Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 71 of 106
Found at i:27100572 original size:35 final size:35
Alignment explanation
Indices: 27100524--27100656 Score: 142
Period size: 35 Copynumber: 3.8 Consensus size: 35
27100514 CCCACATCGA
* *
27100524 GCACACTAT-AATATCATCATGTGCACTCCCTGCTC
1 GCACACT-TCAATATCATCATATGCACTCCCTACTC
* * * *
27100559 ACACATTTCAATATTATCGTATGCACTCCCTACTC
1 GCACACTTCAATATCATCATATGCACTCCCTACTC
* ** * *
27100594 GCACACTCCAATATCATTGTGTGCACACCCTACTC
1 GCACACTTCAATATCATCATATGCACTCCCTACTC
*
27100629 GCACACTTCAATATCATCACATGCACTC
1 GCACACTTCAATATCATCATATGCACTC
27100657 TCGCCCACAT
Statistics
Matches: 78, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
34 1 0.01
35 77 0.99
ACGTcount: A:0.28, C:0.35, G:0.09, T:0.29
Consensus pattern (35 bp):
GCACACTTCAATATCATCATATGCACTCCCTACTC
Found at i:27100607 original size:70 final size:70
Alignment explanation
Indices: 27100524--27100656 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 70
27100514 CCCACATCGA
* * * * * **
27100524 GCACACTATAATATCATCATGTGCACTCCCTGCTCACACATTTCAATATTATCGTATGCACTCCC
1 GCACACTACAATATCATCATGTGCACACCCTACTCACACACTTCAATATCATCACATGCACTCCC
27100589 TACTC
66 TACTC
* ** *
27100594 GCACACTCCAATATCATTGTGTGCACACCCTACTCGCACACTTCAATATCATCACATGCACTC
1 GCACACTACAATATCATCATGTGCACACCCTACTCACACACTTCAATATCATCACATGCACTC
27100657 TCGCCCACAT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
70 52 1.00
ACGTcount: A:0.28, C:0.35, G:0.09, T:0.29
Consensus pattern (70 bp):
GCACACTACAATATCATCATGTGCACACCCTACTCACACACTTCAATATCATCACATGCACTCCC
TACTC
Found at i:27100729 original size:103 final size:103
Alignment explanation
Indices: 27100593--27100797 Score: 275
Period size: 103 Copynumber: 2.0 Consensus size: 103
27100583 ACTCCCTACT
* ** * *
27100593 CGCACACTCCAATATCATTGTGTGCACACCCTACTCGCACACTTCAATATCATCACATGCACTCT
1 CGCACACTACAATATCATCATGTGCACACCCTACTAGCACACTTCAATATCATCACATGCACTCC
* *
27100658 CGCCCACATCATTGCCGGCATGTGCATCCCCCACATCG
66 CGCCCACATCATTACCGGCATGTGCATACCCCACATCG
* ** ** *
27100696 CGCACACTATAATATCATCATGTGCACTTCCTACTAGTGCATTTCAATATCATCACATGCACTCC
1 CGCACACTACAATATCATCATGTGCACACCCTACTAGCACACTTCAATATCATCACATGCACTCC
* *
27100761 CTCCCACATCATTACCGGCATGTGCATACCCTACATC
66 CGCCCACATCATTACCGGCATGTGCATACCCCACATC
27100798 ATGCACACGC
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
103 87 1.00
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.26
Consensus pattern (103 bp):
CGCACACTACAATATCATCATGTGCACACCCTACTAGCACACTTCAATATCATCACATGCACTCC
CGCCCACATCATTACCGGCATGTGCATACCCCACATCG
Found at i:27102900 original size:37 final size:37
Alignment explanation
Indices: 27102858--27103002 Score: 204
Period size: 37 Copynumber: 3.9 Consensus size: 37
27102848 TAATGATGTG
27102858 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* *
27102895 TGATGATGTTGAAGTGTGTGAGTAAGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* *
27102932 TGATGATGTTAAAGTGTGCGAGTAGGGACTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* * *
27102969 -GATGATGATAGAA-TGTGTGAGTATGGAGTGCACA
1 TGATGATG-TTGAAGTGTGCGAGTAGGGAGTGCACA
27103003 TGACGATGAA
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
36 25 0.26
37 71 0.74
ACGTcount: A:0.30, C:0.10, G:0.35, T:0.26
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:27108041 original size:22 final size:21
Alignment explanation
Indices: 27108007--27108057 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
27107997 GGAAAGAGCT
*
27108007 TTTGGATTATATTAATGCCAA
1 TTTGGGTTATATTAATGCCAA
27108028 TTTGGGTTNATATTAATGCCAA
1 TTTGGGTT-ATATTAATGCCAA
*
27108050 TTTAGGTT
1 TTTGGGTT
27108058 GGTTGTGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.45
Consensus pattern (21 bp):
TTTGGGTTATATTAATGCCAA
Found at i:27108448 original size:37 final size:37
Alignment explanation
Indices: 27108398--27108546 Score: 255
Period size: 37 Copynumber: 4.0 Consensus size: 37
27108388 GTTGTGTGAG
* *
27108398 GATGTTGAAGTGTGTGAGTACGGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
27108435 GATGTT-AGAGTGTGCGAGTAGGGAGTGCACACATGAT
1 GATGTTGA-AGTGTGCGAGTAGGGAGTGCACACATGAT
*
27108472 GATGTTAAAGTGTGCGAGTAGGGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
27108509 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
27108546 G
1 G
27108547 TTGAATGCAT
Statistics
Matches: 107, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
36 1 0.01
37 105 0.98
38 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.37, T:0.25
Consensus pattern (37 bp):
GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
Found at i:27110538 original size:39 final size:39
Alignment explanation
Indices: 27110439--27110542 Score: 120
Period size: 39 Copynumber: 2.7 Consensus size: 39
27110429 TAGAAGACCA
* ** * *
27110439 AAACAGAAAGTTTTTCGCTATAGCAAAATTATGACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAAATTATAACCCAG
* *
27110478 AAACA-AATTGTTTCTCGCTGCAGCGAAATTGTAACCCAG
1 AAACAGAA-AGTTTCTCGCTGCAGCGAAATTATAACCCAG
*
27110517 AAACAGAAAGTTTCTCACTGCAGCGA
1 AAACAGAAAGTTTCTCGCTGCAGCGA
27110543 GAATCAGAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 2 0.04
39 50 0.93
40 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (39 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAAATTATAACCCAG
Found at i:27110802 original size:41 final size:41
Alignment explanation
Indices: 27110751--27110871 Score: 170
Period size: 42 Copynumber: 2.9 Consensus size: 41
27110741 CATCTCATAT
* *
27110751 GCAACGGCTTATGCGCACTCCCATTCGCACATAGCCGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGTCA
* **
27110792 GCAATGGCTTATGTGCACTCCCACTCGCACATAGTCAAGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAG-CCGGTCA
* *
27110834 GCAACAGCTTATGTGCACTCCTACTCGCACATAGCCGG
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGG
27110872 GTCCACATCA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
41 33 0.48
42 36 0.52
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (41 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGTCA
Found at i:27117204 original size:12 final size:12
Alignment explanation
Indices: 27117187--27117211 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27117177 ACAGCCATAT
27117187 TGTATTGATACA
1 TGTATTGATACA
27117199 TGTATTGATACA
1 TGTATTGATACA
27117211 T
1 T
27117212 TGCAGCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TGTATTGATACA
Found at i:27120091 original size:22 final size:20
Alignment explanation
Indices: 27120061--27120115 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
27120051 TTCAATGATA
27120061 TATCGATACATGTT-CTTGCATG
1 TATCGATACAT-TTGC-T-CATG
*
27120083 TATCAATACATTTGCTCATG
1 TATCGATACATTTGCTCATG
27120103 TATCGATACATTT
1 TATCGATACATTT
27120116 ATCACAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 16 0.53
21 3 0.10
22 11 0.37
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTGCTCATG
Found at i:27120163 original size:111 final size:110
Alignment explanation
Indices: 27119969--27120204 Score: 280
Period size: 111 Copynumber: 2.1 Consensus size: 110
27119959 AAAACACAAG
* * * * *
27119969 ATGTATCGATACATTTGCCCGTGTATCGATACATTCATTATAGATTTTTACTTTTGGATATTAGA
1 ATGTATCGATACATTTGCCCATGTATCGATACATTCATCAAAGATTTTTAATTTTGGATACTAGA
*
27120034 GGAAATTTATCGATAGA-TTCAATGATATATCGATACATGTTCTTGC
66 -GAAATTTATCGATAGATTTCAA-GATATATCGATACATGTTCTTGA
* * * *
27120080 ATGTATCAATACATTTGCTCATGTATCGATACATTTATCACAAGA-TTTTAATTTTGGCTACTAG
1 ATGTATCGATACATTTGCCCATGTATCGATACATTCATCA-AAGATTTTTAATTTTGGATACTAG
* ** *
27120144 A-AAGATTGTATTGATAGATTTTGAGATCTATCGATACATGTTCTTGA
65 AGAA-ATT-TATCGATAGATTTCAAGATATATCGATACATGTTCTTGA
27120191 ATGTATCGATACAT
1 ATGTATCGATACAT
27120205 GAAGGAAAGT
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
109 2 0.02
110 3 0.03
111 95 0.90
112 6 0.06
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (110 bp):
ATGTATCGATACATTTGCCCATGTATCGATACATTCATCAAAGATTTTTAATTTTGGATACTAGA
GAAATTTATCGATAGATTTCAAGATATATCGATACATGTTCTTGA
Found at i:27128436 original size:14 final size:14
Alignment explanation
Indices: 27128417--27128449 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
27128407 CATTTTGTTG
27128417 CATTTATATCGTTA
1 CATTTATATCGTTA
27128431 CATTTATATCGTTA
1 CATTTATATCGTTA
27128445 CATTT
1 CATTT
27128450 TGAGAATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (14 bp):
CATTTATATCGTTA
Found at i:27129102 original size:20 final size:21
Alignment explanation
Indices: 27129057--27129116 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 21
27129047 AGATGTCTAA
*
27129057 AATAATTATTTGAAATGAAAT
1 AATAATTATTTGAAATAAAAT
* *
27129078 TATAATTGTTTG-AATAAAAT
1 AATAATTATTTGAAATAAAAT
27129098 AATAA-TA-TT-AAATAAAAT
1 AATAATTATTTGAAATAAAAT
27129116 A
1 A
27129117 TTCTATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 11 0.33
19 1 0.03
20 11 0.33
21 10 0.30
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
AATAATTATTTGAAATAAAAT
Found at i:27136223 original size:29 final size:29
Alignment explanation
Indices: 27136077--27136279 Score: 266
Period size: 29 Copynumber: 7.0 Consensus size: 29
27136067 TTTTAGACAA
*
27136077 TTCTTGTCTTTAATTAAGACAAAACATGTT
1 TTCTTGTC-TAAATTAAGACAAAACATGTT
* * * *
27136107 ATCCTGTATAAATTAAGAC-AAATATGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
* *
27136135 TTCTTGTCTAGATTAAGACAAAACATATAT
1 TTCTTGTCTAAATTAAGACAAAACATGT-T
*
27136165 TTCTTGTCATAAATTAAGAC-AAGCATGTT
1 TTCTTGTC-TAAATTAAGACAAAACATGTT
* *
27136194 TTCTTGTCTAAATTAAGACAAAATAAGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
27136223 TTCTTGTCTAAATTAAGACAAAACATGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
*
27136252 TTCTCGTCTAAATTAAGACAAAACATGT
1 TTCTTGTCTAAATTAAGACAAAACATGT
27136280 AAAATTTGTC
Statistics
Matches: 149, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
28 34 0.23
29 85 0.57
30 20 0.13
31 10 0.07
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.37
Consensus pattern (29 bp):
TTCTTGTCTAAATTAAGACAAAACATGTT
Found at i:27136289 original size:88 final size:88
Alignment explanation
Indices: 27136088--27136279 Score: 282
Period size: 88 Copynumber: 2.2 Consensus size: 88
27136078 TCTTGTCTTT
* * * *
27136088 AATTAAGACAAAACATGTTATCCTGTATAAATTAAGACAAATATGTTTTCTTGTCTAGATTAAGA
1 AATTAAGACAAAACATGTTATCTTGTCTAAATTAAGACAAATAAGTTTTCTTGTCTAAATTAAGA
*
27136153 CAAAACATATATTTCTTGTCATA
66 CAAAACATATATTTCTCGTCATA
* *
27136176 AATTAAGAC-AAGCATGTTTTCTTGTCTAAATTAAGACAAAATAAGTTTTCTTGTCTAAATTAAG
1 AATTAAGACAAAACATGTTATCTTGTCTAAATTAAGAC-AAATAAGTTTTCTTGTCTAAATTAAG
*
27136240 ACAAAACATGT-TTTCTCGTC-TA
65 ACAAAACATATATTTCTCGTCATA
27136262 AATTAAGACAAAACATGT
1 AATTAAGACAAAACATGT
27136280 AAAATTTGTC
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
86 11 0.12
87 39 0.42
88 43 0.46
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (88 bp):
AATTAAGACAAAACATGTTATCTTGTCTAAATTAAGACAAATAAGTTTTCTTGTCTAAATTAAGA
CAAAACATATATTTCTCGTCATA
Found at i:27141341 original size:20 final size:20
Alignment explanation
Indices: 27141316--27141361 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
27141306 CTTCTAAACC
27141316 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
**
27141336 TCAAATTTTACTCCAATAAG
1 TCAAATCATACTCCAATAAG
27141356 TCAAAT
1 TCAAAT
27141362 GGGATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:27142360 original size:2 final size:2
Alignment explanation
Indices: 27142353--27142397 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
27142343 TGAATTGTGT
*
27142353 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27142395 AG A
1 AG A
27142398 TTTTATGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27142706 original size:2 final size:2
Alignment explanation
Indices: 27142701--27142731 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27142691 TATAATGTTG
27142701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27142732 CTATGTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27145462 original size:22 final size:24
Alignment explanation
Indices: 27145427--27145473 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
27145417 CAAACCCTAG
27145427 GTGAAGAATTTCAAGAGAAA-AAGT
1 GTGAAGAATTTCAAG-GAAACAAGT
27145451 GTGAA-AA-TTCAAGGAAACAAGT
1 GTGAAGAATTTCAAGGAAACAAGT
27145473 G
1 G
27145474 ACAAAAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 11 0.50
23 2 0.09
24 5 0.23
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.19
Consensus pattern (24 bp):
GTGAAGAATTTCAAGGAAACAAGT
Found at i:27145479 original size:22 final size:22
Alignment explanation
Indices: 27145436--27145479 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27145426 GGTGAAGAAT
**
27145436 TTCAAGAGAAAAAGTGTGAAAA
1 TTCAAGAGAAAAAGTGACAAAA
27145458 TTCAAG-GAAACAAGTGACAAAA
1 TTCAAGAGAAA-AAGTGACAAAA
27145480 GGTAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.09, G:0.20, T:0.16
Consensus pattern (22 bp):
TTCAAGAGAAAAAGTGACAAAA
Found at i:27153462 original size:22 final size:24
Alignment explanation
Indices: 27153427--27153473 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
27153417 CAAACCCTAG
27153427 GTGAAGAATTTCAAGAGAAA-AAGT
1 GTGAAGAATTTCAAG-GAAACAAGT
27153451 GTGAA-AA-TTCAAGGAAACAAGT
1 GTGAAGAATTTCAAGGAAACAAGT
27153473 G
1 G
27153474 ACAAAAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 11 0.50
23 2 0.09
24 5 0.23
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.19
Consensus pattern (24 bp):
GTGAAGAATTTCAAGGAAACAAGT
Found at i:27153479 original size:22 final size:22
Alignment explanation
Indices: 27153436--27153479 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27153426 GGTGAAGAAT
**
27153436 TTCAAGAGAAAAAGTGTGAAAA
1 TTCAAGAGAAAAAGTGACAAAA
27153458 TTCAAG-GAAACAAGTGACAAAA
1 TTCAAGAGAAA-AAGTGACAAAA
27153480 GGTAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.09, G:0.20, T:0.16
Consensus pattern (22 bp):
TTCAAGAGAAAAAGTGACAAAA
Found at i:27173477 original size:52 final size:52
Alignment explanation
Indices: 27173390--27173540 Score: 169
Period size: 52 Copynumber: 2.9 Consensus size: 52
27173380 AGGAATTTCA
* * * *
27173390 AATCCACTGAAAGGATTCTTGCTTTTTACTAGGATCAA-TCGATAGCCCTTACAC
1 AATCCAC-AAAAGGATTCTTGC-TTTTAATGGGATCAAGT-GATAACCCTTACAC
* ** *
27173444 AATCCATAAAAGTTTTCTTTCTTTTAATGGGATCAAGTGATAACCCTTACAC
1 AATCCACAAAAGGATTCTTGCTTTTAATGGGATCAAGTGATAACCCTTACAC
** *
27173496 AATCCACAAAAGGATTCTTGCTTTTAGCGAGATCAAGTGATAACC
1 AATCCACAAAAGGATTCTTGCTTTTAATGGGATCAAGTGATAACC
27173541 TTTGCATTGA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
52 64 0.79
53 11 0.14
54 6 0.07
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (52 bp):
AATCCACAAAAGGATTCTTGCTTTTAATGGGATCAAGTGATAACCCTTACAC
Found at i:27175207 original size:21 final size:21
Alignment explanation
Indices: 27175183--27175238 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
27175173 TCAACTTTTT
27175183 CTTCATTTTCATCTT-TATCAC
1 CTTCATTTTCATCTTCT-TCAC
* *
27175204 CTTCCA-TGTCATCTTCTTCAT
1 CTT-CATTTTCATCTTCTTCAC
*
27175225 CTTCATCTTCATCT
1 CTTCATTTTCATCT
27175239 CCTTGCATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 23 0.82
22 3 0.11
ACGTcount: A:0.16, C:0.32, G:0.02, T:0.50
Consensus pattern (21 bp):
CTTCATTTTCATCTTCTTCAC
Found at i:27175230 original size:36 final size:36
Alignment explanation
Indices: 27175181--27175261 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
27175171 CCTCAACTTT
* *
27175181 TTCTTCATTTTCATCTTTATCACCTTCCATGTCATC
1 TTCTTCATCTTCATCTTCATCACCTTCCATGTCATC
* *
27175217 TTCTTCATCTTCATCTTCATCTCCTTGCATGTCATC
1 TTCTTCATCTTCATCTTCATCACCTTCCATGTCATC
*
27175253 TGCTTCATC
1 TTCTTCATC
27175262 CTCAATCAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.15, C:0.32, G:0.05, T:0.48
Consensus pattern (36 bp):
TTCTTCATCTTCATCTTCATCACCTTCCATGTCATC
Found at i:27178187 original size:25 final size:25
Alignment explanation
Indices: 27178153--27178207 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
27178143 AAAAAAATAG
*
27178153 TGATTTGTGTTATTGTTTGTATTGT
1 TGATTTGTGTTATTGTTTATATTGT
*
27178178 TGATTTGTGTTATTGTTTATGTTGT
1 TGATTTGTGTTATTGTTTATATTGT
27178203 TGATT
1 TGATT
27178208 AATTTGTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.13, C:0.00, G:0.24, T:0.64
Consensus pattern (25 bp):
TGATTTGTGTTATTGTTTATATTGT
Found at i:27178398 original size:20 final size:20
Alignment explanation
Indices: 27178373--27178414 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
27178363 TTCATACAAA
*
27178373 TATATTTGAAAATTTTTATT
1 TATATTTGAAAATTTTCATT
**
27178393 TATATTTGTCAATTTTCATT
1 TATATTTGAAAATTTTCATT
27178413 TA
1 TA
27178415 CAAATATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (20 bp):
TATATTTGAAAATTTTCATT
Found at i:27182924 original size:60 final size:60
Alignment explanation
Indices: 27182817--27183051 Score: 289
Period size: 60 Copynumber: 4.0 Consensus size: 60
27182807 ATTTGATTTT
* * * * * *
27182817 AAAGGGGGACCTAAAGCCCTGATTCATA--TGGTGGCGTGGGCAGTTCCCACAAGTAGGC
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGC
* *
27182875 AAAGGGGGACCTGAAGCTCTGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGC
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGC
* * * * *
27182935 AAACGGGGACCTGAAGCTCCAATTTATATTTGGTGACGTGGGTAGCTCCCACGAGTAGGT
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGC
* ** *
27182995 AAAGGGGGACCTGAAGCCCCGATTTATA--TGGTGGCGTGGACAGTTCCCATGAGTAGG
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGG
27183052 TGATGATGTC
Statistics
Matches: 156, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
58 49 0.31
60 107 0.69
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.23
Consensus pattern (60 bp):
AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGC
Found at i:27189232 original size:21 final size:20
Alignment explanation
Indices: 27189206--27189306 Score: 78
Period size: 21 Copynumber: 4.5 Consensus size: 20
27189196 AAGGAGAGAG
27189206 GAGAAAGAGAAGAAGAAAGAA
1 GAGAAAGAGAAGAAGAAA-AA
27189227 GAGAAAGAGCACGGTAGAGTAGAAAAA
1 GAGAAAGAG-A----AGA--AGAAAAA
27189254 G-GAAAGAGAAACTGAAGAAAAA
1 GAGAAAGAG-AA--GAAGAAAAA
*
27189276 GAGAAATAGAAGAAGAAAAGA
1 GAGAAAGAGAAGAAGAAAA-A
27189297 GAGAAAGAGA
1 GAGAAAGAGA
27189307 GCACGGTAGA
Statistics
Matches: 66, Mismatches: 3, Indels: 22
0.73 0.03 0.24
Matches are distributed among these distances:
20 8 0.12
21 19 0.29
22 12 0.18
23 6 0.09
24 2 0.03
26 11 0.17
27 3 0.05
28 5 0.08
ACGTcount: A:0.61, C:0.03, G:0.32, T:0.04
Consensus pattern (20 bp):
GAGAAAGAGAAGAAGAAAAA
Found at i:27189480 original size:55 final size:54
Alignment explanation
Indices: 27189390--27189520 Score: 154
Period size: 55 Copynumber: 2.3 Consensus size: 54
27189380 GAAAGAGAAG
* ** * *
27189390 GAAGAAAGAATAGAAAGAAAAAGAAAGAGAAGGAGAGAGGGAGCACGGCGATGAGGGA
1 GAAGAAA-AA-AGAAA-AAAAA-AAAGAAAAGGAGAGAGAAAGCACGGCAACGAGGGA
*
27189448 GAAGAAAAAAGAGAAAAAAAAAAGAAAAGGAGAGAGAAAGCACGGCAACGAGGGG
1 GAAGAAAAAAGA-AAAAAAAAAAGAAAAGGAGAGAGAAAGCACGGCAACGAGGGA
*
27189503 GAAGAAAGAAGAAAAAAA
1 GAAGAAAAAAGAAAAAAA
27189521 TAATAATGAG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
54 6 0.09
55 40 0.62
56 8 0.12
57 4 0.06
58 7 0.11
ACGTcount: A:0.59, C:0.05, G:0.34, T:0.02
Consensus pattern (54 bp):
GAAGAAAAAAGAAAAAAAAAAAGAAAAGGAGAGAGAAAGCACGGCAACGAGGGA
Found at i:27190200 original size:60 final size:60
Alignment explanation
Indices: 27190085--27190350 Score: 367
Period size: 60 Copynumber: 4.5 Consensus size: 60
27190075 ATTTGATTTT
** * * * *
27190085 AAAGGGGGACCTGAAGCCCTAATTCATA--TGGTGGCATGGGCAGTTCCCACGAGTAGGC
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGC
* *
27190143 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGATGTGGGTAGTTCCCACAAGTAGGC
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGC
* * *
27190203 AAAGGGGGACCTGAAGCCTCGATTTATATTTGGTGATGTGGGTAGTTCCCACGTGTAGGC
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGC
** *
27190263 AAAAAGGGACTTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGG-
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGC
* *
27190322 TAAGAGGGACCTGAAGCCCCGATTTATAT
1 AAAGGGGGACCTGAAGCCCCGATTTATAT
27190351 AGTGACGTGA
Statistics
Matches: 186, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
58 25 0.13
59 26 0.14
60 135 0.73
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (60 bp):
AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGC
Found at i:27194657 original size:61 final size:60
Alignment explanation
Indices: 27194502--27194684 Score: 253
Period size: 60 Copynumber: 3.0 Consensus size: 60
27194492 AGACATCATC
* *
27194502 ACCTACTCATGGGAACTGCCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCC-TTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCA-ATATAAATCGGGGCTTCAAGTCCCCCTTTT
* * *
27194562 ACCTACTCGTGGGATCTGCCTACGCCATCCAATATAAATTGGGGCTTCAAGTCCCCCTTTT
1 ACCTACTCGTGGGAACTGCCCACGCCA-CCAATATAAATCGGGGCTTCAAGTCCCCCTTTT
* * *
27194623 ACCTACTTGTTGGAACTGCCCACGCCACCTAATATAAATCAGGGCTTCAAGT-CCCCTTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACC-AATATAAATCGGGGCTTCAAGTCCCCCTTTT
27194683 AC
1 AC
27194685 AATCAAATAT
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
60 60 0.55
61 49 0.45
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTGCCCACGCCACCAATATAAATCGGGGCTTCAAGTCCCCCTTTT
Found at i:27195429 original size:18 final size:17
Alignment explanation
Indices: 27195406--27195442 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
27195396 GTGCTCCCTC
27195406 TCTCTTTCTTCTTCTCTT
1 TCTCTTTCTTCTTCT-TT
*
27195424 TCTCTTTCTTTTTCTTT
1 TCTCTTTCTTCTTCTTT
27195441 TC
1 TC
27195443 CCCTAGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
TCTCTTTCTTCTTCTTT
Found at i:27195516 original size:12 final size:12
Alignment explanation
Indices: 27195494--27195544 Score: 75
Period size: 12 Copynumber: 4.1 Consensus size: 12
27195484 TCCCTCACTC
27195494 TCTTCCTTCTCTT
1 TCTT-CTTCTCTT
27195507 TCTTCTTCTCTT
1 TCTTCTTCTCTT
27195519 TCTTCTTCTCTT
1 TCTTCTTCTCTT
*
27195531 TCTTTCTTATCTT
1 TC-TTCTTCTCTT
27195544 T
1 T
27195545 TCTCCTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 22 0.61
13 14 0.39
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (12 bp):
TCTTCTTCTCTT
Found at i:27195537 original size:25 final size:25
Alignment explanation
Indices: 27195494--27195544 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
27195484 TCCCTCACTC
*
27195494 TCTTCCTTCTCTTTCTTCTTCTCTT
1 TCTTCCTTCTCTTTCTTCTTATCTT
27195519 TCTT-CTTCTCTTTCTTTCTTATCTT
1 TCTTCCTTCTCTTTC-TTCTTATCTT
27195544 T
1 T
27195545 TCTCCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (25 bp):
TCTTCCTTCTCTTTCTTCTTATCTT
Found at i:27195586 original size:17 final size:16
Alignment explanation
Indices: 27195566--27195602 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
27195556 GGCAGCTTGA
27195566 TTTTTCTTCTTCTCTCT
1 TTTTTCTTCTT-TCTCT
27195583 TTTTTCTTCTTTCTCT
1 TTTTTCTTCTTTCTCT
27195599 TTTT
1 TTTT
27195603 GGCTGACCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTTCTTTCTCT
Found at i:27197258 original size:25 final size:27
Alignment explanation
Indices: 27197193--27197258 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 27
27197183 GGGCTGTTAG
*
27197193 ACGTGGCTAGGCCATGGTCTGTGATAT
1 ACGTGGCTAGGCCATGGTCTGTCATAT
** *
27197220 ATGCGTGGAAAGGCCATGG-GT-TCATAT
1 A--CGTGGCTAGGCCATGGTCTGTCATAT
27197247 ACGTGGCTAGGC
1 ACGTGGCTAGGC
27197259 TACAGGTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
25 9 0.29
27 7 0.23
28 1 0.03
29 14 0.45
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.26
Consensus pattern (27 bp):
ACGTGGCTAGGCCATGGTCTGTCATAT
Found at i:27199421 original size:24 final size:24
Alignment explanation
Indices: 27199390--27199438 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
27199380 ATGAAAGTAC
*
27199390 AAATGCATCATTATAAACTAATAG
1 AAATGCATCAATATAAACTAATAG
27199414 AAATGCATCAATATAAACTAATAG
1 AAATGCATCAATATAAACTAATAG
27199438 A
1 A
27199439 TACTGACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (24 bp):
AAATGCATCAATATAAACTAATAG
Found at i:27203446 original size:2 final size:2
Alignment explanation
Indices: 27203433--27203467 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
27203423 CCATATACCG
* *
27203433 TA TA TG TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27203468 CAATCATCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27203516 original size:20 final size:21
Alignment explanation
Indices: 27203470--27203518 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
27203460 ACATATATCA
*
27203470 ATCATCATGTACACCATCCCGTT
1 ATCATCATGCACACCATCCC--T
*
27203493 ATCATCATGCACATCATCCC-
1 ATCATCATGCACACCATCCCT
27203513 ATCATC
1 ATCATC
27203519 CCCAACTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
23 18 0.75
ACGTcount: A:0.29, C:0.37, G:0.06, T:0.29
Consensus pattern (21 bp):
ATCATCATGCACACCATCCCT
Found at i:27205528 original size:25 final size:25
Alignment explanation
Indices: 27205494--27205544 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
27205484 TTCATCATAT
27205494 CTTATCACATGCGAAGGATTTGGGA
1 CTTATCACATGCGAAGGATTTGGGA
27205519 CTTATCACATGCGAAGGATTTGGGA
1 CTTATCACATGCGAAGGATTTGGGA
27205544 C
1 C
27205545 ATACTTCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (25 bp):
CTTATCACATGCGAAGGATTTGGGA
Found at i:27207171 original size:20 final size:21
Alignment explanation
Indices: 27207132--27207173 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
27207122 GCTATAAATA
* *
27207132 TCATTTCTTCTAGCAGCTTCT
1 TCATTTCTTCCAGCAACTTCT
27207153 TCATTTC-TCCAGCAACTTCT
1 TCATTTCTTCCAGCAACTTCT
27207173 T
1 T
27207174 GTTCTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.17, C:0.31, G:0.07, T:0.45
Consensus pattern (21 bp):
TCATTTCTTCCAGCAACTTCT
Found at i:27208058 original size:43 final size:43
Alignment explanation
Indices: 27207994--27208107 Score: 160
Period size: 43 Copynumber: 2.7 Consensus size: 43
27207984 GATAACCTAG
27207994 CTATGTGC-GTGTGGGAGTGCACATGAGCTGATGATGACCCAA
1 CTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATGACCCAA
**
27208036 CTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATGACCCGG
1 CTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATGACCCAA
* **
27208079 CCATGTGCGAGT-ACGGAGTGCACATGAGC
1 CTATGTGCG-GTGTGGGAGTGCACATGAGC
27208108 CGAGTGTGGA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 8 0.12
43 55 0.85
44 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (43 bp):
CTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATGACCCAA
Found at i:27241976 original size:36 final size:35
Alignment explanation
Indices: 27241936--27242025 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 35
27241926 GCTCATCAGC
* * *
27241936 TCATGTGCACTCCCACACTGTACATAGCCGGA-ATCA
1 TCATGTGCACTCCCACACCGCACA-AGCC-AATATCA
* *
27241972 TCATGTGCACTCTCACACCGCACAAGGCAATATCA
1 TCATGTGCACTCCCACACCGCACAAGCCAATATCA
*
27242007 TCATGTACACTCCCACACC
1 TCATGTGCACTCCCACACC
27242026 ACATCATCAC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
34 1 0.02
35 24 0.52
36 21 0.46
ACGTcount: A:0.29, C:0.37, G:0.13, T:0.21
Consensus pattern (35 bp):
TCATGTGCACTCCCACACCGCACAAGCCAATATCA
Found at i:27246201 original size:2 final size:2
Alignment explanation
Indices: 27246194--27246232 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
27246184 TGACTTCACA
27246194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27246233 ACACCACACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27246843 original size:35 final size:34
Alignment explanation
Indices: 27246777--27246846 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
27246767 TTTCACCAAG
* * *
27246777 CTTTACAATGGCTTTTACTAGGCTCAGCCAAAAC
1 CTTTACAATGGCTTTTACCAGGATCAACCAAAAC
* *
27246811 CTTTCACAATGGTTTTTACCGGGATCAACCAAAAC
1 CTTT-ACAATGGCTTTTACCAGGATCAACCAAAAC
27246846 C
1 C
27246847 CAACAACTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 4 0.13
35 26 0.87
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (34 bp):
CTTTACAATGGCTTTTACCAGGATCAACCAAAAC
Found at i:27262339 original size:43 final size:43
Alignment explanation
Indices: 27262256--27262391 Score: 204
Period size: 43 Copynumber: 3.2 Consensus size: 43
27262246 TTTTGTGTGA
* *
27262256 TGATGATGACCAAGCTATGTGC-GTGTGGGAGTGCACATGAGT
1 TGATGATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGC
27262298 TGATGATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGC
1 TGATGATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGC
* * *
27262341 TGATGATGACCCAACTATGTGCGAGTG-AGAAGTGCACATGAGC
1 TGATGATGACCCAGCTATGTGC-AGTGTGGGAGTGCACATGAGC
27262384 TGATGATG
1 TGATGATG
27262392 GTGGGATGGT
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
42 21 0.24
43 62 0.71
44 4 0.05
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (43 bp):
TGATGATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGC
Found at i:27262442 original size:12 final size:12
Alignment explanation
Indices: 27262427--27262457 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27262417 TATATATATA
27262427 TATGTGTGTGTG
1 TATGTGTGTGTG
27262439 TATGTGTGTGTG
1 TATGTGTGTGTG
*
27262451 TGTGTGT
1 TATGTGT
27262458 TATAGAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.42, T:0.52
Consensus pattern (12 bp):
TATGTGTGTGTG
Found at i:27266081 original size:38 final size:38
Alignment explanation
Indices: 27266030--27266132 Score: 129
Period size: 38 Copynumber: 2.7 Consensus size: 38
27266020 ATATTACCCG
* *
27266030 TGTGCATGATGTGGGGGGATGTACACGACGA-C-ATTAGA
1 TGTGCACGATGTGGGGGGATGCACACGACGACCAATT--A
*
27266068 TGTGCACGATGTGGGGGGATGCACACGATGACTCCAATTA
1 TGTGCACGATGTGGGGGGATGCACACGACGA--CCAATTA
27266108 TGTGCACGATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
27266133 TGAGCTAAGG
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
38 28 0.48
40 26 0.45
41 1 0.02
42 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACGACGACCAATTA
Found at i:27268463 original size:24 final size:23
Alignment explanation
Indices: 27268428--27268475 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
27268418 AAGCAGTGAG
*
27268428 ACAAGAAAGGAAAGGGAAAGAAA
1 ACAAGAAAGGAAAAGGAAAGAAA
*
27268451 ACAAGGAAAGGAAAATGAAAGAAA
1 ACAA-GAAAGGAAAAGGAAAGAAA
27268475 A
1 A
27268476 TTTATTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.67, C:0.04, G:0.27, T:0.02
Consensus pattern (23 bp):
ACAAGAAAGGAAAAGGAAAGAAA
Found at i:27273361 original size:19 final size:19
Alignment explanation
Indices: 27273337--27273373 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27273327 AAATTATCAG
27273337 CTGGCCAAGGGTTTCTCAA
1 CTGGCCAAGGGTTTCTCAA
*
27273356 CTGGCCGAGGGTTTCTCA
1 CTGGCCAAGGGTTTCTCA
27273374 CTAAAACCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (19 bp):
CTGGCCAAGGGTTTCTCAA
Found at i:27290375 original size:21 final size:20
Alignment explanation
Indices: 27290351--27290394 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
27290341 TTAAATTAAG
*
27290351 TTATTTTACTGTAATTTTACT
1 TTATTATACTGTAATTTT-CT
* *
27290372 TTATTATGCTTTAATTTTCT
1 TTATTATACTGTAATTTTCT
27290392 TTA
1 TTA
27290395 AGAAGAGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.64
Consensus pattern (20 bp):
TTATTATACTGTAATTTTCT
Found at i:27298145 original size:21 final size:20
Alignment explanation
Indices: 27298121--27298164 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
27298111 TTAAATTAAG
27298121 TTATTTTAGTTTAAGTTTACT
1 TTATTTTAGTTTAA-TTTACT
*
27298142 TTATTTTGGTTTAATTTACT
1 TTATTTTAGTTTAATTTACT
27298162 TTA
1 TTA
27298165 AAAAGAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.64
Consensus pattern (20 bp):
TTATTTTAGTTTAATTTACT
Found at i:27329193 original size:42 final size:45
Alignment explanation
Indices: 27329088--27329195 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 45
27329078 TGACCCGACT
*
27329088 ATGTGCGAGTGGGAGTGCGCATAAGCCAATGCTGATGCTGACCCGGCC
1 ATGTGCGAGTGGGAGTGCGCATAAGCC-A--CTGATGCTGACCCAGCC
* **
27329136 ACGTGCGAGCAGGAGTGCGCATAAG-C-C-GATGCTGACCCAGCC
1 ATGTGCGAGTGGGAGTGCGCATAAGCCACTGATGCTGACCCAGCC
*
27329178 ATGTGCTAGTGGGAGTGC
1 ATGTGCGAGTGGGAGTGC
27329196 ATATGAGCTG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.54
43 1 0.02
47 1 0.02
48 22 0.42
ACGTcount: A:0.21, C:0.25, G:0.36, T:0.18
Consensus pattern (45 bp):
ATGTGCGAGTGGGAGTGCGCATAAGCCACTGATGCTGACCCAGCC
Found at i:27333072 original size:39 final size:39
Alignment explanation
Indices: 27333027--27333126 Score: 109
Period size: 36 Copynumber: 2.7 Consensus size: 39
27333017 TGAAAGTGCC
27333027 CTGTGCACGATGTGGGGGGAATGCACATGATGGCACTAA
1 CTGTGCACGATGTGGGGGGAATGCACATGATGGCACTAA
* * * ** *
27333066 TTGTGCACGATGT--GTGGAA-GCACATGATGTCTGTAC
1 CTGTGCACGATGTGGGGGGAATGCACATGATGGCACTAA
*
27333102 CAGTGCACGATGTGGGGGG-ATGCAC
1 CTGTGCACGATGTGGGGGGAATGCAC
27333127 GCGATGACTC
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
36 24 0.49
37 6 0.12
38 7 0.14
39 12 0.24
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (39 bp):
CTGTGCACGATGTGGGGGGAATGCACATGATGGCACTAA
Found at i:27335348 original size:24 final size:26
Alignment explanation
Indices: 27335320--27335387 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 26
27335310 GCCCTTTCCA
*
27335320 TGGGCTC-TTCCCATT-TCTTCCTAT
1 TGGGCTCATGCCCATTCTCTTCCTAT
* *
27335344 TGGGC-CATGCCCATTCTTTTCTTAT
1 TGGGCTCATGCCCATTCTCTTCCTAT
*
27335369 TGGGCT-ATGCCCACTCTCT
1 TGGGCTCATGCCCATTCTCT
27335388 CTTTTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 12 0.33
25 23 0.64
ACGTcount: A:0.10, C:0.32, G:0.16, T:0.41
Consensus pattern (26 bp):
TGGGCTCATGCCCATTCTCTTCCTAT
Found at i:27341227 original size:189 final size:183
Alignment explanation
Indices: 27340903--27341274 Score: 609
Period size: 189 Copynumber: 2.0 Consensus size: 183
27340893 CCTTGTGTTG
**
27340903 TTACTAGCCTTTTTTTATTCAACTGAGTCGAGACAAGAATTATAAATTCTCATAGCAACACTTTA
1 TTACTAGCCCCTTTTTATTCAACTGAGTCGAGACAAGAATTATAAATTCTCATAGCAACACTTTA
* *
27340968 CATTAACTCATTTACCATACCATACTTGTAATTCGTTATTCATACTTCATCACTTAACATTGACA
66 CATTAACTCATTTACCATACCACACTTGTAATTCATTATTCATACTTCATCACTTAACATTGACA
27341033 TTCCTCATCGATATCTCATACCTTCATCTTTCTTTACACTTATATTCACAATC
131 TTCCTCATCGATATCTCATACCTTCATCTTTCTTTACACTTATATTCACAATC
27341086 NNNNNNTTACTAGCCCCTTTTTATTCAACTGAGTCGAGACAAGAATTATAAATTCTCATAGCAAC
1 ------TTACTAGCCCCTTTTTATTCAACTGAGTCGAGACAAGAATTATAAATTCTCATAGCAAC
* *
27341151 ACTTTACATTAACTCATTTACCATACCACACTTGTAATTCATTTTTCATACTTTATCACTTAACA
60 ACTTTACATTAACTCATTTACCATACCACACTTGTAATTCATTATTCATACTTCATCACTTAACA
* * *
27341216 TTGATATTCCTCATTGATATCTCATACCTTCATCTTTCTTTAGACTTATATTCACAATC
125 TTGACATTCCTCATCGATATCTCATACCTTCATCTTTCTTTACACTTATATTCACAATC
27341275 CTCATAGAAT
Statistics
Matches: 174, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
189 174 1.00
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.39
Consensus pattern (183 bp):
TTACTAGCCCCTTTTTATTCAACTGAGTCGAGACAAGAATTATAAATTCTCATAGCAACACTTTA
CATTAACTCATTTACCATACCACACTTGTAATTCATTATTCATACTTCATCACTTAACATTGACA
TTCCTCATCGATATCTCATACCTTCATCTTTCTTTACACTTATATTCACAATC
Found at i:27346949 original size:43 final size:43
Alignment explanation
Indices: 27346892--27347053 Score: 191
Period size: 43 Copynumber: 3.8 Consensus size: 43
27346882 GTAATGATAT
* * ** * * *
27346892 TGACTCGACTATGTGCGAGTAAAGAGTGCGTATAAGCCGATGA
1 TGACCCGATTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
*
27346935 TGACCCGATTATGTGCGAGTAGGGAGTGCACATAACCCGGTGA
1 TGACCCGATTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
*
27346978 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGATTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* ** *
27347021 TGA-CCTAGCCATGTGCGAGTAGGGAGTGTGCAT
1 TGACCCGA-TTATGTGCGAGTAGGGAGTGCGCAT
27347054 GAGTTGGGAA
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 2 0.02
43 101 0.98
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (43 bp):
TGACCCGATTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:27347151 original size:26 final size:26
Alignment explanation
Indices: 27347063--27347147 Score: 127
Period size: 26 Copynumber: 3.3 Consensus size: 26
27347053 TGAGTTGGGA
*
27347063 ATGATGATGATGGGATGGTGTGTATG
1 ATGATGATGATGGGATGGTGTGCATG
* *
27347089 GTGATGATAATGGGATGGTGTGCATG
1 ATGATGATGATGGGATGGTGTGCATG
*
27347115 ATGATGATGATGAGATGGTGTGCAT-
1 ATGATGATGATGGGATGGTGTGCATG
27347140 ATGATGAT
1 ATGATGAT
27347148 TGATATATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 8 0.15
26 45 0.85
ACGTcount: A:0.26, C:0.02, G:0.39, T:0.33
Consensus pattern (26 bp):
ATGATGATGATGGGATGGTGTGCATG
Found at i:27347157 original size:2 final size:2
Alignment explanation
Indices: 27347150--27347179 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
27347140 ATGATGATTG
*
27347150 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27347180 GGTATATGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27350652 original size:2 final size:2
Alignment explanation
Indices: 27350645--27350688 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
27350635 GCTTGACAAG
* *
27350645 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27350687 CT
1 CT
27350689 ATAGTCGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
CT
Found at i:27357678 original size:42 final size:42
Alignment explanation
Indices: 27357551--27357679 Score: 172
Period size: 42 Copynumber: 3.1 Consensus size: 42
27357541 GTAATGATAT
* * *
27357551 TGACCCGGCTATGTGCAAGTAAGAGTGTGCATAAGCCGATGC
1 TGACCCGACTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
* * *
27357593 TAACCC-AGCTATGTGCAAGTGGGAGTGCGCATAAGCTGATGC
1 TGACCCGA-CTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
27357635 TGACCCGACTATGTG-AGAGTAGGAGTGCGCATAAGCCGATGC
1 TGACCCGACTATGTGCA-AGTAGGAGTGCGCATAAGCCGATGC
27357677 TGA
1 TGA
27357680 GATAGCCATG
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 73 0.97
43 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (42 bp):
TGACCCGACTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
Found at i:27357692 original size:84 final size:84
Alignment explanation
Indices: 27357551--27357704 Score: 204
Period size: 84 Copynumber: 1.8 Consensus size: 84
27357541 GTAATGATAT
* * * *
27357551 TGACCCGGCTATGTGCAAGTAAGAGTGTGCATAAGCCGATGCTAACCCAGCTATGTGC-AAGTGG
1 TGACCCGACTATGTGCAAGTAAGAGTGCGCATAAGCCGATGCTAACACAGCCATGTGCTAA-TGG
27357615 GAGTGCGCATAAGCTGATGC
65 GAGTGCGCATAAGCTGATGC
* * * *
27357635 TGACCCGACTATGTG-AGAGTAGGAGTGCGCATAAGCCGATGCTGAGATAGCCATGTGCTAATGG
1 TGACCCGACTATGTGCA-AGTAAGAGTGCGCATAAGCCGATGCTAACACAGCCATGTGCTAATGG
27357699 GAGTGC
65 GAGTGC
27357705 ATATGAGCTG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
83 1 0.02
84 57 0.95
85 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.21
Consensus pattern (84 bp):
TGACCCGACTATGTGCAAGTAAGAGTGCGCATAAGCCGATGCTAACACAGCCATGTGCTAATGGG
AGTGCGCATAAGCTGATGC
Found at i:27358082 original size:21 final size:21
Alignment explanation
Indices: 27358058--27358099 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27358048 TTTTATGGCG
*
27358058 TGAATTTCGCTACAGCGAGAA
1 TGAATCTCGCTACAGCGAGAA
* *
27358079 TGAATCTCGCTATAGCTAGAA
1 TGAATCTCGCTACAGCGAGAA
27358100 ACTTCTGCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
TGAATCTCGCTACAGCGAGAA
Found at i:27363836 original size:8 final size:8
Alignment explanation
Indices: 27363814--27363882 Score: 62
Period size: 8 Copynumber: 9.2 Consensus size: 8
27363804 CATATCTGAA
27363814 TTATTATT
1 TTATTATT
27363822 GTT-TTATT
1 -TTATTATT
27363830 TTATTATT
1 TTATTATT
27363838 TTATTA-T
1 TTATTATT
27363845 TT-TTATT
1 TTATTATT
27363852 TT-TTA-T
1 TTATTATT
*
27363858 CTATTATT
1 TTATTATT
27363866 TGT-TTA-T
1 T-TATTATT
27363873 TTATTATT
1 TTATTATT
27363881 TT
1 TT
27363883 TTGATGATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
6 6 0.12
7 19 0.37
8 23 0.45
9 3 0.06
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:27363863 original size:28 final size:30
Alignment explanation
Indices: 27363814--27363884 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 30
27363804 CATATCTGAA
*
27363814 TTATTATTGTTTTATTTTATTATTT-TATTAT
1 TTATTATT-TTTTATTCTATTATTTGT-TTAT
27363845 TT-TTATTTTTTA-TCTATTATTTGTTTAT
1 TTATTATTTTTTATTCTATTATTTGTTTAT
27363873 TTATTATTTTTT
1 TTATTATTTTTT
27363885 GATGATTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 15 0.41
29 15 0.41
30 5 0.14
31 2 0.05
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.76
Consensus pattern (30 bp):
TTATTATTTTTTATTCTATTATTTGTTTAT
Found at i:27363871 original size:15 final size:14
Alignment explanation
Indices: 27363815--27363884 Score: 70
Period size: 14 Copynumber: 4.8 Consensus size: 14
27363805 ATATCTGAAT
*
27363815 TATTATTGTTTTATTT
1 TATTATT-TTTTA-TC
27363831 TATTATTTTATTAT-
1 TATTATTTT-TTATC
*
27363845 TTTTATTTTTTATC
1 TATTATTTTTTATC
*
27363859 TATTATTTGTTTATT
1 TATTATTT-TTTATC
27363874 TATTATTTTTT
1 TATTATTTTTT
27363885 GATGATTTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
13 4 0.08
14 18 0.38
15 16 0.33
16 10 0.21
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.76
Consensus pattern (14 bp):
TATTATTTTTTATC
Found at i:27363898 original size:29 final size:28
Alignment explanation
Indices: 27363832--27363914 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 28
27363822 GTTTTATTTT
*
27363832 ATTATTT-TATTATTTTTATTTTTTATCT
1 ATTATTTGT-TTATTTTTATTTTTTATCG
27363860 ATTATTTGTTTATTTATTATTTTTTGAT-G
1 ATTATTTGTTTATTT-TTATTTTTT-ATCG
27363889 ATT-TTGTGTTGTGATTTTTCATTTTT
1 ATTATT-TGTT-T-ATTTTT-ATTTTT
27363915 ATAAAAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
28 15 0.32
29 17 0.36
30 5 0.11
31 10 0.21
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.71
Consensus pattern (28 bp):
ATTATTTGTTTATTTTTATTTTTTATCG
Found at i:27364423 original size:14 final size:14
Alignment explanation
Indices: 27364404--27364434 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
27364394 ATTTTTATAT
27364404 TATATATATATTTA
1 TATATATATATTTA
27364418 TATATATATATTTA
1 TATATATATATTTA
27364432 TAT
1 TAT
27364435 TCCCCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATATATATATTTA
Found at i:27365686 original size:38 final size:38
Alignment explanation
Indices: 27365565--27365899 Score: 451
Period size: 38 Copynumber: 8.8 Consensus size: 38
27365555 TTTTTTTTTT
*
27365565 AATGAGACTCCTCAAAGCTGAGGCTACGAAAC-TTTAAA
1 AATGA-ACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
*
27365603 AATGAACTCCTCAAAGCTGAGGCAATG-AACTTTT-AA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* * * * *
27365639 AATGAACTCCTTAAAACTGAGGCAATGAGACTCTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* *
27365677 AATGAACTCCTCAAAACTGAGGCAACAAAACTTTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAAC--TTTTAAA
* * *
27365717 AATGAACTCCTCAAAGTTGAGGTAACGAGACTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* **
27365755 AATGAACTCCTCAAAGCTGAGGCGATAAAACTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* *
27365793 AATGAACTCCTCAAAGTTGAGGCAACGAAACTTTCAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
27365831 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* *
27365869 AATGAACTCCTCAAAACTGAGGTAACGAAAC
1 AATGAACTCCTCAAAGCTGAGGCAACGAAAC
27365900 CACCATTTCT
Statistics
Matches: 261, Mismatches: 31, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
36 30 0.11
37 28 0.11
38 171 0.66
40 32 0.12
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.23
Consensus pattern (38 bp):
AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
Found at i:27366748 original size:15 final size:15
Alignment explanation
Indices: 27366730--27366773 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
27366720 CAACTTAAAA
27366730 TTTTTTTTTATGTTT
1 TTTTTTTTTATGTTT
27366745 TTTTTTGTTT-TGTTT
1 TTTTTT-TTTATGTTT
27366760 TTCTTTATTTTATG
1 TT-TTT-TTTTATG
27366774 CAAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 13 0.52
16 9 0.36
17 3 0.12
ACGTcount: A:0.07, C:0.02, G:0.09, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTATGTTT
Found at i:27379771 original size:24 final size:24
Alignment explanation
Indices: 27379725--27379771 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
27379715 CTCTCCCTTT
* * * *
27379725 TTTTATTTTATTTTTTGTTTCTAA
1 TTTTATTATAATTTTAGTATCTAA
27379749 TTTTATTATAATTTTAGTATCTA
1 TTTTATTATAATTTTAGTATCTA
27379772 CATAAATACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTTATTATAATTTTAGTATCTAA
Found at i:27385567 original size:9 final size:9
Alignment explanation
Indices: 27385535--27385590 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
27385525 TAATGATATC
*
27385535 GATGAAAAA
1 GATGAAGAA
*
27385544 GATGAAGGA
1 GATGAAGAA
*
27385553 GTTGAAGAA
1 GATGAAGAA
27385562 GATGAAG-A
1 GATGAAGAA
*
27385570 GATAGAGGAA
1 GAT-GAAGAA
*
27385580 GATGAATAA
1 GATGAAGAA
27385589 GA
1 GA
27385591 AGACAATGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 4 0.11
9 29 0.78
10 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (9 bp):
GATGAAGAA
Found at i:27386082 original size:20 final size:20
Alignment explanation
Indices: 27386040--27386080 Score: 61
Period size: 17 Copynumber: 2.2 Consensus size: 20
27386030 ATTAATAAAT
27386040 TTATGTGAAAAATACATATA
1 TTATGTGAAAAATACATATA
27386060 TTATGT-AAAAAT--ATATA
1 TTATGTGAAAAATACATATA
27386077 TTAT
1 TTAT
27386081 TAAGGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
19 6 0.29
20 6 0.29
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (20 bp):
TTATGTGAAAAATACATATA
Found at i:27390552 original size:2 final size:2
Alignment explanation
Indices: 27390542--27390572 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27390532 TATAACACAC
*
27390542 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27390573 CATCATCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:27391763 original size:43 final size:43
Alignment explanation
Indices: 27391716--27391851 Score: 222
Period size: 43 Copynumber: 3.2 Consensus size: 43
27391706 ACCGTCCCAC
27391716 CATCATCAGCTCATGTGCACTTCCCAC-TCGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCAC-TCCCACATCGCACATAGCTGGGT
* *
27391759 CATCATCAGCTCATGTGCACTCCCACACCGCACATAACTGGGT
1 CATCATCAGCTCATGTGCACTCCCACATCGCACATAGCTGGGT
*
27391802 CATCATCAGCTCATGTACACTCCCACAT-GCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACATCGCACATAGCTGGGT
27391844 CATCATCA
1 CATCATCA
27391852 TCACACAAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
42 27 0.31
43 60 0.69
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (43 bp):
CATCATCAGCTCATGTGCACTCCCACATCGCACATAGCTGGGT
Found at i:27406906 original size:38 final size:39
Alignment explanation
Indices: 27406808--27406913 Score: 135
Period size: 38 Copynumber: 2.7 Consensus size: 39
27406798 CCTCCCCAGC
* *
27406808 TCATGTGCATCCCCCCACATTGTGCACATAACTGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACAT-ACTGAAGTCA
* *
27406848 TCGTGTGCATCCCCCCACATCGTGCACAT-CT-AATGTCG
1 TCATGTGCATCCCCCCACATCGTGCACATACTGAA-GTCA
*
27406886 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
27406914 CAGGCAATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
37 1 0.02
38 31 0.53
40 27 0.46
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.25
Consensus pattern (39 bp):
TCATGTGCATCCCCCCACATCGTGCACATACTGAAGTCA
Found at i:27411723 original size:42 final size:42
Alignment explanation
Indices: 27411656--27411820 Score: 249
Period size: 42 Copynumber: 3.9 Consensus size: 42
27411646 GTTGATTTGA
*
27411656 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTTCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* * * *
27411698 ACTCGGCTATGTGCAAGTAGCAGTGCACATAAGCCGTTGCTA
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
27411740 ACCCGACTATGTGCGAGTAGGAGTGCACATAAGTCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
27411782 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
27411821 TTGCCTCCGT
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 108 1.00
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:27411978 original size:83 final size:83
Alignment explanation
Indices: 27411876--27412036 Score: 259
Period size: 83 Copynumber: 1.9 Consensus size: 83
27411866 TCCGCCCAGG
* *
27411876 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCCAGAGTGAAGTGCGCCTCTTG
1 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTACTTCGTGATCCAGAGTGAAGTGCACCTCTTG
27411941 CCGAGTGAAGGGGGGGAA
66 CCGAGTGAAGGGGGGGAA
* * ** *
27411959 AGCTTGGAAGATGAGGGAAGGGATTGCTCCGTTACTTCGTGATCTGGAGTGACGTGCACCTCTTG
1 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTACTTCGTGATCCAGAGTGAAGTGCACCTCTTG
27412024 CCGAGTGAAGGGG
66 CCGAGTGAAGGGG
27412037 TAGGTATGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 71 1.00
ACGTcount: A:0.21, C:0.18, G:0.39, T:0.22
Consensus pattern (83 bp):
AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTACTTCGTGATCCAGAGTGAAGTGCACCTCTTG
CCGAGTGAAGGGGGGGAA
Found at i:27416088 original size:42 final size:42
Alignment explanation
Indices: 27415976--27416091 Score: 187
Period size: 42 Copynumber: 2.8 Consensus size: 42
27415966 TGAACCCGGT
* *
27415976 TATGTGCGAGTAGGAGTGCACATAAGTCATTGCTGACCCAGC
1 TATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCAGC
* *
27416018 TATGTGCGAATAGGAGTGCACATAAGCCGTTGCTGACCCTGC
1 TATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCAGC
*
27416060 TATGTGCGAGTGGGAGTGCACATAAGCCGTTG
1 TATGTGCGAGTAGGAGTGCACATAAGCCGTTG
27416092 TTGCCTCTGT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (42 bp):
TATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCAGC
Found at i:27416248 original size:83 final size:83
Alignment explanation
Indices: 27416147--27416307 Score: 286
Period size: 83 Copynumber: 1.9 Consensus size: 83
27416137 TCCGTCGAAG
* *
27416147 AGCTTGGAAGATGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCTGGAGTGAAGTGCGCCTCTTG
1 AGCTTGGAAGATGAGGGAAGGGACTGCTCCGTTACTTCGTGATCTGGAGTGAAGTGCACCTCTTG
27416212 CCGAGTGAAGGGGGGGAA
66 CCGAGTGAAGGGGGGGAA
* *
27416230 AGCTTGGAAGATGAGGGAAGGGATTGCTCCGTTACTTCGTGATCTGGAGTGACGTGCACCTCTTG
1 AGCTTGGAAGATGAGGGAAGGGACTGCTCCGTTACTTCGTGATCTGGAGTGAAGTGCACCTCTTG
27416295 CCGAGTGAAGGGG
66 CCGAGTGAAGGGG
27416308 TAGGTATGAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.23
Consensus pattern (83 bp):
AGCTTGGAAGATGAGGGAAGGGACTGCTCCGTTACTTCGTGATCTGGAGTGAAGTGCACCTCTTG
CCGAGTGAAGGGGGGGAA
Found at i:27416488 original size:84 final size:84
Alignment explanation
Indices: 27416347--27416588 Score: 382
Period size: 82 Copynumber: 2.9 Consensus size: 84
27416337 TCTGCCCAAG
27416347 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTG
1 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTG
27416412 CCGAGTGAAGGGAAGGGGA
66 CCGAGTGAAGGGAAGGGGA
* * * *
27416431 AGCTTGGAAGAGGAGGGAAAGGACTGCTCCGTTACTTTGTGATCCGGAGTGAAGTGCATCTCTTG
1 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTG
* *
27416496 CGGAGTGAA--GAGGGGGA
66 CCGAGTGAAGGGAAGGGGA
** *
27416513 AGCTTGGAAGAGGAGGGAAGGGACTGCTCTATTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTA
1 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTG
27416578 CCGAGT-AAGGG
66 CCGAGTGAAGGG
27416589 GGTGATGCTT
Statistics
Matches: 142, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
81 2 0.01
82 70 0.49
83 1 0.01
84 69 0.49
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (84 bp):
AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTG
CCGAGTGAAGGGAAGGGGA
Found at i:27416683 original size:26 final size:26
Alignment explanation
Indices: 27416647--27416708 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
27416637 TTGCATATGG
27416647 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
27416673 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
27416699 GTTGATGATG
1 GATGATGATG
27416709 GGTAAATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:27421579 original size:895 final size:895
Alignment explanation
Indices: 27419848--27421628 Score: 2740
Period size: 895 Copynumber: 2.0 Consensus size: 895
27419838 AAACAATGGC
*
27419848 TCCACTAACCCATCCACAAACCTCTGAATTTTTATCTCCTCAGTGGACACTAGATAAGGTGCATA
1 TCCACTAACCCATCCACAAACCTCTGAATTTTCATCTCCTCAGTGGACACTAGATAAGGTGCATA
* * **
27419913 CCGAGCCAACTGCATGAATTTGATGTCCTATTTTGACACCGCCATACTCGACATCTGTGTTAAAG
66 CCAAGCCAACTGCATGAATTTGATGTCCTATTCTGACACCGCCATACTCGACATCTGTAATAAAG
*
27419978 CCTCAAACTCCTTGGCCCTGGCATTACGTACACTGAGTGGTAAAAATCGATCTAAGAAAGTTGTA
131 CCTCAAACTCCTTAGCCCTGGCATTACGTACACTGAGTGGTAAAAATCGATCTAAGAAAGTTGTA
27420043 CTGAACTCACTCCAAGTCAACAGCGCTGCATCCGTTGGTCTACTTCTACATAAAGAGCTATACCA
196 CTGAACTCACTCCAAGTCAACAGCGCTGCATCCGTTGGTCTACTTCTACATAAAGAGCTATACCA
* * * * *
27420108 CTCCTGCACCACGTCTTCTAGTTGGAAGGCGACTAGCTTGACTGATCGAACACTAGAACATCCCA
261 CTCCTGCACCACGTCTTCTAGTAGAAAGGAGACTAGCTCGACTGATCGAACACTAGAACATACCA
*
27420173 AGGCTTTACAAATCTTCTCCATCTTATCTAAGAAAATCTAGGGCTTCTCCGATGCATCAGACCCT
326 AGGCTTTACAAATCTTCTCCATCTTATCTAAGAAAATCTAGGGCTTCTCCGATGAATCAGACCCT
* * *
27420238 TAAAATGATGAAGGCTTAAGCTTGAGAAAATCAGGAAGAGAAATCTCTAAATTACCCCTCTCGAC
391 AAAAATGATGAACGCTTAAGCTTGAGAAAATCAGGAAGAGAAATCTCTAAATGACCCCTCTCGAC
* * * * * *
27420303 CTTATGATGTTGGCGATCGGCTTATCCTTGGGAGCTAGGGGATTCTTGTACTGTAGGTCTTCCCT
456 CTCATCATGTTGGCGATCGACCTATCCTTGGAAGCTAGGGGATTCTTGTACTGTAGGTCTCCCCT
* * ** **
27420368 CCACTATCCTTTAAATATCATTCATATGAGTTGCCATCATCTCTACAACCCGATTGACTCCCTGT
521 CCACTATCCTCTAAATATCATCCATATGAGTCACCATCATCTCTACAACCCGATAAACTCCCTGT
* * * *
27420433 AGGCCTGCCACCAAGTCCTCAATGGTAATGCTCTCAACTGGTTGTCTATCCAGATTGCCCAAAGA
586 AGGCCTGCCACCAAGTCCTCAATGGCAATGCCCCCAACTGGTTGTCTATCCACATTGCCCAAAGA
* * * *
27420498 CTACCGCTCCTCTCATCTACTCATAAGCGTATCCGCCCTCATCGGCCTAGTTGCCCTGCCACGTC
651 CTACCCCTCCTCTAATCTACTCACAAGCGTATCCGCCCTCATCAGCCTAGTTGCCCTGCCACGTC
*
27420563 TACCTCGGCCCCTAAAGGTGGATGCCCGTGGCCTATTTGTCAGCTCATTAAGAGCATCTTGCTCC
716 TACCTCGGCCCCAAAAGGTGGATGCCCGTGGCCTATTTGTCAGCTCATTAAGAGCATCTTGCTCC
* * * *
27420628 CCCATCCATCTTGAGGCGGCTCGTGTCTTAAGTGGCATTCTTACCTAAATAAGAGCAAACACCTG
781 CCCATCCATCTTGAGGCGACTCATGTCTTAAGCGGCATTCTTACCTAAACAAGAGCAAACACCTG
*
27420693 TTATTAAACACGTTTTTCTATAATCATATATAAAGAAAAAGTATTGAAAT
846 TTATTAAACACGTTTTTCGATAATCATATATAAAGAAAAAGTATTGAAAT
* * *
27420743 TCCACTAGCCCATCCACAAACCTCTGAATTTTCATTTCCTCATTGGACACTAGATAAGGTGCATA
1 TCCACTAACCCATCCACAAACCTCTGAATTTTCATCTCCTCAGTGGACACTAGATAAGGTGCATA
* * *
27420808 CCAAGCCAGCTGCATGAATTTGATGTCGTATTCTGACACCGTCATACTCGACATCTGTAATAAAG
66 CCAAGCCAACTGCATGAATTTGATGTCCTATTCTGACACCGCCATACTCGACATCTGTAATAAAG
* **
27420873 TCTCAAACTTCC-TAGCTTTGGCATTACGTACACTGAGTGGTAAAAATCGATCTAAGAAAGTTGT
131 CCTCAAAC-TCCTTAGCCCTGGCATTACGTACACTGAGTGGTAAAAATCGATCTAAGAAAGTTGT
* ** * *
27420937 AGTGAACTCACTCCAAGTCAACAGCGCTGCATTTGTTGGTCT-GTCTCTATATAAAGAGCTATAC
195 ACTGAACTCACTCCAAGTCAACAGCGCTGCATCCGTTGGTCTACT-TCTACATAAAGAGCTATAC
* * ** * * *
27421001 CACTTCTGCGCCACGTCTTCTAGTAGAAAGGAGGTTAGCTCGATTGATTGGACACTAGAACATAC
259 CACTCCTGCACCACGTCTTCTAGTAGAAAGGAGACTAGCTCGACTGATCGAACACTAGAACATAC
* * * *
27421066 CAAGGCTTTACAAATCTTCTTCATCTTATTTAAGAAAATCTGGGGCTTCTTCGATGAATCAGACC
324 CAAGGCTTTACAAATCTTCTCCATCTTATCTAAGAAAATCTAGGGCTTCTCCGATGAATCAGACC
* *
27421131 CTAAAAATGATGGACGCTTGAGCTTGAGAAAATCAGGAAGAGAAATCTCTAAATGACCCCTCTCG
389 CTAAAAATGATGAACGCTTAAGCTTGAGAAAATCAGGAAGAGAAATCTCTAAATGACCCCTCTCG
27421196 ACCTCATCATGTTGGCGATCGACCTATCCTTGGAAGCTAGGGGATTCTTGTACTGTAGGTCTCCC
454 ACCTCATCATGTTGGCGATCGACCTATCCTTGGAAGCTAGGGGATTCTTGTACTGTAGGTCTCCC
* * * * *
27421261 CTCCACTATCCTCTGAATATCATCCATATGGGTCACCATCATCTTTATAACCCGATAAACTCCTT
519 CTCCACTATCCTCTAAATATCATCCATATGAGTCACCATCATCTCTACAACCCGATAAACTCCCT
* *
27421326 GTAGGTCTGCCACCAAGTCCTCAATGGCAATGCCCCCAACTGGTTGTCTATCCACATCT-CCCGA
584 GTAGGCCTGCCACCAAGTCCTCAATGGCAATGCCCCCAACTGGTTGTCTATCCACAT-TGCCCAA
*
27421390 AGACTACCCCTCCTCTAATCTAGTCACAAGCGTATCCGCCCTCATCAGCCTAGTTGCCCTGCCAC
648 AGACTACCCCTCCTCTAATCTACTCACAAGCGTATCCGCCCTCATCAGCCTAGTTGCCCTGCCAC
*
27421455 GTCTACCTCGGCCCCAAAAGGTGGATGCCCGTGGCCTATTTGTCAGCTCATTAGGAGCATCTTGC
713 GTCTACCTCGGCCCCAAAAGGTGGATGCCCGTGGCCTATTTGTCAGCTCATTAAGAGCATCTTGC
** * * * * *
27421520 TCCCCCATCTGTCTTTAGGCGACTCATGTCTTAGGCGGCATTTTTACCTAGACAAGAGCAAACAT
778 TCCCCCATCCATCTTGAGGCGACTCATGTCTTAAGCGGCATTCTTACCTAAACAAGAGCAAACAC
* *
27421585 TTGTTATTAAACACGTTTTTCGATAATCATATATAAAGGAAAAG
843 CTGTTATTAAACACGTTTTTCGATAATCATATATAAAGAAAAAG
27421629 GTGGTTTCTA
Statistics
Matches: 797, Mismatches: 86, Indels: 6
0.90 0.10 0.01
Matches are distributed among these distances:
894 1 0.00
895 792 0.99
896 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (895 bp):
TCCACTAACCCATCCACAAACCTCTGAATTTTCATCTCCTCAGTGGACACTAGATAAGGTGCATA
CCAAGCCAACTGCATGAATTTGATGTCCTATTCTGACACCGCCATACTCGACATCTGTAATAAAG
CCTCAAACTCCTTAGCCCTGGCATTACGTACACTGAGTGGTAAAAATCGATCTAAGAAAGTTGTA
CTGAACTCACTCCAAGTCAACAGCGCTGCATCCGTTGGTCTACTTCTACATAAAGAGCTATACCA
CTCCTGCACCACGTCTTCTAGTAGAAAGGAGACTAGCTCGACTGATCGAACACTAGAACATACCA
AGGCTTTACAAATCTTCTCCATCTTATCTAAGAAAATCTAGGGCTTCTCCGATGAATCAGACCCT
AAAAATGATGAACGCTTAAGCTTGAGAAAATCAGGAAGAGAAATCTCTAAATGACCCCTCTCGAC
CTCATCATGTTGGCGATCGACCTATCCTTGGAAGCTAGGGGATTCTTGTACTGTAGGTCTCCCCT
CCACTATCCTCTAAATATCATCCATATGAGTCACCATCATCTCTACAACCCGATAAACTCCCTGT
AGGCCTGCCACCAAGTCCTCAATGGCAATGCCCCCAACTGGTTGTCTATCCACATTGCCCAAAGA
CTACCCCTCCTCTAATCTACTCACAAGCGTATCCGCCCTCATCAGCCTAGTTGCCCTGCCACGTC
TACCTCGGCCCCAAAAGGTGGATGCCCGTGGCCTATTTGTCAGCTCATTAAGAGCATCTTGCTCC
CCCATCCATCTTGAGGCGACTCATGTCTTAAGCGGCATTCTTACCTAAACAAGAGCAAACACCTG
TTATTAAACACGTTTTTCGATAATCATATATAAAGAAAAAGTATTGAAAT
Found at i:27426208 original size:2 final size:2
Alignment explanation
Indices: 27426201--27426228 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27426191 AATCAATGCC
27426201 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27426229 ACTACNCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27426243 original size:108 final size:107
Alignment explanation
Indices: 27426127--27426336 Score: 402
Period size: 108 Copynumber: 2.0 Consensus size: 107
27426117 TCAGTATTGA
27426127 CAGTTAGATGCAACTTTTTTAGTGTAGTTCTAGCCCTATACATTTTAAAGCCTACAGTGTCATAA
1 CAGTTAGATGCAACTTTTTTAGTGTAGTTCTAGCCCTATACATTTTAAAGCCTACAGTGTCATAA
*
27426192 ATCAATGCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTACTAC
66 ATCAATGCCCCCTCTCTCTCTCTCTCTCTCTCTCTCTACTAC
27426234 NCAGTTAGATGCAACTTTTTTAGTGTAGTTCTAGCCCTATACATTTTAAAGCCTACAGTGTCATA
1 -CAGTTAGATGCAACTTTTTTAGTGTAGTTCTAGCCCTATACATTTTAAAGCCTACAGTGTCATA
27426299 AATCAATGCCCCCTCTCTCTCTCTCTCTCTCTCTCTCT
65 AATCAATGCCCCCTCTCTCTCTCTCTCTCTCTCTCTCT
27426337 CTCTCTCTGG
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 101 1.00
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.38
Consensus pattern (107 bp):
CAGTTAGATGCAACTTTTTTAGTGTAGTTCTAGCCCTATACATTTTAAAGCCTACAGTGTCATAA
ATCAATGCCCCCTCTCTCTCTCTCTCTCTCTCTCTCTACTAC
Found at i:27426318 original size:2 final size:2
Alignment explanation
Indices: 27426311--27426344 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27426301 TCAATGCCCC
27426311 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27426345 GGTGCGATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27437326 original size:14 final size:14
Alignment explanation
Indices: 27437307--27437336 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27437297 GACTTTAGAG
27437307 AGAAAGAAAAAAGA
1 AGAAAGAAAAAAGA
*
27437321 AGAAAGGAAAAAGA
1 AGAAAGAAAAAAGA
27437335 AG
1 AG
27437337 TGGGGGAACA
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:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAAGA
Found at i:27437566 original size:35 final size:34
Alignment explanation
Indices: 27437501--27437568 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
27437491 AGGAGGTGTC
* * *
27437501 GCTGGTTGAGGGGAGAAGTTTTTGGGTGGTTGCT
1 GCTGGTTGAGGAGAGAAGTTCTTGGATGGTTGCT
27437535 GCTGGTTTGAGGAGAGAA-TTCCTTGGATGGTTGC
1 GCTGG-TTGAGGAGAGAAGTT-CTTGGATGGTTGC
27437569 AGCCGATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 7 0.24
35 22 0.76
ACGTcount: A:0.15, C:0.09, G:0.43, T:0.34
Consensus pattern (34 bp):
GCTGGTTGAGGAGAGAAGTTCTTGGATGGTTGCT
Found at i:27441959 original size:33 final size:33
Alignment explanation
Indices: 27441917--27441982 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
27441907 TATTTTCAAA
27441917 ATAAAAAGTTATCTTTTCATATGAAAAACTATC
1 ATAAAAAGTTATCTTTTCATATGAAAAACTATC
27441950 ATAAAAAGTTATCTTTTCATATGAAAAACTATC
1 ATAAAAAGTTATCTTTTCATATGAAAAACTATC
27441983 TTAGCTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (33 bp):
ATAAAAAGTTATCTTTTCATATGAAAAACTATC
Found at i:27447198 original size:2 final size:2
Alignment explanation
Indices: 27447191--27447218 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27447181 TGTATATGAC
27447191 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27447219 GCTAGCCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27452090 original size:22 final size:22
Alignment explanation
Indices: 27452059--27452100 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27452049 TTTACAAAAT
27452059 TTTTGTTTTACTAAGCCAAAGGG
1 TTTTGTTTTACTAA-CCAAAGGG
*
27452082 TTTTG-TTTAGTAACCAAAG
1 TTTTGTTTTACTAACCAAAG
27452101 AGTTACAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (22 bp):
TTTTGTTTTACTAACCAAAGGG
Found at i:27463215 original size:19 final size:19
Alignment explanation
Indices: 27463191--27463227 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27463181 CTTCTAAACT
*
27463191 TCAAATCATACTTCAATAC
1 TCAAATCATACTCCAATAC
27463210 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
27463228 AATCAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:27465075 original size:21 final size:20
Alignment explanation
Indices: 27465049--27465091 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
27465039 TAAATTAAGC
27465049 TATTTTAGTTGAATTTTACTT
1 TATTTTAGTTGAA-TTTACTT
* *
27465070 TATTTTGGTTTAATTTACTT
1 TATTTTAGTTGAATTTACTT
27465090 TA
1 TA
27465092 AAAAGAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.63
Consensus pattern (20 bp):
TATTTTAGTTGAATTTACTT
Found at i:27479275 original size:3 final size:3
Alignment explanation
Indices: 27479269--27479306 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
27479259 ATATAATTAT
* *
27479269 TAC TAC TAC TAC TAT TAC TAT TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
27479307 GAGATAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.39
Consensus pattern (3 bp):
TAC
Found at i:27481100 original size:13 final size:13
Alignment explanation
Indices: 27481082--27481116 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27481072 CTTGCCTACC
27481082 TTTTTTTTATTTT
1 TTTTTTTTATTTT
**
27481095 TTTTTTCAATTTT
1 TTTTTTTTATTTT
27481108 TTTTTTTTA
1 TTTTTTTTA
27481117 AAAATTTTGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTTATTTT
Found at i:27481843 original size:22 final size:22
Alignment explanation
Indices: 27481796--27481837 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
27481786 TTGAATGACG
27481796 GCATCAGTCCTTGTCATGAAAA
1 GCATCAGTCCTTGTCATGAAAA
*
27481818 GCATCAGTCTTTGTCATGAA
1 GCATCAGTCCTTGTCATGAA
27481838 TTGCATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (22 bp):
GCATCAGTCCTTGTCATGAAAA
Found at i:27483295 original size:22 final size:21
Alignment explanation
Indices: 27483256--27483296 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27483246 CCTAGGTGAA
* *
27483256 AAAATTCAGGGGAAAAGTGTG
1 AAAATTCAAGGAAAAAGTGTG
27483277 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAA-AAGTG
27483297 ACAAAAGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.17
Consensus pattern (21 bp):
AAAATTCAAGGAAAAAGTGTG
Found at i:27483302 original size:22 final size:21
Alignment explanation
Indices: 27483251--27483302 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
27483241 AAAACCCTAG
* *
27483251 GTGAAAAAATTCAGGGGAAAA
1 GTGAAAAAATTCAAGGAAAAA
**
27483272 GTGTGAAAATTCAAGGAAACAA
1 GTGAAAAAATTCAAGGAAA-AA
*
27483294 GTGACAAAA
1 GTGAAAAAA
27483303 GGTAAGATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.52, C:0.08, G:0.25, T:0.15
Consensus pattern (21 bp):
GTGAAAAAATTCAAGGAAAAA
Found at i:27486340 original size:43 final size:43
Alignment explanation
Indices: 27486260--27486370 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 43
27486250 ATTGACTCGG
* * * ***
27486260 CTATGTACGAGTAGGGAGTGCGCACAAGCAGAGGATGACCTGG
1 CTATGTGCGAGTAGGGAGTGCGCATAACCAGAGGATGACCCAA
* * *
27486303 TTATGTGCGAGCAGGGAGTGCGCATAACCCG-GTGATGACCCAA
1 CTATGTGCGAGTAGGGAGTGCGCATAACCAGAG-GATGACCCAA
*
27486346 CCATGTGCGAGTAGGGAGTGCGCAT
1 CTATGTGCGAGTAGGGAGTGCGCAT
27486371 GAGCTGGTGA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.25, C:0.21, G:0.36, T:0.18
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAACCAGAGGATGACCCAA
Found at i:27486410 original size:23 final size:23
Alignment explanation
Indices: 27486380--27486439 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
27486370 TGAGCTGGTG
* * *
27486380 ATGATGATGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGTGC
27486403 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
27486426 ATGATAATGATGGG
1 ATGATGATGATGGG
27486440 TATACGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:27488262 original size:22 final size:22
Alignment explanation
Indices: 27488232--27488297 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
27488222 TTAGAGTGGT
27488232 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAGAGCTTTTGGTTTTAAAG
*
27488254 ATCAAAGCTTTTGGTTTTAAAG
1 ATCAGAGCTTTTGGTTTTAAAG
* *
27488276 ATTAGAGCTTTTGGGTTTAAAG
1 ATCAGAGCTTTTGGTTTTAAAG
27488298 TTGTTTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (22 bp):
ATCAGAGCTTTTGGTTTTAAAG
Found at i:27488340 original size:5 final size:5
Alignment explanation
Indices: 27488330--27488354 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27488320 AGTGTGGCCC
27488330 AAGTT AAGTT AAGTT AAGTT AAGTT
1 AAGTT AAGTT AAGTT AAGTT AAGTT
27488355 TGATAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
AAGTT
Found at i:27492883 original size:21 final size:22
Alignment explanation
Indices: 27492858--27492898 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
27492848 CCTAGGTGGA
*
27492858 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
27492879 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
27492899 ACAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:27492904 original size:22 final size:21
Alignment explanation
Indices: 27492858--27492904 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27492848 CCTAGGTGGA
* **
27492858 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGAAAAAGTGAC
27492879 AAAATTCAAGGAAACAAGTGAC
1 AAAATTCAAGGAAA-AAGTGAC
27492901 AAAA
1 AAAA
27492905 GGTAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.55, C:0.09, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAATTCAAGGAAAAAGTGAC
Found at i:27499325 original size:6 final size:6
Alignment explanation
Indices: 27499314--27499347 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
27499304 ACATATTTAC
* *
27499314 ATATGT ATATGT ATATAT ATATAT ATATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
27499348 ACCCATCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:27499414 original size:20 final size:20
Alignment explanation
Indices: 27499353--27499415 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
27499343 TATATACCCA
27499353 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAAC
* * *
27499372 CCATTATCATCATCACCAGC
1 TCATCATCATCATCACCAAC
27499392 TCATCATCATCATCACCAAC
1 TCATCATCATCATCACCAAC
27499412 TCAT
1 TCAT
27499416 GCGCACTCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 9 0.24
20 28 0.76
ACGTcount: A:0.32, C:0.40, G:0.02, T:0.27
Consensus pattern (20 bp):
TCATCATCATCATCACCAAC
Found at i:27507199 original size:2 final size:2
Alignment explanation
Indices: 27507153--27507191 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
27507143 ACACATTTAC
*
27507153 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27507192 CGTATATACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27507261 original size:20 final size:20
Alignment explanation
Indices: 27507204--27507266 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
27507194 TATATACCCA
*
27507204 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
27507223 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
27507243 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
27507263 TCAT
1 TCAT
27507267 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:27507313 original size:43 final size:43
Alignment explanation
Indices: 27507265--27507383 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
27507255 TCACCAGCTC
** * *
27507265 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
27507308 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
27507351 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
27507384 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:27535120 original size:19 final size:19
Alignment explanation
Indices: 27535082--27535120 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27535072 GAAATTTTGG
**
27535082 AATAAAATAATATTTTATT
1 AATAAAATAATATTAAATT
*
27535101 AATAAAATATTATTAAATT
1 AATAAAATAATATTAAATT
27535120 A
1 A
27535121 TTAATATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAAAATAATATTAAATT
Found at i:27537618 original size:22 final size:24
Alignment explanation
Indices: 27537593--27537639 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
27537583 TACCTTTTGT
27537593 CACTTGTTTC-CTTG-AATT-TTCA
1 CACTT-TTTCTCTTGAAATTCTTCA
27537615 CACTTTTTCTCTTGAAATTCTTCA
1 CACTTTTTCTCTTGAAATTCTTCA
27537639 C
1 C
27537640 CTAGGGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 4 0.18
24 5 0.23
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.49
Consensus pattern (24 bp):
CACTTTTTCTCTTGAAATTCTTCA
Found at i:27544114 original size:40 final size:37
Alignment explanation
Indices: 27544070--27544177 Score: 101
Period size: 40 Copynumber: 2.8 Consensus size: 37
27544060 CACACCCGGC
27544070 TCATGTACATCCCCCCACATCGTGCACA-TAGCCGACACCA
1 TCATGTACATCCCCCCACATCGTGCACATTAG-CG---CCA
* * *
27544110 TCATGTGCATCCCCCCCCACATCATGCACAATTAGTGCCA
1 TCATGTACAT--CCCCCCACATCGTGCAC-ATTAGCGCCA
* *
27544150 TCGTGTACATCTCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
27544178 CGGGCACTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
37 1 0.02
38 15 0.26
40 20 0.35
42 16 0.28
43 2 0.04
44 3 0.05
ACGTcount: A:0.25, C:0.41, G:0.13, T:0.21
Consensus pattern (37 bp):
TCATGTACATCCCCCCACATCGTGCACATTAGCGCCA
Found at i:27552103 original size:35 final size:35
Alignment explanation
Indices: 27551966--27552080 Score: 196
Period size: 35 Copynumber: 3.3 Consensus size: 35
27551956 GGAGTACGTG
27551966 TGATGATATTGAAATGTGCGTGT-AGGAAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAAGG-AGTGCACA
*
27552001 TGATGACATTGAAATGTGCGTGTAAGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAAGGAGTGCACA
*
27552036 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAAGGAGTGCACA
27552071 TGATGATATT
1 TGATGATATT
27552081 TCCTTGTGTG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
35 73 0.96
36 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCGTGTAAGGAGTGCACA
Found at i:27566545 original size:60 final size:60
Alignment explanation
Indices: 27566449--27566577 Score: 197
Period size: 60 Copynumber: 2.1 Consensus size: 60
27566439 CTGTAGCTTC
* * * *
27566449 TCGCTACAGCAAAATTCATTCTTGTTGCAGCAAGAAA-TTTTCTGTTTCTGGGTTACAATT
1 TCGCTGCAGCAAAATTCATTCTCGCTGCAGCAAGAAACCTTT-TGTTTCTGGGTTACAATT
*
27566509 TCGCTGCAGCAAAATTCATTCTCGCTGCAGCGAGAAACCTTTTGTTTCTGGGTTACAATT
1 TCGCTGCAGCAAAATTCATTCTCGCTGCAGCAAGAAACCTTTTGTTTCTGGGTTACAATT
27566569 TCGCTGCAG
1 TCGCTGCAG
27566578 TGAGATTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 60 0.95
61 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (60 bp):
TCGCTGCAGCAAAATTCATTCTCGCTGCAGCAAGAAACCTTTTGTTTCTGGGTTACAATT
Found at i:27566597 original size:60 final size:60
Alignment explanation
Indices: 27566449--27566615 Score: 183
Period size: 60 Copynumber: 2.8 Consensus size: 60
27566439 CTGTAGCTTC
* * * * * *
27566449 TCGCTACAGCAAAATTCATTCTTGTTGCAGCAAGAAA-TTTTCTGTTTCTGGGTTACAATT
1 TCGCTGCAGCAAAATTAAATCTCGCTGCAGCGAGAAACTTTT-TGTTTCTGGGTTACAATT
* * *
27566509 TCGCTGCAGCAAAATTCATTCTCGCTGCAGCGAGAAACCTTTTGTTTCTGGGTTACAATT
1 TCGCTGCAGCAAAATTAAATCTCGCTGCAGCGAGAAACTTTTTGTTTCTGGGTTACAATT
** * * * *
27566569 TCGCTGCAGTGAGATTAAATCTCTCTGCAGTGAAAAACTTTTTGTTT
1 TCGCTGCAGCAAAATTAAATCTCGCTGCAGCGAGAAACTTTTTGTTT
27566616 TGTCCCCTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 89 0.97
61 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (60 bp):
TCGCTGCAGCAAAATTAAATCTCGCTGCAGCGAGAAACTTTTTGTTTCTGGGTTACAATT
Found at i:27570596 original size:42 final size:42
Alignment explanation
Indices: 27570549--27570679 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 42
27570539 GTAATGATAT
* *
27570549 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGG
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCAATGC
* * * *
27570591 TGACCCAGCTATGTGCGAGTGAGAATGCGCATAAGGCAATGC
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCAATGC
** * * * * * *
27570633 TGACTAGGCTATGTGTGAGTAGAAGTGTGCATAAGCTAATGT
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCAATGC
27570675 TGACC
1 TGACC
27570680 TAGCCATGTG
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCAATGC
Found at i:27570751 original size:2 final size:2
Alignment explanation
Indices: 27570744--27570794 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
27570734 ATGGTGATGG
*
27570744 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
27570786 AC AT AT AT A
1 AT AT AT AT A
27570795 GATGTGTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:27573846 original size:16 final size:16
Alignment explanation
Indices: 27573822--27573868 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
27573812 TGTCGGCCAA
27573822 AGAAAAAG-AAGAAAAG
1 AGAAAAAGAAAG-AAAG
*
27573838 AGAAGAAGAAAGAAAG
1 AGAAAAAGAAAGAAAG
*
27573854 AGAAAAACAAAGAAA
1 AGAAAAAGAAAGAAA
27573869 CCGGCTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 24 0.89
17 3 0.11
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAAAGAAAG
Found at i:27577337 original size:22 final size:21
Alignment explanation
Indices: 27577293--27577338 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
27577283 ATGTTTCGAA
**
27577293 TTTTGCTGCAGCAAGAATGCC
1 TTTTGCTGCAGCAAGAAACCC
*
27577314 TTTTCGCTGCAGCGAGAAACCC
1 TTTT-GCTGCAGCAAGAAACCC
27577336 TTT
1 TTT
27577339 ATCATCTCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (21 bp):
TTTTGCTGCAGCAAGAAACCC
Done.