:18277430 original size:122 final size:117
Alignment explanation
Indices: 18277264--18277494 Score: 279
Period size: 118 Copynumber: 1.9 Consensus size: 117
18277254 TTTTTCTTCA
* * *
18277264 TTTTTTAACTTAATTTTTGTCTAAAATCATAAGTATTTCTAATATATTGGTAAGACCTTATTTTT
1 TTTTTTAACTTAATTTTTGTCTAAAATCATAAGTATTTCCAATATATTGATAAAACCTTA--TTT
*
18277329 TCTA-AAACTAAAAACTACAAGCCCTCCAATATGCTGTTAAAGTTTTATGAAAACTT
64 T-TAGAAA-TAAAAAC-ACAAGCCCTCCAATATGCTGGTAAAGTTTTATGAAAACTT
* * * *
18277385 TTTTTTAATTTATTTTTTGT-TAAAAATTTATAAGGT-TTTCCAATATGTTGATAAAACCTTATT
1 TTTTTTAACTTAATTTTTGTCT-AAAA-TCATAA-GTATTTCCAATATATTGATAAAACCTTATT
* *
18277448 TTTAGAAATAAAATCACAAGCCCTCCAATATGTTGGTAAAGTTTTAT
63 TTTAGAAATAAAAACACAAGCCCTCCAATATGCTGGTAAAGTTTTAT
18277495 CTATTTATTC
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
118 30 0.31
119 8 0.08
120 8 0.08
121 22 0.23
122 26 0.27
123 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (117 bp):
TTTTTTAACTTAATTTTTGTCTAAAATCATAAGTATTTCCAATATATTGATAAAACCTTATTTTT
AGAAATAAAAACACAAGCCCTCCAATATGCTGGTAAAGTTTTATGAAAACTT
Found at i:18278045 original size:13 final size:14
Alignment explanation
Indices: 18278029--18278057 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18278019 AGCTACTGGA
18278029 TATTGGAA-TTGGT
1 TATTGGAATTTGGT
18278042 TATTGGAATTTGGT
1 TATTGGAATTTGGT
18278056 TA
1 TA
18278058 ATTATGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (14 bp):
TATTGGAATTTGGT
Found at i:18279122 original size:30 final size:28
Alignment explanation
Indices: 18279087--18279185 Score: 78
Period size: 30 Copynumber: 3.4 Consensus size: 28
18279077 ATTGTTAACA
18279087 GCTTATTTAGATTCAAATTAAAGACT-AAG
1 GCTTATTTAGATT-AAATTAAAGA-TAAAG
* *
18279116 GACTTA-TTAGGATAAAATTAAA-ATTCAAGG
1 G-CTTATTTA-GATTAAATTAAAGA-T-AAAG
*
18279146 GTTTATTTAGATGTAAATTAAAGATAAAG
1 GCTTATTTAGAT-TAAATTAAAGATAAAG
18279175 TGCTTATTTAG
1 -GCTTATTTAG
18279186 GTGTATAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
28 2 0.04
29 21 0.38
30 31 0.56
31 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.36
Consensus pattern (28 bp):
GCTTATTTAGATTAAATTAAAGATAAAG
Found at i:18284563 original size:13 final size:13
Alignment explanation
Indices: 18284542--18284571 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18284532 TATGATTTAA
18284542 TCCCGGTAGCCCG
1 TCCCGGTAGCCCG
*
18284555 TCCCTGTAGCCCG
1 TCCCGGTAGCCCG
18284568 TCCC
1 TCCC
18284572 ATACTTTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.50, G:0.23, T:0.20
Consensus pattern (13 bp):
TCCCGGTAGCCCG
Found at i:18288201 original size:32 final size:32
Alignment explanation
Indices: 18288141--18288206 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
18288131 TTTCCAACAC
* *
18288141 AAATACAAAAATTCCTATTTCTAGTTC-AATA
1 AAATACAAAAATGCCTATTTCTAATTCAAATA
* *
18288172 AAATCACATAAATGCCTATTTTTAATTCAAATA
1 AAAT-ACAAAAATGCCTATTTCTAATTCAAATA
18288205 AA
1 AA
18288207 CAAAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 4 0.14
32 19 0.66
33 6 0.21
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (32 bp):
AAATACAAAAATGCCTATTTCTAATTCAAATA
Found at i:18296965 original size:3 final size:3
Alignment explanation
Indices: 18296957--18296997 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
18296947 CTATGCTAGT
* *
18296957 AAC AAC AAC AAC AAC AAT AAC AAC AAC AAT AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
18296998 TAATAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (3 bp):
AAC
Found at i:18296978 original size:12 final size:12
Alignment explanation
Indices: 18296957--18297000 Score: 79
Period size: 12 Copynumber: 3.7 Consensus size: 12
18296947 CTATGCTAGT
*
18296957 AACAACAACAAC
1 AACAATAACAAC
18296969 AACAATAACAAC
1 AACAATAACAAC
18296981 AACAATAACAAC
1 AACAATAACAAC
18296993 AACAATAA
1 AACAATAA
18297001 TAATAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.68, C:0.25, G:0.00, T:0.07
Consensus pattern (12 bp):
AACAATAACAAC
Found at i:18297002 original size:3 final size:3
Alignment explanation
Indices: 18296996--18297030 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18296986 TAACAACAAC
18296996 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18297031 GTTTAAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18299609 original size:27 final size:27
Alignment explanation
Indices: 18299578--18299629 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18299568 CATTGTACTC
* *
18299578 ACATGAATTTTGAAATTTAATTTCTAT
1 ACATGAAATTTAAAATTTAATTTCTAT
*
18299605 ACATGAAATTTAAAATTTAGTTTCT
1 ACATGAAATTTAAAATTTAATTTCT
18299630 CTATTATAAA
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (27 bp):
ACATGAAATTTAAAATTTAATTTCTAT
Found at i:18300373 original size:22 final size:20
Alignment explanation
Indices: 18300330--18300391 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
18300320 CTAAATCTCT
18300330 AAATATTAAAAAATAAAAAA
1 AAATATTAAAAAATAAAAAA
18300350 AAAT-TTCAAAAAATAAAATTAA
1 AAATATT-AAAAAATAAAA--AA
*
18300372 AAATATTAAAACATAAAAAA
1 AAATATTAAAAAATAAAAAA
18300392 GTAAATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
19 2 0.05
20 17 0.46
22 16 0.43
23 2 0.05
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATATTAAAAAATAAAAAA
Found at i:18300426 original size:18 final size:20
Alignment explanation
Indices: 18300403--18300446 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
18300393 TAAATTTAAT
18300403 ATTTTTA-AAAACT-AAAAA
1 ATTTTTAGAAAACTCAAAAA
* *
18300421 ATTTTTAGAAAATTCAAAAT
1 ATTTTTAGAAAACTCAAAAA
18300441 ATTTTT
1 ATTTTT
18300447 TTACTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 10 0.45
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTTTTAGAAAACTCAAAAA
Found at i:18304374 original size:21 final size:21
Alignment explanation
Indices: 18304334--18304374 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18304324 TTTTTCTCCC
**
18304334 CACCAACTTGAGGATCAATAA
1 CACCAACTTGAGGAAAAATAA
*
18304355 CACCAACTTGAGTAAAAATA
1 CACCAACTTGAGGAAAAATA
18304375 TACTTCAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.22, G:0.12, T:0.20
Consensus pattern (21 bp):
CACCAACTTGAGGAAAAATAA
Found at i:18307509 original size:45 final size:45
Alignment explanation
Indices: 18307458--18307550 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
18307448 CTTATTTAGT
18307458 GAGATTTCTTTAATCGTCTCACTAGTTGTTGACTAGTATTAGCTA
1 GAGATTTCTTTAATCGTCTCACTAGTTGTTGACTAGTATTAGCTA
18307503 GAGATTTCTTTAATCGTCTCACTAGTTGTTGACTAGTATTAGCTA
1 GAGATTTCTTTAATCGTCTCACTAGTTGTTGACTAGTATTAGCTA
18307548 GAG
1 GAG
18307551 GAAAACTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (45 bp):
GAGATTTCTTTAATCGTCTCACTAGTTGTTGACTAGTATTAGCTA
Found at i:18319278 original size:21 final size:22
Alignment explanation
Indices: 18319239--18319280 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18319229 ATGAATAAAC
*
18319239 ATAAATTTTTATGTAAATCATT
1 ATAAATTTTTATATAAATCATT
*
18319261 ATAATTTTTTATAT-AATCAT
1 ATAAATTTTTATATAAATCAT
18319281 AATTTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (22 bp):
ATAAATTTTTATATAAATCATT
Found at i:18319376 original size:20 final size:20
Alignment explanation
Indices: 18319351--18319391 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18319341 TTAATATAAA
*
18319351 AATTAACTTTATTTATC-AAT
1 AATTAAATTT-TTTATCTAAT
18319371 AATTAAATTTTTTATCTAAT
1 AATTAAATTTTTTATCTAAT
18319391 A
1 A
18319392 TGTTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTAAATTTTTTATCTAAT
Found at i:18320212 original size:6 final size:6
Alignment explanation
Indices: 18320203--18320228 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18320193 TACATATCAT
18320203 ACGAAG ACGAAG ACGAAG ACGAAG AC
1 ACGAAG ACGAAG ACGAAG ACGAAG AC
18320229 TTAGACGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.19, G:0.31, T:0.00
Consensus pattern (6 bp):
ACGAAG
Found at i:18320811 original size:3 final size:3
Alignment explanation
Indices: 18320803--18320836 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
18320793 GTCAATAAAC
18320803 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18320837 AATTTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18322768 original size:19 final size:20
Alignment explanation
Indices: 18322744--18322784 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
18322734 TTATCATACA
18322744 AATAATATAA-ATATCAAGC
1 AATAATATAATATATCAAGC
*
18322763 AATAATATAATATATCATGC
1 AATAATATAATATATCAAGC
18322783 AA
1 AA
18322785 CAAATCATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (20 bp):
AATAATATAATATATCAAGC
Found at i:18322772 original size:24 final size:24
Alignment explanation
Indices: 18322745--18322818 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
18322735 TATCATACAA
18322745 ATAATATAAATATCAAGCAATAAT
1 ATAATATAAATATCAAGCAATAAT
*
18322769 ATAATAT--ATCATGCAA-CAAATCAT
1 ATAATATAAAT-AT-CAAGC-AATAAT
*
18322793 ACAATA-AAATATCAAGCAA-AAT
1 ATAATATAAATATCAAGCAATAAT
18322815 ATAA
1 ATAA
18322819 AAGATCATGC
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
22 7 0.17
23 8 0.20
24 23 0.57
25 2 0.05
ACGTcount: A:0.58, C:0.12, G:0.04, T:0.26
Consensus pattern (24 bp):
ATAATATAAATATCAAGCAATAAT
Done.