Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 77 of 210
Found at i:26884645 original size:318 final size:320
Alignment explanation
Indices: 26884054--26884646 Score: 822
Period size: 318 Copynumber: 1.8 Consensus size: 320
26884044 TTTTGAGGTT
*
26884054 TAGGGAGTATGGATTTAGGGATTATGGATTATGGATTACGGTTTAAGGGTTGGGATTTAAGGTTT
1 TAGGGAGTATGGATTTAGGGATTATGGATTAGGGATTACGGTTTAAGGGTTGGGATTTAAGGTTT
* * * **
26884119 AGGGGTTATGGGTTAGGGTTTAGGGGTTAGACATTAGGGGTTAAGAGTTATGGATTTAGGGTTTA
66 AGGGGTTA---G--AAGGTTTAGGGATTAGACATTAGGGGTTAAGAGTTAGGGATTTAAAGTTTA
* *
26884184 GGAATTCAGGGGTCAGGTTAGGGTTTTAGGTTTAGATTAATTATTTTTTTAATTTATATTTTAAA
126 GGAATTCAGGGGCCAGGTTAGGGTTTTAGGTTTAGATTAATTATTTTTTAAATTTATATTTTAAA
* * * * ** * * *
26884249 TATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGTTAT
191 TATGTTCTTATACAATTGTAAAAGAGATAATAATAAATATATTGAGAATTATCAGTATAGGTTAT
*
26884314 ATGATTAATTTAAGATTTAACACCAGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATA
256 ATAATTAATTTAAGATTTAACACCAGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATA
* * *
26884379 TAGGGATTATGGA-TTAGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGGGGTTTAAGGTTT
1 TAGGGAGTATGGATTTAGGGATTATGGATTAGGGATTACGGTTTAAGGGTTGGGATTTAAGGTTT
*
26884443 AGGGGTTA-AAGGTTTAGGGATTAGACATTAGGGGTTAAGAGTTAGGGATTTAAAGTTTAGGGAT
66 AGGGGTTAGAAGGTTTAGGGATTAGACATTAGGGGTTAAGAGTTAGGGATTTAAAGTTTAGGAAT
* * *
26884507 TTAGGGGCCGGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAAATTTATATTTTAAATATGT
131 TCAGGGGCCAGGTTAGGGTTTTAGGTTTAGATTAATTATTTTTTAAATTTATATTTTAAATATGT
26884572 TCTTATACAATTGTAAAACAGAGAATAATAAATTAAATATATTGA-AATTATCAGTATA-GTT-T
196 TCTTATACAATTGT-AAA-AGAG-ATAAT-AA-TAAATATATTGAGAATTATCAGTATAGGTTAT
26884634 A-AATT-ATTTAAGA
256 ATAATTAATTTAAGA
26884647 GATATATAAT
Statistics
Matches: 238, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
318 131 0.55
319 6 0.03
320 6 0.03
321 8 0.03
322 10 0.04
323 9 0.04
324 56 0.24
325 12 0.05
ACGTcount: A:0.30, C:0.03, G:0.26, T:0.40
Consensus pattern (320 bp):
TAGGGAGTATGGATTTAGGGATTATGGATTAGGGATTACGGTTTAAGGGTTGGGATTTAAGGTTT
AGGGGTTAGAAGGTTTAGGGATTAGACATTAGGGGTTAAGAGTTAGGGATTTAAAGTTTAGGAAT
TCAGGGGCCAGGTTAGGGTTTTAGGTTTAGATTAATTATTTTTTAAATTTATATTTTAAATATGT
TCTTATACAATTGTAAAAGAGATAATAATAAATATATTGAGAATTATCAGTATAGGTTATATAAT
TAATTTAAGATTTAACACCAGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATA
Found at i:26885410 original size:22 final size:21
Alignment explanation
Indices: 26885365--26885411 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
26885355 TTAAAATACA
***
26885365 AAAATAAAATGATTTTTGTTC
1 AAAATAAAATGATTTTTCCAC
26885386 AAAATAAAATGATTTTTACCAC
1 AAAATAAAATGATTTTT-CCAC
26885408 AAAA
1 AAAA
26885412 AATAAGCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (21 bp):
AAAATAAAATGATTTTTCCAC
Found at i:26886674 original size:39 final size:39
Alignment explanation
Indices: 26886626--26886704 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
26886616 CTAAATGCAA
* * * *
26886626 ACATGTTATGATGCATGGGCCTATGTTATAAATTCTATG
1 ACATATTATGATGCATAGGCCTATGGTATAAATTCAATG
* *
26886665 ACATATTATGATGGATAGGCCTTTGGTATAAATTCAATG
1 ACATATTATGATGCATAGGCCTATGGTATAAATTCAATG
26886704 A
1 A
26886705 TTGCCAGTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (39 bp):
ACATATTATGATGCATAGGCCTATGGTATAAATTCAATG
Found at i:26887277 original size:20 final size:20
Alignment explanation
Indices: 26887252--26887291 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
26887242 TTGCAGGTAC
26887252 GTGTTATTAATTTATTATTT
1 GTGTTATTAATTTATTATTT
26887272 GTGTTATTAATTTATTATTT
1 GTGTTATTAATTTATTATTT
26887292 TAAATTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (20 bp):
GTGTTATTAATTTATTATTT
Found at i:26887339 original size:54 final size:54
Alignment explanation
Indices: 26887275--26887417 Score: 286
Period size: 54 Copynumber: 2.6 Consensus size: 54
26887265 ATTATTTGTG
26887275 TTATTAATTTATTATTTTAAATTCTAAAACTAAATTCATTGTGTTTTTTTTCTT
1 TTATTAATTTATTATTTTAAATTCTAAAACTAAATTCATTGTGTTTTTTTTCTT
26887329 TTATTAATTTATTATTTTAAATTCTAAAACTAAATTCATTGTGTTTTTTTTCTT
1 TTATTAATTTATTATTTTAAATTCTAAAACTAAATTCATTGTGTTTTTTTTCTT
26887383 TTATTAATTTATTATTTTAAATTCTAAAACTAAAT
1 TTATTAATTTATTATTTTAAATTCTAAAACTAAAT
26887418 CACTTAGCAA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (54 bp):
TTATTAATTTATTATTTTAAATTCTAAAACTAAATTCATTGTGTTTTTTTTCTT
Found at i:26888917 original size:24 final size:24
Alignment explanation
Indices: 26888883--26888934 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
26888873 TTTCTAGATG
* **
26888883 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
26888907 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
26888931 ATTT
1 ATTT
26888935 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:26893159 original size:24 final size:24
Alignment explanation
Indices: 26893125--26893176 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
26893115 TTTCGAGAAG
* **
26893125 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
26893149 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
26893173 ATTT
1 ATTT
26893177 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:26897496 original size:15 final size:15
Alignment explanation
Indices: 26897476--26897507 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26897466 CATTTCACTA
*
26897476 TTATGTCTTTTTTAT
1 TTATGTCTTTTATAT
26897491 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
26897506 TT
1 TT
26897508 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:26899208 original size:17 final size:17
Alignment explanation
Indices: 26899186--26899243 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
26899176 TAATAAGATT
*
26899186 TAATATTAATTTTAATA
1 TAATATTAATATTAATA
* * *
26899203 TAATATTTATCTTGATA
1 TAATATTAATATTAATA
*
26899220 -AATATT-ATATTAATT
1 TAATATTAATATTAATA
26899235 TAATATTAA
1 TAATATTAA
26899244 AGTGATTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 6 0.18
16 12 0.36
17 15 0.45
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TAATATTAATATTAATA
Found at i:26903138 original size:202 final size:204
Alignment explanation
Indices: 26902790--26903195 Score: 798
Period size: 202 Copynumber: 2.0 Consensus size: 204
26902780 CATCATTTTA
26902790 TGTTGAAATGGAGGATAACGAGTAATCTTGACACCCATTTTTCATTTTTTCCTCTTTTTTTTTAA
1 TGTTGAAATGGAGGATAACGAGTAATCTTGACACCCATTTTTCATTTTTTCCTCTTTTTTTTTAA
26902855 AAAAAAAATTCTTTATGAGTTTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATTTTGC
66 AAAAAAAATTCTTTATGAGTTTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATTTTGC
26902920 ATAATCATTTAAGATACCTAGTACTTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATT
131 ATAATCATTTAAGATACCTAGTACTTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATT
26902985 TTGCATAAT
196 TTGCATAAT
26902994 TGTTGAAAT-G-GGATAACGAGTAATCTTGACACCCATTTTTCATTTTTTCCTCTTTTTTTTTAA
1 TGTTGAAATGGAGGATAACGAGTAATCTTGACACCCATTTTTCATTTTTTCCTCTTTTTTTTTAA
26903057 AAAAAAAATTCTTTATGAGTTTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATTTTGC
66 AAAAAAAATTCTTTATGAGTTTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATTTTGC
26903122 ATAATCATTTAAGATACCTAGTACTTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATT
131 ATAATCATTTAAGATACCTAGTACTTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATT
26903187 TTGCATAAT
196 TTGCATAAT
26903196 CATTTAAGAT
Statistics
Matches: 202, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
202 192 0.95
203 1 0.00
204 9 0.04
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (204 bp):
TGTTGAAATGGAGGATAACGAGTAATCTTGACACCCATTTTTCATTTTTTCCTCTTTTTTTTTAA
AAAAAAAATTCTTTATGAGTTTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATTTTGC
ATAATCATTTAAGATACCTAGTACTTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATT
TTGCATAAT
Found at i:26903188 original size:69 final size:69
Alignment explanation
Indices: 26903077--26903218 Score: 284
Period size: 69 Copynumber: 2.1 Consensus size: 69
26903067 CTTTATGAGT
26903077 TTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATTTTGCATAATCATTTAAGATACCTA
1 TTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATTTTGCATAATCATTTAAGATACCTA
26903142 GTAC
66 GTAC
26903146 TTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATTTTGCATAATCATTTAAGATACCTA
1 TTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATTTTGCATAATCATTTAAGATACCTA
26903211 GTAC
66 GTAC
26903215 TTTT
1 TTTT
26903219 GAGATTTTAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.55
Consensus pattern (69 bp):
TTTTTTTTTTATGTTTTTTATGTGTGATGTTAGTAAATATTTTGCATAATCATTTAAGATACCTA
GTAC
Found at i:26911259 original size:28 final size:28
Alignment explanation
Indices: 26911219--26911275 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
26911209 TATGTTTGTT
26911219 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
26911247 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
26911275 T
1 T
26911276 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:26911486 original size:14 final size:15
Alignment explanation
Indices: 26911467--26911495 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26911457 TCACGAAACT
26911467 TTCACACAT-ATAAA
1 TTCACACATAATAAA
26911481 TTCACACATAATAAA
1 TTCACACATAATAAA
26911496 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:26911749 original size:9 final size:9
Alignment explanation
Indices: 26911719--26911761 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
26911709 TTAATTGAGA
26911719 AATTAATTT
1 AATTAATTT
* * *
26911728 AGTTAAGTC
1 AATTAATTT
26911737 AATTAATTT
1 AATTAATTT
26911746 AATTAA-TT
1 AATTAATTT
26911754 AATTAATT
1 AATTAATT
26911762 AATATTTTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (9 bp):
AATTAATTT
Found at i:26911759 original size:17 final size:17
Alignment explanation
Indices: 26911705--26911761 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
26911695 TTGGAAAAAA
* *
26911705 TAATTTAATTGAGAAAT
1 TAATTTAATTAATAAAT
* *
26911722 TAATTTAGTTAAGTCAAT
1 TAATTTAATTAA-TAAAT
*
26911740 TAATTTAATTAATTAAT
1 TAATTTAATTAATAAAT
26911757 TAATT
1 TAATT
26911762 AATATTTTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 19 0.58
18 14 0.42
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (17 bp):
TAATTTAATTAATAAAT
Found at i:26917105 original size:18 final size:18
Alignment explanation
Indices: 26917082--26917126 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
26917072 TTAGAAATTC
*
26917082 TGGTATTTTATGATGTTA
1 TGGTATTTGATGATGTTA
26917100 TGGTATTTGATGATGTTA
1 TGGTATTTGATGATGTTA
26917118 TGGTATTTG
1 TGGTATTTG
26917127 GGAAGATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (18 bp):
TGGTATTTGATGATGTTA
Found at i:26918079 original size:71 final size:71
Alignment explanation
Indices: 26918004--26918245 Score: 157
Period size: 74 Copynumber: 3.1 Consensus size: 71
26917994 ATCACAACTT
26918004 TTTTTTTCCTATATTTTATATGTAGAGTTCTATTTTAATTAAGTAATAACTCTATTTTAAAATTA
1 TTTTTTTCCTATATTTTATATGTAGAGTTCTATTTTAATTAAGTAATAACTCTATTTTAAAATTA
26918069 GCACAA
66 GCACAA
** * * * *
26918075 TTTTTGAATTAATA-ATTTTAGT-T-TAAATTTTATTTATTTTTAAATTTGAAATTACCATAACT
1 TTTTT---TTCCTATATTTTA-TATGTAGA--GT-TCTA-TTTT-AA-TT--AAGTA--ATAAC-
*
26918137 TCTATTAAATTATAATTATAATTATCACAA
51 TCTAT----TT-T-A--A-AATTAGCACAA
26918167 CTTTTTTTTTCCTATATTTTATATGTAGAGTTCTATTTTAATTAAGTAATAACTCTATTTTAAAA
1 ---TTTTTTTCCTATATTTTATATGTAGAGTTCTATTTTAATTAAGTAATAACTCTATTTTAAAA
26918232 TTAGCACAA
63 TTAGCACAA
26918241 TTTTT
1 TTTTT
26918246 GAATTAATAA
Statistics
Matches: 127, Mismatches: 14, Indels: 60
0.63 0.07 0.30
Matches are distributed among these distances:
71 10 0.08
72 3 0.02
73 7 0.06
74 16 0.13
75 4 0.03
76 4 0.03
77 3 0.02
78 3 0.02
79 2 0.02
80 4 0.03
82 5 0.04
83 10 0.08
84 5 0.04
86 4 0.03
87 2 0.02
88 3 0.02
89 3 0.02
90 4 0.03
91 4 0.03
92 16 0.13
93 7 0.06
94 3 0.02
95 5 0.04
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (71 bp):
TTTTTTTCCTATATTTTATATGTAGAGTTCTATTTTAATTAAGTAATAACTCTATTTTAAAATTA
GCACAA
Found at i:26918162 original size:166 final size:166
Alignment explanation
Indices: 26917976--26918326 Score: 695
Period size: 166 Copynumber: 2.1 Consensus size: 166
26917966 ATAATAATAG
26917976 TAAATTATAATTATAATTATCACAACTTTTTTTTTCCTATATTTTATATGTAGAGTTCTATTTTA
1 TAAATTATAATTATAATTATCACAACTTTTTTTTTCCTATATTTTATATGTAGAGTTCTATTTTA
26918041 ATTAAGTAATAACTCTATTTTAAAATTAGCACAATTTTTGAATTAATAATTTTAGTTTAAATTTT
66 ATTAAGTAATAACTCTATTTTAAAATTAGCACAATTTTTGAATTAATAATTTTAGTTTAAATTTT
26918106 ATTTATTTTTAAATTTGAAATTACCATAACTTCTAT
131 ATTTATTTTTAAATTTGAAATTACCATAACTTCTAT
26918142 TAAATTATAATTATAATTATCACAACTTTTTTTTTCCTATATTTTATATGTAGAGTTCTATTTTA
1 TAAATTATAATTATAATTATCACAACTTTTTTTTTCCTATATTTTATATGTAGAGTTCTATTTTA
26918207 ATTAAGTAATAACTCTATTTTAAAATTAGCACAATTTTTGAATTAATAATTTTAGTTTAAATTTT
66 ATTAAGTAATAACTCTATTTTAAAATTAGCACAATTTTTGAATTAATAATTTTAGTTTAAATTTT
26918272 ATTTATTTTTAAATTTGAAATTACCATAACTTCTAT
131 ATTTATTTTTAAATTTGAAATTACCATAACTTCTAT
26918308 TAAATTATAATTAT-ATTAT
1 TAAATTATAATTATAATTAT
26918327 TATATTTAGA
Statistics
Matches: 185, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 5 0.03
166 180 0.97
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.51
Consensus pattern (166 bp):
TAAATTATAATTATAATTATCACAACTTTTTTTTTCCTATATTTTATATGTAGAGTTCTATTTTA
ATTAAGTAATAACTCTATTTTAAAATTAGCACAATTTTTGAATTAATAATTTTAGTTTAAATTTT
ATTTATTTTTAAATTTGAAATTACCATAACTTCTAT
Found at i:26920293 original size:23 final size:23
Alignment explanation
Indices: 26920249--26920294 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
26920239 AAATTTTTAT
* * *
26920249 ATTTTTCAAGTTTAGATATCAAA
1 ATTTGTCAAGTTCAAATATCAAA
*
26920272 ATTTGTCAAGTTCAAATGTCAAA
1 ATTTGTCAAGTTCAAATATCAAA
26920295 GTGAACAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (23 bp):
ATTTGTCAAGTTCAAATATCAAA
Found at i:26921852 original size:46 final size:47
Alignment explanation
Indices: 26921802--26921900 Score: 130
Period size: 46 Copynumber: 2.1 Consensus size: 47
26921792 CTGTCAGATT
* * *
26921802 AGATATATGTGGTCAAGCCACTAT-ATTGCAGTTAAGA-TGCCAGAAC
1 AGATATATGTGGTCAAGCCACTATAATTGAAGTCAA-ACTGCCAAAAC
* *
26921848 AGATATGTGTGGTCGAGCCACTATAATTGAAGTCAAACTGCCAAAAC
1 AGATATATGTGGTCAAGCCACTATAATTGAAGTCAAACTGCCAAAAC
26921895 AGATAT
1 AGATAT
26921901 GTGGTTAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 23 0.50
47 23 0.50
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (47 bp):
AGATATATGTGGTCAAGCCACTATAATTGAAGTCAAACTGCCAAAAC
Found at i:26921903 original size:47 final size:46
Alignment explanation
Indices: 26921802--26921903 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 46
26921792 CTGTCAGATT
* * * *
26921802 AGATATATGTGGTCAAGCCACTATATTGCAGTTAAGATGCCAGAAC
1 AGATATGTGTGGTCAAGCCACTATATTGAAGTCAAGATGCCAAAAC
*
26921848 AGATATGTGTGGTCGAGCCACTATAATTGAAGTCAA-ACTGCCAAAAC
1 AGATATGTGTGGTCAAGCCACTAT-ATTGAAGTCAAGA-TGCCAAAAC
26921895 AGATATGTG
1 AGATATGTG
26921904 GTTAAACCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
46 23 0.47
47 26 0.53
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (46 bp):
AGATATGTGTGGTCAAGCCACTATATTGAAGTCAAGATGCCAAAAC
Found at i:26931415 original size:102 final size:103
Alignment explanation
Indices: 26931294--26931498 Score: 385
Period size: 102 Copynumber: 2.0 Consensus size: 103
26931284 ATTTTGTTTT
26931294 TTTTTTTTGTTAAAACACCCAAAATGAAGGAAAAAGTTTGTTAATTGTTGGTGTGAGTTAATTAA
1 TTTTTTTTGTTAAAACACCCAAAATGAAGGAAAAAGTTTGTTAATTGTTGGTGTGAGTTAATTAA
* *
26931359 TTTTTAAAAAATTAAAAAATTTAAAATATATTTTTTAA
66 TTTTTAAAAAATTAAAAAATTTAAAAAAAATTTTTTAA
26931397 TTTTTTTTG-TAAAACACCCAAAATGAAGGAAAAAGTTTGTTAATTGTTGGTGTGAGTTAATTAA
1 TTTTTTTTGTTAAAACACCCAAAATGAAGGAAAAAGTTTGTTAATTGTTGGTGTGAGTTAATTAA
26931461 TTTTTAAAAAATTAAAAAATTTAAAAAAAATTTTTTAA
66 TTTTTAAAAAATTAAAAAATTTAAAAAAAATTTTTTAA
26931499 AATATTGTTT
Statistics
Matches: 100, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
102 91 0.91
103 9 0.09
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (103 bp):
TTTTTTTTGTTAAAACACCCAAAATGAAGGAAAAAGTTTGTTAATTGTTGGTGTGAGTTAATTAA
TTTTTAAAAAATTAAAAAATTTAAAAAAAATTTTTTAA
Found at i:26938619 original size:125 final size:125
Alignment explanation
Indices: 26938397--26938664 Score: 403
Period size: 125 Copynumber: 2.1 Consensus size: 125
26938387 CCACGAGGGC
26938397 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCCTACATGACCAACTGTAGC
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCCTACATGACCAACTGTAGC
* * * * *
26938462 GAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 GAAATCGCGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTATAA
* * * ** *
26938522 GCGATTTTATACTATTTTCTCAGAAAACGTCAAAAAAAATTTATTTCTTACATGACC-ACTGTAG
1 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAAAAAATATTTCCTACATGACCAACTGTAG
26938586 CGAAATCGCGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTATAA
65 CGAAATCGCGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTATAA
**
26938647 GCGATTTCCCACTATTTG
1 GCGATTTGACACTATTTG
26938665 ACCAGATACA
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
125 97 0.76
126 30 0.24
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (125 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTATAA
Found at i:26939728 original size:17 final size:18
Alignment explanation
Indices: 26939688--26939728 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
26939678 ATTCAATTGT
*
26939688 TAGTTAGTTAGTTAAAAG
1 TAGTTAGTTAGTGAAAAG
26939706 TAGTTAG-TAGCTGAAAA-
1 TAGTTAGTTAG-TGAAAAG
26939723 TAGTTA
1 TAGTTA
26939729 CTGTTAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (18 bp):
TAGTTAGTTAGTGAAAAG
Found at i:26941069 original size:39 final size:38
Alignment explanation
Indices: 26941026--26941124 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 38
26941016 GAATCATAAT
* *
26941026 AATTATAATTACCATAATTATAATAATGTTTGACCGAAA
1 AATTATAATTACCATAATTATAATAATATTGGACCG-AA
* * * *
26941065 AATTACAATTACAATAATTATAATAATATTGGATCGTA
1 AATTATAATTACCATAATTATAATAATATTGGACCGAA
*
26941103 AATTATAATTA-CAAAATTATAA
1 AATTATAATTACCATAATTATAA
26941125 AAAGGTTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
37 9 0.18
38 11 0.22
39 31 0.61
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.36
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTGGACCGAA
Found at i:26944190 original size:3 final size:3
Alignment explanation
Indices: 26944182--26944224 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
26944172 ATTTCCTACC
26944182 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
26944225 TTGATACCGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:26947468 original size:49 final size:48
Alignment explanation
Indices: 26947342--26947460 Score: 130
Period size: 49 Copynumber: 2.4 Consensus size: 48
26947332 TGCCATACAA
* * * * *
26947342 TCGTGTGGGTAGGCCGTGTGGGGCACATGGTCGTGTAAAATCATGCAGG
1 TCGTGTGGGTAGACCGTGT-GGGCACACGGGCGAGTAAAATCAAGCAGG
* * * * *
26947391 CCATGTGGGTAGCCCATGTAGGGCACACGGGCGAGTGAAATCAAGCAGG
1 TCGTGTGGGTAGACCGTGT-GGGCACACGGGCGAGTAAAATCAAGCAGG
26947440 TCGTGTGGGTAGACCGTGTGG
1 TCGTGTGGGTAGACCGTGTGG
26947461 ACCACACGAG
Statistics
Matches: 56, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
48 2 0.04
49 54 0.96
ACGTcount: A:0.20, C:0.18, G:0.40, T:0.21
Consensus pattern (48 bp):
TCGTGTGGGTAGACCGTGTGGGCACACGGGCGAGTAAAATCAAGCAGG
Found at i:26949150 original size:19 final size:19
Alignment explanation
Indices: 26949115--26949165 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
26949105 CAAAAAAAAA
*
26949115 AAAATTCAAATTAATTTTG
1 AAAATTCAAAATAATTTTG
* * *
26949134 AACATTTAAAATAATTTTT
1 AAAATTCAAAATAATTTTG
26949153 AAAATTCAAAATA
1 AAAATTCAAAATA
26949166 TTTATAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTG
Found at i:26949173 original size:18 final size:19
Alignment explanation
Indices: 26949137--26949189 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
26949127 AATTTTGAAC
*
26949137 ATTT-AAAATAATTTTTAAA
1 ATTTCAAAAT-ATTTATAAA
26949156 A-TTCAAAATATTTATAAA
1 ATTTCAAAATATTTATAAA
*
26949174 ATTTCCAAA-ATTTATA
1 ATTTCAAAATATTTATA
26949190 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTTCAAAATATTTATAAA
Found at i:26955220 original size:25 final size:25
Alignment explanation
Indices: 26955179--26955352 Score: 177
Period size: 25 Copynumber: 7.2 Consensus size: 25
26955169 TCAAAATAAC
26955179 TCAAA-AAA-TTTCTATTTTATTACA
1 TCAAATAAACTTT-TATTTTATTACA
26955203 TCAAATAAACTTTTATTTTATTACA
1 TCAAATAAACTTTTATTTTATTACA
*
26955228 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAACTTTTATTTTATTACA
* *** *
26955253 TCACAT-AA----TATAAAAATA-A
1 TCAAATAAACTTTTATTTTATTACA
* *
26955272 TTCAAA-AAAATTTCTACTTTATTACA
1 -TCAAATAAACTTT-TATTTTATTACA
26955298 TCAAATAAACTTTTATTTTATTACA
1 TCAAATAAACTTTTATTTTATTACA
*
26955323 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAACTTTTATTTTATTACA
26955348 TCAAA
1 TCAAA
26955353 CAATATCAAA
Statistics
Matches: 124, Mismatches: 15, Indels: 21
0.77 0.09 0.13
Matches are distributed among these distances:
19 1 0.01
20 12 0.10
24 7 0.06
25 94 0.76
26 10 0.08
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.43
Consensus pattern (25 bp):
TCAAATAAACTTTTATTTTATTACA
Found at i:26955253 original size:50 final size:50
Alignment explanation
Indices: 26955179--26955352 Score: 209
Period size: 50 Copynumber: 3.6 Consensus size: 50
26955169 TCAAAATAAC
*
26955179 TCAAA-AAATTTCTATTTTATTACATCAAATAAACTTTTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACATCAAATAAACTTTTATTTTATTACA
* *** *
26955228 TCAAATAAACTTCTATTTTATTACATCACAT-AA----TATAAAAATA-A
1 TCAAATAAACTTCTATTTTATTACATCAAATAAACTTTTATTTTATTACA
* * *
26955272 TTCAAAAAAATTTCTACTTTATTACATCAAATAAACTTTTATTTTATTACA
1 -TCAAATAAACTTCTATTTTATTACATCAAATAAACTTTTATTTTATTACA
26955323 TCAAATAAACTTCTATTTTATTACATCAAA
1 TCAAATAAACTTCTATTTTATTACATCAAA
26955353 CAATATCAAA
Statistics
Matches: 100, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
44 1 0.01
45 33 0.33
46 2 0.02
49 7 0.07
50 56 0.56
51 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.43
Consensus pattern (50 bp):
TCAAATAAACTTCTATTTTATTACATCAAATAAACTTTTATTTTATTACA
Found at i:26955313 original size:95 final size:95
Alignment explanation
Indices: 26955151--26955398 Score: 412
Period size: 95 Copynumber: 2.6 Consensus size: 95
26955141 TAAGCTCATG
26955151 TTATTACATCAAATAATATCAAAATAACTC-AAAAAATTTCTATTTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAATAAACTT
26955215 TTATTTTATTACATCAAATAAACTTCTATT
66 TTATTTTATTACATCAAATAAACTTCTATT
* * * *
26955245 TTATTACATCACATAATATAAAAATAATTCAAAAAAATTTCTACTTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAATAAACTT
26955310 TTATTTTATTACATCAAATAAACTTCTATT
66 TTATTTTATTACATCAAATAAACTTCTATT
* * *
26955340 TTATTACATCAAACAATATCAAAATAACT-AAAAAAA-TTCTATTTTATTGCATAAAATAA
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAATAA
26955399 TATCAAAATT
Statistics
Matches: 142, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
93 20 0.14
94 34 0.24
95 88 0.62
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (95 bp):
TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAATAAACTT
TTATTTTATTACATCAAATAAACTTCTATT
Found at i:26956710 original size:21 final size:20
Alignment explanation
Indices: 26956677--26956715 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
26956667 TTTATTTTTA
*
26956677 AAAATCTACATAATATTTGT
1 AAAATCTACATAAAATTTGT
*
26956697 AAAATCTAATATAAAATTT
1 AAAATCT-ACATAAAATTT
26956716 ACCTCGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAATCTACATAAAATTTGT
Found at i:26957484 original size:15 final size:15
Alignment explanation
Indices: 26957464--26957495 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26957454 ATAATTATCT
26957464 AAAAATTCATAAATA
1 AAAAATTCATAAATA
*
26957479 AAAAATTCTTAAATA
1 AAAAATTCATAAATA
26957494 AA
1 AA
26957496 TTTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAATTCATAAATA
Found at i:26957708 original size:14 final size:12
Alignment explanation
Indices: 26957661--26957704 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
26957651 TTAAATATGG
26957661 ATTTGAGA-GAA
1 ATTTGAGAGGAA
26957672 ATTTTGA-AGGAA
1 A-TTTGAGAGGAA
26957684 ATTTGAGAGGAA
1 ATTTGAGAGGAA
26957696 ATTTGAGAG
1 ATTTGAGAG
26957705 AGGATTAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.23
12 23 0.77
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:26958749 original size:25 final size:25
Alignment explanation
Indices: 26958721--26958787 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
26958711 ACCGATTCTT
* *
26958721 AGCTCGTATGAGCTTACCAATTTAC
1 AGCTCGTATGAGCATACCAATTCAC
* *
26958746 AGCTCGTGA-AAGCATACCAATTCAT
1 AGCTCGT-ATGAGCATACCAATTCAC
*
26958771 AGCTTGTATGAGCATAC
1 AGCTCGTATGAGCATAC
26958788 ATGTATAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCAATTCAC
Found at i:26958975 original size:30 final size:30
Alignment explanation
Indices: 26958936--26958997 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
26958926 TACATGAGAT
26958936 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
26958967 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
26958996 AC
1 AC
26958998 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:26964627 original size:16 final size:15
Alignment explanation
Indices: 26964602--26964642 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
26964592 AAAGAGGAAT
*
26964602 TTTAAAATAAATTAA
1 TTTAAAATAAATAAA
26964617 TTTAAAGATAAATAAA
1 TTTAAA-ATAAATAAA
26964633 TTTTAAAATA
1 -TTTAAAATA
26964643 TCATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 11 0.48
17 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
TTTAAAATAAATAAA
Found at i:26965959 original size:27 final size:27
Alignment explanation
Indices: 26965929--26966003 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
26965919 GGGTATGGTG
* * *
26965929 CCTATCTAATAGGCGGCACCAGTGACC
1 CCTATCTGATAGGTGGCACCAGTGACA
* **
26965956 CCTATCTGATAGGTGGAACTGGTGACA
1 CCTATCTGATAGGTGGCACCAGTGACA
26965983 CCTATCTGATAGGTGGCACCA
1 CCTATCTGATAGGTGGCACCA
26966004 ATAGCATTCC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (27 bp):
CCTATCTGATAGGTGGCACCAGTGACA
Found at i:26966096 original size:13 final size:14
Alignment explanation
Indices: 26966078--26966108 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
26966068 CAAGAGAGGG
26966078 AAGAGAAGA-AAGA
1 AAGAGAAGAGAAGA
26966091 AAGAGAAGAGAAGA
1 AAGAGAAGAGAAGA
26966105 AAGA
1 AAGA
26966109 AAAAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
AAGAGAAGAGAAGA
Found at i:26969796 original size:12 final size:12
Alignment explanation
Indices: 26969779--26969836 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
26969769 TATGCGATCA
26969779 CTCGGGCTCTGG
1 CTCGGGCTCTGG
*
26969791 CTCGGGCTCGGG
1 CTCGGGCTCTGG
26969803 CTCGGGCTCTGG
1 CTCGGGCTCTGG
* *
26969815 CTCTGGCTCTTG
1 CTCGGGCTCTGG
*
26969827 CTCGGCCTCT
1 CTCGGGCTCT
26969837 ATATCGGGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.00, C:0.36, G:0.36, T:0.28
Consensus pattern (12 bp):
CTCGGGCTCTGG
Found at i:26969798 original size:6 final size:6
Alignment explanation
Indices: 26969779--26969823 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
26969769 TATGCGATCA
* * *
26969779 CTCGGG CTCTGG CTCGGG CTCGGG CTCGGG CTCTGG CTCTGG CTC
1 CTCGGG CTCGGG CTCGGG CTCGGG CTCGGG CTCGGG CTCGGG CTC
26969824 TTGCTCGGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.36, G:0.40, T:0.24
Consensus pattern (6 bp):
CTCGGG
Found at i:26969824 original size:6 final size:6
Alignment explanation
Indices: 26969783--26969829 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
26969773 CGATCACTCG
* * * *
26969783 GGCTCT GGCTCG GGCTCG GGCTCG GGCTCT GGCTCT GGCTCT TGCTC
1 GGCTCT GGCTCT GGCTCT GGCTCT GGCTCT GGCTCT GGCTCT GGCTC
26969830 GGCCTCTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.34, G:0.38, T:0.28
Consensus pattern (6 bp):
GGCTCT
Found at i:26972716 original size:31 final size:31
Alignment explanation
Indices: 26972666--26972735 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
26972656 TTATGGAGAT
26972666 GGCGTGA-CAGGTGGTGCCGCCTCTGCCCTA
1 GGCGTGACCAGGTGGTGCCGCCTCTGCCCTA
*
26972696 GGCGTGACCAAGG-GGTGCCGCCTCTTCCCTA
1 GGCGTGACC-AGGTGGTGCCGCCTCTGCCCTA
26972727 GGCGTGACC
1 GGCGTGACC
26972736 CCTTGTGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 7 0.19
31 27 0.73
32 3 0.08
ACGTcount: A:0.11, C:0.34, G:0.36, T:0.19
Consensus pattern (31 bp):
GGCGTGACCAGGTGGTGCCGCCTCTGCCCTA
Found at i:26976005 original size:18 final size:18
Alignment explanation
Indices: 26975978--26976012 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26975968 CATACTATAG
26975978 TATCGCTATCACATTTAA
1 TATCGCTATCACATTTAA
*
26975996 TATCGTTATCACATTTA
1 TATCGCTATCACATTTA
26976013 GTCTCACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (18 bp):
TATCGCTATCACATTTAA
Found at i:26981306 original size:87 final size:88
Alignment explanation
Indices: 26981196--26981374 Score: 351
Period size: 87 Copynumber: 2.0 Consensus size: 88
26981186 ATTTGATTAA
26981196 TATTTGATAAGATGTGACATTCTTGTAATTATTCGCATGTTTAGGAAAATGTATGTAAATGAATG
1 TATTTGATAAGATGTGACATTCTTGTAATTATTCGCATGTTTAGGAAAATGTATGTAAATGAATG
26981261 CAATATTATATATTTTATATAAT
66 CAATATTATATATTTTATATAAT
26981284 TATTTGATAAG-TGTGACATTCTTGTAATTATTCGCATGTTTAGGAAAATGTATGTAAATGAATG
1 TATTTGATAAGATGTGACATTCTTGTAATTATTCGCATGTTTAGGAAAATGTATGTAAATGAATG
26981348 CAATATTATATATTTTATATAAT
66 CAATATTATATATTTTATATAAT
26981371 TATT
1 TATT
26981375 ATTTTTTGTC
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 80 0.88
88 11 0.12
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.44
Consensus pattern (88 bp):
TATTTGATAAGATGTGACATTCTTGTAATTATTCGCATGTTTAGGAAAATGTATGTAAATGAATG
CAATATTATATATTTTATATAAT
Found at i:26986730 original size:233 final size:235
Alignment explanation
Indices: 26986311--26986778 Score: 922
Period size: 233 Copynumber: 2.0 Consensus size: 235
26986301 CACTATAAAG
26986311 ACAATAGCAAATTAACACTTTAATAAATAGTTAGCAACTTTATAACTTACGCGATTAAGTCCTTT
1 ACAATAGCAAATTAACACTTTAATAAATAGTTAGCAACTTTATAACTTACGCGATTAAGTCCTTT
26986376 TAATAAATCGGGCATTCAAAAGATAAAATTTCAAACCGAAAATTTAGCACACACAAATTCACACA
66 TAATAAATCGGGCATTCAAAAGATAAAATTTCAAACCGAAAATTTAGCACACACAAATTCACACA
26986441 GTATAAACACCAAAAATAATTTTAAAATATTTTAAAATCGGGCTGTTACATAATTAATCACAAGA
131 GTATAAACACCAAAAATAATTTTAAAATATTTTAAAATCGGGCTGTTACATAATTAATCACAAGA
26986506 ACCCGGGCGTTGAAAAAAAACAAAAAAAAAAAGCAAGAAC
196 ACCCGGGCGTTGAAAAAAAACAAAAAAAAAAAGCAAGAAC
26986546 ACAATAGC-AA-TAACACTTTAATAAATAGTTAGCAACTTTATAACTTACGCGATTAAGTCCTTT
1 ACAATAGCAAATTAACACTTTAATAAATAGTTAGCAACTTTATAACTTACGCGATTAAGTCCTTT
26986609 TAATAAATCGGGCATTCAAAAGATAAAATTTCAAACCGAAAATTTAGCACACACAAATTCACACA
66 TAATAAATCGGGCATTCAAAAGATAAAATTTCAAACCGAAAATTTAGCACACACAAATTCACACA
26986674 GTATAAACACCAAAAATAATTTTAAAATATTTTAAAATCGGGCTGTTACATAATTAATCACAAGA
131 GTATAAACACCAAAAATAATTTTAAAATATTTTAAAATCGGGCTGTTACATAATTAATCACAAGA
26986739 ACCCGGGCGTTGAAAAAAAACAAAAAAAAAAAGCAAGAAC
196 ACCCGGGCGTTGAAAAAAAACAAAAAAAAAAAGCAAGAAC
26986779 TGTCGTTTGA
Statistics
Matches: 233, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
233 223 0.96
234 2 0.01
235 8 0.03
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.25
Consensus pattern (235 bp):
ACAATAGCAAATTAACACTTTAATAAATAGTTAGCAACTTTATAACTTACGCGATTAAGTCCTTT
TAATAAATCGGGCATTCAAAAGATAAAATTTCAAACCGAAAATTTAGCACACACAAATTCACACA
GTATAAACACCAAAAATAATTTTAAAATATTTTAAAATCGGGCTGTTACATAATTAATCACAAGA
ACCCGGGCGTTGAAAAAAAACAAAAAAAAAAAGCAAGAAC
Found at i:26990900 original size:23 final size:22
Alignment explanation
Indices: 26990873--26990923 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
26990863 AACAAAAAGA
*
26990873 AAGAAAGAAAACGTGAAAGTTG
1 AAGAAAGAAAACGTGAAAATTG
* *
26990895 AGAGAAA-AGAATGTGAAAATTG
1 A-AGAAAGAAAACGTGAAAATTG
26990917 AAGAAAG
1 AAGAAAG
26990924 GAAATTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.21
22 14 0.58
23 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.27, T:0.14
Consensus pattern (22 bp):
AAGAAAGAAAACGTGAAAATTG
Found at i:26992074 original size:13 final size:13
Alignment explanation
Indices: 26992053--26992083 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
26992043 TCAAAATATA
*
26992053 TTTCTCTAAAAGT
1 TTTCCCTAAAAGT
26992066 TTTCCCTAAAAGT
1 TTTCCCTAAAAGT
26992079 TTTCC
1 TTTCC
26992084 ACACTCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTCCCTAAAAGT
Found at i:26998528 original size:3 final size:3
Alignment explanation
Indices: 26998522--26998559 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
26998512 TTATTTCTAA
26998522 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
26998560 TACCTTAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:27003748 original size:28 final size:29
Alignment explanation
Indices: 27003716--27003787 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
27003706 AATGGTAGAC
* * *
27003716 AGTGCAAGCCAAAGTGACGGGTAGTCC-A
1 AGTGCAAGCCAAAATAACGGATAGTCCAA
27003744 AGTGCAAGCCAAAATAACGGATAGTCCAA
1 AGTGCAAGCCAAAATAACGGATAGTCCAA
27003773 AGTGCAAGCCAAAAT
1 AGTGCAAGCCAAAAT
27003788 GATGGACAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 24 0.60
29 16 0.40
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.14
Consensus pattern (29 bp):
AGTGCAAGCCAAAATAACGGATAGTCCAA
Found at i:27003823 original size:79 final size:79
Alignment explanation
Indices: 27003692--27003867 Score: 226
Period size: 79 Copynumber: 2.2 Consensus size: 79
27003682 ACGAGATGAA
* * * ** *
27003692 AAAGTGCAAGCCAAAATGGTAGACAGTGCAAGCCAAAGTGACGGGTAGTCCAAGTGCAAGCCAAA
1 AAAGTGCAAGCCAAAATGATAGACAGTACAAGCCAAAGTGACAGACAATCCAAGTGCAAGCCAAA
*
27003757 ATAACGGATAGTCC
66 ATAACGGACAGTCC
* * *
27003771 AAAGTGCAAGCCAAAATGATGGACAGTACAAGCTAAAGTGGCAGACAATCCAAGTGCAAGCCAAA
1 AAAGTGCAAGCCAAAATGATAGACAGTACAAGCCAAAGTGACAGACAATCCAAGTGCAAGCCAAA
* ***
27003836 TTGGTGGACAGTCC
66 ATAACGGACAGTCC
27003850 AAAGTGCAAGCCAAAATG
1 AAAGTGCAAGCCAAAATG
27003868 GTGGGCGGTC
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 83 1.00
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (79 bp):
AAAGTGCAAGCCAAAATGATAGACAGTACAAGCCAAAGTGACAGACAATCCAAGTGCAAGCCAAA
ATAACGGACAGTCC
Found at i:27003859 original size:29 final size:29
Alignment explanation
Indices: 27003814--27003880 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
27003804 TAAAGTGGCA
* *
27003814 GACAATCC-AAGTGCAAGCCAAATTGGTG
1 GACAGTCCAAAGTGCAAGCCAAAATGGTG
27003842 GACAGTCCAAAGTGCAAGCCAAAATGGTG
1 GACAGTCCAAAGTGCAAGCCAAAATGGTG
* *
27003871 GGCGGTCCAA
1 GACAGTCCAA
27003881 GAATTCGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 7 0.21
29 27 0.79
ACGTcount: A:0.34, C:0.22, G:0.28, T:0.15
Consensus pattern (29 bp):
GACAGTCCAAAGTGCAAGCCAAAATGGTG
Found at i:27005422 original size:9 final size:9
Alignment explanation
Indices: 27005408--27005444 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27005398 TATAGTTTGA
27005408 TATTCGAAT
1 TATTCGAAT
27005417 TATTCGAAT
1 TATTCGAAT
*
27005426 TATTCGAGT
1 TATTCGAAT
27005435 TATTCGAAT
1 TATTCGAAT
27005444 T
1 T
27005445 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27005515 original size:9 final size:9
Alignment explanation
Indices: 27005498--27005528 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27005488 TCGAGTTGAT
27005498 TCGAATAAC
1 TCGAATAAC
*
27005507 TCGATTAAC
1 TCGAATAAC
27005516 TCGAATAAC
1 TCGAATAAC
27005525 TCGA
1 TCGA
27005529 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27008010 original size:3 final size:3
Alignment explanation
Indices: 27008002--27008033 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
27007992 GAATAAGAGG
27008002 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
27008034 GAACCATATT
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:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:27016628 original size:12 final size:12
Alignment explanation
Indices: 27016611--27016641 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27016601 GTTTGGTTCA
27016611 ATTAAATAAATT
1 ATTAAATAAATT
27016623 ATTAAATAAATT
1 ATTAAATAAATT
*
27016635 ATAAAAT
1 ATTAAAT
27016642 TAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTAAATAAATT
Found at i:27016804 original size:1 final size:1
Alignment explanation
Indices: 27016800--27016833 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
27016790 TTCTTTTAAG
27016800 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
27016834 GCCCTTTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:27024074 original size:18 final size:17
Alignment explanation
Indices: 27024043--27024084 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
27024033 ACCCAGTAAC
27024043 AAAAAAATAACAAATAAA
1 AAAAAAATAACAAA-AAA
*
27024061 GAAAAAAAT-CCAAAAAA
1 -AAAAAAATAACAAAAAA
27024078 AAAAAAA
1 AAAAAAA
27024085 AACCCACCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 3 0.14
18 4 0.18
19 8 0.36
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.07
Consensus pattern (17 bp):
AAAAAAATAACAAAAAA
Found at i:27024085 original size:18 final size:19
Alignment explanation
Indices: 27024043--27024086 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
27024033 ACCCAGTAAC
* *
27024043 AAAAAAATAACAAATAAAG
1 AAAAAAATAACAAAAAAAA
*
27024062 AAAAAAAT-CCAAAAAAAA
1 AAAAAAATAACAAAAAAAA
27024080 AAAAAAA
1 AAAAAAA
27024087 CCCACCCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.84, C:0.07, G:0.02, T:0.07
Consensus pattern (19 bp):
AAAAAAATAACAAAAAAAA
Found at i:27032270 original size:16 final size:16
Alignment explanation
Indices: 27032249--27032288 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
27032239 TGAATTACTG
*
27032249 ATTACAGCTCTATTAC
1 ATTACAACTCTATTAC
* *
27032265 ATTACAATTCTATTCC
1 ATTACAACTCTATTAC
27032281 ATTACAAC
1 ATTACAAC
27032289 CTTATTTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTACAACTCTATTAC
Found at i:27032923 original size:49 final size:49
Alignment explanation
Indices: 27032832--27032928 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
27032822 ATCTATTTAT
* * * *
27032832 AGGTTGAAAAACCTTATTCTAATCAATGTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
27032881 AGGTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
27032929 TCTATATGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:27043995 original size:7 final size:7
Alignment explanation
Indices: 27043985--27044018 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
27043975 TTTTATCTTT
*
27043985 TTTTTTG
1 TTTTATG
27043992 TTTTATG
1 TTTTATG
27043999 TTTTATG
1 TTTTATG
27044006 TTTTATG
1 TTTTATG
*
27044013 TGTTAT
1 TTTTAT
27044019 TATAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.74
Consensus pattern (7 bp):
TTTTATG
Found at i:27047722 original size:3 final size:3
Alignment explanation
Indices: 27047714--27047741 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27047704 GTGAAACAGA
27047714 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
27047742 AACAGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.32, T:0.32
Consensus pattern (3 bp):
CTG
Found at i:27051227 original size:15 final size:16
Alignment explanation
Indices: 27051187--27051228 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
27051177 TAGAATAAGC
*
27051187 CAAACCCAAAACAAGT
1 CAAACCCAAAACAACT
27051203 CAAACCCAAAACAACT
1 CAAACCCAAAACAACT
*
27051219 -AAACTCAAAA
1 CAAACCCAAAA
27051229 TGACCCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.60, C:0.31, G:0.02, T:0.07
Consensus pattern (16 bp):
CAAACCCAAAACAACT
Found at i:27058712 original size:26 final size:25
Alignment explanation
Indices: 27058682--27058737 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
27058672 ATAAACAAAC
*
27058682 ATTTT-CTTCTTTTACAAAATTTAATT
1 ATTTTACTTCTTTT-CAAAAGTTAA-T
* *
27058708 ATTTTATTTCTTTTCATAAGTTAAT
1 ATTTTACTTCTTTTCAAAAGTTAAT
27058733 ATTTT
1 ATTTT
27058738 TATTTTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 6 0.23
26 13 0.50
27 7 0.27
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTTACTTCTTTTCAAAAGTTAAT
Found at i:27058917 original size:21 final size:21
Alignment explanation
Indices: 27058870--27058929 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
27058860 CCAAATCTCG
* *
27058870 AGTTCAAGGTTT-GGGTTAGG
1 AGTTTAAGGTTTAGGGTTAGA
*
27058890 A-TTTAAGGTTTAGGGTTCGA
1 AGTTTAAGGTTTAGGGTTAGA
* *
27058910 AGTTTAAGATTTAGGTTTAG
1 AGTTTAAGGTTTAGGGTTAG
27058930 TGTTCAAGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 9 0.28
20 8 0.25
21 15 0.47
ACGTcount: A:0.25, C:0.03, G:0.32, T:0.40
Consensus pattern (21 bp):
AGTTTAAGGTTTAGGGTTAGA
Found at i:27059686 original size:15 final size:14
Alignment explanation
Indices: 27059657--27059690 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
27059647 GTTGAAGGGG
*
27059657 AATAAAAAGAAAAT
1 AATAAAAAAAAAAT
27059671 AATAAAAAAAATAAT
1 AATAAAAAAAA-AAT
27059686 AATAA
1 AATAA
27059691 GGGGGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
AATAAAAAAAAAAT
Found at i:27060075 original size:3 final size:3
Alignment explanation
Indices: 27060067--27060129 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
27060057 TGAACTGTCT
27060067 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27060115 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
27060130 CTTGTGTATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27062000 original size:21 final size:22
Alignment explanation
Indices: 27061973--27062029 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
27061963 AAAAAGACTT
*
27061973 ATTTTTCGTTGACCTGTAAGTC
1 ATTTTCCGTTGACCTGTAAGTC
27061995 ATTTTCCGTTGACCTGTAAGTC
1 ATTTTCCGTTGACCTGTAAGTC
27062017 ATTTTCCGTTGAC
1 ATTTTCCGTTGAC
27062030 TAAGTTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (22 bp):
ATTTTCCGTTGACCTGTAAGTC
Found at i:27063712 original size:16 final size:16
Alignment explanation
Indices: 27063686--27063725 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27063676 ATTTAATTTA
27063686 ATTTAATTTATATAAAT
1 ATTT-ATTTATATAAAT
**
27063703 ATTTATTTATATTTAT
1 ATTTATTTATATAAAT
27063719 ATTTATT
1 ATTTATT
27063726 CGCTAACGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTATTTATATAAAT
Found at i:27063715 original size:6 final size:6
Alignment explanation
Indices: 27063670--27063724 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 6
27063660 AAATATAAAT
**
27063670 TATTTA -ATTTA -ATTTA -ATTTA -ATTTA TATAAA TA-TT- TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
27063712 TATTTA TATTTA T
1 TATTTA TATTTA T
27063725 TCGCTAACGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
4 2 0.05
5 22 0.52
6 18 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TATTTA
Found at i:27066436 original size:21 final size:21
Alignment explanation
Indices: 27066412--27066453 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27066402 GGTGGGAAAT
27066412 GGATTTTGGGTAGATTGGGGG
1 GGATTTTGGGTAGATTGGGGG
27066433 GGATTTTGGGTAGATTGGGGG
1 GGATTTTGGGTAGATTGGGGG
27066454 TTAGGAGGGG
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:0.00, G:0.52, T:0.33
Consensus pattern (21 bp):
GGATTTTGGGTAGATTGGGGG
Found at i:27078320 original size:26 final size:26
Alignment explanation
Indices: 27078263--27078338 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
27078253 TTTCTCATCC
***
27078263 CTATTTTATCCCCAATAAAATTTTGA
1 CTATTTTATCCCTGGTAAAATTTTGA
27078289 -TAATTTTATCCCTGGTAAAATTTTGA
1 CT-ATTTTATCCCTGGTAAAATTTTGA
*
27078315 CTATTTT-GCCTCTGGTAAAATTTT
1 CTATTTTATCC-CTGGTAAAATTTT
27078339 CAGAAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 3 0.07
26 39 0.91
27 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (26 bp):
CTATTTTATCCCTGGTAAAATTTTGA
Found at i:27083569 original size:17 final size:17
Alignment explanation
Indices: 27083547--27083581 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27083537 ATCATCTCCA
27083547 TCTTTTC-TCTGCTTTTT
1 TCTTTTCTTCT-CTTTTT
27083564 TCTTTTCTTCTCTTTTT
1 TCTTTTCTTCTCTTTTT
27083581 T
1 T
27083582 GAATTCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTCTTCTCTTTTT
Found at i:27090180 original size:16 final size:16
Alignment explanation
Indices: 27090146--27090183 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27090136 TGGTTCGTTA
**
27090146 TAATAGAATAGAGTTG
1 TAATAGAATAGAGGCG
27090162 TAATAGAATAGAGGCG
1 TAATAGAATAGAGGCG
27090178 TAATAG
1 TAATAG
27090184 TAATTCAATT
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:0.45, C:0.03, G:0.26, T:0.26
Consensus pattern (16 bp):
TAATAGAATAGAGGCG
Found at i:27090503 original size:20 final size:21
Alignment explanation
Indices: 27090464--27090503 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
27090454 AATTTACTAA
*
27090464 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
27090485 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
27090504 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:27090603 original size:21 final size:21
Alignment explanation
Indices: 27090588--27090649 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
27090578 TACTAAAATC
27090588 ATAATATATAATACTATAAAA
1 ATAATATATAATACTATAAAA
**
27090609 ATAATATATAAT-CTACT--TT
1 ATAATATATAATACTA-TAAAA
*
27090628 ATAATGTATAATACTATAAAA
1 ATAATATATAATACTATAAAA
27090649 A
1 A
27090650 AGTTGAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
19 12 0.38
20 6 0.19
21 14 0.44
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAATATATAATACTATAAAA
Found at i:27094444 original size:11 final size:11
Alignment explanation
Indices: 27094424--27094475 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
27094414 TTTAAGGTTT
* *
27094424 AAGAAGAGAAA
1 AAGAAAAGAAG
27094435 AAGAAAAGAAG
1 AAGAAAAGAAG
27094446 AAGAAGAAGAAG
1 AAGAA-AAGAAG
**
27094458 AAGAGGAGAAG
1 AAGAAAAGAAG
27094469 AAGAAAA
1 AAGAAAA
27094476 AGGAGGAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 24 0.71
12 10 0.29
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (11 bp):
AAGAAAAGAAG
Found at i:27094446 original size:3 final size:3
Alignment explanation
Indices: 27094424--27094487 Score: 62
Period size: 3 Copynumber: 22.3 Consensus size: 3
27094414 TTTAAGGTTT
* *
27094424 AAG AAG -AG AAA AAG AA- AAG AAG AAG AAG AAG AAG AAG -AG GAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * *
27094469 AAG AAA AAG GAG GAG AAG A
1 AAG AAG AAG AAG AAG AAG A
27094488 GAAAAAATGG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 6 0.12
3 45 0.88
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27094490 original size:17 final size:17
Alignment explanation
Indices: 27094424--27094493 Score: 72
Period size: 17 Copynumber: 4.1 Consensus size: 17
27094414 TTTAAGGTTT
* *
27094424 AAGAAGAGAAAAAG-AA
1 AAGAGGAGAAGAAGAAA
* *
27094440 AAGAAGAAGAAGAAGAAG
1 AAG-AGGAGAAGAAGAAA
27094458 AAGAGGAGAAGAAGAAA
1 AAGAGGAGAAGAAGAAA
27094475 AAGGAGGAGAAG-AGAAA
1 AA-GAGGAGAAGAAGAAA
27094492 AA
1 AA
27094494 ATGGAGATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 3 0.07
17 29 0.64
18 13 0.29
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AAGAGGAGAAGAAGAAA
Found at i:27094490 original size:20 final size:20
Alignment explanation
Indices: 27094444--27094499 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
27094434 AAAGAAAAGA
*
27094444 AGAAGAAGAAGAAGAA-GAGG
1 AGAAG-AGAAGAAAAAGGAGG
27094464 AG-A-AGAAGAAAAAGGAGG
1 AGAAGAGAAGAAAAAGGAGG
*
27094482 AGAAGAGAA-AAAATGGAG
1 AGAAGAGAAGAAAAAGGAG
27094500 ATGCCTCTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 10 0.32
20 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.38, T:0.02
Consensus pattern (20 bp):
AGAAGAGAAGAAAAAGGAGG
Found at i:27094494 original size:18 final size:19
Alignment explanation
Indices: 27094447--27094499 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
27094437 GAAAAGAAGA
*
27094447 AGAAGAAGAAGAA--GAGG
1 AGAAGAAGAAAAATGGAGG
27094464 AGAAGAAGAAAAA-GGAGG
1 AGAAGAAGAAAAATGGAGG
27094482 AGAAG-AGAAAAAATGGAG
1 AGAAGAAG-AAAAATGGAG
27094500 ATGCCTCTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 14 0.44
18 14 0.44
19 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (19 bp):
AGAAGAAGAAAAATGGAGG
Found at i:27096018 original size:21 final size:21
Alignment explanation
Indices: 27095992--27096032 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27095982 CAACGTGGCA
27095992 AGTTAA-TTGGCCACATCAGCT
1 AGTTAACTT-GCCACATCAGCT
27096013 AGTTAACTTGCCACATCAGC
1 AGTTAACTTGCCACATCAGC
27096033 GGTCCCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (21 bp):
AGTTAACTTGCCACATCAGCT
Found at i:27097028 original size:18 final size:19
Alignment explanation
Indices: 27096989--27097030 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
27096979 CCTTGAGTTG
27096989 TTTCTTCTCTTCTCTCTTT
1 TTTCTTCTCTTCTCTCTTT
* *
27097008 TTTCTCTCTTTTCTTTCTTT
1 TTTCT-TCTCTTCTCTCTTT
27097028 TTT
1 TTT
27097031 AGCCACCGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTTCTCTTCTCTCTTT
Found at i:27102215 original size:34 final size:34
Alignment explanation
Indices: 27102119--27102216 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 34
27102109 ATTGTATTAC
* * *
27102119 CAGAAACATACATCAGATCATAATGTCATATTTT
1 CAGAAACATATATTAGATCAGAATGTCATATTTT
* * *
27102153 CAG-AACATATTTTGGATC-GAAATATCATATTTT
1 CAGAAACATATATTAGATCAG-AATGTCATATTTT
*
27102186 CAGAAACATATATTAGAACAGAATGTCATAT
1 CAGAAACATATATTAGATCAGAATGTCATAT
27102217 CAGACCAGAA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
33 26 0.51
34 24 0.47
35 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (34 bp):
CAGAAACATATATTAGATCAGAATGTCATATTTT
Found at i:27103387 original size:12 final size:12
Alignment explanation
Indices: 27103370--27103412 Score: 59
Period size: 12 Copynumber: 3.4 Consensus size: 12
27103360 AAGAATTAAC
*
27103370 AAAAAGAAAAAG
1 AAAAAGAAAAAA
27103382 AAAAAGAAAAAA
1 AAAAAGAAAAAA
27103394 AAGAAAGAAAACAA
1 AA-AAAGAAAA-AA
27103408 AAAAA
1 AAAAA
27103413 TAGAAAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 13 0.46
13 11 0.39
14 4 0.14
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:27103392 original size:19 final size:20
Alignment explanation
Indices: 27103370--27103419 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
27103360 AAGAATTAAC
27103370 AAAAAGAAAAAGAAAA-AGAA
1 AAAAAGAAAAAGAAAACA-AA
*
27103390 AAAAA-AGAAAGAAAACAAA
1 AAAAAGAAAAAGAAAACAAA
27103409 AAAATAGAAAA
1 AAAA-AGAAAA
27103420 GATGGGGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 15 0.60
20 7 0.28
21 3 0.12
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAAGAAAACAAA
Found at i:27103410 original size:6 final size:6
Alignment explanation
Indices: 27103370--27103404 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
27103360 AAGAATTAAC
*
27103370 AAAAAG AAAAAG AAAAAG AAAAAA AAGAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG AAAA
27103405 CAAAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:27106340 original size:43 final size:44
Alignment explanation
Indices: 27106273--27106389 Score: 152
Period size: 43 Copynumber: 2.7 Consensus size: 44
27106263 TTGATAAGTG
* *
27106273 TTTTCGTGTAAGACCACGTCTGGGACGTTGTTATCGATTTGT-A
1 TTTTCGTGTAAGACCACGTTTGGGACGTTGGTATCGATTTGTGA
27106316 TTTTCGTGTAAGACC-CTGTTTGGGACAG-TGGTATCGATTTGTGA
1 TTTTCGTGTAAGACCAC-GTTTGGGAC-GTTGGTATCGATTTGTGA
* *
27106360 -TTACATGTAAGACCACGTTTGGGACGTTGG
1 TTTTCGTGTAAGACCACGTTTGGGACGTTGG
27106390 CGTTGTACGA
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
42 2 0.03
43 60 0.92
44 3 0.05
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (44 bp):
TTTTCGTGTAAGACCACGTTTGGGACGTTGGTATCGATTTGTGA
Found at i:27106661 original size:2 final size:2
Alignment explanation
Indices: 27106656--27106740 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
27106646 TATATATATA
27106656 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
27106698 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
27106740 T
1 T
27106741 TAAGGTATGT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:27108502 original size:16 final size:16
Alignment explanation
Indices: 27108481--27108513 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27108471 AATATATATA
27108481 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
27108497 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
27108513 T
1 T
27108514 AAAAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (16 bp):
TTAAGTTTTTTATGTT
Found at i:27111848 original size:112 final size:111
Alignment explanation
Indices: 27111646--27111862 Score: 283
Period size: 112 Copynumber: 1.9 Consensus size: 111
27111636 GTTGAATGTC
* * *
27111646 ATTTTCGTATCGATACCGAAAAATATATCGATAATATTTTGTAAGTATTGATACTTTTTGCAAAG
1 ATTTTCGTATCGATACCGAAAAAGATATCGATAATATTTTGTAAGTATCGATACTTTTTGCAAAC
* *
27111711 TATCGATAAAAACATGCTTGCTCAAATTCCTTCGAAGTCACAAGTT
66 TATCAATAAAAACATGCTTGATCAAATTCCTTCGAAGTCACAAGTT
* * * * *
27111757 ATTTTGGTATCGATACTGAAAAAGGTATCGATGAT-TTTTCTTGAAGTATCGATACTTTTTGCAA
1 ATTTTCGTATCGATACCGAAAAAGATATCGATAATATTTT-GT-AAGTATCGATACTTTTTGCAA
** * *
27111821 ACTATCAATAAAAATGTGTTTGATCAAATTCCTTTGAAGTCA
64 ACTATCAATAAAAACATGCTTGATCAAATTCCTTCGAAGTCA
27111863 GAATCACATT
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
110 4 0.04
111 31 0.34
112 55 0.61
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (111 bp):
ATTTTCGTATCGATACCGAAAAAGATATCGATAATATTTTGTAAGTATCGATACTTTTTGCAAAC
TATCAATAAAAACATGCTTGATCAAATTCCTTCGAAGTCACAAGTT
Found at i:27112018 original size:61 final size:61
Alignment explanation
Indices: 27111921--27112054 Score: 182
Period size: 61 Copynumber: 2.2 Consensus size: 61
27111911 TAGGGAGCAG
*
27111921 TTTTTCACTTGAGTCAAAAAAAAATTCATTGGATTTAAAACTATTTCACTCGATTTAAAATA
1 TTTTTCACTTGAGTCAAAAAAAAATTCACTGGATTTAAAACTATTTCACTCGATTTAAAA-A
* * * *
27111983 TTTTTCACTTGGGT-AAAAAAAAATTCACCT-GATTTAAAATTGTTTCATTCGATTTAAAAA
1 TTTTTCACTTGAGTCAAAAAAAAATTCA-CTGGATTTAAAACTATTTCACTCGATTTAAAAA
*
27112043 ATTTTCACTTGA
1 TTTTTCACTTGA
27112055 TTTAAAATCG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
60 11 0.17
61 39 0.61
62 14 0.22
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (61 bp):
TTTTTCACTTGAGTCAAAAAAAAATTCACTGGATTTAAAACTATTTCACTCGATTTAAAAA
Found at i:27112077 original size:40 final size:40
Alignment explanation
Indices: 27111952--27112080 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
27111942 AAATTCATTG
** * *
27111952 GATTTAAAACTATTTCACTCGATTTAAAATATTTTTCACTT
1 GATTTAAAAAAATTTCACTTGATTTAAAAT-TGTTTCACTT
** * * *
27111993 GGGTAAAAAAAAATTCACCTGATTTAAAATTGTTTCA-TT
1 GATTTAAAAAAATTTCACTTGATTTAAAATTGTTTCACTT
* *
27112032 CGATTTAAAAAATTTTCACTTGATTTAAAATCGTTTCACTT
1 -GATTTAAAAAAATTTCACTTGATTTAAAATTGTTTCACTT
27112073 GATTTAAA
1 GATTTAAA
27112081 TTGTTTTTCA
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.03
40 44 0.63
41 24 0.34
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (40 bp):
GATTTAAAAAAATTTCACTTGATTTAAAATTGTTTCACTT
Found at i:27112104 original size:101 final size:101
Alignment explanation
Indices: 27111964--27112163 Score: 276
Period size: 101 Copynumber: 2.0 Consensus size: 101
27111954 TTTAAAACTA
* * **
27111964 TTTCACTCGATTTAAAATATTTTTCACTTGGGTAAAAAAAAATTCAC-CTGATTTAAAATTGTTT
1 TTTCACTCGATTTAAAATATTTTTCACTTGAGTAAAAAAAAATTCACTC-AATTTAAAACGGTTT
* * *
27112028 CATTCGATTTAAAAAATTTTCACTTGATTTAAAATCG
65 CACTCGATTTAAAAAAATTTCACTTGATTCAAAATCG
* * * * *
27112065 TTTCACTTGATTTAAATTGTTTTTCACTTGAGTCAAAAAAAATTCACTCAATTTAAAACGGTTTT
1 TTTCACTCGATTTAAAATATTTTTCACTTGAGTAAAAAAAAATTCACTCAATTTAAAACGGTTTC
27112130 ACTCGATTTAAAAAAATTTCACTTGATTCAAAAT
66 ACTCGATTTAAAAAAATTTCACTTGATTCAAAAT
27112164 TGTTGAAGAA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 85 0.99
102 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (101 bp):
TTTCACTCGATTTAAAATATTTTTCACTTGAGTAAAAAAAAATTCACTCAATTTAAAACGGTTTC
ACTCGATTTAAAAAAATTTCACTTGATTCAAAATCG
Found at i:27112111 original size:41 final size:40
Alignment explanation
Indices: 27112066--27112167 Score: 96
Period size: 41 Copynumber: 2.5 Consensus size: 40
27112056 TTAAAATCGT
*
27112066 TTCACTTGATTTAAATTGTTTTTCACTTGAGTCAAAAAAAA
1 TTCACTTGATTTAAATTGTTTTT-ACTCGAGTCAAAAAAAA
** ** * * * *
27112107 TTCACTCAATTTAAAACGGTTTTACTCGATTTAAAAAAAT
1 TTCACTTGATTTAAATTGTTTTTACTCGAGTCAAAAAAAA
*
27112147 TTCACTTGATTCAAAATTGTT
1 TTCACTTGATT-TAAATTGTT
27112168 GAAGAATTTT
Statistics
Matches: 45, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
40 22 0.49
41 23 0.51
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (40 bp):
TTCACTTGATTTAAATTGTTTTTACTCGAGTCAAAAAAAA
Found at i:27112157 original size:20 final size:20
Alignment explanation
Indices: 27111923--27112162 Score: 106
Period size: 20 Copynumber: 11.8 Consensus size: 20
27111913 GGGAGCAGTT
**
27111923 TTTCACTTGAGTCAAAAAAAA
1 TTTCACTTGA-TTTAAAAAAA
* **
27111944 ATTCA-TTGGATTTAAAACTA
1 TTTCACTT-GATTTAAAAAAA
* **
27111964 TTTCACTCGATTTAAAATATT
1 TTTCACTTGATTTAAAA-AAA
** *
27111985 TTTCACTTGGGTAAAAAAAA
1 TTTCACTTGATTTAAAAAAA
* * ***
27112005 ATTCACCTGATTTAAAATTG
1 TTTCACTTGATTTAAAAAAA
*
27112025 TTTCA-TTCGATTTAAAAAAT
1 TTTCACTT-GATTTAAAAAAA
***
27112045 TTTCACTTGATTTAAAATCG
1 TTTCACTTGATTTAAAAAAA
****
27112065 TTTCACTTGATTTAAATTGTT
1 TTTCACTTGATTTAAA-AAAA
* *
27112086 TTTCACTTGAGTCAAAAAAA
1 TTTCACTTGATTTAAAAAAA
* ** ***
27112106 ATTCACTCAATTTAAAACGG
1 TTTCACTTGATTTAAAAAAA
* *
27112126 TTTTACTCGATTTAAAAAAA
1 TTTCACTTGATTTAAAAAAA
*
27112146 TTTCACTTGATTCAAAA
1 TTTCACTTGATTTAAAA
27112163 TTGTTGAAGA
Statistics
Matches: 155, Mismatches: 58, Indels: 13
0.69 0.26 0.06
Matches are distributed among these distances:
19 1 0.01
20 117 0.75
21 37 0.24
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (20 bp):
TTTCACTTGATTTAAAAAAA
Found at i:27112739 original size:68 final size:69
Alignment explanation
Indices: 27112620--27112779 Score: 200
Period size: 68 Copynumber: 2.3 Consensus size: 69
27112610 TATCATCCTG
* **
27112620 CAATTACATACAAAAAGTTATATTACTCCACCACCACACTCGTTTAAACATACA-AAAGTGACAA
1 CAATTGCATACAAAAAGTTATATTACTCCACCACCACACTCCATTAAACATACACAAAGTGACAA
27112684 -CCT
66 GCCT
* * * *
27112687 ACAATTGCATACAAAAGGTTATATTAGTTCACCACCACA-TCCATTAACACATACACAAGGTGAC
1 -CAATTGCATACAAAAAGTTATATTACTCCACCACCACACTCCATTAA-ACATACACAAAGTGAC
27112751 AAGCCT
64 AAGCCT
* *
27112757 CTATGGCATACAAAAAGTTATAT
1 CAATTGCATACAAAAAGTTATAT
27112780 GTTGGAAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
67 6 0.08
68 41 0.52
69 29 0.37
70 3 0.04
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (69 bp):
CAATTGCATACAAAAAGTTATATTACTCCACCACCACACTCCATTAAACATACACAAAGTGACAA
GCCT
Found at i:27118596 original size:29 final size:30
Alignment explanation
Indices: 27118564--27118633 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
27118554 AAATAAAAAT
*
27118564 TTCATGTATAAAATTACACA-AAATCAAAG
1 TTCATGTATAAAATTACACATAAACCAAAG
* *
27118593 TTCATGTATAAAATTGCACATTAAACCATAG
1 TTCATGTATAAAATTACACA-TAAACCAAAG
27118624 TTCATGTATA
1 TTCATGTATA
27118634 GTTTTGAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 19 0.53
31 17 0.47
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (30 bp):
TTCATGTATAAAATTACACATAAACCAAAG
Found at i:27118821 original size:31 final size:31
Alignment explanation
Indices: 27118786--27118860 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
27118776 GAAAGTTTTC
*
27118786 ATTTAAGTCACTGAGCTATTCAAAAAAAATT
1 ATTTAAGTCACTGAACTATTCAAAAAAAATT
*
27118817 ATTTAAGTCACTAAACTATTCAAAAAAAATT
1 ATTTAAGTCACTGAACTATTCAAAAAAAATT
27118848 ATTTAAGTCACTG
1 ATTTAAGTCACTG
27118861 TGCTGTTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.33
Consensus pattern (31 bp):
ATTTAAGTCACTGAACTATTCAAAAAAAATT
Found at i:27119625 original size:27 final size:27
Alignment explanation
Indices: 27119577--27119628 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
27119567 TCATGCTAAC
27119577 TTTTTTGAATTATTATAAAATTTTTAA
1 TTTTTTGAATTATTATAAAATTTTTAA
*
27119604 TTTTTTGAA-TATTTTAATAATTTTT
1 TTTTTTGAATTATTATAA-AATTTTT
27119629 TAAATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTTTTGAATTATTATAAAATTTTTAA
Found at i:27119644 original size:20 final size:19
Alignment explanation
Indices: 27119592--27119644 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
27119582 TGAATTATTA
27119592 TAAA-ATTT-TTAATTTTT
1 TAAATATTTATTAATTTTT
* *
27119609 TGAATATTTTAATAATTTTT
1 TAAATA-TTTATTAATTTTT
27119629 TAAATTATTTATTAAT
1 TAAA-TATTTATTAAT
27119645 GTACATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 3 0.11
18 1 0.04
19 3 0.11
20 19 0.68
21 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TAAATATTTATTAATTTTT
Found at i:27120724 original size:18 final size:19
Alignment explanation
Indices: 27120701--27120736 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
27120691 TATAAAAACT
27120701 AAAATTAAAAA-AAATATA
1 AAAATTAAAAACAAATATA
27120719 AAAATTAAAAACAAATAT
1 AAAATTAAAAACAAATAT
27120737 TAAATCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATTAAAAACAAATATA
Found at i:27122793 original size:30 final size:30
Alignment explanation
Indices: 27122751--27122818 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
27122741 TAAAAATATT
* * *
27122751 TTTTATAGTTTTTTTATACTTT-TAAATAA
1 TTTTATAATTTTTTAATACTTTGAAAATAA
*
27122780 TTTTAGTAA-TTTTTAATAGTTTGAAAATAA
1 TTTTA-TAATTTTTTAATACTTTGAAAATAA
27122810 TTTTATAAT
1 TTTTATAAT
27122819 AATTTTGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (30 bp):
TTTTATAATTTTTTAATACTTTGAAAATAA
Found at i:27137501 original size:18 final size:18
Alignment explanation
Indices: 27137478--27137519 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
27137468 TTGTGCCCGA
27137478 AACTCTTCCATTTCATTC
1 AACTCTTCCATTTCATTC
27137496 AACTCTTCCATTTCATTC
1 AACTCTTCCATTTCATTC
27137514 AACTCT
1 AACTCT
27137520 AGCAACCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (18 bp):
AACTCTTCCATTTCATTC
Found at i:27142462 original size:27 final size:27
Alignment explanation
Indices: 27142424--27142484 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
27142414 TTAACATCCT
*
27142424 GACCATTTAGATTATCATTGAGACTAG
1 GACCATTTAGATTATCATTGAGACCAG
*
27142451 GACCATTTAGATTATCGTTGAGACCAG
1 GACCATTTAGATTATCATTGAGACCAG
*
27142478 GATCATT
1 GACCATT
27142485 CCCGTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (27 bp):
GACCATTTAGATTATCATTGAGACCAG
Found at i:27145669 original size:14 final size:14
Alignment explanation
Indices: 27145652--27145683 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
27145642 TTAATAAAAG
27145652 TCAATTAGATCCTA
1 TCAATTAGATCCTA
27145666 TCAATTAGATCCTA
1 TCAATTAGATCCTA
27145680 TCAA
1 TCAA
27145684 CTTTCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (14 bp):
TCAATTAGATCCTA
Found at i:27150246 original size:51 final size:51
Alignment explanation
Indices: 27150170--27150273 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
27150160 TGAGTTCACC
* *
27150170 TGCATGGTGGCGAAGTGCATAGGCGAACCATGCAGGCGAACAATATGTTAA
1 TGCATGGCGGCGAAGTGCATAGGCGAACCATGCAGGCGAACAATATGATAA
* * * *
27150221 TGCATGGCGGCGAAGTGCGTAGGCGAACCGTGCAGGTGAACTATATGATAA
1 TGCATGGCGGCGAAGTGCATAGGCGAACCATGCAGGCGAACAATATGATAA
27150272 TG
1 TG
27150274 AGCTATATAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.29, C:0.17, G:0.34, T:0.20
Consensus pattern (51 bp):
TGCATGGCGGCGAAGTGCATAGGCGAACCATGCAGGCGAACAATATGATAA
Found at i:27150642 original size:20 final size:21
Alignment explanation
Indices: 27150605--27150643 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27150595 TTTTATCATC
*
27150605 AATAAATTCAAGTTTTTATTG
1 AATAAATACAAGTTTTTATTG
27150626 AATAAATACAA-TTTTTAT
1 AATAAATACAAGTTTTTAT
27150644 ATATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (21 bp):
AATAAATACAAGTTTTTATTG
Found at i:27152079 original size:26 final size:26
Alignment explanation
Indices: 27152010--27152080 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 26
27152000 GAATTTATGA
*
27152010 AGTAAAAATTAAGTATT-AA-ATTTT
1 AGTAAAAATTAAGTATTGAATATATT
* *
27152034 A-TAAACACTTTA-T-TTG-ATATATT
1 AGTAAA-AATTAAGTATTGAATATATT
27152057 AGTAAAAATTAAGTATTGAATATA
1 AGTAAAAATTAAGTATTGAATATA
27152081 ATTATTTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
22 3 0.09
23 14 0.40
24 10 0.29
25 3 0.09
26 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (26 bp):
AGTAAAAATTAAGTATTGAATATATT
Found at i:27152217 original size:26 final size:26
Alignment explanation
Indices: 27152188--27152266 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
27152178 TAAAAGTTAA
27152188 AATAAAATTTGAATATTTAAATTTTT
1 AATAAAATTTGAATATTTAAATTTTT
** *
27152214 AATAAAATGAGAA-A-ATAAA-----
1 AATAAAATTTGAATATTTAAATTTTT
27152233 AATAAAATTTGAATATTTAAATTTTT
1 AATAAAATTTGAATATTTAAATTTTT
27152259 AATAAAAT
1 AATAAAAT
27152267 GAGAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
19 11 0.28
20 1 0.03
21 4 0.10
24 4 0.10
25 1 0.03
26 19 0.47
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (26 bp):
AATAAAATTTGAATATTTAAATTTTT
Found at i:27152240 original size:45 final size:45
Alignment explanation
Indices: 27152186--27152276 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
27152176 GATAAAAGTT
27152186 AAAATAAAATTTGAATATTTAAATTTTTAATAAAATGAGAAAATA
1 AAAATAAAATTTGAATATTTAAATTTTTAATAAAATGAGAAAATA
27152231 AAAATAAAATTTGAATATTTAAATTTTTAATAAAATGAGAAAATA
1 AAAATAAAATTTGAATATTTAAATTTTTAATAAAATGAGAAAATA
27152276 A
1 A
27152277 TTTATTTCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (45 bp):
AAAATAAAATTTGAATATTTAAATTTTTAATAAAATGAGAAAATA
Found at i:27155070 original size:16 final size:16
Alignment explanation
Indices: 27155049--27155095 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
27155039 TAATCACTTT
27155049 AATATTAAATTAATAA
1 AATATTAAATTAATAA
*
27155065 AATATT-AA-TAAGAAA
1 AATATTAAATTAA-TAA
27155080 AATATTAAATTTAATA
1 AATATTAAA-TTAATA
27155096 TTAAATCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
14 3 0.12
15 10 0.40
16 8 0.32
17 1 0.04
18 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AATATTAAATTAATAA
Found at i:27157445 original size:16 final size:18
Alignment explanation
Indices: 27157424--27157461 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
27157414 GCAATGAAAA
27157424 ATTTTGCT-AAAATCA-T
1 ATTTTGCTAAAAATCATT
*
27157440 ATTTTGTTAAAAATCATT
1 ATTTTGCTAAAAATCATT
27157458 ATTT
1 ATTT
27157462 CATGTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTTTGCTAAAAATCATT
Found at i:27158013 original size:21 final size:24
Alignment explanation
Indices: 27157968--27158011 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
27157958 AAGGTGCACG
*
27157968 AGAATATCAATGTAGAGTTTTTTC
1 AGAATATCAATGCAGAGTTTTTTC
27157992 AGAA-ATCAATGCAG-GTTTTT
1 AGAATATCAATGCAGAGTTTTT
27158012 CAAAAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (24 bp):
AGAATATCAATGCAGAGTTTTTTC
Found at i:27158162 original size:24 final size:24
Alignment explanation
Indices: 27158127--27158194 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
27158117 TAAGCTGCAT
27158127 CGTTGTGGTCAAGCCACTCAATAA
1 CGTTGTGGTCAAGCCACTCAATAA
* *
27158151 GGTTGTGATCAAGCCACTCAATAA
1 CGTTGTGGTCAAGCCACTCAATAA
*
27158175 CGTTATGGTCAAGCCACTCA
1 CGTTGTGGTCAAGCCACTCA
27158195 TTATTGCAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
CGTTGTGGTCAAGCCACTCAATAA
Found at i:27180029 original size:21 final size:21
Alignment explanation
Indices: 27179947--27180072 Score: 85
Period size: 21 Copynumber: 6.0 Consensus size: 21
27179937 TTTGCTTCCC
*
27179947 GTTTAGCTCTTATGAGCTTTA
1 GTTTAGCTCTTATGAGCTTCA
* * * *
27179968 G-TTAACTCATATGGGTTTCA
1 GTTTAGCTCTTATGAGCTTCA
* * * * * *
27179988 GATTAACCCTTCTAAGTTTCA
1 GTTTAGCTCTTATGAGCTTCA
*
27180009 GTTTAGCTCTTTTGAGCTTCA
1 GTTTAGCTCTTATGAGCTTCA
* * *
27180030 GTTTAAC-CTTAATGGGTTTCA
1 GTTTAGCTCTT-ATGAGCTTCA
*
27180051 GTTTAGCTCTTCTGAGCTTCA
1 GTTTAGCTCTTATGAGCTTCA
27180072 G
1 G
27180073 ATTAACCCTT
Statistics
Matches: 78, Mismatches: 24, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
20 18 0.23
21 57 0.73
22 3 0.04
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (21 bp):
GTTTAGCTCTTATGAGCTTCA
Found at i:27180063 original size:63 final size:62
Alignment explanation
Indices: 27179947--27180072 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 62
27179937 TTTGCTTCCC
* *
27179947 GTTTAGCTCTTATGAGCTTTAGTTAACTCATATGGGTTTCAGATTAACCCTTCTAAGTTTCA
1 GTTTAGCTCTTATGAGCTTCAGTTAACTCATATGGGTTTCAGATTAACCCTTCTAAGCTTCA
* * * * * *
27180009 GTTTAGCTCTTTTGAGCTTCAGTTTAAC-CTTAATGGGTTTCAGTTTAGCTCTTCTGAGCTTCA
1 GTTTAGCTCTTATGAGCTTCAG-TTAACTCAT-ATGGGTTTCAGATTAACCCTTCTAAGCTTCA
27180072 G
1 G
27180073 ATTAACCCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 22 0.41
63 32 0.59
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (62 bp):
GTTTAGCTCTTATGAGCTTCAGTTAACTCATATGGGTTTCAGATTAACCCTTCTAAGCTTCA
Found at i:27180087 original size:42 final size:42
Alignment explanation
Indices: 27179984--27180153 Score: 168
Period size: 42 Copynumber: 4.1 Consensus size: 42
27179974 TCATATGGGT
* ** *
27179984 TTCAGATTAACCCTTCTAAGTTTCAGTTTAGCTCTTTTGAGC
1 TTCAGATTAACCCTTATGGGTTTCAGTTTAGCTCTTATGAGC
* *
27180026 TTCAGTTTAA-CCTTAATGGGTTTCAGTTTAGCTCTTCTGAGC
1 TTCAGATTAACCCTT-ATGGGTTTCAGTTTAGCTCTTATGAGC
* * *
27180068 TTCAGATTAACCCTTATGGGTTTCCGTTCAG-TCCTATGAGC
1 TTCAGATTAACCCTTATGGGTTTCAGTTTAGCTCTTATGAGC
* * * *
27180109 TTC-CATTCAACCCTTACGGGTTTTCA-TTTAGCACTTATGTGC
1 TTCAGATT-AACCCTTATGGG-TTTCAGTTTAGCTCTTATGAGC
27180151 TTC
1 TTC
27180154 TGTGCAGCCT
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
40 3 0.03
41 30 0.28
42 69 0.65
43 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.41
Consensus pattern (42 bp):
TTCAGATTAACCCTTATGGGTTTCAGTTTAGCTCTTATGAGC
Done.