Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold258
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: 5730937
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 25
Found at i:3973182 original size:2 final size:2
Alignment explanation
Indices: 3973170--3973212 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
3973160 CAATGTTTTG
*
3973170 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3973212 T
1 T
3973213 TAGAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3973866 original size:3 final size:3
Alignment explanation
Indices: 3973858--3973913 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
3973848 AACAAAAAAT
* *
3973858 TTA TTA TTA TTG TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3973906 TTA TTA TT
1 TTA TTA TT
3973914 TTGCTTACTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3978681 original size:3 final size:3
Alignment explanation
Indices: 3978675--3978705 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
3978665 GCGATGATGG
*
3978675 AGA AGA AGA AGA AGA AGA AGA AGA CGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
3978706 AATAATGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3988428 original size:2 final size:2
Alignment explanation
Indices: 3988421--3988470 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
3988411 TTCTTTCAAT
3988421 TC TC 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 TC TC
3988463 TC TC TC TC
1 TC TC TC TC
3988471 ACACACACAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3991122 original size:60 final size:60
Alignment explanation
Indices: 3991022--3991139 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
3991012 TTGAACTAAG
*
3991022 ACTAAAGGAGTAATATCACATTCAGATTCTTTGAAATAACTGCTTCTGCTGGGTTAGGAA
1 ACTAAAGGAGTAATATCACATTCAGATTCTATGAAATAACTGCTTCTGCTGGGTTAGGAA
* *
3991082 ACTAAAGGAGTAATATTACGTTCAGATTCTAT-AAACTAACTGCTTCTGCTGGGTTAGG
1 ACTAAAGGAGTAATATCACATTCAGATTCTATGAAA-TAACTGCTTCTGCTGGGTTAGG
3991140 TTGAATAAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 3 0.06
60 51 0.94
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (60 bp):
ACTAAAGGAGTAATATCACATTCAGATTCTATGAAATAACTGCTTCTGCTGGGTTAGGAA
Found at i:3995361 original size:3 final size:3
Alignment explanation
Indices: 3995353--3995384 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3995343 CCCTCCAAGT
3995353 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3995385 TGCTCCTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3995758 original size:2 final size:2
Alignment explanation
Indices: 3995751--3995784 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3995741 AAAAAGCGAG
3995751 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
3995785 GCTATCTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3996374 original size:19 final size:19
Alignment explanation
Indices: 3996352--3996389 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3996342 TAATAAATTT
3996352 TTAAAAAATTAAATTTAAA
1 TTAAAAAATTAAATTTAAA
*
3996371 TTAAAAAATTATATTTAAA
1 TTAAAAAATTAAATTTAAA
3996390 ATTCAATCTG
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAAAAATTAAATTTAAA
Found at i:4004847 original size:16 final size:15
Alignment explanation
Indices: 4004818--4004857 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
4004808 TAATATTAAA
4004818 ATATATATTTTT-ATT
1 ATATA-ATTTTTAATT
4004833 -TAT-ATTTTTAATT
1 ATATAATTTTTAATT
4004846 ATATAATTTTTA
1 ATATAATTTTTA
4004858 TAAATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.27
13 3 0.14
14 6 0.27
15 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATATAATTTTTAATT
Found at i:4004850 original size:14 final size:14
Alignment explanation
Indices: 4004819--4004857 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
4004809 AATATTAAAA
4004819 TATATATTTTT-AT
1 TATATATTTTTAAT
4004832 T-TATATTTTTAAT
1 TATATATTTTTAAT
4004845 TATATAATTTTTA
1 TATAT-ATTTTTA
4004858 TAAATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.39
13 4 0.17
14 3 0.13
15 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATATATTTTTAAT
Found at i:4006414 original size:14 final size:14
Alignment explanation
Indices: 4006395--4006437 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
4006385 AGTTATTTTT
4006395 TTTATAATTTAATA
1 TTTATAATTTAATA
**
4006409 TTTATAATTTTTTA
1 TTTATAATTTAATA
* *
4006423 TTTAAAAATTAATA
1 TTTATAATTTAATA
4006437 T
1 T
4006438 AATTTTTTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTATAATTTAATA
Found at i:4020246 original size:2 final size:2
Alignment explanation
Indices: 4020239--4020265 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4020229 AGGAAAACAA
4020239 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
4020266 ATCACTTTTG
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:4024044 original size:2 final size:2
Alignment explanation
Indices: 4024037--4024061 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4024027 TTAATTGCCG
4024037 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
4024062 GTTGCTAAAG
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:4024201 original size:2 final size:2
Alignment explanation
Indices: 4024194--4024227 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4024184 TCTGATCTAT
4024194 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
4024228 CTACGCAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4027234 original size:14 final size:15
Alignment explanation
Indices: 4027207--4027235 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4027197 AACAAAAAAA
4027207 ATTATTTAATATATT
1 ATTATTTAATATATT
4027222 ATTATTT-ATATATT
1 ATTATTTAATATATT
4027236 TACAATACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTTAATATATT
Found at i:4027616 original size:2 final size:2
Alignment explanation
Indices: 4027609--4027634 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4027599 TTGTACTTTC
4027609 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
4027635 AAGTATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4028475 original size:3 final size:3
Alignment explanation
Indices: 4028467--4028504 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4028457 AAACTTTGTT
4028467 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4028505 TATTATTATT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4028509 original size:3 final size:3
Alignment explanation
Indices: 4028503--4028532 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4028493 AATAATAATA
4028503 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4028533 CTCAAGTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4029100 original size:2 final size:2
Alignment explanation
Indices: 4029093--4029118 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4029083 TTATGCAAAC
4029093 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
4029119 CACACACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4033123 original size:2 final size:2
Alignment explanation
Indices: 4033116--4033157 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
4033106 TCTGAGTTGA
*
4033116 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4033158 TGTGTTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4034059 original size:22 final size:22
Alignment explanation
Indices: 4034034--4034076 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4034024 AAGATATAAT
4034034 ATTTAATAAATTTA-AAATTTTA
1 ATTTAA-AAATTTATAAATTTTA
*
4034056 ATTTTAAAATTTATAAATTTT
1 ATTTAAAAATTTATAAATTTT
4034077 TTTTATATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTAAAAATTTATAAATTTTA
Found at i:4037478 original size:2 final size:2
Alignment explanation
Indices: 4037471--4037511 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4037461 AGATCAATAC
4037471 AG AG 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 AG AG A
4037512 ACAATTAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4047992 original size:3 final size:3
Alignment explanation
Indices: 4047986--4048014 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4047976 CAGCATGCTT
4047986 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4048015 TTTAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4048995 original size:36 final size:38
Alignment explanation
Indices: 4048932--4049005 Score: 91
Period size: 36 Copynumber: 2.0 Consensus size: 38
4048922 TTATTTTTTT
* * *
4048932 ATATATTTTAAAATATACAAATAATAAAATTTTAAAAA
1 ATATATTTTAAAATATACAAAAAATAAAACTCTAAAAA
4048970 ATATATTTT-AAAT-TA-AAAAACATAAAACTCTAAAAA
1 ATATATTTTAAAATATACAAAAA-ATAAAACTCTAAAAA
4049006 TAAAAAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 4 0.12
36 15 0.47
37 4 0.12
38 9 0.28
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (38 bp):
ATATATTTTAAAATATACAAAAAATAAAACTCTAAAAA
Found at i:4049198 original size:13 final size:14
Alignment explanation
Indices: 4049180--4049213 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
4049170 AAGAAATATG
4049180 ATAAAAATA-AAAA
1 ATAAAAATAGAAAA
4049193 ATAAAAA-AGAAAA
1 ATAAAAATAGAAAA
4049206 ATAAAAAT
1 ATAAAAAT
4049214 CATGGGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 18 0.95
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
ATAAAAATAGAAAA
Found at i:4049936 original size:27 final size:27
Alignment explanation
Indices: 4049901--4049982 Score: 78
Period size: 32 Copynumber: 2.9 Consensus size: 27
4049891 TTAATTATAT
4049901 TATTTAAATTAAATATTAAAATATTT-
1 TATTTAAATTAAATATTAAAATATTTA
4049927 TAATTTAAATTATTTAATAATTTAAAATATTTA
1 T-ATTTAAATTA---AAT-A-TTAAAATATTTA
*
4049960 TATTTAAATTTAA-ATTAATAATA
1 TATTTAAATTAAATATTAA-AATA
4049983 ATCCAATGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 15
0.75 0.02 0.24
Matches are distributed among these distances:
26 5 0.11
27 15 0.32
29 2 0.04
30 3 0.06
31 1 0.02
32 20 0.43
33 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TATTTAAATTAAATATTAAAATATTTA
Found at i:4049945 original size:22 final size:22
Alignment explanation
Indices: 4049902--4049952 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
4049892 TAATTATATT
4049902 ATTTAAATTAAATATTAAAATA
1 ATTTAAATTAAATATTAAAATA
* * *
4049924 TTTTAATTTAAATTATT-TAATA
1 ATTTAAATTAAA-TATTAAAATA
4049946 ATTTAAA
1 ATTTAAA
4049953 ATATTTATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTAAATTAAATATTAAAATA
Found at i:4049947 original size:17 final size:16
Alignment explanation
Indices: 4049916--4049969 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
4049906 AAATTAAATA
*
4049916 TTAAAATATTT-TAAT
1 TTAAATTATTTATAAT
4049931 TTAAATTATTTAATAAT
1 TTAAATTATTT-ATAAT
*
4049948 TTAAAATATTTAT-AT
1 TTAAATTATTTATAAT
4049963 TTAAATT
1 TTAAATT
4049970 TAAATTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 18 0.53
16 2 0.06
17 14 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAATTATTTATAAT
Found at i:4052306 original size:12 final size:12
Alignment explanation
Indices: 4052289--4052313 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4052279 TAATGTATGC
4052289 TTTTTAACTTAT
1 TTTTTAACTTAT
4052301 TTTTTAACTTAT
1 TTTTTAACTTAT
4052313 T
1 T
4052314 ATCTTTATCG
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTAACTTAT
Found at i:4056933 original size:8 final size:9
Alignment explanation
Indices: 4056918--4057013 Score: 64
Period size: 8 Copynumber: 11.4 Consensus size: 9
4056908 TAATTACATT
4056918 ATATAAATA
1 ATATAAATA
4056927 A-ATAAAT-
1 ATATAAATA
4056934 ATATAAA-A
1 ATATAAATA
*
4056942 ATATATATA
1 ATATAAATA
4056951 ATATAAAT-
1 ATATAAATA
*
4056959 -TATTAATA
1 ATATAAATA
* *
4056967 TATTTAAATT
1 -ATATAAATA
4056977 ATATAAAT-
1 ATATAAATA
4056985 ATAT-AATA
1 ATATAAATA
* *
4056993 TTTTAAATA
1 ATATAAATA
*
4057002 A-ATAAATT
1 ATATAAATA
4057010 ATAT
1 ATAT
4057014 CTGAATTGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
7 10 0.15
8 29 0.44
9 22 0.33
10 5 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATAAATA
Found at i:4056947 original size:12 final size:13
Alignment explanation
Indices: 4056918--4057002 Score: 51
Period size: 12 Copynumber: 7.1 Consensus size: 13
4056908 TAATTACATT
*
4056918 ATATAAATAAATA
1 ATATATATAAATA
4056931 A-ATATATAAA-A
1 ATATATATAAATA
4056942 ATATATATAATATA
1 ATATATATAA-ATA
4056956 A-AT-TAT---TA
1 ATATATATAAATA
* *
4056964 ATATATTTAAATT
1 ATATATATAAATA
* *
4056977 ATATAAATATATA
1 ATATATATAAATA
*
4056990 ATAT-TTTAAATA
1 ATATATATAAATA
4057002 A
1 A
4057003 ATAAATTATA
Statistics
Matches: 54, Mismatches: 10, Indels: 17
0.67 0.12 0.21
Matches are distributed among these distances:
8 3 0.06
9 2 0.04
10 2 0.04
11 2 0.04
12 25 0.46
13 18 0.33
14 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATATATAAATA
Found at i:4056974 original size:17 final size:19
Alignment explanation
Indices: 4056954--4056988 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
4056944 ATATATAATA
4056954 TAAATTAT-T-AATATATT
1 TAAATTATATAAATATATT
4056971 TAAATTATATAAATATAT
1 TAAATTATATAAATATAT
4056989 AATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAATTATATAAATATATT
Found at i:4056979 original size:24 final size:25
Alignment explanation
Indices: 4056951--4057013 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 25
4056941 AATATATATA
4056951 ATATAAATTAT-TAATATATTTAAATT
1 ATATAAATTATATAATAT-TTTAAA-T
4056977 ATATAAA-TATATAATATTTTAAAT
1 ATATAAATTATATAATATTTTAAAT
*
4057001 AAATAAATTATAT
1 ATATAAATTATAT
4057014 CTGAATTGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
24 7 0.21
25 14 0.41
26 13 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATAAATTATATAATATTTTAAAT
Found at i:4056980 original size:33 final size:33
Alignment explanation
Indices: 4056929--4057013 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 33
4056919 TATAAATAAA
* *
4056929 TAAATATATAAAAATATATATAATATA-AAT-TAT
1 TAAATAAAT-AAATTATATA-AATATATAATATAT
** *
4056962 TAATATATTTAAATTATATAAATATATAATATTT
1 TAA-ATAAATAAATTATATAAATATATAATATAT
4056996 TAAATAAATAAATTATAT
1 TAAATAAATAAATTATAT
4057014 CTGAATTGTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 6 0.14
33 28 0.64
34 10 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
TAAATAAATAAATTATATAAATATATAATATAT
Found at i:4057652 original size:24 final size:24
Alignment explanation
Indices: 4057615--4057660 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4057605 ACCCTTCAAC
* *
4057615 TAACATACTAATAATTTTTACAAT
1 TAACACACTAATAACTTTTACAAT
*
4057639 TAACACACTGATAACTTTTACA
1 TAACACACTAATAACTTTTACA
4057661 CGAAAAAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.37
Consensus pattern (24 bp):
TAACACACTAATAACTTTTACAAT
Found at i:4058982 original size:2 final size:2
Alignment explanation
Indices: 4058975--4058999 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4058965 GATTCGTGGC
4058975 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 A
4059000 CACACCAAGC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4059342 original size:11 final size:11
Alignment explanation
Indices: 4059304--4059342 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
4059294 GGAAAATTGA
*
4059304 TTTCTTTTTTT
1 TTTCTTTTGTT
*
4059315 TTTCTCTTGTT
1 TTTCTTTTGTT
4059326 TTTCTTTTGTT
1 TTTCTTTTGTT
4059337 TTTCTT
1 TTTCTT
4059343 GTTATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTCTTTTGTT
Found at i:4059342 original size:20 final size:22
Alignment explanation
Indices: 4059304--4059345 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4059294 GGAAAATTGA
*
4059304 TTTCTTTTTTTTTTCTCTTGTT
1 TTTCTTTTTGTTTTCTCTTGTT
4059326 TTTC-TTTTGTTTT-TCTTGTT
1 TTTCTTTTTGTTTTCTCTTGTT
4059346 ATTAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (22 bp):
TTTCTTTTTGTTTTCTCTTGTT
Found at i:4059964 original size:4 final size:4
Alignment explanation
Indices: 4059955--4059985 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4059945 CTTTATAAAT
4059955 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
4059986 TGGTATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:4060240 original size:2 final size:2
Alignment explanation
Indices: 4060233--4060258 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4060223 TCTTGTTTAC
4060233 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
4060259 TCTTTTTCAA
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:4061114 original size:20 final size:21
Alignment explanation
Indices: 4061072--4061116 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
4061062 GTAGTTCACT
*
4061072 ATTTTAAAATCTGAATCCAAA
1 ATTTTAAAATCTGAAGCCAAA
* *
4061093 ATTTTCAAAT-TGAAGCCTAA
1 ATTTTAAAATCTGAAGCCAAA
4061113 ATTT
1 ATTT
4061117 CTAGTAATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (21 bp):
ATTTTAAAATCTGAAGCCAAA
Found at i:4061331 original size:17 final size:18
Alignment explanation
Indices: 4061298--4061332 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4061288 AAAAAATATA
4061298 AAATATTAATATTTTTAT
1 AAATATTAATATTTTTAT
*
4061316 AAATATTTAT-TTTTTAT
1 AAATATTAATATTTTTAT
4061333 TTTTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AAATATTAATATTTTTAT
Found at i:4062216 original size:152 final size:152
Alignment explanation
Indices: 4062049--4063270 Score: 1753
Period size: 152 Copynumber: 7.9 Consensus size: 152
4062039 CTATGCATGT
* * * *
4062049 ATTATTAGTCAAATAAAATAAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGATATATTTAGTTAATT
*
4062114 ATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
4062179 TCAAATATCTATTCACGCATAC
131 TCAAATATCTATTCACGCATAC
* ** * *
4062201 ATTATTAGTCAAATAAAGTTAAAATCTTATCATACGCCACTTTCTTACGATATGTTTAATTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGATATATTTAGTTAATT
* * * * *
4062266 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAGAATGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
* **
4062331 TCAAATATCTATCCACGCATGT
131 TCAAATATCTATTCACGCATAC
* *
4062353 ATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGATATATTTAGTTAATT
*
4062418 ATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
4062483 TCAAATATCTATTCACGCATAC
131 TCAAATATCTATTCACGCATAC
* * * *
4062505 ATTATTAGTCAAATAAAGTTAAAATCTTATCATACGTCACTTTCTTACGATATGTTTAATTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGATATATTTAGTTAATT
* * * * *
4062570 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAGAATGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
*
4062635 TCAAATATCTATCCACGCATGTATTATTTGATCAAATAC
131 TCAAATATCTATTCA--C-----------G--C-A-TAC
* *
4062674 ATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGATATATTTAGTTAATT
*
4062739 ATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
4062804 TCAAATATCTATTCACGCATAC
131 TCAAATATCTATTCACGCATAC
* * * *
4062826 ATTATTAGTCAAATAAAGTTAAAATCTTATCATACGTCACTTTCTTACGATATGTTTAATTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGATATATTTAGTTAATT
* * * * *
4062891 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAGAATGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
* **
4062956 TCAAATATCTA-TCTATGCATGT
131 TCAAATATCTATTC-ACGCATAC
* * *
4062978 ATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTGTATTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGATATATTTAGTTAATT
* *
4063043 ATAATAAATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
4063108 TCAAATATCTATTCACGCATAC
131 TCAAATATCTATTCACGCATAC
* * *
4063130 ATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGATATATTTAGTTAATT
* * * *
4063195 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAAAATGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
4063260 TCAAATATCTA
131 TCAAATATCTA
4063271 CCAACGCATG
Statistics
Matches: 947, Mismatches: 104, Indels: 38
0.87 0.10 0.03
Matches are distributed among these distances:
151 2 0.00
152 800 0.84
153 3 0.00
154 2 0.00
156 1 0.00
165 1 0.00
167 2 0.00
168 1 0.00
169 135 0.14
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (152 bp):
ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGATATATTTAGTTAATT
ATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
TCAAATATCTATTCACGCATAC
Found at i:4062592 original size:304 final size:304
Alignment explanation
Indices: 4062043--4063287 Score: 2204
Period size: 304 Copynumber: 4.0 Consensus size: 304
4062033 AAATATCTAT
* *
4062043 GCATGTATTATTAGTCAAATAAAATAAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAG
1 GCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAG
4062108 TTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTG
66 TTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTG
*
4062173 ATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACGC
131 ATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACGT
4062238 CACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
196 CACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
4062303 ATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCAC
261 ATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCAC
4062347 GCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAG
1 GCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAG
4062412 TTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTG
66 TTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTG
4062477 ATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACGT
131 ATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACGT
4062542 CACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
196 CACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
4062607 ATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCAC
261 ATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCAC
4062651 GCATGTATTATTTGATCAAATACATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTT
1 GC-------A--TG------T--ATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTT
4062716 TCTTACGGTATATTTAGTTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGC
49 TCTTACGGTATATTTAGTTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGC
4062781 ACAAAAAGATTCAACTGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTT
114 ACAAAAAGATTCAACTGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTT
4062846 AAAATCTTATCATACGTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAG
179 AAAATCTTATCATACGTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAG
* *
4062911 TCAAGTTAAATTAATGCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCTAT
244 TCAAGTTAAATTAATGCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCAC
*
4062972 GCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTGTATTTAG
1 GCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAG
** *
4063037 TTAATTATAATAAATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTA
66 TTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTG
* *
4063102 ATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGT
131 ATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACGT
*
4063167 CACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
196 CACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
*
4063232 ATGGCATAAAATGATTCAACTGATTTGATCAAATATCTA-CCAAC
261 ATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCC-AC
4063276 GCATGTATTATT
1 GCATGTATTATT
4063288 TGATTGATTT
Statistics
Matches: 908, Mismatches: 15, Indels: 36
0.95 0.02 0.04
Matches are distributed among these distances:
303 1 0.00
304 601 0.66
306 1 0.00
311 1 0.00
312 2 0.00
313 2 0.00
314 1 0.00
319 1 0.00
321 298 0.33
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (304 bp):
GCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAG
TTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTG
ATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACGT
CACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
ATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCAC
Found at i:4063238 original size:625 final size:615
Alignment explanation
Indices: 4062049--4065989 Score: 4215
Period size: 625 Copynumber: 6.2 Consensus size: 615
4062039 CTATGCATGT
* * *
4062049 ATTATTAGTCAAATAAAATAAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
* *
4062114 ATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
* **
4062179 TCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACGCCACTTT
131 TCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTT
* * *
4062244 CTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCA
196 CTTACGATATATTTAATTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCA
* * * * **
4062309 TAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCATGTATTATTAGTCAAATAAAGTTA
261 CAAAAAGATTCAACTGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTA
*
4062374 AAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATTTTATTTAGT
326 AAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAGT
*
4062439 CAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATCTATTCACGCATA
391 CAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTATTCACGCATA
* *
4062504 CATTATTAGTCAAATAAAGTTAAAATCTTATCATACGTCACTTTCTTACGATATGTTTAATTAAT
456 CATTATTAGTCAAATAAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTTTAGTTAAT
* * *
4062569 TATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAGAATGATTCAACTGATTTG
521 TATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCACAAAAAGATTCAACTGATTTG
4062634 ATCAAATATCTATCCACGCATGTATTATTTGATCAAATAC
586 ATCAAATATCTATCCACGC------TA--TGATC--ATAC
*
4062674 ATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
* *
4062739 ATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
* *
4062804 TCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACGTCACTTT
131 TCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTT
* * *
4062869 CTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCA
196 CTTACGATATATTTAATTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCA
* * * * **
4062934 TAGAATGATTCAACTGATTTGATCAAATATCTA-TCTATGCATGTATTATTAGTCAAATAAAGTT
261 CAAAAAGATTCAACTGATTTGATCAAATATCTATTC-ACGCATACATTATTAGTCAAATAAAGTT
* *
4062998 AAAATTTTATCATGCATCACTTTCTTACGGTGTATTTAGTTAATTATAATAAATATTTTATTTAG
325 AAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAG
4063063 TCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTATTCACGCAT
390 TCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTATTCACGCAT
*
4063128 ACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTTTAGTTAA
455 ACATTATTAGTCAAATAAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTTTAGTTAA
* *
4063193 TTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAAAATGATTCAACTGATTT
520 TTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCACAAAAAGATTCAACTGATTT
* **
4063258 GATCAAATATCTA-CCAACGC-ATGTATTATTTG
585 GATCAAATATCTATCC-ACGCTATG-ATCA-TAC
* * * * * ***
4063290 ATTGATTTGAT-AAA-AAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATC
1 ATT-ATTAG-TCAAATAAA---GTT-A---A-A-A-TCTTA-TC--ATGCA-TCACTTTCTTA-C
* * * *
4063353 ATGCATCACTTTCTTACAGTATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAAT
49 --G-GT-A-TAT-TT--AGT-TAATTA--T-A-----ATAGATATTTTATTTAGTCAAGTTAAAT
* * * * * **
4063418 TAATGCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCATGTATTATTAGT
97 TAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATCTATTCACGCATACATTATTAGT
* * * *
4063483 CAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTT
162 CAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGATATATTTAATTAATTATAATAGAT
4063548 ATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATC
227 ATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATC
* * * *
4063613 TATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACGTCACTTTCTTACGATA
292 TATTCACGCATACATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTA
* * * * * * *
4063678 TGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAGAATGAT
357 TATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGAT
* *
4063743 TCAACTGATTTGATCAAATATCTATCCACGCATGTATTATTTGATCAAATACATTATTAGTCAAA
422 TCAACTAATTTGATCAAATATCTATTCA--C-----------G--C--ATACATTATTAGTCAAA
* * * * *
4063808 TAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATTT
470 TAAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTT
* * *
4063873 TATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATCTATT
535 TATTTAGTCAAGTTAAATTAATGCATGGCACAAAAAGATTCAACTGATTTGATCAAATATCTATC
4063938 CA--C---G--CATAC
600 CACGCTATGATCATAC
* * * * *
4063947 ATTATTAGTCAAATAAAGTTAAAATCTTATCATACGTCACTTTCTTACGATATGTTTAATTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
* * * *
4064012 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAGAATGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
* ** *
4064077 TCAAATATCTA-TCTATGCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTT
131 TCAAATATCTATTC-ACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTT
* * * *
4064141 TCTTACGGTGTATTTAGTTAATTATAATAAATATTTTATTTAGTCAAGTCAAATTAATGCATAGC
195 TCTTACGATATATTTAATTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGC
* *
4064206 ACAAAAAGATTCAACTAATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTT
260 ACAAAAAGATTCAACTGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTT
* * * *
4064271 AAAATCTTATCATGCGTCACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAG
325 AAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAG
* * * * * *
4064336 TCAAGTTAAATTAATGCATGGCATAAAATGATTCAACTGATTTGATCAAATATCTA-CCAACGCA
390 TCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTATTC-ACGCA
* * * * * * * * *
4064400 TGTATTATTTGATTGATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAA
454 --TA-CA-TT-ATT-A-GTCA-AATAAA---GTT-A---A-A-A-TCTTA-TC--ATG-CGTCAC
** * *
4064465 AATCTTATCATGCATCACTTTCTTACAGTATATTTAGTTAATTATAATAGAAATTTTATTTAGTC
497 TTTCTTA-C--G-AT-A-TGT-TT--AGT-TA---A-TT-A---TAATAGATATTTTATTTAGTC
* * *
4064530 AAGTTAAATTAATGCATGGCACAAAAAAAATCAACTGATTTGATTAAATATCTAT-----CTATG
544 AAGTTAAATTAATGCATGGCACAAAAAGATTCAACTGATTTGATCAAATATCTATCCACGCTATG
**
4064590 --CATGT
609 ATCATAC
* *
4064595 ATTATTAGTCAAATAAAGTTAAAATTTTATCATACATCACTTTCTTACGGTATATTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
* **
4064660 ATAATAGTTATTTTATTTAGTCAAGGCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
* *
4064725 TCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTT
131 TCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTT
* * * * *
4064790 CTTACGATATGTTTAATTAATTATAGTAGATATTTTATTTAGTTAAGTTAAATTAATGC-TTGCC
196 CTTACGATATATTTAATTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAG-C
* * * * * ** *
4064854 ATAAAAAAATTTAATTGATTTGATCAAATATCTA-TCTATGCATGTATTATTAGTTAAATAAAGT
260 ACAAAAAGATTCAACTGATTTGATCAAATATCTATTC-ACGCATACATTATTAGTCAAATAAAGT
* * *
4064918 TAAAATTTTATCATGCATCATTTTCTTATGGTATATTTAGTTAATTATAATAAATATTTTATTTA
324 TAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTA
*
4064983 GTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTAATCAAATATCTATTCACGCA
389 GTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTATTCACGCA
*
4065048 TACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTTTAGTTA
454 TACATTATTAGTCAAATAAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTTTAGTTA
* * * *
4065113 ATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATACATGGCATAAAATGATTCAACTAATT
519 ATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCACAAAAAGATTCAACTGATT
* **
4065178 TGATCAAATATCTA-CCTACGC-ATGTATTATTTG
584 TGATCAAATATCTATCC-ACGCTATG-ATCA-TAC
* * * * * ***
4065211 ATTGATTTGAT-AAA-AAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATC
1 ATT-ATTAG-TCAAATAAA---GTT-A---A-A-A-TCTTA-TC--ATGCA-TCACTTTCTTA-C
* * *
4065274 ATGCATCACTTTCTTACAGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAAT
49 --G-GT-A-TAT-TT--AGT-TAATTA--T-A-----ATAGATATTTTATTTAGTCAAGTTAAAT
* * * * **
4065339 TAATGCAT-GACACAAAAA-AATCAATTGATTTGATCAAATATTTA-TCTATGCATGTATTATTA
97 TAATGCATAG-CACAAAAAGATTCAACTGATTTGATCAAATATCTATTC-ACGCATACATTATTA
* *
4065401 GTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTAC-AGTATATTTAGTTAATTATAATA
160 GTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGA-TATATTTAATTAATTATAATA
* *
4065465 GTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGAT-TAA-
224 GATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAAT
* * *
4065528 ATCTATTCACGCATACATTATTAGTTAAATGAAGTTAAAATCTTT-TCATGCGTCACTTTTCTTA
289 ATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAAT-TTTATCATGCATCAC-TTTCTTA
* * * *
4065592 CGGTATGTTTAATTAATTATAATAGATATTTTATTTAGTTAAGTTAAATTAATGCAT-GACACAA
352 CGGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAG-CACAA
* * * * **
4065656 AAAAATTTAATTAATTTGATCAAATATCTA-TCTATGCATGTATTATTAGTCAAATAAAGTTAAA
416 AAAGATTCAACTAATTTGATCAAATATCTATTC-ACGCATACATTATTAGTCAAATAAAGTTAAA
* * * * *
4065720 ATTTTATCATGCATCACTTTCTTACGATATATTTAGTTAATTATAATAAATATTTTATTTAGTTA
480 ATCTTATCATGCGTCACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCA
* * * *
4065785 AGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTATTCACGC----A
545 AGTTAAATTAATGCATGGCACAAAAAGATTCAACTGATTTGATCAAATATCTATCCACGCTATGA
4065846 T-AT--
610 TCATAC
* * * * *
4065849 ATTATTAGTTAAATGAAGTTAAAATCTTATCATGCATTACTTTCTTACGATATGTTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
* * * *
4065914 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGTATGGCATAAAATGATTCAACTGATTTGA
66 ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
4065979 TCAAATATCTA
131 TCAAATATCTA
4065990 CCCACGTATG
Statistics
Matches: 2864, Mismatches: 286, Indels: 350
0.82 0.08 0.10
Matches are distributed among these distances:
606 41 0.01
607 24 0.01
608 68 0.02
610 3 0.00
611 3 0.00
612 9 0.00
613 5 0.00
614 6 0.00
615 7 0.00
616 23 0.01
617 21 0.01
618 5 0.00
619 9 0.00
620 7 0.00
621 2 0.00
622 2 0.00
623 6 0.00
624 17 0.01
625 959 0.33
626 20 0.01
627 11 0.00
628 4 0.00
629 13 0.00
630 27 0.01
631 6 0.00
632 1 0.00
633 9 0.00
634 6 0.00
635 5 0.00
636 10 0.00
637 17 0.01
638 6 0.00
639 11 0.00
640 18 0.01
641 3 0.00
642 6 0.00
643 13 0.00
644 6 0.00
645 49 0.02
646 242 0.08
647 150 0.05
648 846 0.30
649 6 0.00
650 2 0.00
653 1 0.00
654 2 0.00
655 1 0.00
656 7 0.00
657 7 0.00
658 1 0.00
661 2 0.00
663 2 0.00
665 136 0.05
666 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (615 bp):
ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATT
ATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGA
TCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTT
CTTACGATATATTTAATTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCA
CAAAAAGATTCAACTGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTA
AAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAGT
CAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTATTCACGCATA
CATTATTAGTCAAATAAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTTTAGTTAAT
TATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCACAAAAAGATTCAACTGATTTG
ATCAAATATCTATCCACGCTATGATCATAC
Found at i:4063429 original size:192 final size:192
Alignment explanation
Indices: 4063102--4063479 Score: 670
Period size: 192 Copynumber: 2.0 Consensus size: 192
4063092 GATTCAACTA
* * *
4063102 ATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGT
1 ATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCAT
* *
4063167 CACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
66 CACTTTCTTACGATATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAATGC
4063232 ATGGCATAAAATGATTCAACTGATTTGATCAAATATCTA-CCAACGCATGTATTATTTGATTG
131 ATGGCATAAAATGATTCAACTGATTTGATCAAATATCTATCC-ACGCATGTATTATTTGATTG
4063294 ATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCAT
1 ATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCAT
4063359 CACTTTCTTAC-AGTATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAATG
66 CACTTTCTTACGA-TATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAATG
*
4063423 CATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCATGTATTATT
130 CATGGCATAAAATGATTCAACTGATTTGATCAAATATCTATCCACGCATGTATTATT
4063480 AGTCAAATAA
Statistics
Matches: 178, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
191 1 0.01
192 175 0.98
193 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (192 bp):
ATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCAT
CACTTTCTTACGATATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAATGC
ATGGCATAAAATGATTCAACTGATTTGATCAAATATCTATCCACGCATGTATTATTTGATTG
Found at i:4063570 original size:152 final size:152
Alignment explanation
Indices: 4063292--4064400 Score: 1581
Period size: 152 Copynumber: 7.2 Consensus size: 152
4063282 ATTATTTGAT
* * * *
4063292 TGATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGC
* *
4063357 ATCACTTTCTTACAGTATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAAT
66 ATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
*
4063422 GCATGGCATAGAATGATTCAAC
131 GCATGGCATAAAATGATTCAAC
** *
4063444 TGATTTGATCAAATATCTATCCACGCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGC
1 TGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGC
* *
4063509 ATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAAT
66 ATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
* * *
4063574 GCATAGCACAAAAAGATTCAAC
131 GCATGGCATAAAATGATTCAAC
* *
4063596 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
1 TGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGC
* * * *
4063661 GTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
66 ATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
*
4063726 GCATGGCATAGAATGATTCAAC
131 GCATGGCATAAAATGATTCAAC
4063748 TGATTTGATCAAATATCTATCCACGCATGTATTATTTGATCAAATACATTATTAGTCAAATAAAG
1 TGATTTGATCAAATATCTATCCA--C-----------G--C-A-TACATTATTAGTCAAATAAAG
* *
4063813 TTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATTTTATTT
49 TTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTT
* * * *
4063878 AGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
114 AGTCAAGTTAAATTAATGCATGGCATAAAATGATTCAAC
* *
4063917 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
1 TGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGC
* * * *
4063982 GTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
66 ATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
*
4064047 GCATGGCATAGAATGATTCAAC
131 GCATGGCATAAAATGATTCAAC
* * ** *
4064069 TGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGC
1 TGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGC
* * *
4064134 ATCACTTTCTTACGGTGTATTTAGTTAATTATAATAAATATTTTATTTAGTCAAGTCAAATTAAT
66 ATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
* * *
4064199 GCATAGCACAAAAAGATTCAAC
131 GCATGGCATAAAATGATTCAAC
* * *
4064221 TAATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGC
* * *
4064286 GTCACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
66 ATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
4064351 GCATGGCATAAAATGATTCAAC
131 GCATGGCATAAAATGATTCAAC
4064373 TGATTTGATCAAATATCTA-CCAACGCAT
1 TGATTTGATCAAATATCTATCC-ACGCAT
4064401 GTATTATTTG
Statistics
Matches: 846, Mismatches: 93, Indels: 36
0.87 0.10 0.04
Matches are distributed among these distances:
151 1 0.00
152 702 0.83
153 1 0.00
154 2 0.00
156 1 0.00
165 1 0.00
167 2 0.00
168 1 0.00
169 135 0.16
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (152 bp):
TGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGC
ATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
GCATGGCATAAAATGATTCAAC
Found at i:4063729 original size:496 final size:492
Alignment explanation
Indices: 4062796--4064753 Score: 2289
Period size: 496 Copynumber: 4.0 Consensus size: 492
4062786 AAGATTCAAC
* * *
4062796 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
1 TGATTTGA-AAAAAATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGC
* * * *
4062861 GTCACTTTCTTAC-GATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
65 ATCACTTTCTTACAG-TATATTTAATTAATTATAATAGAAATTTTATTTAGTCAAGTCAAATTAA
* * **
4062925 TGCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAA
129 TGCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAA
* * *
4062990 ATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTGTATTTAGTTAATTATAATAAATATT
194 ATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATT
*
4063055 TTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTAT
259 TTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATCTAT
* * * *
4063120 -TCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATG
324 CT-ACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACATCACTTTCTTACGATATA
* * * *
4063184 TTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAAAATGATTC
388 TTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTC
4063249 AACTGATTTGATCAAATATCTA-CCAACGCATGTATTATTTGAT
453 AACTGATTTGATCAAATATCTATCC-ACGCATG-ATTA-TT-AT
*
4063292 TGATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGA-AAAAAATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGC
* *
4063357 ATCACTTTCTTACAGTATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAAT
65 ATCACTTTCTTACAGTATATTTAATTAATTATAATAGAAATTTTATTTAGTCAAGTCAAATTAAT
**
4063422 GCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCATGTATTATTAGTCAAA
130 GCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAAA
* *
4063487 TAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATTT
195 TAAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTT
4063552 TATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATCTAT-
260 TATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATCTATC
* *
4063616 TCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACGTCACTTTCTTACGATATGT
325 T-ACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACATCACTTTCTTACGATATAT
* * * * * *
4063681 TTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAGAATGATTCA
389 TTAGTTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCA
4063746 ACTGATTTGATCAAATATCTATCCACGCATG-----TAT
454 ACTGATTTGATCAAATATCTATCCACGCATGATTATTAT
*
4063780 T-ATTTG------ATC-A---A---ATACATTATTAGTCAAATAAAGTTAAAATTTTATCATGCA
1 TGATTTGAAAAAAATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGCA
* * **
4063831 TCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATG
66 TCACTTTCTTACAGTATATTTAATTAATTATAATAGAAATTTTATTTAGTCAAGTCAAATTAATG
* * * * *
4063896 CATAGCACAAAAAGATTCAACTGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAAT
131 CATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAAAT
* * * * *
4063961 AAAGTTAAAATCTTATCATACGTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTT
196 AAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTT
* * * * *
4064026 ATTTAGTCAAGTTAAATTAATGCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCT
261 ATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATCTATCT
* ** * * * *
4064091 ATGCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTGTATTT
326 ACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACATCACTTTCTTACGATATATTT
*
4064156 AGTTAATTATAATAAATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
391 AGTTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
* * * *
4064221 TAATTTGATCAAATATCTATTCACGCATACATTATTAG
456 TGATTTGATCAAATATCTATCCACGCAT-GATTATTAT
* ** * * * * * ** **
4064259 TCAAATGAAGTTAAAATCT-TATCATGCGTCACTTTCTTACGAT-ATGTTTAGTT--AA--TTAT
1 TGATTTGAA--AAAAATCTAT-TCACGCAT-ACATTATTA-G-TCAAATAAAGTTAAAATCTTAT
* * * * * * * * * * *
4064318 AATAG-AT-ATTTTATT-TAGTCA-AGTTAAATTAATGCATGGCATA-AAATGATTCAACTGATT
60 CAT-GCATCACTTTCTTACAGT-ATA-TTTAATTAAT-TAT--AATAGAAAT--TT-TATTTAGT
** * * ** * * ** * * * *
4064378 TGA-TCAAA-TATCTACCAACGCAT-GTATTATTTGATTGATTTGATAAAAAATCTATTCACGCA
116 CAAGTCAAATTA-AT-GCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCA
* *
4064440 TACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCATCACTTTCTTACAGTATATTTAGTTA
179 TACATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTA
* * * * *
4064505 ATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAATGCATGGCACAAAAAAAATCAACTGATT
244 ATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATT
* * ** *
4064570 TGATTAAATATCTATCTATGCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATACATCAC
309 TGATCAAATATCTATCTACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACATCAC
* * *
4064635 TTTCTTACGGTATATTTAGTTAATTATAATAGTTATTTTATTTAGTCAAGGCAAATTAATGCATA
374 TTTCTTACGATATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATA
* *
4064700 GCACAAAAAGATTCAACTGATTTGATCAAATATCTATTCACGCATACATTATTA
439 GCACAAAAAGATTCAACTGATTTGATCAAATATCTATCCACGCAT-GATTATTA
4064754 GTCAAATGAA
Statistics
Matches: 1299, Mismatches: 123, Indels: 80
0.86 0.08 0.05
Matches are distributed among these distances:
473 413 0.32
474 1 0.00
476 1 0.00
479 4 0.00
480 6 0.00
487 5 0.00
488 6 0.00
489 1 0.00
491 3 0.00
492 16 0.01
493 10 0.01
494 3 0.00
495 8 0.01
496 801 0.62
497 20 0.02
498 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (492 bp):
TGATTTGAAAAAAATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATGCA
TCACTTTCTTACAGTATATTTAATTAATTATAATAGAAATTTTATTTAGTCAAGTCAAATTAATG
CATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCATACATTATTAGTCAAAT
AAAGTTAAAATCTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGATATTTT
ATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATCTATCT
ACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACATCACTTTCTTACGATATATTT
AGTTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
TGATTTGATCAAATATCTATCCACGCATGATTATTAT
Found at i:4064344 original size:304 final size:304
Alignment explanation
Indices: 4063292--4064408 Score: 1876
Period size: 304 Copynumber: 3.6 Consensus size: 304
4063282 ATTATTTGAT
* * * *
4063292 TGATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
* * * *
4063357 ATCACTTTCTTAC-AGTATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAA
66 GTCACTTTCTTACGA-TATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
*
4063421 TGCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCATGTATTATTAGTCAA
130 TGCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCTACGCATGTATTATTAGTCAA
4063486 ATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATT
195 ATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATT
4063551 TTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
260 TTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
4063596 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
1 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
4063661 GTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
66 GTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
*
4063726 GCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCCACGCATGTATTATTTGATCAA
131 GCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCTACGC-------A--TG-----
4063791 ATACATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTT
182 -T--ATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTT
4063856 AATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
244 AATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
4063917 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
1 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
4063982 GTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
66 GTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
*
4064047 GCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAA
131 GCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCTACGCATGTATTATTAGTCAAA
* **
4064112 TAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTGTATTTAGTTAATTATAATAAATATTT
196 TAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATTT
4064177 TATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
261 TATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
* * *
4064221 TAATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
*
4064286 GTCACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
66 GTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
* * *
4064351 GCATGGCATAAAATGATTCAACTGATTTGATCAAATATCTACCAACGCATGTATTATT
131 GCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCTACGCATGTATTATT
4064409 TGATTGATTT
Statistics
Matches: 774, Mismatches: 21, Indels: 36
0.93 0.03 0.04
Matches are distributed among these distances:
304 467 0.60
305 1 0.00
306 1 0.00
311 1 0.00
312 2 0.00
313 2 0.00
314 1 0.00
319 1 0.00
321 298 0.39
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (304 bp):
TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
GTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
GCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCTACGCATGTATTATTAGTCAAA
TAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATTT
TATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
Found at i:4064550 original size:192 final size:192
Alignment explanation
Indices: 4064223--4064600 Score: 623
Period size: 192 Copynumber: 2.0 Consensus size: 192
4064213 GATTCAACTA
* * *
4064223 ATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGT
1 ATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCAT
* *
4064288 CACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
66 CACTTTCTTACGATATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAATGC
* ** *
4064353 ATGGCATAAAATGATTCAACTGATTTGATCAAATATCTACCAACGCATGTATTATTTGATTG
131 ATGGCACAAAAAAAATCAACTGATTTGATCAAATATCTACCAACGCATGTATTATTTGATTG
4064415 ATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCAT
1 ATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCAT
4064480 CACTTTCTTAC-AGTATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAATG
66 CACTTTCTTACGA-TATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAATG
* * * *
4064544 CATGGCACAAAAAAAATCAACTGATTTGATTAAATATCTATCTATGCATGTATTATT
130 CATGGCACAAAAAAAATCAACTGATTTGATCAAATATCTACCAACGCATGTATTATT
4064601 AGTCAAATAA
Statistics
Matches: 172, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
191 1 0.01
192 171 0.99
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (192 bp):
ATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCAT
CACTTTCTTACGATATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAATGC
ATGGCACAAAAAAAATCAACTGATTTGATCAAATATCTACCAACGCATGTATTATTTGATTG
Found at i:4064626 original size:152 final size:151
Alignment explanation
Indices: 4064413--4065208 Score: 1058
Period size: 152 Copynumber: 5.2 Consensus size: 151
4064403 ATTATTTGAT
* * **
4064413 TGATTTGATAAAAAATCTAT-TCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATG
1 TGATTTGATCAAATATCTATCT-ACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATG
*
4064477 CATCACTTTCTTACAGTATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAA
65 CATCACTTTCTTAC-GTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
* *
4064542 TGCATGGCACAAAAAAAATCAAC
129 TGCATGGCACAAAAAGATTCAAC
* * * * *
4064565 TGATTTGATTAAATATCTATCTATGCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATAC
1 TGATTTGATCAAATATCTATCTACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
* **
4064630 ATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATTTTATTTAGTCAAGGCAAATTAAT
66 ATCACTTTCTTAC-GTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
*
4064695 GCATAGCACAAAAAGATTCAAC
130 GCATGGCACAAAAAGATTCAAC
**
4064717 TGATTTGATCAAATATCTAT-TCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATG
1 TGATTTGATCAAATATCTATCT-ACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATG
* * * * *
4064781 CGTCACTTTCTTACGATATGTTTAATTAATTATAGTAGATATTTTATTTAGTTAAGTTAAATTAA
65 CATCACTTTCTTACG-TATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
* * * * * *
4064846 TGCTTGCCATAAAAAAATTTAAT
129 TGCATGGCACAAAAAGATTCAAC
* * * *
4064869 TGATTTGATCAAATATCTATCTATGCATGTATTATTAGTTAAATAAAGTTAAAATTTTATCATGC
1 TGATTTGATCAAATATCTATCTACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
* * * *
4064934 ATCATTTTCTTATGGTATATTTAGTTAATTATAATAAATATTTTATTTAGTCAAGTCAAATTAAT
66 ATCACTTTCTTA-CGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
*
4064999 GCATAGCACAAAAAGATTCAAC
130 GCATGGCACAAAAAGATTCAAC
* * **
4065021 TAATTTAATCAAATATCTAT-TCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATG
1 TGATTTGATCAAATATCTATCT-ACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATG
* *
4065085 CGTCACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
65 CATCACTTTCTTACG-TATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
* * *
4065150 TACATGGCATAAAATGATTCAAC
129 TGCATGGCACAAAAAGATTCAAC
* *
4065173 TAATTTGATCAAATATCTACCTACGCATGTATTATT
1 TGATTTGATCAAATATCTATCTACGCATGTATTATT
4065209 TGATTGATTT
Statistics
Matches: 554, Mismatches: 82, Indels: 16
0.85 0.13 0.02
Matches are distributed among these distances:
151 4 0.01
152 546 0.99
153 4 0.01
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (151 bp):
TGATTTGATCAAATATCTATCTACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
ATCACTTTCTTACGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATG
CATGGCACAAAAAGATTCAAC
Found at i:4064696 original size:344 final size:344
Alignment explanation
Indices: 4064099--4064735 Score: 1017
Period size: 344 Copynumber: 1.9 Consensus size: 344
4064089 CTATGCATGT
* * *
4064099 ATTATTAGTCAAATAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTGTATTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACAGTATATTTAGTTAATT
* *
4064164 ATAATAAATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGA
66 ATAATAAATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAAAATCAACTAATTTGA
* * *
4064229 TCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTT
131 TCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACATCACTTT
* ** *
4064294 CTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCA
196 CTTACGATATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGGCAAATTAATGCATAGCA
* *
4064359 TAAAATGATTCAACTGATTTGATCAAATATCTACCAACGCATGTATTATTTGATTGATTTGATAA
261 CAAAAAGATTCAACTGATTTGATCAAATATCTACCAACGCATGTATTATTTGATTGATTTGATAA
4064424 AAAATCTATTCACGCATAC
326 AAAATCTATTCACGCATAC
*
4064443 ATTATTAGTCAAATGAAGTTAAAATCTTATCATGCATCACTTTCTTACAGTATATTTAGTTAATT
1 ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACAGTATATTTAGTTAATT
* * *
4064508 ATAATAGAA-ATTTTATTTAGTCAAGTTAAATTAATGCATGGCACAAAAAAAATCAACTGATTTG
66 ATAATA-AATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAAAATCAACTAATTTG
* * ** *
4064572 ATTAAATATCTA-TCTATGCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATACATCACT
130 ATCAAATATCTATTC-ACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACATCACT
* *
4064636 TTCTTACGGTATATTTAGTTAATTATAATAGTTATTTTATTTAGTCAAGGCAAATTAATGCATAG
194 TTCTTACGATATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGGCAAATTAATGCATAG
4064701 CACAAAAAGATTCAACTGATTTGATCAAATATCTA
259 CACAAAAAGATTCAACTGATTTGATCAAATATCTA
4064736 TTCACGCATA
Statistics
Matches: 266, Mismatches: 25, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
343 2 0.01
344 262 0.98
345 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (344 bp):
ATTATTAGTCAAATAAAGTTAAAATCTTATCATGCATCACTTTCTTACAGTATATTTAGTTAATT
ATAATAAATATTTTATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAAAATCAACTAATTTGA
TCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATACATCACTTT
CTTACGATATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGGCAAATTAATGCATAGCA
CAAAAAGATTCAACTGATTTGATCAAATATCTACCAACGCATGTATTATTTGATTGATTTGATAA
AAAATCTATTCACGCATAC
Found at i:4064859 original size:496 final size:496
Alignment explanation
Indices: 4063917--4064904 Score: 1672
Period size: 496 Copynumber: 2.0 Consensus size: 496
4063907 AAGATTCAAC
* *
4063917 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
1 TGATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
* * *
4063982 GTCACTTTCTTACGATATGTTTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
66 ATCACTTTCTTACGATATATTTAATTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAAT
* * ** *
4064047 GCATGGCATAGAATGATTCAACTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAA
131 GCATGGCACAAAAAAAATCAACTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAA
* *
4064112 TAAAGTTAAAATTTTATCATGCATCACTTTCTTACGGTGTATTTAGTTAATTATAATAAATATTT
196 TAAAGTTAAAATTTTATCATACATCACTTTCTTACGGTATATTTAGTTAATTATAATAAATATTT
*
4064177 TATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTATT
261 TATTTAGTCAAGGCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTATT
4064242 CACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTT
326 CACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTT
* * **
4064307 TAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGGCATAAAATGATTCAA
391 TAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGCCATAAAAAAATTCAA
4064372 CTGATTTGATCAAATATCTACCAACGCATGTATTATTTGAT
456 CTGATTTGATCAAATATCTACCAACGCATGTATTATTTGAT
* *
4064413 TGATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
*
4064478 ATCACTTTCTTAC-AGTATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAA
66 ATCACTTTCTTACGA-TATATTTAATTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAA
*
4064542 TGCATGGCACAAAAAAAATCAACTGATTTGATTAAATATCTATCTATGCATGTATTATTAGTCAA
130 TGCATGGCACAAAAAAAATCAACTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAA
**
4064607 ATAAAGTTAAAATTTTATCATACATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATT
195 ATAAAGTTAAAATTTTATCATACATCACTTTCTTACGGTATATTTAGTTAATTATAATAAATATT
*
4064672 TTATTTAGTCAAGGCAAATTAATGCATAGCACAAAAAGATTCAACTGATTTGATCAAATATCTAT
260 TTATTTAGTCAAGGCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTAT
4064737 TCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGT
325 TCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGT
* * * *
4064802 TTAATTAATTATAGTAGATATTTTATTTAGTTAAGTTAAATTAATGCTTGCCATAAAAAAATTTA
390 TTAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGCCATAAAAAAATTCA
* * * *
4064867 ATTGATTTGATCAAATATCTATCTATGCATGTATTATT
455 ACTGATTTGATCAAATATCTACCAACGCATGTATTATT
4064905 AGTTAAATAA
Statistics
Matches: 459, Mismatches: 32, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
495 1 0.00
496 458 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.40
Consensus pattern (496 bp):
TGATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATAAAGTTAAAATCTTATCATAC
ATCACTTTCTTACGATATATTTAATTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAAT
GCATGGCACAAAAAAAATCAACTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAA
TAAAGTTAAAATTTTATCATACATCACTTTCTTACGGTATATTTAGTTAATTATAATAAATATTT
TATTTAGTCAAGGCAAATTAATGCATAGCACAAAAAGATTCAACTAATTTGATCAAATATCTATT
CACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCGTCACTTTCTTACGATATGTT
TAATTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCATGCCATAAAAAAATTCAA
CTGATTTGATCAAATATCTACCAACGCATGTATTATTTGAT
Found at i:4064962 original size:304 final size:304
Alignment explanation
Indices: 4064413--4065208 Score: 1306
Period size: 304 Copynumber: 2.6 Consensus size: 304
4064403 ATTATTTGAT
* *
4064413 TGATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
* * *
4064478 ATCACTTTCTTAC-AGTATATTTAGTTAATTATAATAGAAATTTTATTTAGTCAAGTTAAATTAA
66 GTCACTTTCTTACGA-TATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
* * *
4064542 TGCATGGCACAAAAAAAATCAACTGATTTGATTAAATATCTATCTATGCATGTATTATTAGTCAA
130 TGCATGGCATAAAAAAATTCAACTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAA
**
4064607 ATAAAGTTAAAATTTTATCATACATCACTTTCTTACGGTATATTTAGTTAATTATAATAGTTATT
195 ATAAAGTTAAAATTTTATCATACATCACTTTCTTACGGTATATTTAGTTAATTATAATAAATATT
4064672 TTATTTAGTCAAGGCAAATTAATGCATAGCACAAAAAGATTCAAC
260 TTATTTAGTCAAGGCAAATTAATGCATAGCACAAAAAGATTCAAC
4064717 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
* * *
4064782 GTCACTTTCTTACGATATGTTTAATTAATTATAGTAGATATTTTATTTAGTTAAGTTAAATTAAT
66 GTCACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
* * * * *
4064847 GCTTGCCATAAAAAAATTTAATTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTTAAA
131 GCATGGCATAAAAAAATTCAACTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAA
* * *
4064912 TAAAGTTAAAATTTTATCATGCATCATTTTCTTATGGTATATTTAGTTAATTATAATAAATATTT
196 TAAAGTTAAAATTTTATCATACATCACTTTCTTACGGTATATTTAGTTAATTATAATAAATATTT
*
4064977 TATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAAC
261 TATTTAGTCAAGGCAAATTAATGCATAGCACAAAAAGATTCAAC
* *
4065021 TAATTTAATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
4065086 GTCACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
66 GTCACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
* ** * * *
4065151 ACATGGCATAAAATGATTCAACTAATTTGATCAAATATCTACCTACGCATGTATTATT
131 GCATGGCATAAAAAAATTCAACTGATTTGATCAAATATCTATCTATGCATGTATTATT
4065209 TGATTGATTT
Statistics
Matches: 454, Mismatches: 37, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
304 453 1.00
305 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (304 bp):
TGATTTGATCAAATATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
GTCACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
GCATGGCATAAAAAAATTCAACTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAA
TAAAGTTAAAATTTTATCATACATCACTTTCTTACGGTATATTTAGTTAATTATAATAAATATTT
TATTTAGTCAAGGCAAATTAATGCATAGCACAAAAAGATTCAAC
Found at i:4065790 original size:303 final size:303
Alignment explanation
Indices: 4065215--4065989 Score: 1268
Period size: 303 Copynumber: 2.6 Consensus size: 303
4065205 TATTTGATTG
* *
4065215 ATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGCAT
1 ATTTGAT-CAAAATCTATTCACGCATACATTATTAGTTAAATGAAGTTAAAATCTTATCATGCAT
* *
4065280 CACTTTCTTACAGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
65 CACTTTCTTACGGTATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
*
4065345 ATGACACAAAAAAA-TCAATTGATTTGATCAAATATTTATCTATGCATGTATTATTAGTCAAATA
130 ATGACACAAAAAAATTCAATTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAATA
**
4065409 AAGTTAAAATTTTATCATGCATCACTTTCTTACAGTATATTTAGTTAATTATAATAGTTATTTTA
195 AAGTTAAAATTTTATCATGCATCACTTTCTTACAGTATATTTAGTTAATTATAATAAATATTTTA
*
4065474 TTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTG
260 TTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTA
* * *
4065518 ATTTGAT-TAAATCTATTCACGCATACATTATTAGTTAAATGAAGTTAAAATCTTTTCATGCGTC
1 ATTTGATCAAAATCTATTCACGCATACATTATTAGTTAAATGAAGTTAAAATCTTATCATGCATC
* *
4065582 ACTTTTCTTACGGTATGTTTAATTAATTATAATAGATATTTTATTTAGTTAAGTTAAATTAATGC
66 AC-TTTCTTACGGTATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
* *
4065647 ATGACACAAAAAAATTTAATTAATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAATA
130 ATGACACAAAAAAATTCAATTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAATA
4065712 AAGTTAAAATTTTATCATGCATCACTTTCTTAC-GATATATTTAGTTAATTATAATAAATATTTT
195 AAGTTAAAATTTTATCATGCATCACTTTCTTACAG-TATATTTAGTTAATTATAATAAATATTTT
*
4065776 ATTTAGTTAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTA
259 ATTTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTA
*
4065821 ATTTGATCAAATATCTATTCACGCATATATTATTAGTTAAATGAAGTTAAAATCTTATCATGCAT
1 ATTTGATCAAA-ATCTATTCACGCATACATTATTAGTTAAATGAAGTTAAAATCTTATCATGCAT
* * *
4065886 TACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGT
65 CACTTTCTTACGGTATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGC
* * ** *
4065951 ATGGCATAAAATGATTCAACTGATTTGATCAAATATCTA
130 ATGACACAAAAAAATTCAATTGATTTGATCAAATATCTA
4065990 CCCACGTATG
Statistics
Matches: 436, Mismatches: 31, Indels: 9
0.92 0.07 0.02
Matches are distributed among these distances:
301 55 0.13
302 73 0.17
303 164 0.38
304 92 0.21
305 52 0.12
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.41
Consensus pattern (303 bp):
ATTTGATCAAAATCTATTCACGCATACATTATTAGTTAAATGAAGTTAAAATCTTATCATGCATC
ACTTTCTTACGGTATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGCA
TGACACAAAAAAATTCAATTGATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAATAA
AGTTAAAATTTTATCATGCATCACTTTCTTACAGTATATTTAGTTAATTATAATAAATATTTTAT
TTAGTCAAGTCAAATTAATGCATAGCACAAAAAGATTCAACTA
Found at i:4066004 original size:152 final size:152
Alignment explanation
Indices: 4065213--4066006 Score: 1067
Period size: 152 Copynumber: 5.2 Consensus size: 152
4065203 ATTATTTGAT
* * * **
4065213 TGATTTGATAAAAAATCTATTCACGCATACATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGATCAAATATCTATCCACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
4065278 ATCACTTTCTTAC-AGTATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
66 ATCACTTTCTTACGA-TATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
* * *
4065342 TGCATGACACAAAAA-AATCAAT
130 TGCATGGCACAAAAAGATTCAAC
* * * * *
4065364 TGATTTGATCAAATATTTATCTATGCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGC
1 TGATTTGATCAAATATCTATCCACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
* *
4065429 ATCACTTTCTTAC-AGTATATTTAGTTAATTATAATAGTTATTTTATTTAGTCAAGTCAAATTAA
66 ATCACTTTCTTACGA-TATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
*
4065493 TGCATAGCACAAAAAGATTCAAC
130 TGCATGGCACAAAAAGATTCAAC
* * ** * *
4065516 TGATTTGAT-TAA-ATCTATTCACGCATACATTATTAGTTAAATGAAGTTAAAATCTTTTCATGC
1 TGATTTGATCAAATATCTATCCACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
* * * * *
4065579 GTCACTTTTCTTACGGTATGTTTAATTAATTATAATAGATATTTTATTTAGTTAAGTTAAATTAA
66 ATCAC-TTTCTTACGATATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAA
* * * *
4065644 TGCATGACACAAAAAAATTTAAT
130 TGCATGGCACAAAAAGATTCAAC
* * * * *
4065667 TAATTTGATCAAATATCTATCTATGCATGTATTATTAGTCAAATAAAGTTAAAATTTTATCATGC
1 TGATTTGATCAAATATCTATCCACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
* * *
4065732 ATCACTTTCTTACGATATATTTAGTTAATTATAATAAATATTTTATTTAGTTAAGTCAAATTAAT
66 ATCACTTTCTTACGATATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
*
4065797 GCATAGCACAAAAAGATTCAAC
131 GCATGGCACAAAAAGATTCAAC
* * * *
4065819 TAATTTGATCAAATATCTATTCACGCATATATTATTAGTTAAATGAAGTTAAAATCTTATCATGC
1 TGATTTGATCAAATATCTATCCACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
* *
4065884 ATTACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
66 ATCACTTTCTTACGATATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
* * *
4065949 GTATGGCATAAAATGATTCAAC
131 GCATGGCACAAAAAGATTCAAC
* *
4065971 TGATTTGATCAAATATCTACCCACGTATGTATTATT
1 TGATTTGATCAAATATCTATCCACGCATGTATTATT
4066007 TGATTGATTT
Statistics
Matches: 556, Mismatches: 82, Indels: 9
0.86 0.13 0.01
Matches are distributed among these distances:
150 45 0.08
151 210 0.38
152 255 0.46
153 46 0.08
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (152 bp):
TGATTTGATCAAATATCTATCCACGCATGTATTATTAGTCAAATGAAGTTAAAATCTTATCATGC
ATCACTTTCTTACGATATATTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAAT
GCATGGCACAAAAAGATTCAAC
Found at i:4066161 original size:192 final size:192
Alignment explanation
Indices: 4065821--4066186 Score: 597
Period size: 192 Copynumber: 1.9 Consensus size: 192
4065811 GATTCAACTA
* * * * *
4065821 ATTTGATCAAATATCTATTCACGCATATATTATTAGTTAAATGAAGTTAAAATCTTATCATGCAT
1 ATTTGATAAAAAATCTATTCAAGCATATATTATTAGTCAAATAAAGTTAAAATCTTATCATGCAT
* * * * * *
4065886 TACTTTCTTACGATATGTTTAGTTAATTATAATAGATATTTTATTTAGTCAAGTTAAATTAATGT
66 CACTTTCTTACAATATATTTAATTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGC
* *
4065951 ATGGCATAAAATGATTCAACTGATTTGATCAAATATCTACCCACGTATGTATTATTTGATTG
131 ATGGCACAAAAAGATTCAACTGATTTGATCAAATATCTACCCACGTATGTATTATTTGATTG
4066013 ATTTGATAAAAAATCTATTCAAGCATATATTATTAGTCAAATAAAGTTAAAATCTTATCATGCAT
1 ATTTGATAAAAAATCTATTCAAGCATATATTATTAGTCAAATAAAGTTAAAATCTTATCATGCAT
*
4066078 CATTTTCTTACAATATATTTAATTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGC
66 CACTTTCTTACAATATATTTAATTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGC
*
4066143 ATGGCACAAAAAGATTCAACTGATTTGATCAAATATCTATCCAC
131 ATGGCACAAAAAGATTCAACTGATTTGATCAAATATCTACCCAC
4066187 ATATACATTA
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
192 159 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (192 bp):
ATTTGATAAAAAATCTATTCAAGCATATATTATTAGTCAAATAAAGTTAAAATCTTATCATGCAT
CACTTTCTTACAATATATTTAATTAATTATAATAGATATTTTATTTAGTCAAGTCAAATTAATGC
ATGGCACAAAAAGATTCAACTGATTTGATCAAATATCTACCCACGTATGTATTATTTGATTG
Found at i:4066439 original size:10 final size:10
Alignment explanation
Indices: 4066424--4066453 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4066414 TTAGACAAAA
4066424 AAAATATTTT
1 AAAATATTTT
4066434 AAAATATTTT
1 AAAATATTTT
4066444 -AAATATTTT
1 AAAATATTTT
4066453 A
1 A
4066454 TTTTAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AAAATATTTT
Found at i:4066782 original size:12 final size:12
Alignment explanation
Indices: 4066765--4066790 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4066755 TTTGTATTTT
4066765 TATTAATATATC
1 TATTAATATATC
4066777 TATTAATATATC
1 TATTAATATATC
4066789 TA
1 TA
4066791 GCTCTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTAATATATC
Found at i:4067567 original size:16 final size:16
Alignment explanation
Indices: 4067546--4067580 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4067536 AATAAAATTA
* *
4067546 AAAATAATTATTTCAT
1 AAAATAAATATTTAAT
4067562 AAAATAAATATTTAAT
1 AAAATAAATATTTAAT
4067578 AAA
1 AAA
4067581 TCAAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATAAATATTTAAT
Found at i:4070837 original size:16 final size:16
Alignment explanation
Indices: 4070816--4070847 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4070806 AATTAGAATA
*
4070816 TAATTTAATAATAATT
1 TAATTTAACAATAATT
4070832 TAATTTAACAATAATT
1 TAATTTAACAATAATT
4070848 AGAGATAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTAACAATAATT
Found at i:4075243 original size:11 final size:12
Alignment explanation
Indices: 4075227--4075307 Score: 55
Period size: 12 Copynumber: 6.9 Consensus size: 12
4075217 TACGACTCGA
4075227 TTAAATTA-AAT
1 TTAAATTATAAT
*
4075238 TTAAATTATTAT
1 TTAAATTATAAT
*
4075250 TTAAATAATAA-
1 TTAAATTATAAT
*
4075261 -TAATATT-TTAT
1 TTAA-ATTATAAT
4075272 TTAAATT-TAAT
1 TTAAATTATAAT
*
4075283 TATAAAAATATAAT
1 T-T-AAATTATAAT
*
4075297 TTAAATAATAA
1 TTAAATTATAA
4075308 ATAATTTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
10 5 0.09
11 17 0.31
12 22 0.41
13 5 0.09
14 5 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAAATTATAAT
Found at i:4075299 original size:47 final size:46
Alignment explanation
Indices: 4075227--4075318 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 46
4075217 TACGACTCGA
* *
4075227 TTAAATTAAATTTAAATTATTATTTAAATAAT-AATAATATTTTAT
1 TTAAATTAAATTTAAAATATAATTTAAATAATAAATAATATTTTAT
* *
4075272 TTAAATTTAATTATAAAAATATAATTTAAATAATAAATAATTTTTTA
1 TTAAATTAAATT-T-AAAATATAATTTAAATAATAAATAATATTTTA
4075319 AATTAATTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 11 0.28
46 1 0.03
47 17 0.43
48 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (46 bp):
TTAAATTAAATTTAAAATATAATTTAAATAATAAATAATATTTTAT
Found at i:4075991 original size:2 final size:2
Alignment explanation
Indices: 4075986--4076010 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4075976 TATATATATA
4075986 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
4076011 AAGGGAATAT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4076910 original size:6 final size:6
Alignment explanation
Indices: 4076879--4076909 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4076869 AAAACCCATT
*
4076879 TTAATA TTAATA TTAATA TTAATA TAAATA T
1 TTAATA TTAATA TTAATA TTAATA TTAATA T
4076910 ATGCTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTAATA
Found at i:4077533 original size:45 final size:45
Alignment explanation
Indices: 4077469--4077562 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
4077459 CTAAACTAAA
*
4077469 TCATTAAACATGAAAGAAAATAACATATGTTTTGATACAAGTTTG
1 TCATTAAACATGAAAGAAAATAACACATGTTTTGATACAAGTTTG
4077514 TCATTAAACATGAAAGAAAATAACACATGTTTTGATACAAGTTTG
1 TCATTAAACATGAAAGAAAATAACACATGTTTTGATACAAGTTTG
4077559 TCAT
1 TCAT
4077563 GTTATAATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (45 bp):
TCATTAAACATGAAAGAAAATAACACATGTTTTGATACAAGTTTG
Found at i:4078295 original size:116 final size:117
Alignment explanation
Indices: 4078068--4078300 Score: 423
Period size: 116 Copynumber: 2.0 Consensus size: 117
4078058 AAATTTTCAC
4078068 ATGCAAACAGTATAAGATCTTTGGGTAATATCAGATTTGTTTCCATGACCCGTTAGTCAATAGAA
1 ATGCAAACAG-ATAAGATCTTTGGGTAATATCAGATTTGTTTCCATGACCCGTTAGTCAATAGAA
*
4078133 TCAGAAACTGCCAAGAAAATTTCCAATGTGTTAATTTGGTGTTTTTTTTTTTA
65 TCAGAAACTGCCAAGAAAATTTCCAATGTGTTAATATGGTGTTTTTTTTTTTA
4078186 ATGCAAACAG-TAAGATCTTTGGGTAATATCAGATTTGTTTCCATGACCCGTTAGTCAATAGAAT
1 ATGCAAACAGATAAGATCTTTGGGTAATATCAGATTTGTTTCCATGACCCGTTAGTCAATAGAAT
*
4078250 CAGAAACTGCCAAGAAACCTTTCCAATGTGTTAATATGGTGTTTTTTTTTT
66 CAGAAACTGCCAAGAAA-ATTTCCAATGTGTTAATATGGTGTTTTTTTTTT
4078301 CCTAAATTTT
Statistics
Matches: 112, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
116 71 0.63
117 31 0.28
118 10 0.09
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (117 bp):
ATGCAAACAGATAAGATCTTTGGGTAATATCAGATTTGTTTCCATGACCCGTTAGTCAATAGAAT
CAGAAACTGCCAAGAAAATTTCCAATGTGTTAATATGGTGTTTTTTTTTTTA
Found at i:4079302 original size:36 final size:36
Alignment explanation
Indices: 4079262--4079334 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
4079252 TTCACATTGC
4079262 TAAAGTACTCTTTGAGAAAGTACGCTGATCATCAAA
1 TAAAGTACTCTTTGAGAAAGTACGCTGATCATCAAA
*
4079298 TAAAGTACTCTTTGAGAATGTACGCTGATCATCAAA
1 TAAAGTACTCTTTGAGAAAGTACGCTGATCATCAAA
4079334 T
1 T
4079335 TCCCCCTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (36 bp):
TAAAGTACTCTTTGAGAAAGTACGCTGATCATCAAA
Found at i:4079366 original size:2 final size:2
Alignment explanation
Indices: 4079361--4079399 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4079351 TGGTAGATAA
4079361 AT 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 AT A
4079400 AAATAGACAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4079997 original size:46 final size:46
Alignment explanation
Indices: 4079944--4080037 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
4079934 AAGAAACCAA
4079944 AATCATTGTTACTAGGAATTACCAAGGTATTTAAAGCTTGGGTGAC
1 AATCATTGTTACTAGGAATTACCAAGGTATTTAAAGCTTGGGTGAC
*
4079990 AATCATTGTTACTCGGAATTACCAAGGTATTTAAAGCTTGGGTGAC
1 AATCATTGTTACTAGGAATTACCAAGGTATTTAAAGCTTGGGTGAC
4080036 AA
1 AA
4080038 AGGAATCACA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (46 bp):
AATCATTGTTACTAGGAATTACCAAGGTATTTAAAGCTTGGGTGAC
Found at i:4080251 original size:134 final size:136
Alignment explanation
Indices: 4080007--4080279 Score: 401
Period size: 134 Copynumber: 2.0 Consensus size: 136
4079997 GTTACTCGGA
* * *
4080007 ATTACCAAGGTATTTAAAGCTTGGGTGACAAAGGAATCACAACTTTTTATTTTTTATTTTTTACT
1 ATTACCAAGGTATTTAAAACTTGGGTGACAAAGGAATCACAAC--TCTATTTTTTATTCTTTACT
* * *
4080072 CATGATTCCAAAATGGCCAATCTACAAGTCCACAAGAAAACAACAGAGTCTTGGACAAATTTAGA
64 CATAACTCCAAAATGACCAATCTACAAGTCCACAAGAAAACAACAGAGTCTTGGACAAATTTAGA
4080137 TGGTGGGC
129 TGGTGGGC
* *
4080145 ATTACCGAGGTATTTAAAACTTGGGTGAGAAAGGAATCACAAC-CT-TTTTTT-TTCTTTAC-CG
1 ATTACCAAGGTATTTAAAACTTGGGTGACAAAGGAATCACAACTCTATTTTTTATTCTTTACTC-
*
4080206 ATAAACTCCAAAATGACCAATCTACAAGTCCACAAGAAAACAACAGAGTTTTGGACAAATTTAGA
65 AT-AACTCCAAAATGACCAATCTACAAGTCCACAAGAAAACAACAGAGTCTTGGACAAATTTAGA
4080271 TGGTGGGC
129 TGGTGGGC
4080279 A
1 A
4080280 CATCTAGTTA
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
132 1 0.01
133 9 0.07
134 73 0.59
135 1 0.01
138 40 0.32
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (136 bp):
ATTACCAAGGTATTTAAAACTTGGGTGACAAAGGAATCACAACTCTATTTTTTATTCTTTACTCA
TAACTCCAAAATGACCAATCTACAAGTCCACAAGAAAACAACAGAGTCTTGGACAAATTTAGATG
GTGGGC
Found at i:4090544 original size:5 final size:5
Alignment explanation
Indices: 4090536--4090613 Score: 51
Period size: 5 Copynumber: 16.2 Consensus size: 5
4090526 GATAATTTTA
* * *
4090536 AATAT AATAT AAT-T AA-AT AATAT AA-AT -ATAA AATAT AAAAT AATTAA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AA-TAT
*
4090583 AATAT AAATAT AAAAT AA-AT -ATATT AATAT A
1 AATAT -AATAT AATAT AATAT AATA-T AATAT A
4090614 TTAAAAATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
3 2 0.04
4 12 0.21
5 32 0.56
6 11 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:4090557 original size:13 final size:14
Alignment explanation
Indices: 4090539--4090644 Score: 64
Period size: 13 Copynumber: 7.6 Consensus size: 14
4090529 AATTTTAAAT
*
4090539 ATAATATAATTA-A
1 ATAATATAAATATA
4090552 ATAATATAAATATA
1 ATAATATAAATATA
4090566 A-AATATAAA-ATA
1 ATAATATAAATATA
4090578 ATTAAAATATAAATATA
1 A-T--AATATAAATATA
4090595 A-AATA-AATATATTA
1 ATAATATAA-ATA-TA
*
4090609 AT-ATATTAAAAATA
1 ATAATA-TAAATATA
*
4090623 TTTAATATAAAT-TA
1 -ATAATATAAATATA
*
4090637 TTAATATA
1 ATAATATA
4090645 TAAAAAATCA
Statistics
Matches: 76, Mismatches: 4, Indels: 26
0.72 0.04 0.25
Matches are distributed among these distances:
12 6 0.08
13 34 0.45
14 12 0.16
15 7 0.09
16 13 0.17
17 4 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATATAAATATA
Found at i:4090573 original size:31 final size:30
Alignment explanation
Indices: 4090535--4090648 Score: 121
Period size: 31 Copynumber: 3.9 Consensus size: 30
4090525 TGATAATTTT
4090535 AAATATAATATAATTAAATAATATAAATATA
1 AAATATAATATAATT-AATAATATAAATATA
*
4090566 AAATATAAAATAATTAA-AATATAAATATA
1 AAATATAATATAATTAATAATATAAATATA
* *
4090595 AAATA-AATAT-ATTAATATATTAAAAATATT
1 AAATATAATATAATTAATA-A-TATAAATATA
* *
4090625 TAATATAA-ATTATTAAT-ATATAAA
1 AAATATAATATAATTAATAATATAAA
4090649 AAATCACATA
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.07
28 10 0.14
29 19 0.26
30 16 0.22
31 22 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAATATAATATAATTAATAATATAAATATA
Found at i:4090596 original size:29 final size:31
Alignment explanation
Indices: 4090535--4090648 Score: 107
Period size: 29 Copynumber: 3.9 Consensus size: 31
4090525 TGATAATTTT
*
4090535 AAATATAATATAATTAAATAATATAAATATA
1 AAATATAAAATAATTAAATAATATAAATATA
4090566 AAATATAAAATAATT-AA-AATATAAATATA
1 AAATATAAAATAATTAAATAATATAAATATA
* * * *
4090595 AAATA-AATAT-ATTAATATATTAAAAATATT
1 AAATATAAAATAATTAA-ATAATATAAATATA
* *
4090625 TAATAT-AAATTATT-AAT-ATATAAA
1 AAATATAAAATAATTAAATAATATAAA
4090649 AAATCACATA
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
27 3 0.04
28 10 0.14
29 20 0.29
30 19 0.28
31 17 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
AAATATAAAATAATTAAATAATATAAATATA
Found at i:4090600 original size:11 final size:11
Alignment explanation
Indices: 4090534--4090605 Score: 64
Period size: 11 Copynumber: 6.7 Consensus size: 11
4090524 ATGATAATTT
*
4090534 TAAATATAATA
1 TAAATATAAAA
4090545 T-AAT-T-AAA
1 TAAATATAAAA
4090553 T-AATATAAATA
1 TAAATATAAA-A
4090564 TAAAATATAAAA
1 T-AAATATAAAA
*
4090576 TAATTA-AAATA
1 TAAATATAAA-A
4090587 TAAATATAAAA
1 TAAATATAAAA
4090598 TAAATATA
1 TAAATATA
4090606 TTAATATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
8 6 0.12
9 2 0.04
10 8 0.16
11 22 0.43
12 5 0.10
13 8 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAATATAAAA
Found at i:4091176 original size:22 final size:23
Alignment explanation
Indices: 4091136--4091181 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
4091126 TCTCAAATAT
*
4091136 ATTATTAAAATCAATAAAT-TTA
1 ATTATTAAAATCAACAAATGTTA
* *
4091158 ATTATTTAAATTAACAAATGTTA
1 ATTATTAAAATCAACAAATGTTA
4091181 A
1 A
4091182 AATATATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTATTAAAATCAACAAATGTTA
Found at i:4092054 original size:2 final size:2
Alignment explanation
Indices: 4092047--4092076 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4092037 CCTTTTTCCA
4092047 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
4092077 ACATTCACCA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4094811 original size:146 final size:146
Alignment explanation
Indices: 4094547--4094840 Score: 588
Period size: 146 Copynumber: 2.0 Consensus size: 146
4094537 TTAATATCTT
4094547 AAGTGCTGGTTGTTGTATACCTGGAAGGATGGTGATTCCATTTGATTACATTGCTTTGAGCAGTG
1 AAGTGCTGGTTGTTGTATACCTGGAAGGATGGTGATTCCATTTGATTACATTGCTTTGAGCAGTG
4094612 TTCTGTGAATATTTGTTGTAAATTTGATCTGACTGTAAATTGAAAAGTTTAGTCCTTCATATCCC
66 TTCTGTGAATATTTGTTGTAAATTTGATCTGACTGTAAATTGAAAAGTTTAGTCCTTCATATCCC
4094677 TTGCAGGGATTCTGTA
131 TTGCAGGGATTCTGTA
4094693 AAGTGCTGGTTGTTGTATACCTGGAAGGATGGTGATTCCATTTGATTACATTGCTTTGAGCAGTG
1 AAGTGCTGGTTGTTGTATACCTGGAAGGATGGTGATTCCATTTGATTACATTGCTTTGAGCAGTG
4094758 TTCTGTGAATATTTGTTGTAAATTTGATCTGACTGTAAATTGAAAAGTTTAGTCCTTCATATCCC
66 TTCTGTGAATATTTGTTGTAAATTTGATCTGACTGTAAATTGAAAAGTTTAGTCCTTCATATCCC
4094823 TTGCAGGGATTCTGTA
131 TTGCAGGGATTCTGTA
4094839 AA
1 AA
4094841 CTTAAATATG
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 148 1.00
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.39
Consensus pattern (146 bp):
AAGTGCTGGTTGTTGTATACCTGGAAGGATGGTGATTCCATTTGATTACATTGCTTTGAGCAGTG
TTCTGTGAATATTTGTTGTAAATTTGATCTGACTGTAAATTGAAAAGTTTAGTCCTTCATATCCC
TTGCAGGGATTCTGTA
Found at i:4103153 original size:22 final size:22
Alignment explanation
Indices: 4103102--4103154 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
4103092 TTTTTATTTA
* *
4103102 TTTTATTTTCTTCTTTCTCAAT
1 TTTTTTTTTCTTCTTTCCCAAT
* **
4103124 TTTGTTTTTCTTCTTTCCCTTT
1 TTTTTTTTTCTTCTTTCCCAAT
4103146 TTTTTTTTT
1 TTTTTTTTT
4103155 TTGAAGTCCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTTTTTCTTCTTTCCCAAT
Found at i:4107114 original size:20 final size:20
Alignment explanation
Indices: 4107052--4107157 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 20
4107042 TTGGAACAAT
4107052 TATTAAAAATTATTATAAATTA
1 TATTAAAAATTA-TA-AAATTA
* ** *
4107074 CATTAACGATTATCCAAATTA
1 TATTAAAAATTAT-AAAATTA
* * *
4107095 TCTTTAAATTTATAAAATTA
1 TATTAAAAATTATAAAATTA
* *
4107115 TATCAAAAGTTATAAAAATTA
1 TATTAAAAATTAT-AAAATTA
4107136 TATTAAAAATTATTAAAATTA
1 TATTAAAAATTA-TAAAATTA
4107157 T
1 T
4107158 GATAATGATT
Statistics
Matches: 64, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
20 15 0.23
21 39 0.61
22 10 0.16
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (20 bp):
TATTAAAAATTATAAAATTA
Found at i:4107362 original size:15 final size:16
Alignment explanation
Indices: 4107342--4107374 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4107332 AACGATTACA
4107342 TTTTCC-TTCAATATT
1 TTTTCCATTCAATATT
*
4107357 TTTTCCATTTAATATT
1 TTTTCCATTCAATATT
4107373 TT
1 TT
4107375 ATTATCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTCCATTCAATATT
Found at i:4108860 original size:16 final size:16
Alignment explanation
Indices: 4108841--4108924 Score: 63
Period size: 16 Copynumber: 5.4 Consensus size: 16
4108831 TCATATTTAT
4108841 ATTTTATTATATAATA
1 ATTTTATTATATAATA
*
4108857 ATTTTATT-TAAAAT-
1 ATTTTATTATATAATA
*
4108871 ATTTTA-TATTTATATA
1 ATTTTATTATATA-ATA
*
4108887 ATTTTAATA-ATTAATA
1 ATTTTATTATA-TAATA
4108903 ATTTATATT-T-TAATAA
1 ATTT-TATTATATAAT-A
4108919 ATTTTA
1 ATTTTA
4108925 AATATTTTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
13 1 0.02
14 8 0.15
15 13 0.24
16 26 0.47
17 7 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTATTATATAATA
Found at i:4108925 original size:25 final size:25
Alignment explanation
Indices: 4108852--4108935 Score: 65
Period size: 26 Copynumber: 3.5 Consensus size: 25
4108842 TTTTATTATA
4108852 TAATAATTT-TA-TTTAA-AATATTT
1 TAATAATTTATATTTTAATAA-ATTT
*
4108875 T-ATATTTATATAATTTTAAT-AA--T
1 TAATAATT-TAT-ATTTTAATAAATTT
4108898 TAATAATTTATATTTTAATAAATTT
1 TAATAATTTATATTTTAATAAATTT
*
4108923 TAAATATTTTATA
1 T-AATAATTTATA
4108936 CTTAAATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
22 13 0.27
23 9 0.19
24 6 0.12
25 4 0.08
26 16 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TAATAATTTATATTTTAATAAATTT
Found at i:4109763 original size:2 final size:2
Alignment explanation
Indices: 4109756--4109786 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4109746 ACGAAAGAAA
4109756 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 A
4109787 ACCAGTCTAT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4110633 original size:81 final size:81
Alignment explanation
Indices: 4110507--4110666 Score: 266
Period size: 81 Copynumber: 2.0 Consensus size: 81
4110497 AACTGCCCAC
* * *
4110507 CTAATAGGGTATCTGATGACTCCGGAGTAGTCGCGATCGACGACGGTGTTGATTCAATGATTGAG
1 CTAATAGGGTATCTGATGACTCCCGAGTAGTCGCGATCGACGACGGTGCTGATTCAATGATGGAG
4110572 TTGGAACTACCCGGGA
66 TTGGAACTACCCGGGA
* *
4110588 CTAATAGGGTATCTGATGACTCCCGAGTAGTGGCGATTGACGACGGTGCTGATTCAATGATGGAG
1 CTAATAGGGTATCTGATGACTCCCGAGTAGTCGCGATCGACGACGGTGCTGATTCAATGATGGAG
*
4110653 TTGGAGCTACCCGG
66 TTGGAACTACCCGG
4110667 AGAAGTGAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (81 bp):
CTAATAGGGTATCTGATGACTCCCGAGTAGTCGCGATCGACGACGGTGCTGATTCAATGATGGAG
TTGGAACTACCCGGGA
Found at i:4111064 original size:2 final size:2
Alignment explanation
Indices: 4111057--4111086 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4111047 TTTCAAAGAC
4111057 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4111087 TTTACAAGGA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4112836 original size:2 final size:2
Alignment explanation
Indices: 4112831--4112865 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4112821 CTATATATAT
* *
4112831 AC AC AC AC AC AC AC AC AC AC AC AC TC AC AC CC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
4112866 ATCCTTTCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.51, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:4114048 original size:51 final size:54
Alignment explanation
Indices: 4113993--4114103 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 54
4113983 AAAACATATT
*
4113993 TATATTTAAATACTTTATATATTACCAATATAC-AA-A-TTTATATATTACCAA
1 TATATTTAAATACTTTACATATTACCAATATACAAATACTTTATATATTACCAA
4114044 TATATTTAAATACTTTACATATTACCAATATACAAATACTTTATATATTACCAA
1 TATATTTAAATACTTTACATATTACCAATATACAAATACTTTATATATTACCAA
4114098 TATATT
1 TATATT
4114104 ACAGTTTGCA
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
51 32 0.57
52 2 0.04
53 1 0.02
54 21 0.38
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (54 bp):
TATATTTAAATACTTTACATATTACCAATATACAAATACTTTATATATTACCAA
Found at i:4114081 original size:26 final size:26
Alignment explanation
Indices: 4114000--4114101 Score: 147
Period size: 26 Copynumber: 4.0 Consensus size: 26
4113990 ATTTATATTT
4114000 AAATACTTTATATATTACCAATATAC
1 AAATACTTTATATATTACCAATATAC
*
4114026 -AA-A-TTTATATATTACCAATATATTT
1 AAATACTTTATATATTACCAATATA--C
*
4114051 AAATACTTTACATATTACCAATATAC
1 AAATACTTTATATATTACCAATATAC
4114077 AAATACTTTATATATTACCAATATA
1 AAATACTTTATATATTACCAATATA
4114102 TTACAGTTTG
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
23 19 0.28
24 1 0.01
25 2 0.03
26 26 0.39
27 1 0.01
28 18 0.27
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (26 bp):
AAATACTTTATATATTACCAATATAC
Found at i:4119175 original size:2 final size:2
Alignment explanation
Indices: 4119168--4119205 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4119158 GCTCCTTCAA
*
4119168 AT AT AT AT AT AT AT AT AT AT AC 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
4119206 GTATTACTCA
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4122856 original size:21 final size:21
Alignment explanation
Indices: 4122832--4122877 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
4122822 CTATAGTTAG
4122832 TATTCACTCTTTAATTAATTA
1 TATTCACTCTTTAATTAATTA
4122853 TATTCACTCTTTAATTAATTA
1 TATTCACTCTTTAATTAATTA
4122874 TATT
1 TATT
4122878 TTTATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTCACTCTTTAATTAATTA
Found at i:4133052 original size:2 final size:2
Alignment explanation
Indices: 4133045--4133072 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4133035 CTTTTCAGTA
4133045 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4133073 GATCTGATGT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4133391 original size:19 final size:19
Alignment explanation
Indices: 4133363--4133404 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4133353 CCAGCAACAA
* * *
4133363 TTTTCCTTTTCCTTTTTCT
1 TTTTCATTTTCATTTTCCT
4133382 TTTTCATTTTCATTTTCCT
1 TTTTCATTTTCATTTTCCT
4133401 TTTT
1 TTTT
4133405 TTCCCTGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCATTTTCATTTTCCT
Found at i:4135147 original size:22 final size:22
Alignment explanation
Indices: 4135122--4135163 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4135112 TTATTTTATT
4135122 TTATAAAATTTGTTAATATTCA
1 TTATAAAATTTGTTAATATTCA
* * *
4135144 TTATATATTTTTTTAATATT
1 TTATAAAATTTGTTAATATT
4135164 TTTATTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATAAAATTTGTTAATATTCA
Found at i:4137285 original size:20 final size:19
Alignment explanation
Indices: 4137256--4137300 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
4137246 TAAAACTAAA
4137256 ATAAATTTTTGTAA-TTATT
1 ATAAATTTTT-TAATTTATT
4137275 ATAATATTTTTTAATTTATT
1 ATAA-ATTTTTTAATTTATT
*
4137295 AAAAAT
1 ATAAAT
4137301 AATTAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATAAATTTTTTAATTTATT
Found at i:4141162 original size:83 final size:82
Alignment explanation
Indices: 4141024--4141183 Score: 268
Period size: 83 Copynumber: 1.9 Consensus size: 82
4141014 CTCTCCCGTC
*
4141024 ACATTCGGAGAAGTTCCCCAATTAGGGCTGCAGAGCGGAACGATGCAAGTAACTCGCCACCGCAA
1 ACATTCGGAGAAGTTCCCCAATGAGGGCTGCAGAGCGGAACGATGCAAGTAACTCGCCACCGCAA
4141089 TGGGAAGAGGATCACCA
66 TGGGAAGAGGATCACCA
* *
4141106 ACATTCGGAGAA-TGTCCACCAATGAGGGCTGCGGAGCGGAACGATGCAAGTAACTCGCGACCGC
1 ACATTCGGAGAAGT-TCC-CCAATGAGGGCTGCAGAGCGGAACGATGCAAGTAACTCGCCACCGC
4141170 AATGGGAAGAGGAT
64 AATGGGAAGAGGAT
4141184 TACCGAAGGG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
81 1 0.01
82 15 0.21
83 57 0.78
ACGTcount: A:0.31, C:0.24, G:0.31, T:0.14
Consensus pattern (82 bp):
ACATTCGGAGAAGTTCCCCAATGAGGGCTGCAGAGCGGAACGATGCAAGTAACTCGCCACCGCAA
TGGGAAGAGGATCACCA
Found at i:4142343 original size:42 final size:42
Alignment explanation
Indices: 4142291--4142371 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
4142281 TTCTGTTAAC
* *
4142291 TCAAAGAATATCCACATCATATCATAAAAAGACAGAAATTGT
1 TCAAAAAATATCCACAACATATCATAAAAAGACAGAAATTGT
* * *
4142333 TCAAAAAATATCCATAACATATTATAACAAGACAGAAAT
1 TCAAAAAATATCCACAACATATCATAAAAAGACAGAAAT
4142372 CGTGCATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.23
Consensus pattern (42 bp):
TCAAAAAATATCCACAACATATCATAAAAAGACAGAAATTGT
Found at i:4145189 original size:11 final size:12
Alignment explanation
Indices: 4145162--4145188 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4145152 ACAAAGTATT
4145162 AAAAGAAAAAAA
1 AAAAGAAAAAAA
4145174 AAAAGAAAAAAA
1 AAAAGAAAAAAA
4145186 AAA
1 AAA
4145189 GTGGAGATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:4147801 original size:26 final size:26
Alignment explanation
Indices: 4147760--4147817 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
4147750 ATTTTATTTT
4147760 AATTAAGGGAAAGTATATGTTGGAGC
1 AATTAAGGGAAAGTATATGTTGGAGC
4147786 AATTAA-GGAAATGTATATGTTGGAGC
1 AATTAAGGGAAA-GTATATGTTGGAGC
*
4147812 AGTTAA
1 AATTAA
4147818 ATTAAGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.40, C:0.03, G:0.28, T:0.29
Consensus pattern (26 bp):
AATTAAGGGAAAGTATATGTTGGAGC
Found at i:4156506 original size:2 final size:2
Alignment explanation
Indices: 4156495--4156532 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4156485 GTCCAAACTG
4156495 TA TA -A 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
4156533 TTGTTCTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4174255 original size:2 final size:2
Alignment explanation
Indices: 4174248--4174291 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
4174238 TTAAAGCTGA
4174248 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC GTC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -TC TC
4174291 T
1 T
4174292 ATCAGCAGCG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4175856 original size:14 final size:15
Alignment explanation
Indices: 4175829--4175876 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
4175819 TATTTAATAA
*
4175829 TAAAATATT-TTTAT
1 TAAAATATTAATTAT
*
4175843 TTAAAT-TTAATTAT
1 TAAAATATTAATTAT
4175857 TAAAATATTAA-TA-
1 TAAAATATTAATTAT
4175870 TAAAATA
1 TAAAATA
4175877 ATTTTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 9 0.31
14 16 0.55
15 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAATATTAATTAT
Found at i:4177555 original size:3 final size:3
Alignment explanation
Indices: 4177547--4177573 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4177537 TTCAACTTTC
4177547 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
4177574 GTGTATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4180218 original size:25 final size:27
Alignment explanation
Indices: 4180170--4180219 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
4180160 AAAACTTTGG
* *
4180170 ATATAAACCTAAGTTTTATATAATTGT
1 ATATAAAACTAAGTTTGATATAATTGT
4180197 ATATAAAACTAAG-TTGAT-TAATT
1 ATATAAAACTAAGTTTGATATAATT
4180220 TGATGTATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 4 0.19
27 12 0.57
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (27 bp):
ATATAAAACTAAGTTTGATATAATTGT
Found at i:4190172 original size:26 final size:26
Alignment explanation
Indices: 4190140--4190191 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
4190130 ATGAGATTGA
4190140 AAATATTGGGGGCCATAAGGATGATT
1 AAATATTGGGGGCCATAAGGATGATT
4190166 AAATATTGGGGGCCATAAGGATGATT
1 AAATATTGGGGGCCATAAGGATGATT
4190192 TCAGCATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (26 bp):
AAATATTGGGGGCCATAAGGATGATT
Found at i:4196210 original size:2 final size:2
Alignment explanation
Indices: 4196203--4196243 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4196193 ACACGGCATA
4196203 AT AT 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 AT AT A
4196244 AGCAGCAACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4197692 original size:21 final size:20
Alignment explanation
Indices: 4197666--4197720 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
4197656 TTGTTAATTA
4197666 TTTAAATTTAATTTTAAAAAT
1 TTTAAATTTAA-TTTAAAAAT
*
4197687 TTTAAATTTAATTTAATAAT
1 TTTAAATTTAATTTAAAAAT
*
4197707 TTAAAATTT-ATTTA
1 TTTAAATTTAATTTA
4197721 TTATTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.16
20 16 0.50
21 11 0.34
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAAATTTAATTTAAAAAT
Found at i:4197747 original size:20 final size:19
Alignment explanation
Indices: 4197666--4197747 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 19
4197656 TTGTTAATTA
*
4197666 TTTAAATTTAATTTTAAAAAT
1 TTTAAATTTAA-TTT-AATAT
4197687 TTTAAATTTAATTTAATAAT
1 TTTAAATTTAATTTAAT-AT
*
4197707 TTAAAATTT-ATTT-AT-T
1 TTTAAATTTAATTTAATAT
*
4197723 ATTAAA-TTAATTTTAAATAT
1 TTTAAATTTAA-TTT-AATAT
4197743 TTTAA
1 TTTAA
4197748 TAACGATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
15 2 0.04
16 6 0.12
17 3 0.06
18 2 0.04
19 8 0.16
20 18 0.36
21 11 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAATTTAATTTAATAT
Found at i:4198135 original size:2 final size:2
Alignment explanation
Indices: 4198128--4198165 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4198118 TGATAATTTG
4198128 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
4198166 TTAAACTTAA
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):
AT
Found at i:4198540 original size:23 final size:24
Alignment explanation
Indices: 4198481--4198542 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 24
4198471 TATTATTTTT
4198481 ATTTATAAATTATATATTAATAAAA
1 ATTT-TAAATTATATATTAATAAAA
4198506 ATTTT-AATTATA-ATTAA-ATAAA
1 ATTTTAAATTATATATTAATA-AAA
*
4198528 ATTTTAAAATATATA
1 ATTTTAAATTATATA
4198543 AAATATTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 1 0.03
22 13 0.39
23 13 0.39
24 2 0.06
25 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTTTAAATTATATATTAATAAAA
Found at i:4198546 original size:22 final size:22
Alignment explanation
Indices: 4198503--4198547 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4198493 TATATTAATA
* *
4198503 AAAATTTTAATTATAATTAAAT
1 AAAATTTTAAATATAATAAAAT
4198525 AAAATTTTAAA-ATATATAAAAT
1 AAAATTTTAAATATA-ATAAAAT
4198547 A
1 A
4198548 TTAGTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTTTAAATATAATAAAAT
Found at i:4199325 original size:23 final size:24
Alignment explanation
Indices: 4199298--4199348 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
4199288 TTACTAAAAT
* *
4199298 TTTAAATAATAATA-ATTAATTAA
1 TTTAAATAAAAATATATTAATAAA
*
4199321 TTTAAATAAAAATATTTTAATAAA
1 TTTAAATAAAAATATATTAATAAA
4199345 TTTA
1 TTTA
4199349 TTTCAACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTAAATAAAAATATATTAATAAA
Found at i:4199506 original size:15 final size:16
Alignment explanation
Indices: 4199488--4199517 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4199478 AAATATCTTG
4199488 AATAAAAA-TAATAAA
1 AATAAAAATTAATAAA
4199503 AATAAAAATTAATAA
1 AATAAAAATTAATAA
4199518 TTAACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAAATTAATAAA
Found at i:4200373 original size:21 final size:22
Alignment explanation
Indices: 4200349--4200404 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
4200339 ATTTTAATTA
4200349 AATTTAAATATAATATTT-TAT
1 AATTTAAATATAATATTTATAT
* *
4200370 AATTTAAAT-TATTATTTATTT
1 AATTTAAATATAATATTTATAT
*
4200391 AATTTTAATTATAA
1 AA-TTTAAATATAA
4200405 AAATATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.25
21 13 0.46
22 6 0.21
23 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTTAAATATAATATTTATAT
Found at i:4213740 original size:2 final size:2
Alignment explanation
Indices: 4213733--4213771 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4213723 TACTTTTCTC
4213733 AT 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 AT A
4213772 AGGAACTCAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4214154 original size:7 final size:7
Alignment explanation
Indices: 4214137--4214175 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
4214127 CCCCAAATGC
4214137 TATAT-A
1 TATATAA
4214143 TATATAA
1 TATATAA
4214150 TATATAA
1 TATATAA
4214157 TATATAA
1 TATATAA
4214164 TA-ATAA
1 TATATAA
4214170 TA-ATAA
1 TATATAA
4214176 AGGATTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 15 0.47
7 17 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TATATAA
Found at i:4214161 original size:16 final size:16
Alignment explanation
Indices: 4214138--4214174 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
4214128 CCCAAATGCT
4214138 ATATATATATAATATATA
1 ATATATA-ATAATA-ATA
4214156 ATATATAATAATAATA
1 ATATATAATAATAATA
4214172 ATA
1 ATA
4214175 AAGGATTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 6 0.32
18 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATATAATAATAATA
Found at i:4215846 original size:2 final size:2
Alignment explanation
Indices: 4215841--4215874 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4215831 GAGAATAAAG
4215841 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
4215875 GTAGGTATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4218479 original size:12 final size:12
Alignment explanation
Indices: 4218462--4218494 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
4218452 TCTCAACATT
4218462 TTTATATATATA
1 TTTATATATATA
4218474 -TT-TATATATA
1 TTTATATATATA
4218484 TTTATATATAT
1 TTTATATATAT
4218495 TTTTTCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.42
11 4 0.21
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTATATATATA
Done.