Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 186 of 444
Found at i:52125745 original size:50 final size:50
Alignment explanation
Indices: 52125635--52125780 Score: 197
Period size: 50 Copynumber: 3.0 Consensus size: 50
52125625 CACATAATAA
* * * * * *
52125635 GATGCCAACGCCATATCCTAGATATGGTCTTACATGGGATCAC-CA-CTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATCTC
* *
52125683 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGGTCTCATATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATCTC
*
52125733 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
52125781 AATGCCATAC
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 37 0.44
49 1 0.01
50 47 0.55
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATCTC
Found at i:52129184 original size:30 final size:30
Alignment explanation
Indices: 52129148--52129207 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
52129138 TCCTTAACTC
52129148 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
52129178 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
52129208 TGGCTCGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:52137003 original size:10 final size:9
Alignment explanation
Indices: 52136980--52137009 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
52136970 TCACGGATCG
52136980 CAAAAACAT
1 CAAAAACAT
52136989 CAAAAACAT
1 CAAAAACAT
52136998 CAAAAACTAT
1 CAAAAAC-AT
52137008 CA
1 CA
52137010 CCAAAATGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.13
Consensus pattern (9 bp):
CAAAAACAT
Found at i:52161981 original size:23 final size:23
Alignment explanation
Indices: 52161941--52161990 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
52161931 ATTTTTGGTG
*
52161941 CATGATGCGATCAATGTTGAGTT
1 CATGATGCGATCAATGTTAAGTT
*
52161964 CATGATGCGAT-AGGTGTTAAGTT
1 CATGATGCGATCA-ATGTTAAGTT
52161987 CATG
1 CATG
52161991 GTTATGTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (23 bp):
CATGATGCGATCAATGTTAAGTT
Found at i:52162823 original size:225 final size:225
Alignment explanation
Indices: 52162432--52162881 Score: 774
Period size: 225 Copynumber: 2.0 Consensus size: 225
52162422 TAAAATAGTT
*
52162432 TTTGATAATAAGCGCCCACTGGCTACTCAAATTGAAGCTAAACAATGCTGCAAGGAGTATGATCA
1 TTTGATAATAAGCGCCCACCGGCTACTCAAATTGAAGCTAAACAATGCTGCAAGGAGTATGATCA
* *
52162497 GATAGCTCATTGCTATATGCTGGCAAGCATAACCAACACTTTATATAAGCAGCTAAAGAGCTGTA
66 GATAGCTCATTACTATATGCTGGCAAGCATAACCAACACTTTATATAAGCAGCTAAAGAGCTGCA
* * *
52162562 ATATTGCCAAAATGATTCTGGATAAACTAGAAGACATGTTCGGAGGTTAGGCTACGATGGCTCGA
131 ATATTGCCAAAATAATTCTGGATAAACTAGAAGACATGTTCAGAGGTCAGGCTACGATGGCTCGA
52162627 TAGTCTTCTATAACTAGCTTGATGAATGCC
196 TAGTCTTCTATAACTAGCTTGATGAATGCC
* * * * *
52162657 TTTGATAATAAGCGCCCACCGGTTACTCAAATTGAGGCTAGACAATGTTGCAAGGAGTCTGATCA
1 TTTGATAATAAGCGCCCACCGGCTACTCAAATTGAAGCTAAACAATGCTGCAAGGAGTATGATCA
* *
52162722 GATAGCTCATTACTATATGTTGGCAAGCATAACCAACACTTTATATAAGCAGCTGAAGAGCTGCA
66 GATAGCTCATTACTATATGCTGGCAAGCATAACCAACACTTTATATAAGCAGCTAAAGAGCTGCA
*
52162787 ATATTGCCAAAGTAATTCTGGATAAACTAGAAGACATGTTCAGAGGTCAGGCTACGATGGCTCGA
131 ATATTGCCAAAATAATTCTGGATAAACTAGAAGACATGTTCAGAGGTCAGGCTACGATGGCTCGA
52162852 TAGTCTTCTATAACTAGCTTGATGAATGCC
196 TAGTCTTCTATAACTAGCTTGATGAATGCC
52162882 CAGCAAAAAC
Statistics
Matches: 211, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
225 211 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (225 bp):
TTTGATAATAAGCGCCCACCGGCTACTCAAATTGAAGCTAAACAATGCTGCAAGGAGTATGATCA
GATAGCTCATTACTATATGCTGGCAAGCATAACCAACACTTTATATAAGCAGCTAAAGAGCTGCA
ATATTGCCAAAATAATTCTGGATAAACTAGAAGACATGTTCAGAGGTCAGGCTACGATGGCTCGA
TAGTCTTCTATAACTAGCTTGATGAATGCC
Found at i:52177645 original size:24 final size:23
Alignment explanation
Indices: 52177618--52177666 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
52177608 ATAGGTTTTT
52177618 ATCAGTTAAAGG-ACATAATTGGAA
1 ATCA-TTAAAGGCACA-AATTGGAA
* *
52177642 ATCATTCAAGGCCCAAATTGGAA
1 ATCATTAAAGGCACAAATTGGAA
52177665 AT
1 AT
52177667 TAGACCACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.24
Consensus pattern (23 bp):
ATCATTAAAGGCACAAATTGGAA
Found at i:52180222 original size:28 final size:28
Alignment explanation
Indices: 52180190--52180273 Score: 159
Period size: 28 Copynumber: 3.0 Consensus size: 28
52180180 GCCACATGGC
*
52180190 TTAGCCACACGACTATATGTCACACATG
1 TTAGCCATACGACTATATGTCACACATG
52180218 TTAGCCATACGACTATATGTCACACATG
1 TTAGCCATACGACTATATGTCACACATG
52180246 TTAGCCATACGACTATATGTCACACATG
1 TTAGCCATACGACTATATGTCACACATG
52180274 GGCCTATGGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
TTAGCCATACGACTATATGTCACACATG
Found at i:52187033 original size:48 final size:48
Alignment explanation
Indices: 52186965--52187148 Score: 323
Period size: 48 Copynumber: 3.8 Consensus size: 48
52186955 GATAAATAAG
*
52186965 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTGATGTGAAA
1 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
52187013 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
52187061 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
* *
52187109 TATATGTGTGATATGTATATATGTGATAAAGCCTAATGGC
1 TATATGTGTGATATG--TATATGTGGTAAAGCCGAATGGC
52187149 CCATGTGATG
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
48 110 0.84
50 21 0.16
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.34
Consensus pattern (48 bp):
TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
Found at i:52187164 original size:48 final size:47
Alignment explanation
Indices: 52186968--52187304 Score: 266
Period size: 47 Copynumber: 7.1 Consensus size: 47
52186958 AAATAAGTAT
* **
52186968 ATGTGTGATATG-TATATGTGGTAAAGCCGAATGGCTGATGTGAAAT-A
1 ATGTGTGATATGATATATGTGATAAAGCCGAATGGCCAATGTG--ATGA
* *
52187015 TATGTGTGATATG-TATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-A
1 -ATGTGTGATATGATATATGTGATAAAGCCGAATGGCCAATGTG--ATGA
* *
52187063 TATGTGTGATATG-TATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-A
1 -ATGTGTGATATGATATATGTGATAAAGCCGAATGGCCAATGTG--ATGA
* *
52187111 TATGTGTGATATGTATATATGTGATAAAGCCTAATGGCCCATGTGATGA
1 -ATGTGTGATATG-ATATATGTGATAAAGCCGAATGGCCAATGTGATGA
* * *
52187160 A--TGTGAAAGTGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGTGATA-TG-ATATATGTGATAAAGCCGAATGGCCAATGTGATGA
* * * *
52187207 A--TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGTGATA-TG-ATATATGTGATAAAGCCGAATGGCCAATGTGATGA
* * * *
52187254 A--TGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGG
1 ATGTGTGATA-TG-ATATATGTGATAAAGCCGAATGGCCAATGTGATGA
52187301 ATGT
1 ATGT
52187305 AAAAGTGTAT
Statistics
Matches: 264, Mismatches: 19, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
46 6 0.02
47 120 0.45
48 110 0.42
49 2 0.01
50 26 0.10
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
ATGTGTGATATGATATATGTGATAAAGCCGAATGGCCAATGTGATGA
Found at i:52187164 original size:96 final size:96
Alignment explanation
Indices: 52186968--52187258 Score: 332
Period size: 96 Copynumber: 3.1 Consensus size: 96
52186958 AAATAAGTAT
*
52186968 ATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTGATGTGAAATATATGTGTGATATG--TAT
1 ATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATAT
* * *
52187031 ATGTGGTAAAGCCGAATGGCTAATGTGAAAT-A
66 ATGTGATAAAGCCTAATGGCCAATGTG--ATGA
52187063 TATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATA
1 -ATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATA
*
52187128 TATGTGATAAAGCCTAATGGCCCATGTGATGA
65 TATGTGATAAAGCCTAATGGCCAATGTGATGA
* * * * *
52187160 A--TGTGAAAGTGCATATGTGTGATAAGGCCGAATGGCCAATGTG--ATGA-A--TGTGAAAGTG
1 ATGTGTGATA-TGTATATGTG-G-TAAAGCCGAATGGCTAATGTGAAAT-ATATGTGTGATA-TG
* *
52187218 TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61 TATATATGTGATAAAGCCTAATGGCCAATGTGATGA
52187254 ATGTG
1 ATGTG
52187259 AAAGTGTATA
Statistics
Matches: 173, Mismatches: 12, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
93 6 0.03
94 43 0.25
95 12 0.07
96 66 0.38
97 20 0.12
98 26 0.15
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (96 bp):
ATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATAT
ATGTGATAAAGCCTAATGGCCAATGTGATGA
Found at i:52187194 original size:47 final size:47
Alignment explanation
Indices: 52187122--52187326 Score: 311
Period size: 47 Copynumber: 4.4 Consensus size: 47
52187112 ATGTGTGATA
* * *
52187122 TGTATATATGTGATAAAGCCTAATGGCCCATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
52187169 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
52187216 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* * *
52187263 TGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTAAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
*
52187310 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
52187327 TCCCGAAGGG
Statistics
Matches: 143, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 143 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
Found at i:52191056 original size:40 final size:39
Alignment explanation
Indices: 52191001--52191204 Score: 248
Period size: 40 Copynumber: 5.1 Consensus size: 39
52190991 TGAATGATAC
* * * *
52191001 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
52191041 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
52191081 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
52191121 CCGGGCTAAAACCCGAAGGCATTTGTGCGAGT-TACTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* **
52191161 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
52191201 CCGG
1 CCGG
52191205 CTAAATTCCG
Statistics
Matches: 144, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 139 0.97
41 2 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:52191135 original size:80 final size:80
Alignment explanation
Indices: 52190997--52191209 Score: 304
Period size: 80 Copynumber: 2.7 Consensus size: 80
52190987 CAATTGAATG
* * * * *
52190997 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAAACCCGAAGGC
*
52191061 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTACT
* *
52191077 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAAACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAAACCCGAAGGCA
52191142 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* * *
52191157 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAA
52191210 TTCCGAAGAA
Statistics
Matches: 119, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 7 0.06
80 110 0.92
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAAACCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:52196890 original size:84 final size:84
Alignment explanation
Indices: 52196695--52196938 Score: 404
Period size: 84 Copynumber: 2.9 Consensus size: 84
52196685 GAAGCAGATC
*
52196695 CAAGATGGTTTGGCATCATTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC-
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
52196759 AAATGTTCTCAAACAGACT
66 AAATGTTCTCAAACAGACT
*
52196778 CAAGATGGTTTGGCATCCTTGTGCTTACAAAGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
* *
52196843 AAATGTTCTCAGATAGACT
66 AAATGTTCTCAAACAGACT
* *
52196862 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGAA-AAATCGAGGACATAGCAGATTTGACTCTC
1 CAAGATGGTTTGGCATCCTTGTGCTTACAA-GGAACAAATCGAGGACATTGCAGATATGACTCTC
52196926 AAAA-GTTCTCAAA
65 AAAATGTTCTCAAA
52196939 TGTAGCAGAT
Statistics
Matches: 151, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
83 70 0.46
84 78 0.52
85 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (84 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AAATGTTCTCAAACAGACT
Found at i:52198647 original size:23 final size:22
Alignment explanation
Indices: 52198621--52198705 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 22
52198611 TATTTTCTTT
52198621 ATATAATTTATTTATTATAAAAA
1 ATAT-ATTTATTTATTATAAAAA
* *
52198644 ATATACTTATATTATTA-ATAAA
1 ATATATTTAT-TTATTATAAAAA
* *
52198666 ATACCATTTATATATTTATAAAAA
1 ATA-TATTTATTTA-TTATAAAAA
*
52198690 A-CT-TTTATTTATTATA
1 ATATATTTATTTATTATA
52198706 CATTGTTTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
20 5 0.10
21 7 0.14
22 14 0.29
23 18 0.37
24 5 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATATTTATTTATTATAAAAA
Found at i:52200290 original size:3 final size:3
Alignment explanation
Indices: 52200277--52200362 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
52200267 GAGGGCATAT
52200277 ATA ATA A-A ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
52200321 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
52200363 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:52200300 original size:12 final size:12
Alignment explanation
Indices: 52200277--52200359 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
52200267 GAGGGCATAT
52200277 ATAATA-AAATA
1 ATAATATAAATA
52200288 ATAATATAAATA
1 ATAATATAAATA
52200300 ATAATATATACATGA
1 ATAATATA-A-AT-A
52200315 GA-AATA-ATAATA
1 -ATAATATA-AATA
52200327 ATAATATAAATA
1 ATAATATAAATA
* *
52200339 ATAGTAAAAATA
1 ATAATATAAATA
*
52200351 ATAAAATAA
1 ATAATATAA
52200360 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 7 0.12
12 38 0.63
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:52200321 original size:21 final size:18
Alignment explanation
Indices: 52200279--52200362 Score: 75
Period size: 18 Copynumber: 4.6 Consensus size: 18
52200269 GGGCATATAT
*
52200279 AATAA-AATAATAATATA
1 AATAATAATAATAATAGA
52200296 AATAATAATATATACATGAGA
1 AATAATAATA-ATA-AT-AGA
*
52200317 AATAATAATAATAATATA
1 AATAATAATAATAATAGA
* *
52200335 AATAATAGTAAAAATA-A
1 AATAATAATAATAATAGA
52200352 TAA-AATAATAA
1 -AATAATAATAA
52200363 AACAAAGCTC
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
17 13 0.23
18 22 0.39
19 5 0.09
20 5 0.09
21 12 0.21
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.29
Consensus pattern (18 bp):
AATAATAATAATAATAGA
Found at i:52200350 original size:27 final size:27
Alignment explanation
Indices: 52200277--52200363 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
52200267 GAGGGCATAT
* *
52200277 ATAATA-AAATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
52200303 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
52200327 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
52200354 A-AATAATAAA
1 ATAAT-ATAAA
52200364 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 10 0.21
26 8 0.17
27 15 0.31
28 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:52200928 original size:4 final size:4
Alignment explanation
Indices: 52200919--52200945 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
52200909 GGCCAAGGTT
52200919 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
52200946 TTTGTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:52209482 original size:22 final size:20
Alignment explanation
Indices: 52209454--52209515 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
52209444 GATTTATCCG
52209454 CAATTTACTGGTAGCTTGTCTA
1 CAATTTACTGG-AGCTTGTC-A
* * *
52209476 CAATTTAATGGCGACTTATCA
1 CAATTTACTGGAG-CTTGTCA
52209497 CAATTTACTGGCAGCTTGT
1 CAATTTACTGG-AGCTTGT
52209516 TTGCAACCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (20 bp):
CAATTTACTGGAGCTTGTCA
Found at i:52214314 original size:37 final size:37
Alignment explanation
Indices: 52214264--52214337 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
52214254 CTCTAGCACT
52214264 TAGCAATTAAGCCATCATTTTTTGTTTAACCATTTTA
1 TAGCAATTAAGCCATCATTTTTTGTTTAACCATTTTA
52214301 TAGCAATTAAGCCATCATTTTTTGTTTAACCATTTTA
1 TAGCAATTAAGCCATCATTTTTTGTTTAACCATTTTA
52214338 ATTAACCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (37 bp):
TAGCAATTAAGCCATCATTTTTTGTTTAACCATTTTA
Found at i:52217844 original size:14 final size:12
Alignment explanation
Indices: 52217803--52217845 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
52217793 AGATGATGAG
52217803 TGTTTTTTTTTC
1 TGTTTTTTTTTC
* *
52217815 TTTTTTTTTTTA
1 TGTTTTTTTTTC
52217827 TGTTTTTGTGTTTC
1 TGTTTTT-T-TTTC
52217841 TGTTT
1 TGTTT
52217846 ATTTAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 16 0.64
13 1 0.04
14 8 0.32
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.81
Consensus pattern (12 bp):
TGTTTTTTTTTC
Found at i:52219585 original size:26 final size:26
Alignment explanation
Indices: 52219531--52219585 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
52219521 TTTAATCCTT
*
52219531 TTAAATATTTTTATATAATTTATTTA
1 TTAAATATTTTTATATAATTTATTCA
*
52219557 TTAAATACTTTTTATATTATTTA-TCA
1 TTAAATA-TTTTTATATAATTTATTCA
52219583 TTA
1 TTA
52219586 CTATCAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
TTAAATATTTTTATATAATTTATTCA
Found at i:52219637 original size:20 final size:19
Alignment explanation
Indices: 52219614--52219686 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
52219604 TGTGTAAAAA
52219614 TTATTATATATTATATCTTT
1 TTATTAT-TATTATATCTTT
*
52219634 TTATTATTCATTATATTATTT
1 TTATTATT-ATTATA-TCTTT
* *
52219655 TTATT-TTACTATATCATT
1 TTATTATTATTATATCTTT
52219673 TTATTATTAATTAT
1 TTATTATT-ATTAT
52219687 TTATTATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.18
19 8 0.18
20 19 0.43
21 9 0.20
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATTATTATATCTTT
Found at i:52219673 original size:19 final size:21
Alignment explanation
Indices: 52219625--52219680 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 21
52219615 TATTATATAT
*
52219625 TATATC-TTTTTATTATTCAT
1 TATATCATTTTTATTATTCAC
*
52219645 TATATTATTTTTATT-TT-AC
1 TATATCATTTTTATTATTCAC
52219664 TATATCA-TTTTATTATT
1 TATATCATTTTTATTATT
52219681 AATTATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 7 0.23
19 9 0.29
20 7 0.23
21 8 0.26
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (21 bp):
TATATCATTTTTATTATTCAC
Found at i:52219689 original size:27 final size:26
Alignment explanation
Indices: 52219620--52219688 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
52219610 AAAATTATTA
*
52219620 TATATTA-TATCT-TTTTATTATTCAT
1 TATATTATTAT-TATTTTACTATTCAT
*
52219645 TATATTATTTTTATTTTACTATATCAT
1 TATATTATTATTATTTTACTAT-TCAT
*
52219672 TTTATTATTAATTATTT
1 TATATTATT-ATTATTT
52219689 ATTATGTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 8 0.22
26 10 0.28
27 12 0.33
28 6 0.17
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (26 bp):
TATATTATTATTATTTTACTATTCAT
Found at i:52219842 original size:29 final size:29
Alignment explanation
Indices: 52219807--52219866 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
52219797 TTCCTATTTA
52219807 ATATATTAATATT-TTATA-AATATATATAT
1 ATATATTAA-ATTATTATATAATATA-ATAT
*
52219836 ATATATTAAATTATTATATCATATAATAT
1 ATATATTAAATTATTATATAATATAATAT
52219865 AT
1 AT
52219867 TTTTATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 3 0.11
29 20 0.71
30 5 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
ATATATTAAATTATTATATAATATAATAT
Found at i:52219876 original size:17 final size:19
Alignment explanation
Indices: 52219822--52219876 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
52219812 TTAATATTTT
52219822 ATAAA-TATATATATATATA
1 ATAAATTAT-TATATATATA
*
52219841 TTAAATTATTATATCATATA
1 ATAAATTATTATAT-ATATA
* *
52219861 ATATATTTTTATATAT
1 ATAAATTATTATATAT
52219877 TAACCATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAAATTATTATATATATA
Found at i:52221589 original size:16 final size:14
Alignment explanation
Indices: 52221551--52221582 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
52221541 ATATGTAAAA
*
52221551 GAAAATATATGCAT
1 GAAAATATATACAT
52221565 GAAAATATATACAT
1 GAAAATATATACAT
52221579 GAAA
1 GAAA
52221583 TATTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (14 bp):
GAAAATATATACAT
Found at i:52222252 original size:3 final size:3
Alignment explanation
Indices: 52222142--52222233 Score: 184
Period size: 3 Copynumber: 30.7 Consensus size: 3
52222132 TACTAATACG
52222142 TAA TAA TAA TAA TAA TAA TAA TAA 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
52222190 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
52222234 GAGATGGCAA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:52223283 original size:136 final size:136
Alignment explanation
Indices: 52223039--52223323 Score: 534
Period size: 136 Copynumber: 2.1 Consensus size: 136
52223029 TATTGGGCCT
** *
52223039 AAGCCCATTCAGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
52223104 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
52223169 ATATGC
131 ATATGC
52223175 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
52223240 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
52223305 ATATGC
131 ATATGC
*
52223311 AAACCCATTTGGG
1 AAGCCCATTTGGG
52223324 GAGACTACTC
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 145 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:52223607 original size:25 final size:27
Alignment explanation
Indices: 52223570--52223623 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
52223560 TCAAACATGC
52223570 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
52223596 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
52223622 AT
1 AT
52223624 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:52223631 original size:26 final size:27
Alignment explanation
Indices: 52223587--52223662 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
52223577 TCAATTTAAC
* * *
52223587 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
52223613 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
52223641 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
52223663 AGTTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:52225117 original size:14 final size:14
Alignment explanation
Indices: 52225100--52225142 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
52225090 CATGAAATTC
52225100 TTATCATGAAACAT
1 TTATCATGAAACAT
52225114 TTATC-T-AAACCA-
1 TTATCATGAAA-CAT
52225126 TTATCATGAAACAT
1 TTATCATGAAACAT
52225140 TTA
1 TTA
52225143 CCTAACCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.32
13 6 0.24
14 11 0.44
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (14 bp):
TTATCATGAAACAT
Found at i:52225136 original size:26 final size:26
Alignment explanation
Indices: 52225100--52225209 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
52225090 CATGAAATTC
* *
52225100 TTATCATGAAACATTTATCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
52225126 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
52225152 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
52225178 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
52225204 TTATCA
1 TTATCA
52225210 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:52225140 original size:13 final size:13
Alignment explanation
Indices: 52225100--52225140 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
52225090 CATGAAATTC
52225100 TTATCATGAAACA
1 TTATCATGAAACA
52225113 TTTATC-T-AAACCA
1 -TTATCATGAAA-CA
52225126 TTATCATGAAACA
1 TTATCATGAAACA
52225139 TT
1 TT
52225141 TACCTAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (13 bp):
TTATCATGAAACA
Found at i:52227314 original size:14 final size:13
Alignment explanation
Indices: 52227283--52227314 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52227273 TTTTGAAAAA
*
52227283 TAAAAACTGACAT
1 TAAAAACTGAAAT
52227296 TAAAAACTGAAAT
1 TAAAAACTGAAAT
52227309 TAAAAA
1 TAAAAA
52227315 TAGCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.22
Consensus pattern (13 bp):
TAAAAACTGAAAT
Found at i:52227724 original size:177 final size:174
Alignment explanation
Indices: 52227391--52228037 Score: 753
Period size: 170 Copynumber: 3.7 Consensus size: 174
52227381 AGAAATTAAA
*
52227391 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAACATGAATTAAAACAGAAATTGGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAACAGAAATT-GA
* *
52227456 AA-TACCTCAGGATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTA
65 AATTACCTCAGCATGT--GCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTA
* * *
52227519 AAGGTAAAAATTGAAAAACAAAAAATTGAAATTACCTCAGCGAGTCCTG
127 AAAGTAAAAATTGAAAAAC-AGAAATTGAAATTACCTCAGCGTGTCCTG
*
52227568 AGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACA-GAAATTAAAGACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-G-AAAACATG-AATTAAA-ACAGAA
*
52227632 ATTGAAATTACCTCAGCATGT-CCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTT
60 ATTGAAATTACCTCAGCATGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
** * *
52227696 TAAAAACAGAAATT-AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTG
125 TAAAAGTAAAAATTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTG
*
52227745 AGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAA--AAAACAGAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAACAGAAATTGAA
* * *
52227808 ATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTTTGAAAAG
66 ATTACCTCAGCATGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAG
* * * * *
52227870 TATAAATTGGAAAAATAGAAATTGAAAATACCTTAGCGTGCCCTG
131 TAAAAATT-GAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTG
* * * * *
52227915 AGGCTCAACTCACTTCTCGCAACATGAGTTGA-TTTGGAAAA-GTAGAAATTAAAA-ATGGAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAT-G-AATTAAAACA--GAAAT
** ** * *
52227977 TGAAAACACCTTGGCATGTGACCCGAGGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
62 TGAAATTACCTCAGCATGTG-CCTGA-GGCTCAACTCACCTCTCGCAATATGAGTTGATTT
52228038 CTGAGAACAG
Statistics
Matches: 410, Mismatches: 38, Indels: 43
0.84 0.08 0.09
Matches are distributed among these distances:
168 16 0.04
169 9 0.02
170 123 0.30
171 4 0.01
172 4 0.01
173 26 0.06
174 2 0.00
175 9 0.02
176 29 0.07
177 87 0.21
178 6 0.01
179 24 0.06
180 33 0.08
181 17 0.04
182 21 0.05
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (174 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAACAGAAATTGAA
ATTACCTCAGCATGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAG
TAAAAATTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTG
Found at i:52227742 original size:88 final size:87
Alignment explanation
Indices: 52227391--52227949 Score: 626
Period size: 88 Copynumber: 6.4 Consensus size: 87
52227381 AGAAATTAAA
* *
52227391 AGGCTCAACTCACCTCTTGCAATATGAGTTGA---TTTTTGAAAACATG-AATTAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACA-GAAATTAAAACAGAAAT
*
52227452 TGGAAA-TACCTCAG-GATGTGAGCC-A
65 T-GAAATTACCTCAGCG-TGT---CCTG
*** * *
52227477 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAGGTAAAAATTGAAAAACAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTAAAAACAGAAATT--AAAAC-AGA
*
52227542 AATTGAAATTACCTCAGCGAGTCCTG
62 AATTGAAATTACCTCAGCGTGTCCTG
* *
52227568 AGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACAGAAATTAAAGACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-TAAAAACAGAAATTAAA-ACAGAAA
*
52227633 TTGAAATTACCTCAGCATGTCCTG
64 TTGAAATTACCTCAGCGTGTCCTG
*
52227657 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTAAAGACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTAAA-ACAGAAAT
52227722 TGAAATTACCTCAGCGTGTCCTG
65 TGAAATTACCTCAGCGTGTCCTG
* *
52227745 AGGCTCAACTTACCTCTCGCAATATGAGTTGA---TTTTTGAAAACATG-AA--AAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACA-GAAATTAAAACAGAAAT
52227804 TGAAATTACCTCAGCGTGTCCTG
65 TGAAATTACCTCAGCGTGTCCTG
* * ** * *
52227827 AGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTTTGAAAAGTATAAATTGGAAAAATAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATT---AAAACAGAA
* * *
52227890 ATTGAAAATACCTTAGCGTGCCCTG
63 ATTGAAATTACCTCAGCGTGTCCTG
* *
52227915 AGGCTCAACTCACTTCTCGCAACATGAGTTGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
52227950 GGAAAAGTAG
Statistics
Matches: 411, Mismatches: 39, Indels: 42
0.84 0.08 0.09
Matches are distributed among these distances:
82 61 0.15
83 13 0.03
85 13 0.03
86 32 0.08
88 136 0.33
89 66 0.16
90 24 0.06
91 40 0.10
92 9 0.02
93 16 0.04
94 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTAAAACAGAAATT
GAAATTACCTCAGCGTGTCCTG
Found at i:52228035 original size:258 final size:256
Alignment explanation
Indices: 52227391--52228050 Score: 668
Period size: 258 Copynumber: 2.5 Consensus size: 256
52227381 AGAAATTAAA
* * *
52227391 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTG-AAAACATG-AATT-AAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTGGAAAAACA-GAAATTAAAAACAGAAATT
* * * * * * *
52227453 GGAAATACCTCAGGATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
65 GAAAACACCTCA-G-CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTCTG
* *
52227518 AAAGGTAAAAATTGAAAAACAAAAAATTGAAATTACCTCAGCGAGTCCTGAGGCTCAACCCACCT
125 AAA---ACAGA---AAAAACAAAAAATTGAAATTACCTCAGCGAGTCCTGAGGCTCAACCCACCT
* *
52227583 CTCGCAATATGAGTTGATTTTTTTGGAAAAACAGAAATTAAAGACAGAAATTGAAATTACCTCAG
184 CTCGCAATATGAGTTGA-TTTTTTGGAAAAACAGAAATTAAAAACAGAAATTGAAAATACCTCAG
*
52227648 CATGTCCTG
248 CATGCCCTG
* * ** *
52227657 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTAAAGACAGAAAT
1 AGGCTCAACTCACCTCTCGCAACATGAGTTGA--TTTTGGAAAAACAGAAATTAAAAACAGAAAT
** * * * *
52227722 TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTGAAAA
64 TGAAAACACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAA
* * * *
52227787 CATGAAAAAAC-AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATA
129 CA-GAAAAAACAAAAAATTGAAATTACCTCAGCGAGTCCTGAGGCTCAACCCACCTCTCGCAATA
** * * * *
52227851 TGAGTTGA-TTTTT-GAAAAGTATAAATTGGAAAAATAGAAATTGAAAATACCTTAGCGTGCCCT
193 TGAGTTGATTTTTTGGAAAAACAGAAATT--AAAAACAGAAATTGAAAATACCTCAGCATGCCCT
52227914 G
256 G
* ** ** *
52227915 AGGCTCAACTCACTTCTCGCAACATGAGTTGA-TTTGGAAAAGTAGAAATTAAAAATGGAATTTG
1 AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTGGAAAAACAGAAATTAAAAACAGAAATTG
** * *
52227979 AAAACACCTTGGCATGTGACCCGAGGGCTCAACTCACTTCTCGCAATATGAGTTGATTTCTGAGA
66 AAAACACCTCAGC--GTGACCCGA-GGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAA
52228044 ACAGAAA
128 ACAGAAA
52228051 TAAAACATCA
Statistics
Matches: 336, Mismatches: 47, Indels: 31
0.81 0.11 0.07
Matches are distributed among these distances:
255 33 0.10
256 11 0.03
257 16 0.05
258 97 0.29
259 57 0.17
260 6 0.02
262 2 0.01
263 1 0.00
265 8 0.02
266 32 0.10
268 41 0.12
269 11 0.03
270 21 0.06
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (256 bp):
AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTGGAAAAACAGAAATTAAAAACAGAAATTG
AAAACACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAACA
GAAAAAACAAAAAATTGAAATTACCTCAGCGAGTCCTGAGGCTCAACCCACCTCTCGCAATATGA
GTTGATTTTTTGGAAAAACAGAAATTAAAAACAGAAATTGAAAATACCTCAGCATGCCCTG
Found at i:52228051 original size:88 final size:85
Alignment explanation
Indices: 52227391--52228037 Score: 441
Period size: 88 Copynumber: 7.4 Consensus size: 85
52227381 AGAAATTAAA
* * * *
52227391 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAA-CATG-AATT-AAAACAGAAATT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAAAGTA-GAAATTAAAAATAGAAATT
* * * * * *
52227453 GGAAATACCTCAGGATGTGAGCC-A
64 GAAAACACCTTA-G-CGTG-CCCTG
* * * * * *
52227477 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAGGTAAAAATTGAAAAACAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA----TTTTGAAAAGTAGAAATT-AAAAA-TAGA
** * * *
52227542 AATTGAAATTACCTCAGCGAGTCCTG
60 AATTGAAAACACCTTAGCGTGCCCTG
* * ** * *
52227568 AGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACAGAAATTAAAGACAGAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTT-GAAAAGTAGAAATTAAAAATAGAAA
** * * *
52227633 TTGAAATTACCTCAGCATGTCCTG
62 TTGAAAACACCTTAGCGTGCCCTG
* * * ** * *
52227657 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTAAAGACAGAAAT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTGAAAAGTAGAAATTAAAAATAGAAAT
** * *
52227722 TGAAATTACCTCAGCGTGTCCTG
63 TGAAAACACCTTAGCGTGCCCTG
* * * *
52227745 AGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTGAAAA-CATG--A--AAAAACAGAAATT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAAAGTA-GAAATTAAAAATAGAAATT
** * *
52227805 GAAATTACCTCAGCGTGTCCTG
64 GAAAACACCTTAGCGTGCCCTG
* * *
52227827 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAGTATAAATTGGAAAAATAGAAAT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAAAGTAGAAATT--AAAAATAGAAAT
*
52227892 TGAAAATACCTTAGCGTGCCCTG
63 TGAAAACACCTTAGCGTGCCCTG
* * * *
52227915 AGGCTCAACTCACTTCTCGCAACATGAGTTGATTTGGAAAAGTAGAAATTAAAAATGGAATTTGA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAGTAGAAATTAAAAATAGAAATTGA
*
52227980 AAACACCTTGGCATGTGACCC-G
66 AAACACCTTAGC--GTG-CCCTG
52228002 AGGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
1 A-GGCTCAACTCACTTCTCGCAATATGAGTTGATTT
52228038 CTGAGAACAG
Statistics
Matches: 489, Mismatches: 50, Indels: 42
0.84 0.09 0.07
Matches are distributed among these distances:
82 74 0.15
83 1 0.00
84 2 0.00
85 25 0.05
86 41 0.08
87 21 0.04
88 173 0.35
89 71 0.15
90 18 0.04
91 42 0.09
92 5 0.01
93 16 0.03
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (85 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAGTAGAAATTAAAAATAGAAATTGA
AAACACCTTAGCGTGCCCTG
Found at i:52228917 original size:16 final size:16
Alignment explanation
Indices: 52228896--52228927 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52228886 CCTTGATCCC
*
52228896 CTTTTTTTTCTTTTTT
1 CTTTTTTCTCTTTTTT
52228912 CTTTTTTCTCTTTTTT
1 CTTTTTTCTCTTTTTT
52228928 TTAAGATGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
CTTTTTTCTCTTTTTT
Found at i:52240774 original size:16 final size:14
Alignment explanation
Indices: 52240736--52240767 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
52240726 ATATGTAAAA
*
52240736 GAAAATATATGCAT
1 GAAAATATATACAT
52240750 GAAAATATATACAT
1 GAAAATATATACAT
52240764 GAAA
1 GAAA
52240768 TATTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (14 bp):
GAAAATATATACAT
Found at i:52240876 original size:49 final size:45
Alignment explanation
Indices: 52240751--52240878 Score: 132
Period size: 49 Copynumber: 2.7 Consensus size: 45
52240741 TATATGCATG
*
52240751 AAAATATATACATGAAATATTATAAAAATATATAACTACGATACT
1 AAAATATATACATGAAATATTATAAAAATATATAACTACAATACT
* * * *
52240796 AAAGTATATACACGAAATAATGTATAAAAAATATATTACTAATAATA-T
1 AAAATATATACATGAAAT-AT-TAT-AAAAATATATAACT-ACAATACT
52240844 CAAAATATATACATGATAATATATATATAAAATAT
1 -AAAATATATACATGA-AATAT-TATA-AAAATAT
52240879 TAGAAAATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
45 16 0.24
46 2 0.03
47 3 0.04
48 15 0.22
49 29 0.43
50 3 0.04
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (45 bp):
AAAATATATACATGAAATATTATAAAAATATATAACTACAATACT
Found at i:52241419 original size:3 final size:3
Alignment explanation
Indices: 52241315--52241400 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
52241305 TACTAATACG
52241315 TAA TAA TAA TAA TAA TAA TAA TAA 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
52241363 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
52241401 GAGATGGCAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:52243073 original size:26 final size:26
Alignment explanation
Indices: 52243044--52243148 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
52243034 TGATACAAAT
52243044 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
52243070 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52243096 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52243122 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52243148 T
1 T
52243149 AATGGGCATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52245833 original size:12 final size:12
Alignment explanation
Indices: 52245816--52245857 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
52245806 AAGGTAAAAC
52245816 TTTTATATTTTT
1 TTTTATATTTTT
52245828 TTTTAT-TTTTT
1 TTTTATATTTTT
*
52245839 TATTTATATTTCT
1 T-TTTATATTTTT
52245852 TTTTAT
1 TTTTAT
52245858 CTATGTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 6 0.22
12 16 0.59
13 5 0.19
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTATATTTTT
Found at i:52245870 original size:24 final size:24
Alignment explanation
Indices: 52245819--52245871 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
52245809 GTAAAACTTT
* * * * *
52245819 TATATTTTTTTTTATTTTTTTATT
1 TATATTTCTTTTTATCTATGTATA
52245843 TATATTTCTTTTTATCTATGTATA
1 TATATTTCTTTTTATCTATGTATA
52245867 TATAT
1 TATAT
52245872 ATGTATTCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (24 bp):
TATATTTCTTTTTATCTATGTATA
Found at i:52247278 original size:53 final size:53
Alignment explanation
Indices: 52247184--52247296 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 53
52247174 GTTTCGATAG
* * ** * *
52247184 TTTAATTATGTTTTATTTGTAAGAAAGAATATTGTTGGTCTTGAGCAAAATCA
1 TTTAATTATGTATTATTTGTAAGAAACAATATTGTCAGTCTTCAACAAAATCA
* *
52247237 TTTAATTATGTATTATTTGTAAGACACAATTTTGTCAGTCTTCAACAAAATCA
1 TTTAATTATGTATTATTTGTAAGAAACAATATTGTCAGTCTTCAACAAAATCA
52247290 TTTAATT
1 TTTAATT
52247297 TTTTAGTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (53 bp):
TTTAATTATGTATTATTTGTAAGAAACAATATTGTCAGTCTTCAACAAAATCA
Found at i:52247675 original size:16 final size:16
Alignment explanation
Indices: 52247654--52247689 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
52247644 AAGACATTTT
*
52247654 TAAAAGAAATAAAAAA
1 TAAAAGAAACAAAAAA
*
52247670 TAAAAGAACCAAAAAA
1 TAAAAGAAACAAAAAA
52247686 TAAA
1 TAAA
52247690 TATAAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (16 bp):
TAAAAGAAACAAAAAA
Found at i:52256184 original size:17 final size:18
Alignment explanation
Indices: 52256151--52256184 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52256141 ATGGAGAAAG
52256151 AAAGAAAAAATGAAGATC
1 AAAGAAAAAATGAAGATC
*
52256169 AAAGAAGAAA-GAAGAT
1 AAAGAAAAAATGAAGAT
52256185 GGGGGGACGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.68, C:0.03, G:0.21, T:0.09
Consensus pattern (18 bp):
AAAGAAAAAATGAAGATC
Found at i:52258475 original size:28 final size:27
Alignment explanation
Indices: 52258412--52258481 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
52258402 ATAGTGAGTC
52258412 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
52258439 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
52258467 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52258482 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:52262847 original size:39 final size:39
Alignment explanation
Indices: 52262793--52262945 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
52262783 GAATGTTCGA
*
52262793 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
52262832 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
52262871 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
52262910 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
52262946 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:52262961 original size:40 final size:39
Alignment explanation
Indices: 52262794--52262975 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
52262784 AATGTTCGAG
* *
52262794 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52262833 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52262872 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
52262911 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
52262951 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
52262976 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:52270940 original size:39 final size:39
Alignment explanation
Indices: 52270886--52270996 Score: 168
Period size: 39 Copynumber: 2.8 Consensus size: 39
52270876 TGTTCGAGTG
52270886 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTA
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTA
* * *
52270925 ATATCCGAGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTA
* *
52270964 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
52270997 GGTTACCATA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 48 0.74
40 17 0.26
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTA
Found at i:52271012 original size:40 final size:40
Alignment explanation
Indices: 52270890--52271026 Score: 134
Period size: 39 Copynumber: 3.5 Consensus size: 40
52270880 CGAGTGATAT
* *** *
52270890 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTAATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* *** *
52270929 CCGAGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
52270968 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
52271008 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
52271027 TGTTTTGAAC
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 44 0.52
40 40 0.48
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:52273411 original size:11 final size:11
Alignment explanation
Indices: 52273395--52273419 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52273385 TATCATCGAG
52273395 AAACCTTTCAC
1 AAACCTTTCAC
52273406 AAACCTTTCAC
1 AAACCTTTCAC
52273417 AAA
1 AAA
52273420 ATCTACCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (11 bp):
AAACCTTTCAC
Found at i:52276662 original size:2 final size:2
Alignment explanation
Indices: 52276614--52276648 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
52276604 TAATACTTAA
*
52276614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52276649 GTTGTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:52276833 original size:10 final size:10
Alignment explanation
Indices: 52276818--52276846 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
52276808 ACGTGTACAT
52276818 TTATATATTA
1 TTATATATTA
52276828 TTATATATTA
1 TTATATATTA
52276838 TTAT-TATTA
1 TTATATATTA
52276847 GTTTTTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATATATTA
Found at i:52277021 original size:19 final size:18
Alignment explanation
Indices: 52276997--52277037 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
52276987 TGTAAATATC
*
52276997 ATATTATGTTTTATCATGT
1 ATATTATG-TATATCATGT
*
52277016 ATATTATGTATGTCATGT
1 ATATTATGTATATCATGT
52277034 ATAT
1 ATAT
52277038 GTTTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (18 bp):
ATATTATGTATATCATGT
Found at i:52277091 original size:11 final size:11
Alignment explanation
Indices: 52277070--52277094 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52277060 TTTTGTTTTG
52277070 TATATTATGTA
1 TATATTATGTA
52277081 TATATTATGTA
1 TATATTATGTA
52277092 TAT
1 TAT
52277095 GCTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATTATGTA
Found at i:52277134 original size:24 final size:25
Alignment explanation
Indices: 52277079--52277134 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
52277069 GTATATTATG
* *
52277079 TATATATTATGTATATGCTTTTAAA
1 TATATATTATATATATGATTTTAAA
* *
52277104 TAT-TATTATATATCT-ATTTTCAA
1 TATATATTATATATATGATTTTAAA
52277127 TATATATT
1 TATATATT
52277135 CATGTAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATATTATATATATGATTTTAAA
Found at i:52288431 original size:19 final size:19
Alignment explanation
Indices: 52288406--52288448 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
52288396 TATTTTGCCT
52288406 AAAAAAAAAGGAAAAAAAAG
1 AAAAAAAAA-GAAAAAAAAG
*
52288426 AAAAAAAAAGAAAGAAAAG
1 AAAAAAAAAGAAAAAAAAG
52288445 AAAA
1 AAAA
52288449 GAGGAGAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAAAG
Found at i:52288434 original size:14 final size:15
Alignment explanation
Indices: 52288406--52288448 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
52288396 TATTTTGCCT
*
52288406 AAAAA-AAAAGGAAA
1 AAAAAGAAAAGAAAA
52288420 AAAAAGAAAA-AAAA
1 AAAAAGAAAAGAAAA
*
52288434 AGAAAGAAAAGAAAA
1 AAAAAGAAAAGAAAA
52288449 GAGGAGAGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAGAAAA
Found at i:52288450 original size:10 final size:10
Alignment explanation
Indices: 52288406--52288448 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
52288396 TATTTTGCCT
52288406 AAAAAAAAAG
1 AAAAAAAAAG
*
52288416 GAAAAAAAAG
1 AAAAAAAAAG
52288426 AAAAAAAAAG
1 AAAAAAAAAG
*
52288436 -AAAGAAAAG
1 AAAAAAAAAG
52288445 AAAA
1 AAAA
52288449 GAGGAGAGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 8 0.28
10 21 0.72
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:52289769 original size:44 final size:42
Alignment explanation
Indices: 52289706--52290073 Score: 168
Period size: 43 Copynumber: 8.5 Consensus size: 42
52289696 TTTACAGATA
** *
52289706 TTAACCCCCTAAATAGTAGGGAAACAGATCGAAGGTGATGAGCT
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-GTGA-CAGCT
* * * * *
52289750 TTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAGACC
1 TTAACCCCCTAAGCAGTAGGGAAACAGA-TCGAAGTGACAG-CT
* * * * * * *
52289793 TTAAACCCCTAAGCAGTAGGGTAATAG-GCTGAATTTACAGAT
1 TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGTGACAGCT
* * *
52289835 CTTAACCCCCTAAACAGTAGGGAAACAGATCAAAGGTGATGAGCT
1 -TTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-GTGA-CAGCT
* * * * * *
52289880 TTAACCCCCTAAGCAATAGGGTAACCAG-CCGAACTTACAGACC
1 TTAACCCCCTAAGCAGTAGGG-AAACAGATCGAAGTGACAG-CT
* * * ** *
52289923 TTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTCTAGAT
1 TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAG-TGAC-AGCT
* * * *
52289967 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAAGGT
1 -TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAG-TGACAGCT
* * * * * * *
52290011 CATAAACCCCTAAGCAGTAGGGTAACAGACCGAATTTACAGAT
1 -TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGTGACAGCT
* *
52290054 CTTATCTCCCTAAGCAGTAG
1 -TTAACCCCCTAAGCAGTAG
52290074 TGGAGCAGAT
Statistics
Matches: 245, Mismatches: 64, Indels: 31
0.72 0.19 0.09
Matches are distributed among these distances:
42 10 0.04
43 108 0.44
44 87 0.36
45 39 0.16
46 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (42 bp):
TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGTGACAGCT
Found at i:52289810 original size:43 final size:42
Alignment explanation
Indices: 52289750--52290073 Score: 256
Period size: 43 Copynumber: 7.5 Consensus size: 42
52289740 GTGATGAGCT
*
52289750 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAGACC
1 TTAACCCCCTAAGCAGTAGGGTAAC-AGCCGAATTTACAGATC
* * *
52289793 TTAAACCCCTAAGCAGTAGGGTAATAGGCTGAATTTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACA-GCCGAATTTACAGATC
* * * * * * * *
52289836 TTAACCCCCTAAACAGTAGGGAAACAGATCAAAGGTGA-TGAGC
1 TTAACCCCCTAAGCAGTAGGGTAACAG-CCGAA-TTTACAGATC
* * *
52289879 TTTAACCCCCTAAGCAATAGGGTAACCAGCCGAACTTACAGACC
1 -TTAACCCCCTAAGCAGTAGGGTAA-CAGCCGAATTTACAGATC
* *
52289923 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTT-CTAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACA-GCCG-A-ATTTAC-AGATC
* * * *** * *
52289968 TTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAAGGTC
1 TTAACCCCCTAAGCAGTAGGGTAACAG-CCGAA-TTTACAGATC
* *
52290012 ATAAACCCCTAAGCAGTAGGGTAACAGACCGAATTTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAG-CCGAATTTACAGATC
* *
52290055 TTATCTCCCTAAGCAGTAG
1 TTAACCCCCTAAGCAGTAG
52290074 TGGAGCAGAT
Statistics
Matches: 215, Mismatches: 53, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
42 4 0.02
43 112 0.52
44 65 0.30
45 34 0.16
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (42 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGCCGAATTTACAGATC
Found at i:52289925 original size:130 final size:130
Alignment explanation
Indices: 52289692--52290073 Score: 538
Period size: 130 Copynumber: 2.9 Consensus size: 130
52289682 CCTAGATTGG
* * *
52289692 TGAATTTACAGATATTAACCCCCTAAATAGTAGGGAAACAGATCGAAGGTGATGAGCTTTAACCC
1 TGAATTTACAGATCTTAACCCCCTAAACAGTAGGGAAACAGATCAAAGGTGATGAGCTTTAACCC
* *
52289757 CCTAAGCAGTAGGGTAACAAGCCGAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAATAGGC
66 CCTAAGCAGTAGGGTAACCAGCCGAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
52289822 TGAATTTACAGATCTTAACCCCCTAAACAGTAGGGAAACAGATCAAAGGTGATGAGCTTTAACCC
1 TGAATTTACAGATCTTAACCCCCTAAACAGTAGGGAAACAGATCAAAGGTGATGAGCTTTAACCC
* *
52289887 CCTAAGCAATAGGGTAACCAGCCGAACTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
66 CCTAAGCAGTAGGGTAACCAGCCGAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* ** * * *
52289952 TGAAGATTT-CTAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGA-AAGGTCATA
1 TG-A-ATTTAC-AGATCTTAACCCCCTAAACAGTAGGGAAACAGATCAAAGGTGATGAGCT-TTA
* * *
52290015 AACCCCTAAGCAGTAGGGTAA-CAGACCGAATTTACAGATCTT-ATCTCCCTAAGCAGTAG
62 ACCCCCTAAGCAGTAGGGTAACCAG-CCGAATTTACAGACCTTAAAC-CCCTAAGCAGTAG
52290074 TGGAGCAGAT
Statistics
Matches: 228, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
130 125 0.55
131 10 0.04
132 93 0.41
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (130 bp):
TGAATTTACAGATCTTAACCCCCTAAACAGTAGGGAAACAGATCAAAGGTGATGAGCTTTAACCC
CCTAAGCAGTAGGGTAACCAGCCGAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:52290100 original size:13 final size:13
Alignment explanation
Indices: 52290082--52290106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52290072 AGTGGAGCAG
52290082 ATGAGCCTTGACA
1 ATGAGCCTTGACA
52290095 ATGAGCCTTGAC
1 ATGAGCCTTGAC
52290107 CCCTAAGTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGAGCCTTGACA
Found at i:52292154 original size:11 final size:11
Alignment explanation
Indices: 52292133--52292157 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52292123 TTTTGTTTCG
52292133 TATATTATGTA
1 TATATTATGTA
52292144 TATATTATGTA
1 TATATTATGTA
52292155 TAT
1 TAT
52292158 GCTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATTATGTA
Found at i:52292197 original size:24 final size:25
Alignment explanation
Indices: 52292142--52292197 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
52292132 GTATATTATG
* *
52292142 TATATATTATGTATATGCTTTTAAA
1 TATATATTATATATATGATTTTAAA
* *
52292167 TAT-TATTATATATCT-ATTTTCAA
1 TATATATTATATATATGATTTTAAA
52292190 TATATATT
1 TATATATT
52292198 CATGTAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATATTATATATATGATTTTAAA
Found at i:52295191 original size:27 final size:26
Alignment explanation
Indices: 52295156--52295250 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 26
52295146 AACATGGCTG
* *
52295156 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
52295182 CCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
52295210 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
52295237 CCAGATCAGATAAT
1 CCAGAACAGATAAT
52295251 TCTGACATAG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.11
27 38 0.62
28 16 0.26
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:52295262 original size:27 final size:26
Alignment explanation
Indices: 52295156--52295266 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 26
52295146 AACATGGCTG
* *
52295156 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATCTGACAGAGCCA
* *
52295182 CCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGA-ACAGATAATC-TGACAGAGCCA
* *
52295210 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATCTGACAGAGCCA
* *
52295237 CCAGATCAGATAATTCTGACATAGCCA
1 CCAGAACAGATAA-TCTGACAGAGCCA
52295264 CCA
1 CCA
52295267 AGACGCTTCC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.70
28 15 0.21
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATCTGACAGAGCCA
Found at i:52295263 original size:54 final size:54
Alignment explanation
Indices: 52295156--52295266 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
52295146 AACATGGCTG
* *
52295156 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGACAAAGCCA
* *
52295210 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTC-TGACATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGACAAAGCCA
52295264 CCA
1 CCA
52295267 AGACGCTTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 31 0.61
55 20 0.39
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGACAAAGCCA
Found at i:52303232 original size:40 final size:40
Alignment explanation
Indices: 52303133--52303362 Score: 295
Period size: 40 Copynumber: 5.8 Consensus size: 40
52303123 TGGATGATAA
* * * * * **
52303133 CCGGGCTAAGTCCTGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
52303173 CCGGGC-AAGTCCCGAAGGCATTTGTGCTAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
52303212 CCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
52303252 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
52303292 CCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
52303331 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
52303363 AGCTATATCC
Statistics
Matches: 169, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 64 0.38
40 105 0.62
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:52303374 original size:79 final size:80
Alignment explanation
Indices: 52303172--52303355 Score: 284
Period size: 79 Copynumber: 2.3 Consensus size: 80
52303162 AGTGACTAGT
* * *
52303172 TCCGGGC-AAGTCCCGAAGGCATTTGTGCTAGTTACTAAATCCAGGCTAAGTCCCAAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGTCCCAAAGGCAATT
52303236 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
*
52303251 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGT-CCGAAGGCAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGTCCCAAAGGCAATT
*
52303315 GTGCGAGTTACTCTAA
66 GTGCGAGTTACT-AAA
*
52303331 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52303356 AGCGAGTAGC
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
79 53 0.55
80 44 0.45
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGTCCCAAAGGCAATT
GTGCGAGTTACTAAA
Found at i:52303374 original size:119 final size:119
Alignment explanation
Indices: 52303133--52303362 Score: 302
Period size: 119 Copynumber: 1.9 Consensus size: 119
52303123 TGGATGATAA
* * ** *
52303133 CCGGGCTAAGTCCTGAAGGCATCTGCGCTAGTGACTAGTTCCGGGCAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCAAGTGACTAAATCCGGGCAAGTCCCGAAGGCAATTGT
* *
52303198 GCTAGTTACTAAATCCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAAT
66 GCGAGTTACTAAATCCAGGCTAAGTCCCAAAGGCATTTGAGCGAGTTACTAAAT
* * *
52303252 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGT-CCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCAAGTGACTAAATCCGGGC-AAGTCCCGAAGGCAATTG
* * * *
52303316 TGCGAGTTACTCTAA-CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
65 TGCGAGTTACT-AAATCCAGGCTAAGTCCCAAAGGCATTTGAGCGAGT
52303363 AGCTATATCC
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
119 89 0.94
120 6 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATCTGCGCAAGTGACTAAATCCGGGCAAGTCCCGAAGGCAATTGT
GCGAGTTACTAAATCCAGGCTAAGTCCCAAAGGCATTTGAGCGAGTTACTAAAT
Found at i:52311409 original size:79 final size:80
Alignment explanation
Indices: 52311208--52311397 Score: 233
Period size: 79 Copynumber: 2.4 Consensus size: 80
52311198 TGGATGATAA
* * * * * ** * * *
52311208 CCGGGCTAAGTCCTGAAGGCATCTGCGCTAGTGACTAGTTCTGGGC-AACTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATTG
52311272 TGCGAGTTACTAAAT
66 TGCGAGTTACTAAAT
*
52311287 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATTG
*
52311352 TGCGAGTTACTCTAA-
66 TGCGAGTTACT-AAAT
*
52311367 CC-GGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
52311398 AGCTATATCC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
79 65 0.68
80 29 0.30
81 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATTG
TGCGAGTTACTAAAT
Found at i:52311423 original size:39 final size:40
Alignment explanation
Indices: 52311208--52311397 Score: 233
Period size: 40 Copynumber: 4.8 Consensus size: 40
52311198 TGGATGATAA
* * * * * **
52311208 CCGGGCTAAGTCCTGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
52311248 CTGGGC-AACTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
52311287 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
52311327 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
52311367 CC-GGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
52311398 AGCTATATCC
Statistics
Matches: 132, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
39 56 0.42
40 74 0.56
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:52315596 original size:27 final size:26
Alignment explanation
Indices: 52315554--52315639 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
52315544 AGGAAGTGTC
* *
52315554 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTTCCAC-ATTATCTGAT
52315581 CTGGTGGCTCTTCCACGATTATCTGTAT
1 CTGGTGGCTCTTCCAC-ATTATCTG-AT
* *
52315609 CTGGTGACTCTGT-CACATTATCTGTT
1 CTGGTGGCTCT-TCCACATTATCTGAT
52315635 CTGGT
1 CTGGT
52315640 AGCCATGCTG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.12
27 30 0.58
28 15 0.29
29 1 0.02
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTTCCACATTATCTGAT
Found at i:52319172 original size:31 final size:31
Alignment explanation
Indices: 52319131--52319194 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
52319121 CCTTTTCATA
*
52319131 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
52319162 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
52319193 TT
1 TT
52319195 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:52319500 original size:47 final size:48
Alignment explanation
Indices: 52319386--52319550 Score: 248
Period size: 47 Copynumber: 3.5 Consensus size: 48
52319376 GCTTTATCAT
* *
52319386 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
52319434 ATAACTGGGGCA-AATCCCTTTTAATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
52319480 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
52319528 ATAACTGGGGCATGAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
52319551 TGTACTTCCT
Statistics
Matches: 108, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
46 33 0.31
47 41 0.38
48 34 0.31
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:52319508 original size:24 final size:24
Alignment explanation
Indices: 52319386--52319550 Score: 248
Period size: 23 Copynumber: 7.0 Consensus size: 24
52319376 GCTTTATCAT
*
52319386 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
52319411 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
52319434 ATAACTGGGGCA-AATCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52319457 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52319480 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52319504 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
52319528 ATAACTGGGGCATGAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
52319551 TGTACTTCCT
Statistics
Matches: 131, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
23 62 0.47
24 62 0.47
25 7 0.05
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:52319720 original size:94 final size:94
Alignment explanation
Indices: 52319606--52319793 Score: 367
Period size: 94 Copynumber: 2.0 Consensus size: 94
52319596 AACATCTCAT
*
52319606 GTGCATATCCTACATATCATGTTTATCAAAATCCCATGCATTAAGTTCATATATAAACCCTAGGG
1 GTGCATATCATACATATCATGTTTATCAAAATCCCATGCATTAAGTTCATATATAAACCCTAGGG
52319671 GTATAATGGTCACTTTTACCTAGGGGCAA
66 GTATAATGGTCACTTTTACCTAGGGGCAA
52319700 GTGCATATCATACATATCATGTTTATCAAAATCCCATGCATTAAGTTCATATATAAACCCTAGGG
1 GTGCATATCATACATATCATGTTTATCAAAATCCCATGCATTAAGTTCATATATAAACCCTAGGG
52319765 GTATAATGGTCACTTTTACCTAGGGGCAA
66 GTATAATGGTCACTTTTACCTAGGGGCAA
52319794 AATGGTCATT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (94 bp):
GTGCATATCATACATATCATGTTTATCAAAATCCCATGCATTAAGTTCATATATAAACCCTAGGG
GTATAATGGTCACTTTTACCTAGGGGCAA
Found at i:52319797 original size:25 final size:24
Alignment explanation
Indices: 52319758--52319805 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
52319748 ATATATAAAC
* *
52319758 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAATGGTCA-TTTTA
52319783 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
52319806 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
CCTAGGGGCAAAATGGTCATTTTA
Found at i:52321065 original size:27 final size:27
Alignment explanation
Indices: 52321045--52321331 Score: 346
Period size: 27 Copynumber: 10.6 Consensus size: 27
52321035 AGGGTATTTT
*
52321045 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52321072 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52321099 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52321126 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52321153 GGTAATTCTGTAAATCGAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52321179 TGATAATTATGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
52321207 GGTAATTATGTAAATTGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
52321234 GGTAATTCTGTAAGTCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52321261 AGTAATTTTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
52321288 GGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
52321315 AGTAATTATGTAAATCG
1 AGTAATTCTGTAAATCG
52321332 GGAGTACTTT
Statistics
Matches: 226, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.02
27 218 0.96
28 4 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:52324132 original size:31 final size:31
Alignment explanation
Indices: 52324091--52324154 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
52324081 CCTTTTCATA
*
52324091 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
52324122 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
52324153 TT
1 TT
52324155 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:52324439 original size:24 final size:24
Alignment explanation
Indices: 52324347--52324511 Score: 275
Period size: 23 Copynumber: 7.0 Consensus size: 24
52324337 GCTTTATCAT
*
52324347 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
52324372 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52324395 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52324418 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52324441 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52324465 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52324489 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
52324512 TGCACTTCCT
Statistics
Matches: 136, Mismatches: 1, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
23 64 0.47
24 64 0.47
25 8 0.06
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:52324458 original size:47 final size:48
Alignment explanation
Indices: 52324347--52324511 Score: 275
Period size: 47 Copynumber: 3.5 Consensus size: 48
52324337 GCTTTATCAT
*
52324347 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
52324395 ATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
52324441 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
52324489 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
52324512 TGCACTTCCT
Statistics
Matches: 112, Mismatches: 1, Indels: 8
0.93 0.01 0.07
Matches are distributed among these distances:
46 34 0.30
47 43 0.38
48 35 0.31
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:52324584 original size:9 final size:9
Alignment explanation
Indices: 52324570--52324626 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
52324560 ATCTCATGTG
52324570 CATATCATA
1 CATATCATA
*
52324579 CATATCATGTG
1 CATATCA--TA
52324590 CATATCATA
1 CATATCATA
* *
52324599 CATGTCATGTG
1 CATATCA--TA
52324610 CATATCATA
1 CATATCATA
52324619 CATATCAT
1 CATATCAT
52324627 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:52324586 original size:20 final size:20
Alignment explanation
Indices: 52324558--52324628 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
52324548 GCATTTATGA
*
52324558 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
52324578 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
52324598 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
52324618 ACATATCATGT
1 ACATATCATGT
52324629 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:52324593 original size:11 final size:11
Alignment explanation
Indices: 52324563--52324617 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
52324553 TATGAACATC
52324563 TCATGTGCATA
1 TCATGTGCATA
*
52324574 TCA--TACATA
1 TCATGTGCATA
52324583 TCATGTGCATA
1 TCATGTGCATA
* *
52324594 TCA--TACATG
1 TCATGTGCATA
52324603 TCATGTGCATA
1 TCATGTGCATA
52324614 TCAT
1 TCAT
52324618 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:52324707 original size:25 final size:24
Alignment explanation
Indices: 52324665--52324712 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
52324655 ATATATAAAC
* * *
52324665 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
52324690 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
52324713 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:52326078 original size:26 final size:27
Alignment explanation
Indices: 52325933--52326214 Score: 362
Period size: 27 Copynumber: 10.6 Consensus size: 27
52325923 AGGGTATTTT
*
52325933 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52325960 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52325987 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52326014 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52326041 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52326068 -GTAATTATGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52326094 -GTAATTATGTAAATTG-GGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52326119 GGTAATTCTGT-AATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
52326145 AGTAATT-TGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
52326171 GGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
52326198 AGTAATTATGTAAATCG
1 AGTAATTCTGTAAATCG
52326215 GAGTACTTTG
Statistics
Matches: 227, Mismatches: 21, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
25 17 0.07
26 83 0.37
27 124 0.55
28 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:52329006 original size:31 final size:31
Alignment explanation
Indices: 52328965--52329028 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
52328955 CCTTTTCATA
*
52328965 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
52328996 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
52329027 TT
1 TT
52329029 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:52329311 original size:24 final size:24
Alignment explanation
Indices: 52329219--52329383 Score: 248
Period size: 23 Copynumber: 7.0 Consensus size: 24
52329209 GCTTTATCAT
*
52329219 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
52329244 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52329267 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52329290 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
52329313 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
52329337 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
52329361 ATAACTGGGGCATGAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
52329384 TGCACTTCCT
Statistics
Matches: 131, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
23 63 0.48
24 61 0.47
25 7 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:52329330 original size:47 final size:48
Alignment explanation
Indices: 52329219--52329383 Score: 248
Period size: 47 Copynumber: 3.5 Consensus size: 48
52329209 GCTTTATCAT
* *
52329219 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
52329267 ATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
52329313 ATAACTGGGGCATAAGCCCTTTTAATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
52329361 ATAACTGGGGCATGAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
52329384 TGCACTTCCT
Statistics
Matches: 109, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
46 33 0.30
47 42 0.39
48 34 0.31
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:52329456 original size:9 final size:9
Alignment explanation
Indices: 52329442--52329498 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
52329432 ATCTCATGTG
52329442 CATATCATA
1 CATATCATA
*
52329451 CATATCATGTG
1 CATATCA--TA
52329462 CATATCATA
1 CATATCATA
* *
52329471 CATGTCATGTG
1 CATATCA--TA
52329482 CATATCATA
1 CATATCATA
52329491 CATATCAT
1 CATATCAT
52329499 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:52329458 original size:20 final size:20
Alignment explanation
Indices: 52329430--52329500 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
52329420 GCATTTATGA
*
52329430 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
52329450 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
52329470 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
52329490 ACATATCATGT
1 ACATATCATGT
52329501 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:52329465 original size:11 final size:11
Alignment explanation
Indices: 52329435--52329489 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
52329425 TATGAACATC
52329435 TCATGTGCATA
1 TCATGTGCATA
*
52329446 TCA--TACATA
1 TCATGTGCATA
52329455 TCATGTGCATA
1 TCATGTGCATA
* *
52329466 TCA--TACATG
1 TCATGTGCATA
52329475 TCATGTGCATA
1 TCATGTGCATA
52329486 TCAT
1 TCAT
52329490 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:52329579 original size:25 final size:24
Alignment explanation
Indices: 52329537--52329584 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
52329527 ATATATAAAC
* * *
52329537 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
52329562 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
52329585 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:52330836 original size:27 final size:27
Alignment explanation
Indices: 52330816--52331104 Score: 348
Period size: 27 Copynumber: 10.7 Consensus size: 27
52330806 AGGGTATTTT
*
52330816 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52330843 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
52330870 AGTAATTCTATAAATTGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52330897 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52330924 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52330951 GGTAATTATGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
52330978 AGTAATTATGTAAATTGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
52331005 GGTAATTCTGTAAGTCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52331032 AGTTATTTTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
52331059 GGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
52331086 AGTAATTATGTAAATCGAG
1 AGTAATTCTGTAAATCGAG
52331105 AGTACTTTGG
Statistics
Matches: 224, Mismatches: 35, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.01
27 218 0.97
28 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:52332194 original size:27 final size:26
Alignment explanation
Indices: 52332155--52332265 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
52332145 GGAAGCGTCA
*
52332155 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
*
52332182 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
* *
52332209 TGGTGGCTCTACCAATATTATCTGTATC
1 TGGTGGCTCTGCC-ACATTATCTG-ATC
* * *
52332237 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGATC
52332263 TGG
1 TGG
52332266 CATCTATGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.69
28 15 0.21
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATC
Found at i:52334211 original size:27 final size:26
Alignment explanation
Indices: 52334176--52334287 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
52334166 AGCATGGCTG
* *
52334176 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
52334202 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
52334230 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
52334257 CCAGATCAGAAAATTGTGGCATAACCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
52334284 CCAG
1 CCAG
52334288 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:52334240 original size:54 final size:54
Alignment explanation
Indices: 52334176--52334287 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
52334166 AGCATGGCTG
* * *
52334176 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGAAAATCGTGGCAGAACCA
* * *
52334230 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGAAAATTGTGGCATAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGAAAATCGTGGCAGAACCA
52334284 CCAG
1 CCAG
52334288 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGAAAATCGTGGCAGAACCA
Found at i:52343775 original size:24 final size:24
Alignment explanation
Indices: 52343743--52343803 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
52343733 AAAATCCAAT
* * *
52343743 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
52343767 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
52343791 GCACTATGTGTGC
1 GCACTATGTGTGC
52343804 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:52351908 original size:71 final size:72
Alignment explanation
Indices: 52351792--52351949 Score: 300
Period size: 71 Copynumber: 2.2 Consensus size: 72
52351782 TTGACATATG
52351792 GCACTATGTGTGCGGAATTAAGTGGCACTAGATGTGCCGATTTGGATGTTGAAGCATGAGAG-AA
1 GCACTATGTGTGCGGAATTAAGTGGCACTAGATGTGCCGATTTGGATGTTGAAGCATGAGAGAAA
52351856 ATCCAAT
66 ATCCAAT
52351863 GCACTATGTGTGCGGAATTAAGTGGCACTAGATGTGCCGATTTGGATGTTGAAGCATGAGAGAAA
1 GCACTATGTGTGCGGAATTAAGTGGCACTAGATGTGCCGATTTGGATGTTGAAGCATGAGAGAAA
52351928 ATCCAAT
66 ATCCAAT
*
52351935 GCACTATCTGTGCGG
1 GCACTATGTGTGCGG
52351950 TTTACTATGG
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
71 62 0.73
72 23 0.27
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (72 bp):
GCACTATGTGTGCGGAATTAAGTGGCACTAGATGTGCCGATTTGGATGTTGAAGCATGAGAGAAA
ATCCAAT
Found at i:52357407 original size:21 final size:22
Alignment explanation
Indices: 52357374--52357414 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
52357364 TTCATTTATG
*
52357374 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATATATCATA
*
52357395 TTTCATTTCCACATATATCA
1 TTTCATTGCCACATATATCA
52357415 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (22 bp):
TTTCATTGCCACATATATCATA
Found at i:52357892 original size:28 final size:28
Alignment explanation
Indices: 52357824--52357898 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
52357814 GAATCACTCG
*
52357824 ATATTTCGCACACTAAGTTTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
52357852 ATATCTT-GCACACTAAGTGTCATTCTCA
1 ATAT-TTCGCACACTAAGTGTCATTCTCA
* *
52357880 ATATTTCGTACACTGAGTG
1 ATATTTCGCACACTAAGTG
52357899 CCATATTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 2 0.05
28 38 0.90
29 2 0.05
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:52359079 original size:19 final size:19
Alignment explanation
Indices: 52359055--52359094 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
52359045 TTAGCACCCA
52359055 CTAAACTGA-CCACTAACTC
1 CTAAACT-ACCCACTAACTC
52359074 CTAAACTACCCCACTAACTC
1 CTAAACTA-CCCACTAACTC
52359094 C
1 C
52359095 ATCACCCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.05
19 7 0.37
20 11 0.58
ACGTcount: A:0.35, C:0.42, G:0.03, T:0.20
Consensus pattern (19 bp):
CTAAACTACCCACTAACTC
Found at i:52359103 original size:17 final size:17
Alignment explanation
Indices: 52359081--52359131 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
52359071 CTCCTAAACT
52359081 ACCCCACTAACTCCATC
1 ACCCCACTAACTCCATC
*
52359098 ACCCCACTAA--GC-T-
1 ACCCCACTAACTCCATC
*
52359111 ACCCCAATAACTCCATC
1 ACCCCACTAACTCCATC
52359128 ACCC
1 ACCC
52359132 TACTGAGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
13 9 0.33
14 1 0.04
15 2 0.07
16 1 0.04
17 14 0.52
ACGTcount: A:0.31, C:0.51, G:0.02, T:0.16
Consensus pattern (17 bp):
ACCCCACTAACTCCATC
Found at i:52359162 original size:30 final size:30
Alignment explanation
Indices: 52359074--52359165 Score: 130
Period size: 30 Copynumber: 3.1 Consensus size: 30
52359064 CCACTAACTC
* *
52359074 CTAAACTACCCCACTAACTCCATCACCCCA
1 CTAAGCTACCCCACTAACTCCATCACCCTA
*
52359104 CTAAGCTACCCCAATAACTCCATCACCCTA
1 CTAAGCTACCCCACTAACTCCATCACCCTA
* * *
52359134 CTGAGCTACCACACTAACTCCATTACCCTA
1 CTAAGCTACCCCACTAACTCCATCACCCTA
52359164 CT
1 CT
52359166 TGCCACCATG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.32, C:0.45, G:0.03, T:0.21
Consensus pattern (30 bp):
CTAAGCTACCCCACTAACTCCATCACCCTA
Found at i:52359502 original size:3 final size:3
Alignment explanation
Indices: 52359494--52359640 Score: 117
Period size: 3 Copynumber: 49.0 Consensus size: 3
52359484 AGCGGGAGAG
*
52359494 TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
52359541 TATT TAT T-T TAT TACT T-T TAC TAT TAT T-T TA- TAT ATATT TAT TAC
1 TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TA-T TAT TAT
* * * * * *
52359586 CAT TATT TATT TAT TAT TAT TAG TAA CA- TAT TGT TAT TTT TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52359632 TAT TAT TAT
1 TAT TAT TAT
52359641 AATGGCACTA
Statistics
Matches: 117, Mismatches: 16, Indels: 22
0.75 0.10 0.14
Matches are distributed among these distances:
2 11 0.09
3 89 0.76
4 16 0.14
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:52359601 original size:35 final size:32
Alignment explanation
Indices: 52359496--52359603 Score: 91
Period size: 29 Copynumber: 3.3 Consensus size: 32
52359486 CGGGAGAGTA
* *
52359496 TTATTATTATTATTAT-TATTACTATTATTATTA-
1 TTATTATTATT-TTATATATT-TTATTA-CATTAT
*
52359529 TTATTATTATTTTATTTATTTTATTAC--T-T
1 TTATTATTATTTTATATATTTTATTACATTAT
*
52359558 TTACTATTATTTTATATATATTTATTACCATTAT
1 TTATTATTATTTTATATAT-TTTATTA-CATTAT
52359592 TTATTTATTATT
1 TTA-TTATTATT
52359604 ATTAGTAACA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
29 18 0.29
30 7 0.11
31 1 0.02
32 9 0.15
33 16 0.26
34 4 0.06
35 7 0.11
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (32 bp):
TTATTATTATTTTATATATTTTATTACATTAT
Found at i:52361654 original size:15 final size:15
Alignment explanation
Indices: 52361634--52361662 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52361624 TTTTGCATTC
52361634 ATTCCATGCATTTGT
1 ATTCCATGCATTTGT
52361649 ATTCCATGCATTTG
1 ATTCCATGCATTTG
52361663 CATTACATTG
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:0.21, C:0.21, G:0.14, T:0.45
Consensus pattern (15 bp):
ATTCCATGCATTTGT
Found at i:52364551 original size:25 final size:26
Alignment explanation
Indices: 52364517--52364565 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
52364507 AAAAAAAATC
*
52364517 AAAAAAAAGAAAA-AAAAGGAACACA
1 AAAAAAAAGAAAAGAAAAGAAACACA
52364542 AAAAAAAAGAAAAGAAAAGAAACA
1 AAAAAAAAGAAAAGAAAAGAAACA
52364566 GGAGAGGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (26 bp):
AAAAAAAAGAAAAGAAAAGAAACACA
Found at i:52367763 original size:40 final size:40
Alignment explanation
Indices: 52367667--52367845 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
52367657 CGAATGATGT
* * * * *
52367667 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
52367708 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
52367748 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
52367788 CCGGGCTAATTCCCGAAGGCAATTGTACGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
52367828 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
52367846 ACAATCGAGC
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
40 92 0.79
41 25 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:52367830 original size:80 final size:81
Alignment explanation
Indices: 52367667--52367845 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
52367657 CGAATGATGT
* * *
52367667 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGATTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
52367732 GTGCGAGTTACCAAAA
66 GTACGAATTACCAAAA
* * *
52367748 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
52367811 TGTACGAATTACTATAA
65 TGTACGAATTACCAAAA
*
52367828 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
52367846 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 58 0.68
81 26 0.31
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTACGAATTACCAAAA
Found at i:52367870 original size:80 final size:80
Alignment explanation
Indices: 52367703--52367885 Score: 190
Period size: 80 Copynumber: 2.3 Consensus size: 80
52367693 GCTAAGTGAT
* * * * *
52367703 TAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTCAATTCCCGAAGGCAATTGTACGAATTACCAAAACCGGGCTAAGTCCCGAAGAC
* * * *
52367768 ATTTGTGCGAGTTAC
66 AATCGAGCGAGTCAC
* * *
52367783 TAAATCCGGG-CTAATTCCCGAAGGCAATTGTACGAATTACTATAACCGGGCTATGTCCCGAAGA
1 TAAATCCGGGTC-AATTCCCGAAGGCAATTGTACGAATTACCAAAACCGGGCTAAGTCCCGAAGA
* *
52367847 CAATCGAGCTAGTCGC
65 CAATCGAGCGAGTCAC
* * *
52367863 TATATCCGGTTAAATT-CCGAAGG
1 TAAATCCGGGTCAATTCCCGAAGG
52367886 TACGTGATTC
Statistics
Matches: 84, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
79 8 0.10
80 76 0.90
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (80 bp):
TAAATCCGGGTCAATTCCCGAAGGCAATTGTACGAATTACCAAAACCGGGCTAAGTCCCGAAGAC
AATCGAGCGAGTCAC
Done.