Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 158 of 186
Found at i:52615262 original size:19 final size:19
Alignment explanation
Indices: 52615238--52615274 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
52615228 AATACCGAAG
52615238 TACCCTTGTAGGGTAGAAA
1 TACCCTTGTAGGGTAGAAA
52615257 TACCCTTGTAGGGTAGAA
1 TACCCTTGTAGGGTAGAA
52615275 TTACTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (19 bp):
TACCCTTGTAGGGTAGAAA
Found at i:52615587 original size:81 final size:81
Alignment explanation
Indices: 52615180--52615572 Score: 552
Period size: 81 Copynumber: 5.0 Consensus size: 81
52615170 CAAAATTATT
* * ** * * *
52615180 GAAATACCCCTATAGGGTAGATTTACCGAAATACCCTTGTAGGGTAGAAATACCGAAGTACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCATGTAGGGTAGAATTACCGAAATACCCTT
52615245 GTA-GG--G---TA--
66 GTAGGGTAGAAATACC
* * * * * *
52615253 GAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATGCCCCT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCATGTAGGGTAGAATTACCGAAATACCCTT
*
52615318 GTAGGGTAGAAATAAC
66 GTAGGGTAGAAATACC
52615334 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCATGTAGGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCATGTAGGGTAGAATTACCGAAATACCCTT
52615399 GTAGGGTAGAAATACC
66 GTAGGGTAGAAATACC
52615415 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCATGTAGGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCATGTAGGGTAGAATTACCGAAATACCCTT
52615480 GTAGGGTAGAAATACC
66 GTAGGGTAGAAATACC
* * * *
52615496 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGGATTACCGAGATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCATGTAGGGTAGAATTACCGAAATACCCTT
*
52615561 GTGGGGTA-AAAT
66 GTAGGGTAGAAAT
52615573 TACCATTTTA
Statistics
Matches: 290, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
73 58 0.20
74 2 0.01
76 1 0.00
79 2 0.01
80 4 0.01
81 223 0.77
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCATGTAGGGTAGAATTACCGAAATACCCTT
GTAGGGTAGAAATACC
Found at i:52615885 original size:27 final size:26
Alignment explanation
Indices: 52615847--52615965 Score: 98
Period size: 27 Copynumber: 4.5 Consensus size: 26
52615837 CATATATATA
* *
52615847 TATCTG-TCCTGGTGGCTATGTCACAAT
1 TATCTGAT-CTGGTGGCTCTGCCAC-AT
*
52615874 TATCTGATCTGGTGGCTCTACCACAT
1 TATCTGATCTGGTGGCTCTGCCACAT
*
52615900 ATATCT-ATTCTCGTGGCTCTGCCACGAT
1 -TATCTGA-TCTGGTGGCTCTGCCAC-AT
* * *
52615928 TATCTGTTCTGGTGACTCTGTCACAT
1 TATCTGATCTGGTGGCTCTGCCACAT
* *
52615954 TATTTGTTCTGG
1 TATCTGATCTGG
52615966 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
26 16 0.21
27 58 0.75
28 3 0.04
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (26 bp):
TATCTGATCTGGTGGCTCTGCCACAT
Found at i:52615953 original size:54 final size:54
Alignment explanation
Indices: 52615844--52615946 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
52615834 CCACATATAT
* * * *
52615844 ATATATCTGTCCTGGTGGCTATGTCACAATTATCTGATCTGGTGGCTCTACCAC
1 ATATATCTATCCTCGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCAC
* * * *
52615898 ATATATCTATTCTCGTGGCTCTGCCACGATTATCTGTTCTGGTGACTCT
1 ATATATCTATCCTCGTGGCTATGCCACAATTATCTGATCTGGTGACTCT
52615947 GTCACATTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.38
Consensus pattern (54 bp):
ATATATCTATCCTCGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCAC
Found at i:52616158 original size:12 final size:12
Alignment explanation
Indices: 52616126--52616160 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
52616116 ATTCTGTCAC
*
52616126 CTAATTCTAATT
1 CTAATTCTGATT
52616138 CTAATTCTGATT
1 CTAATTCTGATT
*
52616150 CTAGTTCTGAT
1 CTAATTCTGAT
52616161 AATGTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (12 bp):
CTAATTCTGATT
Found at i:52625764 original size:39 final size:40
Alignment explanation
Indices: 52625650--52625873 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
52625640 GCTACTCGTT
* *
52625650 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
52625690 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
52625730 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
52625769 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
52625808 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
52625849 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52625874 CATCATTCGA
Statistics
Matches: 164, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.45
40 76 0.46
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:52625833 original size:118 final size:120
Alignment explanation
Indices: 52625650--52625873 Score: 305
Period size: 118 Copynumber: 1.9 Consensus size: 120
52625640 GCTACTCGTT
*
52625650 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
52625715 ATTTAGTAACTCA-CACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
66 ATATAGTAACTCAGCA-CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* **
52625769 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
52625831 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTCAGCACAAAGCCTTCGGGACTTAGCCCGGA
52625874 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
117 4 0.04
118 61 0.66
119 27 0.29
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTCAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:52632639 original size:40 final size:39
Alignment explanation
Indices: 52632584--52632737 Score: 218
Period size: 40 Copynumber: 3.9 Consensus size: 39
52632574 GGATATAGCT
*
52632584 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTGTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* *
52632624 ACTCGCACAATTGCCTTCGGGACTTAGCCCGATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* *
52632664 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* *
52632704 ATTAGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
52632738 ATCATCCGAA
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
Found at i:52632690 original size:80 final size:80
Alignment explanation
Indices: 52632558--52632739 Score: 235
Period size: 80 Copynumber: 2.3 Consensus size: 80
52632548 CAACCGAGTA
** * * *
52632558 CCTTCGGGGTTTAGCCGGA-TATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-TTGTA
1 CCTTCGGGACTTAGCCCGATTATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
* *
52632621 GTAACTCGCACAATTG
65 GTAACTAGCACAAATG
52632637 CCTTCGGGACTTAGCCCGATTATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGATTATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
* *
52632701 GTCATTAGCACAAATG
65 GTAACTAGCACAAATG
*
52632717 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGATTAT
52632740 CATCCGAATA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
79 17 0.19
80 72 0.80
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGATTATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTAGCACAAATG
Found at i:52640696 original size:40 final size:39
Alignment explanation
Indices: 52640641--52640794 Score: 218
Period size: 40 Copynumber: 3.9 Consensus size: 39
52640631 GGATATAGCT
*
52640641 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTGTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* *
52640681 ACTCGCACAATTGCCTTCGGGACTTAGCCCGATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* *
52640721 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* *
52640761 ATTAGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
52640795 ATCATCCGAA
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
Found at i:52640747 original size:80 final size:80
Alignment explanation
Indices: 52640615--52640796 Score: 235
Period size: 80 Copynumber: 2.3 Consensus size: 80
52640605 CAACCGAGTA
** * * *
52640615 CCTTCGGGGTTTAGCCGGA-TATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-TTGTA
1 CCTTCGGGACTTAGCCCGATTATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
* *
52640678 GTAACTCGCACAATTG
65 GTAACTAGCACAAATG
52640694 CCTTCGGGACTTAGCCCGATTATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGATTATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
* *
52640758 GTCATTAGCACAAATG
65 GTAACTAGCACAAATG
*
52640774 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGATTAT
52640797 CATCCGAATA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
79 17 0.19
80 72 0.80
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGATTATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTAGCACAAATG
Found at i:52654685 original size:22 final size:22
Alignment explanation
Indices: 52654658--52654731 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
52654648 CATGCATATG
52654658 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
52654680 TGTGATGAATG-TGAACAT-GCAAATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
52654705 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
52654727 TGTGA
1 TGTGA
52654732 CGAATGTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 13 0.33
23 9 0.23
24 9 0.23
25 8 0.21
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.23
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:52654687 original size:47 final size:47
Alignment explanation
Indices: 52654636--52654775 Score: 226
Period size: 47 Copynumber: 3.0 Consensus size: 47
52654626 GATTCTATGA
*
52654636 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
52654683 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* ** *
52654730 GACGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCTAATG
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
52654776 CGAAATGTGT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:52654988 original size:37 final size:37
Alignment explanation
Indices: 52654880--52654988 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
52654870 GGAAATAGAT
*
52654880 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
52654917 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
52654954 TCCGAGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
52654989 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:52657291 original size:40 final size:40
Alignment explanation
Indices: 52657141--52657292 Score: 209
Period size: 40 Copynumber: 3.8 Consensus size: 40
52657131 CATTTGAATG
* * *
52657141 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
52657181 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
52657221 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
52657261 ATA-CTCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATC-CGGGCTAAGACCCGAAGGCATTTGTGC
52657293 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 98 0.96
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:52665365 original size:40 final size:40
Alignment explanation
Indices: 52665310--52665536 Score: 375
Period size: 40 Copynumber: 5.7 Consensus size: 40
52665300 ATTTGAATGA
52665310 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
52665350 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
52665390 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
*
52665430 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
* * * * *
52665470 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAG-TGATTT
*
52665510 TATCCGGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTT
52665537 GTGCGAGTTG
Statistics
Matches: 181, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 178 0.98
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
Found at i:52665557 original size:120 final size:120
Alignment explanation
Indices: 52665313--52665600 Score: 348
Period size: 120 Copynumber: 2.4 Consensus size: 120
52665303 TGAATGATAT
* *
52665313 CCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTA
* * * * * * *
52665378 TCCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTAT
66 TCCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTATCCGAGTGACTATAC
*
52665433 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTA
* * *
52665498 TGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAC
66 TCCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTTATCCGAG-TGACTATAC
* * * * * * * *
52665553 CCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
52665601 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
119 6 0.04
120 134 0.92
121 5 0.03
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTA
TCCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTATCCGAGTGACTATAC
Found at i:52665563 original size:40 final size:40
Alignment explanation
Indices: 52665309--52665580 Score: 264
Period size: 40 Copynumber: 6.8 Consensus size: 40
52665299 CATTTGAATG
* * * *
52665309 ATATCCGGGCTAAGTCCCGAAGGCATTTATCCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * * *
52665349 TTATCCGGGCTAAGTCCCGAAGGCATTTATCCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * * *
52665389 TTATCCGGGCTAAGTCCCGAAGGCATTTATCCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
52665429 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
52665469 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
52665509 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
52665549 ATACCCGGGTTAAGACCTGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
52665581 TTGTGGTTAT
Statistics
Matches: 220, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 217 0.99
41 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:52665571 original size:80 final size:80
Alignment explanation
Indices: 52665310--52665609 Score: 336
Period size: 80 Copynumber: 3.8 Consensus size: 80
52665300 ATTTGAATGA
* * * * *
52665310 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
*
52665375 TTATCCTAGTGATTT
66 TTATGCTAGTGATTT
* * * * *
52665390 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
52665455 TTATGCTAGTGATTT
66 TTATGCTAGTGATTT
*
52665470 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGTCCCGAAGGCA
* * * *
52665534 TTTGTGCGAGTTG-CTA
65 TTTATGCTAG-TGATTT
* * * * ** * * *
52665550 TACCCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAAATTCCGAAG
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGTCCCGAAG
52665610 AAACTTGGGT
Statistics
Matches: 196, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 14 0.07
80 177 0.90
81 5 0.03
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAGTGATTT
Found at i:52667751 original size:26 final size:26
Alignment explanation
Indices: 52667718--52667769 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
52667708 TGCAATTTTG
*
52667718 AAAGAGTGTTATGACTATAAATGTGA
1 AAAGAGTGTTACGACTATAAATGTGA
52667744 AAAGAGTGTTACGACTATAAATGTGA
1 AAAGAGTGTTACGACTATAAATGTGA
52667770 TCATTGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAGAGTGTTACGACTATAAATGTGA
Found at i:52667957 original size:40 final size:40
Alignment explanation
Indices: 52667902--52668036 Score: 252
Period size: 40 Copynumber: 3.4 Consensus size: 40
52667892 AGAGTTATAT
52667902 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
52667942 ATATATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
52667982 ATATATCCGGGCTAAGTTCCGAATAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
52668022 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
52668037 ACCTCGAAGG
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:52668035 original size:80 final size:79
Alignment explanation
Indices: 52667902--52668056 Score: 265
Period size: 80 Copynumber: 1.9 Consensus size: 79
52667892 AGAGTTATAT
***
52667902 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTTCGAAGA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCTCGAAG-
52667967 GCATTCGTGCTAGTG
65 GCATTCGTGCTAGTG
*
52667982 ATATATCCGGGCTAAGTTCCGAATAGCATTCGTGCTAGTGATATATCCGGGCTAAACCTCGAAGG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCTCGAAGG
52668047 CATTCGTGCT
66 CATTCGTGCT
52668057 GGAATTATGA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
79 11 0.15
80 60 0.85
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (79 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCTCGAAGG
CATTCGTGCTAGTG
Found at i:52668153 original size:57 final size:57
Alignment explanation
Indices: 52668065--52668197 Score: 239
Period size: 57 Copynumber: 2.3 Consensus size: 57
52668055 CTGGAATTAT
* *
52668065 GAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGTG
1 GAGGCACTATGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGTG
*
52668122 GAGGCACTATGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCTAGATCAGTAGTG
1 GAGGCACTATGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGTG
52668179 GAGGCACTATGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
52668198 ATTGGTAATT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 73 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.26
Consensus pattern (57 bp):
GAGGCACTATGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGTG
Found at i:52668220 original size:86 final size:86
Alignment explanation
Indices: 52668096--52668283 Score: 286
Period size: 86 Copynumber: 2.2 Consensus size: 86
52668086 CTTCAACCGA
* * * * *
52668096 GCACTATGTGTGCCAGATCAGTAGTGGAGGCACTATGTGTGCGAGTTCTTCAACCGAGCACTATG
1 GCACTATGTGTGCGAGATCAGTAATGGAGGCACCATGTGTGCAAGTTCTTCAAACGAGCACTATG
*
52668161 TGTGCTAGATCAGTAGTGGAG
66 TGTGCCAGATCAGTAGTGGAG
** * *
52668182 GCACTATGTGTGCGAGATTGGTAATTGAGGTACCATGTGTGCAAGTTCTTCAAACGAGCACTATG
1 GCACTATGTGTGCGAGATCAGTAATGGAGGCACCATGTGTGCAAGTTCTTCAAACGAGCACTATG
52668247 TGTGCCAGATCAGTAGTGGAG
66 TGTGCCAGATCAGTAGTGGAG
52668268 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
52668284 TTCTTCAATC
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 92 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (86 bp):
GCACTATGTGTGCGAGATCAGTAATGGAGGCACCATGTGTGCAAGTTCTTCAAACGAGCACTATG
TGTGCCAGATCAGTAGTGGAG
Found at i:52668243 original size:57 final size:57
Alignment explanation
Indices: 52668182--52668367 Score: 273
Period size: 57 Copynumber: 3.3 Consensus size: 57
52668172 AGTAGTGGAG
* * *
52668182 GCACTATGTGTGCGAGATTGGTAATTGAGGTACCATGTGTGCAAGTTCTTCAAACGA
1 GCACTATGTGTGCGAGATTGGTAATTGAGGCACCATGTGTGCGAGTTCTTCAATCGA
* ** * * *
52668239 GCACTATGTGTGCCAGATCAGTAGTGGAGGCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGATTGGTAATTGAGGCACCATGTGTGCGAGTTCTTCAATCGA
*
52668296 GCACTATGTGTGCGAGATTGGTAATTGAGGCACCATGTGTGCGAGTTCTTTAATCGA
1 GCACTATGTGTGCGAGATTGGTAATTGAGGCACCATGTGTGCGAGTTCTTCAATCGA
*
52668353 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
52668368 AATCAGTCAG
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 112 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (57 bp):
GCACTATGTGTGCGAGATTGGTAATTGAGGCACCATGTGTGCGAGTTCTTCAATCGA
Found at i:52668254 original size:143 final size:143
Alignment explanation
Indices: 52668074--52668340 Score: 462
Period size: 143 Copynumber: 1.9 Consensus size: 143
52668064 TGAGGCACTG
*
52668074 TGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGTGGAGGCACTATGTGTGCG
1 TGTGTGCAAGTTCTTCAAACGAGCACTATGTGTGCCAGATCAGTAGTGGAGGCACTATGTGTGCG
* * *
52668139 AGTTCTTCAACCGAGCACTATGTGTGCTAGATCAGTAGTGGAGGCACTATGTGTGCGAGATTGGT
66 AGTTCTTCAACCGAGCACTATGTGTGCGAGATCAGTAATGGAGGCACCATGTGTGCGAGATTGGT
52668204 AATTGAGGTACCA
131 AATTGAGGTACCA
52668217 TGTGTGCAAGTTCTTCAAACGAGCACTATGTGTGCCAGATCAGTAGTGGAGGCACTATGTGTGCG
1 TGTGTGCAAGTTCTTCAAACGAGCACTATGTGTGCCAGATCAGTAGTGGAGGCACTATGTGTGCG
* ** *
52668282 AGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAATTGAGGCACCATGTGTGCGAG
66 AGTTCTTCAACCGAGCACTATGTGTGCGAGATCAGTAATGGAGGCACCATGTGTGCGAG
52668341 TTCTTTAATC
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
143 116 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (143 bp):
TGTGTGCAAGTTCTTCAAACGAGCACTATGTGTGCCAGATCAGTAGTGGAGGCACTATGTGTGCG
AGTTCTTCAACCGAGCACTATGTGTGCGAGATCAGTAATGGAGGCACCATGTGTGCGAGATTGGT
AATTGAGGTACCA
Found at i:52668337 original size:86 final size:86
Alignment explanation
Indices: 52668096--52668308 Score: 261
Period size: 86 Copynumber: 2.5 Consensus size: 86
52668086 CTTCAACCGA
* * * * * * *
52668096 GCACTATGTGTGCCAGA-TCAGTAGTGGAGGCACTATGTGTGCGAGTTCTTCAACCGAGCACTAT
1 GCACTATGTGTGCGAGATTC-GTAATCGAGGCACCATGTGTGCAAGTTCGTCAAACGAGCACTAT
*
52668160 GTGTGCTAGATCAGTAGTGGAG
65 GTGTGCCAGATCAGTAGTGGAG
* * * *
52668182 GCACTATGTGTGCGAGATTGGTAATTGAGGTACCATGTGTGCAAGTTCTTCAAACGAGCACTATG
1 GCACTATGTGTGCGAGATTCGTAATCGAGGCACCATGTGTGCAAGTTCGTCAAACGAGCACTATG
52668247 TGTGCCAGATCAGTAGTGGAG
66 TGTGCCAGATCAGTAGTGGAG
* *
52668268 GCACTATGTGTGCGAG-TTCTTCAATCGA-GCACTATGTGTGC
1 GCACTATGTGTGCGAGATTCGT-AATCGAGGCACCATGTGTGC
52668309 GAGATTGGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
85 14 0.13
86 96 0.86
87 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (86 bp):
GCACTATGTGTGCGAGATTCGTAATCGAGGCACCATGTGTGCAAGTTCGTCAAACGAGCACTATG
TGTGCCAGATCAGTAGTGGAG
Found at i:52668338 original size:29 final size:29
Alignment explanation
Indices: 52668065--52668367 Score: 191
Period size: 29 Copynumber: 10.6 Consensus size: 29
52668055 CTGGAATTAT
* * * *
52668065 GAGGCACTGTGTGTGCAAG-TTCTTCAACC
1 GAGGCACTATGTGTGCGAGATTCGT-AATC
* * *
52668094 GA-GCACTATGTGTGCCAGA-TCAGTAGTG
1 GAGGCACTATGTGTGCGAGATTC-GTAATC
* *
52668122 GAGGCACTATGTGTGCGAG-TTCTTCAACC
1 GAGGCACTATGTGTGCGAGATTCGT-AATC
* * *
52668151 GA-GCACTATGTGTGCTAGA-TCAGTAGTG
1 GAGGCACTATGTGTGCGAGATTC-GTAATC
* *
52668179 GAGGCACTATGTGTGCGAGATTGGTAATT
1 GAGGCACTATGTGTGCGAGATTCGTAATC
* * * * *
52668208 GAGGTACCATGTGTGCAAG-TTCTTCAAAC
1 GAGGCACTATGTGTGCGAGATTCGT-AATC
* * *
52668237 GA-GCACTATGTGTGCCAGA-TCAGTAGTG
1 GAGGCACTATGTGTGCGAGATTC-GTAATC
*
52668265 GAGGCACTATGTGTGCGAG-TTCTTCAATC
1 GAGGCACTATGTGTGCGAGATTCGT-AATC
* *
52668294 GA-GCACTATGTGTGCGAGATTGGTAATT
1 GAGGCACTATGTGTGCGAGATTCGTAATC
* *
52668322 GAGGCACCATGTGTGCGAG-TTCTTTAATC
1 GAGGCACTATGTGTGCGAGATTC-GTAATC
*
52668351 GA-GCGCTATGTGTGCGA
1 GAGGCACTATGTGTGCGA
52668368 AATCAGTCAG
Statistics
Matches: 209, Mismatches: 47, Indels: 37
0.71 0.16 0.13
Matches are distributed among these distances:
28 98 0.47
29 110 0.53
30 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATTCGTAATC
Found at i:52672121 original size:22 final size:22
Alignment explanation
Indices: 52672094--52672167 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
52672084 CATGCATATG
52672094 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
52672116 TGTGATGAATG-TGAACAT-GCAAATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
52672141 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
52672163 TGTGA
1 TGTGA
52672168 CGAATGTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 13 0.33
23 9 0.23
24 9 0.23
25 8 0.21
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.23
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:52672123 original size:47 final size:47
Alignment explanation
Indices: 52672072--52672206 Score: 225
Period size: 47 Copynumber: 2.9 Consensus size: 47
52672062 TATTCTATGA
*
52672072 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
52672119 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* **
52672166 GACGAATGTGAACATGCATATATGTGATAAGGTAGAATGGC
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
52672207 TAGTGCAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:52672424 original size:37 final size:37
Alignment explanation
Indices: 52672316--52672424 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
52672306 GGAAATAGAT
*
52672316 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
52672353 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
52672390 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
52672425 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:52678672 original size:15 final size:15
Alignment explanation
Indices: 52678652--52678680 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52678642 TTTAGGATTA
52678652 ATTTTGATTGATATG
1 ATTTTGATTGATATG
52678667 ATTTTGATTGATAT
1 ATTTTGATTGATAT
52678681 ATCTTGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTTGATTGATATG
Found at i:52682439 original size:46 final size:45
Alignment explanation
Indices: 52682319--52682446 Score: 148
Period size: 48 Copynumber: 2.8 Consensus size: 45
52682309 ACCACAACAT
* *
52682319 GAGAGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTTGAGA
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA
* * * * * *
52682364 TATTTTAGCCAGTGTAAGACATCTTTGGGACATGCATCTGCATTGAGA
1 GA---GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA
52682412 CGAGAGCTAGTGTAAGACATGTCTGGGACATGCAT
1 -GAGAGCTAGTGTAAGACATGTCTGGGACATGCAT
52682447 TGGCCTTGTG
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.02
46 28 0.42
48 36 0.55
49 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (45 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA
Found at i:52682489 original size:94 final size:94
Alignment explanation
Indices: 52682319--52682491 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 94
52682309 ACCACAACAT
* *** * *
52682319 GAGAGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTTGAGATATTTTAGCCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCCACTATAAGAC
* *
52682384 ATCTTTGGGACATGCATCTGCATTGAGAC
66 ATCTCTAGGACATGCATCTGCATTGAGAC
* * *
52682413 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGTGATATACAAGCTACTATAAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCCACTATAAGAC
* *
52682478 CTGTCTAGGACATG
66 ATCTCTAGGACATG
52682492 GCATTAGCTT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 66 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (94 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCCACTATAAGAC
ATCTCTAGGACATGCATCTGCATTGAGAC
Found at i:52683408 original size:30 final size:30
Alignment explanation
Indices: 52683372--52683440 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
52683362 CACGGGCAGA
52683372 GACACGGCCGTGTGTCTCAGCCGTGTGGAG
1 GACACGGCCGTGTGTCTCAGCCGTGTGGAG
52683402 GACACGGCCGTGTGTCTCAGCCGTGTGGAG
1 GACACGGCCGTGTGTCTCAGCCGTGTGGAG
52683432 GACACGGCC
1 GACACGGCC
52683441 TATGGCCACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.14, C:0.29, G:0.39, T:0.17
Consensus pattern (30 bp):
GACACGGCCGTGTGTCTCAGCCGTGTGGAG
Found at i:52685455 original size:18 final size:18
Alignment explanation
Indices: 52685443--52685495 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
52685433 TATCATAACT
52685443 AGAATCAGAATCAGAACC
1 AGAATCAGAATCAGAACC
* *
52685461 AGAATGAGAATTAGGTAA-C
1 AGAATCAGAATCA-G-AACC
*
52685480 AGAATTAGAATCAGAA
1 AGAATCAGAATCAGAA
52685496 TGTGAATGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 2 0.07
18 12 0.41
19 13 0.45
20 2 0.07
ACGTcount: A:0.51, C:0.11, G:0.21, T:0.17
Consensus pattern (18 bp):
AGAATCAGAATCAGAACC
Found at i:52685657 original size:27 final size:26
Alignment explanation
Indices: 52685615--52685666 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
52685605 GCTAGGCTGC
*
52685615 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
52685641 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
52685667 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52685969 original size:27 final size:27
Alignment explanation
Indices: 52685939--52686266 Score: 410
Period size: 27 Copynumber: 12.1 Consensus size: 27
52685929 GGTATCTCGA
* * *
52685939 TAATTCCACCCTACAGGGGCATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
52685966 TAATTCTACCCTATAGGGGTATTTC-G
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
52685992 ATAATTCTACCCTATAGCGGTATTGCTA-
1 -TAATTCTACCCTACAGGGGTATTTC-AG
52686020 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
52686047 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
52686074 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
52686101 TAATTCTACCTTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
52686128 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * * * *
52686155 TAATTCTAGCTTATAGGGGTGTTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
** *
52686182 TAATTCTACCCTGTAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
52686209 TAATTTTACCCTACAGGGGTATTGTGA-
1 TAATTCTACCCTACAGGGGTATT-TCAG
*
52686236 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
52686263 TAAT
1 TAAT
52686267 CTTACAAACC
Statistics
Matches: 263, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 259 0.98
28 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:52686286 original size:81 final size:81
Alignment explanation
Indices: 52685929--52686266 Score: 455
Period size: 81 Copynumber: 4.2 Consensus size: 81
52685919 TACCCCACAA
* * * * ** *
52685929 GGTATCTCGATAATTCCACCCTACAGGGGCATTTTAGTAATTCTACCCTATAGGGGTATTTC-GA
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG-
*
52685993 TAATTCTACCCTATAGC
65 TAATTCTACCCTATAGG
* ** *
52686010 GGTATTGCTATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
52686075 AATTCTACCCTATAGG
66 AATTCTACCCTATAGG
*
52686091 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* *
52686156 AATTCTAGCTTATAGG
66 AATTCTACCCTATAGG
* ** * *
52686172 GGTGTTTCGGTAATTCTACCCTGTAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTGTGA-
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT-TCAG
*
52686236 TAATTCTACCCTACAGG
65 TAATTCTACCCTATAGG
52686253 GGTATTTCGGTAAT
1 GGTATTTCGGTAAT
52686267 CTTACAAACC
Statistics
Matches: 230, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
81 227 0.99
82 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
AATTCTACCCTATAGG
Found at i:52686326 original size:27 final size:27
Alignment explanation
Indices: 52686293--52686472 Score: 261
Period size: 27 Copynumber: 6.7 Consensus size: 27
52686283 ATTTTAGTTT
* *
52686293 TTTTCTAAATCAAGGGTAAAATGGTAA
1 TTTTGTAAATCGAGGGTAAAATGGTAA
* * *
52686320 TTCTCTAAATCAAGGGTAAAATGGTAA
1 TTTTGTAAATCGAGGGTAAAATGGTAA
* * *
52686347 TTTTATAAATCGAGGGTAGAACGGTAA
1 TTTTGTAAATCGAGGGTAAAATGGTAA
* *
52686374 TTCTGTAAATCGAGGGTAAAATAGTAA
1 TTTTGTAAATCGAGGGTAAAATGGTAA
*
52686401 TTTTGTAAATCGAGGGTAAAATAGTAA
1 TTTTGTAAATCGAGGGTAAAATGGTAA
52686428 TTTTGTAAATCGAGGGTAAAATGGTAA
1 TTTTGTAAATCGAGGGTAAAATGGTAA
52686455 TTTTGTAAATCGAGGGTA
1 TTTTGTAAATCGAGGGTA
52686473 CTTTGATAAT
Statistics
Matches: 140, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (27 bp):
TTTTGTAAATCGAGGGTAAAATGGTAA
Found at i:52686494 original size:27 final size:27
Alignment explanation
Indices: 52686464--52686538 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
52686454 ATTTTGTAAA
*
52686464 TCGAGGGTACTTTGA-TAATTTTACATG
1 TCGAGGGTA-TTTCAGTAATTTTACATG
*
52686491 TCGAGGGTATTTCAGTAATTTTACA-A
1 TCGAGGGTATTTCAGTAATTTTACATG
* *
52686517 ACTGAGGATATTTCAGTAATTT
1 TC-GAGGGTATTTCAGTAATTT
52686539 GGTAAACTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.12
27 37 0.88
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (27 bp):
TCGAGGGTATTTCAGTAATTTTACATG
Found at i:52689189 original size:56 final size:56
Alignment explanation
Indices: 52689102--52689319 Score: 255
Period size: 56 Copynumber: 3.9 Consensus size: 56
52689092 TGGCATCGAC
52689102 ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGAT
1 ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGAT
* * ** *
52689158 ATATGTGTGCGAGTAAGACCACCTTTGATACGTTGGCATTGATATGTGATTCTGAT
1 ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGAT
* * *
52689214 ATATGTGTGCGAGTAAGGCCACGTTTAATATGTT-GCATCAATATGTGACTT-CAAT
1 ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGA-TTCCGAT
* * * * * *
52689269 AAATATGTGCGAGTAAAACC-CTGTTTGAGACAG-TGGCATCGATATGTGATT
1 ATATGTGTGCGAGTAAGACCAC-GTTTAATAC-GTTGGCATCAATATGTGATT
52689320 ACATGTAAGA
Statistics
Matches: 137, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
54 1 0.01
55 39 0.28
56 97 0.71
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (56 bp):
ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGAT
Found at i:52689306 original size:111 final size:112
Alignment explanation
Indices: 52689102--52689319 Score: 300
Period size: 111 Copynumber: 2.0 Consensus size: 112
52689092 TGGCATCGAC
* * *
52689102 ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATATGTGTG
1 ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCAATAAATATGTG
* * *
52689167 CGAGTAAGACCACCTTTGATACGTTGGCATTGATATGTGATTCTGAT
66 CGAGTAAAACCACCTTTGAGACGTTGGCATCGATATGTGATTCTGAT
* *
52689214 ATATGTGTGCGAGTAAGGCCACGTTTAATATGTT-GCATCAATATGTGACTT-CAATAAATATGT
1 ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGA-TTCCAATAAATATGT
*
52689277 GCGAGTAAAACC-CTGTTTGAGACAG-TGGCATCGATATGTGATT
65 GCGAGTAAAACCAC-CTTTGAGAC-GTTGGCATCGATATGTGATT
52689320 ACATGTAAGA
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
110 1 0.01
111 58 0.62
112 35 0.37
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (112 bp):
ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCAATAAATATGTG
CGAGTAAAACCACCTTTGAGACGTTGGCATCGATATGTGATTCTGAT
Found at i:52690776 original size:39 final size:39
Alignment explanation
Indices: 52690722--52690802 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
52690712 TAATACATTC
52690722 ATATTGCTAAGTTGTTAATGCCATGAATGCTATTGGATA
1 ATATTGCTAAGTTGTTAATGCCATGAATGCTATTGGATA
*
52690761 ATATTGCTAAGTTGTTAATGCCGTGAATGCTATTGGATA
1 ATATTGCTAAGTTGTTAATGCCATGAATGCTATTGGATA
52690800 ATA
1 ATA
52690803 AATTGTGTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (39 bp):
ATATTGCTAAGTTGTTAATGCCATGAATGCTATTGGATA
Found at i:52695952 original size:207 final size:208
Alignment explanation
Indices: 52695597--52696010 Score: 724
Period size: 207 Copynumber: 2.0 Consensus size: 208
52695587 GTATGGATTT
* *
52695597 GTATGAACATAAGGAACATTCGGTCTAAGCATAGTGTATTCAAATTTTGCATGTTTTGTGTTTTG
1 GTATGAACATAAGGAACATTCGGTCTAAGCACAGTGTATTCAAATTTGGCATGTTTTGTGTTTTG
*
52695662 TGCAATTTGGACTAAATTGTAAAAAGTGTAAAATGTCAGGGTAAAATAGTATTTTGCCAATTTAT
66 TGCAATTTGGACTAAATTGTAAAAAGTGTAAAATGTCAAGGTAAAATAGTATTTTGCCAATTTAT
*
52695727 GTGTTTTTGGACTAAATTGAATAGAATTATGTTTGAATGAGTTTAATTTGAATATTTTTATGTAA
131 GTGTTTTTGGACTAAATTGAATAGAATTATGTTTGAATGAGTTTAATTTGAATATGTTTATGTAA
52695792 CGACC-AAAAATA
196 CGACCTAAAAATA
* *
52695804 GTATGAACATAAGGAACGTTCGGTCTAAGCACAGTGTATTCAAATTTGGTATGTTTTGTGTTTTG
1 GTATGAACATAAGGAACATTCGGTCTAAGCACAGTGTATTCAAATTTGGCATGTTTTGTGTTTTG
*
52695869 TGCAATTTGGACTAAATTGTAAAAAGTGTAAAATGTCAAGGTAAAATAGTAATTTT-CCCATTTA
66 TGCAATTTGGACTAAATTGTAAAAAGTGTAAAATGTCAAGGTAAAATAGT-ATTTTGCCAATTTA
*
52695933 TGTGTTTTTGGACTAAATTGAATAGAATTATGTTTGAATGTGTTTAATTTGAATATGTTTATGTA
130 TGTGTTTTTGGACTAAATTGAATAGAATTATGTTTGAATGAGTTTAATTTGAATATGTTTATGTA
*
52695998 ACGCCCTAAAAAT
195 ACGACCTAAAAAT
52696011 CCCAAACTCC
Statistics
Matches: 196, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
207 185 0.94
208 11 0.06
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (208 bp):
GTATGAACATAAGGAACATTCGGTCTAAGCACAGTGTATTCAAATTTGGCATGTTTTGTGTTTTG
TGCAATTTGGACTAAATTGTAAAAAGTGTAAAATGTCAAGGTAAAATAGTATTTTGCCAATTTAT
GTGTTTTTGGACTAAATTGAATAGAATTATGTTTGAATGAGTTTAATTTGAATATGTTTATGTAA
CGACCTAAAAATA
Found at i:52701487 original size:28 final size:28
Alignment explanation
Indices: 52701455--52701519 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
52701445 ATTTACTAGA
*
52701455 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
52701483 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
52701511 ATACCCCTA
1 ATACCCCTA
52701520 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:52701666 original size:28 final size:28
Alignment explanation
Indices: 52701625--52701679 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
52701615 AGGAAGCGTC
*
52701625 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTT
52701653 CTGGTGGC-ATTGCCACAAAATATCTGT
1 CTGGTGGCTA-TGCCACAAAATATCTGT
52701680 ATCTCGTGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (28 bp):
CTGGTGGCTATGCCACAAAATATCTGTT
Found at i:52702175 original size:19 final size:19
Alignment explanation
Indices: 52702151--52702189 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
52702141 TTTTAATTAT
* *
52702151 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
52702170 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
52702189 T
1 T
52702190 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:52702799 original size:11 final size:10
Alignment explanation
Indices: 52702771--52702804 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
52702761 ATCCTGTAAG
52702771 TATTCTGAAT
1 TATTCTGAAT
*
52702781 TTTTCTGAAT
1 TATTCTGAAT
52702791 ATATTCTGAAT
1 -TATTCTGAAT
52702802 TAT
1 TAT
52702805 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:52705007 original size:47 final size:47
Alignment explanation
Indices: 52704944--52705290 Score: 543
Period size: 47 Copynumber: 7.4 Consensus size: 47
52704934 CCCTTCGGGA
* *
52704944 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
52704991 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
52705038 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
52705085 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
52705132 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
52705179 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCA-TTCGGC
* *
52705226 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
52705273 CTTATCACATATACACAC
1 CTTATCACATATATACAC
52705291 CTTGTACATC
Statistics
Matches: 276, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
46 2 0.01
47 272 0.99
48 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:52713569 original size:28 final size:28
Alignment explanation
Indices: 52713536--52713601 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
52713526 GATTTACTAG
*
52713536 TATACCCCTATGTATGCAAAATTACCAT
1 TATACCCCTATGTATGCAAAATGACCAT
* *
52713564 TATACCCCTATGTATGCTAAATGACCTT
1 TATACCCCTATGTATGCAAAATGACCAT
52713592 TATACCCCTA
1 TATACCCCTA
52713602 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (28 bp):
TATACCCCTATGTATGCAAAATGACCAT
Found at i:52713748 original size:28 final size:28
Alignment explanation
Indices: 52713708--52713761 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
52713698 GGAAGCGTCT
*
52713708 TAGTGGCTATGCCACAAATTATCTGTTC
1 TAGTGGCTATGCCACAAAATATCTGTTC
52713736 TAGTGGC-ACTGCCACAAAATATCTGT
1 TAGTGGCTA-TGCCACAAAATATCTGT
52713762 ATCTGGTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (28 bp):
TAGTGGCTATGCCACAAAATATCTGTTC
Found at i:52714257 original size:19 final size:19
Alignment explanation
Indices: 52714233--52714271 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
52714223 TTTTAATTAT
* *
52714233 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
52714252 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
52714271 T
1 T
52714272 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:52715609 original size:24 final size:24
Alignment explanation
Indices: 52715582--52715633 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
52715572 GTAGATAAGC
52715582 AAATCCCGAAA-TGCCAAAAAGCCG
1 AAATCCC-AAAGTGCCAAAAAGCCG
* *
52715606 AAATGCCAAAGTGCCAAAATGCCG
1 AAATCCCAAAGTGCCAAAAAGCCG
52715630 AAAT
1 AAAT
52715634 GTCAAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.12
Consensus pattern (24 bp):
AAATCCCAAAGTGCCAAAAAGCCG
Found at i:52715622 original size:8 final size:8
Alignment explanation
Indices: 52715590--52715640 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
52715580 GCAAATCCCG
52715590 AAATGCCA
1 AAATGCCA
* *
52715598 AAAAGCCG
1 AAATGCCA
52715606 AAATGCCA
1 AAATGCCA
*
52715614 AAGTGCCA
1 AAATGCCA
*
52715622 AAATGCCG
1 AAATGCCA
*
52715630 AAATGTCA
1 AAATGCCA
52715638 AAA
1 AAA
52715641 GTTTGGCTAC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.12
Consensus pattern (8 bp):
AAATGCCA
Found at i:52715634 original size:24 final size:24
Alignment explanation
Indices: 52715593--52715639 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
52715583 AATCCCGAAA
52715593 TGCCAAAAAGCCGAAATGCCAAAG
1 TGCCAAAAAGCCGAAATGCCAAAG
* *
52715617 TGCCAAAATGCCGAAATGTCAAA
1 TGCCAAAAAGCCGAAATGCCAAA
52715640 AGTTTGGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (24 bp):
TGCCAAAAAGCCGAAATGCCAAAG
Found at i:52715893 original size:29 final size:29
Alignment explanation
Indices: 52715850--52715946 Score: 135
Period size: 29 Copynumber: 3.4 Consensus size: 29
52715840 GAAAGCATGA
* *
52715850 ATATGAATGTGATTTGGGTCTAATGGGCC
1 ATATGAATGTAATTTGGGCCTAATGGGCC
52715879 ATATGAATGTAATTTGGGCCTAATGGGCC
1 ATATGAATGTAATTTGGGCCTAATGGGCC
*
52715908 ATATGAATG-AGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTA-ATTTGGGCCTAATGGGCC
*
52715936 ATATGCATGTA
1 ATATGAATGTA
52715947 TGTAGACATG
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
28 24 0.39
29 38 0.61
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (29 bp):
ATATGAATGTAATTTGGGCCTAATGGGCC
Found at i:52717579 original size:55 final size:55
Alignment explanation
Indices: 52717423--52717600 Score: 295
Period size: 56 Copynumber: 3.2 Consensus size: 55
52717413 ATGTGATGTA
*
52717423 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATCTGATTTCGATATATGTGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTT-GATATATGTGTG
*
52717479 CAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTTGATATATGTGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-TTTGATATATGTGTG
*
52717535 CGAGTAAGACCAC-TTTAGTACGTTGGCATCGATATGTGACTTTGATATATGTGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-TTTGATATATGTGTG
52717590 CGAGTAAGACC
1 CGAGTAAGACC
52717601 CTGTCTGGGA
Statistics
Matches: 116, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
55 51 0.44
56 62 0.53
57 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (55 bp):
CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTGATATATGTGTG
Found at i:52723002 original size:79 final size:80
Alignment explanation
Indices: 52722904--52723086 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
52722894 TCCTCGTTCA
* * *
52722904 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
52722967 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
52722984 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
* *
52723048 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
52723063 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
52723087 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:52723086 original size:40 final size:40
Alignment explanation
Indices: 52722902--52723086 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
52722892 GCTCCTCGTT
* * *
52722902 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
52722942 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
52722982 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT-AGCA
* * *
52723021 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
52723062 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52723087 CATCATTCAA
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 80 0.66
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:52731793 original size:40 final size:39
Alignment explanation
Indices: 52731695--52731917 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
52731685 TCCTCGTTCA
* ** * * *
52731695 AATGCCTTCGGGACATAGTCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
52731734 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
52731773 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
52731813 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
52731853 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
52731894 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52731918 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:52739703 original size:40 final size:40
Alignment explanation
Indices: 52739605--52739867 Score: 300
Period size: 40 Copynumber: 6.6 Consensus size: 40
52739595 TCCTCGTTCA
* * * ** *
52739605 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
52739644 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
52739684 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
52739724 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
52739764 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
52739804 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
52739844 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52739868 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:52746767 original size:39 final size:40
Alignment explanation
Indices: 52746688--52746767 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 40
52746678 CTATATGTTG
* ** * *
52746688 GAATGTTATCTGGGCTTAAAGACCCTTAGGCTTCGTGCTA
1 GAATGCTATCTGGGCTTAAAGACCCGCAGGCTACGAGCTA
*
52746728 GAATGCTATCTGGGC-TAGAGACCCGCAGGCTACGAGCTA
1 GAATGCTATCTGGGCTTAAAGACCCGCAGGCTACGAGCTA
52746767 G
1 G
52746768 TATTATACCG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 20 0.59
40 14 0.41
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GAATGCTATCTGGGCTTAAAGACCCGCAGGCTACGAGCTA
Found at i:52751469 original size:47 final size:47
Alignment explanation
Indices: 52751415--52751934 Score: 817
Period size: 47 Copynumber: 11.1 Consensus size: 47
52751405 TTAGGATTTT
** * *
52751415 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52751462 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
52751509 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52751556 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
52751603 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52751650 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
52751697 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52751744 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
52751791 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
52751838 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
52751885 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
52751932 ATG
1 ATG
52751935 CGAAATGTGT
Statistics
Matches: 436, Mismatches: 36, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
47 433 0.99
48 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:52751516 original size:94 final size:94
Alignment explanation
Indices: 52751415--52751934 Score: 916
Period size: 94 Copynumber: 5.5 Consensus size: 94
52751405 TTAGGATTTT
* * *
52751415 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
52751480 TGCATATGTGTGATAAGGCCGGATGGCCA
66 TGCATATGTGTGATAAGGCCGGATGGCCA
52751509 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
52751574 TGCATATGTGTGATAAGGCCGGATGGCCA
66 TGCATATGTGTGATAAGGCCGGATGGCCA
52751603 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
52751668 TGCATATGTGTGATAAGGCCGGATGGCCA
66 TGCATATGTGTGATAAGGCCGGATGGCCA
52751697 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
52751762 TGCATATGTGTGATAAGGCCGGATGGCCA
66 TGCATATGTGTGATAAGGCCGGATGGCCA
52751791 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
52751856 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATGTGTGATAAGGCCGGATGGCCA
* * * * * *
52751885 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTAATG
1 ATGTGATGAATGT-GAATATGCATATATGTGATAAGGCCGAATGGCCAATG
52751935 CGAAATGTGT
Statistics
Matches: 413, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
94 410 0.99
95 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATGTGTGATAAGGCCGGATGGCCA
Found at i:52751891 original size:22 final size:22
Alignment explanation
Indices: 52751816--52751891 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
52751806 ATATGCATAT
*
52751816 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
52751838 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
52751862 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
52751885 ATGTGAT
1 ATGTGAT
52751892 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:52751977 original size:46 final size:46
Alignment explanation
Indices: 52751908--52751998 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
52751898 GGAAGTGTAT
* * * *
52751908 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATAAGATGG
1 ATATGTGGTAAAGACAAACGGCTAATGCGAAATATGTATAAGATGG
* * * *
52751954 ATATGTGGTAATGACAAACGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGACAAACGGCTAATGCGAAATATGTATAAGATG
52751999 TGTATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGACAAACGGCTAATGCGAAATATGTATAAGATGG
Found at i:52755769 original size:26 final size:26
Alignment explanation
Indices: 52755716--52755767 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52755706 ATTTTAAATA
*
52755716 AATTAAAACCCTAATTCTCCTAATTT
1 AATTAAAACCCTAATTATCCTAATTT
* *
52755742 AATTTAAACTCCTAATTATCTTAATT
1 AATTAAAAC-CCTAATTATCCTAATT
52755768 AAAATCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTAAAACCCTAATTATCCTAATTT
Found at i:52755811 original size:52 final size:52
Alignment explanation
Indices: 52755740--52755905 Score: 155
Period size: 52 Copynumber: 3.2 Consensus size: 52
52755730 TTCTCCTAAT
52755740 TTAATTTAAACTCCTAATTATCTTAATTAAAATCTAAATTATTATTTAACCTA
1 TTAATTTAAACTCCTAATTATCTTAATTAAAAT-TAAATTATTATTTAACCTA
* * * *
52755793 TTAA-TTAAAGTCCCAATTAT-TTGATGT-AAATTAAA--ACTCTAATT-ACCTAA
1 TTAATTTAAACTCCTAATTATCTTAAT-TAAAATTAAATTA-T-TATTTAACCT-A
* * * *
52755843 TTCAATTTAAACTCCTATTTATCTCAAATAAAATTTAAATTATTATCTAACCTA
1 TT-AATTTAAACTCCTAATTATCTTAATTAAAA-TTAAATTATTATTTAACCTA
52755897 TTAATTTAA
1 TTAATTTAA
52755906 TTTCTCAATC
Statistics
Matches: 89, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
48 1 0.01
49 5 0.06
50 11 0.12
51 10 0.11
52 29 0.33
53 16 0.18
54 11 0.12
55 5 0.06
56 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.43
Consensus pattern (52 bp):
TTAATTTAAACTCCTAATTATCTTAATTAAAATTAAATTATTATTTAACCTA
Found at i:52755875 original size:104 final size:105
Alignment explanation
Indices: 52755714--52755902 Score: 299
Period size: 104 Copynumber: 1.8 Consensus size: 105
52755704 GTATTTTAAA
* * * *
52755714 TAAATTAAAACCCTAATTCTCCTAATTTAATTTAAACTCCTAATTATCTTAATTAAAATCTAAAT
1 TAAATTAAAACCCTAATTCACCTAATTCAATTTAAACTCCTAATTATCTCAAATAAAATCTAAAT
*
52755779 TATTATTTAACCTATTAATTAAAGTCCCAATTATTTGATG
66 TATTATCTAACCTATTAATTAAAGTCCCAATTATTTGATG
* * *
52755819 TAAATTAAAACTCTAATT-ACCTAATTCAATTTAAACTCCTATTTATCTCAAATAAAATTTAAAT
1 TAAATTAAAACCCTAATTCACCTAATTCAATTTAAACTCCTAATTATCTCAAATAAAATCTAAAT
52755883 TATTATCTAACCTATTAATT
66 TATTATCTAACCTATTAATT
52755903 TAATTTCTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
104 59 0.78
105 17 0.22
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.42
Consensus pattern (105 bp):
TAAATTAAAACCCTAATTCACCTAATTCAATTTAAACTCCTAATTATCTCAAATAAAATCTAAAT
TATTATCTAACCTATTAATTAAAGTCCCAATTATTTGATG
Found at i:52757754 original size:35 final size:35
Alignment explanation
Indices: 52757707--52757773 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
52757697 TCAGTTAACT
52757707 CCTTTCCACCTCTTTCTTTATCCCCCCCCCCCCCC
1 CCTTTCCACCTCTTTCTTTATCCCCCCCCCCCCCC
*
52757742 CCTTTCCCCCTCTTTCTTTATCCCCCCCCCCC
1 CCTTTCCACCTCTTTCTTTATCCCCCCCCCCC
52757774 GCTAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.04, C:0.63, G:0.00, T:0.33
Consensus pattern (35 bp):
CCTTTCCACCTCTTTCTTTATCCCCCCCCCCCCCC
Found at i:52763373 original size:13 final size:12
Alignment explanation
Indices: 52763328--52763382 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
52763318 AAGAAAAGGA
*
52763328 GAAAAAAAGTAT
1 GAAAAAAAGAAT
52763340 -AAAAAAAG-A-
1 GAAAAAAAGAAT
52763349 GACCAAAAAAGAAT
1 GA--AAAAAAGAAT
52763363 GAAAAATAAGAAT
1 GAAAAA-AAGAAT
52763376 GAAAAAA
1 GAAAAAA
52763383 TAAAAGAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
10 2 0.05
11 8 0.22
12 12 0.32
13 13 0.35
14 2 0.05
ACGTcount: A:0.73, C:0.04, G:0.15, T:0.09
Consensus pattern (12 bp):
GAAAAAAAGAAT
Found at i:52763391 original size:12 final size:14
Alignment explanation
Indices: 52763353--52763385 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
52763343 AAAAGAGACC
52763353 AAAA-AAGAATG-A
1 AAAATAAGAATGAA
52763365 AAAATAAGAATGAA
1 AAAATAAGAATGAA
52763379 AAAATAA
1 AAAATAA
52763386 AAGAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 7 0.37
14 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAATAAGAATGAA
Found at i:52764601 original size:22 final size:22
Alignment explanation
Indices: 52764576--52764622 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
52764566 TTTTGTACAT
52764576 ATGGATTCGAAGGGCATTGTTG
1 ATGGATTCGAAGGGCATTGTTG
52764598 ATGGATTCGAAGGGCATTGTTG
1 ATGGATTCGAAGGGCATTGTTG
52764620 ATG
1 ATG
52764623 AACAATCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.09, G:0.36, T:0.32
Consensus pattern (22 bp):
ATGGATTCGAAGGGCATTGTTG
Found at i:52768843 original size:6 final size:6
Alignment explanation
Indices: 52768834--52768927 Score: 188
Period size: 6 Copynumber: 15.7 Consensus size: 6
52768824 ATAAAAAAGA
52768834 AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC
1 AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC
52768882 AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAAT
1 AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAAT
52768928 TAAATAGTAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 88 1.00
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAC
Found at i:52770133 original size:18 final size:17
Alignment explanation
Indices: 52770089--52770136 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
52770079 TTGACCGAAT
52770089 TGGGCTGTGTGGGCCACA
1 TGGGC-GTGTGGGCCACA
* * *
52770107 CGAGTGTGTGGGTCCACA
1 TGGGCGTGTGGG-CCACA
52770125 TGGGCGTGTGGG
1 TGGGCGTGTGGG
52770137 AATTTGGGCC
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.10, C:0.19, G:0.48, T:0.23
Consensus pattern (17 bp):
TGGGCGTGTGGGCCACA
Found at i:52779953 original size:30 final size:30
Alignment explanation
Indices: 52779917--52779987 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
52779907 AAATTGCAAA
*
52779917 GCGTGTGGGCCACACGGGCAAACCACTTGG
1 GCGTGTGGGCCACACGGGCAAACCACATGG
*
52779947 GCGTGTGGGCCACATGGGCAAACCACATGG
1 GCGTGTGGGCCACACGGGCAAACCACATGG
52779977 GCGTGTGGGCC
1 GCGTGTGGGCC
52779988 CATTTAGCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.39, T:0.14
Consensus pattern (30 bp):
GCGTGTGGGCCACACGGGCAAACCACATGG
Found at i:52782529 original size:15 final size:15
Alignment explanation
Indices: 52782509--52782538 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52782499 GGCAATCGAT
52782509 CATTCTTAAAACCAA
1 CATTCTTAAAACCAA
*
52782524 CATTCTTAAGACCAA
1 CATTCTTAAAACCAA
52782539 AGAGTCGGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (15 bp):
CATTCTTAAAACCAA
Found at i:52791245 original size:33 final size:33
Alignment explanation
Indices: 52791199--52791262 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
52791189 AATCTTAATC
* *
52791199 GGCTCTTCGCCATAAGTCATATCCTGCTGAACT
1 GGCTCTTCACCATAAGTCATATCCGGCTGAACT
52791232 GGCTCTTCACCATAAGTCATATCCGGCTGAA
1 GGCTCTTCACCATAAGTCATATCCGGCTGAA
52791263 TTTCAACCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (33 bp):
GGCTCTTCACCATAAGTCATATCCGGCTGAACT
Found at i:52797231 original size:47 final size:46
Alignment explanation
Indices: 52797086--52797250 Score: 156
Period size: 47 Copynumber: 3.5 Consensus size: 46
52797076 ATGCCGATGC
* *
52797086 CATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCT-CATCTCGTGGCCAATG
* * * * **
52797133 CATGCCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-GCCGAACC
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTC-GTGGCC-AATG
*
52797180 CATGTCCCAGACATAGTCTTACACTGGCTCTCATGAT-GTGGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGTGGCCAATG
* *
52797227 CATGTCTCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
52797251 AGCATACAAT
Statistics
Matches: 95, Mismatches: 17, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
46 31 0.33
47 43 0.45
48 20 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTGGCCAATG
Found at i:52797241 original size:94 final size:94
Alignment explanation
Indices: 52797075--52797253 Score: 245
Period size: 94 Copynumber: 1.9 Consensus size: 94
52797065 CACAGGGTAT
** * * *
52797075 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGCCC
1 AATGCCGAACCCATGTCCCAGACATAGTCTTACACTGGCTTACATATCGAGGCCAATGCATGCCC
*
52797140 CAGACATGTCTTACACTAGCTCTCGTCTC
66 CAAACATGTCTTACACTAGCTCTCGTCTC
* *
52797169 AATGCCGAACCCATGTCCCAGACATAGTCTTACACTGGCTCT-CATGAT-GTGGCCAATGCATGT
1 AATGCCGAACCCATGTCCCAGACATAGTCTTACACTGGCT-TACAT-ATCGAGGCCAATGCATGC
*
52797232 CTCAAACATGTCTTACACTAGC
64 CCCAAACATGTCTTACACTAGC
52797254 ATACAATCAA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
94 72 0.97
95 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (94 bp):
AATGCCGAACCCATGTCCCAGACATAGTCTTACACTGGCTTACATATCGAGGCCAATGCATGCCC
CAAACATGTCTTACACTAGCTCTCGTCTC
Found at i:52806938 original size:79 final size:82
Alignment explanation
Indices: 52806827--52807011 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
52806817 GCTACTCGTT
* *
52806827 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
52806890 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
52806907 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
52806970 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
52806987 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52807012 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:52807011 original size:40 final size:40
Alignment explanation
Indices: 52806808--52807011 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
52806798 CGGAATTTAA
** *
52806808 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52806848 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
52806888 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52806927 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
52806967 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
52807007 CCGGA
1 CCGGA
52807012 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:52809408 original size:21 final size:19
Alignment explanation
Indices: 52809372--52809411 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
52809362 CTTCCTCTCT
*
52809372 TATGATATTTTGTTTTTAC
1 TATGATATTTTATTTTTAC
52809391 TATGATTATTTTTATTTTTAC
1 TATGA-TA-TTTTATTTTTAC
52809412 ATTGAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (19 bp):
TATGATATTTTATTTTTAC
Found at i:52812187 original size:33 final size:33
Alignment explanation
Indices: 52812150--52812216 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
52812140 ACCTTATGGT
52812150 TGAAATGAACGGAGTAAAACATAGTTGGTATTG
1 TGAAATGAACGGAGTAAAACATAGTTGGTATTG
* *
52812183 TGAAATGAATGGAGTATAACATAGTTGGTATTG
1 TGAAATGAACGGAGTAAAACATAGTTGGTATTG
52812216 T
1 T
52812217 ATTCTGATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.31
Consensus pattern (33 bp):
TGAAATGAACGGAGTAAAACATAGTTGGTATTG
Found at i:52821198 original size:14 final size:14
Alignment explanation
Indices: 52821160--52821209 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
52821150 AATTGGAAAT
* *
52821160 AAAAATTTTTGTTC
1 AAAAATTTTTTTTG
52821174 AAATAATTTTTTTTTG
1 AAA-AA-TTTTTTTTG
*
52821190 TAAAATTTTTTTTG
1 AAAAATTTTTTTTG
52821204 AAAAAT
1 AAAAAT
52821210 ATTCGAACTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 17 0.57
15 4 0.13
16 9 0.30
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (14 bp):
AAAAATTTTTTTTG
Found at i:52830687 original size:25 final size:27
Alignment explanation
Indices: 52830650--52830702 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
52830640 TCAAACATGC
52830650 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
52830676 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
52830702 A
1 A
52830703 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:52833452 original size:20 final size:20
Alignment explanation
Indices: 52833427--52833469 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
52833417 TGTCAGACAT
*
52833427 TTCCCTACAAACTTCGTTAC
1 TTCCCTACAAACTCCGTTAC
52833447 TTCCCTACAAACTCCGTTAC
1 TTCCCTACAAACTCCGTTAC
52833467 TTC
1 TTC
52833470 TCGTTTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.37, G:0.05, T:0.35
Consensus pattern (20 bp):
TTCCCTACAAACTCCGTTAC
Found at i:52836066 original size:93 final size:93
Alignment explanation
Indices: 52835954--52836124 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
52835944 GCCCATAAGT
*
52835954 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52836019 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
52836047 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52836112 CGAGTTCGGATGC
66 CGAGCTCGGATGC
52836125 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52836121 original size:46 final size:46
Alignment explanation
Indices: 52835946--52836121 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
52835936 TGTAACCCGC
*
52835946 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
52835992 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
52836038 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
52836085 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
52836122 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:52839644 original size:22 final size:22
Alignment explanation
Indices: 52839619--52839660 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
52839609 TATCTCCCTA
52839619 CACGGAGCTTCAATACTGATTG
1 CACGGAGCTTCAATACTGATTG
*
52839641 CACGGGGCTTCAATACTGAT
1 CACGGAGCTTCAATACTGAT
52839661 GCTGTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
CACGGAGCTTCAATACTGATTG
Found at i:52840708 original size:27 final size:27
Alignment explanation
Indices: 52840678--52840855 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
52840668 ATATTGAGTC
* * * *
52840678 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
52840705 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52840732 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
52840760 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
52840787 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
52840814 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52840841 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52840856 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:52840817 original size:82 final size:81
Alignment explanation
Indices: 52840699--52840854 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52840689 TGCTATATAA
* *
52840699 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
52840764 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
52840781 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
52840845 CACTTAGTGC
65 CACTTAGTGC
52840855 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52842718 original size:28 final size:27
Alignment explanation
Indices: 52842686--52842765 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
52842676 CACTAGATAT
52842686 AGATATTTTGTGGCAGTGCCACCAGAAC
1 AGATA-TTTGTGGCAGTGCCACCAGAAC
** *
52842714 AGATATACGTGGCAGGGCCACCAGAAC
1 AGATATTTGTGGCAGTGCCACCAGAAC
52842741 AGATAATTTGTGGCA-TAGCCACCAG
1 AGAT-ATTTGTGGCAGT-GCCACCAG
52842766 GACGCTTCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
27 23 0.52
28 21 0.48
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (27 bp):
AGATATTTGTGGCAGTGCCACCAGAAC
Found at i:52842918 original size:28 final size:28
Alignment explanation
Indices: 52842871--52842935 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
52842861 AAATTAACCC
*
52842871 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
52842899 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
52842927 TAGGGGTAT
1 TAGGGGTAT
52842936 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:52848735 original size:21 final size:21
Alignment explanation
Indices: 52848696--52848735 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
52848686 ACAGACAGAT
*
52848696 AATTCAGAATATATTCAGGAA
1 AATTCAGAATATATACAGGAA
52848717 AATTCAGAATACT-TACAGG
1 AATTCAGAATA-TATACAGG
52848736 CTTGGGCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (21 bp):
AATTCAGAATATATACAGGAA
Found at i:52849899 original size:28 final size:27
Alignment explanation
Indices: 52849813--52849902 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
52849803 GTGACAAAGT
* *
52849813 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
52849842 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
52849869 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
52849897 CACCAG
1 CACCAG
52849903 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:52850080 original size:28 final size:28
Alignment explanation
Indices: 52850008--52850072 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
52849998 AAATTAACCC
* *
52850008 TAGGGGTATAAAAGTCATTTTGCACACA
1 TAGGGGTATAATAGTAATTTTGCACACA
* *
52850036 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATAGTAATTTTGCACACA
52850064 TAGGGGTAT
1 TAGGGGTAT
52850073 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAATAGTAATTTTGCACACA
Found at i:52851149 original size:12 final size:13
Alignment explanation
Indices: 52851130--52851162 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
52851120 GGGTTCGGCT
52851130 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
52851143 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
52851155 ATGGAGAA
1 ATGGAGAA
52851163 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:52855160 original size:25 final size:26
Alignment explanation
Indices: 52855131--52855204 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 26
52855121 TTGAGGCGTT
52855131 ACAGATATTGT-GCAGAGCCACCAGA
1 ACAGATATTGTGGCAGAGCCACCAGA
52855156 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATAT-TGTGGCAGAGCCACCAGA
* *
52855183 TCAGATAATTGTGGCATAGCCA
1 ACAGAT-ATTGTGGCAGAGCCA
52855205 ACAGGACGCT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.18
26 3 0.07
27 31 0.70
28 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
ACAGATATTGTGGCAGAGCCACCAGA
Found at i:52855613 original size:8 final size:8
Alignment explanation
Indices: 52855597--52855626 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
52855587 CTCAAAATAC
52855597 CGGCTTTT
1 CGGCTTTT
*
52855605 CGGCATTT
1 CGGCTTTT
52855613 CGGCTTTT
1 CGGCTTTT
52855621 CGGCTT
1 CGGCTT
52855627 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:52856837 original size:26 final size:26
Alignment explanation
Indices: 52856806--52856887 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
52856796 TGACATGCCC
*
52856806 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
52856832 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52856858 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
52856884 ATCA
1 ATCA
52856888 ATTTTTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:52857035 original size:18 final size:18
Alignment explanation
Indices: 52857014--52857054 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
52857004 TTTCACTCCT
52857014 ATTTATTTGGCCACTTCA
1 ATTTATTTGGCCACTTCA
52857032 ATTTATTTGGCCACTTCA
1 ATTTATTTGGCCACTTCA
52857050 ATTTA
1 ATTTA
52857055 GCCTATAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (18 bp):
ATTTATTTGGCCACTTCA
Found at i:52861403 original size:29 final size:29
Alignment explanation
Indices: 52861370--52861443 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
52861360 GTTGTGAGAT
*
52861370 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAGGTGTGCG-ACTTGAAAGTACA
* *
52861399 TGGCACT-GAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAG-GTGTGCGACTTGAAAGTACA
*
52861428 TGGCACTAAGTGTGCG
1 TGGCACTAGGTGTGCG
52861444 TGGTTGATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
28 7 0.18
29 31 0.82
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAGGTGTGCGACTTGAAAGTACA
Found at i:52866128 original size:43 final size:43
Alignment explanation
Indices: 52866067--52866153 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 43
52866057 AAAAATAGTA
*
52866067 CAATGCCAACATCCCAGAC-GTGGTCTTACAT-GTAACCACATAT
1 CAATGCCAACATCCCAGACAG-GGTCTTAC-TCGTAAACACATAT
52866110 CAATGCC-ACTATCCCAGACAGGGTCTTACTCGTAAACACATAT
1 CAATGCCAAC-ATCCCAGACAGGGTCTTACTCGTAAACACATAT
52866153 C
1 C
52866154 GGAATCATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 36 0.90
44 1 0.03
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (43 bp):
CAATGCCAACATCCCAGACAGGGTCTTACTCGTAAACACATAT
Found at i:52874694 original size:17 final size:17
Alignment explanation
Indices: 52874672--52874704 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52874662 TTAATTTAAA
52874672 TAAATAAAATTCTCAAT
1 TAAATAAAATTCTCAAT
*
52874689 TAAATAAATTTCTCAA
1 TAAATAAAATTCTCAA
52874705 CCTAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATAAAATTCTCAAT
Found at i:52877349 original size:6 final size:6
Alignment explanation
Indices: 52877333--52877367 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
52877323 TAGGTTTCCA
* *
52877333 AAAATG GAAATG AAAATG AAAGTG AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT
52877368 TTGCAATCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:52877533 original size:27 final size:26
Alignment explanation
Indices: 52877478--52877551 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
52877468 AATTTTCTCG
* *
52877478 AAATTTTACTGGGGGTAAAATCATCA
1 AAATTTTACTTGGGGTAAAATTATCA
52877504 AAATTTTACTTGGGGTAAAATTATCAA
1 AAATTTTACTTGGGGTAAAATTATC-A
* *
52877531 AAAATTTA-TTAGGGTAAAATT
1 AAATTTTACTTGGGGTAAAATT
52877552 GGGATGATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 35 0.81
27 8 0.19
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (26 bp):
AAATTTTACTTGGGGTAAAATTATCA
Found at i:52879449 original size:48 final size:48
Alignment explanation
Indices: 52879393--52879485 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
52879383 GTTATATGCA
* * * *
52879393 ATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATTGATATTTG
1 ATCCCATGTAAGACCATATCTGGGACATGACATTGGCATCGATATTTG
* *
52879441 ATCCCATGTAATACCATATCTGGGATATGACATTGGCATCGATAT
1 ATCCCATGTAAGACCATATCTGGGACATGACATTGGCATCGATAT
52879486 GAGACATCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (48 bp):
ATCCCATGTAAGACCATATCTGGGACATGACATTGGCATCGATATTTG
Found at i:52882276 original size:64 final size:63
Alignment explanation
Indices: 52882171--52882298 Score: 188
Period size: 64 Copynumber: 2.0 Consensus size: 63
52882161 TCCAGAGATC
52882171 CATAAATAGGACGCTCATAAAGAGCTGCGATATGTCTGCAACACATGCAAGATCACTACCGAT
1 CATAAATAGGACGCTCATAAAGAGCTGCGATATGTCTGCAACACATGCAAGATCACTACCGAT
* * *
52882234 CATATAATAGGACGCTCA-AAACGAGCTGTGGTATGTAC-GCAACACATGCAGGATCACTACCGA
1 CATA-AATAGGACGCTCATAAA-GAGCTGCGATATGT-CTGCAACACATGCAAGATCACTACCGA
52882297 T
63 T
52882298 C
1 C
52882299 GGGATGCTCG
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
63 7 0.12
64 51 0.86
65 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (63 bp):
CATAAATAGGACGCTCATAAAGAGCTGCGATATGTCTGCAACACATGCAAGATCACTACCGAT
Found at i:52882961 original size:22 final size:22
Alignment explanation
Indices: 52882933--52882978 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
52882923 TTTCATCAAA
52882933 ATTCACTTTACAAAAGTTGTTT
1 ATTCACTTTACAAAAGTTGTTT
52882955 ATTCACTTTACAAAAGTTGTTT
1 ATTCACTTTACAAAAGTTGTTT
52882977 AT
1 AT
52882979 CTATCAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (22 bp):
ATTCACTTTACAAAAGTTGTTT
Found at i:52885276 original size:23 final size:23
Alignment explanation
Indices: 52885249--52885347 Score: 98
Period size: 22 Copynumber: 4.4 Consensus size: 23
52885239 ATAGCTCGTA
*
52885249 AGAGCTTACTATTTCAGCTCATT
1 AGAGCTTACTATTTCAGCTCAAT
* ** *
52885272 GGAGCTTA-TCGTTCAGCTCATT
1 AGAGCTTACTATTTCAGCTCAAT
*
52885294 AGAGCTTA-TCGTTTCAGCTCAAT
1 AGAGCTTACT-ATTTCAGCTCAAT
52885317 AGAGCTTACTA-TTCAGCTCAA-
1 AGAGCTTACTATTTCAGCTCAAT
52885338 AGGAGCTTAC
1 A-GAGCTTAC
52885348 CGACCATGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
21 1 0.02
22 38 0.58
23 25 0.38
24 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTATTTCAGCTCAAT
Found at i:52885344 original size:45 final size:45
Alignment explanation
Indices: 52885241--52885346 Score: 110
Period size: 45 Copynumber: 2.4 Consensus size: 45
52885231 GACTCACCAT
* * * * *
52885241 AGCTCGTAAGAGCTTA-CTATTTCAGCTCATTGGAGCTTATCGTTC
1 AGCTCATAAGAGCTTATC-GTTTCAGCTCAATAGAGCTTATCATTC
*
52885286 AGCTCATTAGAGCTTATCGTTTCAGCTCAATAGAGCTTA-CTATTC
1 AGCTCATAAGAGCTTATCGTTTCAGCTCAATAGAGCTTATC-ATTC
52885331 AGCTCA-AAGGAGCTTA
1 AGCTCATAA-GAGCTTA
52885347 CCGACCATGA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
44 2 0.04
45 48 0.94
46 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (45 bp):
AGCTCATAAGAGCTTATCGTTTCAGCTCAATAGAGCTTATCATTC
Found at i:52889127 original size:35 final size:36
Alignment explanation
Indices: 52889040--52889129 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 36
52889030 AATCCAACCA
* *
52889040 AAAACACACCAGAAGCTTACACGAGCCAATCCCTCC
1 AAAACACACCAGATGCTCACACGAGCCAATCCCTCC
* *
52889076 AAAACACACCATATGCTCACATGAGCCAATCCCTCC
1 AAAACACACCAGATGCTCACACGAGCCAATCCCTCC
*
52889112 -AAACACGCCAGATGCTCA
1 AAAACACACCAGATGCTCA
52889130 TAAGAGCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 16 0.33
36 32 0.67
ACGTcount: A:0.38, C:0.38, G:0.11, T:0.13
Consensus pattern (36 bp):
AAAACACACCAGATGCTCACACGAGCCAATCCCTCC
Found at i:52889142 original size:35 final size:36
Alignment explanation
Indices: 52889040--52889142 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
52889030 AATCCAACCA
* * *
52889040 AAAACACACCAGAAGCTTACACGAGCCAATCCCTCC
1 AAAACACACCAGATGCTCACAAGAGCCAATCCCTCC
* *
52889076 AAAACACACCATATGCTCACATGAGCCAATCCCTCC
1 AAAACACACCAGATGCTCACAAGAGCCAATCCCTCC
* * *
52889112 -AAACACGCCAGATGCTCATAAGAGCTAATCC
1 AAAACACACCAGATGCTCACAAGAGCCAATCC
52889143 AACTGAAACA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
35 26 0.45
36 32 0.55
ACGTcount: A:0.38, C:0.36, G:0.12, T:0.15
Consensus pattern (36 bp):
AAAACACACCAGATGCTCACAAGAGCCAATCCCTCC
Found at i:52902677 original size:40 final size:40
Alignment explanation
Indices: 52902590--52902807 Score: 286
Period size: 40 Copynumber: 5.5 Consensus size: 40
52902580 AAGCCAAGTA
* *
52902590 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCG-ATC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCA-CAAATG
* *
52902628 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
52902668 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
52902708 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52902748 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
52902789 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52902808 TTATCATCCA
Statistics
Matches: 163, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
38 12 0.07
39 16 0.10
40 107 0.66
41 24 0.15
42 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:52905285 original size:46 final size:45
Alignment explanation
Indices: 52905235--52905409 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
52905225 TGTTTGGGCA
52905235 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
52905281 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
52905328 TCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
52905374 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
52905410 CGCGGGTTAC
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:52905390 original size:93 final size:93
Alignment explanation
Indices: 52905231--52905402 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
52905221 AGGATGTTTG
* * *
52905231 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
52905296 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
52905324 GGCATCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
52905389 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
52905403 ACTTATGCGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:52907878 original size:15 final size:15
Alignment explanation
Indices: 52907858--52907911 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
52907848 GTATCTTGGG
52907858 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
52907873 TCTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
52907888 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
52907903 TTTCTTTAT
1 TTTCTTTAT
52907912 TCGGTTTTCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:52907888 original size:30 final size:30
Alignment explanation
Indices: 52907854--52907922 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
52907844 TATCGTATCT
52907854 TGGGTTTCTTTATCCTGGATCTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
* * *
52907884 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
*
52907914 -GGTTTTCTT
1 TGGGTTTCTT
52907923 GTTATCTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.09, C:0.17, G:0.17, T:0.57
Consensus pattern (30 bp):
TGGGTTTCTTTATCCTGGATCTCTTTATTC
Done.