Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold89
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: 5168001
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 33045 characters in sequence are not A, C, G, or T
File 20 of 27
Found at i:3327036 original size:23 final size:22
Alignment explanation
Indices: 3326998--3327045 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
3326988 ATTATATATA
* *
3326998 TTAAAGTATTTTTATTTTTATT
1 TTAAAGTATTTTTATTATTAAT
3327020 TTAAAGTATTTTTTATTATTAAT
1 TTAAAGTA-TTTTTATTATTAAT
3327043 TTA
1 TTA
3327046 TTCATACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
TTAAAGTATTTTTATTATTAAT
Found at i:3331175 original size:14 final size:14
Alignment explanation
Indices: 3331137--3331182 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
3331127 TTATAGAAAG
*
3331137 ATAATAAAATTT-T
1 ATAATTAAATTTAT
3331150 AT-ATTAATATTTAT
1 ATAATTAA-ATTTAT
*
3331164 ATAATTAAATTTAA
1 ATAATTAAATTTAT
3331178 ATAAT
1 ATAAT
3331183 AATATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 6 0.21
14 13 0.46
15 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATTAAATTTAT
Found at i:3331186 original size:28 final size:27
Alignment explanation
Indices: 3331137--3331189 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
3331127 TTATAGAAAG
* *
3331137 ATAATAAAATTTTATATTAATATTTAT
1 ATAATAAAATTTAATAATAATATTTAT
*
3331164 ATAATTAAATTTAAATAATAATATTT
1 ATAATAAAATTT-AATAATAATATTT
3331190 TTAATATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATAATAAAATTTAATAATAATATTTAT
Found at i:3331187 original size:22 final size:22
Alignment explanation
Indices: 3331162--3331207 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3331152 ATTAATATTT
3331162 ATATAATTAAAT-TTAAATAATA
1 ATAT-ATTAAATATTAAATAATA
* *
3331184 ATATTTTTAATATTAAATAATA
1 ATATATTAAATATTAAATAATA
3331206 AT
1 AT
3331208 TTAAATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATATTAAATATTAAATAATA
Found at i:3331189 original size:14 final size:15
Alignment explanation
Indices: 3331152--3331189 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
3331142 AAAATTTTAT
*
3331152 ATTAATATTTATATA
1 ATTAATATTTAAATA
3331167 ATTAA-ATTTAAATA
1 ATTAATATTTAAATA
3331181 A-TAATATTT
1 ATTAATATTT
3331190 TTAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 13 0.62
15 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAATATTTAAATA
Found at i:3331950 original size:20 final size:20
Alignment explanation
Indices: 3331933--3331977 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
3331923 TTAATATATC
3331933 AATAT-TTAAATAATTATAA
1 AATATCTTAAATAATTATAA
3331952 AATATCTTAAATATAATTATAA
1 AATATCTT-AA-ATAATTATAA
3331974 AATA
1 AATA
3331978 ATAAAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 2 0.09
21 2 0.09
22 14 0.61
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATCTTAAATAATTATAA
Found at i:3332705 original size:24 final size:25
Alignment explanation
Indices: 3332661--3332712 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
3332651 ATAATTTTTT
*
3332661 TTTAATTTATTATTTTTAATAT-AC
1 TTTAATTTATTATTTTAAATATAAC
*
3332685 TTTAA-TTGTTATTTATAAATATAAC
1 TTTAATTTATTATTT-TAAATATAAC
3332710 TTT
1 TTT
3332713 TATAAGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 11 0.46
25 5 0.21
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAATTTATTATTTTAAATATAAC
Found at i:3339210 original size:2 final size:2
Alignment explanation
Indices: 3339205--3339229 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3339195 TTTTAACAAT
3339205 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
3339230 TATTTGAAGT
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:3339636 original size:28 final size:27
Alignment explanation
Indices: 3339566--3339646 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
3339556 ATCTCAAAAT
*
3339566 TTATAAAAATAAAAAATATTTTAAATATAA
1 TTATAAAAA-ATAAAATA--TTAAATATAA
3339596 TTATAAAAAATAAAATATATAAATATAA
1 TTATAAAAAATAAAATAT-TAAATATAA
* *
3339624 -TATAAATATATAAATTATTAAAT
1 TTATAAA-AAATAAAATATTAAAT
3339647 TTTATTAGCG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
27 12 0.26
28 18 0.39
29 7 0.15
30 9 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
TTATAAAAAATAAAATATTAAATATAA
Found at i:3339638 original size:27 final size:27
Alignment explanation
Indices: 3339536--3339646 Score: 79
Period size: 27 Copynumber: 4.1 Consensus size: 27
3339526 ATCTTAAAAT
*
3339536 ATATAATATAAAT-TATAAATATCTCAA
1 ATATAATATAAATATATAAATATAT-AA
* * * *
3339563 A-AT-TTATAAAAATAAAAAATATTTTAA
1 ATATAATATAAATAT-ATAAATA-TATAA
*
3339590 ATATAATTATAAA-AAATAAAATATATAA
1 ATATAA-TATAAATATAT-AAATATATAA
3339618 ATATAATATAAATATATAAAT-TATTAA
1 ATATAATATAAATATATAAATATA-TAA
3339645 AT
1 AT
3339647 TTTATTAGCG
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
25 6 0.09
26 5 0.08
27 25 0.38
28 18 0.27
29 6 0.09
30 6 0.09
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATAATATAAATATATAAATATATAA
Found at i:3339918 original size:39 final size:41
Alignment explanation
Indices: 3339833--3339916 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 41
3339823 TAAATATATT
*
3339833 AAAATATATATTATATATTATAAAAATATTAAAATTAATAA
1 AAAATATATATTATATATTATAAAAATATTAAAATAAATAA
* * *
3339874 AAAATATATA-TA-ATATTTTAAATATAATTATAATAAATAA
1 AAAATATATATTATATATTATAAAAAT-ATTAAAATAAATAA
3339914 AAA
1 AAA
3339917 TAAACTTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 11 0.29
40 17 0.45
41 10 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (41 bp):
AAAATATATATTATATATTATAAAAATATTAAAATAAATAA
Found at i:3342795 original size:6 final size:6
Alignment explanation
Indices: 3342784--3342829 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
3342774 AAATAAGATT
3342784 ATATAA ATATAA ATATAA ATAATTAAA ATATAA A-AT-A ATATAA ATA
1 ATATAA ATATAA ATATAA AT-A-T-AA ATATAA ATATAA ATATAA ATA
3342830 AATAAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
4 2 0.06
5 4 0.11
6 21 0.60
7 2 0.06
8 2 0.06
9 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:3342805 original size:16 final size:16
Alignment explanation
Indices: 3342786--3342838 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 16
3342776 ATAAGATTAT
3342786 ATAAATATAAATATAA
1 ATAAATATAAATATAA
*
3342802 ATAATTA-AAATATAA
1 ATAAATATAAATATAA
3342817 A-ATAATAT-AA-ATAA
1 ATA-AATATAAATATAA
3342831 ATAAATAT
1 ATAAATAT
3342839 TTTAAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 11 0.34
15 15 0.47
16 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAATATAAATATAA
Found at i:3342812 original size:21 final size:21
Alignment explanation
Indices: 3342792--3342831 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3342782 TTATATAAAT
*
3342792 ATAAATATAA-ATAATTAAAAT
1 ATAAA-ATAATATAAATAAAAT
3342813 ATAAAATAATATAAATAAA
1 ATAAAATAATATAAATAAA
3342832 TAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAAAATAATATAAATAAAAT
Found at i:3342829 original size:25 final size:27
Alignment explanation
Indices: 3342784--3342835 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 27
3342774 AAATAAGATT
*
3342784 ATATAAATATAAATATAAATAATTAAA
1 ATATAAATATAAATATAAATAAATAAA
3342811 ATATAAA-AT-AATATAAATAAATAAA
1 ATATAAATATAAATATAAATAAATAAA
3342836 TATTTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 15 0.62
26 2 0.08
27 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (27 bp):
ATATAAATATAAATATAAATAAATAAA
Found at i:3342914 original size:15 final size:15
Alignment explanation
Indices: 3342896--3342937 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 15
3342886 AAATATTTTA
3342896 AATATAAATAATAAT
1 AATATAAATAATAAT
3342911 AATAT-AATAA-AAT
1 AATATAAATAATAAT
3342924 -ATATAAAT-ATAAT
1 AATATAAATAATAAT
3342937 A
1 A
3342938 TAAAAACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 5 0.21
13 9 0.38
14 5 0.21
15 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATATAAATAATAAT
Found at i:3342935 original size:23 final size:25
Alignment explanation
Indices: 3342895--3342953 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 25
3342885 AAAATATTTT
3342895 AAATATAAATAATAATAATATAATA
1 AAATATAAATAATAATAATATAATA
*
3342920 AAATATATA-AAT-ATAATAT-A-A
1 AAATATAAATAATAATAATATAATA
*
3342941 AAACATAAATAAT
1 AAATATAAATAAT
3342954 TTGATTTCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 8 0.27
22 4 0.13
23 7 0.23
24 3 0.10
25 8 0.27
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATATAAATAATAATAATATAATA
Found at i:3342937 original size:18 final size:17
Alignment explanation
Indices: 3342880--3342935 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
3342870 TATTAAAATT
*
3342880 TATAAAAAATATTTTAAA
1 TATAAAAAATA-TATAAA
*
3342898 TATAAATAATA-AT-AA
1 TATAAAAAATATATAAA
3342913 TATAATAAAATATATAAA
1 TATAA-AAAATATATAAA
3342931 TATAA
1 TATAA
3342936 TATAAAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 7 0.22
16 6 0.19
17 2 0.06
18 17 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAAAATATATAAA
Found at i:3343556 original size:2 final size:2
Alignment explanation
Indices: 3343551--3343590 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3343541 AATAGAGAGA
3343551 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
3343591 GCTCTGCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3345093 original size:20 final size:20
Alignment explanation
Indices: 3345068--3345107 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3345058 GTATTGACAT
3345068 TGAAATTATTAAATTAGATG
1 TGAAATTATTAAATTAGATG
3345088 TGAAATTATTAAATTAGATG
1 TGAAATTATTAAATTAGATG
3345108 CTTCACCCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (20 bp):
TGAAATTATTAAATTAGATG
Found at i:3345448 original size:2 final size:2
Alignment explanation
Indices: 3345441--3345467 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3345431 AAATTGATCG
3345441 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3345468 GTTTGTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3345508 original size:2 final size:2
Alignment explanation
Indices: 3345501--3345539 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3345491 CTATAATGCG
3345501 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3345540 TGTTAAAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3346413 original size:29 final size:29
Alignment explanation
Indices: 3346371--3346462 Score: 130
Period size: 29 Copynumber: 3.2 Consensus size: 29
3346361 GTCGTACAGG
* * *
3346371 AATTGGTGGATTTGCTTTCTTTACCAATT
1 AATTGGTGGCTTTGCTTACTTTGCCAATT
*
3346400 AATTGGTGGCTTTGCTTCCTTTGCCAATT
1 AATTGGTGGCTTTGCTTACTTTGCCAATT
* *
3346429 AATCGGTGGCTTTGCTTACTTTGCCTATT
1 AATTGGTGGCTTTGCTTACTTTGCCAATT
3346458 AATTG
1 AATTG
3346463 ATGAGAGTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (29 bp):
AATTGGTGGCTTTGCTTACTTTGCCAATT
Found at i:3347580 original size:2 final size:2
Alignment explanation
Indices: 3347561--3347594 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
3347551 AAGGAGATCC
* *
3347561 AT AT AA AT AT AA 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
3347595 TATTTGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:3352170 original size:34 final size:33
Alignment explanation
Indices: 3352117--3352195 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
3352107 GATTTAATGA
3352117 TTTATCATTATTAACTAAATAAGAAATTTGATAG
1 TTTATCATTATTAACTAAAT-AGAAATTTGATAG
* * * **
3352151 TTTATCATTGTTAATTAAATGGTGATTTGATAG
1 TTTATCATTATTAACTAAATAGAAATTTGATAG
*
3352184 TTGATCATTATT
1 TTTATCATTATT
3352196 GATTTGATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 20 0.53
34 18 0.47
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (33 bp):
TTTATCATTATTAACTAAATAGAAATTTGATAG
Found at i:3352201 original size:22 final size:22
Alignment explanation
Indices: 3352173--3352219 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
3352163 AATTAAATGG
3352173 TGATTTGAT-AGTTGATCATTAT
1 TGATTTGATGA-TTGATCATTAT
*
3352195 TGATTTGATGATTTATCATTAT
1 TGATTTGATGATTGATCATTAT
3352217 TGA
1 TGA
3352220 CTAAATAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (22 bp):
TGATTTGATGATTGATCATTAT
Found at i:3352226 original size:89 final size:89
Alignment explanation
Indices: 3352070--3352261 Score: 339
Period size: 89 Copynumber: 2.2 Consensus size: 89
3352060 AACCTTAACA
*
3352070 TGTTGATTAAATGGTGATTTGATAGTTGATTATTATTGATTTAATGATTTATCATTATTAACTAA
1 TGTTGATTAAATGGTGATTTGATAGTTGATCATTATTGATTTAATGATTTATCATTATTAACTAA
3352135 ATAAGAAATTTGATAGTTTATCAT
66 ATAAGAAATTTGATAGTTTATCAT
* * *
3352159 TGTTAATTAAATGGTGATTTGATAGTTGATCATTATTGATTTGATGATTTATCATTATTGACTAA
1 TGTTGATTAAATGGTGATTTGATAGTTGATCATTATTGATTTAATGATTTATCATTATTAACTAA
*
3352224 ATAAGAAATTTGGTAGTTTATCAT
66 ATAAGAAATTTGATAGTTTATCAT
3352248 TGTTGATTAAATGG
1 TGTTGATTAAATGG
3352262 GTAATTTGGT
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 97 1.00
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (89 bp):
TGTTGATTAAATGGTGATTTGATAGTTGATCATTATTGATTTAATGATTTATCATTATTAACTAA
ATAAGAAATTTGATAGTTTATCAT
Found at i:3352244 original size:34 final size:34
Alignment explanation
Indices: 3352206--3352330 Score: 135
Period size: 34 Copynumber: 3.7 Consensus size: 34
3352196 GATTTGATGA
* *
3352206 TTTATCATTATTGACTAAATAAGAAATTTGGTAG
1 TTTATCATTGTTGACTAAATGAGAAATTTGGTAG
* * * *
3352240 TTTATCATTGTTGATTAAATGGGTAATTTGGTGG
1 TTTATCATTGTTGACTAAATGAGAAATTTGGTAG
* *
3352274 TTT-GCTATTGTTGACTAAATGAGAAATTTGGTAA
1 TTTATC-ATTGTTGACTAAATGAGAAATTTGGTAG
* * *
3352308 TTTGTCATTGTTAATTAAATGAG
1 TTTATCATTGTTGACTAAATGAG
3352331 TGATTTGATG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
33 1 0.01
34 72 0.97
35 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (34 bp):
TTTATCATTGTTGACTAAATGAGAAATTTGGTAG
Found at i:3352290 original size:68 final size:68
Alignment explanation
Indices: 3352216--3352344 Score: 195
Period size: 68 Copynumber: 1.9 Consensus size: 68
3352206 TTTATCATTA
* * * *
3352216 TTGACTAAATAAGAAATTTGGTAGTTTATCATTGTTGATTAAATGGGTAATTTGGTGGTTTGCTA
1 TTGACTAAATAAGAAATTTGGTAATTTATCATTGTTAATTAAATGAGTAATTTGATGGTTTGCTA
3352281 TTG
66 TTG
* * *
3352284 TTGACTAAATGAGAAATTTGGTAATTTGTCATTGTTAATTAAATGAGTGATTTGATGGTTT
1 TTGACTAAATAAGAAATTTGGTAATTTATCATTGTTAATTAAATGAGTAATTTGATGGTTT
3352345 TTACCTAACT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 54 1.00
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.44
Consensus pattern (68 bp):
TTGACTAAATAAGAAATTTGGTAATTTATCATTGTTAATTAAATGAGTAATTTGATGGTTTGCTA
TTG
Found at i:3352667 original size:19 final size:19
Alignment explanation
Indices: 3352643--3352699 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 19
3352633 TTGGTTGTCG
* *
3352643 AGGTACTATTTACGTGTAT
1 AGGTACTATTCACGTATAT
*
3352662 AGGTACTATTCACATATAT
1 AGGTACTATTCACGTATAT
*
3352681 AGGAACTATTCACGTATAT
1 AGGTACTATTCACGTATAT
3352700 GATACTGTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (19 bp):
AGGTACTATTCACGTATAT
Found at i:3356810 original size:22 final size:22
Alignment explanation
Indices: 3356782--3356828 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
3356772 GATTAAATGG
3356782 TGATTTGATAGTTTGCCATTGT
1 TGATTTGATAGTTTGCCATTGT
* *
3356804 TGATTTGGTGGTTTGCCATTGT
1 TGATTTGATAGTTTGCCATTGT
3356826 TGA
1 TGA
3356829 CTAAATGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.09, G:0.28, T:0.49
Consensus pattern (22 bp):
TGATTTGATAGTTTGCCATTGT
Found at i:3356852 original size:34 final size:34
Alignment explanation
Indices: 3356806--3356938 Score: 158
Period size: 34 Copynumber: 3.9 Consensus size: 34
3356796 GCCATTGTTG
* *
3356806 ATTTGGTGGTTTGCCATTGTTGACTAAATGGGAA
1 ATTTGGTAGTTTGCCATTATTGACTAAATGGGAA
* **
3356840 ATTTGGTAGTTTGCCATTATTGATTAAATGGGTG
1 ATTTGGTAGTTTGCCATTATTGACTAAATGGGAA
* * **
3356874 ATTTGGTGGTTTGCTATTATTGACTAAATGAAAA
1 ATTTGGTAGTTTGCCATTATTGACTAAATGGGAA
* * *
3356908 ATTTGGTAGTTTGCCGTTGTTGATTAAATGG
1 ATTTGGTAGTTTGCCATTATTGACTAAATGG
3356939 TGATTTGGTG
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 81 1.00
ACGTcount: A:0.25, C:0.07, G:0.26, T:0.42
Consensus pattern (34 bp):
ATTTGGTAGTTTGCCATTATTGACTAAATGGGAA
Found at i:3356885 original size:68 final size:67
Alignment explanation
Indices: 3356804--3356952 Score: 235
Period size: 68 Copynumber: 2.2 Consensus size: 67
3356794 TTGCCATTGT
* **
3356804 TGATTTGGTGGTTTGCCATTGTTGACTAAATGGGAAATTTGGTAGTTTGCCATTATTGATTAAAT
1 TGATTTGGTGGTTTGCCATTATTGACTAAATGAAAAATTTGGTAGTTTGCCATTATTGATTAAAT
3356869 GGG
66 -GG
* * *
3356872 TGATTTGGTGGTTTGCTATTATTGACTAAATGAAAAATTTGGTAGTTTGCCGTTGTTGATTAAAT
1 TGATTTGGTGGTTTGCCATTATTGACTAAATGAAAAATTTGGTAGTTTGCCATTATTGATTAAAT
3356937 GG
66 GG
3356939 TGATTTGGTGGTTT
1 TGATTTGGTGGTTT
3356953 TTACCTAACC
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
67 16 0.21
68 59 0.79
ACGTcount: A:0.23, C:0.06, G:0.28, T:0.44
Consensus pattern (67 bp):
TGATTTGGTGGTTTGCCATTATTGACTAAATGAAAAATTTGGTAGTTTGCCATTATTGATTAAAT
GG
Found at i:3358134 original size:2 final size:2
Alignment explanation
Indices: 3358121--3358153 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3358111 ATAGAGATCC
*
3358121 AT AT AA 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 AT A
3358154 CATGTCAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3364483 original size:19 final size:20
Alignment explanation
Indices: 3364451--3364497 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
3364441 TTGATATATG
3364451 AATTAATATATAAATAAATA
1 AATTAATATATAAATAAATA
*
3364471 AATT-ATATTTAAATAAATA
1 AATTAATATATAAATAAATA
*
3364490 ATTTAATA
1 AATTAATA
3364498 CATTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTAATATATAAATAAATA
Found at i:3364783 original size:21 final size:18
Alignment explanation
Indices: 3364745--3364792 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
3364735 ATTAATAATT
3364745 TATATATTTATATCATAAA
1 TATATATTTATATCAT-AA
*
3364764 TATATATTTATGTATTATAA
1 TATATATTTA--TATCATAA
3364784 T-TATATTTA
1 TATATATTTA
3364793 AAATATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 18 0.69
20 3 0.12
21 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
TATATATTTATATCATAA
Found at i:3364809 original size:22 final size:20
Alignment explanation
Indices: 3364776--3364826 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
3364766 TATATTTATG
*
3364776 TATTATAATTATATTTAAAATAT
1 TATTAT-ATT-TATATAAAA-AT
3364799 T-TTATATTTATATAAAAAT
1 TATTATATTTATATAAAAAT
3364818 TATTATATT
1 TATTATATT
3364827 AATAATGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 15 0.58
21 3 0.12
22 4 0.15
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTATATTTATATAAAAAT
Found at i:3364877 original size:11 final size:11
Alignment explanation
Indices: 3364863--3364931 Score: 79
Period size: 11 Copynumber: 6.5 Consensus size: 11
3364853 ATATTTTATG
*
3364863 TATTAATATTA
1 TATTTATATTA
3364874 TATTTATATTA
1 TATTTATATTA
*
3364885 TTTTTATATTA
1 TATTTATATTA
*
3364896 TA-TTATATTT
1 TATTTATATTA
* *
3364906 TA-ATAAATTA
1 TATTTATATTA
3364916 TATTTATATTA
1 TATTTATATTA
3364927 TATTT
1 TATTT
3364932 CAAAATTCTC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
10 16 0.33
11 32 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTATATTA
Found at i:3364881 original size:40 final size:41
Alignment explanation
Indices: 3364837--3364923 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 41
3364827 AATAATGATG
*
3364837 TTATAAAATTTTT-TA-TATATTTTATGTATTAAT-ATTATAT
1 TTATAAAATTTTTATATTATATTATAT-T-TTAATAATTATAT
**
3364877 TTATATTATTTTTATATTATATTATATTTTAATAAATTATAT
1 TTATAAAATTTTTATATTATATTATATTTTAAT-AATTATAT
3364919 TTATA
1 TTATA
3364924 TTATATTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 16 0.40
41 3 0.08
42 21 0.52
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (41 bp):
TTATAAAATTTTTATATTATATTATATTTTAATAATTATAT
Found at i:3364885 original size:5 final size:5
Alignment explanation
Indices: 3364863--3364930 Score: 64
Period size: 5 Copynumber: 12.8 Consensus size: 5
3364853 ATATTTTATG
* * *
3364863 TATTAA TATTA TATTTA TATTA TTTTTA TATTA TATTA TATTT TAATA
1 TATT-A TATTA TA-TTA TATTA -TATTA TATTA TATTA TATTA TATTA
*
3364911 AATTA TATTTA TATTA TATT
1 TATTA TA-TTA TATTA TATT
3364931 TCAAAATTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
5 33 0.65
6 18 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:3365105 original size:14 final size:14
Alignment explanation
Indices: 3365051--3365108 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
3365041 ATATAAATTT
*
3365051 TTATTTTTATTTATA
1 TTATTATTA-TTATA
3365066 TTTATTTATTTATT-TA
1 -TTA-TTA-TTATTATA
3365082 TTATTATTATTATA
1 TTATTATTATTATA
*
3365096 TTATTGTTATTAT
1 TTATTATTATTAT
3365109 GTACTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 5 0.14
14 17 0.46
15 3 0.08
16 5 0.14
17 4 0.11
18 3 0.08
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:3365418 original size:37 final size:40
Alignment explanation
Indices: 3365349--3365436 Score: 114
Period size: 38 Copynumber: 2.3 Consensus size: 40
3365339 TAAAATTTTT
*
3365349 AAAATAAAAAAATATAATAATATTATATTA-TTTTTTAAA
1 AAAATATAAAAATATAATAATATTATATTATTTTTTTAAA
*
3365388 AAAATATAAAAATA-ATTAAT-TTA-ATATATTTTTTTAAA
1 AAAATATAAAAATATAATAATATTATAT-TATTTTTTTAAA
3365426 AAAAT-TAAAAA
1 AAAATATAAAAA
3365437 GTATTTATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
36 2 0.04
37 11 0.24
38 19 0.42
39 13 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (40 bp):
AAAATATAAAAATATAATAATATTATATTATTTTTTTAAA
Found at i:3374569 original size:2 final size:2
Alignment explanation
Indices: 3374562--3374586 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3374552 CTTCTAACGG
3374562 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
3374587 GGGGGAAGAA
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3376935 original size:2 final size:2
Alignment explanation
Indices: 3376930--3376969 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3376920 ACATATATGC
3376930 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
3376970 CAACTACCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3379209 original size:2 final size:2
Alignment explanation
Indices: 3379202--3379238 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3379192 CACTTTTTGC
3379202 AT AT AT 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 AT AT AT A
3379239 GCTTTTCATT
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:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3381977 original size:11 final size:11
Alignment explanation
Indices: 3381901--3382094 Score: 88
Period size: 11 Copynumber: 17.8 Consensus size: 11
3381891 TTAATAATTT
*
3381901 TAAAGATAATA
1 TAAATATAATA
* *
3381912 AAAATATTATA
1 TAAATATAATA
*
3381923 TAAAAATAAT-
1 TAAATATAATA
*
3381933 TAAATTTAATA
1 TAAATATAATA
3381944 TAAA-AT--T-
1 TAAATATAATA
*
3381951 TAAAAATAATA
1 TAAATATAATA
3381962 TAAATATAATA
1 TAAATATAATA
3381973 TAAATTATTAATA
1 TAAA-TA-TAATA
*
3381986 T-ATTA-AAT-
1 TAAATATAATA
**
3381994 TTTATATAATA
1 TAAATATAATA
3382005 TAAATTATTACTATA
1 TAAA-TA-TA--ATA
* *
3382020 TTAAATTTTATA
1 -TAAATATAATA
3382032 TAAAATATAA-A
1 T-AAATATAATA
*
3382043 -AATATTTTAATA
1 TAA-A-TATAATA
*
3382055 -AAATAAAATA
1 TAAATATAATA
*
3382065 -AAAAATAATA
1 TAAATATAATA
3382075 TAAATATAATA
1 TAAATATAATA
3382086 TAAATATAA
1 TAAATATAA
3382095 AAATTATTAA
Statistics
Matches: 138, Mismatches: 25, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
7 4 0.03
8 4 0.03
9 7 0.05
10 27 0.20
11 62 0.45
12 17 0.12
13 8 0.06
14 1 0.01
15 4 0.03
16 4 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (11 bp):
TAAATATAATA
Found at i:3381992 original size:16 final size:16
Alignment explanation
Indices: 3381973--3382026 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
3381963 AAATATAATA
3381973 TAAATTATTAATATAT
1 TAAATTATTAATATAT
3381989 TAAATT-TT-ATATAAT
1 TAAATTATTAATAT-AT
*
3382004 ATAAATTATTACTATAT
1 -TAAATTATTAATATAT
3382021 TAAATT
1 TAAATT
3382027 TTATATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 4 0.12
15 4 0.12
16 18 0.55
17 4 0.12
18 3 0.09
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATTATTAATATAT
Found at i:3382000 original size:27 final size:27
Alignment explanation
Indices: 3381927--3382035 Score: 87
Period size: 32 Copynumber: 3.8 Consensus size: 27
3381917 ATTATATAAA
*
3381927 AATA-ATTAAATTTAATATAAAATT-TA
1 AATATATTAAATTTAATAT-AAATTATT
* *
3381953 AAAATAATATAAATATAATATAAATTATT
1 AATAT-AT-TAAATTTAATATAAATTATT
3381982 AATATATTAAATTTTATATAATATAAATTATT
1 AATATATTAAA---T-T-TAATATAAATTATT
* *
3382014 ACTATATTAAATTTTATATAAA
1 AATATATTAAATTTAATATAAA
3382036 ATATAAAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 17
0.74 0.08 0.19
Matches are distributed among these distances:
26 3 0.04
27 12 0.18
28 10 0.15
29 17 0.25
30 1 0.01
32 24 0.36
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (27 bp):
AATATATTAAATTTAATATAAATTATT
Found at i:3382005 original size:32 final size:32
Alignment explanation
Indices: 3381965--3382034 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
3381955 AATAATATAA
3381965 ATATAATATAAATTATTAATATATTAAATTTT
1 ATATAATATAAATTATTAATATATTAAATTTT
*
3381997 ATATAATATAAATTATTACTATATTAAATTTT
1 ATATAATATAAATTATTAATATATTAAATTTT
3382029 ATATAA
1 ATATAA
3382035 AATATAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
ATATAATATAAATTATTAATATATTAAATTTT
Found at i:3382062 original size:26 final size:27
Alignment explanation
Indices: 3382031--3382106 Score: 86
Period size: 26 Copynumber: 2.9 Consensus size: 27
3382021 TAAATTTTAT
* *
3382031 ATAAAATATAAAAAT-ATTTTAATAAA
1 ATAAAATATAAAAATAATATAAATAAA
*
3382057 ATAAAATA-AAAAATAATATAAATATA
1 ATAAAATATAAAAATAATATAAATAAA
*
3382083 ATATAAATATAAAAATTAT-TAAAT
1 ATA-AAATATAAAAATAATATAAAT
3382107 TTAAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
25 6 0.14
26 19 0.44
27 10 0.23
28 8 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
ATAAAATATAAAAATAATATAAATAAA
Found at i:3382597 original size:18 final size:17
Alignment explanation
Indices: 3382568--3382606 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
3382558 ATTTAAAAAA
*
3382568 ATTATATTTTATATAAT
1 ATTATATTTTATACAAT
3382585 ATTATATTTTTATACAAT
1 ATTATA-TTTTATACAAT
3382603 ATTA
1 ATTA
3382607 CAACAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATATTTTATACAAT
Found at i:3386716 original size:21 final size:21
Alignment explanation
Indices: 3386685--3386726 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3386675 AATTTTATTT
3386685 AAAATTAAATATAAATATTAAA
1 AAAATTAAATATAAAT-TTAAA
*
3386707 AAAATT-AATATTAATTTAAA
1 AAAATTAAATATAAATTTAAA
3386727 TAGTTTCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTAAATATAAATTTAAA
Found at i:3392482 original size:3 final size:3
Alignment explanation
Indices: 3392474--3392511 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
3392464 TGATTCTTGA
3392474 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3392512 AAAGAGTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3402107 original size:2 final size:2
Alignment explanation
Indices: 3402100--3402128 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3402090 ACATACAGGC
3402100 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
3402129 ATAAGATCTT
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:3404307 original size:8 final size:8
Alignment explanation
Indices: 3404294--3404327 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
3404284 AGTTGTAATG
3404294 TTTAAATT
1 TTTAAATT
3404302 TTTAAATT
1 TTTAAATT
*
3404310 TTAAAATT
1 TTTAAATT
*
3404318 TATAAATT
1 TTTAAATT
3404326 TT
1 TT
3404328 GTTTATGCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTTAAATT
Found at i:3413414 original size:3 final size:3
Alignment explanation
Indices: 3413406--3413467 Score: 61
Period size: 3 Copynumber: 19.7 Consensus size: 3
3413396 ATTATTTTTT
* * * *
3413406 ATA ATA ATA TTT ATA TTA AAA ATA ATA ATTA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA AT-A ATA ATA ATA
3413453 ATA ATA ATTA ATA AT
1 ATA ATA A-TA ATA AT
3413468 TATTTTTATA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 39 0.81
4 9 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:3413440 original size:7 final size:7
Alignment explanation
Indices: 3413428--3413469 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
3413418 ATATTAAAAA
3413428 TAATAAT
1 TAATAAT
3413435 TAATAAT
1 TAATAAT
*
3413442 AAATAA-
1 TAATAAT
3413448 TAATAA-
1 TAATAAT
3413454 TAATAAT
1 TAATAAT
3413461 TAATAAT
1 TAATAAT
3413468 TA
1 TA
3413470 TTTTTATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 11 0.34
7 21 0.66
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
TAATAAT
Found at i:3413442 original size:13 final size:13
Alignment explanation
Indices: 3413420--3413467 Score: 71
Period size: 13 Copynumber: 3.7 Consensus size: 13
3413410 TAATATTTAT
*
3413420 ATTAAAAATAATA
1 ATTAATAATAATA
3413433 ATTAATAATAAATA
1 ATTAATAAT-AATA
3413447 A-TAATAATAATA
1 ATTAATAATAATA
3413459 ATTAATAAT
1 ATTAATAAT
3413468 TATTTTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 5 0.16
13 22 0.69
14 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:3413648 original size:2 final size:2
Alignment explanation
Indices: 3413641--3413671 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3413631 GAACTCAAAT
3413641 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3413672 TAATCATATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3420064 original size:2 final size:2
Alignment explanation
Indices: 3420057--3420106 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
3420047 CATTTCATTC
3420057 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
3420099 AT AT AT AT
1 AT AT AT AT
3420107 TAAACACATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3422834 original size:35 final size:37
Alignment explanation
Indices: 3422753--3422834 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
3422743 AATTTTATAA
*
3422753 TTTTATTTAAGTTTTTATATTTTAATTACAATCAAAT
1 TTTTATTTAAGTTTTAATATTTTAATTACAATCAAAT
*
3422790 TATTT-TTTAAGTTTTAAT-TTTTACTTA-AAT-AAAT
1 T-TTTATTTAAGTTTTAATATTTTAATTACAATCAAAT
3422824 TTTTAATTTAA
1 TTTT-ATTTAA
3422835 ATTACTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
33 3 0.08
34 5 0.12
35 8 0.20
36 8 0.20
37 13 0.32
38 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (37 bp):
TTTTATTTAAGTTTTAATATTTTAATTACAATCAAAT
Found at i:3423264 original size:2 final size:2
Alignment explanation
Indices: 3423251--3423280 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3423241 TTTTTAATTA
*
3423251 AT AT AT AC 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
3423281 TAAAGCGTGT
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3424987 original size:42 final size:42
Alignment explanation
Indices: 3424935--3425030 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
3424925 TTGAGTAATA
* **
3424935 ATTTTTTTATTT-AAATATTATATTAATCTAATTTAACATT-TT
1 ATTTTATTATTTAAAATATTATAAAAATCT-ATTT-ACATTATT
*
3424977 ATTTTATTATTTAAAATATTTTAAAAATCTATTTACATTATT
1 ATTTTATTATTTAAAATATTATAAAAATCTATTTACATTATT
3425019 A-TTTATATATTT
1 ATTTTAT-TATTT
3425031 TATAATATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 10 0.21
42 23 0.49
43 14 0.30
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (42 bp):
ATTTTATTATTTAAAATATTATAAAAATCTATTTACATTATT
Found at i:3425534 original size:2 final size:2
Alignment explanation
Indices: 3425527--3425568 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3425517 CCTTCTGGTA
3425527 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
3425569 GCTTAATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3431843 original size:12 final size:12
Alignment explanation
Indices: 3431826--3431850 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3431816 AATTTATTGG
3431826 ATAATAATAAAA
1 ATAATAATAAAA
3431838 ATAATAATAAAA
1 ATAATAATAAAA
3431850 A
1 A
3431851 GATTTTGATC
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAATAATAAAA
Found at i:3435736 original size:27 final size:27
Alignment explanation
Indices: 3435704--3435758 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
3435694 TAATATCAAA
3435704 GTAAAGTTAATTATTAATATTTGAAGT
1 GTAAAGTTAATTATTAATATTTGAAGT
3435731 GTAAAGTTAATTATTAATATTTGAAGT
1 GTAAAGTTAATTATTAATATTTGAAGT
3435758 G
1 G
3435759 GGATTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (27 bp):
GTAAAGTTAATTATTAATATTTGAAGT
Found at i:3436056 original size:23 final size:23
Alignment explanation
Indices: 3436029--3436072 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
3436019 TTTATCTGCA
3436029 ATTTATTCTCGACCTTTATATGT
1 ATTTATTCTCGACCTTTATATGT
*
3436052 ATTTATTCTCTACCTTTATAT
1 ATTTATTCTCGACCTTTATAT
3436073 ATATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.55
Consensus pattern (23 bp):
ATTTATTCTCGACCTTTATATGT
Found at i:3437963 original size:2 final size:2
Alignment explanation
Indices: 3437956--3437981 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3437946 ATTCAAATTG
3437956 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
3437982 TTTGCATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3438486 original size:2 final size:2
Alignment explanation
Indices: 3438479--3438507 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3438469 TATAAACCCA
3438479 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
3438508 AAAATGTATG
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:3444154 original size:18 final size:18
Alignment explanation
Indices: 3444131--3444165 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3444121 ATTTTTTAAA
* *
3444131 AATATTATAGTTAAAAAG
1 AATATTAAAATTAAAAAG
3444149 AATATTAAAATTAAAAA
1 AATATTAAAATTAAAAA
3444166 TAAGTGAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AATATTAAAATTAAAAAG
Found at i:3447890 original size:6 final size:6
Alignment explanation
Indices: 3447879--3447913 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
3447869 AGCAAAGCGT
* *
3447879 CTCTCC CTCTCC CTCTCC CTCTCT CTCTCT CTCTC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTC
3447914 AAATCTAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (6 bp):
CTCTCC
Found at i:3450837 original size:2 final size:2
Alignment explanation
Indices: 3450830--3450867 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3450820 TCAAATTTCT
3450830 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3450868 CTGGTTTTGC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3452393 original size:2 final size:2
Alignment explanation
Indices: 3452386--3452417 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3452376 ATGAGTACTG
3452386 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
3452418 TCTTTTGCTT
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):
AT
Found at i:3453882 original size:2 final size:2
Alignment explanation
Indices: 3453875--3453908 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
3453865 ACTTTTAATT
3453875 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3453909 TCCAGGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3453896 original size:15 final size:15
Alignment explanation
Indices: 3453876--3453905 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3453866 CTTTTAATTT
3453876 ATATATATATATATA
1 ATATATATATATATA
3453891 ATATATATATATATA
1 ATATATATATATATA
3453906 TATTCCAGGT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:3453897 original size:17 final size:17
Alignment explanation
Indices: 3453875--3453907 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3453865 ACTTTTAATT
3453875 TATATATATATATATAA
1 TATATATATATATATAA
3453892 TATATATATATATATA
1 TATATATATATATATA
3453908 TTCCAGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATATATATATATAA
Found at i:3453897 original size:19 final size:19
Alignment explanation
Indices: 3453870--3453908 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3453860 ATGCAACTTT
*
3453870 TAATTTATATATATATATA
1 TAATATATATATATATATA
3453889 TAATATATATATATATATA
1 TAATATATATATATATATA
3453908 T
1 T
3453909 TCCAGGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATATATATATATATA
Found at i:3454359 original size:20 final size:20
Alignment explanation
Indices: 3454330--3454379 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
3454320 TCATTATATT
3454330 ATTTTCTTATGTTTTATTTTA
1 ATTTT-TTATGTTTTATTTTA
3454351 ATTTTTTATGTTTTATTTTA
1 ATTTTTTATGTTTTATTTTA
*
3454371 CTTTTTTAT
1 ATTTTTTAT
3454380 ATTATACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (20 bp):
ATTTTTTATGTTTTATTTTA
Found at i:3454404 original size:2 final size:2
Alignment explanation
Indices: 3454397--3454424 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3454387 TTATCTCTAA
3454397 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
3454425 TTGCTTTGAA
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:3468190 original size:35 final size:35
Alignment explanation
Indices: 3468151--3468223 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 35
3468141 AATTTTCTCA
3468151 ATTTT-ATATATT-TTTTTAAAA-AACTATTTACTTAT
1 ATTTTAATATATTATTTTTAAAATAA-TATTT--TTAT
*
3468186 ATTTTAATTTATTATTTTTAAAATAATATTTTTAT
1 ATTTTAATATATTATTTTTAAAATAATATTTTTAT
3468221 ATT
1 ATT
3468224 AAAAAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
35 12 0.35
36 6 0.18
37 14 0.41
38 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (35 bp):
ATTTTAATATATTATTTTTAAAATAATATTTTTAT
Found at i:3468822 original size:13 final size:14
Alignment explanation
Indices: 3468792--3468824 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3468782 TAAAATATAT
*
3468792 ATTAAATATTTTTT
1 ATTAAATATTTTTA
3468806 ATTAAAT-TTTTTA
1 ATTAAATATTTTTA
3468819 ATTAAA
1 ATTAAA
3468825 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTAAATATTTTTA
Found at i:3468833 original size:22 final size:20
Alignment explanation
Indices: 3468808--3468852 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
3468798 TATTTTTTAT
*
3468808 TAAATTTTTTAATTAAAATAAA
1 TAAATATTTT-ATT-AAATAAA
*
3468830 TAAATATTTTATTTAATAAA
1 TAAATATTTTATTAAATAAA
3468850 TAA
1 TAA
3468853 GATACTTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 3 0.14
22 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAATATTTTATTAAATAAA
Found at i:3470380 original size:19 final size:19
Alignment explanation
Indices: 3470353--3470408 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
3470343 TCAATGATAA
*
3470353 TAAATTTATTTATTTAAAT
1 TAAAATTATTTATTTAAAT
* **
3470372 TAAAATTATTTAATTATTT
1 TAAAATTATTTATTTAAAT
3470391 TAAAA-TATTTAATTTAAA
1 TAAAATTATTT-ATTTAAA
3470409 CTTTTAATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
18 5 0.17
19 24 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAAAATTATTTATTTAAAT
Found at i:3470746 original size:13 final size:14
Alignment explanation
Indices: 3470728--3470760 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
3470718 ATGATTACAA
3470728 TTTAAATTAAA-AT
1 TTTAAATTAAATAT
3470741 TTTAAATTAAATAT
1 TTTAAATTAAATAT
3470755 TTTAAA
1 TTTAAA
3470761 ATAATAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAAATTAAATAT
Found at i:3470766 original size:13 final size:13
Alignment explanation
Indices: 3470728--3470766 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
3470718 ATGATTACAA
*
3470728 TTTAAATTAAAAT
1 TTTAAATTAATAT
3470741 TTTAAATTAAATAT
1 TTTAAATT-AATAT
*
3470755 TTTAAAATAATA
1 TTTAAATTAATA
3470767 ATACGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTAAATTAATAT
Found at i:3470877 original size:24 final size:23
Alignment explanation
Indices: 3470824--3470877 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
3470814 TCAAATAATT
3470824 TTTTAATAATAAAAATTATTATTA
1 TTTT-ATAATAAAAATTATTATTA
* * *
3470848 TATTTATAATAATATTTTTTATTAA
1 T-TTTATAATAAAAATTATTATT-A
3470873 TTTTA
1 TTTTA
3470878 AAAATTCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTATAATAAAAATTATTATTA
Found at i:3470968 original size:42 final size:39
Alignment explanation
Indices: 3470890--3470964 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
3470880 AATTCCAACA
3470890 TAATAATATAATTAAAAAATACAAACATAATAATAACCC
1 TAATAATATAATTAAAAAATACAAACATAATAATAACCC
* ** *
3470929 TAATAATATTATTAAAAAATATTAACATTATAATAA
1 TAATAATATAATTAAAAAATACAAACATAATAATAA
3470965 TAACAGTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (39 bp):
TAATAATATAATTAAAAAATACAAACATAATAATAACCC
Found at i:3476754 original size:28 final size:28
Alignment explanation
Indices: 3476714--3476771 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
3476704 ATATGTATAT
*
3476714 ATATTCCATTGCCATTGGTGACAAATGA
1 ATATTCCATTGCCATCGGTGACAAATGA
*
3476742 ATATTCCATTGCCATCGTTGACAAATGA
1 ATATTCCATTGCCATCGGTGACAAATGA
3476770 AT
1 AT
3476772 CCCAAGTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (28 bp):
ATATTCCATTGCCATCGGTGACAAATGA
Found at i:3477243 original size:13 final size:13
Alignment explanation
Indices: 3477225--3477249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3477215 AATTGTATTT
3477225 AAATATAAATATC
1 AAATATAAATATC
3477238 AAATATAAATAT
1 AAATATAAATAT
3477250 GTATTTTATA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATAAATATC
Found at i:3477288 original size:30 final size:30
Alignment explanation
Indices: 3477254--3477318 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
3477244 AAATATGTAT
* * *
3477254 TTTATAAT-AATATATTTTAAAATATTTTTA
1 TTTATAATAAATAT-TTTTAAAAAAATTATA
*
3477284 TTTAT-TTAAATATTTTTAAAAAAATTATA
1 TTTATAATAAATATTTTTAAAAAAATTATA
3477313 TTTATA
1 TTTATA
3477319 TCACCTTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTATAATAAATATTTTTAAAAAAATTATA
Found at i:3478212 original size:15 final size:16
Alignment explanation
Indices: 3478189--3478221 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3478179 GAACTTTACT
3478189 ATTTATATT-AATATA
1 ATTTATATTAAATATA
*
3478204 ATTTTTATTAAATATA
1 ATTTATATTAAATATA
3478220 AT
1 AT
3478222 AATTTATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTATATTAAATATA
Found at i:3480539 original size:21 final size:21
Alignment explanation
Indices: 3480514--3480568 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
3480504 TTGTAGCGAA
3480514 CATCTTTTTTGCTAGAAGATC
1 CATCTTTTTTGCTAGAAGATC
*
3480535 CATCTTTCTTGCTAGAAGATC
1 CATCTTTTTTGCTAGAAGATC
3480556 CATCTTTCTTTGC
1 CATCTTT-TTTGC
3480569 AAATACCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.44
Consensus pattern (21 bp):
CATCTTTTTTGCTAGAAGATC
Found at i:3483597 original size:24 final size:25
Alignment explanation
Indices: 3483570--3483618 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
3483560 AATATAAAGG
3483570 AAAT-CACCATTTTTGACAAACACA
1 AAATACACCATTTTTGACAAACACA
3483594 AAATAACCACCATTTTTGACAAACA
1 AAAT-A-CACCATTTTTGACAAACA
3483619 AATGGGTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
27 18 0.82
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.24
Consensus pattern (25 bp):
AAATACACCATTTTTGACAAACACA
Found at i:3486038 original size:4 final size:4
Alignment explanation
Indices: 3486029--3486054 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3486019 TTCATCGCTG
3486029 GAAA GAAA GAAA GAAA GAAA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GA
3486055 GCTTGTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:3486270 original size:19 final size:20
Alignment explanation
Indices: 3486246--3486295 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
3486236 CATTATTTTC
*
3486246 ATATTATA-ATTTATTTAAA
1 ATATTATATATTTATATAAA
*
3486265 ATATTATATTTTTATATAAA
1 ATATTATATATTTATATAAA
3486285 AT-TTA-ATATTT
1 ATATTATATATTT
3486296 TAATAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATTATATATTTATATAAA
Found at i:3486284 original size:20 final size:20
Alignment explanation
Indices: 3486246--3486296 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
3486236 CATTATTTTC
* *
3486246 ATATTATA-ATTTATTTAAA
1 ATATTATATTTTTATATAAA
3486265 ATATTATATTTTTATATAAA
1 ATATTATATTTTTATATAAA
3486285 AT-TTAATATTTT
1 ATATT-ATATTTT
3486297 AATAATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTATATTTTTATATAAA
Found at i:3486340 original size:20 final size:20
Alignment explanation
Indices: 3486317--3486360 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3486307 ATTATATAAA
3486317 TTTTGATATATTTA-TTTATT
1 TTTTGA-ATATTTATTTTATT
*
3486337 TTTTTAATATTTATTTTATT
1 TTTTGAATATTTATTTTATT
3486357 TTTT
1 TTTT
3486361 ACATTTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTGAATATTTATTTTATT
Found at i:3486369 original size:19 final size:20
Alignment explanation
Indices: 3486324--3486360 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3486314 AAATTTTGAT
3486324 ATATTTA-TTTATTTTTTTA
1 ATATTTATTTTATTTTTTTA
3486343 ATATTTATTTTATTTTTT
1 ATATTTATTTTATTTTTT
3486361 ACATTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
ATATTTATTTTATTTTTTTA
Found at i:3486686 original size:2 final size:2
Alignment explanation
Indices: 3486679--3486708 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3486669 ATCAGACGCA
3486679 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
3486709 CATCAAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3487692 original size:2 final size:2
Alignment explanation
Indices: 3487685--3487722 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3487675 CAGTTGTAAC
*
3487685 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3487723 CTCGATATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3487785 original size:5 final size:5
Alignment explanation
Indices: 3487775--3487808 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
3487765 AGTGAGGGAA
3487775 GCAAG GCAAG GCAAG GCAAG GCAAG GCAAG GCAA
1 GCAAG GCAAG GCAAG GCAAG GCAAG GCAAG GCAA
3487809 ACTTAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.38, T:0.00
Consensus pattern (5 bp):
GCAAG
Found at i:3489091 original size:20 final size:20
Alignment explanation
Indices: 3489068--3489121 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
3489058 GGATACAATC
3489068 TTTAAATATATAAAAATATT
1 TTTAAATATATAAAAATATT
* *
3489088 TTTAAA-AAATTAAATATATT
1 TTTAAATATA-TAAAAATATT
3489108 TTTATTAATATATA
1 TTTA--AATATATA
3489122 TTTATATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 2 0.07
20 19 0.70
22 4 0.15
23 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAAATATATAAAAATATT
Found at i:3489122 original size:16 final size:15
Alignment explanation
Indices: 3489096--3489129 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3489086 TTTTTAAAAA
*
3489096 ATTAAATATATTTTT
1 ATTAAATATATTTAT
3489111 ATTAATATATATTTAT
1 ATTAA-ATATATTTAT
3489127 ATT
1 ATT
3489130 TGATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTAAATATATTTAT
Found at i:3491635 original size:24 final size:24
Alignment explanation
Indices: 3491608--3491655 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
3491598 TGCATGAGTG
3491608 TACTATTTATCCATATAAATGAAT
1 TACTATTTATCCATATAAATGAAT
3491632 TACTATTTATCCATATAAATGAAT
1 TACTATTTATCCATATAAATGAAT
3491656 CGCTATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (24 bp):
TACTATTTATCCATATAAATGAAT
Found at i:3491661 original size:24 final size:24
Alignment explanation
Indices: 3491609--3491661 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
3491599 GCATGAGTGT
*
3491609 ACTATTTATCCATATAAATGAATT
1 ACTATTTATCCATATAAATGAATC
3491633 ACTATTTATCCATATAAATGAATC
1 ACTATTTATCCATATAAATGAATC
*
3491657 GCTAT
1 ACTAT
3491662 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (24 bp):
ACTATTTATCCATATAAATGAATC
Found at i:3491671 original size:24 final size:24
Alignment explanation
Indices: 3491609--3491672 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
3491599 GCATGAGTGT
* * *
3491609 ACTATTTATCCATATAAATGAATT
1 ACTATATATACATATAAATGAATC
* *
3491633 ACTATTTATCCATATAAATGAATC
1 ACTATATATACATATAAATGAATC
* *
3491657 GCTATATATATATATA
1 ACTATATATACATATA
3491673 TATATAAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (24 bp):
ACTATATATACATATAAATGAATC
Found at i:3492587 original size:17 final size:17
Alignment explanation
Indices: 3492557--3492609 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
3492547 AAAAAATTAA
*
3492557 AATATAATATAAATTATT
1 AATATATTA-AAATTATT
3492575 AATATATTAAAATT-TT
1 AATATATTAAAATTATT
3492591 AA-ATATATAAATATTATT
1 AATATAT-TAAA-ATTATT
3492609 A
1 A
3492610 GGTCACCGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 4 0.13
16 8 0.26
17 8 0.26
18 11 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATATTAAAATTATT
Found at i:3492601 original size:16 final size:16
Alignment explanation
Indices: 3492541--3492601 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
3492531 TTTTAAATAT
* * *
3492541 AATATAAAAAAATTAA
1 AATATATAAAATTTTA
3492557 AATATAATATAAATTATT-
1 AATAT-ATA-AAATT-TTA
3492575 AATATATTAAAATTTTA
1 AATATA-TAAAATTTTA
3492592 AATATATAAA
1 AATATATAAA
3492602 TATTATTAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
16 11 0.30
17 14 0.38
18 11 0.30
19 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATATAAAATTTTA
Found at i:3492987 original size:7 final size:7
Alignment explanation
Indices: 3492968--3493007 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
3492958 TAAAAATAAT
3492968 ATTTAATA
1 ATTTAA-A
3492976 A-TTAAA
1 ATTTAAA
3492982 ATTTAAA
1 ATTTAAA
3492989 ATTTAAA
1 ATTTAAA
3492996 ATTTAAA
1 ATTTAAA
3493003 ATTTA
1 ATTTA
3493008 TATTTTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 2 0.06
7 28 0.90
8 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTTAAA
Found at i:3492987 original size:14 final size:13
Alignment explanation
Indices: 3492956--3493005 Score: 64
Period size: 14 Copynumber: 3.7 Consensus size: 13
3492946 TATAATTATT
* *
3492956 TTTAAAAATAATA
1 TTTAAAATTAAAA
3492969 TTTAATAATTAAAA
1 TTTAA-AATTAAAA
3492983 TTTAAAATTTAAAA
1 TTTAAAA-TTAAAA
3492997 TTTAAAATT
1 TTTAAAATT
3493006 TATATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 9 0.27
14 24 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAAATTAAAA
Found at i:3493720 original size:32 final size:32
Alignment explanation
Indices: 3493684--3493747 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
3493674 ATATACATGT
3493684 AGCAAATCTAATCAAGCCAAAAGTAATGTGAA
1 AGCAAATCTAATCAAGCCAAAAGTAATGTGAA
3493716 AGCAAATCTAATCAAGCCAAAAGTAATGTGAA
1 AGCAAATCTAATCAAGCCAAAAGTAATGTGAA
3493748 CTAACTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (32 bp):
AGCAAATCTAATCAAGCCAAAAGTAATGTGAA
Found at i:3494408 original size:13 final size:13
Alignment explanation
Indices: 3494382--3494413 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
3494372 ATAATATATT
3494382 AAATAATTTTAAA
1 AAATAATTTTAAA
3494395 AAAT-ATTTT-AA
1 AAATAATTTTAAA
3494406 AAATAATT
1 AAATAATT
3494414 ATTAGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.33
12 8 0.44
13 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATAATTTTAAA
Found at i:3494597 original size:23 final size:24
Alignment explanation
Indices: 3494571--3494623 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
3494561 TTTGGTACGT
3494571 TAAATTA-ATTAA-ATATTTTTTGA
1 TAAATTATATTAAGATATTTTTT-A
*
3494594 TAAA-TATTTTAAGATATTTTTTA
1 TAAATTATATTAAGATATTTTTTA
3494617 -AAATTAT
1 TAAATTAT
3494624 TTTATATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 5 0.19
23 12 0.46
24 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
TAAATTATATTAAGATATTTTTTA
Found at i:3494624 original size:23 final size:23
Alignment explanation
Indices: 3494579--3494627 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
3494569 GTTAAATTAA
3494579 TTAAATATTTTTTGATAAATATT
1 TTAAATATTTTTTGATAAATATT
3494602 TTAAGATATTTTTT-A-AAATTATT
1 TTAA-ATATTTTTTGATAAA-TATT
3494625 TTA
1 TTA
3494628 TATAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 3 0.12
23 12 0.50
24 9 0.38
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TTAAATATTTTTTGATAAATATT
Found at i:3494626 original size:13 final size:14
Alignment explanation
Indices: 3494608--3494649 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
3494598 TATTTTAAGA
3494608 TATTTTT-TAAAAT
1 TATTTTTATAAAAT
3494621 TATTTTATATAATAA-
1 TATTTT-TATAA-AAT
3494636 TATTTTTATAAAAT
1 TATTTTTATAAAAT
3494650 ACATTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 8 0.32
14 6 0.24
15 9 0.36
16 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTTTATAAAAT
Found at i:3494641 original size:15 final size:13
Alignment explanation
Indices: 3494607--3494650 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
3494597 ATATTTTAAG
3494607 ATATTTTT-TAAA
1 ATATTTTTATAAA
3494619 ATTATTTTATATAATA
1 A-TATTTT-TATAA-A
3494635 ATATTTTTATAAA
1 ATATTTTTATAAA
3494648 ATA
1 ATA
3494651 CATTATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 1 0.04
13 10 0.36
14 6 0.21
15 9 0.32
16 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTTTTATAAA
Found at i:3502760 original size:2 final size:2
Alignment explanation
Indices: 3502753--3502791 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
3502743 TGACCTGCAT
* *
3502753 AC AC AC AC AC AC GC AC GC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3502792 AAAAGGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.49, G:0.05, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3503629 original size:14 final size:15
Alignment explanation
Indices: 3503596--3503629 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3503586 AACTACCAAA
*
3503596 AAAATTTCAATCTCC
1 AAAATTTCAAACTCC
3503611 AAAATTTCAAACT-C
1 AAAATTTCAAACTCC
3503625 AAAAT
1 AAAAT
3503630 GATGAATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTTCAAACTCC
Found at i:3509282 original size:14 final size:16
Alignment explanation
Indices: 3509253--3509284 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3509243 TGATTCTTAA
3509253 AAAATATTATAAATTT
1 AAAATATTATAAATTT
3509269 AAAAT-TTA-AAATTT
1 AAAATATTATAAATTT
3509283 AA
1 AA
3509285 TATCTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTATAAATTT
Found at i:3511008 original size:23 final size:23
Alignment explanation
Indices: 3510962--3511008 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3510952 ATATAAAAAA
*
3510962 ATTTTAAAAAATTAAATATCTTC
1 ATTTTAAAAAATTAAATATATTC
*
3510985 ATTTTAAATAAA-TAACTATATTC
1 ATTTTAAA-AAATTAAATATATTC
3511008 A
1 A
3511009 ATACTTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTAAAAAATTAAATATATTC
Done.