Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 23 of 410
Found at i:6008300 original size:25 final size:25
Alignment explanation
Indices: 6008272--6008321 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
6008262 AAATACCTTT
6008272 CTTTTTATGGTTGCTGAATCTTGAG
1 CTTTTTATGGTTGCTGAATCTTGAG
*
6008297 CTTTTTGTGGTTGCTGAATCTTGAG
1 CTTTTTATGGTTGCTGAATCTTGAG
6008322 AAACTCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.14, C:0.12, G:0.26, T:0.48
Consensus pattern (25 bp):
CTTTTTATGGTTGCTGAATCTTGAG
Found at i:6013343 original size:9 final size:9
Alignment explanation
Indices: 6013329--6013387 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
6013319 AAAAGGAGGT
*
6013329 GGCGGCAGC
1 GGCGGCGGC
6013338 GGCGGCGGC
1 GGCGGCGGC
*
6013347 GGCAGCGGC
1 GGCGGCGGC
6013356 GGCGGCGGC
1 GGCGGCGGC
*
6013365 GGCGGCAGC
1 GGCGGCGGC
*
6013374 GGCAGCGGC
1 GGCGGCGGC
*
6013383 AGCGG
1 GGCGG
6013388 TGAGGGTGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.08, C:0.32, G:0.59, T:0.00
Consensus pattern (9 bp):
GGCGGCGGC
Found at i:6013345 original size:6 final size:6
Alignment explanation
Indices: 6013329--6013387 Score: 73
Period size: 6 Copynumber: 9.8 Consensus size: 6
6013319 AAAAGGAGGT
* * *
6013329 GGCGGC AGCGGC GGCGGC GGCAGC GGCGGC GGCGGC GGCGGC AGCGGC
1 GGCGGC GGCGGC GGCGGC GGCGGC GGCGGC GGCGGC GGCGGC GGCGGC
* *
6013377 AGCGGC AGCGG
1 GGCGGC GGCGG
6013388 TGAGGGTGGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.08, C:0.32, G:0.59, T:0.00
Consensus pattern (6 bp):
GGCGGC
Found at i:6013346 original size:12 final size:12
Alignment explanation
Indices: 6013329--6013387 Score: 82
Period size: 12 Copynumber: 4.9 Consensus size: 12
6013319 AAAAGGAGGT
6013329 GGCGGCAGCGGC
1 GGCGGCAGCGGC
* *
6013341 GGCGGCGGCAGC
1 GGCGGCAGCGGC
*
6013353 GGCGGCGGCGGC
1 GGCGGCAGCGGC
6013365 GGCGGCAGCGGC
1 GGCGGCAGCGGC
*
6013377 AGCGGCAGCGG
1 GGCGGCAGCGG
6013388 TGAGGGTGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.08, C:0.32, G:0.59, T:0.00
Consensus pattern (12 bp):
GGCGGCAGCGGC
Found at i:6013349 original size:15 final size:15
Alignment explanation
Indices: 6013329--6013387 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 15
6013319 AAAAGGAGGT
6013329 GGCGGCAGCGGCGGC
1 GGCGGCAGCGGCGGC
6013344 GGCGGCAGCGGCGGC
1 GGCGGCAGCGGCGGC
6013359 GGC-G--GCGGCGGC
1 GGCGGCAGCGGCGGC
* *
6013371 AGCGGCAGCGGCAGC
1 GGCGGCAGCGGCGGC
6013386 GG
1 GG
6013388 TGAGGGTGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
12 10 0.26
13 1 0.03
14 1 0.03
15 26 0.68
ACGTcount: A:0.08, C:0.32, G:0.59, T:0.00
Consensus pattern (15 bp):
GGCGGCAGCGGCGGC
Found at i:6016103 original size:22 final size:22
Alignment explanation
Indices: 6016050--6016105 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
6016040 GAATAGTATC
* * *
6016050 ACACACCCGTATGGCTTATATG
1 ACACGCCCGTGTGGCTAATATG
*
6016072 ACACGTCCGTGTGGCTAATATG
1 ACACGCCCGTGTGGCTAATATG
*
6016094 ACATGCCCGTGT
1 ACACGCCCGTGT
6016106 CATCAACCCG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (22 bp):
ACACGCCCGTGTGGCTAATATG
Found at i:6018066 original size:8 final size:8
Alignment explanation
Indices: 6018039--6018096 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
6018029 TTATTTTAAC
6018039 TATTATAT
1 TATTATAT
6018047 TA-TACT-T
1 TATTA-TAT
6018054 TATTATAT
1 TATTATAT
*
6018062 TATTAAAT
1 TATTATAT
*
6018070 TATTATAA
1 TATTATAT
*
6018078 TAATATAT
1 TATTATAT
6018086 TATATATAT
1 TAT-TATAT
6018095 TA
1 TA
6018097 AATATCTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
7 6 0.15
8 27 0.68
9 7 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (8 bp):
TATTATAT
Found at i:6018101 original size:16 final size:16
Alignment explanation
Indices: 6018054--6018101 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
6018044 TATTATACTT
6018054 TATTATAT-TATTAAA
1 TATTATATATATTAAA
*
6018069 TTATTATA-ATA--ATA
1 -TATTATATATATTAAA
6018083 TATTATATATATTAAA
1 TATTATATATATTAAA
6018099 TAT
1 TAT
6018102 CTTATACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
16 14 0.54
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTATATATATTAAA
Found at i:6019435 original size:9 final size:9
Alignment explanation
Indices: 6019421--6019447 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6019411 TATTAAAAAC
6019421 ATAAATAAA
1 ATAAATAAA
6019430 ATAAATAAA
1 ATAAATAAA
6019439 ATAAATAAA
1 ATAAATAAA
6019448 GGAAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
ATAAATAAA
Found at i:6020159 original size:26 final size:26
Alignment explanation
Indices: 6020122--6020257 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
6020112 TGATACAAAT
* *
6020122 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6020148 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
6020174 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6020200 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6020226 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6020252 TGATAA
1 TGATAA
6020258 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6022285 original size:136 final size:136
Alignment explanation
Indices: 6022040--6022461 Score: 772
Period size: 136 Copynumber: 3.1 Consensus size: 136
6022030 GAGTAGTCTC
6022040 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
6022105 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6022170 ACTGTTA
130 ACTGTTA
6022177 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
6022242 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
6022307 CTGTTA
131 CTGTTA
6022313 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* * * *
6022378 GTTATCCGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTAGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
6022443 CTGTTA
131 CTGTTA
**
6022449 CCTGAATGGGCTT
1 CCCAAATGGGCTT
6022462 AGGCCCAATA
Statistics
Matches: 277, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
136 257 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:6026192 original size:26 final size:26
Alignment explanation
Indices: 6026155--6026289 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
6026145 TGATACAAAT
* *
6026155 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6026181 TGATAATGGGTTAGGT-AATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
6026206 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6026232 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6026258 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6026284 TGATAA
1 TGATAA
6026290 GAATTCATGT
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.23
26 79 0.77
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6026210 original size:51 final size:52
Alignment explanation
Indices: 6026155--6026289 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
6026145 TGATACAAAT
6026155 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGT-AATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
6026206 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
6026258 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
6026290 GAATTCATGT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 42 0.52
52 39 0.48
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:6028312 original size:136 final size:136
Alignment explanation
Indices: 6028067--6028488 Score: 790
Period size: 136 Copynumber: 3.1 Consensus size: 136
6028057 GAGTAGTCTC
6028067 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
6028132 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6028197 ACTGTTA
130 ACTGTTA
6028204 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
6028269 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
6028334 CTGTTA
131 CTGTTA
6028340 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* * *
6028405 GTTATCTGAATAAGGGGCTAAGGCTCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
6028470 CTGTTA
131 CTGTTA
**
6028476 CCTGAATGGGCTT
1 CCCAAATGGGCTT
6028489 AGGCCCAATA
Statistics
Matches: 280, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
136 260 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:6029438 original size:31 final size:31
Alignment explanation
Indices: 6029371--6029439 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
6029361 TTAACCTTAA
*
6029371 TATTATTCATATTATATTTTATTACTGCTAT
1 TATTATTCATATTATATTTTATTACTGATAT
* *
6029402 CATTATT-ATATTTTA-TTTATTAGCATGATAT
1 TATTATTCATATTATATTTTATTA-C-TGATAT
6029433 TATTATT
1 TATTATT
6029440 GTTATTACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 7 0.22
30 8 0.25
31 17 0.53
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.58
Consensus pattern (31 bp):
TATTATTCATATTATATTTTATTACTGATAT
Found at i:6029660 original size:13 final size:13
Alignment explanation
Indices: 6029644--6029673 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6029634 ATTTTTCTTT
6029644 TATATATTATGTA
1 TATATATTATGTA
*
6029657 TATATTTTATGTA
1 TATATATTATGTA
6029670 TATA
1 TATA
6029674 CTTTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
TATATATTATGTA
Found at i:6029976 original size:3 final size:3
Alignment explanation
Indices: 6029968--6029996 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6029958 TTCTTAACGG
6029968 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6029997 CCTAACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6030146 original size:20 final size:20
Alignment explanation
Indices: 6030104--6030171 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
6030094 ACCCCTATTA
* *
6030104 TATTTTCTTTATATGTAGTAT
1 TATTTT-TTTATATATACTAT
*
6030125 TATTTTTTTATATATACCAT
1 TATTTTTTTATATATACTAT
*
6030145 TATATTTATTAT-TATACTTAT
1 TAT-TTTTTTATATATAC-TAT
6030166 TATTTT
1 TATTTT
6030172 CACTATTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 22 0.55
21 18 0.45
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (20 bp):
TATTTTTTTATATATACTAT
Found at i:6033060 original size:58 final size:58
Alignment explanation
Indices: 6032970--6033085 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
6032960 AAGATAAGTG
6032970 ATATAGACTTTACTCAAAAGCCTAAACTCCTTAGAACACCATAATTAAAACGATTTTT
1 ATATAGACTTTACTCAAAAGCCTAAACTCCTTAGAACACCATAATTAAAACGATTTTT
6033028 ATATAGACTTTACTCAAAAGCCTAAACTCCTTAGAACACCATAATTAAAACGATTTTT
1 ATATAGACTTTACTCAAAAGCCTAAACTCCTTAGAACACCATAATTAAAACGATTTTT
6033086 TACACCTTCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (58 bp):
ATATAGACTTTACTCAAAAGCCTAAACTCCTTAGAACACCATAATTAAAACGATTTTT
Found at i:6035798 original size:2 final size:2
Alignment explanation
Indices: 6035785--6035832 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
6035775 GAGAATTAGG
*
6035785 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6035827 TA TA TA
1 TA TA TA
6035833 GGTTGGCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6039424 original size:40 final size:42
Alignment explanation
Indices: 6039375--6039600 Score: 176
Period size: 40 Copynumber: 5.6 Consensus size: 42
6039365 CGACAGCTCG
* * * *
6039375 ATTGTCTTCGGGACATT-G-CCGGGTTATAGTGATTCGCAC-A
1 ATTGCCTTCGGGACATTAGCCCGGATT-TAGTAACTCGCACGA
6039415 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACGA
1 ATTGCCTTCGGGACATTAGCCCGGATTTAGTAACTCGCACGA
* *
6039456 A-TGCCTTCGGGAC-TTAACCCGG-TTTTGATAACTCGCAC-A
1 ATTGCCTTCGGGACATTAGCCCGGATTTAG-TAACTCGCACGA
* * *
6039495 AATGCCTTCGGGAC-TTAACCCGG-TTTTGATAACTCGCAC-A
1 ATTGCCTTCGGGACATTAGCCCGGATTTAG-TAACTCGCACGA
* * *
6039535 AATGCCTTCGGGA-ATT-GACCCGGATTTAGTCACTTAGCAC-A
1 ATTGCCTTCGGGACATTAG-CCCGGATTTAGTAAC-TCGCACGA
**
6039576 AAAGCCTTCGGGAC-TTAGCCCGGAT
1 ATTGCCTTCGGGACATTAGCCCGGAT
6039601 ACCATTCGAA
Statistics
Matches: 163, Mismatches: 11, Indels: 23
0.83 0.06 0.12
Matches are distributed among these distances:
39 9 0.06
40 114 0.70
41 39 0.24
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (42 bp):
ATTGCCTTCGGGACATTAGCCCGGATTTAGTAACTCGCACGA
Found at i:6039598 original size:41 final size:41
Alignment explanation
Indices: 6039408--6039600 Score: 234
Period size: 40 Copynumber: 4.8 Consensus size: 41
6039398 TTATAGTGAT
* *
6039408 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAG-TAAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGATAAC
* * *
6039448 TCGCACGAATGCCTTCGGGACTTAACCCGG-TTTTGATAAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGATAAC
* *
6039488 TCGCACAAATGCCTTCGGGACTTAACCCGG-TTTTGATAAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGATAAC
* *
6039528 TCGCACAAATGCCTTCGGGAATT-GACCCGGATTTAG-TCAC
1 TCGCACAAATGCCTTCGGGACTTAG-CCCGGATTTAGATAAC
* *
6039568 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 -TCGCACAAATGCCTTCGGGACTTAGCCCGGAT
6039601 ACCATTCGAA
Statistics
Matches: 135, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 4 0.03
40 99 0.73
41 31 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGATAAC
Found at i:6040314 original size:2 final size:2
Alignment explanation
Indices: 6040307--6040340 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6040297 ATGTGCAAAC
6040307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6040341 GCTAGAGCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6043442 original size:24 final size:24
Alignment explanation
Indices: 6043414--6043461 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6043404 TGAATATTGA
*
6043414 TGGCTTAGTCTACAACCTACATGG
1 TGGCTTAGTCCACAACCTACATGG
* * *
6043438 TGGCTTCGTCCACGACCTATATGG
1 TGGCTTAGTCCACAACCTACATGG
6043462 CAGCTTGTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (24 bp):
TGGCTTAGTCCACAACCTACATGG
Found at i:6046858 original size:22 final size:21
Alignment explanation
Indices: 6046833--6046906 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
6046823 AGCACTTCTA
6046833 TGCTCTCTATTCAGCACTTTGG
1 TGCTCTCTATT-AGCACTTTGG
* *
6046855 TGCTCTCTGATTAGTACTTCGG
1 TGCTCTCT-ATTAGCACTTTGG
* * * *
6046877 TGCTTTCTTCTTAACACTTTAG
1 TGCTCTC-TATTAGCACTTTGG
6046899 TGCTCTCT
1 TGCTCTCT
6046907 GTTAAGAACT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.02
22 36 0.88
23 4 0.10
ACGTcount: A:0.14, C:0.26, G:0.16, T:0.45
Consensus pattern (21 bp):
TGCTCTCTATTAGCACTTTGG
Found at i:6056373 original size:15 final size:14
Alignment explanation
Indices: 6056349--6056378 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
6056339 TAATTTTACA
6056349 TATTAAAAATATTT
1 TATTAAAAATATTT
6056363 TATTGAAAAATATTT
1 TATT-AAAAATATTT
6056378 T
1 T
6056379 TAAATTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TATTAAAAATATTT
Found at i:6059196 original size:16 final size:16
Alignment explanation
Indices: 6059175--6059206 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6059165 TTATGTTTAG
6059175 TATATTATTATATAAT
1 TATATTATTATATAAT
6059191 TATATTATTATATAAT
1 TATATTATTATATAAT
6059207 AAAGATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATTATTATATAAT
Found at i:6059236 original size:5 final size:5
Alignment explanation
Indices: 6059226--6059262 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
6059216 TTATGTTTTA
6059226 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
6059263 AAACTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:6060552 original size:15 final size:15
Alignment explanation
Indices: 6060532--6060588 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
6060522 CGATGAATTT
*
6060532 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
6060547 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
6060562 ATTGAAATTATATTG
1 ATTGAAATTATATTG
6060577 ATTG-AATTATAT
1 ATTGAAATTATAT
6060589 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:6060998 original size:23 final size:22
Alignment explanation
Indices: 6060972--6061044 Score: 96
Period size: 21 Copynumber: 3.4 Consensus size: 22
6060962 AGGCACTTTA
* *
6060972 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCC
6060995 TGTGTCGTA-TCAGGCACCTCC
1 TGTGTCGTATTCAGGCACCTCC
6061016 TGTGTCGTA-TCAGGCACCTCC
1 TGTGTCGTATTCAGGCACCTCC
*
6061037 TGTATCGT
1 TGTGTCGT
6061045 TTTAGATGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 38 0.81
23 9 0.19
ACGTcount: A:0.14, C:0.27, G:0.25, T:0.34
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCC
Found at i:6061009 original size:21 final size:21
Alignment explanation
Indices: 6060985--6061044 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
6060975 GTCGTATTTT
*
6060985 AGGCACCTCGTGTGTCGTATC
1 AGGCACCTCCTGTGTCGTATC
6061006 AGGCACCTCCTGTGTCGTATC
1 AGGCACCTCCTGTGTCGTATC
*
6061027 AGGCACCTCCTGTATCGT
1 AGGCACCTCCTGTGTCGT
6061045 TTTAGATGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.15, C:0.32, G:0.25, T:0.28
Consensus pattern (21 bp):
AGGCACCTCCTGTGTCGTATC
Found at i:6067227 original size:26 final size:26
Alignment explanation
Indices: 6067191--6067300 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
6067181 CATGAAATTC
6067191 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6067217 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6067243 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
6067269 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6067295 TTATCA
1 TTATCA
6067301 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6067790 original size:3 final size:3
Alignment explanation
Indices: 6067782--6067813 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6067772 TATGGTTTTA
6067782 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6067814 AATAAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6067946 original size:17 final size:17
Alignment explanation
Indices: 6067924--6067957 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6067914 AAGTAAAAGA
6067924 TATTT-ATTGATTATTAT
1 TATTTAATTGA-TATTAT
6067941 TATTTAATTGATATTAT
1 TATTTAATTGATATTAT
6067958 ATTAGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTTAATTGATATTAT
Found at i:6068298 original size:16 final size:16
Alignment explanation
Indices: 6068277--6068307 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6068267 AAAAAGCATA
*
6068277 AAAGAAATAAAAAAAC
1 AAAGAAACAAAAAAAC
6068293 AAAGAAACAAAAAAA
1 AAAGAAACAAAAAAA
6068308 GAAACAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.06, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAGAAACAAAAAAAC
Found at i:6069488 original size:38 final size:38
Alignment explanation
Indices: 6069436--6069522 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
6069426 TCCATGAGGT
* *
6069436 ACTGGGTACC-ACTTTACTTC-AGCTAGGCCGATGAGAC
1 ACTGGGTGCCAACTTTACTTCGAACTA-GCCGATGAGAC
* *
6069473 ACTGGGTGCCAACTTTACTTCGAACTATCCGATGAGGC
1 ACTGGGTGCCAACTTTACTTCGAACTAGCCGATGAGAC
6069511 ACTGGGTGCCAA
1 ACTGGGTGCCAA
6069523 ATTGGTGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 9 0.20
38 31 0.70
39 4 0.09
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.24
Consensus pattern (38 bp):
ACTGGGTGCCAACTTTACTTCGAACTAGCCGATGAGAC
Found at i:6071497 original size:25 final size:25
Alignment explanation
Indices: 6071441--6071512 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
6071431 CGTGTTTAAC
* *
6071441 TTTTAATTAATTTTTTAA-AA-GTAA
1 TTTTAATTAA-TTTTAAATAATATAA
6071465 TTTGTAATTAATTTTAAATAATATAA
1 TTT-TAATTAATTTTAAATAATATAA
* *
6071491 TTTTAATTACTTTTACATAATA
1 TTTTAATTAATTTTAAATAATA
6071513 ATATACAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.22
25 26 0.63
26 6 0.15
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (25 bp):
TTTTAATTAATTTTAAATAATATAA
Found at i:6076799 original size:3 final size:3
Alignment explanation
Indices: 6076791--6076842 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
6076781 AATGCAAAAT
*
6076791 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6076839 TAA T
1 TAA T
6076843 TTATTATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6082344 original size:40 final size:40
Alignment explanation
Indices: 6082297--6082377 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
6082287 AGAAGATAAG
6082297 CAAATTAAAAAGATGAATATTTATCAAATTCTAAAACTTA
1 CAAATTAAAAAGATGAATATTTATCAAATTCTAAAACTTA
6082337 CAAATTAAAAAGATGAATATTTATCAAATTCTAAAACTTA
1 CAAATTAAAAAGATGAATATTTATCAAATTCTAAAACTTA
6082377 C
1 C
6082378 TTGCATAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (40 bp):
CAAATTAAAAAGATGAATATTTATCAAATTCTAAAACTTA
Found at i:6086443 original size:2 final size:2
Alignment explanation
Indices: 6086436--6086469 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6086426 AATACATTCA
6086436 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6086470 CAATTTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6086884 original size:21 final size:21
Alignment explanation
Indices: 6086858--6086900 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
6086848 AGAACACACC
6086858 AACAGAAGCTCATGAGAGTTG
1 AACAGAAGCTCATGAGAGTTG
6086879 AACAGAAGCTCATGAGAGTTG
1 AACAGAAGCTCATGAGAGTTG
6086900 A
1 A
6086901 TCCACCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATGAGAGTTG
Found at i:6091416 original size:26 final size:26
Alignment explanation
Indices: 6091363--6091416 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
6091353 ATGACAGTTT
* *
6091363 ACTTTTCAATTCATTCATACTAATAA
1 ACTTTTCAATTCATTCATACAAACAA
*
6091389 ACTTTTCAATTCATTGTATA-AAACAA
1 ACTTTTCAATTCATT-CATACAAACAA
6091415 AC
1 AC
6091417 AATAGGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.39
Consensus pattern (26 bp):
ACTTTTCAATTCATTCATACAAACAA
Found at i:6092380 original size:17 final size:18
Alignment explanation
Indices: 6092354--6092409 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
6092344 GGGATTTTTT
*
6092354 ATTTGAGGAAAAAACTA-
1 ATTTGGGGAAAAAACTAG
6092371 ATTTGGGGAAAAAACTAG
1 ATTTGGGGAAAAAACTAG
*
6092389 AGGTTGGGGAAAAAAACTAG
1 A-TTTGGGG-AAAAAACTAG
6092409 A
1 A
6092410 GGTGTGCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 16 0.47
18 1 0.03
19 6 0.18
20 11 0.32
ACGTcount: A:0.48, C:0.05, G:0.27, T:0.20
Consensus pattern (18 bp):
ATTTGGGGAAAAAACTAG
Found at i:6092404 original size:20 final size:19
Alignment explanation
Indices: 6092360--6092412 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
6092350 TTTTATTTGA
*
6092360 GGAAAAAACTA-A-TTTGG
1 GGAAAAAACTAGAGGTTGG
6092377 GGAAAAAACTAGAGGTTGG
1 GGAAAAAACTAGAGGTTGG
6092396 GGAAAAAAACTAGAGGT
1 GG-AAAAAACTAGAGGT
6092413 GTGCATGGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 11 0.34
18 1 0.03
19 6 0.19
20 14 0.44
ACGTcount: A:0.47, C:0.06, G:0.30, T:0.17
Consensus pattern (19 bp):
GGAAAAAACTAGAGGTTGG
Found at i:6092590 original size:12 final size:12
Alignment explanation
Indices: 6092573--6092604 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
6092563 CGGCCTGCCC
6092573 ATATTAATTTTT
1 ATATTAATTTTT
6092585 ATATT-ATTTTT
1 ATATTAATTTTT
6092596 ATA-TAATTT
1 ATATTAATTT
6092605 AAAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:6092760 original size:11 final size:11
Alignment explanation
Indices: 6092742--6092782 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
6092732 ACAATAACAA
6092742 CAAAATAATAG
1 CAAAATAATAG
*
6092753 CAACATAATAG
1 CAAAATAATAG
* *
6092764 TAAAATAGTAG
1 CAAAATAATAG
6092775 CAAAATAA
1 CAAAATAA
6092783 GAAAAAATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:6092760 original size:22 final size:21
Alignment explanation
Indices: 6092734--6092794 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
6092724 ATATTCAAAC
6092734 AATAACAACAAAATAATAGCAA
1 AATAACAA-AAAATAATAGCAA
* * * *
6092756 CATAATAGTAAAATAGTAGCAA
1 AATAACA-AAAAATAATAGCAA
*
6092778 AATAAGAAAAAATAATA
1 AATAACAAAAAATAATA
6092795 ATAAGAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
21 8 0.27
22 22 0.73
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.18
Consensus pattern (21 bp):
AATAACAAAAAATAATAGCAA
Found at i:6092799 original size:16 final size:16
Alignment explanation
Indices: 6092778--6092820 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
6092768 ATAGTAGCAA
6092778 AATAAGAAAAAATAAT
1 AATAAGAAAAAATAAT
6092794 AATAAG--AAAATAAT
1 AATAAGAAAAAATAAT
*
6092808 ATTAA-AAAAAATA
1 AATAAGAAAAAATA
6092821 TTTTTTTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AATAAGAAAAAATAAT
Found at i:6097282 original size:2 final size:2
Alignment explanation
Indices: 6097275--6097302 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6097265 GCATGCAAAC
6097275 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6097303 TACATGGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6103195 original size:40 final size:41
Alignment explanation
Indices: 6103151--6103305 Score: 165
Period size: 41 Copynumber: 3.8 Consensus size: 41
6103141 AATCACCTCA
*
6103151 AAAGG-TGAACAATA-TCGGCATTTTTGGTCCAAATGCTGCT
1 AAAGGTTGAACAATAGT-GGCGTTTTTGGTCCAAATGCTGCT
* * * *
6103191 AAAGGTTGAGA-AATAGTGGCGTTTTTTGTCTAAACGCCGCT
1 AAAGGTTGA-ACAATAGTGGCGTTTTTGGTCCAAATGCTGCT
* * * * * *
6103232 AAAGGTTGAGCTATAGCGGCGTTTTT-GTTCAAATACTACT
1 AAAGGTTGAACAATAGTGGCGTTTTTGGTCCAAATGCTGCT
6103272 AAAGGTTGAACAATAGTGGCGTTTTTGGTCCAAA
1 AAAGGTTGAACAATAGTGGCGTTTTTGGTCCAAA
6103306 CGTCGCAAAT
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
40 36 0.39
41 54 0.59
42 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (41 bp):
AAAGGTTGAACAATAGTGGCGTTTTTGGTCCAAATGCTGCT
Found at i:6103233 original size:41 final size:41
Alignment explanation
Indices: 6103188--6103307 Score: 120
Period size: 40 Copynumber: 3.0 Consensus size: 41
6103178 TCCAAATGCT
6103188 GCTAAAGGTTGAGAAATAGTGGCGTTTTTTGTCTAAACGCC
1 GCTAAAGGTTGAGAAATAGTGGCGTTTTTTGTCTAAACGCC
** * ** *
6103229 GCTAAAGGTTGAGCTATAGCGGCG-TTTTTGT-TCAAATACT
1 GCTAAAGGTTGAGAAATAGTGGCGTTTTTTGTCT-AAACGCC
* * *
6103269 ACTAAAGGTTGA-ACAATAGTGGCGTTTTTGGTCCAAACG
1 GCTAAAGGTTGAGA-AATAGTGGCGTTTTTTGTCTAAACG
6103308 TCGCAAATAT
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
39 1 0.02
40 30 0.49
41 30 0.49
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (41 bp):
GCTAAAGGTTGAGAAATAGTGGCGTTTTTTGTCTAAACGCC
Found at i:6103801 original size:7 final size:7
Alignment explanation
Indices: 6103786--6103873 Score: 61
Period size: 7 Copynumber: 12.4 Consensus size: 7
6103776 TGAACCCTTA
*
6103786 AAACTCT
1 AAACCCT
6103793 AAACCCT
1 AAACCCT
**
6103800 AAACATT
1 AAACCCT
*
6103807 AACCCCT
1 AAACCCT
*
6103814 AAACCTT
1 AAACCCT
* *
6103821 GAACCTT
1 AAACCCT
*
6103828 AACCCCT
1 AAACCCT
6103835 AAACCACT
1 AAACC-CT
*
6103843 AAACTAC-
1 AAAC-CCT
*
6103850 AAACCAT
1 AAACCCT
6103857 AAACCCT
1 AAACCCT
6103864 AAACCCT
1 AAACCCT
6103871 AAA
1 AAA
6103874 TCACAGACCA
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
7 54 0.89
8 7 0.11
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:6103815 original size:21 final size:21
Alignment explanation
Indices: 6103791--6103846 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
6103781 CCTTAAAACT
6103791 CTAAACCCTAAACATTAACCC
1 CTAAACCCTAAACATTAACCC
* * *
6103812 CTAAACCTTGAACCTTAACCC
1 CTAAACCCTAAACATTAACCC
6103833 CTAAACCACTAAAC
1 CTAAACC-CTAAAC
6103847 TACAAACCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.41, C:0.38, G:0.02, T:0.20
Consensus pattern (21 bp):
CTAAACCCTAAACATTAACCC
Found at i:6103883 original size:28 final size:29
Alignment explanation
Indices: 6103822--6103895 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
6103812 CTAAACCTTG
* *
6103822 AACCTTAACCCCTAAACCACTAAACTACA
1 AACCATAAACCCTAAACCACTAAACTACA
6103851 AACCATAAACCCTAAACC-CTAAA-TCACA
1 AACCATAAACCCTAAACCACTAAACT-ACA
* *
6103879 GACCATAAACCCCAAAC
1 AACCATAAACCCTAAAC
6103896 TCTTAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.03
28 23 0.57
29 16 0.40
ACGTcount: A:0.47, C:0.38, G:0.01, T:0.14
Consensus pattern (29 bp):
AACCATAAACCCTAAACCACTAAACTACA
Found at i:6104801 original size:115 final size:115
Alignment explanation
Indices: 6104468--6104822 Score: 516
Period size: 114 Copynumber: 3.1 Consensus size: 115
6104458 AGCTTTGTTT
** * *
6104468 TTAGTGGCGTTTTTACTAAAACGCCATAAAAGGATATCCATTAGTGGCGTTTTCACAAAAAAAAC
1 TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATTCGTTAGTGGCGTTTTCAC--AAAAAAC
* * *
6104533 GCCGCGAATATGTTTTAAGAGTGTGTAAAATGCTGTCGTTTTTATCTGCCTA
64 GCTGTGAATATGTTTTAAGAGTGTGCAAAATGCTGTCGTTTTTATCTGCCTA
6104585 TTAGTGGCGTTTTTACTAAAACGCCGCAAAA-GATATTCGTTAGTGGCGTTTTCACAAAAAACG-
1 TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATTCGTTAGTGGCGTTTTCACAAAAAACGC
* ***
6104648 TCGTGAATATGTATTAAGAGTGTGCAAAAAATTGTCGTTTTTATCTGCCTA
66 T-GTGAATATGTTTTAAGAGTGTGCAAAATGCTGTCGTTTTTATCTGCCTA
* *
6104699 TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATTCGTTAGTGACATTTTCACAAAAAACGC
1 TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATTCGTTAGTGGCGTTTTCACAAAAAACGC
* * * *
6104764 TATGAATATGTTTTAAGAGTTTACAAAATGCTATCGTTTTTATCTGCCTA
66 TGTGAATATGTTTTAAGAGTGTGCAAAATGCTGTCGTTTTTATCTGCCTA
6104814 TTAGTGGCG
1 TTAGTGGCG
6104823 CCACAAAAGG
Statistics
Matches: 214, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
114 82 0.38
115 80 0.37
116 23 0.11
117 29 0.14
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (115 bp):
TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATTCGTTAGTGGCGTTTTCACAAAAAACGC
TGTGAATATGTTTTAAGAGTGTGCAAAATGCTGTCGTTTTTATCTGCCTA
Found at i:6104923 original size:101 final size:101
Alignment explanation
Indices: 6104720--6104911 Score: 244
Period size: 101 Copynumber: 1.9 Consensus size: 101
6104710 TTTACTAAAA
* * * * * *
6104720 CGCCGCAAAAGGATATTCGTTAGTGACATTTTCACAAAAAACGCTATGAATATGTTTTAAGAGTT
1 CGCCACAAAAGGATATTCGTTAGTGACATTTTCACAAAAAACGCCATCAAAATGTTTTAAGACTG
* *
6104785 TACAAAATGCTATCGTTTTTATCTGCCTATTAGTGG
66 TACAAAATGCTACCATTTTTATCTGCCTATTAGTGG
* *
6104821 CGCCACAAAAGGATA-TCGTTTAGTGGCATTTTCACATAAAACGCCA-CAAAATGGTTTTAAGAC
1 CGCCACAAAAGGATATTCG-TTAGTGACATTTTCACAAAAAACGCCATCAAAAT-GTTTTAAGAC
* *
6104884 TGTGCAAAATGCTGCCATTTTTATCTGC
64 TGTACAAAATGCTACCATTTTTATCTGC
6104912 TTTTTATTGG
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
100 7 0.09
101 70 0.91
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (101 bp):
CGCCACAAAAGGATATTCGTTAGTGACATTTTCACAAAAAACGCCATCAAAATGTTTTAAGACTG
TACAAAATGCTACCATTTTTATCTGCCTATTAGTGG
Found at i:6105114 original size:23 final size:24
Alignment explanation
Indices: 6105085--6105141 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
6105075 ACCAAATCAG
6105085 ATTTCCCCAATTTC-ATTCCCCCA
1 ATTTCCCCAATTTCTATTCCCCCA
* *
6105108 ATTT-CCCAATTTCTTTTCCCCTA
1 ATTTCCCCAATTTCTATTCCCCCA
*
6105131 TTTTCCCCAAT
1 ATTTCCCCAAT
6105142 GGCATCTTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.31
23 14 0.48
24 6 0.21
ACGTcount: A:0.19, C:0.39, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTCCCCAATTTCTATTCCCCCA
Found at i:6105805 original size:17 final size:17
Alignment explanation
Indices: 6105783--6105820 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
6105773 GCCCCAGTAA
*
6105783 CTTGCAGCTTTTACTTT
1 CTTGCAGCCTTTACTTT
6105800 CTTGCAGCCTTTACTTT
1 CTTGCAGCCTTTACTTT
6105817 CTTG
1 CTTG
6105821 TGGACTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.26, G:0.13, T:0.50
Consensus pattern (17 bp):
CTTGCAGCCTTTACTTT
Found at i:6107519 original size:5 final size:6
Alignment explanation
Indices: 6107502--6107526 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6107492 ACACATTATC
6107502 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
6107527 GATGCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:6110795 original size:26 final size:26
Alignment explanation
Indices: 6110765--6110950 Score: 345
Period size: 26 Copynumber: 7.2 Consensus size: 26
6110755 TGAAATTCCC
6110765 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6110791 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6110817 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6110843 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6110869 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6110895 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
6110921 ATTATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6110947 ATCA
1 ATCA
6110951 ATTTGTATCA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 155 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6112570 original size:9 final size:9
Alignment explanation
Indices: 6112558--6112694 Score: 116
Period size: 9 Copynumber: 15.2 Consensus size: 9
6112548 ATATCATATT
6112558 ATAACTTAC
1 ATAACTTAC
*
6112567 ATAATTTAC
1 ATAACTTAC
*
6112576 ATAATTTAC
1 ATAACTTAC
*
6112585 ATGACTTAC
1 ATAACTTAC
* *
6112594 ATAA-ATAT
1 ATAACTTAC
* *
6112602 ATATCATATC
1 ATAACTTA-C
6112612 ATAACTTAC
1 ATAACTTAC
*
6112621 ATAACTTAT
1 ATAACTTAC
*
6112630 ATAATTTAC
1 ATAACTTAC
*
6112639 ATAA-ATAC
1 ATAACTTAC
* *
6112647 ATATCATATC
1 ATAACTTA-C
6112657 ATAACTTAC
1 ATAACTTAC
6112666 ATAACTTAC
1 ATAACTTAC
*
6112675 ATAATTTAC
1 ATAACTTAC
*
6112684 ATAATTTAC
1 ATAACTTAC
6112693 AT
1 AT
6112695 GATTTAATTG
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
8 11 0.10
9 82 0.77
10 13 0.12
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.39
Consensus pattern (9 bp):
ATAACTTAC
Found at i:6112602 original size:54 final size:54
Alignment explanation
Indices: 6112542--6112696 Score: 206
Period size: 54 Copynumber: 2.9 Consensus size: 54
6112532 TGACAAAGCA
* **
6112542 AAATATATATCATATTATAACTTACATAATTTACATAATTTACATGACTTACAT
1 AAATATATATCATATCATAACTTACATAATTTACATAATTTACATGAAATACAT
* *
6112596 AAATATATATCATATCATAACTTACATAACTTATATAATTTACAT-AAATACAT
1 AAATATATATCATATCATAACTTACATAATTTACATAATTTACATGAAATACAT
* * *
6112649 ATCATATCATAACTTA-CATAACTTACATAATTTACATAATTTACATGA
1 A-AATAT-ATATCATATCATAACTTACATAATTTACATAATTTACATGA
6112697 TTTAATTGAA
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
53 7 0.08
54 74 0.84
55 7 0.08
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (54 bp):
AAATATATATCATATCATAACTTACATAATTTACATAATTTACATGAAATACAT
Found at i:6112639 original size:45 final size:45
Alignment explanation
Indices: 6112566--6112687 Score: 190
Period size: 45 Copynumber: 2.7 Consensus size: 45
6112556 TTATAACTTA
* * * * *
6112566 CATAATTTACATAATTTACATGACTTACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAATTTACATAAATACATATCATAT
*
6112611 CATAACTTACATAACTTATATAATTTACATAAATACATATCATAT
1 CATAACTTACATAACTTACATAATTTACATAAATACATATCATAT
6112656 CATAACTTACATAACTTACATAATTTACATAA
1 CATAACTTACATAACTTACATAATTTACATAA
6112688 TTTACATGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.38
Consensus pattern (45 bp):
CATAACTTACATAACTTACATAATTTACATAAATACATATCATAT
Found at i:6116549 original size:53 final size:48
Alignment explanation
Indices: 6116482--6116591 Score: 123
Period size: 48 Copynumber: 2.2 Consensus size: 48
6116472 TGATTTTTAA
* *
6116482 TTATATGTAATATTA-TAATTTAAATCTTAGTCTTGTTAAATATTTCAACTATT
1 TTATATGTAATATTATTAATGT-AA--TTAG--TTATTAAA-ATTTCAACTATT
*
6116535 TTATATGTACTATTATTAATGTAATTAGTTATTAAAATTTCAACTATT
1 TTATATGTAATATTATTAATGTAATTAGTTATTAAAATTTCAACTATT
*
6116583 TTATGTGTA
1 TTATATGTA
6116592 TTGCAGAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
48 20 0.38
49 7 0.13
51 4 0.08
53 16 0.31
54 5 0.10
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.51
Consensus pattern (48 bp):
TTATATGTAATATTATTAATGTAATTAGTTATTAAAATTTCAACTATT
Found at i:6118618 original size:19 final size:19
Alignment explanation
Indices: 6118577--6118619 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
6118567 TTTAGCTTCC
* ** *
6118577 AATTTTAATCCTTTTGTTT
1 AATTTTAACCCTTTTCATG
6118596 AATTTTAACCCTTTTCATG
1 AATTTTAACCCTTTTCATG
6118615 AATTT
1 AATTT
6118620 GTTTTATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.56
Consensus pattern (19 bp):
AATTTTAACCCTTTTCATG
Found at i:6118688 original size:21 final size:21
Alignment explanation
Indices: 6118662--6118707 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6118652 TTTTTTTAAA
*
6118662 ATATATATAGTGTGTATTCAT-
1 ATATATATAGT-TATATTCATC
*
6118683 ATATATATTGTTATATTCATC
1 ATATATATAGTTATATTCATC
6118704 ATAT
1 ATAT
6118708 TTTTACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.50
Consensus pattern (21 bp):
ATATATATAGTTATATTCATC
Found at i:6119014 original size:3 final size:3
Alignment explanation
Indices: 6118999--6119335 Score: 150
Period size: 3 Copynumber: 112.7 Consensus size: 3
6118989 TAGGTGTATC
* * *
6118999 TTA TTA CTA TTA TTA TTA CTA TTA CTT- TTA TTTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA
* * * * *
6119045 TTG TTA CTT- TCTA TTA TTG TT- TT- TTA TTA TT- TATA CTA TTG TTG
1 TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* *
6119089 TTA TTA TTA TTA TT- TTA TTG TTA TTA TTA TTA TTA TTA TTA TTT TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * *
6119137 TTA TTG TTA TTG TTA GTA -TA TTA TTA TTC TTA TTAA TGTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA
* * * * *
6119183 TTA TTT TCTA CT- TTA TTA TTA TTA CTA TTA TTA TCA TCA -TA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
6119227 TTA -AA TAAA TTAA CT- TTA -TA TTA TTA TTA TTA -CA TTA TATA TT-
1 TTA TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * *
6119270 TTC TT- TTC GTA TTTA CTTA CGTCA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA -TTA -TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
6119317 TT- TTA TTG TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TT
6119336 CTTGTTCATT
Statistics
Matches: 256, Mismatches: 49, Indels: 58
0.71 0.13 0.16
Matches are distributed among these distances:
2 27 0.11
3 198 0.77
4 28 0.11
5 3 0.01
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:6119061 original size:28 final size:27
Alignment explanation
Indices: 6118999--6119062 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
6118989 TAGGTGTATC
* *
6118999 TTATTACTATTATTATTACTATTACTT
1 TTATTATTATCATTATTACTATTACTT
* *
6119026 TTATTTATTATCATTATTATTGTTACTT
1 TTA-TTATTATCATTATTACTATTACTT
6119054 TCTATTATT
1 T-TATTATT
6119063 GTTTTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 26 0.84
29 2 0.06
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (27 bp):
TTATTATTATCATTATTACTATTACTT
Found at i:6119112 original size:17 final size:17
Alignment explanation
Indices: 6118999--6119216 Score: 124
Period size: 17 Copynumber: 12.4 Consensus size: 17
6118989 TAGGTGTATC
*
6118999 TTATTACTATTATTATTA
1 TTATTATTATTATT-TTA
*
6119017 CTATTACTT-TTA-TTTA
1 TTATTA-TTATTATTTTA
*
6119033 TTATCATTATTATTGTTA
1 TTATTATTATTATT-TTA
*
6119051 CTT-TCTATTATTGTTTT-
1 -TTAT-TATTATTATTTTA
*
6119068 TTATTATTTATACTATTGTTG
1 TTATTA-TTAT--TATT-TTA
6119089 TTATTATTATTATTTTA
1 TTATTATTATTATTTTA
*
6119106 TTGTTATTATTATTATTA
1 TTATTATTATTATT-TTA
* *
6119124 TTATTATTTTCTATTATTG
1 TTATTATTAT-TATT-TTA
* * *
6119143 TTATTGTTAGTATATTA
1 TTATTATTATTATTTTA
* * *
6119160 TTATTCTTATTAATGTA
1 TTATTATTATTATTTTA
*
6119177 TTATTATTATT-TTCTA
1 TTATTATTATTATTTTA
* *
6119193 CT-TTATTATTATTACTA
1 TTATTATTATTATT-TTA
6119210 TTATTAT
1 TTATTAT
6119217 CATCATATTA
Statistics
Matches: 156, Mismatches: 27, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
15 10 0.06
16 20 0.13
17 50 0.32
18 36 0.23
19 28 0.18
20 6 0.04
21 6 0.04
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (17 bp):
TTATTATTATTATTTTA
Found at i:6119328 original size:13 final size:13
Alignment explanation
Indices: 6119294--6119332 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6119284 ACTTACGTCA
*
6119294 TTATTATTA-TTA
1 TTATTATTATTTT
6119306 TTATTATTATTTT
1 TTATTATTATTTT
*
6119319 TTATTGTTATTTT
1 TTATTATTATTTT
6119332 T
1 T
6119333 ATTCTTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:6120762 original size:13 final size:14
Alignment explanation
Indices: 6120746--6120774 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6120736 TTTTAAATAT
6120746 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
6120759 TTATAATGGTTTAA
1 TTATAATGGTTTAA
6120773 TT
1 TT
6120775 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:6121634 original size:43 final size:43
Alignment explanation
Indices: 6121560--6121696 Score: 140
Period size: 43 Copynumber: 3.2 Consensus size: 43
6121550 AAAACATGAC
* ** *
6121560 CTTTAGCGGTATTTTTGTA-AAA-GCGTTGCTAAATGTCATGTT
1 CTTTAGCGGCATTTTTG-AGAAAGGCACTGCTAAATGTCACGTT
6121602 CTTTAGCGGCATTTATATGA-AAAGTGC-C-GCTAAATGTCACGTT
1 CTTTAGCGGCATTT-T-TGAGAAAG-GCACTGCTAAATGTCACGTT
* *
6121645 CTTTAGCGGCGTTTTTGAGAAAGGCACTGCTAAAAGTCACGTT
1 CTTTAGCGGCATTTTTGAGAAAGGCACTGCTAAATGTCACGTT
*
6121688 CTCTAGCGG
1 CTTTAGCGG
6121697 TGCTTTCTCA
Statistics
Matches: 82, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
41 5 0.06
42 19 0.23
43 54 0.66
44 2 0.02
45 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (43 bp):
CTTTAGCGGCATTTTTGAGAAAGGCACTGCTAAATGTCACGTT
Found at i:6122254 original size:61 final size:58
Alignment explanation
Indices: 6122181--6122314 Score: 171
Period size: 61 Copynumber: 2.3 Consensus size: 58
6122171 TCCAAAAATA
* *
6122181 ATATTATTTTAATAGT-TTTAATATTAAATTTAATTTAATATTTATCTTATAGATAAATATT
1 ATATTAATTTAATA-TATTTAATATTAAATTTAATATAATATTTATCTT-T--ATAAATATT
* * * *
6122242 CTATTAATTTAATATATTTAATATTAGATTTAATATGATATTTATCTTTATAAGTATT
1 ATATTAATTTAATATATTTAATATTAAATTTAATATAATATTTATCTTTATAAATATT
6122300 ATATTAATTTAATAT
1 ATATTAATTTAATAT
6122315 TAAAGTGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
58 22 0.34
60 2 0.03
61 41 0.63
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (58 bp):
ATATTAATTTAATATATTTAATATTAAATTTAATATAATATTTATCTTTATAAATATT
Found at i:6122332 original size:58 final size:60
Alignment explanation
Indices: 6122181--6122333 Score: 147
Period size: 61 Copynumber: 2.6 Consensus size: 60
6122171 TCCAAAAATA
* * * *
6122181 ATATTATTTTAATAGT-TTTAATATTAAATTTAATTTAATATTTATCTTATAGATAAATATT
1 ATATTAATTTAATA-TATTAAATATTAAGTTTAATATAATATTTATCTTATA-ATAAATATT
* * * *
6122242 CTATTAATTTAATATATTTAATATT-AGATTTAATATGATATTTATCTT-T-ATAAGTATT
1 ATATTAATTTAATATATTAAATATTAAG-TTTAATATAATATTTATCTTATAATAAATATT
6122300 ATATTAATTT-A-ATATTAAAGTGATTAAGTTTAAT
1 ATATTAATTTAATATATTAAA-T-ATTAAGTTTAAT
6122334 CATAGTTAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
56 7 0.09
57 2 0.03
58 26 0.33
59 2 0.03
60 3 0.04
61 39 0.49
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (60 bp):
ATATTAATTTAATATATTAAATATTAAGTTTAATATAATATTTATCTTATAATAAATATT
Found at i:6126039 original size:53 final size:53
Alignment explanation
Indices: 6125966--6126080 Score: 151
Period size: 53 Copynumber: 2.2 Consensus size: 53
6125956 CAATTTATAA
* *
6125966 GATACAATGCTGTCGGTCTTGAACAAAA-CTATTTAATTATGTTTTATTTGTAC
1 GATACAATGATGTCGGTCTTGAACAAAATC-ATTTAATTATGTATTATTTGTAC
* * * *
6126019 GATAGAATGATGTCGGTCTTGAATAAAATCGTTTAATTATGTATTATTTGTAA
1 GATACAATGATGTCGGTCTTGAACAAAATCATTTAATTATGTATTATTTGTAC
*
6126072 GACACAATG
1 GATACAATG
6126081 TTATTGGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 52 0.98
54 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (53 bp):
GATACAATGATGTCGGTCTTGAACAAAATCATTTAATTATGTATTATTTGTAC
Found at i:6126100 original size:53 final size:53
Alignment explanation
Indices: 6125997--6126109 Score: 127
Period size: 53 Copynumber: 2.1 Consensus size: 53
6125987 AACAAAACTA
* * * * * * * *
6125997 TTTAATTATGTTTTATTTGTACGATAGAATGATGTCGGTCTTGAATAAAATCG
1 TTTAATTATGTATTATTTGTAAGACACAATGATATCGGTATTAAACAAAATCG
* *
6126050 TTTAATTATGTATTATTTGTAAGACACAATGTTATTGGTATTAAACAAAATCG
1 TTTAATTATGTATTATTTGTAAGACACAATGATATCGGTATTAAACAAAATCG
*
6126103 CTTAATT
1 TTTAATT
6126110 TTTTTTAGTA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (53 bp):
TTTAATTATGTATTATTTGTAAGACACAATGATATCGGTATTAAACAAAATCG
Found at i:6127078 original size:95 final size:95
Alignment explanation
Indices: 6126911--6127124 Score: 220
Period size: 98 Copynumber: 2.2 Consensus size: 95
6126901 ATTTTATGGC
* * *
6126911 GCCATTCTATAT-GACTCCACC-AAATAAAATATAAATTTTAAATTTAAATTTAAAAAAACACAT
1 GCCATTCTCTATAG-CTCCACCAAAATAAAATATAAATTTTAAATTTAAATTAAAAAAAAAACAT
* * *
6126974 TAATAAAAAG-CTGACAAATGACACTGGTGGT
65 T-ATAAAAAGACTAACAAATGAAACTGGTGCT
**
6127005 GCCATTCTCTATAGCTCCACCAAAATAAAATATCAAA-TTTATTTTTAAATTAAAAAAAAAAACA
1 GCCATTCTCTATAGCTCCACCAAAATAAAATAT-AAATTTTAAATTTAAATT-AAAAAAAAAACA
* * * * *
6127069 CTTTTAAAAGAAACTAACACATTAAAGTGGTGCT
64 -TTATAAAA-AGACTAACAAATGAAACTGGTGCT
*
6127103 GCCATTCTCTATAGCTCTACCA
1 GCCATTCTCTATAGCTCCACCA
6127125 CCATTATTTA
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
94 18 0.18
95 24 0.24
96 18 0.18
97 3 0.03
98 36 0.36
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.29
Consensus pattern (95 bp):
GCCATTCTCTATAGCTCCACCAAAATAAAATATAAATTTTAAATTTAAATTAAAAAAAAAACATT
ATAAAAAGACTAACAAATGAAACTGGTGCT
Found at i:6127447 original size:37 final size:37
Alignment explanation
Indices: 6127397--6127467 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
6127387 ACTCAATCAT
6127397 ATATTTGTGTCTAAATCAGCTAAAATCCAAAATATTA
1 ATATTTGTGTCTAAATCAGCTAAAATCCAAAATATTA
6127434 ATATTTGTGTCTAAATCAGCTAAAATCCAAAATA
1 ATATTTGTGTCTAAATCAGCTAAAATCCAAAATA
6127468 ATATTTACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (37 bp):
ATATTTGTGTCTAAATCAGCTAAAATCCAAAATATTA
Found at i:6128892 original size:21 final size:22
Alignment explanation
Indices: 6128872--6128917 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6128862 TATTCTATAT
6128872 TAAA-CTTA-TTATATCAAATA
1 TAAATCTTATTTATATCAAATA
*
6128892 TAAATCTTATTTATATTAAATA
1 TAAATCTTATTTATATCAAATA
6128914 -AAAT
1 TAAAT
6128918 ACTAAATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 8 0.35
22 11 0.48
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATCTTATTTATATCAAATA
Found at i:6130094 original size:40 final size:40
Alignment explanation
Indices: 6130020--6130097 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
6130010 TATGAACTTT
* * *
6130020 AATTATTGATTTTTACTAATTAGCTGCATTTAAATTATTG
1 AATTATTAATTTTTACTAATTACCTGCATATAAATTATTG
6130060 AATTATTAATTTTTACTAATT-CCT-CATAAATAAATTAT
1 AATTATTAATTTTTACTAATTACCTGCAT--ATAAATTAT
6130098 CGAGTTGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 3 0.09
39 2 0.06
40 28 0.85
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (40 bp):
AATTATTAATTTTTACTAATTACCTGCATATAAATTATTG
Found at i:6133474 original size:12 final size:12
Alignment explanation
Indices: 6133457--6133481 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6133447 AGGAATCTCA
6133457 ATTGAAGTTGTC
1 ATTGAAGTTGTC
6133469 ATTGAAGTTGTC
1 ATTGAAGTTGTC
6133481 A
1 A
6133482 GACTCTGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTGAAGTTGTC
Found at i:6133677 original size:19 final size:20
Alignment explanation
Indices: 6133655--6133699 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
6133645 GGTCTGCTGA
6133655 TTTT-AAACTTCTCTGTGAT
1 TTTTGAAACTTCTCTGTGAT
*
6133674 TTTTGGTAACTTCTCTGTGAT
1 TTTT-GAAACTTCTCTGTGAT
6133695 TTTTG
1 TTTTG
6133700 GTTTTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 18 0.78
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.56
Consensus pattern (20 bp):
TTTTGAAACTTCTCTGTGAT
Found at i:6133686 original size:21 final size:21
Alignment explanation
Indices: 6133660--6133701 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6133650 GCTGATTTTA
6133660 AACTTCTCTGTGATTTTTGGT
1 AACTTCTCTGTGATTTTTGGT
6133681 AACTTCTCTGTGATTTTTGGT
1 AACTTCTCTGTGATTTTTGGT
6133702 TTTCTCTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.19, T:0.52
Consensus pattern (21 bp):
AACTTCTCTGTGATTTTTGGT
Found at i:6137742 original size:31 final size:29
Alignment explanation
Indices: 6137696--6137806 Score: 87
Period size: 31 Copynumber: 3.7 Consensus size: 29
6137686 ATCTTAAAAT
*
6137696 TATACATTAAATTTAATTTAATGTGCAATTG
1 TATACATGAAATTTAATTT-A-GTGCAATTG
* *
6137727 TATACATGAACTTTAATTTAGTGCAATTA
1 TATACATGAAATTTAATTTAGTGCAATTG
* * * * *
6137756 TACACGTGAAACTCTAATTGTAGTTCAACTG
1 TATACATGAAA-TTTAATT-TAGTGCAATTG
**
6137787 TATATTTGAAACTTTAATTT
1 TATACATGAAA-TTTAATTT
6137807 TGATTTAATC
Statistics
Matches: 64, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
29 16 0.25
30 8 0.12
31 40 0.62
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (29 bp):
TATACATGAAATTTAATTTAGTGCAATTG
Found at i:6137990 original size:29 final size:29
Alignment explanation
Indices: 6137948--6138005 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
6137938 GAATTAGATC
*
6137948 AAATCAAAATTTCATGTATAAAATTGTACA
1 AAATCAAAAGTTCATG-ATAAAATTGTACA
*
6137978 AAATC-AAAGTTCATGATACAATTGTACA
1 AAATCAAAAGTTCATGATAAAATTGTACA
6138006 TTAAACCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 12 0.46
29 9 0.35
30 5 0.19
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (29 bp):
AAATCAAAAGTTCATGATAAAATTGTACA
Found at i:6138524 original size:30 final size:32
Alignment explanation
Indices: 6138488--6138556 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 32
6138478 GGTTTCATTT
*
6138488 CAGTCACTCAAC-TT-TCAAAAAA-TTACAAAA
1 CAGTCACTCAACATTAT-AAAAAAGTGACAAAA
6138518 CAGTCAC-CAACATTATAAAAAAGTGACAAAA
1 CAGTCACTCAACATTATAAAAAAGTGACAAAA
*
6138549 TAGTCACT
1 CAGTCACT
6138557 GATTAACGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 4 0.12
30 15 0.45
31 14 0.42
ACGTcount: A:0.49, C:0.22, G:0.07, T:0.22
Consensus pattern (32 bp):
CAGTCACTCAACATTATAAAAAAGTGACAAAA
Found at i:6139122 original size:12 final size:12
Alignment explanation
Indices: 6139101--6139151 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
6139091 GTCGGTTTCA
*
6139101 ATTTTAATTTTG
1 ATTTTGATTTTG
*
6139113 ATTTTGATTTTA
1 ATTTTGATTTTG
*
6139125 ATTTTGATTTTT
1 ATTTTGATTTTG
*
6139137 ATTTCGATTTTG
1 ATTTTGATTTTG
6139149 ATT
1 ATT
6139152 ACATTGAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.67
Consensus pattern (12 bp):
ATTTTGATTTTG
Found at i:6139124 original size:18 final size:18
Alignment explanation
Indices: 6139101--6139151 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
6139091 GTCGGTTTCA
6139101 ATTTTAATTTTGATTTTG
1 ATTTTAATTTTGATTTTG
*
6139119 ATTTTAATTTTGATTTTT
1 ATTTTAATTTTGATTTTG
**
6139137 ATTTCGATTTTGATT
1 ATTTTAATTTTGATT
6139152 ACATTGAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.67
Consensus pattern (18 bp):
ATTTTAATTTTGATTTTG
Found at i:6139197 original size:18 final size:18
Alignment explanation
Indices: 6139176--6139210 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6139166 ACTGATTCTG
6139176 ATTTAGATTTCGATTTCA
1 ATTTAGATTTCGATTTCA
* *
6139194 ATTTTGATTTTGATTTC
1 ATTTAGATTTCGATTTC
6139211 GATCTCGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (18 bp):
ATTTAGATTTCGATTTCA
Found at i:6139202 original size:24 final size:24
Alignment explanation
Indices: 6139169--6139253 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
6139159 AACACTCACT
*
6139169 GATTCTGATTTAGATTTCGATTTC
1 GATTTTGATTTAGATTTCGATTTC
* * *
6139193 AATTTTGATTTTGATTTCGATCTC
1 GATTTTGATTTAGATTTCGATTTC
* * *
6139217 GATTTAGAATTAGAATTT-GATTTT
1 GATTTTGATTTAG-ATTTCGATTTC
*
6139241 GATTTCGATTTAG
1 GATTTTGATTTAG
6139254 GGTTACTTCG
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
24 44 0.92
25 4 0.08
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (24 bp):
GATTTTGATTTAGATTTCGATTTC
Found at i:6139202 original size:30 final size:29
Alignment explanation
Indices: 6139168--6139253 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 29
6139158 AAACACTCAC
*
6139168 TGATTCTGATTTAGATTTCGATTTCA-ATTT
1 TGATT-TGATTTAGATTTCGATTT-AGAATT
* *
6139198 TGATTTTGATTTCGATCTCGATTTAGAATT
1 TGA-TTTGATTTAGATTTCGATTTAGAATT
* *
6139228 AGAATTTGATTTTGATTTCGATTTAG
1 TG-ATTTGATTTAGATTTCGATTTAG
6139254 GGTTACTTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.02
30 43 0.91
31 3 0.06
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.51
Consensus pattern (29 bp):
TGATTTGATTTAGATTTCGATTTAGAATT
Found at i:6139464 original size:64 final size:64
Alignment explanation
Indices: 6139363--6139565 Score: 325
Period size: 64 Copynumber: 3.2 Consensus size: 64
6139353 GCATGATGTT
* * *
6139363 CATTGTTTGTATTTGCCATTGTACGAATGTCATTATCAAACTGATGTTTATTGTGTATATCTGC
1 CATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGC
* *
6139427 CATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAATTGATGTTTATTGTGTATATCTAC
1 CATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGC
* * *
6139491 CATTGTTTGTATCTGCCACTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATATGT
1 CATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGC
*
6139555 TATTGTTTGTA
1 CATTGTTTGTA
6139566 CCCAAGCTCC
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 128 1.00
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (64 bp):
CATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGC
Found at i:6139833 original size:15 final size:15
Alignment explanation
Indices: 6139813--6139841 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6139803 GAAGAAAACA
6139813 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
6139828 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
6139842 AGTGATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.38, T:0.41
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:6141595 original size:40 final size:40
Alignment explanation
Indices: 6141497--6141600 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 40
6141487 TAGTGAATGT
* * *
6141497 TTTTTTAATATGCATGCACTAATTGTTGGTGTGTTGAATA
1 TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGAATA
**
6141537 TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGAATA
6141577 TTTTTTAATATGCATGCAGTGATT
1 TTTTTTAATATGCATGCAGTGATT
6141601 AATTTTTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.23, C:0.09, G:0.20, T:0.48
Consensus pattern (40 bp):
TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGAATA
Found at i:6142309 original size:21 final size:21
Alignment explanation
Indices: 6142279--6142322 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6142269 AAGTTGGTGT
*
6142279 CCCAATTCAGCAACAGGCTAC
1 CCCAAATCAGCAACAGGCTAC
* *
6142300 CCCAAATCAGCAAGAGGGTAC
1 CCCAAATCAGCAACAGGCTAC
6142321 CC
1 CC
6142323 TAACTCAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.36, G:0.18, T:0.11
Consensus pattern (21 bp):
CCCAAATCAGCAACAGGCTAC
Found at i:6143640 original size:9 final size:9
Alignment explanation
Indices: 6143626--6143675 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
6143616 TCATTTTTCC
6143626 TCTTCTCCT
1 TCTTCTCCT
*
6143635 TCTTCTTCT
1 TCTTCTCCT
6143644 TCTTCTCCT
1 TCTTCTCCT
*
6143653 TCTCCTCC-
1 TCTTCTCCT
* *
6143661 TCCTCTTCT
1 TCTTCTCCT
6143670 TCTTCT
1 TCTTCT
6143676 ACTTTTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
8 5 0.15
9 28 0.85
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (9 bp):
TCTTCTCCT
Found at i:6154714 original size:25 final size:24
Alignment explanation
Indices: 6154643--6154723 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
6154633 CATCATGCAC
*
6154643 TAAA-AACATTAAAATAAACATAT
1 TAAATAACATTAAAATAAATATAT
* * *
6154666 CTCAACAA-ATTAAAAAAAATTATACT
1 -TAAATAACATTAAAATAAA-TATA-T
6154692 TAAATAACATTAAAATAAATATAAT
1 TAAATAACATTAAAATAAATAT-AT
*
6154717 TTAATAA
1 TAAATAA
6154724 GAAAATAACT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
24 13 0.29
25 20 0.44
26 12 0.27
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAATAACATTAAAATAAATATAT
Found at i:6155683 original size:26 final size:25
Alignment explanation
Indices: 6155654--6155735 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 25
6155644 TGATACAAAT
6155654 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATG-GTTAGGTAAATGTTCCA
*
6155680 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
6155706 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
6155732 TGAT
1 TGAT
6155736 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
25 1 0.02
26 49 0.94
27 2 0.04
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:6160297 original size:2 final size:2
Alignment explanation
Indices: 6160290--6160317 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6160280 ATTCTAATTC
6160290 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6160318 ATCAACTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6161222 original size:2 final size:2
Alignment explanation
Indices: 6161217--6161250 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6161207 TATACTTATT
6161217 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6161251 ATGTTTTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6161805 original size:15 final size:15
Alignment explanation
Indices: 6161762--6161813 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
6161752 TTAAGGATGT
*
6161762 TAAATTAAAAATATATA
1 TAAA-TAAAAA-ATAAA
* *
6161779 TATATGAAAAATAAA
1 TAAATAAAAAATAAA
*
6161794 TAAATAAAAAATAAT
1 TAAATAAAAAATAAA
6161809 TAAAT
1 TAAAT
6161814 TATATTTGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 21 0.72
16 5 0.17
17 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
TAAATAAAAAATAAA
Found at i:6162187 original size:26 final size:26
Alignment explanation
Indices: 6162151--6162211 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
6162141 TAACCAGTTC
6162151 AATCGGTTCGTATGGGTTCTCGATCT
1 AATCGGTTCGTATGGGTTCTCGATCT
6162177 AATCGGTTCGTATGGGTTCTCGATCT
1 AATCGGTTCGTATGGGTTCTCGATCT
6162203 AATCGGTTC
1 AATCGGTTC
6162212 AAAGTCACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (26 bp):
AATCGGTTCGTATGGGTTCTCGATCT
Found at i:6162762 original size:16 final size:16
Alignment explanation
Indices: 6162711--6162762 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
6162701 AACATAAACT
*
6162711 TAAATTAATTTGAATTC
1 TAAAATAATTT-AATTC
*
6162728 -AAAACAATTTATATT-
1 TAAAATAATTTA-ATTC
6162743 TAAAATAATTTAATTC
1 TAAAATAATTTAATTC
6162759 TAAA
1 TAAA
6162763 TAACTTAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 4 0.14
16 25 0.86
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (16 bp):
TAAAATAATTTAATTC
Found at i:6162765 original size:15 final size:15
Alignment explanation
Indices: 6162711--6162770 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 15
6162701 AACATAAACT
6162711 TAAATTAATTTGAATTC
1 TAAA-TAATTT-AATTC
* *
6162728 AAAACAATTTATATT-
1 TAAATAATTTA-ATTC
6162743 TAAAATAATTTAATTC
1 T-AAATAATTTAATTC
*
6162759 TAAATAACTTAA
1 TAAATAATTTAA
6162771 AGTTAAAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
15 14 0.40
16 18 0.51
17 3 0.09
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (15 bp):
TAAATAATTTAATTC
Found at i:6162777 original size:31 final size:32
Alignment explanation
Indices: 6162700--6162794 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 32
6162690 TTAACTTCTT
* *
6162700 CAACATAAACTTAAATTAATTTGAATTCAAAA
1 CAACTTAAACTTAAAATAATTTGAATTCAAAA
* * * *
6162732 CAATTTATATTTAAAATAATTT-AATTCTAAA
1 CAACTTAAACTTAAAATAATTTGAATTCAAAA
* * * * *
6162763 TAACTTAAAGTTAAAATGATTAGATTTCAAAA
1 CAACTTAAACTTAAAATAATTTGAATTCAAAA
6162795 TAAATAGAAT
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
31 24 0.50
32 24 0.50
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (32 bp):
CAACTTAAACTTAAAATAATTTGAATTCAAAA
Found at i:6163447 original size:18 final size:17
Alignment explanation
Indices: 6163396--6163443 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
6163386 TTTTTTGAGT
*
6163396 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
6163414 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
6163432 TTTATATTATTA
1 TTTATATTATTA
6163444 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:6163501 original size:21 final size:22
Alignment explanation
Indices: 6163472--6163517 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
6163462 TATATATTTA
6163472 AAATGTTTTATAATATT-TTTTT
1 AAATGTTTTA-AATATTATTTTT
*
6163494 AAAT-TTTTAATTATTATTTTT
1 AAATGTTTTAAATATTATTTTT
6163515 AAA
1 AAA
6163518 AATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
AAATGTTTTAAATATTATTTTT
Found at i:6163520 original size:23 final size:24
Alignment explanation
Indices: 6163432--6163525 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 24
6163422 ACTTATTTAA
* *
6163432 TTTATATTATTAATTTTAAAAAAT
1 TTTATATTATTATTTTTAAAATAT
* *
6163456 TTGTA-A-TA-TATATTTAAAATGT
1 TT-TATATTATTATTTTTAAAATAT
*
6163478 TTTATAATATT-TTTTT-AAAT-T
1 TTTATATTATTATTTTTAAAATAT
6163499 TTTA-ATTATTATTTTTAAAAATAT
1 TTTATATTATTATTTTT-AAAATAT
6163523 TTT
1 TTT
6163526 TAACTTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
20 5 0.09
21 12 0.21
22 17 0.30
23 12 0.21
24 8 0.14
25 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTATATTATTATTTTTAAAATAT
Found at i:6163561 original size:37 final size:37
Alignment explanation
Indices: 6163520--6163611 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
6163510 TTTTTAAAAA
* * * *
6163520 TATTTTTAACTTTTATATATATATTTGTGAAATTAAT
1 TATTTTTAAATTTTAAAAATATATTTGTCAAATTAAT
* * *
6163557 TATTTATAAATTTTAAAAATGTATTTTTCAAATTAAT
1 TATTTTTAAATTTTAAAAATATATTTGTCAAATTAAT
*
6163594 T-TTTTAAAATTTTAAAAA
1 TATTTTTAAATTTTAAAAA
6163612 AATAATTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 15 0.33
37 31 0.67
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (37 bp):
TATTTTTAAATTTTAAAAATATATTTGTCAAATTAAT
Found at i:6164304 original size:19 final size:19
Alignment explanation
Indices: 6164282--6164405 Score: 53
Period size: 19 Copynumber: 6.3 Consensus size: 19
6164272 AAATTCTATG
6164282 TAAAATTTTAAAAAATATT
1 TAAAATTTTAAAAAATATT
6164301 TAAAATCATTT--AAAATATT
1 TAAAAT--TTTAAAAAATATT
* *
6164320 AAAAAATATTTTAAATAAT-TT
1 --TAAA-ATTTTAAAAAATATT
**
6164341 TAAATAATTTT-AAATGT-TT
1 T-AA-AATTTTAAAAAATATT
* *
6164360 TATAATATTAAAAATATATT
1 TAAAATTTTAAAAA-ATATT
*
6164380 TAATA-TTTAAAAAATAATT
1 TAAAATTTTAAAAAAT-ATT
6164399 TGAAAAT
1 T-AAAAT
6164406 ATATTTTTAA
Statistics
Matches: 76, Mismatches: 14, Indels: 28
0.64 0.12 0.24
Matches are distributed among these distances:
17 5 0.07
18 6 0.08
19 32 0.42
20 18 0.24
21 9 0.12
22 6 0.08
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAAATTTTAAAAAATATT
Found at i:6164305 original size:10 final size:10
Alignment explanation
Indices: 6164283--6164354 Score: 55
Period size: 10 Copynumber: 7.2 Consensus size: 10
6164273 AATTCTATGT
6164283 AAAAT-TTTAA
1 AAAATATTT-A
6164293 AAAATATTT-
1 AAAATATTTA
6164302 AAAATCATTT-
1 AAAAT-ATTTA
*
6164312 AAAATATTAA
1 AAAATATTTA
6164322 AAAATATTTTA
1 AAAATA-TTTA
6164333 AATAAT-TTTA
1 AA-AATATTTA
6164343 AATAAT-TTTA
1 AA-AATATTTA
6164353 AA
1 AA
6164355 TGTTTTATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
9 8 0.15
10 36 0.65
11 8 0.15
12 3 0.05
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATATTTA
Found at i:6164315 original size:29 final size:30
Alignment explanation
Indices: 6164282--6164354 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
6164272 AAATTCTATG
*
6164282 TAAAATTTTAAAAAATATTTAAAATCA-TT
1 TAAAATTTTAAAAAATATTTAAAATAATTT
* *
6164311 TAAAATATTAAAAAATATTTTAAATAATTT
1 TAAAATTTTAAAAAATATTTAAAATAATTT
6164341 TAAATAATTTTAAA
1 T-AA-AATTTTAAA
6164355 TGTTTTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 24 0.65
30 3 0.08
31 2 0.05
32 8 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
TAAAATTTTAAAAAATATTTAAAATAATTT
Found at i:6164355 original size:10 final size:10
Alignment explanation
Indices: 6164323--6164355 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
6164313 AAATATTAAA
6164323 AAAT-ATTTT
1 AAATAATTTT
6164332 AAATAATTTT
1 AAATAATTTT
6164342 AAATAATTTT
1 AAATAATTTT
6164352 AAAT
1 AAAT
6164356 GTTTTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATAATTTT
Found at i:6164408 original size:31 final size:34
Alignment explanation
Indices: 6164361--6164427 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 34
6164351 TAAATGTTTT
6164361 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
6164393 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTATAAAA
6164427 A
1 A
6164428 CTATATCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 10 0.32
32 5 0.16
33 11 0.35
34 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:6167943 original size:30 final size:30
Alignment explanation
Indices: 6167907--6168029 Score: 165
Period size: 30 Copynumber: 4.1 Consensus size: 30
6167897 GGTCAAATGG
* * * *
6167907 ACTCGAACCGCCTATATCTGGGTGATATAA
1 ACTCGAACCACCCATGTCCGGGTGATATAA
*
6167937 ACTCGAACCACCCATGTCCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATAA
*
6167967 ACTCGAACCACCCATGTCCGAGTGATATAA
1 ACTCGAACCACCCATGTCCGGGTGATATAA
* * *
6167997 ACTCGAACCACCTATGTCCGGGTTATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATAA
6168027 ACT
1 ACT
6168030 GCTCTGGGAC
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (30 bp):
ACTCGAACCACCCATGTCCGGGTGATATAA
Found at i:6169362 original size:46 final size:48
Alignment explanation
Indices: 6169204--6169372 Score: 161
Period size: 46 Copynumber: 3.5 Consensus size: 48
6169194 TGGTTGGACC
6169204 ATGGCATCA-A-TGTGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * * *
6169250 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGAG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
6169303 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* *
6169349 ATGGC-TACGGTGTGTGATATGTGA
1 ATGGCAT-CAGAGTGTGATATGTGA
6169373 CTATGTACAA
Statistics
Matches: 100, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
45 1 0.01
46 33 0.33
47 8 0.08
48 18 0.18
51 7 0.07
52 5 0.05
53 27 0.27
54 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.31
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:6173115 original size:18 final size:18
Alignment explanation
Indices: 6173075--6173122 Score: 66
Period size: 16 Copynumber: 2.8 Consensus size: 18
6173065 AATAAAAAAA
*
6173075 TATATTT-AATATATATT
1 TATATTTAAATTTATATT
6173092 T-T-TTTAAATTTATATT
1 TATATTTAAATTTATATT
6173108 TATATTTAAATTTAT
1 TATATTTAAATTTAT
6173123 TAATAGTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 3 0.11
16 11 0.41
17 2 0.07
18 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATTTAAATTTATATT
Found at i:6173459 original size:28 final size:27
Alignment explanation
Indices: 6173399--6173462 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
6173389 TTAAAAAAAA
* * *
6173399 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAAAATTATAATTTCTTAAAT
*
6173426 TA-TTAAAAAATTATAATTTTTTAAAT
1 TATTTAAAAAATTATAATTTCTTAAAT
6173452 GTATTTAAAAA
1 -TATTTAAAAA
6173463 TTGTATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 20 0.65
27 4 0.13
28 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (27 bp):
TATTTAAAAAATTATAATTTCTTAAAT
Found at i:6173470 original size:26 final size:26
Alignment explanation
Indices: 6173399--6173464 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
6173389 TTAAAAAAAA
* *
6173399 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAA-ATTATAATTTCTTAAAT
* *
6173426 TATTAAAAAATTATAATTTTTTAAAT
1 TATTTAAAAATTATAATTTCTTAAAT
6173452 GTATTTAAAAATT
1 -TATTTAAAAATT
6173465 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TATTTAAAAATTATAATTTCTTAAAT
Found at i:6173690 original size:18 final size:18
Alignment explanation
Indices: 6173648--6173694 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
6173638 TTATAAAGTA
*
6173648 ATATTT-AATATATATTT
1 ATATTTAAATTTATATTT
*
6173665 -T-TTAAAATTTATATTT
1 ATATTTAAATTTATATTT
6173681 ATATTTAAATTTAT
1 ATATTTAAATTTAT
6173695 TAATAGTCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 1 0.04
18 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTAAATTTATATTT
Done.