Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 173 of 185
Found at i:52552329 original size:7 final size:7
Alignment explanation
Indices: 52552317--52552354 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
52552307 ATCATTACTT
52552317 AATATTC
1 AATATTC
52552324 AATATTC
1 AATATTC
52552331 AATATTC
1 AATATTC
52552338 AATATTC
1 AATATTC
52552345 AATATTC
1 AATATTC
52552352 AAT
1 AAT
52552355 TGATCATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:52552597 original size:2 final size:2
Alignment explanation
Indices: 52552555--52552581 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
52552545 GACCAGAGTT
52552555 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
52552582 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:52558053 original size:19 final size:19
Alignment explanation
Indices: 52557998--52558060 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
52557988 GTTATCAATT
52557998 AATT-TTTTAAAAATT-AA
1 AATTATTTTAAAAATTAAA
*
52558015 AA-TA-TTCAAAAATTTATAAA
1 AATTATTTTAAAAA--T-TAAA
52558035 AATTATTTTAAAAATTAAA
1 AATTATTTTAAAAATTAAA
52558054 AATTATT
1 AATTATT
52558061 AAGACTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
16 8 0.22
17 2 0.05
18 1 0.03
19 12 0.32
20 5 0.14
21 2 0.05
22 7 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTATTTTAAAAATTAAA
Found at i:52558069 original size:28 final size:26
Alignment explanation
Indices: 52558010--52558092 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 26
52558000 TTTTTTAAAA
*
52558010 ATTAAAATATTCAAAAATTTATAAAAATT
1 ATTAAAA-ATT-AAAAA-TTATAAAAACT
* *
52558039 ATTTTAAAAATTAAAAATTATTAAGACT
1 A--TTAAAAATTAAAAATTATAAAAACT
52558067 ATTAAAAAGTATAAAAATTATAAAAA
1 ATTAAAAA-T-TAAAAATTATAAAAA
52558093 AATATTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
26 7 0.16
27 1 0.02
28 22 0.49
29 6 0.13
30 3 0.07
31 6 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
ATTAAAAATTAAAAATTATAAAAACT
Found at i:52565863 original size:32 final size:33
Alignment explanation
Indices: 52565789--52565866 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
52565779 AGACACGACC
* * *
52565789 GTGTGGGCCACACGAGCTAGGTCAAGTTGGGCA
1 GTGTGGGCCACACAAGCAAGGCCAAGTTGGGCA
*
52565822 -TGTGCGCCACACAAGCAAGGCCAA-TCTGGG-A
1 GTGTGGGCCACACAAGCAAGGCCAAGT-TGGGCA
52565853 GTGTGGGCCACACA
1 GTGTGGGCCACACA
52565867 TGCGTATGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 2 0.05
32 36 0.95
ACGTcount: A:0.24, C:0.26, G:0.35, T:0.15
Consensus pattern (33 bp):
GTGTGGGCCACACAAGCAAGGCCAAGTTGGGCA
Found at i:52568173 original size:18 final size:18
Alignment explanation
Indices: 52568150--52568187 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
52568140 ATCCCAATGA
52568150 TCGCCAGCACCTTCTTCT
1 TCGCCAGCACCTTCTTCT
52568168 TCGCCAGCACCTTCTTCT
1 TCGCCAGCACCTTCTTCT
52568186 TC
1 TC
52568188 ACCACCAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.45, G:0.11, T:0.34
Consensus pattern (18 bp):
TCGCCAGCACCTTCTTCT
Found at i:52568987 original size:3 final size:3
Alignment explanation
Indices: 52568979--52569019 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
52568969 TCTTAATACT
52568979 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
52569020 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:52569110 original size:19 final size:21
Alignment explanation
Indices: 52569086--52569124 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
52569076 AGTAAAACAA
*
52569086 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
52569105 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
52569125 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:52569305 original size:27 final size:27
Alignment explanation
Indices: 52569275--52569349 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
52569265 CAATCAATAC
52569275 GGCACCATTGGTGCCGCCAATGG-TATT
1 GGCACCATTGGTGCCGCCAATGGCT-TT
52569302 GGCACCATTGGTGCCGCCAATGGCTTT
1 GGCACCATTGGTGCCGCCAATGGCTTT
*
52569329 GGCACCTTTGGTGCCGCCAAT
1 GGCACCATTGGTGCCGCCAAT
52569350 CCCGTTGGCG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.25
Consensus pattern (27 bp):
GGCACCATTGGTGCCGCCAATGGCTTT
Found at i:52570013 original size:5 final size:5
Alignment explanation
Indices: 52570005--52570046 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
52569995 GAATTTTGTT
52570005 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TT-TA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
52570047 CTGATTTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:52570578 original size:17 final size:17
Alignment explanation
Indices: 52570544--52570578 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
52570534 AATTTTAAAA
*
52570544 TATTTTTAAAATACTTT
1 TATTTTTAAAATAATTT
*
52570561 TATTTTTAAATTAATTT
1 TATTTTTAAAATAATTT
52570578 T
1 T
52570579 TTGGTGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTAAAATAATTT
Found at i:52575889 original size:12 final size:13
Alignment explanation
Indices: 52575867--52575898 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
52575857 TAGTAGGTCA
52575867 TATCATATCTATC
1 TATCATATCTATC
52575880 TATC-TATCTATC
1 TATCATATCTATC
52575892 TAT-ATAT
1 TATCATAT
52575899 ATATATGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (13 bp):
TATCATATCTATC
Found at i:52577033 original size:20 final size:21
Alignment explanation
Indices: 52577010--52577069 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
52577000 CGACACATAA
52577010 GTGCCTGAAACGAC-CACGAG
1 GTGCCTGAAACGACACACGAG
*
52577030 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACGAG
52577051 GTGCCTGATATACGACACA
1 GTGCCTGA-A-ACGACACA
52577070 TAAAGTGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 13 0.37
21 14 0.40
23 8 0.23
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:52577050 original size:21 final size:21
Alignment explanation
Indices: 52576997--52577069 Score: 87
Period size: 20 Copynumber: 3.5 Consensus size: 21
52576987 CCTGATCAGT
* *
52576997 ATACGACACA-TAAGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
52577017 AAACGAC-CACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
52577037 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
52577058 ATATACGACACA
1 --ATACGACACA
52577070 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 2 0.04
20 20 0.44
21 13 0.29
23 10 0.22
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:52577077 original size:23 final size:23
Alignment explanation
Indices: 52576996--52577082 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
52576986 ACCTGATCAG
*
52576996 TATACGACACA-TAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
*
52577018 -A-ACGAC-CACGAGGTGCCTG-
1 TATACGACACACGAAGTGCCTGA
*
52577037 -ATACGACACACGAGGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
**
52577059 TATACGACACATAAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
52577082 T
1 T
52577083 CGGCAAGGCC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.05
20 18 0.33
21 14 0.25
23 20 0.36
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.18
Consensus pattern (23 bp):
TATACGACACACGAAGTGCCTGA
Found at i:52578028 original size:22 final size:22
Alignment explanation
Indices: 52578003--52578050 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
52577993 TCTTCCCCTG
*
52578003 TTTTC-GTCTCTTTCTCTGTTTC
1 TTTTCTGT-TCTTCCTCTGTTTC
*
52578025 TTTTCTGTTCTTCCTTTGTTTC
1 TTTTCTGTTCTTCCTCTGTTTC
52578047 TTTT
1 TTTT
52578051 TTCTTTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.00, C:0.23, G:0.08, T:0.69
Consensus pattern (22 bp):
TTTTCTGTTCTTCCTCTGTTTC
Found at i:52578104 original size:3 final size:3
Alignment explanation
Indices: 52578096--52578142 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
52578086 ATGCATTAGT
* *
52578096 TAA TAA TAA TAA TAA TAA TAA TATA TTA TAA TAA TTA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
52578141 TA
1 TA
52578143 TTTTATTCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:52578128 original size:19 final size:22
Alignment explanation
Indices: 52578101--52578144 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
52578091 TTAGTTAATA
*
52578101 ATAATAATAATAATAAT-ATATT
1 ATAATAATTAT-ATAATAATATT
52578123 ATAATAATTATATAATAATATT
1 ATAATAATTATATAATAATATT
52578145 TTATTCACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAATAATTATATAATAATATT
Found at i:52578129 original size:22 final size:24
Alignment explanation
Indices: 52578098--52578148 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
52578088 GCATTAGTTA
*
52578098 ATAATAATAATAATAATAATATATT
1 ATAATAATTAT-ATAATAATATATT
*
52578123 ATAATAATTATATAATAATATTTT
1 ATAATAATTATATAATAATATATT
52578147 AT
1 AT
52578149 TCACAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATAATTATATAATAATATATT
Found at i:52578315 original size:30 final size:27
Alignment explanation
Indices: 52578274--52578338 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 27
52578264 TTTCCTATAA
*
52578274 TATATTATTTTAATTTTAATTAATATAATT
1 TATAATATTTTAA-TTTAA-TAATAT-ATT
*
52578304 TATAATATTTTAATTTAATAATATTTT
1 TATAATATTTTAATTTAATAATATATT
52578331 TATAATAT
1 TATAATAT
52578339 AAATCAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 10 0.30
28 6 0.18
29 5 0.15
30 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TATAATATTTTAATTTAATAATATATT
Found at i:52578321 original size:25 final size:26
Alignment explanation
Indices: 52578286--52578338 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
52578276 TATTATTTTA
52578286 ATTTTAATTAAT-ATA-ATTTATAAT
1 ATTTTAATTAATAATATATTTATAAT
*
52578310 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAATAATATATTTATAAT
52578337 AT
1 AT
52578339 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTAATTAATAATATATTTATAAT
Found at i:52578324 original size:16 final size:16
Alignment explanation
Indices: 52578279--52578330 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
52578269 TATAATATAT
52578279 TATTTTAATTTTAATTAA
1 TATTTTAA-TTTAA-TAA
52578297 TA---TAATTT-ATAA
1 TATTTTAATTTAATAA
52578309 TATTTTAATTTAATAA
1 TATTTTAATTTAATAA
52578325 TATTTT
1 TATTTT
52578331 TATAATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 3 0.10
15 9 0.30
16 10 0.33
18 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTAATTTAATAA
Found at i:52581946 original size:2 final size:2
Alignment explanation
Indices: 52581939--52581970 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
52581929 CATGTCTGTC
52581939 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
52581971 TTATGCTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52586276 original size:21 final size:21
Alignment explanation
Indices: 52586251--52586301 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
52586241 TTATATATTT
52586251 TTTAAAAGTAATATTGATAA-AA
1 TTTAAAA--AATATTGATAATAA
*
52586273 -TTAAAACATATTGATAATAA
1 TTTAAAAAATATTGATAATAA
52586293 TTTAAAAAA
1 TTTAAAAAA
52586302 ATAATGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 10 0.40
20 2 0.08
21 13 0.52
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
TTTAAAAAATATTGATAATAA
Found at i:52586285 original size:19 final size:21
Alignment explanation
Indices: 52586261--52586299 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
52586251 TTTAAAAGTA
52586261 ATATTGATAA-AA-TTAAAAC
1 ATATTGATAATAATTTAAAAC
52586280 ATATTGATAATAATTTAAAA
1 ATATTGATAATAATTTAAAA
52586300 AAATAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (21 bp):
ATATTGATAATAATTTAAAAC
Found at i:52588671 original size:31 final size:29
Alignment explanation
Indices: 52588633--52588709 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
52588623 CTAACGGCTC
* *
52588633 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
52588664 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
52588693 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
52588710 CTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:52595774 original size:24 final size:24
Alignment explanation
Indices: 52595742--52595789 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
52595732 AAGTATTTCT
*
52595742 AAATTTAGATAGAA-TACTCTAAAA
1 AAATGTAGATAGAACT-CTCTAAAA
52595766 AAATGTAGATAGAACTCTCTAAAA
1 AAATGTAGATAGAACTCTCTAAAA
52595790 CTGTACTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.27
Consensus pattern (24 bp):
AAATGTAGATAGAACTCTCTAAAA
Found at i:52604621 original size:40 final size:40
Alignment explanation
Indices: 52604566--52604646 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
52604556 TTTTTTTCAA
* *
52604566 GTATATTTTAATTTTGGCAACTTTGACAACCGTACACTCC
1 GTATATTTTAATTTTGGAAACTTTGACAACAGTACACTCC
52604606 GTATATTTTAATTTTGGAAACTTTGACAACAGTACACTCC
1 GTATATTTTAATTTTGGAAACTTTGACAACAGTACACTCC
52604646 G
1 G
52604647 CAATGAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (40 bp):
GTATATTTTAATTTTGGAAACTTTGACAACAGTACACTCC
Found at i:52606555 original size:108 final size:110
Alignment explanation
Indices: 52606289--52606599 Score: 428
Period size: 112 Copynumber: 2.8 Consensus size: 110
52606279 AATTCAAGAT
* * *
52606289 GATATTTTGCTATTTGGTTAAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGA
1 GATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGA
* **
52606354 ATTTCCCAAATGCAAAACATTGCCTTATTTCGAATTTTTTTTAAAAG
66 ATTT-CCAAACGCAAAACATTGCCTTATTTCGAA-TAATTTTAAAAG
* * * *
52606401 GATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTCCTCGA
1 GATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGA
* * *
52606466 ATTTTCAAACGCAAAACATTGCCTTATTT-TAA-AATTTTGAAAG
66 ATTTCCAAACGCAAAACATTGCCTTATTTCGAATAATTTTAAAAG
*
52606509 GATATTTAGCTATTTTGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACACGTTTTCTC
1 GATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGG--CACGTTTTCTC
* *
52606574 GAATTTCCAAACGCTAAATATTGCCT
64 GAATTTCCAAACGCAAAACATTGCCT
52606600 CAATTAGAAA
Statistics
Matches: 176, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
108 57 0.32
110 34 0.19
111 23 0.13
112 62 0.35
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (110 bp):
GATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGA
ATTTCCAAACGCAAAACATTGCCTTATTTCGAATAATTTTAAAAG
Found at i:52607234 original size:3 final size:3
Alignment explanation
Indices: 52607218--52607281 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
52607208 AAAATAAAAT
* * * * * * *
52607218 TAA TAA TAGT TAA TAA TAG TAA TAA TAA TGA TAA TAA CAC TAA CAC
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
52607264 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
52607282 ACTAAATAAT
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
3 44 0.96
4 2 0.04
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:52611232 original size:41 final size:41
Alignment explanation
Indices: 52611175--52611257 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
52611165 CTACATAGAG
*
52611175 AGCCATGCTTGTTGACACGGGATACATGGTATAAAATCGCC
1 AGCCATGCTTGTTGACACGGGATACAAGGTATAAAATCGCC
52611216 AGCCATGCTTGTTGACACGGGATACAAGGTATAAAATCGCC
1 AGCCATGCTTGTTGACACGGGATACAAGGTATAAAATCGCC
52611257 A
1 A
52611258 TGGGAGTGGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (41 bp):
AGCCATGCTTGTTGACACGGGATACAAGGTATAAAATCGCC
Found at i:52612400 original size:42 final size:42
Alignment explanation
Indices: 52612354--52612439 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
52612344 TTTCAAAGTG
52612354 TAATAATTGCTTAATTATATCATCATAGCCATAGCTGTAAAC
1 TAATAATTGCTTAATTATATCATCATAGCCATAGCTGTAAAC
*
52612396 TAATAATTGCTTAATTATATCATCATAGCTATAGCTGTAAAC
1 TAATAATTGCTTAATTATATCATCATAGCCATAGCTGTAAAC
52612438 TA
1 TA
52612440 TCTTCCCTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.37
Consensus pattern (42 bp):
TAATAATTGCTTAATTATATCATCATAGCCATAGCTGTAAAC
Found at i:52612747 original size:8 final size:7
Alignment explanation
Indices: 52612730--52612763 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
52612720 AAAGTATTTT
*
52612730 AAAATTA
1 AAAAATA
52612737 AAAAATA
1 AAAAATA
52612744 AAAAAT-
1 AAAAATA
52612750 AAAAATA
1 AAAAATA
52612757 AAAAATA
1 AAAAATA
52612764 TATATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:52612753 original size:13 final size:13
Alignment explanation
Indices: 52612737--52612763 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52612727 TTTAAAATTA
52612737 AAAAATAAAAAAT
1 AAAAATAAAAAAT
52612750 AAAAATAAAAAAT
1 AAAAATAAAAAAT
52612763 A
1 A
52612764 TATATTTATT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:52613875 original size:12 final size:11
Alignment explanation
Indices: 52613853--52613879 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
52613843 TTTTTCTAAC
52613853 TTTCCTTTTTT
1 TTTCCTTTTTT
52613864 TTTCCTTTTTT
1 TTTCCTTTTTT
52613875 TTTCC
1 TTTCC
52613880 ATTCTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCCTTTTTT
Found at i:52620203 original size:17 final size:17
Alignment explanation
Indices: 52620181--52620214 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52620171 CAATTTTGAC
52620181 TATATAAAATCTAAAAT
1 TATATAAAATCTAAAAT
*
52620198 TATATAACATCTAAAAT
1 TATATAAAATCTAAAAT
52620215 ATACATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (17 bp):
TATATAAAATCTAAAAT
Found at i:52629592 original size:27 final size:27
Alignment explanation
Indices: 52629562--52629647 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
52629552 CGGATAGCCA
*
52629562 TTAATCGGGAAGTTCATGAAAGAGAAT
1 TTAATCGGGAAGTTCATGAAAGAGCAT
52629589 TTAATCGGGAAGCTTC--G-AAGAGCCA-
1 TTAATCGGGAAG-TTCATGAAAGAG-CAT
*
52629614 TTAATCGGGAAGCTCATGAAAGAGCAT
1 TTAATCGGGAAGTTCATGAAAGAGCAT
52629641 TTAATCG
1 TTAATCG
52629648 AAAAGCCTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
24 2 0.04
25 17 0.33
26 5 0.10
27 24 0.47
28 3 0.06
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (27 bp):
TTAATCGGGAAGTTCATGAAAGAGCAT
Found at i:52629616 original size:52 final size:52
Alignment explanation
Indices: 52629557--52629718 Score: 211
Period size: 52 Copynumber: 3.1 Consensus size: 52
52629547 AGCTCCGGAT
* * *
52629557 AGCCATTAATCGGGAAGTTCATGAAAGAGAATTTAATCGGGAAGCTTCGAAG
1 AGCCATTAATCGGGAAGCTCATGAAAGAGCATTTAATCGGAAAGCTTCGAAG
* *
52629609 AGCCATTAATCGGGAAGCTCATGAAAGAGCATTTAATCGAAAAGCCTT-GGAG
1 AGCCATTAATCGGGAAGCTCATGAAAGAGCATTTAATCGGAAAG-CTTCGAAG
* * * *
52629661 AGCCATTAATCGAGAAGCTCA-CAAAGAGCCTTTAATCGGAAAGCTCACGAAG
1 AGCCATTAATCGGGAAGCTCATGAAAGAGCATTTAATCGGAAAGCT-TCGAAG
52629713 AGCCAT
1 AGCCAT
52629719 ATATCAGGAT
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
50 2 0.02
51 19 0.20
52 72 0.75
53 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (52 bp):
AGCCATTAATCGGGAAGCTCATGAAAGAGCATTTAATCGGAAAGCTTCGAAG
Found at i:52629688 original size:26 final size:26
Alignment explanation
Indices: 52629557--52629718 Score: 116
Period size: 26 Copynumber: 6.2 Consensus size: 26
52629547 AGCTCCGGAT
* *
52629557 AGCCATTAATCGGGAAGTTCATGAAAG
1 AGCCATTAATCGGGAAGCTCA-CAAAG
* * *
52629584 AG-AATTTAATCGGGAAGCT-TCGAAG
1 AGCCA-TTAATCGGGAAGCTCACAAAG
*
52629609 AGCCATTAATCGGGAAGCTCATGAAAG
1 AGCCATTAATCGGGAAGCTCA-CAAAG
** ****
52629636 AG-CATTTAATCGAAAAGC-CTTGGAG
1 AGCCA-TTAATCGGGAAGCTCACAAAG
*
52629661 AGCCATTAATCGAGAAGCTCACAAAG
1 AGCCATTAATCGGGAAGCTCACAAAG
* * *
52629687 AGCCTTTAATCGGAAAGCTCACGAAG
1 AGCCATTAATCGGGAAGCTCACAAAG
52629713 AGCCAT
1 AGCCAT
52629719 ATATCAGGAT
Statistics
Matches: 103, Mismatches: 25, Indels: 15
0.72 0.17 0.10
Matches are distributed among these distances:
25 35 0.34
26 37 0.36
27 31 0.30
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (26 bp):
AGCCATTAATCGGGAAGCTCACAAAG
Found at i:52631830 original size:12 final size:12
Alignment explanation
Indices: 52631815--52631840 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52631805 ATATATATAC
52631815 TAATTTAATTCA
1 TAATTTAATTCA
52631827 TAATTTAATTCA
1 TAATTTAATTCA
52631839 TA
1 TA
52631841 CATTCTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATTTAATTCA
Found at i:52632327 original size:24 final size:23
Alignment explanation
Indices: 52632296--52632342 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
52632286 TATTCACACA
52632296 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTACCTTAATTT-AAATGT
*
52632319 TATTACTTACCTTACTTTAAATGT
1 TATT-CTTACCTTAATTTAAATGT
52632343 CTCATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGT
Found at i:52633050 original size:29 final size:29
Alignment explanation
Indices: 52632993--52633049 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
52632983 TTTTCTTCCC
52632993 CTGTTTTCGTTTTGTTCTCTGTTTCTTTT
1 CTGTTTTCGTTTTGTTCTCTGTTTCTTTT
*
52633022 CTGTTCTTC-TTTTGTT-TCTTTTTCTTTT
1 CTGTT-TTCGTTTTGTTCTCTGTTTCTTTT
52633050 TATTTACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
29 12 0.46
30 3 0.12
ACGTcount: A:0.00, C:0.18, G:0.11, T:0.72
Consensus pattern (29 bp):
CTGTTTTCGTTTTGTTCTCTGTTTCTTTT
Found at i:52636123 original size:26 final size:27
Alignment explanation
Indices: 52636032--52636116 Score: 127
Period size: 26 Copynumber: 3.1 Consensus size: 27
52636022 TAATTCGTAA
*
52636032 AAAAGATATAAAAATGTAATTTTATAG
1 AAAAGTTATAAAAATGTAATTTTATAG
*
52636059 TAAAAAGTTATAAAAATGTAGTTTTATA-
1 --AAAAGTTATAAAAATGTAATTTTATAG
52636087 AAAAGTTATAAAAATGTAATTTTATAG
1 AAAAGTTATAAAAATGTAATTTTATAG
52636114 AAA
1 AAA
52636117 TGCATAATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 25 0.48
27 3 0.06
29 24 0.46
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (27 bp):
AAAAGTTATAAAAATGTAATTTTATAG
Found at i:52638534 original size:30 final size:29
Alignment explanation
Indices: 52638498--52638557 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
52638488 ATAATTTGTG
*
52638498 AAAATTGAATC-AAATCAAATTTTCATGTAT
1 AAAATTGAA-CAAAATCAAAGTTT-ATGTAT
*
52638528 AAAATTGCACAAAATCAAAGTTTATGTAT
1 AAAATTGAACAAAATCAAAGTTTATGTAT
52638557 A
1 A
52638558 GTTTTGAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (29 bp):
AAAATTGAACAAAATCAAAGTTTATGTAT
Found at i:52638948 original size:3 final size:3
Alignment explanation
Indices: 52638942--52639020 Score: 56
Period size: 3 Copynumber: 25.3 Consensus size: 3
52638932 ATTATTTCAC
* * *
52638942 TAT TAT TAT CAT TAT TAT ATAG TAT TAT TAAT TGAAT TGT TAT TATT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT T--AT TAT TAT TA-T
52638989 TAT TAT TA- TATT TAT TAT T-T TAT TA- TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
52639021 GTCATTTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 6 0.10
3 42 0.68
4 10 0.16
5 4 0.06
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:52639005 original size:19 final size:17
Alignment explanation
Indices: 52638981--52639017 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
52638971 AATTGAATTG
52638981 TTATTATTTATTATTATAT
1 TTATTA-TT-TTATTATAT
52639000 TTATTATTTTATTATAT
1 TTATTATTTTATTATAT
52639017 T
1 T
52639018 ATTGTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTATTTTATTATAT
Found at i:52639006 original size:22 final size:22
Alignment explanation
Indices: 52638981--52639047 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 22
52638971 AATTGAATTG
52638981 TTATTATTTATTATTATATTTA
1 TTATTATTTATTATTATATTTA
52639003 TTA-T-TTTATTA-TATTATTGTCA
1 TTATTATTTATTATTA-TATT-T-A
52639025 TT-TTATTTCATTATT-TATGTTA
1 TTATTATTT-ATTATTATAT-TTA
52639047 T
1 T
52639048 CATTTTGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
19 2 0.05
20 11 0.30
21 2 0.05
22 9 0.24
23 7 0.19
24 5 0.14
25 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (22 bp):
TTATTATTTATTATTATATTTA
Found at i:52643602 original size:29 final size:29
Alignment explanation
Indices: 52643541--52643602 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
52643531 ATCTTTATGG
* * *
52643541 TTTTTAAAAGATTAAATTAAATTTTTATA
1 TTTTTAAAAAATTAAAGTAAAGTTTTATA
*
52643570 TTTTTAAAAAAATTAAAGTATAGTTTTAT-
1 TTTTT-AAAAAATTAAAGTAAAGTTTTATA
52643599 TTTT
1 TTTT
52643603 ATTAATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (29 bp):
TTTTTAAAAAATTAAAGTAAAGTTTTATA
Found at i:52644751 original size:52 final size:52
Alignment explanation
Indices: 52644677--52644778 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
52644667 TGCCACAACT
52644677 AGTTATCCTTAATGCAGGTGTTACTCAAAAATTGCTTCAATAATCTCTCCAC
1 AGTTATCCTTAATGCAGGTGTTACTCAAAAATTGCTTCAATAATCTCTCCAC
*
52644729 AGTTATCCTTAATTCAGGTGTTACTCAAAAATTGCTTCAATAATCTCTCC
1 AGTTATCCTTAATGCAGGTGTTACTCAAAAATTGCTTCAATAATCTCTCC
52644779 CTTTGACAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (52 bp):
AGTTATCCTTAATGCAGGTGTTACTCAAAAATTGCTTCAATAATCTCTCCAC
Found at i:52645178 original size:17 final size:17
Alignment explanation
Indices: 52645148--52645181 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52645138 TATTTATCAA
*
52645148 AATAATACAAAAAAAAT
1 AATAAAACAAAAAAAAT
52645165 AATAAAACAGAAAAAAA
1 AATAAAACA-AAAAAAA
52645182 AAAAAAAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAACAAAAAAAAT
Found at i:52645597 original size:39 final size:39
Alignment explanation
Indices: 52645538--52645667 Score: 117
Period size: 39 Copynumber: 3.2 Consensus size: 39
52645528 TAGATGTTAC
* *
52645538 TTAGTATTATTGTTA-AAAAACTAA-TATTATTATTATGG
1 TTAGTATTATT-TTAGTAAAACTAATTATTATTGTTATGG
52645576 TTAGTTATTATTTTAGTAAAACCCTAATTATTATTGTTA--G
1 TTAG-TATTATTTTAGTAAAA--CTAATTATTATTGTTATGG
*
52645616 TTAGTATTATTTCAGTATAAAAC-AATTATTATTGTTATTGTG
1 TTAGTATTATTTTAG--TAAAACTAATTATTATTGTTA-TG-G
52645658 TTAGTTATTA
1 TTAG-TATTA
52645668 GGATTAGTGG
Statistics
Matches: 77, Mismatches: 3, Indels: 19
0.78 0.03 0.19
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 5 0.06
41 9 0.12
42 15 0.19
43 5 0.06
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.50
Consensus pattern (39 bp):
TTAGTATTATTTTAGTAAAACTAATTATTATTGTTATGG
Found at i:52645650 original size:38 final size:40
Alignment explanation
Indices: 52645551--52645652 Score: 113
Period size: 38 Copynumber: 2.6 Consensus size: 40
52645541 GTATTATTGT
* * *
52645551 TAAAAAACTAA-TATTATTATTATGGTTAGTTATTATTTTAG
1 TAAAACACTAATTATTATTGTTA--GTTAGTTATTATTTCAG
*
52645592 TAAAACCCTAATTATTATTGTTAGTTAG-TATTATTTCAG
1 TAAAACACTAATTATTATTGTTAGTTAGTTATTATTTCAG
52645631 TATAAA-AC-AATTATTATTGTTA
1 TA-AAACACTAATTATTATTGTTA
52645653 TTGTGTTAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
38 14 0.26
39 13 0.24
40 8 0.15
41 9 0.17
42 10 0.19
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (40 bp):
TAAAACACTAATTATTATTGTTAGTTAGTTATTATTTCAG
Found at i:52647530 original size:48 final size:48
Alignment explanation
Indices: 52647469--52647622 Score: 245
Period size: 48 Copynumber: 3.2 Consensus size: 48
52647459 GAAGGTATGC
* * *
52647469 GGGCCATCAGCACCGACATGAGGAAGAGCGCGATAAACCAACGTAGTA
1 GGGCCATCAGCACCGACATGAGGAGGAGCACGATAAACCACCGTAGTA
52647517 GGGCCATCAGCACCGACATGAGGAGGAGCACGATAAACCACCGTAGTA
1 GGGCCATCAGCACCGACATGAGGAGGAGCACGATAAACCACCGTAGTA
* * * *
52647565 GGGCCATCAGCACCGACAGGAAGAGGAGCACGAGAAACCACCGTATTA
1 GGGCCATCAGCACCGACATGAGGAGGAGCACGATAAACCACCGTAGTA
52647613 GGGCCATCAG
1 GGGCCATCAG
52647623 GGGGGACAGA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 99 1.00
ACGTcount: A:0.34, C:0.27, G:0.30, T:0.10
Consensus pattern (48 bp):
GGGCCATCAGCACCGACATGAGGAGGAGCACGATAAACCACCGTAGTA
Found at i:52647670 original size:51 final size:51
Alignment explanation
Indices: 52647612--52647715 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
52647602 CCACCGTATT
52647612 AGGGCCATCAGGGGGGACAGAAGAGTCATTCGGTAGCACATACATAACTGG
1 AGGGCCATCAGGGGGGACAGAAGAGTCATTCGGTAGCACATACATAACTGG
52647663 AGGGCCATCAGGGGGGACAGAAGAGTCATTCGGTAGCACATACATAACTGG
1 AGGGCCATCAGGGGGGACAGAAGAGTCATTCGGTAGCACATACATAACTGG
52647714 AG
1 AG
52647716 CGTTAGCTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.32, C:0.19, G:0.34, T:0.15
Consensus pattern (51 bp):
AGGGCCATCAGGGGGGACAGAAGAGTCATTCGGTAGCACATACATAACTGG
Found at i:52650260 original size:10 final size:10
Alignment explanation
Indices: 52650245--52650270 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
52650235 GTTAAATCTC
52650245 AAATTACATT
1 AAATTACATT
52650255 AAATTACATT
1 AAATTACATT
52650265 AAATTA
1 AAATTA
52650271 TTAAGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATTACATT
Found at i:52654465 original size:21 final size:21
Alignment explanation
Indices: 52654439--52654479 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
52654429 AATATAATAG
52654439 CAAAAT-GATAGTAAACAACAA
1 CAAAATAGA-AGTAAACAACAA
52654460 CAAAATAGAAGTAAACAACA
1 CAAAATAGAAGTAAACAACA
52654480 CTGAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.63, C:0.15, G:0.10, T:0.12
Consensus pattern (21 bp):
CAAAATAGAAGTAAACAACAA
Found at i:52659368 original size:42 final size:42
Alignment explanation
Indices: 52659309--52659390 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
52659299 CATAGCGAGC
52659309 TGTTCTTGATCCCGAATTTGAAGCCTCTGCAATTCTTGTAGA
1 TGTTCTTGATCCCGAATTTGAAGCCTCTGCAATTCTTGTAGA
52659351 TGTTCTTGATCCCGAATTTGAAGCCTCTGCAATTCTTGTA
1 TGTTCTTGATCCCGAATTTGAAGCCTCTGCAATTCTTGTA
52659391 TCTGTCTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (42 bp):
TGTTCTTGATCCCGAATTTGAAGCCTCTGCAATTCTTGTAGA
Found at i:52660908 original size:11 final size:10
Alignment explanation
Indices: 52660873--52660916 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
52660863 TCTTTTTTAC
*
52660873 TAAAATAATA
1 TAAAAAAATA
52660883 TAAAAAAATA
1 TAAAAAAATA
*
52660893 AAAAAAAATA
1 TAAAAAAATA
*
52660903 TCAAAATAATA
1 T-AAAAAAATA
52660914 TAA
1 TAA
52660917 CTTTTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:52661052 original size:27 final size:27
Alignment explanation
Indices: 52660988--52661059 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
52660978 GGTGGAGGGC
* *
52660988 CTGCCACAGGCGACACCAAAGGTGTCT
1 CTGCCACAGGCGACACCAAAGGTGCCA
* * *
52661015 GTGGCAGAGGCGACACCAAAGGTGCCA
1 CTGCCACAGGCGACACCAAAGGTGCCA
*
52661042 CTGCCACAGGCGGCACCA
1 CTGCCACAGGCGACACCA
52661060 TTTCAATTAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.26, C:0.33, G:0.31, T:0.10
Consensus pattern (27 bp):
CTGCCACAGGCGACACCAAAGGTGCCA
Found at i:52661107 original size:9 final size:9
Alignment explanation
Indices: 52661093--52661122 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
52661083 CAGTTCGGCT
52661093 GAAGGAGAA
1 GAAGGAGAA
52661102 GAAGGAGAA
1 GAAGGAGAA
*
52661111 GAAGAAGAA
1 GAAGGAGAA
52661120 GAA
1 GAA
52661123 AAAGGTGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (9 bp):
GAAGGAGAA
Found at i:52661159 original size:15 final size:15
Alignment explanation
Indices: 52661139--52661191 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
52661129 GGTGCCGGAA
52661139 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
* * *
52661154 AGAGAAAGGAGAAAG
1 AAAGAAAAGAAAAAG
*
52661169 AAAGAGAAGAAAAA-
1 AAAGAAAAGAAAAAG
52661183 AATAGAAAA
1 AA-AGAAAA
52661192 AATAATGTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 2 0.07
15 27 0.93
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:52661568 original size:76 final size:77
Alignment explanation
Indices: 52661409--52661587 Score: 195
Period size: 76 Copynumber: 2.3 Consensus size: 77
52661399 AAACTAATAT
* *
52661409 TATTATTATGGTTAGTTATTAGGATGAGTAAAAACCCTAATTATTATTTTAGTTAGTATGATTGT
1 TATTATTATTGTTAGTTATTAGGATGAGTAAAAACCCTAATTATTATATTAGTTAGTATGATTGT
*** *
52661474 TAGTTTTTAAAT
66 TAGTTAAAAAAC
*** * *
52661486 TA-TATTATTGTTAGTTATTATTTTTAGT-AAAACCCTAATTATTACTATTAGTTAGTATTATT-
1 TATTATTATTGTTAGTTATTAGGATGAGTAAAAACCCTAATTATTA-TATTAGTTAGTATGATTG
52661548 TTGAG-TAAAAAAC
65 TT-AGTTAAAAAAC
52661561 TATTATTATTGTGTTAGTTATTAGGAT
1 TATTATTA-T-TGTTAGTTATTAGGAT
52661588 TAGTGGTTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
75 24 0.29
76 43 0.52
77 3 0.04
78 13 0.16
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (77 bp):
TATTATTATTGTTAGTTATTAGGATGAGTAAAAACCCTAATTATTATATTAGTTAGTATGATTGT
TAGTTAAAAAAC
Found at i:52665035 original size:153 final size:154
Alignment explanation
Indices: 52664756--52665261 Score: 766
Period size: 153 Copynumber: 3.3 Consensus size: 154
52664746 ACTTCAAAAC
* *
52664756 AAATTTAGTAAAAAACCCTTATTTCGGCCATTTGCTCATATTTTTTTCCCGGATTTTATTACTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT
* *
52664821 CAAAAAATATACTATTTTCTAATTTTCTAATTTTATATTATTTTAGTACATTATGTTTGAAATGT
66 CAAAAAATATACTATTTTCTGATTTTCTAATTTTACATTATTTTAGTACATTATGTTTGAAATGT
* * *
52664886 ATTAATTAATTGTGTTTTTTAAAT
131 ATTAATTTAGTGTGTGTTTTAAAT
* ***
52664910 AAATTTAGTAAAAAACCTTTATTTCGGCCATTTGTTCGTA-TTTTTTCCAAAATTTTATTACTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT
* *
52664974 CAAAAAATATACTATTTTCTGATTTTCTGATTTTACATTATTTTAGTACAATATGTTTGAAATGT
66 CAAAAAATATACTATTTTCTGATTTTCTAATTTTACATTATTTTAGTACATTATGTTTGAAATGT
52665039 ATTAATTTAGTGTGTGTTTTAAAT
131 ATTAATTTAGTGTGTGTTTTAAAT
52665063 AAATTTAGTAAAAAACCCTTATTTCGGCC-TTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT
* * *
52665127 CAAAAAATATATTATTTTC-GTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
66 CAAAAAATATACTATTTTCTG-ATTTTCTAATTTTACATTATTTTAGTACATTATGTTTGAAATG
* *
52665191 TATTAATTTAGTGTATGTTTTATAT
130 TATTAATTTAGTGTGTGTTTTAAAT
* * * * *
52665216 AAATTTACTACAAAAACCTTTATTTTGGCCCTTTATTCGTATTTTT
1 AAATTTAGTA-AAAAACCCTTATTTCGGCCATTTGTTCGTATTTTT
52665262 CTTATTTTCA
Statistics
Matches: 321, Mismatches: 27, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
152 11 0.03
153 242 0.75
154 54 0.17
155 14 0.04
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (154 bp):
AAATTTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT
CAAAAAATATACTATTTTCTGATTTTCTAATTTTACATTATTTTAGTACATTATGTTTGAAATGT
ATTAATTTAGTGTGTGTTTTAAAT
Found at i:52665536 original size:11 final size:11
Alignment explanation
Indices: 52665514--52665608 Score: 53
Period size: 10 Copynumber: 9.0 Consensus size: 11
52665504 AAAAAATACC
52665514 TTTCCTTAT-TT
1 TTTCCTT-TCTT
52665525 TTT-CTTTCTT
1 TTTCCTTTCTT
52665535 TTTCCTTTC--
1 TTTCCTTTCTT
* *
52665544 CTCCCTCTTCTT
1 TTTCCT-TTCTT
*
52665556 TTTCTCATTTC-C
1 TTTC-C-TTTCTT
52665568 TTTCCTTTC-T
1 TTTCCTTTCTT
* *
52665578 TCTCCTTTCCT
1 TTTCCTTTCTT
52665589 TTT-CTTTCTT
1 TTTCCTTTCTT
52665599 TTT-CTTTCTT
1 TTTCCTTTCTT
52665609 CTCCTTCTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
9 5 0.07
10 39 0.58
11 12 0.18
12 6 0.09
13 4 0.06
14 1 0.01
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTCCTTTCTT
Found at i:52665605 original size:20 final size:20
Alignment explanation
Indices: 52665528--52665623 Score: 72
Period size: 20 Copynumber: 4.6 Consensus size: 20
52665518 CTTATTTTTT
*
52665528 CTTTCTTTTTCCTTTCC-TCC
1 CTTTCTTTTT-CTTTCCTTTC
52665548 CTCTTCTTTTTCTCATTTCCTTTC
1 CT-TTC-TTTT-TC-TTTCCTTTC
* * *
52665572 CTTTCTTCTCCTTTCCTTTT
1 CTTTCTTTTTCTTTCCTTTC
52665592 CTTTCTTTTTCTTT-CTTCTC
1 CTTTCTTTTTCTTTCCTT-TC
52665612 C-TTCTTTCTTCT
1 CTTTCTTT-TTCT
52665624 CCTTCAGCCG
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
19 9 0.15
20 28 0.45
21 4 0.06
22 8 0.13
23 9 0.15
24 4 0.06
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTTCTTTTTCTTTCCTTTC
Found at i:52665624 original size:13 final size:13
Alignment explanation
Indices: 52665572--52665628 Score: 60
Period size: 13 Copynumber: 4.1 Consensus size: 13
52665562 ATTTCCTTTC
52665572 CTTTCTTCTCCTTT
1 CTTTCTTCTCC-TT
**
52665586 CCTTTTCTTTCTTTTT
1 -C-TTTC-TTCTCCTT
52665602 CTTTCTTCTCCTT
1 CTTTCTTCTCCTT
52665615 CTTTCTTCTCCTT
1 CTTTCTTCTCCTT
52665628 C
1 C
52665629 AGCCGAATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 20 0.56
14 4 0.11
15 2 0.06
16 6 0.17
17 4 0.11
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (13 bp):
CTTTCTTCTCCTT
Found at i:52665707 original size:27 final size:27
Alignment explanation
Indices: 52665658--52665723 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
52665648 ATATAAGAGG
* ** *
52665658 CTGGTGCCGCCTGTGGTAGTGGCACAT
1 CTGGTGCCGCCTCTGCCACTGGCACAT
* *
52665685 TTGGTGCCGCCTCTGCCACTGGCACCT
1 CTGGTGCCGCCTCTGCCACTGGCACAT
52665712 CTGGTGCCGCCT
1 CTGGTGCCGCCT
52665724 GTGGCAGGCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.08, C:0.35, G:0.32, T:0.26
Consensus pattern (27 bp):
CTGGTGCCGCCTCTGCCACTGGCACAT
Found at i:52670840 original size:18 final size:20
Alignment explanation
Indices: 52670813--52670861 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
52670803 ATTAGGTTAA
*
52670813 TATTTCTTTTTATAA-AT-T
1 TATTTATTTTTATAACATCT
52670831 TATTTATTTTTA-AACATCT
1 TATTTATTTTTATAACATCT
52670850 T-TTTATTTTTAT
1 TATTTATTTTTAT
52670862 TTTCTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTATTTTTATAACATCT
Found at i:52671759 original size:17 final size:18
Alignment explanation
Indices: 52671737--52671777 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
52671727 TAGCATCATT
*
52671737 TATTTTATATTTA-TAAA
1 TATTTTATATATATTAAA
52671754 TATTTTATATATATTAAA
1 TATTTTATATATATTAAA
52671772 TATTTT
1 TATTTT
52671778 TTAAAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTATATATATTAAA
Found at i:52672589 original size:19 final size:19
Alignment explanation
Indices: 52672562--52672636 Score: 64
Period size: 19 Copynumber: 4.0 Consensus size: 19
52672552 GTCCAATTCA
* *
52672562 AATTATTATGATTTTTTAT
1 AATTTTTATAATTTTTTAT
*
52672581 AATTTTTATAATTTTATAT
1 AATTTTTATAATTTTTTAT
** *
52672600 -CGTTTT-TAATATTTTAAT
1 AATTTTTATAAT-TTTTTAT
*
52672618 ATTTTTTATAATTTTTTAT
1 AATTTTTATAATTTTTTAT
52672637 TCTTTTTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
17 4 0.09
18 9 0.21
19 26 0.60
20 4 0.09
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (19 bp):
AATTTTTATAATTTTTTAT
Found at i:52672595 original size:8 final size:9
Alignment explanation
Indices: 52672574--52672633 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
52672564 TTATTATGAT
52672574 TTTTTATAA
1 TTTTTATAA
52672583 TTTTTATAA
1 TTTTTATAA
**
52672592 TTTTATATCG
1 TTTT-TATAA
52672602 TTTTTA-ATA
1 TTTTTATA-A
* *
52672611 TTTTAATAT
1 TTTTTATAA
52672620 TTTTTATAA
1 TTTTTATAA
52672629 TTTTT
1 TTTTT
52672634 TATTCTTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
9 32 0.80
10 8 0.20
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTTATAA
Found at i:52672630 original size:37 final size:37
Alignment explanation
Indices: 52672574--52672645 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
52672564 TTATTATGAT
*
52672574 TTTTTATAATTTTTATAATTTTATA-TCGTTTTTAATA
1 TTTTAATAATTTTTATAATTTTATATTC-TTTTTAATA
* *
52672611 TTTTAATATTTTTTATAATTTTTTATTCTTTTTAA
1 TTTTAATAATTTTTATAATTTTATATTCTTTTTAA
52672646 AGAATTCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 29 0.94
38 2 0.06
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (37 bp):
TTTTAATAATTTTTATAATTTTATATTCTTTTTAATA
Found at i:52672642 original size:19 final size:19
Alignment explanation
Indices: 52672567--52672644 Score: 63
Period size: 19 Copynumber: 4.2 Consensus size: 19
52672557 ATTCAAATTA
* **
52672567 TTATGATTTTTTATAATTT
1 TTATAATTTTTTATTCTTT
* *
52672586 TTATAATTTTATA-TCGTT
1 TTATAATTTTTTATTCTTT
*
52672604 TT-TAATATTTTAATAT-TTT
1 TTATAAT-TTTTTAT-TCTTT
52672623 TTATAATTTTTTATTCTTT
1 TTATAATTTTTTATTCTTT
52672642 TTA
1 TTA
52672645 AAGAATTCTA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
17 4 0.09
18 9 0.20
19 27 0.60
20 5 0.11
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TTATAATTTTTTATTCTTT
Found at i:52672643 original size:10 final size:10
Alignment explanation
Indices: 52672567--52672636 Score: 58
Period size: 10 Copynumber: 7.4 Consensus size: 10
52672557 ATTCAAATTA
*
52672567 TTATGATTTT
1 TTATAATTTT
52672577 TTATAA-TTT
1 TTATAATTTT
52672586 TTATAATTTT
1 TTATAATTTT
* **
52672596 ATATCGTTTT
1 TTATAATTTT
*
52672606 TAAT-A-TTT
1 TTATAATTTT
*
52672614 TAAT-ATTTT
1 TTATAATTTT
52672623 TTATAATTTT
1 TTATAATTTT
52672633 TTAT
1 TTAT
52672637 TCTTTTTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
8 8 0.16
9 15 0.31
10 26 0.53
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (10 bp):
TTATAATTTT
Found at i:52672657 original size:39 final size:38
Alignment explanation
Indices: 52672579--52672674 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 38
52672569 ATGATTTTTT
* *
52672579 ATAA-TTTTTATAATTTTATATCGTTTTTAATATTTTA
1 ATAATTTTTTATAATTTTATATCGTTTTTAAAATTCTA
*
52672616 AT-ATTTTTTATAATTTTTTATTC-TTTTTAAAGAATTCTA
1 ATAATTTTTTATAATTTTATA-TCGTTTTT-AA-AATTCTA
*
52672655 ATACATTTTTTAAAATTTTA
1 ATA-ATTTTTTATAATTTTA
52672675 AATAAGTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 1 0.02
37 22 0.46
38 4 0.08
39 7 0.15
41 14 0.29
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (38 bp):
ATAATTTTTTATAATTTTATATCGTTTTTAAAATTCTA
Found at i:52672741 original size:17 final size:19
Alignment explanation
Indices: 52672703--52672751 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
52672693 TATAAAACTT
52672703 TTTTTTATA-TTTATTAGA
1 TTTTTTATATTTTATTAGA
52672721 -TTTTTATATTTTA-TA-A
1 TTTTTTATATTTTATTAGA
52672737 TTTTTTATAGTTTTA
1 TTTTTTATA-TTTTA
52672752 ATAAGTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.04
17 18 0.64
18 9 0.32
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTTTATATTTTATTAGA
Found at i:52672784 original size:16 final size:16
Alignment explanation
Indices: 52672763--52672798 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
52672753 TAAGTTGATG
*
52672763 TAATTTTAATTTTTTT
1 TAATTTTAATTATTTT
*
52672779 TAATTTTTATTATTTT
1 TAATTTTAATTATTTT
52672795 TAAT
1 TAAT
52672799 CATTTTATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TAATTTTAATTATTTT
Found at i:52684077 original size:43 final size:43
Alignment explanation
Indices: 52684030--52684157 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 43
52684020 TATGTGCTAG
* *
52684030 TATAATTGATTTGGCTTGTCCGATGATGCACTGTGTGTGCCAA
1 TATAATTGATTCGGCTTGTCCGATGATGCACTATGTGTGCCAA
*
52684073 TATAATTGCTTCGGCTTGTCCGATGATGCACTATGTGTGCCAA
1 TATAATTGATTCGGCTTGTCCGATGATGCACTATGTGTGCCAA
* ** * * *
52684116 TATATTTCCTTCAGTTTATCCGATGATGCACTATG-GTGCCAA
1 TATAATTGATTCGGCTTGTCCGATGATGCACTATGTGTGCCAA
52684158 ATTGGGATAT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 7 0.09
43 70 0.91
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (43 bp):
TATAATTGATTCGGCTTGTCCGATGATGCACTATGTGTGCCAA
Found at i:52689569 original size:50 final size:50
Alignment explanation
Indices: 52689445--52689693 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
52689435 GATAATAACA
* * ** * *
52689445 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
52689496 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
52689546 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
52689596 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
52689651 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
52689694 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:52689623 original size:100 final size:104
Alignment explanation
Indices: 52689444--52689693 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
52689434 TGATAATAAC
**
52689444 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
52689509 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
52689546 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
52689609 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
52689651 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
52689694 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:52689809 original size:13 final size:13
Alignment explanation
Indices: 52689788--52689819 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52689778 GCTTGGATCA
*
52689788 TCATCAAATAAAT
1 TCATAAAATAAAT
52689801 TCATAAAATAAAT
1 TCATAAAATAAAT
52689814 TCATAA
1 TCATAA
52689820 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:52690066 original size:30 final size:30
Alignment explanation
Indices: 52690031--52690088 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
52690021 CCTCGACTCT
*
52690031 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
52690061 AACTTTTACATAATTACATTTTTTCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
52690089 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:52693813 original size:27 final size:27
Alignment explanation
Indices: 52693782--52693841 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
52693772 TAATTATATT
* *
52693782 TAATTATTTACTAAATATTTTTA-TTTC
1 TAATTAATTACT-AATATTTCTATTTTC
*
52693809 TAATTTAATTCCTAATATTTCTATTTTC
1 TAA-TTAATTACTAATATTTCTATTTTC
52693837 TAATT
1 TAATT
52693842 TCACACTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (27 bp):
TAATTAATTACTAATATTTCTATTTTC
Found at i:52743879 original size:16 final size:18
Alignment explanation
Indices: 52743841--52743881 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
52743831 AAGTTTATAG
52743841 TATTT-TATATTATGTTA
1 TATTTATATATTATGTTA
*
52743858 TTTTTATATATTATG-TA
1 TATTTATATATTATGTTA
52743875 -ATTTATA
1 TATTTATA
52743882 ATACATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 6 0.29
18 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TATTTATATATTATGTTA
Found at i:52752171 original size:67 final size:67
Alignment explanation
Indices: 52752063--52752198 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
52752053 GTAATAAAGC
*
52752063 TTCCTTCAGGAGAGCTAGTTTCAGGTACATCTATTCTCTATGACATTGCAAAATTTGATGACACA
1 TTCCTTCAGGAGAGCTAGTATCAGGTACATCTATTCTCTATGACATTGCAAAATTTGATGACACA
52752128 TT
66 TT
52752130 TTCCTTCAGGAGAGCTAGTATCAGGTACATCTATTCTCTATGACATTGCAAAATTTGATGACACA
1 TTCCTTCAGGAGAGCTAGTATCAGGTACATCTATTCTCTATGACATTGCAAAATTTGATGACACA
52752195 TT
66 TT
52752197 TT
1 TT
52752199 TTCATTGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (67 bp):
TTCCTTCAGGAGAGCTAGTATCAGGTACATCTATTCTCTATGACATTGCAAAATTTGATGACACA
TT
Found at i:52760986 original size:7 final size:7
Alignment explanation
Indices: 52760974--52761004 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
52760964 GTGTTGGAGA
52760974 TCGCCAC
1 TCGCCAC
52760981 TCGCCAC
1 TCGCCAC
52760988 TCGCCAC
1 TCGCCAC
52760995 TCGCCAC
1 TCGCCAC
52761002 TCG
1 TCG
52761005 ACAGTGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.55, G:0.16, T:0.16
Consensus pattern (7 bp):
TCGCCAC
Found at i:52768935 original size:27 final size:27
Alignment explanation
Indices: 52768898--52768958 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
52768888 TATTAAGTTT
52768898 AATGT-AACCCTCCTCAATACGCAACC
1 AATGTGAACCCTCCTCAATACGCAACC
*
52768924 AATGTGAACCCTCCTCAATACGCGACC
1 AATGTGAACCCTCCTCAATACGCAACC
52768951 AATGTGAA
1 AATGTGAA
52768959 GCTATTGCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 5 0.15
27 28 0.85
ACGTcount: A:0.34, C:0.33, G:0.13, T:0.20
Consensus pattern (27 bp):
AATGTGAACCCTCCTCAATACGCAACC
Found at i:52772642 original size:23 final size:21
Alignment explanation
Indices: 52772615--52772660 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
52772605 TTTATTATGT
*
52772615 ATATACATGCATACATTTTTATA
1 ATATACATACAT--ATTTTTATA
*
52772638 ATATACGTACATATTTTTATA
1 ATATACATACATATTTTTATA
52772659 AT
1 AT
52772661 TTATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
23 10 0.48
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (21 bp):
ATATACATACATATTTTTATA
Found at i:52772696 original size:44 final size:44
Alignment explanation
Indices: 52772648--52772846 Score: 179
Period size: 46 Copynumber: 4.3 Consensus size: 44
52772638 ATATACGTAC
52772648 ATATTTTTATAATTTATATATATACATACTTATATATATTTTTT
1 ATATTTTTATAATTTATATATATACATACTTATATATATTTTTT
* *
52772692 ATA-TTTTATAATTTATATACATATCTATATATATCTATATACATATTTTTT
1 ATATTTTTATAA-TT-TAT--ATA--TATACATA-CT-TATATATATTTTTT
* * *
52772743 A-ATTTTCATAA-ATATATATATACATACTTATATATATTTCTT
1 ATATTTTTATAATTTATATATATACATACTTATATATATTTTTT
* ** * *
52772785 ATTATATCTTATAATTTATATATATATGTACATACATATATCTTTTT
1 A-TAT-TTTTATAATTTATATATATACATACTTATATATAT-TTTTT
*
52772832 ACATTTTTATAATTT
1 ATATTTTTATAATTT
52772847 TATTTATTTT
Statistics
Matches: 124, Mismatches: 17, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
42 13 0.10
43 10 0.08
44 14 0.11
45 19 0.15
46 26 0.21
47 8 0.06
48 3 0.02
49 7 0.06
50 3 0.02
51 21 0.17
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.55
Consensus pattern (44 bp):
ATATTTTTATAATTTATATATATACATACTTATATATATTTTTT
Found at i:52772713 original size:91 final size:95
Alignment explanation
Indices: 52772597--52772806 Score: 218
Period size: 93 Copynumber: 2.2 Consensus size: 95
52772587 GCCTTTTAAA
* * * * *
52772597 TTTTAAATTTTATTATGTATATACAT-GC-ATACAT-T-TTTATA-ATATACGTACATATTTTTA
1 TTTTATATTTTATAATTTATATACATAGCTATACATATCTATATACATAT-CGTACA-ATTTTCA
*
52772657 TAATTTATATATATACATACTTATATATA-TT-
64 TAA-ATATATATATACATACTTATATATATTTC
* * ** **
52772688 TTTTATATTTTATAATTTATATACATATCTATATATATCTATATACATATTTTTTAATTTTCATA
1 TTTTATATTTTATAATTTATATACATAGCTATACATATCTATATACATATCGTACAATTTTCATA
52772753 AATATATATATACATACTTATATATATTTC
66 AATATATATATACATACTTATATATATTTC
*
52772783 TTATTATATCTTATAATTTATATA
1 TT-TTATATTTTATAATTTATATA
52772807 TATATGTACA
Statistics
Matches: 98, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
91 23 0.23
92 1 0.01
93 29 0.30
94 12 0.12
95 9 0.09
96 24 0.24
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (95 bp):
TTTTATATTTTATAATTTATATACATAGCTATACATATCTATATACATATCGTACAATTTTCATA
AATATATATATACATACTTATATATATTTC
Found at i:52772721 original size:35 final size:36
Alignment explanation
Indices: 52772651--52772721 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
52772641 TACGTACATA
*
52772651 TTTTTATAATTTATATATATACATACTTATATATAT
1 TTTTTATAATTTATATATATACATACATATATATAT
* * * *
52772687 TTTTTATATTTTATA-ATTTATATACATATCTATAT
1 TTTTTATAATTTATATATATACATACATATATATAT
52772722 ATATCTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (36 bp):
TTTTTATAATTTATATATATACATACATATATATAT
Found at i:52772763 original size:42 final size:43
Alignment explanation
Indices: 52772692--52772823 Score: 119
Period size: 42 Copynumber: 3.1 Consensus size: 43
52772682 TATATTTTTT
* * *
52772692 ATATTTTATAATTTAT-ATACATATCTATATATATCTATATAC
1 ATATTTTTTAATTTATCATAAATATATATATATATCTATATAC
* *
52772734 ATATTTTTTAATTT-TCATAAATATATATATACATACT-TATAT
1 ATATTTTTTAATTTATCATAAATATATATATATAT-CTATATAC
* * * * *
52772776 ATATTTCTT-ATTATATCTTATAATTTATATATATATGTACATAC
1 ATATTTTTTAATT-TATCATA-AATATATATATATATCTATATAC
52772820 ATAT
1 ATAT
52772824 ATCTTTTTAC
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
41 4 0.06
42 41 0.57
43 7 0.10
44 20 0.28
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (43 bp):
ATATTTTTTAATTTATCATAAATATATATATATATCTATATAC
Found at i:52777815 original size:33 final size:33
Alignment explanation
Indices: 52777773--52778111 Score: 146
Period size: 33 Copynumber: 9.7 Consensus size: 33
52777763 AATATGAAGG
*
52777773 GGTTGCTAAGTGCTGATTCCTCGACTCAATGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* *
52777806 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C--T-CA-AT---GGT
52777849 GGTTGCTAAGTGCTGATT--CC--C-CAA-GG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* * *
52777875 GGTTGCTAAGTGATGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* *
52777908 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C--TCAA--T---GGT
52777951 GGTTGCTAAGTGCTGATT-CCC--C-CAA-GG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* * *
52777978 GGTTGCTAAGTGCTGATTCCCCGAATGATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* * *
52778011 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CC-GA-C--TCAA--TG---GT
* * *
52778054 GGTTGTTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
*
52778087 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
52778112 TAACGGTTAA
Statistics
Matches: 234, Mismatches: 28, Indels: 87
0.67 0.08 0.25
Matches are distributed among these distances:
26 17 0.07
27 20 0.09
28 7 0.03
31 4 0.02
32 5 0.02
33 78 0.33
34 13 0.06
35 3 0.01
36 4 0.02
37 1 0.00
38 8 0.03
39 1 0.00
40 7 0.03
41 3 0.01
42 3 0.01
43 60 0.26
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
Found at i:52777881 original size:26 final size:26
Alignment explanation
Indices: 52777847--52777896 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
52777837 AAATATAAAG
*
52777847 GGGGTTGCTAAGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGATGATTCCCCAA
52777873 GGGGTTGCTAAGTGATGATTCCCC
1 GGGGTTGCTAAGTGATGATTCCCC
52777897 GATTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCAA
Found at i:52777909 original size:102 final size:102
Alignment explanation
Indices: 52777769--52778075 Score: 490
Period size: 102 Copynumber: 3.0 Consensus size: 102
52777759 ATGGAATATG
* * *
52777769 AAGGGGTTGCTAAGTGCTGATTCCTCGACTCAATGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
52777834 TTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCC
66 TTTAAATGTAAAGGGGGTTGCTAAGTGCTGATTCCCC
* *
52777871 AAGGGGTTGCTAAGTGATGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
52777936 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTTAAATGTAAAGGGGGTTGCTAAGTGCTGATT-CCCC
* *
52777974 AAGGGGTTGCTAAGTGCTGATTCCCCGAATGATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* *
52778039 TTTGAATGTGAAA-GGGGTTGTTAAGTGCTGATTCCCC
66 TTTAAATGT-AAAGGGGGTTGCTAAGTGCTGATTCCCC
52778076 GAATCACTGG
Statistics
Matches: 190, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
102 96 0.51
103 92 0.48
104 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (102 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTTAAATGTAAAGGGGGTTGCTAAGTGCTGATTCCCC
Found at i:52778040 original size:103 final size:103
Alignment explanation
Indices: 52777769--52778075 Score: 499
Period size: 103 Copynumber: 3.0 Consensus size: 103
52777759 ATGGAATATG
* * *
52777769 AAGGGGTTGCTAAGTGCTGATTCCTCGACTCAATGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* *
52777834 TTTAAATATAAAGGGGGTTGCTAAGTGCTGATT-CCCC
66 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
* *
52777871 AAGGGGTTGCTAAGTGATGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
52777936 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
* *
52777974 AAGGGGTTGCTAAGTGCTGATTCCCCGAATGATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* * *
52778039 TTTGAATGTGAAAGGGGTTGTTAAGTGCTGATTCCCC
66 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCC
52778076 GAATCACTGG
Statistics
Matches: 191, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
102 92 0.48
103 99 0.52
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:52782108 original size:44 final size:45
Alignment explanation
Indices: 52782055--52782157 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
52782045 TGTCTTTGAC
* ** *
52782055 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATATTATAAT
** *
52782099 ATGGACTTACATGGCTCAACCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATA-TTATAAT
52782145 ATGGACTTACATG
1 ATGGACTTACATG
52782158 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATATTATAAT
Found at i:52782158 original size:46 final size:44
Alignment explanation
Indices: 52782075--52782162 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
52782065 ATGAATTATT
*
52782075 CCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAAC
1 CCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAAC
*
52782119 CCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 CCTGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
52782163 TTTCTGTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 17 0.43
46 23 0.57
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (44 bp):
CCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAAC
Found at i:52789271 original size:44 final size:45
Alignment explanation
Indices: 52789218--52789320 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
52789208 TGTCTTTGAC
* ** *
52789218 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATATTATAAT
** *
52789262 ATGGACTTACATGGCTCAACCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATA-TTATAAT
52789308 ATGGACTTACATG
1 ATGGACTTACATG
52789321 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATATTATAAT
Found at i:52789321 original size:46 final size:44
Alignment explanation
Indices: 52789238--52789325 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
52789228 ATGAATTATT
*
52789238 CCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAAC
1 CCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAAC
*
52789282 CCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 CCTGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
52789326 TTTCTGTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 17 0.43
46 23 0.57
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (44 bp):
CCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAAC
Found at i:52795148 original size:33 final size:33
Alignment explanation
Indices: 52795106--52795364 Score: 164
Period size: 33 Copynumber: 7.6 Consensus size: 33
52795096 AATATGAAGG
*
52795106 GGTTGCTAAGTGCTGATTCCTCGACTCAATGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* *
52795139 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C--T-CA-AT---GGT
52795182 GGTTGCTAAGTGCTGATT-CCC--C-CAA-GG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* *
52795209 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* *
52795242 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C--TCAA--T---GGT
52795285 GGTTGCTAAGTGCTGATT-CCC--C-CAA-GG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* * *
52795312 GGTTGCTAAGTGCTGATTCCCCGAATGATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
52795345 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
52795365 ACCATATCTT
Statistics
Matches: 180, Mismatches: 14, Indels: 64
0.70 0.05 0.25
Matches are distributed among these distances:
27 36 0.20
28 10 0.06
31 3 0.02
32 5 0.03
33 61 0.34
34 7 0.04
35 2 0.01
36 1 0.01
37 2 0.01
38 3 0.02
39 1 0.01
40 3 0.02
41 4 0.02
42 2 0.01
43 40 0.22
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
Found at i:52795284 original size:103 final size:103
Alignment explanation
Indices: 52795102--52795409 Score: 526
Period size: 103 Copynumber: 3.0 Consensus size: 103
52795092 ATGGAATATG
* * *
52795102 AAGGGGTTGCTAAGTGCTGATTCCTCGACTCAATGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* *
52795167 TTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
*
52795205 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
52795270 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
* *
52795308 AAGGGGTTGCTAAGTGCTGATTCCCCGAATGATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* *
52795373 TTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCC
52795410 GAATCACTGG
Statistics
Matches: 195, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 195 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:52799524 original size:31 final size:30
Alignment explanation
Indices: 52799486--52799550 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
52799476 ATAAAATATT
*
52799486 ATTAAATTATTTGAGAA-TTTTTATTTAAGTC
1 ATTAAATTA-TTCA-AATTTTTTATTTAAGTC
52799517 ATTAAATTATTCAAATTTTTTTATTTAAGTC
1 ATTAAATTATTCAAA-TTTTTTATTTAAGTC
52799548 ATT
1 ATT
52799551 GGACTGTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 2 0.06
30 3 0.10
31 26 0.84
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (30 bp):
ATTAAATTATTCAAATTTTTTATTTAAGTC
Found at i:52808690 original size:18 final size:19
Alignment explanation
Indices: 52808648--52808690 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
52808638 TAAAAAAATT
52808648 ATTTTTAAACTTTTTTTAC
1 ATTTTTAAACTTTTTTTAC
*
52808667 AATTTTAAA-TTTTTTTAC
1 ATTTTTAAACTTTTTTTAC
52808685 ATTTTT
1 ATTTTT
52808691 TGTAATAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTAAACTTTTTTTAC
Found at i:52808831 original size:21 final size:21
Alignment explanation
Indices: 52808761--52808838 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 21
52808751 TATTTTTATA
*
52808761 ATTTATTTATTTATTTATTTCC
1 ATTT-TTTATATATTTATTTCC
* **
52808783 TAGATTTTATATATATTT-TTCTGA
1 ---ATTTTTTATATATTTATT-TCC
52808807 ATTTTTTATATATTTATTTCC
1 ATTTTTTATATATTTATTTCC
*
52808828 ATTTTTCATAT
1 ATTTTTTATAT
52808839 TTTTTAATGT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
21 25 0.58
22 2 0.05
23 2 0.05
24 10 0.23
25 4 0.09
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (21 bp):
ATTTTTTATATATTTATTTCC
Found at i:52815210 original size:30 final size:30
Alignment explanation
Indices: 52815176--52815234 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
52815166 ACCAGCAGCG
*
52815176 TATCCACCGCCAGGATATCCTCCTCAAGGT
1 TATCCACCGCAAGGATATCCTCCTCAAGGT
* * *
52815206 TATCCTCCTCAAGGTTATCCTCCTCAAGG
1 TATCCACCGCAAGGATATCCTCCTCAAGG
52815235 ATACCCTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.27
Consensus pattern (30 bp):
TATCCACCGCAAGGATATCCTCCTCAAGGT
Found at i:52815246 original size:15 final size:15
Alignment explanation
Indices: 52815187--52815260 Score: 94
Period size: 15 Copynumber: 4.9 Consensus size: 15
52815177 ATCCACCGCC
52815187 AGGATATCCTCCTCA
1 AGGATATCCTCCTCA
*
52815202 AGGTTATCCTCCTCA
1 AGGATATCCTCCTCA
*
52815217 AGGTTATCCTCCTCA
1 AGGATATCCTCCTCA
* *
52815232 AGGATACCCTGCTCA
1 AGGATATCCTCCTCA
* *
52815247 GGGATACCCTCCTC
1 AGGATATCCTCCTC
52815261 CTTATGCTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.22, C:0.35, G:0.16, T:0.27
Consensus pattern (15 bp):
AGGATATCCTCCTCA
Found at i:52828497 original size:12 final size:12
Alignment explanation
Indices: 52828480--52828506 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
52828470 ATCCCTTTTA
52828480 GGGCATCAAGAG
1 GGGCATCAAGAG
52828492 GGGCATCAAGAG
1 GGGCATCAAGAG
52828504 GGG
1 GGG
52828507 TTGTATCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.48, T:0.07
Consensus pattern (12 bp):
GGGCATCAAGAG
Found at i:52829310 original size:46 final size:46
Alignment explanation
Indices: 52829242--52829343 Score: 170
Period size: 46 Copynumber: 2.2 Consensus size: 46
52829232 CAAGGCGACC
* * *
52829242 CCTTTTT-GTGGCACGAGGGTGACCCCTTAATAGGAGGGGGAGGCT
1 CCTTTTTAGCGGCACGAGAGTGACCCCTTAATAAGAGGGGGAGGCT
52829287 CCTTTTTAGCGGCACGAGAGTGACCCCTTAATAAGAGGGGGAGGCT
1 CCTTTTTAGCGGCACGAGAGTGACCCCTTAATAAGAGGGGGAGGCT
52829333 CCTTTTTAGCG
1 CCTTTTTAGCG
52829344 AACTTTTTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 7 0.13
46 46 0.87
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (46 bp):
CCTTTTTAGCGGCACGAGAGTGACCCCTTAATAAGAGGGGGAGGCT
Found at i:52831155 original size:13 final size:13
Alignment explanation
Indices: 52831123--52831157 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
52831113 CTCTATTTTT
*
52831123 GCTAACCCTTCTA
1 GCTAACTCTTCTA
52831136 GCTAACTCTTCTA
1 GCTAACTCTTCTA
*
52831149 GTTAACTCT
1 GCTAACTCT
52831158 CATTTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.31, G:0.09, T:0.37
Consensus pattern (13 bp):
GCTAACTCTTCTA
Found at i:52831584 original size:77 final size:77
Alignment explanation
Indices: 52831457--52831692 Score: 409
Period size: 77 Copynumber: 3.0 Consensus size: 77
52831447 AGCCACTAGC
***
52831457 AATGTTTATGAAGATCATGTGAGTTGAGATTTGGGTAGGATACTGATATAAGAAGTCTTTTAAGC
1 AATGTTTATGAAGATTGGGTGAGTTGAGATTTGGGTAGGATACTGATATAAGAAGTCTTTTAAGC
52831522 CATTTTTGTAAT
66 CATTTTTGTAAT
52831534 AATGTTTATGAAGATTGGGTGAGTTGAGATTTGGGTAGGATACTGATATAAGAAGTCTTTTAAGC
1 AATGTTTATGAAGATTGGGTGAGTTGAGATTTGGGTAGGATACTGATATAAGAAGTCTTTTAAGC
52831599 CATTTTTGTAAT
66 CATTTTTGTAAT
*
52831611 AATGTTTATGAAGATTGGGTGAGTTGAGATTTGGGTAGGATACTGATATCAGAAGAGTCTTTTAA
1 AATGTTTATGAAGATTGGGTGAGTTGAGATTTGGGTAGGATACTGATATAAG-A-AGTCTTTTAA
*
52831676 GCCATTTTAGTAAT
64 GCCATTTTTGTAAT
52831690 AAT
1 AAT
52831693 TAAGATGGGA
Statistics
Matches: 152, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
77 125 0.82
78 1 0.01
79 26 0.17
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (77 bp):
AATGTTTATGAAGATTGGGTGAGTTGAGATTTGGGTAGGATACTGATATAAGAAGTCTTTTAAGC
CATTTTTGTAAT
Found at i:52836998 original size:21 final size:21
Alignment explanation
Indices: 52836969--52837009 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52836959 CTAAACTTGG
*
52836969 GGTTTGAGGTTCAGGGTCTAA
1 GGTTCGAGGTTCAGGGTCTAA
**
52836990 GGTTCGAGGTTTTGGGTCTA
1 GGTTCGAGGTTCAGGGTCTA
52837010 GGATTCAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.10, G:0.39, T:0.37
Consensus pattern (21 bp):
GGTTCGAGGTTCAGGGTCTAA
Found at i:52837023 original size:21 final size:21
Alignment explanation
Indices: 52836982--52837026 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
52836972 TTGAGGTTCA
* *
52836982 GGGTCTAAGGTTCGAGGTTTT
1 GGGTCTAAGGTTCAAGATTTT
52837003 GGGTCT-AGGATTCAAGATTTT
1 GGGTCTAAGG-TTCAAGATTTT
52837024 GGG
1 GGG
52837027 ATCCGGATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.18, C:0.09, G:0.38, T:0.36
Consensus pattern (21 bp):
GGGTCTAAGGTTCAAGATTTT
Found at i:52838597 original size:4 final size:4
Alignment explanation
Indices: 52838588--52838612 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
52838578 AGCAAAGATT
52838588 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
52838613 AAATTTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:52841571 original size:15 final size:15
Alignment explanation
Indices: 52841551--52841588 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
52841541 TTGTATTAAT
*
52841551 TTTTTTATA-AATATA
1 TTTTTTATATAAT-GA
52841566 TTTTTTATATAATGA
1 TTTTTTATATAATGA
52841581 TTTTTTAT
1 TTTTTTAT
52841589 TTACATTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTTTATATAATGA
Found at i:52841857 original size:13 final size:13
Alignment explanation
Indices: 52841839--52841902 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
52841829 TTCTTCATTA
52841839 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
52841852 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
* *
52841865 CTGTGGAAAAGTG
1 CTTTTGAAAAGTG
*
52841878 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
*
52841891 ATTTTGAAAAGT
1 CTTTTGAAAAGT
52841903 TTGATTTAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:52841899 original size:26 final size:26
Alignment explanation
Indices: 52841840--52841902 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
52841830 TCTTCATTAC
*
52841840 TTTTGAAAAGTGCTTTTGAGAAGTGC
1 TTTTGAAAAGTGCTTTTGAGAAGTGA
* *
52841866 TGTGGAAAAGTGCTTTTGAGAAGTGA
1 TTTTGAAAAGTGCTTTTGAGAAGTGA
52841892 TTTTGAAAAGT
1 TTTTGAAAAGT
52841903 TTGATTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.37
Consensus pattern (26 bp):
TTTTGAAAAGTGCTTTTGAGAAGTGA
Found at i:52842689 original size:19 final size:20
Alignment explanation
Indices: 52842656--52842694 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
52842646 ATCTCAAATT
52842656 TTTTTTATAAGAAATAGATAA
1 TTTTTTATAAGAAATA-ATAA
52842677 TTTTTTAT-A-AAATAATAA
1 TTTTTTATAAGAAATAATAA
52842695 GTAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 1 0.06
21 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTTTTATAAGAAATAATAA
Found at i:52844769 original size:21 final size:22
Alignment explanation
Indices: 52844721--52844767 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
52844711 ATGTATTTAT
*
52844721 TAAAATTTTATATTAAAATTAA
1 TAAAATTTTATATTAAAATGAA
*
52844743 TAAAATTTTA-ATTGAAATG-A
1 TAAAATTTTATATTAAAATGAA
52844763 TAAAA
1 TAAAA
52844768 ATATTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 7 0.30
22 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
TAAAATTTTATATTAAAATGAA
Found at i:52845075 original size:10 final size:10
Alignment explanation
Indices: 52845062--52845086 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52845052 ATAGTATGTT
52845062 ATATATATAA
1 ATATATATAA
52845072 ATATATATAA
1 ATATATATAA
52845082 ATATA
1 ATATA
52845087 AAATATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATATAA
Done.