Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 265 of 276
Found at i:87854006 original size:18 final size:18
Alignment explanation
Indices: 87853983--87854035 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
87853973 CTTGGCCCAT
* *
87853983 TGCAGTAATAGTAAACAG
1 TGCAGTAACAATAAACAG
*
87854001 TGCAGTAACAATAAATAG
1 TGCAGTAACAATAAACAG
87854019 TGCAGTAACAATAAACA
1 TGCAGTAACAATAAACA
87854036 ATATGCAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (18 bp):
TGCAGTAACAATAAACAG
Found at i:87854520 original size:27 final size:27
Alignment explanation
Indices: 87854356--87854530 Score: 210
Period size: 27 Copynumber: 6.5 Consensus size: 27
87854346 TATAAACATA
87854356 TATCACAT-AGAGGCAAAACAGTCATTT
1 TATCACATAAG-GGCAAAACAGTCATTT
* * *
87854383 TACCACATGAGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAACAGTCATTT
* * *
87854410 TACCACATGAGGGCAAAACAGTTATTT
1 TATCACATAAGGGCAAAACAGTCATTT
* * *
87854437 TACCACATGAGGGCAAAACAATCATTT
1 TATCACATAAGGGCAAAACAGTCATTT
*
87854464 TATCACATAAGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAACAGTCATTT
*
87854491 TATCACATAATGGG-AAAATAGTCATTT
1 TATCACATAA-GGGCAAAACAGTCATTT
*
87854518 TATCATATAAGGG
1 TATCACATAAGGG
87854531 GGTCTAGTGT
Statistics
Matches: 135, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
26 3 0.02
27 127 0.94
28 5 0.04
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (27 bp):
TATCACATAAGGGCAAAACAGTCATTT
Found at i:87854520 original size:54 final size:54
Alignment explanation
Indices: 87854356--87854530 Score: 237
Period size: 54 Copynumber: 3.2 Consensus size: 54
87854346 TATAAACATA
87854356 TATCACAT-AGAGGCAAAACAGTCATTTTACCACATGAGGGCAAAATAGTCATTT
1 TATCACATAAG-GGCAAAACAGTCATTTTACCACATGAGGGCAAAATAGTCATTT
* * * * *
87854410 TACCACATGAGGGCAAAACAGTTATTTTACCACATGAGGGCAAAACAATCATTT
1 TATCACATAAGGGCAAAACAGTCATTTTACCACATGAGGGCAAAATAGTCATTT
* * *
87854464 TATCACATAAGGGCAAAATAGTCATTTTATCACATAATGGG-AAAATAGTCATTT
1 TATCACATAAGGGCAAAACAGTCATTTTACCACATGA-GGGCAAAATAGTCATTT
*
87854518 TATCATATAAGGG
1 TATCACATAAGGG
87854531 GGTCTAGTGT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
54 101 0.95
55 5 0.05
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (54 bp):
TATCACATAAGGGCAAAACAGTCATTTTACCACATGAGGGCAAAATAGTCATTT
Found at i:87858112 original size:27 final size:27
Alignment explanation
Indices: 87858014--87858134 Score: 71
Period size: 27 Copynumber: 4.5 Consensus size: 27
87858004 TATAAACATA
* * **
87858014 TATCATATAGGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAACCATTT
* * * * **
87858041 TACCACAAAAGGGCTAAACAGTCATTT
1 TATCACATAAGGGCAAAATAACCATTT
* * * * *
87858068 TACCATATGATGGTAAAATAACCATTT
1 TATCACATAAGGGCAAAATAACCATTT
* **
87858095 TGTCACATAAGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAACCATTT
*
87858122 TATCATATAAGGG
1 TATCACATAAGGG
87858135 GGTCTAGTGT
Statistics
Matches: 69, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (27 bp):
TATCACATAAGGGCAAAATAACCATTT
Found at i:87858244 original size:50 final size:50
Alignment explanation
Indices: 87858168--87858309 Score: 194
Period size: 50 Copynumber: 2.8 Consensus size: 50
87858158 ACAGTAGGTC
* * **
87858168 GATCACATGTGTAGTACTAAGGGCAGGCTACTACGTGTATCTGATGGTTA
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTA
** *
87858218 GATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTA
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTA
* * *
87858268 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
87858310 GAGAGCTTCA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTA
Found at i:87868734 original size:29 final size:27
Alignment explanation
Indices: 87868716--87868785 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
87868706 ATATTAAGTC
87868716 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
87868743 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
87868771 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
87868786 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:87868779 original size:28 final size:28
Alignment explanation
Indices: 87868716--87868813 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
87868706 ATATTAAGTC
*
87868716 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
87868743 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
87868771 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
87868800 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87868814 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:87869535 original size:2 final size:2
Alignment explanation
Indices: 87869528--87869553 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
87869518 CGAATGGGCT
87869528 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
87869554 GCCGAATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87876454 original size:29 final size:29
Alignment explanation
Indices: 87876415--87876493 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
87876405 CTTAATAATC
*
87876415 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
87876445 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
87876474 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
87876494 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:87878323 original size:54 final size:54
Alignment explanation
Indices: 87878248--87878355 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
87878238 CATCACCTAC
*
87878248 CATTTTAGCCATTTAACATGCATTAACACATTGTTAAAATAACACACATCAATA
1 CATTTTAGCCATTTAACATGCATTAACACATTGTAAAAATAACACACATCAATA
* * ** *
87878302 CATTTTAGCTATTTAATATGCATTAACATGTTGTAAAAATAACATACATCAATA
1 CATTTTAGCCATTTAACATGCATTAACACATTGTAAAAATAACACACATCAATA
87878356 AGGCATCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (54 bp):
CATTTTAGCCATTTAACATGCATTAACACATTGTAAAAATAACACACATCAATA
Found at i:87879498 original size:38 final size:40
Alignment explanation
Indices: 87879430--87879514 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 40
87879420 GTACATCGTC
* * * * * *
87879430 AACAAAAGCTCATAAGAGTTGGTCCTCTCGAA-CATG-CT
1 AACAGAAGCTCAAAAGAGCTAGTCCACTCGAATCATGCCA
87879468 AACAGAAGCTCAAAAGAGCTAGTCCACTCGAATCATGCCA
1 AACAGAAGCTCAAAAGAGCTAGTCCACTCGAATCATGCCA
87879508 AACAGAA
1 AACAGAA
87879515 AGTATAACAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 27 0.69
39 4 0.10
40 8 0.21
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.18
Consensus pattern (40 bp):
AACAGAAGCTCAAAAGAGCTAGTCCACTCGAATCATGCCA
Found at i:87880458 original size:20 final size:20
Alignment explanation
Indices: 87880430--87880467 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
87880420 AACTATCATG
*
87880430 TTTTCTTTATTTTATTAACC
1 TTTTATTTATTTTATTAACC
87880450 TTTTATTTATTTTATTAA
1 TTTTATTTATTTTATTAA
87880468 TAAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTATTTTATTAACC
Found at i:87882550 original size:15 final size:17
Alignment explanation
Indices: 87882532--87882563 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
87882522 TAGCATAATT
87882532 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
87882547 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
87882564 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:87890141 original size:16 final size:16
Alignment explanation
Indices: 87890120--87890151 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
87890110 TAATGTGTTT
87890120 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
87890136 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
87890152 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:87890473 original size:72 final size:73
Alignment explanation
Indices: 87890338--87890485 Score: 192
Period size: 72 Copynumber: 2.0 Consensus size: 73
87890328 GCAGGTACAT
* * *
87890338 GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAAGCTGCCGAATTTATTGAGTGCAT
1 GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCGAATTTAGTGAGTGCAT
87890403 GGGACTTG
66 GGGACTTG
* * * * * *
87890411 GGACGGCATTTAAAGCGAAA-GTTGCTGTTGTA-TTTTCCCAACCAGCCGAATTTAGTGTGTGCA
1 GGACGGCATTTAAAG-AAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCGAATTTAGTGAGTGCA
87890474 TGGGACTTG
65 TGGGACTTG
87890483 GGA
1 GGA
87890486 TAGCATTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
72 38 0.58
73 24 0.37
74 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (73 bp):
GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCGAATTTAGTGAGTGCAT
GGGACTTG
Found at i:87898355 original size:46 final size:46
Alignment explanation
Indices: 87898305--87898477 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
87898295 TGGTTGAGCA
*
87898305 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
87898351 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
87898396 CATCTGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* ** **
87898444 CCCGAGTTCGTTGAGTTGAGTCTAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
87898478 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 56 0.56
47 27 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:87898472 original size:93 final size:93
Alignment explanation
Indices: 87898302--87898472 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
87898292 GGATGGTTGA
* * * *
87898302 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
87898367 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* **
87898395 GCATCTGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAACGCCCGAGTTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
87898460 TGAGTCTAAGTTC
66 TGAGTCCAAGTTC
87898473 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:87909776 original size:52 final size:48
Alignment explanation
Indices: 87909716--87909817 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 48
87909706 ATTGCACTGG
87909716 ATAGGTTTATTAAAGCATTTTATATATTTGCTCTTACAACAAAATTTTATAT
1 ATAGGTTTATTAAAGCATTTTATATATTT--TC-T-CAACAAAATTTTATAT
*
87909768 ATAGGTTTATTAAAGCATTTTATATATTTTCTCAACAAAATTTTCTAT
1 ATAGGTTTATTAAAGCATTTTATATATTTTCTCAACAAAATTTTATAT
87909816 AT
1 AT
87909818 TTACCTTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
48 17 0.35
49 1 0.02
50 2 0.04
52 29 0.59
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (48 bp):
ATAGGTTTATTAAAGCATTTTATATATTTTCTCAACAAAATTTTATAT
Found at i:87909787 original size:25 final size:25
Alignment explanation
Indices: 87909716--87909794 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
87909706 ATTGCACTGG
87909716 ATAGGTTTATTAAAGCATTTTATAT
1 ATAGGTTTATTAAAGCATTTTATAT
* * * **
87909741 ATTTGCTCTTA-CAACAAAATTTTATAT
1 A-TAGGT-TTATTAA-AGCATTTTATAT
87909768 ATAGGTTTATTAAAGCATTTTATAT
1 ATAGGTTTATTAAAGCATTTTATAT
87909793 AT
1 AT
87909795 TTTCTCAACA
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
25 16 0.40
26 10 0.25
27 14 0.35
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (25 bp):
ATAGGTTTATTAAAGCATTTTATAT
Found at i:87909793 original size:27 final size:27
Alignment explanation
Indices: 87909716--87909794 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 27
87909706 ATTGCACTGG
87909716 ATAGGTTTATTAAAGCATTTTATATAT
1 ATAGGTTTATTAAAGCATTTTATATAT
* * * * *
87909743 -TTGCTCTTA-CAACA-AAATTT-TATAT
1 ATAGGT-TTATTAA-AGCATTTTATATAT
87909768 ATAGGTTTATTAAAGCATTTTATATAT
1 ATAGGTTTATTAAAGCATTTTATATAT
87909795 TTTCTCAACA
Statistics
Matches: 36, Mismatches: 10, Indels: 12
0.62 0.17 0.21
Matches are distributed among these distances:
25 9 0.25
26 18 0.50
27 9 0.25
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (27 bp):
ATAGGTTTATTAAAGCATTTTATATAT
Found at i:87915060 original size:26 final size:29
Alignment explanation
Indices: 87915015--87915067 Score: 76
Period size: 26 Copynumber: 1.9 Consensus size: 29
87915005 AGCTTCGAAT
*
87915015 TCTTTATTATGTTTACATTTGAGATTTAG
1 TCTTTATTATGTTTACATTTGACATTTAG
87915044 TCTTTA-TAT-TTTA-ATTTGACATTT
1 TCTTTATTATGTTTACATTTGACATTT
87915068 CATAACTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 4 0.17
28 3 0.13
29 6 0.26
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.58
Consensus pattern (29 bp):
TCTTTATTATGTTTACATTTGACATTTAG
Found at i:87917149 original size:21 final size:20
Alignment explanation
Indices: 87917125--87917176 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
87917115 AATATTAAAT
87917125 ATTTTTTA-AAATTTATTTTTA
1 ATTTTTTAGAAA--TATTTTTA
*
87917146 ATTTATTGAGAAATATTTTTA
1 ATTT-TTTAGAAATATTTTTA
87917167 ATGTTTTTAG
1 AT-TTTTTAG
87917177 TGTATTTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 18 0.69
22 5 0.19
23 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (20 bp):
ATTTTTTAGAAATATTTTTA
Found at i:87920282 original size:6 final size:6
Alignment explanation
Indices: 87920264--87920301 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
87920254 TTTACAACCC
* *
87920264 AAGGGG AAAGGG AAGGGG AAGGGG AAGGGG AAGAGG AA
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AA
87920302 AAGGGAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:87924626 original size:40 final size:39
Alignment explanation
Indices: 87924563--87924648 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 39
87924553 TAACGACTTA
*
87924563 TCGGCTAAAATGGCACTTAGTGTGCAGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
* * *
87924602 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCT
87924642 TCGGCTA
1 TCGGCTA
87924649 TATATATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.24
40 32 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
Found at i:87926904 original size:23 final size:24
Alignment explanation
Indices: 87926871--87926916 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
87926861 GCATCACATT
*
87926871 TCATATACCAAAATCAAACCATAA
1 TCATATACCAAAACCAAACCATAA
*
87926895 TCATA-ACCAAAACCAAGCCATA
1 TCATATACCAAAACCAAACCATA
87926917 TCACATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.17
Consensus pattern (24 bp):
TCATATACCAAAACCAAACCATAA
Found at i:87927608 original size:44 final size:42
Alignment explanation
Indices: 87927450--87927611 Score: 110
Period size: 43 Copynumber: 3.8 Consensus size: 42
87927440 CAGAAAACTC
* * * ** ***
87927450 ATACAATGCCAGCATCCCAGATGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACAAAATCAA
* ** * *
87927492 ATATCAATGCCATTGTCCTAGACAGGGTCTTACACAAAATCAA
1 ATA-CGATGCCAACGTCCCAGACATGGTCTTACACAAAATCAA
* * * * *
87927535 ATACGATGCCAATGTCCCGGATATAGTCTTTCACATAAATCATA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACA-AAATCA-A
*
87927579 AGT-CGATGCCAACGTCCCAGACGTGGTCTTACA
1 A-TACGATGCCAACGTCCCAGACATGGTCTTACA
87927612 TGAAAACACA
Statistics
Matches: 92, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
42 27 0.29
43 38 0.41
44 26 0.28
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACATGGTCTTACACAAAATCAA
Found at i:87934378 original size:23 final size:24
Alignment explanation
Indices: 87934345--87934390 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
87934335 GCATCACATT
*
87934345 TCATATACCAAAATCAAACCATAA
1 TCATATACCAAAACCAAACCATAA
*
87934369 TCATA-ACCAAAACCAAGCCATA
1 TCATATACCAAAACCAAACCATA
87934391 GCGTATAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.17
Consensus pattern (24 bp):
TCATATACCAAAACCAAACCATAA
Found at i:87934628 original size:42 final size:40
Alignment explanation
Indices: 87934538--87934677 Score: 127
Period size: 42 Copynumber: 3.3 Consensus size: 40
87934528 GCTCTCGATG
* *
87934538 TGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACA
1 TGGTCTTACATGAAATC-AA-ATCGATGCCA-TGTCCCAGACA
* * *
87934581 GGGTCTTACTTGAAATCAAATCCGATGCCGATGTCCCAAACA
1 TGGTCTTACATGAAATCAAAT-CGATGCC-ATGTCCCAGACA
* * *
87934623 TGGTCTTACACGTAAATCATTAGTCGATGCCAACGTCCCAGACA
1 TGGTCTTACATG-AAATCA--AATCGATGCC-ATGTCCCAGACA
87934667 TGGTCTTACAT
1 TGGTCTTACAT
87934678 AAAAACACAT
Statistics
Matches: 79, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.03
42 27 0.34
43 21 0.27
44 27 0.34
45 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (40 bp):
TGGTCTTACATGAAATCAAATCGATGCCATGTCCCAGACA
Found at i:87938049 original size:26 final size:26
Alignment explanation
Indices: 87938013--87938077 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
87938003 ATTTACCTCA
87938013 GTAAAATTTTTGACAATTTTACCCC-T
1 GTAAAA-TTTTGACAATTTTACCCCTT
* * *
87938039 GATAAAATTTTAACGATTTTTCCCCTT
1 G-TAAAATTTTGACAATTTTACCCCTT
87938066 GTAAAATTTTGA
1 GTAAAATTTTGA
87938078 AAAAAATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 26 0.79
27 7 0.21
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (26 bp):
GTAAAATTTTGACAATTTTACCCCTT
Found at i:87938228 original size:6 final size:6
Alignment explanation
Indices: 87938217--87938266 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
87938207 GGATTGCAAG
* * *
87938217 TTTCCA TTTCCA TTTCCA TTTCCA TTTTCA TTTTCA TTTTCA TTT-CA
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA
87938264 TTT
1 TTT
87938267 ATGTTTTTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
5 5 0.12
6 38 0.88
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (6 bp):
TTTCCA
Found at i:87939799 original size:30 final size:31
Alignment explanation
Indices: 87939759--87939817 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
87939749 ATTTTCGAGC
*
87939759 TTAGGTGCAAAATCGTAATTCTGT-AAAGGT
1 TTAGGGGCAAAATCGTAATTCTGTCAAAGGT
* *
87939789 TTAGGGGCAAAATTGTAATTTTGTCAAAG
1 TTAGGGGCAAAATCGTAATTCTGTCAAAG
87939818 TTTGAGTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (31 bp):
TTAGGGGCAAAATCGTAATTCTGTCAAAGGT
Found at i:87940639 original size:47 final size:47
Alignment explanation
Indices: 87940581--87940702 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
87940571 GTTTTGGCAC
*
87940581 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATTACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
*
87940628 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
87940675 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
87940703 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:87940778 original size:45 final size:45
Alignment explanation
Indices: 87940728--87940872 Score: 164
Period size: 45 Copynumber: 3.0 Consensus size: 45
87940718 GATAAGTTCT
87940728 ATAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTG
1 ATAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTG
* * *
87940773 ATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTA
1 ATAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTG
*
87940818 ATAAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTG
1 ATAAG--GC---AAGG-AAA--T--CATGTAAGACCATGCCAAGGCATGGCATTG
87940873 GTGAGTTCAT
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
45 47 0.57
47 1 0.01
50 4 0.05
51 3 0.04
53 1 0.01
55 27 0.33
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (45 bp):
ATAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTG
Found at i:87940834 original size:55 final size:53
Alignment explanation
Indices: 87940773--87940922 Score: 176
Period size: 55 Copynumber: 2.8 Consensus size: 53
87940763 CATGGCATTG
* *
87940773 ATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTAC
1 ATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTT-C
* * * ** *
87940827 TATAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC
1 -ATAAGGC-AAGGATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTC
* *
87940881 ATAAGGCAACGATACCACGTAAGACCATGTCAAGACATGGCA
1 ATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCA
87940923 ATGGTAAGTT
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
52 3 0.04
53 33 0.41
54 1 0.01
55 39 0.49
56 4 0.05
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (53 bp):
ATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTC
Found at i:87940857 original size:100 final size:99
Alignment explanation
Indices: 87940628--87940872 Score: 287
Period size: 99 Copynumber: 2.4 Consensus size: 99
87940618 TTACATTTGG
* * *** * * *
87940628 TAAGACAAGGATACCATGTAAGACCATG-TTTGGAACATGGCATTTGGTAAGATAAGGATATCAT
1 TAAGGCAAGGAAACCATGTAAGACCATGCCAAGG--CATGGCA-TTGATAAGACAAGGAAATCAT
* *
87940692 GTAAGACCATGCCAAGGCATGGCACTGATAAGTTCTA
63 GTAAGACCATGCCAAGACATGGCACTAATAAGTTCTA
* *
87940729 TAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGGCAAGGAAATCATGTA
1 TAAGGCAAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGACAAGGAAATCATGTA
* *
87940794 AGACCATGTCAAGACATGGCATTAATAAGTTACTA
66 AGACCATGCCAAGACATGGCACTAATAAGTT-CTA
**
87940829 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTG
1 TAAGGC-AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTG
87940873 GTGAGTTCAT
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
99 47 0.38
100 46 0.37
101 29 0.23
102 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (99 bp):
TAAGGCAAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGACAAGGAAATCATGTA
AGACCATGCCAAGACATGGCACTAATAAGTTCTA
Found at i:87953325 original size:14 final size:14
Alignment explanation
Indices: 87953306--87953353 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
87953296 GAATATTTTC
87953306 AATTAATTAATCTA
1 AATTAATTAATCTA
* *
87953320 AATTAATT--TTTC
1 AATTAATTAATCTA
87953332 AATTAATTAATCTA
1 AATTAATTAATCTA
87953346 AATTAATT
1 AATTAATT
87953354 GATCAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 10 0.36
14 18 0.64
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTAATTAATCTA
Found at i:87953335 original size:26 final size:26
Alignment explanation
Indices: 87953301--87953353 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
87953291 GTTGAGAATA
87953301 TTTTCAATTAATTAATCTAAATTAAT
1 TTTTCAATTAATTAATCTAAATTAAT
87953327 TTTTCAATTAATTAATCTAAATTAAT
1 TTTTCAATTAATTAATCTAAATTAAT
87953353 T
1 T
87953354 GATCAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTTCAATTAATTAATCTAAATTAAT
Found at i:87953359 original size:26 final size:26
Alignment explanation
Indices: 87953304--87953364 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
87953294 GAGAATATTT
**
87953304 TCAATTAATTAATCTAAATTAATTTT
1 TCAATTAATTAATCTAAATTAATTGA
87953330 TCAATTAATTAATCTAAATTAATTGA
1 TCAATTAATTAATCTAAATTAATTGA
*
87953356 TCAAATAAT
1 TCAATTAAT
87953365 ATTTAATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (26 bp):
TCAATTAATTAATCTAAATTAATTGA
Found at i:87955658 original size:13 final size:13
Alignment explanation
Indices: 87955642--87955669 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
87955632 TAGTGTATCC
87955642 TTAATGTGTTTAA
1 TTAATGTGTTTAA
87955655 TTAATGTGTTTAA
1 TTAATGTGTTTAA
87955668 TT
1 TT
87955670 GATGCCCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
TTAATGTGTTTAA
Found at i:87956138 original size:50 final size:50
Alignment explanation
Indices: 87956084--87956219 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 50
87956074 CTAAATGAAC
* * *
87956084 AAAT-GAGTTACTTAATTCATGACTTAATTTAATGATGTAAACTTTAACTA
1 AAATAGAGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTA
* * *
87956134 AAATGAGAGTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAGCTA
1 AAAT-AGAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTA
* * *
87956184 ACATGAGAGTTACATAATGCATGACTTTATTAAATG
1 AAAT-AGAGTTACATAATGCATGACTTAATTTAATG
87956220 TAGAACACAT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
50 37 0.51
51 13 0.18
52 22 0.31
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (50 bp):
AAATAGAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTA
Found at i:87956164 original size:52 final size:50
Alignment explanation
Indices: 87956088--87956208 Score: 161
Period size: 50 Copynumber: 2.4 Consensus size: 50
87956078 ATGAACAAAT
* * * *
87956088 GAGTTACTTAATTCATGACTTAATTTAATGATGTAAACTTTAACTAAAATGA
1 GAGTTACATAATGCATGACATAATTT-ATGATGCAAAC-TTAACTAAAATGA
* * *
87956140 GAGTTACATAATGCATGTCATAATTTATGATGCAAACTTAGCTAACATGA
1 GAGTTACATAATGCATGACATAATTTATGATGCAAACTTAACTAAAATGA
87956190 GAGTTACATAATGCATGAC
1 GAGTTACATAATGCATGAC
87956209 TTTATTAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 29 0.48
51 10 0.16
52 22 0.36
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGACATAATTTATGATGCAAACTTAACTAAAATGA
Found at i:87958821 original size:20 final size:20
Alignment explanation
Indices: 87958793--87958835 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
87958783 TTAGAGTTAG
87958793 TTTTCTA-TTCAAGTATTATT
1 TTTTCTATTTCAA-TATTATT
*
87958813 TTTTTTATTTTCAATATTATT
1 TTTTCTA-TTTCAATATTATT
87958834 TT
1 TT
87958836 AAAAAAGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTCTATTTCAATATTATT
Found at i:87962783 original size:40 final size:40
Alignment explanation
Indices: 87962728--87962807 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
87962718 ACAAATGTTC
87962728 TTAAAGAACTTAAGAGAATCAAGTGGTAAAAGGAAAGAGT
1 TTAAAGAACTTAAGAGAATCAAGTGGTAAAAGGAAAGAGT
*
87962768 TTAAAGAACTTAAGAGAATCAAGTGGTAAAATGAAAGAGT
1 TTAAAGAACTTAAGAGAATCAAGTGGTAAAAGGAAAGAGT
87962808 GGTGAGCACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.50, C:0.05, G:0.24, T:0.21
Consensus pattern (40 bp):
TTAAAGAACTTAAGAGAATCAAGTGGTAAAAGGAAAGAGT
Found at i:87963494 original size:23 final size:24
Alignment explanation
Indices: 87963463--87963521 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
87963453 TAGGGGTGTG
* *
87963463 AAAACATGAGAGTTTGA-AA-GAA
1 AAAAAATGAGAGATTGATAAGGAA
87963485 AAGAAAATGAGAGATTGATAATGGAA
1 AA-AAAATGAGAGATTGATAA-GGAA
87963511 AAAAAATGAGA
1 AAAAAATGAGA
87963522 AGAAAATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 2 0.06
23 13 0.42
24 2 0.06
25 9 0.29
26 5 0.16
ACGTcount: A:0.58, C:0.02, G:0.24, T:0.17
Consensus pattern (24 bp):
AAAAAATGAGAGATTGATAAGGAA
Found at i:87965004 original size:46 final size:46
Alignment explanation
Indices: 87964938--87965701 Score: 1510
Period size: 46 Copynumber: 16.6 Consensus size: 46
87964928 GGCATCCGAA
* *
87964938 CTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87964984 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965030 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965076 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965122 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965168 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965214 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965260 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965306 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965352 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965398 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965444 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965490 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965536 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965582 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965628 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87965674 CTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTA
87965702 GGGGCGGGTT
Statistics
Matches: 716, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 716 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
Found at i:87968161 original size:39 final size:38
Alignment explanation
Indices: 87968107--87968183 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 38
87968097 TAAGTCCTAG
*
87968107 ACTACTTCGACAGCCAGTGTAGGGGACTCGAGATTTGT
1 ACTACTTCGACAGCCAGTGTAGGGAACTCGAGATTTGT
*
87968145 NACTACTTCGACAGCCAGTGTAGGTAACTCGAGATTTGT
1 -ACTACTTCGACAGCCAGTGTAGGGAACTCGAGATTTGT
87968184 TAAACCCGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (38 bp):
ACTACTTCGACAGCCAGTGTAGGGAACTCGAGATTTGT
Found at i:87972434 original size:76 final size:76
Alignment explanation
Indices: 87972304--87972452 Score: 262
Period size: 76 Copynumber: 2.0 Consensus size: 76
87972294 TAGCTAGGGT
* *
87972304 TTCTTCAACTTTCAAGCTTCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGATTTTTACGTTTT
1 TTCTTCAACTTTCAAGCTTCATAATAAGTGATTCCAAGCCCCATTTTTAATGATTTTTACGTTTT
87972369 TGAAATCCCGA
66 TGAAATCCCGA
* *
87972380 TTCTTCAACTTTCAAGCTTCATAATAAGTGATTCCAAGCCTCATTTTTAGTGATTTTTACGTTTT
1 TTCTTCAACTTTCAAGCTTCATAATAAGTGATTCCAAGCCCCATTTTTAATGATTTTTACGTTTT
87972445 TGAAATCC
66 TGAAATCC
87972453 AGGTAACTCG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (76 bp):
TTCTTCAACTTTCAAGCTTCATAATAAGTGATTCCAAGCCCCATTTTTAATGATTTTTACGTTTT
TGAAATCCCGA
Found at i:87973287 original size:46 final size:46
Alignment explanation
Indices: 87973237--87974046 Score: 1593
Period size: 46 Copynumber: 17.6 Consensus size: 46
87973227 AGCATCCGAA
87973237 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
* **
87973283 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGGGCGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973329 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973375 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973421 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973467 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973513 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973559 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973605 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973651 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973697 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973743 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973789 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973835 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973881 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973927 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87973973 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
87974019 CTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTA
87974047 GGGGCGGGTT
Statistics
Matches: 758, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 758 1.00
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
Found at i:87975443 original size:23 final size:23
Alignment explanation
Indices: 87975397--87975444 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
87975387 ATCATAGAGA
* *
87975397 GAAAAGAACTTGAAAAAGAGAGT
1 GAAAAGAAATTGAAAAAGAAAGT
* *
87975420 GAAAAGAAATTTAAAGAGAAAGT
1 GAAAAGAAATTGAAAAAGAAAGT
87975443 GA
1 GA
87975445 GAGAAAAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.58, C:0.02, G:0.25, T:0.15
Consensus pattern (23 bp):
GAAAAGAAATTGAAAAAGAAAGT
Found at i:87981017 original size:36 final size:36
Alignment explanation
Indices: 87980968--87981041 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
87980958 AATATTTTTA
87980968 CTTGAACTAGATAATCCTAACTCTAATTCGAAGCCT
1 CTTGAACTAGATAATCCTAACTCTAATTCGAAGCCT
*
87981004 CTTGAACTGGATAATCCTAACTCTAATTCGAAGCCT
1 CTTGAACTAGATAATCCTAACTCTAATTCGAAGCCT
87981040 CT
1 CT
87981042 ATATATAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (36 bp):
CTTGAACTAGATAATCCTAACTCTAATTCGAAGCCT
Found at i:87990506 original size:5 final size:5
Alignment explanation
Indices: 87990498--87990527 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
87990488 ATGCAATCAT
87990498 AAACA AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA AAACA
87990528 TGTCAGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:87994409 original size:21 final size:21
Alignment explanation
Indices: 87994362--87994420 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
87994352 CAAATTATAT
* **
87994362 ATTTTTTAAATATTTTTTAAA
1 ATTTATTAAATAAATTTTAAA
*
87994383 A-ATATTAAATAAATTTTAAA
1 ATTTATTAAATAAATTTTAAA
*
87994403 ATTTATTAATTAAATTTT
1 ATTTATTAAATAAATTTT
87994421 TAAAGAGATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTATTAAATAAATTTTAAA
Found at i:87995974 original size:22 final size:22
Alignment explanation
Indices: 87995944--87995989 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
87995934 TTATTTAAAA
87995944 AATAGTTTTGATAGT-TAAATTT
1 AATAGTTTT-ATAGTCTAAATTT
* *
87995966 AATATTTTTATATTCTAAATTT
1 AATAGTTTTATAGTCTAAATTT
87995988 AA
1 AA
87995990 AAATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
AATAGTTTTATAGTCTAAATTT
Found at i:87997972 original size:9 final size:9
Alignment explanation
Indices: 87997958--87998053 Score: 65
Period size: 9 Copynumber: 10.7 Consensus size: 9
87997948 TCTTTATATA
87997958 TATATTTTT
1 TATATTTTT
87997967 TATA-TTTT
1 TATATTTTT
87997975 TATA--TTT
1 TATATTTTT
87997982 TATATTTTAT
1 TATATTTT-T
*
87997992 AATATATTTT
1 TATAT-TTTT
*
87998002 TAAATTTTT
1 TATATTTTT
*
87998011 ATATATTTTC
1 -TATATTTTT
87998021 TATAATTTTT
1 TAT-ATTTTT
* * **
87998031 GAAAGATTT
1 TATATTTTT
87998040 TATATTTTT
1 TATATTTTT
87998049 T-TATT
1 TATATT
87998054 AAAATCCATT
Statistics
Matches: 67, Mismatches: 14, Indels: 13
0.71 0.15 0.14
Matches are distributed among these distances:
7 7 0.10
8 12 0.18
9 23 0.34
10 22 0.33
11 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (9 bp):
TATATTTTT
Found at i:87998012 original size:21 final size:20
Alignment explanation
Indices: 87997956--87998030 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
87997946 TCTCTTTATA
*
87997956 TATATATTTTTTAT-A-TTT
1 TATATATTTTCTATAATTTT
87997974 T-TATA-TTT-TAT-ATTTT
1 TATATATTTTCTATAATTTT
87997990 ATAATATATTTT-TA-AATTTT
1 -T-ATATATTTTCTATAATTTT
87998010 TATATATTTTCTATAATTTT
1 TATATATTTTCTATAATTTT
87998030 T
1 T
87998031 GAAAGATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.08
16 6 0.12
17 5 0.10
18 10 0.20
19 7 0.14
20 17 0.35
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (20 bp):
TATATATTTTCTATAATTTT
Found at i:87998016 original size:37 final size:39
Alignment explanation
Indices: 87997922--87998019 Score: 107
Period size: 37 Copynumber: 2.6 Consensus size: 39
87997912 AAAGTTTAAA
* * *
87997922 ATTTTTAAAATTTTACTAT-TTTTCTCTCTTTATATATAT
1 ATTTTTAAATTTTTA-TATATTTTATATCTTTATATATAT
*
87997961 ATTTTT-TATATTTT-TATATTTTATAT-TTTATA-ATAT
1 ATTTTTAAAT-TTTTATATATTTTATATCTTTATATATAT
87997997 ATTTTTAAATTTTTATATATTTT
1 ATTTTTAAATTTTTATATATTTT
87998020 CTATAATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
36 14 0.28
37 19 0.38
38 7 0.14
39 10 0.20
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (39 bp):
ATTTTTAAATTTTTATATATTTTATATCTTTATATATAT
Found at i:87998028 original size:10 final size:9
Alignment explanation
Indices: 87997958--87998030 Score: 57
Period size: 8 Copynumber: 8.1 Consensus size: 9
87997948 TCTTTATATA
*
87997958 TATATTTTT
1 TATAATTTT
87997967 TAT-ATTTT
1 TATAATTTT
87997975 TAT-A-TTT
1 TATAATTTT
87997982 TAT-ATTTT
1 TATAATTTT
87997990 ATAATATATTTT
1 -T-ATA-ATTTT
87998002 TA-AATTTT
1 TATAATTTT
87998010 TATATATTTT
1 TATA-ATTTT
87998020 CTATAATTTT
1 -TATAATTTT
87998030 T
1 T
87998031 GAAAGATTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 16
0.76 0.01 0.22
Matches are distributed among these distances:
7 7 0.13
8 18 0.33
9 7 0.13
10 13 0.24
11 5 0.09
12 5 0.09
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (9 bp):
TATAATTTT
Found at i:87998028 original size:28 final size:26
Alignment explanation
Indices: 87997956--87998052 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 26
87997946 TCTCTTTATA
*
87997956 TATATATTTTT-TATATTTTTATATTT
1 TATATATTTTTATA-ATTTTTAAATTT
*
87997982 TATAT-TTTATAATATATTTTTAAATTTT
1 TATATATTT-TTATA-ATTTTTAAA-TTT
87998010 TATATATTTTCTATAATTTTTGAAAGATTT
1 TATATATTTT-TATAATTTTT--AA-ATTT
*
87998040 TATATTTTTTTAT
1 TATATATTTTTAT
87998053 TAAAATCCAT
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
25 3 0.05
26 6 0.10
27 11 0.19
28 15 0.25
29 9 0.15
30 14 0.24
31 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (26 bp):
TATATATTTTTATAATTTTTAAATTT
Found at i:87998041 original size:30 final size:30
Alignment explanation
Indices: 87997956--87998049 Score: 78
Period size: 30 Copynumber: 3.3 Consensus size: 30
87997946 TCTCTTTATA
*
87997956 TATATATTTT-T--TATATTTTT-ATA-TT
1 TATATATTTTATAATATATTTTTAAAATTT
*
87997981 T-TATATTTTATAATATATTTTTAAATTTT
1 TATATATTTTATAATATATTTTTAAAATTT
*
87998010 TATATATTTTCT-ATA-ATTTTTGAAAGATTT
1 TATATATTTTATAATATATTTTT-AAA-ATTT
*
87998040 TATATTTTTT
1 TATATATTTT
87998050 TATTAAAATC
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
24 8 0.14
25 2 0.04
27 9 0.16
28 7 0.12
29 9 0.16
30 21 0.38
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (30 bp):
TATATATTTTATAATATATTTTTAAAATTT
Found at i:87998053 original size:8 final size:8
Alignment explanation
Indices: 87997922--87998019 Score: 56
Period size: 8 Copynumber: 11.8 Consensus size: 8
87997912 AAAGTTTAAA
*
87997922 ATTTTTAA
1 ATTTTTAT
*
87997930 AATTTTACT
1 ATTTTTA-T
*
87997939 ATTTTTCT
1 ATTTTTAT
* *
87997947 CTCTTTAT
1 ATTTTTAT
* *
87997955 ATATATAT
1 ATTTTTAT
87997963 -TTTTTAT
1 ATTTTTAT
87997970 ATTTTTAT
1 ATTTTTAT
87997978 A-TTTTAT
1 ATTTTTAT
87997985 ATTTTATAATAT
1 A-TTT-T--TAT
*
87997997 ATTTTTAA
1 ATTTTTAT
87998005 ATTTTTAT
1 ATTTTTAT
87998013 ATATTTT
1 AT-TTTT
87998020 CTATAATTTT
Statistics
Matches: 68, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
7 12 0.18
8 36 0.53
9 11 0.16
10 2 0.03
11 3 0.04
12 4 0.06
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTTAT
Found at i:88001091 original size:40 final size:40
Alignment explanation
Indices: 88001013--88001196 Score: 221
Period size: 40 Copynumber: 4.5 Consensus size: 40
88001003 ACCCAAGTAT
* * *
88001013 CTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
88001052 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
88001092 CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
88001132 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
*
88001175 CTTCGGGAATTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
88001197 CATCCGAATA
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 12 0.10
40 82 0.66
41 1 0.01
43 30 0.24
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:88003342 original size:16 final size:16
Alignment explanation
Indices: 88003321--88003354 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
88003311 CCGACAAATC
88003321 CCAAAATGCCGAAAAG
1 CCAAAATGCCGAAAAG
88003337 CCAAAATGCCGAAAAG
1 CCAAAATGCCGAAAAG
88003353 CC
1 CC
88003355 GGAAGTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.29, G:0.18, T:0.06
Consensus pattern (16 bp):
CCAAAATGCCGAAAAG
Found at i:88003604 original size:28 final size:28
Alignment explanation
Indices: 88003571--88003671 Score: 148
Period size: 28 Copynumber: 3.6 Consensus size: 28
88003561 ATTGCATGAC
*
88003571 TATGAATGTGATTGGGCCTGACGGACCA
1 TATGAATGTGATTGGGCCTGATGGACCA
* *
88003599 TATGAAAGTGATTGGGGCTGATGGACCA
1 TATGAATGTGATTGGGCCTGATGGACCA
* *
88003627 TATGAATGTGATTGGGCCCGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGACCA
*
88003655 TATGAATGAGATTGGGC
1 TATGAATGTGATTGGGC
88003672 TTAAAGGGGC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.26, C:0.14, G:0.35, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGACCA
Found at i:88005188 original size:15 final size:15
Alignment explanation
Indices: 88005161--88005194 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
88005151 CCAATTAAAC
88005161 TCAATTCATACCATT
1 TCAATTCATACCATT
88005176 TCAATATCA-ACCATT
1 TCAAT-TCATACCATT
88005191 TCAA
1 TCAA
88005195 GTCACACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.35
Consensus pattern (15 bp):
TCAATTCATACCATT
Found at i:88014321 original size:43 final size:43
Alignment explanation
Indices: 88014274--88014355 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
88014264 CAACACACAT
*
88014274 GCCCGTGTGCCCCAGGCTATGGCCACACATGCCCATGTGGCTA
1 GCCCGTGTGCCCCAGGCTATGGCCACAAATGCCCATGTGGCTA
* *
88014317 GCCCGTGTGCCCTAGGCTATGGCCACAAATGCCCGTGTG
1 GCCCGTGTGCCCCAGGCTATGGCCACAAATGCCCATGTG
88014356 CCATGCCGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.16, C:0.35, G:0.29, T:0.20
Consensus pattern (43 bp):
GCCCGTGTGCCCCAGGCTATGGCCACAAATGCCCATGTGGCTA
Found at i:88017853 original size:6 final size:7
Alignment explanation
Indices: 88017834--88017861 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
88017824 TTAGGTGGGG
88017834 TATTTTT
1 TATTTTT
88017841 TATTTTT
1 TATTTTT
88017848 TATTTTT
1 TATTTTT
88017855 TATTTTT
1 TATTTTT
88017862 GGATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TATTTTT
Found at i:88018910 original size:22 final size:21
Alignment explanation
Indices: 88018885--88018927 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
88018875 AACTTGAATT
*
88018885 TCTAA-ACGTAAAGAATTTAAAA
1 TCTAATAC-TAAA-AATCTAAAA
88018907 TCTAATACTAAAAATCTAAAA
1 TCTAATACTAAAAATCTAAAA
88018928 ACAAAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 9 0.47
23 2 0.11
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.28
Consensus pattern (21 bp):
TCTAATACTAAAAATCTAAAA
Found at i:88019716 original size:29 final size:28
Alignment explanation
Indices: 88019681--88019735 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
88019671 AAAAAATATA
*
88019681 AAATCTAATTTAATCTTAAAATTTAAACT
1 AAATCTAATTGAAT-TTAAAATTTAAACT
*
88019710 AAATCTAATTGAATTTAATATTTAAA
1 AAATCTAATTGAATTTAAAATTTAAA
88019736 ATCTAGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (28 bp):
AAATCTAATTGAATTTAAAATTTAAACT
Found at i:88019737 original size:24 final size:24
Alignment explanation
Indices: 88019673--88019764 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 24
88019663 GTACCCTTAA
* *
88019673 AAAATATAAAATCTAATTTAATCTT
1 AAAATTTAAAATCTAA-TTAAACTT
* *
88019698 AAAATTTAAACTAAATCTAATTGAATTT
1 AAAATTT--A--AAATCTAATTAAACTT
* *
88019726 AATATTTAAAATCTAGTTAAACTT
1 AAAATTTAAAATCTAATTAAACTT
*
88019750 AAAATTTGAAATCTA
1 AAAATTTAAAATCTA
88019765 CTTATTATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
24 26 0.49
25 6 0.11
26 1 0.02
27 1 0.02
28 11 0.21
29 8 0.15
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (24 bp):
AAAATTTAAAATCTAATTAAACTT
Found at i:88020023 original size:22 final size:22
Alignment explanation
Indices: 88019995--88020040 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
88019985 AGAGCCTACC
*
88019995 TAGATATTACATCAATGAACAG
1 TAGATATCACATCAATGAACAG
88020017 TAGATATCACATCAATGAACAG
1 TAGATATCACATCAATGAACAG
88020039 TA
1 TA
88020041 ATCATATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (22 bp):
TAGATATCACATCAATGAACAG
Found at i:88020057 original size:24 final size:22
Alignment explanation
Indices: 88019998--88020057 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
88019988 GCCTACCTAG
* * *
88019998 ATATTACATCAATGAACAGTAG
1 ATATCACATAAATGAACAGTAC
*
88020020 ATATCACATCAATGAACAGTAATC
1 ATATCACATAAATGAACAGT-A-C
*
88020044 ATATCATATAAATG
1 ATATCACATAAATG
88020058 CACAACTCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 19 0.59
23 1 0.03
24 12 0.38
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (22 bp):
ATATCACATAAATGAACAGTAC
Found at i:88025874 original size:241 final size:241
Alignment explanation
Indices: 88025450--88025892 Score: 538
Period size: 241 Copynumber: 1.8 Consensus size: 241
88025440 TTAATATCAG
**
88025450 AACCTAAGTTCAATCGATTTAAGATCATGAACAAATTTTATTTGAGTTAGTATATCTCAGATCGC
1 AACCTAAGTTCAATAAATTTAAGATCATGAACAAATTTTATTTGAGTTAGTATATCTCAGATCGC
* * * ** ** * *
88025515 AACTCTAAACATCTTTTTGATTTAAGATCATAGTTGTTATTGTTAAGGTTAGCTCATTTAGAATT
66 AACTCCAAAAAGCTCATTGATTTAAGATCATAACTGATATTGTTAAGGTTAGCTCATTTAGAATC
* * ** * *
88025580 GCAACCTAAGTTCATTCGATTTTAGATCATGAAAAAAAATATTTGAATTAGTTGATCTCAGATCG
131 ACAACCTAACTTCATTCGATTCAAGATCATGAAAAAAAATATTTGAATTAGTTGATCCCAAATCG
88025645 AAACTCTAAAAAGCTCGCTAAATCAAGATCACATATTTAAGATTGC
196 AAACTCTAAAAAGCTCGCTAAATCAAGATCACATATTTAAGATTGC
* * *
88025691 AACCTAAGTTCATTAAATTTAAGATCATGAGCAAATTTTATTTGAGTTAGCTA-GTCTCCA-ATC
1 AACCTAAGTTCAATAAATTTAAGATCATGAACAAATTTTATTTGAGTTAG-TATATCT-CAGATC
* *
88025754 GCAACTCCAAAAAGCTCATTGATTTAATATCATAACTGATA-TGATTAAGGTTCA-CTGATTTA-
64 GCAACTCCAAAAAGCTCATTGATTTAAGATCATAACTGATATTG-TTAAGGTT-AGCTCATTTAG
* *** *
88025816 AGATCACAACCTAACTTCATTCGA-TCAAGATCATGGACAAATTTTATTTGAGTTAGTTGATCCC
127 A-ATCACAACCTAACTTCATTCGATTCAAGATCAT-GAAAAAAAATATTTGAATTAGTTGATCCC
*
88025880 AAATCGCAACTCT
190 AAATCGAAACTCT
88025893 GAACATCTCG
Statistics
Matches: 168, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
240 11 0.07
241 152 0.90
242 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (241 bp):
AACCTAAGTTCAATAAATTTAAGATCATGAACAAATTTTATTTGAGTTAGTATATCTCAGATCGC
AACTCCAAAAAGCTCATTGATTTAAGATCATAACTGATATTGTTAAGGTTAGCTCATTTAGAATC
ACAACCTAACTTCATTCGATTCAAGATCATGAAAAAAAATATTTGAATTAGTTGATCCCAAATCG
AAACTCTAAAAAGCTCGCTAAATCAAGATCACATATTTAAGATTGC
Found at i:88026059 original size:132 final size:131
Alignment explanation
Indices: 88025679--88026617 Score: 788
Period size: 132 Copynumber: 7.1 Consensus size: 131
88025669 AAGATCACAT
* ** * *
88025679 ATTTAAGATTGCAACCTAAGTTCATTAAATTTAAGATCATGAGCAAATTTTATTTGAGTTAGCT-
1 ATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATAATGAACAAATTTTATTTGAGTTAGCTG
* * * ** **
88025743 AGTCTCCAATCGCAACTCCAAAAAGCTCATTGATTTAATATCATAACTGATA-TGATTAAGGTTC
66 A-TCT-CAATCGCAACTTCAAAAAGCTCACTAATTTAATATCGCAGTTGATATTG-TTAAGGTTC
*
88025807 ACTG
128 GCTG
* * * * * * *
88025811 ATTTAAGATCACAACCTAACTTCATTCGA-TCAAGATCATGGACAAATTTTATTTGAGTTAGTTG
1 ATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATAATGAACAAATTTTATTTGAGTTAGCTG
* * * * ** ** * * * ** *
88025875 ATCCCAAATCGCAAC-TCTGAACATCTCGTTGGTTTAAGATAGAAACTAATATTGTTAAGGTTCG
66 ATCTC-AATCGCAACTTC-AAAAAGCTCACTAATTTAATATCGCAGTTGATATTGTTAAGGTTCG
*
88025939 TTG
129 CTG
* * ** *
88025942 ATTTAAGATCGCAACCTAAGTTCATTTGATTTATGATAATGAAAAAAACTTATTTGAGTTAACTG
1 ATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATAATGAACAAATTTTATTTGAGTTAGCTG
* ** *
88026007 ATCTCATATCGCAACTCCAAAAAGCTTTCTAATTTAATATCGTC-GTTGATATTGTTAAGGTTCA
66 ATCTCA-ATCGCAACTTCAAAAAGCTCACTAATTTAATATCG-CAGTTGATATTGTTAAGGTTCG
88026071 CTG
129 CTG
* *
88026074 ATTTAAGATCGTAACCTAAGTTCATTTGATTTAAGATCAA-GAACAAATTTTATTTGAGTTAGTT
1 ATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGAT-AATGAACAAATTTTATTTGAGTTAGCT
* * * ** * *
88026138 GATTTCAAGTTGCAATTTTGAAAAGCTCACTAATTTAATATCGCAGCTGATATTGTTAAAGTTCG
65 GATCTCAA-TCGCAACTTCAAAAAGCTCACTAATTTAATATCGCAGTTGATATTGTTAAGGTTCG
*
88026203 TTG
129 CTG
* * ** *** *
88026206 ATTTAAGATCGCCACTTAAGTTCATTCAATTTAAGACCGTGAACAAATTTTATTTTAGTTAGCTG
1 ATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATAATGAACAAATTTTATTTGAGTTAGCTG
* * * *
88026271 ATCTCAGATCGCAACTTTAAAAAGCTCACTGATTTAAGATCGCAGTTGATATTGTTAAGGTTCGT
66 ATCTCA-ATCGCAACTTCAAAAAGCTCACTAATTTAATATCGCAGTTGATATTGTTAAGGTTCGC
*
88026336 TT
130 TG
* * * * *
88026338 ATTTAAGATCACAACCTAAGTTTATTTGATTTAAGA-ACATGAAAAAAATTTATTTG-GCTTAGT
1 ATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATA-ATGAACAAATTTTATTTGAG-TTAGC
* * ** * * * * * * * *
88026401 TCATTTCAATAACAACTCCAAACAGCTCGCTGATTTAGTATCACAGCTAATATTGTTAAGGTT-G
64 TGATCTCAATCGCAACTTCAAAAAGCTCACTAATTTAATATCGCAGTTGATATTGTTAAGGTTCG
88026465 CTG
129 CTG
* * * *
88026468 ATTTAATATCGCAACCTAAGTTCA-TTCATTTTA-ATAACATGAACAAATTTTATTTGAGTTAGA
1 ATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGAT-A-ATGAACAAATTTTATTTGAGTTAGC
* * * * * *
88026531 TGATCTTAGATCGCAACTTCGAAAAGCTCTCTAATTTAAGATAGCGGTTGATATTGTTAAGGTT-
64 TGATCTCA-ATCGCAACTTCAAAAAGCTCACTAATTTAATATCGCAGTTGATATTGTTAAGGTTC
*
88026595 GCTA
128 GCTG
88026599 ATTTAAGA-CTGCAACCTAA
1 ATTTAAGATC-GCAACCTAA
88026618 CTCCAATTAA
Statistics
Matches: 642, Mismatches: 145, Indels: 41
0.78 0.18 0.05
Matches are distributed among these distances:
128 1 0.00
129 7 0.01
130 53 0.08
131 210 0.33
132 367 0.57
133 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (131 bp):
ATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATAATGAACAAATTTTATTTGAGTTAGCTG
ATCTCAATCGCAACTTCAAAAAGCTCACTAATTTAATATCGCAGTTGATATTGTTAAGGTTCGCT
G
Found at i:88026230 original size:264 final size:262
Alignment explanation
Indices: 88025679--88026594 Score: 918
Period size: 264 Copynumber: 3.5 Consensus size: 262
88025669 AAGATCACAT
* * * * * *
88025679 ATTTAAGATTGCAACCTAAGTTCATTAAATTTAAGATCATGAGCAAATTTTATTTGAGTTAGCT-
1 ATTTAAGATCGCAACCTAAGTTCATTTAATTTATGATAATGAACAAATTTTATTTGAGTTAACTG
* * ** **
88025743 AGTCTCCA-ATCGCAACTCCAAAAAGCTCAT-TGATTTAATATCATAACTGATA-TGATTAAGGT
66 A-TCT-CAGATCGCAACTCCAAAAAGCTC-TCTAATTTAAGATCGCAGTTGATATTG-TTAAGGT
* * * *
88025805 TCACTGATTTAAGATCACAACCTAACTTCATTCGA-TCAAGATCATGGACAAATTTTATTTGAGT
127 TCACTGATTTAAGATCACAACCTAAGTTCATTTGATTTAAGATCATGAACAAATTTTATTTGAGT
** * * * * * * * * * *
88025869 TAGTTGATCCCAAATCGCAACTCTGAACATCTCGTTGGTTTAAGATAGAAACTAATATTGTTAAG
192 TAGTTGATTTC-AATAGCAA-TTTGAAAAGCTCGCTGATTTAATATCGCAGCTAATATTGTTAAG
88025934 GTTCGTTG
255 GTTCGTTG
* * **
88025942 ATTTAAGATCGCAACCTAAGTTCATTTGATTTATGATAATGAAAAAAACTTATTTGAGTTAACTG
1 ATTTAAGATCGCAACCTAAGTTCATTTAATTTATGATAATGAACAAATTTTATTTGAGTTAACTG
* * *
88026007 ATCTCATATCGCAACTCCAAAAAGCTTTCTAATTTAATATCGTC-GTTGATATTGTTAAGGTTCA
66 ATCTCAGATCGCAACTCCAAAAAGCTCTCTAATTTAAGATCG-CAGTTGATATTGTTAAGGTTCA
** *
88026071 CTGATTTAAGATCGTAACCTAAGTTCATTTGATTTAAGATCAAGAACAAATTTTATTTGAGTTAG
130 CTGATTTAAGATCACAACCTAAGTTCATTTGATTTAAGATCATGAACAAATTTTATTTGAGTTAG
* * * * *
88026136 TTGATTTCAAGTTGCAATTTTGAAAAGCTCACTAATTTAATATCGCAGCTGATATTGTTAAAGTT
195 TTGATTTCAA-TAGCAA-TTTGAAAAGCTCGCTGATTTAATATCGCAGCTAATATTGTTAAGGTT
88026201 CGTTG
258 CGTTG
* * * * *** * *
88026206 ATTTAAGATCGCCACTTAAGTTCATTCAATTTAAGACCGTGAACAAATTTTATTTTAGTTAGCTG
1 ATTTAAGATCGCAACCTAAGTTCATTTAATTTATGATAATGAACAAATTTTATTTGAGTTAACTG
** * * **
88026271 ATCTCAGATCGCAACTTTAAAAAGCTCACTGATTTAAGATCGCAGTTGATATTGTTAAGGTTCGT
66 ATCTCAGATCGCAACTCCAAAAAGCTCTCTAATTTAAGATCGCAGTTGATATTGTTAAGGTTCAC
* * * * *
88026336 TTATTTAAGATCACAACCTAAGTTTATTTGATTTAAGAACATGAAAAAAATTTATTTG-GCTTAG
131 TGATTTAAGATCACAACCTAAGTTCATTTGATTTAAGATCATGAACAAATTTTATTTGAG-TTAG
* * * ** * *
88026400 TTCATTTCAATAACAACTCCAAACAGCTCGCTGATTTAGTATCACAGCTAATATTGTTAAGGTT-
195 TTGATTTCAATAGCAATTTGAAA-AGCTCGCTGATTTAATATCGCAGCTAATATTGTTAAGGTTC
*
88026464 GCTG
259 GTTG
* * *
88026468 ATTTAATATCGCAACCTAAGTTCA-TTCATTT-TAATAACATGAACAAATTTTATTTGAGTTAGA
1 ATTTAAGATCGCAACCTAAGTTCATTTAATTTATGAT-A-ATGAACAAATTTTATTTGAGTTA-A
* * * * *
88026531 -TGATCTTAGATCGCAACTTCGAAAAGCTCTCTAATTTAAGATAGCGGTTGATATTGTTAAGGTT
63 CTGATCTCAGATCGCAACTCCAAAAAGCTCTCTAATTTAAGATCGCAGTTGATATTGTTAAGGTT
88026595 GCTAATTTAA
Statistics
Matches: 538, Mismatches: 102, Indels: 27
0.81 0.15 0.04
Matches are distributed among these distances:
260 1 0.00
261 5 0.01
262 109 0.20
263 172 0.32
264 251 0.47
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (262 bp):
ATTTAAGATCGCAACCTAAGTTCATTTAATTTATGATAATGAACAAATTTTATTTGAGTTAACTG
ATCTCAGATCGCAACTCCAAAAAGCTCTCTAATTTAAGATCGCAGTTGATATTGTTAAGGTTCAC
TGATTTAAGATCACAACCTAAGTTCATTTGATTTAAGATCATGAACAAATTTTATTTGAGTTAGT
TGATTTCAATAGCAATTTGAAAAGCTCGCTGATTTAATATCGCAGCTAATATTGTTAAGGTTCGT
TG
Found at i:88028613 original size:46 final size:45
Alignment explanation
Indices: 88028544--88028711 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 45
88028534 TCTCGTAGCA
* * * * **
88028544 GATGCATATCCCAAACATATCTTACACTGGCTTACGTCTCAAGGTT
1 GATGCATGTCCTAGACATGTCTTACACTGGCTT-CGTCTCAAGGCC
* * *
88028590 GATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGC-TTCGTCTCAAGGCC
88028636 GATGCCATGTCCTAGACATGGTCTTACACTGGC-TC-TCAT-AATGTGGCC
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTTCGTC-TCAA---GGCC
* *
88028684 GATGCATGTCCCAGATATGTCTTACACT
1 GATGCATGTCCTAGACATGTCTTACACT
88028712 AGCTCACACA
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
45 4 0.04
46 52 0.51
47 27 0.26
48 19 0.19
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (45 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTTCGTCTCAAGGCC
Found at i:88036142 original size:46 final size:45
Alignment explanation
Indices: 88036038--88036254 Score: 195
Period size: 46 Copynumber: 4.7 Consensus size: 45
88036028 GCATATCTGT
* *
88036038 GCCGATGCTATGTACCAGACATGGTCTTACACTGGC-ACATCTCGTA-
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCG-AG
* * *
88036084 GTCGATGAATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAG
* * * ** *
88036130 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAG
* * ** *
88036176 ACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCGAG
*
88036224 GCCGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
88036255 AGCTCACACA
Statistics
Matches: 138, Mismatches: 26, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
44 13 0.09
45 13 0.09
46 64 0.46
47 28 0.20
48 20 0.14
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAG
Found at i:88036203 original size:94 final size:90
Alignment explanation
Indices: 88036038--88036257 Score: 264
Period size: 94 Copynumber: 2.4 Consensus size: 90
88036028 GCATATCTGT
* * *
88036038 GCCGATGCTATGTACCAGACATGGTCTTACACTGGCACATCTCGTAGTCGATGAATGTCCCAGAC
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCACATCTCGTAATCGATGAATGTCCCAGAC
* **
88036103 ATGTCTTACACTGGCT-TACGTCTCGAG
64 ATGTCTTACACTGGCTCT-CATAACGAG
* *
88036130 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTTAATACTGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATC-TCGTAAT-C-GATG-AATGTCCCAG
*
88036194 ACATGGTCTTACACTGGCTCTCATAACGTG
62 ACAT-GTCTTACACTGGCTCTCATAACGAG
*
88036224 GCCGATGCATGTCCTAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
88036258 TCACACAAGT
Statistics
Matches: 112, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
89 2 0.02
90 19 0.17
91 13 0.12
92 12 0.11
93 13 0.12
94 52 0.46
95 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (90 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAATCGATGAATGTCCCAGACAT
GTCTTACACTGGCTCTCATAACGAG
Found at i:88036661 original size:29 final size:29
Alignment explanation
Indices: 88036605--88036676 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 29
88036595 TTCTTCGGTG
*
88036605 AAATGACCATTTT-TCCCCTAGACTTTGACA
1 AAATGATCATTTTAT-CCCTAGACTTTGA-A
*
88036635 AAATGATCATTTTATCCCTAG-GTTTGAA
1 AAATGATCATTTTATCCCTAGACTTTGAA
*
88036663 AATTGAT--TTTTATC
1 AAATGATCATTTTATC
88036677 AAATTCCTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 7 0.18
28 7 0.18
29 5 0.13
30 18 0.47
31 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (29 bp):
AAATGATCATTTTATCCCTAGACTTTGAA
Found at i:88046553 original size:19 final size:19
Alignment explanation
Indices: 88046529--88046627 Score: 136
Period size: 19 Copynumber: 5.5 Consensus size: 19
88046519 ATAATCTTCA
88046529 ATGATATGAAATCTTAGAT
1 ATGATATGAAATCTTAGAT
*
88046548 ATGATATGCAATCTTAGAT
1 ATGATATGAAATCTTAGAT
88046567 ATGATAT--AATCTTAGAT
1 ATGATATGAAATCTTAGAT
*
88046584 ATGAT-TGTAATCTTAGAT
1 ATGATATGAAATCTTAGAT
*
88046602 ATGATATGCAATCTTAGA-
1 ATGATATGAAATCTTAGAT
88046620 A-GATATGA
1 ATGATATGA
88046628 TTTTGTAATC
Statistics
Matches: 74, Mismatches: 3, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.01
17 21 0.28
18 16 0.22
19 36 0.49
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.37
Consensus pattern (19 bp):
ATGATATGAAATCTTAGAT
Found at i:88046601 original size:54 final size:53
Alignment explanation
Indices: 88046517--88046619 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 53
88046507 TCATATGGAA
88046517 ATATAATCTTCAATGATATGAAATCTTAGATATGATATGCAATCTTAGATATG
1 ATATAATCTTCAATGATATGAAATCTTAGATATGATATGCAATCTTAGATATG
* *
88046570 ATATAATCTTAGATATGAT-TGTAATCTTAGATATGATATGCAATCTTAGA
1 ATATAATCTT-CA-ATGATATGAAATCTTAGATATGATATGCAATCTTAGA
88046620 AGATATGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
53 10 0.22
54 31 0.67
55 5 0.11
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (53 bp):
ATATAATCTTCAATGATATGAAATCTTAGATATGATATGCAATCTTAGATATG
Found at i:88046641 original size:23 final size:22
Alignment explanation
Indices: 88046580--88046655 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
88046570 ATATAATCTT
88046580 AGATATGA-TTGTAATCTT---
1 AGATATGATTTGTAATCTTAGA
* *
88046598 AGATATGATATGCAATCTTAGA
1 AGATATGATTTGTAATCTTAGA
88046620 AGATATGATTTTGTAATCTTAG-
1 AGATATGA-TTTGTAATCTTAGA
* *
88046642 AGATTTAATTTGTA
1 AGATATGATTTGTA
88046656 GATACCTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 8 0.17
19 8 0.17
21 6 0.13
22 14 0.30
23 11 0.23
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (22 bp):
AGATATGATTTGTAATCTTAGA
Found at i:88046932 original size:18 final size:18
Alignment explanation
Indices: 88046909--88046943 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
88046899 TGTTTCCCTG
88046909 TTTTTTT-ATATATTTTAA
1 TTTTTTTAATA-ATTTTAA
88046927 TTTTTTTAATAATTTTA
1 TTTTTTTAATAATTTTA
88046944 GTATCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTTAATAATTTTAA
Found at i:88047212 original size:47 final size:47
Alignment explanation
Indices: 88047143--88047236 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
88047133 CCCTAACATG
*
88047143 TTGGGTTACGATTTCTCGTTTGTCTAAATGCCTAAAGTATCCTTCTA
1 TTGGGTTACGATTTCCCGTTTGTCTAAATGCCTAAAGTATCCTTCTA
*
88047190 TTGGGTTGCGATTTCCCGTTTGTCTAAATGCCTAAAGTATCCTTCTA
1 TTGGGTTACGATTTCCCGTTTGTCTAAATGCCTAAAGTATCCTTCTA
88047237 AATAGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (47 bp):
TTGGGTTACGATTTCCCGTTTGTCTAAATGCCTAAAGTATCCTTCTA
Found at i:88052674 original size:18 final size:18
Alignment explanation
Indices: 88052651--88052688 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
88052641 TAGAGAATGT
88052651 AGCCCTAGAGGAAGGGAA
1 AGCCCTAGAGGAAGGGAA
88052669 AGCCCTAGAGGAAGGGAA
1 AGCCCTAGAGGAAGGGAA
88052687 AG
1 AG
88052689 AGGTGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.39, T:0.05
Consensus pattern (18 bp):
AGCCCTAGAGGAAGGGAA
Found at i:88057060 original size:44 final size:44
Alignment explanation
Indices: 88056947--88057391 Score: 543
Period size: 44 Copynumber: 10.1 Consensus size: 44
88056937 GATCCAAGAT
* * *
88056947 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGA-AACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * * **
88056990 AATTTGGCATATTTGTATTAAACAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAGATAGCA
* *
88057035 GATTTGGCATCTCTGTATAGTCAGAGAGCAGATCGAAAATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* *
88057079 TATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
*
88057123 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* *
88057167 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * * *
88057211 AACTTGGCATCTCTGTATTATCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * *
88057255 GATTTGGTATCTCTGTATTGTCAGAGAGCATATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * * * * * *
88057299 AATTTGGCATCTTTGTACTGCCAGAGAACAAATCGAAGA-AACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
** * *
88057342 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAG--ATAGCA
88057389 GAT
1 GAT
88057392 CTGACCTTCA
Statistics
Matches: 343, Mismatches: 53, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
43 33 0.10
44 285 0.83
45 18 0.05
46 1 0.00
47 6 0.02
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
Found at i:88057471 original size:78 final size:78
Alignment explanation
Indices: 88057342--88057792 Score: 796
Period size: 78 Copynumber: 5.8 Consensus size: 78
88057332 CGAAGAAACA
** * * *
88057342 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTCATTGAA
88057407 GCAGATCCAAGAT
66 GCAGATCCAAGAT
88057420 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTCATTGAA
88057485 GCAGATCCAAGAT
66 GCAGATCCAAGAT
88057498 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTCATTGAA
88057563 GCAGATCCAAGAT
66 GCAGATCCAAGAT
88057576 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTCATTGAA
88057641 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
88057654 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
88057718 AGCAGAGCCAAGAT
65 AGCAGATCCAAGAT
*
88057732 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTCAT
88057793 GTGTTTACAT
Statistics
Matches: 360, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
77 1 0.00
78 358 0.99
79 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:88057886 original size:45 final size:45
Alignment explanation
Indices: 88057732--88058050 Score: 312
Period size: 45 Copynumber: 7.1 Consensus size: 45
88057722 GAGCCAAGAT
*
88057732 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * *
88057779 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATTC-AAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGA-TCGAAGATAACA
* *
88057824 GATTTGGCATCTCTGTATTAGACGGGGAACAAATC-AGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGA-AGATAACA
* **
88057869 GATTTGGCATCTATGTATTAGACGGGGAGCAGATTAAAGA-AGA-A
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATA-ACA
*
88057913 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
88057958 GATTTGGCGTCTCTGTATTAGACGGGGAGTAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * * *
88058003 GATTTGCCGA-CTCTGTGTTAGATGGGGAGCAGATCAAAGATAGCA
1 GATTTGGC-ATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
88058048 GAT
1 GAT
88058051 ATCGCCTTCC
Statistics
Matches: 225, Mismatches: 34, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.00
44 47 0.21
45 145 0.64
46 5 0.02
47 20 0.09
48 6 0.03
49 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:88057939 original size:89 final size:90
Alignment explanation
Indices: 88057732--88058030 Score: 288
Period size: 89 Copynumber: 3.3 Consensus size: 90
88057722 GAGCCAAGAT
* * * * *
88057732 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCT-TCATGTG
1 GATTTGGCATCTCTGTATTAGACGGGGAACAAATCGAAGACA-A-CAGATTTGGCATCT-ATGT-
* * * * *
88057796 TTTACATC--GAAGCAGATTCAAGATGACA
62 ATTAGA-CGGGGAGCAGATTAAAGAAGACA
*
88057824 GATTTGGCATCTCTGTATTAGACGGGGAACAAATC-AGAGATAACAGATTTGGCATCTATGTATT
1 GATTTGGCATCTCTGTATTAGACGGGGAACAAATCGA-AGACAACAGATTTGGCATCTATGTATT
88057888 AGACGGGGAGCAGATTAAAGAAGA-A
65 AGACGGGGAGCAGATTAAAGAAGACA
* * * *
88057913 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAACAGATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAACAAATCGAAGACAACAGATTTGGCATCTATGTATTA
* **
88057978 GACGGGGAGTAGATCGAAGATA-ACA
66 GACGGGGAGCAGATTAAAGA-AGACA
* * *
88058003 GATTTGCCGA-CTCTGTGTTAGATGGGGA
1 GATTTGGC-ATCTCTGTATTAGACGGGGA
88058031 GCAGATCAAA
Statistics
Matches: 177, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
88 1 0.01
89 81 0.46
90 54 0.31
91 4 0.02
92 37 0.21
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (90 bp):
GATTTGGCATCTCTGTATTAGACGGGGAACAAATCGAAGACAACAGATTTGGCATCTATGTATTA
GACGGGGAGCAGATTAAAGAAGACA
Found at i:88058414 original size:17 final size:19
Alignment explanation
Indices: 88058392--88058540 Score: 165
Period size: 17 Copynumber: 8.4 Consensus size: 19
88058382 ATGGAAATAT
88058392 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
88058409 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
88058428 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
88058445 AATCTTATATATGAT-TGC
1 AATCTTACATATGATATGC
*
88058463 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
88058480 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
88058497 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATGC
*
88058515 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
88058534 AATCTTA
1 AATCTTA
88058541 GAAAATATGA
Statistics
Matches: 121, Mismatches: 3, Indels: 14
0.88 0.02 0.10
Matches are distributed among these distances:
17 54 0.45
18 32 0.26
19 35 0.29
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:88058471 original size:35 final size:36
Alignment explanation
Indices: 88058408--88058542 Score: 222
Period size: 35 Copynumber: 3.8 Consensus size: 36
88058398 CAATGATATG
88058408 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
*
88058444 CAATCTTATATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
*
88058479 CAATCTTAGATATGATA--CAATCTTAGATATGATTG
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-TA
88058514 CAATCTTAGATATGATATGCAATCTTAGA
1 CAATCTTAGATATGATATGCAATCTTAGA
88058543 AAATATGATT
Statistics
Matches: 92, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
34 15 0.16
35 52 0.57
36 15 0.16
37 10 0.11
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:88058497 original size:52 final size:53
Alignment explanation
Indices: 88058400--88058542 Score: 243
Period size: 52 Copynumber: 2.7 Consensus size: 53
88058390 ATAATCTTCA
*
88058400 ATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTATAT
1 ATGAT-TGCAATCTTAGATATGATA-GCAATCTTAGATATGATACAATCTTAGAT
88058455 ATGATTGCAATCTTAGATATGATA-CAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGAT
88058507 ATGATTGCAATCTTAGATATGATATGCAATCTTAGA
1 ATGATTGCAATCTTAGATATGATA-GCAATCTTAGA
88058543 AAATATGATT
Statistics
Matches: 85, Mismatches: 1, Indels: 5
0.93 0.01 0.05
Matches are distributed among these distances:
52 51 0.60
54 29 0.34
55 5 0.06
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (53 bp):
ATGATTGCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGAT
Found at i:88058835 original size:18 final size:18
Alignment explanation
Indices: 88058812--88058847 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
88058802 TGTTTCCATG
88058812 ATTTTTTT-ATATATTTTA
1 ATTTTTTTAATA-ATTTTA
88058830 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
88058848 GTATCATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:88064607 original size:139 final size:139
Alignment explanation
Indices: 88064357--88064630 Score: 548
Period size: 139 Copynumber: 2.0 Consensus size: 139
88064347 GTTATGACTA
88064357 TAAATGTGATCTTTGTATGTGGCTATGGAACTGAAAGTTGAATGGTCGATAAGCATGTTGTGTTT
1 TAAATGTGATCTTTGTATGTGGCTATGGAACTGAAAGTTGAATGGTCGATAAGCATGTTGTGTTT
88064422 GTATTCAAGTAATGCATATGATATACTAATGTGTATTGTTATATATGTATATATACATGAGAATT
66 GTATTCAAGTAATGCATATGATATACTAATGTGTATTGTTATATATGTATATATACATGAGAATT
88064487 GAGAGTTAT
131 GAGAGTTAT
88064496 TAAATGTGATCTTTGTATGTGGCTATGGAACTGAAAGTTGAATGGTCGATAAGCATGTTGTGTTT
1 TAAATGTGATCTTTGTATGTGGCTATGGAACTGAAAGTTGAATGGTCGATAAGCATGTTGTGTTT
88064561 GTATTCAAGTAATGCATATGATATACTAATGTGTATTGTTATATATGTATATATACATGAGAATT
66 GTATTCAAGTAATGCATATGATATACTAATGTGTATTGTTATATATGTATATATACATGAGAATT
88064626 GAGAG
131 GAGAG
88064631 AGTGATATAT
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 135 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (139 bp):
TAAATGTGATCTTTGTATGTGGCTATGGAACTGAAAGTTGAATGGTCGATAAGCATGTTGTGTTT
GTATTCAAGTAATGCATATGATATACTAATGTGTATTGTTATATATGTATATATACATGAGAATT
GAGAGTTAT
Found at i:88064675 original size:40 final size:39
Alignment explanation
Indices: 88064631--88064709 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 39
88064621 GAATTGAGAG
*
88064631 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCT
88064671 AGTGATATATCCGGGCTAAACCTCGAAGGCATTCGTGCT
1 AGTGATATATCCGGGCTAAACCTCGAAGGCATTCGTGCT
88064710 GGAATTATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
39 13 0.35
40 24 0.65
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
AGTGATATATCCGGGCTAAACCTCGAAGGCATTCGTGCT
Found at i:88064807 original size:57 final size:57
Alignment explanation
Indices: 88064717--88064884 Score: 237
Period size: 57 Copynumber: 2.9 Consensus size: 57
88064707 GCTGGAATTA
* * * * *
88064717 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAAATCAGTAAT
* **
88064774 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAAATCAGTAAT
* * *
88064831 TGAGGCACTATGTGTGCGAGTTTTTTAATCGAGCGCTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAAATCAGT
88064885 CAGTGGGCAC
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 97 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAAATCAGTAAT
Found at i:88064818 original size:28 final size:27
Alignment explanation
Indices: 88064721--88064877 Score: 125
Period size: 28 Copynumber: 5.6 Consensus size: 27
88064711 GAATTATGAG
* * *
88064721 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
* ** * * *
88064749 GCACTATGTGTGCCAAATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAATCGA
88064777 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTT-AATCGA
** *
88064806 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
*
88064834 GGCACTATGTGTGCGAGTTTTTTAATCGA
1 -GCACTATGTGTGCGAG-TTCTTAATCGA
*
88064863 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
88064878 AATCAGTCAG
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
28 54 0.53
29 48 0.47
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:88064848 original size:29 final size:28
Alignment explanation
Indices: 88064746--88064877 Score: 113
Period size: 29 Copynumber: 4.6 Consensus size: 28
88064736 GTTCTTCAAC
* * * *
88064746 CGAGCACTATGTGTGCCAAATCAGTAGT
1 CGAGCACTATGTGTGCGAGATTAGTAAT
* **
88064774 TGAGGCACTATGTGTGCGAG-TTCTTCAAT
1 CGA-GCACTATGTGTGCGAGATTAGT-AAT
*
88064803 CGAGCACTATGTGTGCGAGATTGGTAAT
1 CGAGCACTATGTGTGCGAGATTAGTAAT
* * **
88064831 TGAGGCACTATGTGTGCGAGTTTTTTAAT
1 CGA-GCACTATGTGTGCGAGATTAGTAAT
*
88064860 CGAGCGCTATGTGTGCGA
1 CGAGCACTATGTGTGCGA
88064878 AATCAGTCAG
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
28 39 0.46
29 45 0.54
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (28 bp):
CGAGCACTATGTGTGCGAGATTAGTAAT
Found at i:88077344 original size:20 final size:20
Alignment explanation
Indices: 88077312--88077411 Score: 58
Period size: 20 Copynumber: 4.5 Consensus size: 20
88077302 TTCAACTATG
88077312 ATTAAACTTAATCATTTTAAT
1 ATTAAA-TTAATCATTTTAAT
*
88077333 ATTAAATTAATCTAATATTTATCTT
1 ATTAAATTAATC--AT-TTTA--AT
* * *
88077358 GATAAATATTAGATAAATTTAAT
1 -ATTAA-ATTA-ATCATTTTAAT
*
88077381 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAATCATTTTAAT
88077401 ATTAAATTAAT
1 ATTAAATTAAT
88077412 AAAATACTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
19 1 0.02
20 24 0.39
21 8 0.13
22 7 0.11
23 5 0.08
25 5 0.08
26 5 0.08
27 4 0.07
28 2 0.03
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (20 bp):
ATTAAATTAATCATTTTAAT
Found at i:88082845 original size:21 final size:21
Alignment explanation
Indices: 88082819--88082868 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
88082809 AAAAGCTAAG
88082819 GACTAAAATTGTTAGTATACC
1 GACTAAAATTGTTAGTATACC
88082840 GACTAAAATTGTTAGTATACC
1 GACTAAAATTGTTAGTATACC
*
88082861 AACTAAAA
1 GACTAAAA
88082869 AGTCTCACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (21 bp):
GACTAAAATTGTTAGTATACC
Found at i:88083017 original size:14 final size:15
Alignment explanation
Indices: 88082998--88083029 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
88082988 TATTCTAAGG
88082998 TTTTA-TTTTTTATT
1 TTTTATTTTTTTATT
88083012 TTTTATTTTTTTATT
1 TTTTATTTTTTTATT
88083027 TTT
1 TTT
88083030 ACATTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTATTTTTTTATT
Found at i:88083030 original size:6 final size:7
Alignment explanation
Indices: 88082998--88083029 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
88082988 TATTCTAAGG
88082998 TTTTATT
1 TTTTATT
88083005 TTTTATT
1 TTTTATT
88083012 TTTTATTT
1 TTTTA-TT
88083020 TTTTATT
1 TTTTATT
88083027 TTT
1 TTT
88083030 ACATTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:88085843 original size:14 final size:14
Alignment explanation
Indices: 88085821--88085850 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
88085811 GTCCAGTTAC
88085821 CATTCAGTGCATAT
1 CATTCAGTGCATAT
*
88085835 CATTTAGTGCATAT
1 CATTCAGTGCATAT
88085849 CA
1 CA
88085851 GTTTCAGCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (14 bp):
CATTCAGTGCATAT
Found at i:88089872 original size:13 final size:14
Alignment explanation
Indices: 88089856--88089891 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
88089846 CAATCTTATA
88089856 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
88089869 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
88089882 TCTC-ATTTCA
1 TCTCAATTTCA
88089892 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:88090127 original size:23 final size:23
Alignment explanation
Indices: 88090045--88090131 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
88090035 CCTGATCAGT
*
88090045 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
88090067 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
88090087 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
88090110 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
88090132 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:88090527 original size:15 final size:15
Alignment explanation
Indices: 88090502--88090544 Score: 77
Period size: 15 Copynumber: 2.8 Consensus size: 15
88090492 TCATATATAT
88090502 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
88090518 TATAAATTCAATCAA
1 TATAAATTCAATCAA
88090533 TATAAATTCAAT
1 TATAAATTCAAT
88090545 AAAACAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:88090728 original size:10 final size:10
Alignment explanation
Indices: 88090700--88090729 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
88090690 ATATCTCATT
*
88090700 CACACACACA
1 CACACACATA
88090710 CACACACATA
1 CACACACATA
88090720 CACACACATA
1 CACACACATA
88090730 TATATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (10 bp):
CACACACATA
Found at i:88094134 original size:71 final size:71
Alignment explanation
Indices: 88094052--88094264 Score: 408
Period size: 71 Copynumber: 3.0 Consensus size: 71
88094042 GCGGAAGAAA
88094052 GAAACGGAATTAACTTACTATTAAGAGTTGAATAATGAGATATGGAAAGATCTGAAAATGAAATA
1 GAAACGGAATTAACTTACTATTAAGAGTTGAATAATGAGATATGGAAAGATCTGAAAATGAAATA
88094117 AATAAT
66 AATAAT
88094123 GAAACGGAATTAACTTACTATTAAGAGTTGAATAATGAGATATGGAAAGATCTGAAAATGAAATA
1 GAAACGGAATTAACTTACTATTAAGAGTTGAATAATGAGATATGGAAAGATCTGAAAATGAAATA
88094188 AATAAT
66 AATAAT
* *
88094194 GAAACGGAATTAACTTACTATTAAGAGTTGAATAATGAAATATGGAAAGATGTGAAAATGAAATA
1 GAAACGGAATTAACTTACTATTAAGAGTTGAATAATGAGATATGGAAAGATCTGAAAATGAAATA
88094259 AATAAT
66 AATAAT
88094265 ATTTTATTTT
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 140 1.00
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.27
Consensus pattern (71 bp):
GAAACGGAATTAACTTACTATTAAGAGTTGAATAATGAGATATGGAAAGATCTGAAAATGAAATA
AATAAT
Found at i:88097390 original size:18 final size:18
Alignment explanation
Indices: 88097378--88097415 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
88097368 ATTTATATCA
88097378 AACAATAATTTTATTAAT
1 AACAATAATTTTATTAAT
88097396 AACAATAATTTTATTAAT
1 AACAATAATTTTATTAAT
88097414 AA
1 AA
88097416 AATGATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
AACAATAATTTTATTAAT
Found at i:88098794 original size:38 final size:39
Alignment explanation
Indices: 88098746--88098872 Score: 147
Period size: 39 Copynumber: 3.4 Consensus size: 39
88098736 CATAAGCCGA
* *
88098746 CTTTTAAAAAAGGTTGGGATAGACCTTGTGTAATTCAAC
1 CTTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGTCAAC
** **
88098785 CTTTTAAAAAAGGTTGGGATAG-GGTCATCTAAGTCAAC
1 CTTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGTCAAC
*
88098823 C--TT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCAA-
1 CTTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGTCAAC
*
88098858 CATTTAAAAAAGGTT
1 CTTTTAAAAAAGGTT
88098873 TTTTAACACC
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
35 17 0.23
36 12 0.16
37 2 0.03
38 20 0.27
39 22 0.30
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (39 bp):
CTTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGTCAAC
Found at i:88104586 original size:10 final size:10
Alignment explanation
Indices: 88104559--88104606 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
88104549 TTAAATTCTA
*
88104559 AAAGATAAAT
1 AAAGATAATT
88104569 ACAA-ATAATT
1 A-AAGATAATT
88104579 AAAGATAATT
1 AAAGATAATT
88104589 AAAGATAATT
1 AAAGATAATT
88104599 AAAGATAA
1 AAAGATAA
88104607 ATCCTAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAGATAATT
Found at i:88108883 original size:36 final size:36
Alignment explanation
Indices: 88108836--88109416 Score: 491
Period size: 36 Copynumber: 16.3 Consensus size: 36
88108826 TGGCCTATAC
*
88108836 AGGTTAGGATAGACCTTGTCTAAGGCAACCTTAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAA
* *
88108872 AGGTTCGGATAGACCTTGTCTAAGGCATCCTTAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAA
* *
88108908 AGGTTGGGATAAACCTTGTCTAAGGCAACTTTTAAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAAC-CTT-AAAA
* *
88108946 AAGTTGGGATAGACCTTGTCAAAGGCAACCTTAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAA
** * * * *
88108982 AAATTGGGATAAACATTGTCTAAGGAAATCTTTAAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAA-CCTT-AAAA
** *
88109020 AGGTCAGGATAGACC-CGTCTAAGGCAACCTTAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAA
*
88109055 AGGTTGGAATAGACCTTGTCTAAGGCAACCTATAAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCT-T-AAAA
** *
88109093 ATATTGGGATAGACCCAT-T-TAAGG----C---AAA
1 AGGTTGGGATAGA-CCTTGTCTAAGGCAACCTTAAAA
* *
88109121 AGGTTGGGATAGACCTTGTTTAAGGCAACTTTAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAA
* * * **
88109157 ATGTTAGGATAAACCTTGGT-TAAAACAACCTTTAAAA
1 AGGTTGGGATAGACCTT-GTCTAAGGCAACC-TTAAAA
*
88109194 ATGGTTGGGATAGACC-CGTCTAAGGCAACCTTTAAAA
1 A-GGTTGGGATAGACCTTGTCTAAGGCAACC-TTAAAA
**
88109231 ACGGTTGGGATAGACC-CATCTAAGGCAACCTTAAAA
1 A-GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAA
* * *
88109267 AGGTTGGGATAGA-CATGTTTAAGGCAACCCTAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAA
* * * *
88109302 AGTTTGGGGTAGACAC--GTTTAAGGCAACCCTAAAA
1 AGGTTGGGATAGAC-CTTGTCTAAGGCAACCTTAAAA
* * * *
88109337 AGGTTAGGG-TAGACC-CGTCTAAAGAAACCCTAAAA
1 AGGTT-GGGATAGACCTTGTCTAAGGCAACCTTAAAA
* * * *
88109372 AGGTTGGGGTAGA-CATGTCTAAGGAAAACTTAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAA
88109407 A-GTTGGGATA
1 AGGTTGGGATA
88109417 AATCTTATTT
Statistics
Matches: 451, Mismatches: 66, Indels: 58
0.78 0.11 0.10
Matches are distributed among these distances:
27 3 0.01
28 15 0.03
29 5 0.01
33 1 0.00
34 14 0.03
35 125 0.28
36 140 0.31
37 76 0.17
38 69 0.15
39 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (36 bp):
AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAA
Found at i:88108978 original size:74 final size:73
Alignment explanation
Indices: 88108836--88109416 Score: 481
Period size: 74 Copynumber: 8.2 Consensus size: 73
88108826 TGGCCTATAC
* * * *
88108836 AGGTTAGGATAGACCTTGTCTAAGGCAACCTT-AAAAAGGTTCGGATAGACCTTGTCTAAGGCAT
1 AGGTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAA
88108900 CCTTAAAA
66 CCTTAAAA
* * *
88108908 AGGTTGGGATAAACCTTGTCTAAGGCAACTTTTAAAAAAAGTTGGGATAGACCTTGTCAAAGGCA
1 AGGTTGGGATAGACCTTGTCTAAGGCAAC-TTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
88108973 ACCTTAAAA
65 ACCTTAAAA
** * * * ** *
88108982 AAATTGGGATAAACATTGTCTAAGGAAATCTTTAAAAAAGGTCAGGATAGACC-CGTCTAAGGCA
1 AGGTTGGGATAGACCTTGTCTAAGGCAA-CTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
88109046 ACCTTAAAA
65 ACCTTAAAA
* * ** *
88109055 AGGTTGGAATAGACCTTGTCTAAGGCAACCTATAAAAAATATTGGGATAGACCCAT-T-TAAGG-
1 AGGTTGGGATAGACCTTGTCTAAGGCAA-CTTTAAAAAAGGTTGGGATAGA-CCTTGTCTAAGGC
88109117 ---C---AAA
64 AACCTTAAAA
* * * * **
88109121 AGGTTGGGATAGACCTTGTTTAAGGCAACTTT-AAAAATGTTAGGATAAACCTTGGT-TAAAACA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATAGACCTT-GTCTAAGGCA
88109184 ACCTTTAAAA
65 ACC-TTAAAA
* * **
88109194 ATGGTTGGGATAGACC-CGTCTAAGGCAACCTTTAAAAACGGTTGGGATAGACC-CATCTAAGGC
1 A-GGTTGGGATAGACCTTGTCTAAGGCAA-CTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGC
88109257 AACCTTAAAA
64 AACCTTAAAA
* * ** * * *
88109267 AGGTTGGGATAGA-CATGTTTAAGGCAACCCT-AAAAAGTTTGGGGTAGACAC--GTTTAAGGCA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATAGAC-CTTGTCTAAGGCA
*
88109328 ACCCTAAAA
65 ACCTTAAAA
* * * ** * * *
88109337 AGGTTAGGG-TAGACC-CGTCTAAAGAAACCCT-AAAAAGGTTGGGGTAGA-CATGTCTAAGGAA
1 AGGTT-GGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
*
88109398 AACTTAAAA
65 ACCTTAAAA
88109407 A-GTTGGGATA
1 AGGTTGGGATA
88109417 AATCTTATTT
Statistics
Matches: 416, Mismatches: 67, Indels: 55
0.77 0.12 0.10
Matches are distributed among these distances:
63 3 0.01
64 14 0.03
65 7 0.02
66 29 0.07
68 4 0.01
69 7 0.02
70 84 0.20
71 8 0.02
72 49 0.12
73 86 0.21
74 109 0.26
75 16 0.04
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (73 bp):
AGGTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAA
CCTTAAAA
Found at i:88108980 original size:37 final size:37
Alignment explanation
Indices: 88108836--88109416 Score: 450
Period size: 35 Copynumber: 16.3 Consensus size: 37
88108826 TGGCCTATAC
*
88108836 AGGTTAGGATAGACCTTGTCTAAGGCAACCTT-AAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
* *
88108872 AGGTTCGGATAGACCTTGTCTAAGGCATCCTT-AAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
* *
88108908 AGGTTGGGATAAACCTTGTCTAAGGCAACTTTTAAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAAC-CTTAAAAA
* *
88108946 AAGTTGGGATAGACCTTGTCAAAGGCAACCTTAAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
* * * * *
88108983 A-ATTGGGATAAACATTGTCTAAGGAAATCTTTAAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAA-CCTTAAAAA
** *
88109020 AGGTCAGGATAGACC-CGTCTAAGGCAACCTT-AAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
*
88109055 AGGTTGGAATAGACCTTGTCTAAGGCAACCTATAAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCT-TAAAAA
** *
88109093 ATATTGGGATAGACCCAT-T-TAAGG----C----AAA
1 AGGTTGGGATAGA-CCTTGTCTAAGGCAACCTTAAAAA
* *
88109121 AGGTTGGGATAGACCTTGTTTAAGGCAA-CTTTAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
* * * **
88109157 ATGTTAGGATAAACCTTGGT-TAAAACAACCTTTAAAAA
1 AGGTTGGGATAGACCTT-GTCTAAGGCAACC-TTAAAAA
* *
88109195 TGGTTGGGATAGACC-CGTCTAAGGCAACCTTTAAAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACC-TTAAAAA
* **
88109232 CGGTTGGGATAGACC-CATCTAAGGCAACCTT-AAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
* * *
88109267 AGGTTGGGATAGA-CATGTTTAAGGCAACCCT-AAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
* * * *
88109302 AGTTTGGGGTAGACAC--GTTTAAGGCAACCCT-AAAA
1 AGGTTGGGATAGAC-CTTGTCTAAGGCAACCTTAAAAA
* * * *
88109337 AGGTTAGGG-TAGACC-CGTCTAAAGAAACCCT-AAAA
1 AGGTT-GGGATAGACCTTGTCTAAGGCAACCTTAAAAA
* * * *
88109372 AGGTTGGGGTAGA-CATGTCTAAGGAAAACTT-AAAA
1 AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
88109407 A-GTTGGGATA
1 AGGTTGGGATA
88109417 AATCTTATTT
Statistics
Matches: 451, Mismatches: 66, Indels: 58
0.78 0.11 0.10
Matches are distributed among these distances:
27 3 0.01
28 15 0.03
29 5 0.01
32 1 0.00
33 1 0.00
34 14 0.03
35 129 0.29
36 128 0.28
37 82 0.18
38 70 0.16
39 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (37 bp):
AGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
Found at i:88109186 original size:102 final size:101
Alignment explanation
Indices: 88109017--88109221 Score: 236
Period size: 102 Copynumber: 2.0 Consensus size: 101
88109007 AAATCTTTAA
* **
88109017 AAAAGGTCAGGATAGACCCGTCTAAGGCAACCTTAAAAAGGTTGGAATAGACCTTGTCTAAGGCA
1 AAAAGGTCAGGATAGACCCGTCTAAGGCAACCTTAAAAAGGTTGGAATAAACCTTGTCTAAAACA
*
88109082 ACCTATAAAAAAT-ATTGGGATAGACCCATTTAAGGC
66 ACCT-TAAAAAATGATTGGGATAGACCCATCTAAGGC
** * * * *
88109118 AAAAGGTTGGGATAGACCTTGTTTAAGGCAACTTTAAAAATGTTAGG-ATAAACCTTGGT-TAAA
1 AAAAGGTCAGGATAGACC-CGTCTAAGGCAACCTTAAAAAGGTT-GGAATAAACCTT-GTCTAAA
* * *
88109181 ACAACCTTTAAAAATGGTTGGGATAGACCCGTCTAAGGC
63 ACAACCTTAAAAAATGATTGGGATAGACCCATCTAAGGC
88109220 AA
1 AA
88109222 CCTTTAAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
101 23 0.26
102 60 0.69
103 4 0.05
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (101 bp):
AAAAGGTCAGGATAGACCCGTCTAAGGCAACCTTAAAAAGGTTGGAATAAACCTTGTCTAAAACA
ACCTTAAAAAATGATTGGGATAGACCCATCTAAGGC
Found at i:88110671 original size:12 final size:13
Alignment explanation
Indices: 88110643--88110671 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
88110633 GAAAAAAAGT
88110643 AAAACTGATGTCA
1 AAAACTGATGTCA
88110656 AAAACTGATGTCA
1 AAAACTGATGTCA
88110669 AAA
1 AAA
88110672 TAAATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAACTGATGTCA
Found at i:88112197 original size:140 final size:140
Alignment explanation
Indices: 88111641--88112197 Score: 765
Period size: 140 Copynumber: 4.0 Consensus size: 140
88111631 GCCTTAGGCG
* * * * *
88111641 TAGTGTTGGACAAAGCCAAATCTTATTTAAGTATTGCCATAGGCATGCATATCTCAAACCTTATA
1 TAGTGTTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATA
* ** * *
88111706 CCAAGAGTTTACCAAAGCATATGTCGTCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAA
66 CAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGAAAAGTGTCAGCCCAAA
* *
88111771 AGTATTGGCA
131 AGTGTCGGCA
* * * *
88111781 TAGTGTTGGACAAAGCCGACTTTTATTTAAGCGTTGCTTTAGGCATGCATATCCCAACCCTTATA
1 TAGTGTTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATA
* * *
88111846 CAAAGAGTTGGCCAAAGCGTATTTCGGCAAGTATATCCCAACACTTA-AGAAAGTGTCAGCCCAA
66 CAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGA-AAAGTGTCAGCCCAA
*
88111910 AAGTGTAGGCA
130 AAGTGTCGGCA
* *
88111921 TAGTATTGGACAAAGCCGACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATA
1 TAGTGTTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATA
* * * * **
88111986 CAAGGAGTTGGCCAAAGCATATGTCAGCAAGCCTATCCCAACACTTAGGAAAGTGTTGGCCCAAA
66 CAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGAAAAGTGTCAGCCCAAA
*
88112051 AGTGTCGACA
131 AGTGTCGGCA
* * *
88112061 TAGTGTTGGGCAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAACCCTTATA
1 TAGTGTTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATA
* * * *
88112126 CAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCTAACACTTAGAAAAGTGTCGGCCCAAA
66 CAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGAAAAGTGTCAGCCCAAA
*
88112191 AATGTCG
131 AGTGTCG
88112198 TCTTAGAACT
Statistics
Matches: 367, Mismatches: 48, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
140 367 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (140 bp):
TAGTGTTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATA
CAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGAAAAGTGTCAGCCCAAA
AGTGTCGGCA
Found at i:88118628 original size:65 final size:67
Alignment explanation
Indices: 88118548--88118701 Score: 188
Period size: 68 Copynumber: 2.3 Consensus size: 67
88118538 CTTAAAATTA
* * *
88118548 AGCTGTTCGAATGTGTTAGATTCACTATTCAAAGCA-T-CATTTATGCTGTTTTATTTGGTAAAT
1 AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTACATATATGCTGTTTTATTTAGTAAAT
88118611 GT
66 GT
* * * * *
88118613 AGCTGTCCGAATGTGTTAAATTCATTGTTCGATGCACTACCATATATGCTGTTTTATTTAGTAAA
1 AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTA-CATATATGCTGTTTTATTTAGTAAA
88118678 TGT
65 TGT
* *
88118681 AGCTGTCCAAATCTGTT-GATT
1 AGCTGTCCGAATGTGTTAGATT
88118702 TCACAGTTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
65 30 0.40
66 1 0.01
67 3 0.04
68 41 0.55
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (67 bp):
AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTACATATATGCTGTTTTATTTAGTAAAT
GT
Found at i:88120744 original size:43 final size:43
Alignment explanation
Indices: 88120696--88120812 Score: 198
Period size: 43 Copynumber: 2.7 Consensus size: 43
88120686 GCATGAAACT
*
88120696 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
88120739 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
88120782 CAGTGATGTGTATTCGGGTCTTCGTGCCTAG
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAG
88120813 GATAATGCCG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.10, C:0.22, G:0.34, T:0.33
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:88121015 original size:54 final size:56
Alignment explanation
Indices: 88120957--88121145 Score: 206
Period size: 58 Copynumber: 3.4 Consensus size: 56
88120947 GAATGAATAT
* *
88120957 GAGCATTATGTGTGCGA-AT-G-ATTAGAGGTACTGTGTGTGCAAATTCCTTTAACC
1 GAGCACTATGTGTGCGAGATAGAATT-GAGGCACTGTGTGTGCAAATTCCTTTAACC
* *
88121011 GAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGCGAATTCTTTTAACC
1 GAGCACTATGTGTGCGAGAT-AG-AATTGAGGCACTGTGTGTGCAAATTCCTTTAACC
* * * *
88121069 GAGCACTATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAGTT-CTTCAACC
1 GAGCACTATGTGTGCGAGAT-AG-AATTGAGGCACTGTGTGTGCAAATTCCTTTAACC
* * *
88121126 GAGCGCTATGTATGGGAGAT
1 GAGCACTATGTGTGCGAGAT
88121146 CGGCAAGTGG
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
54 16 0.13
55 2 0.02
57 24 0.20
58 74 0.62
59 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (56 bp):
GAGCACTATGTGTGCGAGATAGAATTGAGGCACTGTGTGTGCAAATTCCTTTAACC
Found at i:88121045 original size:29 final size:29
Alignment explanation
Indices: 88121013--88121115 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
88121003 CTTTAACCGA
88121013 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
* ** **
88121042 GCACTGTGTGTGCGA-ATTCTTTTAACCGA-
1 GCACTATGTGTGCGAGA-TC-AGTAATTGAG
*
88121071 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
*
88121100 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
88121116 TTCTTCAACC
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 6 0.10
29 47 0.80
30 6 0.10
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATTGAG
Done.