Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, 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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 54 of 65
Found at i:10593130 original size:16 final size:14
Alignment explanation
Indices: 10593106--10593196 Score: 86
Period size: 15 Copynumber: 6.5 Consensus size: 14
10593096 TATAAACCAT
10593106 ATTATATTAATATA
1 ATTATATTAATATA
10593120 AGTTAATATTAATATTA
1 A-TT-ATATTAATA-TA
10593137 ATTATATT-ATATA
1 ATTATATTAATATA
10593150 ATTTATATTAATATTA
1 A-TTATATTAATA-TA
10593166 ATTATA--AATAT-
1 ATTATATTAATATA
10593177 -TT-TATTAATATAA
1 ATTATATTAATAT-A
10593190 ATTATAT
1 ATTATAT
10593197 AGGGATGAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 23
0.74 0.00 0.26
Matches are distributed among these distances:
9 2 0.03
10 2 0.03
11 5 0.08
12 1 0.02
13 7 0.11
14 13 0.20
15 18 0.28
16 14 0.22
17 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (14 bp):
ATTATATTAATATA
Found at i:10593131 original size:6 final size:6
Alignment explanation
Indices: 10593104--10593187 Score: 56
Period size: 6 Copynumber: 14.7 Consensus size: 6
10593094 ATTATAAACC
*
10593104 ATATT- ATATTA ATA-TA A-GTTA ATATTA ATATT- A-ATT- ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
* * *
10593146 TATAATTT ATATTA ATATTA ATTATAA ATATT- TTATTA ATAT
1 -AT-ATTA ATATTA ATATTA A-TATTA ATATTA ATATTA ATAT
10593188 AAATTATATA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
4 4 0.06
5 19 0.31
6 27 0.44
7 9 0.15
8 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (6 bp):
ATATTA
Found at i:10593150 original size:50 final size:54
Alignment explanation
Indices: 10593075--10593197 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 54
10593065 ACTATATTTT
* *
10593075 ATATTAATATTAATTACA-AATTATAAACCATATT-ATATTAA-TATAAGT-TA
1 ATATTAATATTAATTATATAATTATAAACCATATTAATATTAATTATAAATATA
* *** *
10593125 ATATTAATATTAATTATATTA-TATAATTTATATTAATATTAATTATAAATATT
1 ATATTAATATTAATTATATAATTATAAACCATATTAATATTAATTATAAATATA
* *
10593178 TTATTAATATAAATTATATA
1 ATATTAATATTAATTATATA
10593198 GGGATGAAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
50 27 0.46
51 8 0.14
52 6 0.10
53 18 0.31
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (54 bp):
ATATTAATATTAATTATATAATTATAAACCATATTAATATTAATTATAAATATA
Found at i:10593162 original size:29 final size:29
Alignment explanation
Indices: 10593106--10593196 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 29
10593096 TATAAACCAT
*
10593106 ATTATATTAATATAAGTTAATATTAATATTA
1 ATTATATT-ATATAA-TTTATATTAATATTA
10593137 ATTATATTATATAATTTATATTAATATTA
1 ATTATATTATATAATTTATATTAATATTA
*
10593166 ATTATA--A-AT-ATTT-TATTAATATAA
1 ATTATATTATATAATTTATATTAATATTA
10593190 ATTATAT
1 ATTATAT
10593197 AGGGATGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
24 16 0.28
25 4 0.07
26 2 0.04
27 1 0.02
29 20 0.35
30 6 0.11
31 8 0.14
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
ATTATATTATATAATTTATATTAATATTA
Found at i:10593840 original size:20 final size:21
Alignment explanation
Indices: 10593807--10593845 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
10593797 ATTAACCTAA
*
10593807 TATGCAACTAAAA-TAATAAT
1 TATGCAAATAAAATTAATAAT
*
10593827 TATGCAAATTAAATTAATA
1 TATGCAAATAAAATTAATA
10593846 TGACATATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (21 bp):
TATGCAAATAAAATTAATAAT
Found at i:10593929 original size:25 final size:25
Alignment explanation
Indices: 10593895--10593961 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
10593885 GTGACATACT
* *
10593895 AATTATTAACA-CCTAATGTAACATA
1 AATTAATAACATCC-AATGCAACATA
* *
10593920 AATTAATAACATGCAATGCAACATG
1 AATTAATAACATCCAATGCAACATA
*
10593945 AATTAATAACATGCAAT
1 AATTAATAACATCCAAT
10593962 TATTATTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.28
Consensus pattern (25 bp):
AATTAATAACATCCAATGCAACATA
Found at i:10603564 original size:12 final size:11
Alignment explanation
Indices: 10603536--10603575 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
10603526 TTGAATTAAG
10603536 TCAAATGTTAT
1 TCAAATGTTAT
*
10603547 TCAAATTTTAT
1 TCAAATGTTAT
10603558 ATCAAATGTTAT
1 -TCAAATGTTAT
*
10603570 TTAAAT
1 TCAAAT
10603576 TATCATTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (11 bp):
TCAAATGTTAT
Found at i:10603849 original size:23 final size:23
Alignment explanation
Indices: 10603823--10603918 Score: 165
Period size: 23 Copynumber: 4.1 Consensus size: 23
10603813 ATATTATTTT
* *
10603823 TTTACATAAATTATATTATATAA
1 TTTACATAAATTAAACTATATAA
10603846 TTTACATAAATTAAACTATATAA
1 TTTACATAAATTAAACTATATAA
10603869 TTTACATAAATTAAACTATATAA
1 TTTACATAAATTAAACTATATAA
10603892 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATA-TAA
10603916 TTT
1 TTT
10603919 TCATTTAATC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 64 0.91
24 6 0.09
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTACATAAATTAAACTATATAA
Found at i:10605136 original size:64 final size:63
Alignment explanation
Indices: 10605067--10605239 Score: 192
Period size: 64 Copynumber: 2.7 Consensus size: 63
10605057 TGGAGCACTT
*
10605067 AGTGCATC-AGTGCACTAAGGGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AACAAGCA
1 AGTGCATCGA-TGCA-T-AGGGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AAACA
10605129 TA
62 TA
*
10605131 AGTGCATCGATGCAT-GGTCTGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCT
1 AGTGCATCGATGCATAGG---GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACAT
10605195 A
63 A
** * *
10605196 AGTGCATCGATGCATGACAGTGCATTGATGCTTAAAATGCATTC
1 AGTGCATCGATGCAT-AGGGTGCATCGATGCATAAAATGCATTC
10605240 AAAATGGTGT
Statistics
Matches: 95, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
61 2 0.02
63 1 0.01
64 64 0.67
65 26 0.27
66 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (63 bp):
AGTGCATCGATGCATAGGGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACATA
Found at i:10605622 original size:18 final size:18
Alignment explanation
Indices: 10605595--10605631 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10605585 AAATCATTTT
*
10605595 TGAAATCAAATTTAAAAA
1 TGAAACCAAATTTAAAAA
*
10605613 TGAAACCAAATTTGAAAA
1 TGAAACCAAATTTAAAAA
10605631 T
1 T
10605632 TACTCCCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (18 bp):
TGAAACCAAATTTAAAAA
Found at i:10611674 original size:2 final size:2
Alignment explanation
Indices: 10611667--10611721 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
10611657 TGCACCTTTC
10611667 AT AT AT AT AT AT 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 AT AT AT AT AT AT
10611709 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
10611722 CACACATATC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10612059 original size:30 final size:30
Alignment explanation
Indices: 10612003--10612251 Score: 410
Period size: 30 Copynumber: 8.3 Consensus size: 30
10611993 GAAGGACCTA
* * *
10612003 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
10612032 TCCATAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
10612062 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
* *
10612092 TCCAGAGGTTATAAAGATCCTCAGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
10612122 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
10612152 TCCAGAGGTCATAAAGATCCTTGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
10612182 TCCAAAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
10612212 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
10612242 TCCATAGGTC
1 TCCAGAGGTC
10612252 CCGAAAAACC
Statistics
Matches: 205, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
29 15 0.07
30 190 0.93
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:10612275 original size:31 final size:31
Alignment explanation
Indices: 10612237--10612301 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
10612227 GATCCTCGGT
*
10612237 AACTGTCCATAGGTCCCGAAAAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAAAACATAGGTA
* * *
10612268 AACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCCCGAAAAACATAGGTA
10612299 AAC
1 AAC
10612302 CCTCGACTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAAAACATAGGTA
Found at i:10612846 original size:64 final size:64
Alignment explanation
Indices: 10612744--10612945 Score: 223
Period size: 64 Copynumber: 3.2 Consensus size: 64
10612734 ACATATATTG
* * * ** *
10612744 ATGCATCGGTGCA-TAAAATGCATTCGATATTTGTTTATTACTGGGATGCATCGATGCA-TGACT
1 ATGCATCGATGCACT-AATTGCATTCGATGTTTCCTTATTAATGGGATGCATCGATGCACT-ACT
10612807 T
64 T
10612808 ATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGGATGCATCGATGCACTACTT
1 ATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGGATGCATCGATGCACTACTT
* ** ** *
10612872 ATGCATCGATGCACGAATTGCATTCGATGTATTTATT-TTAA-AAGAGTGCATCGATGCACTACC
1 ATGCATCGATGCACTAATTGCATTCGATGT-TTCCTTATTAATGGGA-TGCATCGATGCACTACT
*
10612935 A
64 T
10612936 ATGCATCGAT
1 ATGCATCGAT
10612946 ACACCTTCAA
Statistics
Matches: 121, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
63 2 0.02
64 113 0.93
65 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGGATGCATCGATGCACTACTT
Found at i:10616656 original size:2 final size:2
Alignment explanation
Indices: 10616649--10616682 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
10616639 TGCACCTTTC
*
10616649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10616683 CCACGCATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10617012 original size:30 final size:30
Alignment explanation
Indices: 10616955--10617143 Score: 317
Period size: 30 Copynumber: 6.3 Consensus size: 30
10616945 GAAGGACCTA
* *
10616955 TCCAGAGGTCACAAAGA-CCCCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
* *
10616984 TCCAGAGGTCATAAAGATCCTTGGTAACTC
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
10617014 TCCAGATGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
10617044 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
10617074 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
10617104 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
10617134 TCCATAGGTC
1 TCCAGAGGTC
10617144 CCGAAGAAAC
Statistics
Matches: 150, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
29 16 0.11
30 134 0.89
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:10617160 original size:90 final size:90
Alignment explanation
Indices: 10616955--10617168 Score: 295
Period size: 90 Copynumber: 2.4 Consensus size: 90
10616945 GAAGGACCTA
* ** *
10616955 TCCAGAGGTCACAAAG-ACCCCGGTAACTGTCCAGAGGTCATAAAGATCCTTGGTAACTCTCCAG
1 TCCAGAGGTCACAAAGAAACTAGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTCTCCAG
*
10617019 ATGTCATAAAGATCCTCGGTAACTG
66 AGGTCATAAAGATCCTCGGTAACTG
* ** * *
10617044 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAG
1 TCCAGAGGTCACAAAGAAACTAGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTCTCCAG
10617109 AGGTCATAAAGATCCTCGGTAACTG
66 AGGTCATAAAGATCCTCGGTAACTG
* * *
10617134 TCCATAGGTCCCGAAGAAACTAGGTAAACTGTCCA
1 TCCAGAGGTCACAAAGAAACTAGGT-AACTGTCCA
10617169 TATGTCTTGA
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 15 0.14
90 86 0.78
91 9 0.08
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (90 bp):
TCCAGAGGTCACAAAGAAACTAGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTCTCCAG
AGGTCATAAAGATCCTCGGTAACTG
Found at i:10618013 original size:45 final size:45
Alignment explanation
Indices: 10617945--10618051 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
10617935 ATGCACTACT
** **
10617945 GATGCATCGATGCA-TAAAATGCATTCGATATTTGTTTATTGCCGG
1 GATGCATCGATGCACT-AAATGCATTCGATATTTCCTTATTAACGG
* * *
10617990 GATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGG
1 GATGCATCGATGCACTAAATGCATTCGATATTTCCTTATTAACGG
10618035 GATGCATCGATGCACTA
1 GATGCATCGATGCACTA
10618052 CTTATGCATC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 53 0.98
46 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (45 bp):
GATGCATCGATGCACTAAATGCATTCGATATTTCCTTATTAACGG
Found at i:10618059 original size:64 final size:64
Alignment explanation
Indices: 10617991--10618128 Score: 181
Period size: 64 Copynumber: 2.2 Consensus size: 64
10617981 TATTGCCGGG
* * * * *
10617991 ATGCATCGATGCACTAATTGCATTCGATGT-TTCCTTATT-AATGGGATGCATCGATGCACTACT
1 ATGCATCGATGCACGAATTGCATTCGATGTATTCATT-TTAAAAGAG-TGCATCGATGCACTACC
*
10618054 T
64 A
*
10618055 ATGCATCGATGCACGAATTGCATTCGATGTATTTATTTTAAAAGAGTGCATCGATGCACTACCA
1 ATGCATCGATGCACGAATTGCATTCGATGTATTCATTTTAAAAGAGTGCATCGATGCACTACCA
10618119 ATGCATCGAT
1 ATGCATCGAT
10618129 ACACCTTCAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
64 57 0.88
65 8 0.12
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACGAATTGCATTCGATGTATTCATTTTAAAAGAGTGCATCGATGCACTACCA
Found at i:10619934 original size:64 final size:65
Alignment explanation
Indices: 10619864--10619987 Score: 171
Period size: 64 Copynumber: 1.9 Consensus size: 65
10619854 TGCACTAAGG
* * * *
10619864 GTGCATCGATGCATAAAATGTATTCGATG-TTTCA-AACAAGCCTAAGTGCATCGATGCATGGTC
1 GTGCATCGATGAATAAAATGCATTCAATGTTTTCATAA-AAACCTAAGTGCATCGATGCATGGTC
10619927 T
65 T
* *
10619928 GTGCATCGATGAATAAAATGCATTCAATGTTTTCATAAAAACCTGAGTGCATTGATGCAT
1 GTGCATCGATGAATAAAATGCATTCAATGTTTTCATAAAAACCTAAGTGCATCGATGCAT
10619988 AAAATGCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 26 0.50
65 24 0.46
66 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGAATAAAATGCATTCAATGTTTTCATAAAAACCTAAGTGCATCGATGCATGGTCT
Found at i:10620642 original size:14 final size:12
Alignment explanation
Indices: 10620623--10620677 Score: 62
Period size: 11 Copynumber: 4.7 Consensus size: 12
10620613 AATTGAATGC
10620623 TTATTAAACTATCA
1 TTATTAAA--ATCA
10620637 TTATT-AAATCA
1 TTATTAAAATCA
*
10620648 TTATT-AAATTA
1 TTATTAAAATCA
10620659 TTATT-AAATCA
1 TTATTAAAATCA
10620670 TTATTAAA
1 TTATTAAA
10620678 TTATTAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
11 29 0.76
12 2 0.05
13 2 0.05
14 5 0.13
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TTATTAAAATCA
Found at i:10620647 original size:11 final size:11
Alignment explanation
Indices: 10620633--10620683 Score: 84
Period size: 11 Copynumber: 4.6 Consensus size: 11
10620623 TTATTAAACT
10620633 ATCATTATTAA
1 ATCATTATTAA
10620644 ATCATTATTAA
1 ATCATTATTAA
*
10620655 ATTATTATTAA
1 ATCATTATTAA
10620666 ATCATTATTAA
1 ATCATTATTAA
*
10620677 ATTATTA
1 ATCATTA
10620684 AAAATTAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (11 bp):
ATCATTATTAA
Found at i:10623210 original size:14 final size:14
Alignment explanation
Indices: 10623191--10623220 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10623181 TGCATCGATA
10623191 CATTGTTCACTATT
1 CATTGTTCACTATT
10623205 CATTGTTCACTATT
1 CATTGTTCACTATT
10623219 CA
1 CA
10623221 CGGTACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (14 bp):
CATTGTTCACTATT
Found at i:10627258 original size:21 final size:21
Alignment explanation
Indices: 10627229--10627269 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10627219 TTTGCTACTC
*
10627229 AACTCGACTCGTTGCTCGTTA
1 AACTAGACTCGTTGCTCGTTA
*
10627250 AACTAGACTTGTTGCTCGTT
1 AACTAGACTCGTTGCTCGTT
10627270 GAGTTCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (21 bp):
AACTAGACTCGTTGCTCGTTA
Found at i:10627594 original size:6 final size:6
Alignment explanation
Indices: 10627579--10627607 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
10627569 CGTTAAGGTC
10627579 TCGA-T TCGAGT TCGAGT TCGAGT TCGAGT
1 TCGAGT TCGAGT TCGAGT TCGAGT TCGAGT
10627608 CAAACGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (6 bp):
TCGAGT
Found at i:10642272 original size:19 final size:20
Alignment explanation
Indices: 10642224--10642274 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
10642214 TATGTCCCTC
*
10642224 AGTATCGGTAC-CAACCCTTG
1 AGTATCGATACTC-ACCCTTG
10642244 AGTATCGATACTCACCCTTG
1 AGTATCGATACTCACCCTTG
*
10642264 -GTATTGATACT
1 AGTATCGATACT
10642275 AAAAATGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.36
20 17 0.61
21 1 0.04
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTCACCCTTG
Found at i:10650555 original size:28 final size:28
Alignment explanation
Indices: 10650498--10650555 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
10650488 AATTTTTTTT
* *
10650498 TATTTTTTTATCTTTTTATGACTTTCAA
1 TATTTTTTTATCTTTTTATAAATTTCAA
*
10650526 TATTTTTTTAT-TATTTTATAAATTTTAA
1 TATTTTTTTATCT-TTTTATAAATTTCAA
10650554 TA
1 TA
10650556 ATTTAAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (28 bp):
TATTTTTTTATCTTTTTATAAATTTCAA
Found at i:10652611 original size:3 final size:3
Alignment explanation
Indices: 10652603--10652649 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
10652593 ATTACAATTG
**
10652603 TTA TTA TTA TTA TTA TTA TTA TCG TTA TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10652650 AATATATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10654019 original size:35 final size:34
Alignment explanation
Indices: 10653952--10654019 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
10653942 CTATGTTTCT
*
10653952 GGTTATTTTATTTTAGTCCTTAATATTGTTTAGG
1 GGTTATTTTATTTTAGTCCTTAATATTATTTAGG
10653986 GGTTATTTTCATTTCTAGTACC-T-ATATTATTTAG
1 GGTTATTTT-ATTT-TAGT-CCTTAATATTATTTAG
10654020 TATTTTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 9 0.30
35 14 0.47
36 5 0.17
37 2 0.07
ACGTcount: A:0.22, C:0.09, G:0.15, T:0.54
Consensus pattern (34 bp):
GGTTATTTTATTTTAGTCCTTAATATTATTTAGG
Found at i:10659238 original size:2 final size:2
Alignment explanation
Indices: 10659231--10659266 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10659221 CTTTGATTGT
10659231 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
10659267 AACACAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10661466 original size:21 final size:21
Alignment explanation
Indices: 10661424--10661467 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
10661414 TGATAAAAAA
*
10661424 TTATCTAAAATATTATTATTT
1 TTATCTAAAATATTAATATTT
*
10661445 TTATCTAAAATATTAATGTTT
1 TTATCTAAAATATTAATATTT
10661466 TT
1 TT
10661468 TTAATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (21 bp):
TTATCTAAAATATTAATATTT
Found at i:10661805 original size:29 final size:30
Alignment explanation
Indices: 10661767--10661825 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
10661757 AGCCCGTTCC
10661767 GACTATTTTTTGATTTGAAACGAAATTAAA
1 GACTATTTTTTGATTTGAAACGAAATTAAA
*
10661797 GACTATTTTTT-ATTTGAAATGAAATTAAA
1 GACTATTTTTTGATTTGAAACGAAATTAAA
10661826 AAATAGGCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (30 bp):
GACTATTTTTTGATTTGAAACGAAATTAAA
Found at i:10663650 original size:2 final size:2
Alignment explanation
Indices: 10663643--10663695 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
10663633 CATGACCCTG
10663643 TA 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 TA
10663685 TA TA TA TA TA T
1 TA TA TA TA TA T
10663696 TTAAATTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10663737 original size:19 final size:18
Alignment explanation
Indices: 10663705--10663751 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
10663695 TTTAAATTAT
* *
10663705 TAAAAAACTATAAAA-AT
1 TAAAAAAATATAAAAGAA
10663722 TGAAAAAAATATTAAAAGAA
1 T-AAAAAAATA-TAAAAGAA
10663742 TAAAAAAATA
1 TAAAAAAATA
10663752 AGAGTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 14 0.56
20 2 0.08
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (18 bp):
TAAAAAAATATAAAAGAA
Found at i:10675454 original size:15 final size:17
Alignment explanation
Indices: 10675434--10675478 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
10675424 ATTCAAAGGG
10675434 AAACACC-CAT-TCATT
1 AAACACCACATCTCATT
10675449 AAACACCACATGCCTCATT
1 AAACACCACAT--CTCATT
10675468 AAACACCACAT
1 AAACACCACAT
10675479 GCCTCGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.27
16 3 0.12
19 16 0.62
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.20
Consensus pattern (17 bp):
AAACACCACATCTCATT
Found at i:10675468 original size:19 final size:19
Alignment explanation
Indices: 10675444--10675483 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10675434 AAACACCCAT
10675444 TCATTAAACACCACATGCC
1 TCATTAAACACCACATGCC
10675463 TCATTAAACACCACATGCC
1 TCATTAAACACCACATGCC
10675482 TC
1 TC
10675484 GATATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.38, G:0.05, T:0.23
Consensus pattern (19 bp):
TCATTAAACACCACATGCC
Found at i:10676283 original size:114 final size:113
Alignment explanation
Indices: 10676084--10676420 Score: 514
Period size: 114 Copynumber: 3.0 Consensus size: 113
10676074 GATCATGCAG
* * * *
10676084 TTCATCTTTCAATTCTAATGATTGGTTCTGGGTTCCTACCGAACCAGATCATATAACTCAAAGAA
1 TTCATCTTTCAATTCCAATGATTGGTTTTGGGTTCATACCAAACCAGATCATATAACTCAAAGAA
*
10676149 CACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 CACTTCTAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
10676197 TTCATCTTTCAATTCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAATA
1 TTCATCTTTCAATTCCAATGATTGGTTTT-GGGTTCATACCAAACCAGATCATATAACTCAAAGA
* * *
10676262 ACACTTCTAGAAGATGCTATTGGGTCTTCTTATTTCTATTATGAGCTAA
65 ACACTTCTAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
10676311 TTCATCTTTCAAATCCAATGATTGGTTTTAAGGTTCATACCAAACCAGATCATATAACTCAAAGA
1 TTCATCTTTCAATTCCAATGATTGGTTTT-GGGTTCATACCAAACCAGATCATATAACTCAAAGA
* *
10676376 ATACTT-TCAGAAGATGCTATTGGGTCTCCTTATTTTTACTATGAG
65 ACACTTCT-AGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
10676421 AACATGGCAC
Statistics
Matches: 203, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
113 28 0.14
114 175 0.86
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (113 bp):
TTCATCTTTCAATTCCAATGATTGGTTTTGGGTTCATACCAAACCAGATCATATAACTCAAAGAA
CACTTCTAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:10680655 original size:14 final size:14
Alignment explanation
Indices: 10680638--10680676 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
10680628 TAAAAGTATG
10680638 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
10680652 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
10680667 AATG-AAAATG
1 AATGCAAAATG
10680677 CATATATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:10683619 original size:14 final size:15
Alignment explanation
Indices: 10683589--10683621 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10683579 AATAGAATAA
10683589 ATAAATAAATATTAT
1 ATAAATAAATATTAT
*
10683604 ATAAATATAT-TTAT
1 ATAAATAAATATTAT
10683618 ATAA
1 ATAA
10683622 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAAATATTAT
Found at i:10683709 original size:15 final size:14
Alignment explanation
Indices: 10683679--10683738 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
10683669 TATCAAACGT
10683679 AATAATAAAA-TAA
1 AATAATAAAATTAA
10683692 AATAATAATAATTAA
1 AATAATAA-AATTAA
10683707 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
10683722 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
10683737 AA
1 AA
10683739 ACTAATGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:10685141 original size:3 final size:3
Alignment explanation
Indices: 10685133--10685217 Score: 75
Period size: 3 Copynumber: 28.0 Consensus size: 3
10685123 CCCGTTTGTA
* * *
10685133 AAT AAT AAT AAT -TT AAT AAT AAT -AT ATT ATAT ATAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT
* **
10685178 ATTT AAT AAT AAT AAT AAT AAT AAT AAT TTT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10685218 TTAAGTAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
2 3 0.04
3 56 0.82
4 9 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (3 bp):
AAT
Found at i:10685172 original size:19 final size:19
Alignment explanation
Indices: 10685133--10685194 Score: 80
Period size: 17 Copynumber: 3.5 Consensus size: 19
10685123 CCCGTTTGTA
10685133 AATAATAATA--ATTTAAT
1 AATAATAATATTATTTAAT
*
10685150 AATAAT-ATATTATAT-AT
1 AATAATAATATTATTTAAT
10685167 -ATAATAATATTATTTAAT
1 AATAATAATATTATTTAAT
10685185 AATAATAATA
1 AATAATAATA
10685195 ATAATAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 8 0.21
17 16 0.42
18 5 0.13
19 9 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAATAATATTATTTAAT
Found at i:10694556 original size:15 final size:15
Alignment explanation
Indices: 10694538--10694567 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10694528 CCACGGTGCT
10694538 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
10694553 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
10694568 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:10696761 original size:60 final size:60
Alignment explanation
Indices: 10696681--10696813 Score: 162
Period size: 60 Copynumber: 2.2 Consensus size: 60
10696671 TCAAATAACA
* * *
10696681 ATTTTTTAACTTTTAATAGTA-GAGGGAGTTA-ATAAAACAACACTTTATAGTTAGGAGATC
1 ATTTTTTAACTTTTAATAGTAGGA-GGA-ATAGACAAAACAACACCTTATAGTTAGGAGATC
* * **
10696741 ATTTTTTTACTTTTATTAGTAGGAGGAATAGACAAAGTAACACCTTATAGTTAGGAGATC
1 ATTTTTTAACTTTTAATAGTAGGAGGAATAGACAAAACAACACCTTATAGTTAGGAGATC
*
10696801 ATTTTGTAACTTT
1 ATTTTTTAACTTT
10696814 ATTAATCGGA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 2 0.03
60 58 0.94
61 2 0.03
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (60 bp):
ATTTTTTAACTTTTAATAGTAGGAGGAATAGACAAAACAACACCTTATAGTTAGGAGATC
Found at i:10696849 original size:59 final size:60
Alignment explanation
Indices: 10696714--10696855 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 60
10696704 GGGAGTTAAT
* * * * *
10696714 AAAACAACACTTTATAGTTAGGAGATCATTTTTTTACTTTTATTAGTAGGAGGAATAGAC
1 AAAATAACACTCTATAGTTAGGAGATCATTTTGTAACTTTTATTAATAGGAGGAATAGAC
* * *
10696774 AAAGTAACAC-CTTATAGTTAGGAGATCATTTTGTAAC-TTTATTAATCGGAGGACTCA-AC
1 AAAATAACACTC-TATAGTTAGGAGATCATTTTGTAACTTTTATTAATAGGAGGAAT-AGAC
10696833 AAAATAACACTCTATAGTATAGG
1 AAAATAACACTCTATAGT-TAGG
10696856 GACTATTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
59 32 0.46
60 37 0.54
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (60 bp):
AAAATAACACTCTATAGTTAGGAGATCATTTTGTAACTTTTATTAATAGGAGGAATAGAC
Found at i:10704366 original size:29 final size:31
Alignment explanation
Indices: 10704328--10704394 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
10704318 TCAAAAAAAA
* *
10704328 AAATTGATA-TTTATCTAAAATTTAAAA-TC
1 AAATTAATATTTTATCTAAAATTCAAAAGTC
*
10704357 AAATTAATATTTTATCTAAAGTTCAAAAGTC
1 AAATTAATATTTTATCTAAAATTCAAAAGTC
10704388 AAATTAA
1 AAATTAA
10704395 AAATTAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 8 0.24
30 16 0.48
31 9 0.27
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.39
Consensus pattern (31 bp):
AAATTAATATTTTATCTAAAATTCAAAAGTC
Found at i:10704483 original size:23 final size:22
Alignment explanation
Indices: 10704456--10704501 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
10704446 ACAACCAAAT
10704456 TATTAAAATATAACGATCAATAA
1 TATTAAAATATAAC-ATCAATAA
**
10704479 TATTAATCTATAACATCAATAA
1 TATTAAAATATAACATCAATAA
10704501 T
1 T
10704502 CAAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (22 bp):
TATTAAAATATAACATCAATAA
Found at i:10710199 original size:27 final size:27
Alignment explanation
Indices: 10710169--10710222 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
10710159 TTGATCTAGG
*
10710169 TCATGCATGTACTTAATACTTAGTGTC
1 TCATGCATGTACCTAATACTTAGTGTC
*
10710196 TCATGCATGTACCTAATGCTTAGTGTC
1 TCATGCATGTACCTAATACTTAGTGTC
10710223 ATGTCTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (27 bp):
TCATGCATGTACCTAATACTTAGTGTC
Found at i:10714497 original size:21 final size:21
Alignment explanation
Indices: 10714467--10714508 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10714457 TGTCTCGTAG
*
10714467 AACCATATATATGCTCC-AAAT
1 AACCAAATATATG-TCCTAAAT
10714488 AACCAAATATATGTCCTAAAT
1 AACCAAATATATGTCCTAAAT
10714509 GACCTCCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (21 bp):
AACCAAATATATGTCCTAAAT
Found at i:10720667 original size:21 final size:22
Alignment explanation
Indices: 10720643--10720725 Score: 80
Period size: 21 Copynumber: 3.8 Consensus size: 22
10720633 TTGGTGCAGA
*
10720643 GGGAATCGATTCCCCCCTTGA-
1 GGGAACCGATTCCCCCCTTGAG
* *
10720664 GGGAACCGATTCCTCCTTTGAAG
1 GGGAACCGATTCCCCCCTTG-AG
**
10720687 GGGAACCGATTCCCCCC-ACAG
1 GGGAACCGATTCCCCCCTTGAG
* *
10720708 GGGAATCGATACCCCCCT
1 GGGAACCGATTCCCCCCT
10720726 GGGGTTCTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 34 0.68
22 1 0.02
23 15 0.30
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.19
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCTTGAG
Found at i:10720694 original size:23 final size:21
Alignment explanation
Indices: 10720641--10720703 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
10720631 TTTTGGTGCA
*
10720641 GAGGGAATCGATTCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
* *
10720662 GAGGGAACCGATTCCTCCTTT
1 GAGGGAACCGATTCCCCCCTT
10720683 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
10720704 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 19 0.54
22 1 0.03
23 15 0.43
ACGTcount: A:0.21, C:0.33, G:0.25, T:0.21
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:10726551 original size:21 final size:21
Alignment explanation
Indices: 10726527--10726600 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
10726517 GTCTCGTAGA
*
10726527 ACCATATATATGTTCCAAATG
1 ACCACATATATGTTCCAAATG
*
10726548 ACCAAATATATG-TCCTAAATG
1 ACCACATATATGTTCC-AAATG
* *
10726569 ACCGCATATATGTTCCAAAGG
1 ACCACATATATGTTCCAAATG
10726590 ACCACATATAT
1 ACCACATATAT
10726601 AATCCAAAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (21 bp):
ACCACATATATGTTCCAAATG
Found at i:10726606 original size:21 final size:20
Alignment explanation
Indices: 10726540--10726613 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
10726530 ATATATATGT
* * *
10726540 TCCAAATGACCAAATATATG
1 TCCAAAGGACCACATATATA
* * *
10726560 TCCTAAATGACCGCATATATGT
1 TCC-AAAGGACCACATATAT-A
10726582 TCCAAAGGACCACATATATAA
1 TCCAAAGGACCACATATAT-A
10726603 TCCAAAGGACC
1 TCCAAAGGACC
10726614 GCGTAGAACC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 3 0.07
21 39 0.87
22 3 0.07
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23
Consensus pattern (20 bp):
TCCAAAGGACCACATATATA
Found at i:10726614 original size:42 final size:42
Alignment explanation
Indices: 10726532--10726615 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
10726522 GTAGAACCAT
* * *
10726532 ATATATGTTCCAAATGACCAAATATATGTCCTAAATGACCGC
1 ATATATGTTCCAAAGGACCAAATATATATCCTAAAGGACCGC
*
10726574 ATATATGTTCCAAAGGACCACATATATAATCC-AAAGGACCGC
1 ATATATGTTCCAAAGGACCAAATATAT-ATCCTAAAGGACCGC
10726616 GTAGAACCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 34 0.92
43 3 0.08
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (42 bp):
ATATATGTTCCAAAGGACCAAATATATATCCTAAAGGACCGC
Found at i:10730014 original size:16 final size:17
Alignment explanation
Indices: 10729981--10730014 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10729971 CCTTTTGATT
*
10729981 TTATTTTATATTTTAAA
1 TTATTTTATATATTAAA
10729998 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
10730014 T
1 T
10730015 AATAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:10730757 original size:24 final size:22
Alignment explanation
Indices: 10730730--10730778 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 22
10730720 ATTATTTTTT
10730730 AATCATCTCAAACTATTCAAACAA
1 AATCATCTCAAACTATT-AAA-AA
10730754 AATCATCTCAAACTATTAAAAA
1 AATCATCTCAAACTATTAAAAA
10730776 AAT
1 AAT
10730779 AAAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 5 0.20
23 3 0.12
24 17 0.68
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (22 bp):
AATCATCTCAAACTATTAAAAA
Found at i:10735893 original size:10 final size:10
Alignment explanation
Indices: 10735872--10735914 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
10735862 CCGGGTACCT
10735872 AAAAAATA-A
1 AAAAAATAGA
10735881 AAAAAATAGAA
1 AAAAAATAG-A
*
10735892 AAAAAATAAA
1 AAAAAATAGA
10735902 AAAAAATAGA
1 AAAAAATAGA
10735912 AAA
1 AAA
10735915 TAAAATGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 8 0.27
10 13 0.43
11 9 0.30
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.09
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:10735893 original size:11 final size:11
Alignment explanation
Indices: 10735879--10735920 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 11
10735869 CCTAAAAAAT
10735879 AAAAAAAATAG
1 AAAAAAAATAG
10735890 AAAAAAAATA-
1 AAAAAAAATAG
10735900 AAAAAAAATAG
1 AAAAAAAATAG
10735911 AAAATAAAAT
1 AAAA-AAAAT
10735921 GGGTTGCCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.34
11 14 0.48
12 5 0.17
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (11 bp):
AAAAAAAATAG
Found at i:10735903 original size:21 final size:20
Alignment explanation
Indices: 10735872--10735920 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
10735862 CCGGGTACCT
10735872 AAAAAATAAAAAAAATAGAA
1 AAAAAATAAAAAAAATAGAA
10735892 AAAAAATAAAAAAAAATAGAA
1 AAAAAAT-AAAAAAAATAGAA
10735913 AATAAAAT
1 AA-AAAAT
10735921 GGGTTGCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 7 0.26
21 15 0.56
22 5 0.19
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.12
Consensus pattern (20 bp):
AAAAAATAAAAAAAATAGAA
Found at i:10737161 original size:2 final size:2
Alignment explanation
Indices: 10737156--10737185 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10737146 TAAATTCATA
*
10737156 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10737186 TTTTACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10737645 original size:18 final size:19
Alignment explanation
Indices: 10737610--10737647 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
10737600 CACGGAATGT
10737610 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
10737630 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
10737648 GATTACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:10739294 original size:131 final size:130
Alignment explanation
Indices: 10739092--10739457 Score: 441
Period size: 131 Copynumber: 2.8 Consensus size: 130
10739082 CAATATTGAG
* * * * *
10739092 AATAATAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTGCTTTGAGACATGAGATGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGA-GTCATT
* * *
10739157 TATTCTCGATTGGAAATAATTCGATATTACCGTTTTCTCTCGAATCAATATT-AATTTTTAAGAC
65 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCAAATCAATATTGAA-TTTTAAGAC
*
10739221 GA
129 AA
* * * ** * * *
10739223 ATTAGTTATATCTCTTCATTTCAATTGGAACAATAAATTATTGCTTTAAGGTATGAGAGATCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAG-TCATT
* * * * *
10739288 TCTTCTCGATTGGAAATCATTAGATATTATCGTTTCCACTCAAATCGATATTGAATTTTAAGACA
65 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCAAATCAATATTGAATTTTAAGACA
10739353 A
130 A
* * *
10739354 AATAGTAATATCTCTTCATTTCGATTAGAGTAATAAATGACTGTTTTAAGGCATGAAAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGA-GTCATT
*
10739419 TATTCTCGATT--AGATAATTAGATATTATCGTTTTCTCTC
65 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTC
10739458 TTAAAATTAT
Statistics
Matches: 194, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
129 24 0.12
130 1 0.01
131 166 0.86
132 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (130 bp):
AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGTCATTT
ATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCAAATCAATATTGAATTTTAAGACAA
Found at i:10741937 original size:3 final size:3
Alignment explanation
Indices: 10741929--10741988 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
10741919 TTTACTTAAT
** *
10741929 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA TATA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
10741974 TATA TTA TTA TTA TT
1 T-TA TTA TTA TTA TT
10741989 TAATAAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:10741979 original size:22 final size:22
Alignment explanation
Indices: 10741929--10741987 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
10741919 TTTACTTAAT
10741929 TTATTATTATTAA-A--AT-TA
1 TTATTATTATTAATATTATATA
10741947 TTATTATTATTAATATTATATA
1 TTATTATTATTAATATTATATA
*
10741969 TTA-TATATATTATTATTAT
1 TTATTAT-TATTAATATTAT
10741988 TTAATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 13 0.37
19 1 0.03
21 5 0.14
22 16 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTATTATTAATATTATATA
Found at i:10741998 original size:22 final size:22
Alignment explanation
Indices: 10741954--10741998 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10741944 TTATTATTAT
* *
10741954 TATTAATATTATATATTATATA
1 TATTAATATTATATAATAAATA
* *
10741976 TATTATTATTATTTAATAAATA
1 TATTAATATTATATAATAAATA
10741998 T
1 T
10741999 TACAAACCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTAATATTATATAATAAATA
Found at i:10743689 original size:117 final size:118
Alignment explanation
Indices: 10743556--10743773 Score: 271
Period size: 118 Copynumber: 1.9 Consensus size: 118
10743546 CCTATTTTAA
* * * * *
10743556 TATTTATTTTTCAATAT-TAAGAAATG-GCAGTCTTAAAACAACTGGATGTCCATTTTCTGATAT
1 TATTTATTTTTCAATATCGAAGAAAAGAACAGTCTTAAAACAACTAGAAGTCC-TTTTCTGATAT
*
10743619 TTTTAAATAAATAAATATCCTATTTTATAAAT-TATATTCATTGTTTTAATTATT
65 TTCTAAATAAATAAATATCCTA-TTTATAAATATATATTCATTGTTTTAATTATT
* * * ** *
10743673 TATTTATTTTTTAATATCGAAGAAAAGAACTGTTTTAAGGCACCTAGAAGTCCTTTTCTGATATT
1 TATTTATTTTTCAATATCGAAGAAAAGAACAGTCTTAAAACAACTAGAAGTCCTTTTCTGATATT
**
10743738 TCTAAATAAATAAATATTTTATTTATAAATATATAT
66 TCTAAATAAATAAATATCCTATTTATAAATATATAT
10743774 AAATTAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
117 25 0.30
118 42 0.50
119 17 0.20
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.45
Consensus pattern (118 bp):
TATTTATTTTTCAATATCGAAGAAAAGAACAGTCTTAAAACAACTAGAAGTCCTTTTCTGATATT
TCTAAATAAATAAATATCCTATTTATAAATATATATTCATTGTTTTAATTATT
Found at i:10743802 original size:29 final size:29
Alignment explanation
Indices: 10743743--10743798 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10743733 ATATTTCTAA
*
10743743 ATAAATAAATATTTTATTTATAAATATAT
1 ATAAATAAATATTTTATTCATAAATATAT
* *
10743772 ATAAATTAATATTTT-TTCATAATTATA
1 ATAAATAAATATTTTATTCATAAATATA
10743799 ATATTGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
ATAAATAAATATTTTATTCATAAATATAT
Found at i:10746689 original size:8 final size:7
Alignment explanation
Indices: 10746662--10746706 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
10746652 TTTTCATACA
10746662 TTTGCAT
1 TTTGCAT
10746669 TTTGCAT
1 TTTGCAT
10746676 TTTGCAT
1 TTTGCAT
10746683 CTTTGCAT
1 -TTTGCAT
*
10746691 TTTTCAT
1 TTTGCAT
*
10746698 TTTGTAT
1 TTTGCAT
10746705 TT
1 TT
10746707 ATACTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.13, C:0.13, G:0.11, T:0.62
Consensus pattern (7 bp):
TTTGCAT
Found at i:10753616 original size:22 final size:22
Alignment explanation
Indices: 10753587--10753641 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
10753577 ATCTACACTC
*
10753587 TTCAAAGATGTTAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
10753609 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
10753631 TTCAAAGATGA
1 TTCAAAGATGA
10753642 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:10754412 original size:165 final size:165
Alignment explanation
Indices: 10754099--10754425 Score: 557
Period size: 165 Copynumber: 2.0 Consensus size: 165
10754089 CACAAGAATG
*
10754099 AGCATTATCTTGAGATTGGGTCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
**
10754164 CGATTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
66 CGATTTTCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
* * * *
10754229 TTCTTAGTTTTTTTACTTAGTAAACTATTTCCAAC
131 TCCATAGTTATCTTACTTAGTAAACTATTTCCAAC
*
10754264 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
10754329 CGATTTTCATAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAACGAT
66 CGATTTTCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGAT
*
10754394 TTCCATAG-TATCTTACTTAGTAAATTATTTCC
130 TTCCATAGTTATCTTACTTAGTAAACTATTTCC
10754426 CACATCCATA
Statistics
Matches: 152, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
165 114 0.75
166 38 0.25
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (165 bp):
AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
CGATTTTCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
TCCATAGTTATCTTACTTAGTAAACTATTTCCAAC
Found at i:10754554 original size:37 final size:36
Alignment explanation
Indices: 10754467--10754744 Score: 216
Period size: 37 Copynumber: 7.6 Consensus size: 36
10754457 TTCAAATAGC
** *** *
10754467 AATTTATCTCACTTGAGATTGTTTTTGTTAAAAC-A
1 AATTTATCTCACTTGAGACAGTTTCACTTGAAACAA
* * *
10754502 AATTTGTCTCGCTTGAGACAGTTTCACTCGAAACAGA
1 AATTTATCTCACTTGAGACAGTTTCACTTGAAACA-A
* ** ** *
10754539 ACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
1 AATTTATCTCACTTGAGACAGTTTCACTTGAAACAA
* * *
10754575 AATTTGTCTCGCTTGAGACAGTTTCACTCGAAACAGA
1 AATTTATCTCACTTGAGACAGTTTCACTTGAAACA-A
* ** ** *
10754612 ACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
1 AATTTATCTCACTTGAGACAGTTTCACTTGAAACAA
* * *
10754648 ATTTTGTCTCGCTTGAGACAGTTTCACTTGAAACAAA
1 AATTTATCTCACTTGAGACAGTTTCACTTGAAAC-AA
** ** *
10754685 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
1 AATTTATCTCACTTGAGACAGTTTCACTTGAAACAA
*
10754721 AGATTTATCTCGCTTGAGACAGTT
1 A-ATTTATCTCACTTGAGACAGTT
10754745 ATTTCGAGTT
Statistics
Matches: 183, Mismatches: 55, Indels: 8
0.74 0.22 0.03
Matches are distributed among these distances:
35 25 0.14
36 57 0.31
37 101 0.55
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (36 bp):
AATTTATCTCACTTGAGACAGTTTCACTTGAAACAA
Found at i:10754607 original size:73 final size:73
Alignment explanation
Indices: 10754469--10754744 Score: 482
Period size: 73 Copynumber: 3.8 Consensus size: 73
10754459 CAAATAGCAA
*
10754469 TTTATCTCACTTGAGATTGTTTTTGTTAAAAC-AAATTTGTCTCGCTTGAGACAGTTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
10754533 AACAGAAC
66 AACAGAAC
10754541 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
10754606 AACAGAAC
66 AACAGAAC
* *
10754614 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGTTTCACTTGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
* *
10754679 AACAAAAA
66 AACAGAAC
*
10754687 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTATCTCGCTTGAGACAGTT
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-ATTTGTCTCGCTTGAGACAGTT
10754745 ATTTCGAGTT
Statistics
Matches: 195, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
72 31 0.16
73 144 0.74
74 20 0.10
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (73 bp):
TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
AACAGAAC
Found at i:10755476 original size:76 final size:76
Alignment explanation
Indices: 10754914--10755475 Score: 908
Period size: 76 Copynumber: 7.4 Consensus size: 76
10754904 TATTTCCCAT
10754914 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
10754979 GCCTTAGGGCC
66 GCCTTAGGGTC
10754990 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
10755055 GCCTTAGGGTC
66 GCCTTAGGGTC
* * * *
10755066 ATCTGTAAATCCTGCATTGCATGTTGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
* *
10755131 ACCTTCGGGTC
66 GCCTTAGGGTC
* * * *
10755142 ATCTGTAAGTCATGCGGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
10755207 GCCTTAGGGTC
66 GCCTTAGGGTC
* *
10755218 ATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCGTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
* *
10755283 ACCTTCGGGTC
66 GCCTTAGGGTC
*
10755294 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCAA
*
10755359 AGCCTTAGGCTC
65 AGCCTTAGGGTC
* *
10755371 ATCAGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
* *
10755436 ACCTTCGGGTC
66 GCCTTAGGGTC
* *
10755447 ATCTGTAAGCCCTTCAGTGCATGATGTTT
1 ATCTGTAAGTCCTACAGTGCATGATGTTT
10755476 TTAAGACCTC
Statistics
Matches: 447, Mismatches: 38, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
76 377 0.84
77 70 0.16
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
GCCTTAGGGTC
Found at i:10755638 original size:3 final size:3
Alignment explanation
Indices: 10755630--10755689 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
10755620 TTTACTTAAT
**
10755630 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TATA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
10755675 TATA TTA TGA TTA TT
1 T-TA TTA TTA TTA TT
10755690 TAATAAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:10755699 original size:22 final size:22
Alignment explanation
Indices: 10755655--10755699 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10755645 TTATTATTAT
* * *
10755655 TATTATTATTATATATTATATA
1 TATTATGATTATATAATAAATA
*
10755677 TATTATGATTATTTAATAAATA
1 TATTATGATTATATAATAAATA
10755699 T
1 T
10755700 TACAAACCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATGATTATATAATAAATA
Found at i:10757392 original size:125 final size:126
Alignment explanation
Indices: 10757263--10757497 Score: 296
Period size: 126 Copynumber: 1.9 Consensus size: 126
10757253 CCTATTTTAA
* * * * **
10757263 TATTTATTTATTTTTCAATAT-TAAGAAATG-GCAGTCTTAAAACAACTGGATGTCCATTTTCTG
1 TATTTATTTATTTTTCAATATCGAAGAAAAGAACAGTCTTAAAACAACTAGAAATCC-TTTTCTG
* *
10757326 ATATTTTTAAATAAATAAATATCCTATTTTATAAAT-TATATTAATTGTTTTAATTATTTATT
65 ATATTTCTAAATAAATAAATATCCTA-TTTATAAATATATATAAATTGTTTTAATTATTTATT
* * ** *
10757388 TATTTATTTATTTTTTAATATCGAAGAAAAGAACTGTCTTAAGGCACCTAGAAATCCTTTTCTGA
1 TATTTATTTATTTTTCAATATCGAAGAAAAGAACAGTCTTAAAACAACTAGAAATCCTTTTCTGA
**
10757453 TATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAATT
66 TATTTCTAAATAAATAAATATCCTATTTATAAATATATATAAATT
10757498 AATATTTTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
125 29 0.32
126 46 0.50
127 17 0.18
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (126 bp):
TATTTATTTATTTTTCAATATCGAAGAAAAGAACAGTCTTAAAACAACTAGAAATCCTTTTCTGA
TATTTCTAAATAAATAAATATCCTATTTATAAATATATATAAATTGTTTTAATTATTTATT
Found at i:10757494 original size:29 final size:29
Alignment explanation
Indices: 10757462--10757518 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
10757452 ATATTTCTAA
10757462 ATAAATAAATATTTTATTT-ATAAATATAT
1 ATAAATAAATATTTT-TTTCATAAATATAT
* *
10757491 ATAAATTAATATTTTTTTCATAATTATA
1 ATAAATAAATATTTTTTTCATAAATATA
10757519 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
ATAAATAAATATTTTTTTCATAAATATAT
Found at i:10759191 original size:18 final size:18
Alignment explanation
Indices: 10759170--10759204 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10759160 TACTAGGCTC
10759170 CCTTCCTTCTACTGTCCT
1 CCTTCCTTCTACTGTCCT
10759188 CCTTCCTTCTACTGTCC
1 CCTTCCTTCTACTGTCC
10759205 ACGAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.46, G:0.06, T:0.43
Consensus pattern (18 bp):
CCTTCCTTCTACTGTCCT
Found at i:10759523 original size:25 final size:24
Alignment explanation
Indices: 10759495--10759555 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 24
10759485 TGCAGTCGGT
10759495 GGCTGTTAAAATTGAATTCAAATAG
1 GGCTGTT-AAATTGAATTCAAATAG
* *
10759520 GGCTGTT--GTTGAATTCAAATGG
1 GGCTGTTAAATTGAATTCAAATAG
10759542 GGCTGCTTAGAATT
1 GGCTG-TTA-AATT
10759556 CAAATGTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
22 18 0.62
23 2 0.07
25 7 0.24
26 2 0.07
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (24 bp):
GGCTGTTAAATTGAATTCAAATAG
Found at i:10759556 original size:21 final size:22
Alignment explanation
Indices: 10759508--10759561 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
10759498 TGTTAAAATT
* * *
10759508 GAATTCAAATAGGGCTGTTGTT
1 GAATTCAAATGGGGCTGCTGTA
10759530 GAATTCAAATGGGGCTGCT-TA
1 GAATTCAAATGGGGCTGCTGTA
10759551 GAATTCAAATG
1 GAATTCAAATG
10759562 TAGGTTACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (22 bp):
GAATTCAAATGGGGCTGCTGTA
Found at i:10764048 original size:21 final size:21
Alignment explanation
Indices: 10764001--10764051 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
10763991 GTTAAAATTT
10764001 AATTCAAATAGGGCTGTTATTG
1 AATTCAAATAGGGCTGTTA-TG
10764023 AATTCAAAT-GGAGCTGCTTA-G
1 AATTCAAATAGG-GCTG-TTATG
10764044 AATTCAAA
1 AATTCAAA
10764052 GGTAGGCTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.41
22 13 0.48
23 3 0.11
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
AATTCAAATAGGGCTGTTATG
Found at i:10765013 original size:20 final size:20
Alignment explanation
Indices: 10764988--10765036 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
10764978 TGTCAGATCA
10764988 GAAGGATCTGTTAAACTGAG
1 GAAGGATCTGTTAAACTGAG
10765008 GAAGGATCTGTTAAACTGAG
1 GAAGGATCTGTTAAACTGAG
*
10765028 GAAGAATCT
1 GAAGGATCT
10765037 CGAAGAAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (20 bp):
GAAGGATCTGTTAAACTGAG
Found at i:10767266 original size:91 final size:93
Alignment explanation
Indices: 10767138--10767324 Score: 220
Period size: 94 Copynumber: 2.0 Consensus size: 93
10767128 TTAATAATTT
* *
10767138 TCAAATAAATTTCGGATCGATTAACGATTAAGGAAAAATAAT-TT-ATTTTATTCAGG-TAATAA
1 TCAAATAAATTTCGGATCGATTAACGATTAAAGAAAAA-AATGTTGATTTGATTC-GGTTAATAA
*
10767200 TTTTAAAATAAATTTCGATTTGATTAACGG
64 TTTTAAAATAAATTTCGATTCGATTAACGG
* * * *
10767230 TCAAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAA
1 TCAAATAAATTTCGGATCGATTAACGATTAAAGAAAAAAAT--GTTGATTTGATTCGGTTAATAA
* * *
10767294 TTTTCAAATAAATTTTGGTTCGATTAACGG
64 TTTTAAAATAAATTTCGATTCGATTAACGG
10767324 T
1 T
10767325 TAAAGAAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
90 3 0.04
91 27 0.34
92 6 0.08
93 4 0.05
94 40 0.50
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (93 bp):
TCAAATAAATTTCGGATCGATTAACGATTAAAGAAAAAAATGTTGATTTGATTCGGTTAATAATT
TTAAAATAAATTTCGATTCGATTAACGG
Found at i:10767501 original size:169 final size:168
Alignment explanation
Indices: 10767123--10767612 Score: 746
Period size: 169 Copynumber: 3.0 Consensus size: 168
10767113 AAGAAAAAAA
* * *
10767123 TTCGGTTAATAATTTTCAAATAAATTTCGGATCGATTAACGATTAAGGAAAAATAATTTATTTT-
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTA
* * * * * *
10767187 A---TTCA---G-GTAATAATTTTAAAATAAATTTCGATTTGATTAACGGTCAAATAATTTCGGT
66 ATCGTTAATTCGATTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTCGGT
10767245 TCGATTAATGGTTAAAG-AAAAAAATCGGTTGATTTGG
131 TCGATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGG
*
10767282 TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTA
10767347 ATCTGTTAATTCGATTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTCGG
66 ATC-GTTAATTCGATTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTCGG
10767412 TTCGATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGG
130 TTCGATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGG
* *
10767451 TTCGGTTAATAATTTTTAAATAAATTTCGGTTCGATTAACGGCTAAAGAAAAATAATTTATTTTA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTA
* * *
10767516 TTCGGTTAATTCGATTAATAATTTTCAAATAAATTTGGGTTCAATTAACGGTCAAATAATTTTGG
66 ATC-GTTAATTCGATTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTCGG
* *
10767581 TTCGATTAATGGTTAAAGAAACAAATTCGGTT
130 TTCGATTAATGGTTAAAGAAAAAAAATCGGTT
10767613 AATAATTTTC
Statistics
Matches: 302, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
159 60 0.20
160 1 0.00
164 3 0.01
167 1 0.00
168 64 0.21
169 173 0.57
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (168 bp):
TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTA
ATCGTTAATTCGATTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTCGGT
TCGATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGG
Found at i:10767583 original size:26 final size:26
Alignment explanation
Indices: 10767540--10767670 Score: 86
Period size: 26 Copynumber: 4.9 Consensus size: 26
10767530 TTAATAATTT
*
10767540 TCAAATAAATTTGGGTTCAATTAACGG
1 TCAAAT-AATTTCGGTTCAATTAACGG
* * *
10767567 TCAAATAATTTTGGTTCGATTAATGG
1 TCAAATAATTTCGGTTCAATTAACGG
* * * ***
10767593 TTAAAGAAACAAATTCGGTT-AA-TAATTT
1 -T---CAAATAATTTCGGTTCAATTAACGG
* *
10767621 TCAAATAAATTTTGGTTCGATTAACGG
1 TCAAAT-AATTTCGGTTCAATTAACGG
10767648 TCAAATAATTTCGGTTCAATTAA
1 TCAAATAATTTCGGTTCAATTAA
10767671 TGTTAAAGGA
Statistics
Matches: 77, Mismatches: 20, Indels: 15
0.69 0.18 0.13
Matches are distributed among these distances:
24 3 0.04
25 8 0.10
26 33 0.43
27 17 0.22
28 4 0.05
29 1 0.01
30 11 0.14
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (26 bp):
TCAAATAATTTCGGTTCAATTAACGG
Found at i:10767658 original size:81 final size:80
Alignment explanation
Indices: 10767523--10767695 Score: 276
Period size: 81 Copynumber: 2.1 Consensus size: 80
10767513 TTATTCGGTT
* * *
10767523 AATTCGATTAATAATTTTCAAATAAATTTGGGTTCAATTAACGGTCAAATAATTTTGGTTCGATT
1 AATTCGGTTAATAATTTTCAAATAAATTTGGGTTCAATTAACGGTCAAATAATTTCGGTTCAATT
10767588 AATGGTTAAA-GAAACA
66 AAT-GTTAAAGGAAA-A
* *
10767604 AATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATT
1 AATTCGGTTAATAATTTTCAAATAAATTTGGGTTCAATTAACGGTCAAATAATTTCGGTTCAATT
10767669 AATGTTAAAGGAAAA
66 AATGTTAAAGGAAAA
10767684 AATTCGGTTAAT
1 AATTCGGTTAAT
10767696 TTGGTTCGGT
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
80 19 0.22
81 67 0.78
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (80 bp):
AATTCGGTTAATAATTTTCAAATAAATTTGGGTTCAATTAACGGTCAAATAATTTCGGTTCAATT
AATGTTAAAGGAAAA
Found at i:10767826 original size:93 final size:94
Alignment explanation
Indices: 10767606--10767832 Score: 359
Period size: 94 Copynumber: 2.4 Consensus size: 94
10767596 AAGAAACAAA
* * * *
10767606 TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAA
1 TTCGGTTAATAATTTTTAAATAAATTTTAGTTCGATTAACAGTAAAATAATTTCGGTTCAATTAA
* *
10767671 TGTTAAAGGAAAAAATTCGGTTAATTTGG
66 TGTTAAAGGAAAAAAATCGGCTAATTTGG
*
10767700 TTCGGTTAATAATTTTTAAATAAATTTTTGTTCGATTAACAGTAAAATAATTTCGGTTTC-ATTA
1 TTCGGTTAATAATTTTTAAATAAATTTTAGTTCGATTAACAGTAAAATAATTTCGG-TTCAATTA
*
10767764 ATGTTAAA-GAAAAAAATCGGCTGATTTGG
65 ATGTTAAAGGAAAAAAATCGGCTAATTTGG
10767793 TTCGGTTAATAATTTTTAAATAAATTTTAGTTCGATTAAC
1 TTCGGTTAATAATTTTTAAATAAATTTTAGTTCGATTAAC
10767833 GGTTAAAGAA
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
93 57 0.46
94 64 0.52
95 3 0.02
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (94 bp):
TTCGGTTAATAATTTTTAAATAAATTTTAGTTCGATTAACAGTAAAATAATTTCGGTTCAATTAA
TGTTAAAGGAAAAAAATCGGCTAATTTGG
Found at i:10768475 original size:183 final size:183
Alignment explanation
Indices: 10768179--10768553 Score: 633
Period size: 183 Copynumber: 2.0 Consensus size: 183
10768169 TATAAAAATT
* * *
10768179 TAATATTTTTTAATTCAAAAAATAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAA
1 TAATA-TTTTTAATTAAAAAAACAGTTTAAAATTAATTTAAATAATATATAATTATAAAATAAAA
** **
10768244 ATTTTATATAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTA
65 AAATTATATAAAATTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTA
*
10768309 TTAATTGGGTTTTAAATAGTTTGGGCTGAGCCCATATGTTATATATAATATATA
130 TTAATTGGGTTTTAAATAGTTTGGGCTAAGCCCATATGTTATATATAATATATA
10768363 TAATATTTTTAATTAAAAAAACAGTTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAA
1 TAATATTTTTAATTAAAAAAACAGTTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAA
*
10768428 AATTATATAAAATTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTACATTAT
66 AATTATATAAAATTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTAT
* *
10768493 TAATTGGGTTTTAAATGGTTTGGGCTAAGCCCATATGTTATATATAATATATT
131 TAATTGGGTTTTAAATAGTTTGGGCTAAGCCCATATGTTATATATAATATATA
*
10768546 TAAAATTT
1 TAATATTT
10768554 AATTCGGTTA
Statistics
Matches: 179, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
183 174 0.97
184 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (183 bp):
TAATATTTTTAATTAAAAAAACAGTTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAA
AATTATATAAAATTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTAT
TAATTGGGTTTTAAATAGTTTGGGCTAAGCCCATATGTTATATATAATATATA
Found at i:10770830 original size:2 final size:2
Alignment explanation
Indices: 10770825--10770876 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
10770815 AAATACACAC
* * *
10770825 AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT 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
*
10770867 AT AT GT AT AT
1 AT AT AT AT AT
10770877 GTACCTGAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10770842 original size:12 final size:12
Alignment explanation
Indices: 10770825--10770876 Score: 86
Period size: 12 Copynumber: 4.3 Consensus size: 12
10770815 AAATACACAC
*
10770825 ATATATATATAT
1 ATATATATATGT
10770837 ATATATATATGT
1 ATATATATATGT
*
10770849 ATATGTATATGT
1 ATATATATATGT
10770861 ATATATATATGT
1 ATATATATATGT
10770873 ATAT
1 ATAT
10770877 GTACCTGAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATATATATGT
Found at i:10770877 original size:18 final size:18
Alignment explanation
Indices: 10770825--10770879 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
10770815 AAATACACAC
* *
10770825 ATATATATATATATATAT
1 ATATATATATGTATATGT
*
10770843 ATATGTATATGTATATGT
1 ATATATATATGTATATGT
10770861 ATATATATATGTATATGT
1 ATATATATATGTATATGT
10770879 A
1 A
10770880 CCTGAAGCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (18 bp):
ATATATATATGTATATGT
Found at i:10772966 original size:19 final size:19
Alignment explanation
Indices: 10772942--10772980 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10772932 AATTTGAACT
10772942 AATCAACCAGTATATTAAA
1 AATCAACCAGTATATTAAA
** *
10772961 AATCAATGATTATATTAAA
1 AATCAACCAGTATATTAAA
10772980 A
1 A
10772981 TTTAAAGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (19 bp):
AATCAACCAGTATATTAAA
Found at i:10775843 original size:2 final size:2
Alignment explanation
Indices: 10775800--10775828 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10775790 AAAATTCGTA
10775800 AT 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 AT A
10775829 GTTACAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10777184 original size:43 final size:43
Alignment explanation
Indices: 10777123--10777275 Score: 288
Period size: 43 Copynumber: 3.5 Consensus size: 43
10777113 TTGGTTGTGT
10777123 TTTATTATATTGTGTAATATATTAGATTATTTAAAAAATTTAA
1 TTTATTATATTGTGTAATATATTAGATTATTTAAAAAATTTAA
*
10777166 TTTATTATATTGTGTAATATATTAGATTATTTAAAAAAATTAA
1 TTTATTATATTGTGTAATATATTAGATTATTTAAAAAATTTAA
10777209 TTTATTATATTGTGTAATATATTAGATTATTTAAAACAATTTAA
1 TTTATTATATTGTGTAATATATTAGATTATTTAAAA-AATTTAA
10777253 TTTATTATATTGTGTAATATATT
1 TTTATTATATTGTGTAATATATT
10777276 TTCTTTTGCT
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
43 78 0.73
44 29 0.27
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.52
Consensus pattern (43 bp):
TTTATTATATTGTGTAATATATTAGATTATTTAAAAAATTTAA
Found at i:10777754 original size:36 final size:43
Alignment explanation
Indices: 10777714--10777793 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
10777704 ACTAAAAAAA
10777714 TAAT-ATATTAA-ATTT-T-TATTTTT-TAAT-T-TAAAATAT
1 TAATAATATTAACATTTATATATTTTTATAATGTATAAAATAT
10777750 TAATAATATTAACATTTATATATTTTTATAATGTATAAAATAT
1 TAATAATATTAACATTTATATATTTTTATAATGTATAAAATAT
10777793 T
1 T
10777794 CACGTACTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
36 4 0.11
37 7 0.19
38 4 0.11
39 1 0.03
40 7 0.19
41 4 0.11
42 1 0.03
43 9 0.24
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (43 bp):
TAATAATATTAACATTTATATATTTTTATAATGTATAAAATAT
Found at i:10790263 original size:2 final size:2
Alignment explanation
Indices: 10790258--10790286 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10790248 ACATTCCCCC
10790258 CT CT CT CT CT CT CT CT -T CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10790287 ATCTATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:10790279 original size:13 final size:13
Alignment explanation
Indices: 10790261--10790286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10790251 TTCCCCCCTC
10790261 TCTCTCTCTCTCT
1 TCTCTCTCTCTCT
10790274 TCTCTCTCTCTCT
1 TCTCTCTCTCTCT
10790287 ATCTATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (13 bp):
TCTCTCTCTCTCT
Found at i:10791591 original size:19 final size:19
Alignment explanation
Indices: 10791580--10791667 Score: 149
Period size: 19 Copynumber: 4.6 Consensus size: 19
10791570 AAAATGTGTG
10791580 ATTTTAATAAAAATATTTT
1 ATTTTAATAAAAATATTTT
*
10791599 ATTTTAATAAAATTATTTT
1 ATTTTAATAAAAATATTTT
*
10791618 ATTTTGATAAAAATATTTT
1 ATTTTAATAAAAATATTTT
*
10791637 ATTTTGATAAAAATATTTT
1 ATTTTAATAAAAATATTTT
10791656 ATTTTAATAAAA
1 ATTTTAATAAAA
10791668 TACTAAGTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTTTAATAAAAATATTTT
Found at i:10799468 original size:52 final size:52
Alignment explanation
Indices: 10799406--10799534 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
10799396 TTTTACCTTA
*
10799406 GCACTGTAAGAGCATCGAGAGATAGCCTTGAGTTTTAGTAAAACATGTCTTG
1 GCACTGTAAGAGCATCGAGAGATAGCATTGAGTTTTAGTAAAACATGTCTTG
* * *
10799458 GCACTGTAAGAGCATCGAGAGACAGCATTGGGTTTTGGTAAAACATGTCTTG
1 GCACTGTAAGAGCATCGAGAGATAGCATTGAGTTTTAGTAAAACATGTCTTG
* *
10799510 GCACTATAAGAGCATCAAGAGATAG
1 GCACTGTAAGAGCATCGAGAGATAG
10799535 ACTTTTGTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (52 bp):
GCACTGTAAGAGCATCGAGAGATAGCATTGAGTTTTAGTAAAACATGTCTTG
Found at i:10809429 original size:13 final size:13
Alignment explanation
Indices: 10809411--10809440 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10809401 AGCTGCCAAA
*
10809411 AAGAAGATGAGAG
1 AAGAAGAAGAGAG
10809424 AAGAAGAAGAGAG
1 AAGAAGAAGAGAG
10809437 AAGA
1 AAGA
10809441 GCTTTACCCA
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:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (13 bp):
AAGAAGAAGAGAG
Found at i:10820765 original size:26 final size:26
Alignment explanation
Indices: 10820736--10820788 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10820726 CATTTTAATG
10820736 GAAACCTCGAAGGAAATACACAAGTA
1 GAAACCTCGAAGGAAATACACAAGTA
10820762 GAAACCTCGAAGGAAATACACAAGTA
1 GAAACCTCGAAGGAAATACACAAGTA
10820788 G
1 G
10820789 TCCTTATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.19, G:0.21, T:0.11
Consensus pattern (26 bp):
GAAACCTCGAAGGAAATACACAAGTA
Found at i:10824355 original size:20 final size:20
Alignment explanation
Indices: 10824327--10824365 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10824317 CAGATAATAT
10824327 AAAACAATCCAAAACAAAAG
1 AAAACAATCCAAAACAAAAG
*
10824347 AAAATAATCCAAAACAAAA
1 AAAACAATCCAAAACAAAA
10824366 TAGAACCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.72, C:0.18, G:0.03, T:0.08
Consensus pattern (20 bp):
AAAACAATCCAAAACAAAAG
Found at i:10827751 original size:46 final size:47
Alignment explanation
Indices: 10827644--10827751 Score: 119
Period size: 47 Copynumber: 2.3 Consensus size: 47
10827634 GCGTGAGCCA
* * * *
10827644 AACAACAACGCTCATACTTTGCTGTTCCCCACGCACGCACCTTGCCC
1 AACAACAACGCCCATACTTTGCTGTTCCCCACACACACACCATGCCC
* * * * * *
10827691 GACAGCAGCTCCCATATTTTGTTGTTCCCCACAC-CACACCATGCCC
1 AACAACAACGCCCATACTTTGCTGTTCCCCACACACACACCATGCCC
10827737 AACAACAACGCCCAT
1 AACAACAACGCCCAT
10827752 CCCCTGCCCA
Statistics
Matches: 47, Mismatches: 14, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
46 21 0.45
47 26 0.55
ACGTcount: A:0.26, C:0.42, G:0.12, T:0.20
Consensus pattern (47 bp):
AACAACAACGCCCATACTTTGCTGTTCCCCACACACACACCATGCCC
Found at i:10828529 original size:20 final size:20
Alignment explanation
Indices: 10828504--10828562 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
10828494 TGAGGTTCTA
10828504 TTTTGTTTTGGATTATTTTC
1 TTTTGTTTTGGATTATTTTC
10828524 TTTTGTTTTGGATTATTTTC
1 TTTTGTTTTGGATTATTTTC
*
10828544 TTTTGTTTTGGATTGTTTT
1 TTTTGTTTTGGATTATTTT
10828563 ATATTATCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.08, C:0.03, G:0.17, T:0.71
Consensus pattern (20 bp):
TTTTGTTTTGGATTATTTTC
Found at i:10830884 original size:13 final size:12
Alignment explanation
Indices: 10830866--10830893 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10830856 TCATGGCATC
10830866 AAAAAAAAAAAG
1 AAAAAAAAAAAG
10830878 AAAAAAAAAAAG
1 AAAAAAAAAAAG
10830890 AAAA
1 AAAA
10830894 GAGTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:10835511 original size:39 final size:39
Alignment explanation
Indices: 10835445--10835524 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
10835435 AAATGAACGA
* *
10835445 ACATGAATATATCATCATTCGTATTCGTTCAATTTGTTT
1 ACATGAACATACCATCATTCGTATTCGTTCAATTTGTTT
* * * *
10835484 ACATGAACATACCATTATTTGTGTTCGTTCGATTTGTTT
1 ACATGAACATACCATCATTCGTATTCGTTCAATTTGTTT
10835523 AC
1 AC
10835525 GGGCCTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.45
Consensus pattern (39 bp):
ACATGAACATACCATCATTCGTATTCGTTCAATTTGTTT
Found at i:10840179 original size:18 final size:18
Alignment explanation
Indices: 10840156--10840197 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10840146 ATGCAGACTG
* *
10840156 TAAAATTATTGTTTTAAT
1 TAAAATTAATATTTTAAT
*
10840174 TAAAATTAATATTTTTAT
1 TAAAATTAATATTTTAAT
10840192 TAAAAT
1 TAAAAT
10840198 GATAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TAAAATTAATATTTTAAT
Found at i:10842879 original size:45 final size:45
Alignment explanation
Indices: 10842824--10842929 Score: 158
Period size: 45 Copynumber: 2.4 Consensus size: 45
10842814 AATGCCTAAA
* *
10842824 AACTAGATATCATGCGATTATGTTTATTTTTCAAACAATCATGCG
1 AACTAAATATCATGCGATTATATTTATTTTTCAAACAATCATGCG
* *
10842869 AACTAAATATCATGTGATTATATTTATTTTTCAAACAATCATGTG
1 AACTAAATATCATGCGATTATATTTATTTTTCAAACAATCATGCG
* *
10842914 AAGTATATATCATGCG
1 AACTAAATATCATGCG
10842930 GTTAGGATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (45 bp):
AACTAAATATCATGCGATTATATTTATTTTTCAAACAATCATGCG
Found at i:10844218 original size:31 final size:31
Alignment explanation
Indices: 10844174--10844234 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
10844164 ATTGCCTCTA
* *
10844174 TTTGATACTCCAAAGTCATACCCTTACCTTT
1 TTTGAGACACCAAAGTCATACCCTTACCTTT
* **
10844205 TTTGAGACACCAAATTCATACTTTTACCTT
1 TTTGAGACACCAAAGTCATACCCTTACCTT
10844235 CCCAGGTAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (31 bp):
TTTGAGACACCAAAGTCATACCCTTACCTTT
Found at i:10844508 original size:14 final size:14
Alignment explanation
Indices: 10844491--10844518 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10844481 AAATAAAGGG
10844491 AATGATTGAAATAA
1 AATGATTGAAATAA
10844505 AATGATTGAAATAA
1 AATGATTGAAATAA
10844519 TTTTATCATG
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:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (14 bp):
AATGATTGAAATAA
Found at i:10845042 original size:9 final size:9
Alignment explanation
Indices: 10845028--10845107 Score: 67
Period size: 9 Copynumber: 8.6 Consensus size: 9
10845018 AATCATATTC
10845028 AAGAAAAAA
1 AAGAAAAAA
10845037 AAGAAAACAGAA
1 AAG-AAA-A-AA
*
10845049 AAGATAGAAA
1 AAGA-AAAAA
10845059 AAGAAAAAA
1 AAGAAAAAA
10845068 AAG-AAAAA
1 AAGAAAAAA
10845076 AAGAAAAAGA
1 AAGAAAAA-A
10845086 AA-AAAAGAA
1 AAGAAAA-AA
*
10845095 AA-AAAAAC
1 AAGAAAAAA
10845103 AAGAA
1 AAGAA
10845108 GAAGAAGAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
8 11 0.18
9 27 0.45
10 13 0.22
11 3 0.05
12 6 0.10
ACGTcount: A:0.82, C:0.03, G:0.14, T:0.01
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:10845048 original size:7 final size:7
Alignment explanation
Indices: 10845033--10845107 Score: 64
Period size: 7 Copynumber: 10.3 Consensus size: 7
10845023 TATTCAAGAA
10845033 AAAAAAG
1 AAAAAAG
*
10845040 AAAACAG
1 AAAAAAG
10845047 AAAAGATAG
1 AAAA-A-AG
*
10845056 AAAAAGAA
1 AAAAA-AG
10845064 AAAAAAG
1 AAAAAAG
10845071 AAAAAA-
1 AAAAAAG
10845077 AGAAAAAG
1 A-AAAAAG
10845085 AAAAAAAG
1 -AAAAAAG
10845093 AAAAAA-
1 AAAAAAG
*
10845099 AAACAAG
1 AAAAAAG
10845106 AA
1 AA
10845108 GAAGAAGAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
6 6 0.11
7 30 0.54
8 13 0.23
9 7 0.12
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:10845062 original size:22 final size:20
Alignment explanation
Indices: 10845028--10845123 Score: 99
Period size: 22 Copynumber: 4.8 Consensus size: 20
10845018 AATCATATTC
*
10845028 AAGAAAAAAAAGAAAACAGAA
1 AAGAAGAAAAAGAAAA-AGAA
10845049 AAGATAGAAAAAG-AAAA-AA
1 AAGA-AGAAAAAGAAAAAGAA
10845068 AAGAA-AAAAAGAAAAAGAA
1 AAGAAGAAAAAGAAAAAGAA
* *
10845087 AAAAAGAAAAAAAAACAAGAA
1 AAGAAGAAAAAGAAA-AAGAA
*
10845108 GAAGAAGAAGAAGAAA
1 -AAGAAGAAAAAGAAA
10845124 GAGACCAGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
17 6 0.10
18 5 0.08
19 12 0.19
20 9 0.14
21 12 0.19
22 19 0.30
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.01
Consensus pattern (20 bp):
AAGAAGAAAAAGAAAAAGAA
Found at i:10845063 original size:31 final size:31
Alignment explanation
Indices: 10845033--10845100 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
10845023 TATTCAAGAA
*
10845033 AAAAAAG-AAAACAG-AAAAGATAGAAAAAGAA
1 AAAAAAGAAAAAAAGAAAAAGA-A-AAAAAGAA
10845064 AAAAAAGAAAAAAAGAAAAAGAAAAAAAGAA
1 AAAAAAGAAAAAAAGAAAAAGAAAAAAAGAA
10845095 AAAAAA
1 AAAAAA
10845101 ACAAGAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 21 0.62
32 7 0.21
33 6 0.18
ACGTcount: A:0.84, C:0.01, G:0.13, T:0.01
Consensus pattern (31 bp):
AAAAAAGAAAAAAAGAAAAAGAAAAAAAGAA
Found at i:10845065 original size:6 final size:6
Alignment explanation
Indices: 10845034--10845125 Score: 62
Period size: 6 Copynumber: 14.2 Consensus size: 6
10845024 ATTCAAGAAA
10845034 AAAAAG AAAACAG AAAAGATAG AAAAAG AAAAA- AAAGAA- AAAAAG AAAAAG
1 AAAAAG AAAA-AG -AAA-A-AG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG
* * *
10845085 AAAAAAAG AAAAAA AAACAAG AAGAAG AAGAAG AAGAAAG A
1 --AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AA-AAAG A
10845126 GACCAGATCA
Statistics
Matches: 72, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
5 5 0.07
6 41 0.57
7 11 0.15
8 12 0.17
9 3 0.04
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:10845074 original size:8 final size:8
Alignment explanation
Indices: 10845032--10845099 Score: 72
Period size: 8 Copynumber: 8.9 Consensus size: 8
10845022 ATATTCAAGA
10845032 AAAAAAAG
1 AAAAAAAG
*
10845040 -AAAACAG
1 AAAAAAAG
*
10845047 AAAAGATAG
1 AAAA-AAAG
*
10845056 AAAAAGA-
1 AAAAAAAG
10845063 AAAAAAAG
1 AAAAAAAG
10845071 AAAAAAAG
1 AAAAAAAG
10845079 --AAAAAG
1 AAAAAAAG
10845085 AAAAAAAG
1 AAAAAAAG
10845093 AAAAAAA
1 AAAAAAA
10845100 AACAAGAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
6 6 0.12
7 12 0.24
8 26 0.51
9 7 0.14
ACGTcount: A:0.84, C:0.01, G:0.13, T:0.01
Consensus pattern (8 bp):
AAAAAAAG
Found at i:10846691 original size:45 final size:45
Alignment explanation
Indices: 10846611--10846834 Score: 285
Period size: 45 Copynumber: 5.0 Consensus size: 45
10846601 GAAACCTCAA
**
10846611 CTTGACTTTCTCACG-A-AGGAGTCAATCTTTTAGTGTTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * *
10846654 ATTGATTTTGTTGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * *
10846699 CTTGACTTTCTCGTGAAGAGGAGTCGATC-TTTAGTGATATCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
*
10846743 CTTGACTTTCTCGTGAAGAGGAGTCAACCTTTTAGTGATT-TCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTG-TTGTCATT
* * * *
10846788 CTTGACTTTCTCGAGAAGAGGAGTCAACCTTTTAGTGATGACATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
10846833 CT
1 CT
10846835 CAACTTAACT
Statistics
Matches: 157, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
43 9 0.06
44 42 0.27
45 105 0.67
46 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (45 bp):
CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
Found at i:10846761 original size:89 final size:90
Alignment explanation
Indices: 10846611--10846834 Score: 289
Period size: 89 Copynumber: 2.5 Consensus size: 90
10846601 GAAACCTCAA
* * * * * *
10846611 CTTGACTTTCTC-ACG-A-AGGAGTCAATCTTTTAGTGTTGTCATTATTGATTTTGTTGTGAAGA
1 CTTGACTTTCTCGA-GAAGAGGAGTCAATCTTTTAGTGATATCATTCTTGACTTTCTCGTGAAGA
*
10846673 GGAGTCAATCTTTTAGTG-TTGTCATT
65 GGAGTCAACCTTTTAGTGATT-TCATT
* *
10846699 CTTGACTTTCTCGTGAAGAGGAGTCGATC-TTTAGTGATATCATTCTTGACTTTCTCGTGAAGAG
1 CTTGACTTTCTCGAGAAGAGGAGTCAATCTTTTAGTGATATCATTCTTGACTTTCTCGTGAAGAG
10846763 GAGTCAACCTTTTAGTGATTTCATT
66 GAGTCAACCTTTTAGTGATTTCATT
*
10846788 CTTGACTTTCTCGAGAAGAGGAGTCAACCTTTTAGTGATGA-CATTCT
1 CTTGACTTTCTCGAGAAGAGGAGTCAATCTTTTAGTGAT-ATCATTCT
10846835 CAACTTAACT
Statistics
Matches: 118, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
88 13 0.11
89 77 0.65
90 27 0.23
91 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (90 bp):
CTTGACTTTCTCGAGAAGAGGAGTCAATCTTTTAGTGATATCATTCTTGACTTTCTCGTGAAGAG
GAGTCAACCTTTTAGTGATTTCATT
Found at i:10847893 original size:131 final size:131
Alignment explanation
Indices: 10847689--10848225 Score: 451
Period size: 131 Copynumber: 4.1 Consensus size: 131
10847679 TTTCCTCTAG
* * * * * *
10847689 ATTTGATCTTCCCTGAAGAGCAATGGAA-CAAATCAACCTCGATTCAATCTTCCCTGAAGAGCAG
1 ATTTGATCTTCCCTGAAGATCAGT-AAAGAAAATCAACCTCGATTCAATCTTCCCTGAAGAACAA
* * *
10847753 TGAAA-TGAATCAAAGTTTCTAGATCTGATCTACCCTGAAGAACAGTGGAACATA-CCACTTTTT
65 T-AAAGTGAATCAAAGTTTCCAGATATGATCTACCCTGAAGAACAGCGGAACATATCC-CTTTTT
10847816 CCAT
128 CCAT
* ** * * * * *
10847820 ATTTGATATTCTTTAAAGATCAATAAAGAAAATCAA-CTCCGATTCAATCGTCACTAAAGAGA-A
1 ATTTGATCTTCCCTGAAGATCAGTAAAGAAAATCAACCT-CGATTCAATCTTCCCTGAAGA-ACA
* * * * * *
10847883 ATAAAGTGAATCAACGTTTCCAGTTATGATCTACCTTGAAGAGCAGCAGAACAAATCCCATTTTT
64 ATAAAGTGAATCAAAGTTTCCAGATATGATCTACCCTGAAGAACAGCGGAACATATCCC-TTTTT
*
10847948 CCAG
128 CCAT
* * * * *
10847952 ATTTGATCCTCCCTGAAGAAT-AGTGAAA-CAAATCAACCACCTATTCAATTTTCCCTGAAGAAC
1 ATTTGATCTTCCCTGAAG-ATCAGT-AAAGAAAATCAACC-TCGATTCAATCTTCCCTGAAGAAC
* * ** * * * *
10848015 AGTGATCTGAATCAAAGTTTCCAGATCTGATCTATCCTGAA-AAGCAGCGAAACAGATCCCTTTT
63 AATAAAGTGAATCAAAGTTTCCAGATATGATCTACCCTGAAGAA-CAGCGGAACATATCCCTTTT
10848079 TCCAT
127 TCCAT
* * * * * * *
10848084 ATTTGATCTTCCCTGAAGAGCGGTGAAGTATATCAACCTCGATTTAATCTTCCCTTAAGAACAAT
1 ATTTGATCTTCCCTGAAGATCAGTAAAGAAAATCAACCTCGATTCAATCTTCCCTGAAGAACAAT
* * * * * * * *
10848149 AAAGTGAATCAAAGTTTCTAAATATGATCTACCCTGAAGAGCAGTGGAGCATATACTTTTTTTCA
66 AAAGTGAATCAAAGTTTCCAGATATGATCTACCCTGAAGAACAGCGGAACATATCCCTTTTTCCA
*
10848214 A
131 T
10848215 ATTTGATCTTC
1 ATTTGATCTTC
10848226 AAAAATCTCA
Statistics
Matches: 314, Mismatches: 77, Indels: 30
0.75 0.18 0.07
Matches are distributed among these distances:
130 7 0.02
131 170 0.54
132 70 0.22
133 67 0.21
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (131 bp):
ATTTGATCTTCCCTGAAGATCAGTAAAGAAAATCAACCTCGATTCAATCTTCCCTGAAGAACAAT
AAAGTGAATCAAAGTTTCCAGATATGATCTACCCTGAAGAACAGCGGAACATATCCCTTTTTCCA
T
Found at i:10848152 original size:264 final size:263
Alignment explanation
Indices: 10847687--10848192 Score: 624
Period size: 264 Copynumber: 1.9 Consensus size: 263
10847677 ATTTTCCTCT
* * * * *
10847687 AGATTTGATCTTCCCTGAAGAGCAATGGAACAAATCAACCTCGATTCAATCTTCCCTGAAGAGCA
1 AGATTTGATCCTCCCTGAAGAACAATGAAACAAATCAACCCCGATTCAATCTTCCCTGAAGAACA
* * * *
10847752 GTGAAATGAATCAAAGTTTCTAGATCTGATCTACCCTGAAGAACAGTGGAACATACCACTTTTTC
66 GTGAAATGAATCAAAGTTTCCAGATCTGATCTACCCTGAAGAACAGCGAAACAGACCACTTTTTC
** *
10847817 CATATTTGATATTCTTTAAAGATCAATAAAGAAAATCAACTCCGATTCAATCGTCACTAAAGAGA
131 CATATTTGATATTCCCTAAAGAGCAATAAAGAAAATCAACTCCGATTCAATCGTCACTAAAGAGA
* ** *
10847882 AATAAAGTGAATCAACGTTTCCAGTTATGATCTACCTTGAAGAGCAGCAGAACAAATCCCATTTT
196 AATAAAGTGAATCAAAGTTTCCAAATATGATCTACCCTGAAGAGCAGCAGAACAAATCCCATTTT
10847947 TCC
261 TCC
* * * *
10847950 AGATTTGATCCTCCCTGAAGAATAGTGAAACAAATCAACCACCTATTCAATTTTCCCTGAAGAAC
1 AGATTTGATCCTCCCTGAAGAACAATGAAACAAATCAACC-CCGATTCAATCTTCCCTGAAGAAC
** *
10848015 AGTGATCTGAATCAAAGTTTCCAGATCTGATCTATCCTGAA-AAGCAGCGAAACAGATCC-CTTT
65 AGTGAAATGAATCAAAGTTTCCAGATCTGATCTACCCTGAAGAA-CAGCGAAACAGA-CCACTTT
* * ** * * * * * * *
10848078 TTCCATATTTGATCTTCCCTGAAGAGCGGTGAAGTATATCAAC-CTCGATTTAATCTTCCCTTAA
128 TTCCATATTTGATATTCCCTAAAGAGCAATAAAGAAAATCAACTC-CGATTCAATCGTCACTAAA
*
10848142 GA-ACAATAAAGTGAATCAAAGTTTCTAAATATGATCTACCCTGAAGAGCAG
192 GAGA-AATAAAGTGAATCAAAGTTTCCAAATATGATCTACCCTGAAGAGCAG
10848193 TGGAGCATAT
Statistics
Matches: 203, Mismatches: 35, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
263 39 0.19
264 162 0.80
265 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (263 bp):
AGATTTGATCCTCCCTGAAGAACAATGAAACAAATCAACCCCGATTCAATCTTCCCTGAAGAACA
GTGAAATGAATCAAAGTTTCCAGATCTGATCTACCCTGAAGAACAGCGAAACAGACCACTTTTTC
CATATTTGATATTCCCTAAAGAGCAATAAAGAAAATCAACTCCGATTCAATCGTCACTAAAGAGA
AATAAAGTGAATCAAAGTTTCCAAATATGATCTACCCTGAAGAGCAGCAGAACAAATCCCATTTT
TCC
Done.