Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 20 of 82
Found at i:6861559 original size:43 final size:43
Alignment explanation
Indices: 6861491--6861584 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
6861481 TTGTGTGATA
** *
6861491 ATGATGACCCAACTATTTGTAGTGTGGAAGTGCACATGAGCTG
1 ATGATGACCCAACTACGTGCAGTGTGGAAGTGCACATGAGCTG
* *
6861534 ATGATGACCCAACTACGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAACTACGTGCAGTGTGGAAGTGCACATGAGCTG
6861577 ATGATGAC
1 ATGATGAC
6861585 TCGGCTATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (43 bp):
ATGATGACCCAACTACGTGCAGTGTGGAAGTGCACATGAGCTG
Found at i:6863484 original size:21 final size:21
Alignment explanation
Indices: 6863418--6863485 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
6863408 GGATATGTTC
6863418 ATGCAATTCATGACAAAGACTG
1 ATGC-ATTCATGACAAAGACTG
* *
6863440 ATACATTCATAACAAAGACTG
1 ATGCATTCATGACAAAGACTG
* *
6863461 ATGCATTTATGACAAGGACTG
1 ATGCATTCATGACAAAGACTG
6863482 ATGC
1 ATGC
6863486 CTCCATTCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 37 0.93
22 3 0.08
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (21 bp):
ATGCATTCATGACAAAGACTG
Found at i:6866181 original size:20 final size:20
Alignment explanation
Indices: 6866144--6866182 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6866134 ATAAGGAAAA
*
6866144 TTATAGAAAACATGATGCAC
1 TTATAGAAAACATAATGCAC
6866164 TTATAGTAAAA-ATAATGCA
1 TTATAG-AAAACATAATGCA
6866183 ATTTAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (20 bp):
TTATAGAAAACATAATGCAC
Found at i:6869264 original size:36 final size:36
Alignment explanation
Indices: 6869216--6869333 Score: 103
Period size: 36 Copynumber: 3.3 Consensus size: 36
6869206 ACCCAGCTCA
* * *
6869216 TGTGCACTCCCACACCGCACATAGCCAGA-GTCATCG
1 TGTGCACCCCCACACCGCACATAG-CAAATGCCATCG
* *
6869252 TGTGCACCCCCACATCGCGCATAGCAAATGCCATCG
1 TGTGCACCCCCACACCGCACATAGCAAATGCCATCG
* * ** * * *
6869288 TGTGCTCCCCCACATCGTGCACAGCTAATGCCATTG
1 TGTGCACCCCCACACCGCACATAGCAAATGCCATCG
*
6869324 TGTGCTCCCC
1 TGTGCACCCC
6869334 TACATCACGC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
35 3 0.04
36 68 0.96
ACGTcount: A:0.21, C:0.39, G:0.19, T:0.20
Consensus pattern (36 bp):
TGTGCACCCCCACACCGCACATAGCAAATGCCATCG
Found at i:6869339 original size:36 final size:36
Alignment explanation
Indices: 6869247--6869347 Score: 139
Period size: 36 Copynumber: 2.8 Consensus size: 36
6869237 TAGCCAGAGT
* *
6869247 CATCGTGTGCACCCCCACATCGCGCATAGCAAATGC
1 CATCGTGTGCTCCCCCACATCGCGCACAGCAAATGC
* *
6869283 CATCGTGTGCTCCCCCACATCGTGCACAGCTAATGC
1 CATCGTGTGCTCCCCCACATCGCGCACAGCAAATGC
* * *
6869319 CATTGTGTGCTCCCCTACATCACGCACAG
1 CATCGTGTGCTCCCCCACATCGCGCACAG
6869348 ACAATATCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.22, C:0.39, G:0.19, T:0.21
Consensus pattern (36 bp):
CATCGTGTGCTCCCCCACATCGCGCACAGCAAATGC
Found at i:6875963 original size:42 final size:42
Alignment explanation
Indices: 6875917--6876167 Score: 322
Period size: 42 Copynumber: 6.0 Consensus size: 42
6875907 CATCTCATAT
* * *
6875917 GCAACGGCTTATGTGTACTCCCACTCGCATATAGCCAGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* *
6875959 GCAACGGCTTATGTGCACTCCCACCCACACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
** * *
6876001 GCAATAGCTTATGTGCACTCCTACTCGCACATAGCCGAGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* ** *
6876043 GTAATAGCTTATGTGCACTCCCACTCACACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* * *
6876085 TCAACGGCTTATGTGCACTCCCACTCGCACATTGCCTGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* * * *
6876127 GCAATGACTTATGTGCACTCCCGCTCGCACATAGCCTGGTC
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTC
6876168 CACATCAACA
Statistics
Matches: 182, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 182 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.23
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
Found at i:6876154 original size:126 final size:126
Alignment explanation
Indices: 6875923--6876162 Score: 365
Period size: 126 Copynumber: 1.9 Consensus size: 126
6875913 ATATGCAACG
* * *
6875923 GCTTATGTGTACTCCCACTCGCATATAGCCAGGTCAGCAACGGCTTATGTGCACTCCCACCCACA
1 GCTTATGTGCACTCCCACTCACACATAGCCAGGTCAGCAACGGCTTATGTGCACTCCCACCCACA
*
6875988 CATAGCCGGGTCAGCAATAGCTTATGTGCACTCCTACTCGCACATAGCCGAGTCAGTAATA
66 CATAGCCGGGTCAGCAATAGCTTATGTGCACTCCCACTCGCACATAGCCGAGTCAGTAATA
* * * *
6876049 GCTTATGTGCACTCCCACTCACACATAGCCGGGTCATCAACGGCTTATGTGCACTCCCACTCGCA
1 GCTTATGTGCACTCCCACTCACACATAGCCAGGTCAGCAACGGCTTATGTGCACTCCCACCCACA
* * *
6876114 CATTGCCTGGTCAGCAAT-GACTTATGTGCACTCCCGCTCGCACATAGCC
66 CATAGCCGGGTCAGCAATAG-CTTATGTGCACTCCCACTCGCACATAGCC
6876163 TGGTCCACAT
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
125 1 0.01
126 101 0.99
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (126 bp):
GCTTATGTGCACTCCCACTCACACATAGCCAGGTCAGCAACGGCTTATGTGCACTCCCACCCACA
CATAGCCGGGTCAGCAATAGCTTATGTGCACTCCCACTCGCACATAGCCGAGTCAGTAATA
Found at i:6880165 original size:29 final size:28
Alignment explanation
Indices: 6880120--6880261 Score: 185
Period size: 29 Copynumber: 4.9 Consensus size: 28
6880110 GGCAGCTTTG
6880120 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
6880148 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATGTTT-GTCTTAATTTAGACAAGAAA
* *
6880177 ATATGTTTGCCTTAATTTAAGACAAGAAAA
1 ACATGTTTGTCTTAATTT-AGACAAG-AAA
* * *
6880207 ATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACA-TGTTTGTCTTAATTTAGACAAGAAA
* *
6880236 ACATATTTGTCTCAATTTAGACAAGA
1 ACATGTTTGTCTTAATTTAGACAAGA
6880262 TAAAATATTT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
28 37 0.37
29 39 0.39
30 12 0.12
31 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:6880233 original size:59 final size:58
Alignment explanation
Indices: 6880120--6880294 Score: 226
Period size: 59 Copynumber: 3.0 Consensus size: 58
6880110 GGCAGCTTTG
* * *
6880120 ACATGTTTGTCTTAATTTAGACAAG-AAAACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
* * *
6880177 ATATGTTTGCCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACATGTTTGTCTTAATTT-AGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
* * *
6880236 ACATATTTGTCTCAATTTAGACAAGATAAAATATTTTTTTGTCTTAATTACAGACAAGA
1 ACATGTTTGTCTTAATTTAGACAAGA-AAAATA-TTTTTTGTCTTAATT-TAGACAAGA
6880295 GTTGTCTTAA
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
57 16 0.16
58 15 0.15
59 48 0.48
60 15 0.15
61 7 0.07
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (58 bp):
ACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
Found at i:6880269 original size:28 final size:28
Alignment explanation
Indices: 6880120--6880271 Score: 173
Period size: 28 Copynumber: 5.3 Consensus size: 28
6880110 GGCAGCTTTG
*
6880120 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATATTTGTCTTAATTTAGACAAGAAA
*
6880148 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATATTT-GTCTTAATTTAGACAAGAAA
* * *
6880177 ATATGTTTGCCTTAATTTAAGACAAGAAA
1 ACATATTTGTCTTAATTT-AGACAAGAAA
*
6880206 A-ATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACATA---TTTGTCTTAATTTAGACAAGAAA
*
6880236 ACATATTTGTCTCAATTTAGACAAGATAA
1 ACATATTTGTCTTAATTTAGACAAGA-AA
6880265 A-ATATTT
1 ACATATTT
6880272 TTTTGTCTTA
Statistics
Matches: 110, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
28 44 0.40
29 41 0.37
30 10 0.09
31 15 0.14
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (28 bp):
ACATATTTGTCTTAATTTAGACAAGAAA
Found at i:6880458 original size:17 final size:17
Alignment explanation
Indices: 6880436--6880468 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6880426 ATAATAATAA
6880436 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
6880453 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
6880469 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:6881694 original size:39 final size:38
Alignment explanation
Indices: 6881625--6881706 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 38
6881615 TGCTGCCGGG
* * *
6881625 CAGCACACAACCCTTGTTATGTGCCGTTCGACAGCACA
1 CAGCACACAACCATTGCTATGTGCCATTCGACAGCACA
*
6881663 CAGCACACAACACATTGCTGTGTGCCATTCGACAGCACA
1 CAGCACACAAC-CATTGCTATGTGCCATTCGACAGCACA
6881702 CAGCA
1 CAGCA
6881707 GCAGTGTGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 11 0.28
39 28 0.72
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (38 bp):
CAGCACACAACCATTGCTATGTGCCATTCGACAGCACA
Found at i:6881714 original size:28 final size:28
Alignment explanation
Indices: 6881682--6881743 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
6881672 ACACATTGCT
6881682 GTGTGCCATTCGACAGCACACAGCAGCA
1 GTGTGCCATTCGACAGCACACAGCAGCA
* *
6881710 GTGTGCCGTTTGACAGCACACAGCAGCA
1 GTGTGCCATTCGACAGCACACAGCAGCA
*
6881738 ATGTGC
1 GTGTGC
6881744 TGCTGTCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.27, T:0.18
Consensus pattern (28 bp):
GTGTGCCATTCGACAGCACACAGCAGCA
Found at i:6895008 original size:19 final size:18
Alignment explanation
Indices: 6894986--6895028 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
6894976 TTAATATTTT
6894986 AATATTATTTTATTCATAA
1 AATATTATTTTATT-ATAA
* *
6895005 AATAATATTTTATTTTAA
1 AATATTATTTTATTATAA
6895023 AATATT
1 AATATT
6895029 TTTCTCACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTATTTTATTATAA
Found at i:6918834 original size:24 final size:23
Alignment explanation
Indices: 6918807--6918856 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
6918797 TAAGTAGGTC
*
6918807 TAAGGCAT-AAATGAATGATGAAAA
1 TAAGG-ATAAAATG-ATGAAGAAAA
*
6918831 TAAGGGTAAAATGATGAAGAAAA
1 TAAGGATAAAATGATGAAGAAAA
6918854 TAA
1 TAA
6918857 AAATAATGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (23 bp):
TAAGGATAAAATGATGAAGAAAA
Found at i:6920012 original size:43 final size:43
Alignment explanation
Indices: 6919926--6920060 Score: 211
Period size: 43 Copynumber: 3.2 Consensus size: 43
6919916 TTATGTGATA
*
6919926 ATGATGACCTAGCTATGTGC-GTGTAGGAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
*
6919968 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
* *
6920011 ATGATGACCTAGCTATGTGCGAGT-AGGGAGTGAACATGAGCTG
1 ATGATGACCTAGCTATGTGCG-GTGTGGGAGTGCACATGAGCTG
6920054 ATGATGA
1 ATGATGA
6920061 TGGGATGGTA
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
42 19 0.22
43 65 0.76
44 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (43 bp):
ATGATGACCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
Found at i:6920104 original size:2 final size:2
Alignment explanation
Indices: 6920099--6920147 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6920089 TATATATATA
6920099 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6920141 TG TG TG T
1 TG TG TG T
6920148 TATAGAAAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:6920389 original size:39 final size:39
Alignment explanation
Indices: 6920335--6920412 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
6920325 CTGATTCTCT
* *
6920335 CTGCAGCGAGAAACTTTCTGTTTTGCCACTTGAATTTTG
1 CTGCAGCGAGAAACTTTCTATTTTACCACTTGAATTTTG
* *
6920374 CTGCAGCGAGAAACTTTCTATTTTATCGCTTGAATTTTG
1 CTGCAGCGAGAAACTTTCTATTTTACCACTTGAATTTTG
6920413 TTACAACAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (39 bp):
CTGCAGCGAGAAACTTTCTATTTTACCACTTGAATTTTG
Found at i:6923243 original size:11 final size:11
Alignment explanation
Indices: 6923225--6923306 Score: 68
Period size: 11 Copynumber: 7.7 Consensus size: 11
6923215 ATTTTTAGTA
6923225 TTATTATTATT
1 TTATTATTATT
*
6923236 TAATTATTATT
1 TTATTATTATT
6923247 TTATATATT-TT
1 TTAT-TATTATT
6923258 TTATTATTATAT
1 TTATTATTAT-T
6923270 TT-TCTATT-TT
1 TTAT-TATTATT
*
6923280 TTATTCTT-TT
1 TTATTATTATT
*
6923290 ATATT-TTATT
1 TTATTATTATT
6923300 TT-TTATT
1 TTATTATT
6923307 CTAAGTTTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
9 4 0.07
10 21 0.36
11 23 0.39
12 11 0.19
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTATTATT
Found at i:6923277 original size:7 final size:7
Alignment explanation
Indices: 6923228--6923306 Score: 68
Period size: 7 Copynumber: 10.7 Consensus size: 7
6923218 TTTAGTATTA
*
6923228 TTATTAT
1 TTATTTT
* *
6923235 TTAATTA
1 TTATTTT
6923242 TTATTTT
1 TTATTTT
6923249 ATATATTTT
1 -T-TATTTT
6923258 TTATTATT
1 TTATT-TT
*
6923266 ATATTTT
1 TTATTTT
*
6923273 CTATTTT
1 TTATTTT
6923280 TTATTCTT
1 TTATT-TT
*
6923288 TTATATT
1 TTATTTT
6923295 TTATTTT
1 TTATTTT
6923302 TTATT
1 TTATT
6923307 CTAAGTTTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 38 0.66
8 14 0.24
9 6 0.10
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTT
Found at i:6923281 original size:22 final size:21
Alignment explanation
Indices: 6923214--6923306 Score: 80
Period size: 22 Copynumber: 4.2 Consensus size: 21
6923204 TGCAATTAAC
* *
6923214 TATTTTTAGTATTATTATTATTT
1 TATTATTA-TATTTTTATT-TTT
*
6923237 AATTATTAT-TTTATATATTTTT
1 TATTATTATATTT-T-TATTTTT
6923259 TATTATTATATTTTCTATTTTT
1 TATTATTATATTTT-TATTTTT
* *
6923281 TATTCTTTTATATTTTATTTTT
1 TATTATTATAT-TTTTATTTTT
6923303 TATT
1 TATT
6923307 CTAAGTTTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.03
22 41 0.69
23 16 0.27
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (21 bp):
TATTATTATATTTTTATTTTT
Found at i:6925344 original size:21 final size:21
Alignment explanation
Indices: 6925320--6925360 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6925310 ACCAAAGCTT
6925320 TTTTTTCTTTTGCT-TTTGTTG
1 TTTTTT-TTTTGCTCTTTGTTG
*
6925341 TTTTTTTTTTTCTCTTTGTT
1 TTTTTTTTTTGCTCTTTGTT
6925361 CTTTCTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (21 bp):
TTTTTTTTTTGCTCTTTGTTG
Found at i:6925359 original size:18 final size:18
Alignment explanation
Indices: 6925338--6925425 Score: 62
Period size: 16 Copynumber: 5.0 Consensus size: 18
6925328 TTTGCTTTTG
6925338 TTGTTTTTTTTTTTCTCT
1 TTGTTTTTTTTTTTCTCT
*
6925356 TTGTTCTTTCTTTGTT-TC-
1 TTGTT-TTT-TTTTTTCTCT
*
6925374 TT-TTTTTTTGTTT-T-T
1 TTGTTTTTTTTTTTCTCT
*
6925389 TTGTTTTTTTTTTAC-CT
1 TTGTTTTTTTTTTTCTCT
*
6925406 TTATTTTTCTTTTTTTCTCT
1 TT-GTTTT-TTTTTTTCTCT
6925426 CCCTTTTTGT
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
15 7 0.13
16 12 0.22
17 5 0.09
18 11 0.20
19 12 0.22
20 7 0.13
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (18 bp):
TTGTTTTTTTTTTTCTCT
Found at i:6925364 original size:29 final size:27
Alignment explanation
Indices: 6925323--6925381 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
6925313 AAAGCTTTTT
6925323 TTTCTTTTGCTTT-TGTTGTTT-TTTTT
1 TTTCTTTTGCTTTCT-TTGTTTCTTTTT
6925349 TTTCTCTTTGTTCTTTCTTTGTTTCTTTTT
1 TTTCT-TTTG--CTTTCTTTGTTTCTTTTT
6925379 TTT
1 TTT
6925382 TGTTTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
26 5 0.18
27 4 0.14
29 10 0.36
30 9 0.32
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (27 bp):
TTTCTTTTGCTTTCTTTGTTTCTTTTT
Found at i:6925373 original size:21 final size:21
Alignment explanation
Indices: 6925334--6925374 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6925324 TTCTTTTGCT
* * *
6925334 TTTGTTGTTTTTTTTTTTCTC
1 TTTGTTCTTTCTTTGTTTCTC
6925355 TTTGTTCTTTCTTTGTTTCT
1 TTTGTTCTTTCTTTGTTTCT
6925375 TTTTTTTTGT
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:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (21 bp):
TTTGTTCTTTCTTTGTTTCTC
Found at i:6925395 original size:8 final size:8
Alignment explanation
Indices: 6925318--6925398 Score: 51
Period size: 8 Copynumber: 9.8 Consensus size: 8
6925308 TTACCAAAGC
6925318 TTTTTT-T
1 TTTTTTGT
*
6925325 TCTTTTGCT
1 TTTTTTG-T
*
6925334 TTTGTTGT
1 TTTTTTGT
*
6925342 TTTTTTTT
1 TTTTTTGT
6925350 TTCTCTTTGT
1 TT-T-TTTGT
6925360 TCTTTCTT-T
1 T-TTT-TTGT
*
6925369 GTTTCTT-T
1 -TTTTTTGT
6925377 TTTTTTGT
1 TTTTTTGT
6925385 TTTTTTGT
1 TTTTTTGT
6925393 TTTTTT
1 TTTTTT
6925399 TTTACCTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
7 10 0.17
8 27 0.47
9 11 0.19
10 9 0.16
11 1 0.02
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.83
Consensus pattern (8 bp):
TTTTTTGT
Found at i:6925400 original size:21 final size:22
Alignment explanation
Indices: 6925319--6925401 Score: 73
Period size: 22 Copynumber: 3.8 Consensus size: 22
6925309 TACCAAAGCT
*
6925319 TTTTTTTCTTTTGC-TTTTGTTG
1 TTTTTTTGTTTT-CTTTTTGTTG
* *
6925341 TTTTTTT-TTTTCTCTTTGTTC
1 TTTTTTTGTTTTCTTTTTGTTG
* *
6925362 TTTCTTTG-TTTCTTTTTTTTTG
1 TTTTTTTGTTTTC-TTTTTGTTG
*
6925384 TTTTTTTGTTTTTTTTTT
1 TTTTTTTGTTTTCTTTTT
6925402 ACCTTTATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
20 1 0.02
21 20 0.41
22 25 0.51
23 3 0.06
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.83
Consensus pattern (22 bp):
TTTTTTTGTTTTCTTTTTGTTG
Found at i:6925417 original size:10 final size:9
Alignment explanation
Indices: 6925317--6925421 Score: 61
Period size: 9 Copynumber: 10.9 Consensus size: 9
6925307 CTTACCAAAG
6925317 CTTTTTTTT
1 CTTTTTTTT
6925326 CTTTTGCTTTT
1 CTTTT--TTTT
* *
6925337 GTTGTTTTT
1 CTTTTTTTT
*
6925346 -TTTTTTCT
1 CTTTTTTTT
6925354 CTTTGTTCTTT
1 CTTT-TT-TTT
*
6925365 C-TTTGTTT
1 CTTTTTTTT
6925373 CTTTTTTTTT
1 C-TTTTTTTT
*
6925383 GTTTTTTTGT
1 CTTTTTTT-T
*
6925393 TTTTTTTTT
1 CTTTTTTTT
6925402 ACCTTTATTTTT
1 --CTTT-TTTTT
6925414 CTTTTTTT
1 CTTTTTTT
6925422 CTCTCCCTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
8 10 0.13
9 25 0.33
10 22 0.29
11 13 0.17
12 5 0.07
ACGTcount: A:0.02, C:0.10, G:0.07, T:0.81
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:6925430 original size:24 final size:23
Alignment explanation
Indices: 6925386--6925431 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6925376 TTTTTTTGTT
* *
6925386 TTTTTGTTTTTTTTTTACCTTTA
1 TTTTTCTTTTTTTTCTACCTTTA
*
6925409 TTTTTCTTTTTTTCTCTCCCTTT
1 TTTTTCTTTTTTT-TCTACCTTT
6925432 TTGTTTGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTTCTTTTTTTTCTACCTTTA
Found at i:6925433 original size:51 final size:51
Alignment explanation
Indices: 6925327--6925437 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
6925317 CTTTTTTTTC
* * **
6925327 TTTTGCTTTTGTTGTTTTTTTTTTTCTCTTTGTTCTTTCTTTGTTTCTTTTT
1 TTTTG-TTTTGTTGTTTTTTTTTTACTCTTTATTCTTTCTTTGTTTCTTCCT
* *
6925379 TTTTGTTTTTTTGTTTTTTTTTTAC-CTTTATT-TTTCTTTTTTTCTCTCCCT
1 TTTTGTTTTGTTGTTTTTTTTTTACTCTTTATTCTTTCTTTGTTTCT-T-CCT
6925430 TTTTGTTT
1 TTTTGTTT
6925438 GAGAGAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
49 12 0.24
50 7 0.14
51 27 0.53
52 5 0.10
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (51 bp):
TTTTGTTTTGTTGTTTTTTTTTTACTCTTTATTCTTTCTTTGTTTCTTCCT
Found at i:6926060 original size:141 final size:140
Alignment explanation
Indices: 6925620--6926088 Score: 672
Period size: 141 Copynumber: 3.4 Consensus size: 140
6925610 TTTTTTTTTG
* ** * * * *
6925620 AATGAGGCTCCTC-AAAGTTGAGGCAACGTAACTTTAAAAACCTTGAAACTAATTACCTGGAGGT
1 AATGTGGCTCCTCGAAAACTGAGGCAACGTAACTTAAAAAATCTTGACACTAATTACCCGGAGGT
* * *
6925684 TTTAGAAGATGCACCCGAAAGATTTAAGAGAATAATGTGCCTGGAGGTCTTCAGAATGTACCCGG
66 TTTAGAAGATGCACCCG-GAGGTTTAAGAGAATAATGTGCCCGGAGGTCTTCAGAATGTACCCGG
*
6925749 AGAATTTAGGA
130 AGGATTTAGGA
*
6925760 AATGTGGCTCCTCGAAAACTGAGGCAACGTAAC-TCAAAAATCTTGACACTAATTACCCGGAGGT
1 AATGTGGCTCCTCGAAAACTGAGGCAACGTAACTTAAAAAATCTTGACACTAATTACCCGGAGGT
* * * **
6925824 TTTAGAAGATGCACCTGGAGGGTTAAAAGAATAATGTGCCCGGAGGTCTTCAGAATGTACCTAGA
66 TTTAGAAGATGCACCCGGAGGTTTAAGAGAATAATGTGCCCGGAGGTCTTCAGAATGTACCCGGA
* *
6925889 GGGTTTTGGA
131 GGATTTAGGA
* *
6925899 AATATGGCTCCTCGAAAACTGAGGCAACGTAACTTAAAAAATTTTGACACTAATTACCCGGAGGT
1 AATGTGGCTCCTCGAAAACTGAGGCAACGTAACTTAAAAAATCTTGACACTAATTACCCGGAGGT
** *
6925964 TTTAGAAGATGCACCCGGAGGCTTTAAGAGAATAATGTGCCCAAAGGTCTTCAAAATGTACCCGG
66 TTTAGAAGATGCACCCGGAGG-TTTAAGAGAATAATGTGCCCGGAGGTCTTCAGAATGTACCCGG
*
6926029 AGGATTTAGAA
130 AGGATTTAGGA
*
6926040 AATGTGGCTCCTCGAAAACTGAGACAACGTAACTTAAAAAATCTTGACA
1 AATGTGGCTCCTCGAAAACTGAGGCAACGTAACTTAAAAAATCTTGACA
6926089 TTCATTATCT
Statistics
Matches: 291, Mismatches: 35, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
139 80 0.27
140 104 0.36
141 107 0.37
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (140 bp):
AATGTGGCTCCTCGAAAACTGAGGCAACGTAACTTAAAAAATCTTGACACTAATTACCCGGAGGT
TTTAGAAGATGCACCCGGAGGTTTAAGAGAATAATGTGCCCGGAGGTCTTCAGAATGTACCCGGA
GGATTTAGGA
Found at i:6927405 original size:80 final size:80
Alignment explanation
Indices: 6927261--6927412 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
6927251 ATGAATTTCC
* *
6927261 ATCTTCGCTCTAGACTGCCCTTTTGGGTTGTCACCCTAGAGCTTCATCTTTTTCACACATTTTTT
1 ATCTTCGCTCTAGACTACCCTTTTGGGTTGTCACCCTAGAGCTTCATCTTTTTCACACACTTTTT
*
6927326 TCTTTTTTCGTCTTT
66 CCTTTTTTCGTCTTT
* * ***
6927341 ATCTTCGCTCTAGACTACCCTTTTGGGTTTTCACCCTAGAGCTTTATCTTTTTCACTTGCTTTTT
1 ATCTTCGCTCTAGACTACCCTTTTGGGTTGTCACCCTAGAGCTTCATCTTTTTCACACACTTTTT
6927406 CCTTTTT
66 CCTTTTT
6927413 CTTTTTTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.12, C:0.26, G:0.12, T:0.49
Consensus pattern (80 bp):
ATCTTCGCTCTAGACTACCCTTTTGGGTTGTCACCCTAGAGCTTCATCTTTTTCACACACTTTTT
CCTTTTTTCGTCTTT
Found at i:6934122 original size:23 final size:24
Alignment explanation
Indices: 6934090--6934139 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
6934080 CATAAACAAA
*
6934090 AATATTTATATGCAATGAT-ATGC
1 AATATATATATGCAATGATAATGC
* *
6934113 AATATATATATGCTATGCTAATGC
1 AATATATATATGCAATGATAATGC
6934137 AAT
1 AAT
6934140 TAACTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (24 bp):
AATATATATATGCAATGATAATGC
Found at i:6934173 original size:11 final size:10
Alignment explanation
Indices: 6934155--6934196 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
6934145 ATTTTTAGTA
6934155 TTATTATTAT
1 TTATTATTAT
6934165 TTAATTATTATT
1 TT-ATTATTA-T
6934177 TTATATATT-T
1 TTAT-TATTAT
6934187 TTATTATTAT
1 TTATTATTAT
6934197 ATTTTCTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 4 0.14
10 8 0.29
11 9 0.32
12 7 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTATTAT
Found at i:6934190 original size:10 final size:9
Alignment explanation
Indices: 6934144--6934194 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
6934134 TGCAATTAAC
*
6934144 TATTTTTAG
1 TATTTTTAT
*
6934153 TATTATTAT
1 TATTTTTAT
6934162 TATTTAATTAT
1 TATTT--TTAT
6934173 TA-TTTTAT
1 TATTTTTAT
6934181 ATATTTTTAT
1 -TATTTTTAT
6934191 TATT
1 TATT
6934195 ATATTTTCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
8 4 0.11
9 17 0.49
10 8 0.23
11 6 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
TATTTTTAT
Found at i:6934194 original size:21 final size:20
Alignment explanation
Indices: 6934144--6934209 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
6934134 TGCAATTAAC
*
6934144 TATTTTTAGTATTA--TTAT
1 TATTTTTATTATTATTTTAT
*
6934162 TA-TTTAATTATTATTTTAT
1 TATTTTTATTATTATTTTAT
6934181 ATATTTTTATTATTATATTT-T
1 -TATTTTTATTATTAT-TTTAT
6934202 CTATTTTT
1 -TATTTTT
6934210 TATTCTTCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 9 0.23
18 2 0.05
19 4 0.10
20 2 0.05
21 19 0.49
22 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (20 bp):
TATTTTTATTATTATTTTAT
Found at i:6934201 original size:14 final size:14
Alignment explanation
Indices: 6934153--6934199 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
6934143 CTATTTTTAG
6934153 TATTATTATTATT-
1 TATTATTATTATTA
*
6934166 TAATTATTATTTTATA
1 T-ATTATTATTAT-TA
*
6934182 TATTTTTATTATTA
1 TATTATTATTATTA
6934196 TATT
1 TATT
6934200 TTCTATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 1 0.04
14 16 0.57
15 10 0.36
16 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:6935535 original size:34 final size:35
Alignment explanation
Indices: 6935492--6935562 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 35
6935482 GATCGGGCTT
*
6935492 CCTTTTG-CTTCCTCTCCACTTTCCAACCGTCGAC
1 CCTTTTGTCTTCCTCTCCACTTTCCAACCGCCGAC
*
6935526 CCTTTTGCTTCTTCCTCTCCACTTTCCAGCCGCCGAC
1 CCTTTTG--TCTTCCTCTCCACTTTCCAACCGCCGAC
6935563 GGTGCAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 7 0.22
37 25 0.78
ACGTcount: A:0.10, C:0.45, G:0.10, T:0.35
Consensus pattern (35 bp):
CCTTTTGTCTTCCTCTCCACTTTCCAACCGCCGAC
Found at i:6935845 original size:14 final size:13
Alignment explanation
Indices: 6935821--6935863 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
6935811 ATTGTGAATT
6935821 TTTTTATTTTTTTA
1 TTTTT-TTTTTTTA
*
6935835 TTTTTTCTTTTTGA
1 TTTTTT-TTTTTTA
6935849 TTTTTTTTTTATTA
1 TTTTTTTTTT-TTA
6935863 T
1 T
6935864 GGATTGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTTTA
Found at i:6937084 original size:34 final size:33
Alignment explanation
Indices: 6937041--6937145 Score: 83
Period size: 34 Copynumber: 3.2 Consensus size: 33
6937031 AGCTTTCACC
*
6937041 AAACTTTTACAATGGCTTTTCACAGGCTCAACCA
1 AAACCTTTACAATGG-TTTTCACAGGCTCAACCA
* * * * *
6937075 AAACCTTTACACTAGTTTTTCACGGGCTTAACTA
1 AAACCTTTACAAT-GGTTTTCACAGGCTCAACCA
*
6937109 AAACC--CA-AAGTGGTTTTC-CGAGGCTCAACCA
1 AAACCTTTACAA-TGGTTTTCAC-AGGCTCAACCA
6937140 AAACCT
1 AAACCT
6937146 ATAACATTCA
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
30 1 0.02
31 20 0.36
32 2 0.04
34 31 0.56
35 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (33 bp):
AAACCTTTACAATGGTTTTCACAGGCTCAACCA
Found at i:6956547 original size:20 final size:20
Alignment explanation
Indices: 6956490--6956552 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
6956480 TATATACCCA
*
6956490 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
6956509 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
6956529 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
6956549 TCAT
1 TCAT
6956553 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:6960908 original size:14 final size:15
Alignment explanation
Indices: 6960883--6960911 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6960873 AAAATATTTT
6960883 AATTTTTCATAAAAC
1 AATTTTTCATAAAAC
6960898 AATTTTT-ATAAAAC
1 AATTTTTCATAAAAC
6960912 GCTACGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTTTCATAAAAC
Found at i:6974240 original size:12 final size:12
Alignment explanation
Indices: 6974223--6974247 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6974213 AAGAAAATGA
6974223 AATATTTTATTT
1 AATATTTTATTT
6974235 AATATTTTATTT
1 AATATTTTATTT
6974247 A
1 A
6974248 GTTTGATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATATTTTATTT
Found at i:6975634 original size:52 final size:51
Alignment explanation
Indices: 6975573--6975705 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 51
6975563 TTTGCCTTTG
* * *
6975573 GAAATTATTTTACCTTGATTTGTTGCTTATGCTTTACTTGCATTTAGCTAAC
1 GAAAATATTTTA-CTTGATTTGTTACTTATGCTTTACTTGCATTTAACTAAC
* ** * * * *
6975625 GAAAATATTTTGACTTAATTCATTATTTATGCTTTGCTTGCATTTAACTTAG
1 GAAAATATTTT-ACTTGATTTGTTACTTATGCTTTACTTGCATTTAACTAAC
*
6975677 GAAAGATATTTTATGTTGATTTGTTACTT
1 GAAA-ATATTTTA-CTTGATTTGTTACTT
6975706 GTTCTATTCA
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
52 45 0.71
53 18 0.29
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (51 bp):
GAAAATATTTTACTTGATTTGTTACTTATGCTTTACTTGCATTTAACTAAC
Found at i:6984233 original size:58 final size:57
Alignment explanation
Indices: 6984143--6984259 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 57
6984133 CATAATCATC
*
6984143 CAAAGTAGGTTGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCAATG
1 CAAAGTAGGTTGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCCATGC-ATG
*
6984201 CAAAGTA-GTATGCATGTGATAGATTTATTTTATGCGATTTAATAAATGCCATGCATG
1 CAAAGTAGGT-TGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCCATGCATG
6984258 CA
1 CA
6984260 CAGATGAGAC
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
57 7 0.12
58 49 0.88
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (57 bp):
CAAAGTAGGTTGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCCATGCATG
Found at i:6988496 original size:13 final size:14
Alignment explanation
Indices: 6988459--6988500 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
6988449 ATATAAATAC
6988459 TTCTTTTTCTTCTCA
1 TTCTTTTTCTTCT-A
*
6988474 TTTTTCTTTCTTCT-
1 TTCTT-TTTCTTCTA
6988488 TTCTTTTTCTTCT
1 TTCTTTTTCTTCT
6988501 CACATTCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 8 0.33
14 4 0.17
15 4 0.17
16 8 0.33
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (14 bp):
TTCTTTTTCTTCTA
Found at i:6988500 original size:16 final size:18
Alignment explanation
Indices: 6988459--6988500 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
6988449 ATATAAATAC
*
6988459 TTCTTTTTCTTCTCATTT
1 TTCTTCTTCTTCTCATTT
6988477 TTCTTTCTTCTT-TC-TTT
1 TTC-TTCTTCTTCTCATTT
6988494 TTCTTCT
1 TTCTTCT
6988501 CACATTCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
17 6 0.27
18 5 0.23
19 7 0.32
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTCTTCTTCTCATTT
Found at i:6990341 original size:15 final size:15
Alignment explanation
Indices: 6990321--6990354 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6990311 CAGACCATGG
* *
6990321 AAAAGAAGAAAGGAA
1 AAAAGAAAAAAAGAA
6990336 AAAAGAAAAAAAGAA
1 AAAAGAAAAAAAGAA
6990351 AAAA
1 AAAA
6990355 TTTAAATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAGAA
Found at i:6990474 original size:16 final size:16
Alignment explanation
Indices: 6990453--6990483 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6990443 ATGTTTACCT
6990453 TATTAAATTATTAATA
1 TATTAAATTATTAATA
*
6990469 TATTAAATTTTTAAT
1 TATTAAATTATTAAT
6990484 GAAAGTATAA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTAAATTATTAATA
Found at i:6990885 original size:41 final size:39
Alignment explanation
Indices: 6990793--6990889 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 39
6990783 TAATCATAAT
* * * * *
6990793 AATATTAAATTACAAATAAAATATTAGTATTTAAATTATT
1 AATATTAAATTA-TAATAAAATAGTAATATTTAAAATATC
*
6990833 AATGATCAAATTATAATAAAATAGTAATATTTAAAAATATC
1 AAT-ATTAAATTATAATAAAATAGTAATATTT-AAAATATC
6990874 AATATTTAAATTATAA
1 AATA-TTAAATTATAA
6990890 ATTAGTAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 20 0.43
41 27 0.57
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (39 bp):
AATATTAAATTATAATAAAATAGTAATATTTAAAATATC
Found at i:6990909 original size:27 final size:26
Alignment explanation
Indices: 6990879--6990936 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
6990869 ATATCAATAT
6990879 TTAAATTATAAATTAGTAATAGTTTAA
1 TTAAATTATAAATTAGTAATA-TTTAA
*
6990906 TTAAATTATAAATTATTAATATTTAA
1 TTAAATTATAAATTAGTAATATTTAA
6990932 -TAAAT
1 TTAAAT
6990937 AGAATAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 5 0.17
26 5 0.17
27 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (26 bp):
TTAAATTATAAATTAGTAATATTTAA
Found at i:6991896 original size:73 final size:74
Alignment explanation
Indices: 6991790--6991982 Score: 207
Period size: 73 Copynumber: 2.6 Consensus size: 74
6991780 CAGAATGATA
* * *
6991790 TTAGTTGACTAAC-TGCGCTCTTAGTCGACTAAGTCGTCTCGGTCTCCTG-A-TCCCAG-TTTCT
1 TTAGTTGACTAACTTAC-CTCTTAGTCAACTAAGTCGTCTCTGTCT-CTGAAGT-CCAGATTTCT
*
6991851 AGCAGTAAGCTT
63 AGCAGTAAGCTC
* * * *
6991863 TTAGTCGACTAACTTACCTCTTAGTCAATTAAGTTGTTTCTGTCT-TGAAGTCCAGATTTCTAGC
1 TTAGTTGACTAACTTACCTCTTAGTCAACTAAGTCGTCTCTGTCTCTGAAGTCCAGATTTCTAGC
6991927 AGTAAGCTC
66 AGTAAGCTC
* ** * *
6991936 TTAGTTAACTAACTTAATTCTTGGTCAACTAAGTCTTCTCTGTCTCT
1 TTAGTTGACTAACTTACCTCTTAGTCAACTAAGTCGTCTCTGTCTCT
6991983 TAATCCTCTT
Statistics
Matches: 98, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
71 2 0.02
72 5 0.05
73 88 0.90
74 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (74 bp):
TTAGTTGACTAACTTACCTCTTAGTCAACTAAGTCGTCTCTGTCTCTGAAGTCCAGATTTCTAGC
AGTAAGCTC
Found at i:6993206 original size:75 final size:75
Alignment explanation
Indices: 6993083--6993233 Score: 232
Period size: 75 Copynumber: 2.0 Consensus size: 75
6993073 CATTTGGTAA
* * *
6993083 TACACTCCAGTGTCTATGCAACATTTTTCATGTGTTAGTTGTGAAAATACTCAC-TAGACTTGAG
1 TACACTCCAGTGTCTATGCAACACTTCTCATGTGTCAGTTGTGAAAATACTC-CTTAGACTTGAG
*
6993147 ACACTAGGTTG
65 ACACCAGGTTG
* *
6993158 TACACTCCAGTGTCTGTGCAACACTTCTCATGTGTCAGTTGTGTAAATACTCCTTAGACTTGAGA
1 TACACTCCAGTGTCTATGCAACACTTCTCATGTGTCAGTTGTGAAAATACTCCTTAGACTTGAGA
6993223 CACCAGGTTG
66 CACCAGGTTG
6993233 T
1 T
6993234 CTTATATGTG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
74 1 0.01
75 68 0.99
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (75 bp):
TACACTCCAGTGTCTATGCAACACTTCTCATGTGTCAGTTGTGAAAATACTCCTTAGACTTGAGA
CACCAGGTTG
Found at i:6994260 original size:16 final size:15
Alignment explanation
Indices: 6994239--6994272 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
6994229 TTTGAGGAAG
*
6994239 TAAAATAAATAATTAA
1 TAAAATAAA-AAATAA
6994255 TAAAATAAAAAATAA
1 TAAAATAAAAAATAA
6994270 TAA
1 TAA
6994273 TAGTAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAATAAAAAATAA
Found at i:6994460 original size:3 final size:3
Alignment explanation
Indices: 6994452--6994521 Score: 56
Period size: 3 Copynumber: 22.7 Consensus size: 3
6994442 TGGCCAAAGA
*
6994452 AAG AAG AAG AA- AAG AAAG AAA AAG AAG AGAG AAG AA- AA- AAG AAG
1 AAG AAG AAG AAG AAG -AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG
*
6994496 AAG AAAG AAAG AAAG AAG AAA AAG AA
1 AAG -AAG -AAG -AAG AAG AAG AAG AA
6994522 TAAAAAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
2 6 0.10
3 35 0.60
4 17 0.29
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6994467 original size:15 final size:14
Alignment explanation
Indices: 6994447--6994536 Score: 98
Period size: 13 Copynumber: 6.5 Consensus size: 14
6994437 AGTGTTGGCC
6994447 AAAGAAAGAAGAAGA
1 AAAGAAAGAAGAA-A
6994462 AAAGAAAGAA-AAA
1 AAAGAAAGAAGAAA
* *
6994475 GAAGAGAGAAGAAA
1 AAAGAAAGAAGAAA
6994489 AAAG-AAGAAGAAA
1 AAAGAAAGAAGAAA
6994502 GAAAGAAAGAAG-AA
1 -AAAGAAAGAAGAAA
*
6994516 AAAGAATA-AAAAAA
1 AAAGAA-AGAAGAAA
6994530 AAAGAAA
1 AAAGAAA
6994537 AGAAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
13 26 0.40
14 23 0.35
15 16 0.25
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (14 bp):
AAAGAAAGAAGAAA
Found at i:6994486 original size:7 final size:7
Alignment explanation
Indices: 6994448--6994521 Score: 82
Period size: 7 Copynumber: 10.7 Consensus size: 7
6994438 GTGTTGGCCA
6994448 AAGAAAG
1 AAGAAAG
*
6994455 AAGAAGAA
1 AAGAA-AG
6994463 AAGAAAG
1 AAGAAAG
6994470 AA-AAAG
1 AAGAAAG
*
6994476 AAGAGAG
1 AAGAAAG
*
6994483 AAGAAAA
1 AAGAAAG
6994490 AAG-AAG
1 AAGAAAG
6994496 AAGAAAG
1 AAGAAAG
6994503 AAAGAAAG
1 -AAGAAAG
6994511 AAGAAA-
1 AAGAAAG
6994517 AAGAA
1 AAGAA
6994522 TAAAAAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
6 16 0.28
7 28 0.49
8 13 0.23
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:6994509 original size:41 final size:42
Alignment explanation
Indices: 6994448--6994541 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 42
6994438 GTGTTGGCCA
*
6994448 AAGAAAGAAGAAGAAAAGAAAGAAAAAGAAGAGAGAAGAAAAAAGAAG
1 AAGAAAGAA-AAG-AAAG-AAGAAAAAGAATA-A-AA-AAAAAAGAAG
6994496 AAGAAAG-AAAGAAAGAAGAAAAAGAATAAAAAAAAAAGAA-
1 AAGAAAGAAAAGAAAGAAGAAAAAGAATAAAAAAAAAAGAAG
6994536 AAGAAA
1 AAGAAA
6994542 AAGAGGGTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
40 6 0.13
41 9 0.20
42 2 0.04
43 1 0.02
44 12 0.27
45 4 0.09
46 3 0.07
47 1 0.02
48 7 0.16
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (42 bp):
AAGAAAGAAAAGAAAGAAGAAAAAGAATAAAAAAAAAAGAAG
Found at i:6994542 original size:15 final size:15
Alignment explanation
Indices: 6994447--6994543 Score: 69
Period size: 15 Copynumber: 6.6 Consensus size: 15
6994437 AGTGTTGGCC
* *
6994447 AAAGAAAGAAGAAGA
1 AAAGAAAAAAAAAGA
*
6994462 AAAGAAAGAAAAAGA
1 AAAGAAAAAAAAAGA
*
6994477 AGAGAGAAGAAAAAAG-
1 A-A-AGAAAAAAAAAGA
*
6994493 -AAGAAGAAAGAAAG-
1 AAAGAA-AAAAAAAGA
*
6994507 AAAG-AAGAAAAAGA
1 AAAGAAAAAAAAAGA
*
6994521 ATA-AAAAAAAAAGA
1 AAAGAAAAAAAAAGA
6994535 AAAGAAAAA
1 AAAGAAAAA
6994544 GAGGGTGACG
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
13 10 0.15
14 21 0.32
15 23 0.35
16 1 0.02
17 10 0.15
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (15 bp):
AAAGAAAAAAAAAGA
Found at i:6994721 original size:59 final size:57
Alignment explanation
Indices: 6994647--6994830 Score: 206
Period size: 59 Copynumber: 3.3 Consensus size: 57
6994637 AGAGAAAGAA
*
6994647 GAAAGGAAAGGAAAAGAGAGAGACGGAAGGCCGACGGGAGGAGAAGGGAAATAAGAAAG
1 GAAAGGAAAGGAAAAGAGAGAGA--GAAGGCCGACGGGAGGAGAAGGGAAAGAAGAAAG
*
6994706 GAAAGGAAAGGAAAAGAGAGAGAAAGAAGGCCGGCGGGAGGAG-A--GAAAGAAGAAAG
1 GAAAGGAAAGGAAAAGAGAGAG--AGAAGGCCGACGGGAGGAGAAGGGAAAGAAGAAAG
*
6994762 GAAAGGAAAGG--AA-AGA-A-AGAAGGCCGACGGAAGGAGAAGAGG-AAGAAGAAAG
1 GAAAGGAAAGGAAAAGAGAGAGAGAAGGCCGACGGGAGGAGAAG-GGAAAGAAGAAAG
* * *
6994814 AAAAGAAAAGAAAAAGA
1 GAAAGGAAAGGAAAAGA
6994831 AAAAGAAAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
49 17 0.16
50 1 0.01
52 19 0.17
53 4 0.04
54 4 0.04
55 1 0.01
56 22 0.20
58 1 0.01
59 39 0.36
61 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.40, T:0.01
Consensus pattern (57 bp):
GAAAGGAAAGGAAAAGAGAGAGAGAAGGCCGACGGGAGGAGAAGGGAAAGAAGAAAG
Found at i:6994753 original size:49 final size:49
Alignment explanation
Indices: 6994700--6994826 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 49
6994690 AAGGGAAATA
* * *
6994700 AGAAAGGAAAGGAAAGGAAAAGAGAGAGAAAGAAGGCCGGCGGGAGGAG
1 AGAAAGGAAAGGAAAGGAAAAGAGAAAGAAAGAAGGCCGACGGAAGGAG
6994749 AGAAAGAAGAAAGGAAAGG-AAAG-GAAAGAAAGAAGGCCGACGGAAGGAG
1 AGAAAG--GAAAGGAAAGGAAAAGAGAAAGAAAGAAGGCCGACGGAAGGAG
* *
6994798 A-AGAGGAAGAAGAAA-GAAAAGA-AAAGAAA
1 AGAAAGGAA-AGGAAAGGAAAAGAGAAAGAAA
6994827 AAGAAAAAGA
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
46 4 0.06
47 16 0.24
48 3 0.04
49 30 0.44
50 4 0.06
51 11 0.16
ACGTcount: A:0.57, C:0.05, G:0.39, T:0.00
Consensus pattern (49 bp):
AGAAAGGAAAGGAAAGGAAAAGAGAAAGAAAGAAGGCCGACGGAAGGAG
Found at i:6994812 original size:108 final size:110
Alignment explanation
Indices: 6994630--6994830 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
6994620 CAAAGGTCGA
* ** *
6994630 CGGGAGGAGAGAAAGAAGAAAGGAAAGGAAAAGAGAGAGACGGAAGGCCGACGGGAGGAGAAGGG
1 CGGGAGGAGAGAAAGAAGAAAGGAAAGGAAAAGAGAAAGAAAGAAGGCCGACGGAAGGAGAAGGG
* * * *
6994695 AAATAAGAAAGGAAAGGAAAGGAAAAGAGAGAGAAAGAAGGCCGG
66 AAAGAAGAAAGAAAAGAAAAGAAAAAGAGAGAGAAAGAAGGCCGG
6994740 CGGGAGGAGAGAAAGAAGAAAGGAAAGG-AAAG-GAAAGAAAGAAGGCCGACGGAAGGAGAAGAG
1 CGGGAGGAGAGAAAGAAGAAAGGAAAGGAAAAGAGAAAGAAAGAAGGCCGACGGAAGGAGAAG-G
6994803 G-AAGAAGAAAGAAAAGAAAAGAAAAAGA
65 GAAAGAAGAAAGAAAAGAAAAGAAAAAGA
6994831 AAAAGAAAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
108 48 0.59
109 6 0.07
110 28 0.34
ACGTcount: A:0.54, C:0.05, G:0.40, T:0.00
Consensus pattern (110 bp):
CGGGAGGAGAGAAAGAAGAAAGGAAAGGAAAAGAGAAAGAAAGAAGGCCGACGGAAGGAGAAGGG
AAAGAAGAAAGAAAAGAAAAGAAAAAGAGAGAGAAAGAAGGCCGG
Found at i:6994830 original size:6 final size:6
Alignment explanation
Indices: 6994804--6994847 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
6994794 GGAGAAGAGG
6994804 AAGAAGA AAG-AA AAG-AA AAGAAA AAGAAA AAGAAA AA-AAA AAGA
1 AAGAA-A AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA
6994848 GTGGGCATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 14 0.40
6 18 0.51
7 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:6994834 original size:17 final size:17
Alignment explanation
Indices: 6994804--6994847 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
6994794 GGAGAAGAGG
6994804 AAGAAGAAAG-AAAAGAA
1 AAGAA-AAAGAAAAAGAA
6994821 AAGAAAAAGAAAAAGAA
1 AAGAAAAAGAAAAAGAA
*
6994838 AAAAAAAAGA
1 AAGAAAAAGA
6994848 GTGGGCATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAAAAAGAA
Found at i:6997732 original size:21 final size:20
Alignment explanation
Indices: 6997707--6997750 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
6997697 AATTAAGTAA
6997707 TTTAAATGAA-TCATATTCAAT
1 TTTAAATGAACT-A-ATTCAAT
*
6997728 TTTAAATTAACTAATTCAAT
1 TTTAAATGAACTAATTCAAT
6997748 TTT
1 TTT
6997751 GTAGACCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 10 0.48
22 1 0.05
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTAAATGAACTAATTCAAT
Found at i:7006467 original size:12 final size:12
Alignment explanation
Indices: 7006450--7006475 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7006440 ATTAAAAGAG
7006450 TTTAATTAAGTT
1 TTTAATTAAGTT
7006462 TTTAATTAAGTT
1 TTTAATTAAGTT
7006474 TT
1 TT
7006476 AGGCATAATT
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTTAATTAAGTT
Found at i:7010424 original size:37 final size:37
Alignment explanation
Indices: 7010379--7010487 Score: 130
Period size: 37 Copynumber: 2.9 Consensus size: 37
7010369 TTCATCGTCA
*
7010379 TGTGCACTCCATACTCGCACA-TTCTATCACCATCATG
1 TGTGCACTCCATACTCGCACACTTCGA-CACCATCATG
* *
7010416 TGTGCACTCCCTACTCGCACACTTCGACATCATCATG
1 TGTGCACTCCATACTCGCACACTTCGACACCATCATG
* * * * *
7010453 TGTGAACTCCTTACTCACACACTTCAACATCATCA
1 TGTGCACTCCATACTCGCACACTTCGACACCATCA
7010488 CACAACATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
37 60 0.94
38 4 0.06
ACGTcount: A:0.26, C:0.36, G:0.10, T:0.28
Consensus pattern (37 bp):
TGTGCACTCCATACTCGCACACTTCGACACCATCATG
Found at i:7015722 original size:15 final size:15
Alignment explanation
Indices: 7015702--7015737 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7015692 GTCTTGCTTG
*
7015702 GTCATTGCTGAAATT
1 GTCATTGCTAAAATT
7015717 GTCATTGCTAAAATT
1 GTCATTGCTAAAATT
*
7015732 TTCATT
1 GTCATT
7015738 CTATTCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (15 bp):
GTCATTGCTAAAATT
Found at i:7017658 original size:14 final size:14
Alignment explanation
Indices: 7017639--7017677 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7017629 CATAATAAAA
* *
7017639 TAATAATATTTTAT
1 TAATAAAATATTAT
7017653 TAATAAAATATTAT
1 TAATAAAATATTAT
7017667 TAA-AAAATATT
1 TAATAAAATATT
7017678 TAAATATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAATAAAATATTAT
Found at i:7029745 original size:18 final size:18
Alignment explanation
Indices: 7029724--7029762 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7029714 TATAACACAC
* *
7029724 ATATTTACATATGTGTAT
1 ATATATACATATATGTAT
*
7029742 ATATATATATATATGTAT
1 ATATATACATATATGTAT
7029760 ATA
1 ATA
7029763 CCCATCATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (18 bp):
ATATATACATATATGTAT
Found at i:7029824 original size:20 final size:20
Alignment explanation
Indices: 7029767--7029829 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
7029757 TATATACCCA
*
7029767 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
7029786 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
7029806 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
7029826 TCAT
1 TCAT
7029830 GCGCATTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:7029876 original size:43 final size:43
Alignment explanation
Indices: 7029828--7029937 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
7029818 TCACCAGCTC
* ** **
7029828 ATGCGCATTCCCTACTCGCACATGTCTGGGTCATCATCGAG-TT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCATCG-GCTT
*
7029871 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCATCGGCTT
*
7029914 ATGTGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
7029938 GCCGAGTCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.21, C:0.35, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCATCGGCTT
Found at i:7033095 original size:25 final size:25
Alignment explanation
Indices: 7033067--7033120 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
7033057 AATGCCACTG
* *
7033067 GTTGATATACAGGGCTAGGCTACGA
1 GTTGATAAACAGGGCTAGGCCACGA
*
7033092 GTTGATAAACATGGCTAGGCCACGA
1 GTTGATAAACAGGGCTAGGCCACGA
7033117 GTTG
1 GTTG
7033121 GCATACATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (25 bp):
GTTGATAAACAGGGCTAGGCCACGA
Found at i:7033128 original size:25 final size:25
Alignment explanation
Indices: 7033067--7033130 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
7033057 AATGCCACTG
* * *
7033067 GTTGATATACAGGGCTAGGCTACGA
1 GTTGACATACATGGCTAGGCCACGA
* *
7033092 GTTGATAAACATGGCTAGGCCACGA
1 GTTGACATACATGGCTAGGCCACGA
*
7033117 GTTGGCATACATGG
1 GTTGACATACATGG
7033131 TTGCGACCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.23
Consensus pattern (25 bp):
GTTGACATACATGGCTAGGCCACGA
Found at i:7035060 original size:92 final size:92
Alignment explanation
Indices: 7034919--7035121 Score: 248
Period size: 92 Copynumber: 2.2 Consensus size: 92
7034909 AATTTCTATC
* * * * *
7034919 CCTTTCAACC-TCAAAAATCAGCAGCCTAAGTTACTCATTTGACCCTCAAAACCAGCAACCAAAA
1 CCTTTCAGCCTTCAAAAATCAACAGCCTAAGCTACTCATCTCACCCTCAAAACCAGCAACCAAAA
* *
7034983 CCTCAAAAATCAGCAGCCAAAGCTACT
66 CCTAAAAAATCAGAAGCCAAAGCTACT
* * * *
7035010 CCTTTCAGCCTTCAAAAATCAACAG-CTAAAGCTGCTCATCTCACCCTCAAAACCGGTAGCCAAA
1 CCTTTCAGCCTTCAAAAATCAACAGCCT-AAGCTACTCATCTCACCCTCAAAACCAGCAACCAAA
* * *
7035074 ATCTAAAAAATCATAAGCCAAAGCTGCT
65 ACCTAAAAAATCAGAAGCCAAAGCTACT
*
7035102 CCTTTCAGCCTTCGAAAATC
1 CCTTTCAGCCTTCAAAAATC
7035122 GGCCCTTTTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
91 11 0.12
92 84 0.88
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.21
Consensus pattern (92 bp):
CCTTTCAGCCTTCAAAAATCAACAGCCTAAGCTACTCATCTCACCCTCAAAACCAGCAACCAAAA
CCTAAAAAATCAGAAGCCAAAGCTACT
Found at i:7035344 original size:43 final size:43
Alignment explanation
Indices: 7035296--7035564 Score: 333
Period size: 43 Copynumber: 6.3 Consensus size: 43
7035286 TGTGATAATT
* * *
7035296 ATGACCCAACTATGTGCGGTGTAGGAGTGCACATGAGTTGATG
1 ATGACCCAGCTATGTGCGGTGTAAGAGTGCACATGAGCTGATG
* *
7035339 ATGACCCAACTATGTGTGGTGTAAGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAAGAGTGCACATGAGCTGATG
* * *
7035382 ATGATCTAGCTATATGCGGTGTAAGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAAGAGTGCACATGAGCTGATG
* * * * *
7035425 TTGACCCAGCTATGTGTGGTGT-AGAAGTGTACATAAGTTGATG
1 ATGACCCAGCTATGTGCGGTGTAAG-AGTGCACATGAGCTGATG
* *
7035468 ATGACCTAGCTATGTGCAGTGTAAGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAAGAGTGCACATGAGCTGATG
* * * * *
7035511 ATGACCTAGCCATGTGCAGTGTAGGAGTGCACATTAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAAGAGTGCACATGAGCTGATG
*
7035554 ATGACCTAGCT
1 ATGACCCAGCT
7035565 GAGGGAGAGT
Statistics
Matches: 197, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 2 0.01
43 193 0.98
44 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (43 bp):
ATGACCCAGCTATGTGCGGTGTAAGAGTGCACATGAGCTGATG
Found at i:7035471 original size:129 final size:129
Alignment explanation
Indices: 7035296--7035564 Score: 385
Period size: 129 Copynumber: 2.1 Consensus size: 129
7035286 TGTGATAATT
* * * **
7035296 ATGACCCAACTATGTGCGGTGTAGGAGTGCACATGAGTTGATGATGACCCAACTATGTGTGGTGT
1 ATGACCCAGCTATGTGCGGTGTAGAAGTGCACATAAGTTGATGATGACCCAACTATGTGCAGTGT
* * *
7035361 AAGAGTGCACATGAGCTGATGATGATCTAGCTATATGCGGTGTAAGAGTGCACATGAGCTGATG
66 AAGAGTGCACATGAGCTGATGATGACCTAGCCATATGCAGTGTAAGAGTGCACATGAGCTGATG
* * * * *
7035425 TTGACCCAGCTATGTGTGGTGTAGAAGTGTACATAAGTTGATGATGACCTAGCTATGTGCAGTGT
1 ATGACCCAGCTATGTGCGGTGTAGAAGTGCACATAAGTTGATGATGACCCAACTATGTGCAGTGT
* * *
7035490 AAGAGTGCACATGAGCTGATGATGACCTAGCCATGTGCAGTGTAGGAGTGCACATTAGCTGATG
66 AAGAGTGCACATGAGCTGATGATGACCTAGCCATATGCAGTGTAAGAGTGCACATGAGCTGATG
*
7035554 ATGACCTAGCT
1 ATGACCCAGCT
7035565 GAGGGAGAGT
Statistics
Matches: 122, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
129 122 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (129 bp):
ATGACCCAGCTATGTGCGGTGTAGAAGTGCACATAAGTTGATGATGACCCAACTATGTGCAGTGT
AAGAGTGCACATGAGCTGATGATGACCTAGCCATATGCAGTGTAAGAGTGCACATGAGCTGATG
Found at i:7035611 original size:2 final size:2
Alignment explanation
Indices: 7035604--7035644 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
7035594 TATGTATCTT
7035604 TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7035645 CTTGTATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7040604 original size:91 final size:92
Alignment explanation
Indices: 7040447--7040647 Score: 264
Period size: 91 Copynumber: 2.2 Consensus size: 92
7040437 AATTTCTATC
* * ** * *
7040447 CCTTTCAACC-TAAAAAATCAACAGCCT-AAGTTGCTCATTTCACCTTCAAAATCGACAGCCAAA
1 CCTTTCAGCCTTAAAAAATCAGCAG-CTAAAACTGCTCATCTCACCCTCAAAATCGACAGCCAAA
*
7040510 ACCTCAAAAATCAACAACCAAAGTTGCT
65 ACCTCAAAAATCAACAACCAAAGCTGCT
* **
7040538 CTTTTCAGCCTTAAAAAATCAGCAGCTAAAACTGCTCATCTCACCCTC-AAATCGGTAGCCAAAA
1 CCTTTCAGCCTTAAAAAATCAGCAGCTAAAACTGCTCATCTCACCCTCAAAATCGACAGCCAAAA
*
7040602 CCTCAAAAATCAACAGCCAAAGCTGCT
66 CCTCAAAAATCAACAACCAAAGCTGCT
*
7040629 CCTTTCAGCCTTCAAAAAT
1 CCTTTCAGCCTTAAAAAAT
7040648 TGACCCTTTC
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
91 66 0.69
92 29 0.31
ACGTcount: A:0.38, C:0.30, G:0.09, T:0.22
Consensus pattern (92 bp):
CCTTTCAGCCTTAAAAAATCAGCAGCTAAAACTGCTCATCTCACCCTCAAAATCGACAGCCAAAA
CCTCAAAAATCAACAACCAAAGCTGCT
Found at i:7044269 original size:41 final size:41
Alignment explanation
Indices: 7044179--7044363 Score: 163
Period size: 41 Copynumber: 4.6 Consensus size: 41
7044169 ATATTGCCTA
* * *
7044179 TGTGCACTATGTGGGGGGATGCACACGATG--GA-ATTAGC-
1 TGTGCACGATGTGGGGGGATGCACACAATGATGATA-TCGCT
* *
7044217 TGTGCATGATGTGGGAGGATGCACACAATGATGATATCGCT
1 TGTGCACGATGTGGGGGGATGCACACAATGATGATATCGCT
** * * * *
7044258 TGTGCACGATGTAAGGGGATGCATA-AAGCGATAATATTGCT
1 TGTGCACGATGTGGGGGGATGCACACAA-TGATGATATCGCT
7044299 TGTGCACGATGTGGGGGGATGCACAC---GATGACT-TCGGCT
1 TGTGCACGATGTGGGGGGATGCACACAATGATGA-TATC-GCT
7044338 ATGTGCACGATGTGGGGGGATGCACA
1 -TGTGCACGATGTGGGGGGATGCACA
7044364 TGAGCTGGGT
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
38 31 0.26
39 4 0.03
40 32 0.27
41 53 0.44
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (41 bp):
TGTGCACGATGTGGGGGGATGCACACAATGATGATATCGCT
Found at i:7044597 original size:69 final size:69
Alignment explanation
Indices: 7044502--7044640 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
7044492 GTGCAATGTG
7044502 GCATGAATGGATTTTTTCGGTGGCAGTGAAAGCCCCTTGGGTTTTATTTGGCCAGAATTTCATTG
1 GCATGAATGGATTTTTTCGGTGGCAGTGAAAGCCCCTTGGGTTTTATTTGGCCAGAATTTCATTG
7044567 TAGC
66 TAGC
7044571 GNCATGAATGGA-TTTTTCGGTGGCAGTGAAAGCCCCTTGGGTTTTATTTGGCCAGAATTTCATT
1 G-CATGAATGGATTTTTTCGGTGGCAGTGAAAGCCCCTTGGGTTTTATTTGGCCAGAATTTCATT
7044635 GTAGC
65 GTAGC
7044640 G
1 G
7044641 AGATTGCCTT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
69 59 0.86
70 10 0.14
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.35
Consensus pattern (69 bp):
GCATGAATGGATTTTTTCGGTGGCAGTGAAAGCCCCTTGGGTTTTATTTGGCCAGAATTTCATTG
TAGC
Found at i:7051713 original size:36 final size:33
Alignment explanation
Indices: 7051599--7051713 Score: 167
Period size: 33 Copynumber: 3.4 Consensus size: 33
7051589 ATATCCACAC
* *
7051599 CAAAATCAGTAGTTAAGCTGCTCTATTTCTCCT
1 CAAAATCAGCAGCTAAGCTGCTCTATTTCTCCT
*
7051632 CAAAATCAGCAGCTAAACTGCTCTATTTCTCCT
1 CAAAATCAGCAGCTAAGCTGCTCTATTTCTCCT
*
7051665 CAAAATCAGCAGCTAAGCTGCTCTATTTTTCCTTT
1 CAAAATCAGCAGCTAAGCTGCTCTATTTCTCC--T
7051700 CAAAAATCAGCAGC
1 C-AAAATCAGCAGC
7051714 CAAAGCTACA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
33 60 0.81
35 2 0.03
36 12 0.16
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.31
Consensus pattern (33 bp):
CAAAATCAGCAGCTAAGCTGCTCTATTTCTCCT
Found at i:7051769 original size:35 final size:35
Alignment explanation
Indices: 7051724--7051803 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
7051714 CAAAGCTACA
* * *
7051724 AAAATTAGCAACCAAAACCATACCGTTCAACCTTC
1 AAAATCAGCAACAAAAACCACACCGTTCAACCTTC
* ***
7051759 AAAATCAGCAACAAAAACTACATTTTTCAACCTTC
1 AAAATCAGCAACAAAAACCACACCGTTCAACCTTC
7051794 AAAATCAGCA
1 AAAATCAGCA
7051804 GTTAAAGCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.46, C:0.28, G:0.05, T:0.21
Consensus pattern (35 bp):
AAAATCAGCAACAAAAACCACACCGTTCAACCTTC
Found at i:7054477 original size:22 final size:22
Alignment explanation
Indices: 7054449--7054492 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7054439 CTTGGTGGCA
7054449 ACATGTAAA-TGAGAATAGTGTT
1 ACATGTAAACTGAGAA-AGTGTT
*
7054471 ACATGTAAACTTAGAAAGTGTT
1 ACATGTAAACTGAGAAAGTGTT
7054493 TGACGGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (22 bp):
ACATGTAAACTGAGAAAGTGTT
Found at i:7055283 original size:41 final size:41
Alignment explanation
Indices: 7055238--7055383 Score: 149
Period size: 41 Copynumber: 3.6 Consensus size: 41
7055228 TGGCATTAGC
* *
7055238 TGTGCACGATGTGGGGGGATGTACAAAATGATGATATCGCT
1 TGTGCACGATGTGGGGGGATGCACAAAACGATGATATCGCT
* * * * * *
7055279 TGTGCATGATGTAGGGGGATGCATAAAGCGATGTTATTGCT
1 TGTGCACGATGTGGGGGGATGCACAAAACGATGATATCGCT
7055320 TGTGCACGATGT-GGGGGATGCAC---ACGATGACT-TCGGCT
1 TGTGCACGATGTGGGGGGATGCACAAAACGATGA-TATC-GCT
*
7055358 ATGTGCACGATGTGGGGGTATGCACA
1 -TGTGCACGATGTGGGGGGATGCACA
7055384 TGAGCTGGGT
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
37 6 0.07
38 4 0.05
39 12 0.14
40 20 0.23
41 44 0.51
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.27
Consensus pattern (41 bp):
TGTGCACGATGTGGGGGGATGCACAAAACGATGATATCGCT
Found at i:7057612 original size:13 final size:14
Alignment explanation
Indices: 7057596--7057629 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
7057586 ATTTTTCTTC
*
7057596 TTTTCTTTTGCT-T
1 TTTTCTTTTCCTCT
7057609 TTTTCTTTTCCTCT
1 TTTTCTTTTCCTCT
7057623 TTTTCTT
1 TTTTCTT
7057630 CTTCTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTCTTTTCCTCT
Found at i:7060435 original size:43 final size:43
Alignment explanation
Indices: 7060375--7060507 Score: 198
Period size: 42 Copynumber: 3.1 Consensus size: 43
7060365 ACCATCCCAC
* * * *
7060375 CATCATCAGCTCATGTGCACTCCCCACTCACACATAACTGAGT
1 CATCATCAGCTCATGTGCACTCCCCACACGCACATAGCTGGGT
* *
7060418 CATCATCAGCTCATGTGCACACCACA-ACGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCCACACGCACATAGCTGGGT
7060460 CATCATCAGCTCATGTGCACT-CCCACACGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCCACACGCACATAGCTGGGT
7060502 CATCAT
1 CATCAT
7060508 TATCACATAA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 3 0.04
42 54 0.67
43 24 0.30
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (43 bp):
CATCATCAGCTCATGTGCACTCCCCACACGCACATAGCTGGGT
Found at i:7072613 original size:28 final size:25
Alignment explanation
Indices: 7072577--7072640 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 25
7072567 CTATTAGACA
*
7072577 TGGCTAGGCCACGGTCTGTGATTATAAG
1 TGGCAAGGCCAC-GTCT-TG-TTATAAG
* *
7072605 TGGCAAGGCCACGTGTTGTTATACG
1 TGGCAAGGCCACGTCTTGTTATAAG
7072630 TGGCAAGGCCA
1 TGGCAAGGCCA
7072641 TGAGTTGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 17 0.52
26 2 0.06
27 3 0.09
28 11 0.33
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (25 bp):
TGGCAAGGCCACGTCTTGTTATAAG
Found at i:7072632 original size:25 final size:25
Alignment explanation
Indices: 7072598--7072657 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
7072588 CGGTCTGTGA
* *
7072598 TTATAAGTGGCAAGGCCACGTGTTG
1 TTATACGTGGCAAGGCCACGAGTTG
*
7072623 TTATACGTGGCAAGGCCATGAGTTG
1 TTATACGTGGCAAGGCCACGAGTTG
*
7072648 ATATACGTGG
1 TTATACGTGG
7072658 TTGCGACCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (25 bp):
TTATACGTGGCAAGGCCACGAGTTG
Found at i:7074260 original size:2 final size:2
Alignment explanation
Indices: 7074255--7074286 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7074245 TTTCATAACT
*
7074255 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7074287 CATGCACACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:7075579 original size:42 final size:42
Alignment explanation
Indices: 7075520--7075610 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
7075510 TACCATCCCA
7075520 TCATCATCAGCTCATGTGCACTCCCTAC-TCGCACATAGCT-AG
1 TCATCATCAGCTCATGTGCACTCCC-ACAT-GCACATAGCTGAG
*
7075562 TCATCATCAGCTCATGTGCACTCCCACATGCACATAGCTGGG
1 TCATCATCAGCTCATGTGCACTCCCACATGCACATAGCTGAG
7075604 TCATCAT
1 TCATCAT
7075611 TATCACATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
41 12 0.26
42 34 0.74
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.26
Consensus pattern (42 bp):
TCATCATCAGCTCATGTGCACTCCCACATGCACATAGCTGAG
Found at i:7082438 original size:178 final size:176
Alignment explanation
Indices: 7082118--7082469 Score: 614
Period size: 178 Copynumber: 2.0 Consensus size: 176
7082108 GTACATGAAA
7082118 GTTGACACATTGTACTTTGAGAATTTTCATGAATTTTAGGTTGATTTTATTAGTTTAGCAGGATG
1 GTTGACACATTGTACTTTGAGAATTTTCATGAATTTTAGGTTGATTTTATTAGTTTAGCAGGATG
* * *
7082183 GCTTTTGTTAAGTGAGGGAAAATGTTTCTCTTATTGCTCTGTTTTCATTGCAGCGTAATTCATGC
66 GCTTTTGTTAAGTGAGGAAAAATGTTTCTCTTATTGCTCTGTTTTCACTGCAGCGAAATTCATGC
*
7082248 TCGCTGTAGCGAAAAACTATCGGGTTTGGAGGGGTTTTAAATAGAT
131 TCGCTGTAGCGAAAAACTATCGGGTTTGAAGGGGTTTTAAATAGAT
7082294 NGTTGACACATTGTACTTTGAGAATTTTCATGAATTTTAGGTTGATTTTATTAGTTTAGCAGGAT
1 -GTTGACACATTGTACTTTGAGAATTTTCATGAATTTTAGGTTGATTTTATTAGTTTAGCAGGAT
* *
7082359 GGCTTTTTGTTGAGTGAGGAAAAATGTTTCTCTTGTTGCTCTGTTTTCACTGCAGCGAAATTCAT
65 GGC-TTTTGTTAAGTGAGGAAAAATGTTTCTCTTATTGCTCTGTTTTCACTGCAGCGAAATTCAT
* *
7082424 GCTCGCTGTAGCGAAAAACTCTCGGGTTTGAATGGGTTTTAAATAG
129 GCTCGCTGTAGCGAAAAACTATCGGGTTTGAAGGGGTTTTAAATAG
7082470 GAATGAACTA
Statistics
Matches: 166, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
177 67 0.40
178 99 0.60
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (176 bp):
GTTGACACATTGTACTTTGAGAATTTTCATGAATTTTAGGTTGATTTTATTAGTTTAGCAGGATG
GCTTTTGTTAAGTGAGGAAAAATGTTTCTCTTATTGCTCTGTTTTCACTGCAGCGAAATTCATGC
TCGCTGTAGCGAAAAACTATCGGGTTTGAAGGGGTTTTAAATAGAT
Found at i:7089511 original size:43 final size:43
Alignment explanation
Indices: 7089337--7089498 Score: 245
Period size: 43 Copynumber: 3.8 Consensus size: 43
7089327 GTAATTATGT
* * *
7089337 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
7089380 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
*
7089423 TGACCCGGTTATGTGCGAGTAGGGAGTGTGCATAACCCGGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* **
7089466 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCAT
7089499 GAGCTGGTGA
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
42 1 0.01
43 109 0.99
ACGTcount: A:0.22, C:0.20, G:0.38, T:0.20
Consensus pattern (43 bp):
TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:7089522 original size:20 final size:20
Alignment explanation
Indices: 7089497--7089559 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
7089487 GGGAGTGCGC
7089497 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
7089517 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
7089537 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
7089556 ATGA
1 ATGA
7089560 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:7093399 original size:2 final size:2
Alignment explanation
Indices: 7093392--7093419 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7093382 TCACATACGC
7093392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7093420 GTTACAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7093474 original size:2 final size:2
Alignment explanation
Indices: 7093467--7093494 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7093457 TACACTACAC
7093467 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7093495 GTTCAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7105614 original size:2 final size:2
Alignment explanation
Indices: 7105607--7105664 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
7105597 TTATTACATA
7105607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7105649 AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT
7105665 GCGCACAAGG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7109591 original size:23 final size:23
Alignment explanation
Indices: 7109564--7109620 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
7109554 TAGGGTTTAA
* *
7109564 CATTGCATGA-TTAGTTGATATGT
1 CATTGCATGACTGA-TTGATAGGT
7109587 CATTGCATGACTGATTGATAGGT
1 CATTGCATGACTGATTGATAGGT
*
7109610 CATTGCGTGAC
1 CATTGCATGAC
7109621 AGCATGACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 28 0.93
24 2 0.07
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.37
Consensus pattern (23 bp):
CATTGCATGACTGATTGATAGGT
Found at i:7109647 original size:117 final size:117
Alignment explanation
Indices: 7109505--7109830 Score: 490
Period size: 117 Copynumber: 2.8 Consensus size: 117
7109495 GGCACCTTAT
*
7109505 GCATGACTGGATTTTGGCATGGGGTCACTTAGGGTGTGCGTGATTGCATTAGGGTTTAACATTGC
1 GCATGACTGGATTTTGGCATGGGGTCACTTAGGCTGTGCGTGATTGCATTAGGGTTTAACATTGC
* * *
7109570 ATGATTAGTTGATATGTCATTGCATGACTGATTGATAGGTCATTGCGTGACA
66 ATGACTGGTTGATAGGTCATTGCATGACTGATTGATAGGTCATTGCGTGACA
*
7109622 GCATGACTGGATTTTGGCATGGGGTCACTTAGGCTGTGCGTGATTGCATTAGGGTTTAACATTAC
1 GCATGACTGGATTTTGGCATGGGGTCACTTAGGCTGTGCGTGATTGCATTAGGGTTTAACATTGC
* * * * *
7109687 TTGACTGGTTGATAGGTTATTACGTGACTGATTGATAGGTCATTGTGTGACA
66 ATGACTGGTTGATAGGTCATTGCATGACTGATTGATAGGTCATTGCGTGACA
* * * * * * **
7109739 ACATGACTAGATTTTAGCATGGCGTCACTTAGGTTATTTGTGATTGCATTAGGGTTTAACATTGC
1 GCATGACTGGATTTTGGCATGGGGTCACTTAGGCTGTGCGTGATTGCATTAGGGTTTAACATTGC
7109804 ATGACTGGTTGATAGGTCATTGCATGA
66 ATGACTGGTTGATAGGTCATTGCATGA
7109831 ATATTGTTCA
Statistics
Matches: 186, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
117 186 1.00
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.36
Consensus pattern (117 bp):
GCATGACTGGATTTTGGCATGGGGTCACTTAGGCTGTGCGTGATTGCATTAGGGTTTAACATTGC
ATGACTGGTTGATAGGTCATTGCATGACTGATTGATAGGTCATTGCGTGACA
Found at i:7109737 original size:23 final size:23
Alignment explanation
Indices: 7109681--7109730 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
7109671 TAGGGTTTAA
* *
7109681 CATTACTTGACTGGTTGATAGGT
1 CATTACGTGACTGATTGATAGGT
*
7109704 TATTACGTGACTGATTGATAGGT
1 CATTACGTGACTGATTGATAGGT
7109727 CATT
1 CATT
7109731 GTGTGACAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (23 bp):
CATTACGTGACTGATTGATAGGT
Found at i:7109960 original size:23 final size:22
Alignment explanation
Indices: 7109911--7109967 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
7109901 GTTTATAGAT
* *
7109911 CATTGTGTGATTTAATGTTAGT
1 CATTGTGTGACTTAATGTTAGG
* *
7109933 AATTGTGTGACTTATTGATTAGG
1 CATTGTGTGACTTAATG-TTAGG
*
7109956 CATTGGGTGACT
1 CATTGTGTGACT
7109968 GTTTTTTGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.23, C:0.07, G:0.26, T:0.44
Consensus pattern (22 bp):
CATTGTGTGACTTAATGTTAGG
Found at i:7110662 original size:24 final size:24
Alignment explanation
Indices: 7110635--7110703 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
7110625 GCATATGCAT
*
7110635 GCAATGCAGTTGGAGATCTAGCAA
1 GCAATGCAGTTGGAGATCCAGCAA
* *
7110659 GCAATGTAGTTGGAGATCCAGCAG
1 GCAATGCAGTTGGAGATCCAGCAA
* * *
7110683 GTAATGCAGTTAGCGATCCAG
1 GCAATGCAGTTGGAGATCCAG
7110704 TAGGCGATGC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.22
Consensus pattern (24 bp):
GCAATGCAGTTGGAGATCCAGCAA
Found at i:7113380 original size:21 final size:21
Alignment explanation
Indices: 7113356--7113433 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 21
7113346 TGCCTAAATA
7113356 AAGACAACTCTTGTCTTAATT
1 AAGACAACTCTTGTCTTAATT
*
7113377 AAGACAACATATATACCTTGTCTAAATT
1 AAGACAAC-----T--CTTGTCTTAATT
* *
7113405 AAGACAACTTTTGTCTTTATT
1 AAGACAACTCTTGTCTTAATT
7113426 AAGACAAC
1 AAGACAAC
7113434 ATCTAAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 25 0.54
23 1 0.02
26 1 0.02
28 19 0.41
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (21 bp):
AAGACAACTCTTGTCTTAATT
Found at i:7113409 original size:49 final size:50
Alignment explanation
Indices: 7113331--7113435 Score: 158
Period size: 49 Copynumber: 2.1 Consensus size: 50
7113321 TGTCTCAAAG
*
7113331 CAACAAATATACGCTTGCCTAAATAAAGACAACTCTTGTCTTAATTAAGA
1 CAACATATATACGCTTGCCTAAATAAAGACAACTCTTGTCTTAATTAAGA
* * * *
7113381 CAACATATATAC-CTTGTCTAAATTAAGACAACTTTTGTCTTTATTAAGA
1 CAACATATATACGCTTGCCTAAATAAAGACAACTCTTGTCTTAATTAAGA
7113430 CAACAT
1 CAACAT
7113436 CTAAAGTTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 39 0.78
50 11 0.22
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (50 bp):
CAACATATATACGCTTGCCTAAATAAAGACAACTCTTGTCTTAATTAAGA
Found at i:7127705 original size:34 final size:34
Alignment explanation
Indices: 7127658--7127730 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
7127648 AGCCACTTTG
* *
7127658 GGTTTTAGTTGAGCCTGTGAAAAACTAGTGTAAA
1 GGTTTTAGCTGAGCCTGTGAAAAACCAGTGTAAA
* *
7127692 GGTTTTGGCTGAGCCTGTGAAAAACCATTGTAAA
1 GGTTTTAGCTGAGCCTGTGAAAAACCAGTGTAAA
*
7127726 AGTTT
1 GGTTT
7127731 AGTGAAAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (34 bp):
GGTTTTAGCTGAGCCTGTGAAAAACCAGTGTAAA
Found at i:7134300 original size:38 final size:40
Alignment explanation
Indices: 7134202--7134307 Score: 144
Period size: 38 Copynumber: 2.7 Consensus size: 40
7134192 CACACCCGGC
7134202 TCATGTACATCCCCCCACATCGTGCACATAGCTAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCTAGTGCCA
* * * *
7134242 TCTTGTGCATCCCCCCACATCATGCACA-ATC-AGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCTAGTGCCA
* *
7134280 TCATGTACATACCCCAACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
7134308 CGAGCACTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 30 0.53
39 2 0.04
40 25 0.44
ACGTcount: A:0.26, C:0.38, G:0.13, T:0.23
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTGCACATAGCTAGTGCCA
Found at i:7134432 original size:2 final size:2
Alignment explanation
Indices: 7134425--7134460 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7134415 CATGCACAAC
7134425 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7134461 CATCATAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7148645 original size:42 final size:43
Alignment explanation
Indices: 7148586--7148678 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
7148576 TTTTGTGTGA
* **
7148586 TGATGATGACTCAGCTATGTGC-GTGTGGGAGTACACATGAGC
1 TGATGATGACCCAGCTATGAACGGTGTGGGAGTACACATGAGC
*
7148628 TGATGATGACCCAGCTATGAACGGTGTGGGAGTGCACATGAGC
1 TGATGATGACCCAGCTATGAACGGTGTGGGAGTACACATGAGC
7148671 TGATGATG
1 TGATGATG
7148679 GTGGGATGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 19 0.41
43 27 0.59
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (43 bp):
TGATGATGACCCAGCTATGAACGGTGTGGGAGTACACATGAGC
Found at i:7150048 original size:25 final size:25
Alignment explanation
Indices: 7150020--7150159 Score: 68
Period size: 25 Copynumber: 5.3 Consensus size: 25
7150010 TATAGCCAGA
7150020 CATCCCATCTCACCCAGCTCATGTG
1 CATCCCATCTCACCCAGCTCATGTG
* * * *
7150045 CATCCCACCACATCGTGCA-CACAACTG-G
1 CATCCCATCTCA-C--CCAGCTC-A-TGTG
7150073 ACATCCCATCTCACCCAGCTCATGTG
1 -CATCCCATCTCACCCAGCTCATGTG
* * * ** * * *
7150099 CATCCCACCACATCGTGCACACAGCCGG
1 CATCCCATCTCACCCAGCTCA-TG--TG
7150127 ACATCCCATCTCACCCAGCTCATGTG
1 -CATCCCATCTCACCCAGCTCATGTG
7150153 CATCCCA
1 CATCCCA
7150160 CCACATCGTG
Statistics
Matches: 79, Mismatches: 24, Indels: 24
0.62 0.19 0.19
Matches are distributed among these distances:
25 34 0.43
26 7 0.09
27 4 0.05
28 7 0.09
29 27 0.34
ACGTcount: A:0.24, C:0.44, G:0.13, T:0.19
Consensus pattern (25 bp):
CATCCCATCTCACCCAGCTCATGTG
Found at i:7150057 original size:54 final size:54
Alignment explanation
Indices: 7149975--7150171 Score: 349
Period size: 54 Copynumber: 3.6 Consensus size: 54
7149965 CATGTGCATT
* * *
7149975 TCACCCAGCTCATGTGCATCCCACCACATCGTGCATATAGCCAGACATCCCATC
1 TCACCCAGCTCATGTGCATCCCACCACATCGTGCACACAGCCGGACATCCCATC
* *
7150029 TCACCCAGCTCATGTGCATCCCACCACATCGTGCACACAACTGGACATCCCATC
1 TCACCCAGCTCATGTGCATCCCACCACATCGTGCACACAGCCGGACATCCCATC
7150083 TCACCCAGCTCATGTGCATCCCACCACATCGTGCACACAGCCGGACATCCCATC
1 TCACCCAGCTCATGTGCATCCCACCACATCGTGCACACAGCCGGACATCCCATC
7150137 TCACCCAGCTCATGTGCATCCCACCACATCGTGCA
1 TCACCCAGCTCATGTGCATCCCACCACATCGTGCA
7150172 ATAACCGGAT
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 136 1.00
ACGTcount: A:0.25, C:0.43, G:0.14, T:0.19
Consensus pattern (54 bp):
TCACCCAGCTCATGTGCATCCCACCACATCGTGCACACAGCCGGACATCCCATC
Found at i:7152405 original size:25 final size:25
Alignment explanation
Indices: 7152380--7152434 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
7152370 TTTATTTTTA
7152380 TTTCTTATTGGGCCATGCCCACTTAT
1 TTTC-TATTGGGCCATGCCCACTTAT
* *
7152406 TTTCTATTGGGTCATGCCCATTTAT
1 TTTCTATTGGGCCATGCCCACTTAT
7152431 TTTC
1 TTTC
7152435 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.47
Consensus pattern (25 bp):
TTTCTATTGGGCCATGCCCACTTAT
Found at i:7152666 original size:24 final size:25
Alignment explanation
Indices: 7152634--7152680 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
7152624 TTCAAATTTC
7152634 CAGCAACAAAACT-TCTCAATTTTGG
1 CAGCAACAAAACTGTC-CAATTTTGG
*
7152659 CAGC-ACAAAGCTGTCCAATTTT
1 CAGCAACAAAACTGTCCAATTTT
7152681 CCTGCACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (25 bp):
CAGCAACAAAACTGTCCAATTTTGG
Found at i:7152710 original size:34 final size:33
Alignment explanation
Indices: 7152655--7152782 Score: 132
Period size: 34 Copynumber: 3.7 Consensus size: 33
7152645 CTTCTCAATT
*
7152655 TTGGCAGCACAA-AGCTGTCCAATTTTCCTGCACAAA
1 TTGGCAGCA-AACAGC--TCCAATTTT-TTGCACAAA
* ** *
7152691 CTACCAGCAAACAACTCCAATTGTTTTGCACAAA
1 TTGGCAGCAAACAGCTCCAATT-TTTTGCACAAA
*
7152725 TTGGCAGCAAATAGCTCCAAATTTTTTGCACAAA
1 TTGGCAGCAAACAGCTCC-AATTTTTTGCACAAA
*
7152759 TTGGCAGCAAACAGCTCAAATTTT
1 TTGGCAGCAAACAGCTCCAATTTT
7152783 CAGTAGCCAA
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
33 6 0.08
34 55 0.71
35 8 0.10
36 8 0.10
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (33 bp):
TTGGCAGCAAACAGCTCCAATTTTTTGCACAAA
Found at i:7152987 original size:25 final size:25
Alignment explanation
Indices: 7152940--7152987 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
7152930 AAAAATCAGC
* *
7152940 TTTCTTACCTCAAAATTTTCAGCTT
1 TTTCTTACCTCAAAAATTGCAGCTT
7152965 TTTCTT-CCTCTAAAAATTGCAGC
1 TTTCTTACCTC-AAAAATTGCAGC
7152988 AAAAAGCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (25 bp):
TTTCTTACCTCAAAAATTGCAGCTT
Found at i:7153271 original size:19 final size:18
Alignment explanation
Indices: 7153226--7153273 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
7153216 CATTTCTACA
*
7153226 TTCTTCTCTTTTGTTTTCT
1 TTCTT-TCTTGTGTTTTCT
*
7153245 TTGTTTTCTTGTGTCTTTCT
1 TT-CTTTCTTGTGT-TTTCT
7153265 TTCTTTCTT
1 TTCTTTCTT
7153274 TTGCTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (18 bp):
TTCTTTCTTGTGTTTTCT
Found at i:7155022 original size:24 final size:23
Alignment explanation
Indices: 7154995--7155039 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
7154985 AAGCAAGAAG
*
7154995 GGAAAGGAAATAAAAAGAAAACAA
1 GGAAAGAAAAT-AAAAGAAAACAA
*
7155019 GGAAAGAAAATGAAAGAAAAC
1 GGAAAGAAAATAAAAGAAAAC
7155040 TAACTTTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.69, C:0.04, G:0.22, T:0.04
Consensus pattern (23 bp):
GGAAAGAAAATAAAAGAAAACAA
Found at i:7156866 original size:79 final size:77
Alignment explanation
Indices: 7156734--7156891 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 77
7156724 CATGCATTTT
7156734 CCAAATGTCAACATTCCTCGTTACGCATAGGGATCCATGTGTTCGCGTGCCTTGGACTACATTCT
1 CCAAATGTCAACATTCCTCGTTACGCATAGGGATCCATGTGTTCGCGTGCCTTGGACTACA-TCT
7156799 CCCTTTATTCATC
65 CCCTTTATTCATC
7156812 CNCAAATGTCAACATTCCTCGTTACGCATAGGGATCCATGTGTTCGCGTGCCTTGGACTACATCT
1 C-CAAATGTCAACATTCCTCGTTACGCATAGGGATCCATGTGTTCGCGTGCCTTGGACTACATCT
7156877 CCCTTTATTCATC
65 CCCTTTATTCATC
7156890 CC
1 CC
7156892 CATCCTTATC
Statistics
Matches: 79, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
77 1 0.01
78 18 0.23
79 60 0.76
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.32
Consensus pattern (77 bp):
CCAAATGTCAACATTCCTCGTTACGCATAGGGATCCATGTGTTCGCGTGCCTTGGACTACATCTC
CCTTTATTCATC
Found at i:7161332 original size:21 final size:22
Alignment explanation
Indices: 7161308--7161354 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
7161298 CTGCCAAAAC
7161308 AGAATG-TTTCACATTGCAGTG
1 AGAATGCTTTCACATTGCAGTG
*
7161329 AGAATGCTTTCTCATTGCAGTG
1 AGAATGCTTTCACATTGCAGTG
7161351 AGAA
1 AGAA
7161355 GCAGGGCACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAATGCTTTCACATTGCAGTG
Found at i:7161578 original size:23 final size:23
Alignment explanation
Indices: 7161545--7161600 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
7161535 TATATATATA
*
7161545 CCCATCGTCATCATGCACACCAT
1 CCCATCATCATCATGCACACCAT
*
7161568 CCCATCATCATCATGCATACCAT
1 CCCATCATCATCATGCACACCAT
* *
7161591 TCCATAATCA
1 CCCATCATCA
7161601 CCAGCTCATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.39, G:0.05, T:0.25
Consensus pattern (23 bp):
CCCATCATCATCATGCACACCAT
Found at i:7161685 original size:43 final size:43
Alignment explanation
Indices: 7161608--7161717 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
7161598 TCACCAGCTC
* **** * *
7161608 ATGCCCACTCCCTACTCGCACATGGTTGGGTCATCA-CTGGTTT
1 ATGCGCACTCCCTACTCGCACATAACCGGATCATCATC-GGCTT
*
7161651 ATGTGCACTCCCTACTCGCACATAACCGGATCATCATCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGATCATCATCGGCTT
*
7161694 ATGCGCACTCCTTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
7161718 GCTGAGTCCA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 55 0.98
44 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGATCATCATCGGCTT
Done.