Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 173 of 438
Found at i:53159152 original size:19 final size:19
Alignment explanation
Indices: 53159128--53159170 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
53159118 TTACCTGCTG
53159128 ACAAATTAAACATTTCGAT
1 ACAAATTAAACATTTCGAT
53159147 ACAAATTAAACATTTCGAT
1 ACAAATTAAACATTTCGAT
53159166 ACAAA
1 ACAAA
53159171 CATTTTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (19 bp):
ACAAATTAAACATTTCGAT
Found at i:53162058 original size:48 final size:48
Alignment explanation
Indices: 53161997--53162264 Score: 378
Period size: 48 Copynumber: 5.6 Consensus size: 48
53161987 TGTGTAACCA
* *
53161997 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTTTGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAG
* *
53162045 TGTAAAACTATGTCTGGGACATGGCATC-AGCATTGTTATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CATTGTTATGTGAGCCAG
* * *
53162093 TGTAAGACCATGTTTAGGACATGGCATTGACATTGTTATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAG
* *
53162141 TGTAAGACCATGTTTGGGACATGGCATCGACATCT-TTATGTGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACAT-TGTTATGTGAGCCAG
* * * *
53162189 TGTAAGACCATGCCTGAGACATGGCATCGACATCGTTATGTGAGCCAT
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAG
*
53162237 TGTAATACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
53162265 AGCATGAGGC
Statistics
Matches: 195, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
48 193 0.99
49 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAG
Found at i:53163117 original size:15 final size:16
Alignment explanation
Indices: 53163099--53163128 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53163089 TATTTTTTAA
53163099 ATTTTCAAT-GAATCT
1 ATTTTCAATAGAATCT
53163114 ATTTTCAATAGAATC
1 ATTTTCAATAGAATC
53163129 AAACGAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (16 bp):
ATTTTCAATAGAATCT
Found at i:53165606 original size:17 final size:18
Alignment explanation
Indices: 53165564--53165612 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
53165554 AGTTGAAAAG
53165564 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
53165583 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
53165600 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
53165613 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:53166501 original size:40 final size:40
Alignment explanation
Indices: 53166435--53166601 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
53166425 AAATTGAATG
* * *
53166435 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
53166474 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
53166514 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
53166554 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
53166594 ATATCCGG
1 ATATCCGG
53166602 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:53173610 original size:17 final size:18
Alignment explanation
Indices: 53173568--53173616 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
53173558 AGTTGAAAAG
53173568 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
53173587 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
53173604 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
53173617 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:53174501 original size:40 final size:40
Alignment explanation
Indices: 53174435--53174585 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
53174425 AAATTGAATG
* * *
53174435 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
53174474 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
53174514 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
53174554 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
53174586 ACTGATTATA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:53178556 original size:22 final size:18
Alignment explanation
Indices: 53178533--53178570 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
53178523 ATTTTATGCT
53178533 TACTTAGTTTTATTTCCC
1 TACTTAGTTTTATTTCCC
53178551 TACTTAGTTTTATTTCCC
1 TACTTAGTTTTATTTCCC
53178569 TA
1 TA
53178571 TTTTAGAGTA
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:0.18, C:0.21, G:0.05, T:0.55
Consensus pattern (18 bp):
TACTTAGTTTTATTTCCC
Found at i:53180284 original size:22 final size:22
Alignment explanation
Indices: 53180270--53180332 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
53180260 CACACCGGTA
53180270 TGGTCCAAGGGACACGCCCTTG
1 TGGTCCAAGGGACACGCCCTTG
*
53180292 TGGTCCAAGAGACACGCCCTTG
1 TGGTCCAAGGGACACGCCCTTG
53180314 TGGTCCAAGGGACACGCCC
1 TGGTCCAAGGGACACGCCC
53180333 GTGTTCGACC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.21, C:0.33, G:0.30, T:0.16
Consensus pattern (22 bp):
TGGTCCAAGGGACACGCCCTTG
Found at i:53185126 original size:40 final size:40
Alignment explanation
Indices: 53185081--53185247 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
53185071 CGGAATATAA
53185081 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53185121 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53185161 CCGGA-ATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
53185200 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53185240 CCGGATAT
1 CCGGATAT
53185248 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 32 0.30
40 73 0.70
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53185203 original size:39 final size:39
Alignment explanation
Indices: 53185097--53185204 Score: 130
Period size: 39 Copynumber: 2.7 Consensus size: 39
53185087 ATAATCACGT
* *
53185097 GCACAAATGCCTTCGGGTCTTAGCCCGG-ATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAATAG-ACAACTA
*
53185137 GCACGAATGCCTTCGGGTCTTAGCCCGGAATAG-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAATAGACAACTA
*
53185176 GCACAATTGCCTTCGGGTCTTAACCCGGA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGA
53185205 TATAATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.03
39 28 0.46
40 27 0.44
41 4 0.07
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGAATAGACAACTA
Found at i:53193128 original size:40 final size:40
Alignment explanation
Indices: 53193083--53193212 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
53193073 CGGAATATAA
*
53193083 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
53193123 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53193163 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
53193203 CCGGATATAA
1 CCGGATATAA
53193213 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 72 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53193227 original size:40 final size:40
Alignment explanation
Indices: 53193099--53193250 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
53193089 ATAACCATGT
* * *
53193099 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
* ** *
53193139 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
53193179 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * * *
53193219 GCATAATTGTCTTTGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
53193251 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 87 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:53193487 original size:40 final size:40
Alignment explanation
Indices: 53193428--53193645 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
53193418 CGGGACTAGT
* *
53193428 TCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA
* *
53193468 TCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA
* *
53193508 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA
* *
53193548 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA
* * * *
53193588 TCCGAGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACA
* *
53193627 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
53193646 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 14 0.09
39 15 0.09
40 132 0.82
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA
Found at i:53201566 original size:40 final size:39
Alignment explanation
Indices: 53201511--53201766 Score: 313
Period size: 40 Copynumber: 6.5 Consensus size: 39
53201501 CGGATGATAA
* * *
53201511 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
53201551 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
53201591 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
53201631 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
*
53201670 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
53201710 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT-T
* *
53201749 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53201767 TACTTGGCTT
Statistics
Matches: 198, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
38 15 0.08
39 50 0.25
40 133 0.67
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:53201701 original size:79 final size:79
Alignment explanation
Indices: 53201511--53201766 Score: 354
Period size: 79 Copynumber: 3.2 Consensus size: 79
53201501 CGGATGATAA
* * * **
53201511 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
* *
53201576 TGCGAGTTATTACAT
66 TGCGAG-TACTATAT
*
53201591 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
53201656 TGCGAGTACTATAT
66 TGCGAGTACTATAT
* * *
53201670 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
*
53201734 AGCGAGTAGCTATAT
66 TGCGAGTA-CTATAT
* *
53201749 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53201767 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
78 24 0.15
79 71 0.44
80 65 0.41
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTACTATAT
Found at i:53205638 original size:47 final size:47
Alignment explanation
Indices: 53205529--53205672 Score: 191
Period size: 48 Copynumber: 3.0 Consensus size: 47
53205519 CACATGGTAG
* * * * *
53205529 GATGCCAATGCCATATCCCGAATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCAG-ACATGGTCTTACATGGGATCATAGATC
53205577 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATC-TAGATC
1 GATGCCAATGCCATGTCC-AGACATGGTCTTACATGGGATCATAGATC
* *
53205624 GATGCCAATGCCATGTCCCAGACATGATCTTACATAGGATCATAGATC
1 GATGCCAATGCCATGT-CCAGACATGGTCTTACATGGGATCATAGATC
53205672 G
1 G
53205673 TTTCCAATAG
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
47 40 0.47
48 45 0.52
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (47 bp):
GATGCCAATGCCATGTCCAGACATGGTCTTACATGGGATCATAGATC
Found at i:53208474 original size:26 final size:26
Alignment explanation
Indices: 53208445--53208497 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
53208435 CATCATCTAA
53208445 TAAGGCCAACTGAGTGTTCATAGCCC
1 TAAGGCCAACTGAGTGTTCATAGCCC
53208471 TAAGGCCAACTGAGTGTTCATAGCCC
1 TAAGGCCAACTGAGTGTTCATAGCCC
53208497 T
1 T
53208498 CAAAGCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (26 bp):
TAAGGCCAACTGAGTGTTCATAGCCC
Found at i:53215252 original size:29 final size:29
Alignment explanation
Indices: 53215210--53215269 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
53215200 TTATTTAATT
**
53215210 ATTACATTGTTCAAATCAGTTGATAAATC
1 ATTACATTGTTCAAATCAGTCCATAAATC
53215239 ATTACATTGTTCAAATCAGTCCATAAATC
1 ATTACATTGTTCAAATCAGTCCATAAATC
53215268 AT
1 AT
53215270 ACTTTGGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (29 bp):
ATTACATTGTTCAAATCAGTCCATAAATC
Found at i:53218460 original size:40 final size:40
Alignment explanation
Indices: 53218415--53218582 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
53218405 CGGAATATAA
*
53218415 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
53218455 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53218495 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
53218535 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
53218575 CCGGATAT
1 CCGGATAT
53218583 CATTCAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53218565 original size:80 final size:80
Alignment explanation
Indices: 53218431--53218580 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
53218421 ATAACCATGT
* *
53218431 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
53218496 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
53218511 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
53218574 CCCGGAT
64 CCCGGAT
53218581 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:53222345 original size:187 final size:187
Alignment explanation
Indices: 53222028--53222392 Score: 606
Period size: 187 Copynumber: 2.0 Consensus size: 187
53222018 TTTAAGCTTA
* *
53222028 TTTTGATGTGTTTTAAAGGCATGTTAATGTTTGATTTTGGTTTGGCTTAGAGCCTAAGAAATTGT
1 TTTTGATGTGTTTTAAAGGCATGTTAATGGTTGATTTTGGTTTGGCTTAGAGCCTAAGAAATTGG
* * * * * *
53222093 TGTTTGTTTGCCTTGTTTTTGAATCTAATTTAGGTGCACACAGTCGTATGCCACCATGGTCACAC
66 TGTTGGTTTGCCTTATTTTGGAAGCTAATTTAGGTGCACACAGTCGTATGCCACCACGATCACAC
53222158 CACATGACCATATGGACTATTTAATTTTGGTGCAGGTTTATCACACACGATCACAGG
131 CACATGACCATATGGACTATTTAATTTTGGTGCAGGTTTATCACACACGATCACAGG
*
53222215 TTTTGATGTGTTTTAAAGGCCTGTTAATGGTTGATTTTGGTTTGGCTTAGAGCCTAAGAAATTGG
1 TTTTGATGTGTTTTAAAGGCATGTTAATGGTTGATTTTGGTTTGGCTTAGAGCCTAAGAAATTGG
* *
53222280 TGTTGGTTTGCCTTATTTTGGAAGCTAATTTAGGTGCACATAGTCGTGTG-CACCCACGATCACA
66 TGTTGGTTTGCCTTATTTTGGAAGCTAATTTAGGTGCACACAGTCGTATGCCA-CCACGATCACA
*
53222344 CCACATGGCCATATGGACTATTTAATTTTGGTGCAGGTTTATCACACAC
130 CCACATGACCATATGGACTATTTAATTTTGGTGCAGGTTTATCACACAC
53222393 AGTCACAAGT
Statistics
Matches: 165, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
186 2 0.01
187 163 0.99
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (187 bp):
TTTTGATGTGTTTTAAAGGCATGTTAATGGTTGATTTTGGTTTGGCTTAGAGCCTAAGAAATTGG
TGTTGGTTTGCCTTATTTTGGAAGCTAATTTAGGTGCACACAGTCGTATGCCACCACGATCACAC
CACATGACCATATGGACTATTTAATTTTGGTGCAGGTTTATCACACACGATCACAGG
Found at i:53228725 original size:13 final size:13
Alignment explanation
Indices: 53228707--53228735 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
53228697 TTTAGTTTAA
53228707 TTAGTTAATTAGT
1 TTAGTTAATTAGT
53228720 TTAGTTAATTAGT
1 TTAGTTAATTAGT
53228733 TTA
1 TTA
53228736 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:53237004 original size:40 final size:40
Alignment explanation
Indices: 53236959--53237125 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53236949 CGGAATATAA
53236959 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
53236999 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
53237039 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53237079 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53237118 CCGGATAT
1 CCGGATAT
53237126 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53237109 original size:80 final size:79
Alignment explanation
Indices: 53236959--53237125 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
53236949 CGGAATATAA
* *
53236959 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
53237024 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
53237039 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
53237101 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
53237118 CCGGATAT
1 CCGGATAT
53237126 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:53237973 original size:17 final size:19
Alignment explanation
Indices: 53237950--53237995 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
53237940 AAGAAGCATG
53237950 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
53237968 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
53237986 AATCATGCTC
1 AATCATGCTC
53237996 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:53245011 original size:40 final size:40
Alignment explanation
Indices: 53244966--53245132 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53244956 CGGAATATAA
53244966 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
53245006 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
53245046 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53245086 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53245125 CCGGATAT
1 CCGGATAT
53245133 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53245116 original size:80 final size:79
Alignment explanation
Indices: 53244966--53245132 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
53244956 CGGAATATAA
* *
53244966 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
53245031 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
53245046 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
53245108 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
53245125 CCGGATAT
1 CCGGATAT
53245133 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:53245980 original size:17 final size:19
Alignment explanation
Indices: 53245957--53246002 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
53245947 AAGAAGCATG
53245957 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
53245975 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
53245993 AATCATGCTC
1 AATCATGCTC
53246003 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:53248398 original size:13 final size:13
Alignment explanation
Indices: 53248380--53248408 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
53248370 TTTAGTTTAA
53248380 TTAGTTAATTAGT
1 TTAGTTAATTAGT
53248393 TTAGTTAATTAGT
1 TTAGTTAATTAGT
53248406 TTA
1 TTA
53248409 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:53250377 original size:48 final size:47
Alignment explanation
Indices: 53250300--53250430 Score: 129
Period size: 48 Copynumber: 2.7 Consensus size: 47
53250290 ATGATGCCTC
* * * *
53250300 ATGCCAATGCCAAGTCCAAGACATGGTCTTACAC-TGGCTCACGTAACA
1 ATGCCAATGCCATGTCCAAGA-ATGGTCTTACACGT-GATCACATAAAA
* * *
53250348 ATGCCAATGCCATGTCCTAGAATTTGTCTTATACGTGATCACATAAAA
1 ATGCCAATGCCATGTCCAAGAA-TGGTCTTACACGTGATCACATAAAA
* * *
53250396 ATGCCGATGCCATATCCCAGAAATGGTCTTACACG
1 ATGCCAATGCCATGTCCAAG-AATGGTCTTACACG
53250431 GTTACACATA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
47 1 0.01
48 64 0.94
49 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (47 bp):
ATGCCAATGCCATGTCCAAGAATGGTCTTACACGTGATCACATAAAA
Found at i:53250973 original size:21 final size:19
Alignment explanation
Indices: 53250926--53250973 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
53250916 TAGAGAAGCC
53250926 CACTTTT-CCACTATTTCA
1 CACTTTTACCACTATTTCA
* *
53250944 CACATTTACCACATATTTTA
1 CACTTTTACCAC-TATTTCA
53250964 CAACTTTTAC
1 C-ACTTTTAC
53250974 AAAATGTCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 4 0.17
20 7 0.29
21 7 0.29
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (19 bp):
CACTTTTACCACTATTTCA
Found at i:53257492 original size:21 final size:22
Alignment explanation
Indices: 53257466--53257506 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
53257456 TCATATCGTC
53257466 AAGTATCGATACC-AAATTCCA
1 AAGTATCGATACCTAAATTCCA
53257487 AAGTATCGATACCTAAATTC
1 AAGTATCGATACCTAAATTC
53257507 AAAATGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (22 bp):
AAGTATCGATACCTAAATTCCA
Found at i:53259339 original size:73 final size:73
Alignment explanation
Indices: 53259183--53259328 Score: 247
Period size: 73 Copynumber: 2.0 Consensus size: 73
53259173 AAACATATCA
*
53259183 TAAACACATGTTATAACATAAATTCAATGGTCAATCATTCTTTAATAAAACCCAATTAAAGCATT
1 TAAACACATGTTATAACATAAATTAAATGGTCAATCATTCTTTAATAAAACCCAATTAAAGCATT
53259248 TGCATGTT
66 TGCATGTT
* * * *
53259256 TAAACACATGTTATAACATCAATTAAATTGTCAATCATTCTTTAATAAAGCCCAATTAAAGCGTT
1 TAAACACATGTTATAACATAAATTAAATGGTCAATCATTCTTTAATAAAACCCAATTAAAGCATT
53259321 TGCATGTT
66 TGCATGTT
53259329 GTCATACATG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (73 bp):
TAAACACATGTTATAACATAAATTAAATGGTCAATCATTCTTTAATAAAACCCAATTAAAGCATT
TGCATGTT
Found at i:53269828 original size:14 final size:14
Alignment explanation
Indices: 53269809--53269837 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
53269799 AAACGAGACA
53269809 TTTCTGAATTTGTT
1 TTTCTGAATTTGTT
53269823 TTTCTGAATTTGTT
1 TTTCTGAATTTGTT
53269837 T
1 T
53269838 CAAGGTGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.66
Consensus pattern (14 bp):
TTTCTGAATTTGTT
Found at i:53272719 original size:27 final size:29
Alignment explanation
Indices: 53272644--53272719 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
53272634 GTGACGAGAT
*
53272644 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAATATA
* *
53272673 TGGCACTAAGTGTGCAAGCTGGAAA-ATA
1 CGGCACTAAGTGTGCGAGCTGGAAATATA
*
53272701 CGGCACT-GGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
53272720 CGGAGGTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 10 0.24
28 9 0.22
29 22 0.54
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:53278611 original size:40 final size:40
Alignment explanation
Indices: 53278554--53278800 Score: 338
Period size: 40 Copynumber: 6.2 Consensus size: 40
53278544 TGAATGATAC
* * * *
53278554 CCGGGCTAAGTCTCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
53278594 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
53278634 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
53278674 CC-GGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
53278713 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
53278753 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
53278793 CC-GGCTAA
1 CCGGGCTAA
53278801 ATTCCGAAGA
Statistics
Matches: 185, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 42 0.23
40 141 0.76
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:53278706 original size:79 final size:80
Alignment explanation
Indices: 53278554--53278800 Score: 347
Period size: 79 Copynumber: 3.1 Consensus size: 80
53278544 TGAATGATAC
* * * *
53278554 CCGGGCTAAGTCTCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
*
53278618 GTGCGAGTTGTTATAT
65 GTGCTAGTTGTTATAT
*
53278634 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCC-GGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
53278698 TGCTAGTTGTTATAT
66 TGCTAGTTGTTATAT
* * * * *
53278713 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
* *
53278778 TGCTTGTGGTTATAT
66 TGCTAGTTGTTATAT
53278793 CC-GGCTAA
1 CCGGGCTAA
53278801 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
79 80 0.53
80 69 0.46
81 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCTAGTTGTTATAT
Found at i:53278809 original size:119 final size:119
Alignment explanation
Indices: 53278557--53278800 Score: 366
Period size: 119 Copynumber: 2.1 Consensus size: 119
53278547 ATGATACCCG
* * *
53278557 GGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 GGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTAC
* * *
53278622 GAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCC
66 GAGTTGCTATACCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTTATATCC
*
53278676 GGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTTGTA
1 GGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTA
* **
53278740 CGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATATCC
65 CGAGTTGCTATACCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGGTTATATCC
53278795 GGCTAA
1 GGCTAA
53278801 ATTCCGAAGA
Statistics
Matches: 113, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
119 108 0.96
120 5 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (119 bp):
GGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTAC
GAGTTGCTATACCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTTATATCC
Found at i:53281200 original size:30 final size:29
Alignment explanation
Indices: 53281106--53281207 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
53281096 TATAGTGAAT
* * *
53281106 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
53281135 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
53281163 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
53281193 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
53281208 CATGACCAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:53284103 original size:40 final size:40
Alignment explanation
Indices: 53284044--53284119 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
53284034 CACTTATTAT
*
53284044 CTTGTATTTAGTCTGAGAAAACGCATTTTATTTGATTTGA
1 CTTGTATTTAGTCTGAGAAAACGCATTCTATTTGATTTGA
* *
53284084 CTTGTATTTAGTCTTAGAAAATGCATTCTATTTGAT
1 CTTGTATTTAGTCTGAGAAAACGCATTCTATTTGAT
53284120 CTGATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.46
Consensus pattern (40 bp):
CTTGTATTTAGTCTGAGAAAACGCATTCTATTTGATTTGA
Found at i:53298150 original size:19 final size:18
Alignment explanation
Indices: 53298126--53298161 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
53298116 CCATTTTTAA
*
53298126 TTTTTATTTTAATATTTTG
1 TTTTTAATTTAAT-TTTTG
53298145 TTTTTAATTTAATTTTT
1 TTTTTAATTTAATTTTT
53298162 AAATTCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTAATTTAATTTTTG
Found at i:53301141 original size:19 final size:17
Alignment explanation
Indices: 53301119--53301181 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 17
53301109 TAATTTTAAT
53301119 TTTTTTATTTTTGTTCTTG
1 TTTTTTA-TTTTGTT-TTG
53301138 TTTTTCTATTTTGATTTTG
1 TTTTT-TATTTTG-TTTTG
**
53301157 CTTTTTGCTTTTGTTTTTG
1 -TTTTTTATTTTG-TTTTG
53301176 TTTTTT
1 TTTTTT
53301182 TTTAAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
18 5 0.14
19 23 0.62
20 9 0.24
ACGTcount: A:0.05, C:0.06, G:0.11, T:0.78
Consensus pattern (17 bp):
TTTTTTATTTTGTTTTG
Found at i:53301180 original size:6 final size:6
Alignment explanation
Indices: 53301120--53301184 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
53301110 AATTTTAATT
* * * * *
53301120 TTTTTA TTTTTG TTCTTG TTTTTC TATTTTG ATTTTG CTTTTTG CTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG -TTTTTG TTTTTG
53301170 TTTTTG TTTTT- TTTT
1 TTTTTG TTTTTG TTTT
53301185 AAATTTATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
5 4 0.08
6 35 0.73
7 9 0.19
ACGTcount: A:0.05, C:0.06, G:0.11, T:0.78
Consensus pattern (6 bp):
TTTTTG
Found at i:53306480 original size:49 final size:49
Alignment explanation
Indices: 53306420--53306628 Score: 332
Period size: 49 Copynumber: 4.3 Consensus size: 49
53306410 GTATGAGATA
*
53306420 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAGTG
*
53306469 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAGTG
*
53306518 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAGTG
* * * *
53306567 TATATATGTGATAAGGCCTAGTGGCCGACGTGATGGATGTG-GA-AGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAGTG
*
53306614 TATAAATGTGATAAG
1 TATATATGTGATAAG
53306629 TCCCGAAGGG
Statistics
Matches: 152, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 17 0.11
48 1 0.01
49 134 0.88
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAGTG
Found at i:53308803 original size:40 final size:40
Alignment explanation
Indices: 53308726--53308995 Score: 472
Period size: 40 Copynumber: 6.8 Consensus size: 40
53308716 GAGAATTGAG
*
53308726 AGTGATATATCCGGACTAAGTT-CGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
53308765 AGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
53308805 AGTGATGTATCCGGACTAAGTT-CGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
53308844 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
53308884 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
53308924 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
53308964 AGTGATGTATCCGGGCCAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
53308996 ATCATGCTGG
Statistics
Matches: 222, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 59 0.27
40 163 0.73
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:53308857 original size:79 final size:79
Alignment explanation
Indices: 53308726--53308977 Score: 477
Period size: 79 Copynumber: 3.2 Consensus size: 79
53308716 GAGAATTGAG
* *
53308726 AGTGATATATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCGA
1 AGTGATGTATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGA
53308791 AGAGCATTCGTGCT
66 AGAGCATTCGTGCT
53308805 AGTGATGTATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGA
1 AGTGATGTATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGA
53308870 AGAGCATTCGTGCT
66 AGAGCATTCGTGCT
53308884 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATGTATCCGGACTAAGTT-CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
53308949 AAGAGCATTCGTGCT
65 AAGAGCATTCGTGCT
53308964 AGTGATGTATCCGG
1 AGTGATGTATCCGG
53308978 GCCAGGTCCC
Statistics
Matches: 170, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
79 99 0.58
80 71 0.42
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
AGTGATGTATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGA
AGAGCATTCGTGCT
Found at i:53308936 original size:119 final size:120
Alignment explanation
Indices: 53308726--53309011 Score: 477
Period size: 119 Copynumber: 2.4 Consensus size: 120
53308716 GAGAATTGAG
*
53308726 AGTGATATATCCGGACTAAGTT-CGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCG
53308790 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT-CGAAGAGCATTCGTGCT
66 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
53308844 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCG
53308909 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
66 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * * * * *
53308964 AGTGATGTATCCGGGCCAGGTCCCGAAGAGCAATCATGCTGGTGACGT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
53309012 GTATTCGGGC
Statistics
Matches: 156, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
118 21 0.13
119 78 0.50
120 57 0.37
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (120 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCG
AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:53309282 original size:40 final size:40
Alignment explanation
Indices: 53309188--53309368 Score: 154
Period size: 40 Copynumber: 4.5 Consensus size: 40
53309178 TTCGAATGGT
* * * *
53309188 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGC-GAGTCACTAA
*
53309229 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCT-AATTCCCGAAGGCATTTGTGCGAGTCACTAA
* * *
53309269 ATCCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTACA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTCACTA-A
* * * * * *
53309310 A-CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTAT
1 ATCCGGGCTAAT-TCCCGAAGGCATTTGTGCGAGTCACTAA
* *
53309349 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGCTAATTCCCGAAGG
53309369 TACGTGATTC
Statistics
Matches: 116, Mismatches: 18, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
39 14 0.12
40 73 0.63
41 29 0.25
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTCACTAA
Found at i:53312117 original size:49 final size:49
Alignment explanation
Indices: 53312057--53312608 Score: 973
Period size: 49 Copynumber: 11.3 Consensus size: 49
53312047 GTATGAGATA
* * *
53312057 TATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGAGAAAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
53312106 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
53312155 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
53312204 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
53312253 TATATATGTGATAAGGCCTAATGGCCGATGTCATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
53312302 TATATATGTGATAAGGCCTAATGGCCGATGTCATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
53312351 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
53312400 TATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
53312449 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
53312498 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * *
53312547 TATATATGTGATAAGGCCTAGTGGCCGACGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
53312594 TATAAATGTGATAAG
1 TATATATGTGATAAG
53312609 TCCCGAAGGG
Statistics
Matches: 487, Mismatches: 16, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
47 17 0.03
49 470 0.97
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:53314915 original size:46 final size:45
Alignment explanation
Indices: 53314822--53314907 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
53314812 TACATCTCTC
* *
53314822 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
* *
53314868 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
53314908 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:53317659 original size:44 final size:45
Alignment explanation
Indices: 53317608--53317693 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
53317598 TATGTAATCT
53317608 GAACTCATTGAGTTGT-GTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
** *
53317652 GAACTCATTGAGTTGTGGTCTGAGTTTGTGATATGTGTGACA
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACA
53317694 CATGTTTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 16 0.42
45 22 0.58
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (45 bp):
GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
Found at i:53324328 original size:10 final size:10
Alignment explanation
Indices: 53324315--53324347 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
53324305 TTTTTTCTTC
*
53324315 TATTTTATTT
1 TATTTCATTT
53324325 TATTTCATTT
1 TATTTCATTT
53324335 TATTTCATTT
1 TATTTCATTT
53324345 TAT
1 TAT
53324348 AGGTTTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTCATTT
Found at i:53325447 original size:14 final size:14
Alignment explanation
Indices: 53325430--53325462 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
53325420 TTTGAATTTT
*
53325430 TACATTTGCATACG
1 TACATTTGCATACA
53325444 TACATTTGCATACA
1 TACATTTGCATACA
53325458 TACAT
1 TACAT
53325463 ACATATGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (14 bp):
TACATTTGCATACA
Found at i:53326201 original size:18 final size:18
Alignment explanation
Indices: 53326167--53326201 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53326157 GAGAATTATT
* *
53326167 GGTACTGTGACTGAATGC
1 GGTACTGTGAATAAATGC
53326185 GGTACTGTGAATAAATG
1 GGTACTGTGAATAAATG
53326202 TGTTACTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (18 bp):
GGTACTGTGAATAAATGC
Found at i:53335003 original size:16 final size:17
Alignment explanation
Indices: 53334970--53335004 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
53334960 GTTCGGGGCA
53334970 TAAAAAAAGTTTACATT
1 TAAAAAAAGTTTACATT
*
53334987 TAAAAAAATTTTA-ATT
1 TAAAAAAAGTTTACATT
53335003 TA
1 TA
53335005 CTCACATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
TAAAAAAAGTTTACATT
Found at i:53336258 original size:53 final size:54
Alignment explanation
Indices: 53336190--53336396 Score: 202
Period size: 53 Copynumber: 3.8 Consensus size: 54
53336180 TCCTTTTTTA
* *
53336190 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
53336243 AACTCACCATTGCCAT-TCTTTGGCATGGTTTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTC-TTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * *
53336297 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
53336352 CACTTACAAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
53336397 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 29, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
52 2 0.02
53 43 0.36
54 35 0.29
55 39 0.32
56 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:53336929 original size:17 final size:17
Alignment explanation
Indices: 53336909--53336948 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
53336899 CATTAGGTAT
53336909 TTTTACCGATTATGTCA
1 TTTTACCGATTATGTCA
*
53336926 TTTTACCGATTATGTCG
1 TTTTACCGATTATGTCA
53336943 TTTTAC
1 TTTTAC
53336949 TCGTTTTACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.50
Consensus pattern (17 bp):
TTTTACCGATTATGTCA
Found at i:53342830 original size:53 final size:54
Alignment explanation
Indices: 53342761--53342963 Score: 185
Period size: 53 Copynumber: 3.8 Consensus size: 54
53342751 TTCCTTTTTA
* * * *
53342761 AACTTGCCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
53342814 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGCG-ATCTTTACTTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTATCCTTGCCTTATAG
** * * * * *
53342868 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
53342923 AACTTACAAATGTCATGCCTTGGCATGGTCTTACTTGGTAT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTAT
53342964 TCTTAAACCC
Statistics
Matches: 115, Mismatches: 31, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
53 42 0.37
54 33 0.29
55 40 0.35
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:53344475 original size:10 final size:10
Alignment explanation
Indices: 53344460--53344487 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
53344450 TATGGGTGAT
53344460 AAAAAATGAA
1 AAAAAATGAA
53344470 AAAAAATGAA
1 AAAAAATGAA
53344480 AAAAAATG
1 AAAAAATG
53344488 TGTGTGAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:53345935 original size:40 final size:39
Alignment explanation
Indices: 53345770--53345953 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
53345760 AAATTGAATG
* * *
53345770 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
53345810 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
53345850 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
53345890 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
53345929 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
53345954 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:53345978 original size:80 final size:81
Alignment explanation
Indices: 53345810--53345998 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
53345800 GCTGGAAATT
* * * *
53345810 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
53345875 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
53345891 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
53345954 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
53345970 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
53345999 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:53354051 original size:40 final size:39
Alignment explanation
Indices: 53353886--53354069 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
53353876 AAATTGAATG
* * *
53353886 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
53353926 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
53353966 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
53354006 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
53354045 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
53354070 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:53354094 original size:80 final size:81
Alignment explanation
Indices: 53353926--53354114 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
53353916 GCTGGAAATT
* * * *
53353926 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
53353991 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
53354007 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
53354070 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
53354086 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
53354115 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:53360984 original size:22 final size:23
Alignment explanation
Indices: 53360945--53360987 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
53360935 AAATTAAATC
*
53360945 TCTAAGATTTCAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
*
53360968 TCTAAGATTAC-ATATCATAT
1 TCTAAGATTACAAAATCATAT
53360988 ATGAGATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:53373851 original size:35 final size:35
Alignment explanation
Indices: 53373811--53373886 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
53373801 AACGTTGACT
53373811 CAAATAGATTTTGAAAATACTCTCTGGCAGCCTCG
1 CAAATAGATTTTGAAAATACTCTCTGGCAGCCTCG
**
53373846 CAAATATCTTTTGAAAATACTCTCTGGCAGCCTCG
1 CAAATAGATTTTGAAAATACTCTCTGGCAGCCTCG
53373881 CAAATA
1 CAAATA
53373887 TCTTTGGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (35 bp):
CAAATAGATTTTGAAAATACTCTCTGGCAGCCTCG
Found at i:53373887 original size:35 final size:35
Alignment explanation
Indices: 53373819--53373891 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
53373809 CTCAAATAGA
53373819 TTTTGAAAATACTCTCTGGCAGCCTCGCAAATATC
1 TTTTGAAAATACTCTCTGGCAGCCTCGCAAATATC
53373854 TTTTGAAAATACTCTCTGGCAGCCTCGCAAATATC
1 TTTTGAAAATACTCTCTGGCAGCCTCGCAAATATC
53373889 TTT
1 TTT
53373892 GGTATTCTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (35 bp):
TTTTGAAAATACTCTCTGGCAGCCTCGCAAATATC
Found at i:53377302 original size:49 final size:49
Alignment explanation
Indices: 53377240--53377416 Score: 180
Period size: 49 Copynumber: 3.6 Consensus size: 49
53377230 CGAGATATAC
* *
53377240 AAGCTAGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGA
* * * * * *
53377289 GAGCCAGTGTAAGACCTGTCTAGGACACGACATCGGCCTCGATATATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA
* * * *
53377338 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACTTTGAT-G-TGC
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA
* * *
53377385 TAGCCAGTGTAAAACCATGTCTAGGACATGGC
1 AAGCCAGTGTAAGACC-TGTCTGGGACATGGC
53377417 GTTGACATCT
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
47 16 0.15
48 15 0.14
49 74 0.70
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA
Found at i:53380910 original size:26 final size:28
Alignment explanation
Indices: 53380881--53380933 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
53380871 TATAGATCAA
*
53380881 GGAA-AACGAGA-TATGGACTTAAATCG
1 GGAAGAACGAGATTATGGACTAAAATCG
*
53380907 GGAAGGTACGAGATTATGGACTAAAAT
1 GGAA-GAACGAGATTATGGACTAAAAT
53380934 GGAATAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 4 0.18
28 6 0.27
29 12 0.55
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (28 bp):
GGAAGAACGAGATTATGGACTAAAATCG
Found at i:53382569 original size:40 final size:40
Alignment explanation
Indices: 53382520--53382694 Score: 174
Period size: 40 Copynumber: 4.4 Consensus size: 40
53382510 TCTTCGGAAT
* * *
53382520 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
53382559 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
53382599 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
53382639 TTAGCCCGGATTATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGA-TATAA-CAACTAGCACAAATGCCTTCGGGTC
* *
53382680 TTAGCTCGGGTATAA
1 TTAGCCCGGATATAA
53382695 TTCAAATGCT
Statistics
Matches: 110, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
39 3 0.03
40 75 0.68
41 31 0.28
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:53382647 original size:80 final size:81
Alignment explanation
Indices: 53382511--53382694 Score: 207
Period size: 80 Copynumber: 2.3 Consensus size: 81
53382501 AACCGAGTTT
* * * *
53382511 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGA-TT-AT
53382575 AA-C-TT-GCACAAATGC
64 AATCATTAGCACAAATGC
* ** *
53382590 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATTATA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATTATA
*
53382654 ATCATTAGCATAAATGC
65 ATCATTAGCACAAATGC
* *
53382671 CTTCGGGACTTAGCTCGGGTATAA
1 CTTCGGGACTTAGCCCGGATATAA
53382695 TTCAAATGCT
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 13 0.15
80 40 0.45
81 32 0.36
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTATAA
TCATTAGCACAAATGC
Found at i:53384923 original size:48 final size:48
Alignment explanation
Indices: 53384823--53385085 Score: 288
Period size: 48 Copynumber: 5.6 Consensus size: 48
53384813 ATGAGATCCC
* * *
53384823 GTGTAAGACCATGTTTGGGACATGGCATC--CG-AGATCA---GAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT-ATGTGTGCCA
*
53384866 GTGTAAGACCATATCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* ** *
53384914 GTGTAAGACCATGTCTAGGACATAACATCGGCTTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* * *
53384962 GTGTAAGACCATGTCTGGGACATGGCGTCGGTGTTGAT-TGTGTGGCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* * *** *
53385009 GTGTAAGACCAAGTCTAGGACATGGCATTAACGTTGATATATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* * *
53385057 ATGTAATACCATGTCTGGGACATCGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
53385086 AGCACCGATA
Statistics
Matches: 182, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
43 27 0.15
45 3 0.02
46 3 0.02
47 39 0.21
48 110 0.60
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
Found at i:53385046 original size:95 final size:96
Alignment explanation
Indices: 53384862--53385085 Score: 306
Period size: 95 Copynumber: 2.3 Consensus size: 96
53384852 CGAGATCAGA
* *
53384862 GCCAGTGTAAGACCATATCTGGGACATGGCATCGGCGTTGATATGTGTGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAGTGTAAGACCAAG
** * *
53384927 TCTAGGACATAACATCGGCTTTGATATGTGT
66 TCTAGGACATAACATCAACGTTGATATATGT
* * *
53384958 GCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGTGTTGAT-TGTGTGGCAGTGTAAGACCAAG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAGTGTAAGACCAAG
** *
53385022 TCTAGGACATGGCATTAACGTTGATATATGT
66 TCTAGGACATAACATCAACGTTGATATATGT
* * *
53385053 GCCAATGTAATACCATGTCTGGGACATCGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
53385086 AGCACCGATA
Statistics
Matches: 112, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 73 0.65
96 39 0.35
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAGTGTAAGACCAAG
TCTAGGACATAACATCAACGTTGATATATGT
Found at i:53389744 original size:48 final size:48
Alignment explanation
Indices: 53389629--53389852 Score: 277
Period size: 48 Copynumber: 4.6 Consensus size: 48
53389619 TGAGATCCCG
* *** * * *
53389629 TGTAAGACCATGTCTGGGTCATGGCATCGGCAACCGAGATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-GTTGATATGTGTGCCAA
* *
53389678 TGCAAGACCATGTTTGGGACATGGCATCGGCGTTGATATGTGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAA
** * *
53389726 TGTAAGACCATGTCTGGGACATGGCATTAGCGTTTATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAA
* * * *
53389774 TGTAAGACCATGTCTAGTACATGGCATCGGCTTTGATATATGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAA
*
53389822 TGTAATACCATGTCTGGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
53389853 ACCGATATGA
Statistics
Matches: 149, Mismatches: 26, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
48 121 0.81
49 28 0.19
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAA
Found at i:53389894 original size:96 final size:95
Alignment explanation
Indices: 53389629--53389894 Score: 298
Period size: 96 Copynumber: 2.8 Consensus size: 95
53389619 TGAGATCCCG
* * * *
53389629 TGTAAGACCATGTCTGGGTCATGGCATCGGCAACCGAGATGAGAGCCAATGCAAGACCATGTTTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-ACCGATATGAGA-CCAGTGTAAGACCATGTTTG
*
53389694 GGACATGGCATCGGCGTTGATATGTGTGCCAA
64 GGACATGGCATCGGCGTTGATATATGTGCCAA
** **** * * * *
53389726 TGTAAGACCATGTCTGGGACATGGCATTAGCGTTTATATGTGTGCCAGTGTAAGACCATGTCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAG-ACCAGTGTAAGACCATGTTTGG
* *
53389791 TACATGGCATCGGCTTTGATATATGTGCCAA
65 GACATGGCATCGGCGTTGATATATGTGCCAA
* * * *
53389822 TGTAATACCATGTCTGGGACATGGCATCGGCACCGATATGAGACTCTGTATAAGACCATATTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAC-CAGTGTAAGACCATGTTTGG
*
53389887 GATATGGC
65 GACATGGC
53389895 GTCTAAATGT
Statistics
Matches: 134, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
95 1 0.01
96 105 0.78
97 28 0.21
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (95 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGACCAGTGTAAGACCATGTTTGGG
ACATGGCATCGGCGTTGATATATGTGCCAA
Found at i:53396485 original size:48 final size:46
Alignment explanation
Indices: 53396369--53396486 Score: 130
Period size: 46 Copynumber: 2.5 Consensus size: 46
53396359 TATGAGAGCC
* * *
53396369 AGTGTAAGACAT-GCTTGGGACATGCATCGGCATTGAGACAAGAGCT
1 AGTGTAAGACATATC-TGGGACATGCATCGGCATCGAGACAAAAGCT
* * * *
53396415 AGTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATATCTGGGACATGCATCGGCATCGAGACA-A-AAGCT
*
53396463 AGTGTAAGACCTATCTGGGACATG
1 AGTGTAAGACATATCTGGGACATG
53396487 GCTTCAGCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
46 33 0.55
47 2 0.03
48 25 0.42
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATATCTGGGACATGCATCGGCATCGAGACAAAAGCT
Found at i:53396569 original size:49 final size:49
Alignment explanation
Indices: 53396506--53396677 Score: 152
Period size: 49 Copynumber: 3.5 Consensus size: 49
53396496 TGTTATGTGT
* * *
53396506 CAGTGTAAGTCCTGTCTGGGACATGGTATTGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGTATCGAC-CTCGATAGATGAAAGC
* * * * *
53396555 CAGTGTAAGACCTGTCTAGGACACGGTGTCGGCCTCGATAGATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGTATCGACCTCGATAGATGAAAGC
* ** * * **
53396604 CAGTGTAAGACCTGTTTGGGACATGCCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGTATCGACCTCGATAGATGAAAGC
* *
53396651 TAGAGTAAGACCATGTCTGGGACATGG
1 CAGTGTAAGACC-TGTCTGGGACATGG
53396678 CGTCAGCATC
Statistics
Matches: 97, Mismatches: 24, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
47 14 0.14
48 14 0.14
49 69 0.71
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGTATCGACCTCGATAGATGAAAGC
Found at i:53401097 original size:57 final size:57
Alignment explanation
Indices: 53401009--53401144 Score: 236
Period size: 57 Copynumber: 2.4 Consensus size: 57
53400999 ATTGTATAAC
*
53401009 AGGATTACCAGTCTAGGATAAATCCTTTATATAACGTAAGCTCAGAGGAGCTCAATT
1 AGGATTACCAGTCTAGGCTAAATCCTTTATATAACGTAAGCTCAGAGGAGCTCAATT
*
53401066 AGGATTACCAATCTAGGCTAAATCCTTTATATAACGTAAGCTCAGAGGAGCTCAATT
1 AGGATTACCAGTCTAGGCTAAATCCTTTATATAACGTAAGCTCAGAGGAGCTCAATT
* *
53401123 AGGATTACTAGTCCAGGCTAAA
1 AGGATTACCAGTCTAGGCTAAA
53401145 CCCTAATCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 74 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (57 bp):
AGGATTACCAGTCTAGGCTAAATCCTTTATATAACGTAAGCTCAGAGGAGCTCAATT
Found at i:53401157 original size:57 final size:57
Alignment explanation
Indices: 53401009--53401171 Score: 193
Period size: 57 Copynumber: 2.8 Consensus size: 57
53400999 ATTGTATAAC
* * * * *
53401009 AGGATTACCAGTCTAGGATAAATCCTTTATATAACGTAAGCTCAGAGGAGCTCAATT
1 AGGATTACCAATCCAGGCTAAATCCCTAATATAACGTAAGCTCAGAGGAGCTCAATT
* * *
53401066 AGGATTACCAATCTAGGCTAAATCCTTTATATAACGTAAGCTCAGAGGAGCTCAATT
1 AGGATTACCAATCCAGGCTAAATCCCTAATATAACGTAAGCTCAGAGGAGCTCAATT
* * * *
53401123 AGGATTACTAGTCCAGGCTAAA-CCCTAATCATAACATATGCTCGAGAGG
1 AGGATTACCAATCCAGGCTAAATCCCTAAT-ATAACGTAAGCTC-AGAGG
53401172 TATTATTAAG
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
56 5 0.05
57 85 0.89
58 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (57 bp):
AGGATTACCAATCCAGGCTAAATCCCTAATATAACGTAAGCTCAGAGGAGCTCAATT
Found at i:53403316 original size:34 final size:34
Alignment explanation
Indices: 53403273--53403340 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
53403263 CCCTACCAAT
53403273 TTGATTTTATTCCCTTATTTAAGATTAAGCTACA
1 TTGATTTTATTCCCTTATTTAAGATTAAGCTACA
53403307 TTGATTTTATTCCCTTATTTAAGATTAAGCTACA
1 TTGATTTTATTCCCTTATTTAAGATTAAGCTACA
53403341 ATCATCAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (34 bp):
TTGATTTTATTCCCTTATTTAAGATTAAGCTACA
Found at i:53408004 original size:23 final size:23
Alignment explanation
Indices: 53407974--53408020 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
53407964 CTCAGTGCTA
53407974 TGATTCTGCCACAGCACCTTCAG
1 TGATTCTGCCACAGCACCTTCAG
*
53407997 TGATTCTGCCATAGCACCTTCAG
1 TGATTCTGCCACAGCACCTTCAG
53408020 T
1 T
53408021 AATGGAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (23 bp):
TGATTCTGCCACAGCACCTTCAG
Found at i:53412004 original size:29 final size:29
Alignment explanation
Indices: 53411962--53412019 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
53411952 TAGAGAAAAC
53411962 TGGATTTTAATCGTGCTTATCAGTAATAA
1 TGGATTTTAATCGTGCTTATCAGTAATAA
53411991 TGGATTTTAATCGTGCTTATCAGTAATAA
1 TGGATTTTAATCGTGCTTATCAGTAATAA
53412020 AACTATTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (29 bp):
TGGATTTTAATCGTGCTTATCAGTAATAA
Found at i:53414546 original size:48 final size:47
Alignment explanation
Indices: 53414474--53414854 Score: 273
Period size: 48 Copynumber: 7.7 Consensus size: 47
53414464 CAAATAAGTA
*
53414474 CCAATGCCATGTCCCCGACATGGTCTTACA-TGAATCCACATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTG--TCCACATATCATCG
* * * * *
53414522 TCAATGCCATGTCCTAGACATGGTCTTACACTGGTACTCATATCATCA
1 CCAATGCCATGTCCCAGACATGGTCTTACACT-GTCCACATATCATCG
* * * *
53414570 CCGATGCCATGTCTCAGACATGGTCTTACATTGGCACACATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTGTC-CACATATCATCG
* * * * *
53414618 CCGATGCCATGTCCCCGACATGGTCTTACATTGGCACACATAT-ACTGGCA
1 CCAATGCCATGTCCCAGACATGGTCTTACACTGTC-CACATATCA-T--CG
* * * *
53414668 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTCACACTGGCACACATATCATCA
1 C-C--A--AT-GCC-ATG---TC--CCAGACATGGTCTTACACTGTC-CACATATCATCG
** *
53414728 CGGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTGTC-CACATATCATCG
* * *
53414776 CCGATGCCATATCCCAGGCATGGTCTTACACTAG-CACACATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACACT-GTC-CACATATCATCG
* * *
53414824 CCGATCCCATGTCCCTGACATGGTCTTACAC
1 CCAATGCCATGTCCCAGACATGGTCTTACAC
53414855 AAGCACATTT
Statistics
Matches: 278, Mismatches: 35, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
47 2 0.01
48 220 0.79
49 2 0.01
50 4 0.01
51 1 0.00
53 3 0.01
54 3 0.01
55 4 0.01
56 3 0.01
57 3 0.01
60 4 0.01
62 28 0.10
63 1 0.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (47 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACTGTCCACATATCATCG
Found at i:53414641 original size:96 final size:96
Alignment explanation
Indices: 53414477--53414854 Score: 418
Period size: 96 Copynumber: 3.8 Consensus size: 96
53414467 ATAAGTACCA
* * * * *
53414477 ATGCCATGTCCCCGACATGGTCTTACA-T-GAATCCACATATCATCGTCAATGCCATGTCCTAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGCCGATGCCATGTCCCAGA
*
53414540 CATGGTCTTACACTGGTACTCATATCATCACCG
64 CATGGTCTTACACTGGTACTCATATCATCGCCG
* * *
53414573 ATGCCATGTCTCAGACATGGTCTTACATTGGCACACATATCATCGCCGATGCCATGTCCCCGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAGACA
*
53414638 TGGTCTTACATTGGCACACATATACTGGCACACATATCATCGCCG
66 TGGTCTTACACTGG--------TACT------CATATCATCGCCG
* * *
53414683 ATGCCATGTCCCAGACATGGTCTCACACTGGCACACATATCATCACGGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAGACA
* *
53414748 TGGTCTTACACTGGCACACATATCATCGCCG
66 TGGTCTTACACTGGTACTCATATCATCGCCG
* * * * *
53414779 ATGCCATATCCCAGGCATGGTCTTACACTAGCACACATATCATCGCCGATCCCATGTCCCTGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAGACA
53414844 TGGTCTTACAC
66 TGGTCTTACAC
53414855 AAGCACATTT
Statistics
Matches: 240, Mismatches: 26, Indels: 32
0.81 0.09 0.11
Matches are distributed among these distances:
96 147 0.61
97 1 0.00
98 2 0.01
102 2 0.01
104 4 0.02
110 84 0.35
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGGTACTCATATCATCGCCG
Found at i:53414700 original size:62 final size:62
Alignment explanation
Indices: 53414601--53414722 Score: 217
Period size: 62 Copynumber: 2.0 Consensus size: 62
53414591 GGTCTTACAT
* * *
53414601 TGGCACACATATCATCGCCGATGCCATGTCCCCGACATGGTCTTACATTGGCACACATATAC
1 TGGCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTCACACTGGCACACATATAC
53414663 TGGCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTCACACTGGCACACATAT
1 TGGCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTCACACTGGCACACATAT
53414723 CATCACGGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (62 bp):
TGGCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTCACACTGGCACACATATAC
Found at i:53414798 original size:158 final size:158
Alignment explanation
Indices: 53414510--53414818 Score: 492
Period size: 158 Copynumber: 2.0 Consensus size: 158
53414500 TACATGAATC
* * * * *
53414510 CACATATCATCGTCAATGCCATGTCCTAGACATGGTCTTACACTGGTACTCATATCATCACCGAT
1 CACATATCATCGCCAATGCCATGTCCCAGACATGGTCTCACACTGGCACACATATCATCACCGAT
* * * *
53414575 GCCATGTCTCAGACATGGTCTTACATTGGCACACATATCATCGCCGATGCCATGTCCCCGACATG
66 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATATCCCAGACATG
* *
53414640 GTCTTACATTGGCACACATATACTGGCA
131 GTCTTACACTAGCACACATATACTGGCA
* *
53414668 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTCACACTGGCACACATATCATCACGGAT
1 CACATATCATCGCCAATGCCATGTCCCAGACATGGTCTCACACTGGCACACATATCATCACCGAT
*
53414733 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATATCCCAGGCATG
66 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATATCCCAGACATG
53414798 GTCTTACACTAGCACACATAT
131 GTCTTACACTAGCACACATAT
53414819 CATCGCCGAT
Statistics
Matches: 137, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
158 137 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (158 bp):
CACATATCATCGCCAATGCCATGTCCCAGACATGGTCTCACACTGGCACACATATCATCACCGAT
GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATATCCCAGACATG
GTCTTACACTAGCACACATATACTGGCA
Found at i:53414836 original size:206 final size:205
Alignment explanation
Indices: 53414477--53414853 Score: 560
Period size: 206 Copynumber: 1.8 Consensus size: 205
53414467 ATAAGTACCA
* * * *
53414477 ATGCCATGTCCCCGACATGGTCTTACATGAATCCACATATCATCGTCAATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTCACATGAA-CCACATATCATCGACAATGCCATGTCCCAGACA
* * * * * *
53414542 TGGTCTTACACTGGTACTCATATCATCACCGATGCCATGTCTCAGACATGGTCTTACATTGGCAC
65 TGGTCTTACACTGGCACACATATCATCACCGATGCCATATCCCAGACATGGTCTTACACTAGCAC
*
53414607 ACATATCATCGCCGATGCCATGTCCCCGACATGGTCTTACATTGGCACACATATACTGGCACACA
130 ACATATCATCGCCGATCCCATGTCCCCGACATGGTCTTACATTGGCACACATATACTGGCACACA
53414672 TATCATCGCCG
195 TATCATCGCCG
* *
53414683 ATGCCATGTCCCAGACATGGTCTCACACTG-GCACACATATCATC-ACGGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTCACA-TGAAC-CACATATCATCGAC-AATGCCATGTCCCAGA
* *
53414746 CATGGTCTTACACTGGCACACATATCATCGCCGATGCCATATCCCAGGCATGGTCTTACACTAGC
63 CATGGTCTTACACTGGCACACATATCATCACCGATGCCATATCCCAGACATGGTCTTACACTAGC
*
53414811 ACACATATCATCGCCGATCCCATGTCCCTGACATGGTCTTACA
128 ACACATATCATCGCCGATCCCATGTCCCCGACATGGTCTTACA
53414854 CAAGCACATT
Statistics
Matches: 152, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
205 2 0.01
206 148 0.97
207 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (205 bp):
ATGCCATGTCCCAGACATGGTCTCACATGAACCACATATCATCGACAATGCCATGTCCCAGACAT
GGTCTTACACTGGCACACATATCATCACCGATGCCATATCCCAGACATGGTCTTACACTAGCACA
CATATCATCGCCGATCCCATGTCCCCGACATGGTCTTACATTGGCACACATATACTGGCACACAT
ATCATCGCCG
Found at i:53414860 original size:48 final size:48
Alignment explanation
Indices: 53414665--53414861 Score: 304
Period size: 48 Copynumber: 4.1 Consensus size: 48
53414655 ACATATACTG
* *
53414665 GCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTCACACTG
1 GCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTA
* * *
53414713 GCACACATATCATCACGGATGCCATGTCCCAGACATGGTCTTACACTG
1 GCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTA
* *
53414761 GCACACATATCATCGCCGATGCCATATCCCAGGCATGGTCTTACACTA
1 GCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTA
* * *
53414809 GCACACATATCATCGCCGATCCCATGTCCCTGACATGGTCTTACACAA
1 GCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTA
53414857 GCACA
1 GCACA
53414862 TTTAGCACGG
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 136 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (48 bp):
GCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTA
Found at i:53418963 original size:26 final size:25
Alignment explanation
Indices: 53418919--53418989 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
53418909 GAGGAAGTGC
* * *
53418919 AAAAGGACTTTGCTCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
53418944 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCA
53418970 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53418990 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 19 0.46
26 22 0.54
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:53419002 original size:24 final size:24
Alignment explanation
Indices: 53418918--53419016 Score: 69
Period size: 25 Copynumber: 4.0 Consensus size: 24
53418908 GGAGGAAGTG
* * *
53418918 CAAAAG-GACTTTGCTCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAG-TTAT
53418942 CGAAAAG-GGCTTTTGCCCCAGTTTAT
1 C-AAAAGAGGC-TTTGCCCCAG-TTAT
53418968 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
53418992 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
53419017 ATGTTAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
24 16 0.25
25 30 0.48
26 17 0.27
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:53419253 original size:31 final size:31
Alignment explanation
Indices: 53419211--53419290 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
53419201 TACAGTAAAG
*
53419211 GCTTCGACCCAGTGATATGAATAATGAAAAA
1 GCTTCGGCCCAGTGATATGAATAATGAAAAA
* *
53419242 GCTTCGGCCCAGTGATATGAATAATGTAAAG
1 GCTTCGGCCCAGTGATATGAATAATGAAAAA
*
53419273 GCTTCGGCCTAGT-ATATG
1 GCTTCGGCCCAGTGATATG
53419291 CTGAGATTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 5 0.11
31 40 0.89
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (31 bp):
GCTTCGGCCCAGTGATATGAATAATGAAAAA
Found at i:53426681 original size:29 final size:29
Alignment explanation
Indices: 53426647--53426721 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
53426637 TACTCGATTT
*
53426647 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
53426676 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
53426705 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
53426722 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:53426738 original size:29 final size:29
Alignment explanation
Indices: 53426705--53426778 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
53426695 CCTTCGAGCT
53426705 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
53426734 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
53426763 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
53426779 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:53430717 original size:39 final size:39
Alignment explanation
Indices: 53430657--53430853 Score: 331
Period size: 39 Copynumber: 5.1 Consensus size: 39
53430647 TGTGAATATA
*
53430657 TATATCCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
53430696 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
53430735 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
53430774 TATATGCGAGGATTATATCCGGACTTCATGTCCACAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
53430813 TATATGCGAGAATTATATCTGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
53430852 TA
1 TA
53430854 CGTTCTGGAC
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 147 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:53435861 original size:39 final size:39
Alignment explanation
Indices: 53435835--53435992 Score: 235
Period size: 39 Copynumber: 4.1 Consensus size: 39
53435825 GTCCAGCACG
*
53435835 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* * * *
53435874 TAGCCTGCAGACATGAATTTCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
53435913 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTTGCTTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
53435952 TAGCCTGCGGTCCTGAAGTCCGGATATAATTCTCGCGTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
53435991 TA
1 TA
53435993 TATATTCACA
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:53442266 original size:39 final size:39
Alignment explanation
Indices: 53442207--53442363 Score: 280
Period size: 39 Copynumber: 4.1 Consensus size: 39
53442197 TGTGAATATA
53442207 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
53442246 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
53442285 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
53442324 TATATGCGAGAATTATAT-CGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
53442362 TA
1 TA
53442364 CGTGCTGGAC
Statistics
Matches: 113, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 20 0.18
39 93 0.82
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:53442402 original size:78 final size:78
Alignment explanation
Indices: 53442210--53442408 Score: 206
Period size: 78 Copynumber: 2.6 Consensus size: 78
53442200 GAATATATAT
* * * * *
53442210 ATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGCGAGAATTATATCCGGACTTCAG
1 ATGCGAGAATTATATCCGAACTTAAAGTCCGAAGGCTATATGCGAGAATTATATCCGGACTTCAG
*
53442275 GTCCGCAGGCTAT
66 GTCCGCAGGCTAC
* * * * *
53442288 ATGCGAGAATTATATCCGGACTTCATGTCCGCAGGCTATATGCGAGAATTATAT-CGGACTTTAG
1 ATGCGAGAATTATATCCGAACTTAAAGTCCGAAGGCTATATGCGAGAATTATATCCGGACTTCAG
53442352 GTCCGCAGGCTAC
66 GTCCGCAGGCTAC
* * * * *
53442365 GTGCTG-GACA-TATATCTGAATTTAAAGTCTTGAAGGCTTTATGC
1 ATGC-GAGA-ATTATATCCGAACTTAAAGTC-CGAAGGCTATATGC
53442409 CAGTGACTGG
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
77 40 0.38
78 65 0.62
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (78 bp):
ATGCGAGAATTATATCCGAACTTAAAGTCCGAAGGCTATATGCGAGAATTATATCCGGACTTCAG
GTCCGCAGGCTAC
Found at i:53444189 original size:6 final size:6
Alignment explanation
Indices: 53444151--53444281 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
53444141 AAGAAACATT
* * * *
53444151 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
53444200 ATCAAA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* *
53444249 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
53444282 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
5 5 0.05
6 77 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53444206 original size:37 final size:37
Alignment explanation
Indices: 53444160--53444281 Score: 157
Period size: 37 Copynumber: 3.5 Consensus size: 37
53444150 TATCAGAACT
* *
53444160 AGAATCAAAATGAGAATCAAAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
*
53444197 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
53444234 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
53444265 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
53444282 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
31 27 0.37
32 1 0.01
36 1 0.01
37 44 0.60
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:53444215 original size:31 final size:31
Alignment explanation
Indices: 53444174--53444281 Score: 117
Period size: 31 Copynumber: 3.3 Consensus size: 31
53444164 TCAAAATGAG
*
53444174 AATCAAAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGGTGACAGAATCAA
* *
53444205 AATCAGAATCAGAATCAGAATTAGGTGACAGAATTAG
1 AATCAGAATCAGAATC------AGGTGACAGAATCAA
* *
53444242 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGGTGACAGAATCAA
53444273 AATCAGAAT
1 AATCAGAAT
53444282 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
31 36 0.56
37 28 0.44
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTGACAGAATCAA
Found at i:53444448 original size:27 final size:26
Alignment explanation
Indices: 53444400--53444459 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
53444390 GCGAGGCTGC
*
53444400 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * * *
53444427 CAGATATTGTGGCTAGGCCACCTGAA
1 CAGATATTGTGACGAAGCCACCAGAA
53444453 CAGATAT
1 CAGATAT
53444460 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53447391 original size:6 final size:6
Alignment explanation
Indices: 53447380--53447489 Score: 91
Period size: 6 Copynumber: 17.8 Consensus size: 6
53447370 AATGAGGATT
*
53447380 AGAATC AGAATC AGGTGAT- AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC AGAATC
* * * *
53447429 AGAATT AGGTGAT- AGAATT AGAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
53447479 AAAATC AGAAT
1 AGAATC AGAAT
53447490 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
5 6 0.07
6 67 0.79
7 7 0.08
8 5 0.06
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:53447409 original size:43 final size:43
Alignment explanation
Indices: 53447362--53447467 Score: 140
Period size: 43 Copynumber: 2.5 Consensus size: 43
53447352 TATTAGAACT
* * *
53447362 AGAATCAAAATGAGGATTAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGATAGAATC
* * *
53447405 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGATAGAATT
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGATAGAATC
* *
53447448 AGAATCAGAATCAGTATCAG
1 AGAATCAAAATCAGAATCAG
53447468 GTAACAGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (43 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGATAGAATC
Found at i:53447421 original size:37 final size:37
Alignment explanation
Indices: 53447361--53447489 Score: 120
Period size: 37 Copynumber: 3.5 Consensus size: 37
53447351 TTATTAGAAC
* * * *
53447361 TAGAATCAAAATGAGGATTAGAATCAGAATCAGGTGA
1 TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTAA
*
53447398 TAGAATCAGAATCAGAATCAGAATCAGAATCA-G-AA
1 TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTAA
* * * *
53447433 TTAGGTGAT-AGAATTAGAATCAGAATCAGTATCAGGTAA
1 -TA-G-AATCAAAATCAGAATCAGAATCAGAATCAGGTAA
*
53447472 CAGAATCAAAATCAGAAT
1 TAGAATCAAAATCAGAAT
53447490 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
35 1 0.01
36 5 0.07
37 62 0.84
38 4 0.05
39 2 0.03
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (37 bp):
TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:53447446 original size:31 final size:31
Alignment explanation
Indices: 53447410--53447489 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
53447400 GAATCAGAAT
* *
53447410 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
53447441 TAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
53447472 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
53447490 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:53448393 original size:27 final size:27
Alignment explanation
Indices: 53448303--53448393 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
53448293 TTACCCATGA
*
53448303 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
53448330 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
53448357 GGGTATTTCGGTAATTCTACCTTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
53448384 GGGCATTTCG
1 GGGTATTTCG
53448394 AAAATTTTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:53448418 original size:27 final size:27
Alignment explanation
Indices: 53448388--53448445 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
53448378 TTACAAGGGC
53448388 ATTTCGAAAATTTTACAAA-TCAGGGGT
1 ATTTCGAAAATTTTACAAACT-AGGGGT
* **
53448415 ATTTTGGTAATTTTACAAACTAGGGGT
1 ATTTCGAAAATTTTACAAACTAGGGGT
53448442 ATTT
1 ATTT
53448446 TGGTAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
ATTTCGAAAATTTTACAAACTAGGGGT
Found at i:53448446 original size:27 final size:27
Alignment explanation
Indices: 53448396--53448504 Score: 132
Period size: 27 Copynumber: 4.0 Consensus size: 27
53448386 GCATTTCGAA
53448396 AATTTTACAAATCAG-GGGTATTTTGGT
1 AATTTTACAAAT-AGAGGGTATTTTGGT
53448423 AATTTTACAAACTAG-GGGTATTTTGGT
1 AATTTTACAAA-TAGAGGGTATTTTGGT
* * *
53448450 AATTTTGCTAATCGAGGGTATTTTGGT
1 AATTTTACAAATAGAGGGTATTTTGGT
* * *
53448477 AATTTTTCTAATCGAGGGTATTTTGGT
1 AATTTTACAAATAGAGGGTATTTTGGT
53448504 A
1 A
53448505 GTTTGGTAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
26 2 0.03
27 73 0.96
28 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (27 bp):
AATTTTACAAATAGAGGGTATTTTGGT
Found at i:53450207 original size:29 final size:29
Alignment explanation
Indices: 53450175--53450247 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
53450165 CTTCGAGCGC
* *
53450175 GCACACCTAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
53450204 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
53450233 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
53450248 ATCTTGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:53458198 original size:40 final size:40
Alignment explanation
Indices: 53458154--53458381 Score: 352
Period size: 40 Copynumber: 5.7 Consensus size: 40
53458144 GCTGCTTGCT
53458154 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
53458194 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
53458234 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
53458274 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
53458314 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
53458353 CAAATGCCTTCGGGACATAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
53458382 CATTCGAATA
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 138 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:53462274 original size:14 final size:14
Alignment explanation
Indices: 53462253--53462292 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
53462243 ACGGAGCCAG
53462253 AATGATTTGAATCT
1 AATGATTTGAATCT
*
53462267 AGTGATTTGAATCT
1 AATGATTTGAATCT
53462281 AATGATTTGAAT
1 AATGATTTGAAT
53462293 GGTCTACCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.42
Consensus pattern (14 bp):
AATGATTTGAATCT
Found at i:53471449 original size:18 final size:18
Alignment explanation
Indices: 53471426--53471460 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
53471416 CTAATTATGT
53471426 TTCATTTT-TTTTAGTTTC
1 TTCATTTTATTTT-GTTTC
53471444 TTCATTTTATTTTGTTT
1 TTCATTTTATTTTGTTT
53471461 AAAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.11, C:0.09, G:0.06, T:0.74
Consensus pattern (18 bp):
TTCATTTTATTTTGTTTC
Found at i:53471513 original size:15 final size:14
Alignment explanation
Indices: 53471471--53471518 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 14
53471461 AAAAAAATTT
53471471 AAAAAGAAAT-AAA
1 AAAAAGAAATGAAA
53471484 AAAATGAGAAATGAAA
1 AAAA--AGAAATGAAA
53471500 AAAAAGAAACTGAAA
1 AAAAAGAAA-TGAAA
53471515 AAAA
1 AAAA
53471519 CATTTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.13
14 5 0.16
15 15 0.48
16 7 0.23
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.08
Consensus pattern (14 bp):
AAAAAGAAATGAAA
Found at i:53476489 original size:64 final size:64
Alignment explanation
Indices: 53476409--53476580 Score: 179
Period size: 67 Copynumber: 2.7 Consensus size: 64
53476399 AGACATTATG
* * * *
53476409 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGTTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
53476473 ATGTAGCTAGGTCGCATGCGTGGT-TTCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGTGGTACT-A--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
53476537 TAA
62 TAA
* * *
53476540 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGT
53476581 GTACAACAGA
Statistics
Matches: 87, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
63 10 0.11
64 24 0.28
66 20 0.23
67 31 0.36
68 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53479133 original size:93 final size:93
Alignment explanation
Indices: 53479021--53479192 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53479011 GCCCATAAGT
* *
53479021 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53479086 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
53479114 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53479179 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
53479193 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53479188 original size:46 final size:46
Alignment explanation
Indices: 53479013--53479188 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53479003 TGTAACCCGC
* * *
53479013 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
53479059 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
53479109 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
53479152 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53479189 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:53481077 original size:2 final size:2
Alignment explanation
Indices: 53481070--53481107 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
53481060 TTGGCTATCT
53481070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53481108 CCTTCGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:53483131 original size:2 final size:2
Alignment explanation
Indices: 53483094--53483122 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
53483084 TAAGGCATAC
53483094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53483123 CCTATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53485481 original size:30 final size:30
Alignment explanation
Indices: 53485437--53485525 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
53485427 CAAAGATAAC
53485437 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
53485466 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
53485496 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
53485526 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:53485485 original size:15 final size:15
Alignment explanation
Indices: 53485437--53485516 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
53485427 CAAAGATAAC
*
53485437 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
53485451 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
53485466 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
53485481 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
53485496 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
53485511 AAGAAA
1 AAGAAA
53485517 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Done.