Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 323 of 349
Found at i:107627482 original size:27 final size:26
Alignment explanation
Indices: 107627452--107627507 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
107627442 ACAAATTAAG
*
107627452 AAAAAAAAAACCGTAAAGGCAGACATT
1 AAAAAAAAAA-CATAAAGGCAGACATT
*
107627479 AAAAGAAAAACATAAAGGCAGACATT
1 AAAAAAAAAACATAAAGGCAGACATT
107627505 AAA
1 AAA
107627508 CAAACAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.11
Consensus pattern (26 bp):
AAAAAAAAAACATAAAGGCAGACATT
Found at i:107632187 original size:21 final size:21
Alignment explanation
Indices: 107632161--107632240 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
107632151 AAATGTAGAA
* *
107632161 GCAGTGAAGCAAGGTGAAAAG
1 GCAGTGAACCAAAGTGAAAAG
107632182 GCAGTGAACCAAAGTGAAAAG
1 GCAGTGAACCAAAGTGAAAAG
* *
107632203 GCTGTGAACCAAAATG-AAAG
1 GCAGTGAACCAAAGTGAAAAG
**
107632223 AATAGTGAACCAAAGTGA
1 -GCAGTGAACCAAAGTGA
107632241 GGAAGCGTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 4 0.08
21 45 0.92
ACGTcount: A:0.46, C:0.12, G:0.29, T:0.12
Consensus pattern (21 bp):
GCAGTGAACCAAAGTGAAAAG
Found at i:107635216 original size:24 final size:24
Alignment explanation
Indices: 107635173--107635218 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
107635163 CATAGCCCCA
* *
107635173 AAACACAAAAAGCAGGCATCTAAG
1 AAACACAAAAAGAACGCATCTAAG
*
107635197 AAACACAAAAAGAACTCATCTA
1 AAACACAAAAAGAACGCATCTA
107635219 CAGGTCCTGC
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:0.57, C:0.22, G:0.11, T:0.11
Consensus pattern (24 bp):
AAACACAAAAAGAACGCATCTAAG
Found at i:107645475 original size:32 final size:32
Alignment explanation
Indices: 107645439--107645502 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
107645429 CTATCAAAAC
107645439 GTTAAAATTTTCTGACAAAACTTTAATACTAA
1 GTTAAAATTTTCTGACAAAACTTTAATACTAA
107645471 GTTAAAATTTTCTGACAAAACTTTAATACTAA
1 GTTAAAATTTTCTGACAAAACTTTAATACTAA
107645503 CTCAATAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (32 bp):
GTTAAAATTTTCTGACAAAACTTTAATACTAA
Found at i:107648872 original size:3 final size:3
Alignment explanation
Indices: 107648864--107648892 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
107648854 TATATTAGTT
107648864 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
107648893 TAATAATATA
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:107648905 original size:5 final size:5
Alignment explanation
Indices: 107648895--107648931 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
107648885 AACAACAATA
107648895 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
107648932 CTATTTACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:107649338 original size:5 final size:5
Alignment explanation
Indices: 107649330--107649414 Score: 109
Period size: 5 Copynumber: 17.0 Consensus size: 5
107649320 TATTTATTTC
107649330 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * *
107649380 ATGATT ATAAC ATAAT -TATT ATAAT TTAAC ATAAT
1 AT-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
107649415 TAAATTTATA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
4 3 0.04
5 61 0.90
6 4 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:107652220 original size:11 final size:10
Alignment explanation
Indices: 107652207--107652246 Score: 66
Period size: 10 Copynumber: 4.2 Consensus size: 10
107652197 TTTTTTTTAT
107652207 TTTTAAAATA
1 TTTTAAAATA
107652217 TTTTAAAATA
1 TTTTAAAATA
107652227 TTTTAAAATA
1 TTTTAAAATA
107652237 --TTAAAATA
1 TTTTAAAATA
107652245 TT
1 TT
107652247 ATATTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.29
10 20 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:107652230 original size:20 final size:18
Alignment explanation
Indices: 107652207--107652246 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
107652197 TTTTTTTTAT
107652207 TTTTAAAATATTTTAAAATA
1 TTTTAAAATA--TTAAAATA
107652227 TTTTAAAATATTAAAATA
1 TTTTAAAATATTAAAATA
107652245 TT
1 TT
107652247 ATATTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTAAAATATTAAAATA
Found at i:107652304 original size:16 final size:16
Alignment explanation
Indices: 107652283--107652332 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
107652273 ATATTTAATC
107652283 ATATAATAAATTATTA
1 ATATAATAAATTATTA
107652299 ATATAATAAA-TA-TA
1 ATATAATAAATTATTA
*
107652313 AT-TTATAAATTATTTA
1 ATATAATAAATTA-TTA
107652329 ATAT
1 ATAT
107652333 TTAAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 2 0.07
16 14 0.48
17 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:107652343 original size:18 final size:19
Alignment explanation
Indices: 107652313--107652350 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
107652303 AATAAATATA
107652313 ATTTATAAATTA-TTTAAT
1 ATTTATAAATTATTTTAAT
107652331 ATTTA-AAATTTATTTTAAT
1 ATTTATAAA-TTATTTTAAT
107652350 A
1 A
107652351 AATTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 8 0.44
19 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTATAAATTATTTTAAT
Found at i:107652345 original size:29 final size:31
Alignment explanation
Indices: 107652286--107652390 Score: 77
Period size: 29 Copynumber: 3.6 Consensus size: 31
107652276 TTTAATCATA
107652286 TAATAAATTATTAATATAATAAATATAA-TT
1 TAATAAATTATTAATATAATAAATATAATTT
* *
107652316 T-ATAAATTATTTAATAT-TTAAA-ATTTATTT
1 TAATAAATTA-TTAATATAATAAATA-TAATTT
107652346 TAATAAATT-TTAA-A-AAT--A-ATAATTT
1 TAATAAATTATTAATATAATAAATATAATTT
*
107652371 TAAATAATATTATTCATATA
1 T-AATAA-ATTATTAATATA
107652391 TTATTAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
25 6 0.10
26 7 0.12
27 3 0.05
28 6 0.10
29 19 0.32
30 12 0.20
31 7 0.12
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
TAATAAATTATTAATATAATAAATATAATTT
Found at i:107652367 original size:16 final size:16
Alignment explanation
Indices: 107652346--107652379 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
107652336 AAATTTATTT
107652346 TAATAAATTTTAAA-AA
1 TAAT-AATTTTAAATAA
107652362 TAATAATTTTAAATAA
1 TAATAATTTTAAATAA
107652378 TA
1 TA
107652380 TTATTCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:107652432 original size:15 final size:15
Alignment explanation
Indices: 107652412--107652468 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
107652402 ATTCAATATT
107652412 AATATTTTAATAATA
1 AATATTTTAATAATA
*
107652427 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
107652446 AATATATTAATAATA
1 AATATTTTAATAATA
107652461 AATATTTT
1 AATATTTT
107652469 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:107657953 original size:14 final size:14
Alignment explanation
Indices: 107657934--107658023 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
107657924 GATCAAAACT
107657934 AAAATTAAGTTAAC
1 AAAATTAAGTTAAC
*
107657948 AAAATTAAAATATAAAAAC
1 AAAATT-AAGT-T---AAC
107657967 TAAAATTAAGTTAAC
1 -AAAATTAAGTTAAC
*
107657982 AAAATTAAAATATAAAAAC
1 AAAATT-AAGT-T---AAC
107658001 TAAAATTAAGTTAAC
1 -AAAATTAAGTTAAC
107658016 AAAATTAA
1 AAAATTAA
107658024 AATATAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 24
0.68 0.05 0.27
Matches are distributed among these distances:
14 20 0.33
15 12 0.20
16 2 0.03
18 2 0.03
19 12 0.20
20 12 0.20
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAATTAAGTTAAC
Found at i:107657956 original size:20 final size:20
Alignment explanation
Indices: 107657927--107658026 Score: 89
Period size: 20 Copynumber: 5.6 Consensus size: 20
107657917 TTGTTTAGAT
107657927 CAAAACTAAAATTAAGTTAA
1 CAAAACTAAAATTAAGTTAA
*
107657947 CAAAATTAAAA-T-A--T-A
1 CAAAACTAAAATTAAGTTAA
107657962 -AAAACTAAAATTAAGTTAA
1 CAAAACTAAAATTAAGTTAA
*
107657981 CAAAATTAAAA-T-A--T-A
1 CAAAACTAAAATTAAGTTAA
107657996 -AAAACTAAAATTAAGTTAA
1 CAAAACTAAAATTAAGTTAA
*
107658015 CAAAATTAAAAT
1 CAAAACTAAAAT
107658027 ATAAAAATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 24
0.68 0.05 0.26
Matches are distributed among these distances:
14 18 0.29
15 4 0.06
16 4 0.06
18 4 0.06
19 4 0.06
20 29 0.46
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (20 bp):
CAAAACTAAAATTAAGTTAA
Found at i:107657966 original size:34 final size:34
Alignment explanation
Indices: 107657928--107658033 Score: 212
Period size: 34 Copynumber: 3.1 Consensus size: 34
107657918 TGTTTAGATC
107657928 AAAACTAAAATTAAGTTAACAAAATTAAAATATA
1 AAAACTAAAATTAAGTTAACAAAATTAAAATATA
107657962 AAAACTAAAATTAAGTTAACAAAATTAAAATATA
1 AAAACTAAAATTAAGTTAACAAAATTAAAATATA
107657996 AAAACTAAAATTAAGTTAACAAAATTAAAATATA
1 AAAACTAAAATTAAGTTAACAAAATTAAAATATA
107658030 AAAA
1 AAAA
107658034 TTAATTAGGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 72 1.00
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (34 bp):
AAAACTAAAATTAAGTTAACAAAATTAAAATATA
Found at i:107658033 original size:14 final size:14
Alignment explanation
Indices: 107657948--107658037 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
107657938 TTAAGTTAAC
107657948 AAAATTAAAATATA
1 AAAATTAAAATATA
*
107657962 AAAACTAAAATTAAGTTAA
1 AAAATTAAAA-T-A--T-A
107657981 CAAAATTAAAATATA
1 -AAAATTAAAATATA
*
107657996 AAAACTAAAATTAAGTTAA
1 AAAATTAAAA-T-A--T-A
107658015 CAAAATTAAAATATA
1 -AAAATTAAAATATA
107658030 AAAATTAA
1 AAAATTAA
107658038 TTAGGACTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 24
0.68 0.05 0.27
Matches are distributed among these distances:
14 26 0.43
15 4 0.07
16 4 0.07
18 4 0.07
19 4 0.07
20 18 0.30
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (14 bp):
AAAATTAAAATATA
Found at i:107662842 original size:11 final size:11
Alignment explanation
Indices: 107662813--107662842 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
107662803 TAAACATTTG
*
107662813 TCTTTTTCTTT
1 TCTTTTTTTTT
107662824 TCTTTTTTTTT
1 TCTTTTTTTTT
107662835 TCTTTTTT
1 TCTTTTTT
107662843 AAGTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:107662901 original size:10 final size:9
Alignment explanation
Indices: 107662860--107662893 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
107662850 ATATTTTTTC
107662860 TTATTTTAT
1 TTATTTTAT
107662869 TT-TGTTTAT
1 TTAT-TTTAT
107662878 TTATTTTAT
1 TTATTTTAT
107662887 TTATTTT
1 TTATTTT
107662894 TTGTTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:107662988 original size:13 final size:13
Alignment explanation
Indices: 107662967--107663029 Score: 57
Period size: 13 Copynumber: 5.1 Consensus size: 13
107662957 AAATTTTAAA
107662967 TATTATTTTAAAAT
1 TATT-TTTTAAAAT
107662981 TATTTTTT-AAA-
1 TATTTTTTAAAAT
107662992 -A--TTTTAAATAT
1 TATTTTTTAAA-AT
107663003 ATATTTTTT-AAAT
1 -TATTTTTTAAAAT
107663016 TATTTTTTAAAAT
1 TATTTTTTAAAAT
107663029 T
1 T
107663030 TTAAATATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 17
0.71 0.00 0.29
Matches are distributed among these distances:
8 4 0.10
9 2 0.05
10 2 0.05
12 11 0.27
13 12 0.29
14 6 0.15
15 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTTTTAAAAT
Found at i:107662995 original size:21 final size:23
Alignment explanation
Indices: 107662971--107663014 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
107662961 TTTAAATATT
107662971 ATTTTAAA-AT-TATTTTTTAAA
1 ATTTTAAATATATATTTTTTAAA
107662992 ATTTTAAATATATATTTTTTAAA
1 ATTTTAAATATATATTTTTTAAA
107663015 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.38
22 2 0.10
23 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTTAAATATATATTTTTTAAA
Found at i:107663023 original size:35 final size:34
Alignment explanation
Indices: 107662948--107663048 Score: 177
Period size: 35 Copynumber: 3.0 Consensus size: 34
107662938 TTATAATATA
*
107662948 TATTTTTTAAAATTTTAAATATTA-TTTTAAAAT
1 TATTTTTTAAAATTTTAAATATTATTTTTTAAAT
107662981 TATTTTTTAAAATTTTAAATATATATTTTTTAAAT
1 TATTTTTTAAAATTTTAAATAT-TATTTTTTAAAT
107663016 TATTTTTTAAAATTTTAAATATTATTTTTTAAA
1 TATTTTTTAAAATTTTAAATATTATTTTTTAAA
107663049 AAATTAAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
33 22 0.34
34 13 0.20
35 30 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TATTTTTTAAAATTTTAAATATTATTTTTTAAAT
Found at i:107663030 original size:22 final size:22
Alignment explanation
Indices: 107663014--107663067 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
107663004 TATTTTTTAA
107663014 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATTTTAAAT
**
107663036 ATTATTTTTTAAAAAATTAAAT
1 ATTATTTTTTAAAATTTTAAAT
107663058 ATATATTTTT
1 AT-TATTTTT
107663068 AATAATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATTTTTTAAAATTTTAAAT
Found at i:107663044 original size:13 final size:12
Alignment explanation
Indices: 107662960--107663049 Score: 59
Period size: 12 Copynumber: 7.7 Consensus size: 12
107662950 TTTTTTAAAA
107662960 TTTTAAATATTA-
1 TTTTAAA-ATTAT
107662972 TTTTAAAATTAT
1 TTTTAAAATTAT
*
107662984 TTTTTAAA--A-
1 TTTTAAAATTAT
107662993 TTTTAAATATATAT
1 TTTTAAA-AT-TAT
*
107663007 TTTTTAAATTAT
1 TTTTAAAATTAT
*
107663019 TTTTTAAA--A-
1 TTTTAAAATTAT
107663028 TTTTAAATATTATT
1 TTTTAAA-ATTA-T
107663042 TTTTAAAA
1 TTTTAAAA
107663050 AATTAAATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 21
0.72 0.05 0.24
Matches are distributed among these distances:
9 12 0.19
10 4 0.06
11 4 0.06
12 26 0.41
13 4 0.06
14 13 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:107663056 original size:57 final size:55
Alignment explanation
Indices: 107662942--107663067 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 55
107662932 AATGTTTTAT
**
107662942 AATATATATTTTTTAAAATTTTAAATATTATTTTAAAATTATTTTTTAAAATTTTA
1 AATATATATTTTTTAAAATTTTAAATA-TATTTTAAAATTATTTTTTAAAAAATTA
*
107662998 AATATATATTTTTTAAATTATTTTTTAA-A-ATTTTAAATATTATTTTTTAAAAAATTA
1 AATATATATTTTTTAAA--A-TTTTAAATATATTTTAAA-ATTATTTTTTAAAAAATTA
107663055 AATATATATTTTT
1 AATATATATTTTT
107663068 AATAATATGA
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
56 25 0.40
57 30 0.48
58 2 0.03
59 6 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (55 bp):
AATATATATTTTTTAAAATTTTAAATATATTTTAAAATTATTTTTTAAAAAATTA
Found at i:107663395 original size:36 final size:33
Alignment explanation
Indices: 107663335--107663470 Score: 148
Period size: 36 Copynumber: 3.9 Consensus size: 33
107663325 TATACTTAAT
* *
107663335 ATTTAAAAAATAATATTTACAATTTATAAAAATTA
1 ATTTCAAAAATAATATTTAAAATTT-TAAAAA-TA
* * *
107663370 CTTTCAAAAATATATTTTTAAAATTTATAAGAAAAA
1 ATTTCAAAAATA-ATATTTAAAATTT-TAA-AAATA
107663406 ATTTCAAAAATATATATTTAAAATTTTAAAAAATA
1 ATTTCAAAAATA-ATATTTAAAATTTT-AAAAATA
*
107663441 ATTT-TAAAATAATATTTAAAATTTTAAAAA
1 ATTTCAAAAATAATATTTAAAATTTTAAAAA
107663471 ATATATTATA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
32 5 0.06
33 14 0.16
34 6 0.07
35 19 0.21
36 42 0.47
37 3 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (33 bp):
ATTTCAAAAATAATATTTAAAATTTTAAAAATA
Found at i:107663428 original size:22 final size:21
Alignment explanation
Indices: 107663403--107663450 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
107663393 TTTATAAGAA
107663403 AAAATTTC-AAAAATATATATTT
1 AAAATTTCAAAAAATA-AT-TTT
*
107663425 AAAATTTTAAAAAATAATTTT
1 AAAATTTCAAAAAATAATTTT
107663446 AAAAT
1 AAAAT
107663451 AATATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 9 0.38
23 7 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATTTCAAAAAATAATTTT
Found at i:107663436 original size:21 final size:22
Alignment explanation
Indices: 107663403--107663450 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
107663393 TTTATAAGAA
*
107663403 AAAATTTCAAAAATAT-ATATTT
1 AAAATTTCAAAAAAATAAT-TTT
*
107663425 AAAATTT-TAAAAAATAATTTT
1 AAAATTTCAAAAAAATAATTTT
107663446 AAAAT
1 AAAAT
107663451 AATATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTTCAAAAAAATAATTTT
Found at i:107663443 original size:13 final size:14
Alignment explanation
Indices: 107663427--107663462 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
107663417 ATATATTTAA
107663427 AATTTTAAAA-AAT
1 AATTTTAAAATAAT
107663440 AATTTTAAAATAAT
1 AATTTTAAAATAAT
107663454 -A-TTTAAAAT
1 AATTTTAAAAT
107663463 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.36
13 11 0.50
14 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTTTAAAATAAT
Found at i:107663470 original size:21 final size:21
Alignment explanation
Indices: 107663440--107663483 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
107663430 TTTAAAAAAT
107663440 AATTTT-AAAATAATATT-TAA
1 AATTTTAAAAAT-ATATTATAA
107663460 AATTTTAAAAAATATATTATAA
1 AATTTT-AAAAATATATTATAA
107663482 AA
1 AA
107663484 CATTTCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 5 0.24
22 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTTAAAAATATATTATAA
Found at i:107663544 original size:13 final size:13
Alignment explanation
Indices: 107663512--107663554 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
107663502 CAAATTTTTA
* *
107663512 AAATTAATAACAAG
1 AAATAAATAA-AAT
107663526 AAATAAATAAAAT
1 AAATAAATAAAAT
*
107663539 AAATAAACAAAAT
1 AAATAAATAAAAT
107663552 AAA
1 AAA
107663555 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:107663573 original size:9 final size:9
Alignment explanation
Indices: 107663526--107663558 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
107663516 TAATAACAAG
107663526 AAATAAATA
1 AAATAAATA
107663535 AAATAAATA
1 AAATAAATA
107663544 AACA-AAATA
1 AA-ATAAATA
107663553 AAATAA
1 AAATAA
107663559 GAAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAATAAATA
Found at i:107664674 original size:23 final size:22
Alignment explanation
Indices: 107664648--107664707 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
107664638 AAATGCCTCT
** *
107664648 AAAATAGTAATAAAATTAACAAG
1 AAAATAGTAA-AAAAACAACAAA
* * *
107664671 AAAATAATAACAAAACAATAAA
1 AAAATAGTAAAAAAACAACAAA
107664693 AAAATAGTAAAAAAA
1 AAAATAGTAAAAAAA
107664708 AGCAACTGTC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAATAGTAAAAAAACAACAAA
Found at i:107673277 original size:31 final size:31
Alignment explanation
Indices: 107673242--107673302 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
107673232 AATAATACAT
**
107673242 TGACTTAAAT-AAAATCTTTTGAATAATTTAG
1 TGACTTAAATGAAAA-CTTTCAAATAATTTAG
107673273 TGACTTAAATGAAAACTTTCAAATAATTTA
1 TGACTTAAATGAAAACTTTCAAATAATTTA
107673303 CCAAATTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTCAAATAATTTAG
Found at i:107676574 original size:28 final size:28
Alignment explanation
Indices: 107676543--107676599 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
107676533 AGATTATGTT
107676543 ACCAAAATTTACCAACACAAAATAAGAC
1 ACCAAAATTTACCAACACAAAATAAGAC
* * *
107676571 ACCAAAATTTACCCACACAAGATATGAC
1 ACCAAAATTTACCAACACAAAATAAGAC
107676599 A
1 A
107676600 AATTTTTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (28 bp):
ACCAAAATTTACCAACACAAAATAAGAC
Found at i:107679209 original size:2 final size:2
Alignment explanation
Indices: 107679202--107679234 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
107679192 AGTGAGAATC
107679202 AT AT AT AT AT AT AT AT CAT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
107679235 GCAACTCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107679221 original size:17 final size:17
Alignment explanation
Indices: 107679199--107679234 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
107679189 TTGAGTGAGA
107679199 ATCATATATATATATAT
1 ATCATATATATATATAT
107679216 ATCATATATATATATAT
1 ATCATATATATATATAT
107679233 AT
1 AT
107679235 GCAACTCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATCATATATATATATAT
Found at i:107679224 original size:15 final size:15
Alignment explanation
Indices: 107679204--107679232 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
107679194 TGAGAATCAT
107679204 ATATATATATATATC
1 ATATATATATATATC
107679219 ATATATATATATAT
1 ATATATATATATAT
107679233 ATGCAACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATATATATATC
Found at i:107682991 original size:21 final size:21
Alignment explanation
Indices: 107682959--107682999 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
107682949 AGGCTCGAGG
107682959 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
107682980 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
107683000 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:107690851 original size:131 final size:129
Alignment explanation
Indices: 107690616--107690945 Score: 484
Period size: 131 Copynumber: 2.6 Consensus size: 129
107690606 CTATTCATTC
* * * *
107690616 AAAAATGCTTTAAAACGAAGGCAACGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCGTG
1 AAAAATTC-TTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
* **
107690681 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTGGAATTTCACTCATGTCTT
65 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCAAATATTCCTTTAAAATTTCACTCATGT-TT
107690746 T
129 T
* *
107690747 AAAAATTCTTCAAAACGAAGGAAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCTTATCGTG
1 AAAAATTCTT-AAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
*
107690812 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
65 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCAAATATTCCTTTAAAATTTCACTCATGTTTT
** * * *
107690877 CTAAATT-TTAAAA-GAAGGCAATGTTCAATGTTTGGAAATTTGGGGAATCGTGCCCTACCGTGC
1 AAAAATTCTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGC
107690940 TGGGTT
66 TGGGTT
107690946 TCGATTTTTC
Statistics
Matches: 181, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
127 51 0.28
128 4 0.02
129 2 0.01
130 10 0.06
131 114 0.63
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (129 bp):
AAAAATTCTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGC
TGGGTTGCAATTTCCCGTTTGCTCAAAATAATCAAATATTCCTTTAAAATTTCACTCATGTTTT
Found at i:107692877 original size:42 final size:41
Alignment explanation
Indices: 107692799--107692878 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 41
107692789 ATGCAGGGGA
* * *
107692799 CACACGGTCTATCAACATGCTCGTGTGCAAGCCGTGTGTCT
1 CACACGGTCTATCAACACGCCCGTGGGCAAGCCGTGTGTCT
107692840 CACACGGTCTGATC-ACACGCCCGTGGGACAAGCCGTGTG
1 CACACGGTCT-ATCAACACGCCCGTGGG-CAAGCCGTGTG
107692879 GACTCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 20 0.59
42 14 0.41
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.21
Consensus pattern (41 bp):
CACACGGTCTATCAACACGCCCGTGGGCAAGCCGTGTGTCT
Found at i:107694615 original size:30 final size:30
Alignment explanation
Indices: 107694581--107694638 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
107694571 CTGTTTCTTA
* *
107694581 CTTTTGTTTC-TTTATTCTTTTTTATTATTT
1 CTTTTATTTCTTTTATT-TATTTTATTATTT
107694611 CTTTTATTTCTTTTATTTATTTTATTAT
1 CTTTTATTTCTTTTATTTATTTTATTAT
107694639 ATTATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.76
Consensus pattern (30 bp):
CTTTTATTTCTTTTATTTATTTTATTATTT
Found at i:107694619 original size:9 final size:9
Alignment explanation
Indices: 107694605--107694636 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
107694595 TTCTTTTTTA
107694605 TTATTTCTT
1 TTATTTCTT
107694614 TTATTTCTT
1 TTATTTCTT
*
107694623 TTATTTATT
1 TTATTTCTT
107694632 TTATT
1 TTATT
107694637 ATATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTCTT
Found at i:107694624 original size:22 final size:21
Alignment explanation
Indices: 107694587--107694632 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
107694577 CTTACTTTTG
107694587 TTTCTTTATTCTTTTT-TATTA
1 TTTCTTTATTCTTTTTAT-TTA
107694608 TTTCTTTTATT-TCTTTTATTTA
1 TTTC-TTTATTCT-TTTTATTTA
107694630 TTT
1 TTT
107694633 TATTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 5 0.23
22 16 0.73
23 1 0.05
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTCTTTATTCTTTTTATTTA
Found at i:107694672 original size:20 final size:18
Alignment explanation
Indices: 107694634--107694672 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
107694624 TATTTATTTT
*
107694634 ATTATATTATATTTTTTA
1 ATTATATTATATTTCTTA
107694652 ATTATAATTATTATTTCTTA
1 ATTAT-ATTA-TATTTCTTA
107694672 A
1 A
107694673 AAAATAAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATTATATTTCTTA
Found at i:107709608 original size:15 final size:15
Alignment explanation
Indices: 107709588--107709620 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
107709578 TGGTTAATTG
*
107709588 TAATTAAGGTTTAAT
1 TAATTAAAGTTTAAT
107709603 TAATTAAAGTTTAAT
1 TAATTAAAGTTTAAT
107709618 TAA
1 TAA
107709621 GTGATTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (15 bp):
TAATTAAAGTTTAAT
Found at i:107718540 original size:6 final size:6
Alignment explanation
Indices: 107718529--107718571 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
107718519 CGAAGGTATG
*
107718529 AGATGA AGATGA AGATGA AGATGA AGATGG AGATGA AGATGA A
1 AGATGA AGATGA AGATGA AGATGA AGATGA AGATGA AGATGA A
107718572 AGTGGAGGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
AGATGA
Found at i:107718673 original size:27 final size:27
Alignment explanation
Indices: 107718643--107718714 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
107718633 ATTTTCCAGT
* *
107718643 AGGCTTGGTGAGTAGGGGTTCGCTAGA
1 AGGCTTGGTGAGCAGGGGTTCACTAGA
* * *
107718670 AGGCTTAGTGAGCAGGGGTTTATTAGA
1 AGGCTTGGTGAGCAGGGGTTCACTAGA
107718697 AGGCTTGGTGAGCAGGGG
1 AGGCTTGGTGAGCAGGGG
107718715 GTTTTCCAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.10, G:0.44, T:0.25
Consensus pattern (27 bp):
AGGCTTGGTGAGCAGGGGTTCACTAGA
Found at i:107720786 original size:19 final size:17
Alignment explanation
Indices: 107720749--107720787 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
107720739 TTACAATGCG
*
107720749 AATATTTGAATTTATTA
1 AATATTTGAATTTAGTA
107720766 AATATTTGAAATTTTAGTA
1 AATATTTG-AA-TTTAGTA
107720785 AAT
1 AAT
107720788 TTTTATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (17 bp):
AATATTTGAATTTAGTA
Found at i:107720831 original size:27 final size:28
Alignment explanation
Indices: 107720801--107720854 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
107720791 TATAGTTTTT
107720801 TTGTAA-TTTTAT-ATTTTTAATATATTA
1 TTGTAATTTTTATCATTTTTAA-ATATTA
*
107720828 TTGTAATTTTTTTCATTTTTAAATATT
1 TTGTAATTTTTATCATTTTTAAATATT
107720855 TTTATTAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 10 0.42
29 8 0.33
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (28 bp):
TTGTAATTTTTATCATTTTTAAATATTA
Found at i:107726011 original size:16 final size:16
Alignment explanation
Indices: 107725976--107726014 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
107725966 TGAATTACTT
* *
107725976 ATTACAGCTCTATTTA
1 ATTACAGCCCTATTCA
*
107725992 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
107726008 ATTACAG
1 ATTACAG
107726015 TGAACCAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:107728373 original size:76 final size:76
Alignment explanation
Indices: 107728256--107728396 Score: 189
Period size: 76 Copynumber: 1.9 Consensus size: 76
107728246 TGTATTTTAC
* *
107728256 ATCAATAATATACTCATTTACAATCTACGAAAAAAATT-AAAAATTTT-TTTGTGTTGTATTCTA
1 ATCAATAATATACTCATTTACAATCTACGAAAAAAATTAAAAAATTTTGTTTATATTGTATTCTA
107728319 TTGCATCGAAT
66 TTGCATCGAAT
** *
107728330 ATCAATAATATAAACTTGTTTACAATCTATGAAAAAGAA-TAAAAAATTTTGTTTATATTGTATT
1 ATCAATAATAT--ACTCATTTACAATCTACGAAAAA-AATTAAAAAATTTTGTTTATATTGTATT
107728394 CTA
63 CTA
107728397 CTATATATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
74 11 0.19
76 21 0.37
77 11 0.19
78 14 0.25
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (76 bp):
ATCAATAATATACTCATTTACAATCTACGAAAAAAATTAAAAAATTTTGTTTATATTGTATTCTA
TTGCATCGAAT
Found at i:107729461 original size:27 final size:27
Alignment explanation
Indices: 107729439--107729777 Score: 308
Period size: 27 Copynumber: 12.6 Consensus size: 27
107729429 TTAGTTTACT
*
107729439 AAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* ** * *
107729466 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
107729493 AAATCACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* **
107729520 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
107729547 AAATTACCAAAATATCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * ** * *
107729574 AAATTACTAAAATATCATTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
107729601 AAATTACC-AAATACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
107729627 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
107729654 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
107729681 AAATTACCAAAATATCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
** * **
107729708 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
** * *
107729735 AAATTATTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
107729762 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
107729778 ATTGATTTAC
Statistics
Matches: 261, Mismatches: 47, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
26 25 0.10
27 235 0.90
28 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:107729506 original size:54 final size:54
Alignment explanation
Indices: 107729439--107729694 Score: 343
Period size: 54 Copynumber: 4.8 Consensus size: 54
107729429 TTAGTTTACT
* *
107729439 AAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* * * * * *
107729493 AAATCACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* * * *
107729547 AAATTACCAAAATATCCCTAGTTTGTAAAATTACTAAAATATCATTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* * ** *
107729601 AAATTACC-AAATACTCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
*
107729654 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA
107729695 TCCCTGATTT
Statistics
Matches: 172, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 43 0.25
54 129 0.75
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
Found at i:107729673 original size:107 final size:107
Alignment explanation
Indices: 107729430--107729696 Score: 394
Period size: 107 Copynumber: 2.5 Consensus size: 107
107729420 TAGAATACTT
* *
107729430 TAGTTTACTAAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAAA
1 TAGTTTACAAAATTAC-AAAATACCCCTAGTTTGTAAAATTACTAAAATATCATTGGTTTATAAA
*
107729495 ATCACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCT
65 ATCACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCC
* *
107729538 TAGTTTACAAAATTACCAAAATATCCCTAGTTTGTAAAATTACTAAAATATCATTTGTTTATAAA
1 TAGTTTACAAAATTA-CAAAATACCCCTAGTTTGTAAAATTACTAAAATATCATTGGTTTATAAA
*
107729603 ATTACC-AAATACTC-CTGGTTTGTAAAATTACCAAAATACCCC
65 ATCACCAAAATAC-CACTGGTTTGTAAAATTACCAAAATACCCC
* ** *
107729645 TGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATC
1 TAGTTTACAAAATTA-CAAAATACCCCTAGTTTGTAAAATTACTAAAATATC
107729697 CCTGATTTGT
Statistics
Matches: 145, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
107 79 0.54
108 65 0.45
109 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (107 bp):
TAGTTTACAAAATTACAAAATACCCCTAGTTTGTAAAATTACTAAAATATCATTGGTTTATAAAA
TCACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCC
Found at i:107729676 original size:134 final size:135
Alignment explanation
Indices: 107729439--107729723 Score: 387
Period size: 134 Copynumber: 2.1 Consensus size: 135
107729429 TTAGTTTACT
* * *
107729439 AAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAAAATCACCAAA
1 AAATTACTAAAATACCACTAGTTTATAAAATTACTAAAATACCACTGGTTTATAAAATCACCAAA
*
107729504 ATACCACTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATATCCCT-AG
66 ATACCACTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATATCCCTGA-
107729568 TTTGTA
130 TTTGTA
* * * * * *
107729574 AAATTACTAAAATATCATTTGTTTATAAAATTAC-CAAATACTC-CTGGTTTGTAAAATTACCAA
1 AAATTACTAAAATACCACTAGTTTATAAAATTACTAAAATAC-CACTGGTTTATAAAATCACCAA
* * **
107729637 AATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTGA
65 AATACCACTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATATCCCTGA
*
107729702 TTTGTG
130 TTTGTA
*
107729708 AAATTACTGAAATACC
1 AAATTACTAAAATACC
107729724 CTCGACCTGT
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
134 100 0.76
135 31 0.24
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (135 bp):
AAATTACTAAAATACCACTAGTTTATAAAATTACTAAAATACCACTGGTTTATAAAATCACCAAA
ATACCACTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATATCCCTGAT
TTGTA
Found at i:107729851 original size:27 final size:27
Alignment explanation
Indices: 107729821--107730009 Score: 254
Period size: 27 Copynumber: 7.0 Consensus size: 27
107729811 TTACAAAATC
* *
107729821 ACCGAAATACCCTTATAGGGTAGAAAT
1 ACCGAAATACCCTTGTAGGGTAGAATT
107729848 ACCGAAATACCCTTGTAGGGTAGAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
* *
107729875 ACTGAAATACCCCTGTAGGGTAGAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
* *
107729902 ACCGGAATACCCCTGTAGGGTAGAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
*
107729929 ACCGGAATACCCTTGTAGGGTAGAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
* * *
107729956 ACCGAAATACCCCTGTAGGATGGAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
* * *
107729983 ACCGAGATA-CCTTGTGGGGTAAAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
107730009 A
1 A
107730010 TCATTTTGCC
Statistics
Matches: 145, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 13 0.09
27 132 0.91
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (27 bp):
ACCGAAATACCCTTGTAGGGTAGAATT
Found at i:107730490 original size:22 final size:22
Alignment explanation
Indices: 107730438--107730502 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
107730428 TTAAAGCCTT
* *
107730438 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
107730460 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
107730482 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
107730503 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:107730718 original size:27 final size:27
Alignment explanation
Indices: 107730660--107730762 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
107730650 TATTCTGTTA
* * * * *
107730660 AGTGGCTTTGCCATATTATCTGTTTTT
1 AGTGGCTCTGCCACAATATCTGTATCT
* *
107730687 GGTGGCTATGCCACAAATATCTGT-TCT
1 AGTGGCTCTGCCAC-AATATCTGTATCT
107730714 AGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGTATCT
* * *
107730741 GGTGACTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTG
107730763 ATAACTGAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 9 0.14
27 47 0.73
28 8 0.12
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTGTATCT
Found at i:107730718 original size:54 final size:53
Alignment explanation
Indices: 107730660--107730762 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 53
107730650 TATTCTGTTA
* * * * * *
107730660 AGTGGCTTTGCCATATTATCTGTTTTTGGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTGTTCT
* *
107730714 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTG
107730763 ATAACTGAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (53 bp):
AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTCT
Found at i:107730953 original size:24 final size:24
Alignment explanation
Indices: 107730900--107730961 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
107730890 TCACATTCTG
*
107730900 GTTT-TGATTCTGTTACCTGATACT
1 GTTTCTGATTCTGTTA-CTGATAAT
*
107730924 GATTCTGATTCTAGTT-CTGATAAT
1 GTTTCTGATTCT-GTTACTGATAAT
*
107730948 GTTTCTTATTCTGT
1 GTTTCTGATTCTGT
107730962 AATGGGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 2 0.06
24 20 0.62
25 7 0.22
26 3 0.09
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.52
Consensus pattern (24 bp):
GTTTCTGATTCTGTTACTGATAAT
Found at i:107732679 original size:19 final size:20
Alignment explanation
Indices: 107732657--107732695 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
107732647 TGTGTATATA
107732657 TACCTT-TGTAAAGTATCGG
1 TACCTTATGTAAAGTATCGG
107732676 TACCTTAATGTAAAGTATCG
1 TACCTT-ATGTAAAGTATCG
107732696 ATACTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (20 bp):
TACCTTATGTAAAGTATCGG
Found at i:107733835 original size:22 final size:22
Alignment explanation
Indices: 107733781--107733825 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
107733771 ACATAAATCT
* *
107733781 TAAGCAAAGAGTACTGAAGTGC
1 TAAGCAGAGAGAACTGAAGTGC
107733803 TAAGCAGAGAGAACTGAAGTGC
1 TAAGCAGAGAGAACTGAAGTGC
107733825 T
1 T
107733826 GAATAGAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.18
Consensus pattern (22 bp):
TAAGCAGAGAGAACTGAAGTGC
Found at i:107735728 original size:10 final size:10
Alignment explanation
Indices: 107735707--107735741 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
107735697 TCTATTTCAC
*
107735707 CATTTCTATT
1 CATTTCTGTT
*
107735717 CATTTTTGTT
1 CATTTCTGTT
107735727 CATTTCTGTT
1 CATTTCTGTT
107735737 CATTT
1 CATTT
107735742 GATTCAACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.14, C:0.17, G:0.06, T:0.63
Consensus pattern (10 bp):
CATTTCTGTT
Found at i:107739899 original size:42 final size:42
Alignment explanation
Indices: 107739846--107739965 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 42
107739836 AGGATTACTG
* * **
107739846 AGATTATGTGTAAGACCATATTTGGGATATGGCATCGATATG
1 AGATTACGTGTAAGACCATATATGGGATATGGCATCGATACA
* *
107739888 AGACTT-CGTGTAAGACCATAGATGGGCTATTGGCATCGATACA
1 AGA-TTACGTGTAAGACCATATATGGGATA-TGGCATCGATACA
** * *
107739931 AGATTATATATAAGACCATATCTGGGATATGGCAT
1 AGATTACGTGTAAGACCATATATGGGATATGGCAT
107739966 TAGTACGGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATATGGGATATGGCATCGATACA
Found at i:107746881 original size:49 final size:48
Alignment explanation
Indices: 107746818--107746920 Score: 129
Period size: 49 Copynumber: 2.1 Consensus size: 48
107746808 GGTTATACAT
* * *
107746818 TCACGGGTTTAAGTATAACT-AGAG-CTCCTAGTTGACGATGGTTATGTG
1 TCACGGGTTGAAGTATAACTCAG-GCCT-CAAGTTGACGATGGTTATGCG
*
107746866 ATCACGGGTTGAAGTATAACTCAGGCCTCAAGTTGACGGTGGTTATGCG
1 -TCACGGGTTGAAGTATAACTCAGGCCTCAAGTTGACGATGGTTATGCG
107746915 TCACGG
1 TCACGG
107746921 ATTCAAGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
48 6 0.12
49 38 0.79
50 4 0.08
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (48 bp):
TCACGGGTTGAAGTATAACTCAGGCCTCAAGTTGACGATGGTTATGCG
Found at i:107754706 original size:22 final size:21
Alignment explanation
Indices: 107754642--107754706 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 21
107754632 CTACTTCTCA
* *
107754642 TTCTTCATTTTTTTCCCTTTTT
1 TTCTTC-TCTTTTTCCATTTTT
* *
107754664 TTTTTCTCTTTCTCTTC-TTTTT
1 TTCTTCTCTTT-T-TCCATTTTT
*
107754686 TACTTCTCTTTTTCCATTTTT
1 TTCTTCTCTTTTTCCATTTTT
107754707 CTTCCATACT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 2 0.06
21 10 0.29
22 20 0.59
23 2 0.06
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (21 bp):
TTCTTCTCTTTTTCCATTTTT
Found at i:107756451 original size:17 final size:16
Alignment explanation
Indices: 107756402--107756450 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
107756392 AGTCCATTTA
*
107756402 TTTTTACTTTATTTTG
1 TTTTTATTTTATTTTG
* *
107756418 TTTTTCCTTTTCCTTTTG
1 TTTTT-ATTTT-ATTTTG
107756436 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
107756451 TATTTCTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 9 0.35
17 7 0.27
18 10 0.38
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.78
Consensus pattern (16 bp):
TTTTTATTTTATTTTG
Found at i:107760490 original size:27 final size:27
Alignment explanation
Indices: 107760460--107760512 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
107760450 ATAATTAAAG
107760460 ACAAATGAAA-TAAAATAATATAAAAAA
1 ACAAATGAAAGT-AAATAATATAAAAAA
* *
107760487 ACAATTTAAAGTAAATAATATAAAAA
1 ACAAATGAAAGTAAATAATATAAAAA
107760513 GGTTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (27 bp):
ACAAATGAAAGTAAATAATATAAAAAA
Found at i:107760533 original size:26 final size:25
Alignment explanation
Indices: 107760467--107760937 Score: 339
Period size: 26 Copynumber: 18.1 Consensus size: 25
107760457 AAGACAAATG
*
107760467 AAATAAAATAATATAAAAAAACAATTTA
1 AAAT-AAATAATAT-ATAAAA-AATTTA
* **
107760495 AAGTAAATAATATA-AAAAGGTTTA
1 AAATAAATAATATATAAAAAATTTA
107760519 AAATAAATAATATATGAAAAAAATTTA
1 AAATAAATAATATAT--AAAAAATTTA
*
107760546 AAATAAATAATACA-AAAAAATGGTTCA
1 AAATAAATAATATATAAAAAAT--TT-A
* *
107760573 AAATAAACAATATATGAAAAAAAATTA
1 AAATAAATAATATAT--AAAAAATTTA
* * *
107760600 ACAA-AATATAATATA-AAACAGTTTG
1 A-AATAA-ATAATATATAAAAAATTTA
*
107760625 AAATAAATAAT-T-TAAAGCAATTTA
1 AAATAAATAATATATAAA-AAATTTA
* * * *
107760649 AAATAAACAACACATAAAACAGTTTA
1 AAATAAATAATATATAAAA-AATTTA
* * *
107760675 AAAGAAATAATATGTGAAAAAAAATCTA
1 AAATAAATAATA--T-ATAAAAAATTTA
*
107760703 AAATAAATAATATATATAATACAGTTTA
1 AAATAAATAATATATA-AA-A-AATTTA
* *
107760731 AAATAAAATAATATATAAAGCAATTCA
1 AAAT-AAATAATATATAAA-AAATTTA
*
107760758 AAATAAATAATATATGAAACAATTTA
1 AAATAAATAATATAT-AAAAAATTTA
*
107760784 AAATAAATAATATCTAAAACAATTTA
1 AAATAAATAATATATAAAA-AATTTA
* * *
107760810 AAATAGATAATATA-AAACAGTTTA
1 AAATAAATAATATATAAAAAATTTA
*
107760834 ATATAAATAATATATAAAAAATTTA
1 AAATAAATAATATATAAAAAATTTA
* * *
107760859 AAATAAATAAAATATAAAACCATTAA
1 AAATAAATAATATATAAAA-AATTTA
*
107760885 AAATAAATAGTATATAAAAAATTTA
1 AAATAAATAATATATAAAAAATTTA
* *
107760910 AAA-AGAATAAGTAAATAACAAA-TTA
1 AAATA-AATAA-TATATAAAAAATTTA
107760935 AAA
1 AAA
107760938 GGATAAAATC
Statistics
Matches: 354, Mismatches: 59, Indels: 63
0.74 0.12 0.13
Matches are distributed among these distances:
23 4 0.01
24 63 0.18
25 63 0.18
26 103 0.29
27 59 0.17
28 39 0.11
29 17 0.05
30 6 0.02
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (25 bp):
AAATAAATAATATATAAAAAATTTA
Found at i:107760671 original size:50 final size:52
Alignment explanation
Indices: 107760467--107760912 Score: 421
Period size: 51 Copynumber: 8.6 Consensus size: 52
107760457 AAGACAAATG
* * *
107760467 AAATAAAATAATATAAAAAAACAATTTAAAGTAAATAATATA-AAAA-GGTTTA
1 AAAT-AAATAATAT-ATAAAACAATTTAAAATAAATAATATATAAAACAGTTTA
* * * *
107760519 AAATAAATAATATATGAAAAAAATTTAAAATAAATAATACA-AAAAAATGGTTCA
1 AAATAAATAATATAT-AAAACAATTTAAAATAAATAATATATAAAACA--GTTTA
* * * * *
107760573 AAATAAACAATATATGAAAAAAAATTAACA-AAAT-ATAATATAAAACAGTTTG
1 AAATAAATAATATAT-AAAACAATTTAAAATAAATAAT-ATATAAAACAGTTTA
* * * *
107760625 AAATAAATAAT-T-TAAAGCAATTTAAAATAAACAACACATAAAACAGTTTA
1 AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAAACAGTTTA
* * * *
107760675 AAAGAAATAATATGTGAAAAAAAATCTAAAATAAATAATATATATAATACAGTTTA
1 AAATAAATAATATAT--AAAACAATTTAAAATAAATAATATATA-AA-ACAGTTTA
* * * *
107760731 AAATAAAATAATATATAAAGCAATTCAAAATAAATAATATATGAAACAATTTA
1 AAAT-AAATAATATATAAAACAATTTAAAATAAATAATATATAAAACAGTTTA
* *
107760784 AAATAAATAATATCTAAAACAATTTAAAATAGAT-A-ATATAAAACAGTTTA
1 AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAAACAGTTTA
* * *
107760834 ATATAAATAATATATAAAA-AATTTAAAATAAATAAAATATAAAACCA-TTAA
1 AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAAA-CAGTTTA
*
107760885 AAATAAATAGTATATAAAA-AATTTAAAA
1 AAATAAATAATATATAAAACAATTTAAAA
107760913 AGAATAAGTA
Statistics
Matches: 327, Mismatches: 49, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
49 23 0.07
50 59 0.18
51 76 0.23
52 48 0.15
53 17 0.05
54 59 0.18
55 24 0.07
56 11 0.03
57 10 0.03
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (52 bp):
AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAAACAGTTTA
Found at i:107760736 original size:185 final size:182
Alignment explanation
Indices: 107760517--107760868 Score: 401
Period size: 185 Copynumber: 1.9 Consensus size: 182
107760507 TAAAAAGGTT
107760517 TAAAATAAATAATATATGAAAAAAATTTAAAAT-AAATAATACA-AAA-AAATGGTTCAAAATAA
1 TAAAATAAATAATATATGAAAAAAATTTAAAATAAAATAATACATAAAGAAA---TTCAAAATAA
* * * *
107760579 ACAATATATGAAAAAAAATTAACAA-AATATAATA-TAAAACAGTTTGAAATAAATAATTTAAAG
63 ACAATATATG-AAAAAAATTAA-AATAA-ATAATACTAAAACAATTTAAAATAAATAATATAAAA
*
107760642 CAATTTAAAATAAACAACACATAAAACAGTTTAAAAGAAATAATATGTGAAAAAAAATC
125 CAATTTAAAATAAACAACACATAAAA-AATTTAAAAGAAATAATATGTGAAAAAAAATC
* * * *
107760701 TAAAATAAATAATATAT-ATAATACAGTTTAAAATAAAATAATATATAAAGCAATTCAAAATAAA
1 TAAAATAAATAATATATGA-AA-AAAATTTAAAATAAAATAATACATAAAGAAATTCAAAATAAA
* * * * *
107760765 TAATATATGAAACAATTTAAAATAAATAATATCTAAAACAATTTAAAATAGATAATATAAAACAG
64 CAATATATGAAAAAAATTAAAATAAATAATA-CTAAAACAATTTAAAATAAATAATATAAAACAA
* * * * *
107760830 TTTAATATAAATAATATATAAAAAATTTAAAATAAATAA
128 TTTAAAATAAACAACACATAAAAAATTTAAAAGAAATAA
107760869 AATATAAAAC
Statistics
Matches: 141, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
183 9 0.06
184 44 0.31
185 74 0.52
186 9 0.06
187 3 0.02
188 2 0.01
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (182 bp):
TAAAATAAATAATATATGAAAAAAATTTAAAATAAAATAATACATAAAGAAATTCAAAATAAACA
ATATATGAAAAAAATTAAAATAAATAATACTAAAACAATTTAAAATAAATAATATAAAACAATTT
AAAATAAACAACACATAAAAAATTTAAAAGAAATAATATGTGAAAAAAAATC
Found at i:107762373 original size:89 final size:88
Alignment explanation
Indices: 107762208--107762420 Score: 223
Period size: 89 Copynumber: 2.4 Consensus size: 88
107762198 GAATTGTAAT
* * * * * *
107762208 TTCAATCTATTCCACTACAACTTCAAGGAGATAAGATTTGTAACCTCGATCTGCTTCACTGCAAC
1 TTCAATCTACTCCACTGCAACTTCAAAGAGATAAGAATTGTAACCTCAATCTGCTCCACTGCAAC
* *
107762273 TTCAGGTAGATATGATTTA-GGCC
66 TTCAGGTAGATAAGATTAATGG-C
* * * * *
107762296 TTCAATCTACTCTACTGCAACTTCAAAGAGATGAGAATTGCTATCTTCAATCTGCTCCACTGCAG
1 TTCAATCTACTCCACTGCAACTTCAAAGAGATAAGAATTG-TAACCTCAATCTGCTCCACTGCAA
107762361 CTTCAAGG-AGATAAGATTAATGGC
65 CTTC-AGGTAGATAAGATTAATGGC
* * * **
107762385 TTCAATCTTCTCCACTGTAGCTTCAGGGAGATAAGA
1 TTCAATCTACTCCACTGCAACTTCAAAGAGATAAGA
107762421 TTCACCAAGG
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 34 0.33
89 63 0.62
90 5 0.05
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (88 bp):
TTCAATCTACTCCACTGCAACTTCAAAGAGATAAGAATTGTAACCTCAATCTGCTCCACTGCAAC
TTCAGGTAGATAAGATTAATGGC
Found at i:107762401 original size:44 final size:44
Alignment explanation
Indices: 107762208--107762422 Score: 173
Period size: 44 Copynumber: 4.9 Consensus size: 44
107762198 GAATTGTAAT
** * * *
107762208 TTCAATCTATTCCACTACAACTTCAAGGAGATAAGATTTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTATAGC
* * * * *
107762252 CTCGATCTGCTTCACTGCAACTTC-AGGTAGATATGATTTA-GGCC
1 TTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTATAG-C
* * * * ** *
107762296 TTCAATCTACTCTACTGCAACTTCAAAGAGATGAGAATTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG-ATTTATAGC
* * *
107762341 TTCAATCTGCTCCACTGCAGCTTCAAGGAGATAAGATTAATGGC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTATAGC
* * * *
107762385 TTCAATCTTCTCCACTGTAGCTTCAGGGAGATAAGATT
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT
107762423 CACCAAGGTA
Statistics
Matches: 132, Mismatches: 34, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
43 3 0.02
44 93 0.70
45 36 0.27
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTATAGC
Found at i:107762593 original size:44 final size:44
Alignment explanation
Indices: 107762496--107762655 Score: 169
Period size: 44 Copynumber: 3.6 Consensus size: 44
107762486 TATAATCTAT
* * * *
107762496 TCCACTGTAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGC
* *
107762541 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTGG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
* * * **
107762585 TCCACTGCAAATTCAGGGGGATAAGGTTTGTGGCCTT-AATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGT-AACTTCAATCTGC
* * *
107762629 TCCCCTTCAACTTCAGTGAGATAAGAT
1 TCCACTGCAACTTCAGGGAGATAAGAT
107762656 CCGCCATGAT
Statistics
Matches: 95, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
44 65 0.68
45 30 0.32
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
Found at i:107767053 original size:37 final size:37
Alignment explanation
Indices: 107767008--107767119 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
107766998 ATCCATATGA
* *
107767008 TTGGTTATGAATGAAATGGAAAGAATAAAAAAATATT
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
107767045 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
*
107767082 TTAGTTATGAATGAAATGAAAAGAATAAAAGAATATT
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
107767119 T
1 T
107767120 GCTCAGAATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (37 bp):
TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
Found at i:107774582 original size:14 final size:14
Alignment explanation
Indices: 107774547--107774585 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
107774537 AATTTTTTTT
107774547 AAAATAAATAATTC
1 AAAATAAATAATTC
*
107774561 AAAA-AAATAGTTC
1 AAAATAAATAATTC
107774574 AAAATAAATAAT
1 AAAATAAATAAT
107774586 ATATGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAATAAATAATTC
Found at i:107774680 original size:129 final size:126
Alignment explanation
Indices: 107774545--107774882 Score: 323
Period size: 129 Copynumber: 2.7 Consensus size: 126
107774535 GAAATTTTTT
*
107774545 TTAAAATAAATAAT-TCAAAAA-AATAGTTCAAAATAAATAATATATGAAAAAAAATTAACATAA
1 TTAAAATAAATAATAT-AAAAAGAA-A-TTCAAAATAAATAATATATG-AAAAAAATTAAAATAA
* * *
107774608 ATAAAATATAAAACAATTTGAAATAAAT-ATTTAAAGCAATTTAAAATAAACAATACATAAAACA
62 ATAAAATATAAAACAATTTAAAATAAATAATATAAAACAATTTAAAATAAACAATACATAAAA-A
*
107774672 G
126 A
* * *
107774673 TTAAAAATAAAATAATATAAAAAGCAATTCAAAATAAATAATATATGAAACAATTTAAAATAAAT
1 TT-AAAAT-AAATAATATAAAAAGAAATTCAAAATAAATAATATATGAAAAAAATTAAAATAAAT
* * * * ** * *
107774738 AATATCTAAAACAATTTAAAATAGATAATATAAAACAGTTTACTATAAATAATATATAAAAAA
64 AAAATATAAAACAATTTAAAATAAATAATATAAAACAATTTAAAATAAACAATACATAAAAAA
* *** * *
107774801 TTAAAATAAATAAAATATAAAA-CCGTTAAAAATAAATAGTATAT-AAAAAAATTAAAA-AGAAT
1 TTAAAATAAATAATATA-AAAAGAAATTCAAAATAAATAATATATGAAAAAAATTAAAATA-AAT
*
107774863 -AAATA-AATAACAAATTAAAA
64 AAAATATAA-AACAATTTAAAA
107774883 GGTTAAAATC
Statistics
Matches: 176, Mismatches: 26, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
123 2 0.01
124 15 0.09
125 14 0.08
126 27 0.15
127 9 0.05
128 42 0.24
129 52 0.30
130 13 0.07
131 2 0.01
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (126 bp):
TTAAAATAAATAATATAAAAAGAAATTCAAAATAAATAATATATGAAAAAAATTAAAATAAATAA
AATATAAAACAATTTAAAATAAATAATATAAAACAATTTAAAATAAACAATACATAAAAAA
Found at i:107774728 original size:102 final size:101
Alignment explanation
Indices: 107774544--107774858 Score: 325
Period size: 102 Copynumber: 3.1 Consensus size: 101
107774534 TGAAATTTTT
* * * *
107774544 TTTAAAATAAATAATTCAAAAAAATAGTTCAAAATAAATAATATATGAAAAAAAATTAACATAAA
1 TTTAAAATAAATAA-TC-ATAAAACAGTTAAAAATAAATAATATAT---AAAAAATTAAAATAAA
* *
107774609 TAAAATATAAAACAATTTGAAATAAAT-AT-T-TAAAGCAA
61 TAAAATATAAAACAATTTAAAATAAATAATATCTAAAACAA
*
107774647 TTTAAAATAAACAATACATAAAACAGTTAAAAATAAAATAATATA-AAAAGCAATTCAAAATAAA
1 TTTAAAATAAATAAT-CATAAAACAGTTAAAAAT-AAATAATATATAAAA--AATT-AAAATAAA
* *
107774711 TAATATATGAAACAATTTAAAATAAATAATATCTAAAACAA
61 TAAAATATAAAACAATTTAAAATAAATAATATCTAAAACAA
* * **
107774752 TTTAAAATAGATAAT-ATAAAACAGTTTACTATAAATAATATATAAAAAATTAAAATAAATAAAA
1 TTTAAAATAAATAATCATAAAACAGTTAAAAATAAATAATATATAAAAAATTAAAATAAATAAAA
** * * * *
107774816 TATAAAACCGTTAAAAATAAATAGTATATAAAAAAA
66 TATAAAACAATTTAAAATAAATAATATCTAAAACAA
*
107774852 TTAAAAA
1 TTTAAAA
107774859 GAATAAATAA
Statistics
Matches: 180, Mismatches: 23, Indels: 21
0.80 0.10 0.09
Matches are distributed among these distances:
99 4 0.02
100 47 0.26
101 8 0.04
102 56 0.31
103 44 0.24
104 1 0.01
105 20 0.11
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.28
Consensus pattern (101 bp):
TTTAAAATAAATAATCATAAAACAGTTAAAAATAAATAATATATAAAAAATTAAAATAAATAAAA
TATAAAACAATTTAAAATAAATAATATCTAAAACAA
Found at i:107774748 original size:79 final size:76
Alignment explanation
Indices: 107774604--107774882 Score: 245
Period size: 76 Copynumber: 3.7 Consensus size: 76
107774594 AAAAATTAAC
* ** *
107774604 ATAAATAAAATATAAAACAATTTGAAATAAAT-AT-T-TAAAGCAATTTAAAATAAACAATA-CA
1 ATAAATAATATA-AAAACAATTCAAAATAAATAATATATAAA-CAATTTAAAATAAATAATATC-
107774665 TAAAACAGTTAAAA
63 TAAAACAGTTAAAA
107774679 ATAAAATAATATAAAAAGCAATTCAAAATAAATAATATATGAAACAATTTAAAATAAATAATATC
1 AT-AAATAATATAAAAA-CAATTCAAAATAAATAATATAT-AAACAATTTAAAATAAATAATATC
* *
107774744 TAAAACAATTTAAA
63 TAAAACAGTTAAAA
* * * ** * * *
107774758 ATAGATAATAT-AAAACAGTTTACTATAAATAATATATAAA-AAATTAAAATAAATAAAATATAA
1 ATAAATAATATAAAAACAATTCAAAATAAATAATATATAAACAATTTAAAATAAATAATATCTAA
*
107774821 AACCGTTAAAA
66 AACAGTTAAAA
* *
107774832 ATAAATAGTATATAAAAA-AATT-AAAA-AGAATAA-ATAAATAACAAATTAAAA
1 ATAAATA--ATATAAAAACAATTCAAAATA-AATAATATATA-AACAATTTAAAA
107774883 GGTTAAAATC
Statistics
Matches: 169, Mismatches: 22, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
74 39 0.23
75 18 0.11
76 56 0.33
77 10 0.06
78 9 0.05
79 33 0.20
80 4 0.02
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (76 bp):
ATAAATAATATAAAAACAATTCAAAATAAATAATATATAAACAATTTAAAATAAATAATATCTAA
AACAGTTAAAA
Found at i:107774798 original size:50 final size:50
Alignment explanation
Indices: 107774473--107774869 Score: 301
Period size: 50 Copynumber: 7.8 Consensus size: 50
107774463 AAATGAATTA
* * *
107774473 AAATAATATACAAAAACAATTTAAAGTAAATAATATAAAA-AGGTTTGAAAT
1 AAATAATATA-TAAAACAATTTAAAATAAATAATATAAAACA-GTTTAAAAT
**** * * *
107774524 AAATAATATATGAAATTTTTTTTAAAATAAATAATTCAAAAAAATAGTTCAAAAT
1 AAATAATATAT-AAA-ACAATTTAAAATAAATAA-T--ATAAAACAGTTTAAAAT
* * * * *
107774579 AAATAATATATGAAAAAAAATTAACATAAATAAAATATAAAACAATTTGAAAT
1 AAATAATATAT-AAAACAATTTAAAATAAAT--AATATAAAACAGTTTAAAAT
* * *
107774632 AAAT-AT-T-TAAAGCAATTTAAAATAAACAATACATAAAACAGTTAAAAAT
1 AAATAATATATAAAACAATTTAAAATAAATAAT--ATAAAACAGTTTAAAAT
* *
107774681 AAAATAATATA-AAAAGCAATTCAAAATAAATAATATATGAAACAATTTAAAAT
1 -AAATAATATATAAAA-CAATTTAAAATAAATAATATA--AAACAGTTTAAAAT
* * **
107774734 AAATAATATCTAAAACAATTTAAAATAGATAATATAAAACAGTTTACTAT
1 AAATAATATATAAAACAATTTAAAATAAATAATATAAAACAGTTTAAAAT
* *
107774784 AAATAATATATAAAA-AA-TTAAAATAAATAAAATATAAAACCGTTAAAAAT
1 AAATAATATATAAAACAATTTAAAATAAAT--AATATAAAACAGTTTAAAAT
* *
107774834 AAATAGTATATAAAA-AAATTAAAA-AGAATAA-ATAAA
1 AAATAATATATAAAACAATTTAAAATA-AATAATATAAA
107774870 TAACAAATTA
Statistics
Matches: 278, Mismatches: 46, Indels: 47
0.75 0.12 0.13
Matches are distributed among these distances:
47 3 0.01
48 15 0.05
49 32 0.12
50 63 0.23
51 28 0.10
52 47 0.17
53 49 0.18
54 10 0.04
55 28 0.10
56 3 0.01
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (50 bp):
AAATAATATATAAAACAATTTAAAATAAATAATATAAAACAGTTTAAAAT
Found at i:107774855 original size:26 final size:26
Alignment explanation
Indices: 107774473--107774882 Score: 296
Period size: 26 Copynumber: 16.0 Consensus size: 26
107774463 AAATGAATTA
* *
107774473 AAATAATATACAAAAACAATTTAAAGT
1 AAATAATATA-TAAAACAATTTAAAAT
** *
107774500 AAATAATATA-AAAA-GGTTTGAAAT
1 AAATAATATATAAAACAATTTAAAAT
****
107774524 AAATAATATATGAAATTTTTTTTAAAAT
1 AAATAATATAT-AAA-ACAATTTAAAAT
107774552 AAATAAT-TCA-AAAA-AATAGTTCAAAAT
1 AAATAATAT-ATAAAACAAT--TT-AAAAT
* * *
107774579 AAATAATATATGAAAAAAAATTAACAT
1 AAATAATATAT-AAAACAATTTAAAAT
* *
107774606 AAATAAAATATAAAACAATTTGAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
107774632 AAAT-AT-T-TAAAGCAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* * * *
107774655 AAACAATACATAAAACAGTTAAAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
107774681 AAAATAATATA-AAAAGCAATTCAAAAT
1 -AAATAATATATAAAA-CAATTTAAAAT
*
107774708 AAATAATATATGAAACAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
107774734 AAATAATATCTAAAACAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* * **
107774760 AGAT-A-ATATAAAACAGTTTACTAT
1 AAATAATATATAAAACAATTTAAAAT
107774784 AAATAATATATAAAA-AA-TTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* ** *
107774808 AAATAAAATATAAAACCGTTAAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* *
107774834 AAATAGTATATAAAA-AAATTAAAA-
1 AAATAATATATAAAACAATTTAAAAT
*
107774858 AGAATAA-ATA-AATAACAAATTAAAA
1 A-AATAATATATAA-AACAATTTAAAA
107774883 GGTTAAAATC
Statistics
Matches: 304, Mismatches: 54, Indels: 52
0.74 0.13 0.13
Matches are distributed among these distances:
23 19 0.06
24 63 0.21
25 26 0.09
26 114 0.38
27 58 0.19
28 18 0.06
29 4 0.01
30 2 0.01
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (26 bp):
AAATAATATATAAAACAATTTAAAAT
Found at i:107775508 original size:21 final size:24
Alignment explanation
Indices: 107775473--107775516 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
107775463 AGATTTGTAA
107775473 AAAAAAACAAGAAACAA-GAAAAC
1 AAAAAAACAAGAAACAAGGAAAAC
107775496 AAAAAAA-AA-AAACAAGGAAAA
1 AAAAAAACAAGAAACAAGGAAAA
107775517 GATCAAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
23 7 0.35
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (24 bp):
AAAAAAACAAGAAACAAGGAAAAC
Found at i:107777179 original size:15 final size:15
Alignment explanation
Indices: 107777159--107777189 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
107777149 AAATATGAAA
107777159 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
107777174 GATATGTTTTGTATT
1 GATATGTTTTGGATT
107777189 G
1 G
107777190 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:107777815 original size:45 final size:45
Alignment explanation
Indices: 107777741--107777870 Score: 206
Period size: 45 Copynumber: 2.9 Consensus size: 45
107777731 TTGCTATGTG
*
107777741 TTTTCGTGTAAGACCACATCTGGGACGTTGGCATCGATATATATA
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATATA
* * * * *
107777786 TTTTCGTGTAAGACCACGTTTGAGCCGTTGGCATTGATATATATG
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATATA
107777831 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATAT
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATAT
107777871 GTGGTTACGA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (45 bp):
TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATATA
Found at i:107777897 original size:43 final size:42
Alignment explanation
Indices: 107777833--107777954 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
107777823 TATATATGTT
* * * *
107777833 TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGG
1 TTCGAGTAAGACCATGTCTGGGACATTGGCATCGATATGTGA
* * *
107777875 TTACGAGTAAGACCATGCCTGGGACATCGGCATCG-TATTTGA
1 TT-CGAGTAAGACCATGTCTGGGACATTGGCATCGATATGTGA
* * * *
107777917 TTTGTGTAAGACCCTGTCTGGGACAATGGCATCGATAT
1 TTCGAGTAAGACCATGTCTGGGACATTGGCATCGATAT
107777955 AGCATGTAAG
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 26 0.40
42 12 0.18
43 27 0.42
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (42 bp):
TTCGAGTAAGACCATGTCTGGGACATTGGCATCGATATGTGA
Found at i:107777938 original size:41 final size:42
Alignment explanation
Indices: 107777835--107777954 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 42
107777825 TATATGTTTT
* *
107777835 CGTGTAAGACCAC-GTCTGGGACGTTGGCATCGATATGTGGTTA
1 CGTGTAAGACC-CTGTCTGGGAC-ATGGCATCGATATGTGATTA
* * * *
107777878 CGAGTAAGACCATGCCTGGGACATCGGCATCG-TATTTGATT-
1 CGTGTAAGACCCTGTCTGGGACAT-GGCATCGATATGTGATTA
*
107777919 TGTGTAAGACCCTGTCTGGGACAATGGCATCGATAT
1 CGTGTAAGACCCTGTCTGGGAC-ATGGCATCGATAT
107777955 AGCATGTAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
41 25 0.40
42 13 0.21
43 25 0.40
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCCTGTCTGGGACATGGCATCGATATGTGATTA
Found at i:107779046 original size:14 final size:14
Alignment explanation
Indices: 107779024--107779057 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
107779014 GGTTGATGAA
107779024 TATAAATATTGAGT
1 TATAAATATTGAGT
*
107779038 TATATATATTGAGT
1 TATAAATATTGAGT
107779052 TGATAA
1 T-ATAA
107779058 TGTATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
TATAAATATTGAGT
Found at i:107781707 original size:14 final size:14
Alignment explanation
Indices: 107781674--107781707 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
107781664 TTTAATAGAA
*
107781674 AATATTTTTAATTT
1 AATATTTTTAATAT
*
107781688 ATTATTTTTAATAT
1 AATATTTTTAATAT
107781702 AATATT
1 AATATT
107781708 ATCCTATAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
AATATTTTTAATAT
Found at i:107782239 original size:3 final size:3
Alignment explanation
Indices: 107782231--107782264 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
107782221 TTAGGATTTT
*
107782231 TTG TTG TTG TTG TTG TTA TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
107782265 GTTTTTGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:107784114 original size:15 final size:15
Alignment explanation
Indices: 107784094--107784123 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
107784084 CATCTCTAAC
107784094 TTGTAGAACCAATAT
1 TTGTAGAACCAATAT
107784109 TTGTAGAACCAATAT
1 TTGTAGAACCAATAT
107784124 GACATCGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
TTGTAGAACCAATAT
Found at i:107785365 original size:11 final size:12
Alignment explanation
Indices: 107785345--107785376 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
107785335 ATATCACGAG
107785345 AATAGT-AAAAA
1 AATAGTAAAAAA
107785356 AATA-TAAAAAA
1 AATAGTAAAAAA
107785367 AATAGTAAAA
1 AATAGTAAAA
107785377 TCTTGATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (12 bp):
AATAGTAAAAAA
Found at i:107785775 original size:6 final size:7
Alignment explanation
Indices: 107785757--107785781 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
107785747 CTTGCAGCAG
107785757 CAAAAAC
1 CAAAAAC
107785764 CAAAAAC
1 CAAAAAC
107785771 CAAAAAC
1 CAAAAAC
107785778 CAAA
1 CAAA
107785782 TATACATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAC
Found at i:107793896 original size:18 final size:19
Alignment explanation
Indices: 107793860--107793904 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
107793850 AATAGAGTTC
*
107793860 AAAATATAAAGACAAAATA
1 AAAATAAAAAGACAAAATA
*
107793879 AACATAAAAAGA-AAAATA
1 AAAATAAAAAGACAAAATA
107793897 AAAATAAA
1 AAAATAAA
107793905 TCTAAAGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAATAAAAAGACAAAATA
Found at i:107801354 original size:25 final size:25
Alignment explanation
Indices: 107801326--107801386 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
107801316 AAACGATAAC
*
107801326 AATGCTCACACAAGCTGGGA-TAGTA
1 AATGCTCACACAAGCTAGGACT-GTA
*
107801351 AATGCTCACACAAGCTATGACTGTA
1 AATGCTCACACAAGCTAGGACTGTA
107801376 AATGCTCACAC
1 AATGCTCACAC
107801387 GAGTTGTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (25 bp):
AATGCTCACACAAGCTAGGACTGTA
Found at i:107803704 original size:20 final size:21
Alignment explanation
Indices: 107803664--107803710 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
107803654 TTATAATGTA
*
107803664 TTAAAATTATCAAATTAAATT
1 TTAAAATTATAAAATTAAATT
* *
107803685 TTAAATTTATAAAATTAATTT
1 TTAAAATTATAAAATTAAATT
107803706 TTAAA
1 TTAAA
107803711 GTTTTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAATTATAAAATTAAATT
Found at i:107804929 original size:12 final size:13
Alignment explanation
Indices: 107804911--107804945 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
107804901 TCGATATCTC
107804911 AATTTCAATTCAT
1 AATTTCAATTCAT
107804924 -ATTTCAATTCAT
1 AATTTCAATTCAT
107804936 AATTTCAATT
1 AATTTCAATT
107804946 TCTCATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:107805291 original size:47 final size:47
Alignment explanation
Indices: 107805221--107805323 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
107805211 ATCCAACCAA
* * * **
107805221 AACAGTATGGCACTCAGTGCCTCATCGGCTT-TGCCGAAGTAAACAGT
1 AACAGTACGGCACTCAGTACCTCATCGGATTAAACCGAAGT-AACAGT
* *
107805268 AACAGTACGGTACTCATTACCTCATCGGATTAAACCGAAGTAACAGT
1 AACAGTACGGCACTCAGTACCTCATCGGATTAAACCGAAGTAACAGT
107805315 AACAGTACG
1 AACAGTACG
107805324 ACACACAAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 41 0.85
48 7 0.15
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (47 bp):
AACAGTACGGCACTCAGTACCTCATCGGATTAAACCGAAGTAACAGT
Found at i:107806549 original size:24 final size:23
Alignment explanation
Indices: 107806522--107806586 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 23
107806512 ATCTCTAATT
107806522 TTTCCTTTTTCTTTTCTTTCTGTC
1 TTTCCTTTTTCTTTTCTTTCT-TC
107806546 TTTCCTTTCAATCTCTTTTCTTTCTTC
1 TTTCCTTT---T-TCTTTTCTTTCTTC
*
107806573 TTT-ATTTTTCTTTT
1 TTTCCTTTTTCTTTT
107806587 GTTTTATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
22 6 0.17
23 1 0.03
24 8 0.22
26 3 0.08
27 6 0.17
28 12 0.33
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTCCTTTTTCTTTTCTTTCTTC
Found at i:107807101 original size:3 final size:3
Alignment explanation
Indices: 107807093--107807117 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
107807083 GGTATCATTT
107807093 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
107807118 TAAATCTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:107808085 original size:38 final size:36
Alignment explanation
Indices: 107808032--107808108 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 36
107808022 ACCTTACAAT
* *
107808032 CTCCCTTAATATTTCTACCCCAAACCTTAAGATTGCAA
1 CTCCCTTAAGATTTCTA-CCAAAACCTTAAGATT-CAA
*
107808070 CTCCCTTAAGGTTTCTACCAAAACCTTAAGATTCAA
1 CTCCCTTAAGATTTCTACCAAAACCTTAAGATTCAA
107808106 CTC
1 CTC
107808109 TCTCAAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 6 0.17
37 15 0.42
38 15 0.42
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (36 bp):
CTCCCTTAAGATTTCTACCAAAACCTTAAGATTCAA
Found at i:107831448 original size:19 final size:19
Alignment explanation
Indices: 107831424--107831469 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
107831414 AATGCCTATT
107831424 TTTGCATT-CATTGCATGCA
1 TTTGCATTGCATTGCAT-CA
107831443 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTGCATCA
*
107831462 TATGCATT
1 TTTGCATT
107831470 AAACTTCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:107832167 original size:15 final size:15
Alignment explanation
Indices: 107832143--107832172 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107832133 CTAGTGCTCC
107832143 CTCCAAAGTTTAAAA
1 CTCCAAAGTTTAAAA
*
107832158 CTCCAGAGTTTAAAA
1 CTCCAAAGTTTAAAA
107832173 AGTATAATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (15 bp):
CTCCAAAGTTTAAAA
Found at i:107849157 original size:44 final size:44
Alignment explanation
Indices: 107849093--107849219 Score: 202
Period size: 44 Copynumber: 2.9 Consensus size: 44
107849083 CATTATGGCA
* * * *
107849093 AATCTTATCTTCCTGAAGTTGCAATGGAGCAAATTGAAGCCACTT
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGCCA-TT
107849138 -ATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGCCATT
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGCCATT
107849181 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAG
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAG
107849220 ATAGCGAATC
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
43 2 0.03
44 75 0.97
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGCCATT
Found at i:107849441 original size:144 final size:143
Alignment explanation
Indices: 107849176--107849693 Score: 586
Period size: 144 Copynumber: 3.7 Consensus size: 143
107849166 CAAATTGAAG
* * *
107849176 CCAT-TAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGATAGCGAATCTTATTTCTCT
1 CCATGTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCT
*
107849240 AA-TTGCAGTGGAAT-GAATTAAAGCTACAAGTCACAAATCCTATACCTCTAAAGTTGCAGTAGG
66 AAGTTGCAGTGGAATAG-ATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAGG
107849303 TTGGATCAAATCTA
130 TTGGATCAAATCTA
* * *
107849317 CCATGGTGAATCTTATCTCCCTAAAGTTCCAATAGAGCAGATTGAAGATAGCGAATCTTATTTCC
1 CCAT-GT-AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCC
107849382 CT-AGTTGCAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAG
64 CTAAGTTGCAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAG
107849446 GTTGGATCAAATCTA
129 GTTGGATCAAATCTA
* * * * *
107849461 CCATGTCCAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCC
1 CCATGT--AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCC
* * * * *
107849526 CTGAAGTAGTAGTGGAGTAGATTGAAA---A-TAG--A-AAATCTTAT-CTCTCTGAAGTTGCAG
64 CT-AAGTTGCAGTGGAATAGATT-AAAGCTACAAGTCACAAATCCTATAC-CTCTGAAGTTGCAG
** * * *
107849583 TAGAG-CAGATTAAAGCCA
126 TAG-GTTGGATCAAATCTA
* * *
107849601 -CA---AATCTTATCTCCCTGAAGTTGCAGTGCAACAGATTGAAGAT-GCGAATCTTATTTCCCT
1 CCATGTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCT
*
107849661 GAAGTTGCAGTGGAACAGATTAAAGCTACAAGT
66 -AAGTTGCAGTGGAATAGATTAAAGCTACAAGT
107849694 TATGAATCTT
Statistics
Matches: 325, Mismatches: 36, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
132 3 0.01
133 32 0.10
134 37 0.11
135 1 0.00
136 2 0.01
139 3 0.01
140 33 0.10
141 6 0.02
143 6 0.02
144 182 0.56
145 1 0.00
146 16 0.05
147 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (143 bp):
CCATGTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCT
AAGTTGCAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAGGT
TGGATCAAATCTA
Found at i:107849619 original size:44 final size:45
Alignment explanation
Indices: 107849469--107849951 Score: 422
Period size: 45 Copynumber: 10.7 Consensus size: 45
107849459 TACCATGTCC
* * *
107849469 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
107849514 AATCTTATCTCCCTGAAGTAGTAGTGGAGTAGATTGAAA-ATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGATAGCA
* * **
107849559 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
107849603 AATCTTATCTCCCTGAAGTTGCAGTGCAACAGATTGAAGAT-GCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
107849647 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--A-TAG-CA
* * **
107849696 TGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * * * **
107849743 AATCTCATCTCCATGAAGTTGCAGTGGAGTAAAGTCAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * *
107849787 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
107849832 AACCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAGCTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * *
107849876 AACCTTATCTCCCT-AGAGTTGTAGTGGGGCA-AGTTAAATATAACA
1 AATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGA-TTAAAGATAGCA
* * *
107849921 AATCCTATCTCCCTAAAGTTGCAGTAGAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA
107849952 CTGGGTTGGA
Statistics
Matches: 355, Mismatches: 68, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.01
44 143 0.40
45 166 0.47
46 4 0.01
47 1 0.00
48 3 0.01
49 1 0.00
51 35 0.10
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
Found at i:107849619 original size:89 final size:89
Alignment explanation
Indices: 107849469--107849951 Score: 438
Period size: 89 Copynumber: 5.3 Consensus size: 89
107849459 TACCATGTCC
* * * ** *
107849469 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAAATCTTATCTCCCTGAAGTT
*
107849534 GTAGTGGAGTAGATTGAAAATAGAA
65 GTAGTGGAGCAGATTGAAAATAGAA
* *
107849559 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTG
* * * * **
107849624 CAGTGCAACAGATTGAAGAT-GCG
66 TAGTGGAGCAGATTGAAAATAGAA
* * *
107849647 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATGAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC--C-A--CA--AATCTTATCTCCCT
* **
107849712 GAAGTTGTAGTGGAGCAGATTGAAGATAGTG
59 GAAGTTGTAGTGGAGCAGATTGAAAATAGAA
* * * * * * * *
107849743 AATCTCATCTCCATGAAGTTGCAGTGGAGTAAAGTCAAGCCACAAATCTTATCTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTG
* * *
107849808 CAGTGGAGTAGATT-AAAGATAGCA
66 TAGTGGAGCAGATTGAAA-ATAGAA
* * * * *
107849832 AACCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAGCTACAAACCTTATCTCCCT-AGAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGA-AGTT
*
107849896 GTAGTGGGGCA-AGTT-AAATATA-ACA
65 GTAGTGGAGCAGA-TTGAAA-ATAGA-A
* * *
107849921 AATCCTATCTCCCTAAAGTTGCAGTAGAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA
107849952 CTGGGTTGGA
Statistics
Matches: 320, Mismatches: 61, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
88 41 0.13
89 166 0.52
90 36 0.11
91 2 0.01
93 2 0.01
94 1 0.00
95 38 0.12
96 34 0.11
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTG
TAGTGGAGCAGATTGAAAATAGAA
Found at i:107849706 original size:184 final size:185
Alignment explanation
Indices: 107849514--107849876 Score: 496
Period size: 184 Copynumber: 2.0 Consensus size: 185
107849504 GAAGATAGCA
* *
107849514 AATCTTATCTCCCTGAAGTAGTAGTGGAGTAGATTGAAAATAGAAAATCTTATCTCTC-TGAAGT
1 AATCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAAATAGAAAATCTCATCTC-CATGAAGT
* * * * *
107849578 TGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGCAACAGATTGAAGA
65 TGCAGTAGAGCAAAGTAAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGCAACAGATTAAAGA
* * * *
107849643 T-GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATG
130 TAGCAAACCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAAGTTATG
* * **
107849698 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTGAATCTCATCTCCATGAAGTT
1 AATCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAAATAGAAAATCTCATCTCCATGAAGTT
* * * * **
107849763 GCAGTGGAGTAAAGTCAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
66 GCAGTAGAGCAAAGTAAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGCAACAGATTAAAGAT
**
107849828 AGCAAACCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAGCTACAA
131 AGCAAACCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAA
107849877 ACCTTATCTC
Statistics
Matches: 154, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
183 1 0.01
184 111 0.72
185 42 0.27
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (185 bp):
AATCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAAATAGAAAATCTCATCTCCATGAAGTT
GCAGTAGAGCAAAGTAAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGCAACAGATTAAAGAT
AGCAAACCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAAGTTATG
Found at i:107859169 original size:31 final size:31
Alignment explanation
Indices: 107859131--107859193 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
107859121 CCTAAGTAAG
107859131 AATGTTTGATGATGCCATATGAGATAGTCGT
1 AATGTTTGATGATGCCATATGAGATAGTCGT
*
107859162 AATGTTTGATGATGCCATATGAGTTAGTCGT
1 AATGTTTGATGATGCCATATGAGATAGTCGT
107859193 A
1 A
107859194 CAGACATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.37
Consensus pattern (31 bp):
AATGTTTGATGATGCCATATGAGATAGTCGT
Found at i:107864105 original size:26 final size:26
Alignment explanation
Indices: 107864076--107864126 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
107864066 TGAGCTTTCC
107864076 AATGTGCAAGCTACAAGCTCAGCAAA
1 AATGTGCAAGCTACAAGCTCAGCAAA
* *
107864102 AATGTGCAAGTTGCAAGCTCAGCAA
1 AATGTGCAAGCTACAAGCTCAGCAA
107864127 GATGTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AATGTGCAAGCTACAAGCTCAGCAAA
Found at i:107868774 original size:137 final size:137
Alignment explanation
Indices: 107868523--107868809 Score: 486
Period size: 137 Copynumber: 2.1 Consensus size: 137
107868513 CATTGGGCCT
** *
107868523 AAGCCCATTCAGGTAACAGTGGTACTGGGCTAGAGCCTTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* * *
107868588 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAACATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
107868653 CATATGC
131 CATATGC
*
107868660 AAGCCCATTTGGGTAACAGTGGTACTGGG-TCAGAGCCCTTTTCAGATTACAATAAACTGGGTCT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCT-AGAGCCCTTTTCAGATTACAATAAACTGGGCCT
*
107868724 TCGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
65 TAGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
107868789 ACATATGC
130 ACATATGC
107868797 AAGCCCATTTGGG
1 AAGCCCATTTGGG
107868810 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
136 1 0.01
137 140 0.99
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:107870624 original size:26 final size:26
Alignment explanation
Indices: 107870588--107870696 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
107870578 CATGAAATTC
107870588 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
107870614 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
107870640 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
107870665 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
107870691 TTATCA
1 TTATCA
107870697 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 25 0.31
26 55 0.69
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:107870685 original size:51 final size:52
Alignment explanation
Indices: 107870588--107870696 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
107870578 CATGAAATTC
107870588 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
* * *
107870640 TTATCATGGAACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
107870691 TTATCA
1 TTATCA
107870697 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 33 0.61
52 21 0.39
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
Found at i:107874719 original size:137 final size:137
Alignment explanation
Indices: 107874473--107874759 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
107874463 CATTGGGCCT
**
107874473 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
107874538 AGCCCCTTATTCAGATAACAGTATGGCCCAAAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGCATGGCCCAAAGGCCCATTTCAAAATACATGCAACATCAATAAA
107874603 CATATGC
131 CATATGC
*
107874610 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTATAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
107874675 AGCCCCTTATTCAGATAACAGCATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGATAACAGCATGGCCCAAAGGCCCATTTCAAAATACATGCAACATCAATAAA
107874740 CATATGC
131 CATATGC
107874747 AAGCCCATTTGGG
1 AAGCCCATTTGGG
107874760 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGCATGGCCCAAAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:107876584 original size:26 final size:26
Alignment explanation
Indices: 107876548--107876631 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
107876538 CATGAAATTC
107876548 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
107876574 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
107876600 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
107876626 TTATCA
1 TTATCA
107876632 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:107878655 original size:11 final size:12
Alignment explanation
Indices: 107878627--107878656 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
107878617 AGCAAAACAG
*
107878627 GTTTTTAGCGGC
1 GTTTTTAGCGCC
107878639 GTTTTTAGCGCC
1 GTTTTTAGCGCC
107878651 GTTTTT
1 GTTTTT
107878657 CAGAAAGCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.17, G:0.27, T:0.50
Consensus pattern (12 bp):
GTTTTTAGCGCC
Found at i:107878923 original size:40 final size:38
Alignment explanation
Indices: 107878852--107878939 Score: 97
Period size: 40 Copynumber: 2.3 Consensus size: 38
107878842 TTAGCGACGC
* *
107878852 TTTTTAAAAACGCCGCTATAGGCACACCTTTAGCGGTGCT
1 TTTTTAAAAACGCCGCTATAGGCACACCTTTAAC-G-GCA
* * *
107878892 TTTTTAAAAACGCCGCTA-ATGCTCGATCTTTAACGGCA
1 TTTTTAAAAACGCCGCTATAGGCAC-ACCTTTAACGGCA
107878930 TTTTTAAAAA
1 TTTTTAAAAA
107878940 AGTGCCACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 12 0.29
39 5 0.12
40 25 0.60
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (38 bp):
TTTTTAAAAACGCCGCTATAGGCACACCTTTAACGGCA
Found at i:107879657 original size:15 final size:15
Alignment explanation
Indices: 107879637--107879670 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
107879627 ACTATTTTAA
*
107879637 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
107879652 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
107879667 GGTT
1 GGTT
107879671 ATGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:107879682 original size:22 final size:23
Alignment explanation
Indices: 107879632--107879682 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
107879622 GAGTTACTAT
* *
107879632 TTTAA-GGTTTATGGATTATGGG
1 TTTAAGGGATTATGGATTATGGA
*
107879654 TTT-AGGGATTATGGGTTAT-GA
1 TTTAAGGGATTATGGATTATGGA
107879675 TTTAAGGG
1 TTTAAGGG
107879683 TTGGGGTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (23 bp):
TTTAAGGGATTATGGATTATGGA
Done.