Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 337 of 344
Found at i:109381831 original size:20 final size:20
Alignment explanation
Indices: 109381774--109381832 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
109381764 ATTTCTTATG
*
109381774 TATATATTCTTAAATACTAT-
1 TATATATT-TTAAATACCATA
** *
109381794 TATATA-TACATATA-CATA
1 TATATATTTTAAATACCATA
109381812 TATATATTTTAAATACCATA
1 TATATATTTTAAATACCATA
109381832 T
1 T
109381833 TGTGTATATA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
17 2 0.07
18 10 0.34
19 6 0.21
20 11 0.38
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATATTTTAAATACCATA
Found at i:109389156 original size:17 final size:17
Alignment explanation
Indices: 109389113--109389155 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
109389103 ATATTGTTTT
109389113 TAATTTT-TA-ATTTAA
1 TAATTTTATATATTTAA
109389128 TAATTTTATATATTTAA
1 TAATTTTATATATTTAA
109389145 -AA-TTTATATAT
1 TAATTTTATATAT
109389156 AGATAGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 16 0.62
16 4 0.15
17 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTTTATATATTTAA
Found at i:109390321 original size:50 final size:50
Alignment explanation
Indices: 109390262--109390363 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
109390252 TAAAACACTT
109390262 GTCAACCTTATATCTAAAAATTTTATTGACAATTTCTCATATATGTCAAA
1 GTCAACCTTATATCTAAAAATTTTATTGACAATTTCTCATATATGTCAAA
109390312 GTCAACCTTATATCTAAAAATTTTATTGACAATTTCTCATATATGTCAAA
1 GTCAACCTTATATCTAAAAATTTTATTGACAATTTCTCATATATGTCAAA
109390362 GT
1 GT
109390364 GGAAGGAGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (50 bp):
GTCAACCTTATATCTAAAAATTTTATTGACAATTTCTCATATATGTCAAA
Found at i:109400920 original size:12 final size:12
Alignment explanation
Indices: 109400903--109400935 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
109400893 CGGCCCGCCC
109400903 ATATTAATTTTT
1 ATATTAATTTTT
109400915 ATATT-ATTTTT
1 ATATTAATTTTT
109400926 ATA-TAATTTT
1 ATATTAATTTT
109400936 AAAAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:109401140 original size:23 final size:22
Alignment explanation
Indices: 109401114--109401170 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
109401104 TATCCAAACA
*
109401114 ATAATAGCAAAAATAGTAGTAAC
1 ATAATAG-AAAAATAGTAGCAAC
* *
109401137 ATAATAGTAAAATGGTAGCAAC
1 ATAATAGAAAAATAGTAGCAAC
*
109401159 ATAGAAAGAAAA
1 ATA-ATAGAAAA
109401171 TAATAAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.58, C:0.07, G:0.16, T:0.19
Consensus pattern (22 bp):
ATAATAGAAAAATAGTAGCAAC
Found at i:109401154 original size:22 final size:23
Alignment explanation
Indices: 109401114--109401161 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
109401104 TATCCAAACA
*
109401114 ATAATAGCAAAAATAGTAGTAAC
1 ATAATAGCAAAAATAGTAGCAAC
* *
109401137 ATAATAG-TAAAATGGTAGCAAC
1 ATAATAGCAAAAATAGTAGCAAC
109401159 ATA
1 ATA
109401162 GAAAGAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (23 bp):
ATAATAGCAAAAATAGTAGCAAC
Found at i:109407870 original size:18 final size:18
Alignment explanation
Indices: 109407833--109407872 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
109407823 GATTTTTTCC
*
109407833 TTTTAAATTTTAAATCTT
1 TTTTAAATTTTAAATATT
**
109407851 TTTTAAATTTTATTTATT
1 TTTTAAATTTTAAATATT
109407869 TTTT
1 TTTT
109407873 CTCTGTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTAAATTTTAAATATT
Found at i:109408993 original size:6 final size:6
Alignment explanation
Indices: 109408978--109409016 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
109408968 GGTTCAACAA
*
109408978 CAGCAC CAGCAA CAGCAC CAGCAC CAGCAC CAGCAC CAG
1 CAGCAC CAGCAC CAGCAC CAGCAC CAGCAC CAGCAC CAG
109409017 ATTCAGACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.36, C:0.46, G:0.18, T:0.00
Consensus pattern (6 bp):
CAGCAC
Found at i:109414029 original size:14 final size:14
Alignment explanation
Indices: 109414010--109414037 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
109414000 ATCTTAAATG
109414010 TAATAATAATTTAT
1 TAATAATAATTTAT
109414024 TAATAATAATTTAT
1 TAATAATAATTTAT
109414038 ACTTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATAATAATTTAT
Found at i:109418295 original size:23 final size:23
Alignment explanation
Indices: 109418266--109418317 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
109418256 TAAATGAAGA
109418266 AAAACCAAAACAAACCCAACTCG
1 AAAACCAAAACAAACCCAACTCG
109418289 AAAACCAAAACAAACCCAACTCG
1 AAAACCAAAACAAACCCAACTCG
109418312 AAAACC
1 AAAACC
109418318 TTACTGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.58, C:0.35, G:0.04, T:0.04
Consensus pattern (23 bp):
AAAACCAAAACAAACCCAACTCG
Found at i:109418409 original size:16 final size:16
Alignment explanation
Indices: 109418388--109418448 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
109418378 AACCCGAATG
* *
109418388 ACTCAAATTCTAAATC
1 ACTCAAATTCAAAATA
109418404 ACTCAAATTCAAAATA
1 ACTCAAATTCAAAATA
*
109418420 ACCCAAATT-AAAATA
1 ACTCAAATTCAAAATA
* *
109418435 TC-CAAATTCGAAAT
1 ACTCAAATTCAAAAT
109418449 GAATCAACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
14 6 0.15
15 11 0.28
16 22 0.56
ACGTcount: A:0.51, C:0.21, G:0.02, T:0.26
Consensus pattern (16 bp):
ACTCAAATTCAAAATA
Found at i:109419826 original size:30 final size:31
Alignment explanation
Indices: 109419755--109419832 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
109419745 ATGGGTAAAT
** * *
109419755 TTTTATTTTGGTCATTGAATTATTTGAAACA
1 TTTTATTTAAGTCATTGAAATATTTCAAACA
*
109419786 TTTCATTTAAGTCATTGAAATA-TTCAAA-A
1 TTTTATTTAAGTCATTGAAATATTTCAAACA
109419815 GTTTTATTTAAGTCATTG
1 -TTTTATTTAAGTCATTG
109419833 GGCTGTTAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.03
30 21 0.52
31 18 0.45
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.49
Consensus pattern (31 bp):
TTTTATTTAAGTCATTGAAATATTTCAAACA
Found at i:109420089 original size:22 final size:23
Alignment explanation
Indices: 109420052--109420104 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
109420042 TAACTGTCTC
109420052 TTTTTAATCGAATTTAAGTAACTA
1 TTTTT-ATCGAATTTAAGTAACTA
109420076 TTTTTAT-GAATTTAAGTAACTA
1 TTTTTATCGAATTTAAGTAACTA
109420098 TTTTTAT
1 TTTTTAT
109420105 ACATCTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.76
23 2 0.07
24 5 0.17
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.53
Consensus pattern (23 bp):
TTTTTATCGAATTTAAGTAACTA
Found at i:109422844 original size:23 final size:24
Alignment explanation
Indices: 109422818--109422867 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
109422808 AATATGGAGC
109422818 TATG-TTTGTCTTTTATGTTTATT
1 TATGTTTTGTCTTTTATGTTTATT
109422841 TATGTTTTGTCTTTTATGTTTATT
1 TATGTTTTGTCTTTTATGTTTATT
109422865 TAT
1 TAT
109422868 TTATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.14, C:0.04, G:0.12, T:0.70
Consensus pattern (24 bp):
TATGTTTTGTCTTTTATGTTTATT
Found at i:109422934 original size:28 final size:25
Alignment explanation
Indices: 109422896--109422952 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 25
109422886 AAAATTTGAA
109422896 ATATATATTTGAAATATTTTATTAATAT
1 ATATATATTTGAAA-ATTTTA--AATAT
* *
109422924 ATATATTTTTGTAAATTTTAAATAT
1 ATATATATTTGAAAATTTTAAATAT
109422949 ATAT
1 ATAT
109422953 TTTGAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 9 0.33
27 6 0.22
28 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
ATATATATTTGAAAATTTTAAATAT
Found at i:109422975 original size:21 final size:21
Alignment explanation
Indices: 109422951--109422997 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
109422941 TTAAATATAT
*
109422951 ATTTTGAA-ATTACTTTTTAAA
1 ATTTTAAATATTA-TTTTTAAA
*
109422972 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTAAA
109422993 ATTTT
1 ATTTT
109422998 CTTAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTAAA
Found at i:109422975 original size:34 final size:30
Alignment explanation
Indices: 109422935--109423019 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 30
109422925 TATATTTTTG
*
109422935 TAAATTTTAAATATATATTTTGAAATTACTTTT
1 TAAATTTTAAATAT-TATTTTGAAATT--TTCT
*
109422968 TAAAATTTTAAATATTATTTTTTAAATTTTCT
1 T-AAATTTTAAATATTA-TTTTGAAATTTTCT
109423000 TAAATTTTAAATATTATTTT
1 TAAATTTTAAATATTATTTT
109423020 TTAAATATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
30 4 0.08
31 15 0.31
32 4 0.08
33 3 0.06
34 22 0.46
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (30 bp):
TAAATTTTAAATATTATTTTGAAATTTTCT
Found at i:109422992 original size:14 final size:14
Alignment explanation
Indices: 109422973--109423029 Score: 69
Period size: 14 Copynumber: 3.9 Consensus size: 14
109422963 CTTTTTAAAA
109422973 TTTTAAATATTATT
1 TTTTAAATATTATT
* *
109422987 TTTTAAATTTTCTT
1 TTTTAAATATTATT
109423001 AAATTTTAAATATTATT
1 ---TTTTAAATATTATT
109423018 TTTTAAATATTA
1 TTTTAAATATTA
109423030 AATATATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 24 0.67
17 12 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTAAATATTATT
Found at i:109423008 original size:31 final size:32
Alignment explanation
Indices: 109422935--109423025 Score: 123
Period size: 31 Copynumber: 2.8 Consensus size: 32
109422925 TATATTTTTG
* *
109422935 TAAATTTTAAATA-TATATTTTGAAATTACTTTT
1 TAAATTTTAAATATTAT-TTTTTAAATTA-TTCT
109422968 TAAAATTTTAAATATTATTTTTTAAATT-TTCT
1 T-AAATTTTAAATATTATTTTTTAAATTATTCT
109423000 TAAATTTTAAATATTATTTTTTAAAT
1 TAAATTTTAAATATTATTTTTTAAAT
109423026 ATTAAATATA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
31 25 0.46
32 4 0.07
33 1 0.02
34 21 0.39
35 3 0.06
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (32 bp):
TAAATTTTAAATATTATTTTTTAAATTATTCT
Found at i:109423039 original size:20 final size:21
Alignment explanation
Indices: 109422993--109423057 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
109422983 TATTTTTTAA
*
109422993 ATTTTCTTAAATTTTAAATATT
1 ATTTT-TTAAATATTAAATATT
109423015 ATTTTTTAAATATTAAATA-T
1 ATTTTTTAAATATTAAATATT
*
109423035 ATTTTTTAATAATATAAAATATT
1 ATTTTTT-A-AATATTAAATATT
109423058 TAAATATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 8 0.21
21 14 0.37
22 15 0.39
23 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTTAAATATTAAATATT
Found at i:109423058 original size:20 final size:20
Alignment explanation
Indices: 109422993--109423043 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
109422983 TATTTTTTAA
*
109422993 ATTTTCTTAAATTTTAAATATT
1 ATTTT-TTAAATATTAAATA-T
109423015 ATTTTTTAAATATTAAATAT
1 ATTTTTTAAATATTAAATAT
109423035 ATTTTTTAA
1 ATTTTTTAA
109423044 TAATATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 10 0.36
21 13 0.46
22 5 0.18
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTTAAATATTAAATAT
Found at i:109423102 original size:22 final size:22
Alignment explanation
Indices: 109423077--109423126 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
109423067 TAAACTTTCA
109423077 AATTTATTATTAGTTTTATAAT
1 AATTTATTATTAGTTTTATAAT
*
109423099 AATTTGTTATTAGTTTTATAAT
1 AATTTATTATTAGTTTTATAAT
*
109423121 ATTTTA
1 AATTTA
109423127 AATATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (22 bp):
AATTTATTATTAGTTTTATAAT
Found at i:109423177 original size:29 final size:30
Alignment explanation
Indices: 109423114--109423177 Score: 69
Period size: 31 Copynumber: 2.1 Consensus size: 30
109423104 GTTATTAGTT
* **
109423114 TTATAATATTTTAAATATTATTTAATTTATT
1 TTATAATATTTTAAATATGATTT-ATTTAAA
109423145 TTATAATATTTTAAATTATGA-TT-TTTAAA
1 TTATAATATTTTAAA-TATGATTTATTTAAA
109423174 TTAT
1 TTAT
109423178 TTTTAAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 8 0.28
31 17 0.59
32 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
TTATAATATTTTAAATATGATTTATTTAAA
Found at i:109423342 original size:15 final size:13
Alignment explanation
Indices: 109423311--109423335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109423301 AATTTTAAAG
109423311 ATAATTTAAAATT
1 ATAATTTAAAATT
109423324 ATAATTTAAAAT
1 ATAATTTAAAAT
109423336 ATTATAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATTTAAAATT
Found at i:109423432 original size:20 final size:20
Alignment explanation
Indices: 109423422--109423470 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
109423412 TTTTATATTA
109423422 TTAAAAAATATATTTAATAT
1 TTAAAAAATATATTTAATAT
*
109423442 TTAAAAAATAATATTTAAAATT
1 TTAAAAAAT-ATATTTAATA-T
109423464 TTAAAAA
1 TTAAAAA
109423471 GTAATTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 9 0.35
21 9 0.35
22 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAAATATATTTAATAT
Found at i:109423448 original size:21 final size:22
Alignment explanation
Indices: 109423408--109423475 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
109423398 AAAATATTTA
*
109423408 AATATTTTATATTATTAAAAAAT
1 AATATTTAATATT-TTAAAAAAT
109423431 -ATATTTAATA-TTTAAAAAAT
1 AATATTTAATATTTTAAAAAAT
* *
109423451 AATATTTAAAATTTTAAAAAGT
1 AATATTTAATATTTTAAAAAAT
109423473 AAT
1 AAT
109423476 TTCAAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
20 9 0.22
21 10 0.25
22 21 0.52
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (22 bp):
AATATTTAATATTTTAAAAAAT
Found at i:109423477 original size:20 final size:21
Alignment explanation
Indices: 109423422--109423483 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
109423412 TTTTATATTA
*
109423422 TTAAAAAATATATTTAATA-T
1 TTAAAAAATATATTTAAAATT
109423442 TTAAAAAATAATATTTAAAATT
1 TTAAAAAAT-ATATTTAAAATT
*
109423464 TTAAAAAGTA-ATTTCAAAAT
1 TTAAAAAATATATTT-AAAAT
109423484 ATATATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.35
21 15 0.41
22 9 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:109423493 original size:26 final size:24
Alignment explanation
Indices: 109423463--109423538 Score: 77
Period size: 23 Copynumber: 3.1 Consensus size: 24
109423453 TATTTAAAAT
109423463 TTTAAAAAGTAATTTCAAAATATATA
1 TTTAAAAA-T-ATTTCAAAATATATA
*
109423489 TTT-AAAAT-TTACAAAAATATATA
1 TTTAAAAATATTTC-AAAATATATA
*
109423512 TTAATAAAATATTTC-AAATATATA
1 TTTA-AAAATATTTCAAAATATATA
109423536 TTT
1 TTT
109423539 CAAATTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 3 0.07
23 12 0.29
24 12 0.29
25 9 0.21
26 6 0.14
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (24 bp):
TTTAAAAATATTTCAAAATATATA
Found at i:109423535 original size:24 final size:23
Alignment explanation
Indices: 109423474--109423543 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
109423464 TTAAAAAGTA
109423474 ATTTCAAAATATATATTTAAAAT
1 ATTTCAAAATATATATTTAAAAT
*
109423497 -TTACAAAAATATATATTAATAAAAT
1 ATTTC-AAAATATATATT--TAAAAT
*
109423522 ATTTC-AAATATATATTTCAAAT
1 ATTTCAAAATATATATTTAAAAT
109423544 TTTTTAAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
22 8 0.20
23 12 0.30
24 11 0.28
25 6 0.15
26 3 0.08
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTTCAAAATATATATTTAAAAT
Found at i:109423631 original size:9 final size:9
Alignment explanation
Indices: 109423596--109423639 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
109423586 TACAAAACAT
*
109423596 AAAAAAGTC
1 AAAAAAGTA
*
109423605 AAAAAAGTC
1 AAAAAAGTA
*
109423614 AAAATAGTA
1 AAAAAAGTA
109423623 AAAAAAGTA
1 AAAAAAGTA
109423632 TAAAAAAG
1 -AAAAAAG
109423640 AAAGAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
9 24 0.77
10 7 0.23
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (9 bp):
AAAAAAGTA
Found at i:109429223 original size:41 final size:42
Alignment explanation
Indices: 109429103--109429241 Score: 174
Period size: 42 Copynumber: 3.3 Consensus size: 42
109429093 AATCGGTACT
* * *
109429103 TAGTACCTCATCA-AATTTAATCCGAAGCAATAATACAACATA
1 TAGTGCCTCATCAGAA-TTAATCCGAAGCAATAATACGACACA
* * *
109429145 TAGTGCCTCATCGGATTTAATCTGAAGCAATAATACGACACA
1 TAGTGCCTCATCAGAATTAATCCGAAGCAATAATACGACACA
*
109429187 TAGTGCCTCATCAGAATT-ATCCGAAGCAATATTACGACACATA
1 TAGTGCCTCATCAGAATTAATCCGAAGCAATAATACGACAC--A
109429230 TAGTGCCTCATC
1 TAGTGCCTCATC
109429242 GACTCGAGGT
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
41 20 0.24
42 50 0.60
43 14 0.17
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (42 bp):
TAGTGCCTCATCAGAATTAATCCGAAGCAATAATACGACACA
Found at i:109430211 original size:5 final size:5
Alignment explanation
Indices: 109430203--109430271 Score: 138
Period size: 5 Copynumber: 13.8 Consensus size: 5
109430193 TTCTTTTGTT
109430203 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
109430253 TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATA
109430272 TTTTAATAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:109437630 original size:14 final size:14
Alignment explanation
Indices: 109437608--109437637 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
109437598 ATAATAAGCG
*
109437608 AACTGTTATGAACA
1 AACTATTATGAACA
109437622 AACTATTATGAACA
1 AACTATTATGAACA
109437636 AA
1 AA
109437638 TTAAAACCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (14 bp):
AACTATTATGAACA
Found at i:109441392 original size:30 final size:29
Alignment explanation
Indices: 109441324--109441394 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
109441314 TTTAATACTT
*
109441324 TATATTTTTATAATTTTTAAAAGATTAAAT
1 TATA-TTTTATAATTTTTAAAAGATTAAAG
* *
109441354 TAAAATTTTATCATTTTT-AAAGAGTTAAAAG
1 T-ATATTTTATAATTTTTAAAAGA-TT-AAAG
109441385 TATATTTTAT
1 TATATTTTAT
109441395 TTCTAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 5 0.15
30 23 0.68
31 6 0.18
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (29 bp):
TATATTTTATAATTTTTAAAAGATTAAAG
Found at i:109446867 original size:45 final size:46
Alignment explanation
Indices: 109446802--109446893 Score: 177
Period size: 45 Copynumber: 2.0 Consensus size: 46
109446792 GGTGATTGTA
109446802 ATTGATCTAAGATATTCAATCATGTAAGGATATTTTTAAAAGTTTT
1 ATTGATCTAAGATATTCAATCATGTAAGGATATTTTTAAAAGTTTT
109446848 ATTGATC-AAGATATTCAATCATGTAAGGATATTTTTAAAAGTTTT
1 ATTGATCTAAGATATTCAATCATGTAAGGATATTTTTAAAAGTTTT
109446893 A
1 A
109446894 CTGCTATTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 39 0.85
46 7 0.15
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (46 bp):
ATTGATCTAAGATATTCAATCATGTAAGGATATTTTTAAAAGTTTT
Found at i:109448300 original size:15 final size:16
Alignment explanation
Indices: 109448267--109448297 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109448257 CTAATTATCC
*
109448267 TAAAGTGACCCAAAAA
1 TAAAATGACCCAAAAA
109448283 TAAAATGACCCAAAA
1 TAAAATGACCCAAAA
109448298 TAACTAGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.19, G:0.10, T:0.13
Consensus pattern (16 bp):
TAAAATGACCCAAAAA
Found at i:109450540 original size:3 final size:3
Alignment explanation
Indices: 109450522--109450572 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
109450512 TTAAATATCC
* * * * *
109450522 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
109450569 TTA T
1 TTA T
109450573 GTACTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:109454245 original size:20 final size:20
Alignment explanation
Indices: 109454222--109454262 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
109454212 GTTTTCTGAA
109454222 GATATCTCATAACCCTTTTG
1 GATATCTCATAACCCTTTTG
109454242 GATATCTCATAACCCTTTTG
1 GATATCTCATAACCCTTTTG
109454262 G
1 G
109454263 CTACTATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (20 bp):
GATATCTCATAACCCTTTTG
Found at i:109457833 original size:16 final size:16
Alignment explanation
Indices: 109457812--109457846 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
109457802 GGTACTCTTG
109457812 TTGTAGCAATCAAACA
1 TTGTAGCAATCAAACA
109457828 TTGTAGCAATCAAACA
1 TTGTAGCAATCAAACA
109457844 TTG
1 TTG
109457847 ACAGTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (16 bp):
TTGTAGCAATCAAACA
Found at i:109460109 original size:3 final size:3
Alignment explanation
Indices: 109460103--109460201 Score: 198
Period size: 3 Copynumber: 33.0 Consensus size: 3
109460093 CCCTAATAAC
109460103 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
109460151 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
109460199 AGA
1 AGA
109460202 CACTGTAAAA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:109465007 original size:21 final size:23
Alignment explanation
Indices: 109464981--109465022 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
109464971 CATGTCTGAA
*
109464981 ATTAAATTATAA-TTT-TTATAG
1 ATTAAAATATAACTTTATTATAG
109465002 ATTAAAATATAACTTTATTAT
1 ATTAAAATATAACTTTATTAT
109465023 TTTTAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTAAAATATAACTTTATTATAG
Found at i:109495399 original size:15 final size:17
Alignment explanation
Indices: 109495365--109495402 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
109495355 TAATTTGTTT
109495365 ATTTTTATTATTTTAGA
1 ATTTTTATTATTTTAGA
*
109495382 ATTTTTA-TA-TTTATA
1 ATTTTTATTATTTTAGA
109495397 ATTTTT
1 ATTTTT
109495403 TTCCTTATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 2 0.10
17 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTTATTATTTTAGA
Found at i:109496118 original size:27 final size:26
Alignment explanation
Indices: 109496088--109496144 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
109496078 AATTTCGAGG
*
109496088 TTTACAATTTT-TAATTTTTATTAATT
1 TTTA-AATTTTCTAACTTTTATTAATT
* *
109496114 ATTTATATTTTCTCACTTTTATTAATT
1 -TTTAAATTTTCTAACTTTTATTAATT
109496141 TTTA
1 TTTA
109496145 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTAAATTTTCTAACTTTTATTAATT
Found at i:109496283 original size:24 final size:22
Alignment explanation
Indices: 109496256--109496300 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
109496246 AAATTAAAAA
109496256 AATAAAACATAATATAATATTTAT
1 AATAAAA-ATAA-ATAATATTTAT
*
109496280 AATAAAAATAAATATTATTTA
1 AATAAAAATAAATAATATTTA
109496301 ATTAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
24 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAAAATAAATAATATTTAT
Found at i:109496302 original size:20 final size:19
Alignment explanation
Indices: 109496266--109496310 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
109496256 AATAAAACAT
109496266 AATATAATATTTATAATAAA
1 AATA-AATATTTATAATAAA
* *
109496286 AATAAATATTATTTAATTAA
1 AATAAATATT-TATAATAAA
109496306 AATAA
1 AATAA
109496311 TTTTTTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATAAATATTTATAATAAA
Found at i:109496503 original size:43 final size:43
Alignment explanation
Indices: 109496391--109496534 Score: 202
Period size: 43 Copynumber: 3.4 Consensus size: 43
109496381 GTTTGAGATA
* *
109496391 AAAAGCGTCGCTAAAGATCATGGTCTTTAGCGGC-ATTTGTGGG
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGA-TTGTGGG
* *
109496434 -AAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGATTGTGGG
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
*
109496476 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
* *
109496519 AGAAGCGCCGCAAAAG
1 AAAAGCGCCGCTAAAG
109496535 TTAGCGACGT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 36 0.40
43 54 0.60
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.22
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
Found at i:109496634 original size:22 final size:22
Alignment explanation
Indices: 109496606--109496649 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
109496596 TAGTGGCGCT
*
109496606 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
109496628 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
109496650 TTTTGGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.27, G:0.20, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:109496786 original size:19 final size:19
Alignment explanation
Indices: 109496762--109496798 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
109496752 TAACATGTGC
*
109496762 ATAATACGGTATTAAAAAT
1 ATAATACAGTATTAAAAAT
*
109496781 ATAATATAGTATTAAAAA
1 ATAATACAGTATTAAAAA
109496799 ATGTATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (19 bp):
ATAATACAGTATTAAAAAT
Found at i:109496810 original size:21 final size:19
Alignment explanation
Indices: 109496770--109496813 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
109496760 GCATAATACG
*
109496770 GTATTAAAAATATAATATA
1 GTATTAAAAATATAACATA
*
109496789 GTATTAAAAAATGTATACATA
1 GTATT-AAAAATATA-ACATA
109496810 GTAT
1 GTAT
109496814 ATATACTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (19 bp):
GTATTAAAAATATAACATA
Found at i:109497062 original size:21 final size:21
Alignment explanation
Indices: 109497009--109497050 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
109496999 ACTATTAATG
*
109497009 ATAT-TAC-ATAAATATATAC
1 ATATATACTATAAATAAATAC
109497028 ATATATACTATAAATAAATAC
1 ATATATACTATAAATAAATAC
109497049 AT
1 AT
109497051 GATAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 13 0.65
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (21 bp):
ATATATACTATAAATAAATAC
Found at i:109497484 original size:14 final size:16
Alignment explanation
Indices: 109497454--109497487 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
109497444 ATATATATAT
109497454 ATATGATAACATAAAA
1 ATATGATAACATAAAA
109497470 ATAT-ATAAC-TAAAA
1 ATATGATAACATAAAA
109497484 ATAT
1 ATAT
109497488 TTAAGAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 5 0.28
16 4 0.22
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (16 bp):
ATATGATAACATAAAA
Found at i:109497535 original size:15 final size:16
Alignment explanation
Indices: 109497497--109497538 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 16
109497487 TTTAAGAATG
109497497 TATACATAATATAGTA
1 TATACATAATATAGTA
109497513 TA-A-A-AATATA-TA
1 TATACATAATATAGTA
109497525 TATACATAATATAG
1 TATACATAATATAG
109497539 AATTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
12 4 0.18
13 7 0.32
14 2 0.09
15 7 0.32
16 2 0.09
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (16 bp):
TATACATAATATAGTA
Found at i:109497703 original size:12 final size:12
Alignment explanation
Indices: 109497684--109497758 Score: 63
Period size: 11 Copynumber: 6.7 Consensus size: 12
109497674 TACTAATGCT
109497684 AATA-AATAATA
1 AATATAATAATA
109497695 AATATAATAAT-
1 AATATAATAATA
109497706 AATAGTAAT-A-A
1 AATA-TAATAATA
*
109497717 AATATAATAGTA
1 AATATAATAATA
* *
109497729 TATATAATATTA
1 AATATAATAATA
*
109497741 AA-ATTATAATA
1 AATATAATAATA
109497752 AA-ATAAT
1 AATATAAT
109497759 GAGAAAAAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
10 4 0.08
11 26 0.50
12 22 0.42
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AATATAATAATA
Found at i:109497707 original size:6 final size:6
Alignment explanation
Indices: 109497663--109497758 Score: 51
Period size: 6 Copynumber: 16.5 Consensus size: 6
109497653 ATTAAGTGAA
* * ** *
109497663 AATAAT ACTAAT ACTAAT GCTAAT AAATAAT AA-ATAT AATAAT AATAGT
1 AATAAT AATAAT AATAAT AATAAT -AATAAT AATA-AT AATAAT AATAAT
* * *
109497712 AATAA- AAT-AT AATAGT -ATATAT AATATT AA-AAT TATAAT AA-AAT
1 AATAAT AATAAT AATAAT AATA-AT AATAAT AATAAT AATAAT AATAAT
109497756 AAT
1 AAT
109497759 GAGAAAAAGT
Statistics
Matches: 69, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
4 1 0.01
5 18 0.26
6 42 0.61
7 8 0.12
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (6 bp):
AATAAT
Found at i:109501071 original size:26 final size:26
Alignment explanation
Indices: 109501034--109501117 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
109501024 TGATACAAAT
* *
109501034 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
109501060 TGATAATGGGTTAAGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
109501086 TGATAACGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
109501112 TGATAA
1 TGATAA
109501118 GAATTTCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:109502656 original size:26 final size:25
Alignment explanation
Indices: 109502604--109502656 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
109502594 TTTACAGTTT
109502604 TACCCCTAGTAGATAAATTACCGAAA
1 TACCCCTAG-AGATAAATTACCGAAA
*
109502630 TACCCCTAG-GATTAAATTGACCTAAA
1 TACCCCTAGAGA-TAAATT-ACCGAAA
109502656 T
1 T
109502657 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGATAAATTACCGAAA
Found at i:109503999 original size:14 final size:14
Alignment explanation
Indices: 109503982--109504014 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
109503972 TAATTTCTTA
109503982 TATAATAAGTAAAT
1 TATAATAAGTAAAT
*
109503996 TATAATAATTAAAT
1 TATAATAAGTAAAT
109504010 TATAA
1 TATAA
109504015 GATTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
TATAATAAGTAAAT
Found at i:109504622 original size:17 final size:17
Alignment explanation
Indices: 109504586--109504619 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
109504576 TAAAAGAGTT
*
109504586 AATTAGGATTAAATTGG
1 AATTAGGAATAAATTGG
109504603 AATTAAGGAATAAATTG
1 AATT-AGGAATAAATTG
109504620 AATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (17 bp):
AATTAGGAATAAATTGG
Found at i:109509414 original size:26 final size:26
Alignment explanation
Indices: 109509383--109509490 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
109509373 TGAAATTCCC
*
109509383 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
109509409 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
109509435 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
109509461 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
109509487 ATCA
1 ATCA
109509491 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:109514609 original size:32 final size:34
Alignment explanation
Indices: 109514573--109514637 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
109514563 TAACAGTGGT
*
109514573 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
109514605 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
109514638 TGGCCTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:109515682 original size:28 final size:28
Alignment explanation
Indices: 109515642--109515702 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
109515632 ATTTTCCCTG
109515642 AAAATAGACTCATATATCTTCTATCCAT
1 AAAATAGACTCATATATCTTCTATCCAT
109515670 AAAATAGACTCATATATCTTCTATCCAT
1 AAAATAGACTCATATATCTTCTATCCAT
109515698 AAAAT
1 AAAAT
109515703 TTTCAGAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAATAGACTCATATATCTTCTATCCAT
Found at i:109516543 original size:26 final size:26
Alignment explanation
Indices: 109516512--109516567 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
109516502 TGAAATTCCC
109516512 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
109516538 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
109516564 ATCA
1 ATCA
109516568 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:109519924 original size:131 final size:130
Alignment explanation
Indices: 109519679--109519926 Score: 318
Period size: 131 Copynumber: 1.9 Consensus size: 130
109519669 TCATTCATTC
* * * * *
109519679 AAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCGATTTGAGAATCAAGCCCTATCGTGTT
1 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGAGAATCAAGCCCTAACGTGTT
* ** *
109519744 GGGTTGCATTTTTTCATTTCTCCAAAATAATCGAATATCACTTCGAAATTTCACTCATGTCTTTT
66 GGGTTGCAATTTCGCATTTCTCCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTTT
* ** **
109519809 AAAATTCTTCAAAACGAATACGAGATTCGATATTTAGCAATTCGCAGAATCGTGGGCTAACGTGT
1 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCG-AGAATCAAGCCCTAACGTGT
* * *
109519874 TGGGTTGCAATTTCGCGTTTGCT-CAAAATAATCGAGTATCCCTTCAAAATTTC
65 TGGGTTGCAATTTCGCATTT-CTCCAAAATAATCGAATATCACTTCAAAATTTC
109519927 GTTCATATCC
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
130 39 0.39
131 58 0.59
132 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (130 bp):
AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGAGAATCAAGCCCTAACGTGTT
GGGTTGCAATTTCGCATTTCTCCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTTT
Found at i:109519943 original size:131 final size:131
Alignment explanation
Indices: 109519679--109519959 Score: 314
Period size: 131 Copynumber: 2.1 Consensus size: 131
109519669 TCATTCATTC
* * * * *
109519679 AAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCGATTTGAGAATCAAGCCCTATCGTGTT
1 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGAGAATCAAGCCCTAACGTGTT
* ** * * *
109519744 GGGTTGCATTTTTTCATTTCTCCAAAATAATCGAATATCACTTCGAAATTTCACTCATGT-CTTT
66 GGGTTGCAATTTCGCATTTCTCCAAAATAATCGAATATCACTTCAAAATTTCACTCATATCCTCT
*
109519808 T
131 A
* ** **
109519809 AAAATTCTTCAAAACGAATACGAGATTCGATATTTAGCAATTCGCAGAATCGTGGGCTAACGTGT
1 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCG-AGAATCAAGCCCTAACGTGT
* * * **
109519874 TGGGTTGCAATTTCGCGTTTGCT-CAAAATAATCGAGTATCCCTTCAAAATTTCGTTCATATCCT
65 TGGGTTGCAATTTCGCATTT-CTCCAAAATAATCGAATATCACTTCAAAATTTCACTCATATCCT
109519938 CTA
129 CTA
* *
109519941 AAAATTATTTAAAACGAAG
1 AAAATTCTTCAAAACGAAG
109519960 GCAATATTTG
Statistics
Matches: 123, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
130 39 0.32
131 63 0.51
132 21 0.17
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (131 bp):
AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGAGAATCAAGCCCTAACGTGTT
GGGTTGCAATTTCGCATTTCTCCAAAATAATCGAATATCACTTCAAAATTTCACTCATATCCTCT
A
Found at i:109520318 original size:130 final size:130
Alignment explanation
Indices: 109520095--109520335 Score: 331
Period size: 130 Copynumber: 1.9 Consensus size: 130
109520085 AAACGAAGAC
* * *
109520095 GATGTTCAATGTTTGGCGATTTGAGAATCGTCCCCTATCGTGCTGGGTTGTGCTTTTTCATTGGT
1 GATGTTCAATGTTTGGCGATTTGAGAATCGACCCCTATCGTGCTGGGTTGCGCTTTTTCATTGCT
* * * **
109520160 TCAAAGTAATTGAACATCCTTTTGGAATTTCACTCACATTTTCTAAAATCTTTCAAAATGAAGGT
66 CCAAAATAATCGAACATCCTTTCCGAATTTCACTCACATTTTCTAAAATCTTTCAAAATGAAGGT
* * * *
109520225 GATGTTCGATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGTTGGGTTGCGCTTTTTCATTTCT
1 GATGTTCAATGTTTGGCGATTTGAGAATCGACCCCTATCGTGCTGGGTTGCGCTTTTTCATTGCT
* **
109520290 CCAAAATAATCGAATAT-CTCTTCCGAATTTCACTCGTATTTTCTAA
66 CCAAAATAATCGAACATCCT-TTCCGAATTTCACTCACATTTTCTAA
109520336 GGTGCATCAA
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
129 2 0.02
130 93 0.98
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.39
Consensus pattern (130 bp):
GATGTTCAATGTTTGGCGATTTGAGAATCGACCCCTATCGTGCTGGGTTGCGCTTTTTCATTGCT
CCAAAATAATCGAACATCCTTTCCGAATTTCACTCACATTTTCTAAAATCTTTCAAAATGAAGGT
Found at i:109523389 original size:18 final size:18
Alignment explanation
Indices: 109523366--109523407 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
109523356 TAGGAAGTAT
109523366 GTCATCAGCCCCAGGTCA
1 GTCATCAGCCCCAGGTCA
109523384 GTCATCAGCCCCAGGTCA
1 GTCATCAGCCCCAGGTCA
109523402 GTCATC
1 GTCATC
109523408 TCGAACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.38, G:0.21, T:0.19
Consensus pattern (18 bp):
GTCATCAGCCCCAGGTCA
Found at i:109527897 original size:17 final size:17
Alignment explanation
Indices: 109527875--109527909 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
109527865 TTGGAAATTC
109527875 AATGTTAATTAAATACT
1 AATGTTAATTAAATACT
109527892 AATGTTAATTAAATACT
1 AATGTTAATTAAATACT
109527909 A
1 A
109527910 GGACATGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (17 bp):
AATGTTAATTAAATACT
Found at i:109529282 original size:19 final size:21
Alignment explanation
Indices: 109529258--109529296 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
109529248 AATTATGTAA
109529258 TATACA-AATTC-TTTATACC
1 TATACAGAATTCATTTATACC
*
109529277 TATACAGACTTCATTTATAC
1 TATACAGAATTCATTTATAC
109529297 ATACAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (21 bp):
TATACAGAATTCATTTATACC
Found at i:109529791 original size:21 final size:21
Alignment explanation
Indices: 109529767--109529807 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
109529757 TCAAAACAAC
109529767 ATAG-TTTTACCTTTTAACTTG
1 ATAGTTTTTA-CTTTTAACTTG
109529788 ATAGTTTTTACTTTTAACTT
1 ATAGTTTTTACTTTTAACTT
109529808 TTCTTGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.56
Consensus pattern (21 bp):
ATAGTTTTTACTTTTAACTTG
Found at i:109530137 original size:17 final size:16
Alignment explanation
Indices: 109530117--109530149 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
109530107 ATTTTTAGTT
109530117 TTTTTAAAAAATTATAA
1 TTTTTAAAAAA-TATAA
109530134 TTTTTAAAAAATATAA
1 TTTTTAAAAAATATAA
109530150 ATATTAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTTTAAAAAATATAA
Found at i:109532076 original size:16 final size:15
Alignment explanation
Indices: 109532034--109532091 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 15
109532024 ATAAATTGTC
109532034 TTTTTATTTTTTTTACCT
1 TTTTTA-TTTTTTT--CT
*
109532052 TTTTGATTTTTTTCT
1 TTTTTATTTTTTTCT
*
109532067 TATTTTATTTTGTTTAT
1 T-TTTTATTTT-TTTCT
109532084 TTTTTATT
1 TTTTTATT
109532092 ATTAACTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
15 3 0.09
16 15 0.43
17 12 0.34
18 5 0.14
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTTATTTTTTTCT
Found at i:109532142 original size:21 final size:22
Alignment explanation
Indices: 109532103--109532149 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
109532093 TTAACTTTAA
109532103 AAAATTTGTAATGTATATTTTT
1 AAAATTTGTAATGTATATTTTT
109532125 AAAATTT-TAAT-TATTATTTTT
1 AAAATTTGTAATGTA-TATTTTT
109532146 AAAA
1 AAAA
109532150 ATATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 2 0.08
21 15 0.62
22 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
AAAATTTGTAATGTATATTTTT
Found at i:109532237 original size:36 final size:36
Alignment explanation
Indices: 109532180--109532255 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
109532170 TATATTTGTG
* *
109532180 AAATTAATTTTTTATATATTTTAAAAATGTAATTTTC
1 AAATTAATTTTTTAAAAATTTTAAAAAT-TAATTTTC
* *
109532217 AAATTAA-TTTTTAAAAATTTTAAATATTAATTTTT
1 AAATTAATTTTTTAAAAATTTTAAAAATTAATTTTC
109532252 AAAT
1 AAAT
109532256 ATTAACCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 11 0.31
36 17 0.49
37 7 0.20
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (36 bp):
AAATTAATTTTTTAAAAATTTTAAAAATTAATTTTC
Found at i:109532249 original size:23 final size:22
Alignment explanation
Indices: 109532210--109532254 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
109532200 TTAAAAATGT
*
109532210 AATTTTCAAATTAATTTTTAAA
1 AATTTTAAAATTAATTTTTAAA
109532232 AATTTTAAATATTAATTTTTAAA
1 AATTTTAAA-ATTAATTTTTAAA
109532255 TATTAACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTTTAAAATTAATTTTTAAA
Found at i:109532267 original size:23 final size:22
Alignment explanation
Indices: 109532219--109532260 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
109532209 TAATTTTCAA
*
109532219 ATTAATTTTTAAAAATTTTAAAT
1 ATTAATTTTT-AAAATATTAAAT
109532242 ATTAATTTTT-AAATATTAA
1 ATTAATTTTTAAAATATTAA
109532261 CCATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTAATTTTTAAAATATTAAAT
Found at i:109532349 original size:19 final size:18
Alignment explanation
Indices: 109532318--109532357 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
109532308 ATACAATTTC
109532318 TTTAATTTCTTTTTACATT
1 TTTAATTTCTTTTTA-ATT
109532337 TTTAACTTT-TTTTTAATT
1 TTTAA-TTTCTTTTTAATT
109532355 TTT
1 TTT
109532358 GAAAAGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 11 0.55
20 3 0.15
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTAATTTCTTTTTAATT
Found at i:109532507 original size:18 final size:18
Alignment explanation
Indices: 109532460--109532512 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
109532450 TATCTTTTTA
109532460 CTTTTTTATTAAATTTTGT
1 CTTTTTT-TTAAATTTTGT
*
109532479 CTTTTTCTTAAATTTT-T
1 CTTTTTTTTAAATTTTGT
* *
109532496 TTTCTTTTTTAACTTTT
1 CTT-TTTTTTAAATTTT
109532513 ATATTATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 3 0.10
18 20 0.69
19 6 0.21
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (18 bp):
CTTTTTTTTAAATTTTGT
Found at i:109532530 original size:18 final size:18
Alignment explanation
Indices: 109532509--109532556 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
109532499 CTTTTTTAAC
*
109532509 TTTTATATTATTTCCTTA
1 TTTTATATTATTTACTTA
* * *
109532527 TTTTATTTTGTTTATTTA
1 TTTTATATTATTTACTTA
*
109532545 ATTTATATTATT
1 TTTTATATTATT
109532557 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTATATTATTTACTTA
Found at i:109532700 original size:37 final size:34
Alignment explanation
Indices: 109532598--109532706 Score: 114
Period size: 37 Copynumber: 3.2 Consensus size: 34
109532588 ATATTTTACA
*
109532598 ATTTTTTTAATTTTAATTAT-TATTTTTAAAATT
1 ATTTTTTTAATTTTAAATATATATTTTTAAAATT
* * * *
109532631 A-TTTTTTAACTTTAGATATATATTTGTGAAATT
1 ATTTTTTTAATTTTAAATATATATTTTTAAAATT
*
109532664 ATTTTTTTATAAATTTTAAATATATATTTTTCAAATT
1 A-TTTTTT-T-AATTTTAAATATATATTTTTAAAATT
*
109532701 AGTTTT
1 ATTTTT
109532707 GAAATTATTA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
32 15 0.25
33 13 0.21
35 5 0.08
36 5 0.08
37 23 0.38
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (34 bp):
ATTTTTTTAATTTTAAATATATATTTTTAAAATT
Found at i:109532786 original size:12 final size:14
Alignment explanation
Indices: 109532770--109532802 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
109532760 TACATACAAT
109532770 TTTTTAAATT-TTA
1 TTTTTAAATTCTTA
109532783 TTTTTAAATTCTT-
1 TTTTTAAATTCTTA
109532796 TTTTTAA
1 TTTTTAA
109532803 CATTAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTAAATTCTTA
Found at i:109533077 original size:28 final size:27
Alignment explanation
Indices: 109533038--109533100 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
109533028 AATTAAAATG
*
109533038 AAAAAGTAAAAATAAAAGAAATATGAAA
1 AAAAAGGAAAAA-AAAAGAAATATGAAA
109533066 ATAAAAGGAAAAAAAAAGAAATATGAAA
1 A-AAAAGGAAAAAAAAAGAAATATGAAA
109533094 AAAAAGG
1 AAAAAGG
109533101 TGTCAGGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 6 0.18
28 17 0.52
29 10 0.30
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (27 bp):
AAAAAGGAAAAAAAAAGAAATATGAAA
Found at i:109546375 original size:27 final size:25
Alignment explanation
Indices: 109546333--109546401 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 25
109546323 TATGCATATT
*
109546333 AAAATATATACGTAATAATAGGAATA
1 AAAATATATACATAATAATAGGAA-A
* **
109546359 AAAAGTATATACATAATAGTATTAAA
1 AAAA-TATATACATAATAATAGGAAA
*
109546385 AATATATATACATAATA
1 AAAATATATACATAATA
109546402 TTTATATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.35
26 8 0.22
27 16 0.43
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.30
Consensus pattern (25 bp):
AAAATATATACATAATAATAGGAAA
Found at i:109546384 original size:24 final size:25
Alignment explanation
Indices: 109546333--109546401 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
109546323 TATGCATATT
109546333 AAAATATATACGTA-ATAATAGGAATA
1 AAAATATATA--TACATAATAGGAATA
* * *
109546359 AAAA-GTATATACATAATAGTATTA
1 AAAATATATATACATAATAGGAATA
109546383 AAAATATATATACATAATA
1 AAAATATATATACATAATA
109546402 TTTATATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 2 0.05
24 14 0.38
25 17 0.46
26 4 0.11
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.30
Consensus pattern (25 bp):
AAAATATATATACATAATAGGAATA
Found at i:109546542 original size:25 final size:27
Alignment explanation
Indices: 109546478--109546555 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 27
109546468 TAAATATAGG
*
109546478 TATATTAAAAAGATATATGTACATAATA
1 TATATTAAAAA-ATATATATACATAATA
*
109546506 TAGAGTT-AAAAATA-A-ATACATAATA
1 TATA-TTAAAAAATATATATACATAATA
* *
109546531 TATATTAAAAAACATATAAACATAA
1 TATATTAAAAAATATATATACATAA
109546556 GCATGTTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
24 2 0.05
25 18 0.44
26 2 0.05
27 10 0.24
28 7 0.17
29 2 0.05
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (27 bp):
TATATTAAAAAATATATATACATAATA
Found at i:109555085 original size:17 final size:17
Alignment explanation
Indices: 109555049--109555082 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
109555039 TAAAAGAGTT
*
109555049 AATTAGGATTAAATTGG
1 AATTAGGAATAAATTGG
109555066 AATTAAGGAATAAATTG
1 AATT-AGGAATAAATTG
109555083 AATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (17 bp):
AATTAGGAATAAATTGG
Found at i:109559863 original size:21 final size:22
Alignment explanation
Indices: 109559839--109559883 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
109559829 ATTGCTTAAA
*
109559839 TTTGGTTGATG-AGTTTCCATT
1 TTTGGTTGATGAAATTTCCATT
* *
109559860 TTTGTTTTATGAAATTTCCATT
1 TTTGGTTGATGAAATTTCCATT
109559882 TT
1 TT
109559884 CTCTATTTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.18, C:0.09, G:0.16, T:0.58
Consensus pattern (22 bp):
TTTGGTTGATGAAATTTCCATT
Found at i:109560250 original size:34 final size:34
Alignment explanation
Indices: 109560202--109560269 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
109560192 CTCCCTCTCC
109560202 ATCCATCTTCATATTCAATATTCATTTCATGCAT
1 ATCCATCTTCATATTCAATATTCATTTCATGCAT
* * *
109560236 ATCCTTCTTCATATTCATTATTCATTTGATGCAT
1 ATCCATCTTCATATTCAATATTCATTTCATGCAT
109560270 CTCTCGTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.47
Consensus pattern (34 bp):
ATCCATCTTCATATTCAATATTCATTTCATGCAT
Found at i:109575352 original size:30 final size:30
Alignment explanation
Indices: 109575318--109575374 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
109575308 CTGGGCATTT
*
109575318 CCACACGGGCTGGGCACAAGCCCATGTAAG
1 CCACACGGGCTGGCCACAAGCCCATGTAAG
*
109575348 CCACACGGGCTGGCCACACGCCCATGT
1 CCACACGGGCTGGCCACAAGCCCATGT
109575375 GCCAGCCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.23, C:0.39, G:0.28, T:0.11
Consensus pattern (30 bp):
CCACACGGGCTGGCCACAAGCCCATGTAAG
Found at i:109576685 original size:19 final size:18
Alignment explanation
Indices: 109576654--109576712 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
109576644 TTATATTTTT
109576654 AAAA-ATTATAAAATTTAA
1 AAAATATTA-AAAATTTAA
*
109576672 AAAATATTAGAAAATCTAA
1 AAAATATTA-AAAATTTAA
* *
109576691 AGAATATATAAAAAATTAA
1 AAAATAT-TAAAAATTTAA
109576710 AAA
1 AAA
109576713 TACTAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 4 0.12
19 27 0.82
20 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (18 bp):
AAAATATTAAAAATTTAA
Found at i:109577662 original size:70 final size:70
Alignment explanation
Indices: 109577575--109577711 Score: 274
Period size: 70 Copynumber: 2.0 Consensus size: 70
109577565 GATAGTTTTT
109577575 TGTCACTTTTACTAAACCATGTGACAAATTTGCAAAGATATCATTCTTAAAAAACAATTATACAC
1 TGTCACTTTTACTAAACCATGTGACAAATTTGCAAAGATATCATTCTTAAAAAACAATTATACAC
109577640 TATTC
66 TATTC
109577645 TGTCACTTTTACTAAACCATGTGACAAATTTGCAAAGATATCATTCTTAAAAAACAATTATACAC
1 TGTCACTTTTACTAAACCATGTGACAAATTTGCAAAGATATCATTCTTAAAAAACAATTATACAC
109577710 TA
66 TA
109577712 ACTTAGAAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (70 bp):
TGTCACTTTTACTAAACCATGTGACAAATTTGCAAAGATATCATTCTTAAAAAACAATTATACAC
TATTC
Found at i:109578675 original size:26 final size:25
Alignment explanation
Indices: 109578636--109578721 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
109578626 CCTAGTGAGA
*
109578636 TTGAG-TTGAGTGGGTTGAAGGTCCC
1 TTGAGTTTGAGTGGGTCG-AGGTCCC
* *
109578661 TTGAGTTTGAATGGGTCCGAGGACCC
1 TTGAGTTTGAGTGGGT-CGAGGTCCC
**
109578687 TTGAGTTTGAGTTAGTCGGAGGTCCC
1 TTGAGTTTGAGTGGGTC-GAGGTCCC
109578713 TTGAGTTTG
1 TTGAGTTTG
109578722 GGTTGGTTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
25 6 0.12
26 44 0.86
27 1 0.02
ACGTcount: A:0.16, C:0.14, G:0.36, T:0.34
Consensus pattern (25 bp):
TTGAGTTTGAGTGGGTCGAGGTCCC
Found at i:109581221 original size:13 final size:13
Alignment explanation
Indices: 109581203--109581227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109581193 GTTAAAAAAT
109581203 TAAATAATATTAA
1 TAAATAATATTAA
109581216 TAAATAATATTA
1 TAAATAATATTA
109581228 GTATAGCAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAATAATATTAA
Found at i:109582830 original size:17 final size:18
Alignment explanation
Indices: 109582794--109582831 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
109582784 ATCTATACTA
**
109582794 AATATATAATATTATTAT
1 AATATATAATATTAACAT
109582812 AATATA-AATATTAACAT
1 AATATATAATATTAACAT
109582829 AAT
1 AAT
109582832 GTTAAGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATATAATATTAACAT
Found at i:109586806 original size:131 final size:131
Alignment explanation
Indices: 109586643--109586892 Score: 401
Period size: 131 Copynumber: 1.9 Consensus size: 131
109586633 TTAGAAGATA
* *
109586643 TGAAATTTTGATGGGATACTCGATTATTTTGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
1 TGAAATTTTGAAGGAATACTCGATTATTTTGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
* * *
109586708 CACGACTCCACGAATTGCTAAATATCGAATCTCGTCTTCGTTTTGAAGAATTTTAAAAGACATGA
66 CACGACTCCACGAATTGCCAAACATCGAATCTCGTCTTCATTTTGAAGAATTTTAAAAGACATGA
109586773 G
131 G
* * **
109586774 TGAAATTTTGAAGTAATATTCGATTATTTTGAGCAAACGTGAAATTGCAACCCAACACGTTAGGG
1 TGAAATTTTGAAGGAATACTCGATTATTTTGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
* *
109586839 CACGATTCCGCGAATTGCCAAACATCGAATCTCGTCTTCATTTTGAAGAATTTT
66 CACGACTCCACGAATTGCCAAACATCGAATCTCGTCTTCATTTTGAAGAATTTT
109586893 TGAATGAATG
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 108 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (131 bp):
TGAAATTTTGAAGGAATACTCGATTATTTTGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
CACGACTCCACGAATTGCCAAACATCGAATCTCGTCTTCATTTTGAAGAATTTTAAAAGACATGA
G
Found at i:109591759 original size:46 final size:46
Alignment explanation
Indices: 109591741--109591980 Score: 225
Period size: 46 Copynumber: 5.3 Consensus size: 46
109591731 TGACAAGTGG
* * *
109591741 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
109591787 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
109591833 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
109591885 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
*
109591931 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
109591968 AAAGTGATAAGTG
1 AAAGTGATAAGTG
109591981 GCTACACTTA
Statistics
Matches: 179, Mismatches: 6, Indels: 25
0.85 0.03 0.12
Matches are distributed among these distances:
37 34 0.19
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 96 0.54
47 1 0.01
52 44 0.25
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:109591760 original size:52 final size:48
Alignment explanation
Indices: 109591741--109591943 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
109591731 TGACAAGTGG
* *
109591741 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
109591787 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
109591839 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
109591885 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
109591931 AAAGTGATAAGTG
1 AAAGTGATAAGTG
109591944 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:109591795 original size:98 final size:98
Alignment explanation
Indices: 109591675--109591943 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
109591665 TTTGAGTACT
*
109591675 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
109591740 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
109591773 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
109591838 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
109591871 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
109591936 GATAAGTG
65 GAAAAGTG
109591944 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:109591951 original size:37 final size:37
Alignment explanation
Indices: 109591907--109592052 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
109591897 GATAGCTTTA
109591907 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
109591944 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
109591981 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
109592018 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
109592053 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:109594330 original size:18 final size:18
Alignment explanation
Indices: 109594303--109594361 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
109594293 AATTATGACG
*
109594303 AGAAGCACCACACGTAGC
1 AGAAGAACCACACGTAGC
109594321 AGAAGAACCA-A-G-AG-
1 AGAAGAACCACACGTAGC
*
109594335 A-AA-CACCACACGTAGC
1 AGAAGAACCACACGTAGC
109594351 AGAAGAACCAC
1 AGAAGAACCAC
109594362 TCAGATCAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
12 4 0.12
13 3 0.09
14 2 0.06
15 4 0.12
16 2 0.06
17 3 0.09
18 14 0.44
ACGTcount: A:0.47, C:0.29, G:0.20, T:0.03
Consensus pattern (18 bp):
AGAAGAACCACACGTAGC
Found at i:109594336 original size:30 final size:30
Alignment explanation
Indices: 109594302--109594360 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
109594292 GAATTATGAC
*
109594302 GAGAAGCACCACACGTAGCAGAAGAACCAA
1 GAGAAACACCACACGTAGCAGAAGAACCAA
109594332 GAGAAACACCACACGTAGCAGAAGAACCA
1 GAGAAACACCACACGTAGCAGAAGAACCA
109594361 CTCAGATCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.27, G:0.22, T:0.03
Consensus pattern (30 bp):
GAGAAACACCACACGTAGCAGAAGAACCAA
Found at i:109600939 original size:16 final size:17
Alignment explanation
Indices: 109600901--109600941 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
109600891 AAGTTTATAA
109600901 AATTT-TATATTATGAT
1 AATTTATATATTATGAT
*
109600917 ATTTTTATATATTATG-T
1 A-ATTTATATATTATGAT
109600934 AATTTATA
1 AATTTATA
109600942 ACAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.33
17 5 0.24
18 9 0.43
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
AATTTATATATTATGAT
Found at i:109601681 original size:12 final size:12
Alignment explanation
Indices: 109601664--109601703 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
109601654 TATAAAAAAA
109601664 TTTTAATTATTT
1 TTTTAATTATTT
109601676 TTTTAATTATTT
1 TTTTAATTATTT
*
109601688 TATTTCATT-TTT
1 T-TTTAATTATTT
109601700 TTTT
1 TTTT
109601704 TTACATTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 3 0.12
12 17 0.65
13 6 0.23
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTAATTATTT
Found at i:109605221 original size:13 final size:13
Alignment explanation
Indices: 109605203--109605229 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
109605193 TACTATAATT
109605203 TTTACATTTACTA
1 TTTACATTTACTA
109605216 TTTACATTTACTA
1 TTTACATTTACTA
109605229 T
1 T
109605230 ATTTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTACATTTACTA
Found at i:109609809 original size:86 final size:88
Alignment explanation
Indices: 109609663--109609832 Score: 213
Period size: 86 Copynumber: 2.0 Consensus size: 88
109609653 CATCAGAAGT
* * * * *
109609663 CCTAATGATCAAATAAAAAGGTGAGTAATATATGTTGAATATCAGATTTTAAACTTTTATCGACC
1 CCTAATAATCAAATAAAAAGGTGAGTAACATATGTTAAATATCAGATTTTAAACCTTTATCAACC
109609728 TTCTCGAA-ACAT-AAAAATAAAC
66 TTCTC-AAGACATCAAAAATAAAC
* * *
109609750 CCTAATAATCAAATAAAAA-GTGATTAGCATATGTTAAATATC-GAATTTTGAACCTTTATCAAC
1 CCTAATAATCAAATAAAAAGGTGAGTAACATATGTTAAATATCAG-ATTTTAAACCTTTATCAAC
*
109609813 CTTTTCAAGACATCAAAAAT
65 CTTCTCAAGACATCAAAAAT
109609833 CCTAGTAATC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
85 3 0.04
86 44 0.62
87 24 0.34
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (88 bp):
CCTAATAATCAAATAAAAAGGTGAGTAACATATGTTAAATATCAGATTTTAAACCTTTATCAACC
TTCTCAAGACATCAAAAATAAAC
Found at i:109613224 original size:22 final size:22
Alignment explanation
Indices: 109613197--109613242 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
109613187 AAAAACTTTG
109613197 TTGTCACCACTTGCACCGCCCT
1 TTGTCACCACTTGCACCGCCCT
*
109613219 TTGTCACCACTTGCATCGCCCT
1 TTGTCACCACTTGCACCGCCCT
109613241 TT
1 TT
109613243 AGGGTCACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.41, G:0.13, T:0.33
Consensus pattern (22 bp):
TTGTCACCACTTGCACCGCCCT
Found at i:109618410 original size:17 final size:18
Alignment explanation
Indices: 109618381--109618416 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
109618371 TTACTAATTT
*
109618381 AAAATTTTATAAATTATA
1 AAAATTTTATAAATAATA
109618399 AAAATTTT-TAAATAATA
1 AAAATTTTATAAATAATA
109618416 A
1 A
109618417 TAAAAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTTTATAAATAATA
Found at i:109625777 original size:17 final size:18
Alignment explanation
Indices: 109625752--109625799 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
109625742 GAAAAAATAA
* *
109625752 TAAAATAAATAATACAT-
1 TAAATTAAATAATAAATC
*
109625769 TAAATTAAAAAATAAATC
1 TAAATTAAATAATAAATC
109625787 TAAATTTAAATAA
1 TAAA-TTAAATAA
109625800 AATAAACGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 4 0.16
19 7 0.28
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATTAAATAATAAATC
Found at i:109625819 original size:23 final size:21
Alignment explanation
Indices: 109625775--109625834 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
109625765 ACATTAAATT
*
109625775 AAAAAATAAATCTAA--ATTTA
1 AAAAAATAAA-CTAATTATCTA
109625795 AATAAAATAAACGTAATTATCTA
1 AA-AAAATAAAC-TAATTATCTA
*
109625818 AAAAAATTAACTAATTA
1 AAAAAATAAACTAATTA
109625835 GAAAAACTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 3 0.09
21 17 0.50
22 8 0.24
23 6 0.18
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAAAATAAACTAATTATCTA
Found at i:109625832 original size:21 final size:23
Alignment explanation
Indices: 109625793--109625834 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
109625783 AATCTAAATT
109625793 TAAATAAAATAAACGTAATTATC
1 TAAATAAAATAAACGTAATTATC
*
109625816 TAAA-AAAATTAAC-TAATTA
1 TAAATAAAATAAACGTAATTA
109625835 GAAAAACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TAAATAAAATAAACGTAATTATC
Found at i:109627501 original size:31 final size:31
Alignment explanation
Indices: 109627463--109627524 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
109627453 ATGGTCCTTA
*
109627463 AACTATTC-TAAAGTTTTCATTTAAGTTATTG
1 AACTATTCAT-AAGTTTTCATTTAAGTCATTG
*
109627494 AACTATTCATAAGTTTTTATTTAAGTCATTG
1 AACTATTCATAAGTTTTCATTTAAGTCATTG
109627525 GATTGTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (31 bp):
AACTATTCATAAGTTTTCATTTAAGTCATTG
Found at i:109632831 original size:18 final size:18
Alignment explanation
Indices: 109632799--109632844 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
109632789 AAAAGAATAC
109632799 AAAACAAATTAAAAATTAT
1 AAAA-AAATTAAAAATTAT
* * *
109632818 AAAGAAATTTAAAATTTT
1 AAAAAAATTAAAAATTAT
109632836 AAAAAAATT
1 AAAAAAATT
109632845 CAAGTGATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAAAATTAAAAATTAT
Found at i:109637355 original size:13 final size:13
Alignment explanation
Indices: 109637337--109637375 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
109637327 TTTTAAATAG
109637337 GCCTATGCCCTTT
1 GCCTATGCCCTTT
*
109637350 GCCTATGCCTTTT
1 GCCTATGCCCTTT
109637363 GCCTATGCCCTTT
1 GCCTATGCCCTTT
109637376 TTTAAGCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.08, C:0.36, G:0.15, T:0.41
Consensus pattern (13 bp):
GCCTATGCCCTTT
Found at i:109645260 original size:19 final size:19
Alignment explanation
Indices: 109645224--109645259 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
109645214 CATATAATTA
109645224 TTTAAAATTTTCATAAAAT
1 TTTAAAATTTTCATAAAAT
*
109645243 TTTAATATTTTC-TAAAA
1 TTTAAAATTTTCATAAAA
109645260 AAAACCTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAAATTTTCATAAAAT
Found at i:109645448 original size:21 final size:21
Alignment explanation
Indices: 109645415--109645454 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
109645405 CAAGTTAACG
* *
109645415 TTTTTGGAGTTTTTATGATCT
1 TTTTTAGAGTTTTAATGATCT
*
109645436 TTTTTAGATTTTTAATGAT
1 TTTTTAGAGTTTTAATGAT
109645455 TTTCTAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.15, T:0.62
Consensus pattern (21 bp):
TTTTTAGAGTTTTAATGATCT
Found at i:109645732 original size:20 final size:21
Alignment explanation
Indices: 109645709--109645756 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
109645699 TTGACTCTTT
* *
109645709 TTTAAATATATTA-AATTTAA
1 TTTAAATAAATAATAATTTAA
109645729 TTTAAA-AAATAATAATTTAA
1 TTTAAATAAATAATAATTTAA
109645749 TTTCAAAT
1 TTT-AAAT
109645757 TAACAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.17
20 16 0.70
21 3 0.13
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAAATAAATAATAATTTAA
Found at i:109645759 original size:26 final size:26
Alignment explanation
Indices: 109645713--109645764 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
109645703 CTCTTTTTTA
*
109645713 AATATATTAAATTTAATTTAAAAAAT
1 AATATATTAAATTTAAATTAAAAAAT
* *
109645739 AATA-ATTTAATTTCAAATTAACAAAT
1 AATATATTAAATTT-AAATTAAAAAAT
109645765 GATGCAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
AATATATTAAATTTAAATTAAAAAAT
Found at i:109647859 original size:203 final size:207
Alignment explanation
Indices: 109647416--109647885 Score: 607
Period size: 203 Copynumber: 2.3 Consensus size: 207
109647406 ATTCGAGTTG
* * *
109647416 AATCTTTATATGGTTCTTC-GATATCAGAGAT-A---ATGCAGAGCCTTGTGTGTGTTCGTGATG
1 AATCTTTATATGGTTCTTCGGAT-TGA-AGATAATCTATGCAGAGCCTTGTTTGTGTTTGTGATG
* * * ** * *
109647476 CTGTTTTTATATGAGGCAATTCTAGTTAGTAGGTATATGGTATTCCCGGTCGAGTGTCGAGCAAG
64 CTGTTTATATATGAGGCAATTCTAGTTAGTAGGCACACAGTATTCACGGTCGAGTGTCGAACAAG
*** * * * *
109647541 TCCTGCAGATTTCAGGTACGAGAAAGGCAATGTATGTTGTTTTTGTTGTGCATTTGTTTTGTATG
129 TCCCAAAGATTTCAGGTACGAGAAAGGCAATGTA-GTTGTTGTCGTTGCGCATTTGTTTTCTATG
*
109647606 TATAGCCTGCGATGC
193 TATAGCCTGCAATGC
109647621 AATCTTTATATGGTTCTTCGGATTGAAGATAATCTATGCAGAGCCTTGTTTGTGTTTGTGATGCT
1 AATCTTTATATGGTTCTTCGGATTGAAGATAATCTATGCAGAGCCTTGTTTGTGTTTGTGATGCT
* * *
109647686 GTTTATGTA-G-GGCAATTCTAGTTAGTAGGCACACAGTGTTCACGGTTGAGTGTCGAACAAGTC
66 GTTTATATATGAGGCAATTCTAGTTAGTAGGCACACAGTATTCACGGTCGAGTGTCGAACAAGTC
*
109647749 CCAAAGATTTCAGGTTCGAGAAAGGCAATGTA-TT-TTGTCGTTGCGCATTTGTTTTCTATGTAT
131 CCAAAGATTTCAGGTACGAGAAAGGCAATGTAGTTGTTGTCGTTGCGCATTTGTTTTCTATGTAT
109647812 AGCCTGCAATGC
196 AGCCTGCAATGC
* * * * *
109647824 AATCTTTATATGGTTCTTTGGATTGAGGATAATCTATTCCGAGCCTTGTTCGTGTTTGTGAT
1 AATCTTTATATGGTTCTTCGGATTGAAGATAATCTATGCAGAGCCTTGTTTGTGTTTGTGAT
109647886 ACATATACTT
Statistics
Matches: 233, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
203 93 0.40
204 6 0.03
205 22 0.09
206 76 0.33
207 1 0.00
208 35 0.15
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.38
Consensus pattern (207 bp):
AATCTTTATATGGTTCTTCGGATTGAAGATAATCTATGCAGAGCCTTGTTTGTGTTTGTGATGCT
GTTTATATATGAGGCAATTCTAGTTAGTAGGCACACAGTATTCACGGTCGAGTGTCGAACAAGTC
CCAAAGATTTCAGGTACGAGAAAGGCAATGTAGTTGTTGTCGTTGCGCATTTGTTTTCTATGTAT
AGCCTGCAATGC
Found at i:109649736 original size:12 final size:12
Alignment explanation
Indices: 109649719--109649744 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
109649709 CATTATTTAA
109649719 AATGAATATCGT
1 AATGAATATCGT
109649731 AATGAATATCGT
1 AATGAATATCGT
109649743 AA
1 AA
109649745 AAAATGAATG
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:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (12 bp):
AATGAATATCGT
Found at i:109653987 original size:47 final size:47
Alignment explanation
Indices: 109653885--109654007 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 47
109653875 TTTTACTAAA
* * * **
109653885 ATGCCATAGCCCAGCTATAGTCTTACATCTTATACACATATCACACCG
1 ATGCCATATCCCAGATATGGTCTTACA-CAAATACACATATCACACCG
* *
109653933 ATGCCATATCCCAGATATGGTCTTACACAAATGCACATATCACTCCG
1 ATGCCATATCCCAGATATGGTCTTACACAAATACACATATCACACCG
*
109653980 ATGCCATATCCCAGATATGATCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
109654008 GGAAATCACT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 43 0.64
48 24 0.36
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (47 bp):
ATGCCATATCCCAGATATGGTCTTACACAAATACACATATCACACCG
Found at i:109654112 original size:31 final size:31
Alignment explanation
Indices: 109654048--109654112 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
109654038 ACCACTATTC
* * *
109654048 ACTGATCAGGTAGCTAGAGCTACCATTTTTA
1 ACTGATCAGGTAGCGAGAGCTACCACTTATA
*
109654079 ACTGATCAGGTAGCCGA-AGCTATCACTTATA
1 ACTGATCAGGTAG-CGAGAGCTACCACTTATA
109654110 ACT
1 ACT
109654113 TTCACTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGATCAGGTAGCGAGAGCTACCACTTATA
Done.