Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 35 of 84
Found at i:8168378 original size:2 final size:2
Alignment explanation
Indices: 8168371--8168407 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8168361 GGAGAAAAGC
8168371 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8168408 AGGGGTTAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8180177 original size:21 final size:19
Alignment explanation
Indices: 8180142--8180214 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
8180132 TATATATAAA
8180142 CTTAATAATTGAATATTAC
1 CTTAATAATTGAATATTAC
*
8180161 CTTAATAATTGAA-AATA-
1 CTTAATAATTGAATATTAC
** *
8180178 -TTAATAATAAAAATATTAG
1 CTTAATAAT-TGAATATTAC
8180197 CTTAATAATTGAATATTA
1 CTTAATAATTGAATATTA
8180215 AAATTTCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
16 8 0.18
17 2 0.05
18 6 0.14
19 20 0.45
20 8 0.18
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (19 bp):
CTTAATAATTGAATATTAC
Found at i:8182867 original size:367 final size:366
Alignment explanation
Indices: 8182195--8182929 Score: 1425
Period size: 367 Copynumber: 2.0 Consensus size: 366
8182185 ATGATCCAGG
*
8182195 AAAAGGCTGATGATCACAAAGACAAGATATTTTTTATGTTCTGGTTTTCTATACTATCAAACGAT
1 AAAAGGCTGATGATCACAAAGACAAGATATTTTTTATGTTCTGGTTTTCTATACCATCAAACGAT
8182260 CGTCAAAACAAATTCCACCAACGTTTTTTTTTTGTTGGGAGCCAAAAGAAACTAATTATAACGTG
66 CGTCAAAACAAATTCCACCAACGTTTTTTTTTTGTTGGGAGCCAAAAGAAACTAATTATAACGTG
8182325 CTTTGAAAACCCCAGGGATTTTGGCTGGAAAAAAGAAAACGAAAGGAAACAAGGCTGAACCTCAG
131 CTTTGAAAACCCCAGGGATTTTGGCTGGAAAAAAGAAAACGAAAGGAAACAAGGCTGAACCTCAG
*
8182390 TGGTTTCTGATCAGGACGAGTTTGTGTTTTCTTCTCACTGATGAAGCAGTTTAATTCTAGAACAT
196 TGGTTTCTGATCAGGACGAGTTTGTGTTTTCTTCACACTGATGAAGCAGTTTAATTCTAGAACAT
8182455 CGGAAACAAAACGAATAACAATGTCTTCATCATCAAATTCTTTTGCAATGATCTTGAGATCTATC
261 CGGAAACAAAACGAATAACAATGTCTTCATCATCAAATTCTTTTGCAATGATCTTGAGATCTATC
*
8182520 TTTGTGTTCTGTTGTGGCTAGCATTGATGTACAGCAACTGT
326 TTTGTGTTCTGTTGTGGCTAGCATTCATGTACAGCAACTGT
8182561 AAAAGGCTGATGATCACAAAGACAAGATATTTTTTATGTTCTGGTTTTCTATACCATCAAACGAT
1 AAAAGGCTGATGATCACAAAGACAAGATATTTTTTATGTTCTGGTTTTCTATACCATCAAACGAT
8182626 CGTCAAAACAAATTCCACCAACGTTTTTTTTGTTGTTGGGAGCCAAAAGAAACTAATTATAACGT
66 CGTCAAAACAAATTCCACCAACGTTTTTTTT-TTGTTGGGAGCCAAAAGAAACTAATTATAACGT
8182691 GCTTTGAAAACCCCAGGGATTTTGGCTGGAAAAAAGAAAACGAAAGGAAACAAGGCTGAACCTCA
130 GCTTTGAAAACCCCAGGGATTTTGGCTGGAAAAAAGAAAACGAAAGGAAACAAGGCTGAACCTCA
8182756 GTGGTTTCTGATCAGGACGAGTTTGTGTTTTCTTCACACTGATGAAGCAGTTTAATTCTAGAACA
195 GTGGTTTCTGATCAGGACGAGTTTGTGTTTTCTTCACACTGATGAAGCAGTTTAATTCTAGAACA
8182821 TCGGAAACAAAACGAATAACAATGTCTTCATCATCAAATTCTTTTGCAATGATCTTGAGATCTAT
260 TCGGAAACAAAACGAATAACAATGTCTTCATCATCAAATTCTTTTGCAATGATCTTGAGATCTAT
*
8182886 CTTTGTGTTCTGTTGTGGCTAGCTTTCATGTACAGCAACTGT
325 CTTTGTGTTCTGTTGTGGCTAGCATTCATGTACAGCAACTGT
8182928 AA
1 AA
8182930 GCACTGTATA
Statistics
Matches: 364, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
366 95 0.26
367 269 0.74
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (366 bp):
AAAAGGCTGATGATCACAAAGACAAGATATTTTTTATGTTCTGGTTTTCTATACCATCAAACGAT
CGTCAAAACAAATTCCACCAACGTTTTTTTTTTGTTGGGAGCCAAAAGAAACTAATTATAACGTG
CTTTGAAAACCCCAGGGATTTTGGCTGGAAAAAAGAAAACGAAAGGAAACAAGGCTGAACCTCAG
TGGTTTCTGATCAGGACGAGTTTGTGTTTTCTTCACACTGATGAAGCAGTTTAATTCTAGAACAT
CGGAAACAAAACGAATAACAATGTCTTCATCATCAAATTCTTTTGCAATGATCTTGAGATCTATC
TTTGTGTTCTGTTGTGGCTAGCATTCATGTACAGCAACTGT
Found at i:8197173 original size:48 final size:47
Alignment explanation
Indices: 8197121--8197212 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 47
8197111 ATAATCAAAC
* * * * *
8197121 CAAATCATATATGAATCTTTAAAAATTATCGTAAATCATCTTCATATA
1 CAAATCATAGATCAATCTTTAAAAA-TACCATAAATCATCATCATATA
*
8197169 CAAATCATGGATCAATCTTTAAAAATACCATAAATCATCATCAT
1 CAAATCATAGATCAATCTTTAAAAATACCATAAATCATCATCAT
8197213 CATCATAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 16 0.42
48 22 0.58
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (47 bp):
CAAATCATAGATCAATCTTTAAAAATACCATAAATCATCATCATATA
Found at i:8197219 original size:19 final size:19
Alignment explanation
Indices: 8197197--8197234 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8197187 TTAAAAATAC
8197197 CATAAATCATCATCATCAT
1 CATAAATCATCATCATCAT
*
8197216 CATAAATCATCATTATCAT
1 CATAAATCATCATCATCAT
8197235 TCGTTTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (19 bp):
CATAAATCATCATCATCAT
Found at i:8199054 original size:18 final size:18
Alignment explanation
Indices: 8199033--8199092 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
8199023 TTAATTTTAA
8199033 AATAAAATTTAAAAAAAT
1 AATAAAATTTAAAAAAAT
* * *
8199051 AATAAACTTTATAATAAT
1 AATAAAATTTAAAAAAAT
*
8199069 AATACAA-TTAATAAAAAT
1 AATAAAATTTAA-AAAAAT
8199087 ATATAA
1 A-ATAA
8199093 GAAAAAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
17 3 0.09
18 26 0.81
19 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAAATTTAAAAAAAT
Found at i:8199306 original size:13 final size:13
Alignment explanation
Indices: 8199288--8199312 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8199278 AATAAGCAAT
8199288 AGAAAAAAAAATA
1 AGAAAAAAAAATA
8199301 AGAAAAAAAAAT
1 AGAAAAAAAAAT
8199313 TTTATCCGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AGAAAAAAAAATA
Found at i:8202672 original size:2 final size:2
Alignment explanation
Indices: 8202665--8202692 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8202655 TTCATCTACA
8202665 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
8202693 GGCCTTGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8210027 original size:3 final size:3
Alignment explanation
Indices: 8210019--8210046 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8210009 AACGCTGCTC
8210019 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
8210047 TCAATTTTAA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:8222023 original size:18 final size:18
Alignment explanation
Indices: 8221997--8222032 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8221987 TCTTTCTTCT
8221997 CTCCACCGCCACCACCAC
1 CTCCACCGCCACCACCAC
* *
8222015 CTCCGCCGCTACCACCAC
1 CTCCACCGCCACCACCAC
8222033 AAATGCCACC
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:0.19, C:0.64, G:0.08, T:0.08
Consensus pattern (18 bp):
CTCCACCGCCACCACCAC
Found at i:8228138 original size:48 final size:47
Alignment explanation
Indices: 8228086--8228177 Score: 107
Period size: 47 Copynumber: 1.9 Consensus size: 47
8228076 TTAATAATGA
8228086 TATTTAATATAAAATATTATATTAAT-A-TAAAAATACTTAAAATAAAAC
1 TATTT-AT-TAAAAT-TTATATTAATAATTAAAAATACTTAAAATAAAAC
*** *
8228134 TATTTATTATTCTTTATATTAATAATTAAAAATATTTAAAATAA
1 TATTTATTAAAATTTATATTAATAATTAAAAATACTTAAAATAA
8228178 TATTATTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
45 10 0.26
46 4 0.11
47 19 0.50
48 5 0.13
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (47 bp):
TATTTATTAAAATTTATATTAATAATTAAAAATACTTAAAATAAAAC
Found at i:8228214 original size:22 final size:20
Alignment explanation
Indices: 8228164--8228239 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 20
8228154 AATAATTAAA
8228164 AATATTTAAAATAATATTATT
1 AATA-TTAAAATAATATTATT
* * *
8228185 ATTCTTAAAATATTATTTTATT
1 AATATTAAAATA--ATATTATT
* *
8228207 AATATTAAAATAGTAATATCT
1 AATATTAAAATAATATTAT-T
*
8228228 ATTATTAAAATA
1 AATATTAAAATA
8228240 TTTGTACTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
20 12 0.28
21 14 0.33
22 17 0.40
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (20 bp):
AATATTAAAATAATATTATT
Found at i:8228505 original size:29 final size:30
Alignment explanation
Indices: 8228463--8228521 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
8228453 TAAAATAATA
* ** *
8228463 AAAATATTATATATGTTATTATTTATTATT
1 AAAATAATATATATAATACTATTTATTATT
8228493 AAAATAATA-ATATAATACTATTTATTATT
1 AAAATAATATATATAATACTATTTATTATT
8228522 GATATATTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
AAAATAATATATATAATACTATTTATTATT
Found at i:8228518 original size:36 final size:35
Alignment explanation
Indices: 8228418--8228536 Score: 112
Period size: 39 Copynumber: 3.2 Consensus size: 35
8228408 TCATACTAAG
* **
8228418 AAAATAATATTATTATATTATTTAACATTAATTATT
1 AAAATAATAATATTATA-TATTTATTATTAATTATT
*
8228454 AAAATAATAAAAATATTATATATGTTATTATTTATTATT
1 AAAATAAT---AATATTATATAT-TTATTATTAATTATT
* *
8228493 AAAATAATAATATAATACTATTTATTATTGATATATT
1 AAAATAATAATATTATA-TATTTATTATTAAT-TATT
8228530 GAAAATA
1 -AAAATA
8228537 TTTATGTTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
36 26 0.37
37 7 0.10
38 9 0.13
39 28 0.40
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (35 bp):
AAAATAATAATATTATATATTTATTATTAATTATT
Found at i:8228558 original size:24 final size:24
Alignment explanation
Indices: 8228497--8228558 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 24
8228487 ATTATTAAAA
* *
8228497 TAATAATATAATACTATTTATTAT
1 TAATAATATAAAAATATTTATTAT
* *
8228521 TGAT-ATATTGAAAATATTTATGT-T
1 TAATAATA-TAAAAATATTTAT-TAT
8228545 TAATAATATAAAAA
1 TAATAATATAAAAA
8228559 ATAAAATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
23 3 0.10
24 22 0.76
25 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (24 bp):
TAATAATATAAAAATATTTATTAT
Found at i:8228826 original size:20 final size:20
Alignment explanation
Indices: 8228786--8228826 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
8228776 TTTTAAGTAA
8228786 ATTAAATAAAAATATTATTG
1 ATTAAATAAAAATATTATTG
*
8228806 ATTAATATAATAATATT-TTG
1 ATTAA-ATAAAAATATTATTG
8228826 A
1 A
8228827 ATCGAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
ATTAAATAAAAATATTATTG
Found at i:8231817 original size:2 final size:2
Alignment explanation
Indices: 8231810--8231841 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8231800 GGTCAGAATC
8231810 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
8231842 GGCTTGAAGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8238606 original size:19 final size:21
Alignment explanation
Indices: 8238582--8238621 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8238572 GTAATCATGC
*
8238582 AATCAT-ACA-ATAAATATTA
1 AATCATAACATATAAAAATTA
8238601 AATCATAACATATAAAAATTA
1 AATCATAACATATAAAAATTA
8238622 TCATGCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (21 bp):
AATCATAACATATAAAAATTA
Found at i:8238732 original size:20 final size:19
Alignment explanation
Indices: 8238707--8238780 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
8238697 CAAGAATGTA
8238707 ATGCAAATATATTAATTATC
1 ATGCAAATATA-TAATTATC
*
8238727 ATGC-AATAATAATAATAATC
1 ATGCAAAT-AT-ATAATTATC
*
8238747 ATGTAAATATATAA-TATC
1 ATGCAAATATATAATTATC
*
8238765 AAGCAAATATACTAAT
1 ATGCAAATATA-TAAT
8238781 AATTATGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 12 0.27
19 10 0.23
20 18 0.41
21 4 0.09
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.34
Consensus pattern (19 bp):
ATGCAAATATATAATTATC
Found at i:8238781 original size:38 final size:40
Alignment explanation
Indices: 8238711--8238790 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 40
8238701 AATGTAATGC
*
8238711 AAATATATTAATTATCATGCAATAATAATAATAATCATGT
1 AAATATATTAATTATCAAGCAATAATAATAATAATCATGT
* *
8238751 AAATATA-TAA-TATCAAGCAA-ATATACTAATAATTATGT
1 AAATATATTAATTATCAAGCAATA-ATAATAATAATCATGT
8238789 AA
1 AA
8238791 TTAAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 1 0.03
38 25 0.69
39 3 0.08
40 7 0.19
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (40 bp):
AAATATATTAATTATCAAGCAATAATAATAATAATCATGT
Found at i:8238906 original size:24 final size:24
Alignment explanation
Indices: 8238852--8238914 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
8238842 AGGTATTATT
*
8238852 CAAATATAATATTA-ATAATGCAA
1 CAAATATAATATCATATAATGCAA
*
8238875 CAACATATAATATCATATCATGCAA
1 CAA-ATATAATATCATATAATGCAA
* *
8238900 TAAATATAAAATCAT
1 CAAATATAATATCAT
8238915 GCAATAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.09
24 21 0.62
25 10 0.29
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (24 bp):
CAAATATAATATCATATAATGCAA
Found at i:8239026 original size:20 final size:20
Alignment explanation
Indices: 8239003--8239096 Score: 75
Period size: 20 Copynumber: 4.6 Consensus size: 20
8238993 AATCGTGCAA
8239003 ATAAACATGTAATTAA-ATAT
1 ATAAACATGTAATTAATA-AT
* *
8239023 ATAATCATGCAATTAATAAT
1 ATAAACATGTAATTAATAAT
* *
8239043 TTAAAACATATAATTAA-ATAT
1 AT-AAACATGTAATTAATA-AT
* * *
8239064 ATAATCATGCAAATAATAAT
1 ATAAACATGTAATTAATAAT
8239084 ATAAATCATGTAA
1 ATAAA-CATGTAA
8239097 ATAAGCATGC
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
20 34 0.61
21 22 0.39
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (20 bp):
ATAAACATGTAATTAATAAT
Found at i:8239050 original size:41 final size:41
Alignment explanation
Indices: 8239005--8239096 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 41
8238995 TCGTGCAAAT
* *
8239005 AAACATGTAATTAAATATATAATCATGCAATTAATAATTTA
1 AAACATGTAATTAAATATATAATCATGCAAATAATAATATA
*
8239046 AAACATATAATTAAATATATAATCATGCAAATAATAATATA
1 AAACATGTAATTAAATATATAATCATGCAAATAATAATATA
*
8239087 AATCATGTAA
1 AAACATGTAA
8239097 ATAAGCATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (41 bp):
AAACATGTAATTAAATATATAATCATGCAAATAATAATATA
Found at i:8239086 original size:32 final size:31
Alignment explanation
Indices: 8239050--8239297 Score: 172
Period size: 32 Copynumber: 8.3 Consensus size: 31
8239040 AATTTAAAAC
8239050 ATATAATTAAATATATAATCATGCAAATAATA
1 ATATAATTAAATATATAATCATGCAAATAA-A
* ** * * *
8239082 ATATAAATCATGTAAATAAGCATGC-AATTAA
1 ATAT-AATTAAATATATAATCATGCAAATAAA
8239113 ATAT-A-T-AATA-ATAATCATGCAAAT--A
1 ATATAATTAAATATATAATCATGCAAATAAA
8239138 A-A-AA-T-AA-ATA-AATCATGCAAATAAA
1 ATATAATTAAATATATAATCATGCAAATAAA
* *
8239163 TATACAATTAAATATATAATCATGTAAATAAA
1 -ATATAATTAAATATATAATCATGCAAATAAA
* **
8239195 CATGTAATTAAATATATAATCATGCAATCATGTA
1 -ATATAATTAAATATATAATCATGCAA--ATAAA
* *
8239229 A-ATAA-T-AATATATAAACCATTCAAATAAA
1 ATATAATTAAATATAT-AATCATGCAAATAAA
*
8239258 TATGTAATTAAATATATAATCATGCAAAT-AA
1 -ATATAATTAAATATATAATCATGCAAATAAA
8239289 ATAT-ATTAA
1 ATATAATTAA
8239298 TAATCAAGCA
Statistics
Matches: 170, Mismatches: 26, Indels: 43
0.71 0.11 0.18
Matches are distributed among these distances:
23 13 0.08
24 6 0.04
25 3 0.02
26 10 0.06
27 6 0.04
28 2 0.01
29 10 0.06
30 13 0.08
31 22 0.13
32 59 0.35
33 23 0.14
34 3 0.02
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (31 bp):
ATATAATTAAATATATAATCATGCAAATAAA
Found at i:8239092 original size:21 final size:22
Alignment explanation
Indices: 8239018--8239161 Score: 78
Period size: 21 Copynumber: 7.0 Consensus size: 22
8239008 CATGTAATTA
*
8239018 AATATATAATCATGCAATTAAT
1 AATATATAATCATGCAAATAAT
* * *
8239040 AATTTA-AAACAT--ATAATTA-
1 AATATATAATCATGCA-AATAAT
8239059 AATATATAATCATGCAAATAAT
1 AATATATAATCATGCAAATAAT
*
8239081 AATATA-AATCATGTAAAT-A-
1 AATATATAATCATGCAAATAAT
** **
8239100 AGCATGCAAT--T--AAATATAT
1 AATATATAATCATGCAAATA-AT
*
8239119 AATA-ATAATCATGCAAATAAA
1 AATATATAATCATGCAAATAAT
*
8239140 AATAAATAAATCATGCAAATAA
1 AATATAT-AATCATGCAAATAA
8239162 ATATACAATT
Statistics
Matches: 91, Mismatches: 16, Indels: 29
0.67 0.12 0.21
Matches are distributed among these distances:
16 4 0.04
18 5 0.05
19 11 0.12
20 13 0.14
21 25 0.27
22 19 0.21
23 14 0.15
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (22 bp):
AATATATAATCATGCAAATAAT
Found at i:8239126 original size:26 final size:25
Alignment explanation
Indices: 8239096--8239166 Score: 92
Period size: 26 Copynumber: 2.9 Consensus size: 25
8239086 AAATCATGTA
* *
8239096 AATAAGCATGCAATTAAATATATAAT
1 AATAATCATGCAAATAAATATA-AAT
*
8239122 AATAATCATGCAAATAAAAATAAAT
1 AATAATCATGCAAATAAATATAAAT
8239147 -A-AATCATGCAAATAAATATA
1 AATAATCATGCAAATAAATATA
8239167 CAATTAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
23 18 0.44
24 1 0.02
25 3 0.07
26 19 0.46
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (25 bp):
AATAATCATGCAAATAAATATAAAT
Found at i:8239155 original size:23 final size:23
Alignment explanation
Indices: 8239094--8239162 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
8239084 ATAAATCATG
* * *
8239094 TAAAT-AAGCATGCAATTAAATA
1 TAAATAAATCATGCAAATAAAAA
8239116 TATAATAATAATCATGCAAATAAAAA
1 TA-AAT-A-AATCATGCAAATAAAAA
8239142 TAAATAAATCATGCAAATAAA
1 TAAATAAATCATGCAAATAAA
8239163 TATACAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.05
23 18 0.45
24 1 0.03
25 3 0.08
26 16 0.40
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (23 bp):
TAAATAAATCATGCAAATAAAAA
Found at i:8239161 original size:61 final size:60
Alignment explanation
Indices: 8239059--8239182 Score: 178
Period size: 61 Copynumber: 2.0 Consensus size: 60
8239049 CATATAATTA
* * * *
8239059 AATATATAATCATGCAAATAATAATATAAATCATGTAAATAAGCATGCAATTAAATATAT
1 AATATATAATCATGCAAATAAAAATATAAATCATGCAAATAAACATACAATTAAATATAT
*
8239119 AATA-ATAATCATGCAAATAAAAATAAATAAATCATGCAAATAAATATACAATTAAATATAT
1 AATATATAATCATGCAAATAAAAAT--ATAAATCATGCAAATAAACATACAATTAAATATAT
8239180 AAT
1 AAT
8239183 CATGTAAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
59 19 0.33
60 4 0.07
61 34 0.60
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (60 bp):
AATATATAATCATGCAAATAAAAATATAAATCATGCAAATAAACATACAATTAAATATAT
Found at i:8239234 original size:20 final size:20
Alignment explanation
Indices: 8239180--8239234 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
8239170 TTAAATATAT
* *
8239180 AATCATGTAAATAAACATGT
1 AATCATGTAAATAATCATGC
* ** *
8239200 AATTAAATATATAATCATGC
1 AATCATGTAAATAATCATGC
8239220 AATCATGTAAATAAT
1 AATCATGTAAATAAT
8239235 AATATATAAA
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (20 bp):
AATCATGTAAATAATCATGC
Found at i:8239300 original size:24 final size:24
Alignment explanation
Indices: 8239273--8239396 Score: 103
Period size: 24 Copynumber: 5.2 Consensus size: 24
8239263 AATTAAATAT
8239273 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* * *
8239297 ATAATCAAGCAATTAAATTTATTA
1 ATAATCATGCAAATAAATATATTA
* * *
8239321 ATAATTATG-TAATCAAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
*
8239343 TATAATCATAC-AATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
* **
8239367 ATAAATTACACAAATAAATATATTA
1 AT-AATCATGCAAATAAATATATTA
8239392 ATAAT
1 ATAAT
8239397 GCAAACAAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
22 5 0.06
23 18 0.22
24 42 0.52
25 15 0.19
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.35
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:8239401 original size:21 final size:24
Alignment explanation
Indices: 8239282--8239395 Score: 80
Period size: 25 Copynumber: 4.8 Consensus size: 24
8239272 TATAATCATG
*
8239282 CAAATAAATATATTAAT-AATCAA
1 CAAATAAATATATTAATAAATTAA
* *
8239305 GCAATTAAATTTATTAATAATTATGTAA
1 -CAAATAAATATATTAATAA--AT-TAA
* *
8239333 TCAAATTAA-ATA-TAAT-CA-T-A
1 -CAAATAAATATATTAATAAATTAA
8239353 C-AATAAATATATTAATAAATTACA
1 CAAATAAATATATTAATAAATTA-A
8239377 CAAATAAATATATTAATAA
1 CAAATAAATATATTAATAA
8239396 TGCAAACAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
18 5 0.07
19 4 0.06
20 5 0.07
21 2 0.03
22 1 0.01
23 1 0.01
24 17 0.25
25 18 0.26
26 4 0.06
27 4 0.06
28 8 0.12
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (24 bp):
CAAATAAATATATTAATAAATTAA
Found at i:8240108 original size:14 final size:12
Alignment explanation
Indices: 8240074--8240113 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 12
8240064 TTGACTAAAA
8240074 AAAT-AAAAATT
1 AAATAAAAAATT
8240085 AAATAAAAAATT
1 AAATAAAAAATT
8240097 AAACTAAAAAAATT
1 AAA-T-AAAAAATT
8240111 AAA
1 AAA
8240114 ATACAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 4 0.15
12 10 0.38
13 1 0.04
14 11 0.42
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAAAAAATT
Found at i:8244285 original size:13 final size:14
Alignment explanation
Indices: 8244251--8244289 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
8244241 ATTCAACATG
8244251 CAACAAATATTTGT
1 CAACAAATATTTGT
8244265 CAACAAATATTT-T
1 CAACAAATATTTGT
8244278 -AGACAAATATTT
1 CA-ACAAATATTT
8244290 AATAATAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 11 0.46
14 12 0.50
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (14 bp):
CAACAAATATTTGT
Found at i:8244415 original size:20 final size:21
Alignment explanation
Indices: 8244380--8244421 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
8244370 ACCTCACAAC
8244380 AATTTCTTTTCTATTTT-TTA
1 AATTTCTTTTCTATTTTGTTA
8244400 AATTTCTTTTGC-ATTTTGTTA
1 AATTTCTTTT-CTATTTTGTTA
8244421 A
1 A
8244422 CACCTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.21, C:0.10, G:0.05, T:0.64
Consensus pattern (21 bp):
AATTTCTTTTCTATTTTGTTA
Found at i:8245004 original size:14 final size:14
Alignment explanation
Indices: 8244982--8245012 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8244972 TTATCATAAT
8244982 CAAAACTAATTTTC
1 CAAAACTAATTTTC
*
8244996 CAAATCTAATTTTC
1 CAAAACTAATTTTC
8245010 CAA
1 CAA
8245013 CAAAATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (14 bp):
CAAAACTAATTTTC
Found at i:8245411 original size:23 final size:23
Alignment explanation
Indices: 8245385--8245468 Score: 105
Period size: 23 Copynumber: 3.5 Consensus size: 23
8245375 GTTATGGTTT
* *
8245385 TTTATTATTTATGAACATATTTG
1 TTTATTATTTATGAACATGTTCG
*
8245408 TTTATTATTTATGAACATGTTCA
1 TTTATTATTTATGAACATGTTCG
8245431 TTTATTTATATTACTGAACATGTTCG
1 TTTA-TTAT-TTA-TGAACATGTTCG
*
8245457 TTTAATATTTAT
1 TTTATTATTTAT
8245469 AAATGAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
23 25 0.47
24 7 0.13
25 6 0.11
26 15 0.28
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.55
Consensus pattern (23 bp):
TTTATTATTTATGAACATGTTCG
Found at i:8246986 original size:34 final size:34
Alignment explanation
Indices: 8246913--8246986 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
8246903 CATTTCATAA
* * *
8246913 TTTTTTAAAATTTCAGATTTTTATATTTAAATAT
1 TTTTTTAAAATTTCAAATTTTAATACTTAAATAT
* *
8246947 ATTTTTAAAATTT-AAATTTTAATACTTATAATTT
1 TTTTTTAAAATTTCAAATTTTAATACTTA-AATAT
8246981 TTTTTT
1 TTTTTT
8246987 TCTGTACGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
33 12 0.36
34 21 0.64
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (34 bp):
TTTTTTAAAATTTCAAATTTTAATACTTAAATAT
Found at i:8250427 original size:29 final size:29
Alignment explanation
Indices: 8250368--8250427 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
8250358 ACATTATAAT
* * **
8250368 AAAATATTTAATATAATTTATAAATTTTA
1 AAAATATTCAATATAATATATAAATCATA
* *
8250397 AAAATCTTCAATATAATATCTAAATCATA
1 AAAATATTCAATATAATATATAAATCATA
8250426 AA
1 AA
8250428 TTTTTAATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (29 bp):
AAAATATTCAATATAATATATAAATCATA
Found at i:8260534 original size:16 final size:15
Alignment explanation
Indices: 8260513--8260542 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8260503 AAGCTGACTT
8260513 TAAGAACCACAAAAAA
1 TAAGAACCA-AAAAAA
8260529 TAAGAACCAAAAAA
1 TAAGAACCAAAAAA
8260543 CCAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.17, G:0.07, T:0.07
Consensus pattern (15 bp):
TAAGAACCAAAAAAA
Found at i:8262383 original size:12 final size:11
Alignment explanation
Indices: 8262364--8262431 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 11
8262354 TTATATAAAA
8262364 AATTATTTTTT
1 AATTATTTTTT
8262375 AATTAATTTTTT
1 AATT-ATTTTTT
*
8262387 AATTTTTTATTT
1 AATTATTT-TTT
*
8262399 ATATATATTTATAT
1 A-AT-TATTT-TTT
8262413 AATTATATTTTT
1 AATTAT-TTTTT
8262425 AA-TATTT
1 AATTATTT
8262432 ATATTTTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
10 2 0.04
11 10 0.21
12 22 0.46
13 6 0.12
14 8 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
AATTATTTTTT
Found at i:8262438 original size:14 final size:14
Alignment explanation
Indices: 8262400--8262460 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
8262390 TTTTTATTTA
8262400 TATATATTTATATAAT
1 TATAT-TTTA-ATAAT
*
8262416 TATATTTTTAATATT
1 TATA-TTTTAATAAT
*
8262431 TATATTTTAAAAAAT
1 TATATTTT-AATAAT
* *
8262446 AATATTTTATTAAT
1 TATATTTTAATAAT
8262460 T
1 T
8262461 TCAAATCAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
14 8 0.22
15 19 0.53
16 8 0.22
17 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATTTTAATAAT
Found at i:8262840 original size:14 final size:15
Alignment explanation
Indices: 8262809--8262842 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8262799 TATTATATTT
8262809 TAAATTTGATTTAAA
1 TAAATTTGATTTAAA
*
8262824 TAAATTT-ATTTAGA
1 TAAATTTGATTTAAA
8262838 TAAAT
1 TAAAT
8262843 ACGAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
TAAATTTGATTTAAA
Found at i:8269602 original size:3 final size:3
Alignment explanation
Indices: 8269594--8269637 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
8269584 ATTTATTTAT
* * *
8269594 TTA TTA TTA TTA TTA TTC TTA TTA TTA TTA TTG TTA TTA ATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8269638 TCTAAATTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8269795 original size:56 final size:56
Alignment explanation
Indices: 8269702--8269952 Score: 176
Period size: 56 Copynumber: 4.4 Consensus size: 56
8269692 TTTTTTAATG
* * *
8269702 ATTTTCC-T-AAAATAAAATTTCCAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTGAAAATAAAA-TT--AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
* *
8269759 ATTTTTCTTGAAAATAAAATTAAAAAAATATTTTTGA-AAGAAAGTTGAATGTATC-
1 ATTTTCCTTGAAAATAAAATTAAAAAAATATTTTTGAGAA-AAAGTTGAAAGTATCA
* * * * *
8269814 GTTTTCCTTTGAACACAAAAAT-AAAAAGTAGGTTTTTG-GAAAAAAGTTGAAAGTATCA
1 ATTTTCC-TTGAAAATAAAATTAAAAAAATA--TTTTTGAG-AAAAAGTTGAAAGTATCA
** * *
8269872 ATTTTTTTTTGAAAATAAAAATGTTAAAAAATATATTTTT-AGGGAAAAGTCGAAA-TATCA
1 A-TTTTCCTTGAAAAT-AAAA--TTAAAAAA-ATATTTTTGA-GAAAAAGTTGAAAGTATCA
* *
8269932 ATTTTCCTTAAAAATTAAATT
1 ATTTTCCTTGAAAATAAAATT
8269953 TCTAAAAACA
Statistics
Matches: 152, Mismatches: 25, Indels: 35
0.72 0.12 0.17
Matches are distributed among these distances:
55 13 0.09
56 41 0.27
57 26 0.17
58 14 0.09
59 28 0.18
60 6 0.04
61 16 0.11
62 6 0.04
63 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (56 bp):
ATTTTCCTTGAAAATAAAATTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
Found at i:8280889 original size:19 final size:19
Alignment explanation
Indices: 8280847--8280903 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 19
8280837 ATGCTTGAAA
*
8280847 AAAAAAAGAAAA-AAAATG
1 AAAAAAATAAAATAAAATG
8280865 AGGAAACAAATGAAAA-AAAATG
1 A--AAA-AAAT-AAAATAAAATG
8280887 AAAAAAATAAAATAAAA
1 AAAAAAATAAAATAAAA
8280904 AATGAGAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 6 0.18
21 3 0.09
22 11 0.33
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.09
Consensus pattern (19 bp):
AAAAAAATAAAATAAAATG
Found at i:8282044 original size:44 final size:44
Alignment explanation
Indices: 8281899--8282159 Score: 298
Period size: 44 Copynumber: 6.0 Consensus size: 44
8281889 TCAATGAGTA
* * * *
8281899 ATTTATTTTTTTAAAGTTGTGGTA-CCTCTGTTTAGATGAGC--A
1 ATTTATTTTTTCAAAGTTGTTG-AGCCTCTGTTTAGAGGAGCTTT
* * *
8281941 ATTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC--A
1 ATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
* *
8281983 ATTTATTTTTTCAAAGTTATTGAGCCTCTATTTAGAGGAGCTTT
1 ATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
* *
8282027 ATTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTT
1 ATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
* * ** *
8282071 GTTTATTTTTTCAAAATCATTGAGCCTCTGTTTAGAGAAGCTTT
1 ATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
* * *
8282115 GTTTATGTTTCTCAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTT
1 ATTTAT-TTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
8282160 GATCAAAATT
Statistics
Matches: 190, Mismatches: 25, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
42 75 0.39
44 83 0.44
45 32 0.17
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.46
Consensus pattern (44 bp):
ATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
Found at i:8283169 original size:3 final size:3
Alignment explanation
Indices: 8283158--8283203 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
8283148 TTTCATTTAT
*
8283158 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8283204 TCTAAATTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:8283343 original size:57 final size:57
Alignment explanation
Indices: 8283282--8283506 Score: 216
Period size: 57 Copynumber: 4.0 Consensus size: 57
8283272 AAATTTTTTT
8283282 AAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTT-TTTTAAAGAATAAAATTA
1 AAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTCTTTTAAA-AATAAAATTA
* * * * * *
8283339 AAAAAAATATTTTTGAAGG-AAAGTTTAATGTATCAATTTCTTTTGAACACAAAA--A
1 AAAAATATATTTTTG-AGGAAAAGTTGAAAGTATCAATTTCTTTTAAAAATAAAATTA
* * * * * *
8283394 AAAAA-GT-TTTTTG-GGGAAAGTTGAAATTATCAATTTCCCTTGAAAATAAAAAAGTTA
1 AAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTT-CTTTTAAAA-ATAAAA-TTA
8283451 AAAAATATATTTTT-AGGAAAAAGTTGAAAGTATCAATTT-TTCTTAAAAATAAAATT
1 AAAAATATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTCTT-TTAAAAATAAAATT
8283507 TTTAAAAATA
Statistics
Matches: 134, Mismatches: 21, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
51 2 0.01
52 17 0.13
53 11 0.08
54 6 0.04
55 6 0.04
57 45 0.34
58 16 0.12
59 12 0.09
60 19 0.14
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTCTTTTAAAAATAAAATTA
Found at i:8283437 original size:52 final size:53
Alignment explanation
Indices: 8283338--8283446 Score: 125
Period size: 52 Copynumber: 2.1 Consensus size: 53
8283328 GAATAAAATT
* ** *
8283338 AAAAAAAATATTTTTGAAGGAAAGTTTAATGTATCAATTTCTTTTGAACACAA
1 AAAAAAAATATTTTTGAAGGAAAGTTAAATGTATCAATTTCCCTTGAAAACAA
* *
8283391 AAAAAAAAGT-TTTTTG-GGGAAAGTTGAAAT-TATCAATTTCCCTTGAAAATAA
1 AAAAAAAA-TATTTTTGAAGGAAAGTT-AAATGTATCAATTTCCCTTGAAAACAA
8283443 AAAA
1 AAAA
8283447 GTTAAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
52 30 0.62
53 17 0.35
54 1 0.02
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (53 bp):
AAAAAAAATATTTTTGAAGGAAAGTTAAATGTATCAATTTCCCTTGAAAACAA
Found at i:8283572 original size:60 final size:59
Alignment explanation
Indices: 8283508--8283753 Score: 252
Period size: 56 Copynumber: 4.1 Consensus size: 59
8283498 AATAAAATTT
* * *
8283508 TTAAAAATAAAAATTATCAAGAAAAGTATTTTAAAAAAAAGTTAAAAGTATCAATTTTTG
1 TTAAAAATAAAAATT-TCAAGAAAAATATTTTAAGAAAAAGTTAAAAGTATCAATTTTTC
* *
8283568 TT-AAAATTAAAATTTCAA-AAAAA-ATTTTGAGAAAAAGTTAAAAGTATCAATTTTTC
1 TTAAAAATAAAAATTTCAAGAAAAATATTTTAAGAAAAAGTTAAAAGTATCAATTTTTC
* * * ** *
8283624 -TCAAAATTAAAATTTCAAAAAAAAAATATTTTGGGAAAAAGTTGAAA-TATCAATTTTTTC
1 TTAAAAATAAAAATTTC--AAGAAAAATATTTTAAGAAAAAGTTAAAAGTATCAA-TTTTTC
* *
8283684 TTAAAAATAAAAATTGTCGAGAAAAATATTTTTTTAAGGAAAAA-TTGAAAGTATCAATTTTTC
1 TTAAAAATAAAAATT-TCAAGAAAAATA---TTTTAA-GAAAAAGTTAAAAGTATCAATTTTTC
8283747 TTAAAAA
1 TTAAAAA
8283754 AAACTTCTAA
Statistics
Matches: 160, Mismatches: 13, Indels: 23
0.82 0.07 0.12
Matches are distributed among these distances:
55 1 0.01
56 44 0.28
57 4 0.03
58 6 0.04
59 22 0.14
60 34 0.21
61 12 0.08
62 2 0.01
63 23 0.14
64 12 0.08
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.35
Consensus pattern (59 bp):
TTAAAAATAAAAATTTCAAGAAAAATATTTTAAGAAAAAGTTAAAAGTATCAATTTTTC
Found at i:8289401 original size:293 final size:293
Alignment explanation
Indices: 8288874--8289463 Score: 1144
Period size: 293 Copynumber: 2.0 Consensus size: 293
8288864 TCCCTGAAGT
8288874 TTGACACAAGAGACCTGGTAACAAGACATGCCTCTACCTAAAGTTTTGTTTCGTTTAGGAGGCAT
1 TTGACACAAGAGACCTGGTAACAAGACATGCCTCTACCTAAAGTTTTGTTTCGTTTAGGAGGCAT
*
8288939 AAGAACGAGGTTTGGTGCACCTTGCTCAAAATCATAATCTCTTGTACTTATTGGAGTTACCAATA
66 AAGAACGAGGTTTGGTGCACCTTGCTCAAAATCATAATATCTTGTACTTATTGGAGTTACCAATA
8289004 CAGCCAAACAATATAAGCAAAAACAGGATTACAATTACACTGATGTGACTCATTTGAAAACTTGG
131 CAGCCAAACAATATAAGCAAAAACAGGATTACAATTACACTGATGTGACTCATTTGAAAACTTGG
*
8289069 GTGCATGCTAGCGTTACAAGAGCAAGACTGGATTTATTTAGTTGATAAAAAGTAAACCCAAATGA
196 GTGCATGCTAGCGTTACAAGAACAAGACTGGATTTATTTAGTTGATAAAAAGTAAACCCAAATGA
8289134 GAATGTGGGTCACAAAAATATTGACCTTAGTCC
261 GAATGTGGGTCACAAAAATATTGACCTTAGTCC
8289167 TTGACACAAGAGACCTGGTAACAAGACATGCCTCTACCTAAAGTTTTGTTTCGTTTAGGAGGCAT
1 TTGACACAAGAGACCTGGTAACAAGACATGCCTCTACCTAAAGTTTTGTTTCGTTTAGGAGGCAT
8289232 AAGAACGAGGTTTGGTGCACCTTGCTCAAAATCATAATATCTTGTACTTATTGGAGTTACCAATA
66 AAGAACGAGGTTTGGTGCACCTTGCTCAAAATCATAATATCTTGTACTTATTGGAGTTACCAATA
8289297 CAGCCAAACAATATAAGCAAAAACAGGATTACAATTACACTGATGTGACTCATTTGAAAACTTGG
131 CAGCCAAACAATATAAGCAAAAACAGGATTACAATTACACTGATGTGACTCATTTGAAAACTTGG
8289362 GTGCATGCTAGCGTTACAAGAACAAGACTGGATTTATTTAGTTGATAAAAAGTAAACCCAAATGA
196 GTGCATGCTAGCGTTACAAGAACAAGACTGGATTTATTTAGTTGATAAAAAGTAAACCCAAATGA
* *
8289427 GAATGTGGGTCACACAAATATTGACCTTATTCC
261 GAATGTGGGTCACAAAAATATTGACCTTAGTCC
8289460 TTGA
1 TTGA
8289464 TGACTCTCCT
Statistics
Matches: 293, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
293 293 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (293 bp):
TTGACACAAGAGACCTGGTAACAAGACATGCCTCTACCTAAAGTTTTGTTTCGTTTAGGAGGCAT
AAGAACGAGGTTTGGTGCACCTTGCTCAAAATCATAATATCTTGTACTTATTGGAGTTACCAATA
CAGCCAAACAATATAAGCAAAAACAGGATTACAATTACACTGATGTGACTCATTTGAAAACTTGG
GTGCATGCTAGCGTTACAAGAACAAGACTGGATTTATTTAGTTGATAAAAAGTAAACCCAAATGA
GAATGTGGGTCACAAAAATATTGACCTTAGTCC
Found at i:8290808 original size:15 final size:14
Alignment explanation
Indices: 8290790--8290836 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
8290780 TCACTTTAGC
8290790 ATTTATTTATAAATT
1 ATTT-TTTATAAATT
8290805 ATTTTATTAT-AATT
1 ATTTT-TTATAAATT
*
8290819 ATGTTTTATAAATT
1 ATTTTTTATAAATT
8290833 -TTTT
1 ATTTT
8290837 ACCTTGGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 7 0.25
14 13 0.46
15 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
ATTTTTTATAAATT
Found at i:8291158 original size:29 final size:29
Alignment explanation
Indices: 8291125--8291189 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
8291115 GAATATCGAT
8291125 TAAAATATTTTAA-TTATATATTTAATTT-A
1 TAAAATATTTTAATTTA-ATA-TTAATTTGA
* *
8291154 TAAAATATTTTTATTTAATATTATTTTGA
1 TAAAATATTTTAATTTAATATTAATTTGA
8291183 TAAAATA
1 TAAAATA
8291190 ATTGATTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 6 0.19
29 23 0.72
30 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
TAAAATATTTTAATTTAATATTAATTTGA
Found at i:8291441 original size:31 final size:30
Alignment explanation
Indices: 8291319--8291456 Score: 113
Period size: 31 Copynumber: 4.6 Consensus size: 30
8291309 TTGAGTTGAT
* *
8291319 TATAATTTTAGTATTTAAATTTTAAAAAAATA
1 TATAA-TTTA-TATTTAAAATTTAAAATAATA
* * *
8291351 TA-AATTGATATTAAAAAATT-AAA-AATA
1 TATAATTTATATTTAAAATTTAAAATAATA
* * *
8291378 TATAATTTATATCATAAATTTTTAAATAATA
1 TATAATTTATAT-TTAAAATTTAAAATAATA
*
8291409 TATAATTTATACTTTAAAATTTAAAATTATA
1 TATAATTTATA-TTTAAAATTTAAAATAATA
*
8291440 TATTAAATTA-ATTTAAA
1 TA-TAATTTATATTTAAA
8291457 CTCTAATTTC
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
27 6 0.07
28 11 0.13
29 14 0.16
30 12 0.14
31 34 0.40
32 9 0.10
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
TATAATTTATATTTAAAATTTAAAATAATA
Found at i:8291818 original size:22 final size:21
Alignment explanation
Indices: 8291785--8291833 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
8291775 GTTTGAGATA
* *
8291785 TAAATTATATTTT-TTATTTTT
1 TAAAATATATTTTATT-TTTCT
8291806 TAAAATATCATTTTATTTTTCT
1 TAAAATAT-ATTTTATTTTTCT
8291828 TAAAAT
1 TAAAAT
8291834 TCAATTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 15 0.62
23 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TAAAATATATTTTATTTTTCT
Found at i:8298396 original size:21 final size:21
Alignment explanation
Indices: 8298364--8298415 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
8298354 ATCCATGACA
8298364 AAAGAGAAAAAGAAAAAAAAC
1 AAAGAGAAAAAGAAAAAAAAC
*
8298385 AAAG-GAATAAAGCAAAAAATA-
1 AAAGAGAA-AAAG-AAAAAAAAC
8298406 AAAGAGAAAA
1 AAAGAGAAAA
8298416 GATAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 14 0.52
22 10 0.37
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (21 bp):
AAAGAGAAAAAGAAAAAAAAC
Found at i:8298593 original size:13 final size:14
Alignment explanation
Indices: 8298568--8298596 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8298558 CACCTCCTTT
8298568 TTTTTCTCTTTTTA
1 TTTTTCTCTTTTTA
8298582 TTTTTCT-TTTTTA
1 TTTTTCTCTTTTTA
8298595 TT
1 TT
8298597 GGGCCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTCTTTTTA
Found at i:8302582 original size:33 final size:33
Alignment explanation
Indices: 8302537--8302606 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
8302527 ATAGATTTTT
*
8302537 TATT-AAA-TAATATAAATTATTATTTTAAAT-TA
1 TATTAAAATTAATAT-AATT-TTATTTAAAATATA
8302569 -ATTAAAATTAATATAATTTTATTTAAAATATA
1 TATTAAAATTAATATAATTTTATTTAAAATATA
8302601 TATTAA
1 TATTAA
8302607 TACATATTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
31 13 0.39
32 9 0.27
33 11 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
TATTAAAATTAATATAATTTTATTTAAAATATA
Found at i:8304446 original size:27 final size:28
Alignment explanation
Indices: 8304395--8304460 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
8304385 TATAATTAAA
*
8304395 AATTTTAATAAAAATTTTATATTGAATG
1 AATTTTAATAAAAATTATATATTGAATG
*
8304423 AATTTT-ATAAAAATTA-ATATTTGAATT
1 AATTTTAATAAAAATTATATA-TTGAATG
8304450 AA--TTAATAAAA
1 AATTTTAATAAAA
8304461 TAATGAGCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 2 0.06
26 9 0.26
27 17 0.50
28 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (28 bp):
AATTTTAATAAAAATTATATATTGAATG
Found at i:8306718 original size:21 final size:21
Alignment explanation
Indices: 8306679--8306719 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8306669 TCTAATAATT
*
8306679 TAAGATAAGTGACTGTAGGTC
1 TAAGATAAGTGACTATAGGTC
* *
8306700 TAAGATATGTGGCTATAGGT
1 TAAGATAAGTGACTATAGGT
8306720 TGTACATTCG
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:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (21 bp):
TAAGATAAGTGACTATAGGTC
Found at i:8307754 original size:2 final size:2
Alignment explanation
Indices: 8307747--8307776 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8307737 TTTAATGTAA
*
8307747 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8307777 GAATGGAAGT
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:8313834 original size:15 final size:16
Alignment explanation
Indices: 8313814--8313848 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
8313804 AAATACTAAT
*
8313814 ATTTTAAAAT-GATAC
1 ATTTTAAAATACATAC
8313829 ATTTTAAAATACATAC
1 ATTTTAAAATACATAC
8313845 ATTT
1 ATTT
8313849 CAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTTTAAAATACATAC
Found at i:8322781 original size:1 final size:1
Alignment explanation
Indices: 8322775--8322807 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
8322765 ACGGAATACG
8322775 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8322808 CTGTAAATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8325222 original size:1 final size:1
Alignment explanation
Indices: 8325218--8325243 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8325208 TTTTTTTTTT
8325218 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
8325244 AAGCAAGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:8327052 original size:36 final size:36
Alignment explanation
Indices: 8327003--8327076 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
8326993 AAGAATCATT
*
8327003 TGTTTAACCATCCTGATTCCTACCATGAACAAACAC
1 TGTTTAACCATCCTAATTCCTACCATGAACAAACAC
*
8327039 TGTTTAACTATCCTAATTCCTACCATGAACAAACAC
1 TGTTTAACCATCCTAATTCCTACCATGAACAAACAC
8327075 TG
1 TG
8327077 GACTATGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (36 bp):
TGTTTAACCATCCTAATTCCTACCATGAACAAACAC
Found at i:8335675 original size:2 final size:2
Alignment explanation
Indices: 8335668--8335705 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
8335658 CAGTAACTAG
* *
8335668 AT AT AT AT AT AT AT AT TT AT AT AT AT -T AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8335706 GATGATTTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8346510 original size:2 final size:2
Alignment explanation
Indices: 8346503--8346536 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
8346493 TGACATGAAT
*
8346503 TA TA TA TA TA TA TA TA TA TA TGA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA T
8346537 TCATACCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8347247 original size:41 final size:40
Alignment explanation
Indices: 8347190--8347271 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 40
8347180 CCAAGTTCCC
* *
8347190 TATAGATTATAGAGCCTGCTATTTGAGATGAAAATGTTCAA
1 TATAGACTATAGAGCCTCCTATTTGAG-TGAAAATGTTCAA
8347231 TATAGACTATAGAGCCTCCTATTTGAGTGAAAATGTTCAA
1 TATAGACTATAGAGCCTCCTATTTGAGTGAAAATGTTCAA
8347271 T
1 T
8347272 TCTACTAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 14 0.36
41 25 0.64
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (40 bp):
TATAGACTATAGAGCCTCCTATTTGAGTGAAAATGTTCAA
Found at i:8347497 original size:16 final size:16
Alignment explanation
Indices: 8347470--8347513 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
8347460 AAATATTATT
8347470 TTTAAA-ATATAAATA
1 TTTAAATATATAAATA
*
8347485 TTTAAATATATAATTA
1 TTTAAATATATAAATA
*
8347501 TATAAAATATATA
1 T-TTAAATATATA
8347514 TAAATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.24
16 9 0.36
17 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAAATATATAAATA
Found at i:8347502 original size:8 final size:8
Alignment explanation
Indices: 8347472--8347523 Score: 54
Period size: 8 Copynumber: 6.8 Consensus size: 8
8347462 ATATTATTTT
8347472 TAAA-ATA
1 TAAATATA
*
8347479 TAAATATT
1 TAAATATA
8347487 TAAATATA
1 TAAATATA
*
8347495 TAATTATA
1 TAAATATA
8347503 TAAA-ATA
1 TAAATATA
* *
8347510 TATATAAA
1 TAAATATA
8347518 TAAATA
1 TAAATA
8347524 ATTAAAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
7 10 0.28
8 26 0.72
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATATA
Found at i:8351924 original size:14 final size:14
Alignment explanation
Indices: 8351905--8351959 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
8351895 CAAAATTTGA
8351905 AATTTAATTTTTAT
1 AATTTAATTTTTAT
**
8351919 AATTTAATTCATAT
1 AATTTAATTTTTAT
8351933 AAATTTAATTTTGTATT
1 -AATTTAATTTT-TA-T
*
8351950 ATTTTAATTT
1 AATTTAATTT
8351960 AATAATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 12 0.36
15 9 0.27
16 11 0.33
17 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (14 bp):
AATTTAATTTTTAT
Found at i:8351937 original size:29 final size:30
Alignment explanation
Indices: 8351904--8351971 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
8351894 TCAAAATTTG
8351904 AAATTTAATTTT-TA-TAATTTAATTCATAT
1 AAATTTAATTTTGTATTAATTTAATTCA-AT
* *
8351933 AAATTTAATTTTGTATTATTTTAATTTAAT
1 AAATTTAATTTTGTATTAATTTAATTCAAT
*
8351963 AATTTTAAT
1 AAATTTAAT
8351972 CTAATTACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 12 0.35
30 12 0.35
31 10 0.29
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (30 bp):
AAATTTAATTTTGTATTAATTTAATTCAAT
Found at i:8352230 original size:21 final size:21
Alignment explanation
Indices: 8352188--8352245 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
8352178 TAATTAATAA
*
8352188 TAAAATTTATATTTTTTATTTT
1 TAAAA-TTAAATTTTTTATTTT
*
8352210 TAAAATTAGATTTTATT-TTTT
1 TAAAATTAAATTTT-TTATTTT
* *
8352231 GAAAAATAAATTTTT
1 TAAAATTAAATTTTT
8352246 AAATTTGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 23 0.74
22 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (21 bp):
TAAAATTAAATTTTTTATTTT
Found at i:8352430 original size:17 final size:17
Alignment explanation
Indices: 8352369--8352431 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 17
8352359 AAATTTAAAA
*
8352369 TTTTTAATATTTTA-AT
1 TTTTTAAGATTTTATAT
* * *
8352385 TTTTTTAGACTTCAT-T
1 TTTTTAAGATTTTATAT
*
8352401 TTTTTAAGTTTTTATAT
1 TTTTTAAGATTTTATAT
*
8352418 TTTTTAAAATTTTA
1 TTTTTAAGATTTTA
8352432 ACATTTTATT
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
16 22 0.63
17 13 0.37
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTTAAGATTTTATAT
Found at i:8353018 original size:21 final size:23
Alignment explanation
Indices: 8352964--8353039 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
8352954 AGAAAATATC
**
8352964 TAAAAAATTTGAATATTGAATTT
1 TAAAAAATTAAAATATTGAATTT
*
8352987 TTAAAAA-TAAAATA-TG-ATTT
1 TAAAAAATTAAAATATTGAATTT
*
8353007 TAAAAAATTAAAAAATATATGATTTT
1 TAAAAAATT--AAAATAT-TGAATTT
8353033 TAAAAAA
1 TAAAAAA
8353040 AATGTAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 10 0.24
21 3 0.07
22 5 0.12
23 12 0.29
25 2 0.05
26 10 0.24
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (23 bp):
TAAAAAATTAAAATATTGAATTT
Found at i:8353120 original size:23 final size:25
Alignment explanation
Indices: 8353077--8353138 Score: 83
Period size: 23 Copynumber: 2.6 Consensus size: 25
8353067 TTAATATGAA
8353077 AATTTTTTAAAAAATTATAAATATT
1 AATTTTTTAAAAAATTATAAATATT
* * *
8353102 GATTTTTTTAAAAA-T-TAAATTTT
1 AATTTTTTAAAAAATTATAAATATT
8353125 AATTTTTTAAAAAA
1 AATTTTTTAAAAAA
8353139 AAGTAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 19 0.59
24 1 0.03
25 12 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
AATTTTTTAAAAAATTATAAATATT
Found at i:8353145 original size:25 final size:24
Alignment explanation
Indices: 8353077--8353145 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
8353067 TTAATATGAA
*
8353077 AATTTTTTAAAAAATTATAAATATT
1 AATTTTTTAAAAAA-AATAAATATT
* * * *
8353102 GATTTTTT-TAAAAATTAAATTTT
1 AATTTTTTAAAAAAAATAAATATT
8353125 AATTTTTTAAAAAAAAGTAAA
1 AATTTTTTAAAAAAAA-TAAA
8353146 AAAATTAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
23 14 0.41
24 9 0.26
25 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (24 bp):
AATTTTTTAAAAAAAATAAATATT
Found at i:8353460 original size:18 final size:19
Alignment explanation
Indices: 8353429--8353473 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
8353419 TTTTAACGAA
8353429 TAAATT-AA-TAAAATTAG
1 TAAATTAAATTAAAATTAG
*
8353446 T-AATTAAATTAAAATTAT
1 TAAATTAAATTAAAATTAG
8353464 TAAATTAAAT
1 TAAATTAAAT
8353474 AATATGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.17
17 3 0.12
18 9 0.38
19 8 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAATTAAATTAAAATTAG
Found at i:8362954 original size:21 final size:21
Alignment explanation
Indices: 8362928--8362967 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
8362918 AAAGCAAAGA
8362928 GACCAAAAGAACATTGGACTT
1 GACCAAAAGAACATTGGACTT
8362949 GACCAAAAGAACATTGGAC
1 GACCAAAAGAACATTGGAC
8362968 ATTGGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (21 bp):
GACCAAAAGAACATTGGACTT
Found at i:8364494 original size:22 final size:24
Alignment explanation
Indices: 8364456--8364500 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
8364446 AGCAATTATT
8364456 TTTAAAAAATAATATTT-AATAAA
1 TTTAAAAAATAATATTTCAATAAA
*
8364479 TTTAAAAATTAA-ATTTCAATAA
1 TTTAAAAAATAATATTTCAATAA
8364501 CTATAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTAAAAAATAATATTTCAATAAA
Found at i:8365425 original size:7 final size:8
Alignment explanation
Indices: 8365399--8365427 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8365389 GTAGTAATAA
8365399 TAATATTT
1 TAATATTT
8365407 TAATATTT
1 TAATATTT
8365415 TAATA-TT
1 TAATATTT
8365422 TAATAT
1 TAATAT
8365428 AAATAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TAATATTT
Found at i:8370501 original size:26 final size:28
Alignment explanation
Indices: 8370455--8370508 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
8370445 TTTCTTCTTC
8370455 TTTCTAAAAAAGAAAAGAGAAAAGAACA
1 TTTCTAAAAAAGAAAAGAGAAAAGAACA
8370483 TTTCTAAAAAAG-AAA-AGAAAAGAACA
1 TTTCTAAAAAAGAAAAGAGAAAAGAACA
8370509 AACAAGGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 11 0.42
27 3 0.12
28 12 0.46
ACGTcount: A:0.65, C:0.07, G:0.13, T:0.15
Consensus pattern (28 bp):
TTTCTAAAAAAGAAAAGAGAAAAGAACA
Found at i:8371965 original size:22 final size:22
Alignment explanation
Indices: 8371940--8372010 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
8371930 TTTTTAAATA
8371940 TTTAATATTTAAAAATTCATAT
1 TTTAATATTTAAAAATTCATAT
* *
8371962 TTTAGA-ATTTTTAAAA-TCAAAT
1 TTTA-ATA-TTTAAAAATTCATAT
*
8371984 TTTAATTTTTCAAAAATTCAATAT
1 TTTAATATTT-AAAAATTC-ATAT
8372008 TTT
1 TTT
8372011 GAATTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 4 0.11
22 18 0.47
23 10 0.26
24 6 0.16
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (22 bp):
TTTAATATTTAAAAATTCATAT
Found at i:8372165 original size:8 final size:7
Alignment explanation
Indices: 8372138--8372162 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8372128 GATCAAAATA
8372138 TTTTAAT
1 TTTTAAT
8372145 TTTTAAT
1 TTTTAAT
8372152 TTTTAAT
1 TTTTAAT
8372159 TTTT
1 TTTT
8372163 TAAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:8372191 original size:28 final size:30
Alignment explanation
Indices: 8372159--8372221 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
8372149 AATTTTTAAT
*
8372159 TTTTTAAAATTTTTATAAAA-TTTTCTATA
1 TTTTTAAAATTTTTATAAAAGTTGTCTATA
* ** *
8372188 TTTTTTATTTTTTTTTAAAAGTTGTCTATA
1 TTTTTAAAATTTTTATAAAAGTTGTCTATA
8372218 TTTT
1 TTTT
8372222 AACATTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (30 bp):
TTTTTAAAATTTTTATAAAAGTTGTCTATA
Found at i:8372191 original size:30 final size:29
Alignment explanation
Indices: 8372149--8372221 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
8372139 TTTAATTTTT
8372149 AATTTT-TA-ATTTTTTAAAATTTTTATAA
1 AATTTTCTATATTTTTT-AAATTTTTATAA
** *
8372177 AATTTTCTATATTTTTTATTTTTTTTTAA
1 AATTTTCTATATTTTTTAAATTTTTATAA
*
8372206 AAGTTGTCTATATTTT
1 AA-TTTTCTATATTTT
8372222 AACATTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 6 0.16
29 13 0.34
30 19 0.50
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (29 bp):
AATTTTCTATATTTTTTAAATTTTTATAA
Found at i:8373720 original size:12 final size:12
Alignment explanation
Indices: 8373703--8373727 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8373693 TCATATTCAG
8373703 CATGCATAATTA
1 CATGCATAATTA
8373715 CATGCATAATTA
1 CATGCATAATTA
8373727 C
1 C
8373728 TGGTGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (12 bp):
CATGCATAATTA
Found at i:8377130 original size:20 final size:20
Alignment explanation
Indices: 8377102--8377139 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8377092 TTTGTTTGAA
*
8377102 TTTAATTAAATTTTATTTTT
1 TTTAATTAAATTTGATTTTT
*
8377122 TTTATTTAAATTTGATTT
1 TTTAATTAAATTTGATTT
8377140 GAAATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTAATTAAATTTGATTTTT
Found at i:8377186 original size:25 final size:25
Alignment explanation
Indices: 8377158--8377216 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
8377148 AATTAAATTA
*
8377158 ATATATAAAAATAAATTTAATT-TTT
1 ATATTTAAAAA-AAATTTAATTATTT
* *
8377183 ATATTTGATAAAAATTTAATTATTT
1 ATATTTAAAAAAAATTTAATTATTT
8377208 ATATTTAAA
1 ATATTTAAA
8377217 TTTGAGTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATATTTAAAAAAAATTTAATTATTT
Found at i:8377285 original size:16 final size:15
Alignment explanation
Indices: 8377254--8377287 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8377244 TAATTAAAAT
*
8377254 AATAAAAATTATTTA
1 AATAAAAATTAATTA
8377269 AATAAAAATTTAATTA
1 AATAAAAA-TTAATTA
8377285 AAT
1 AAT
8377288 TCATATAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAAAAATTAATTA
Found at i:8378740 original size:13 final size:14
Alignment explanation
Indices: 8378724--8378753 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8378714 TAACTGTACA
8378724 TATT-AAAAATATT
1 TATTCAAAAATATT
8378737 TATTCAAAAATATT
1 TATTCAAAAATATT
8378751 TAT
1 TAT
8378754 AATAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTCAAAAATATT
Found at i:8381458 original size:2 final size:2
Alignment explanation
Indices: 8381451--8381479 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8381441 GTTCAAGACA
8381451 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
8381480 AAACCATCAA
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:8383192 original size:3 final size:3
Alignment explanation
Indices: 8383186--8383225 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
8383176 ACAACAACAA
*
8383186 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAA CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG C
8383226 CACAGCCGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.35, G:0.30, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:8385103 original size:153 final size:153
Alignment explanation
Indices: 8384831--8385107 Score: 527
Period size: 153 Copynumber: 1.8 Consensus size: 153
8384821 TTCTCTTACA
* * *
8384831 AGATGGTGTGCCAGCAGCGTCCTGTAAAGCTAATTAACGTACAGAAGAGTTTGACCTGTTCATTG
1 AGATGGTGTGCCAACAGCATCCTGTAAAGCTAATTAACGTACAGAAGAGTTTGACCTGTACATTG
8384896 GCTGGATTGATTGTTGCTGCTGGTGAAATTTCAGTTCACCTAGCTTCATCATCAGGGGCATGTTT
66 GCTGGATTGATTGTTGCTGCTGGTGAAATTTCAGTTCACCTAGCTTCATCATCAGGGGCATGTTT
8384961 GTTCTCTTACAAGATGGATTATC
131 GTTCTCTTACAAGATGGATTATC
8384984 AGATGGTGTGCCAACAGCATCCTGTAAAGCTAATTAACGTACAGAAGAGTTTGACCTGTACATTG
1 AGATGGTGTGCCAACAGCATCCTGTAAAGCTAATTAACGTACAGAAGAGTTTGACCTGTACATTG
8385049 GCTGGATTGATTGTTGCTGCTGGTGAAATTTCAGTTCACCTAGCTTCATCATCAGGGGC
66 GCTGGATTGATTGTTGCTGCTGGTGAAATTTCAGTTCACCTAGCTTCATCATCAGGGGC
8385108 CTGCCTGGAT
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 121 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (153 bp):
AGATGGTGTGCCAACAGCATCCTGTAAAGCTAATTAACGTACAGAAGAGTTTGACCTGTACATTG
GCTGGATTGATTGTTGCTGCTGGTGAAATTTCAGTTCACCTAGCTTCATCATCAGGGGCATGTTT
GTTCTCTTACAAGATGGATTATC
Found at i:8401298 original size:2 final size:2
Alignment explanation
Indices: 8401291--8401315 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8401281 TTCTCTATCT
8401291 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 T
8401316 CCAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8406023 original size:21 final size:21
Alignment explanation
Indices: 8405981--8406023 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8405971 TGTAAAATAT
* * **
8405981 TAATAATATTTATTTATTTTA
1 TAATAAAATTTAATTAAATTA
8406002 TAATAAAATTTAATTAAATTA
1 TAATAAAATTTAATTAAATTA
8406023 T
1 T
8406024 TAAATATATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATAAAATTTAATTAAATTA
Found at i:8406229 original size:22 final size:22
Alignment explanation
Indices: 8406185--8406246 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
8406175 TTGAACTTAT
* *
8406185 TATAACAAATATTAGTTTAAAAA
1 TATAA-AAATTTTAATTTAAAAA
*
8406208 TATAAAAATTTTAATTTTAAAA
1 TATAAAAATTTTAATTTAAAAA
*
8406230 TGTAATAAAATTTTAAT
1 TAT-A-AAAATTTTAAT
8406247 CCACATGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 16 0.48
23 6 0.18
24 11 0.33
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (22 bp):
TATAAAAATTTTAATTTAAAAA
Found at i:8407358 original size:34 final size:35
Alignment explanation
Indices: 8407309--8407375 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8407299 AATTGTTTAT
*
8407309 TTTTTTTAAAGAGTGAAAGTATTATATAAAGGGCA
1 TTTTTTTAAAGAGTGAAAGTACTATATAAAGGGCA
*
8407344 TTTTTTT-AATAGTGAAAGTACTATATAAAGGG
1 TTTTTTTAAAGAGTGAAAGTACTATATAAAGGG
8407376 GAACCTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 23 0.77
35 7 0.23
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (35 bp):
TTTTTTTAAAGAGTGAAAGTACTATATAAAGGGCA
Found at i:8416962 original size:3 final size:3
Alignment explanation
Indices: 8416956--8416993 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
8416946 TTATTTAAGA
*
8416956 AGG AGG AGG AGG AGG AGG AGG A-G AGT AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
8416994 GTTTGGATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.34, C:0.00, G:0.63, T:0.03
Consensus pattern (3 bp):
AGG
Found at i:8422214 original size:48 final size:48
Alignment explanation
Indices: 8422138--8422230 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
8422128 AGAATCAGAA
*
8422138 TCTGAAAATGATATTGAGTGCCACACAAAACGAGAAGTGGAACAGTTT
1 TCTGAAAATGATATTGAGTGCCAAACAAAACGAGAAGTGGAACAGTTT
* * * *
8422186 TCTGAAAATGGTGTTGAGTGCCAAACAAAATGGGAAGTGGAACAG
1 TCTGAAAATGATATTGAGTGCCAAACAAAACGAGAAGTGGAACAG
8422231 AGTGATGGGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.22
Consensus pattern (48 bp):
TCTGAAAATGATATTGAGTGCCAAACAAAACGAGAAGTGGAACAGTTT
Found at i:8426703 original size:2 final size:2
Alignment explanation
Indices: 8426696--8426733 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8426686 TATAGCCTAT
8426696 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
8426734 AACCTATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8426901 original size:16 final size:17
Alignment explanation
Indices: 8426880--8426913 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8426870 TTATAATTTG
8426880 ATTTTTA-TCCAAATAA
1 ATTTTTATTCCAAATAA
*
8426896 ATTTTTATTTCAAATAA
1 ATTTTTATTCCAAATAA
8426913 A
1 A
8426914 AGAATGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTTTATTCCAAATAA
Found at i:8426970 original size:30 final size:29
Alignment explanation
Indices: 8426934--8427002 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
8426924 ATGTTAATTA
*
8426934 TTTATTTACATACAAATTAAAAGTTTAA-AG
1 TTTATTTA-ATACAAATTAAAA-ATTAAGAG
*
8426964 TTTATTTGAATATAAATTAAAAATTAAGAG
1 TTTATTT-AATACAAATTAAAAATTAAGAG
8426994 TTTATTTAA
1 TTTATTTAA
8427003 CTGTAAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 6 0.17
30 28 0.80
31 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.43
Consensus pattern (29 bp):
TTTATTTAATACAAATTAAAAATTAAGAG
Found at i:8433198 original size:17 final size:17
Alignment explanation
Indices: 8433169--8433201 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8433159 TGTCGGGGTT
8433169 GAAAGTAAAAAAGAAAA
1 GAAAGTAAAAAAGAAAA
8433186 GAAAG-AAAGAAAGAAA
1 GAAAGTAAA-AAAGAAA
8433202 GGAACAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
GAAAGTAAAAAAGAAAA
Found at i:8437523 original size:26 final size:26
Alignment explanation
Indices: 8437474--8437524 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
8437464 TTGTGTTTGA
**
8437474 GCCCATTGACGTTCGGGCTTGATTAG
1 GCCCATTGACGTTCGGGCCCGATTAG
*
8437500 GCCCATTGATGTTCGGGCCCGATTA
1 GCCCATTGACGTTCGGGCCCGATTA
8437525 AATCCATTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.29
Consensus pattern (26 bp):
GCCCATTGACGTTCGGGCCCGATTAG
Found at i:8437616 original size:3 final size:3
Alignment explanation
Indices: 8437608--8437647 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
8437598 TATTATATCA
8437608 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TATT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT T
8437648 TTTCATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:8447646 original size:21 final size:21
Alignment explanation
Indices: 8447581--8447646 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
8447571 TGATATTAAT
*
8447581 TTAATTAATTCAATTAATTTTTTA
1 TTAATTAAAT-AA-TAA-TTTTTA
**
8447605 TTAATTAAATAATAAAATTTA
1 TTAATTAAATAATAATTTTTA
*
8447626 TTAAGTTAAATTAT-ATTTTTA
1 TTAA-TTAAATAATAATTTTTA
8447647 ATTTTTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
21 13 0.37
22 11 0.31
23 2 0.06
24 9 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAATTAAATAATAATTTTTA
Found at i:8447701 original size:14 final size:14
Alignment explanation
Indices: 8447684--8447730 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
8447674 AAAATCATTC
8447684 AATAAAAATATTAA
1 AATAAAAATATTAA
**
8447698 AATATCAATATTAA
1 AATAAAAATATTAA
* *
8447712 ATTAAAAATTTTAA
1 AATAAAAATATTAA
8447726 AATAA
1 AATAA
8447731 CTTGTAATAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
AATAAAAATATTAA
Found at i:8448639 original size:2 final size:2
Alignment explanation
Indices: 8448632--8448662 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8448622 TTCCCATCTC
8448632 AT 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 AT A
8448663 AGTACCATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8454067 original size:51 final size:51
Alignment explanation
Indices: 8453990--8454096 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
8453980 GAGATTCAAC
* *
8453990 TGTTTTCATCTTCTTAGTAGCATCCGTGGTGTATTAGTAACAATTGTTTGG
1 TGTTTTCATCTTCTTAATAGCATCCGTGGTGTATTAGTAACAATTGTTTGA
* *
8454041 TGTTTTCATTTTCTTAATAGCGTCCGTGGTGTATTAGTAACAATTGTTTGA
1 TGTTTTCATCTTCTTAATAGCATCCGTGGTGTATTAGTAACAATTGTTTGA
8454092 TGTTT
1 TGTTT
8454097 GGACTGTGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.48
Consensus pattern (51 bp):
TGTTTTCATCTTCTTAATAGCATCCGTGGTGTATTAGTAACAATTGTTTGA
Found at i:8459265 original size:22 final size:22
Alignment explanation
Indices: 8459237--8459279 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8459227 TGTATATTTA
* *
8459237 TATTTGTATCTCTATAATTAAG
1 TATTTGTATCCCTAGAATTAAG
8459259 TATTTGTATCCCTAGAATTAA
1 TATTTGTATCCCTAGAATTAA
8459280 AGTTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:8459657 original size:2 final size:2
Alignment explanation
Indices: 8459650--8459676 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8459640 TTCCCATCCC
8459650 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
8459677 AATTTTGGCA
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:8464431 original size:17 final size:17
Alignment explanation
Indices: 8464409--8464446 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8464399 AGTGTAGTAA
*
8464409 TTAAAATATT-ATTTTAT
1 TTAAAAT-TTAATTTTAG
8464426 TTAAAATTTAATTTTAG
1 TTAAAATTTAATTTTAG
8464443 TTAA
1 TTAA
8464447 GTATTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTAAAATTTAATTTTAG
Found at i:8475511 original size:15 final size:16
Alignment explanation
Indices: 8475487--8475519 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8475477 TTAAATAAAA
8475487 TTTAAAATTT-TAATT
1 TTTAAAATTTATAATT
*
8475502 TTTAATATTTATAATT
1 TTTAAAATTTATAATT
8475518 TT
1 TT
8475520 ATTTTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAAAATTTATAATT
Found at i:8475511 original size:22 final size:21
Alignment explanation
Indices: 8475486--8475527 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
8475476 TTTAAATAAA
8475486 ATTTAAAATTTTAATTTTTAAT
1 ATTTAAAATTTT-ATTTTTAAT
*
8475508 ATTTATAATTTTATTTTTAA
1 ATTTAAAATTTTATTTTTAA
8475528 ATTACGATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTAAAATTTTATTTTTAAT
Found at i:8477508 original size:21 final size:20
Alignment explanation
Indices: 8477476--8477516 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8477466 ATAAAAAATC
*
8477476 TAAAAATTTTAATATAAAAA
1 TAAAAATTTTAAAATAAAAA
*
8477496 TAAAATTTCTTAAAATAAAAA
1 TAAAAATT-TTAAAATAAAAA
8477517 AAATCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAATTTTAAAATAAAAA
Found at i:8477629 original size:17 final size:16
Alignment explanation
Indices: 8477602--8477670 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
8477592 AAAAATGGAG
*
8477602 AAAAATA-AAAAATCAT
1 AAAAATATAAAAAT-TT
*
8477618 AAAAAT-TTAAAATTT
1 AAAAATATAAAAATTT
* *
8477633 AAAAAATCCTAAAAACTTA
1 -AAAAAT-ATAAAAA-TTT
8477652 AAAAATATAAAAATTT
1 AAAAATATAAAAATTT
8477668 AAA
1 AAA
8477671 TCTTCTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
15 1 0.02
16 22 0.52
17 6 0.14
18 11 0.26
19 2 0.05
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATATAAAAATTT
Found at i:8477655 original size:42 final size:40
Alignment explanation
Indices: 8477534--8477689 Score: 125
Period size: 42 Copynumber: 3.8 Consensus size: 40
8477524 AAAAACTTTT
* * * * * *
8477534 TAAAACTTTAAAAATTAAAAAATTTGAAACCATAAAAATAA
1 TAAAAATTTAAAATTTAAAAAATCTAAAAACTTAAAAAT-A
* * ** * *
8477575 AAAAAATTCAAAATTTAAAAAATGGAGAAAAATAAAAAATCA
1 TAAAAATTTAAAATTTAAAAAATCTA-AAAACTTAAAAAT-A
8477617 TAAAAATTTAAAATTTAAAAAATCCTAAAAACTTAAAAAATA
1 TAAAAATTTAAAATTTAAAAAAT-CTAAAAACTT-AAAAATA
*
8477659 TAAAAATTTAAATCTTCTAAAAAAT-TAAAAA
1 TAAAAATTTAAA-ATT-TAAAAAATCTAAAAA
8477690 GATAATATTT
Statistics
Matches: 91, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
41 19 0.21
42 55 0.60
43 9 0.10
44 8 0.09
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (40 bp):
TAAAAATTTAAAATTTAAAAAATCTAAAAACTTAAAAATA
Found at i:8477663 original size:25 final size:25
Alignment explanation
Indices: 8477602--8477665 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
8477592 AAAAATGGAG
*
8477602 AAAAATAAAAAATCATAAAAATTTA
1 AAAAATAAAAAATCATAAAAACTTA
** *
8477627 AAATTTAAAAAATCCTAAAAACTTA
1 AAAAATAAAAAATCATAAAAACTTA
8477652 AAAAATATAAAAAT
1 AAAAATA-AAAAAT
8477666 TTAAATCTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 26 0.81
26 6 0.19
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (25 bp):
AAAAATAAAAAATCATAAAAACTTA
Found at i:8477777 original size:17 final size:17
Alignment explanation
Indices: 8477749--8477787 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
8477739 AAATTAGATC
8477749 TTTTAAATTTTCAATATT
1 TTTTAAATTTTCAAT-TT
*
8477767 TTTTAAA-TTTCCATTT
1 TTTTAAATTTTCAATTT
8477783 TTTTA
1 TTTTA
8477788 GTTTTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 6 0.30
18 7 0.35
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTAAATTTTCAATTT
Done.