Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 92 of 120
Found at i:26486209 original size:27 final size:27
Alignment explanation
Indices: 26486158--26486210 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
26486148 TCGTCTGATT
* ** *
26486158 TAATATCCACCACTTCAGTTTCCGATC
1 TAATATCCACCACATCAAATCCCGATC
26486185 TAATATCCACCACATCAAATCCCGAT
1 TAATATCCACCACATCAAATCCCGAT
26486211 TTTACACCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.34, G:0.06, T:0.28
Consensus pattern (27 bp):
TAATATCCACCACATCAAATCCCGATC
Found at i:26488235 original size:19 final size:21
Alignment explanation
Indices: 26488213--26488254 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
26488203 TTTGAATTAA
26488213 TTTTT-ACTTT-TTTAA-ATT
1 TTTTTAACTTTATTTAATATT
26488231 TTTTTAACTTTATTTAATATT
1 TTTTTAACTTTATTTAATATT
26488252 TTT
1 TTT
26488255 ATAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 5 0.24
20 5 0.24
21 6 0.29
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTAACTTTATTTAATATT
Found at i:26488255 original size:19 final size:19
Alignment explanation
Indices: 26488193--26488255 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
26488183 TTTTTTTTAT
* * *
26488193 TTTTTAACATTTTGAATTAA
1 TTTTTAACTTTTTTAAAT-A
*
26488213 TTTTT-ACTTTTTTAAATT
1 TTTTTAACTTTTTTAAATA
26488231 TTTTTAACTTTATTT-AATA
1 TTTTTAACTTT-TTTAAATA
26488250 TTTTTA
1 TTTTTA
26488256 TAAATTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.14
19 23 0.64
20 8 0.22
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTAACTTTTTTAAATA
Found at i:26488281 original size:19 final size:21
Alignment explanation
Indices: 26488245--26488283 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
26488235 TAACTTTATT
26488245 TAATATTTTTATAAATTTTAA
1 TAATATTTTTATAAATTTTAA
26488266 TAATA-TTTTA-AAATTTTA
1 TAATATTTTTATAAATTTTA
26488284 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 5 0.28
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTTTTATAAATTTTAA
Found at i:26488344 original size:24 final size:23
Alignment explanation
Indices: 26488279--26488345 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 23
26488269 TATTTTAAAA
26488279 TTTTATTTTTTTAAAAAATATAT
1 TTTTATTTTTTTAAAAAATATAT
* *
26488302 TTTTAAATATTTTT-AAAAATGTAT
1 TTTT--ATTTTTTTAAAAAATATAT
26488326 TTTTATTTTTTTTAAAAAAT
1 TTTTA-TTTTTTTAAAAAAT
26488346 TAAGATTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 1 0.03
23 10 0.27
24 19 0.51
25 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (23 bp):
TTTTATTTTTTTAAAAAATATAT
Found at i:26498342 original size:14 final size:14
Alignment explanation
Indices: 26498323--26498351 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26498313 ACAGAAGCTC
26498323 CTGTGTTGATTCAG
1 CTGTGTTGATTCAG
26498337 CTGTGTTGATTCAG
1 CTGTGTTGATTCAG
26498351 C
1 C
26498352 CAGAGTCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.17, G:0.28, T:0.41
Consensus pattern (14 bp):
CTGTGTTGATTCAG
Found at i:26503171 original size:22 final size:23
Alignment explanation
Indices: 26503140--26503186 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
26503130 TACTTAATAC
*
26503140 TAAGCACACACAGTGC-AATCAG
1 TAAGCACACACAGCGCAAATCAG
* *
26503162 TAAGCGCACATAGCGCAAATCAG
1 TAAGCACACACAGCGCAAATCAG
26503185 TA
1 TA
26503187 GGTACACGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.15
Consensus pattern (23 bp):
TAAGCACACACAGCGCAAATCAG
Found at i:26503208 original size:23 final size:23
Alignment explanation
Indices: 26503140--26503258 Score: 111
Period size: 23 Copynumber: 5.2 Consensus size: 23
26503130 TACTTAATAC
*
26503140 TAAGCACAC-ACAGTGC-AATCAG
1 TAAGCACACGA-AGTGCGAAACAG
* *
26503162 TAAGCGCAC-ATAGCGC-AAATCAG
1 TAAGCACACGA-AGTGCGAAA-CAG
* * *
26503185 TAGGTACACGAGGTGCGAAACAG
1 TAAGCACACGAAGTGCGAAACAG
26503208 TAAGCACACGAAGTGCGAAACAG
1 TAAGCACACGAAGTGCGAAACAG
* *
26503231 TAAGCACACGAAGTGCAAAATAG
1 TAAGCACACGAAGTGCGAAACAG
26503254 TAAGC
1 TAAGC
26503259 GCGCTAGCGT
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
22 15 0.19
23 61 0.76
24 4 0.05
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.13
Consensus pattern (23 bp):
TAAGCACACGAAGTGCGAAACAG
Found at i:26508391 original size:3 final size:3
Alignment explanation
Indices: 26508383--26508437 Score: 94
Period size: 3 Copynumber: 18.3 Consensus size: 3
26508373 TCACAAAGAG
26508383 TTC TTC TTC TCTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC
1 TTC TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
26508428 TTC TTC TTC T
1 TTC TTC TTC T
26508438 AAGTGTTAGC
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:26509223 original size:18 final size:17
Alignment explanation
Indices: 26509200--26509243 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
26509190 TAAATAGATT
*
26509200 TTAAATTTATTTCTAAAA
1 TTAAATTTACTT-TAAAA
*
26509218 TTAAATTTACTTTAAAT
1 TTAAATTTACTTTAAAA
26509235 TTAAATTTA
1 TTAAATTTA
26509244 AATTCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTTACTTTAAAA
Found at i:26509225 original size:41 final size:41
Alignment explanation
Indices: 26509180--26509267 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 41
26509170 GGTCAATTTT
* * *
26509180 AATTTAAGTTTAAA-TAGATTTTAAATTTATTTCTAAAATTA
1 AATTTAACTTTAAATTA-AATTTAAATTCATTTCTAAAATTA
* *
26509221 AATTT-ACTTTAAATTTAAATTTAAATTCATTTTTAAATTTA
1 AATTTAACTTTAAA-TTAAATTTAAATTCATTTCTAAAATTA
26509262 AATTTA
1 AATTTA
26509268 TTAAATTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
40 7 0.18
41 30 0.77
42 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.51
Consensus pattern (41 bp):
AATTTAACTTTAAATTAAATTTAAATTCATTTCTAAAATTA
Found at i:26509257 original size:18 final size:18
Alignment explanation
Indices: 26509234--26509330 Score: 107
Period size: 18 Copynumber: 5.7 Consensus size: 18
26509224 TTACTTTAAA
26509234 TTTAAATTTAAATTCATT
1 TTTAAATTTAAATTCATT
26509252 TTTAAATTTAAA-T--TT
1 TTTAAATTTAAATTCATT
*
26509267 ATTAAATTTAAATTCATT
1 TTTAAATTTAAATTCATT
* *
26509285 TTT-AATTTAAATTTA-G
1 TTTAAATTTAAATTCATT
*
26509301 TTTAAATTTGAAA-TAATT
1 TTTAAATTT-AAATTCATT
26509319 TTTAAATTTAAA
1 TTTAAATTTAAA
26509331 ACTAGAAGCC
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
15 13 0.19
16 4 0.06
17 22 0.33
18 28 0.42
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTAAATTTAAATTCATT
Found at i:26509277 original size:33 final size:34
Alignment explanation
Indices: 26509235--26509330 Score: 144
Period size: 33 Copynumber: 2.9 Consensus size: 34
26509225 TACTTTAAAT
26509235 TTAAATTTAAATTCATTTTTAAATTTAAATTTA-
1 TTAAATTTAAATTCATTTTTAAATTTAAATTTAG
26509268 TTAAATTTAAATTCATTTTT-AATTTAAATTTAG
1 TTAAATTTAAATTCATTTTTAAATTTAAATTTAG
*
26509301 TTTAAATTTGAAA-TAATTTTTAAATTTAAA
1 -TTAAATTT-AAATTCATTTTTAAATTTAAA
26509331 ACTAGAAGCC
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
32 12 0.21
33 20 0.34
34 15 0.26
35 11 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (34 bp):
TTAAATTTAAATTCATTTTTAAATTTAAATTTAG
Found at i:26509299 original size:11 final size:11
Alignment explanation
Indices: 26509174--26509309 Score: 62
Period size: 11 Copynumber: 12.0 Consensus size: 11
26509164 ACTTTGGGTC
*
26509174 AATTTTAATTT
1 AATTTAAATTT
**
26509185 AAGTTTAAATAG
1 AA-TTTAAATTT
*
26509197 ATTTTAAATTT
1 AATTTAAATTT
* *
26509208 ATTTCTAAAATTA
1 AATT-T-AAATTT
*
26509221 AATTT-ACTTT
1 AATTTAAATTT
26509231 AAATTTAAATTT
1 -AATTTAAATTT
* **
26509243 AAATTCATTTTT
1 -AATTTAAATTT
26509255 AAATTTAAATTT
1 -AATTTAAATTT
26509267 -A-TTAAATTT
1 AATTTAAATTT
* **
26509276 AAATTCATTTTT
1 -AATTTAAATTT
26509288 AATTTAAATTT
1 AATTTAAATTT
*
26509299 AGTTTAAATTT
1 AATTTAAATTT
26509310 GAAATAATTT
Statistics
Matches: 93, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
9 8 0.09
10 4 0.04
11 37 0.40
12 36 0.39
13 8 0.09
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:26509330 original size:6 final size:6
Alignment explanation
Indices: 26509199--26509314 Score: 75
Period size: 6 Copynumber: 20.2 Consensus size: 6
26509189 TTAAATAGAT
* * *
26509199 TTTAAA TTT-AT TTCTAAA ATTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** * * *
26509246 TTCATT TTTAAA TTTAAA TTT--A -TTAAA TTTAAA -TTCAT TTTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
26509290 TTTAAA TTT-AG TTTAAA TTTGAAA T
1 TTTAAA TTTAAA TTTAAA TTT-AAA T
26509315 AATTTTTAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 17
0.69 0.16 0.14
Matches are distributed among these distances:
3 2 0.02
4 1 0.01
5 15 0.18
6 58 0.71
7 6 0.07
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:26511292 original size:29 final size:28
Alignment explanation
Indices: 26511206--26511351 Score: 157
Period size: 30 Copynumber: 4.9 Consensus size: 28
26511196 GCCTATAAGT
*
26511206 CCCTAAACTATCCAAAAATTACATTTTCAC
1 CCCTAAACT-TCCAAAAATTACATTTT-AA
* *
26511236 CCCCAAACTTCTCCAAAATTACATTTTTAA
1 CCCTAAACTTC-CAAAAATTACA-TTTTAA
*
26511266 CCCTAAAACTTCCAAAAATTACATTTTGAC
1 CCCT-AAACTTCCAAAAATTACATTTT-AA
* *
26511296 CCCTAAACTTCCAAAAATTCCATTTTTGA
1 CCCTAAACTTCCAAAAATTACA-TTTTAA
*
26511325 CCCTCAAACTTCCAAAAATTATATTTT
1 CCCT-AAACTTCCAAAAATTACATTTT
26511352 TGCCCCCAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
29 31 0.31
30 57 0.58
31 11 0.11
ACGTcount: A:0.38, C:0.28, G:0.01, T:0.33
Consensus pattern (28 bp):
CCCTAAACTTCCAAAAATTACATTTTAA
Found at i:26511340 original size:59 final size:60
Alignment explanation
Indices: 26511206--26511422 Score: 264
Period size: 59 Copynumber: 3.7 Consensus size: 60
26511196 GCCTATAAGT
* * * *
26511206 CCCT-AAACTATCCAAAAATTACA-TTTTCACCCCCAAACTTCTCCAAAATTACATTTTTAA
1 CCCTCAAACT-TCCAAAAATTACATTTTTGACCCCCAAACTTC-CAAAAATTCCATTTTTGA
* *
26511266 CCCTAAAACTTCCAAAAATTACA-TTTTGACCCCTAAACTTCCAAAAATTCCATTTTTGA
1 CCCTCAAACTTCCAAAAATTACATTTTTGACCCCCAAACTTCCAAAAATTCCATTTTTGA
* * *
26511325 CCCTCAAACTTCCAAAAATTATATTTTTG-CCCCCAAACTTTCAAAAATTCAATTTTTGA
1 CCCTCAAACTTCCAAAAATTACATTTTTGACCCCCAAACTTCCAAAAATTCCATTTTTGA
* * * *
26511384 -CCTCGAACTTCCCAAAATTCCATTTTTGACCCCAAAACT
1 CCCTCAAACTTCCAAAAATTACATTTTTGACCCCCAAACT
26511423 CTCGAAATTA
Statistics
Matches: 139, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
58 24 0.17
59 72 0.52
60 38 0.27
61 5 0.04
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.32
Consensus pattern (60 bp):
CCCTCAAACTTCCAAAAATTACATTTTTGACCCCCAAACTTCCAAAAATTCCATTTTTGA
Found at i:26511361 original size:29 final size:29
Alignment explanation
Indices: 26511210--26511419 Score: 199
Period size: 29 Copynumber: 7.1 Consensus size: 29
26511200 ATAAGTCCCT
**
26511210 AAACTATCCAAAAATTACATTTTCACCCCC
1 AAACT-TCCAAAAATTACATTTTTGCCCCC
* * **
26511240 AAACTTCTCCAAAATTACATTTTTAACCCTA
1 AAACTTC-CAAAAATTACATTTTT-GCCCCC
*
26511271 AAACTTCCAAAAATTACA-TTTTGACCCCT
1 AAACTTCCAAAAATTACATTTTTG-CCCCC
* *
26511300 AAACTTCCAAAAATTCCATTTTTGACCCTC
1 AAACTTCCAAAAATTACATTTTTG-CCCCC
*
26511330 AAACTTCCAAAAATTATATTTTTGCCCCC
1 AAACTTCCAAAAATTACATTTTTGCCCCC
* * *
26511359 AAACTTTCAAAAATT-CAATTTTTGACCTC
1 AAACTTCCAAAAATTAC-ATTTTTGCCCCC
* * * *
26511388 GAACTTCCCAAAATTCCATTTTTGACCCC
1 AAACTTCCAAAAATTACATTTTTGCCCCC
26511417 AAA
1 AAA
26511420 ACTCTCGAAA
Statistics
Matches: 151, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
29 79 0.52
30 61 0.40
31 11 0.07
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTGCCCCC
Found at i:26511514 original size:29 final size:29
Alignment explanation
Indices: 26511483--26511582 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 29
26511473 AAATTTTTAA
*
26511483 AAAATTACCATTTTACCCTCAAGTGTCT-
1 AAAATTACCATTTTACCCTCAAGTATCTC
* * * *
26511511 AAAATGA-TATTTTTAACCC-CAAATTTTCTC
1 AAAATTACCA-TTTT-ACCCTC-AAGTATCTC
* *
26511541 AAAATTACCATTTTACCCTCGAGAATC-C
1 AAAATTACCATTTTACCCTCAAGTATCTC
26511569 AAAATTACCATTTT
1 AAAATTACCATTTT
26511583 GCCTCCAGGC
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
27 1 0.02
28 26 0.46
29 17 0.30
30 11 0.20
31 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCAAGTATCTC
Found at i:26511559 original size:58 final size:58
Alignment explanation
Indices: 26511404--26511560 Score: 171
Period size: 57 Copynumber: 2.7 Consensus size: 58
26511394 CCCAAAATTC
** * * *
26511404 CATTTTTGACCCCAAA-ACTCTCGAAATTACCATTTTACCCTCGGATGTCAAAAATCT
1 CATTTTTGACCCCAAATTTTCTCAAAATTACCATTTTACCCTCAGATGTCAAAAATAT
* * *
26511461 CATTTTCGA-CCCAAATTTT-TAAAAAATTACCATTTTACCCTCA-AGTGTCTAAAATGAT
1 CATTTTTGACCCCAAATTTTCT-CAAAATTACCATTTTACCCTCAGA-TGTCAAAAAT-AT
*
26511519 -ATTTTTAACCCCAAATTTTCTCAAAATTACCATTTTACCCTC
1 CATTTTTGACCCCAAATTTTCTCAAAATTACCATTTTACCCTC
26511561 GAGAATCCAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
56 8 0.10
57 43 0.52
58 31 0.37
59 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (58 bp):
CATTTTTGACCCCAAATTTTCTCAAAATTACCATTTTACCCTCAGATGTCAAAAATAT
Found at i:26511573 original size:58 final size:58
Alignment explanation
Indices: 26511404--26511582 Score: 170
Period size: 57 Copynumber: 3.1 Consensus size: 58
26511394 CCCAAAATTC
** * *
26511404 CATTTTTGACCCCAAA-ACTCTCGAAATTACCATTTTACCCTCG-GATGTCAAAAATCT
1 CATTTTTGACCCCAAATTTTCTCAAAATTACCATTTTACCCTCGAGA-GTCAAAAATAT
* * * * *
26511461 CATTTTCGA-CCCAAATTTT-TAAAAAATTACCATTTTACCCTCAAGTGTCTAAAATGAT
1 CATTTTTGACCCCAAATTTTCT-CAAAATTACCATTTTACCCTCGAGAGTCAAAAAT-AT
* * * *
26511519 -ATTTTTAACCCCAAATTTTCTCAAAATTACCATTTTACCCTCGAGAATCCAAAATTAC
1 CATTTTTGACCCCAAATTTTCTCAAAATTACCATTTTACCCTCGAGAGT-CAAAAATAT
26511577 CATTTT
1 CATTTT
26511583 GCCTCCAGGC
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
56 7 0.07
57 42 0.44
58 36 0.38
59 11 0.11
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (58 bp):
CATTTTTGACCCCAAATTTTCTCAAAATTACCATTTTACCCTCGAGAGTCAAAAATAT
Found at i:26511596 original size:28 final size:28
Alignment explanation
Indices: 26511540--26511600 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
26511530 CAAATTTTCT
*
26511540 CAAAATTACCATTTTACCCTCGAGAATC
1 CAAAATTACCATTTTACCCTCCAGAATC
* *
26511568 CAAAATTACCATTTT-GCCTCCAGGCATC
1 CAAAATTACCATTTTACCCTCCA-GAATC
26511596 CAAAA
1 CAAAA
26511601 AGTCTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.36, C:0.30, G:0.08, T:0.26
Consensus pattern (28 bp):
CAAAATTACCATTTTACCCTCCAGAATC
Found at i:26515319 original size:9 final size:9
Alignment explanation
Indices: 26515305--26515331 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
26515295 GACACTAAAG
26515305 CAGGAGGAA
1 CAGGAGGAA
26515314 CAGGAGGAA
1 CAGGAGGAA
26515323 CAGGAGGAA
1 CAGGAGGAA
26515332 GAGCATTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.44, T:0.00
Consensus pattern (9 bp):
CAGGAGGAA
Found at i:26518710 original size:17 final size:18
Alignment explanation
Indices: 26518671--26518718 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
26518661 CTCAATCAAT
26518671 TTTTTATATTTTTTCTTCA
1 TTTTT-TATTTTTTCTTCA
*
26518690 TTTTTTATTTTTT-TTCC
1 TTTTTTATTTTTTCTTCA
26518707 TTTTTTATTTTT
1 TTTTTTATTTTT
26518719 GTATAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 15 0.54
18 8 0.29
19 5 0.18
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTATTTTTTCTTCA
Found at i:26519748 original size:19 final size:19
Alignment explanation
Indices: 26519724--26519762 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
26519714 TTTAAGGGCT
26519724 AGTTTAGCAATCCTTCAAA
1 AGTTTAGCAATCCTTCAAA
*
26519743 AGTTTAGCAATCCTTTAAA
1 AGTTTAGCAATCCTTCAAA
26519762 A
1 A
26519763 ATACTTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (19 bp):
AGTTTAGCAATCCTTCAAA
Found at i:26527560 original size:61 final size:60
Alignment explanation
Indices: 26527389--26527646 Score: 254
Period size: 58 Copynumber: 4.3 Consensus size: 60
26527379 GATATTAGTT
* * * * *** *
26527389 ATCAAATGGTCGACATCTCCTTTTCTC-AAAAAAAAATTTGGA-TTTTTGGGTGTTGGCC
1 ATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTAAAATTTTTTTGGTGTTGGCC
* * * * *** * ** *
26527447 ATTACATGGTCTACACCTTTTTTTCTCGAAAAAAAAATT-GTA-TTTTTGGGTGTTGGCC
1 ATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTAAAATTTTTTTGGTGTTGGCC
* * *
26527505 ATCAAATGGCCGACACCCTCTTTTCTCGAGAAAAAAATTTAAAATTTTTTTGGTGTTAGTC
1 ATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAA-TTAAAATTTTTTTGGTGTTGGCC
* *
26527566 ATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAATTTTTTTGGTGTAGGCC
1 ATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTAAAATTTTTTTGGTGTTGGCC
*
26527626 ATCAAATGGTCGACACCCCCT
1 ATCAAATGGCCGACACCCCCT
26527647 ATTTAAAAAA
Statistics
Matches: 171, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
58 69 0.40
59 13 0.08
60 40 0.23
61 49 0.29
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (60 bp):
ATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTAAAATTTTTTTGGTGTTGGCC
Found at i:26527600 original size:60 final size:61
Alignment explanation
Indices: 26527489--26527646 Score: 230
Period size: 60 Copynumber: 2.6 Consensus size: 61
26527479 AAAAATTGTA
* * * *
26527489 TTTTTGGGTGTTGGCCATCAAATGGCCGACACCCTCTTTTCTCGAGAAAAAAATTTAAAAT
1 TTTTTTGGTGTTAGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAAATTAAAAT
* *
26527550 TTTTTTGGTGTTAGTCATCAAATGGCCGACACCCCCTTTTCTCGAG-AAAAAAATTCAAAT
1 TTTTTTGGTGTTAGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAAATTAAAAT
*
26527610 TTTTTTGGTG-TAGGCCATCAAATGGTCGACACCCCCT
1 TTTTTTGGTGTTA-GCCATCAAATGGCCGACACCCCCT
26527647 ATTTAAAAAA
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
59 2 0.02
60 44 0.50
61 42 0.48
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (61 bp):
TTTTTTGGTGTTAGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAAATTAAAAT
Found at i:26528650 original size:30 final size:30
Alignment explanation
Indices: 26528610--26528679 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
26528600 AAAAAATAAT
*
26528610 AATTAGAATATACAGA-AAATTAGAAAGAAA
1 AATTAAAATATACA-ATAAATTAGAAAGAAA
* **
26528640 AATTAAAATATACAATAAATTCGAAATTAA
1 AATTAAAATATACAATAAATTAGAAAGAAA
*
26528670 ATTTAAAATA
1 AATTAAAATA
26528680 AAAATGAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.27
Consensus pattern (30 bp):
AATTAAAATATACAATAAATTAGAAAGAAA
Found at i:26528690 original size:30 final size:30
Alignment explanation
Indices: 26528642--26528707 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
26528632 GAAAGAAAAA
*
26528642 TTAAAATATACAATAAATT-CGAAATTAAAT
1 TTAAAATATAAAATAAATTAC-AAATTAAAT
26528672 TTAAAATA-AAAATGAAATTACAAATTAAAT
1 TTAAAATATAAAAT-AAATTACAAATTAAAT
26528702 TTAAAA
1 TTAAAA
26528708 AGTAAAGGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 4 0.12
30 28 0.85
31 1 0.03
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (30 bp):
TTAAAATATAAAATAAATTACAAATTAAAT
Found at i:26529842 original size:13 final size:13
Alignment explanation
Indices: 26529824--26529848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26529814 ATTTCGAAAA
26529824 TGTAAAAAATATT
1 TGTAAAAAATATT
26529837 TGTAAAAAATAT
1 TGTAAAAAATAT
26529849 CATATATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TGTAAAAAATATT
Found at i:26530419 original size:106 final size:106
Alignment explanation
Indices: 26530234--26530443 Score: 384
Period size: 106 Copynumber: 2.0 Consensus size: 106
26530224 GACAAAGCTC
* *
26530234 CCGGTACAATGTCGCCAACACTGTTGAGCCTCAACTTAATTTCCCGGCTGCCTTGAAATCTTCCA
1 CCGGTACAATGTCGCCAACACTGCTGAGCCCCAACTTAATTTCCCGGCTGCCTTGAAATCTTCCA
* *
26530299 ACAACGGAAGGTAGATGATGCTTATTCTATTTTGGCTAGTA
66 ACAACGAAAGGTAGATGATGCTTATTCTATTTTGACTAGTA
26530340 CCGGTACAATGTCGCCAACACTGCTGAGCCCCAACTTAATTTCCCGGCTGCCTTGAAATCTTCCA
1 CCGGTACAATGTCGCCAACACTGCTGAGCCCCAACTTAATTTCCCGGCTGCCTTGAAATCTTCCA
26530405 ACAACGAAAGGTAGATGATGCTTATTCTATTTTGACTAG
66 ACAACGAAAGGTAGATGATGCTTATTCTATTTTGACTAG
26530444 CATCCGAAAT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 100 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (106 bp):
CCGGTACAATGTCGCCAACACTGCTGAGCCCCAACTTAATTTCCCGGCTGCCTTGAAATCTTCCA
ACAACGAAAGGTAGATGATGCTTATTCTATTTTGACTAGTA
Found at i:26531099 original size:22 final size:20
Alignment explanation
Indices: 26531052--26531105 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
26531042 CGGGACGTTG
*
26531052 GTGAGCTGGAATTTGGTTTT
1 GTGAGCTGGAATTTGGTTTA
26531072 GCTGAGCTGGAATATTGGTTTAA
1 G-TGAGCTGGAAT-TTGGTTT-A
*
26531095 GTGAGGTGGAA
1 GTGAGCTGGAA
26531106 AGTGGGTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 16 0.55
23 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.37, T:0.35
Consensus pattern (20 bp):
GTGAGCTGGAATTTGGTTTA
Found at i:26531309 original size:86 final size:86
Alignment explanation
Indices: 26531204--26531653 Score: 653
Period size: 86 Copynumber: 5.3 Consensus size: 86
26531194 TTTAAAATAA
*
26531204 GATAAAAATTGTAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATGTAT
1 GATAAAAATTATAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATGTAT
*
26531269 TGTCAAATCAACATATTATAT
66 TGTCAAATCAACACATTATAT
*
26531290 GATAAAAATTATAATATAATAATGATAATAATTTTCATTTAAAGATATAAAATTAATAAATAATG
1 GATAAAAATTATAATATAAT-A--ATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATG
*
26531355 TATTGTTAAATCAACACATTATAT
63 TATTGTCAAATCAACACATTATAT
*
26531379 GATAAAAATTATAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATATAT
1 GATAAAAATTATAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATGTAT
26531444 TGTCAAATCAACACATTATAT
66 TGTCAAATCAACACATTATAT
* *
26531465 AAT-AAAATTATAATATAATAATAATAA-TTTTATTTAAAGATATAAAATTAATAAATAATATAT
1 GATAAAAATTATAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATGTAT
* * *
26531528 TATCAAATCAATAAATTATAT
66 TGTCAAATCAACACATTATAT
* *
26531549 GATAAAAATTA-AA-AT-ATAATAATAATTTGTACTTT-AA-ATATGAAAATTGATAAATAATGT
1 GATAAAAATTATAATATAATAATAATAATTTTTA-TTTAAAGATAT-AAAATTAATAAATAATGT
* * *
26531609 ATTGTCAAATTAACACAATATTT
64 ATTGTCAAATCAACACATTATAT
* *
26531632 GATATAAATTGTAATATAATAA
1 GATAAAAATTATAATATAATAA
26531654 CTATCTTTTT
Statistics
Matches: 331, Mismatches: 23, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
82 14 0.04
83 50 0.15
84 63 0.19
85 33 0.10
86 87 0.26
87 1 0.00
88 1 0.00
89 82 0.25
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (86 bp):
GATAAAAATTATAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATGTAT
TGTCAAATCAACACATTATAT
Found at i:26531569 original size:175 final size:174
Alignment explanation
Indices: 26531204--26531653 Score: 648
Period size: 175 Copynumber: 2.6 Consensus size: 174
26531194 TTTAAAATAA
* *
26531204 GATAAAAATTGTAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATGTAT
1 GATAAAAATTATAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATATAT
* *
26531269 TGTCAAATCAACATATTATATGATAAAAATTATAATATAATAATGATAATAATTTTCATTTAAAG
66 TGTCAAATCAACACATTATATAATAAAAATTATAATATAATAA-GATAATAATTTTCATTTAAAG
* * * *
26531334 ATATAAAATTAATAAATAATGTATTGTTAAATCAACACATTATAT
130 ATATAAAATTAATAAATAATATATTATCAAATCAACAAATTATAT
26531379 GATAAAAATTATAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATATAT
1 GATAAAAATTATAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATATAT
26531444 TGTCAAATCAACACATTATATAAT-AAAATTATAATATAAT-A-ATAATAATTTT-ATTTAAAGA
66 TGTCAAATCAACACATTATATAATAAAAATTATAATATAATAAGATAATAATTTTCATTTAAAGA
*
26531505 TATAAAATTAATAAATAATATATTATCAAATCAATAAATTATAT
131 TATAAAATTAATAAATAATATATTATCAAATCAACAAATTATAT
* * *
26531549 GATAAAAATTA-AA-AT-ATAATAATAATTTGTACTTT-AA-ATATGAAAATTGATAAATAATGT
1 GATAAAAATTATAATATAATAATAATAATTTTTA-TTTAAAGATAT-AAAATTAATAAATAATAT
* * * * * *
26531609 ATTGTCAAATTAACACAATATTTGATATAAATTGTAATATAATAA
64 ATTGTCAAATCAACACATTATATAATAAAAATTATAATATAATAA
26531654 CTATCTTTTT
Statistics
Matches: 253, Mismatches: 18, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
166 4 0.02
167 55 0.22
168 19 0.08
169 3 0.01
170 59 0.23
171 11 0.04
173 1 0.00
174 16 0.06
175 85 0.34
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (174 bp):
GATAAAAATTATAATATAATAATAATAATTTTTATTTAAAGATATAAAATTAATAAATAATATAT
TGTCAAATCAACACATTATATAATAAAAATTATAATATAATAAGATAATAATTTTCATTTAAAGA
TATAAAATTAATAAATAATATATTATCAAATCAACAAATTATAT
Found at i:26531691 original size:11 final size:11
Alignment explanation
Indices: 26531669--26531702 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
26531659 TTTTTTTTAA
26531669 ATAATGTTAAAT
1 ATAAT-TTAAAT
26531681 ATAATTTAAAT
1 ATAATTTAAAT
*
26531692 GTAATTTAAAT
1 ATAATTTAAAT
26531703 TTCAACTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (11 bp):
ATAATTTAAAT
Found at i:26531802 original size:12 final size:12
Alignment explanation
Indices: 26531785--26531832 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
26531775 AAACATGTTC
26531785 ATTAATTTCCAA
1 ATTAATTTCCAA
26531797 ATTAATTTCAACTTAA
1 ATTAATTTC--C--AA
*
26531813 ATTAATTTTCAA
1 ATTAATTTCCAA
26531825 ATTAATTT
1 ATTAATTT
26531833 TTACACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAATTTCCAA
Found at i:26531831 original size:16 final size:16
Alignment explanation
Indices: 26531795--26531829 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
26531785 ATTAATTTCC
*
26531795 AAATTAATTTCAACTT
1 AAATTAATTTCAAATT
26531811 AAATTAATTTTCAAATT
1 AAATTAA-TTTCAAATT
26531828 AA
1 AA
26531830 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTCAAATT
Found at i:26531842 original size:28 final size:28
Alignment explanation
Indices: 26531785--26531842 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
26531775 AAACATGTTC
**
26531785 ATTAATTTCCAAATTAATTTCAACTTAA
1 ATTAATTTCCAAATTAATTTCAACACAA
* **
26531813 ATTAATTTTCAAATTAATTTTTACACAA
1 ATTAATTTCCAAATTAATTTCAACACAA
26531841 AT
1 AT
26531843 ATACTTCGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTAATTTCCAAATTAATTTCAACACAA
Found at i:26535767 original size:59 final size:57
Alignment explanation
Indices: 26535587--26535784 Score: 200
Period size: 59 Copynumber: 3.4 Consensus size: 57
26535577 TGAGTTTTTA
* *
26535587 GGGGTAAAATGGTAATTTTTGTGAAATCGGGGCTAAAAATGGAATTT-GGAATGTTTG
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTGGGAA-GTTTG
* * * * ** * * *
26535644 GGGAATAAAATGGTAAATTTTGGTAAAAAACAGGGTCCAAAATGAAATTTTGGAAAGTTCG
1 GGG-GTAAAATGGT-AATTTTGGT-GAAATCGGGGTTAAAAATGGAA-TTTGGGAAGTTTG
* * *
26535705 GGGGCAAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAAATGGGATTTAGGGAAGTTTG
1 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTT-GGGAAGTTTG
26535764 GGGGTAAAATGGTAATTTTGG
1 GGGGTAAAATGGTAATTTTGG
26535785 AAAAGTTTTG
Statistics
Matches: 109, Mismatches: 25, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
57 3 0.03
58 18 0.17
59 46 0.42
60 29 0.27
61 10 0.09
62 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.32, T:0.29
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTGGGAAGTTTG
Found at i:26536032 original size:30 final size:30
Alignment explanation
Indices: 26535757--26536022 Score: 358
Period size: 30 Copynumber: 8.9 Consensus size: 30
26535747 GGATTTAGGG
*
26535757 AAGTTTGGGGGT-AAAATGGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
* *
26535787 AAGTTTTGGGGTCAAAGTATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
26535817 AAGTTTAGGTGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
26535847 AAGTTTTGGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
26535877 AAGTTTAGGGGTCAAAATGTAATTTTTGG-A
1 AAGTTTTGGGGTCAAAATGTAA-TTTTGGAA
* *
26535907 AAGTTTCGGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
26535937 AAGTTTAGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
26535967 AAGTTTTAGGGTCAAAATGTAATTTT-TAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGA-A
*
26535997 AAGTTTTGGGGTCGAAATGTAATTTT
1 AAGTTTTGGGGTCAAAATGTAATTTT
26536023 TGGATAGTTT
Statistics
Matches: 213, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
29 7 0.03
30 196 0.92
31 10 0.05
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:26536032 original size:60 final size:60
Alignment explanation
Indices: 26535757--26536022 Score: 394
Period size: 60 Copynumber: 4.4 Consensus size: 60
26535747 GGATTTAGGG
* *
26535757 AAGTTTGGGGGT-AAAATGGTAATTTTGGAAAAGTTTTGGGGTCAAAGTATAATTTTGGAA
1 AAGTTTAGGGGTCAAAAT-GTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAA
* *
26535817 AAGTTTAGGTGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAA
1 AAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAA
*
26535877 AAGTTTAGGGGTCAAAATGTAATTTTTGG-AAAGTTTCGGGGTCAAAATATAATTTTGGAA
1 AAGTTTAGGGGTCAAAATGTAA-TTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAA
* * *
26535937 AAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTT-TAGA
1 AAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGA-A
* *
26535997 AAGTTTTGGGGTCGAAATGTAATTTT
1 AAGTTTAGGGGTCAAAATGTAATTTT
26536023 TGGATAGTTT
Statistics
Matches: 189, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
59 7 0.04
60 171 0.90
61 11 0.06
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (60 bp):
AAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAA
Found at i:26537977 original size:17 final size:16
Alignment explanation
Indices: 26537923--26537983 Score: 68
Period size: 17 Copynumber: 3.7 Consensus size: 16
26537913 TTAAAACCAT
*
26537923 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
* *
26537939 TTTAAATTCAAAACAAA
1 TTTAAATT-TAAATAAA
26537956 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
*
26537972 TCTTAAAATTAA
1 T-TTAAATTTAA
26537984 TTCAAACTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 15 0.41
17 22 0.59
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:26537993 original size:17 final size:17
Alignment explanation
Indices: 26537973--26538006 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26537963 TTAAATAAAT
*
26537973 CTTAAAATTAATTCAAA
1 CTTAAAATAAATTCAAA
*
26537990 CTTAATATAAATTCAAA
1 CTTAAAATAAATTCAAA
26538007 AATCTCAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
CTTAAAATAAATTCAAA
Found at i:26538179 original size:31 final size:31
Alignment explanation
Indices: 26538121--26538180 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
26538111 TTGCCGCTTC
*
26538121 ACATGACAGTATATAATTCAACTCCGAAAAT
1 ACATGACAGTATATAATTCAACCCCGAAAAT
*
26538152 ACATGACAGTATATAGCTT-AACCCCGAAA
1 ACATGACAGTATATA-ATTCAACCCCGAAA
26538181 TTCGATTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (31 bp):
ACATGACAGTATATAATTCAACCCCGAAAAT
Found at i:26538461 original size:59 final size:59
Alignment explanation
Indices: 26538341--26538783 Score: 274
Period size: 59 Copynumber: 7.6 Consensus size: 59
26538331 AGGGAAAGTT
* ** * * *
26538341 GGTGTCGGCCATTACATGGCCAACACC-AAAAAA---AAATTTTATC-CGAGAAAAGGG
1 GGTGTCGACCATTTGATAGCCAACACCAAAAAAATTTAAATTTTTTCTCGAGAAAAGGA
* * *
26538395 GGTGTCGACCATTTGATGGTCAACACCAAAAAAATTTGAATTTTTTCTCGAGAAAAGGA
1 GGTGTCGACCATTTGATAGCCAACACCAAAAAAATTTAAATTTTTTCTCGAGAAAAGGA
* *** * * * *
26538454 GGTGTCGATCATGCAATGGCCAACACC-CAAAAA--TACAATTTTTTTTCGAGAAAAGGGGG
1 GGTGTCGACCATTTGATAGCCAACACCAAAAAAATTTA-AATTTTTTCTCGAGAAAA--GGA
* *
26538513 GGTGTCGACCATTTGATATAGCCAACACAAAAAAAATTTTAATTTTTTTTCTC-A-AAAAGGA
1 GGTGTCGACCATTTG--ATAGCCAACACCAAAAAAA-TTTAA-ATTTTTTCTCGAGAAAAGGA
* *** * ** *
26538574 GGTGTCGGCCATGCAATAACCAACACTC--AAAAATCCAAATTTTTT-TCCAGAAAAGGA
1 GGTGTCGACCATTTGATAGCCAACAC-CAAAAAAATTTAAATTTTTTCTCGAGAAAAGGA
* *
26538631 GGGGTGTCGACCATTTGATATAGCCAACACAAAAAAAATTTTAATTTTTTTTCTC-A-AAAAGGA
1 --GGTGTCGACCATTTG--ATAGCCAACACCAAAAAAA-TTTAA-ATTTTTTCTCGAGAAAAGGA
* *** * ** *
26538694 GGTGTCGGCCATGCAATAACCAACACTC--AAAAATCCAAATTTTTT-TCCAGAAAAGGA
1 GGTGTCGACCATTTGATAGCCAACAC-CAAAAAAATTTAAATTTTTTCTCGAGAAAAGGA
* *
26538751 GGTGTCGACCATTTGATGGCCAATACCAAAAAA
1 GGTGTCGACCATTTGATAGCCAACACCAAAAAA
26538784 TCCAATTTTT
Statistics
Matches: 297, Mismatches: 60, Indels: 60
0.71 0.14 0.14
Matches are distributed among these distances:
54 23 0.08
55 10 0.03
56 16 0.05
57 56 0.19
58 27 0.09
59 76 0.26
61 44 0.15
62 10 0.03
63 14 0.05
64 9 0.03
65 12 0.04
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (59 bp):
GGTGTCGACCATTTGATAGCCAACACCAAAAAAATTTAAATTTTTTCTCGAGAAAAGGA
Found at i:26538557 original size:120 final size:117
Alignment explanation
Indices: 26538360--26538824 Score: 542
Period size: 120 Copynumber: 4.0 Consensus size: 117
26538350 CATTACATGG
* * *
26538360 CCAACA-CCAAAAA-A-AAA-TTTTATCCGAGAAAAGGGGGTGTCGACCATTTG--ATGGTCAAC
1 CCAACACCCAAAAATACAAATTTTTTTCC-AGAAAAGGGGGTGTCGACCATTTGATATAGCCAAC
* * ** **
26538419 ACCAAAAAAATTTGAA-TTTTTTCTCGAGAAAAGGAGGTGTCGATCATGCAATGG
65 ACAAAAAAAATTTTAATTTTTTTCTC-A-AAAAGGAGGTGTCGGCCATGCAATAA
* *
26538473 CCAACACCCAAAAATACAATTTTTTTTCGAGAAAAGGGGGGGTGTCGACCATTTGATATAGCCAA
1 CCAACACCCAAAAATACAAATTTTTTTCCAGAAAA--GGGGGTGTCGACCATTTGATATAGCCAA
26538538 CACAAAAAAAATTTTAATTTTTTTTCTCAAAAAGGAGGTGTCGGCCATGCAATAA
64 CACAAAAAAAATTTTAA-TTTTTTTCTCAAAAAGGAGGTGTCGGCCATGCAATAA
* *
26538593 CCAACACTCAAAAATCCAAATTTTTTTCCAGAAAAGGAGGGGTGTCGACCATTTGATATAGCCAA
1 CCAACACCCAAAAATACAAATTTTTTTCCAGAAAA-G-GGGGTGTCGACCATTTGATATAGCCAA
26538658 CACAAAAAAAATTTTAATTTTTTTTCTCAAAAAGGAGGTGTCGGCCATGCAATAA
64 CACAAAAAAAATTTTAA-TTTTTTTCTCAAAAAGGAGGTGTCGGCCATGCAATAA
* * * * *
26538713 CCAACACTCAAAAATCCAAATTTTTTTCCAGAAAAGGAGGTGTCGACCATTTG--ATGGCCAATA
1 CCAACACCCAAAAATACAAATTTTTTTCCAGAAAAGGGGGTGTCGACCATTTGATATAGCCAACA
* **
26538776 C-CAAAAAA-TCCAATTTTTTT-TGACAAAAAAGG-GGTGTCGGCCATGCAAT
66 CAAAAAAAATTTTAATTTTTTTCT--C-AAAAAGGAGGTGTCGGCCATGCAAT
26538825 TTTTTTTTCA
Statistics
Matches: 317, Mismatches: 21, Indels: 27
0.87 0.06 0.07
Matches are distributed among these distances:
112 1 0.00
113 13 0.04
114 28 0.09
115 14 0.04
116 17 0.05
117 6 0.02
118 34 0.11
119 3 0.01
120 191 0.60
121 1 0.00
122 9 0.03
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (117 bp):
CCAACACCCAAAAATACAAATTTTTTTCCAGAAAAGGGGGTGTCGACCATTTGATATAGCCAACA
CAAAAAAAATTTTAATTTTTTTCTCAAAAAGGAGGTGTCGGCCATGCAATAA
Found at i:26538753 original size:57 final size:57
Alignment explanation
Indices: 26538433--26538824 Score: 310
Period size: 57 Copynumber: 6.7 Consensus size: 57
26538423 AAAAAATTTG
* * * * * *
26538433 AATTTTTTCTCGAGAAAAGGAGGTGTCGATCATGCAATGGCCAACACCCAAAAATAC
1 AATTTTTTTTCCAGAAAAGGAGGTGTCGACCATGCAATAGCCAACACACAAAAATCC
* * * **
26538490 AATTTTTTTTCGAGAAAAGGGGGGGTGTCGACCATTTG-ATATAGCCAACACAAAAAAAATTTT
1 AATTTTTTTTCCAGAAAA--GGAGGTGTCGACCA--TGCA-ATAGCCAACAC-ACAAAAA-TCC
* * *
26538553 AATTTTTTTTCTCA-AAAAGGAGGTGTCGGCCATGCAATAACCAACACTCAAAAATCC
1 AATTTTTTTTC-CAGAAAAGGAGGTGTCGACCATGCAATAGCCAACACACAAAAATCC
* * **
26538610 AAATTTTTTTCCAGAAAAGGAGGGGTGTCGACCATTTG-ATATAGCCAACACAAAAAAAATTTT
1 AATTTTTTTTCCAGAAAAGGA--GGTGTCGACCA--TGCA-ATAGCCAACAC-ACAAAAA-TCC
* * *
26538673 AATTTTTTTTCTCA-AAAAGGAGGTGTCGGCCATGCAATAACCAACACTCAAAAATCC
1 AATTTTTTTTC-CAGAAAAGGAGGTGTCGACCATGCAATAGCCAACACACAAAAATCC
* *** * *
26538730 AAATTTTTTTCCAGAAAAGGAGGTGTCGACCATTTGATGGCCAATAC-CAAAAAATCC
1 AATTTTTTTTCCAGAAAAGGAGGTGTCGACCATGCAATAGCCAACACAC-AAAAATCC
* * *
26538787 AATTTTTTTTGACAAAAAAGG-GGTGTCGGCCATGCAAT
1 AATTTTTTTT-CCAGAAAAGGAGGTGTCGACCATGCAAT
26538825 TTTTTTTTCA
Statistics
Matches: 268, Mismatches: 45, Indels: 44
0.75 0.13 0.12
Matches are distributed among these distances:
56 5 0.02
57 102 0.38
58 18 0.07
59 46 0.17
60 4 0.01
61 46 0.17
62 10 0.04
63 34 0.13
64 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (57 bp):
AATTTTTTTTCCAGAAAAGGAGGTGTCGACCATGCAATAGCCAACACACAAAAATCC
Found at i:26539733 original size:16 final size:15
Alignment explanation
Indices: 26539712--26539754 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
26539702 ATTTTTTAAA
*
26539712 TAATTTTAATGATTTT
1 TAATTTTAA-AATTTT
26539728 TAATTTTTAAAATTTT
1 TAA-TTTTAAAATTTT
*
26539744 TAAATTTAAAA
1 TAATTTTAAAA
26539755 AAAATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TAATTTTAAAATTTT
Found at i:26541350 original size:22 final size:26
Alignment explanation
Indices: 26541312--26541363 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 26
26541302 ATTGTCTCTA
26541312 AATAATTAGTACAAATATAAT-T-TT
1 AATAATTAGTACAAATATAATATATT
26541336 AATAATT-G-ACAAATATAATATATT
1 AATAATTAGTACAAATATAATATATT
26541360 AATA
1 AATA
26541364 TTATTATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.42
23 2 0.08
24 13 0.50
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (26 bp):
AATAATTAGTACAAATATAATATATT
Found at i:26541427 original size:19 final size:19
Alignment explanation
Indices: 26541382--26541439 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 19
26541372 GTAACTTCAT
*
26541382 AAATTAAATA-AATATTTT
1 AAATTAAATATAATATTTA
** *
26541400 TCATGAAATATAATATTTA
1 AAATTAAATATAATATTTA
*
26541419 AAATTAAAT-TAAAATTTA
1 AAATTAAATATAATATTTA
26541437 AAA
1 AAA
26541440 AATATATTAG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 18 0.58
19 13 0.42
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AAATTAAATATAATATTTA
Found at i:26541815 original size:28 final size:30
Alignment explanation
Indices: 26541783--26541843 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
26541773 ATTTGTATGC
26541783 GTCATATC-ATGTTT-A-TATTTTTATTTTG
1 GTCAT-TCAATGTTTAAGTATTTTTATTTTG
*
26541811 GTCATTCAATTTTTAAGTTATTTTTATTTTG
1 GTCATTCAATGTTTAAG-TATTTTTATTTTG
26541842 GT
1 GT
26541844 TACTTAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 2 0.07
28 10 0.36
29 1 0.04
31 15 0.54
ACGTcount: A:0.21, C:0.07, G:0.11, T:0.61
Consensus pattern (30 bp):
GTCATTCAATGTTTAAGTATTTTTATTTTG
Found at i:26554299 original size:1 final size:1
Alignment explanation
Indices: 26554293--26554341 Score: 80
Period size: 1 Copynumber: 49.0 Consensus size: 1
26554283 GCAAATGCTT
* *
26554293 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCACCCCCCCCCCTCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
26554342 TTCCATTGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.02, C:0.96, G:0.00, T:0.02
Consensus pattern (1 bp):
C
Found at i:26564863 original size:16 final size:16
Alignment explanation
Indices: 26564842--26564894 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
26564832 TGGTTCGCTA
26564842 TAATGGAATAGAGTTG
1 TAATGGAATAGAGTTG
* *
26564858 TAATGGTAATAGAGCTA
1 TAATGG-AATAGAGTTG
*
26564875 TAATGAAATAG-GATTG
1 TAATGGAATAGAG-TTG
26564891 TAAT
1 TAAT
26564895 CAGTATTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 1 0.03
16 16 0.53
17 13 0.43
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.32
Consensus pattern (16 bp):
TAATGGAATAGAGTTG
Found at i:26564878 original size:17 final size:16
Alignment explanation
Indices: 26564838--26564885 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
26564828 CGTTTGGTTC
26564838 GCTATAATGGAATAGA
1 GCTATAATGGAATAGA
* *
26564854 GTTGTAATGGTAATAGA
1 GCTATAATGG-AATAGA
*
26564871 GCTATAATGAAATAG
1 GCTATAATGGAATAG
26564886 GATTGTAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.29
Consensus pattern (16 bp):
GCTATAATGGAATAGA
Found at i:26565138 original size:35 final size:37
Alignment explanation
Indices: 26565099--26565179 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 37
26565089 TAATAAAAAA
* *
26565099 TAAATAT-TTTAATAATATT-TTAACT-TGATTATTAT
1 TAAATATATTTAATAACATTCTTAA-TATAATTATTAT
26565134 TAAATATAATTTAATAACATTCTTAATATAATTATTAT
1 TAAATAT-ATTTAATAACATTCTTAATATAATTATTAT
26565172 TAAA-ATAT
1 TAAATATAT
26565180 GAATTAGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
35 7 0.17
36 2 0.05
37 14 0.35
38 17 0.43
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (37 bp):
TAAATATATTTAATAACATTCTTAATATAATTATTAT
Found at i:26565200 original size:39 final size:38
Alignment explanation
Indices: 26565126--26565201 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
26565116 TTTTAACTTG
* * *
26565126 ATTATTATTAAATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATCATAATATA
*
26565164 ATTATTATTAAAATATGAA-TTAGTAAAAATCATAATAT
1 ATTATTATT-AAATAT-AATTTAATAAAAATCATAATAT
26565202 GTAATATTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 9 0.28
39 21 0.66
40 2 0.06
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (38 bp):
ATTATTATTAAATATAATTTAATAAAAATCATAATATA
Found at i:26572464 original size:22 final size:22
Alignment explanation
Indices: 26572438--26572479 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
26572428 ATTTTAAATT
*
26572438 TTTAATACT-TTATATTATTTTA
1 TTTAATA-TATTATATAATTTTA
26572460 TTTAATATATTATATAATTT
1 TTTAATATATTATATAATTT
26572480 AGAACACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTAATATATTATATAATTTTA
Found at i:26585950 original size:21 final size:22
Alignment explanation
Indices: 26585910--26585950 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
26585900 CAACGGCTAC
*
26585910 GAAATAAAATACTAAAGAAAAG
1 GAAAGAAAATACTAAAGAAAAG
*
26585932 GAAAGAAAA-ACTAATGAAA
1 GAAAGAAAATACTAAAGAAA
26585951 GCTGGCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.68, C:0.05, G:0.15, T:0.12
Consensus pattern (22 bp):
GAAAGAAAATACTAAAGAAAAG
Found at i:26603754 original size:53 final size:52
Alignment explanation
Indices: 26603673--26604067 Score: 403
Period size: 53 Copynumber: 7.3 Consensus size: 52
26603663 CGAAACGATG
* * * *
26603673 CTGTTTTGAGGCACATGGACTGACACACGGACATGTGTCAAGGTGTGTGTATA
1 CTGTTTTGAGGCACATGGGCTGA-ACACGGGCGTGTGTCAGGGTGTGTGTATA
*
26603726 CTGTTTTGAGGCACATGGGCTAGAACACGGGCGTGTGTCAGGGTGTGTGCATA
1 CTGTTTTGAGGCACATGGGCT-GAACACGGGCGTGTGTCAGGGTGTGTGTATA
* * * * *
26603779 TTGTTTGGAGGAACATGGGCTGACACATGGGCGTGTGTCAGGGTTTGTGTATA
1 CTGTTTTGAGGCACATGGGCTGA-ACACGGGCGTGTGTCAGGGTGTGTGTATA
* * *
26603832 CAGTTTGGAGGCACATGGGCTGGCACACGGGCGTGTGTCAAGGTGTGTGTGTGTATA
1 CTGTTTTGAGGCACATGGGCT-GAACACGGGCGTGTGTC-A-G-G-GTGTGTGTATA
* * * * * * *
26603889 CTATTTGGAGGCACACGAGCTGGTACACGAGCTTGTGTCAGGGTGTGTGTGTATA
1 CTGTTTTGAGGCACATGGGCT-GAACACGGGCGTGTGTCA-GG-GTGTGTGTATA
* * * * *
26603944 CTATTTTGAGGCACACGGGCTAGCATATGGGCGTGTGTCAGGGTGTGTGTATA
1 CTGTTTTGAGGCACATGGGCT-GAACACGGGCGTGTGTCAGGGTGTGTGTATA
* * *
26603997 CTATTTTGGGGCACATGAGCTGAGACACGGGCGTGTGTCAGGGTGTGTGTATA
1 CTGTTTTGAGGCACATGGGCTGA-ACACGGGCGTGTGTCAGGGTGTGTGTATA
* *
26604050 ATGTTTTGAGACACATGG
1 CTGTTTTGAGGCACATGG
26604068 TCTGTAATAA
Statistics
Matches: 291, Mismatches: 43, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.01
53 190 0.65
54 6 0.02
55 46 0.16
56 4 0.01
57 42 0.14
ACGTcount: A:0.20, C:0.15, G:0.36, T:0.29
Consensus pattern (52 bp):
CTGTTTTGAGGCACATGGGCTGAACACGGGCGTGTGTCAGGGTGTGTGTATA
Found at i:26604012 original size:165 final size:162
Alignment explanation
Indices: 26603676--26604046 Score: 430
Period size: 165 Copynumber: 2.3 Consensus size: 162
26603666 AACGATGCTG
* * * * * * *
26603676 TTTTGAGGCACATGGACTGACACACGGACATGTGTCAA---G-GTGTGTGTATACTGTTTTGAGG
1 TTTTGGGGCACATGGGCTGGCACACGGGCGTGTGTCAAGGTGTGTGTGTGTATACTATTTGGAGG
* * * * * *
26603737 CACATGGGCTAGAACACGGGCGTGTGTCAGGGTGTGTGCATATTGTTTGGAGGAACATGGGCTGA
66 CACACGAGCTAGAACACGAGCGTGTGTCAGGGTGTGTGCATACTATTTGGAGGAACACGGGCTGA
*
26603802 CACATGGGCGTGTGTCAGGGTTTGTGTATACA
131 CACATGGGCGTGTGTCAGGGTGTGTGTATACA
*
26603834 GTTTGGAGGCACATGGGCTGGCACACGGGCGTGTGTCAAGGTGTGTGTGTGTATACTATTTGGAG
1 TTTTGG-GGCACATGGGCTGGCACACGGGCGTGTGTCAAGGTGTGTGTGTGTATACTATTTGGAG
* * * * * *
26603899 GCACACGAGCTGGTACACGAGCTTGTGTCAGGGTGTGTGTGTATACTATTTTGAGGCACACGGGC
65 GCACACGAGCTAGAACACGAGCGTGTGTCA-GG-GTGTGTGCATACTATTTGGAGGAACACGGGC
*
26603964 T-AGCATATGGGCGTGTGTCAGGGTGTGTGTATACTA
128 TGA-CACATGGGCGTGTGTCAGGGTGTGTGTATAC-A
* *
26604000 TTTTGGGGCACATGAGCTGAG-ACACGGGCGTGTGTCAGGGTGTGTGT
1 TTTTGGGGCACATGGGCTG-GCACACGGGCGTGTGTCAAGGTGTGTGT
26604047 ATAATGTTTT
Statistics
Matches: 178, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
158 4 0.02
159 28 0.16
162 1 0.01
163 43 0.24
164 3 0.02
165 92 0.52
166 7 0.04
ACGTcount: A:0.19, C:0.15, G:0.37, T:0.29
Consensus pattern (162 bp):
TTTTGGGGCACATGGGCTGGCACACGGGCGTGTGTCAAGGTGTGTGTGTGTATACTATTTGGAGG
CACACGAGCTAGAACACGAGCGTGTGTCAGGGTGTGTGCATACTATTTGGAGGAACACGGGCTGA
CACATGGGCGTGTGTCAGGGTGTGTGTATACA
Found at i:26604598 original size:12 final size:12
Alignment explanation
Indices: 26604583--26604633 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
26604573 TTAGATTTAT
26604583 TTTAAGATTAAA
1 TTTAAGATTAAA
***
26604595 TTTATTCTTAAA
1 TTTAAGATTAAA
*
26604607 TTTAA-ATTTAA
1 TTTAAGATTAAA
*
26604618 TTTAAGTTTAAA
1 TTTAAGATTAAA
26604630 TTTA
1 TTTA
26604634 TTTTTAAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (12 bp):
TTTAAGATTAAA
Found at i:26604611 original size:6 final size:6
Alignment explanation
Indices: 26604602--26604665 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
26604592 AAATTTATTC
* ** *
26604602 TTAAAT TTAAAT TT-AAT TTAAGT TTAAAT TTATTT TTAAAT TTAAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
26604649 TT--AT TCTAAAT TTAAAT
1 TTAAAT T-TAAAT TTAAAT
26604666 AATGAAAGCC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
4 2 0.04
5 6 0.13
6 35 0.76
7 3 0.07
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:26604616 original size:35 final size:35
Alignment explanation
Indices: 26604572--26604653 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
26604562 CTAAACCCAT
*
26604572 TTTAGATTTATTTTAAGATTAAATTTATTCTTAAA
1 TTTAAATTTATTTTAAGATTAAATTTATTCTTAAA
* * *
26604607 TTTAAATTTAATTTAAGTTTAAATTTATTTTTAAA
1 TTTAAATTTATTTTAAGATTAAATTTATTCTTAAA
*
26604642 TTTAAAATTATT
1 TTTAAATTTATT
26604654 CTAAATTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (35 bp):
TTTAAATTTATTTTAAGATTAAATTTATTCTTAAA
Found at i:26604639 original size:12 final size:12
Alignment explanation
Indices: 26604590--26604646 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
26604580 TATTTTAAGA
26604590 TTAAATTT-ATT
1 TTAAATTTAATT
*
26604601 CTTAAATTTAAAT
1 -TTAAATTTAATT
*
26604614 TT-AATTTAAGT
1 TTAAATTTAATT
*
26604625 TTAAATTTATTT
1 TTAAATTTAATT
26604637 TTAAATTTAA
1 TTAAATTTAA
26604647 AATTATTCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
11 10 0.26
12 26 0.68
13 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (12 bp):
TTAAATTTAATT
Found at i:26604660 original size:17 final size:17
Alignment explanation
Indices: 26604572--26604665 Score: 93
Period size: 17 Copynumber: 5.4 Consensus size: 17
26604562 CTAAACCCAT
* *
26604572 TTTAGATTTATTTTAAGA
1 TTTAAATTTATTCTAA-A
26604590 -TTAAATTTATTCTTAAA
1 TTTAAATTTATTC-TAAA
*
26604607 TTTAAATTTAATT-TAAG
1 TTTAAATTT-ATTCTAAA
*
26604624 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTCTAAA
*
26604642 TTTAAAATTATTCTAAA
1 TTTAAATTTATTCTAAA
26604659 TTTAAAT
1 TTTAAAT
26604666 AATGAAAGCC
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
16 1 0.02
17 37 0.58
18 23 0.36
19 3 0.05
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTCTAAA
Found at i:26604663 original size:35 final size:35
Alignment explanation
Indices: 26604590--26604665 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
26604580 TATTTTAAGA
* *
26604590 TTAAATTTATTCTTAAATTTAAATTTAATTTAAGT
1 TTAAATTTATTCTTAAATTTAAAATTAATTTAAAT
*
26604625 TTAAATTTATTTTTAAATTTAAAATT-ATTCTAAAT
1 TTAAATTTATTCTTAAATTTAAAATTAATT-TAAAT
26604660 TTAAAT
1 TTAAAT
26604666 AATGAAAGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 3 0.08
35 34 0.92
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (35 bp):
TTAAATTTATTCTTAAATTTAAAATTAATTTAAAT
Found at i:26605071 original size:6 final size:6
Alignment explanation
Indices: 26605051--26605109 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
26605041 TTAAATGGGT
* * *
26605051 TTTAAA TTT-AT TTTAAA TTTAAA TTTACTCA TTTAAA TTT-AC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA
*
26605099 TTTAAG TTTAA
1 TTTAAA TTTAA
26605110 TCAAATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:26605086 original size:14 final size:14
Alignment explanation
Indices: 26605067--26605093 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26605057 TTTATTTTAA
26605067 ATTTAAATTTACTC
1 ATTTAAATTTACTC
26605081 ATTTAAATTTACT
1 ATTTAAATTTACT
26605094 TTAAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAAATTTACTC
Found at i:26605198 original size:28 final size:24
Alignment explanation
Indices: 26605166--26605232 Score: 98
Period size: 24 Copynumber: 2.6 Consensus size: 24
26605156 TTACAAATGT
26605166 CCAATTACAAACAAACCCAAATCGGGGC
1 CCAATTACAAACAAACCC--ATC--GGC
26605194 CCAATTACAAACAAACCCATCGGC
1 CCAATTACAAACAAACCCATCGGC
26605218 CCAATTACAAACAAA
1 CCAATTACAAACAAA
26605233 TCCAGATCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
24 18 0.46
26 3 0.08
28 18 0.46
ACGTcount: A:0.46, C:0.33, G:0.09, T:0.12
Consensus pattern (24 bp):
CCAATTACAAACAAACCCATCGGC
Found at i:26606190 original size:29 final size:29
Alignment explanation
Indices: 26606158--26606346 Score: 135
Period size: 29 Copynumber: 6.4 Consensus size: 29
26606148 CAAAACCTTG
26606158 AAAATCCCATTTTTAACCCCG-ATTTCACC
1 AAAATCCCATTTTTAACCCCGAATTTC-CC
* *
26606187 AAAAATTACCA-TTTTACCCCCGAACTTT-CC
1 -AAAA-TCCCATTTTTAACCCCGAA-TTTCCC
*
26606217 AAAATCCCATTTTTAATCCCG-ATTTCACC
1 AAAATCCCATTTTTAACCCCGAATTTC-CC
* * *
26606246 AAAAATTACCA-TTTTACCCCCGAACTTT-TC
1 -AAAA-TCCCATTTTTAACCCCGAA-TTTCCC
*
26606276 AAAATCCCATTTTTAACCCCG-GTTTCACC
1 AAAATCCCATTTTTAACCCCGAATTTC-CC
* *
26606305 AAAATTACCA-TTTT-ACCCTCGAATTTCCT
1 AAAA-TCCCATTTTTAACCC-CGAATTTCCC
26606334 AAAATCCCATTTT
1 AAAATCCCATTTT
26606347 CGACTCTGAT
Statistics
Matches: 125, Mismatches: 17, Indels: 35
0.71 0.10 0.20
Matches are distributed among these distances:
27 6 0.05
28 17 0.14
29 48 0.38
30 38 0.30
31 10 0.08
32 6 0.05
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATCCCATTTTTAACCCCGAATTTCCC
Found at i:26606338 original size:58 final size:59
Alignment explanation
Indices: 26606127--26606386 Score: 339
Period size: 59 Copynumber: 4.4 Consensus size: 59
26606117 CCTAAACTGT
** * *
26606127 CCAAAAATTA-CATTTTAACCCCAAAACCTT-GAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTT-ACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
*
26606185 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAATCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* *
26606244 CCAAAAATTACCATTTTACCCCCGAACTTTTCAAAATCCCATTTTTAACCCCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* ** * * *
26606303 CC-AAAATTACCATTTTACCCTCGAA-TTTCCTAAAATCCCATTTTCGACTCTGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCC-AAAATCCCATTTTTAACCCCGATTTCA
**
26606361 CCAAAAATTACGTTTTTACCCCCGAA
1 CCAAAAATTACCATTTTACCCCCGAA
26606387 AGTTAAAAAT
Statistics
Matches: 179, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
57 4 0.02
58 65 0.36
59 110 0.61
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:26606338 original size:117 final size:117
Alignment explanation
Indices: 26606127--26606386 Score: 348
Period size: 117 Copynumber: 2.2 Consensus size: 117
26606117 CCTAAACTGT
** *
26606127 CCAAAAATTA-CATTTTAACCCCAAAACCTTGAAAATCCCATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTT-ACCCCCGAACCTTCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
*
26606191 ATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAA-TCCCGATTTCA
65 ATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTCAACT-CCGATTTCA
* *
26606244 CCAAAAATTACCATTTTACCCCCGAACTTTTCAAAATCCCATTTTTAACCCCGGTTTCACC-AAA
1 CCAAAAATTACCATTTTACCCCCGAAC-CTTCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
* * * *
26606308 ATTACCATTTTACCCTCGAA-TTTCCTAAAATCCCATTTTCGACTCTGATTTTA
65 ATTACCATTTTACCCCCGAACTTTCC-AAAATCCCATTTTCAACTCCGATTTCA
**
26606361 CCAAAAATTACGTTTTTACCCCCGAA
1 CCAAAAATTACCATTTTACCCCCGAA
26606387 AGTTAAAAAT
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
116 5 0.04
117 85 0.67
118 37 0.29
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCCGAACCTTCAAAATCCCATTTTTAACCCCGATTTCACCAAAAA
TTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTCAACTCCGATTTCA
Found at i:26607639 original size:17 final size:17
Alignment explanation
Indices: 26607612--26607704 Score: 73
Period size: 17 Copynumber: 5.4 Consensus size: 17
26607602 CAAAACGCAT
*
26607612 TTTAGATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
26607630 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
***
26607646 TTTAAATTTAAAAATAAA
1 TTTAAATTT-ATTTTAAA
* *
26607664 -ATAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
* *
26607681 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
26607698 TTTAAAT
1 TTTAAAT
26607705 AATGACAGCC
Statistics
Matches: 57, Mismatches: 14, Indels: 9
0.71 0.17 0.11
Matches are distributed among these distances:
16 2 0.04
17 41 0.72
18 14 0.25
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:26614427 original size:92 final size:92
Alignment explanation
Indices: 26614307--26614903 Score: 991
Period size: 92 Copynumber: 6.5 Consensus size: 92
26614297 TCACATCAAT
* * * *
26614307 CCAACATCATTCTCCTATCCACATGAAATTGAAGTAAAGCTGGATAACAAGCCTTTGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
*
26614372 AAATTGAAGTAAGAGTAAAATGAATCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
*
26614399 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAGGCTGGATAACAAGCCTTCGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
26614464 AAATTGAAGTAAGAGTAAAATGAAGCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
* *
26614491 TCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAA
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
26614556 AAATTGAAGTAA-AGTAAAATGAAGCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
*
26614582 TCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
26614647 AAATTGAAGTAAGAGTAAAATGAAGCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
* *
26614674 CCAATATCATTTTTCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
26614739 AAATTGAAGTAAGAGTAAAATGAAGCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
* * * *
26614766 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTGCGTGCTTCTG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
* * *
26614831 AAATCGAAATAAGAGTAAGAA-GAAGGA
66 AAATTGAAGTAAGAGTAA-AATGAAGCA
* *
26614858 CCAACATCATTTTCCTATCCTCTGGAAATTGAAGTAGAGCTGGATA
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATA
26614904 TCAAATCATT
Statistics
Matches: 479, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
91 90 0.19
92 387 0.81
93 2 0.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (92 bp):
CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
AAATTGAAGTAAGAGTAAAATGAAGCA
Found at i:26614799 original size:275 final size:276
Alignment explanation
Indices: 26614307--26614903 Score: 991
Period size: 275 Copynumber: 2.2 Consensus size: 276
26614297 TCACATCAAT
* * * *
26614307 CCAACATCATTCTCCTATCCACATGAAATTGAAGTAAAGCTGGATAACAAGCCTTTGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
* *
26614372 AAATTGAAGTAAGAGTAAAATGAATCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAG
66 AAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAA
*
26614437 GCTGGATAACAAGCCTTCGTCCCTCAGAAATTGAAGTAAGAGTAAAATGAAGCATCAACATCATT
131 GCTGGATAACAAGCCTTCGTCCCTCAGAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATT
* * *
26614502 TTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAAAAATTGAAGTA
196 TTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTGCGTCCCTCAAAAATCGAAATA
26614567 A-AGTAA-AATGAAGCA
261 AGAGTAAGAA-GAAGCA
*
26614582 TCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
* *
26614647 AAATTGAAGTAAGAGTAAAATGAAGCACCAATATCATTTTTCTATCCTCTTGAAATTGAAGTAAA
66 AAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAA
26614712 GCTGGATAACAAGCCTTCGTCCCTCAGAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATT
131 GCTGGATAACAAGCCTTCGTCCCTCAGAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATT
* * **
26614777 TTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTGCGTGCTTCTGAAATCGAAATA
196 TTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTGCGTCCCTCAAAAATCGAAATA
*
26614842 AGAGTAAGAAGAAGGA
261 AGAGTAAGAAGAAGCA
* *
26614858 CCAACATCATTTTCCTATCCTCTGGAAATTGAAGTAGAGCTGGATA
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATA
26614904 TCAAATCATT
Statistics
Matches: 299, Mismatches: 21, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
275 244 0.82
276 53 0.18
277 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (276 bp):
CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
AAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAA
GCTGGATAACAAGCCTTCGTCCCTCAGAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATT
TTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTGCGTCCCTCAAAAATCGAAATA
AGAGTAAGAAGAAGCA
Found at i:26615241 original size:11 final size:11
Alignment explanation
Indices: 26615227--26615295 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
26615217 TTTAAATGGG
26615227 TTTTAAATTTA
1 TTTTAAATTTA
26615238 TTTTAAATTTAA
1 TTTTAAATTT-A
* *
26615250 ATTT-ATTTTA
1 TTTTAAATTTA
*
26615260 ATTTAAATTTA
1 TTTTAAATTTA
26615271 CTCATTTAAATTTA
1 -T--TTTAAATTTA
*
26615285 CTTTAAATTTA
1 TTTTAAATTTA
26615296 AGTTTAATCA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
10 5 0.10
11 29 0.60
12 4 0.08
14 10 0.21
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:26615248 original size:6 final size:6
Alignment explanation
Indices: 26615228--26615302 Score: 59
Period size: 6 Copynumber: 12.8 Consensus size: 6
26615218 TTAAATGGGT
* * *
26615228 TTTAAA TTT-AT TTTAAA TTTAAA TTT--A TTTTAA TTTAAA TTTACTCA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
* *
26615275 TTTAAA TTT-AC TTTAAA TTTAAG TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
26615303 TCAAATTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
4 4 0.07
5 8 0.15
6 38 0.69
8 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:26615279 original size:14 final size:14
Alignment explanation
Indices: 26615260--26615286 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26615250 ATTTATTTTA
26615260 ATTTAAATTTACTC
1 ATTTAAATTTACTC
26615274 ATTTAAATTTACT
1 ATTTAAATTTACT
26615287 TTAAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAAATTTACTC
Found at i:26615280 original size:30 final size:31
Alignment explanation
Indices: 26615244--26615301 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
26615234 TTTATTTTAA
*
26615244 ATTTAAATTTA-TTTTAATTTAAATTTACTC
1 ATTTAAATTTACTTTAAATTTAAATTTACTC
*
26615274 ATTTAAATTTACTTTAAATTTAAGTTTA
1 ATTTAAATTTACTTTAAATTTAAATTTA
26615302 ATCAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTACTC
Found at i:26615411 original size:24 final size:27
Alignment explanation
Indices: 26615361--26615416 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
26615351 ACAAATGTCT
*
26615361 AATTACAAACAAACCCAAATTGGGGCCC
1 AATTACAAACAAACCC-AATTGCGGCCC
26615389 AATTACAAACAAACCC-A-T-CGGCCC
1 AATTACAAACAAACCCAATTGCGGCCC
26615413 AATT
1 AATT
26615417 GGCCCAAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 9 0.33
25 1 0.04
26 1 0.04
28 16 0.59
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.16
Consensus pattern (27 bp):
AATTACAAACAAACCCAATTGCGGCCC
Found at i:26617978 original size:17 final size:17
Alignment explanation
Indices: 26617951--26618044 Score: 73
Period size: 17 Copynumber: 5.4 Consensus size: 17
26617941 CAAAACGCAT
*
26617951 TTTAGATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
26617969 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
***
26617985 TTTAAATTTAAAAATAAA
1 TTTAAATTT-ATTTTAAA
** *
26618003 AATAAATTTTTTTTAAAA
1 TTTAAATTTATTTT-AAA
* *
26618021 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
26618038 TTTAAAT
1 TTTAAAT
26618045 AATGACAGCC
Statistics
Matches: 57, Mismatches: 16, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
16 1 0.02
17 32 0.56
18 24 0.42
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:26624266 original size:92 final size:92
Alignment explanation
Indices: 26624148--26624929 Score: 1334
Period size: 92 Copynumber: 8.5 Consensus size: 92
26624138 TCACATCAAT
* * *
26624148 CCAACATCATTCTCCTATCCACTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTTGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
26624213 AAATTGAAGTAAGAGTAAAATGAAGCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
*
26624240 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAGGCTGGATAACAAGCCTTCGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
26624305 AAATTGAAGTAAGAGTAAAATGAAGCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
* * * * *
26624332 TCAACATCATTTTCCTATCCTCTTGAAATTGAAATAAAGTTGGATAACAATCCTTCGTCCCTCAA
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
26624397 AAATTGAAGTAAGAGTAAAATGAAGCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
*
26624424 TCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
26624489 AAATTGAAGTAAGAGTAAAATGAAGCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
26624516 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGT-AAGACTGGATAACAAGCCTTCGTCCCTCA
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAG-CTGGATAACAAGCCTTCGTCCCTCA
26624580 GAAATTGAAGTAAGAGTAAAATGAAGCA
65 GAAATTGAAGTAAGAGTAAAATGAAGCA
26624608 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
* *
26624673 AAATTGAAGTAGGAGTAGAATGAAGCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
*
26624700 CCAACATCATTTTTCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
*
26624765 AAATTGAAGTAAGAGTAGAATGAAGCA
66 AAATTGAAGTAAGAGTAAAATGAAGCA
* * * *
26624792 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTGCATCCTTCTG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
* * *
26624857 AAATCGAAATAAGAGTAAGAA-GAAGGA
66 AAATTGAAGTAAGAGTAA-AATGAAGCA
*
26624884 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATA
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATA
26624930 TCAAATCATT
Statistics
Matches: 658, Mismatches: 29, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
91 3 0.00
92 650 0.99
93 5 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (92 bp):
CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAG
AAATTGAAGTAAGAGTAAAATGAAGCA
Found at i:26624676 original size:40 final size:40
Alignment explanation
Indices: 26624632--26624776 Score: 112
Period size: 40 Copynumber: 3.3 Consensus size: 40
26624622 CTATCCTCTT
26624632 GAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
1 GAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
* * * ** *
26624672 GAAATTGAAGTAGGAG-TAGAATGAAGCACCAACATCATTTTTCTATCCTCTT
1 GAAATTGAAGTA-AAGCT-GGAT-AA-CA--AGC--C-TTCGTC---CCTC-A
26624724 GAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
1 GAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
26624764 GAAATTGAAGTAA
1 GAAATTGAAGTAA
26624777 GAGTAGAATG
Statistics
Matches: 79, Mismatches: 12, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
40 26 0.33
41 9 0.11
42 2 0.03
43 2 0.03
44 4 0.05
45 3 0.04
47 3 0.04
48 4 0.05
49 2 0.03
50 2 0.03
51 9 0.11
52 13 0.16
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (40 bp):
GAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
Found at i:26625266 original size:11 final size:11
Alignment explanation
Indices: 26625252--26625321 Score: 61
Period size: 11 Copynumber: 6.0 Consensus size: 11
26625242 TTTAAATGGG
26625252 TTTTAAATTTA
1 TTTTAAATTTA
26625263 TTTTAAATTTAA
1 TTTTAAATTT-A
* *
26625275 ATTT-ATTTTAA
1 TTTTAAATTT-A
26625286 TTTTAAATTTA
1 TTTTAAATTTA
26625297 CTCATTTAAATTTA
1 -T--TTTAAATTTA
*
26625311 CTTTAAATTTA
1 TTTTAAATTTA
26625322 AGTTTAATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
11 30 0.61
12 9 0.18
14 10 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:26625273 original size:6 final size:6
Alignment explanation
Indices: 26625253--26625328 Score: 59
Period size: 6 Copynumber: 12.8 Consensus size: 6
26625243 TTAAATGGGT
* * * *
26625253 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AT TTTAAT TTTAAA TTTACTCA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
* *
26625301 TTTAAA TTT-AC TTTAAA TTTAAG TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
26625329 TCAAATTTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
5 12 0.21
6 39 0.70
8 5 0.09
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:26625273 original size:17 final size:17
Alignment explanation
Indices: 26625253--26625327 Score: 84
Period size: 17 Copynumber: 4.6 Consensus size: 17
26625243 TTAAATGGGT
26625253 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
26625270 TTTAAATTTATTTTAAT
1 TTTAAATTTATTTTAAA
* *
26625287 TTTAAATTTA--CT-CA
1 TTTAAATTTATTTTAAA
*
26625301 TTTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
*
26625318 TTTAAGTTTA
1 TTTAAATTTA
26625328 ATCAAATTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
14 10 0.21
15 1 0.02
16 1 0.02
17 36 0.75
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:26625307 original size:31 final size:31
Alignment explanation
Indices: 26625269--26625327 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
26625259 TTTATTTTAA
* *
26625269 ATTTAAATTTATTTTAATTTTAAATTTACTC
1 ATTTAAATTTACTTTAAATTTAAATTTACTC
*
26625300 ATTTAAATTTACTTTAAATTTAAGTTTA
1 ATTTAAATTTACTTTAAATTTAAATTTA
26625328 ATCAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTACTC
Found at i:26627393 original size:30 final size:30
Alignment explanation
Indices: 26627349--26627510 Score: 128
Period size: 29 Copynumber: 5.5 Consensus size: 30
26627339 CAAAACCTTG
*
26627349 AAAATT-CCATTTTTAACCTCGATTTCACCA
1 AAAATTACCA-TTTTAACCCCGATTTCACCA
* *
26627379 AAAATTATCATTTTACCCCCGAACTTT--CC-
1 AAAATTACCATTTTAACCCCG-A-TTTCACCA
*
26627408 AAAA-TCCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCA-TTTTAACCCCGATTTCACCA
*
26627438 AAAATTACCATTTTACCCCCGAACTTT--CC-
1 AAAATTACCATTTTAACCCCG-A-TTTCACCA
* *
26627467 AAAA-TCCCATTTTTAACCCCGGTTTCACC-
1 AAAATTACCA-TTTTAACCCCGATTTCACCA
26627496 AAAATTACCATTTTA
1 AAAATTACCATTTTA
26627511 CCTCCGAATT
Statistics
Matches: 106, Mismatches: 12, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
27 6 0.06
28 8 0.08
29 41 0.39
30 37 0.35
31 8 0.08
32 6 0.06
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (30 bp):
AAAATTACCATTTTAACCCCGATTTCACCA
Found at i:26627421 original size:29 final size:28
Alignment explanation
Indices: 26627389--26627538 Score: 119
Period size: 29 Copynumber: 5.1 Consensus size: 28
26627379 AAAATTATCA
26627389 TTTTACCCCCGAACTTTCCAAAATCCCAT
1 TTTTACCCCCGAA-TTTCCAAAATCCCAT
* *
26627418 TTTTAACCCCG-ATTTCACCAAAAATTACCA-
1 TTTTACCCCCGAATTT--CC-AAAA-TCCCAT
26627448 TTTTACCCCCGAACTTTCCAAAATCCCAT
1 TTTTACCCCCGAA-TTTCCAAAATCCCAT
* * *
26627477 TTTTAACCCCG-GTTTCACCAAAATTACCA-
1 TTTTACCCCCGAATTT--CCAAAA-TCCCAT
* *
26627506 TTTTACCTCCGAATTTCCTAAAATCCTAT
1 TTTTACCCCCGAATTTCC-AAAATCCCAT
26627535 TTTT
1 TTTT
26627539 GACTTCGATG
Statistics
Matches: 96, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
27 6 0.06
28 10 0.10
29 49 0.51
30 23 0.24
31 5 0.05
32 3 0.03
ACGTcount: A:0.29, C:0.32, G:0.04, T:0.35
Consensus pattern (28 bp):
TTTTACCCCCGAATTTCCAAAATCCCAT
Found at i:26627529 original size:58 final size:59
Alignment explanation
Indices: 26627318--26627576 Score: 323
Period size: 59 Copynumber: 4.4 Consensus size: 59
26627308 CCTAAACTGT
** * * * *
26627318 CCAAAAATTA-CATTTTGACCCCAAAACCTT-GAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTT-ACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
*
26627376 CCAAAAATTATCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
*
26627435 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * * ** *
26627494 CC-AAAATTACCATTTTACCTCCGAA-TTTCCTAAAATCCTATTTTTGACTTCGATGTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCC-AAAATCCCATTTTTAACCCCGATTTCA
26627552 CC-AAAATTA-CATTTTTACCCCCGAA
1 CCAAAAATTACCA-TTTTACCCCCGAA
26627577 AGTTAAAATT
Statistics
Matches: 181, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
57 7 0.04
58 84 0.46
59 90 0.50
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:26628828 original size:17 final size:17
Alignment explanation
Indices: 26628800--26628894 Score: 93
Period size: 18 Copynumber: 5.4 Consensus size: 17
26628790 ACAAAACCCG
26628800 TTTAAGATTTATTTTAAGA
1 TTTAA-ATTTATTTTAA-A
26628819 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
***
26628835 TTTAAATTTAAAAATAAA
1 TTTAAATTT-ATTTTAAA
*
26628853 TTTAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
* *
26628871 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
26628888 TTTAAAT
1 TTTAAAT
26628895 AATGAAAGCC
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
16 1 0.02
17 29 0.47
18 32 0.52
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:26628838 original size:6 final size:6
Alignment explanation
Indices: 26628819--26628861 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
26628809 TATTTTAAGA
* * *
26628819 TTAAAT TT-ATT TTAAAT TTAAAT TTAAAA ATAAAT TTAAAT TT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT
26628862 GTTTTAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTAAAT
Found at i:26630571 original size:5 final size:5
Alignment explanation
Indices: 26630561--26630587 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
26630551 TAGTTTCCTT
26630561 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
26630588 ATGACAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:26635214 original size:7 final size:8
Alignment explanation
Indices: 26635204--26635238 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
26635194 TTCAAAACCC
*
26635204 AAAATAAA
1 AAAATACA
26635212 AAAATA-A
1 AAAATACA
26635219 AAAATACA
1 AAAATACA
26635227 AAAATACA
1 AAAATACA
26635235 AAAA
1 AAAA
26635239 AGAAATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATACA
Found at i:26635222 original size:15 final size:16
Alignment explanation
Indices: 26635204--26635238 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
26635194 TTCAAAACCC
26635204 AAAATAAAAAAATA-A
1 AAAATAAAAAAATACA
*
26635219 AAAATACAAAAATACA
1 AAAATAAAAAAATACA
26635235 AAAA
1 AAAA
26635239 AGAAATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAATAAAAAAATACA
Found at i:26637406 original size:49 final size:49
Alignment explanation
Indices: 26637263--26637820 Score: 356
Period size: 49 Copynumber: 11.4 Consensus size: 49
26637253 GTTGAGGCGA
26637263 CAACGGCGAACCTTA-TACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
1 CAACGGCGAACC-TAGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
* * * ** * * * * *
26637312 CAATGGTGAAATCTAGTACGAC-GAAGATATGGAGGGAAGGGTTTAAGTCG
1 CAACGGCG-AACCTAGTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCG
*
26637362 CAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
1 CAACGGCGAACCTAGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
* * * * * * * * *
26637411 CAACGGTGAATCC-AGTACCACA-AGGATATGGAGAGAAAGGTTTAAGTCA
1 CAACGGCGAA-CCTAGTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCG
* * * * *
26637460 CAACGACAAACCTTGTACCTCAGAAGCGTAAAGGGAAAGATTTAAGCCG
1 CAACGGCGAACCTAGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
* * * * * *
26637509 CAATGGCGAATCC-AGTACCAC-GAAGATATAAAAGGAAAGGTTTAAGCCG
1 CAACGGCGAA-CCTAGTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCG
* * *
26637558 CAACGGCGAACCTAGTACCTCAAAAGCACGAAGGGAAAGATTTAAGCTG
1 CAACGGCGAACCTAGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
* * * * * * *
26637607 CAACGGTGAATCTACTA-C-AAGAAG-ATGTTAAAGGAAAGGTTTAAGTCG
1 CAACGGCGAACCTAGTACCTCAGAAGCATG--AAGGGAAAGATTTAAGCCG
* * * *
26637655 TAATGGCGAACCTTA-TACCTCAGAGGACGTGAAGGGAAAGATTTAAGCCG
1 CAACGGCGAACC-TAGTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCG
* * * * *
26637705 CAATGACGAATCC-AGTACC-AAGAAG-ATGTTAAGGGAAAGGTTTAAGTCG
1 CAACGGCGAA-CCTAGTACCTCAGAAGCATG--AAGGGAAAGATTTAAGCCG
* * * *
26637754 TAATGACGAACCTTA-TACCTCAG-AGACAT-AAAGGAAAGATTTAAGCCG
1 CAACGGCGAACC-TAGTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCG
* *
26637802 CAACAGCGAATCTAGTACC
1 CAACGGCGAACCTAGTACC
26637821 GCAAAGACAT
Statistics
Matches: 380, Mismatches: 100, Indels: 59
0.71 0.19 0.11
Matches are distributed among these distances:
46 2 0.01
47 8 0.02
48 65 0.17
49 220 0.58
50 79 0.21
51 4 0.01
52 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (49 bp):
CAACGGCGAACCTAGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
Found at i:26637481 original size:98 final size:97
Alignment explanation
Indices: 26637263--26637820 Score: 586
Period size: 98 Copynumber: 5.7 Consensus size: 97
26637253 GTTGAGGCGA
* * *
26637263 CAACGGCGAACCTTATACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAATGGTGAAATCTAG
1 CAACGGCGAACCTTATACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCG-AATCCAG
* * * *
26637328 TACGACGAAGATATGGAGGGAAGGGTTTAAGTCG
65 TACCAC-AAGATATGAAGAGAAAGGTTTAAGTCG
* *
26637362 CAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGT
1 CAACGGCGAACCTTATACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGT
* *
26637427 ACCACAAGGATATGGAGAGAAAGGTTTAAGTCA
66 ACCACAA-GATATGAAGAGAAAGGTTTAAGTCG
* * * * * *
26637460 CAACGACAAACCTTGTACCTCAGAAGCGTAAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGT
1 CAACGGCGAACCTTATACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGT
* *
26637525 ACCACGAAGATAT-AAAAGGAAAGGTTTAAGCCG
66 ACCAC-AAGATATGAAGA-GAAAGGTTTAAGTCG
* * * * * *
26637558 CAACGGCGAACC-TAGTACCTCAAAAGCACGAAGGGAAAGATTTAAGCTGCAACGGTGAATCTAC
1 CAACGGCGAACCTTA-TACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * *
26637622 TACAAGAAGATGTTAA-AGGAAAGGTTTAAGTCG
65 TACCACAAGATATGAAGA-GAAAGGTTTAAGTCG
* * * * * *
26637655 TAATGGCGAACCTTATACCTCAGAGGACGTGAAGGGAAAGATTTAAGCCGCAATGACGAATCCAG
1 CAACGGCGAACCTTATACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * *
26637720 TACCAAGAAGATGTTAAGGGAAAGGTTTAAGTCG
65 TACC-ACAAGATATGAAGAGAAAGGTTTAAGTCG
* * * * * *
26637754 TAATGACGAACCTTATACCTCAG-AGACAT-AAAGGAAAGATTTAAGCCGCAACAGCGAATCTAG
1 CAACGGCGAACCTTATACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
26637817 TACC
65 TACC
26637821 GCAAAGACAT
Statistics
Matches: 395, Mismatches: 55, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
97 79 0.20
98 210 0.53
99 106 0.27
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (97 bp):
CAACGGCGAACCTTATACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGT
ACCACAAGATATGAAGAGAAAGGTTTAAGTCG
Found at i:26637593 original size:196 final size:198
Alignment explanation
Indices: 26637235--26637820 Score: 686
Period size: 196 Copynumber: 3.0 Consensus size: 198
26637225 AGAAAAATAT
* * * *
26637235 GAAGATTTGAAAGGAAAGG-TTGAGGCGACAACGGCGAACCTTATACCTCAGAAGCATGAAGGGA
1 GAAGATGTGAAAGGAAAGGTTTAAGTC-ACAACGGCGAACCTTATACCTCAGAAGCGTGAAGGGA
* * * ** *
26637299 AAGATTTAAGCCGCAATGGTGAAATCTAGTACGACGAAGATATGGAGGGAAGGGTTTAAGTCGCA
65 AAGATTTAAGCCGCAATGGCG-AATCCAGTACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCA
* * *
26637364 ACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTAC
129 ACGGCGAACCTAGTACCTCAAAAGCACGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTAC
26637429 CACAA
194 CACAA
* * * * * * *
26637434 GGATATG-GAGA-GAAAGGTTTAAGTCACAACGACAAACCTTGTACCTCAGAAGCGTAAAGGGAA
1 GAAGATGTGAAAGGAAAGGTTTAAGTCACAACGGCGAACCTTATACCTCAGAAGCGTGAAGGGAA
* *
26637497 AGATTTAAGCCGCAATGGCGAATCCAGTACCACGAAGATATAAAAGGAAAGGTTTAAGCCGCAAC
66 AGATTTAAGCCGCAATGGCGAATCCAGTACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAAC
* *
26637562 GGCGAACCTAGTACCTCAAAAGCACGAAGGGAAAGATTTAAGCTGCAACGGTGAAT-C--TACTA
131 GGCGAACCTAGTACCTCAAAAGCACGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCA
26637624 CAA
196 CAA
* ** * *
26637627 GAAGATGTTAAAGGAAAGGTTTAAGTCGTAATGGCGAACCTTATACCTCAGAGGACGTGAAGGGA
1 GAAGATGTGAAAGGAAAGGTTTAAGTCACAACGGCGAACCTTATACCTCAGAAG-CGTGAAGGGA
* * * * *
26637692 AAGATTTAAGCCGCAATGACGAATCCAGTACCAAGAAGATGTTAAGGGAAAGGTTTAAGTCGTAA
65 AAGATTTAAGCCGCAATGGCGAATCCAGTACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAA
* * * * * * * *
26637757 TGACGAACCTTA-TACCTC-AGAG-ACATAAAGGAAAGATTTAAGCCGCAACAGCGAATCTAGTA
130 CGGCGAACC-TAGTACCTCAAAAGCAC-GAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTA
26637819 CC
193 CC
26637821 GCAAAGACAT
Statistics
Matches: 325, Mismatches: 53, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
193 12 0.04
194 4 0.01
195 64 0.20
196 170 0.52
197 60 0.18
198 11 0.03
199 4 0.01
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (198 bp):
GAAGATGTGAAAGGAAAGGTTTAAGTCACAACGGCGAACCTTATACCTCAGAAGCGTGAAGGGAA
AGATTTAAGCCGCAATGGCGAATCCAGTACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAAC
GGCGAACCTAGTACCTCAAAAGCACGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCA
CAA
Found at i:26638308 original size:17 final size:17
Alignment explanation
Indices: 26638281--26638391 Score: 134
Period size: 17 Copynumber: 6.4 Consensus size: 17
26638271 CTAAACCCAT
*
26638281 TTTAGATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
26638299 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
26638315 TTTAAATTTATTTTAAAA
1 TTTAAATTTATTTT-AAA
* **
26638333 TTTAAATTTAATTTACG
1 TTTAAATTTATTTTAAA
26638350 TTTAAATTTATATTTAAA
1 TTTAAATTTAT-TTTAAA
* *
26638368 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
26638385 TTTAAAT
1 TTTAAAT
26638392 AATGAAAGCC
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
16 1 0.01
17 49 0.61
18 30 0.38
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:26638318 original size:6 final size:6
Alignment explanation
Indices: 26638299--26638391 Score: 79
Period size: 6 Copynumber: 16.0 Consensus size: 6
26638289 TATTTTAAGA
* *
26638299 TTAAAT TT-ATT TTAAAT TTAAAT TT-ATT TTAAAAT TTAAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT
** * *
26638345 TTACGT TTAAAT TTATAT TTAAAT TTAAAA TT--AT TCTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T-TAAAT TTAAAT
26638392 AATGAAAGCC
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
4 2 0.03
5 14 0.21
6 45 0.66
7 7 0.10
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:26638354 original size:35 final size:35
Alignment explanation
Indices: 26638281--26638391 Score: 129
Period size: 35 Copynumber: 3.2 Consensus size: 35
26638271 CTAAACCCAT
* * *
26638281 TTTAGATTTATTTTAAGA-TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAAATTTAAATTTAATTTAAA
**
26638315 TTTAAATTTATTTTAAAATTTAAATTTAATTTACG
1 TTTAAATTTATTTTAAAATTTAAATTTAATTTAAA
*
26638350 TTTAAATTTATATTT-AAATTTAAAATT-ATTCTAAA
1 TTTAAATTTAT-TTTAAAATTTAAATTTAATT-TAAA
26638385 TTTAAAT
1 TTTAAAT
26638392 AATGAAAGCC
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
34 19 0.29
35 44 0.67
36 3 0.05
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (35 bp):
TTTAAATTTATTTTAAAATTTAAATTTAATTTAAA
Found at i:26641347 original size:29 final size:29
Alignment explanation
Indices: 26641313--26641450 Score: 114
Period size: 29 Copynumber: 4.8 Consensus size: 29
26641303 CGAAATGGAC
*
26641313 TACCGTGTCTGTATCTGTAACTGTATTTG
1 TACCGTGTCTGCATCTGTAACTGTATTTG
*
26641342 TACCGTGTCTGCATCTGTAATTGTATTTG
1 TACCGTGTCTGCATCTGTAACTGTATTTG
**** * *
26641371 TGTTATGTTTGCATCTGTAACTGTATCTG
1 TACCGTGTCTGCATCTGTAACTGTATTTG
* * * ** * *
26641400 TATCATATCCACATCTGTAACTGTATCTA
1 TACCGTGTCTGCATCTGTAACTGTATTTG
* * *
26641429 TATCATGTTTGCATCTGTAACT
1 TACCGTGTCTGCATCTGTAACT
26641451 ATACCATATT
Statistics
Matches: 89, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (29 bp):
TACCGTGTCTGCATCTGTAACTGTATTTG
Found at i:26641395 original size:58 final size:58
Alignment explanation
Indices: 26641325--26641450 Score: 153
Period size: 58 Copynumber: 2.2 Consensus size: 58
26641315 CCGTGTCTGT
* * * ** * * * * *
26641325 ATCTGTAACTGTATTTGTACCGTGTCTGCATCTGTAATTGTATTTGTGTTATGTTTGC
1 ATCTGTAACTGTATCTGTACCATATCCACATCTGTAACTGTATCTATATCATGTTTGC
*
26641383 ATCTGTAACTGTATCTGTATCATATCCACATCTGTAACTGTATCTATATCATGTTTGC
1 ATCTGTAACTGTATCTGTACCATATCCACATCTGTAACTGTATCTATATCATGTTTGC
26641441 ATCTGTAACT
1 ATCTGTAACT
26641451 ATACCATATT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.44
Consensus pattern (58 bp):
ATCTGTAACTGTATCTGTACCATATCCACATCTGTAACTGTATCTATATCATGTTTGC
Found at i:26643601 original size:12 final size:12
Alignment explanation
Indices: 26643581--26643611 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
26643571 TAATTCCCCC
26643581 TCATCATCTTCA
1 TCATCATCTTCA
*
26643593 TCTTCATCTTCA
1 TCATCATCTTCA
26643605 TCATCAT
1 TCATCAT
26643612 TTTCTCTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (12 bp):
TCATCATCTTCA
Found at i:26645340 original size:30 final size:31
Alignment explanation
Indices: 26645287--26645358 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
26645277 AACATTTACA
* * * *
26645287 AAAGTACTCAAATAAGAGTCAAA-CTTTTTT
1 AAAGTGCTCAAGTGAGAGCCAAACCTTTTTT
*
26645317 AAAGTGTTCAAGTGAGAGCCAAACCTTTTTT
1 AAAGTGCTCAAGTGAGAGCCAAACCTTTTTT
26645348 AAAGTGCTCAA
1 AAAGTGCTCAA
26645359 ATAAGAGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 18 0.51
31 17 0.49
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (31 bp):
AAAGTGCTCAAGTGAGAGCCAAACCTTTTTT
Found at i:26645366 original size:31 final size:30
Alignment explanation
Indices: 26645287--26645366 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
26645277 AACATTTACA
* *
26645287 AAAGTACTCAAATAAGAGTCAAACTTTTTT
1 AAAGTGCTCAAATAAGAGCCAAACTTTTTT
* * *
26645317 AAAGTGTTCAAGTGAGAGCCAAACCTTTTTT
1 AAAGTGCTCAAATAAGAGCCAAA-CTTTTTT
26645348 AAAGTGCTCAAATAAGAGC
1 AAAGTGCTCAAATAAGAGC
26645367 TATCATGTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 18 0.44
31 23 0.56
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (30 bp):
AAAGTGCTCAAATAAGAGCCAAACTTTTTT
Found at i:26646026 original size:26 final size:27
Alignment explanation
Indices: 26645997--26646061 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
26645987 TTTATGCCAC
26645997 TTTTTTGAATTCTTAT-TCTTTTTAT-A
1 TTTTTTGAATTCTTATAT-TTTTTATAA
* *
26646023 TTTTTTGAATTTTTATATTTTTTTTGAA
1 TTTTTTGAATTCTTATATTTTTTAT-AA
26646051 TTTTTTGAATT
1 TTTTTTGAATT
26646062 TTTGAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 21 0.62
27 1 0.03
28 12 0.35
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (27 bp):
TTTTTTGAATTCTTATATTTTTTATAA
Found at i:26646047 original size:19 final size:17
Alignment explanation
Indices: 26646015--26646072 Score: 73
Period size: 17 Copynumber: 3.3 Consensus size: 17
26646005 ATTCTTATTC
26646015 TTTTTATATTTTTTGAA
1 TTTTTATATTTTTTGAA
26646032 TTTTTATATTTTTTTTGAA
1 TTTTTATA--TTTTTTGAA
*
26646051 TTTTT-TGAATTTTTGAA
1 TTTTTAT-ATTTTTTGAA
26646068 TTTTT
1 TTTTT
26646073 TGTTAATGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 21 0.57
18 1 0.03
19 15 0.41
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (17 bp):
TTTTTATATTTTTTGAA
Found at i:26646054 original size:7 final size:8
Alignment explanation
Indices: 26646043--26646072 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
26646033 TTTTATATTT
26646043 TTTTTGAA
1 TTTTTGAA
26646051 TTTTTTGAA
1 -TTTTTGAA
26646060 TTTTTGAA
1 TTTTTGAA
26646068 TTTTT
1 TTTTT
26646073 TGTTAATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (8 bp):
TTTTTGAA
Found at i:26646054 original size:9 final size:9
Alignment explanation
Indices: 26646022--26646074 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
26646012 TTCTTTTTAT
26646022 ATTTTTTGA
1 ATTTTTTGA
26646031 ATTTTTAT-A
1 ATTTTT-TGA
*
26646040 TTTTTTTTGA
1 -ATTTTTTGA
26646050 ATTTTTTGA
1 ATTTTTTGA
26646059 A-TTTTTGA
1 ATTTTTTGA
26646067 ATTTTTTG
1 ATTTTTTG
26646075 TTAATGTGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 8 0.21
9 23 0.61
10 7 0.18
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (9 bp):
ATTTTTTGA
Found at i:26646073 original size:19 final size:20
Alignment explanation
Indices: 26646015--26646056 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
26646005 ATTCTTATTC
26646015 TTTTTATA--TTTTTTGAA-
1 TTTTTATATTTTTTTTGAAT
26646032 TTTTTATATTTTTTTTGAAT
1 TTTTTATATTTTTTTTGAAT
26646052 TTTTT
1 TTTTT
26646057 GAATTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTATATTTTTTTTGAAT
Found at i:26646729 original size:16 final size:17
Alignment explanation
Indices: 26646694--26646732 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
26646684 GGGTTTAGTG
*
26646694 ATAAAACGTTAAACTAAA
1 ATAAAACG-TAAAATAAA
26646712 ATAAAACG-AAAATAAA
1 ATAAAACGTAAAATAAA
26646728 ATAAA
1 ATAAA
26646733 TAAAGTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.18
Consensus pattern (17 bp):
ATAAAACGTAAAATAAA
Found at i:26650883 original size:18 final size:18
Alignment explanation
Indices: 26650842--26650891 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
26650832 AAATATTAAA
*
26650842 AAAATATTTTAA-AATATT
1 AAAAT-TTTTAATATTATT
*
26650860 ATAATTTTTAATATTATT
1 AAAATTTTTAATATTATT
*
26650878 AAAATTATTAATAT
1 AAAATTTTTAATAT
26650892 AAATTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATTTTTAATATTATT
Found at i:26650942 original size:16 final size:17
Alignment explanation
Indices: 26650906--26650942 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
26650896 TATTATTTTT
26650906 TAATAATAAATTTGAAA
1 TAATAATAAATTTGAAA
*
26650923 -AATAAT-AATTTTAAA
1 TAATAATAAATTTGAAA
26650938 TAATA
1 TAATA
26650943 TTCTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTGAAA
Found at i:26653298 original size:20 final size:20
Alignment explanation
Indices: 26653273--26653311 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
26653263 CTATAGGTTT
26653273 AATATAATATTTGGTACTTA
1 AATATAATATTTGGTACTTA
26653293 AATATAATATTTGGTACTT
1 AATATAATATTTGGTACTT
26653312 GAATTTGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (20 bp):
AATATAATATTTGGTACTTA
Found at i:26653411 original size:89 final size:89
Alignment explanation
Indices: 26653318--26653491 Score: 203
Period size: 89 Copynumber: 2.0 Consensus size: 89
26653308 ACTTGAATTT
* * ** *
26653318 GACACTTTTTTCTAATTTAATACTTAAATTTTTTTG-GTCTAATTTGATA-CTCAAACTTGA-T-
1 GACACTTTTTT-TAAGTTAATACTTAAACTTTTGGGAGTCTAATTTCATACCT-AAACTTGACTC
26653379 ATTTTTTCCTAATTTAGTACCTAAACAC
64 A--TTTTCCTAATTTAGTACCTAAACAC
** *
26653407 GACACTTTTTTTAAGTTGGTACTTAAACTTTTGGGAGTCTAATTTCATACCTGAACTTGACTCAT
1 GACACTTTTTTTAAGTTAATACTTAAACTTTTGGGAGTCTAATTTCATACCTAAACTTGACTCAT
*
26653472 TTTCCTAATTTGGTACCTAA
66 TTTCCTAATTTAGTACCTAA
26653492 TCTTTTTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
88 18 0.25
89 50 0.69
90 3 0.04
91 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (89 bp):
GACACTTTTTTTAAGTTAATACTTAAACTTTTGGGAGTCTAATTTCATACCTAAACTTGACTCAT
TTTCCTAATTTAGTACCTAAACAC
Found at i:26653797 original size:58 final size:59
Alignment explanation
Indices: 26653685--26653826 Score: 187
Period size: 58 Copynumber: 2.4 Consensus size: 59
26653675 AAATTAGGAC
* * *
26653685 AAAATGCCAAGTTAAGGTACCAAATCAGGTCCAAAAAAAGTTTAGGTACCAAATTAAAA
1 AAAATGTCAAGTTCAGGTACCAAATCAGGTCCAAAAAAAGTTTAGATACCAAATTAAAA
* * ** * *
26653744 AAAGTGTCGAGTTCAGGTACCAAATTGGGT-CAAAACAAGTTTAGATACTAAATTAAAA
1 AAAATGTCAAGTTCAGGTACCAAATCAGGTCCAAAAAAAGTTTAGATACCAAATTAAAA
*
26653802 AAAATGTCAAGTTCAAGTACCAAAT
1 AAAATGTCAAGTTCAGGTACCAAAT
26653827 ATTATATTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
58 47 0.66
59 24 0.34
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.23
Consensus pattern (59 bp):
AAAATGTCAAGTTCAGGTACCAAATCAGGTCCAAAAAAAGTTTAGATACCAAATTAAAA
Found at i:26654467 original size:14 final size:14
Alignment explanation
Indices: 26654442--26654503 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
26654432 AAATACAAAA
26654442 AAATCATAAAATCCG
1 AAAT-ATAAAATCCG
* *
26654457 AAATTTAAAATCCA
1 AAATATAAAATCCG
**
26654471 AAATCCAAAATCCTG
1 AAATATAAAATCC-G
*
26654486 -AATATATAATCCG
1 AAATATAAAATCCG
26654499 AAATA
1 AAATA
26654504 AAATTATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
13 1 0.03
14 32 0.86
15 4 0.11
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.24
Consensus pattern (14 bp):
AAATATAAAATCCG
Found at i:26655675 original size:27 final size:28
Alignment explanation
Indices: 26655619--26655675 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
26655609 GTTACGATTA
* *
26655619 TTTAACTAGTAAACAAAGTATAATATTT
1 TTTAACTAATAAACAAAGTATAATAGTT
*
26655647 TTTAACTATATAAAC-AA-TATAATGGTT
1 TTTAACTA-ATAAACAAAGTATAATAGTT
26655674 TT
1 TT
26655676 GCTTTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 10 0.40
28 10 0.40
29 5 0.20
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
TTTAACTAATAAACAAAGTATAATAGTT
Found at i:26657319 original size:12 final size:12
Alignment explanation
Indices: 26657300--26657335 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
26657290 GTTCACGAAC
26657300 AAGCTCGTTTAT
1 AAGCTCGTTTAT
**
26657312 TGGCTCGTTTAT
1 AAGCTCGTTTAT
26657324 AAGCTCGTTTAT
1 AAGCTCGTTTAT
26657336 GTATTTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.44
Consensus pattern (12 bp):
AAGCTCGTTTAT
Done.