Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 158 of 333
Found at i:51815263 original size:48 final size:47
Alignment explanation
Indices: 51815211--51815325 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 47
51815201 TATCCTGAAT
*
51815211 ATGGTATTACTTGGGATCACGTA-TCAATGCCAATGCCATGTCCCAGGC
1 ATGGTATTACATGGGAT--CGTAGTCAATGCCAATGCCATGTCCCAGGC
* * * **
51815259 ATGGTCTTACATGGGATCGTAGGTCGATGCCAATGGCATGTCCCAAAC
1 ATGGTATTACATGGGATCGTA-GTCAATGCCAATGCCATGTCCCAGGC
* *
51815307 ATAGTCTTACATGGGATCG
1 ATGGTATTACATGGGATCG
51815326 CATATCGGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 4 0.07
48 54 0.93
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (47 bp):
ATGGTATTACATGGGATCGTAGTCAATGCCAATGCCATGTCCCAGGC
Found at i:51819190 original size:41 final size:41
Alignment explanation
Indices: 51819143--51819237 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
51819133 ACGGCTTGGC
*
51819143 ACACGCCCGTGTCCCTGGCCAGTGCCCTTCACACTGCCATG
1 ACACGCCCGTGTCCCTGGCCAGTGCCCTTCACACGGCCATG
*
51819184 ACACGCCCGTGTCCCTGGCCAGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCCTGGCCAGTGCCCTTCACACGGCCATG
51819225 ACACGCCCGTGTC
1 ACACGCCCGTGTC
51819238 TTAGCCCTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.15, C:0.43, G:0.23, T:0.19
Consensus pattern (41 bp):
ACACGCCCGTGTCCCTGGCCAGTGCCCTTCACACGGCCATG
Found at i:51820283 original size:44 final size:46
Alignment explanation
Indices: 51820203--51820375 Score: 160
Period size: 46 Copynumber: 3.7 Consensus size: 46
51820193 GATAGAATGT
*
51820203 CGATGCCATGTCCC-GAACATGGTCTTACACTAGCTTA-A-CTTGTA-GC
1 CGATG-CATGTCCCAG-ACAT-GTCTTACACTAGCTTACATCTCG-AGGC
*
51820249 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGC
* * * *
51820295 TGATGCATGTCCTAGACGTGTCTTACACTAGCTCT-CATCTC-ACTGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGA-GGC
* *
51820341 TGATGCCATGTCCCGGACATGGTCTTACACTAGCT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT
51820376 CACAATAGTC
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
44 15 0.14
45 15 0.14
46 53 0.49
47 12 0.11
48 14 0.13
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGC
Found at i:51822944 original size:39 final size:39
Alignment explanation
Indices: 51822901--51823028 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
51822891 GGTCTTTAAC
** *
51822901 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
51822940 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
51822979 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
51823018 CCGGATATTTT
1 CCGGATATTTT
51823029 CAATCTCATA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:51825721 original size:40 final size:40
Alignment explanation
Indices: 51825573--51825759 Score: 263
Period size: 39 Copynumber: 4.7 Consensus size: 40
51825563 TATTCGGATG
* *
51825573 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
51825613 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGGGTTAGT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
51825652 AAAACTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
51825691 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
51825731 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
51825760 AGCAAGTAGC
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 66 0.51
40 64 0.49
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:51825765 original size:40 final size:40
Alignment explanation
Indices: 51825573--51825782 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
51825563 TATTCGGATG
* *
51825573 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** *
51825613 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGGGTTAGT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
51825652 AAAACTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
51825691 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
51825731 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
*
51825771 ATATCC-GGCTAA
1 ATAACCGGGCTAA
51825783 ATTCTGAAGG
Statistics
Matches: 150, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 74 0.49
40 76 0.51
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:51828793 original size:39 final size:40
Alignment explanation
Indices: 51828749--51828859 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
51828739 CGGTGTTTAG
* * *
51828749 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
51828788 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
51828828 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
51828860 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:51828899 original size:41 final size:40
Alignment explanation
Indices: 51828772--51828916 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
51828762 CTCGCACAAG
* * * * *
51828772 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
51828812 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
51828852 GCCTTC-GGATCTTAGTCCGGATGTAGTTGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
51828893 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
51828917 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:51842111 original size:40 final size:40
Alignment explanation
Indices: 51842041--51842258 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
51842031 AAGCCAAGTA
* * * * *
51842041 CCTTCGGGATTTA-ACCGGGTATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
51842080 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51842120 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51842160 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
51842200 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
51842240 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
51842259 TTATCATCCA
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 13 0.08
40 153 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:51845718 original size:27 final size:27
Alignment explanation
Indices: 51845687--51845864 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
51845677 TAAATTGTAC
*
51845687 AGCACTAAGTGTGTGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
51845714 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
51845740 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
51845768 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
51845796 AGCACTAATTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
51845823 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
51845850 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51845865 GACTCAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:51845801 original size:82 final size:81
Alignment explanation
Indices: 51845688--51845843 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
51845678 AAATTGTACA
* * *
51845688 GCACTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
51845752 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
51845769 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAATTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
51845834 TGCGAGTTGA
65 TGCGAATTGA
51845844 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:51845855 original size:82 final size:81
Alignment explanation
Indices: 51845684--51845864 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
51845674 GATTAAATTG
* * *
51845684 TACAGCACTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
51845749 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
51845765 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAATTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
51845829 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
51845847 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
51845865 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:51848130 original size:24 final size:24
Alignment explanation
Indices: 51848098--51848144 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
51848088 AAGCCCGAAG
*
51848098 GCATTTGTGCGAGTTACTATAACT
1 GCATTTGTGCAAGTTACTATAACT
51848122 GCATTTGTGCAAGTTACTATAAC
1 GCATTTGTGCAAGTTACTATAAC
51848145 CGGGCTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
GCATTTGTGCAAGTTACTATAACT
Found at i:51848164 original size:103 final size:104
Alignment explanation
Indices: 51848037--51848224 Score: 290
Period size: 103 Copynumber: 1.8 Consensus size: 104
51848027 TATTCGGATG
* * *
51848037 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAA-GCCCGAAGGC
1 ATAACCAGGCTAAGTCCCGAAGGCATTTGTACGAGTGACTATA-ACCGGGCTAATGCCCGAAGGC
51848100 ATTTGTGCGAGTTACTATAACTGCATTTGTGCAAGTTACT
65 ATTTGTGCGAGTTACTATAACTGCATTTGTGCAAGTTACT
* * *
51848140 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAACCGGGCTAATTCCCGAAGGCA
1 ATAACCAGGCTAAGTCCCGAAGGCATTTGTACGAGTGACTATAACCGGGCTAATGCCCGAAGGCA
*
51848205 TTTGTGTGAGTTACTATAAC
66 TTTGTGCGAGTTACTATAAC
51848225 CGGGCTAAGT
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
103 46 0.61
104 30 0.39
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (104 bp):
ATAACCAGGCTAAGTCCCGAAGGCATTTGTACGAGTGACTATAACCGGGCTAATGCCCGAAGGCA
TTTGTGCGAGTTACTATAACTGCATTTGTGCAAGTTACT
Found at i:51848175 original size:64 final size:63
Alignment explanation
Indices: 51848059--51848184 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 63
51848049 AGTCCCGAAG
* * *
51848059 GCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAACT
1 GCATTTGTGCAAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTATAACT
*
51848122 GCATTTGTGCAAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAAC
1 GCATTTGTGCAAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTATAAC
51848185 CGGGCTAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
62 2 0.04
63 26 0.46
64 29 0.51
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (63 bp):
GCATTTGTGCAAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTATAACT
Found at i:51848177 original size:40 final size:40
Alignment explanation
Indices: 51848122--51848248 Score: 218
Period size: 40 Copynumber: 3.2 Consensus size: 40
51848112 TACTATAACT
*
51848122 GCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAG
1 GCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAG
* *
51848162 GCATTTGTACGAGTTACTATAACCGGGCTAATTCCCGAAG
1 GCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAG
*
51848202 GCATTTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAG
1 GCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAG
51848242 GCATTTG
1 GCATTTG
51848249 AGCAAGTAGC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (40 bp):
GCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAG
Found at i:51848262 original size:40 final size:40
Alignment explanation
Indices: 51848122--51848281 Score: 200
Period size: 40 Copynumber: 4.0 Consensus size: 40
51848112 TACTATAACT
*
51848122 GCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAG
1 GCATTTGAGCAAGTTACTATAACCGGGCTAAGTCCCGAAG
* *
51848162 GCATTTGTA-CGAGTTACTATAACCGGGCTAATTCCCGAAG
1 GCATTTG-AGCAAGTTACTATAACCGGGCTAAGTCCCGAAG
* **
51848202 GCATTTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAG
1 GCATTTGAGCAAGTTACTATAACCGGGCTAAGTCCCGAAG
* * *
51848242 GCATTTGAGCAAG-TAGCTATATCC-GGCTAATTTCCGAAG
1 GCATTTGAGCAAGTTA-CTATAACCGGGCTAAGTCCCGAAG
51848281 G
1 G
51848282 TACTTGGTTT
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
39 16 0.15
40 89 0.85
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
GCATTTGAGCAAGTTACTATAACCGGGCTAAGTCCCGAAG
Found at i:51848262 original size:80 final size:79
Alignment explanation
Indices: 51848122--51848281 Score: 234
Period size: 80 Copynumber: 2.0 Consensus size: 79
51848112 TACTATAACT
*
51848122 GCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAACCG
1 GCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACAAGTTACTATAACC-
51848187 GGCTAATTCCCGAAG
65 GGCTAATTCCCGAAG
** *
51848202 GCATTTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG-AGCAAG-TAGCTATATC
1 GCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTA-CAAGTTA-CTATAAC
*
51848265 CGGCTAATTTCCGAAG
64 CGGCTAATTCCCGAAG
51848281 G
1 G
51848282 TACTTGGTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
79 18 0.25
80 55 0.75
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (79 bp):
GCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACAAGTTACTATAACCG
GCTAATTCCCGAAG
Found at i:51851639 original size:45 final size:44
Alignment explanation
Indices: 51851539--51851665 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 44
51851529 TGGGATAGGA
* *
51851539 AGCCGATGCCATGTCCCGGGCATGGTCTTACACTAGCTTAATTCGT
1 AGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTAATTCGT
* *
51851585 AGCCGATGCATGT-CTAGACATGTCTTACACTGGCTTACATCTCG-
1 AGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA-AT-TCGT
* **
51851629 AGGCTGATGCATGTCCCAGATGTGTCTTACACTAGCT
1 A-GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
51851666 CTCGTCTCAC
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 15 0.22
44 8 0.12
45 19 0.28
46 26 0.38
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (44 bp):
AGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTAATTCGT
Found at i:51857337 original size:25 final size:27
Alignment explanation
Indices: 51857304--51857360 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
51857294 CTTATGAGCA
*
51857304 TCCCAATTAAA-GGTTCTTTGTGAACT
1 TCCCAATTAAATGGCTCTTTGTGAACT
*
51857330 TCCC-ATTAAATTGGCTCTTTGTGAGCT
1 TCCCAATTAAA-TGGCTCTTTGTGAACT
51857357 TCCC
1 TCCC
51857361 GATAGTGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 6 0.22
26 4 0.15
27 17 0.63
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (27 bp):
TCCCAATTAAATGGCTCTTTGTGAACT
Found at i:51857532 original size:24 final size:23
Alignment explanation
Indices: 51857484--51857537 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
51857474 TTCCCAGATA
*
51857484 AGCTTCCTGATAGGCTCCTTATG
1 AGCTTCCTGAAAGGCTCCTTATG
*
51857507 AGCTTCCTGAAATGGCT-CTGTGTG
1 AGCTTCCTGAAA-GGCTCCT-TATG
51857531 AGCTTCC
1 AGCTTCC
51857538 CGTTACAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (23 bp):
AGCTTCCTGAAAGGCTCCTTATG
Found at i:51861082 original size:3 final size:3
Alignment explanation
Indices: 51861074--51861100 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
51861064 TTTCATTCTT
51861074 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
51861101 GTATATATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:51862568 original size:52 final size:53
Alignment explanation
Indices: 51862506--51862605 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 53
51862496 TAAATTCTTT
* *
51862506 TTTTTATAGGATAAAAACCAACAGCCTAAGATTATCTTCTCCT-TTTTATATA
1 TTTTTATAGGATAAAAACCAACAACCCAAGATTATCTTCTCCTCTTTTATATA
* * *
51862558 TTTTTCTAGGATAGAAACCAATAACCCAAGATTATCTTCTCCTCTTTT
1 TTTTTATAGGATAAAAACCAACAACCCAAGATTATCTTCTCCTCTTTT
51862606 TTAGGTAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 38 0.90
53 4 0.10
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (53 bp):
TTTTTATAGGATAAAAACCAACAACCCAAGATTATCTTCTCCTCTTTTATATA
Found at i:51874899 original size:18 final size:18
Alignment explanation
Indices: 51874876--51874911 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
51874866 CGAAATTACG
51874876 TATATACA-TATACATACA
1 TATATACACTA-ACATACA
51874894 TATATACACTAACATACA
1 TATATACACTAACATACA
51874912 AAGAGATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (18 bp):
TATATACACTAACATACA
Found at i:51875296 original size:39 final size:39
Alignment explanation
Indices: 51875270--51875388 Score: 139
Period size: 39 Copynumber: 3.1 Consensus size: 39
51875260 GTCCAGCAAG
*
51875270 TAGCCTGCGGACCTAAAGTCCGGATATAACTCTCGCATA
1 TAGCCTGCGGACATAAAGTCCGGATATAACTCTCGCATA
* * * *
51875309 TAGCCTGCGGACATGAAGTCTGGATATAATTCTCGCTTA
1 TAGCCTGCGGACATAAAGTCCGGATATAACTCTCGCATA
* * * * * *
51875348 TAGCTTACGGACCTGAAGTCCGGATATAATTCTCACATA
1 TAGCCTGCGGACATAAAGTCCGGATATAACTCTCGCATA
51875387 TA
1 TA
51875389 TATATTCACA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (39 bp):
TAGCCTGCGGACATAAAGTCCGGATATAACTCTCGCATA
Found at i:51878977 original size:28 final size:28
Alignment explanation
Indices: 51878936--51879035 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
51878926 GAAACACACT
* * *
51878936 TCGCATACACAGTGCCTACTGACTGATT
1 TCGCACACATAGTGCCTACTGACTGATC
* * * *
51878964 TCGCACACATAGTGCTCGATTGA-AGAAC
1 TCGCACACATAGTGC-CTACTGACTGATC
51878992 TCGCACACATAGTGCCTCAACT-ACTGATC
1 TCGCACACATAGTGCCT--ACTGACTGATC
*
51879021 TGGCACACATAGTGC
1 TCGCACACATAGTGC
51879036 TCGGTTGAAG
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
27 1 0.02
28 31 0.55
29 24 0.43
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (28 bp):
TCGCACACATAGTGCCTACTGACTGATC
Found at i:51879028 original size:57 final size:58
Alignment explanation
Indices: 51878936--51879067 Score: 180
Period size: 57 Copynumber: 2.3 Consensus size: 58
51878926 GAAACACACT
* *
51878936 TCGCATACACAGTGCCT--ACTGACTGATTTCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * *
51878992 TCGCACACATAGTGCCTCAACT-ACTGATCTGGCACACATAGTGCTCGGTTGAAGAGC
1 TCGCACACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
*
51879049 TTGCACACACAGTGCCTCA
1 TCGCACACACAGTGCCTCA
51879068 TAATTCCAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 15 0.23
57 48 0.73
58 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (58 bp):
TCGCACACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
Found at i:51879168 original size:40 final size:40
Alignment explanation
Indices: 51879073--51879306 Score: 386
Period size: 40 Copynumber: 5.9 Consensus size: 40
51879063 CCTCATAATT
* * *
51879073 CCAGCACGAATGC-CTTCGAGG-TTTAGCACGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATAACA
*
51879112 CTAG-ACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
51879151 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
51879191 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
51879231 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
51879271 CCAGCACGAATGCTCTTC-GGACTTAGCCCGGATATA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
51879307 TAACTCTCAA
Statistics
Matches: 185, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 10 0.05
39 44 0.24
40 131 0.71
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:51880960 original size:10 final size:10
Alignment explanation
Indices: 51880945--51880969 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51880935 CCGAAATTAC
51880945 ATATATACAT
1 ATATATACAT
51880955 ATATATACAT
1 ATATATACAT
51880965 ATATA
1 ATATA
51880970 CACTAACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATACAT
Found at i:51881382 original size:39 final size:39
Alignment explanation
Indices: 51881339--51881457 Score: 157
Period size: 39 Copynumber: 3.1 Consensus size: 39
51881329 GTCTAGCAAG
*
51881339 TAGCCTGCGGACCTAAAGTCCGGATATAACTCTCGCATA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
* *
51881378 TAGCCTGCGGACATAAAGTCCGGATATAATTCTCGCTTA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
* * * * * *
51881417 TAACTTACGGACCTGAAGTCTGGATATAATTCTCACATA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
51881456 TA
1 TA
51881458 TATATTCACA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (39 bp):
TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
Found at i:51885023 original size:28 final size:28
Alignment explanation
Indices: 51884982--51885081 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
51884972 GAAACACACT
* * *
51884982 TCGCATACACAGTGCCTACTGACTGATT
1 TCGCACACATAGTGCCTACTGACTGATC
* * * *
51885010 TCGCACACATAGTGCTCGATTGA-AGAAC
1 TCGCACACATAGTGC-CTACTGACTGATC
51885038 TCGCACACATAGTGCCTCAACT-ACTGATC
1 TCGCACACATAGTGCCT--ACTGACTGATC
*
51885067 TGGCACACATAGTGC
1 TCGCACACATAGTGC
51885082 TCGGTTGAAG
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
27 1 0.02
28 31 0.55
29 24 0.43
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (28 bp):
TCGCACACATAGTGCCTACTGACTGATC
Found at i:51885074 original size:57 final size:58
Alignment explanation
Indices: 51884982--51885113 Score: 180
Period size: 57 Copynumber: 2.3 Consensus size: 58
51884972 GAAACACACT
* *
51884982 TCGCATACACAGTGCCT--ACTGACTGATTTCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * *
51885038 TCGCACACATAGTGCCTCAACT-ACTGATCTGGCACACATAGTGCTCGGTTGAAGAGC
1 TCGCACACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
*
51885095 TTGCACACACAGTGCCTCA
1 TCGCACACACAGTGCCTCA
51885114 TAATTCCAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 15 0.23
57 48 0.73
58 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (58 bp):
TCGCACACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
Found at i:51885185 original size:40 final size:40
Alignment explanation
Indices: 51885119--51885354 Score: 395
Period size: 40 Copynumber: 5.9 Consensus size: 40
51885109 CCTCATAATT
* * *
51885119 CCAGCACGAATGC-CTTCGAGG-TTTAGCACGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATAACA
* *
51885158 CTAGGACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
51885198 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
51885238 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
51885278 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
51885318 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
51885355 TAACTCTCAA
Statistics
Matches: 186, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 13 0.07
40 173 0.93
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:51887032 original size:10 final size:10
Alignment explanation
Indices: 51887017--51887041 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51887007 CCGAAATTAC
51887017 ATATATACAT
1 ATATATACAT
51887027 ATATATACAT
1 ATATATACAT
51887037 ATATA
1 ATATA
51887042 CACTAACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATACAT
Found at i:51887455 original size:39 final size:39
Alignment explanation
Indices: 51887412--51887530 Score: 157
Period size: 39 Copynumber: 3.1 Consensus size: 39
51887402 GTCTAGCAAG
*
51887412 TAGCCTGCGGACCTAAAGTCCGGATATAACTCTCGCATA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
* *
51887451 TAGCCTGCGGACATAAAGTCCGGATATAATTCTCGCTTA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
* * * * * *
51887490 TAACTTACGGACCTGAAGTCTGGATATAATTCTCACATA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
51887529 TA
1 TA
51887531 TATTCACATG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (39 bp):
TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
Found at i:51891255 original size:21 final size:21
Alignment explanation
Indices: 51891229--51891270 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
51891219 CGTCAAGAAG
*
51891229 AAAGATGGATCCGTGAGACTT
1 AAAGATGAATCCGTGAGACTT
51891250 AAAGATGAATCCGTGAGACTT
1 AAAGATGAATCCGTGAGACTT
51891271 TGTATCGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (21 bp):
AAAGATGAATCCGTGAGACTT
Found at i:51897678 original size:21 final size:22
Alignment explanation
Indices: 51897654--51897699 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
51897644 AACACGAGCC
*
51897654 TGTCCCATGG-TCACACAGGTG
1 TGTCCCATGGACCACACAGGTG
* *
51897675 TGTCCCTTGGACCACACGGGTG
1 TGTCCCATGGACCACACAGGTG
51897697 TGT
1 TGT
51897700 GAGCCCTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTCCCATGGACCACACAGGTG
Found at i:51899832 original size:30 final size:29
Alignment explanation
Indices: 51899767--51900083 Score: 95
Period size: 29 Copynumber: 10.9 Consensus size: 29
51899757 GAGTACTAAA
* * *
51899767 CGATGGTTGTAACCATCCATTTTCATATT
1 CGATGGTCGAAACCATCCATTTTCATAAT
*
51899796 CAATGGTCGAAACCATCCCA-TTTCATTAAT
1 CGATGGTCGAAACCAT-CCATTTTCA-TAAT
*** * * *
51899826 CGATGGTCGTCGCCATCCTTTTTTATAGT
1 CGATGGTCGAAACCATCCATTTTCATAAT
** * ** *
51899855 TAATGGTTGTCACCATCCGTTTTCATAAT
1 CGATGGTCGAAACCATCCATTTTCATAAT
* * * * * *
51899884 CGATAGCCGAAGCTATCCTTTTTCATATT
1 CGATGGTCGAAACCATCCATTTTCATAAT
* * * * * ** *
51899913 CTATAGCCGAAGCTATCCCCTTTCATATT
1 CGATGGTCGAAACCATCCATTTTCATAAT
** * *
51899942 CGATGG-CGTCACCATCCCTTTTCATAGT
1 CGATGGTCGAAACCATCCATTTTCATAAT
* * * * *
51899970 TGATGGTC-ATCACCATCCCTGTTCATCA-
1 CGATGGTCGA-AACCATCCATTTTCATAAT
* * * *
51899998 CTGATAG-CTGAAGCTATCCCTTTTCATAAT
1 C-GATGGTC-GAAACCATCCATTTTCATAAT
* * * *
51900028 CGATAGTCGAAGCTATCCCTTTTCATAAT
1 CGATGGTCGAAACCATCCATTTTCATAAT
* * * *
51900057 CGATAGTCGAAGCTATCCCTTTTCATA
1 CGATGGTCGAAACCATCCATTTTCATA
51900084 TTCAATGATC
Statistics
Matches: 226, Mismatches: 52, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
28 22 0.10
29 179 0.79
30 25 0.11
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCATTTTCATAAT
Found at i:51899901 original size:29 final size:29
Alignment explanation
Indices: 51899869--51900083 Score: 188
Period size: 29 Copynumber: 7.4 Consensus size: 29
51899859 GGTTGTCACC
*
51899869 ATCCGTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * *
51899898 ATCCTTTTTCATATTCTATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * *
51899927 ATCCCCTTTCATATTCGAT-GGCGTCA-CC
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
* * * * *
51899955 ATCCCTTTTCATAGTTGATGGTC-ATCA-CC
1 ATCCCTTTTCATAATCGATAGCCGA--AGCT
* * *
51899984 ATCCCTGTTCATCA-CTGATAGCTGAAGCT
1 ATCCCTTTTCATAATC-GATAGCCGAAGCT
*
51900013 ATCCCTTTTCATAATCGATAGTCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
*
51900042 ATCCCTTTTCATAATCGATAGTCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
51900071 ATCCCTTTTCATA
1 ATCCCTTTTCATA
51900084 TTCAATGATC
Statistics
Matches: 152, Mismatches: 26, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
28 21 0.14
29 129 0.85
30 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.35
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:51899995 original size:115 final size:116
Alignment explanation
Indices: 51899781--51900083 Score: 333
Period size: 115 Copynumber: 2.6 Consensus size: 116
51899771 GGTTGTAACC
* * * * *
51899781 ATCCATTTTCATATTCAATGGTCGAAACCATCCCATTTCATTAATCGATGGTCGTCGCCATCCTT
1 ATCCATTTTCATATTCAATAGTCGAAGCTATCCCATTTCA-TAATCGATGGTCGTCACCATCCCT
* ** * *
51899846 TTTTATAGTTAATGGTTGTCACCATCCGTTTTCATAA-TCGATAGCCGAAGCT
65 TTTCATAGTTAATGGTCATCACCATCCCTGTTCATAACT-GATAGCCGAAGCT
* * * * *
51899898 ATCCTTTTTCATATTCTATAGCCGAAGCTATCCCCTTTCATATTCGATGG-CGTCACCATCCCTT
1 ATCCATTTTCATATTCAATAGTCGAAGCTATCCCATTTCATAATCGATGGTCGTCACCATCCCTT
* * *
51899962 TTCATAGTTGATGGTCATCACCATCCCTGTTCATCACTGATAGCTGAAGCT
66 TTCATAGTTAATGGTCATCACCATCCCTGTTCATAACTGATAGCCGAAGCT
* * * * * * *
51900013 ATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATAATCGATAGTCG-AAGCTATCCCT
1 ATCCATTTTCATATTCAATAGTCGAAGCTATCCCATTTCATAATCGATGGTCGTCA-CCATCCCT
51900077 TTTCATA
65 TTTCATA
51900084 TTCAATGATC
Statistics
Matches: 156, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
115 97 0.62
116 26 0.17
117 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (116 bp):
ATCCATTTTCATATTCAATAGTCGAAGCTATCCCATTTCATAATCGATGGTCGTCACCATCCCTT
TTCATAGTTAATGGTCATCACCATCCCTGTTCATAACTGATAGCCGAAGCT
Found at i:51907624 original size:40 final size:39
Alignment explanation
Indices: 51907534--51907758 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 39
51907524 TTGAATGATG
* * * * *
51907534 TCCGCGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
51907574 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
51907614 TCCGGGCTAAGCCCGACGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
51907653 TCTGGGTTAAGTCCAGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTAAA
*
51907693 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
51907734 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
51907759 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 34 0.22
40 110 0.71
41 12 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51907772 original size:40 final size:40
Alignment explanation
Indices: 51907615--51907777 Score: 118
Period size: 40 Copynumber: 4.1 Consensus size: 40
51907605 GATACTAATT
* * ** *
51907615 CCGGGCTAAG-CCCGACGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* * * ** *
51907653 TCTGGGTTAAGTCCAGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
51907693 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
51907734 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
51907774 CCGG
1 CCGG
51907778 TTAAATTCCG
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 9 0.08
40 97 0.90
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:51907776 original size:80 final size:80
Alignment explanation
Indices: 51907580--51907791 Score: 202
Period size: 80 Copynumber: 2.7 Consensus size: 80
51907570 CATATCTGGA
** * * *
51907580 CTAAGATCC-GAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGACGGCATTGGTGC
1 CTAAG-TCCAGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGC
*
51907642 GAGTTACTAAATCTGGG
64 GAGTTACTAAATCCGGG
* ** * *
51907659 TTAAGTCCAGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
1 CTAAGTCCAGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGA
51907724 GTTACTATAA-CCGGG
66 GTTACTA-AATCCGGG
* * * * *
51907739 CTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CTAAGTCCAGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
51907792 TACGTGATTT
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 4 0.04
79 51 0.45
80 56 0.50
81 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAGTCCAGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGA
GTTACTAAATCCGGG
Found at i:51915594 original size:39 final size:40
Alignment explanation
Indices: 51915485--51915709 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
51915475 TTGAATGATG
* * * * *
51915485 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
51915525 TCC-GGACTAAGAT-CCGAAGGCATTTTTGCGAGATACTAAT
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
51915565 TCCGGGCTAAG-CCCAAATGCATTGGTGCGAGTTACTAAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
51915604 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51915644 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
51915685 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGATAAGTCCCGAAGGCATTTG
51915710 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 22, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
39 33 0.21
40 112 0.72
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51915700 original size:80 final size:80
Alignment explanation
Indices: 51915485--51915709 Score: 269
Period size: 80 Copynumber: 2.8 Consensus size: 80
51915475 TTGAATGATG
* * * * *
51915485 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
51915548 TTTTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* * * *
51915565 TCCGGGCTAAG-CCCAAATGCATTGGTGCGAGTTACTA-AATCCGGGATAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
51915628 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
51915644 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
51915709 G
66 G
51915710 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.02
79 55 0.45
80 63 0.52
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:51919683 original size:22 final size:22
Alignment explanation
Indices: 51919624--51919685 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
51919614 TTAACAAGAT
* *
51919624 GGCTGAACGCCATAGACAGGAC
1 GGCTCAACGCCATAGATAGGAC
*
51919646 GGCTCAACACCATAGATAGGAC
1 GGCTCAACGCCATAGATAGGAC
*
51919668 GGCTCAACGCCGTAGATA
1 GGCTCAACGCCATAGATA
51919686 TCACAGCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.32, C:0.27, G:0.27, T:0.13
Consensus pattern (22 bp):
GGCTCAACGCCATAGATAGGAC
Found at i:51921468 original size:27 final size:27
Alignment explanation
Indices: 51921436--51921502 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
51921426 ACAAGGGCAT
* * *
51921436 TTCCTTCATAGTTCTCCATGCATACCA
1 TTCCTTCAGAGTTCACCATGAATACCA
*
51921463 TTCCTTTAGAGTTCACCATGAATACCA
1 TTCCTTCAGAGTTCACCATGAATACCA
51921490 TTCC-TCTAGAGTT
1 TTCCTTC-AGAGTT
51921503 TGCAACAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.37
Consensus pattern (27 bp):
TTCCTTCAGAGTTCACCATGAATACCA
Found at i:51921640 original size:26 final size:27
Alignment explanation
Indices: 51921585--51921656 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 27
51921575 TTTTTTTTAG
* ** * *
51921585 CCACAAAGGCTTTCACTTCATGGTTTT
1 CCACAAAAGCTTTCTTTTCATAGTTCT
51921612 CCACAAAAGCTTT-TTTTCATAGTTCT
1 CCACAAAAGCTTTCTTTTCATAGTTCT
* *
51921638 CCATAAAGGCTTTCTTTTC
1 CCACAAAAGCTTTCTTTTC
51921657 TAACGTGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 20 0.54
27 17 0.46
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (27 bp):
CCACAAAAGCTTTCTTTTCATAGTTCT
Found at i:51924628 original size:17 final size:16
Alignment explanation
Indices: 51924606--51924638 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
51924596 TTTTCGTCAA
51924606 ATCTTTTACTCTATATC
1 ATCTTTTACTC-ATATC
51924623 ATCTTTTACTCATATC
1 ATCTTTTACTCATATC
51924639 TCCTACAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (16 bp):
ATCTTTTACTCATATC
Found at i:51940889 original size:6 final size:6
Alignment explanation
Indices: 51940859--51940933 Score: 82
Period size: 6 Copynumber: 12.3 Consensus size: 6
51940849 AAGAAACATT
* *
51940859 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
*
51940906 GTGACAGA ATCAGA ATCAGA ATCAGA AT
1 AT--CAGA ATCAGA ATCAGA ATCAGA AT
51940934 TAGGTGACAA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
5 2 0.03
6 51 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:51940916 original size:25 final size:25
Alignment explanation
Indices: 51940885--51940978 Score: 98
Period size: 25 Copynumber: 3.5 Consensus size: 25
51940875 AAATGAGAAT
51940885 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
51940910 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATC------AGGTGA
* * *
51940941 CAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTGA
*
51940966 CAGAATTAGAATC
1 CAGAATCAGAATC
51940979 GTAATGTGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 35 0.60
31 23 0.40
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTGA
Found at i:51940918 original size:31 final size:31
Alignment explanation
Indices: 51940880--51940961 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
51940870 AATCAAAATG
51940880 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
*
51940911 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
51940942 AAAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAG
51940962 GTAACAGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:51941139 original size:27 final size:26
Alignment explanation
Indices: 51941102--51941209 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
51941092 AGCATGGCTG
* *
51941102 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
51941128 CCAGATACAGATATTGTGGCAGAGCCT
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
51941155 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
51941182 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
51941209 C
1 C
51941210 TTAACAGAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 11 0.16
27 52 0.74
28 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:51941192 original size:54 final size:53
Alignment explanation
Indices: 51941102--51941207 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
51941092 AGCATGGCTG
* * * *
51941102 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCT
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCT
* * *
51941155 CCAGAATAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCC
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCC
51941208 ACTTAACAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 11 0.24
54 34 0.76
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCT
Found at i:51941415 original size:22 final size:22
Alignment explanation
Indices: 51941367--51941418 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
51941357 GTAAATACGT
* *
51941367 TTGGCACGAAGCCATAGTCATG
1 TTGGCACAAAGCCATAGTCAGG
* * *
51941389 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAGG
51941411 TTGGCACA
1 TTGGCACA
51941419 GATCCATCGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAGG
Found at i:51941554 original size:27 final size:26
Alignment explanation
Indices: 51941516--51941595 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
51941506 ATCGGTTAAT
* * *
51941516 AGATATTATGGCAAAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
*
51941543 AGATATTGTGGCAGAGCCTCCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
51941569 AGATATTTGTGGCAGAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
51941596 GCTTCCTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 7 0.15
27 40 0.85
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:51941875 original size:27 final size:27
Alignment explanation
Indices: 51941819--51942074 Score: 343
Period size: 27 Copynumber: 9.5 Consensus size: 27
51941809 GGGTAAAATG
* * * *
51941819 GTAATTTTACCCCAC-AGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
51941845 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
51941872 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
51941899 ATAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
51941926 GTAATTCAACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
51941953 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
51941980 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
51942007 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
51942034 GTATTTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
51942061 GTAATGCTAGCCTA
1 GTAATTCTACCCTA
51942075 TAGATATGAG
Statistics
Matches: 203, Mismatches: 26, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
26 13 0.06
27 190 0.94
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:51941930 original size:81 final size:81
Alignment explanation
Indices: 51941835--51942077 Score: 387
Period size: 81 Copynumber: 3.0 Consensus size: 81
51941825 TTACCCCACA
* *
51941835 GGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
*
51941900 TAATTCTACCTTATAG
66 TAATTCTACCCTATAG
* * *
51941916 GGGTATTTCAGTAATTCAACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
51941981 TAATTCTACCCTATAG
66 TAATTCTACCCTATAG
* * *
51941997 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCTTACAAGGGTATTTCAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
* *
51942062 TAATGCTAGCCTATAG
66 TAATTCTACCCTATAG
51942078 ATATGAGATT
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 148 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
TAATTCTACCCTATAG
Found at i:51943934 original size:29 final size:27
Alignment explanation
Indices: 51943916--51943985 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
51943906 ATATTAAGTC
51943916 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
51943943 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
51943971 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
51943986 GTACAATTTA
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:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:51943979 original size:28 final size:28
Alignment explanation
Indices: 51943916--51944013 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
51943906 ATATTAAGTC
*
51943916 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51943943 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51943971 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
51944000 CGCGCACTTAGTGC
1 CGCACACTTAGTGC
51944014 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 22 0.35
28 23 0.37
29 18 0.29
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51956903 original size:22 final size:22
Alignment explanation
Indices: 51956852--51956931 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
51956842 ATATTAGTAT
* *
51956852 TAATAATAATGATAATAATAATA
1 TAATAATAATAATAA-AAAAATA
* * *
51956875 GAA-AATAAAAATAAAATAATA
1 TAATAATAATAATAAAAAAATA
* *
51956896 TAGTAATAGTAATAAAAAAATA
1 TAATAATAATAATAAAAAAATA
51956918 TAATAATAATAATA
1 TAATAATAATAATA
51956932 GTAATTTAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 8 0.17
22 36 0.78
23 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (22 bp):
TAATAATAATAATAAAAAAATA
Found at i:51956976 original size:3 final size:3
Alignment explanation
Indices: 51956783--51956960 Score: 116
Period size: 3 Copynumber: 61.0 Consensus size: 3
51956773 AAAACGATAG
* * * * * *
51956783 TAA TAA TAA TAT TGA TAA TAA TAC TAA TGA TAA TAA TAA GAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
51956831 TAA GAA TAT TAA TAT TAG TAT TAA TAA TAA TGA TAA TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * *
51956877 AAA TAA AAA TAA -AA TAA T-A TAG TAA TAG TAA TAA -AA AAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
51956921 TAA TAA TAA TAG TAA T-T TAA T-A CAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51956961 AAGGGTGATA
Statistics
Matches: 129, Mismatches: 39, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
2 10 0.08
3 117 0.91
4 2 0.02
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:51961416 original size:15 final size:15
Alignment explanation
Indices: 51961396--51961424 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51961386 ATGTGGGAGC
51961396 GGCTGTTGCTGCTGA
1 GGCTGTTGCTGCTGA
51961411 GGCTGTTGCTGCTG
1 GGCTGTTGCTGCTG
51961425 CTGTTGTTGC
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:0.03, C:0.21, G:0.41, T:0.34
Consensus pattern (15 bp):
GGCTGTTGCTGCTGA
Found at i:51961478 original size:3 final size:3
Alignment explanation
Indices: 51961472--51961499 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
51961462 AGCTGTGGGA
51961472 GCT GCT GCT GCT GCT GCT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT G
51961500 TGGCATCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (3 bp):
GCT
Found at i:51961493 original size:27 final size:27
Alignment explanation
Indices: 51961418--51961481 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
51961408 TGAGGCTGTT
51961418 GCTGCTGCTGTTGTTGCAGCTGTGGAA
1 GCTGCTGCTGTTGTTGCAGCTGTGGAA
*
51961445 GCTGCTGCTGTTGTTGCAGCTGTGGGA
1 GCTGCTGCTGTTGTTGCAGCTGTGGAA
51961472 GCTGCTGCTG
1 GCTGCTGCTG
51961482 CTGCTGCTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.08, C:0.20, G:0.39, T:0.33
Consensus pattern (27 bp):
GCTGCTGCTGTTGTTGCAGCTGTGGAA
Found at i:51976144 original size:15 final size:15
Alignment explanation
Indices: 51976116--51976149 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
51976106 GTGTTCAATT
51976116 GAATTAAATCGAATC
1 GAATTAAATCGAATC
* *
51976131 GAATTGAATTGAATC
1 GAATTAAATCGAATC
51976146 GAAT
1 GAAT
51976150 GAAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (15 bp):
GAATTAAATCGAATC
Found at i:51983331 original size:28 final size:28
Alignment explanation
Indices: 51983262--51983331 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
51983252 AATGAGATTG
*
51983262 GCACTAAGTGTGCAAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATA
*
51983290 GCACTAAGTGTGCGAGTTTGACTAT-TA-A
1 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
51983318 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51983332 GACTTACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 33 0.87
29 4 0.11
30 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTGTATA
Found at i:51989389 original size:10 final size:10
Alignment explanation
Indices: 51989354--51989399 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
51989344 TATAGTCCGA
51989354 CACATATCAAT
1 CACATAT-AAT
*
51989365 CACATATAAG
1 CACATATAAT
51989375 CACATATAAT
1 CACATATAAT
* *
51989385 TACATACAAT
1 CACATATAAT
51989395 CACAT
1 CACAT
51989400 TTAGTCATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (10 bp):
CACATATAAT
Found at i:51991448 original size:18 final size:18
Alignment explanation
Indices: 51991425--51991462 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
51991415 AAGCATAGAC
51991425 ATATGGAAAACATCATGA
1 ATATGGAAAACATCATGA
51991443 ATATGGAAAACATCATGA
1 ATATGGAAAACATCATGA
51991461 AT
1 AT
51991463 TTGATGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.24
Consensus pattern (18 bp):
ATATGGAAAACATCATGA
Found at i:51992725 original size:49 final size:47
Alignment explanation
Indices: 51992552--51992913 Score: 580
Period size: 47 Copynumber: 7.6 Consensus size: 47
51992542 CCCTTCGGGA
* * * * * *
51992552 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51992599 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51992646 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51992693 CTTATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51992742 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51992791 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51992838 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51992887 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
51992914 ACCAACCCTT
Statistics
Matches: 295, Mismatches: 14, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
47 156 0.53
49 139 0.47
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51992741 original size:96 final size:95
Alignment explanation
Indices: 51992552--51992913 Score: 584
Period size: 96 Copynumber: 3.8 Consensus size: 95
51992542 CCCTTCGGGA
* * * * * * * *
51992552 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
51992616 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
51992646 CTTATCGC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CACATATATA
51992710 CACTTTCACATTCATCACATCGGCCATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
51992742 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
51992807 ACTTTCACATTCATCACATCGGCCATTAGAC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
51992838 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51992903 ACTTTCACATT
65 ACTTTCACATT
51992914 ACCAACCCTT
Statistics
Matches: 253, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
94 43 0.17
96 166 0.66
98 44 0.17
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51993243 original size:40 final size:40
Alignment explanation
Indices: 51993138--51993280 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
51993128 GCTACTCGTT
*
51993138 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
51993178 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
51993218 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
51993259 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
51993281 AGACATCATT
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 74 0.82
41 13 0.14
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:52000658 original size:46 final size:46
Alignment explanation
Indices: 52000593--52000686 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
52000583 TTATGCATTT
52000593 TTTTATTAATAGTAACAGAGCATTATAATGAATTATAAACCATACA
1 TTTTATTAATAGTAACAGAGCATTATAATGAATTATAAACCATACA
52000639 TTTTATTAATAGTAACAGAGCATTATAATGAATTATAAACCATACA
1 TTTTATTAATAGTAACAGAGCATTATAATGAATTATAAACCATACA
52000685 TT
1 TT
52000687 CACTTTGTGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (46 bp):
TTTTATTAATAGTAACAGAGCATTATAATGAATTATAAACCATACA
Found at i:52004405 original size:10 final size:11
Alignment explanation
Indices: 52004359--52004405 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
52004349 TATATTCCGA
52004359 CACATATCAAT
1 CACATATCAAT
* *
52004370 CACATATAAAG
1 CACATATCAAT
52004381 CACATAT-AAT
1 CACATATCAAT
*
52004391 TACATA-CAAT
1 CACATATCAAT
52004401 CACAT
1 CACAT
52004406 TTAGTCACAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 14 0.47
11 16 0.53
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (11 bp):
CACATATCAAT
Found at i:52011055 original size:40 final size:39
Alignment explanation
Indices: 52011011--52011110 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 39
52011001 ACAATTCTAA
52011011 TATATATGGCACTTAGTGTGAAAGTCAAGAAA-ACTTCAGC
1 TATATATGGCACTTAGTGTGAAAGTC--GAAAGACTTCAGC
* ** * *
52011051 TATATTTGGCACTTAGTGTGCGATTCGAAATGACTTCGGC
1 TATATATGGCACTTAGTGTGAAAGTCGAAA-GACTTCAGC
52011091 TATATATGGCACTTAGTGTG
1 TATATATGGCACTTAGTGTG
52011111 TGAGACTGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
38 4 0.08
40 48 0.92
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (39 bp):
TATATATGGCACTTAGTGTGAAAGTCGAAAGACTTCAGC
Found at i:52035848 original size:11 final size:10
Alignment explanation
Indices: 52035821--52035870 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
52035811 AAATCTTAAC
52035821 TTTTTTATAT
1 TTTTTTATAT
* *
52035831 ATCTTTTAGAAT
1 -TTTTTTA-TAT
52035843 TTTTTTATAT
1 TTTTTTATAT
52035853 TTTTTATATAT
1 TTTTT-TATAT
52035864 TTTTTTA
1 TTTTTTA
52035871 AAAATATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 9 0.27
11 22 0.67
12 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:52035893 original size:27 final size:27
Alignment explanation
Indices: 52035862--52035915 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
52035852 TTTTTTATAT
*
52035862 ATTTTTTTAAA-AATATAAATTTTAAA
1 ATTTTTATAAATAATATAAATTTTAAA
* *
52035888 ATTTTTATAAATATTTTAAATTTTAAA
1 ATTTTTATAAATAATATAAATTTTAAA
52035915 A
1 A
52035916 ATTATTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTTTTATAAATAATATAAATTTTAAA
Found at i:52035910 original size:19 final size:19
Alignment explanation
Indices: 52035875--52035931 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
52035865 TTTTTAAAAA
*
52035875 TATAAAT-TTTAAAATTTT
1 TATAAATATTTTAAATTTT
52035893 TATAAATATTTTAAA-TTT
1 TATAAATATTTTAAATTTT
* *
52035911 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTAAATTTT
52035931 T
1 T
52035932 TTTATAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 15 0.45
19 14 0.42
20 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:52035912 original size:18 final size:18
Alignment explanation
Indices: 52035875--52035930 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
52035865 TTTTTAAAAA
*
52035875 TATAAAT-TTTAAAATTTT
1 TATAAATATTTTAAA-TTT
52035893 TATAAATATTTTAAATTT
1 TATAAATATTTTAAATTT
* *
52035911 TAAAAATTATTTTGAATTT
1 TATAAA-TATTTTAAATTT
52035930 T
1 T
52035931 TTTTATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TATAAATATTTTAAATTT
Found at i:52040304 original size:23 final size:23
Alignment explanation
Indices: 52040276--52040600 Score: 217
Period size: 23 Copynumber: 14.1 Consensus size: 23
52040266 AATACACTGT
**
52040276 AAAGGCATTACAGAATATAACAC
1 AAAGGCATTACAGAATATGTCAC
* * *
52040299 ATAGGCACTACTA-AATATGCCAC
1 AAAGGCATTAC-AGAATATGTCAC
52040322 AAAGGCATTACAGAATATGTCAC
1 AAAGGCATTACAGAATATGTCAC
52040345 AAAGGCATTACAGAATATGTCAC
1 AAAGGCATTACAGAATATGTCAC
* * *
52040368 AAAGACATTATAGAATATGCCAC
1 AAAGGCATTACAGAATATGTCAC
* * * *
52040391 AAAGGTATTATAGAATACGCCAC
1 AAAGGCATTACAGAATATGTCAC
** * *
52040414 AAAGAAATTA-ATGAATATGCCTC
1 AAAGGCATTACA-GAATATGTCAC
*** *
52040437 AAAGGCATTAC-GAAATACACCTC
1 AAAGGCATTACAG-AATATGTCAC
***
52040460 AAAGGCATTAC-GAAATACACCAC
1 AAAGGCATTACAG-AATATGTCAC
** * *
52040483 AAAGGCATTATGGAATACGCCAC
1 AAAGGCATTACAGAATATGTCAC
* * * *
52040506 AAAGGCATTATAGAATACGCCAT
1 AAAGGCATTACAGAATATGTCAC
* * *
52040529 AAAGGCATTACAGAATACGCCAT
1 AAAGGCATTACAGAATATGTCAC
** * * *
52040552 AAATACATTATAGAATATGCCAT
1 AAAGGCATTACAGAATATGTCAC
* *
52040575 AAAGGCATTACAAAATATGCCAC
1 AAAGGCATTACAGAATATGTCAC
52040598 AAA
1 AAA
52040601 AGCTCTGTTT
Statistics
Matches: 260, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
22 3 0.01
23 255 0.98
24 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (23 bp):
AAAGGCATTACAGAATATGTCAC
Found at i:52040351 original size:46 final size:46
Alignment explanation
Indices: 52040276--52040600 Score: 284
Period size: 46 Copynumber: 7.1 Consensus size: 46
52040266 AATACACTGT
** * * *
52040276 AAAGGCATTACAGAATATAACACATAGGCACTACTAAATATGCCAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATACGCCAC
* * *
52040322 AAAGGCATTACAGAATATGTCACAAAGGCATTAC-AGAATATGTCAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTA-AATACGCCAC
* * *
52040368 AAAGACATTATAGAATATGCCACAAAGGTATTA-TAGAATACGCCAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTA-AATACGCCAC
** * * * *
52040414 AAAGAAATTA-ATGAATATGCCTCAAAGGCATTACGAAATACACCTC
1 AAAGGCATTACA-GAATATGCCACAAAGGCATTACTAAATACGCCAC
** *
52040460 AAAGGCATTAC-GAAATACACCACAAAGGCATTA-TGGAATACGCCAC
1 AAAGGCATTACAG-AATATGCCACAAAGGCATTACT-AAATACGCCAC
* * * *
52040506 AAAGGCATTATAGAATACGCCATAAAGGCATTAC-AGAATACGCCAT
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTA-AATACGCCAC
** * * * *
52040552 AAATACATTATAGAATATGCCATAAAGGCATTACAAAATATGCCAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATACGCCAC
52040598 AAA
1 AAA
52040601 AGCTCTGTTT
Statistics
Matches: 232, Mismatches: 36, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
45 3 0.01
46 226 0.97
47 3 0.01
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (46 bp):
AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATACGCCAC
Found at i:52040360 original size:69 final size:69
Alignment explanation
Indices: 52040276--52040600 Score: 325
Period size: 69 Copynumber: 4.7 Consensus size: 69
52040266 AATACACTGT
** * * *
52040276 AAAGGCATTACAGAATATAACACATAGGCACTACTAAATATGCCACAAAGGCATTACAGAATATG
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATATGCCACAAAGGCATTACAGAATACG
*
52040341 TCAC
66 CCAC
* * * *
52040345 AAAGGCATTACAGAATATGTCACAAAGACATTA-TAGAATATGCCACAAAGGTATTATAGAATAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTA-AATATGCCACAAAGGCATTACAGAATAC
52040409 GCCAC
65 GCCAC
** * * ** *
52040414 AAAGAAATTA-ATGAATATGCCTCAAAGGCATTACGAAATACACCTCAAAGGCATTAC-GAAATA
1 AAAGGCATTACA-GAATATGCCACAAAGGCATTACTAAATATGCCACAAAGGCATTACAG-AATA
*
52040477 CACCAC
64 CGCCAC
** * * *
52040483 AAAGGCATTATGGAATACGCCACAAAGGCATTA-TAGAATACGCCATAAAGGCATTACAGAATAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTA-AATATGCCACAAAGGCATTACAGAATAC
*
52040547 GCCAT
65 GCCAC
** * * *
52040552 AAATACATTATAGAATATGCCATAAAGGCATTACAAAATATGCCACAAA
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATATGCCACAAA
52040601 AGCTCTGTTT
Statistics
Matches: 208, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
68 5 0.02
69 200 0.96
70 3 0.01
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (69 bp):
AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATATGCCACAAAGGCATTACAGAATACG
CCAC
Found at i:52054425 original size:40 final size:40
Alignment explanation
Indices: 52054381--52054511 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
52054371 GAACTAAGAT
52054381 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
52054421 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
52054461 CCGAAGGCGTTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
52054501 CCGAAGGCATT
1 CCGAAGGCATT
52054512 GTATGAGTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 80 0.99
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:52054532 original size:39 final size:38
Alignment explanation
Indices: 52054381--52054548 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 38
52054371 GAACTAAGAT
* *
52054381 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCA-TTGTGCGAGTTACTAA-ACCGGGTTAAGTC
* * *
52054421 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAA-ACCGGGTTAAGTC
* *
52054461 CCGAAGGCGTTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATT-GTGCGAGTTACT-AAA-CCGGGTTAAGTC
** * *
52054501 CCGAAGGCATTGTATGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTA-AACCGGGTTAAGTC
52054540 CCGAAGGCA
1 CCGAAGGCA
52054549 CTTGAACGAG
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
39 31 0.28
40 77 0.71
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (38 bp):
CCGAAGGCATTGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:52056975 original size:16 final size:16
Alignment explanation
Indices: 52056954--52056984 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52056944 AGAAATGCAT
52056954 AAAAAGGACTAAATTG
1 AAAAAGGACTAAATTG
*
52056970 AAAAAGGAGTAAATT
1 AAAAAGGACTAAATT
52056985 AAGTGAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.19, T:0.19
Consensus pattern (16 bp):
AAAAAGGACTAAATTG
Found at i:52062832 original size:40 final size:40
Alignment explanation
Indices: 52062802--52062987 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
52062792 GCTACTCGTT
*
52062802 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
52062842 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
52062882 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
52062922 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
52062963 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52062988 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.87
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:52067584 original size:40 final size:40
Alignment explanation
Indices: 52067432--52067577 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
52067422 TTGAACGATG
* * * *
52067432 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
52067472 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52067512 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
52067553 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52067578 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52067584 original size:80 final size:80
Alignment explanation
Indices: 52067432--52067610 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
52067422 TTGAACGATG
* *
52067432 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
52067497 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
52067512 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCTGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGATCC-GAAGGCAT
*
52067575 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
52067592 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
52067611 TACGTGATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
79 19 0.23
80 58 0.69
81 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:52075396 original size:40 final size:37
Alignment explanation
Indices: 52075339--52075537 Score: 197
Period size: 40 Copynumber: 5.1 Consensus size: 37
52075329 TTGAATGATG
* *
52075339 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTA-A
*
52075379 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTACTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTACTAA
52075417 TCC-GGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAG-TACT-AA
*
52075454 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAG-TACTA-A
* * **
52075493 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTA-CTA-A
52075533 TCCGG
1 TCCGG
52075538 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 11, Indels: 18
0.83 0.07 0.11
Matches are distributed among these distances:
35 19 0.14
36 4 0.03
37 11 0.08
38 11 0.08
39 39 0.28
40 47 0.34
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (37 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTACTAA
Found at i:52075481 original size:39 final size:39
Alignment explanation
Indices: 52075339--52075518 Score: 210
Period size: 39 Copynumber: 4.6 Consensus size: 39
52075329 TTGAATGATG
* * * *
52075339 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
52075379 TCCGGACTAAGATCCGAAGGCATTTGTGCGAG-TACT-AA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
52075417 TCC-GGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
52075454 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
*
52075494 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
52075519 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
35 19 0.15
36 4 0.03
37 11 0.09
38 10 0.08
39 36 0.29
40 35 0.28
41 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52075536 original size:79 final size:74
Alignment explanation
Indices: 52075376--52075551 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 74
52075366 CTAAGTGACC
** * *
52075376 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTACTAATCCGGCTAAGCCGAAGGCATTTGT
1 ATATCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTACTAAACCGGCTAAGCCGAAGGCATTTGA
*
52075441 GCGAGTTACT
65 ACGAGTTACT
* *
52075451 AAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCAT
1 ATATCCGGGTTAAGTCCGAAGGCATTTGTGCGAG-TACTA-AACC-GGCTAAG--CCGAAGGCAT
52075516 TTGAACGAG-TAGCT
61 TTGAACGAGTTA-CT
*
52075530 ATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGTT-AAGTCCGAAGG
52075552 TACGTGATTT
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
74 20 0.24
75 16 0.19
76 3 0.04
77 6 0.07
78 6 0.07
79 34 0.40
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (74 bp):
ATATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTACTAAACCGGCTAAGCCGAAGGCATTTGAA
CGAGTTACT
Found at i:52080483 original size:47 final size:47
Alignment explanation
Indices: 52080425--52080673 Score: 294
Period size: 47 Copynumber: 5.3 Consensus size: 47
52080415 GCCATGTCTT
*
52080425 GACATGGTCTTACA-TGAATCACATATCATCGCTGATGCCATGCCCCA
1 GACATGGTCTTACACTGAA-CACATATCATCGCTGATGCCATGTCCCA
* * *
52080472 GACATGATCTTACACTGCACACATATCATC-ATCGATGCCATGTCCCA
1 GACATGGTCTTACACTGAACACATATCATCGCT-GATGCCATGTCCCA
* * * *
52080519 AACATGGTCTTACA-TTAACACATATCATTG-TCGATGCCATGTCCTA
1 GACATGGTCTTACACTGAACACATATCATCGCT-GATGCCATGTCCCA
* *
52080565 GACATGGTC-TACACTGGCACACATATCATCGCCGATGCCATGTCCCA
1 GACATGGTCTTACACT-GAACACATATCATCGCTGATGCCATGTCCCA
* *
52080612 GACATGGTCTTACACTGGTACAC-TATCATCGCTGATGCCATGTTCCA
1 GACATGGTCTTACACT-GAACACATATCATCGCTGATGCCATGTCCCA
*
52080659 CACATGGTCTTACAC
1 GACATGGTCTTACAC
52080674 AGGCACATTT
Statistics
Matches: 175, Mismatches: 20, Indels: 14
0.84 0.10 0.07
Matches are distributed among these distances:
45 4 0.02
46 37 0.21
47 119 0.68
48 15 0.09
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (47 bp):
GACATGGTCTTACACTGAACACATATCATCGCTGATGCCATGTCCCA
Found at i:52080541 original size:93 final size:94
Alignment explanation
Indices: 52080426--52080680 Score: 331
Period size: 93 Copynumber: 2.7 Consensus size: 94
52080416 CCATGTCTTG
* * *
52080426 ACATGGTCTTACATGAATCACATATCATCGCTGATGCCATGCCCCAGACATGATCTTACACT-GC
1 ACATGGTCTTACATTAA-CACATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGC
*
52080490 ACACATATCATCATCGATGCCATGTCCCAA
65 ACACATATCATCACCGATGCCATGTCCCAA
* *
52080520 ACATGGTCTTACATTAACACATATCATTG-TCGATGCCATGTCCTAGACATGGTC-TACACTGGC
1 ACATGGTCTTACATTAACACATATCATCGCT-GATGCCATGTCCCAGACATGGTCTTACACTGGC
* *
52080583 ACACATATCATCGCCGATGCCATGTCCCAG
65 ACACATATCATCACCGATGCCATGTCCCAA
* * *
52080613 ACATGGTCTTACACTGGT-ACAC-TATCATCGCTGATGCCATGTTCCACACATGGTCTTACACAG
1 ACATGGTCTTACA-T--TAACACATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTG
52080676 GCACA
63 GCACA
52080681 TTTAGCACAG
Statistics
Matches: 141, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
92 7 0.05
93 73 0.52
94 44 0.31
95 16 0.11
96 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (94 bp):
ACATGGTCTTACATTAACACATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCA
CACATATCATCACCGATGCCATGTCCCAA
Found at i:52080681 original size:140 final size:139
Alignment explanation
Indices: 52080413--52080672 Score: 357
Period size: 140 Copynumber: 1.9 Consensus size: 139
52080403 ATAAGTACCA
* *
52080413 ATGCCATGTCTTGACATGGTCTTACATGAATCACATATCATCGCTGATGCCATGCCCCAGACATG
1 ATGCCATGTCTAGACATGGTCTTACATGAATCACATATCATCGCCGATGCCATGCCCCAGACATG
*
52080478 ATCTTACACTGCACACATATCATCATCGATGCCATGTCCCAAACATGGTCTTACATTAACACATA
66 ATCTTACACTGCACACATATCATCATCGATGCCATGTCCCAAACATGGTCTTACATCAACACATA
52080543 TCATTGTCG
131 TCATTGTCG
* *
52080552 ATGCCATGTCCTAGACATGGTC-TACACTGGCA-CACATATCATCGCCGATGCCATGTCCCAGAC
1 ATGCCATGT-CTAGACATGGTCTTACA-T-GAATCACATATCATCGCCGATGCCATGCCCCAGAC
* * * * *
52080615 ATGGTCTTACACTGGTACAC-TATCATC-GCTGATGCCATGTTCCACACATGGTCTTACA
63 ATGATCTTACACT-GCACACATATCATCATC-GATGCCATGTCCCAAACATGGTCTTACA
52080673 CAGGCACATT
Statistics
Matches: 107, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
139 14 0.13
140 86 0.80
141 7 0.07
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (139 bp):
ATGCCATGTCTAGACATGGTCTTACATGAATCACATATCATCGCCGATGCCATGCCCCAGACATG
ATCTTACACTGCACACATATCATCATCGATGCCATGTCCCAAACATGGTCTTACATCAACACATA
TCATTGTCG
Found at i:52081138 original size:30 final size:30
Alignment explanation
Indices: 52081081--52081139 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
52081071 CAAAAATCAT
* *
52081081 ACTTTTACAAATTTACATTTTTACCCCTAA
1 ACTTTCACAAATTTACATATTTACCCCTAA
*
52081111 ACTTTCACATATTTACA-ATTTAGCCCCTA
1 ACTTTCACAAATTTACATATTTA-CCCCTA
52081140 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.41
Consensus pattern (30 bp):
ACTTTCACAAATTTACATATTTACCCCTAA
Found at i:52095641 original size:42 final size:42
Alignment explanation
Indices: 52095554--52095641 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
52095544 TCTCGATATA
* *
52095554 ATATATATCCAGGTTAAATCCCGCAGGCTTCATGCTGGTAAT
1 ATATATATCCAGGTTAAATCCCGCAGGCTTCATACTAGTAAT
* *
52095596 ATATATATCCGGGTTAAATCCCGCAGGCTT-AGTACTAGTACT
1 ATATATATCCAGGTTAAATCCCGCAGGCTTCA-TACTAGTAAT
52095638 ATAT
1 ATAT
52095642 CCGGACTTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 40 0.98
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (42 bp):
ATATATATCCAGGTTAAATCCCGCAGGCTTCATACTAGTAAT
Found at i:52103451 original size:29 final size:30
Alignment explanation
Indices: 52103409--52103508 Score: 111
Period size: 29 Copynumber: 3.4 Consensus size: 30
52103399 CTGTATCTGG
*
52103409 CCCATTAAGCCC-AATCATATTCATATGGC
1 CCCATTAGGCCCAAATCATATTCATATGGC
*
52103438 CCCTTTAGGCCCAAATCACCTA-T-ATATGG-
1 CCCATTAGGCCCAAATCA--TATTCATATGGC
*
52103467 CCCATTAGGCCCAAATCACATTCATATGG-
1 CCCATTAGGCCCAAATCATATTCATATGGC
*
52103496 CCTATTAGGCCCA
1 CCCATTAGGCCCA
52103509 GTCACATCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 45 0.74
30 11 0.18
31 1 0.02
32 2 0.03
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.26
Consensus pattern (30 bp):
CCCATTAGGCCCAAATCATATTCATATGGC
Found at i:52103504 original size:58 final size:57
Alignment explanation
Indices: 52103397--52103508 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 57
52103387 AAATTCACAT
* * *
52103397 ACCTGTATCTGGCCCATTAAGCCCAATCATATTCATATGGCCCCTTTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGG-CCCTTTAGGCCCAAATC
*
52103455 ACCTATATATGGCCCATTAGGCCCAAATCACATTCATATGG-CCTATTAGGCCCA
1 ACCTATATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCT-TTAGGCCCA
52103509 GTCACATCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 3 0.06
58 30 0.62
59 15 0.31
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (57 bp):
ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCTTTAGGCCCAAATC
Found at i:52105034 original size:16 final size:17
Alignment explanation
Indices: 52105013--52105045 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
52105003 AAATTCAAGA
52105013 TTTTGGGA-TTTTGGGG
1 TTTTGGGATTTTTGGGG
52105029 TTTTGGGATTTTTGGGG
1 TTTTGGGATTTTTGGGG
52105046 CGTTACACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.06, C:0.00, G:0.42, T:0.52
Consensus pattern (17 bp):
TTTTGGGATTTTTGGGG
Found at i:52105044 original size:9 final size:8
Alignment explanation
Indices: 52105011--52105040 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
52105001 AAAAATTCAA
52105011 GATTTTGG
1 GATTTTGG
52105019 GATTTTGG
1 GATTTTGG
*
52105027 GGTTTTGG
1 GATTTTGG
52105035 GATTTT
1 GATTTT
52105041 TGGGGCGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.37, T:0.53
Consensus pattern (8 bp):
GATTTTGG
Found at i:52106210 original size:27 final size:27
Alignment explanation
Indices: 52106175--52106397 Score: 150
Period size: 27 Copynumber: 8.3 Consensus size: 27
52106165 CCAATTATAG
* *
52106175 AAATGCCCTCGACTTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
* * * * *
52106202 AAGTACCCTCGATTTATAGAATCACTA
1 AAATACCCTCGATTTGTAAAATTACCA
*** * **
52106229 TTTTACCCTCAATTTACAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
*** * *
52106256 TTTTACCCTCGA-TTGTGAAATTACTA
1 AAATACCCTCGATTTGTAAAATTACCA
** *
52106282 AAATACCCTTAC-A-GGGTAGAATTACCA
1 AAATACCC-T-CGATTTGTAAAATTACCA
*
52106309 AAATACCC-CTAGTTTGTAAAATTACCA
1 AAATACCCTCGA-TTTGTAAAATTACCA
* *
52106336 AAATACCACT-GGTTTGTGAAATTACCA
1 AAATACC-CTCGATTTGTAAAATTACCA
*
52106363 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
52106390 AAATACCC
1 AAATACCC
52106398 CTGATTTACA
Statistics
Matches: 151, Mismatches: 37, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 17 0.11
27 130 0.86
28 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACCA
Found at i:52106414 original size:27 final size:26
Alignment explanation
Indices: 52106301--52106424 Score: 103
Period size: 27 Copynumber: 4.6 Consensus size: 26
52106291 TACAGGGTAG
*
52106301 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGATT-TAA
* * * *
52106328 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGATT-TAA
52106355 AATTACCAAAATA-CCCTCA-ATTTGTAA
1 AATTACCAAAATACCCCT-AGA-TT-TAA
52106382 AATTACCAAAATACCCCT-GATTTACA
1 AATTACCAAAATACCCCTAGATTTA-A
52106408 AATTTA-CAGAAATACCC
1 AA-TTACCA-AAATACCC
52106425 TTGACTTTCT
Statistics
Matches: 83, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
25 2 0.02
26 10 0.12
27 67 0.81
28 4 0.05
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (26 bp):
AATTACCAAAATACCCCTAGATTTAA
Found at i:52106421 original size:54 final size:54
Alignment explanation
Indices: 52106301--52106425 Score: 157
Period size: 54 Copynumber: 2.3 Consensus size: 54
52106291 TACAGGGTAG
* * **
52106301 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCACTGATTTGACA
*
52106355 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT-ACA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTGACA
52106408 AATTTA-CAGAAATACCCT
1 AA-TTACCA-AAATACCCT
52106426 TGACTTTCTA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
53 5 0.08
54 57 0.90
55 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTGACA
Found at i:52106476 original size:27 final size:27
Alignment explanation
Indices: 52106436--52106487 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
52106426 TGACTTTCTA
52106436 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
52106463 AAAATTACTA-AAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
52106488 GTAGATTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:52106605 original size:27 final size:27
Alignment explanation
Indices: 52106541--52106605 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
52106531 ACCTCTAATA
*
52106541 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
52106568 GGTAAAGTGACCGTAATA-CCCCTGT-G
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
52106594 TGGTAAAATGAC
1 -GGTAAAATGAC
52106606 GAATATGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.94
28 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:52107501 original size:24 final size:25
Alignment explanation
Indices: 52107425--52107494 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
52107415 AGGAAGTGCT
* * * *
52107425 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
52107450 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
52107475 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
52107495 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:52107507 original size:24 final size:24
Alignment explanation
Indices: 52107450--52107521 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
52107440 TAGTTTACCG
52107450 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
52107474 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
52107498 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
52107522 ATGATAAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:52113613 original size:20 final size:20
Alignment explanation
Indices: 52113590--52113628 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
52113580 TAAACATGGT
52113590 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
52113610 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
52113629 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:52113740 original size:24 final size:24
Alignment explanation
Indices: 52113679--52113819 Score: 155
Period size: 24 Copynumber: 6.0 Consensus size: 24
52113669 GAGGAAGTGA
* * *
52113679 AAAAGGGTTTACGCCCCAATTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
52113702 TAAAGGG-TTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
52113725 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52113749 AAAAGGGCTTACGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52113773 AAAAGTGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
52113796 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
52113820 ATGATAAAGG
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.13
23 29 0.28
24 52 0.51
25 8 0.08
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:52150309 original size:54 final size:54
Alignment explanation
Indices: 52150246--52150352 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
52150236 ATAGGAATAG
*
52150246 TTAAGATACATATGTCATGACATAGGATTTTCGATATGTGATTTCATGTAAGAT
1 TTAAGATACATATGTCATGACATAGGATTTTCAATATGTGATTTCATGTAAGAT
*
52150300 TTAAGATACATATGTCATGACATAGGATTTTCAATATGTGATTTCGTGTAAGA
1 TTAAGATACATATGTCATGACATAGGATTTTCAATATGTGATTTCATGTAAGA
52150353 CCACGTTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (54 bp):
TTAAGATACATATGTCATGACATAGGATTTTCAATATGTGATTTCATGTAAGAT
Found at i:52150418 original size:44 final size:42
Alignment explanation
Indices: 52150339--52150502 Score: 140
Period size: 43 Copynumber: 3.8 Consensus size: 42
52150329 TTCAATATGT
*
52150339 GATTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGAT-TTGA
1 GATTTCGTGTAAGACCACGTTTGGGACATTGGCATC-ATATT-A
* *
52150382 GATTTACGTGTAAGACCATGTTTGGGACATCT-GCATCATATTT
1 GATTT-CGTGTAAGACCACGTTTGGGACAT-TGGCATCATATTA
* * *
52150425 GATTTCGTGTAAGACC-C-TATCCT-GGACAGTGGCATTGATATTT
1 GATTTCGTGTAAGACCACGT-T--TGGGACATTGGCA-TCATATTA
* * *
52150468 GATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 GATTTCGTGTAAGACCACGTTTGGGACATTGGCAT
52150503 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 10, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 21 0.21
43 44 0.44
44 30 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
GATTTCGTGTAAGACCACGTTTGGGACATTGGCATCATATTA
Found at i:52150775 original size:29 final size:29
Alignment explanation
Indices: 52150711--52150776 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
52150701 CTTTCATTTA
* *
52150711 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
52150740 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
52150768 TTTACTCAA
1 TTT-CTCAA
52150777 AATCTCTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:52154102 original size:42 final size:41
Alignment explanation
Indices: 52153990--52154193 Score: 174
Period size: 43 Copynumber: 4.8 Consensus size: 41
52153980 CATAAGCTCG
* * **
52153990 TACAATGCCAATGTCCCAGACGTGGTCTTACATGTTATCAAA
1 TACAATG-CAATGTCCCAGACATGGTCTTACACGAAATCAAA
* * * * *
52154032 TATCGATGCTACTGTCCTAGACAAGGTCTTACACGAAATCATA
1 TA-CAATGC-AATGTCCCAGACATGGTCTTACACGAAATCAAA
* * **
52154075 TACAATGTCAATGTCCCAGACGTGGTCTTACATGTTATCAAA
1 TACAATG-CAATGTCCCAGACATGGTCTTACACGAAATCAAA
* * * * *
52154117 TATCGATGCTACTGTCCTAGACAAGGTCTTACACGAAATCATA
1 TA-CAATGC-AATGTCCCAGACATGGTCTTACACGAAATCAAA
*
52154160 TACAATGTCAATGTCCCAAACATGGTCTTACACG
1 TACAATG-CAATGTCCCAGACATGGTCTTACACG
52154194 TTAACACATA
Statistics
Matches: 124, Mismatches: 32, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
42 60 0.48
43 64 0.52
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (41 bp):
TACAATGCAATGTCCCAGACATGGTCTTACACGAAATCAAA
Found at i:52154128 original size:85 final size:85
Alignment explanation
Indices: 52153990--52154196 Score: 378
Period size: 85 Copynumber: 2.4 Consensus size: 85
52153980 CATAAGCTCG
*
52153990 TACAATGCCAATGTCCCAGACGTGGTCTTACATGTTATCAAATATCGATGCTACTGTCCTAGACA
1 TACAATGTCAATGTCCCAGACGTGGTCTTACATGTTATCAAATATCGATGCTACTGTCCTAGACA
52154055 AGGTCTTACACGAAATCATA
66 AGGTCTTACACGAAATCATA
52154075 TACAATGTCAATGTCCCAGACGTGGTCTTACATGTTATCAAATATCGATGCTACTGTCCTAGACA
1 TACAATGTCAATGTCCCAGACGTGGTCTTACATGTTATCAAATATCGATGCTACTGTCCTAGACA
52154140 AGGTCTTACACGAAATCATA
66 AGGTCTTACACGAAATCATA
* * *
52154160 TACAATGTCAATGTCCCAAACATGGTCTTACACGTTA
1 TACAATGTCAATGTCCCAGACGTGGTCTTACATGTTA
52154197 ACACATATGG
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 118 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (85 bp):
TACAATGTCAATGTCCCAGACGTGGTCTTACATGTTATCAAATATCGATGCTACTGTCCTAGACA
AGGTCTTACACGAAATCATA
Found at i:52154532 original size:28 final size:29
Alignment explanation
Indices: 52154485--52154541 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
52154475 ACAAATTAAG
52154485 TCGACTAATCCGATACTTTC-ATTTTCCC
1 TCGACTAATCCGATACTTTCGATTTTCCC
*
52154513 TCGATCTAGATCCGA-A-TTTCGCTTTTCCC
1 TCGA-CTA-ATCCGATACTTTCGATTTTCCC
52154542 AATCCAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 8 0.32
29 11 0.44
30 6 0.24
ACGTcount: A:0.19, C:0.32, G:0.11, T:0.39
Consensus pattern (29 bp):
TCGACTAATCCGATACTTTCGATTTTCCC
Found at i:52160883 original size:39 final size:39
Alignment explanation
Indices: 52160829--52160944 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 39
52160819 TTCAGTGATG
*
52160829 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
52160868 TATATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
52160907 TATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
52160945 ATATGTTAGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:52160972 original size:39 final size:39
Alignment explanation
Indices: 52160829--52160981 Score: 117
Period size: 39 Copynumber: 3.9 Consensus size: 39
52160819 TTCAGTGATG
* * * * * *
52160829 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCAGGACTAAAGGTCCGCAGGCTACGTGCTGGAAA
* * * * * *
52160868 TATATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCAGGACTAAAGGTCCGCAGGCTACGTGCTGGAAA
* * *
52160907 TATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAA
1 TATATCAGGACTAAAGGTCCGCAGGCTACGTGCTGGAAA
* * * * * *
52160946 TATGTTAGGGCTAAAGTTCCGCAGGCTTCGAGCTGG
1 TATATCAGGACTAAAGGTCCGCAGGCTACGTGCTGG
52160982 TATTATACCG
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 98 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCAGGACTAAAGGTCCGCAGGCTACGTGCTGGAAA
Found at i:52167510 original size:39 final size:39
Alignment explanation
Indices: 52167456--52167581 Score: 225
Period size: 39 Copynumber: 3.2 Consensus size: 39
52167446 TTCAGTGATG
52167456 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
52167495 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
52167534 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
52167573 TATGTCCGG
1 TATATCCGG
52167582 GCTAAAGTCC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:52167597 original size:39 final size:39
Alignment explanation
Indices: 52167456--52167651 Score: 220
Period size: 39 Copynumber: 5.0 Consensus size: 39
52167446 TTCAGTGATG
*
52167456 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
52167495 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
52167534 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
52167573 TATGTCCGGGC-TAAAGTCCTGCAGGCT-TCGAGCTGGTAT
1 TATATCCGGACTTAAGGTCC-GCAGGCTAT-GTGCTGGAAT
** **
52167612 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AAT
52167651 T
1 T
52167652 GGTTTCAAGT
Statistics
Matches: 139, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
38 19 0.14
39 118 0.85
40 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:52170655 original size:30 final size:30
Alignment explanation
Indices: 52170621--52170681 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52170611 TCCTTAACTC
52170621 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
52170651 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
52170681 A
1 A
52170682 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Done.