Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, 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: 15579451
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 73860 characters in sequence are not A, C, G, or T
File 15 of 32
Found at i:8130413 original size:20 final size:20
Alignment explanation
Indices: 8130388--8130450 Score: 126
Period size: 20 Copynumber: 3.1 Consensus size: 20
8130378 AGATTCCCCT
8130388 GCTTGTTAGTATACATGTGA
1 GCTTGTTAGTATACATGTGA
8130408 GCTTGTTAGTATACATGTGA
1 GCTTGTTAGTATACATGTGA
8130428 GCTTGTTAGTATACATGTGA
1 GCTTGTTAGTATACATGTGA
8130448 GCT
1 GCT
8130451 AGGCTTAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.40
Consensus pattern (20 bp):
GCTTGTTAGTATACATGTGA
Found at i:8133301 original size:17 final size:18
Alignment explanation
Indices: 8133279--8133313 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8133269 GAGAAAAGAA
*
8133279 AAAAAT-TAAAACTTAAT
1 AAAAATCTAAAACATAAT
8133296 AAAAATCTAAAACATAAT
1 AAAAATCTAAAACATAAT
8133314 TTGTGAATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATCTAAAACATAAT
Found at i:8134379 original size:2 final size:2
Alignment explanation
Indices: 8134372--8134397 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8134362 AAACAAATAC
8134372 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8134398 TTGAAGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8140251 original size:15 final size:16
Alignment explanation
Indices: 8140233--8140269 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
8140223 TAATAAATTA
8140233 TATTTTATTATTT-AT
1 TATTTTATTATTTAAT
*
8140248 TATTTAATTATTTAAT
1 TATTTTATTATTTAAT
8140264 TATTTT
1 TATTTT
8140270 TAAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTTATTATTTAAT
Found at i:8149135 original size:104 final size:104
Alignment explanation
Indices: 8148952--8149154 Score: 325
Period size: 104 Copynumber: 2.0 Consensus size: 104
8148942 ACAGTCATCC
* * *
8148952 ATCTCCGGATTGTACAACAACATACACTCATTCAGGCTTCAGTTATAATTGAAACACTGCCAAAA
1 ATCTCCGGATTGTAAAACAACATACACTCATTCAGGCTTCAATTATAATGGAAACACTGCCAAAA
* *
8149017 TAAAAGTTAGCAGATCTTAAAATGTGAATCTTTGGAAGT
66 TAAAAGTTAACAGATCTTAAAATGCGAATCTTTGGAAGT
* * *
8149056 ATCTCCGGATTGTAAAACAGCATACACTTATTCAGGCTTCAATTATAATGGACACACTGCCAAAA
1 ATCTCCGGATTGTAAAACAACATACACTCATTCAGGCTTCAATTATAATGGAAACACTGCCAAAA
*
8149121 TAAAAGTTAACAGATCTTAAAATGCGAATGTTTG
66 TAAAAGTTAACAGATCTTAAAATGCGAATCTTTG
8149155 AATTACTTCC
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
104 90 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (104 bp):
ATCTCCGGATTGTAAAACAACATACACTCATTCAGGCTTCAATTATAATGGAAACACTGCCAAAA
TAAAAGTTAACAGATCTTAAAATGCGAATCTTTGGAAGT
Found at i:8162248 original size:20 final size:22
Alignment explanation
Indices: 8162219--8162264 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
8162209 ATCATACTTA
*
8162219 TTTAATTTAAATAT-ATTATAT
1 TTTAATTTAAAGATAATTATAT
*
8162240 TTTAA-TTAAAGATAATTATTT
1 TTTAATTTAAAGATAATTATAT
8162261 TTTA
1 TTTA
8162265 TTAGATTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTAATTTAAAGATAATTATAT
Found at i:8165212 original size:42 final size:40
Alignment explanation
Indices: 8165165--8165251 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 40
8165155 AATACGCTAG
*
8165165 TGATTTAAGAAAGCACTTACC-TTCATTATTTTGCTTCCCTAC
1 TGATTTAAGAAAGCACTT-CCTTTCATTA-TATGCTT-CCTAC
* *
8165207 TGATTTAAGTAAGTACTTCCTTTCATTATATGCTTCCTAC
1 TGATTTAAGAAAGCACTTCCTTTCATTATATGCTTCCTAC
8165247 TGATT
1 TGATT
8165252 ATTTCCTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
40 10 0.24
41 8 0.20
42 23 0.56
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (40 bp):
TGATTTAAGAAAGCACTTCCTTTCATTATATGCTTCCTAC
Found at i:8165708 original size:2 final size:2
Alignment explanation
Indices: 8165701--8165732 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8165691 TTTAGACCCT
8165701 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8165733 ATGATTGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8167027 original size:14 final size:14
Alignment explanation
Indices: 8167010--8167059 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
8167000 TATAATTTTT
*
8167010 AAAAAATTATTTAC
1 AAAAAATTATTTAA
* *
8167024 AAAATATTTTTTAA
1 AAAAAATTATTTAA
8167038 AAAATAA--ATTTAA
1 AAAA-AATTATTTAA
8167051 AAAAAATTA
1 AAAAAATTA
8167060 AAGAAAANNN
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
12 2 0.07
13 9 0.32
14 16 0.57
15 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAAAATTATTTAA
Found at i:8167031 original size:11 final size:12
Alignment explanation
Indices: 8167003--8167054 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
8166993 AATTAAATAT
8167003 AATT-TTTAAAA
1 AATTATTTAAAA
8167014 AATTATTTACAAA
1 AATTATTTA-AAA
*
8167027 ATATTTTTTAAAA
1 A-ATTATTTAAAA
*
8167040 AATAAATTTAAAA
1 AAT-TATTTAAAA
8167053 AA
1 AA
8167055 AATTAAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 4 0.12
12 6 0.18
13 17 0.50
14 7 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTATTTAAAA
Found at i:8167053 original size:26 final size:26
Alignment explanation
Indices: 8166984--8167058 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
8166974 CTCTTAAAAG
* *
8166984 TAAAAATTAAA-TTAAATATAATTTT
1 TAAAAAATAAATTTAAAAATAATTTT
* *
8167009 TAAAAAAT-TATTTACAAAATATTTTT
1 TAAAAAATAAATTTA-AAAATAATTTT
*
8167035 TAAAAAATAAATTTAAAAAAAATT
1 TAAAAAATAAATTTAAAAATAATT
8167059 AAAGAAAANN
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
24 1 0.03
25 10 0.25
26 24 0.60
27 5 0.12
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (26 bp):
TAAAAAATAAATTTAAAAATAATTTT
Found at i:8178149 original size:24 final size:22
Alignment explanation
Indices: 8178087--8178190 Score: 72
Period size: 22 Copynumber: 4.7 Consensus size: 22
8178077 CTAAAAGTTT
8178087 TTAAATAAATATTTATATTTAA
1 TTAAATAAATATTTATATTTAA
* * *
8178109 TCAAATATATATATATATTTTAAA
1 TTAAATAAATATTTATA-TTT-AA
* * *
8178133 TTAAATACATTTTTATAATTAA
1 TTAAATAAATATTTATATTTAA
* *
8178155 --AAATAATTAATTAT-TATTAA
1 TTAAATAAATATTTATAT-TTAA
8178175 TTAAA-ATAATATTTAT
1 TTAAATA-AATATTTAT
8178191 CAATTTACAA
Statistics
Matches: 61, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
20 14 0.23
21 1 0.02
22 26 0.43
23 5 0.08
24 15 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAATAAATATTTATATTTAA
Found at i:8192090 original size:19 final size:19
Alignment explanation
Indices: 8192066--8192105 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
8192056 AATCATACCT
8192066 TAATTATTACTTTCTTGAA
1 TAATTATTACTTTCTTGAA
8192085 T-A--ATTACTTTCTTGAA
1 TAATTATTACTTTCTTGAA
8192101 TAATT
1 TAATT
8192106 CTTTCCTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 6
0.75 0.00 0.25
Matches are distributed among these distances:
16 15 0.83
17 1 0.06
18 1 0.06
19 1 0.06
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (19 bp):
TAATTATTACTTTCTTGAA
Found at i:8192092 original size:16 final size:16
Alignment explanation
Indices: 8192071--8192110 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
8192061 TACCTTAATT
8192071 ATTACTTTCTTGAATA
1 ATTACTTTCTTGAATA
8192087 ATTACTTTCTTGAATA
1 ATTACTTTCTTGAATA
8192103 ATT-CTTTC
1 ATTACTTTC
8192111 CTTACCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.53
Consensus pattern (16 bp):
ATTACTTTCTTGAATA
Found at i:8203855 original size:20 final size:19
Alignment explanation
Indices: 8203830--8203898 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
8203820 AATATTTTAT
*
8203830 AATATTATAATTAAAATAAA
1 AATATTA-AAATAAAATAAA
*
8203850 AATATTAAAATAAAATATAT
1 AATATTAAAATAAAATA-AA
* *
8203870 AATATAAAAATCAAA-AAA
1 AATATTAAAATAAAATAAA
8203888 AA-ATTAAAATA
1 AATATTAAAATA
8203899 TAAAAAATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
17 7 0.17
18 3 0.07
19 10 0.24
20 21 0.51
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (19 bp):
AATATTAAAATAAAATAAA
Found at i:8203856 original size:14 final size:13
Alignment explanation
Indices: 8203838--8203912 Score: 66
Period size: 14 Copynumber: 5.7 Consensus size: 13
8203828 ATAATATTAT
8203838 AATTAAAATAAAA
1 AATTAAAATAAAA
8203851 ATATTAAAATAAAA
1 A-ATTAAAATAAAA
* *
8203865 TA-TATAATATAAA
1 AATTAAAATA-AAA
*
8203878 AA-TCAAA-AAAA
1 AATTAAAATAAAA
8203889 AATTAAAATATAAAA
1 AATT-AAA-ATAAAA
8203904 AATTAAAAT
1 AATTAAAAT
8203913 TTATATAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
11 5 0.10
12 8 0.16
13 13 0.26
14 16 0.32
15 8 0.16
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (13 bp):
AATTAAAATAAAA
Found at i:8203912 original size:32 final size:33
Alignment explanation
Indices: 8203838--8203912 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
8203828 ATAATATTAT
*
8203838 AATTAAAATAAAAATATTAAAATAAAATATATAA
1 AATTAAAATAAAAATA-TAAAATAAAATATAAAA
* * *
8203872 TATAAAAATCAAAAA-A-AAATTAAAATATAAAA
1 AATTAAAAT-AAAAATATAAAATAAAATATAAAA
8203904 AATTAAAAT
1 AATTAAAAT
8203913 TTATATAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
32 21 0.62
34 8 0.24
35 5 0.15
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (33 bp):
AATTAAAATAAAAATATAAAATAAAATATAAAA
Found at i:8203975 original size:33 final size:32
Alignment explanation
Indices: 8203938--8204082 Score: 109
Period size: 33 Copynumber: 4.4 Consensus size: 32
8203928 AAAAGAAATT
*
8203938 AAAATATAATATATAATATAAAAAGTATATTAA
1 AAAATATAATATATAATATAAAAA-TATAATAA
* * * * *
8203971 AAAATA-AACTATATACTATTATAATAAAAAATA
1 AAAATATAA-TATATAATATAAAAATATAATA-A
* * *
8204004 AAAATAAAATATATAATATTAAAAATATATTTA
1 AAAATATAATATATAATA-TAAAAATATAATAA
*
8204037 ATAA-ATAATAT-T-ATATAAAAATTAATAATAA
1 AAAATATAATATATAATATAAAAA-T-ATAATAA
8204068 AAAATATAAATATAT
1 AAAATAT-AATATAT
8204083 TAAACTTATA
Statistics
Matches: 85, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
29 6 0.07
30 4 0.05
31 9 0.11
32 14 0.16
33 42 0.49
34 10 0.12
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (32 bp):
AAAATATAATATATAATATAAAAATATAATAA
Found at i:8204009 original size:66 final size:70
Alignment explanation
Indices: 8203933--8204081 Score: 191
Period size: 66 Copynumber: 2.2 Consensus size: 70
8203923 TAAGTAAAAG
* **
8203933 AAATTAAAATATAATATATAATA-TAAAAAGTATA-TTAAAAAATAA-ACTATAT-ACTATT-AT
1 AAATAAAAATATAATATATAATATTAAAAA-TATATTTAAAAAATAATACTATATAAAAATTAAT
8203993 AATAAA
65 AATAAA
* * *
8203999 AAATAAAAATAAAATATATAATATTAAAAATATATTTAATAAATAATATTATATAAAAATTAATA
1 AAATAAAAATATAATATATAATATTAAAAATATATTTAAAAAATAATACTATATAAAAATTAATA
8204064 ATAAA
66 ATAAA
*
8204069 AAATATAAATATA
1 AAATAAAAATATA
8204082 TTAAACTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
66 25 0.36
67 16 0.23
68 6 0.09
69 4 0.06
70 19 0.27
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (70 bp):
AAATAAAAATATAATATATAATATTAAAAATATATTTAAAAAATAATACTATATAAAAATTAATA
ATAAA
Found at i:8204028 original size:16 final size:15
Alignment explanation
Indices: 8203945--8204081 Score: 65
Period size: 16 Copynumber: 9.9 Consensus size: 15
8203935 ATTAAAATAT
8203945 AATATATAATATAAA
1 AATATATAATATAAA
8203960 AAGTATAT--TA-AAA
1 AA-TATATAATATAAA
* *
8203973 AATA-A-ACTAT-AT
1 AATATATAATATAAA
*
8203985 ACTATTATAATA-AAA
1 AATA-TATAATATAAA
8204000 AATA-A-AA-AT-AA
1 AATATATAATATAAA
8204011 AATATATAATATTAAA
1 AATATATAATA-TAAA
8204027 AATATAT--T-TAATA
1 AATATATAATATAA-A
*
8204040 AATAATATTATATAAA
1 AAT-ATATAATATAAA
8204056 AAT-TAATAATA-AAA
1 AATAT-ATAATATAAA
8204070 AATATA-AATATA
1 AATATATAATATA
8204082 TTAAACTTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 45
0.65 0.04 0.31
Matches are distributed among these distances:
11 8 0.09
12 14 0.15
13 16 0.17
14 18 0.19
15 16 0.17
16 19 0.20
17 3 0.03
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (15 bp):
AATATATAATATAAA
Found at i:8204073 original size:27 final size:27
Alignment explanation
Indices: 8203987--8204074 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
8203977 AACTATATAC
* * *
8203987 TATTATAATAAAAAATAAAAATAAAATA
1 TATTAT-ATAAAAATTAATAATAAAAAA
* * *
8204015 TATAATATTAAAAATATATTTAATAAATAA
1 TATTATA-TAAAAAT-TA-ATAATAAAAAA
8204045 TATTATATAAAAATTAATAATAAAAAA
1 TATTATATAAAAATTAATAATAAAAAA
8204072 TAT
1 TAT
8204075 AAATATATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
27 13 0.27
28 13 0.27
29 9 0.19
30 13 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
TATTATATAAAAATTAATAATAAAAAA
Found at i:8204079 original size:13 final size:13
Alignment explanation
Indices: 8203993--8204079 Score: 59
Period size: 13 Copynumber: 6.3 Consensus size: 13
8203983 ATACTATTAT
*
8203993 AATAAAAAATAAA
1 AATAAAAAATATA
*
8204006 AATAAAATATATA
1 AATAAAAAATATA
*
8204019 ATATTAAAAATATATTT
1 A-A-TAAAAA-ATA-TA
*
8204036 AATAAATAATATTA
1 AATAAAAAATA-TA
* *
8204050 TATAAAAATTA-A
1 AATAAAAAATATA
8204062 TAATAAAAAATATA
1 -AATAAAAAATATA
8204076 AATA
1 AATA
8204080 TATTAAACTT
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
12 1 0.02
13 25 0.44
14 15 0.26
15 10 0.18
16 4 0.07
17 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAAAAAATATA
Found at i:8204082 original size:30 final size:29
Alignment explanation
Indices: 8203994--8204082 Score: 85
Period size: 30 Copynumber: 3.1 Consensus size: 29
8203984 TACTATTATA
* * *
8203994 ATAAAAAATAAAAATAAAATATATAATAT
1 ATAAAAATTAATAATAAAAAATATAATAT
* *
8204023 -TAAAAATATATTTAATAAATAATAT--TAT
1 ATAAAAAT-TA-ATAATAAAAAATATAATAT
8204051 ATAAAAATTAATAATAAAAAATATAAATAT
1 ATAAAAATTAATAATAAAAAATAT-AATAT
8204081 AT
1 AT
8204083 TAAACTTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
27 12 0.26
28 11 0.23
29 9 0.19
30 15 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
ATAAAAATTAATAATAAAAAATATAATAT
Found at i:8210827 original size:16 final size:15
Alignment explanation
Indices: 8210808--8210839 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8210798 AATAAAGTCT
8210808 TTTTTAATATTTTTTA
1 TTTTTAA-ATTTTTTA
8210824 TTTTTAAATTTTTTA
1 TTTTTAAATTTTTTA
8210839 T
1 T
8210840 ATTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTAAATTTTTTA
Found at i:8216690 original size:13 final size:14
Alignment explanation
Indices: 8216663--8216692 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
8216653 GAACTCCGAG
8216663 TTTCTTTTCTCTTT
1 TTTCTTTTCTCTTT
8216677 TTTCTTTT-TCTTT
1 TTTCTTTTCTCTTT
8216690 TTT
1 TTT
8216693 GTCCCTTTTT
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTTTCTCTTT
Found at i:8223506 original size:16 final size:18
Alignment explanation
Indices: 8223478--8223511 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8223468 ATCCATTGCT
8223478 AAAAAAGCAAAAC-AAAA
1 AAAAAAGCAAAACTAAAA
8223495 AAAAAAGC-AAACTAAAA
1 AAAAAAGCAAAACTAAAA
8223512 TACATTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.79, C:0.12, G:0.06, T:0.03
Consensus pattern (18 bp):
AAAAAAGCAAAACTAAAA
Found at i:8227251 original size:28 final size:28
Alignment explanation
Indices: 8227219--8227272 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
8227209 GATTGAAACT
8227219 TTATTTATATTT-GATATAATTTATTTAC
1 TTATTTATATTTAG-TATAATTTATTTAC
*
8227247 TTATTTATGTTTAGTATAATTTATTT
1 TTATTTATATTTAGTATAATTTATTT
8227273 GGTTGTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (28 bp):
TTATTTATATTTAGTATAATTTATTTAC
Found at i:8228078 original size:30 final size:29
Alignment explanation
Indices: 8228033--8228136 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 29
8228023 AATCATTAAT
* *
8228033 TATAAAAAATTATTTGATTTAAAATAAAAA
1 TATAAAAACTTATTTGA-TCAAAATAAAAA
*
8228063 TA-AAAAGACTTATTTGACTCAAATTAAAAA
1 TATAAAA-ACTTATTTGA-TCAAAATAAAAA
* *
8228093 TATAAAAACTTGA-TTGATCATAATAATAA
1 TATAAAAACTT-ATTTGATCAAAATAAAAA
8228122 TATAAAAACTTATTT
1 TATAAAAACTTATTT
8228137 AAATTTTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.02
29 26 0.41
30 31 0.49
31 5 0.08
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.36
Consensus pattern (29 bp):
TATAAAAACTTATTTGATCAAAATAAAAA
Found at i:8228086 original size:29 final size:28
Alignment explanation
Indices: 8228033--8228136 Score: 104
Period size: 29 Copynumber: 3.5 Consensus size: 28
8228023 AATCATTAAT
* *
8228033 TATAAAAAATTATTTGATTTAAAATAAAAA
1 TATAAAAACTTATTTGA--TCAAATAAAAA
8228063 TA-AAAAGACTTATTTGACTCAAATTAAAAA
1 TATAAAA-ACTTATTTGA-TCAAA-TAAAAA
*
8228093 TATAAAAACTTGA-TTGATCATAATAATAA
1 TATAAAAACTT-ATTTGATCA-AATAAAAA
8228122 TATAAAAACTTATTT
1 TATAAAAACTTATTT
8228137 AAATTTTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
28 1 0.02
29 29 0.45
30 29 0.45
31 5 0.08
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.36
Consensus pattern (28 bp):
TATAAAAACTTATTTGATCAAATAAAAA
Found at i:8228166 original size:21 final size:19
Alignment explanation
Indices: 8228133--8228172 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
8228123 ATAAAAACTT
8228133 ATTTAAATTTTTTTAAATA
1 ATTTAAATTTTTTTAAATA
8228152 ATTTAAAATTTTTTTTAAATA
1 ATTT-AAA-TTTTTTTAAATA
8228173 TTATGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTAAATTTTTTTAAATA
Found at i:8228181 original size:23 final size:21
Alignment explanation
Indices: 8228140--8228182 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8228130 CTTATTTAAA
*
8228140 TTTTTTTAAATAATTTAAAAT
1 TTTTTTTAAATAATGTAAAAT
8228161 TTTTTTTAAATATTATGTAAAA
1 TTTTTTTAAATA--ATGTAAAA
8228183 AAATTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTTTTAAATAATGTAAAAT
Found at i:8228261 original size:3 final size:3
Alignment explanation
Indices: 8228253--8228280 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8228243 TTTAAAAATT
8228253 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8228281 CTTATGTTAC
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:8230881 original size:16 final size:16
Alignment explanation
Indices: 8230836--8230882 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
8230826 TCTCAAAAAT
8230836 AAATATTCACAATTTTAA
1 AAATATT-A-AATTTTAA
* *
8230854 AAATATT-TATTTTGA
1 AAATATTAAATTTTAA
8230869 AAATATTAAATTTT
1 AAATATTAAATTTT
8230883 TATCATTGCG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 13 0.52
16 5 0.20
18 7 0.28
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (16 bp):
AAATATTAAATTTTAA
Found at i:8237550 original size:100 final size:101
Alignment explanation
Indices: 8237428--8237633 Score: 319
Period size: 102 Copynumber: 2.0 Consensus size: 101
8237418 AAAAAAAACG
*
8237428 AAACGGGTCACGGGTTATAGTTTATTGGGCCTAAGTACTT-TGTG-GGGCCAATTAAACCACTGC
1 AAACGGGTCACGGGTTATAGTTTATTGGGCCTAAGTACTTCT-TGAGGGCCAATTAAACCACCGC
* *
8237491 TGCACGGGCAAGCAAGTCGGTATCCACCTA-TCAAGGA
65 TGCACGGGCAAGCAAGTCGGCATCCACC-AGACAAGGA
8237528 AAACGGGTCACGGGTTATAGTTTATTGGGCCTAAGTACTTCTTGATGGGCCAATTAAACCACCGC
1 AAACGGGTCACGGGTTATAGTTTATTGGGCCTAAGTACTTCTTGA-GGGCCAATTAAACCACCGC
* *
8237593 TGCACTGGTAAGCAAGTCGGCATCCACCAGACAAGGA
65 TGCACGGGCAAGCAAGTCGGCATCCACCAGACAAGGA
8237630 AAAC
1 AAAC
8237634 TAGGGTTTTG
Statistics
Matches: 97, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
100 42 0.43
101 2 0.02
102 53 0.55
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (101 bp):
AAACGGGTCACGGGTTATAGTTTATTGGGCCTAAGTACTTCTTGAGGGCCAATTAAACCACCGCT
GCACGGGCAAGCAAGTCGGCATCCACCAGACAAGGA
Found at i:8258312 original size:4 final size:4
Alignment explanation
Indices: 8258303--8258333 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
8258293 CAATCCTGAC
*
8258303 AAAG AAAG AAAG AAAG AAAG AAAG AAGG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
8258334 ATTTCAGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:8273586 original size:280 final size:281
Alignment explanation
Indices: 8273084--8273647 Score: 1078
Period size: 280 Copynumber: 2.0 Consensus size: 281
8273074 TATTTTCAAG
8273084 ATCCATTGTTAAACTTCCATCAAAATTCTTTTAGTTTTGAGCCAACTCAAAAGCATTACCAACAA
1 ATCCATTGTTAAACTTCCATCAAAATTCTTTTAGTTTTGAGCCAACTCAAAAGCATTACCAACAA
8273149 ACCTTGAACCTCACATGTCTTCGAAGCAAAATGTAGGATGTTACTAGCAAGAGAAGTTTGCAATA
66 ACCTTGAACCT-ACATGTCTTCGAAGCAAAATGTAGGATGTTACTAGCAAGAGAAGTTTGCAATA
8273214 ACTTTTTTTTTTTTTGAAAAGTAGTTTGCAATAACTTTATTTGCTCAGCAATATTTGAATCAAAT
130 ACTTTTTTTTTTTTTGAAAAGTAGTTTGCAATAACTTTATTTGCTCAGCAATATTTGAATCAAAT
*
8273279 AAGAGAAAAAATTGACCAATGTGTCTAGCACACTTCTAATTGG-CCATCTCAACATGAGAATCTA
195 AAGAGAAAAAATTGACCAATGTGTCTAGCACACTTCTAATTGGCCCATATCAACATGAGAATCTA
8273343 ATTTTTAAATTACTCATTGTCA
260 ATTTTTAAATTACTCATTGTCA
*
8273365 ATCCATTGTTAAACTTCCATCAAGATTCTTTTAGTTTTGAGCCAACTCAAAAGCATTACCAACAA
1 ATCCATTGTTAAACTTCCATCAAAATTCTTTTAGTTTTGAGCCAACTCAAAAGCATTACCAACAA
8273430 ACCTTGAACCT-CATGTCTTCGAAGCAAAATGTAGGATGTTACTAGCAAGAGGAAGTTTGCAATA
66 ACCTTGAACCTACATGTCTTCGAAGCAAAATGTAGGATGTTACTAGCAAGA-GAAGTTTGCAATA
8273494 ACTTTTTTTTTTTTTGAAAAGTAGTTTGCAATAACTTTATTTGCTCAGCAATATTTGAATCAAAT
130 ACTTTTTTTTTTTTTGAAAAGTAGTTTGCAATAACTTTATTTGCTCAGCAATATTTGAATCAAAT
8273559 AAGAGAAAAAATTGACCAATGTGTCTAGCACACTTCTAATTGGCCCATATCAACATGAGAATCTA
195 AAGAGAAAAAATTGACCAATGTGTCTAGCACACTTCTAATTGGCCCATATCAACATGAGAATCTA
8273624 ATTTTTAAATTACTCATTGTCA
260 ATTTTTAAATTACTCATTGTCA
8273646 AT
1 AT
8273648 TCAATTGTCC
Statistics
Matches: 279, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
279 39 0.14
280 121 0.43
281 119 0.43
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (281 bp):
ATCCATTGTTAAACTTCCATCAAAATTCTTTTAGTTTTGAGCCAACTCAAAAGCATTACCAACAA
ACCTTGAACCTACATGTCTTCGAAGCAAAATGTAGGATGTTACTAGCAAGAGAAGTTTGCAATAA
CTTTTTTTTTTTTTGAAAAGTAGTTTGCAATAACTTTATTTGCTCAGCAATATTTGAATCAAATA
AGAGAAAAAATTGACCAATGTGTCTAGCACACTTCTAATTGGCCCATATCAACATGAGAATCTAA
TTTTTAAATTACTCATTGTCA
Found at i:8280396 original size:2 final size:2
Alignment explanation
Indices: 8280389--8280429 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8280379 AATCTTTAGT
8280389 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8280430 CTAATCTCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8282047 original size:4 final size:4
Alignment explanation
Indices: 8282038--8282066 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
8282028 TGGATGTTGG
8282038 TAGA TAGA TAGA TAGA TAGA TAGA TAGA T
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA T
8282067 TTGAGAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (4 bp):
TAGA
Found at i:8294880 original size:4 final size:4
Alignment explanation
Indices: 8294873--8294933 Score: 54
Period size: 4 Copynumber: 15.8 Consensus size: 4
8294863 TAGTATGTAT
* * * *
8294873 ATAC ATAC ATAC AT-- ATAT ATAC ATAC ATAC ATAT ATAC ACAC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
8294919 ACAC ACAC ATAC ATA
1 ATAC ATAC ATAC ATA
8294934 TATATAAGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
2 2 0.04
4 48 0.96
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:8294893 original size:18 final size:18
Alignment explanation
Indices: 8294870--8294909 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
8294860 AAATAGTATG
8294870 TATATACATACATACATA
1 TATATACATACATACATA
8294888 TATATACATACATACATA
1 TATATACATACATACATA
8294906 TATA
1 TATA
8294910 CACACACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (18 bp):
TATATACATACATACATA
Found at i:8294894 original size:14 final size:14
Alignment explanation
Indices: 8294871--8294907 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8294861 AATAGTATGT
*
8294871 ATATACATACATAC
1 ATATATATACATAC
8294885 ATATATATACATAC
1 ATATATATACATAC
*
8294899 ATACATATA
1 ATATATATA
8294908 TACACACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (14 bp):
ATATATATACATAC
Found at i:8297994 original size:23 final size:23
Alignment explanation
Indices: 8297960--8298028 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
8297950 AATAACATTT
* *
8297960 TAAAAATT-TTATTTTAAATTAAA
1 TAAATATTATTATTATAAA-TAAA
8297983 TAAAT-TTATTATTATAAATAAA
1 TAAATATTATTATTATAAATAAA
8298005 TAAATATTATTTATTATAATATAA
1 TAAATATTA-TTATTATAA-ATAA
8298029 TTTATCAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.28
23 16 0.40
24 9 0.22
25 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAATATTATTATTATAAATAAA
Found at i:8316687 original size:2 final size:2
Alignment explanation
Indices: 8316680--8316726 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
8316670 TCATGTACTA
* * * *
8316680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT GT GT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8316722 AT AT A
1 AT AT A
8316727 CATACACACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8323188 original size:2 final size:2
Alignment explanation
Indices: 8323181--8323206 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8323171 AATTGCCTTC
8323181 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8323207 TTGATATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8325899 original size:29 final size:29
Alignment explanation
Indices: 8325866--8325929 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
8325856 TAAGGAAAGG
8325866 TGCAAATTATTTAATTACTTAAATATGAT
1 TGCAAATTATTTAATTACTTAAATATGAT
8325895 TGCAAATTATTTAATTACTTAAATATGAT
1 TGCAAATTATTTAATTACTTAAATATGAT
*
8325924 TTCAAA
1 TGCAAA
8325930 AATTGCAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (29 bp):
TGCAAATTATTTAATTACTTAAATATGAT
Found at i:8344252 original size:23 final size:23
Alignment explanation
Indices: 8344226--8344271 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8344216 GACTCATTTT
*
8344226 TATAATATAAAAATTTAAAATAA
1 TATAAAATAAAAATTTAAAATAA
* * *
8344249 TATAAAATTAAGATTTAATATAA
1 TATAAAATAAAAATTTAAAATAA
8344272 AAAAATTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
TATAAAATAAAAATTTAAAATAA
Found at i:8345518 original size:44 final size:44
Alignment explanation
Indices: 8345470--8345559 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
8345460 TATTTTTTAA
8345470 ATAAAAAATTATACATTAATCAATACATCAAATATTTGATTATT
1 ATAAAAAATTATACATTAATCAATACATCAAATATTTGATTATT
8345514 ATAAAAAATTATACATTAATCAATACATCAAATATTTGATTATT
1 ATAAAAAATTATACATTAATCAATACATCAAATATTTGATTATT
8345558 AT
1 AT
8345560 TATTTATTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (44 bp):
ATAAAAAATTATACATTAATCAATACATCAAATATTTGATTATT
Found at i:8345555 original size:24 final size:24
Alignment explanation
Indices: 8345484--8345555 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
8345474 AAAATTATAC
8345484 ATTAATCAATACATCAAATATTTG
1 ATTAATCAATACATCAAATATTTG
* *
8345508 ATT-AT-TATA-A--AAA-ATTATAC
1 ATTAATCAATACATCAAATATT-T-G
8345528 ATTAATCAATACATCAAATATTTG
1 ATTAATCAATACATCAAATATTTG
8345552 ATTA
1 ATTA
8345556 TTATTATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
18 3 0.08
19 4 0.11
20 3 0.08
21 3 0.08
22 6 0.17
23 3 0.08
24 7 0.19
25 4 0.11
26 3 0.08
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.39
Consensus pattern (24 bp):
ATTAATCAATACATCAAATATTTG
Found at i:8350519 original size:13 final size:13
Alignment explanation
Indices: 8350497--8350526 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8350487 AATGAAAGTG
8350497 TAATAAATTAATA
1 TAATAAATTAATA
*
8350510 TAATATATTAATA
1 TAATAAATTAATA
8350523 TAAT
1 TAAT
8350527 TATGAGATAT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAATAAATTAATA
Found at i:8350676 original size:57 final size:57
Alignment explanation
Indices: 8350563--8350679 Score: 132
Period size: 57 Copynumber: 2.1 Consensus size: 57
8350553 ATTTCATGAA
* * ** *
8350563 AATATAAAATAATAAATTATATTTTAATTAATTATAATTAATTATAAATATATATTT
1 AATATAAAATAATAAATTATAATTTAATTAAATATAATTAAAAATAAAAATATATTT
*
8350620 AATATAAAATAA-AAATCTATAAATTTAATTAAATGTAA-TAAAAATAAAAAGT-TATTT
1 AATATAAAATAATAAAT-TAT-AATTTAATTAAATATAATTAAAAATAAAAA-TATATTT
8350677 AAT
1 AAT
8350680 TTTTTTAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
56 4 0.08
57 32 0.63
58 15 0.29
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (57 bp):
AATATAAAATAATAAATTATAATTTAATTAAATATAATTAAAAATAAAAATATATTT
Found at i:8352100 original size:35 final size:35
Alignment explanation
Indices: 8352055--8352131 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
8352045 ACCACTCCAT
8352055 AAAGAGCAGTCATTGCATGAT-AAAAGAAGAAGAA
1 AAAGAGCAGTCATTGCATGATAAAAAGAAGAAGAA
*
8352089 AAAGAAGCAGTCATTGCATGCTAAAAAGAAGAAGAA
1 AAAG-AGCAGTCATTGCATGATAAAAAGAAGAAGAA
*
8352125 AACGAGC
1 AAAGAGC
8352132 TTTTGTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
34 4 0.10
35 19 0.49
36 16 0.41
ACGTcount: A:0.52, C:0.12, G:0.23, T:0.13
Consensus pattern (35 bp):
AAAGAGCAGTCATTGCATGATAAAAAGAAGAAGAA
Found at i:8356602 original size:895 final size:890
Alignment explanation
Indices: 8354807--8357392 Score: 3441
Period size: 895 Copynumber: 2.9 Consensus size: 890
8354797 TGTAATTGCA
* * * ***
8354807 TTGGTTGAAGGCATATTGGTGCAAGATGAGAGGCTAAACTGAGGATGCCCATGGAACAGAGTGTG
1 TTGGTTGAAGGCATATTGGTGCAAGAGGAGAGGCTAAATTGAGGAGGCCCATACCACAGAGTGTG
* * *
8354872 GACTGGTGACTGGTCAGACTGATAAATAGGTGTAGGTCTCACTCAGAGGAAGAAAAAGGCACATT
66 GACTGGTGA-TGGTCAGAATGATAAATAGGTATACGTCTCACTCAGAGGAAGAAAAAGGCACATT
* * *
8354937 TCTTTCTGTTGGCC--C--TTTTTTTTGCTAGGA-AGGTTGTTGTGGATTAACTGCTTTGTTCTT
130 TCTTTCTGTTGGCCTTCTTTTTTTTTTGCTA-GATAGATTGTTGTGGATTAACTGCTTTATTCCT
* *
8354997 CTATTTCACAGTGCTAAGTCAGATTTCCAATTTTTAATGACTATGATTCCAGGTATGAGGCTAGC
194 CTATTTCACAGTGCTAAGGCAGATTTCC-ATTTTTAATGACTGTGATTCCAGGTATGAGGCTAGC
* * *
8355062 TTGCCCAGATGCAAATATAGTACATACTGCCTAATTTAATTAATTATTTATTTTGCCTCTTATTT
258 TTGCCCACATGCAAATATAGTACATACAGCCTAATTT-A-T--TTATTTATTTTGCCACTTATTT
* *
8355127 CTAAGGACTTGTTAGAAAACAGATA-AATCTAAGTCCATAAAGTTCTGTATTTTGCTCTTAATGT
319 CTGAGGACTTGTTAGAAAACAGA-ACAATCTAAGTCCAT-AAGTTCTGTATTATGCTCTTAATGT
*
8355191 TGACTTCAGATCAGATTCCTCTGATGAAATATTTCAGGATATAATATAGGGAACCAAGGAGAAAA
382 TGACTTCAGATCAGATTCCTCTGATAAAATATTTCAGGATATAATATAGGGAACCAAGG-GAAAA
* * * * *
8355256 AAGCTAGGCATTGGGGCATTCTGAGAATCAAACTTGGGACCT-TTGCAGCCAAAGCAAGAATCAT
446 AAGCTAGGCATTGGGGCATTCTGAGAATCGAACTCGGGACCTCTCGCACCCAAAGCGAGAATCAT
* *
8355320 ACCACTAGACCAAATGCCCAATTTTGTTGTCTATAATGTTTTGTTATTATTATAACATCTATAGG
511 ACCACTAGACCAAATGCCCGATTTTGTTGTCTGTAATGTTTTGTTATTATTATAACATCTATAGG
* *
8355385 TGGTAAATTTTCAAAAAATGATGCTTACTTTTCTTTCTTTATTTGTTGATGAA----CTAGAA-T
576 TGGTAAATTTTCAAAAAATGGTGCTTACTTTTCTTTCTTTATTTATTGATGAAGTCTCTAGAACT
* * * * *
8355445 G-TTG-GTGAGCTTTCTTGCTATTGGAATACATAGTAAAGTGATTCAAAACTGTTCAAAGATAAG
641 GATTGTTTGGGCTTTCTTGCTATTGGAATACATAGTAAAGTGCTTCAAAATTGTTCAAAGATGAG
* * * * *
8355508 GGTA-TAGGAAATTAGCAGTTATGCAGGAATTGTTCACAAAATGACATGTCATAGT-AAATATTT
706 TGTATTGGGCAATTAGCAGTTATGCAGGAATTGTTCACAAAATGACATGTCGTAATAAAAT-TTT
* * * *
8355571 CTCTGCTAGGCTCTGAAGGATGAATACTAAAGTCTGCTAATCGGACAAGGGATGCTAAATATTTT
770 CTCTGCAAGGCTCTGAAGGATGAATACTAAACTCTGCTAATCCGACAAGGGATGCTAAATACTTT
* * *
8355636 AGCTGTAAAGTCATCCTGTAATTGCATTGAGCTAGCTTCAGATCCTGTTTAGGCCT
835 AGCTGTAAACTCATCCTGTAATTGCATTGAGCTAGCTTCAAATCCTGTTTAGACCT
*
8355692 TTCGTTGAAGGCATATTGGTGCAAGAGGAGAGGCTAAATTGAGGAGGCCCATACCACAGA-T-TG
1 TTGGTTGAAGGCATATTGGTGCAAGAGGAGAGGCTAAATTGAGGAGGCCCATACCACAGAGTGTG
* *
8355755 AACTGGTGATAGGTCAGAATGATAAATAGATATACGTCTCACTCAGAGGAAGAAAAAGGCACATT
66 GACTGGTGAT-GGTCAGAATGATAAATAGGTATACGTCTCACTCAGAGGAAGAAAAAGGCACATT
8355820 TCTGTTCTGTTGGCCTTCTTTTTTTTTTGCTAGATAGATTGTTGTGGATTAACTGCTTTATTCCT
130 TCT-TTCTGTTGGCCTTCTTTTTTTTTTGCTAGATAGATTGTTGTGGATTAACTGCTTTATTCCT
*
8355885 CTATCTT-ACAGTGCTAAGGCAGATTTCCATTTTCTAATGACTGTGATTTCAGGTATGAGGCTAG
194 CTAT-TTCACAGTGCTAAGGCAGATTTCCATTTT-TAATGACTGTGATTCCAGGTATGAGGCTAG
* *
8355949 CTTGCCCACATACAAATAGAGTACATACAGCCTAA-TTATTTATTTATTTTGCCACTTATTTCTG
257 CTTGCCCACATGCAAATATAGTACATACAGCCTAATTTATTTATTTATTTTGCCACTTATTTCTG
* *
8356013 ATGACTTGTTAGAAAACAGAACAATCTAAGTCCATACAGTTCTGTACTAAAT-CTCTTAATGTTG
322 AGGACTTGTTAGAAAACAGAACAATCTAAGTCCATA-AGTTCTGTA-T-TATGCTCTTAATGTTG
* *
8356077 ACTTTAGATCAGATTCCTCTGATTAAATATTTCAGGATATAATATAGGGAACCTCAA-GGAAAAA
384 ACTTCAGATCAGATTCCTCTGATAAAATATTTCAGGATATAATATAGGGAA-C-CAAGGGAAAAA
*
8356141 AGCTAGGCATTGGGGCATTCCGAGAATCGAACTCGGGACCTCTCGCACCCAAAGCGAGAATCATA
447 AGCTAGGCATTGGGGCATTCTGAGAATCGAACTCGGGACCTCTCGCACCCAAAGCGAGAATCATA
*
8356206 CCACTAGACCAAATGCCCGATTTTGTTGTCTGGAATGTTTTGTTATTATTATAACATCTATAGGT
512 CCACTAGACCAAATGCCCGATTTTGTTGTCTGTAATGTTTTGTTATTATTATAACATCTATAGGT
* * *
8356271 GGTAAATTTTCAAAAAATGGTGCATACTGTTCTTTTTTTA-TTATTGATGAAGTCTCTAAGAACT
577 GGTAAATTTTCAAAAAATGGTGCTTACTTTTCTTTCTTTATTTATTGATGAAGTCTCT-AGAACT
* * *
8356335 GGATTGTTTGCCGGCTTTTTTGCTATTGAAATACATAGTAAAGTGCTTCAAAATTGTTCAGAGAT
641 -GATTGTTTG--GGCTTTCTTGCTATTGGAATACATAGTAAAGTGCTTCAAAATTGTTCAAAGAT
* *
8356400 GAGTATATTGGGCAATTAGAAGTTATGCAGGAATT-TTCACAAAATGACATGTCGTAATAAAATT
703 GAGTGTATTGGGCAATTAGCAGTTATGCAGGAATTGTTCACAAAATGACATGTCGTAATAAAATT
* * *
8356464 TTCTCTGCAAGACTCTGAAGGATGAATACTAAACTCT-TTATTCACG-CAAGGGATGCTAAATAC
768 TTCTCTGCAAGGCTCTGAAGGATGAATACTAAACTCTGCTAATC-CGACAAGGGATGCTAAATAC
** *
8356527 TTTAGCTGTAAACTCATTTTTGTAATTGCATTGAGCTAGCTTCAAATCTTGTTTAGACCT
832 TTTAGCTGTAAACTCA-TCCTGTAATTGCATTGAGCTAGCTTCAAATCCTGTTTAGACCT
8356587 TTGGTTGAAGGCATATTGGTGCAAGAGGAGAGGCTAAATTGAGGAGGCCCATACCACCA-AGTGT
1 TTGGTTGAAGGCATATTGGTGCAAGAGGAGAGGCTAAATTGAGGAGGCCCATACCA-CAGAGTGT
* * * * * *
8356651 GGACTGGGGATTGGTCAGAATGATAAATAGGCATCCATCTCACTCAGAAGAAGAAAGAGGCACAT
65 GGACTGGTGA-TGGTCAGAATGATAAATAGGTATACGTCTCACTCAGAGGAAGAAAAAGGCACAT
* ** * * *
8356716 TTCCTTTCTGTTGGCATTCCCTTTTATATATATATATATATATATATATAGGCTGTTTTGGATTA
129 TT-CTTTCTGTTGGCCTT--CTTTT-T-T-T-T-T-T-GCTAGATAGAT----TGTTGTGGATTA
* * *
8356781 ACTGCTTTATTCCTTTATTTCACAGCGCCAAGGCAGATTTCCATTTTTTAATGACTGTGATTCCA
180 ACTGCTTTATTCCTCTATTTCACAGTGCTAAGGCAGATTTCCA-TTTTTAATGACTGTGATTCCA
* * *
8356846 GGTATGAGGCTAGCTTGCCCACATGCAAATATAGTACATAAAGCCTAATTTATTTGGTTTTTTTT
244 GGTATGAGGCTAGCTTGCCCACATGCAAATATAGTACATACAGCCTAATTTATTT-ATTTATTTT
* * * *
8356911 GGCTACTTAATTCTGAGGACTTGTTAGAAAATAGATCAATCTAAGTCCATAAGTTCTGTATTATG
308 -GCCACTTATTTCTGAGGACTTGTTAGAAAACAGAACAATCTAAGTCCATAAGTTCTGTATTATG
* ** *
8356976 CTCTTACTGTTGACTTCAGATCAGATTCCTCTGATAAAATATTTCATAATATAATGTAGGGAACG
372 CTCTTAATGTTGACTTCAGATCAGATTCCTCTGATAAAATATTTCAGGATATAATATAGGGAAC-
* ** * *
8357041 AAATAGAAAAAAGATAGGCATTGGGGCATTCTGAGAATCGAACTCAGGACCTCTCGCACCCAAAG
436 CAAGGGAAAAAAGCTAGGCATTGGGGCATTCTGAGAATCGAACTCGGGACCTCTCGCACCCAAAG
* * *
8357106 CGAGAATCATACCACTAGACCAATTTCCCGATTTTGTAGTCTGTAATTGTTTTGTTATTATTATA
501 CGAGAATCATACCACTAGACCAAATGCCCGATTTTGTTGTCTGTAA-TGTTTTGTTATTATTATA
* * *
8357171 ACATCTATAGGTGGTAAATTTTCACAAAATAGTGCTTACTTTTCGTTCTTTATTTATTGATGAAG
565 ACATCTATAGGTGGTAAATTTTCAAAAAATGGTGCTTACTTTTCTTTCTTTATTTATTGATGAAG
* * * ** *
8357236 TCTCTGACAACTAGATTGTTTGTGAGCCTTTGTAGCTATTGGAATATGTAGTAAAGTGCGTCAAA
630 TCTCT-AGAACT-GATTGTTTG-G-G-CTTTCTTGCTATTGGAATACATAGTAAAGTGCTTCAAA
*
8357301 ATTGTTCAAAGATGAGTGTATAGGGCAATTAGCAGTTATGCAGGAATTGTTCACAAAATGACA--
690 ATTGTTCAAAGATGAGTGTATTGGGCAATTAGCAGTTATGCAGGAATTGTTCACAAAATGACATG
*
8357364 T-GTAATAAAATGTTCTCTGCAAGGCTCTG
755 TCGTAATAAAATTTTCTCTGCAAGGCTCTG
8357393 GTTGAAGGCA
Statistics
Matches: 1501, Mismatches: 139, Indels: 95
0.87 0.08 0.05
Matches are distributed among these distances:
882 3 0.00
883 127 0.08
884 128 0.09
885 175 0.12
886 5 0.00
887 9 0.01
888 124 0.08
889 6 0.00
890 1 0.00
891 1 0.00
892 3 0.00
893 2 0.00
894 35 0.02
895 202 0.13
896 31 0.02
897 70 0.05
898 3 0.00
899 5 0.00
900 1 0.00
901 1 0.00
902 1 0.00
903 1 0.00
904 1 0.00
905 1 0.00
906 7 0.00
909 2 0.00
910 114 0.08
911 167 0.11
912 107 0.07
913 78 0.05
914 76 0.05
915 14 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (890 bp):
TTGGTTGAAGGCATATTGGTGCAAGAGGAGAGGCTAAATTGAGGAGGCCCATACCACAGAGTGTG
GACTGGTGATGGTCAGAATGATAAATAGGTATACGTCTCACTCAGAGGAAGAAAAAGGCACATTT
CTTTCTGTTGGCCTTCTTTTTTTTTTGCTAGATAGATTGTTGTGGATTAACTGCTTTATTCCTCT
ATTTCACAGTGCTAAGGCAGATTTCCATTTTTAATGACTGTGATTCCAGGTATGAGGCTAGCTTG
CCCACATGCAAATATAGTACATACAGCCTAATTTATTTATTTATTTTGCCACTTATTTCTGAGGA
CTTGTTAGAAAACAGAACAATCTAAGTCCATAAGTTCTGTATTATGCTCTTAATGTTGACTTCAG
ATCAGATTCCTCTGATAAAATATTTCAGGATATAATATAGGGAACCAAGGGAAAAAAGCTAGGCA
TTGGGGCATTCTGAGAATCGAACTCGGGACCTCTCGCACCCAAAGCGAGAATCATACCACTAGAC
CAAATGCCCGATTTTGTTGTCTGTAATGTTTTGTTATTATTATAACATCTATAGGTGGTAAATTT
TCAAAAAATGGTGCTTACTTTTCTTTCTTTATTTATTGATGAAGTCTCTAGAACTGATTGTTTGG
GCTTTCTTGCTATTGGAATACATAGTAAAGTGCTTCAAAATTGTTCAAAGATGAGTGTATTGGGC
AATTAGCAGTTATGCAGGAATTGTTCACAAAATGACATGTCGTAATAAAATTTTCTCTGCAAGGC
TCTGAAGGATGAATACTAAACTCTGCTAATCCGACAAGGGATGCTAAATACTTTAGCTGTAAACT
CATCCTGTAATTGCATTGAGCTAGCTTCAAATCCTGTTTAGACCT
Found at i:8356747 original size:2 final size:2
Alignment explanation
Indices: 8356740--8356765 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8356730 CATTCCCTTT
8356740 TA 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
8356766 GGCTGTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8378181 original size:19 final size:19
Alignment explanation
Indices: 8378138--8378181 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8378128 CAGAAATATA
* * *
8378138 AAAGAAAGTGTTTAGAGAG
1 AAAGAAAGTATTTAAAAAG
8378157 AAAGAAAGTATTTAAAAAG
1 AAAGAAAGTATTTAAAAAG
*
8378176 AGAGAA
1 AAAGAA
8378182 GAAATTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.18
Consensus pattern (19 bp):
AAAGAAAGTATTTAAAAAG
Found at i:8397075 original size:20 final size:19
Alignment explanation
Indices: 8397047--8397097 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
8397037 GATCATGAAA
8397047 ATTAATTAATTAATTAAAAT
1 ATTAATTAATT-ATTAAAAT
* *
8397067 ATTATTTAATTATTAAATT
1 ATTAATTAATTATTAAAAT
* *
8397086 AATAATTCATTA
1 ATTAATTAATTA
8397098 ATTTATACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTAATTAATTATTAAAAT
Found at i:8405202 original size:2 final size:2
Alignment explanation
Indices: 8405195--8405234 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8405185 TGGACAATGT
8405195 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA
8405235 AAATAGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8408277 original size:2 final size:2
Alignment explanation
Indices: 8408225--8408259 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8408215 ACAATTAGTG
8408225 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
8408260 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8411058 original size:2 final size:2
Alignment explanation
Indices: 8411053--8411082 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8411043 ACACACACAG
8411053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8411083 GTATTATACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8413535 original size:16 final size:15
Alignment explanation
Indices: 8413514--8413544 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
8413504 AGAACAATTT
8413514 ATATTTATATATACAC
1 ATATTTATATA-ACAC
8413530 ATATTTATATAACAC
1 ATATTTATATAACAC
8413545 TGATGCTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATTTATATAACAC
Found at i:8416750 original size:57 final size:57
Alignment explanation
Indices: 8416680--8416792 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 57
8416670 TTATATTATT
* *
8416680 ATCCATCAGAAAAATAGAAGAAAATATGTTCAATGACTTTATTGGATTTGCAGTAAA
1 ATCCATCAAAAAAATAGAAGAAAATATGTTCAATCACTTTATTGGATTTGCAGTAAA
8416737 ATCCATCAAAAAAATAGAAGAAAATATGTTCAATCACTTTATTGGATTTGCAGTAA
1 ATCCATCAAAAAAATAGAAGAAAATATGTTCAATCACTTTATTGGATTTGCAGTAA
8416793 GTAGAGCTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (57 bp):
ATCCATCAAAAAAATAGAAGAAAATATGTTCAATCACTTTATTGGATTTGCAGTAAA
Found at i:8417827 original size:8 final size:8
Alignment explanation
Indices: 8417816--8417842 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8417806 CATACACATA
8417816 CACACACG
1 CACACACG
8417824 CACACACG
1 CACACACG
8417832 CACACACG
1 CACACACG
8417840 CAC
1 CAC
8417843 GCTTGGCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.52, G:0.11, T:0.00
Consensus pattern (8 bp):
CACACACG
Found at i:8417828 original size:16 final size:16
Alignment explanation
Indices: 8417809--8417842 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8417799 ACAAACACAT
*
8417809 ACACATACACACACGC
1 ACACACACACACACGC
*
8417825 ACACACGCACACACGC
1 ACACACACACACACGC
8417841 AC
1 AC
8417843 GCTTGGCTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.47, G:0.09, T:0.03
Consensus pattern (16 bp):
ACACACACACACACGC
Found at i:8421597 original size:20 final size:22
Alignment explanation
Indices: 8421572--8421618 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
8421562 TGCAAGTAAT
*
8421572 TTTTAAATTTATTT-A-TTTTA
1 TTTTAAAATTATTTAATTTTTA
8421592 TTTTAAAATTATTTAATTTTTA
1 TTTTAAAATTATTTAATTTTTA
8421614 TTTTA
1 TTTTA
8421619 TTTTTATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 13 0.54
21 1 0.04
22 10 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTAAAATTATTTAATTTTTA
Found at i:8424403 original size:2 final size:2
Alignment explanation
Indices: 8424396--8424421 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8424386 CCTGAATGCA
8424396 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8424422 GAAAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8424819 original size:8 final size:8
Alignment explanation
Indices: 8424808--8424839 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
8424798 GAATAAAAAG
8424808 ATAATTTT
1 ATAATTTT
8424816 ATAA--TT
1 ATAATTTT
8424822 ATAATTTT
1 ATAATTTT
8424830 ATAATTTT
1 ATAATTTT
8424838 AT
1 AT
8424840 TATTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.27
8 16 0.73
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATAATTTT
Found at i:8424827 original size:14 final size:14
Alignment explanation
Indices: 8424808--8424835 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8424798 GAATAAAAAG
8424808 ATAATTTTATAATT
1 ATAATTTTATAATT
8424822 ATAATTTTATAATT
1 ATAATTTTATAATT
8424836 TTATTATTAT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATAATTTTATAATT
Found at i:8428422 original size:51 final size:51
Alignment explanation
Indices: 8428337--8428436 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
8428327 AAGCTTTCAC
8428337 GGGCTTTGACATGTACTGCTTCAACTTACATTGTAACTCTGCCTTGCTCAT
1 GGGCTTTGACATGTACTGCTTCAACTTACATTGTAACTCTGCCTTGCTCAT
* * *
8428388 GGGCTTTGACATGTACTGCTTGAATTTACTTTGTAACTCTGCCTTGCTC
1 GGGCTTTGACATGTACTGCTTCAACTTACATTGTAACTCTGCCTTGCTC
8428437 CTCCTCATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (51 bp):
GGGCTTTGACATGTACTGCTTCAACTTACATTGTAACTCTGCCTTGCTCAT
Found at i:8429219 original size:21 final size:24
Alignment explanation
Indices: 8429194--8429243 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
8429184 AATAATATTA
8429194 TATTTTAT-TAA-TTTTTA-TAAT
1 TATTTTATATAATTTTTTATTAAT
8429215 TATTTT-TATAATTTTTTATTAAT
1 TATTTTATATAATTTTTTATTAAT
8429238 T-TTTTA
1 TATTTTA
8429244 AAAAAGCCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.04
21 9 0.36
22 10 0.40
23 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TATTTTATATAATTTTTTATTAAT
Found at i:8429231 original size:11 final size:11
Alignment explanation
Indices: 8429205--8429242 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
8429195 ATTTTATTAA
8429205 TTTTTATAATT
1 TTTTTATAATT
8429216 ATTTTTATAA-T
1 -TTTTTATAATT
8429227 TTTTTATTAATT
1 TTTTTA-TAATT
8429239 TTTT
1 TTTT
8429243 AAAAAAGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.25
11 4 0.17
12 14 0.58
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:8429241 original size:12 final size:10
Alignment explanation
Indices: 8429196--8429243 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 10
8429186 TAATATTATA
8429196 TTTTATTAA-T
1 TTTTA-TAATT
8429206 TTTTATAATTAT
1 TTTTATAA-T-T
8429218 TTTTATAATT
1 TTTTATAATT
8429228 TTTTATTAATT
1 TTTTA-TAATT
8429239 TTTTA
1 TTTTA
8429244 AAAAAGCCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.09
10 11 0.32
11 11 0.32
12 9 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATAATT
Found at i:8429370 original size:21 final size:21
Alignment explanation
Indices: 8429346--8429386 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8429336 TTTTAAAAAT
*
8429346 ATAATAATAAAATTTAAATTA
1 ATAAAAATAAAATTTAAATTA
* *
8429367 ATAAAAATAATATTTTAATT
1 ATAAAAATAAAATTTAAATT
8429387 TTTTTATAAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAAAATAAAATTTAAATTA
Found at i:8435830 original size:2 final size:2
Alignment explanation
Indices: 8435823--8435848 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8435813 AGTACTTCGG
8435823 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8435849 GTCTAAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8437541 original size:2 final size:2
Alignment explanation
Indices: 8437534--8437559 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8437524 AAAATCTATT
8437534 TA 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
8437560 CACACACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8437620 original size:6 final size:6
Alignment explanation
Indices: 8437609--8437635 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8437599 CGTAGAGAGG
8437609 GAGGGA GAGGGA GAGGGA GAGGGA GAG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAG
8437636 ATTAAAGAGA
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:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:8451733 original size:46 final size:46
Alignment explanation
Indices: 8451658--8451801 Score: 207
Period size: 46 Copynumber: 3.1 Consensus size: 46
8451648 GAAGTTTGAG
* *
8451658 GGTGAGAGATTATAAGATCGTCAAATTTGTGAAGCTTGAGGGTGAA
1 GGTGAGAGATTATAAGATCGTCGACTTTGTGAAGCTTGAGGGTGAA
* * * *
8451704 GGTGAGAGATTATAAAATCATCGACTTTGTGAAGCTTAAGGGCGAA
1 GGTGAGAGATTATAAGATCGTCGACTTTGTGAAGCTTGAGGGTGAA
* * *
8451750 GGTGAGAGATTATAGGATCGTCGACTTTGTGAAGCTAGAGCGTGAA
1 GGTGAGAGATTATAAGATCGTCGACTTTGTGAAGCTTGAGGGTGAA
8451796 GGTGAG
1 GGTGAG
8451802 GGTGAGAGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.31, C:0.09, G:0.33, T:0.26
Consensus pattern (46 bp):
GGTGAGAGATTATAAGATCGTCGACTTTGTGAAGCTTGAGGGTGAA
Found at i:8452383 original size:18 final size:18
Alignment explanation
Indices: 8452362--8452397 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8452352 TTATTTTTAT
*
8452362 TTTCATTTTCTCTCTTCC
1 TTTCATTCTCTCTCTTCC
*
8452380 TTTCCTTCTCTCTCTTCC
1 TTTCATTCTCTCTCTTCC
8452398 ATCGGCCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.39, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTCATTCTCTCTCTTCC
Found at i:8482632 original size:12 final size:12
Alignment explanation
Indices: 8482615--8482660 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
8482605 ATCAAGAAGG
*
8482615 AGACGAGGATGA
1 AGACGAAGATGA
*
8482627 AGACGAAGACGA
1 AGACGAAGATGA
8482639 AGACGAAGATGA
1 AGACGAAGATGA
8482651 AGACGAAGAT
1 AGACGAAGAT
8482661 CGGAGTTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.48, C:0.11, G:0.35, T:0.07
Consensus pattern (12 bp):
AGACGAAGATGA
Found at i:8482636 original size:6 final size:6
Alignment explanation
Indices: 8482615--8482659 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
8482605 ATCAAGAAGG
* * *
8482615 AGACGA GGATGA AGACGA AGACGA AGACGA AGATGA AGACGA AGA
1 AGACGA AGACGA AGACGA AGACGA AGACGA AGACGA AGACGA AGA
8482660 TCGGAGTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.11, G:0.36, T:0.04
Consensus pattern (6 bp):
AGACGA
Found at i:8485734 original size:25 final size:26
Alignment explanation
Indices: 8485697--8485752 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
8485687 GATTGATTAA
*
8485697 TTATTATTAATCA-AAATGTGATTTG
1 TTATTATTAATCACAAACGTGATTTG
**
8485722 TTATTA-TACATCACGTACGTGATTTG
1 TTATTATTA-ATCACAAACGTGATTTG
8485748 TTATT
1 TTATT
8485753 TTATAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 2 0.08
25 10 0.38
26 14 0.54
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (26 bp):
TTATTATTAATCACAAACGTGATTTG
Found at i:8496703 original size:4 final size:4
Alignment explanation
Indices: 8496687--8496719 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
8496677 CAGTGGAGAG
*
8496687 AAGA AACA AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
8496720 GGAAGCAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:8506713 original size:19 final size:19
Alignment explanation
Indices: 8506674--8506724 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
8506664 ATTATAAAAA
* *
8506674 AATTTAAAATATTTTTTATT
1 AATTTAAAA-AATTATTATT
8506694 AATTTAAAAAATTATTATT
1 AATTTAAAAAATTATTATT
8506713 ATATTTAAAAAA
1 A-ATTTAAAAAA
8506725 AAAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTTAAAAAATTATTATT
Found at i:8508073 original size:2 final size:2
Alignment explanation
Indices: 8508068--8508132 Score: 96
Period size: 2 Copynumber: 33.0 Consensus size: 2
8508058 CGTATCTATC
* *
8508068 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TG CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
8508109 TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
8508133 ACATCAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8542856 original size:78 final size:78
Alignment explanation
Indices: 8542555--8542862 Score: 300
Period size: 78 Copynumber: 4.0 Consensus size: 78
8542545 GACCTCAACA
* * * * * *
8542555 TTCTTCTGCTTCAAACCAATC-CGTGGAGTTGACTCATCATCGTCCGTGACTACACTTTTTACAT
1 TTCTTCTGCTTCAAACCAATCTC-CGGAGTTGACTCATCATCTTCCATGATTACGCTTTTAACAT
* **
8542619 CAGCGAATGTCACC
65 CAGAGAATGAAACC
* * * * * * * * * **
8542633 TTCTTCTGATTCACACTAATCACTGGAGTTGATTGATTATCTGCCATGATTGTGCTTTTAACATC
1 TTCTTCTGCTTCAAACCAATCTCCGGAGTTGACTCATCATCTTCCATGATTACGCTTTTAACATC
8542698 AGAGAATGAAACC
66 AGAGAATGAAACC
* * *
8542711 TTCTTCTGGTTCAAACCAATCTCCGGTGTTG-C-C-TCATCTTCCATGATCACGCTTTTAACATC
1 TTCTTCTGCTTCAAACCAATCTCCGGAGTTGACTCATCATCTTCCATGATTACGCTTTTAACATC
8542773 AGAGAATGAAACC
66 AGAGAATGAAACC
* * * ** * *
8542786 CTCTTCTGCTTCAAACCAATCTCCGGTGTTGACTCATTATCTTCTTTGATTAGGCTTTTTACATC
1 TTCTTCTGCTTCAAACCAATCTCCGGAGTTGACTCATCATCTTCCATGATTACGCTTTTAACATC
*
8542851 AGAGAAGGAAAC
66 AGAGAATGAAAC
8542863 AGAAGATCGA
Statistics
Matches: 187, Mismatches: 39, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
75 66 0.35
76 1 0.01
77 1 0.01
78 118 0.63
79 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (78 bp):
TTCTTCTGCTTCAAACCAATCTCCGGAGTTGACTCATCATCTTCCATGATTACGCTTTTAACATC
AGAGAATGAAACC
Found at i:8544772 original size:34 final size:34
Alignment explanation
Indices: 8544722--8544788 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
8544712 TTTAATGTTT
* * * * *
8544722 TCCTTCGTGTTTTTTGGGCCTCATTTGGACCCTA
1 TCCTTCCTGTTCTTTGGACCCCAGTTGGACCCTA
8544756 TCCTTCCTGTTCTTTGGACCCCAGTTGGACCCT
1 TCCTTCCTGTTCTTTGGACCCCAGTTGGACCCT
8544789 CTAGCGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.09, C:0.31, G:0.19, T:0.40
Consensus pattern (34 bp):
TCCTTCCTGTTCTTTGGACCCCAGTTGGACCCTA
Found at i:8549097 original size:2 final size:2
Alignment explanation
Indices: 8549090--8549116 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8549080 GCTGTTGGTA
8549090 AT 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 AT A
8549117 ATAGTCCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8569552 original size:3 final size:3
Alignment explanation
Indices: 8569544--8569579 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
8569534 TTGCTAGCCG
8569544 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
8569580 CACTGATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:8581787 original size:5 final size:5
Alignment explanation
Indices: 8581777--8581820 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
8581767 TCTTTCTCCT
* *
8581777 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTT TTTTAA TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT-C TTTTC TTT
8581821 CCTTCTAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:8584108 original size:20 final size:21
Alignment explanation
Indices: 8584071--8584109 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
8584061 AGTTATTCGC
* *
8584071 ATTTTTAATGTTTTTTTTCTT
1 ATTTTTAATGGTTATTTTCTT
8584092 ATTTTT-ATGGTTATTTTC
1 ATTTTTAATGGTTATTTTC
8584110 GTGTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (21 bp):
ATTTTTAATGGTTATTTTCTT
Found at i:8592331 original size:6 final size:5
Alignment explanation
Indices: 8592296--8592330 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
8592286 AAAGGGGAGA
8592296 GCTTT GCTTT GCTTT GCTTT GCTATT GCTATT GCT
1 GCTTT GCTTT GCTTT GCTTT GCT-TT GCT-TT GCT
8592331 AAGCCTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.06, C:0.20, G:0.20, T:0.54
Consensus pattern (5 bp):
GCTTT
Found at i:8599173 original size:16 final size:16
Alignment explanation
Indices: 8599152--8599185 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8599142 TTCACACCCA
8599152 AAGAAAGAAAGAA-AAG
1 AAGAAA-AAAGAAGAAG
8599168 AAGAAAAAAGAAGAAG
1 AAGAAAAAAGAAGAAG
8599184 AA
1 AA
8599186 TTAGGCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAGAAGAAG
Found at i:8600071 original size:81 final size:81
Alignment explanation
Indices: 8599936--8600086 Score: 284
Period size: 81 Copynumber: 1.9 Consensus size: 81
8599926 AACACTTTAG
8599936 CAATTATTTCAAACAGTTATCCCTCTAAAACCTCCAATCCATAGGATTTGTTTTTGCAATAGGAA
1 CAATTATTTCAAACAGTTATCCCTCTAAAACCTCCAATCCATAGGATTTGTTTTTGCAATAGGAA
8600001 ATGAAACGATTTGTGA
66 ATGAAACGATTTGTGA
* *
8600017 CAATTATTTCCAACGGTTATCCCTCTAAAACCTCCAATCCATAGGATTTGTTTTTGCAATAGGAA
1 CAATTATTTCAAACAGTTATCCCTCTAAAACCTCCAATCCATAGGATTTGTTTTTGCAATAGGAA
8600082 ATGAA
66 ATGAA
8600087 TGATTTGCTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (81 bp):
CAATTATTTCAAACAGTTATCCCTCTAAAACCTCCAATCCATAGGATTTGTTTTTGCAATAGGAA
ATGAAACGATTTGTGA
Found at i:8602157 original size:68 final size:68
Alignment explanation
Indices: 8602078--8602207 Score: 242
Period size: 68 Copynumber: 1.9 Consensus size: 68
8602068 ATTTATTCAA
*
8602078 AATGGATTGCTGCTGATTTGTTTAAGATTTCTCAGTGTCTTATATTGAAAGGGTGTTTAGGGTTA
1 AATGGATTGCTGCTGATTTGTTTAAGATTTCTCAGTGTCTTATATTGAAAGGGTATTTAGGGTTA
8602143 CAG
66 CAG
*
8602146 AATGGATTGCTGCTGATTTGTTTGAGATTTCTCAGTGTCTTATATTGAAAGGGTATTTAGGG
1 AATGGATTGCTGCTGATTTGTTTAAGATTTCTCAGTGTCTTATATTGAAAGGGTATTTAGGG
8602208 AGTTACATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (68 bp):
AATGGATTGCTGCTGATTTGTTTAAGATTTCTCAGTGTCTTATATTGAAAGGGTATTTAGGGTTA
CAG
Found at i:8617205 original size:29 final size:30
Alignment explanation
Indices: 8617173--8617241 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
8617163 GAATATAACG
*
8617173 TGTAATAATAATA-TTTTTTCAACATGGCA
1 TGTAATAATAATATTTTTTTCAACATAGCA
* * *
8617202 TGTAATAACAGTATTTTTTTTAACATAGCA
1 TGTAATAATAATATTTTTTTCAACATAGCA
*
8617232 TGTAACAATA
1 TGTAATAATA
8617242 TTTTTTAACC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 11 0.33
30 22 0.67
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (30 bp):
TGTAATAATAATATTTTTTTCAACATAGCA
Found at i:8617425 original size:45 final size:45
Alignment explanation
Indices: 8617324--8617435 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
8617314 TAACAACCTA
*
8617324 ACGTGTAATA--TTTTTGTACATGACGTGTAATAATCTAACTATG
1 ACGTGTAATATGTTTTTGTACATGACGTGTAATAATCTAACCATG
* * * *
8617367 ATGTGTCACATGTTTTTGTACAT-AGCGTGTAATAATCTCACCATG
1 ACGTGTAATATGTTTTTGTACATGA-CGTGTAATAATCTAACCATG
* *
8617412 GCGTGTAATATGTTTCTGTACATG
1 ACGTGTAATATGTTTTTGTACATG
8617436 GTATGAATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
43 7 0.13
44 1 0.02
45 47 0.85
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (45 bp):
ACGTGTAATATGTTTTTGTACATGACGTGTAATAATCTAACCATG
Found at i:8617525 original size:14 final size:14
Alignment explanation
Indices: 8617506--8617539 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
8617496 AATTAAATTA
8617506 TAAAAAAATATTTT
1 TAAAAAAATATTTT
8617520 TAAAAAAATATTTT
1 TAAAAAAATATTTT
8617534 TAAAAA
1 TAAAAA
8617540 TGCCCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAAAAAATATTTT
Found at i:8630084 original size:22 final size:22
Alignment explanation
Indices: 8630045--8630086 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8630035 ATATAGGTTA
*
8630045 TTTTTAATAATTATTATTTAAC
1 TTTTTAATAATCATTATTTAAC
8630067 TTTTTAATGAATCA-TATTTA
1 TTTTTAAT-AATCATTATTTA
8630087 TTGTTCCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTTAATAATCATTATTTAAC
Found at i:8631779 original size:23 final size:22
Alignment explanation
Indices: 8631753--8631815 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
8631743 ATTACAAAAC
8631753 AATTAATAATTATAAATTAATTT
1 AATTAATAA-TATAAATTAATTT
*
8631776 AATTAATAATATAAATTTATTT
1 AATTAATAATATAAATTAATTT
*
8631798 --TTAATTATATAAAATTAA
1 AATTAATAATAT-AAATTAA
8631816 AAAAAAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 9 0.25
21 6 0.17
22 12 0.33
23 9 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTAATAATATAAATTAATTT
Found at i:8636482 original size:4 final size:4
Alignment explanation
Indices: 8636473--8636503 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
8636463 AAAGAGTGAG
8636473 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
8636504 AGTCTAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAC
Found at i:8637700 original size:5 final size:5
Alignment explanation
Indices: 8637678--8637719 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
8637668 TTAAAGACCC
* * *
8637678 AAAAG CAAAG AGAA- AAAAG AAAAG AAAAG AAAAA AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
8637720 GGTGAGATGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
4 3 0.10
5 27 0.90
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:8637714 original size:14 final size:15
Alignment explanation
Indices: 8637678--8637719 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
8637668 TTAAAGACCC
* *
8637678 AAAAGCAAAGAGAA-
1 AAAAGAAAAGAAAAG
8637692 AAAAGAAAAGAAAAG
1 AAAAGAAAAGAAAAG
*
8637707 AAAAAAAAAGAAA
1 AAAAGAAAAGAAA
8637720 GGTGAGATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAG
Found at i:8638830 original size:2 final size:2
Alignment explanation
Indices: 8638823--8638849 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8638813 TAAATTGTGT
8638823 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8638850 TAAGTTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8642025 original size:23 final size:25
Alignment explanation
Indices: 8641991--8642036 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
8641981 ATTTATTATC
8641991 TTATAAAAATAT-T-TATAATATTA
1 TTATAAAAATATATATATAATATTA
*
8642014 TTATAAATATATATATATAATAT
1 TTATAAAAATATATATATAATAT
8642037 AAAAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 1 0.05
25 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTATAAAAATATATATATAATATTA
Found at i:8642061 original size:14 final size:14
Alignment explanation
Indices: 8642026--8642065 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
8642016 ATAAATATAT
8642026 ATATATAAT-ATAA
1 ATATATAATAATAA
*
8642039 AAATATAATAATAA
1 ATATATAATAATAA
8642053 ATATATAATAATA
1 ATATATAATAATA
8642066 TAGAATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATATAATAATAA
Found at i:8642066 original size:8 final size:8
Alignment explanation
Indices: 8642005--8642067 Score: 60
Period size: 8 Copynumber: 8.0 Consensus size: 8
8641995 AAAAATATTT
*
8642005 ATAATATT
1 ATAATATA
*
8642013 ATTATA-A
1 ATAATATA
8642020 ATATATATA
1 ATA-ATATA
8642029 TATAATATA
1 -ATAATATA
*
8642038 AAAATATA
1 ATAATATA
8642046 ATAATA-A
1 ATAATATA
8642053 AT-ATATA
1 ATAATATA
8642060 ATAATATA
1 ATAATATA
8642068 GAATCAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
6 3 0.07
7 8 0.18
8 25 0.56
9 6 0.13
10 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:8642067 original size:35 final size:36
Alignment explanation
Indices: 8642007--8642096 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 36
8641997 AAATATTTAT
* *
8642007 AATATTATTATAAATATAT-AT-ATATA-ATAT-AAA
1 AATATAATAATAAATATATAATAATATAGA-ATCAAA
8642040 AATATAATAATAAATATATAATAATATAGAATCAAA
1 AATATAATAATAAATATATAATAATATAGAATCAAA
*
8642076 AAT-TAA-AATAAA-ATAAAATAA
1 AATATAATAATAAATATATAATAA
8642097 AAAATTAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
33 25 0.50
34 8 0.16
35 10 0.20
36 7 0.14
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (36 bp):
AATATAATAATAAATATATAATAATATAGAATCAAA
Found at i:8642089 original size:5 final size:5
Alignment explanation
Indices: 8642074--8642184 Score: 52
Period size: 5 Copynumber: 22.2 Consensus size: 5
8642064 TATAGAATCA
* ** *
8642074 AAAATT AAAAT AAAAT AAAAT -AAA- AAATT AAAAT -TTAT ATAAT ATAAA-
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT
* ** * *
8642122 AAAAT AAATT AAAAT AAAAT ATTAT AAATAT AAAAATT ATATT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT -AAAA-T AAAAT AAAAT
*
8642169 GAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT A
8642185 TATAAGATTA
Statistics
Matches: 78, Mismatches: 18, Indels: 19
0.68 0.16 0.17
Matches are distributed among these distances:
4 13 0.17
5 50 0.64
6 11 0.14
7 4 0.05
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (5 bp):
AAAAT
Found at i:8642096 original size:47 final size:48
Alignment explanation
Indices: 8642038--8642184 Score: 137
Period size: 47 Copynumber: 3.1 Consensus size: 48
8642028 ATATAATATA
* * * *
8642038 AAAATATAATAATAAATATATAA-TAATATAGA-ATCAAAAATTAAAAT
1 AAAATAAAATAATAAATATAAAATTAATATA-ATATAAAAAAATAAAAT
* * *
8642085 AAAATAAAATAAAAAAT-TAAAATTTATATAATATAAAAAAATAAATT
1 AAAATAAAATAATAAATATAAAATTAATATAATATAAAAAAATAAAAT
*
8642132 AAAATAAAATATTATAAATATAAAAATT-ATAT--TA-AAAGAAATAAAAT
1 AAAATAAAATA--ATAAATAT-AAAATTAATATAATATAAAAAAATAAAAT
8642179 AAAATA
1 AAAATA
8642185 TATAAGATTA
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
46 5 0.06
47 61 0.73
48 2 0.02
49 5 0.06
50 5 0.06
51 6 0.07
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (48 bp):
AAAATAAAATAATAAATATAAAATTAATATAATATAAAAAAATAAAAT
Found at i:8642126 original size:42 final size:42
Alignment explanation
Indices: 8642080--8642216 Score: 138
Period size: 42 Copynumber: 3.3 Consensus size: 42
8642070 ATCAAAAATT
*
8642080 AAAATAAAATAAAATAAAAAATTAAAATTTATATAATATAAA
1 AAAATAAAATAAAATAAAATATTAAAATTTATATAATATAAA
* * * **
8642122 AAAATAAATTAAAATAAAATATTATAAATATA-AAAATTATATT
1 AAAATAAAATAAAATAAAATATTA-AAATTTATATAA-TATAAA
* *
8642165 AAAA-GAAATAAAATAAAATATATAAGA-TTATATAATA-AATA
1 AAAATAAAATAAAATAAAATAT-TAAAATTTATATAATATAA-A
8642206 AAAATAAAATA
1 AAAATAAAATA
8642217 TATGATATTA
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
40 1 0.01
41 8 0.11
42 50 0.67
43 16 0.21
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.29
Consensus pattern (42 bp):
AAAATAAAATAAAATAAAATATTAAAATTTATATAATATAAA
Found at i:8642157 original size:33 final size:34
Alignment explanation
Indices: 8642082--8642157 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
8642072 CAAAAATTAA
*
8642082 AATA-AAATAAAATAAA--AAATTAAAATTTATAT
1 AATATAAA-AAAATAAATTAAAATAAAATTTATAT
8642114 AATATAAAAAAATAAATTAAAATAAAATATTATA-
1 AATATAAAAAAATAAATTAAAATAAAAT-TTATAT
8642148 AATATAAAAA
1 AATATAAAAA
8642158 TTATATTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
32 12 0.31
33 3 0.08
34 19 0.49
35 5 0.13
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (34 bp):
AATATAAAAAAATAAATTAAAATAAAATTTATAT
Found at i:8642166 original size:33 final size:33
Alignment explanation
Indices: 8642097--8642208 Score: 93
Period size: 33 Copynumber: 3.3 Consensus size: 33
8642087 AATAAAATAA
* *
8642097 AAAATTAAAAT-TTATATAATATAAAAAAATAAATT
1 AAAA-TAAAATATTATA-AATAT-AAAAATTATATT
8642132 AAAATAAAATATTATAAATATAAAAATTATATT
1 AAAATAAAATATTATAAATATAAAAATTATATT
* ** * *
8642165 AAAA-GAAATAAAATAAAATATATAAGATTATATA
1 AAAATAAAATATTAT-AAATATA-AAAATTATATT
8642199 ATAAATAAAA
1 A-AAATAAAA
8642209 ATAAAATATA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
32 7 0.11
33 21 0.33
34 21 0.33
35 12 0.19
36 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (33 bp):
AAAATAAAATATTATAAATATAAAAATTATATT
Found at i:8642179 original size:84 final size:81
Alignment explanation
Indices: 8642027--8642216 Score: 208
Period size: 84 Copynumber: 2.3 Consensus size: 81
8642017 TAAATATATA
* * *
8642027 TATATAATATAAAAATATAATAATAAATATATAATAATATAGAATCAAAAATTAAAATAAAATAA
1 TATATAATATAAAAAAATAA-AATAAATATAAAATAATATAGAATCAAAAATTAAAAAAAAATAA
8642092 AATAAAAAAT-TAAAATT
65 AATAAAAAATATAAAA-T
* * *
8642109 TATATAATATAAAAAAATAAATTAAA-ATAAAATATTATA-AATATAAAAATTATATTAAAAGAA
1 TATATAATATAAAAAAATAAAATAAATATAAAATAATATAGAAT-CAAAAATTA-A--AAAA-AA
* *
8642172 ATAAAATAAAATATATAAGAT
61 ATAAAATAAAAAATATAAAAT
8642193 TATATAATA-AATAAAAATAAAATA
1 TATATAATATAA-AAAAATAAAATA
8642217 TATGATATTA
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
79 3 0.03
80 19 0.21
81 6 0.07
82 19 0.21
83 5 0.05
84 36 0.39
85 4 0.04
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.31
Consensus pattern (81 bp):
TATATAATATAAAAAAATAAAATAAATATAAAATAATATAGAATCAAAAATTAAAAAAAAATAAA
ATAAAAAATATAAAAT
Found at i:8642211 original size:37 final size:39
Alignment explanation
Indices: 8642124--8642219 Score: 105
Period size: 34 Copynumber: 2.6 Consensus size: 39
8642114 AATATAAAAA
*
8642124 AATAAATTAAAATAAAATATTATAAATATAAAAATTATAT
1 AATAAATAAAAATAAAATA-TATAAATATAAAAATTATAT
* *
8642164 --TAAA-AGAAAT-AAA-ATA-AAATATATAAGATTATAT
1 AATAAATAAAAATAAAATATATAAATATA-AAAATTATAT
8642198 AATAAATAAAAATAAAATATAT
1 AATAAATAAAAATAAAATATAT
8642220 GATATTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
33 7 0.16
34 11 0.24
35 1 0.02
36 7 0.16
37 9 0.20
38 7 0.16
39 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (39 bp):
AATAAATAAAAATAAAATATATAAATATAAAAATTATAT
Found at i:8642234 original size:37 final size:37
Alignment explanation
Indices: 8642026--8642234 Score: 116
Period size: 37 Copynumber: 5.6 Consensus size: 37
8642016 ATAAATATAT
* * *
8642026 ATATATAATATAAAAATATAATAATAAATATATAATAAT
1 ATATATAATATTAAAATAT-ATAATAAATA-AAAATAAA
* *
8642065 ATAGAATCAAAAATTAAAATA-A-AATAAAATAAAAAATTAAA
1 ATA-TAT--AATATTAAAATATATAAT-AAAT-AAAAA-TAAA
*
8642106 ATTTATATAATA-T-AAA-A-A-AATAAATTAAAATAAA
1 A--TATATAATATTAAAATATATAATAAATAAAAATAAA
* * *
8642140 ATATTATAAATATAAAAAT-TATATTAAA-AGAAATAAA
1 ATA-TAT-AATATTAAAATATATAATAAATAAAAATAAA
*
8642177 ATA-A-AATATATAAGATTATATAATAAATAAAAATAAA
1 ATATATAATAT-TAA-AATATATAATAAATAAAAATAAA
*
8642214 ATATATGATATTAAAATATAT
1 ATATATAATATTAAAATATAT
8642235 TTAAGAGATG
Statistics
Matches: 131, Mismatches: 18, Indels: 44
0.68 0.09 0.23
Matches are distributed among these distances:
32 2 0.02
33 8 0.06
34 11 0.08
35 7 0.05
36 15 0.11
37 33 0.25
38 12 0.09
39 11 0.08
40 13 0.10
41 5 0.04
42 12 0.09
43 2 0.02
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (37 bp):
ATATATAATATTAAAATATATAATAAATAAAAATAAA
Found at i:8642494 original size:16 final size:15
Alignment explanation
Indices: 8642451--8642494 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8642441 ATTTACAATT
* *
8642451 ACATTACCTGCAATC
1 ACATTACTTGTAATC
*
8642466 ACGTTACTTGTAATC
1 ACATTACTTGTAATC
8642481 ACATTACATTGTAA
1 ACATTAC-TTGTAA
8642495 AATATCAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (15 bp):
ACATTACTTGTAATC
Found at i:8655839 original size:15 final size:15
Alignment explanation
Indices: 8655819--8655877 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
8655809 TAATATTATA
8655819 ATTAAAATAAAAAAT
1 ATTAAAATAAAAAAT
*
8655834 ATTAAAATAAAATAT
1 ATTAAAATAAAAAAT
* *
8655849 A-TAATATAAGAATAAAA
1 ATTAAAAT-A-AA-AAAT
8655866 ATTAAAATAAAA
1 ATTAAAATAAAA
8655878 TAAAATATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 5 0.14
15 17 0.49
16 4 0.11
17 4 0.11
18 5 0.14
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
ATTAAAATAAAAAAT
Found at i:8655844 original size:5 final size:5
Alignment explanation
Indices: 8655821--8655884 Score: 51
Period size: 5 Copynumber: 12.4 Consensus size: 5
8655811 ATATTATAAT
* * *
8655821 TAAAA TAAAA -AATAT TAAAA TAAAA T-ATA TAATA TAAGAA TAAAAA
1 TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAA-AA T-AAAA
8655867 TTAAAA TAAAA TAAAA TA
1 -TAAAA TAAAA TAAAA TA
8655885 TAAAAAATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
4 5 0.10
5 31 0.63
6 10 0.20
7 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (5 bp):
TAAAA
Found at i:8655846 original size:20 final size:20
Alignment explanation
Indices: 8655810--8655895 Score: 65
Period size: 20 Copynumber: 4.4 Consensus size: 20
8655800 AATATTTTAT
*
8655810 AATATTATAATTAAAATAAAA
1 AATATTA-AAATAAAATAAAA
* *
8655831 AATATTAAAATAAAATATAT
1 AATATTAAAATAAAATAAAA
**
8655851 AATA-TAAGAATAAAA-ATTA
1 AATATTAA-AATAAAATAAAA
8655870 AA-A-TAAAATAAAATATAAA
1 AATATTAAAATAAAATA-AAA
8655889 AA-ATTAA
1 AATATTAA
8655896 CATTTATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
17 7 0.13
18 5 0.09
19 11 0.20
20 24 0.44
21 7 0.13
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (20 bp):
AATATTAAAATAAAATAAAA
Found at i:8655865 original size:40 final size:41
Alignment explanation
Indices: 8655807--8655999 Score: 112
Period size: 40 Copynumber: 4.6 Consensus size: 41
8655797 AAAAATATTT
*
8655807 TATAATATTATAATTAAAATAAAA-AATATTAAAATAAAATA
1 TATAATATAATAA-TAAAATAAAACAATATTAAAATAAAATA
* * * * *
8655848 TATAATATAAGAATAAAAATTAAAATAAAATAAAATATAAAAAA
1 TATAATATAATAAT-AAAA-TAAAACAATATTAAA-ATAAAATA
* **
8655892 T-TAACATTTATATAATATAGGTAAAACAA-ATTAAAATAAAATA
1 TAT-A-ATATA-ATAATA-AAATAAAACAATATTAAAATAAAATA
* * *
8655935 TATAATATAA-AA-AATATATTAAAGAA-ATAAAAATAAAATA
1 TATAATATAATAATAA-A-ATAAAACAATATTAAAATAAAATA
8655975 TATAAAATTATAATAAT-AAATAAAA
1 TAT--AA-TATAATAATAAAATAAAA
8656000 ATAAAATATA
Statistics
Matches: 117, Mismatches: 19, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 25 0.21
41 16 0.14
42 16 0.14
43 23 0.20
44 18 0.15
45 12 0.10
46 5 0.04
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (41 bp):
TATAATATAATAATAAAATAAAACAATATTAAAATAAAATA
Found at i:8656010 original size:33 final size:34
Alignment explanation
Indices: 8655925--8656010 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 34
8655915 AAACAAATTA
* *
8655925 AAATAAAATATATAATATA-AAAAATATATTAAAG
1 AAATAAAA-ATAAAATATATAAAAATATAATAAAG
* *
8655959 AAATAAAAATAAAATATATAAAATTATAAT-AAT
1 AAATAAAAATAAAATATATAAAAATATAATAAAG
8655992 AAATAAAAATAAAATATAT
1 AAATAAAAATAAAATATAT
8656011 GACATTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
33 30 0.64
34 17 0.36
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (34 bp):
AAATAAAAATAAAATATATAAAAATATAATAAAG
Found at i:8656025 original size:87 final size:88
Alignment explanation
Indices: 8655928--8656095 Score: 195
Period size: 87 Copynumber: 1.9 Consensus size: 88
8655918 CAAATTAAAA
*
8655928 TAAAATATATAATATAAAAAAT-ATATTA-A-AGAAA-TAAAAATAAAATATATAAAATTATAAT
1 TAAAATATAT-ATATAAAAAATGATATTATATAAAAATTAAAAATAAAA-ATAT-AAA-TATAAT
8655989 AATAAATAAAA-ATAAAATATATGACAT
62 AA-AAATAAAATATAAAATATATGACAT
* * * * *
8656016 TAAAA-ATATATTTAAAATATGATATTATATAAAAATTAATAATATAAATATAAATATATTAAAA
1 TAAAATATATATATAAAAAATGATATTATATAAAAATTAAAAATAAAAATATAAATATAATAAAA
8656080 ATAAAATATAAAATAT
66 ATAAAATATAAAATAT
8656096 TATAATAATA
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
86 17 0.25
87 26 0.38
88 9 0.13
89 8 0.12
90 9 0.13
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.33
Consensus pattern (88 bp):
TAAAATATATATATAAAAAATGATATTATATAAAAATTAAAAATAAAAATATAAATATAATAAAA
ATAAAATATAAAATATATGACAT
Done.