Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 52 of 204
Found at i:15227152 original size:16 final size:19
Alignment explanation
Indices: 15227133--15227176 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
15227123 TAATTAAATT
15227133 ATAATATAA-C-ACAA-AA
1 ATAATATAATCTACAAGAA
15227149 ATAATATAATCTACAAGAA
1 ATAATATAATCTACAAGAA
*
15227168 AAAATATAA
1 ATAATATAA
15227177 ACATAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
17 1 0.04
18 4 0.17
19 10 0.42
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (19 bp):
ATAATATAATCTACAAGAA
Found at i:15230929 original size:22 final size:23
Alignment explanation
Indices: 15230902--15230945 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
15230892 TTTAATAATA
*
15230902 ATTATTTTAAATTAT-ATTTTAT
1 ATTATTATAAATTATGATTTTAT
*
15230924 ATTATTATATATTATGATTTTA
1 ATTATTATAAATTATGATTTTA
15230946 GTAAATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTATTATAAATTATGATTTTAT
Found at i:15230974 original size:37 final size:36
Alignment explanation
Indices: 15230932--15231101 Score: 113
Period size: 38 Copynumber: 4.7 Consensus size: 36
15230922 ATATTATTAT
15230932 ATATTATGATTTTAGTAAATTCATATAAGAATATTTA
1 ATATTATGATTTTAGTAAATT-ATATAAGAATATTTA
* * *
15230969 ATATTAAGAATTTTATTAAATTATAT----ATTTTTA
1 ATATTATG-ATTTTAGTAAATTATATAAGAATATTTA
* ***
15231002 ATAATTATTA-TTT--TAAATTATAT-TTTATAGTATTA
1 AT-ATTATGATTTTAGTAAATTATATAAGAATA-T-TTA
* *
15231037 TATATTATGGTTTTAGTAAGTTCATATAAGAATATTTA
1 -ATATTATGATTTTAGTAAATT-ATATAAGAATATTTA
* *
15231075 ATATTAAGAATTTTATTAAATTATATA
1 ATATTATG-ATTTTAGTAAATTATATA
15231102 TTTTAATTAA
Statistics
Matches: 103, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
30 10 0.10
32 3 0.03
33 11 0.11
34 5 0.05
35 8 0.08
36 5 0.05
37 23 0.22
38 30 0.29
39 5 0.05
40 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (36 bp):
ATATTATGATTTTAGTAAATTATATAAGAATATTTA
Found at i:15231061 original size:106 final size:106
Alignment explanation
Indices: 15230892--15231105 Score: 392
Period size: 106 Copynumber: 2.0 Consensus size: 106
15230882 ATAAATTCTA
*
15230892 TTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATGATTTTAGTAAATTCATA
1 TTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATA
15230957 TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
66 TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
* * *
15230998 TTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGGTTTTAGTAAGTTCATA
1 TTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATA
15231063 TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
66 TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
15231104 TT
1 TT
15231106 AATTAAAATA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (106 bp):
TTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATA
TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
Found at i:15231110 original size:18 final size:17
Alignment explanation
Indices: 15231084--15231118 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15231074 AATATTAAGA
*
15231084 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15231101 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15231119 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15231368 original size:45 final size:45
Alignment explanation
Indices: 15231275--15231371 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
15231265 CTATTACATC
15231275 TCCATT-CTATTCAACCAAACACAAGAATACTATTACGCCTCTAT
1 TCCATTACTATTCAACCAAACACAAGAATACTATTACGCCTCTAT
* * * *
15231319 TCCATTAC-ATTCAACCAAACA-ATTGAATTGCTATTATGCTTCTAT
1 TCCATTACTATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
15231364 TCCATTAC
1 TCCATTAC
15231372 GCCTCTATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (45 bp):
TCCATTACTATTCAACCAAACACAAGAATACTATTACGCCTCTAT
Found at i:15241176 original size:13 final size:13
Alignment explanation
Indices: 15241158--15241223 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
15241148 TAGATTTTTC
15241158 CTAAATATTATTA
1 CTAAATATTATTA
15241171 CTAAATA--ATT-
1 CTAAATATTATTA
15241181 CTAAATATTATTA
1 CTAAATATTATTA
*
15241194 TTAAATA--ATT-
1 CTAAATATTATTA
*
15241204 CTAAATATTATCA
1 CTAAATATTATTA
15241217 CTAAATA
1 CTAAATA
15241224 ATTTAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 13 0.30
11 6 0.14
12 5 0.11
13 20 0.45
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATATTATTA
Found at i:15241232 original size:23 final size:23
Alignment explanation
Indices: 15241158--15241230 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
15241148 TAGATTTTTC
15241158 CTAAATATTATTACTAAATAATT
1 CTAAATATTATTACTAAATAATT
*
15241181 CTAAATATTATTATTAAATAATT
1 CTAAATATTATTACTAAATAATT
*
15241204 CTAAATATTATCACTAAATAATT
1 CTAAATATTATTACTAAATAATT
15241227 -TAAA
1 CTAAA
15241231 ATTTAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
22 4 0.09
23 43 0.91
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (23 bp):
CTAAATATTATTACTAAATAATT
Found at i:15249254 original size:13 final size:13
Alignment explanation
Indices: 15249238--15249280 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
15249228 TATATTTTTC
15249238 CTAAATATTATCA
1 CTAAATATTATCA
*
15249251 CTAAATA--AT-T
1 CTAAATATTATCA
15249261 CTAAATATTATCA
1 CTAAATATTATCA
15249274 CTAAATA
1 CTAAATA
15249281 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:15249268 original size:23 final size:23
Alignment explanation
Indices: 15249238--15249289 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
15249228 TATATTTTTC
15249238 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
15249261 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
15249284 CAAAAT
1 CTAAAT
15249290 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:15260179 original size:40 final size:41
Alignment explanation
Indices: 15260121--15260208 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 41
15260111 ATTTTATCTG
* *
15260121 AATTTTTGTAAATATTTTGTAGTGTTAATTATAAGTTTTAT
1 AATTTTTGTAAATATTTTGTAGTATTAATTATAAGTCTTAT
* * * *
15260162 -ATTTTTGTGAATCTTTTGTATTATTAATTATAGGTCTTAT
1 AATTTTTGTAAATATTTTGTAGTATTAATTATAAGTCTTAT
15260202 AATTTTT
1 AATTTTT
15260209 TCCATTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 34 0.85
41 6 0.15
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.58
Consensus pattern (41 bp):
AATTTTTGTAAATATTTTGTAGTATTAATTATAAGTCTTAT
Found at i:15260294 original size:70 final size:68
Alignment explanation
Indices: 15260195--15260355 Score: 173
Period size: 68 Copynumber: 2.4 Consensus size: 68
15260185 TTAATTATAG
* * *
15260195 GTCTTA-TAATTTT-TTCCATTTTTTAGTTTTAAGTCTTAATAGCAGTGTTTCTACTATTAGAGT
1 GTCTTATTATTTTTGTTTCATTTTGTAGTTTTAAGTCTTAATAGCAGTGTTTC-A-TATTAGAGT
15260258 TTTAA
64 TTTAA
* **** * **
15260263 GTCTTATTATTTTTGTTTCATTTTGTAGTTTTAAGTCTTATTATTTTTGTTTCATTTTTTAGTTT
1 GTCTTATTATTTTTGTTTCATTTTGTAGTTTTAAGTCTTAATAGCAGTGTTTCATATTAGAGTTT
15260328 TAA
66 TAA
* *
15260331 GCCTTATCATTTTTGTTTCATTTTG
1 GTCTTATTATTTTTGTTTCATTTTG
15260356 GTGAATATTT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
68 40 0.51
69 7 0.09
70 31 0.40
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (68 bp):
GTCTTATTATTTTTGTTTCATTTTGTAGTTTTAAGTCTTAATAGCAGTGTTTCATATTAGAGTTT
TAA
Found at i:15260298 original size:34 final size:34
Alignment explanation
Indices: 15260255--15260355 Score: 175
Period size: 34 Copynumber: 3.0 Consensus size: 34
15260245 CTACTATTAG
15260255 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTGT
1 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTGT
*
15260289 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTTT
1 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTGT
* *
15260323 AGTTTTAAGCCTTATCATTTTTGTTTCATTTTG
1 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTG
15260356 GTGAATATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.18, C:0.08, G:0.11, T:0.63
Consensus pattern (34 bp):
AGTTTTAAGTCTTATTATTTTTGTTTCATTTTGT
Found at i:15263818 original size:20 final size:21
Alignment explanation
Indices: 15263793--15263832 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
15263783 TTTTCAATGA
15263793 ATTTTTATTTATA-AAATTAT
1 ATTTTTATTTATATAAATTAT
*
15263813 ATTTTTATTTTTATAAATTA
1 ATTTTTATTTATATAAATTA
15263833 AATAAAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTATTTATATAAATTAT
Found at i:15266948 original size:16 final size:16
Alignment explanation
Indices: 15266927--15266978 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
15266917 TTTGGTTCGC
15266927 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15266943 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
15266959 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
15266975 TGTA
1 TGTA
15266979 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15267242 original size:17 final size:18
Alignment explanation
Indices: 15267201--15267235 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15267191 TTATTATTAA
*
15267201 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
15267219 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
15267236 TTTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:15267375 original size:16 final size:16
Alignment explanation
Indices: 15267338--15267379 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15267328 TTAATCATAT
*
15267338 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
15267354 TT-AAATATATTATAA
1 TTAAAATATATTATAA
15267369 TTAAAATATAT
1 TTAAAATATAT
15267380 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:15267386 original size:14 final size:15
Alignment explanation
Indices: 15267347--15267388 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15267337 TTTAAACATA
*
15267347 ATTATTATTAAATAT
1 ATTATAATTAAATAT
15267362 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
15267376 A-TATAATTTAATA
1 ATTATAATTAAATA
15267389 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:15267399 original size:157 final size:157
Alignment explanation
Indices: 15267108--15267404 Score: 549
Period size: 157 Copynumber: 1.9 Consensus size: 157
15267098 ACCCTTAGCA
*
15267108 TAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTT
1 TAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTT
* * *
15267173 AATCATATTTAGACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTT
66 AATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTC
15267238 TTAATAATTAGCAGAAATTTGTTTTGG
131 TTAATAATTAGCAGAAATTTGTTTTGG
*
15267265 TAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTT
1 TAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTT
15267330 AATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTC
66 AATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTC
15267395 TTAATAATTA
131 TTAATAATTA
15267405 ATATTCTTAT
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 135 1.00
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (157 bp):
TAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTT
AATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTC
TTAATAATTAGCAGAAATTTGTTTTGG
Found at i:15267476 original size:120 final size:121
Alignment explanation
Indices: 15267341--15267633 Score: 509
Period size: 120 Copynumber: 2.4 Consensus size: 121
15267331 ATCATATTTA
15267341 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
15267406 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
15267461 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
15267526 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * *
15267582 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
15267634 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:15267506 original size:14 final size:15
Alignment explanation
Indices: 15267457--15267508 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15267447 GTAAAATATA
15267457 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
15267472 TATTAAATATATTAT
1 AATTAAATATATTAT
15267487 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
15267500 AATTTAATA
1 AATTAAATA
15267509 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:15267681 original size:47 final size:46
Alignment explanation
Indices: 15267615--15267781 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 46
15267605 TTAATTAAAA
*
15267615 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* * * * * *
15267662 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
* * * *
15267707 TA-AT-AATAATATATAATTTCATAA-AATTCTTAATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTATCT
*
15267753 TATATGAATTTATACAATTTAAAATAATT
1 TATATGAATTTATATAATTTAAAATAATT
15267782 CGGATCAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
43 3 0.03
44 15 0.16
45 14 0.15
46 13 0.14
47 40 0.43
48 7 0.08
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:15267703 original size:26 final size:28
Alignment explanation
Indices: 15267674--15267745 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
15267664 TATGAATTTG
*
15267674 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
15267700 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
15267728 TAAAATTCTTAATAATAA
1 TATAA-T-TTAATAATAA
15267746 ATTTTCTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 12 0.31
29 1 0.03
30 10 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:15267941 original size:22 final size:22
Alignment explanation
Indices: 15267913--15267957 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15267903 ACTGAGCTTG
15267913 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
15267935 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
15267957 A
1 A
15267958 GTTAAGGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTCATTAAATTACTTTCAA
Found at i:15279880 original size:45 final size:45
Alignment explanation
Indices: 15279813--15279955 Score: 207
Period size: 45 Copynumber: 3.2 Consensus size: 45
15279803 ACTACCTTTA
* *
15279813 TGGTGG-TTTATCCACAACCTACATGGTAGCTTGCCTGCGAATAT
1 TGGTGGCTTTGTCCACAACCTACATGGTAGCTTGTCTGCGAATAT
* * * *
15279857 TGGTGGCTTTGTCCACAAACTACATGGCAGCTTGTCTACAAATAT
1 TGGTGGCTTTGTCCACAACCTACATGGTAGCTTGTCTGCGAATAT
* *
15279902 TGATGGCTTTGTCCACAACCTATATGGTAGCTTGTCTGCGAATAT
1 TGGTGGCTTTGTCCACAACCTACATGGTAGCTTGTCTGCGAATAT
15279947 TGGTGGCTT
1 TGGTGGCTT
15279956 CATCCACATA
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 6 0.07
45 79 0.93
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (45 bp):
TGGTGGCTTTGTCCACAACCTACATGGTAGCTTGTCTGCGAATAT
Found at i:15279884 original size:21 final size:21
Alignment explanation
Indices: 15279860--15279928 Score: 50
Period size: 23 Copynumber: 3.1 Consensus size: 21
15279850 CGAATATTGG
15279860 TGGCTTTGTCCACAAACTACA
1 TGGCTTTGTCCACAAACTACA
* * *
15279881 TGGCAGCTTGTCTACAAA-TATTGA
1 TGGC--TTTGTCCACAAACTA--CA
* *
15279905 TGGCTTTGTCCACAACCTATA
1 TGGCTTTGTCCACAAACTACA
15279926 TGG
1 TGG
15279929 TAGCTTGTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
21 8 0.22
22 11 0.31
23 12 0.33
24 5 0.14
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (21 bp):
TGGCTTTGTCCACAAACTACA
Found at i:15279919 original size:22 final size:22
Alignment explanation
Indices: 15279852--15279919 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
15279842 CTTGCCTGCG
*
15279852 AATATTGGTGGCTTTGTCCACA
1 AATATTGATGGCTTTGTCCACA
* * *
15279874 AACTA--CATGGCAGCTTGTCTACA
1 AA-TATTGATGGC--TTTGTCCACA
15279897 AATATTGATGGCTTTGTCCACA
1 AATATTGATGGCTTTGTCCACA
15279919 A
1 A
15279920 CCTATATGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
21 4 0.12
22 13 0.38
23 12 0.35
24 5 0.15
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (22 bp):
AATATTGATGGCTTTGTCCACA
Found at i:15284298 original size:42 final size:42
Alignment explanation
Indices: 15284239--15284355 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
15284229 TGTGATTACG
*
15284239 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAAATTCA
* *
15284281 TGTAAGACCTTGTCTGGGACATTGGCATCGATATGAAATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAAATTCA
**
15284323 TGTAAGACCATAACT-GG-CTATTGGCATCGATAT
1 TGTAAGACCATGTCTGGGAC-ATTGGCATCGATAT
15284356 ATGATAGGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.01
41 16 0.24
42 51 0.75
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAAATTCA
Found at i:15284381 original size:84 final size:83
Alignment explanation
Indices: 15284237--15284391 Score: 190
Period size: 84 Copynumber: 1.9 Consensus size: 83
15284227 GATGTGATTA
** * * *
15284237 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCATGTAAGACCTTGTCTGGGACA
1 CGTGTAAGACCATAACTGGGACATTGGCATCGATATGAGATGCATGTAAGACCATATCTGGGACA
15284302 TTGGCATCGATATGAAATT
66 -TGGCATCGATATGAAATT
*
15284321 CGTGTAAGACCATAACT-GG-CTATTGGCATCGATAT-ATGATAGGATGTAAGACCATATCTGGG
1 CGTGTAAGACCATAACTGGGAC-ATTGGCATCGATATGA-GAT-GCATGTAAGACCATATCTGGG
*
15284383 ATATGGCAT
63 ACATGGCAT
15284392 TATGCTAGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
82 2 0.03
83 25 0.41
84 34 0.56
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (83 bp):
CGTGTAAGACCATAACTGGGACATTGGCATCGATATGAGATGCATGTAAGACCATATCTGGGACA
TGGCATCGATATGAAATT
Found at i:15284390 original size:42 final size:42
Alignment explanation
Indices: 15284239--15284391 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 42
15284229 TGTGATTACG
*
15284239 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTC-A
1 TGTAAGACCATATCTGGGACATTGGCATCGATATGAGA-TCGA
* * *
15284281 TGTAAGACCTTGTCTGGGACATTGGCATCGATATGAAATTCG-
1 TGTAAGACCATATCTGGGACATTGGCATCGATATGAGA-TCGA
* *
15284323 TGTAAGACCATAACT-GG-CTATTGGCATCGATAT-ATGATAGGA
1 TGTAAGACCATATCTGGGAC-ATTGGCATCGATATGA-GAT-CGA
*
15284365 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATATCTGGGACATTGGCAT
15284392 TATGCTAGTT
Statistics
Matches: 95, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
40 3 0.03
41 18 0.19
42 71 0.75
43 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATTGGCATCGATATGAGATCGA
Found at i:15286313 original size:17 final size:17
Alignment explanation
Indices: 15286293--15286327 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15286283 ATAATTTTTG
15286293 TTAAATGATT-GAATTGA
1 TTAAAT-ATTAGAATTGA
15286310 TTAAATATTAGAATTGA
1 TTAAATATTAGAATTGA
15286327 T
1 T
15286328 AGGGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (17 bp):
TTAAATATTAGAATTGA
Found at i:15287023 original size:20 final size:20
Alignment explanation
Indices: 15286998--15287084 Score: 79
Period size: 20 Copynumber: 4.4 Consensus size: 20
15286988 CTTGTACGGA
15286998 TTGCACTTAGGTGCCTCTGT
1 TTGCACTTAGGTGCCTCTGT
* *
15287018 TTGCACTTCGGTGCCT-TTT
1 TTGCACTTAGGTGCCTCTGT
* * *
15287037 TTACACTTTGGTGTCTCTGT
1 TTGCACTTAGGTGCCTCTGT
* * *
15287057 TCGCAC-TATGGTGCCACTGC
1 TTGCACTTA-GGTGCCTCTGT
15287077 TTGCACTT
1 TTGCACTT
15287085 CGTTGCCTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
19 16 0.31
20 34 0.67
21 1 0.02
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGCACTTAGGTGCCTCTGT
Found at i:15287049 original size:19 final size:20
Alignment explanation
Indices: 15287001--15287057 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
15286991 GTACGGATTG
*
15287001 CACTTAGGTGCCTCTGTTTG
1 CACTTAGGTGCCTCTGTTTA
* *
15287021 CACTTCGGTGCCT-TTTTTA
1 CACTTAGGTGCCTCTGTTTA
* *
15287040 CACTTTGGTGTCTCTGTT
1 CACTTAGGTGCCTCTGTT
15287058 CGCACTATGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.46
Consensus pattern (20 bp):
CACTTAGGTGCCTCTGTTTA
Found at i:15301614 original size:19 final size:19
Alignment explanation
Indices: 15301590--15301631 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
15301580 TTAAAGCTCG
*
15301590 TTCTACATTGCATGGTTCT
1 TTCTACATTGAATGGTTCT
15301609 TTCTACATTGAATGGTTCT
1 TTCTACATTGAATGGTTCT
15301628 TTCT
1 TTCT
15301632 TACTCTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (19 bp):
TTCTACATTGAATGGTTCT
Found at i:15310601 original size:6 final size:6
Alignment explanation
Indices: 15310579--15310619 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
15310569 TTCCAAATGA
15310579 TTTCAT TTCTCCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TT-T-CAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
15310620 GGAGAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 26 0.79
7 2 0.06
8 5 0.15
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCAT
Found at i:15313705 original size:20 final size:20
Alignment explanation
Indices: 15313680--15313741 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
15313670 TTGCACATAC
15313680 GTGCCCCTATTTGTACTTCA
1 GTGCCCCTATTTGTACTTCA
* * *
15313700 GTGCCCCTGAATTGCACAT-A
1 GTGCCCCT-ATTTGTACTTCA
*
15313720 CGTGCCCCTGTTTGTACTTCA
1 -GTGCCCCTATTTGTACTTCA
15313741 G
1 G
15313742 CACCCCTGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.34
Consensus pattern (20 bp):
GTGCCCCTATTTGTACTTCA
Found at i:15313726 original size:21 final size:21
Alignment explanation
Indices: 15313666--15313770 Score: 83
Period size: 21 Copynumber: 5.1 Consensus size: 21
15313656 AGATTATTGT
15313666 TGAATTGCACATACGTGCCCC
1 TGAATTGCACATACGTGCCCC
* * *
15313687 T-ATTTGTAC-TTCAGTGCCCC
1 TGAATTGCACATAC-GTGCCCC
15313707 TGAATTGCACATACGTGCCCC
1 TGAATTGCACATACGTGCCCC
* * * **
15313728 TG-TTTGTAC-TTCAGCACCCC
1 TGAATTGCACATAC-GTGCCCC
*
15313748 TGAATTACACATACGTGCCCC
1 TGAATTGCACATACGTGCCCC
15313769 TG
1 TG
15313771 TTTGTACTTC
Statistics
Matches: 61, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
19 4 0.07
20 26 0.43
21 27 0.44
22 4 0.07
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (21 bp):
TGAATTGCACATACGTGCCCC
Found at i:15313793 original size:41 final size:41
Alignment explanation
Indices: 15313666--15313797 Score: 194
Period size: 41 Copynumber: 3.2 Consensus size: 41
15313656 AGATTATTGT
* *
15313666 TGAATTGCACATACGTGCCCCTATTTGTACTTCAGTGCCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
*
15313707 TGAATTGCACATACGTGCCCCTGTTTGTACTTCAGCACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* * * *
15313748 TGAATTACACATACGTGCCCCTGTTTGTACTTCGGTAACCA
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
15313789 TGAA-TGCAC
1 TGAATTGCAC
15313798 TTTTGTGCCC
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 4 0.05
41 78 0.95
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
Found at i:15321230 original size:61 final size:61
Alignment explanation
Indices: 15321135--15321263 Score: 258
Period size: 61 Copynumber: 2.1 Consensus size: 61
15321125 AATACTTACC
15321135 TAAGCTTTCTCGTGCACAAAAACTATCTCCAAAATCAAAAACATTATTTTGATCCTTCAAA
1 TAAGCTTTCTCGTGCACAAAAACTATCTCCAAAATCAAAAACATTATTTTGATCCTTCAAA
15321196 TAAGCTTTCTCGTGCACAAAAACTATCTCCAAAATCAAAAACATTATTTTGATCCTTCAAA
1 TAAGCTTTCTCGTGCACAAAAACTATCTCCAAAATCAAAAACATTATTTTGATCCTTCAAA
15321257 TAAGCTT
1 TAAGCTT
15321264 CGATCATGTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (61 bp):
TAAGCTTTCTCGTGCACAAAAACTATCTCCAAAATCAAAAACATTATTTTGATCCTTCAAA
Found at i:15321816 original size:39 final size:39
Alignment explanation
Indices: 15321762--15321840 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
15321752 TTATCAATGT
15321762 TCAACTTACCTCTCTCCTACAAGTAAAATTGTCTATTGA
1 TCAACTTACCTCTCTCCTACAAGTAAAATTGTCTATTGA
15321801 TCAACTTACCTCTCTCCTACAAGTAAAATTGTCTATTGA
1 TCAACTTACCTCTCTCCTACAAGTAAAATTGTCTATTGA
15321840 T
1 T
15321841 GGTAGAGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (39 bp):
TCAACTTACCTCTCTCCTACAAGTAAAATTGTCTATTGA
Found at i:15323501 original size:13 final size:13
Alignment explanation
Indices: 15323483--15323508 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15323473 CACCTTACAC
15323483 TTTACTATTTGGA
1 TTTACTATTTGGA
15323496 TTTACTATTTGGA
1 TTTACTATTTGGA
15323509 GTTGTGCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTACTATTTGGA
Found at i:15326164 original size:15 final size:15
Alignment explanation
Indices: 15326139--15326173 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15326129 AACTCTATTT
*
15326139 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
15326153 TAATTAATATTAAGA
1 TAATTAATATTAAGA
15326168 TAATTA
1 TAATTA
15326174 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:15330896 original size:62 final size:63
Alignment explanation
Indices: 15330830--15330954 Score: 166
Period size: 62 Copynumber: 2.0 Consensus size: 63
15330820 TCTCTCACAT
* *
15330830 GGCCTAGACACACACTC-GTGTCTCTCA-CCCGTGTGA-TCTAATTCACAAACAGTGAGTTACAC
1 GGCCTAGACACACAC-CAATGTCCCT-AGCCCGTGTGACTCTAATTCACAAACAGTGAGTTACAC
* * *
15330892 GGCCTGGACACACGCCAATGTCCCTAGTCCGTGTGACTCTAATTCACAAACAGTGAGTTACAC
1 GGCCTAGACACACACCAATGTCCCTAGCCCGTGTGACTCTAATTCACAAACAGTGAGTTACAC
15330955 AGCTGTGTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
61 2 0.04
62 27 0.49
63 26 0.47
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (63 bp):
GGCCTAGACACACACCAATGTCCCTAGCCCGTGTGACTCTAATTCACAAACAGTGAGTTACAC
Found at i:15342476 original size:51 final size:51
Alignment explanation
Indices: 15342410--15342509 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
15342400 CTTAATTTCC
*
15342410 TCTCAGTTTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
15342461 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
15342510 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:15342485 original size:11 final size:11
Alignment explanation
Indices: 15342386--15342485 Score: 50
Period size: 11 Copynumber: 9.4 Consensus size: 11
15342376 AACTAATCCT
15342386 CTCTCAAATTTC
1 CTCTC-AATTTC
*
15342398 CTCTTAATTTC
1 CTCTCAATTTC
* *
15342409 CTCTCAGTTTG
1 CTCTCAATTTC
*
15342420 CTCTCAAATTC
1 CTCTCAATTTC
15342431 CT-TCCAAATTT-
1 CTCT-C-AATTTC
*
15342442 CTCTCAA-ATC
1 CTCTCAATTTC
* *
15342452 C-AT--ATTTA
1 CTCTCAATTTC
* *
15342460 ATCTCAATTTG
1 CTCTCAATTTC
15342471 CTCTCAATTTC
1 CTCTCAATTTC
15342482 CTCT
1 CTCT
15342486 TAAATTTCTC
Statistics
Matches: 63, Mismatches: 17, Indels: 17
0.65 0.18 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 4 0.06
11 45 0.71
12 9 0.14
ACGTcount: A:0.23, C:0.30, G:0.03, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:15346627 original size:25 final size:25
Alignment explanation
Indices: 15346599--15346646 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
15346589 TATTTTGATA
*
15346599 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAAGAAAATAGAAGT
*
15346624 TTATTTGATGTAAGAAAGTAGAA
1 TTATTTGATGTAAGAAAATAGAA
15346647 ATTTTTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (25 bp):
TTATTTGATGTAAGAAAATAGAAGT
Found at i:15346663 original size:9 final size:9
Alignment explanation
Indices: 15346649--15346685 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
15346639 AAGTAGAAAT
15346649 TTTTGAATA
1 TTTTGAATA
15346658 TTTTGAATA
1 TTTTGAATA
15346667 TTTTGAATA
1 TTTTGAATA
15346676 TTTTG-ATA
1 TTTTGAATA
15346684 TT
1 TT
15346686 ATTTGAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (9 bp):
TTTTGAATA
Found at i:15346747 original size:23 final size:23
Alignment explanation
Indices: 15346716--15347216 Score: 655
Period size: 23 Copynumber: 22.6 Consensus size: 23
15346706 ATTAATACCC
15346716 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
15346739 TTAAATTAAAAACCCTAATCC---
1 TTAACTTAAAAACCCTAA-CCTAA
*
15346760 TTAACTTAAAACCCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
15346783 TTAACATAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
15346806 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
**
15346827 TTAACTTAAAAACATTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
15346850 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
15346873 TTAAATT-AAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* * *
15346895 TTAAATTAAAAACTCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
15346916 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
15346939 TTAACTTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
*
15346960 TTAACTTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
15346981 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
15347004 TTAACTTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
15347025 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
15347048 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
15347071 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* * *
15347094 TTAAATTAAAAATCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
*
15347115 TTAACTTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
15347136 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
15347159 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
15347180 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
15347203 TTAACTTAAAAACC
1 TTAACTTAAAAACC
15347217 ATTAAATACA
Statistics
Matches: 427, Mismatches: 34, Indels: 34
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.00
21 170 0.40
22 22 0.05
23 231 0.54
24 2 0.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAACTTAAAAACCCTAACCTAA
Found at i:15346777 original size:44 final size:44
Alignment explanation
Indices: 15346716--15347216 Score: 585
Period size: 44 Copynumber: 11.3 Consensus size: 44
15346706 ATTAATACCC
*
15346716 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAATCC-
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAA-CCA
* *
15346760 TTAACTTAAAACCCCTAACCTAATTAACATAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACC--A
* * **
15346806 TTAAATTAAAAACCCTAACC--CTTAACTTAAAAACATTAACCTAA
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACC--A
* *
15346850 TTAAATTAAAAACCCTAACCTAATTAAATT-AAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACC--A
* * *
15346895 TTAAATTAAAAACTCTAACC--CTTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACC--A
* *
15346939 TTAACTTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCA
*
15346981 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCA
15347025 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACC--A
* * * *
15347071 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAATCCTAACCC
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCA
*
15347115 TTAACTTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACC--A
* *
15347159 TTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACC--A
15347203 TTAACTTAAAAACC
1 TTAACTTAAAAACC
15347217 ATTAAATACA
Statistics
Matches: 413, Mismatches: 32, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
42 38 0.09
43 8 0.02
44 271 0.66
45 32 0.08
46 64 0.15
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (44 bp):
TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCA
Found at i:15346829 original size:67 final size:65
Alignment explanation
Indices: 15346712--15347216 Score: 683
Period size: 67 Copynumber: 7.6 Consensus size: 65
15346702 AACAATTAAT
* *
15346712 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAATCCTTAACTTAAAACCCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTA
* * **
15346777 ACCTAATTAACATAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACAT
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCC
15346842 TA
64 TA
* * * *
15346844 ACCTAATTAAATTAAAAACCCTAACCTAATTAAATT-AAAACCCTAACCTAATTAAATTAAAAAC
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAAC
*
15346908 TCTA
62 CCTA
*
15346912 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTA
*
15346977 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTA
* * * *
15347042 ACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAAT
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAAC
15347107 CCTA
62 CCTA
* * * *
15347111 ACCCTTAACTTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCC
15347174 TA
64 TA
*
15347176 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACC
15347217 ATTAAATACA
Statistics
Matches: 401, Mismatches: 28, Indels: 20
0.89 0.06 0.04
Matches are distributed among these distances:
65 148 0.37
66 40 0.10
67 178 0.44
68 17 0.04
69 18 0.04
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.26
Consensus pattern (65 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTA
Found at i:15350468 original size:125 final size:126
Alignment explanation
Indices: 15350230--15350482 Score: 366
Period size: 125 Copynumber: 2.0 Consensus size: 126
15350220 CCAAACATGA
* *
15350230 TACTGTAGCAAAAGCGCGTCCACGAGGGTGTGATTTTCACAAATTCTTCTCAAATAGCATCCTCC
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTCC
* * * *
15350295 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTAAAAAAAAATTTATTTCTTCCATGACC
66 TAAAAACGATTTTATACTATTTGATCAGAAACGTAAAAAAAAATTTATTTCTTCCAAGACC
* **
15350356 TACTGTAGCAAAAGCGCGTCCACTAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTGT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTCC
****
15350420 TAAAAACGATTTTATACTATTTGATCAGAAACGTCAACTCGAAA-TTATTTCTTCCAAGACC
66 TAAAAACGATTTTATACTATTTGATCAGAAACGT-AAAAAAAAATTTATTTCTTCCAAGACC
15350481 TA
1 TA
15350483 AAAACCCTAA
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 78 0.69
126 35 0.31
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (126 bp):
TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTCC
TAAAAACGATTTTATACTATTTGATCAGAAACGTAAAAAAAAATTTATTTCTTCCAAGACC
Found at i:15359179 original size:9 final size:9
Alignment explanation
Indices: 15359165--15359269 Score: 68
Period size: 9 Copynumber: 11.1 Consensus size: 9
15359155 GCCCATTTTT
15359165 ATTTTAAAA
1 ATTTTAAAA
15359174 ATTTTAAAAA
1 ATTTT-AAAA
*
15359184 ATTTAAAAAA
1 ATTT-TAAAA
15359194 GTATTTTAAAA
1 --ATTTTAAAA
*
15359205 ATATTTTAAA
1 AT-TTTAAAA
**
15359215 ATTAAAAAA
1 ATTTTAAAA
* *
15359224 AATTAAAAA
1 ATTTTAAAA
*
15359233 ATATTTTAAA
1 AT-TTTAAAA
**
15359243 ATTAAAAAA
1 ATTTTAAAA
15359252 ATTTT-AAA
1 ATTTTAAAA
15359260 ATTTTAAAA
1 ATTTTAAAA
15359269 A
1 A
15359270 AGTATGTAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
8 8 0.11
9 30 0.41
10 27 0.37
11 4 0.05
12 4 0.05
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:15359185 original size:10 final size:10
Alignment explanation
Indices: 15359165--15359291 Score: 74
Period size: 10 Copynumber: 12.9 Consensus size: 10
15359155 GCCCATTTTT
15359165 ATTTT-AAAA
1 ATTTTAAAAA
15359174 ATTTTAAAAA
1 ATTTTAAAAA
*
15359184 ATTTAAAAAA
1 ATTTTAAAAA
15359194 GTATTTTAAAAA
1 --ATTTTAAAAA
15359206 TATTTT--AAA
1 -ATTTTAAAAA
15359215 A--TTAAAAA
1 ATTTTAAAAA
**
15359223 AAATTAAAAA
1 ATTTTAAAAA
*
15359233 ATATTT-TAAA
1 AT-TTTAAAAA
*
15359243 A-TTAAAAAA
1 ATTTTAAAAA
15359252 ATTTT--AAA
1 ATTTTAAAAA
15359260 ATTTTAAAAA
1 ATTTTAAAAA
*
15359270 AGTATGTAAAAA
1 A-T-TTTAAAAA
15359282 TATTTTAAAA
1 -ATTTTAAAA
15359292 TTAAAAAAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
6 2 0.02
8 15 0.16
9 12 0.13
10 31 0.33
11 15 0.16
12 17 0.18
13 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:15359221 original size:17 final size:18
Alignment explanation
Indices: 15359222--15359262 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
15359212 AAAATTAAAA
*
15359222 AAAATTAAAAAATATTTT
1 AAAATTAAAAAAAATTTT
15359240 AAAATT-AAAAAAATTTT
1 AAAATTAAAAAAAATTTT
15359257 AAAATT
1 AAAATT
15359263 TTAAAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTAAAAAAAATTTT
Found at i:15360232 original size:22 final size:20
Alignment explanation
Indices: 15360181--15360241 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
15360171 AACTATATTT
15360181 AATAATTTTAAAAATTTTTA
1 AATAATTTTAAAAATTTTTA
* *
15360201 ATTGAGTTTTAAAAATTTCTTAA
1 AAT-AATTTTAAAAATTT-TT-A
*
15360224 AATAATTTTTAAAATTTT
1 AATAATTTTAAAAATTTT
15360242 CATTTAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 2 0.06
21 14 0.42
22 14 0.42
23 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (20 bp):
AATAATTTTAAAAATTTTTA
Found at i:15360257 original size:24 final size:23
Alignment explanation
Indices: 15360207--15360262 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
15360197 TTTAATTGAG
* *
15360207 TTTTAAAAATTTCTTAAAATAAT
1 TTTTAAAATTTTCTTAAAATAAA
*
15360230 TTTTAAAATTTTCATTTAAATAAA
1 TTTTAAAATTTTC-TTAAAATAAA
*
15360254 TTTTTAAAT
1 TTTTAAAAT
15360263 CAAATATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTTAAAATTTTCTTAAAATAAA
Found at i:15361275 original size:17 final size:19
Alignment explanation
Indices: 15361253--15361295 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
15361243 ATGGAAACAT
15361253 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
15361270 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
15361289 AATCTTA
1 AATCTTA
15361296 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:15361306 original size:22 final size:19
Alignment explanation
Indices: 15361261--15361297 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15361251 ATAATCTTCA
15361261 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15361280 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
15361298 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:15361323 original size:22 final size:22
Alignment explanation
Indices: 15361261--15361320 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 22
15361251 ATAATCTTCA
*
15361261 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATATTAGAAGAT
*
15361280 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATATTAGAAGAT
* *
15361302 ATGATTTTGTAATATTAGA
1 ATGA-TATGCAATATTAGA
15361321 GATTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.44
22 8 0.24
23 11 0.32
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATATTAGAAGAT
Found at i:15362032 original size:24 final size:24
Alignment explanation
Indices: 15362005--15362051 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15361995 AAACTCATTT
15362005 ATATATT-ATTACTTTATATATTAC
1 ATATATTCATT-CTTTATATATTAC
* *
15362029 ATATTTTCATTTTTTATATATTA
1 ATATATTCATTCTTTATATATTA
15362052 TTTATTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (24 bp):
ATATATTCATTCTTTATATATTAC
Found at i:15365050 original size:28 final size:28
Alignment explanation
Indices: 15364987--15365168 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
15364977 ATATTAAGTC
* *
15364987 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
15365014 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
15365042 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
15365070 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
15365098 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15365126 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15365154 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15365169 GTACAATTTA
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 21 0.14
28 127 0.86
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:15376839 original size:40 final size:40
Alignment explanation
Indices: 15376795--15376870 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
15376785 GGTTCTGTGC
* *
15376795 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
15376835 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTA
1 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTA
15376871 CAACATGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
Found at i:15377651 original size:17 final size:17
Alignment explanation
Indices: 15377629--15377664 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15377619 CGATTGCATG
*
15377629 TTTCTATTGCTATTTAT
1 TTTCTATTACTATTTAT
*
15377646 TTTCTATTACTGTTTAT
1 TTTCTATTACTATTTAT
15377663 TT
1 TT
15377665 CCCTTTGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTCTATTACTATTTAT
Found at i:15378448 original size:23 final size:23
Alignment explanation
Indices: 15378405--15378454 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
15378395 TTGTTTTGAT
15378405 ATTGTTCTTGATTTGTTCTGGAA
1 ATTGTTCTTGATTTGTTCTGGAA
15378428 ATTGTT-TTGA-TTGTCTGCTGGAA
1 ATTGTTCTTGATTTGT-T-CTGGAA
15378451 ATTG
1 ATTG
15378455 AATTTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.16
22 5 0.20
23 16 0.64
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.50
Consensus pattern (23 bp):
ATTGTTCTTGATTTGTTCTGGAA
Found at i:15379681 original size:25 final size:25
Alignment explanation
Indices: 15379647--15379848 Score: 197
Period size: 25 Copynumber: 8.2 Consensus size: 25
15379637 TACATCAATA
*
15379647 ATTAAAATAAGGACTTTAATATTTC
1 ATTAAAATAAGGACTTTAATATTTT
* *
15379672 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
15379695 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
15379720 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
*
15379743 ATTAAATTAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
15379768 ATTAAAATAAGGAC--TAATCAATAT
1 ATTAAAATAAGGACTTTAAT-ATTTT
15379792 -TTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
15379816 ATTAAAAATCAAGAAATTTAATATTTT
1 ATT-AAAAT-AAGGACTTTAATATTTT
*
15379843 AATAAA
1 ATTAAA
15379849 GAAATTTAAA
Statistics
Matches: 146, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
23 54 0.37
24 10 0.07
25 57 0.39
26 8 0.05
27 17 0.12
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:15379696 original size:48 final size:48
Alignment explanation
Indices: 15379640--15379822 Score: 339
Period size: 48 Copynumber: 3.8 Consensus size: 48
15379630 AAATAATTAC
*
15379640 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
15379688 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
15379736 ATCAATAATTAAATTAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
15379784 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
15379823 ATCAAGAAAT
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 131 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.37
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:15379857 original size:96 final size:95
Alignment explanation
Indices: 15379640--15379861 Score: 281
Period size: 96 Copynumber: 2.3 Consensus size: 95
15379630 AAATAATTAC
* *
15379640 ATCAATAATTAAA-ATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATA
1 ATCAATAATTAAATA-AAGAAATTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATA
15379704 AGGACTTTAATATTTTATTAAAATAAGGACTA
65 AGGACTTTAATATTTTATTAAAATAAGGAC-A
* * * * *
15379736 ATCAATAATTAAATTAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATATTTAAAATAA
1 ATCAATAATTAAATAAAGAAATTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATAA
15379801 GGACTTTAATATTTTATTAAAAATCAA-GA-A
66 GGACTTTAATATTTTATT-AAAAT-AAGGACA
* * *
15379831 ATTTAATATTTTAATAAAGAAATTTAA-ATTT
1 A-TCAATAATTAAATAAAGAAATTTAATATTT
15379862 AAAATGTGGT
Statistics
Matches: 113, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
95 6 0.05
96 98 0.87
97 7 0.06
98 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (95 bp):
ATCAATAATTAAATAAAGAAATTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATAA
GGACTTTAATATTTTATTAAAATAAGGACA
Found at i:15383551 original size:91 final size:92
Alignment explanation
Indices: 15383422--15383629 Score: 271
Period size: 92 Copynumber: 2.3 Consensus size: 92
15383412 TTGATTTTAG
* * * *
15383422 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAA-TT-ATATATCACTATTAAATT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAACTTTATGAAATTTAATAT-TAACTATTAAATT
* *
15383485 ATATTTAAT-ATTAATTATTTTAAATTGTA
64 ATATGTAATAATT-ATTATTTTAAATTATA
*
15383514 TAAATTCATATAAGAAAATTTATTATCAAGAACTTTATGAAATTTAATATTAATTATTAAATTAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAACTTTATGAAATTTAATATTAACTATTAAATTAT
15383579 ATGTAATAATTATTATTTTAAATTATA
66 ATGTAATAATTATTATTTTAAATTATA
* * *
15383606 CAAATTCATA-AATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
15383630 GTTACAATTA
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
91 35 0.34
92 61 0.59
93 7 0.07
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAACTTTATGAAATTTAATATTAACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:15383593 original size:24 final size:25
Alignment explanation
Indices: 15383558--15383605 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
15383548 TTATGAAATT
15383558 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
15383582 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
15383606 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:15383724 original size:59 final size:59
Alignment explanation
Indices: 15383656--15383844 Score: 201
Period size: 59 Copynumber: 3.2 Consensus size: 59
15383646 ATTTTATTAA
15383656 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTTCATTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTTCATTTATAGT
* * ** *
15383715 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATTTT-A-TTA-A
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTCA-AATTTTCATTTATA
15383776 --
58 GT
* *
15383776 ATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTTTCATTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTTCATTTATAGT
15383835 ATCATATATT
1 ATCATATATT
15383845 ATGATTTGAG
Statistics
Matches: 103, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
54 16 0.16
55 8 0.08
56 4 0.04
57 4 0.04
59 20 0.19
60 8 0.08
61 10 0.10
63 4 0.04
64 4 0.04
65 8 0.08
66 17 0.17
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTTCATTTATAGT
Found at i:15383774 original size:120 final size:120
Alignment explanation
Indices: 15383645--15384053 Score: 718
Period size: 120 Copynumber: 3.4 Consensus size: 120
15383635 AATTATTTTA
* *
15383645 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTTCATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTTTCATTT
15383710 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15383765 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTTTCATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTTTCATTT
15383830 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
15383885 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTT-TCA-
*
15383947 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAA-ATTAATTATTAAG
63 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
15384004 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
15384054 GTTTAAATAT
Statistics
Matches: 282, Mismatches: 4, Indels: 7
0.96 0.01 0.02
Matches are distributed among these distances:
119 69 0.24
120 211 0.75
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTTTCATTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:15383794 original size:18 final size:17
Alignment explanation
Indices: 15383766--15383800 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15383756 ATTATTAAGA
*
15383766 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15383783 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15383801 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15383925 original size:15 final size:15
Alignment explanation
Indices: 15383890--15383941 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15383880 TTAAGAATTT
*
15383890 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15383904 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15383918 TATTTAATAATAAT-
1 TATTTAATTATAATA
15383932 TATGTTAATT
1 TAT-TTAATT
15383942 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15384039 original size:16 final size:16
Alignment explanation
Indices: 15384018--15384059 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15384008 TTATTAAATT
*
15384018 ATATATTTTAATTATA
1 ATATATTTTAATAATA
15384034 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
15384049 AT-TATGTTTAA
1 ATATAT-TTTAA
15384060 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:15384044 original size:15 final size:15
Alignment explanation
Indices: 15384009--15384050 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15383999 TTAAGAATTT
*
15384009 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15384023 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15384037 TATTTAATAATAAT
1 TATTTAATTATAAT
15384051 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15384073 original size:75 final size:75
Alignment explanation
Indices: 15383994--15384232 Score: 189
Period size: 75 Copynumber: 3.1 Consensus size: 75
15383984 ATAAGAAATT
15383994 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
15384059 AATATGATTA
66 AATATGATTA
* ** * * * ** ** * * *
15384069 AATTATTTATTATTGATATT-AATAATCTTATTAAAATT-TAA-ATA-ACAATAACAATAATAAT
1 AATTATTAAGAATT-TTATTAAATTAT-ATATTTTAATTATAATATATTTAATAATAATTAT-GT
* ** *
15384130 TTACCAAAACAAATTTCTGCT
63 TTA--AATA-TGA--T-T--A
*
15384151 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
15384216 AATATGATTA
66 AATATGATTA
15384226 AATTATT
1 AATTATT
15384233 TATTATTGAT
Statistics
Matches: 114, Mismatches: 35, Indels: 30
0.64 0.20 0.17
Matches are distributed among these distances:
73 10 0.09
74 7 0.06
75 26 0.23
76 15 0.13
77 2 0.02
78 1 0.01
79 1 0.01
80 2 0.02
81 15 0.13
82 18 0.16
83 7 0.06
84 10 0.09
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:15384166 original size:157 final size:157
Alignment explanation
Indices: 15383993--15384309 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
15383983 TATAAGAAAT
*
15383993 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
15384058 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
15384123 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
15384150 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
15384215 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
15384280 TAATTATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
15384307 TAA
1 TAA
15384310 GGGTATTCTA
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:15384190 original size:18 final size:17
Alignment explanation
Indices: 15384162--15384196 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15384152 ATTATTAAGA
*
15384162 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15384179 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15384197 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15384387 original size:39 final size:40
Alignment explanation
Indices: 15384344--15384448 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
15384334 TTCCATTATG
15384344 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
15384383 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
15384428 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
15384449 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:15384442 original size:45 final size:44
Alignment explanation
Indices: 15384342--15384451 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
15384332 TTTTCCATTA
15384342 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
15384381 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
15384426 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
15384452 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:15384451 original size:16 final size:16
Alignment explanation
Indices: 15384430--15384467 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15384420 TTGATTTGCT
*
15384430 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
15384446 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
15384462 AATACA
1 ATTACA
15384468 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:15386578 original size:89 final size:89
Alignment explanation
Indices: 15386398--15386562 Score: 217
Period size: 89 Copynumber: 1.9 Consensus size: 89
15386388 ATAATAATTT
* * * * * *
15386398 TTTATTGGTGCCACCGATGTCTTATGCAGCACCCAAATATTTTAAATTTTTTTAGCTAAAATGAT
1 TTTATTGGTACAACCGATGTCTCAGGCAGCACCAAAATATTTTAAATTTTTTTAGCTAAAATAAT
15386463 AAAAATAAAAAAATAAAAAAATAA
66 AAAAATAAAAAAATAAAAAAATAA
* * *
15386487 TTTATTGGTACAACCGATGTGTCAGGCGGCACCAAAATATTTTTAATTTTTTTAAGCTGAAAA-A
1 TTTATTGGTACAACCGATGTCTCAGGCAGCACCAAAATATTTTAAATTTTTTT-AGCT-AAAATA
15386551 ATAAAAA-AAAAA
64 ATAAAAATAAAAA
15386563 CTTGTATAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 50 0.77
90 11 0.17
91 4 0.06
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (89 bp):
TTTATTGGTACAACCGATGTCTCAGGCAGCACCAAAATATTTTAAATTTTTTTAGCTAAAATAAT
AAAAATAAAAAAATAAAAAAATAA
Found at i:15386949 original size:22 final size:22
Alignment explanation
Indices: 15386899--15386956 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
15386889 ATATTACAAT
*
15386899 TTATTTTATTTTCTATAGTTTAA
1 TTATTATATTTT-TATAGTTTAA
*
15386922 TTATTATATTTTTATTG-TTATA
1 TTATTATATTTTTATAGTTTA-A
*
15386944 TTATTAAATTTTT
1 TTATTATATTTTT
15386957 TATTTTGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 17 0.55
23 11 0.35
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (22 bp):
TTATTATATTTTTATAGTTTAA
Found at i:15389790 original size:32 final size:32
Alignment explanation
Indices: 15389686--15389790 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
15389676 TTTCTATTTT
15389686 TTATTGAATTTTCATTCTTGTATCAACTTAAA
1 TTATTGAATTTTCATTCTTGTATCAACTTAAA
* * * * * ***
15389718 TTATTTACATATATTTGCATT-ATGTTTCTATTTTTT
1 TTA-TT-GA-AT-TTT-CATTCTTGTATCAACTTAAA
15389754 TTATTGAATTTTCATTCTTGTATCAACTTAAA
1 TTATTGAATTTTCATTCTTGTATCAACTTAAA
15389786 TTATT
1 TTATT
15389791 TACATATATG
Statistics
Matches: 51, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
31 4 0.08
32 19 0.37
33 4 0.08
34 2 0.04
35 4 0.08
36 14 0.27
37 4 0.08
ACGTcount: A:0.28, C:0.10, G:0.06, T:0.56
Consensus pattern (32 bp):
TTATTGAATTTTCATTCTTGTATCAACTTAAA
Found at i:15389791 original size:68 final size:67
Alignment explanation
Indices: 15389621--15389848 Score: 397
Period size: 66 Copynumber: 3.4 Consensus size: 67
15389611 GTGATTTATG
* * *
15389621 TATTGAACTTTCATTCTTGAATCAACTTAAATTATTTACATATATTTTCATTATGTTTCTA-TTT
1 TATTGAATTTTCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTCTATTTT
15389685 TT
66 TT
15389687 TATTGAATTTTCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTCTATTTT
1 TATTGAATTTTCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTCTA-TTT
15389752 TTT
65 TTT
*
15389755 TATTGAATTTTCATTCTTGTATCAACTTAAATTATTTACATATATGTGCATTATGTTTCTATTTT
1 TATTGAATTTTCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTCTATTTT
15389820 TT
66 TT
15389822 TATTGAATTTTCATTCTT-TATCAACTT
1 TATTGAATTTTCATTCTTGTATCAACTT
15389849 CTTAGATGAA
Statistics
Matches: 156, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
66 67 0.43
67 24 0.15
68 65 0.42
ACGTcount: A:0.27, C:0.11, G:0.06, T:0.56
Consensus pattern (67 bp):
TATTGAATTTTCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTCTATTTT
TT
Found at i:15390498 original size:78 final size:78
Alignment explanation
Indices: 15390343--15390488 Score: 181
Period size: 78 Copynumber: 1.9 Consensus size: 78
15390333 GGCAAAATTG
* * * * *
15390343 CAACCCCCCATCTCCGGGTGATAGGAACTACCAGTCGAGTGTGTGTATGGTAATGAAAGTGTCGG
1 CAACCCCCCATCTCCAGATGATAGGAACTACCAGTCGAGTGTATGTATGGTAATCAAAGTGTCAG
*
15390408 CTCAGACTGGGGC
66 ATCAGACTGGGGC
*
15390421 CAACCCCCCATCTCTAGATGATAGGAACTACC-GCTCGAGTGTATGTAT-G-ACATCAAAGGTGT
1 CAACCCCCCATCTCCAGATGATAGGAACTACCAG-TCGAGTGTATGTATGGTA-ATCAAA-GTGT
15390483 CAGATC
63 CAGATC
15390489 GGGTTGGGGC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
76 1 0.02
77 7 0.12
78 50 0.86
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (78 bp):
CAACCCCCCATCTCCAGATGATAGGAACTACCAGTCGAGTGTATGTATGGTAATCAAAGTGTCAG
ATCAGACTGGGGC
Found at i:15392201 original size:19 final size:19
Alignment explanation
Indices: 15392177--15392217 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
15392167 AAACTAAAAG
15392177 ATACTAACTTCTTAATAAA
1 ATACTAACTTCTTAATAAA
15392196 ATACTAACTTCTTAATAAA
1 ATACTAACTTCTTAATAAA
15392215 ATA
1 ATA
15392218 TTTTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (19 bp):
ATACTAACTTCTTAATAAA
Found at i:15394997 original size:26 final size:27
Alignment explanation
Indices: 15394955--15395092 Score: 181
Period size: 27 Copynumber: 5.1 Consensus size: 27
15394945 AATACCCCCA
* *
15394955 TAATACCCCTATAGGGTAAAATGACCG
1 TAATACCCCTGTAGGGTAAAATGATCG
* *
15394982 TAA-ACTCTTGTAGGGTAAAATGA-CTG
1 TAATACCCCTGTAGGGTAAAATGATC-G
* *
15395008 TAATGCCCTTGTAGGGTAAAATGATCG
1 TAATACCCCTGTAGGGTAAAATGATCG
* *
15395035 TAATGCCCCTGTAGGGTAAAATAATCG
1 TAATACCCCTGTAGGGTAAAATGATCG
15395062 TAATACCCCTGTAGGGTAAAATGATCG
1 TAATACCCCTGTAGGGTAAAATGATCG
15395089 TAAT
1 TAAT
15395093 GCCCTGGTGG
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
25 1 0.01
26 21 0.21
27 76 0.77
28 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (27 bp):
TAATACCCCTGTAGGGTAAAATGATCG
Found at i:15395026 original size:27 final size:28
Alignment explanation
Indices: 15394966--15395111 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 28
15394956 AATACCCCTA
* *
15394966 TAGGGTAAAATGAC-CGTAA-ACTCTTG
1 TAGGGTAAAATGACTCGTAATGCCCTTG
15394992 TAGGGTAAAATGACT-GTAATGCCCTTG
1 TAGGGTAAAATGACTCGTAATGCCCTTG
*
15395019 TAGGGTAAAATGA-TCGTAATGCCCCTG
1 TAGGGTAAAATGACTCGTAATGCCCTTG
* * *
15395046 TAGGGTAAAAT-AATCGTAATACCCCTG
1 TAGGGTAAAATGACTCGTAATGCCCTTG
*
15395073 TAGGGTAAAATGA-TCGTAATGCCCTGG
1 TAGGGTAAAATGACTCGTAATGCCCTTG
15395100 T-GGGT-AAATGAC
1 TAGGGTAAAATGAC
15395112 AATTTTTGCC
Statistics
Matches: 107, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
25 6 0.06
26 24 0.22
27 76 0.71
28 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (28 bp):
TAGGGTAAAATGACTCGTAATGCCCTTG
Found at i:15395208 original size:24 final size:23
Alignment explanation
Indices: 15395133--15395215 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 23
15395123 CTTGAGGTCA
* * *
15395133 AATGATTGTTTTGTTTGTGGTT-
1 AATGACTGATTTGTTTGTGTTTG
* *
15395155 AAGTGACTGATATGTCTGTGTTTGG
1 AA-TGACTGATTTGTTTGTGTTT-G
*
15395180 TATGACTGATTTGTTTGTGATTTG
1 AATGACTGATTTGTTTGTG-TTTG
*
15395204 AATGACTAATTT
1 AATGACTGATTT
15395216 TGAGTAGGGC
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
22 2 0.04
23 15 0.32
24 26 0.55
25 4 0.09
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.49
Consensus pattern (23 bp):
AATGACTGATTTGTTTGTGTTTG
Found at i:15395400 original size:32 final size:32
Alignment explanation
Indices: 15395359--15395607 Score: 209
Period size: 32 Copynumber: 7.8 Consensus size: 32
15395349 ACTGCGATGC
* *
15395359 TACTGATGGCTTTCTACCGATCATAGTACCAT
1 TACTGATGGCTTTGTGCCGATCATAGTACCAT
* *
15395391 TACTGATGGCTTTGTGCCGATCATAATACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCAT
* * *
15395423 TGCTGATGACTTTATGCCGATCATAGTACCAT
1 TACTGATGGCTTTGTGCCGATCATAGTACCAT
* * * *
15395455 TATTGATGGCTTTGTGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCAT
* * * **
15395487 TACCGATGGCTGTGTGCCGATCAT-TTCACTGT
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCAT
* * * ***
15395519 TAGTGATGGCTGTGTGCCAATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCAT
*
15395551 TACTGATGGCTTTGTGCC-AGTCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGA-TCATAG-TACCAT
* *
15395583 TATTGATGGCTGTGTGCCGATCATA
1 TACTGATGGCTTTGTGCCGATCATA
15395608 TCATTGCTAC
Statistics
Matches: 179, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
31 3 0.02
32 174 0.97
33 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCAT
Found at i:15395448 original size:64 final size:63
Alignment explanation
Indices: 15395359--15395629 Score: 251
Period size: 64 Copynumber: 4.2 Consensus size: 63
15395349 ACTGCGATGC
* * * * *
15395359 TACTGATGGCTTTCTACCGATCATAGTACCATTACTGATGGCTTTGTGCCGATCATAATACCGT
1 TACTGATGGCTTTGTGCCGATCAT-GTACCATTATTGATGGCTGTGTGCCAATCATAATACCGT
* * * * *
15395423 TGCTGATGACTTTATGCCGATCATAGTACCATTATTGATGGCTTTGTGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCAT-GTACCATTATTGATGGCTGTGTGCCAATCATAATACCGT
* * * ** * * *
15395487 TACCGATGGCTGTGTGCCGATCATTTCACTGTTAGTGATGGCTGTGTGCCAATCAT-ATCACTGC
1 TACTGATGGCTTTGTGCCGATCATGT-ACCATTATTGATGGCTGTGTGCCAATCATAAT-ACCGT
* * **
15395551 TACTGATGGCTTTGTGCC-AGTCATGTTACCGTTATTGATGGCTGTGTGCCGATCAT-ATCATTG
1 TACTGATGGCTTTGTGCCGA-TCATG-TACCATTATTGATGGCTGTGTGCCAATCATAAT-ACCG
*
15395614 C
63 T
15395615 TACTGATGGCTTTGT
1 TACTGATGGCTTTGT
15395630 ACTAATCACA
Statistics
Matches: 176, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
63 3 0.02
64 172 0.98
65 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (63 bp):
TACTGATGGCTTTGTGCCGATCATGTACCATTATTGATGGCTGTGTGCCAATCATAATACCGT
Found at i:15395526 original size:96 final size:96
Alignment explanation
Indices: 15395358--15395607 Score: 272
Period size: 96 Copynumber: 2.6 Consensus size: 96
15395348 TACTGCGATG
* * * * * *
15395358 CTACTGATGGCTTTCTACCGATCATAGTACCATTACTGATGGCTTTGTGCCGATCATAATACCGT
1 CTACTGATGGCTTTGTGCCAATCATATTACCGTTACTGATGGCTGTGTGCCGATCATAATACCGT
* *
15395423 TGCTGATGACTTTATGCCGATCATAGT-ACCA
66 TGCTGATGACTGTATGCCAATCATA-TCACCA
* * * * *
15395454 TTATTGATGGCTTTGTGCCAATCATATTACCGTTACCGATGGCTGTGTGCCGATCAT-TTCACTG
1 CTACTGATGGCTTTGTGCCAATCATATTACCGTTACTGATGGCTGTGTGCCGATCATAAT-ACCG
* * **
15395518 TTAG-TGATGGCTGTGTGCCAATCATATCACTG
65 TT-GCTGATGACTGTATGCCAATCATATCACCA
* * *
15395550 CTACTGATGGCTTTGTGCCAGTCATGTTACCGTTATTGATGGCTGTGTGCCGATCATA
1 CTACTGATGGCTTTGTGCCAATCATATTACCGTTACTGATGGCTGTGTGCCGATCATA
15395608 TCATTGCTAC
Statistics
Matches: 127, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
95 2 0.02
96 124 0.98
97 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (96 bp):
CTACTGATGGCTTTGTGCCAATCATATTACCGTTACTGATGGCTGTGTGCCGATCATAATACCGT
TGCTGATGACTGTATGCCAATCATATCACCA
Found at i:15395622 original size:32 final size:32
Alignment explanation
Indices: 15395390--15395656 Score: 189
Period size: 32 Copynumber: 8.4 Consensus size: 32
15395380 CATAGTACCA
* * *
15395390 TTACTGATGGCTTTGTGCCGATCATAAT-ACCG
1 TTACTGATGGCTGTGTGCCAATCAT-ATCACTG
* * * * * **
15395422 TTGCTGATGACTTTATGCCGATCATAGT-ACCA
1 TTACTGATGGCTGTGTGCCAATCATA-TCACTG
* * * *
15395454 TTATTGATGGCTTTGTGCCAATCATATTACCG
1 TTACTGATGGCTGTGTGCCAATCATATCACTG
* * *
15395486 TTACCGATGGCTGTGTGCCGATCATTTCACTG
1 TTACTGATGGCTGTGTGCCAATCATATCACTG
*
15395518 TTAGTGATGGCTGTGTGCCAATCATATCACTG
1 TTACTGATGGCTGTGTGCCAATCATATCACTG
* * * * * *
15395550 CTACTGATGGCTTTGTGCCAGTCATGTTACCG
1 TTACTGATGGCTGTGTGCCAATCATATCACTG
* * *
15395582 TTATTGATGGCTGTGTGCCGATCATATCATTG
1 TTACTGATGGCTGTGTGCCAATCATATCACTG
* * * * * *
15395614 CTACTGATGGCTTTGTACTAATCACATTACTG
1 TTACTGATGGCTGTGTGCCAATCATATCACTG
*
15395646 -TACTTATGGCT
1 TTACTGATGGCT
15395657 TGTAGTCATT
Statistics
Matches: 186, Mismatches: 47, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
31 12 0.06
32 174 0.94
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (32 bp):
TTACTGATGGCTGTGTGCCAATCATATCACTG
Found at i:15395622 original size:96 final size:95
Alignment explanation
Indices: 15395458--15395657 Score: 265
Period size: 96 Copynumber: 2.1 Consensus size: 95
15395448 GTACCATTAT
* * *
15395458 TGATGGCTTTGTGCCAATCATATTACCGTTACCGATGGCTGTGTGCCGATCATTTCACTGTTAGT
1 TGATGGCTTTGTGCCAATCATATTACCGTTACCGATGGCTGTGTGCCGATCATATCACTGCTACT
* *
15395523 GATGGCTGTGTGCCAATCATATCACTGCTAC
66 GATGGCTGTGTACCAATCACATCACTG-TAC
* * ** *
15395554 TGATGGCTTTGTGCCAGTCATGTTACCGTTATTGATGGCTGTGTGCCGATCATATCATTGCTACT
1 TGATGGCTTTGTGCCAATCATATTACCGTTACCGATGGCTGTGTGCCGATCATATCACTGCTACT
* * *
15395619 GATGGCTTTGTACTAATCACATTACTGTAC
66 GATGGCTGTGTACCAATCACATCACTGTAC
*
15395649 TTATGGCTT
1 TGATGGCTT
15395658 GTAGTCATTC
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
95 11 0.12
96 79 0.88
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (95 bp):
TGATGGCTTTGTGCCAATCATATTACCGTTACCGATGGCTGTGTGCCGATCATATCACTGCTACT
GATGGCTGTGTACCAATCACATCACTGTAC
Found at i:15396823 original size:36 final size:36
Alignment explanation
Indices: 15396753--15396826 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
15396743 AAATGAGCAC
* **
15396753 ATCAGTCAGAATAGATCTGAAAGGCTGCTAAACTGA
1 ATCAGCCAGAATAGATCTGAAAGGCCACTAAACTGA
*
15396789 ATCAGCCAGAATAGATCTGAAAGGCCACTTAACTGA
1 ATCAGCCAGAATAGATCTGAAAGGCCACTAAACTGA
15396825 AT
1 AT
15396827 ATAGTTTACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (36 bp):
ATCAGCCAGAATAGATCTGAAAGGCCACTAAACTGA
Found at i:15397509 original size:25 final size:25
Alignment explanation
Indices: 15397475--15397524 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
15397465 TAGGTAAATT
15397475 TCATCTAGATTAGAATTACATAGGG
1 TCATCTAGATTAGAATTACATAGGG
15397500 TCATCTAGATTAGAATTACATAGGG
1 TCATCTAGATTAGAATTACATAGGG
15397525 ATCAATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (25 bp):
TCATCTAGATTAGAATTACATAGGG
Found at i:15418325 original size:24 final size:25
Alignment explanation
Indices: 15418285--15418339 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
15418275 GCTTATCCGG
*
15418285 GCTTAATAACAGGAAGCTCAAAAGA
1 GCTTAATAACAGAAAGCTCAAAAGA
* *
15418310 GCTTAA-AACAGAAAGCTCATATGA
1 GCTTAATAACAGAAAGCTCAAAAGA
15418334 GCTTAA
1 GCTTAA
15418340 CGGGTAACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.20
Consensus pattern (25 bp):
GCTTAATAACAGAAAGCTCAAAAGA
Found at i:15435562 original size:44 final size:44
Alignment explanation
Indices: 15435296--15436751 Score: 408
Period size: 44 Copynumber: 33.6 Consensus size: 44
15435286 CCGACAATCC
* * * *
15435296 TATCTCTCTGAAATTGCAGTGGAGCGGATTGAAATAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
* * * * * *
15435340 TATCTCTCTGAAGTTGCAGTAGAGTAGATC-ACAT--CAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
* * * * *
15435381 TATCTCACTGAGGTTGCAGGGGAGCAGACCGAAGA-AGCA-AG-TTT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAA-ATA--ATAGATCT
* * *
15435425 TATC-CCCTTGAAGTTGCAGTGGGGCAGA-CTGAAGAT-GTTGAATCT
1 TATCTCCC-TGAAGTTGCAGTGGAGCAGATC-GAA-ATAATAG-ATCT
* * * * * *
15435470 TATCTCCCTG-AGTTTGCAGTAGAGCAGATTGTAGTCGATA-ATCC
1 TATCTCCCTGAAG-TTGCAGTGGAGCAGATCGAAAT-AATAGATCT
* *
15435514 TATCTCCCTGCAGTTGCAGTGGAGCGGATCGAAATAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
* * * * * * *
15435558 TATCTCTCTAAAGTTGCAGTAGAGTAGATC-ACAT--CAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
* * * *
15435599 TATCTCCCTGAGGTTACAGCGGAACAGA-CAGAAGA-AGCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAA-ATA--ATAGATCT
* * * * *
15435643 TATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGAT-GTTGAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAA-ATAATAG-ATCT
* * **** *
15435688 TATCTCCCTG-AGTTTGCAGTGGAGTAGATTGTAGCCGATA-ATCC
1 TATCTCCCTGAAG-TTGCAGTGGAGCAGATCG-AAATAATAGATCT
* * * **
15435732 TATCACCCTGAAGTTACAGTGGAGCGGATTTAAATAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
* * * * * *
15435776 TATCTCTCTGAAGTTGCAGTAGAGTAGATC-ACAT--CAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
* * ** *
15435817 TATCTCCTTGAGGTTGCAGCAGAGCAGACCGAAGA-AGCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAA-ATA--ATAGATCT
* * * *
15435861 TATCCCCCTGAAGTTGCAGTGGGGCAGA-CTGAAGAT-GTTGAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAA-ATAATAG-ATCT
* * **** *
15435906 TATCTCCCTG-AGTTTGTAGTGGAGCAGATTGTAGCCGATA-ATCC
1 TATCTCCCTGAAG-TTGCAGTGGAGCAGATCG-AAATAATAGATCT
* *
15435950 TATCTCCCTGAAGTTGTAGTGGAGCGGATCGAAATAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
* * * * *
15435994 TATCTCTCTGAAGTTGTAGTAGAGTAGATC---AT-ATCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAAT-AGATCT
* * * * * *
15436035 TATCTCCCTGAGGTTACAGCGGAACAGACCGAAGA-AACA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAA-ATAATAGA-TCT
* * * * * * *
15436079 TATC-CCCTAAAGTAGCAGTGGGGTAGATTGAAGAT-GTTGAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAA-ATAATAG-ATCT
* * * **** *
15436123 TATCTCCATG-AGTTTGCAGTGGAGTAGATTGTAGCCGATA-ATCC
1 TATCTCCCTGAAG-TTGCAGTGGAGCAGATCG-AAATAATAGATCT
* * *
15436167 TATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
* * * * * * *
15436211 TATCTCTCTGAAGTTGCAGTAGAGTAGATC-ACAT--CAGGTAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
* * * * *
15436252 TATCTCCCTGAGGTTGCAGCGGAACAGACCGAAGA-AGCA-AG-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAA-ATA--ATAGATCT
* **
15436296 TATC-CTCCTGAAGTTGTAGTGG-GCAGA-CTGAAGATGGT-GAATCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATC-GAA-ATAATAG-ATCT
* * * ***
15436340 TATTTTCCTG-AGTTTGCAGTGGAGCAGATTGAAGCCGATAG-TCT
1 TATCTCCCTGAAG-TTGCAGTGGAGCAGATCGAA-ATAATAGATCT
* * * * * * *
15436384 CATCTCCCTGAAGTTACGGTGGAGTAGA-CAGAAAAAACT-CATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAATAA-TAGATCT
* * * *
15436428 TATCTCCCTGAAGTTGCAGTGGAGCGGAT-TAAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATA--ATAGATCT
* * * *
15436473 TATCTCTCTGAAGTTGCAGTAGAGCAGATCG-CATCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
* * * * *
15436514 TATCTCCCT-AAGTAGTAGT-GAACAGA-CGAAAGAAATCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAA-TAAT-AGATCT
* * ** * *
15436556 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
** * * * *
15436600 TATCTCCCT-AAGCAGTAGTGGAGTAGATCG-CATCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
**** * *
15436640 TATCTCCCT-AAGCAATAGTGGAGCAGA-CGAAAGAAATCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAA-TAAT-AGATCT
* * * ** * *
15436683 TATCCCCCTGAAGTTGCAATGGAGCAGATTAGAGCTATTA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TCGAAATAATAGATCT
15436727 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
15436752 GGATTAAAAA
Statistics
Matches: 1018, Mismatches: 282, Indels: 224
0.67 0.19 0.15
Matches are distributed among these distances:
38 2 0.00
39 9 0.01
40 41 0.04
41 152 0.15
42 22 0.02
43 111 0.11
44 504 0.50
45 164 0.16
46 13 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCT
Found at i:15435584 original size:218 final size:217
Alignment explanation
Indices: 15435228--15436407 Score: 1869
Period size: 218 Copynumber: 5.4 Consensus size: 217
15435218 TGGGTTGGTA
* * *
15435228 GGGCAGATTGAAGATGTTGAATCTTATCTCCTTGAGTTTGCAGTGGAGCAGATTGTAGCCGACAA
1 GGGCAGACTGAAGATGTTGAATCTTATCTCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAA
* * *
15435293 TCCTATCTCTCTGAAATTGCAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
66 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
* * *
15435358 GTAGAGTAGATCACATCAGGTCTTATCTCACTGAGGTTGCAGGGGAGCAGACCGAAGAAGCAAGT
131 GTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAACAGACCGAAGAAGCAAGT
*
15435423 TTTATCCCCTTGAAGTTGCAGTG
196 CTTATCCCC-TGAAGTTGCAGTG
* *
15435446 GGGCAGACTGAAGATGTTGAATCTTATCTCCCTGAGTTTGCAGTAGAGCAGATTGTAGTCGATAA
1 GGGCAGACTGAAGATGTTGAATCTTATCTCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAA
* * * *
15435511 TCCTATCTCCCTGCAGTTGCAGTGGAGCGGATCGAAATAATAGATCTTATCTCTCTAAAGTTGCA
66 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
* *
15435576 GTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTACAGCGGAACAGACAGAAGAAGCAAGT
131 GTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAACAGACCGAAGAAGCAAGT
15435641 CTTATCCCCCTGAAGTTGCAGTG
196 CTTAT-CCCCTGAAGTTGCAGTG
* *
15435664 GGGCAGATTGAAGATGTTGAATCTTATCTCCCTGAGTTTGCAGTGGAGTAGATTGTAGCCGATAA
1 GGGCAGACTGAAGATGTTGAATCTTATCTCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAA
* *
15435729 TCCTATCACCCTGAAGTTACAGTGGAGCGGATTTAAATAATAGATCTTATCTCTCTGAAGTTGCA
66 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
* * *
15435794 GTAGAGTAGATCACATCAGGTCTTATCTCCTTGAGGTTGCAGCAGAGCAGACCGAAGAAGCAAGT
131 GTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAACAGACCGAAGAAGCAAGT
15435859 CTTATCCCCCTGAAGTTGCAGTG
196 CTTAT-CCCCTGAAGTTGCAGTG
*
15435882 GGGCAGACTGAAGATGTTGAATCTTATCTCCCTGAGTTTGTAGTGGAGCAGATTGTAGCCGATAA
1 GGGCAGACTGAAGATGTTGAATCTTATCTCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAA
** * *
15435947 TCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCGAAATAATAGATCTTATCTCTCTGAAGTTGTA
66 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
* * *
15436012 GTAGAGTAGATCATATCAGGTCTTATCTCCCTGAGGTTACAGCGGAACAGACCGAAGAAACAAGT
131 GTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAACAGACCGAAGAAGCAAGT
* *
15436077 CTTATCCCCTAAAGTAGCAGTG
196 CTTATCCCCTGAAGTTGCAGTG
* * * *
15436099 GGGTAGATTGAAGATGTTGAATCTTATCTCCATGAGTTTGCAGTGGAGTAGATTGTAGCCGATAA
1 GGGCAGACTGAAGATGTTGAATCTTATCTCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAA
15436164 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
66 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
*
15436229 GTAGAGTAGATCACATCAGGTATTATCTCCCTGAGGTTGCAGCGGAACAGACCGAAGAAGCAAGT
131 GTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAACAGACCGAAGAAGCAAGT
* *
15436294 CCTATCCTCCTGAAGTTGTAGT-
196 CTTATCC-CCTGAAGTTGCAGTG
* * * * *
15436316 GGGCAGACTGAAGATGGTGAATCTTATTTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCGATAG
1 GGGCAGACTGAAGATGTTGAATCTTATCTCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAA
*
15436381 T-CTCATCTCCCTGAAGTTACGGTGGAG
66 TCCT-ATCTCCCTGAAGTTACAGTGGAG
15436408 TAGACAGAAA
Statistics
Matches: 884, Mismatches: 75, Indels: 7
0.92 0.08 0.01
Matches are distributed among these distances:
216 2 0.00
217 282 0.32
218 596 0.67
219 4 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (217 bp):
GGGCAGACTGAAGATGTTGAATCTTATCTCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAA
TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
GTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAACAGACCGAAGAAGCAAGT
CTTATCCCCTGAAGTTGCAGTG
Found at i:15435744 original size:89 final size:88
Alignment explanation
Indices: 15435643--15435804 Score: 202
Period size: 89 Copynumber: 1.8 Consensus size: 88
15435633 AAGCAAGTCT
* * * * *
15435643 TATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGAT-GTTGAATCTTATCTCCCTG-AGTTTGCA
1 TATCACCCTGAAGTTACAGTGGAGCAGATTGAA-ATAATAG-ATCTTATCTCCCTGAAG-TTGCA
*
15435706 GTGGAGTAGATTGTAGCCGATAATCC
63 GTAGAGTAGATTGTAGCCGATAATCC
* * *
15435732 TATCACCCTGAAGTTACAGTGGAGCGGATTTAAATAATAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCACCCTGAAGTTACAGTGGAGCAGATTGAAATAATAGATCTTATCTCCCTGAAGTTGCAGTA
15435797 GAGTAGAT
66 GAGTAGAT
15435805 CACATCAGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
88 30 0.48
89 32 0.52
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (88 bp):
TATCACCCTGAAGTTACAGTGGAGCAGATTGAAATAATAGATCTTATCTCCCTGAAGTTGCAGTA
GAGTAGATTGTAGCCGATAATCC
Found at i:15436680 original size:127 final size:128
Alignment explanation
Indices: 15436402--15436713 Score: 434
Period size: 127 Copynumber: 2.4 Consensus size: 128
15436392 TGAAGTTACG
* *
15436402 GTGGAGTAGACAGAAA-AAACTC-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACC
1 GTGGAGCAGAC-GAAAGAAA-TCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACA
* ** * *
15436465 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGT
63 ACAGATCTTATCTCCCTGAAGCAGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAAT
15436530 A
128 A
* *
15436531 GT-GAACAGACGAAAGAAATCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACAACA
1 GTGGAGCAGACGAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACA
* * *
15436595 GATCTTATCTCCCT-AAGCAGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAATA
66 GATCTTATCTCCCTGAAGCAGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAATA
* * *
15436657 GTGGAGCAGACGAAAGAAATCAATCCTATCCCCCTGAAGTTGCAATGGAGCAGATTA
1 GTGGAGCAGACGAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTA
15436714 GAGCTATTAA
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
126 43 0.26
127 76 0.47
128 42 0.26
129 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (128 bp):
GTGGAGCAGACGAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACA
GATCTTATCTCCCTGAAGCAGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAATA
Found at i:15443548 original size:24 final size:23
Alignment explanation
Indices: 15443521--15443565 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
15443511 ATTGATGTTT
* *
15443521 CTATTACAAATTCATCTATTTTCA
1 CTATTAAAAATTAATCT-TTTTCA
15443545 CTATTAAAAATTAATCTTTTT
1 CTATTAAAAATTAATCTTTTT
15443566 ACGTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.49
Consensus pattern (23 bp):
CTATTAAAAATTAATCTTTTTCA
Found at i:15448122 original size:5 final size:5
Alignment explanation
Indices: 15448112--15448138 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15448102 AATTGTACAC
15448112 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
15448139 GATTTTATGC
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:15448715 original size:4 final size:4
Alignment explanation
Indices: 15448706--15448754 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
15448696 TTTCCTACTC
15448706 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15448754 T
1 T
15448755 GTGTGTGTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:15455779 original size:127 final size:127
Alignment explanation
Indices: 15455626--15455879 Score: 463
Period size: 127 Copynumber: 2.0 Consensus size: 127
15455616 ACAAAAATTA
* *
15455626 GCGGAATAAATTGGGAAATTGAACACACAAATTTAACGTGGAAAAATCCCTCCAAAGAGGATAAA
1 GCGGAATAAATTGAGAAATTGAACACACAAATTTAACGTGGAAAAACCCCTCCAAAGAGGATAAA
15455691 AAACCACAGGCAAAGATAATTTTACTATAATGACAAAAGAAAGAAGAGTACAAAAGATGGAG
66 AAACCACAGGCAAAGATAATTTTACTATAATGACAAAAGAAAGAAGAGTACAAAAGATGGAG
15455753 GCGGAATAAATTGAGAAATTGAACACACAAATTTAACGTGGAAAAACCCCTCCAAAGAGGATAAA
1 GCGGAATAAATTGAGAAATTGAACACACAAATTTAACGTGGAAAAACCCCTCCAAAGAGGATAAA
* * *
15455818 AAACCACGGGCAAAGATAATTTTACTATAATGGCAAAAGAACGAAGAGTACAAAAGATGGAG
66 AAACCACAGGCAAAGATAATTTTACTATAATGACAAAAGAAAGAAGAGTACAAAAGATGGAG
15455880 ATAAAACTAA
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 122 1.00
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.17
Consensus pattern (127 bp):
GCGGAATAAATTGAGAAATTGAACACACAAATTTAACGTGGAAAAACCCCTCCAAAGAGGATAAA
AAACCACAGGCAAAGATAATTTTACTATAATGACAAAAGAAAGAAGAGTACAAAAGATGGAG
Found at i:15463722 original size:40 final size:39
Alignment explanation
Indices: 15463670--15463806 Score: 131
Period size: 40 Copynumber: 3.6 Consensus size: 39
15463660 AAGAGTTTCC
*
15463670 GCCCAGCGCTAGTCGGATAAATCGACGATATTAAATGTGA
1 GCCCAGCTCTAGTCGGATAAA-CGACGATATTAAATGTGA
* * * * *
15463710 GCCCAACTCTAGTTGGATAAACCAACGAT-GT---T-TGC
1 GCCCAGCTCTAGTCGGATAAA-CGACGATATTAAATGTGA
* *
15463745 GCCCAGCGCTAGTCGGATACACTGACGATATTAAATGTGA
1 GCCCAGCTCTAGTCGGATAAAC-GACGATATTAAATGTGA
*
15463785 GCCCAGCTCTAGTTGGATAAAC
1 GCCCAGCTCTAGTCGGATAAAC
15463807 CAACAATGTT
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
34 1 0.01
35 24 0.32
36 2 0.03
39 2 0.03
40 45 0.61
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (39 bp):
GCCCAGCTCTAGTCGGATAAACGACGATATTAAATGTGA
Found at i:15463756 original size:75 final size:74
Alignment explanation
Indices: 15463664--15463989 Score: 299
Period size: 75 Copynumber: 4.4 Consensus size: 74
15463654 CTGCAAAAGA
*
15463664 GTTTCCGCCCAGCGCTAGTCGGATAAATCGACGATATTAAATGTGAGCCCAACTCTAGTTGGATA
1 GTTTGCGCCCAGCGCTAGTCGGATAAATCGACGA-ATTAAATGTGAGCCCAACTCTAGTTGGATA
15463729 AACCAACGAT
65 AACCAACGAT
* *
15463739 GTTTGCGCCCAGCGCTAGTCGGATACA-CTGACGATATTAAATGTGAGCCCAGCTCTAGTTGGAT
1 GTTTGCGCCCAGCGCTAGTCGGATAAATC-GACGA-ATTAAATGTGAGCCCAACTCTAGTTGGAT
*
15463803 AAACCAACAAT
64 AAACCAACGAT
* ** * * * * * * ***
15463814 GTTTGCACTTAGTGCTAATCGGATAAA-C--CG-A-TGAATGTGTGCCCAACACCAGTCAAATAA
1 GTTTGCGCCCAGCGCTAGTCGGATAAATCGACGAATTAAATGTGAGCCCAACTCTAGTTGGATAA
* *
15463874 ACTGATA-GAA
66 AC-CA-ACGAT
* * * * * *
15463884 G-TTGCACCCAACGCTAGTCGGATAAATTGACGAAATAAATGGTGAGTCCAGCTCTAGTTGGATA
1 GTTTGCGCCCAGCGCTAGTCGGATAAATCGACGAATTAAAT-GTGAGCCCAACTCTAGTTGGATA
*
15463948 AACCAATGAT
65 AACCAACGAT
* *
15463958 GTTTGCGCCCAACGTTAGTCGGATAAATCGAC
1 GTTTGCGCCCAGCGCTAGTCGGATAAATCGAC
15463990 AAATGTGTAA
Statistics
Matches: 199, Mismatches: 41, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
69 43 0.22
70 4 0.02
71 1 0.01
72 4 0.02
73 2 0.01
74 9 0.05
75 136 0.68
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (74 bp):
GTTTGCGCCCAGCGCTAGTCGGATAAATCGACGAATTAAATGTGAGCCCAACTCTAGTTGGATAA
ACCAACGAT
Found at i:15463757 original size:35 final size:35
Alignment explanation
Indices: 15463718--15463819 Score: 87
Period size: 40 Copynumber: 2.8 Consensus size: 35
15463708 GAGCCCAACT
15463718 CTAGTTGGATAAACCAACGATGTTTGCGCCCAGCG
1 CTAGTTGGATAAACCAACGATGTTTGCGCCCAGCG
* * ** * * *
15463753 CTAGTCGGATACACTGACGATATTAAATGTGAGCCCAGCT
1 CTAGTTGGATAAACCAACGAT-GT---T-TGCGCCCAGCG
*
15463793 CTAGTTGGATAAACCAACAATGTTTGC
1 CTAGTTGGATAAACCAACGATGTTTGC
15463820 ACTTAGTGCT
Statistics
Matches: 48, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
35 19 0.40
36 2 0.04
39 2 0.04
40 25 0.52
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (35 bp):
CTAGTTGGATAAACCAACGATGTTTGCGCCCAGCG
Found at i:15467373 original size:40 final size:40
Alignment explanation
Indices: 15467323--15467497 Score: 260
Period size: 40 Copynumber: 4.4 Consensus size: 40
15467313 AGTATAAATA
* *
15467323 GGGCACGTATGTGTATTCAGGGGTACCGAAGTATAAACAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * * *
15467363 GGGCATGTATGTGCATTCAAGGGAACCAAAGTACAAACAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * *
15467403 GGGCACATATGTGCATTCAAGGGTATCGAAGTACAAACAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
*
15467443 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAA
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
15467483 GGGCACGTATGTGCA
1 GGGCACGTATGTGCA
15467498 ATCATCAACA
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (40 bp):
GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
Found at i:15467465 original size:20 final size:20
Alignment explanation
Indices: 15467400--15467465 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
15467390 AAAGTACAAA
*
15467400 CAGGGGCACATATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * * **
15467420 CAAGGGTATCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCATT
15467440 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
15467460 CAGGGG
1 CAGGGG
15467466 TACCGAAGTA
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 2 0.06
20 28 0.90
21 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:15473982 original size:40 final size:40
Alignment explanation
Indices: 15473897--15474134 Score: 277
Period size: 39 Copynumber: 6.0 Consensus size: 40
15473887 ATACTATTTA
* * * * *
15473897 ATTCAGGGTTACCAAAGTATAAATA-GGGCACGTATGTGT
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
15473936 ATTCAGGGGTACCGAAGTACAAACCGGGACACATATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* *
15473976 ATTCAGGGGTACCGAAGTACAAACAAGGGCATGTATGTG-
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
15474015 ATATTAGGGG-ACCAAAGTACAAATAGGGGCACGTATGTGC
1 AT-TCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
15474055 ATTCAAGGGTACC-AAGTACAAACCGGGGCACTTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* *
15474094 ATTCAGGAGTACTGAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
15474134 A
1 A
15474135 ATTATCACTA
Statistics
Matches: 166, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
39 85 0.51
40 81 0.49
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (40 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
Found at i:15474033 original size:79 final size:79
Alignment explanation
Indices: 15473897--15474134 Score: 257
Period size: 79 Copynumber: 3.0 Consensus size: 79
15473887 ATACTATTTA
* * * * *
15473897 ATTCAGGGTTACCAAAGTATAAA-TAGGGCACGTATGTGTATTCAGGGGTACCGAAGTACAAACC
1 ATTCAGGGGTACC-AAGTACAAACAAGGGCACGTATGTGTATTCAGGGGTACCAAAGTACAAACA
15473961 GGGACACATATGTGC
65 GGGACACATATGTGC
* *
15473976 ATTCAGGGGTACCGAAGTACAAACAAGGGCATGTATGTGATATT-AGGGG-ACCAAAGTACAAAT
1 ATTCAGGGGTACC-AAGTACAAACAAGGGCACGTATGTG-TATTCAGGGGTACCAAAGTACAAAC
* *
15474039 AGGGGCACGTATGTGC
64 AGGGACACATATGTGC
* ** * * * **
15474055 ATTCAAGGGTACCAAGTACAAACCGGGGCACTTATGTGCATTCAGGAGTACTGAAGTACAAACAG
1 ATTCAGGGGTACCAAGTACAAACAAGGGCACGTATGTGTATTCAGGGGTACCAAAGTACAAACAG
* *
15474120 GGGCACGTATGTGC
66 GGACACATATGTGC
15474134 A
1 A
15474135 ATTATCACTA
Statistics
Matches: 135, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
77 3 0.02
78 25 0.19
79 85 0.63
80 18 0.13
81 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (79 bp):
ATTCAGGGGTACCAAGTACAAACAAGGGCACGTATGTGTATTCAGGGGTACCAAAGTACAAACAG
GGACACATATGTGC
Found at i:15474115 original size:118 final size:118
Alignment explanation
Indices: 15473907--15474132 Score: 355
Period size: 118 Copynumber: 1.9 Consensus size: 118
15473897 ATTCAGGGTT
* * *
15473907 ACCAAAGTATAAATAGGGCACGTATGTGTATTCAGGGGTACCGAAGTACAAACCGGGACACATAT
1 ACCAAAGTACAAATAGGGCACGTATGTGCATTCAAGGGTACCGAAGTACAAACCGGGACACATAT
* *
15473972 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCATGTATGTGATATTAGGGG
66 GTGCATTCAGGAGTACCGAAGTACAAACAAGGGCACGTATGTGATATTAGGGG
* *
15474025 ACCAAAGTACAAATAGGGGCACGTATGTGCATTCAAGGGTACC-AAGTACAAACCGGGGCACTTA
1 ACCAAAGTACAAATA-GGGCACGTATGTGCATTCAAGGGTACCGAAGTACAAACCGGGACACATA
* *
15474089 TGTGCATTCAGGAGTACTGAAGTACAAACAGGGGCACGTATGTG
65 TGTGCATTCAGGAGTACCGAAGTACAAACAAGGGCACGTATGTG
15474133 CAATTATCAC
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
118 73 0.74
119 25 0.26
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (118 bp):
ACCAAAGTACAAATAGGGCACGTATGTGCATTCAAGGGTACCGAAGTACAAACCGGGACACATAT
GTGCATTCAGGAGTACCGAAGTACAAACAAGGGCACGTATGTGATATTAGGGG
Found at i:15476363 original size:43 final size:45
Alignment explanation
Indices: 15476269--15476368 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 45
15476259 AGAGGTGTTA
**
15476269 CATAGTGCATCATCGGGCAAGCCAAAGAAATTATACTGACACACG
1 CATAGTGCATCATCGAACAAGCCAAAGAAATTATACTGACACACG
* *
15476314 -A-GGTGCATCATCGAACTAA-CCAAAGTAATTATACT-A-ACACG
1 CATAGTGCATCATCGAAC-AAGCCAAAGAAATTATACTGACACACG
15476355 CATAGTGCATCATC
1 CATAGTGCATCATC
15476369 AGATGGACCG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
41 5 0.11
42 2 0.04
43 37 0.79
44 3 0.06
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (45 bp):
CATAGTGCATCATCGAACAAGCCAAAGAAATTATACTGACACACG
Found at i:15476516 original size:42 final size:42
Alignment explanation
Indices: 15476421--15476543 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
15476411 GGATGTATTG
* * * *
15476421 AAGCAAATATATTGGCATGTAAGTGCATCATCGAATATACCGA
1 AAGCAAATATACT-GCACGTAAGTGCATCATCGGATAAACCGA
** *
15476464 AA-CAGTTATACTAGCACATAAGTGCATCATCGGATAAACC-A
1 AAGCAAATATACT-GCACGTAAGTGCATCATCGGATAAACCGA
* *
15476505 AAGCAAATATACTGACACGTAAGTGTATCATCGGCTAAA
1 AAGCAAATATACTG-CACGTAAGTGCATCATCGGATAAA
15476544 TTGAAGTATA
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
41 4 0.06
42 59 0.91
43 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (42 bp):
AAGCAAATATACTGCACGTAAGTGCATCATCGGATAAACCGA
Found at i:15479936 original size:120 final size:122
Alignment explanation
Indices: 15479712--15479947 Score: 297
Period size: 120 Copynumber: 2.0 Consensus size: 122
15479702 ATATTTAAAG
* *
15479712 TTAGAATAAGCCAACATTTATATAAATTGATTACGAGTGTTTCTTTTTAAATTAATATTATATTA
1 TTAGAATAAGCCAACATATATATAAATTGATTACGAGTGTTTCTTTTTAAATTAATATTATACTA
* * *
15479777 GGTATGATTTTATTAACAAGAAATCAGAATAAAATTTATTACTTCCTTATTAATTGA
66 GGCATGATTTTAATAACAAGAAATCAGAATAAAAATTATTACTTCCTTATTAATTGA
* * * * *
15479834 TTAGAATAAGTCAACATATATATGAAA-TGATTATGGGTG-TTCTTTTT-ATTTAATATTATGCT
1 TTAGAATAAGCCAACATATATAT-AAATTGATTACGAGTGTTTCTTTTTAAATTAATATTATACT
* * *
15479896 AGGCATGATTTTAATAACAATAAATC---ATAAAAATAATTA-TTCTTTATTAATT
65 AGGCATGATTTTAATAACAAGAAATCAGAATAAAAATTATTACTTCCTTATTAATT
15479948 AATTTTATTG
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
116 12 0.12
117 11 0.11
120 35 0.35
121 8 0.08
122 31 0.31
123 3 0.03
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (122 bp):
TTAGAATAAGCCAACATATATATAAATTGATTACGAGTGTTTCTTTTTAAATTAATATTATACTA
GGCATGATTTTAATAACAAGAAATCAGAATAAAAATTATTACTTCCTTATTAATTGA
Found at i:15484604 original size:27 final size:27
Alignment explanation
Indices: 15484572--15484629 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
15484562 AATATATGGA
15484572 AGTAAGAAAGAACTCACCAGAAACTCT
1 AGTAAGAAAGAACTCACCAGAAACTCT
15484599 AGTAAGAAAGAACTCACCAGAAACTCT
1 AGTAAGAAAGAACTCACCAGAAACTCT
15484626 AGTA
1 AGTA
15484630 CAATGATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.48, C:0.21, G:0.16, T:0.16
Consensus pattern (27 bp):
AGTAAGAAAGAACTCACCAGAAACTCT
Found at i:15490092 original size:7 final size:7
Alignment explanation
Indices: 15490080--15490120 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
15490070 CTTTAACATT
*
15490080 ACATCTC
1 ACATATC
*
15490087 ACATCTC
1 ACATATC
15490094 ACATATC
1 ACATATC
15490101 ACATATC
1 ACATATC
15490108 ACATATC
1 ACATATC
*
15490115 ATATAT
1 ACATAT
15490121 TGATGGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (7 bp):
ACATATC
Found at i:15497210 original size:24 final size:24
Alignment explanation
Indices: 15497174--15497236 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 24
15497164 TAACATTCTC
15497174 AATAT-TTTGAAAATATTTTAAATT
1 AATATGTTT-AAAATATTTTAAATT
15497198 AATATGTTT-AAA-ATTTTAAATT
1 AATATGTTTAAAATATTTTAAATT
15497220 ATATTATGCTTTAAAAT
1 A-A-TATG-TTTAAAAT
15497237 GTCTTGTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
22 11 0.33
23 4 0.12
24 9 0.27
25 6 0.18
26 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (24 bp):
AATATGTTTAAAATATTTTAAATT
Done.