Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 64 of 64
Found at i:12982263 original size:20 final size:21
Alignment explanation
Indices: 12982221--12982264 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
12982211 ATGTTTAATG
12982221 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
12982242 AAAATGATATCAATTGTT-AC
1 AAAAAGATACCAATTGTTAAC
12982262 AAA
1 AAA
12982265 TTGTTTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:12985304 original size:21 final size:22
Alignment explanation
Indices: 12985270--12985311 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
12985260 TCAAAAAGGA
12985270 TGCACATAACATGGTGCATCGG
1 TGCACATAACATGGTGCATCGG
*
12985292 TGCAC-TATCATGGTGCATCG
1 TGCACATAACATGGTGCATCG
12985312 ATACCCCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (22 bp):
TGCACATAACATGGTGCATCGG
Found at i:12985382 original size:20 final size:20
Alignment explanation
Indices: 12985357--12985421 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
12985347 GCAGCCTTCG
**
12985357 TGCATGGATGCACAGTTGGA
1 TGCATGGATGCACAGCAGGA
12985377 TGCATGGATGCACAGCAGGA
1 TGCATGGATGCACAGCAGGA
*
12985397 TGCA-GCGATGCACATCAGGA
1 TGCATG-GATGCACAGCAGGA
12985417 TGCAT
1 TGCAT
12985422 CGATTCACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.03
20 39 0.98
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (20 bp):
TGCATGGATGCACAGCAGGA
Found at i:12985501 original size:22 final size:20
Alignment explanation
Indices: 12985448--12985508 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
12985438 TTTGAAATAG
12985448 AGTGCATGGATGCACTGCAT
1 AGTGCATGGATGCACTGCAT
* * **
12985468 GGTGCATCGATGCACTAGTGT
1 AGTGCATGGATGCACT-GCAT
12985489 AAGTGCATGGATGCACTGCA
1 -AGTGCATGGATGCACTGCA
12985509 GGGGTGCATA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 14 0.45
21 3 0.10
22 14 0.45
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.25
Consensus pattern (20 bp):
AGTGCATGGATGCACTGCAT
Found at i:13000018 original size:39 final size:39
Alignment explanation
Indices: 12999964--13000063 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
12999954 TATATGACTT
*
12999964 GTAAGTCCTTACCGCAAGCTCTTCAGCTTTGTGATCAGG
1 GTAAGTCCTTACCGCAAGCTCCTCAGCTTTGTGATCAGG
* *
13000003 GTAAGTCCTTACCGCAGGCTCCTCAGCTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAAGCTCCTCAGCTTTGTGATCAGG
*
13000042 GTAGGTCCTTACCGCAAG-TCCT
1 GTAAGTCCTTACCGCAAGCTCCT
13000064 TATGCTATGT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 4 0.07
39 52 0.93
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAAGCTCCTCAGCTTTGTGATCAGG
Found at i:13016452 original size:22 final size:22
Alignment explanation
Indices: 13016424--13016474 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
13016414 AAAAAGTGAT
13016424 ACGAATAGATCTGGTTGTATCG
1 ACGAATAGATCTGGTTGTATCG
13016446 ACGAATAGATCTGGTTGTATCG
1 ACGAATAGATCTGGTTGTATCG
*
13016468 ACAAATA
1 ACGAATA
13016475 AATCACAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (22 bp):
ACGAATAGATCTGGTTGTATCG
Found at i:13016661 original size:67 final size:69
Alignment explanation
Indices: 13016552--13016687 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 69
13016542 AAAAACTATT
13016552 AATAAAATAAATTATAATCTTGAAAAATATTAATAAAATAAGTTATAATATCATA-TTTTTTAAC
1 AATAAAATAAATTATAATCTTGAAAAATATTAATAAAATAAGTTATAATATCATATTTTTTTAAC
13016616 TGTC
66 TGTC
13016620 AATAAAATAAATTATAATCTT-AAAAATATTAATAAAATAAGTTATAATATCATATTTTTTTAAC
1 AATAAAATAAATTATAATCTTGAAAAATATTAATAAAATAAGTTATAATATCATATTTTTTTAAC
13016684 TGTC
66 TGTC
13016688 GAATGATCAA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
67 33 0.49
68 34 0.51
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (69 bp):
AATAAAATAAATTATAATCTTGAAAAATATTAATAAAATAAGTTATAATATCATATTTTTTTAAC
TGTC
Found at i:13023821 original size:22 final size:22
Alignment explanation
Indices: 13023796--13023849 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
13023786 TCAGGAGTTA
* *
13023796 CAGGAGTTATTTGATTTAATTT
1 CAGGAGTTATATGATATAATTT
*
13023818 CAGG-GTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTT
*
13023839 CGGGAGTTATA
1 CAGGAGTTATA
13023850 ATAGCTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTT
Found at i:13030872 original size:43 final size:43
Alignment explanation
Indices: 13030794--13030889 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
13030784 ATTTAATCCT
* * * * *
13030794 TTAATTTTCTTTAATTTTAGTTTTTATCCTTATAATTGATGTCCC
1 TTAATTTT-TGTAATCTTACTTTTTATCCTTATAATGGAAG-CCC
*
13030839 -TAATTTTTGTAATCTTACTTTTTATCTTTATAATGGAAGCCC
1 TTAATTTTTGTAATCTTACTTTTTATCCTTATAATGGAAGCCC
13030881 TTAATTTTT
1 TTAATTTTT
13030890 TTTCAATCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 3 0.07
43 34 0.77
44 7 0.16
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.56
Consensus pattern (43 bp):
TTAATTTTTGTAATCTTACTTTTTATCCTTATAATGGAAGCCC
Found at i:13031037 original size:44 final size:44
Alignment explanation
Indices: 13030778--13031139 Score: 165
Period size: 44 Copynumber: 8.2 Consensus size: 44
13030768 ATTATTTATT
* * * * * *
13030778 TTTATAATTTAATCCTTTAATTTTCTTT-AATTTTAGTTTTTATCC
1 TTTATAATTGAACCCTCTAATTTT-TTTCAATCTCACTTTTTA-CC
** * * *
13030823 -TTATAATTGATGTCC-CTAATTTTTGT-AATCTTACTTTTTATC
1 TTTATAATTGA-ACCCTCTAATTTTTTTCAATCTCACTTTTTACC
* * * *
13030865 TTTATAATGGAAGCCCT-TAATTTTTTTTCAATCCCATTTTTTTACA
1 TTTATAATTGAA-CCCTCTAA-TTTTTTTCAATCTCA-CTTTTTACC
* * * * * *
13030911 TTTATAATTGATGA-TCT-TAA-GTTTTTCAATCCCACCTTGTACT
1 TTTATAATTGA--ACCCTCTAATTTTTTTCAATCTCACTTTTTACC
* ** *
13030954 TTTATAATT-AA-GCTCCT-GCTTTTTTCAATCTCACCTTTTACC
1 TTTATAATTGAACCCT-CTAATTTTTTTCAATCTCACTTTTTACC
* *
13030996 TTTATAATTGAACCCTCTAATTTTTTTCAATCTTATTTTTTA-C
1 TTTATAATTGAACCCTCTAATTTTTTTCAATCTCACTTTTTACC
* * * ** *
13031039 TCATAAAATTTAGGCCTCTAATTTTTTTTAATCTCACTTTTTTACC
1 T-TTATAATTGAACCCTCTAATTTTTTTCAATCTCAC-TTTTTACC
* * * * * *
13031085 TTTAAAATTGATGCCC-CTATTTTTTTTTAAATATCACTTTTTATC
1 TTTATAATTGA-ACCCTCTA-ATTTTTTTCAATCTCACTTTTTACC
13031130 TTTATAATTG
1 TTTATAATTG
13031140 GGGTTCCTAA
Statistics
Matches: 246, Mismatches: 51, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
40 3 0.01
42 31 0.13
43 48 0.20
44 82 0.33
45 41 0.17
46 40 0.16
48 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.05, T:0.53
Consensus pattern (44 bp):
TTTATAATTGAACCCTCTAATTTTTTTCAATCTCACTTTTTACC
Found at i:13031127 original size:45 final size:43
Alignment explanation
Indices: 13030973--13031139 Score: 140
Period size: 45 Copynumber: 3.8 Consensus size: 43
13030963 AAGCTCCTGC
* * * *
13030973 TTTTTTCAATCTCACCTTTTACCTTTATAATTGAACCCTCTAAT
1 TTTTTTCAATCTCACTTTTTACCTTTAAAATTGAGCCC-CTATT
* * * * *
13031017 TTTTTTCAATCTTATTTTTTA-CTCATAAAATTTAGGCCTCTAATT
1 TTTTTTCAATCTCACTTTTTACCT-TTAAAATTGA-GCCCCT-ATT
13031062 TTTTTT-AATCTCACTTTTTTACCTTTAAAATTGATGCCCCTATTT
1 TTTTTTCAATCTCAC-TTTTTACCTTTAAAATTGA-GCCCCTA-TT
* * * *
13031107 TTTTTTAAATATCACTTTTTATCTTTATAATTG
1 TTTTTTCAATCTCACTTTTTACCTTTAAAATTG
13031140 GGGTTCCTAA
Statistics
Matches: 98, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
43 2 0.02
44 34 0.35
45 53 0.54
46 9 0.09
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.53
Consensus pattern (43 bp):
TTTTTTCAATCTCACTTTTTACCTTTAAAATTGAGCCCCTATT
Found at i:13035689 original size:117 final size:117
Alignment explanation
Indices: 13035380--13035726 Score: 470
Period size: 117 Copynumber: 3.0 Consensus size: 117
13035370 AAACTCAAGT
*
13035380 AATCAGCTCAAATTCTTTTTGATTCATCATCCGTTTCTTCA-ACTTCAACATTCATAGTTACTTA
1 AATCAGCTCAAATTCTTTTTGATTCATCATTCGTTTCTTCAGA-TTCAACATTCATAGTTACTTA
13035444 CAAGACATCATTAAACTT-AATTTCGAA-CTGATATTAGATCAAAATTAACTG
65 CAAGACATCATTAAACTTAAATTTCGAAGCTGATATTAGATCAAAATTAACTG
* * * * *
13035495 AATTAGCTCAAATTCCTTTTCATTCCTCATTCGTTTCTTCAGATTTAACATTCATAGTTACTTAC
1 AATCAGCTCAAATTCTTTTTGATTCATCATTCGTTTCTTCAGATTCAACATTCATAGTTACTTAC
** * * * *
13035560 ATTACCTTATTAAACTTAAAATTC-AAGCTGATATTAGATCAGAATTAACTG
66 AAGACATCATTAAACTTAAATTTCGAAGCTGATATTAGATCAAAATTAACTG
* * * *
13035611 AATCAGCTCAACTTCTTTTTTGATTCATCATTCATTTCTTCAGATTCAACATTCATAGTCAATTA
1 AATCAGCTCAAATTC-TTTTTGATTCATCATTCGTTTCTTCAGATTCAACATTCATAGTTACTTA
* * *
13035676 TAGGACATCATTAAACTTAAATTTCGAAG-TGATATTAGATCAAAAGTAACT
65 CAAGACATCATTAAACTTAAATTTCGAAGCTGATATTAGATCAAAATTAACT
13035727 AAACAAACTC
Statistics
Matches: 198, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
115 72 0.36
116 42 0.21
117 81 0.41
118 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (117 bp):
AATCAGCTCAAATTCTTTTTGATTCATCATTCGTTTCTTCAGATTCAACATTCATAGTTACTTAC
AAGACATCATTAAACTTAAATTTCGAAGCTGATATTAGATCAAAATTAACTG
Found at i:13036884 original size:23 final size:23
Alignment explanation
Indices: 13036851--13036900 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
13036841 AGGTCTGCAG
*
13036851 TCTGTGTACTACATCTGCAGGCA
1 TCTGTGGACTACATCTGCAGGCA
13036874 TCTGTGGACTACATCTGCAGGCA
1 TCTGTGGACTACATCTGCAGGCA
13036897 TCTG
1 TCTG
13036901 CAGCAGAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (23 bp):
TCTGTGGACTACATCTGCAGGCA
Found at i:13037057 original size:31 final size:31
Alignment explanation
Indices: 13037021--13037080 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
13037011 AACTTAAAAG
* *
13037021 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
13037052 AGTTTTACAATATTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
13037081 CATACAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:13037126 original size:40 final size:40
Alignment explanation
Indices: 13037072--13037204 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
13037062 TATTGAAATT
*
13037072 TAAAT-AATTCATACAACTACAATAATAAATTATTTAAAA
1 TAAATCAATCCATACAACTACAATAATAAATTATTTAAAA
* * *
13037111 TAAATCAATCCATACAACTACAATAATAAATCAATTAATATTT
1 TAAATCAATCCATACAACTACAATAATAAATTATTTAA-A--A
* * *
13037154 TAAAATAAATCAAT-CCA-TAC--TAATAAATTATTTAAAA
1 T-AAATCAATCCATACAACTACAATAATAAATTATTTAAAA
13037191 TAAATCAATCCATA
1 TAAATCAATCCATA
13037205 TTTTAAAATA
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
36 10 0.13
37 1 0.01
39 6 0.08
40 42 0.55
41 1 0.01
42 3 0.04
43 3 0.04
44 10 0.13
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (40 bp):
TAAATCAATCCATACAACTACAATAATAAATTATTTAAAA
Found at i:13037194 original size:54 final size:54
Alignment explanation
Indices: 13037135--13037532 Score: 516
Period size: 54 Copynumber: 7.3 Consensus size: 54
13037125 CAACTACAAT
**
13037135 AATAAATCAATTAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
13037189 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* **
13037243 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
* * ** * ** *
13037301 AATAAATCAATCCATATTTTAAAATAAATTAATCAATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* **
13037353 AATACATACAAATAAAT-TATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
13037409 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-AAATTTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA-TTATTTAA
*
13037463 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAAAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
13037517 AATAAGTCAATTCATA
1 AATAAATCAATCCATA
13037533 CAACTACAAT
Statistics
Matches: 298, Mismatches: 34, Indels: 24
0.84 0.10 0.07
Matches are distributed among these distances:
52 6 0.02
53 13 0.04
54 206 0.69
55 17 0.06
56 6 0.02
57 4 0.01
58 46 0.15
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:13037210 original size:22 final size:22
Alignment explanation
Indices: 13037184--13037226 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13037174 TAATAAATTA
13037184 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
13037206 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
13037227 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13037235 original size:22 final size:22
Alignment explanation
Indices: 13037186--13037234 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13037176 ATAAATTATT
**
13037186 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
13037208 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
13037231 TAAA
1 TAAA
13037235 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:13037243 original size:134 final size:134
Alignment explanation
Indices: 13037094--13037657 Score: 805
Period size: 134 Copynumber: 4.2 Consensus size: 134
13037084 ACAACTACAA
**
13037094 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTAATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
*
13037159 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTC
66 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCC
13037224 ATAC
131 ATAC
**
13037228 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATACTAATAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAA
* ** * ** ** * *
13037293 TTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATTAATCAATATTTTAAAATAAATCAA
65 ATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAA
*
13037355 TACATAC
128 TCCATAC
* *
13037362 AAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATAT
1 TAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATAT
13037426 TTTAAAATAAATCAATCCATACTAA-AAATTTATTTAAAATAAATCAATCCATATTTTAAAATAA
59 TTTAAAATAAATCAATCCATACTAATAAA-TTATTTAAAATAAATCAATCCATATTTTAAAATAA
13037490 ATCAATCCATAC
123 ATCAATCCATAC
* * *
13037502 TAAAAAATTATTTAAAATAAGTCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
13037567 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCC
13037632 ATAC
131 ATAC
13037636 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
13037658 TATTTTAAAA
Statistics
Matches: 377, Mismatches: 37, Indels: 32
0.85 0.08 0.07
Matches are distributed among these distances:
133 2 0.01
134 243 0.64
135 14 0.04
136 7 0.02
138 7 0.02
139 12 0.03
140 90 0.24
141 2 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (134 bp):
TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATAC
Found at i:13037322 original size:22 final size:22
Alignment explanation
Indices: 13037296--13037360 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
13037286 TAATAAATTA
13037296 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
* *
13037318 TTTAAAATAAATTAATCAATAT
1 TTTAAAATAAATCAATCCATAT
*
13037340 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATCCATA
13037361 CAAATAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13037413 original size:86 final size:86
Alignment explanation
Indices: 13037318--13037478 Score: 270
Period size: 86 Copynumber: 1.9 Consensus size: 86
13037308 CAATCCATAT
*
13037318 TTTAAAATAAATTAATCAATATTTTAAAATAAATCAATACATAC-AAATAAATTATTTAAAATAA
1 TTTAAAATAAATCAATCAATATTTTAAAATAAATCAATACATACTAAA-AAATTATTTAAAATAA
13037382 ATCAATCCATACTAATAAATTA
65 ATCAATCCATACTAATAAATTA
* * *
13037404 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAAAATTTATTTAAAATAAA
1 TTTAAAATAAATCAATCAATATTTTAAAATAAATCAATACATACTAAAAAATTATTTAAAATAAA
13037469 TCAATCCATA
66 TCAATCCATA
13037479 TTTTAAAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 67 0.96
87 3 0.04
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (86 bp):
TTTAAAATAAATCAATCAATATTTTAAAATAAATCAATACATACTAAAAAATTATTTAAAATAAA
TCAATCCATACTAATAAATTA
Found at i:13037430 original size:22 final size:22
Alignment explanation
Indices: 13037404--13037446 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13037394 TAATAAATTA
13037404 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
13037426 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
13037447 CTAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13037437 original size:108 final size:108
Alignment explanation
Indices: 13037269--13037612 Score: 428
Period size: 108 Copynumber: 3.1 Consensus size: 108
13037259 CAACTACAAT
*
13037269 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATTAAT
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
*
13037334 CAATATTTTAAAATAAATCAATACATACAAATAAATTATTTAA
66 CCATATTTTAAAATAAATCAATACATACAAATAAATTATTTAA
13037377 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
* * * * * *
13037442 CCATA-CTAAAAATTTATTTAA-A-AT--AAATCAATCCATATTTTAA
66 CCATATTTTAAAA-TAAATCAATACATACAAATAAAT---TA-TTTAA
* * * * **
13037485 AATAAATCAATCCATACTAAAAAATTATTTAAAATAAGTCAATTCATACAACTACAATAATAAAT
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAAT
* *
13037550 CAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
62 CAATCCATATTTTAAAATAAATCAATACATACAAATAAATTATTTAA
13037597 AATAAATCAATCCATA
1 AATAAATCAATCCATA
13037613 TTTTAAAATA
Statistics
Matches: 200, Mismatches: 22, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
104 7 0.04
106 2 0.01
107 8 0.04
108 122 0.61
111 4 0.02
112 42 0.21
113 7 0.04
114 2 0.01
116 6 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (108 bp):
AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
CCATATTTTAAAATAAATCAATACATACAAATAAATTATTTAA
Found at i:13037484 original size:22 final size:22
Alignment explanation
Indices: 13037458--13037500 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13037448 TAAAAATTTA
13037458 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
13037480 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
13037501 CTAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13037508 original size:22 final size:22
Alignment explanation
Indices: 13037461--13037509 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13037451 AAATTTATTT
* **
13037461 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATACTAA
13037483 AAAATAAATCAATCCATACTAA
1 AAAATAAATCAATCCATACTAA
13037505 AAAAT
1 AAAAT
13037510 TATTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAATCAATCCATACTAA
Found at i:13037549 original size:220 final size:218
Alignment explanation
Indices: 13037152--13037612 Score: 712
Period size: 220 Copynumber: 2.1 Consensus size: 218
13037142 CAATTAATAT
13037152 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
13037217 TCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AACTACAATAATAAATCAATCC
* * ** *
13037282 ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATTAATCAATATTTTAAAA
129 ATACTAAAAAATTATTTAAAATAAATCAATCCATACTACAAAATAAATCAATCAATATTTTAAAA
13037347 TAAATCAATACATACAAATAAATTA
194 TAAATCAATACATACAAATAAATTA
13037372 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* **
13037437 TCAATCCATACTAA-AAATTTATTTAAAATAAATCAATCCAT-ATTTTAA-AATAAATCAATCCA
66 TCAATCCATACTAATAAA-TTATTTAAAATAAATCAATCCATAACTACAATAATAAATCAATCCA
* * *
13037499 TACTAAAAAATTATTTAAAATAAGTCAATTCATACAACTACAATAATAAATCAATCCATATTTTA
130 TACTAAAAAATTATTTAAAATAAATCAATCCAT---ACTACAA-AATAAATCAATCAATATTTTA
* *
13037564 AAATAAATCAATCCATACTAATAAATTA
191 AAATAAATCAATACATACAAATAAATTA
13037592 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
13037613 TTTTAAAATA
Statistics
Matches: 222, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
216 44 0.20
217 4 0.02
219 7 0.03
220 167 0.75
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (218 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAACTACAATAATAAATCAATCCAT
ACTAAAAAATTATTTAAAATAAATCAATCCATACTACAAAATAAATCAATCAATATTTTAAAATA
AATCAATACATACAAATAAATTA
Found at i:13037568 original size:80 final size:80
Alignment explanation
Indices: 13037463--13037612 Score: 273
Period size: 80 Copynumber: 1.9 Consensus size: 80
13037453 ATTTATTTAA
*
13037463 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAAAAATTATTTAAAATAAGTCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAAAAATTATTTAAAATAAATCAAT
*
13037528 TCATACAACTACAAT
66 CCATACAACTACAAT
*
13037543 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAAAAATTATTTAAAATAAATCAAT
13037608 CCATA
66 CCATA
13037613 TTTTAAAATA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.32
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAAAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:13037589 original size:22 final size:22
Alignment explanation
Indices: 13037543--13037588 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
13037533 CAACTACAAT
**
13037543 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATAATAA
13037565 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATA-TAATAA
13037588 A
1 A
13037589 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATCAATCCATATAATAA
Found at i:13037598 original size:274 final size:268
Alignment explanation
Indices: 13037095--13037657 Score: 803
Period size: 274 Copynumber: 2.1 Consensus size: 268
13037085 CAACTACAAT
* *
13037095 AATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTAATATTTTAAAAT
1 AATAAATTATTTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCAATATTTTAAAAT
*
13037160 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCA
66 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
*
13037225 TACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATACTAAT
131 TACTAAAAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATACTAAT
* ** ** *
13037290 AAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATTAATCAATATTTTAAAATAAATCAA
196 AAAATAAATAAAATAAATCAATAAATATTTTAAAATAAATCAATCAATATTTTAAAATAAATCAA
13037355 TACATACA
261 TACATACA
*
13037363 AATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATT
1 AATAAATTATTTAAAATAAATCAATCCATAC-AACTAAA--A--T--AATAAATCAATCAATATT
13037427 TTAAAATAAATCAATCCATACTAA-AAATTTATTTAAAATAAATCAATCCATATTTTAAAATAAA
59 TTAAAATAAATCAATCCATACTAATAAA-TTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* *
13037491 TCAATCCATACTAAAAAATTATTTAAAATAAGTCAATTCATACAACTACAATAATAAATCAATCC
123 TCAATCCATACTAAAAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
** * ** *
13037556 ATA-TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATATTTTA
188 ATACTAATAAAATAAATAAAATAAAT-C-AATAAATAT-TTTAAAATAAATCAATCAATATTTTA
* *
13037618 AAATAAATCAATCCATACT
250 AAATAAATCAATACATACA
13037637 AATAAATTATTTAAAATAAAT
1 AATAAATTATTTAAAATAAAT
13037658 TATTTTAAAA
Statistics
Matches: 263, Mismatches: 21, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
268 34 0.13
269 2 0.01
270 1 0.00
272 6 0.02
273 13 0.05
274 207 0.79
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (268 bp):
AATAAATTATTTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCAATATTTTAAAAT
AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
TACTAAAAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATACTAAT
AAAATAAATAAAATAAATCAATAAATATTTTAAAATAAATCAATCAATATTTTAAAATAAATCAA
TACATACA
Found at i:13037616 original size:54 final size:54
Alignment explanation
Indices: 13037543--13037657 Score: 230
Period size: 54 Copynumber: 2.1 Consensus size: 54
13037533 CAACTACAAT
13037543 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
13037597 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
13037651 AATAAAT
1 AATAAAT
13037658 TATTTTAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:13037618 original size:22 final size:22
Alignment explanation
Indices: 13037592--13037692 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
13037582 TAATAAATTA
13037592 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
13037614 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
13037637 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
13037661 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
13037683 TTTATAATAA
1 TTTAAAATAA
13037693 TTTATTTTAT
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 33 0.56
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13037666 original size:15 final size:15
Alignment explanation
Indices: 13037637--13037799 Score: 184
Period size: 15 Copynumber: 10.5 Consensus size: 15
13037627 AATCCATACT
13037637 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
13037651 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
13037666 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
* *
13037688 AATAATTTATTTTAT
1 AATAAATTATTTTAA
**
13037703 AATAGTTTATTTTAA
1 AATAAATTATTTTAA
*
13037718 AATAAATTATTTTAT
1 AATAAATTATTTTAA
13037733 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
13037748 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
13037763 AATAAATTATTTTAT
1 AATAAATTATTTTAA
13037778 AATAAATTATTTTAA
1 AATAAATTATTTTAA
13037793 AATAAAT
1 AATAAAT
13037800 AACCTTATTA
Statistics
Matches: 131, Mismatches: 10, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
14 9 0.07
15 105 0.80
17 1 0.01
18 2 0.02
19 3 0.02
20 1 0.01
22 10 0.08
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:13037731 original size:45 final size:45
Alignment explanation
Indices: 13037636--13037799 Score: 213
Period size: 45 Copynumber: 3.5 Consensus size: 45
13037626 CAATCCATAC
13037636 TAATAAATTA-TTTAAAATAAATTATTTTAAAATAAATCAATCCATATTTTA
1 TAATAAATTATTTTAAAATAAATTATTTTAAAAT--A--AAT---TATTTTA
* * **
13037687 TAATAATTTATTTTATAATAGTTTATTTTAAAATAAATTATTTTA
1 TAATAAATTATTTTAAAATAAATTATTTTAAAATAAATTATTTTA
*
13037732 TAATAAATTATTTTAAAATAAATTATTTTATAATAAATTATTTTA
1 TAATAAATTATTTTAAAATAAATTATTTTAAAATAAATTATTTTA
13037777 TAATAAATTATTTTAAAATAAAT
1 TAATAAATTATTTTAAAATAAAT
13037800 AACCTTATTA
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
45 70 0.68
48 3 0.03
50 1 0.01
51 9 0.09
52 20 0.19
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (45 bp):
TAATAAATTATTTTAAAATAAATTATTTTAAAATAAATTATTTTA
Found at i:13039353 original size:192 final size:192
Alignment explanation
Indices: 13038866--13039409 Score: 783
Period size: 192 Copynumber: 2.8 Consensus size: 192
13038856 GTAAACCAAT
* ** *
13038866 CTTAACATATATGATAATGGAGTGGGGATAATTGATTCTCTCCTTTGTTTCTACTTCGTTACTCT
1 CTTAACATTTATGATAATGGAGTGAAGATAATTGATTATCTCCTTTGTTTCTACTTCGTTACTCT
*
13038931 ATTTTCCCACAAACGGCAAGAAGGTGAGCAAATGAAAGAAACAAAATTCAGAAAAAGAATAATGG
66 ATTTTCCCGCAAACGGCAAGAAGGTGAGCAAATGAAAGAAACAAAATTCAGAAAAAGAATAATGG
* * * * * *
13038996 CATTGTCCAGACTCAAACCGGAGACTTTCAATGTGTTCGACTGACGTGATAACCAACTATACCAC
131 CATCGCCCGGACTC-AACTGGAGAC---C-A---GTTAGACTGACGTGATAACCAACTACACCAC
13039061 GACAC
188 GACAC
* *
13039066 CTTAACATTTATGATAATGGAGTGAAGA-CA---ATTATCTCCTTTGTTTCTACTTTGTTACTCT
1 CTTAACATTTATGATAATGGAGTGAAGATAATTGATTATCTCCTTTGTTTCTACTTCGTTACTCT
* * * *
13039127 ATTTTCCCGCAAACCGTAAGAAGGTAAGCAAATGAAAGAAACAAAATTCAAAAAAAGAATAATGG
66 ATTTTCCCGCAAACGGCAAGAAGGTGAGCAAATGAAAGAAACAAAATTCAGAAAAAGAATAATGG
13039192 CATCGCCCGGACTCAAGCTGGAGACC-GTTAGACTGACGTGATAACCAACTACACCACGACAC
131 CATCGCCCGGACTCAA-CTGGAGACCAGTTAGACTGACGTGATAACCAACTACACCACGACAC
*
13039254 CTTAACATTTATGATAATGGAGTGAAGATAATTGATTATCTCCTTTGTTTCTACTTCATTACTCT
1 CTTAACATTTATGATAATGGAGTGAAGATAATTGATTATCTCCTTTGTTTCTACTTCGTTACTCT
*
13039319 ATTTTCCCGCAAATGGCAAGAAGGTGAGCAAATGAAAGAAACAAAATTCAGAAAAAGAATAATGG
66 ATTTTCCCGCAAACGGCAAGAAGGTGAGCAAATGAAAGAAACAAAATTCAGAAAAAGAATAATGG
*
13039384 CGTCGCCCGGACTCTAACTGGAGACC
131 CATCGCCCGGACTC-AACTGGAGACC
13039410 TTCAGTGTGT
Statistics
Matches: 312, Mismatches: 26, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
188 62 0.20
189 1 0.00
192 111 0.36
193 3 0.01
195 2 0.01
196 107 0.34
199 1 0.00
200 25 0.08
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (192 bp):
CTTAACATTTATGATAATGGAGTGAAGATAATTGATTATCTCCTTTGTTTCTACTTCGTTACTCT
ATTTTCCCGCAAACGGCAAGAAGGTGAGCAAATGAAAGAAACAAAATTCAGAAAAAGAATAATGG
CATCGCCCGGACTCAACTGGAGACCAGTTAGACTGACGTGATAACCAACTACACCACGACAC
Found at i:13048458 original size:39 final size:40
Alignment explanation
Indices: 13048396--13048473 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 40
13048386 TTGGGGTGAT
*
13048396 AGAAGAAAGAAGAAGAGATATCACAACTTTAATCCTCTGA
1 AGAAGAAAGAAGAAGAGAAATCACAACTTTAATCCTCTGA
* * *
13048436 AGAA-AAAGAATAAGATAAATCACAACTTTAATCGTCTG
1 AGAAGAAAGAAGAAGAGAAATCACAACTTTAATCCTCTG
13048474 GCGTGAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 30 0.88
40 4 0.12
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.22
Consensus pattern (40 bp):
AGAAGAAAGAAGAAGAGAAATCACAACTTTAATCCTCTGA
Found at i:13049875 original size:16 final size:17
Alignment explanation
Indices: 13049856--13049899 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
13049846 AGAGTAGTTG
13049856 CTGTTTTGAGT-TTTAT
1 CTGTTTTGAGTATTTAT
* *
13049872 CTGTGTT-AGTATTTGT
1 CTGTTTTGAGTATTTAT
13049888 CTGTTTTGAGTA
1 CTGTTTTGAGTA
13049900 ATCTTCCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 3 0.13
16 16 0.70
17 4 0.17
ACGTcount: A:0.14, C:0.07, G:0.23, T:0.57
Consensus pattern (17 bp):
CTGTTTTGAGTATTTAT
Found at i:13051696 original size:43 final size:43
Alignment explanation
Indices: 13051646--13051755 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 43
13051636 CCCTGGATTA
13051646 TACATTTTTAGTAAATTTAGTCACTTGATCATTTCTAGTCCTT
1 TACATTTTTAGTAAATTTAGTCACTTGATCATTTCTAGTCCTT
* * * *
13051689 TACATTTTTATTCAATTTACTCCCTTGATCATTTCTAGTCCTT
1 TACATTTTTAGTAAATTTAGTCACTTGATCATTTCTAGTCCTT
*
13051732 TACATTTTTAGTGAATTTAGTCAC
1 TACATTTTTAGTAAATTTAGTCAC
13051756 ATGCTTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (43 bp):
TACATTTTTAGTAAATTTAGTCACTTGATCATTTCTAGTCCTT
Found at i:13053537 original size:18 final size:18
Alignment explanation
Indices: 13053503--13053538 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13053493 AAAACCACCG
*
13053503 GTCATTACTCTCTATCCA
1 GTCATTACTCTCCATCCA
*
13053521 GTCATTACTTTCCATCCA
1 GTCATTACTCTCCATCCA
13053539 AACTAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (18 bp):
GTCATTACTCTCCATCCA
Found at i:13059171 original size:6 final size:6
Alignment explanation
Indices: 13059153--13059191 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
13059143 AGGGAAGAAA
*
13059153 AAGAAG AAG-TG AAGATG AAGATG AAGATG AAGATG AAGA
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGA
13059192 GAGAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.54, C:0.00, G:0.33, T:0.13
Consensus pattern (6 bp):
AAGATG
Found at i:13060398 original size:24 final size:21
Alignment explanation
Indices: 13060347--13060388 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13060337 ACTTAGATAC
13060347 ATAGTCTACAACAATCAATAT
1 ATAGTCTACAACAATCAATAT
13060368 ATAGTCTACAACAATCAATAT
1 ATAGTCTACAACAATCAATAT
13060389 GTATAAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.29
Consensus pattern (21 bp):
ATAGTCTACAACAATCAATAT
Found at i:13064928 original size:189 final size:189
Alignment explanation
Indices: 13064603--13064986 Score: 750
Period size: 189 Copynumber: 2.0 Consensus size: 189
13064593 GGGTTGCCTG
*
13064603 AATCCCGGGTGCCACAATTCCTGGATTTAAGTCGTCCAAGATAGGATTTAAGTGATCTCAAATGG
1 AATCTCGGGTGCCACAATTCCTGGATTTAAGTCGTCCAAGATAGGATTTAAGTGATCTCAAATGG
13064668 CACGAGGCCTGGCTGTATTCCCAGCATCCAGAATTGCCTCGGCATTCTAATCTTTAATACCTTGA
66 CACGAGGCCTGGCTGTATTCCCAGCATCCAGAATTGCCTCGGCATTCTAATCTTTAATACCTTGA
13064733 TTGCCAATTTGATACATGTTTGCACGTTGAGAACATCTTTTTTGCCTAAAGAGCCTTTC
131 TTGCCAATTTGATACATGTTTGCACGTTGAGAACATCTTTTTTGCCTAAAGAGCCTTTC
13064792 AATCTCGGGTGCCACAATTCCTGGATTTAAGTCGTCCAAGATAGGATTTAAGTGATCTCAAATGG
1 AATCTCGGGTGCCACAATTCCTGGATTTAAGTCGTCCAAGATAGGATTTAAGTGATCTCAAATGG
13064857 CACGAGGCCTGGCTGTATTCCCAGCATCCAGAATTGCCTCGGCATTCTAATCTTTAATACCTTGA
66 CACGAGGCCTGGCTGTATTCCCAGCATCCAGAATTGCCTCGGCATTCTAATCTTTAATACCTTGA
*
13064922 TTGCCAATTTGATACATGTTTGCACGTTGAGCACATCTTTTTTGCCTAAAGAGCCTTTC
131 TTGCCAATTTGATACATGTTTGCACGTTGAGAACATCTTTTTTGCCTAAAGAGCCTTTC
13064981 AATCTC
1 AATCTC
13064987 AGGTTCAATT
Statistics
Matches: 193, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 193 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (189 bp):
AATCTCGGGTGCCACAATTCCTGGATTTAAGTCGTCCAAGATAGGATTTAAGTGATCTCAAATGG
CACGAGGCCTGGCTGTATTCCCAGCATCCAGAATTGCCTCGGCATTCTAATCTTTAATACCTTGA
TTGCCAATTTGATACATGTTTGCACGTTGAGAACATCTTTTTTGCCTAAAGAGCCTTTC
Found at i:13069080 original size:15 final size:15
Alignment explanation
Indices: 13069041--13069079 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
13069031 CCATTTAAAC
*
13069041 AAAAGAAAAAGAAAT
1 AAAATAAAAAGAAAT
13069056 AAAATAAAAAGAAAT
1 AAAATAAAAAGAAAT
13069071 -AAATAAAAA
1 AAAATAAAAA
13069080 ATGATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (15 bp):
AAAATAAAAAGAAAT
Found at i:13071270 original size:83 final size:84
Alignment explanation
Indices: 13070929--13071337 Score: 547
Period size: 85 Copynumber: 4.9 Consensus size: 84
13070919 GATGTGTCAC
* * * * *
13070929 TGAGCTGAATAG-AATCAGACTCGATAGTTTTTTGTTGACAAATAACCCTTCTCAACTTGAGCTA
1 TGAGCTGAAT-GTAATCAAACTCGA-AG-GTTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTA
13070993 TGCTGTAAATTTGACATGCCCT
63 TGCTGTAAATTTGACATGCCCT
* * * *
13071015 TGAGCTGAATGGAATCAAACTCGAAGGTATTTGTTGGCAGATAACCCTTCTCACCTTGAGTTATG
1 TGAGCTGAATGTAATCAAACTCGAAGGT-TTTGTTGACAGATAGCCCTTCTCACCTTGAGCTATG
* *
13071080 CTATAAATTTGATATGCCCT
65 CTGTAAATTTGACATGCCCT
* * **
13071100 TGATCTGAATGTAATCAAACTCGAAGGTCTTTGTTAACAGATAGCCCTTCTCGTCTT-AGCTATG
1 TGAGCTGAATGTAATCAAACTCGAAGGT-TTTGTTGACAGATAGCCCTTCTCACCTTGAGCTATG
13071164 CTGTAAATTTGACATGCCCT
65 CTGTAAATTTGACATGCCCT
* * * *
13071184 TGAGCTGAATGTAATCGAACTCGAAAG-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATAC
1 TGAGCTGAATGTAATCAAACTCGAAGGTTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTATGC
*
13071248 TGTAAATTTGATATGCCCT
66 TGTAAATTTGACATGCCCT
* *
13071267 TGAGCTGAATGTAATCGAACTCGAAGG-TTTGTTGACAGATAGCCCTTCTCACCTTGAGCTACGC
1 TGAGCTGAATGTAATCAAACTCGAAGGTTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTATGC
13071331 TGTAAAT
66 TGTAAAT
13071338 AGTTCCTTTA
Statistics
Matches: 290, Mismatches: 30, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
82 26 0.09
83 92 0.32
84 49 0.17
85 102 0.35
86 21 0.07
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (84 bp):
TGAGCTGAATGTAATCAAACTCGAAGGTTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTATGC
TGTAAATTTGACATGCCCT
Found at i:13072889 original size:98 final size:98
Alignment explanation
Indices: 13072755--13072958 Score: 331
Period size: 99 Copynumber: 2.1 Consensus size: 98
13072745 GGATAACTCA
*
13072755 ATATT-TAATCACCTTTATCAGCTAGCTGAATCTTATCCATAAAGCTGAGGCGTTTAACCAATT-
1 ATATTGTAATCACATTTATCAGCTAGCTGAATCTTATCCATAAAGCTGAGGCGTTTAACCAATTA
*
13072818 CTCTAGAGGGACAACTCAAGCTTTATTGTATAG
66 CTCTAGAGGGACAACTCAAGCTTTATTGTATAC
* * * *
13072851 ATATTGTAATCACATTTATTAGGTTAGCTGAATCTTATCCATAAAGCTGGGGTGTTTAACCAATT
1 ATATTGTAATCACATTTATCA-GCTAGCTGAATCTTATCCATAAAGCTGAGGCGTTTAACCAATT
13072916 ACTCTAGAGGGACAACTCAAGCTTTATTGTATAC
65 ACTCTAGAGGGACAACTCAAGCTTTATTGTATAC
13072950 ATATTGTAA
1 ATATTGTAA
13072959 GCTGGGTATA
Statistics
Matches: 99, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
96 5 0.05
97 13 0.13
98 40 0.40
99 41 0.41
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (98 bp):
ATATTGTAATCACATTTATCAGCTAGCTGAATCTTATCCATAAAGCTGAGGCGTTTAACCAATTA
CTCTAGAGGGACAACTCAAGCTTTATTGTATAC
Found at i:13077182 original size:27 final size:27
Alignment explanation
Indices: 13077111--13077183 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 27
13077101 AAAAAAGGGA
*
13077111 AAAAAAAAAAAAGTAACATGAAATAAAATT
1 AAAAAAAAAAAA--AA-AGGAAATAAAATT
* * * *
13077141 AAAAACAGAAGAAAAGGAAATAAAATA
1 AAAAAAAAAAAAAAAGGAAATAAAATT
13077168 AAAATAAAAAAAAAAA
1 AAAA-AAAAAAAAAAA
13077184 AAAAATGATT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
27 15 0.44
28 10 0.29
30 9 0.26
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (27 bp):
AAAAAAAAAAAAAAAGGAAATAAAATT
Found at i:13078895 original size:29 final size:29
Alignment explanation
Indices: 13078786--13078895 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 29
13078776 TTAGGCTTAT
* *
13078786 GTCACAAATAAGTATCCAAAATAATTTTTT-
1 GTCA-AAATAAGTAT-CTAAATTATTTTTTA
* *
13078816 GTCAAAGTAAATATCTAAACTTATCTTTTTA
1 GTCAAAATAAGTATCTAAA-TTAT-TTTTTA
* *
13078847 CTCAAAATAGGTA---AAA-TATTTTTTA
1 GTCAAAATAAGTATCTAAATTATTTTTTA
13078872 GTCAAAATAAGTATCTAAATTATT
1 GTCAAAATAAGTATCTAAATTATT
13078896 CAATATTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
25 17 0.27
26 3 0.05
28 10 0.16
29 15 0.24
30 9 0.14
31 9 0.14
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (29 bp):
GTCAAAATAAGTATCTAAATTATTTTTTA
Found at i:13079374 original size:24 final size:20
Alignment explanation
Indices: 13079316--13079376 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 20
13079306 ATTTATATTA
13079316 AAAAAAATTTTAAAAAAATT
1 AAAAAAATTTTAAAAAAATT
*
13079336 AAAATGAATTATTAATTAAAAATAT
1 AAAA-AAATT-TTAA--AAAAAT-T
13079361 AAAAAAATATTTAAAA
1 AAAAAAAT-TTTAAAA
13079377 TTTAAAAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
20 4 0.12
21 4 0.12
22 6 0.18
24 13 0.39
25 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAAAATTTTAAAAAAATT
Found at i:13082407 original size:55 final size:55
Alignment explanation
Indices: 13082335--13082444 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 55
13082325 TTGCTTGGAA
13082335 ATTAATGGATACTATTTATCTCTT-TTTAGCTCGGTGAC-TACTATAAAAAACACAT
1 ATTAATGGATACTATTTATCT-TTCTTTAGCTCGGTGACTTA-TATAAAAAACACAT
* * * *
13082390 ATTAGTGGATATTATTTATCTTTCTTTAGCTCTGTTACTTATATAAAAAACACAT
1 ATTAATGGATACTATTTATCTTTCTTTAGCTCGGTGACTTATATAAAAAACACAT
13082445 TGAATTGCTG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 2 0.04
55 45 0.92
56 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.42
Consensus pattern (55 bp):
ATTAATGGATACTATTTATCTTTCTTTAGCTCGGTGACTTATATAAAAAACACAT
Found at i:13087803 original size:25 final size:23
Alignment explanation
Indices: 13087766--13087814 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 23
13087756 AACTAAATAG
13087766 AAAATAAAACTAACAATTAAGTT
1 AAAATAAAACTAACAATTAAGTT
13087789 AAAATAAAATTCTAACAATTAAGTT
1 AAAATAAAA--CTAACAATTAAGTT
13087814 A
1 A
13087815 TGAGGCTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 9 0.38
25 15 0.62
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (23 bp):
AAAATAAAACTAACAATTAAGTT
Found at i:13093381 original size:29 final size:29
Alignment explanation
Indices: 13093340--13093464 Score: 78
Period size: 29 Copynumber: 4.2 Consensus size: 29
13093330 TATCTTGTCG
*
13093340 AAGTATATGTATCATATTGAACAATTTT-A
1 AAGTATA-GTATCACATTGAACAATTTTAA
* * *
13093369 AAGTATAGCTATCACATT-AGATATTTTGTCA
1 AAGTATAG-TATCACATTGA-ACAATTT-TAA
* * *
13093400 AAGTA-CGTATCATATTGAA-TATTTTAA
1 AAGTATAGTATCACATTGAACAATTTTAA
* *
13093427 AAGTACAGTTATCACATTGAACATTTTATAA
1 AAGTATAG-TATCACATTGAACAATTT-TAA
*
13093458 AAATATA
1 AAGTATA
13093465 ATCAAATGTA
Statistics
Matches: 73, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
27 7 0.10
28 6 0.08
29 40 0.55
30 6 0.08
31 14 0.19
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (29 bp):
AAGTATAGTATCACATTGAACAATTTTAA
Found at i:13093404 original size:31 final size:30
Alignment explanation
Indices: 13093318--13093404 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 30
13093308 ATAGTTCAAA
* *
13093318 TATCACATTGGATATCTTGTCGAAGTATATG
1 TATCACATT-GATATTTTGTCAAAGTATATG
* * *
13093349 TATCATATTGAACAATTT-T-AAAGTATA-G
1 TATCACATTG-ATATTTTGTCAAAGTATATG
13093377 CTATCACATTAGATATTTTGTCAAAGTA
1 -TATCACATT-GATATTTTGTCAAAGTA
13093405 CGTATCATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
28 1 0.02
29 20 0.47
30 4 0.09
31 18 0.42
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (30 bp):
TATCACATTGATATTTTGTCAAAGTATATG
Found at i:13093440 original size:58 final size:59
Alignment explanation
Indices: 13093318--13093444 Score: 159
Period size: 58 Copynumber: 2.2 Consensus size: 59
13093308 ATAGTTCAAA
* * * *
13093318 TATCACATTGGATATCTTGTCGAAGTATATGTATCATATTGAACAATTTTAAAGTATAGC
1 TATCACATTAGATATCTTGTCAAAG-ATACGTATCATATTGAACAATTTTAAAGTACAGC
* * *
13093378 TATCACATTAGATATTTTGTCAAAG-TACGTATCATATTGAA-TATTTTAAAAGTACAGT
1 TATCACATTAGATATCTTGTCAAAGATACGTATCATATTGAACAATTTT-AAAGTACAGC
13093436 TATCACATT
1 TATCACATT
13093445 GAACATTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
57 5 0.08
58 32 0.54
60 22 0.37
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (59 bp):
TATCACATTAGATATCTTGTCAAAGATACGTATCATATTGAACAATTTTAAAGTACAGC
Found at i:13095560 original size:14 final size:14
Alignment explanation
Indices: 13095541--13095570 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13095531 TTCATTTCTG
13095541 AAAAAATAACCTTA
1 AAAAAATAACCTTA
*
13095555 AAAAAATATCCTTA
1 AAAAAATAACCTTA
13095569 AA
1 AA
13095571 CTGAAGTAAC
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:0.63, C:0.13, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAATAACCTTA
Found at i:13101836 original size:31 final size:32
Alignment explanation
Indices: 13101771--13101846 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 32
13101761 AATGACATAT
* * * *
13101771 TATTTTATTATTATTATTTATATGATGTGATA
1 TATTATATTAATATTATTAATATGATATGATA
*
13101803 TATTATATTAATATT-TTAATATGATATGTTA
1 TATTATATTAATATTATTAATATGATATGATA
13101834 TATTATATTAATA
1 TATTATATTAATA
13101847 GTGCGATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 26 0.67
32 13 0.33
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (32 bp):
TATTATATTAATATTATTAATATGATATGATA
Found at i:13103480 original size:17 final size:17
Alignment explanation
Indices: 13103458--13103492 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13103448 TCGGACTTAA
13103458 AAAATATTATAATTATT
1 AAAATATTATAATTATT
*
13103475 AAAATATTATTATTATT
1 AAAATATTATAATTATT
13103492 A
1 A
13103493 TTATTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAAATATTATAATTATT
Found at i:13107016 original size:3 final size:3
Alignment explanation
Indices: 13107008--13107063 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
13106998 TTTGTCCCAT
* *
13107008 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA -AA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13107054 TTA TTA TTA T
1 TTA TTA TTA T
13107064 AGGCCAAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 3 0.06
3 46 0.94
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:13107040 original size:17 final size:17
Alignment explanation
Indices: 13107008--13107063 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 17
13106998 TTTGTCCCAT
13107008 TTATTATTATTATTATTA
1 TTATTATTA-TATTATTA
13107026 TTATTATTATATTATTA
1 TTATTATTATATTATTA
*
13107043 TTATTA-AATAATTATTA
1 TTATTATTAT-ATTATTA
13107060 TTAT
1 TTAT
13107064 AGGCCAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 2 0.06
17 25 0.69
18 9 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTATTATATTATTA
Found at i:13113464 original size:97 final size:96
Alignment explanation
Indices: 13113285--13113467 Score: 285
Period size: 97 Copynumber: 1.9 Consensus size: 96
13113275 GGAATATAAT
* *
13113285 ATTATATGTATACAATAAAGCTTAAATTGTCCCTCTAGAGCAATTAGTTAAACGCCCCGACTTTA
1 ATTATATATATACAATAAAGCTTAAATTGTCCCTCTAGAGCAATTAGTTAAACACCCCGACTTTA
13113350 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
66 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* * * * *
13113381 ATTATAATATATATAATAAAGCTTAAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCTGGCTTT
1 ATTAT-ATATATACAATAAAGCTTAAATTGTCCCTCTAGAGCAATTAGTTAAACACCCCGACTTT
*
13113446 ATGGATAAGATTTAGCTAGCCT
65 ATGGATAAGATTCAGCTAGCCT
13113468 ACTCCTTGGC
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 5 0.06
97 73 0.94
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (96 bp):
ATTATATATATACAATAAAGCTTAAATTGTCCCTCTAGAGCAATTAGTTAAACACCCCGACTTTA
TGGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:13115722 original size:62 final size:61
Alignment explanation
Indices: 13115617--13116093 Score: 485
Period size: 62 Copynumber: 7.7 Consensus size: 61
13115607 TCTTGTTTCC
* * * ** **
13115617 TAGAGTTAATCCTTGACTTCCTCGTGAAGAGAAGTTGACCTTTGTTATTTCTGACTCCTTAG
1 TAGAGTCAATCATTGACTTCCTCGTGAAGAGAAG-TAACCTTTGTTATCCCTGACTCCCCAG
* * * * **
13115679 TAAAGTTAATCATTGACTTCATCGTGAAGAGAAGTAATTCTTTGTTATTTCTGACTCCCCAG
1 TAGAGTCAATCATTGACTTCCTCGTGAAGAGAAGTAA-CCTTTGTTATCCCTGACTCCCCAG
* ** **
13115741 TAGAGTTAATCATTGACTTCCTCGTGAAGAGAAGTCATTCTTTGTTATTTCTGACTCCCCAG
1 TAGAGTCAATCATTGACTTCCTCGTGAAGAGAAGT-AACCTTTGTTATCCCTGACTCCCCAG
* *
13115803 TAGAGTTAATCTTTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATCCCTGACTCCCCAG
1 TAGAGTCAATCATTGACTTCCTCGTGAAGAGAAGT-AACCTTTGTTATCCCTGACTCCCCAG
* * * ** * *
13115865 TAAAGTCAGT-ACTTGGCTTCCTCGAAAAGAGAAGTAAACCTTTGTTATCCCTTACTCTCCAG
1 TAGAGTCAATCA-TTGACTTCCTCGTGAAGAGAAGT-AACCTTTGTTATCCCTGACTCCCCAG
* * * * *
13115927 TAGAGTCAATTC-TTAACTTCCTCGTGAAGAAAAATAAACATTTGTTATCACTGACTCCCCAG
1 TAGAGTCAA-TCATTGACTTCCTCGTGAAGAGAAGT-AACCTTTGTTATCCCTGACTCCCCAG
* ** * *
13115989 TAGAGTCAAT-ATTTGACTTCCTTGTGAAGAGAAGTAAATTTTTGTTATCCCTGACTCCCTAA
1 TAGAGTCAATCA-TTGACTTCCTCGTGAAGAGAAGT-AACCTTTGTTATCCCTGACTCCCCAG
13116051 TAGAGTCAAT-ACTTGACTTCCTCGTGAAGAGAAGTCAACCTTT
1 TAGAGTCAATCA-TTGACTTCCTCGTGAAGAGAAGT-AACCTTT
13116094 TACTATTCCT
Statistics
Matches: 357, Mismatches: 51, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
61 3 0.01
62 352 0.99
63 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (61 bp):
TAGAGTCAATCATTGACTTCCTCGTGAAGAGAAGTAACCTTTGTTATCCCTGACTCCCCAG
Found at i:13115931 original size:186 final size:186
Alignment explanation
Indices: 13115617--13116093 Score: 582
Period size: 186 Copynumber: 2.6 Consensus size: 186
13115607 TCTTGTTTCC
* ** ** *
13115617 TAGAGTTAATCCTTGACTTCCTCGTGAAGAGAAGTTGACCTTTGTTATTTCTGACTCCTTAGTAA
1 TAGAGTTAATCTTTGACTTCCTCGTGAAGAGAAGTAAACCTTTGTTATCCCTGACTCCCTAGTAA
* * ** **
13115682 AGTTAAT-CATTGACTTCATCGTGAAGAGAAGTAATTCTTTGTTATTTCTGACTCCCCAGTAGAG
66 AGTCAATAC-TTGACTTCCTCGTGAAGAGAAGTAAACCTTTGTTATCCCTGACTCCCCAGTAGAG
* * * * ** **
13115746 TTAA-TCATTGACTTCCTCGTGAAGAGAAGTCATTC-TTTGTTATTTCTGACTCCCCAG
130 TCAATTC-TTAACTTCCTCGTGAAGAAAAAT-AAACATTTGTTATCACTGACTCCCCAG
* *
13115803 TAGAGTTAATCTTTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATCCCTGACTCCCCAGTAA
1 TAGAGTTAATCTTTGACTTCCTCGTGAAGAGAAGTAAACCTTTGTTATCCCTGACTCCCTAGTAA
* * ** * *
13115868 AGTCAGTACTTGGCTTCCTCGAAAAGAGAAGTAAACCTTTGTTATCCCTTACTCTCCAGTAGAGT
66 AGTCAATACTTGACTTCCTCGTGAAGAGAAGTAAACCTTTGTTATCCCTGACTCCCCAGTAGAGT
13115933 CAATTCTTAACTTCCTCGTGAAGAAAAATAAACATTTGTTATCACTGACTCCCCAG
131 CAATTCTTAACTTCCTCGTGAAGAAAAATAAACATTTGTTATCACTGACTCCCCAG
* * * ** * *
13115989 TAGAGTCAATATTTGACTTCCTTGTGAAGAGAAGTAAATTTTTGTTATCCCTGACTCCCTAATAG
1 TAGAGTTAATCTTTGACTTCCTCGTGAAGAGAAGTAAACCTTTGTTATCCCTGACTCCCTAGTAA
*
13116054 AGTCAATACTTGACTTCCTCGTGAAGAGAAGTCAACCTTT
66 AGTCAATACTTGACTTCCTCGTGAAGAGAAGTAAACCTTT
13116094 TACTATTCCT
Statistics
Matches: 247, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
185 2 0.01
186 242 0.98
187 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (186 bp):
TAGAGTTAATCTTTGACTTCCTCGTGAAGAGAAGTAAACCTTTGTTATCCCTGACTCCCTAGTAA
AGTCAATACTTGACTTCCTCGTGAAGAGAAGTAAACCTTTGTTATCCCTGACTCCCCAGTAGAGT
CAATTCTTAACTTCCTCGTGAAGAAAAATAAACATTTGTTATCACTGACTCCCCAG
Found at i:13116332 original size:55 final size:55
Alignment explanation
Indices: 13116265--13117064 Score: 316
Period size: 55 Copynumber: 15.5 Consensus size: 55
13116255 CTTACCTTGG
* *
13116265 ATCTTATCTCCCTGAAAGAAGAATGGATCATATCTGTTTTACAAAGATTTCTC-A
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTTTACAAAGATTTCTCGA
* * * * * ** *
13116319 AGTCTTATCTCCCTGAAAGAATAGTGAAGAAGAT-TCGTCTT-C--CCA----T-GG
1 A-TCTTATCTCCCTGAAAGAAGAGTGGAGCATATCT-GTTTTACAAAGATTTCTCGA
* *
13116367 ATCTTATCTCCCTGAAAGAATAGTGGAGCAGATCTGTTTTTACAAAGATTTCTCGA
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTG-TTTTACAAAGATTTCTCGA
* * **
13116423 AACTTATCTCCCTGAAAGAAGAGTAGAGCATATCCATTTTACAAAGATTTCTCGA
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTTTACAAAGATTTCTCGA
* * * *
13116478 ATCTTATCTCCTTGAAATAAGAGTGGAGCATA------TT-C--ATATTTC-CTTA
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTTTACAAAGATTTCTC-GA
* * * * * * * *
13116524 GATCTTATCTCCTTGAAAGAGGAGAGGAGAATAT-TCGTCTT-C-------CCTTGG
1 -ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCT-GTTTTACAAAGATTTCTCGA
* * * * *
13116572 ATTTTATCTCCCTAAAAGAACAGTGGAGCATATCCGTTTTACAAATATTTCTCGA
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTTTACAAAGATTTCTCGA
* * * * * * *
13116627 ATCTTATCT-CATAGAAAGAAGAGTTGAGCAAAT-TCGTCTT-C-------CCTTGG
1 ATCTTATCTCCCT-GAAAGAAGAGTGGAGCATATCT-GTTTTACAAAGATTTCTCGA
* * *
13116674 ATCTTATCTCCCTAAAAGAACAGTGGAGCATAT-TCGTTTTACAAAGATTTCTTGA
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCT-GTTTTACAAAGATTTCTCGA
* * * * * * *
13116729 ATCATATCTCCCTGAAAGAAGAGTGGAGCAGATTTGTCTT-C-------CCTTGG
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTTTACAAAGATTTCTCGA
* * *
13116776 ATCGTATCTCCCTGAAAAAAGAGTGGAGCAGAT-TCGTTTTACAAAGATTTCTC-A
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCT-GTTTTACAAAGATTTCTCGA
* * * * * *
13116830 AACTTTATCTCCCTGAAAGAAGAGTGGAGCAGAT-TCGTCTT-C-------CCTTGG
1 ATC-TTATCTCCCTGAAAGAAGAGTGGAGCATATCT-GTTTTACAAAGATTTCTCGA
* * *
13116878 ATCTTATCTCCTTGAAAGAAGAGTGGAGTAGATCTGTTTTACAAAGATTTCTCGA
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTTTACAAAGATTTCTCGA
* * ** * * *
13116933 ATCTTATCTCCCTGAAAGAAAAGTGGAG--TA---G-ATT-C--ATCTTCCCTTGG
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTTTACAAAGATT-TCTCGA
* * * * *
13116980 ATTTTATCTCCCTAAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTAGA
1 ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTTTACAAAGATTTCTCGA
*
13117035 ATCTTATCTCCCTG-AAGAAATAGTGGAGCA
1 ATCTTATCTCCCTGAAAG-AAGAGTGGAGCA
13117065 GATTCGTCTT
Statistics
Matches: 556, Mismatches: 116, Indels: 147
0.68 0.14 0.18
Matches are distributed among these distances:
45 1 0.00
46 11 0.02
47 224 0.40
48 18 0.03
49 6 0.01
50 1 0.00
51 1 0.00
52 2 0.00
53 6 0.01
54 14 0.03
55 237 0.43
56 35 0.06
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (55 bp):
ATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTTTACAAAGATTTCTCGA
Found at i:13116402 original size:102 final size:102
Alignment explanation
Indices: 13116217--13117982 Score: 1815
Period size: 102 Copynumber: 17.4 Consensus size: 102
13116207 ATCAATTTCG
* *
13116217 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCATATTCGTCTTACCTTGGATCTTATCTCCCTGAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
* * *
13116282 GAAGAATGGATCATATCTGTTTTACAAAGATTTCTCA
66 GAAGAGTGGAGCAGATCTGTTTTACAAAGATTTCTCA
* * * *
13116319 AGTCTTATCTCCCTGAAAGAATAGTGAAGAAGATTCGTCTTCCCATGGATCTTATCTCCCTGAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
*
13116384 GAATAGTGGAGCAGATCTGTTTTTACAAAGATTTCTCGA
66 GAAGAGTGGAGCAGATCTG-TTTTACAAAGATTTCTC-A
* * * * * * * * *
13116423 A-ACTTATCTCCCTGAAAGAAGAGTAGAGCATATCCATTTTACAAAGATTTCTCGAATCTTATCT
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTT-C-------CCTTGGATCTTATCT
* * * * *
13116487 CCTTGAAATAAGAGTGGAGC--A----TATT-C--ATATTTC-CTT
58 CCCTGAAAGAAGAGTGGAGCAGATCTGTTTTACAAAGATTTCTC-A
* * * * * * *
13116523 AGATCTTATCTCCTTGAAAGAGGAGAGGAGAATATTCGTCTTCCCTTGGATTTTATCTCCCTAAA
1 AG-TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAA
* * * *
13116588 AGAACAGTGGAGCATATCCGTTTTACAAATATTTCTCGA
65 AGAAGAGTGGAGCAGATCTGTTTTACAAAGATTTCTC-A
* * * *
13116627 A-TCTTATCT-CATAGAAAGAAGAGTTGAGCAAATTCGTCTTCCCTTGGATCTTATCTCCCTAAA
1 AGTCTTATCTCCCT-GAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAA
* * *
13116690 AGAACAGTGGAGCATAT-TCGTTTTACAAAGATTTCTTGA
65 AGAAGAGTGGAGCAGATCT-GTTTTACAAAGATTTC-TCA
* * *
13116729 A-TCATATCTCCCTGAAAGAAGAGTGGAGCAGATTTGTCTTCCCTTGGATCGTATCTCCCTGAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
*
13116793 AAAGAGTGGAGCAGAT-TCGTTTTACAAAGATTTCTCA
66 GAAGAGTGGAGCAGATCT-GTTTTACAAAGATTTCTCA
* *
13116830 A-ACTTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCTTGAA
1 AGTC-TTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAA
*
13116894 AGAAGAGTGGAGTAGATCTGTTTTACAAAGATTTCTCGA
65 AGAAGAGTGGAGCAGATCTGTTTTACAAAGATTTCTC-A
* * * * *
13116933 A-TCTTATCTCCCTGAAAGAAAAGTGGAGTAGATTCATCTTCCCTTGGATTTTATCTCCCTAAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
*
13116997 GAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCT-A
66 GAAGAGTGGAGCAGATCTGTTTTACAAAGATTTCTCA
* *
13117033 GAATCTTATCTCCCTG-AAGAAATAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGA
1 -AGTCTTATCTCCCTGAAAG-AAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGA
* * * *
13117097 AAGAAGAGTAGAGAAGAT-TCATTTTACAAAGATTTCTCT
64 AAGAAGAGTGGAGCAGATCT-GTTTTACAAAGATTTCTCA
* * * * *
13117136 AGTTTTATCTCCCT----G-A-A----A-CATATTCATCTTCCCTTTGATCTTATCTCCTTGAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
* * * * * *
13117190 GAATAGTGAAGCATATCCGTTTTCCAAAGATTTCTCG
66 GAAGAGTGGAGCAGATCTGTTTTACAAAGATTTCTCA
* * * *
13117227 AGTCTTATCTCCTTGAAA-AAGAGTGGAGCAGATTTGTTTTCCCTTGGATCTTATCTCCTTGAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
* * *
13117291 GAAGAGTGAAGCAAAT-TCGTTTTCCAAAGATTTCTCA
66 GAAGAGTGGAGCAGATCT-GTTTTACAAAGATTTCTCA
* * * *
13117328 AGTCTTATCTCCCTGAAAGAAGAGCGGAACAAATTCTTCTTCCCTTGGATCTTATCTCCCTGAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
* * * * *
13117393 GAAGAGTGGAGTATAT-TCATTTTACAAAGATCTCTCG
66 GAAGAGTGGAGCAGATCT-GTTTTACAAAGATTTCTCA
* * * *
13117430 AGTTTTATCTCCCTGAAAGAATAGTGGAGCATATTCGTCTTCCCTTGGATCTTATCTCCCTAAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
* * * * *
13117495 GAAGCGAGGAGAAGATCCGTTTT-CTAAAGATTTCTCG
66 GAAGAGTGGAGCAGATCTGTTTTAC-AAAGATTTCTCA
* * * *
13117532 CGTCTTATCTCCTTGAGAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTACCTCCCTGAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
* * * * *
13117597 GAAGAGTTGAGTAGATCTGTTTTACAAATATTTATCG
66 GAAGAGTGGAGCAGATCTGTTTTACAAAGATTTCTCA
** * *
13117634 AGTCTTATCTTTCTGAAAAAAGAGTGGAGCATATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
* * *
13117699 GAAGAGTGGAGCAAATCCGTTTTCCAAAGATTTCTCA
66 GAAGAGTGGAGCAGATCTGTTTTACAAAGATTTCTCA
* * * *
13117736 AGTCTTATATCCCTGAAAGAAGAGTGGATCAGATTCGCCTTCCATTGGATCTTATCTCCCTGAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
* * * **
13117801 GAAGAGTGAAGCATATCTGTTTTAC-AAGCATCTCTTG
66 GAAGAGTGGAGCAGATCTGTTTTACAAAG-ATTTCTCA
* * * * * * *
13117838 AGTCATATCTCCCTGAGAGAAAAGTGGAGCAGATCCATTTTCCCTTGGATCTTATCTCCCTTAAA
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
* * * *
13117903 GAAGAGTGGAGCATATCTGTTTTTCAAAGATATCTCG
66 GAAGAGTGGAGCAGATCTGTTTTACAAAGATTTCTCA
* * *
13117940 AGTCTTATCTCCCTGAAAGAAGAGTGAAGCAGATACGTTTTCC
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCC
13117983 AAATATTTCT
Statistics
Matches: 1392, Mismatches: 219, Indels: 106
0.81 0.13 0.06
Matches are distributed among these distances:
91 71 0.05
92 1 0.00
94 27 0.02
95 1 0.00
96 3 0.00
97 1 0.00
99 1 0.00
100 7 0.01
101 102 0.07
102 1075 0.77
103 66 0.05
104 8 0.01
109 1 0.00
111 28 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (102 bp):
AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTGAAA
GAAGAGTGGAGCAGATCTGTTTTACAAAGATTTCTCA
Found at i:13116707 original size:149 final size:149
Alignment explanation
Indices: 13116426--13116710 Score: 390
Period size: 149 Copynumber: 1.9 Consensus size: 149
13116416 TTCTCGAAAC
* * * *
13116426 TTATCTCCCTGAAAGAAGAGTAGAGCATATCCATTTTACAAAGATTTCTCGAATCTTATCTCCTT
1 TTATCTCCCTAAAAGAACAGTAGAGCATATCCATTTTACAAAGATTTCTCGAATCTTATCTCATA
* * * * * **
13116491 GAAATAAGAGTGGAGCATATTCATATTTCCTTAGATCTTATCTCCTTGAAAGAGGAGAGGAGAAT
66 GAAAGAAGAGTGGAGCAAATTCATATTCCCTTAGATCTTATCTCCCTAAAAGAACAGAGGAGAAT
13116556 ATTCGTCTTCCCTTGGATT
131 ATTCGTCTTCCCTTGGATT
* * *
13116575 TTATCTCCCTAAAAGAACAGTGGAGCATATCCGTTTTACAAATATTTCTCGAATCTTATCTCATA
1 TTATCTCCCTAAAAGAACAGTAGAGCATATCCATTTTACAAAGATTTCTCGAATCTTATCTCATA
* * * * * *
13116640 GAAAGAAGAGTTGAGCAAATTCGTCTTCCCTTGGATCTTATCTCCCTAAAAGAACAGTGGAGCAT
66 GAAAGAAGAGTGGAGCAAATTCATATTCCCTTAGATCTTATCTCCCTAAAAGAACAGAGGAGAAT
13116705 ATTCGT
131 ATTCGT
13116711 TTTACAAAGA
Statistics
Matches: 116, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
149 116 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (149 bp):
TTATCTCCCTAAAAGAACAGTAGAGCATATCCATTTTACAAAGATTTCTCGAATCTTATCTCATA
GAAAGAAGAGTGGAGCAAATTCATATTCCCTTAGATCTTATCTCCCTAAAAGAACAGAGGAGAAT
ATTCGTCTTCCCTTGGATT
Found at i:13117980 original size:55 final size:55
Alignment explanation
Indices: 13117886--13118025 Score: 192
Period size: 55 Copynumber: 2.5 Consensus size: 55
13117876 TTTCCCTTGG
* *
13117886 ATCTTATCTCCCTTAAAGAAGAGTGGAGCATATCTGTTTTTCAAAGATATCTCGA
1 ATCTTATCTCCCTTAAAGAAGAGTGGAGCAGATCTGTTTTCCAAAGATATCTCGA
* * * * * *
13117941 GTCTTATCTCCCTGAAAGAAGAGTGAAGCAGATAC-GTTTTCCAAATATTTCTTGA
1 ATCTTATCTCCCTTAAAGAAGAGTGGAGCAGAT-CTGTTTTCCAAAGATATCTCGA
13117996 ATCTTATCTCCCTTAAAGAAGAGTGGAGCA
1 ATCTTATCTCCCTTAAAGAAGAGTGGAGCA
13118026 AATTTCCCAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
55 72 0.99
56 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (55 bp):
ATCTTATCTCCCTTAAAGAAGAGTGGAGCAGATCTGTTTTCCAAAGATATCTCGA
Found at i:13118170 original size:17 final size:17
Alignment explanation
Indices: 13118148--13118180 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13118138 TTTGTCCCAT
13118148 TTATTATATT-ATTATTA
1 TTATTA-ATTAATTATTA
13118165 TTATTAATTAATTATT
1 TTATTAATTAATTATT
13118181 TTTACAGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAATTAATTATTA
Found at i:13120670 original size:21 final size:21
Alignment explanation
Indices: 13120641--13120940 Score: 282
Period size: 21 Copynumber: 14.6 Consensus size: 21
13120631 ACTTCGACTA
*
13120641 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
* *
13120662 TCGTGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
** *
13120683 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATAGTCCAAGT
*
13120704 T--CGTTTCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
13120723 T--CGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
* *
13120742 TCGCGTTGCGATTTATTCCAAAT
1 TCGCGTTGCGA--TAGTCCAAGT
*
13120765 T--CGTTGCTATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
* *
13120784 TCGCGTTGCGATTTATTCCAAAT
1 TCGCGTTGCGA--TAGTCCAAGT
13120807 T--CGTTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
13120826 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
** *
13120847 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATAGTCCAAGT
*
13120868 T--CGTTGCGATAGTCAAAGT
1 TCGCGTTGCGATAGTCCAAGT
* *
13120887 TCGCGTTGCGATTTATTCCAAAT
1 TCGCGTTGCGA--TAGTCCAAGT
13120910 T--CGTTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
13120929 TCGCGTTGCGAT
1 TCGCGTTGCGAT
13120941 TTATTCCAAA
Statistics
Matches: 224, Mismatches: 39, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
19 74 0.33
21 125 0.56
23 25 0.11
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:13120724 original size:61 final size:62
Alignment explanation
Indices: 13120646--13120954 Score: 275
Period size: 61 Copynumber: 5.0 Consensus size: 62
13120636 GACTATCGCA
13120646 TTGCGATAGTCCAAGTTCGTGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGATAGTCCAAGTTCG-GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
13120707 TTTCGATAGTCCAAGTTC-GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * * * * *
13120768 TTGCTATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT--CGTTGCGA--TAGTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCG-GTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT--
13120829 CG
61 CG
* ** * * *
13120831 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT--CGTTGCGA--TAGT-CAAAGTTCGC
1 TTGCGATAGTCCAAGTTCG-GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAA-TT--C
13120891 G
62 G
* * *
13120892 TTGCGATTTATTCCAAATTC-GTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCGGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
13120955 CAACGACTGG
Statistics
Matches: 213, Mismatches: 19, Indels: 30
0.81 0.07 0.11
Matches are distributed among these distances:
59 28 0.13
60 5 0.02
61 102 0.48
63 61 0.29
65 13 0.06
66 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (62 bp):
TTGCGATAGTCCAAGTTCGGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:13120768 original size:103 final size:102
Alignment explanation
Indices: 13120666--13120940 Score: 457
Period size: 103 Copynumber: 2.7 Consensus size: 102
13120656 CCAAGTTCGT
* *
13120666 GTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTTCGATAGTCCAAGTT-CGTT
1 GTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCCGTT
13120728 GCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
66 GCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTC
* *
13120767 GTTGCTATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 GTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTC-CGT
13120832 TGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
65 TGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
13120870 GTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 GTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTC-CGT
13120935 TGCGAT
65 TGCGAT
13120941 TTATTCCAAA
Statistics
Matches: 165, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
101 26 0.16
102 2 0.01
103 106 0.64
104 2 0.01
105 29 0.18
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (102 bp):
GTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCCGTT
GCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
Found at i:13120876 original size:145 final size:143
Alignment explanation
Indices: 13120666--13120954 Score: 461
Period size: 145 Copynumber: 2.0 Consensus size: 143
13120656 CCAAGTTCGT
* ** * *
13120666 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTTCGATAGTCCAAGTTCGTTGCG
1 GTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTCGTTGCGATAGTCCAAATTCGTTGCG
* *
13120731 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCTATAGTCCAAGTTCGCGTTGCGAT
66 ATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGAT
13120796 TTATTCCAAATTC
131 TTATTCCAAATTC
* * **
13120809 GTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTG
1 GTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATT--CGTTGCGATAGTCCAAATTCGTTG
13120874 CGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCG
64 CGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCG
13120939 ATTTATTCCAAATTC
129 ATTTATTCCAAATTC
13120954 G
1 G
13120955 CAACGACTGG
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
143 34 0.26
145 99 0.74
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (143 bp):
GTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTCGTTGCGATAGTCCAAATTCGTTGCG
ATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGAT
TTATTCCAAATTC
Found at i:13121558 original size:5 final size:5
Alignment explanation
Indices: 13121544--13121574 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
13121534 TCGCCGCCGC
13121544 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CG
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
13121575 GGTCGGGTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.00, C:0.42, G:0.23, T:0.35
Consensus pattern (5 bp):
CGTCT
Found at i:13121596 original size:6 final size:6
Alignment explanation
Indices: 13121575--13121610 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
13121565 TCTCGTCTCG
13121575 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GG
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GG
13121611 AATAAATCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.00, C:0.17, G:0.56, T:0.28
Consensus pattern (6 bp):
GGTCGT
Found at i:13121638 original size:23 final size:23
Alignment explanation
Indices: 13121608--13121736 Score: 116
Period size: 23 Copynumber: 6.0 Consensus size: 23
13121598 GTCGTGGTCG
13121608 TGGAATAAATCGCAACACGAACT
1 TGGAATAAATCGCAACACGAACT
*
13121631 TGGAATAAATCGCAACGCGAACT
1 TGGAATAAATCGCAACACGAACT
* *
13121654 TGGACT--ATCGC-A-ACGAATT
1 TGGAATAAATCGCAACACGAACT
*
13121673 TGGAATAAATCGCAACGCGAACT
1 TGGAATAAATCGCAACACGAACT
* * *
13121696 TCGACT--ATCGC-A-ACGAATT
1 TGGAATAAATCGCAACACGAACT
*
13121715 TGG-A-AAATCGCAACGCGAACT
1 TGGAATAAATCGCAACACGAACT
13121736 T
1 T
13121737 CGACTATCGC
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
19 22 0.27
20 3 0.04
21 21 0.25
22 1 0.01
23 36 0.43
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (23 bp):
TGGAATAAATCGCAACACGAACT
Found at i:13121665 original size:21 final size:21
Alignment explanation
Indices: 13121616--13121775 Score: 157
Period size: 21 Copynumber: 7.6 Consensus size: 21
13121606 CGTGGAATAA
* *
13121616 ATCGCAACACGAACTTGGAAT
1 ATCGCAACGCGAACTTGGACT
13121637 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
* *
13121660 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
13121679 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
* **
13121702 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
13121721 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
13121742 ATCGCAATGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
13121763 ATCGCAATGCGAA
1 ATCGCAACGCGAA
13121776 TATGTAAATC
Statistics
Matches: 114, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
19 25 0.22
21 61 0.54
23 28 0.25
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:13121677 original size:42 final size:42
Alignment explanation
Indices: 13121624--13121748 Score: 218
Period size: 42 Copynumber: 3.0 Consensus size: 42
13121614 AAATCGCAAC
* *
13121624 ACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCA
1 ACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCA
13121666 ACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCA
1 ACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCA
13121708 ACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCA
1 ACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCA
13121748 A
1 A
13121749 TGCGAACTTG
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
40 30 0.37
41 1 0.01
42 50 0.62
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (42 bp):
ACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCA
Found at i:13121775 original size:42 final size:41
Alignment explanation
Indices: 13121624--13121775 Score: 209
Period size: 42 Copynumber: 3.7 Consensus size: 41
13121614 AAATCGCAAC
*
13121624 ACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCA
1 ACGAACTTGGAAT-AATCGCAACGCGAACTTCGACTATCGCA
*
13121666 ACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCA
1 ACGAACTTGGAAT-AATCGCAACGCGAACTTCGACTATCGCA
*
13121708 ACGAATTTGGAA-AATCGCAACGCGAACTTCGACTATCGCA
1 ACGAACTTGGAATAATCGCAACGCGAACTTCGACTATCGCA
* *
13121748 ATGCGAACTTGGACT-ATCGCAATGCGAA
1 A--CGAACTTGGAATAATCGCAACGCGAA
13121776 TATGTAAATC
Statistics
Matches: 102, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
40 29 0.28
42 73 0.72
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (41 bp):
ACGAACTTGGAATAATCGCAACGCGAACTTCGACTATCGCA
Found at i:13127843 original size:15 final size:15
Alignment explanation
Indices: 13127824--13127890 Score: 75
Period size: 15 Copynumber: 4.4 Consensus size: 15
13127814 TTAGTAATTT
13127824 AATTTTTAT-TTTAA
1 AATTTTTATATTTAA
13127838 ATATTTTTATATTTAA
1 A-ATTTTTATATTTAA
* *
13127854 AATTTTGAATATTT-C
1 AATTTT-TATATTTAA
13127869 AATATTTTATATTTAA
1 AAT-TTTTATATTTAA
13127885 AATTTT
1 AATTTT
13127891 AAATTTAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
14 1 0.02
15 25 0.57
16 18 0.41
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (15 bp):
AATTTTTATATTTAA
Found at i:13127859 original size:24 final size:26
Alignment explanation
Indices: 13127831--13127894 Score: 69
Period size: 31 Copynumber: 2.3 Consensus size: 26
13127821 TTTAATTTTT
13127831 ATTTTAAAT-AT-TTTTATATTTAAA
1 ATTTTAAATAATATTTTATATTTAAA
13127855 ATTTTGAATATTTCAATATTTTATATTTAAA
1 ATTTT-AA-A--T-AATATTTTATATTTAAA
13127886 ATTTTAAAT
1 ATTTTAAAT
13127895 TTAAGATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
24 5 0.15
25 2 0.06
26 1 0.03
27 1 0.03
28 1 0.03
29 1 0.03
30 4 0.12
31 18 0.55
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
ATTTTAAATAATATTTTATATTTAAA
Found at i:13129317 original size:29 final size:29
Alignment explanation
Indices: 13129262--13129317 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
13129252 CCGTTGATCA
* * * *
13129262 GGTGATATTTTAATAATTATTTTGAAACT
1 GGTGATATATTAAGAATTAATTCGAAACT
*
13129291 GGTGATATATTAGGAATTAATTCGAAA
1 GGTGATATATTAAGAATTAATTCGAAA
13129318 AGGGTGCTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.41
Consensus pattern (29 bp):
GGTGATATATTAAGAATTAATTCGAAACT
Found at i:13129362 original size:22 final size:23
Alignment explanation
Indices: 13129328--13129372 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
13129318 AGGGTGCTAT
*
13129328 TTTTTGTAA-TTTTTAAAAAATA
1 TTTTCGTAATTTTTTAAAAAATA
*
13129350 TTTTCGTACTTTTTTTAAAAAAT
1 TTTTCGTA-ATTTTTTAAAAAAT
13129373 GACATTTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTTCGTAATTTTTTAAAAAATA
Found at i:13129442 original size:29 final size:30
Alignment explanation
Indices: 13129387--13129444 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
13129377 TTTAGTAAAT
*
13129387 ATTTTGAAAATGGTGCTATATTGGTAATTA
1 ATTTTGAAAATGGTGCTATATTCGTAATTA
*
13129417 ATTTT-AAAATGGTGCTATTTTCGTAATT
1 ATTTTGAAAATGGTGCTATATTCGTAATT
13129445 TGAAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.47
Consensus pattern (30 bp):
ATTTTGAAAATGGTGCTATATTCGTAATTA
Found at i:13138195 original size:20 final size:21
Alignment explanation
Indices: 13138170--13138221 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
13138160 TTTTCCCAAT
*
13138170 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
13138190 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
13138211 TCGCAATGCGA
1 TCGCAATGCGA
13138222 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:13138235 original size:20 final size:20
Alignment explanation
Indices: 13138210--13138303 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
13138200 AATTGGGAAA
13138210 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
13138230 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
13138250 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
13138271 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
13138291 TTCGCAACGCGAT
1 ATCGCAATGCGAT
13138304 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.73
21 13 0.21
22 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:13138855 original size:19 final size:18
Alignment explanation
Indices: 13138817--13138902 Score: 100
Period size: 19 Copynumber: 4.5 Consensus size: 18
13138807 TTCGAGAATG
13138817 AAAATCGCAACGCGGAAAT
1 AAAATCGCAACGC-GAAAT
*
13138836 AACTATCGCAACGCGAAAT
1 AA-AATCGCAACGCGAAAT
*
13138855 AAAAATCGCAACGCGAAACC
1 -AAAATCGCAACGCGAAA-T
*
13138875 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAA-T
13138894 AAAATCGCA
1 AAAATCGCA
13138903 TTGCGTGGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
19 49 0.80
20 12 0.20
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (18 bp):
AAAATCGCAACGCGAAAT
Found at i:13138891 original size:38 final size:39
Alignment explanation
Indices: 13138817--13138902 Score: 113
Period size: 38 Copynumber: 2.2 Consensus size: 39
13138807 TTCGAGAATG
* * *
13138817 AAAATCGCAACGCGGAAATAACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGGAAACAACAATCGCAACGCGAAACA
*
13138856 AAAATCGCAACGC-GAAACCAA-AATCGCAACGCGAAACC
1 AAAATCGCAACGCGGAAA-CAACAATCGCAACGCGAAACA
13138894 AAAATCGCA
1 AAAATCGCA
13138903 TTGCGTGGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 27 0.64
39 15 0.36
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (39 bp):
AAAATCGCAACGCGGAAACAACAATCGCAACGCGAAACA
Found at i:13141219 original size:12 final size:12
Alignment explanation
Indices: 13141202--13141226 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13141192 TCTTCGGGGA
13141202 CTTTTTCTTCTT
1 CTTTTTCTTCTT
13141214 CTTTTTCTTCTT
1 CTTTTTCTTCTT
13141226 C
1 C
13141227 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:13141435 original size:24 final size:24
Alignment explanation
Indices: 13141401--13141454 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
13141391 CTAAAACATC
* *
13141401 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
13141425 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
13141449 ATCAAA
1 ATCAAA
13141455 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:13142528 original size:20 final size:20
Alignment explanation
Indices: 13142471--13142521 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
13142461 ATTCATTTGA
13142471 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
13142491 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
13142511 CTATCGCAACG
1 CTATCGCAACG
13142522 AGGAAATCGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:13142588 original size:19 final size:19
Alignment explanation
Indices: 13142547--13142652 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
13142537 GAAATGAAAA
13142547 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
13142563 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
13142580 TCGCATTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
*
13142599 TCGCATTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
13142618 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
13142637 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
13142653 TCGTTGCGAT
Statistics
Matches: 81, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.14
16 3 0.04
17 3 0.04
19 64 0.79
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:13142672 original size:20 final size:20
Alignment explanation
Indices: 13142647--13142684 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13142637 TCGCATTGCG
*
13142647 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
13142667 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
13142685 TCTGTTTTTC
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:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:13142789 original size:14 final size:14
Alignment explanation
Indices: 13142770--13142806 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13142760 CATCAATTAA
13142770 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
13142784 ACAAATCATCTTTT
1 ACAAATCAACATTT
13142798 ACAAATCAA
1 ACAAATCAA
13142807 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:13144697 original size:19 final size:19
Alignment explanation
Indices: 13144654--13144738 Score: 71
Period size: 20 Copynumber: 4.4 Consensus size: 19
13144644 TAGTTTACTT
*
13144654 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAA-TGAAAA
**
13144674 TCGCAACACGAAATGACTA
1 TCGCAACACGAAATGAAAA
* ***
13144693 TCGCAACGCGGAAATGGCTA
1 TCGCAACAC-GAAATGAAAA
**
13144713 TCGCAATGCGAAATGAAAA
1 TCGCAACACGAAATGAAAA
13144732 TCGCAAC
1 TCGCAAC
13144739 GACAAAATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
19 24 0.44
20 30 0.56
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.15
Consensus pattern (19 bp):
TCGCAACACGAAATGAAAA
Found at i:13144708 original size:20 final size:19
Alignment explanation
Indices: 13144673--13144739 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
13144663 GAAACTTAAA
*
13144673 ATCGCAACACGAAATGACT
1 ATCGCAACGCGAAATGACT
*
13144692 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
13144712 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
13144731 ATCGCAACG
1 ATCGCAACG
13144740 ACAAAATTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 23 0.57
20 17 0.43
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:13144751 original size:14 final size:14
Alignment explanation
Indices: 13144728--13144785 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
13144718 ATGCGAAATG
13144728 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
13144742 AAAATTGCAATGCGAA
1 AAAATCGCAA--CGAC
13144758 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
13144774 AAAATCGCAACG
1 AAAATCGCAACG
13144786 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:13144770 original size:32 final size:33
Alignment explanation
Indices: 13144712--13144790 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
13144702 GGAAATGGCT
13144712 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
13144745 ATTGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
13144777 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
13144791 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 28 0.65
33 15 0.35
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:13144838 original size:14 final size:14
Alignment explanation
Indices: 13144819--13144876 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
13144809 TTTCATTTCG
13144819 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
13144833 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
13144849 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
13144865 CGTTGCGATTTT
1 CGTTGCGATTTT
13144877 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:13144883 original size:33 final size:33
Alignment explanation
Indices: 13144802--13144892 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
13144792 ACAAATCGCA
*
13144802 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
13144835 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
13144867 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
13144893 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:13144911 original size:20 final size:19
Alignment explanation
Indices: 13144877--13144931 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
13144867 TTGCGATTTT
*
13144877 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
13144896 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
13144916 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
13144932 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:13145074 original size:50 final size:50
Alignment explanation
Indices: 13145002--13145101 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
13144992 AGACAAAAAC
13145002 AAAACCAAAAACAAATACTAACAAAAACAGTTTAGCAGTATTGGCAGCAA
1 AAAACCAAAAACAAATACTAACAAAAACAGTTTAGCAGTATTGGCAGCAA
13145052 AAAACCAAAAACAAATACTAACAAAAACAGTTTAGCAGTATTGGCAGCAA
1 AAAACCAAAAACAAATACTAACAAAAACAGTTTAGCAGTATTGGCAGCAA
13145102 CCGAATGAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.54, C:0.18, G:0.12, T:0.16
Consensus pattern (50 bp):
AAAACCAAAAACAAATACTAACAAAAACAGTTTAGCAGTATTGGCAGCAA
Found at i:13145507 original size:18 final size:18
Alignment explanation
Indices: 13145465--13145507 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13145455 CGATCAGATG
* *
13145465 ATGGCTCTGGGTGAGGTG
1 ATGGCTCTGGGCGAGGTA
*
13145483 ATAGCTCTGGGCGAGGTA
1 ATGGCTCTGGGCGAGGTA
13145501 ATGGCTC
1 ATGGCTC
13145508 CCGAAGTGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.26
Consensus pattern (18 bp):
ATGGCTCTGGGCGAGGTA
Found at i:13147151 original size:22 final size:21
Alignment explanation
Indices: 13147117--13147165 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
13147107 TCTGAGAGAT
13147117 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
*
13147137 GGAGATGAGGACGGATTTCGTC
1 GGAGATGA-GACGGATTTCGCC
13147159 GGAGATG
1 GGAGATG
13147166 GGTGAGAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 6 0.23
21 1 0.04
22 19 0.73
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:13147380 original size:20 final size:20
Alignment explanation
Indices: 13147355--13147407 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
13147345 GATTATGTAT
*
13147355 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
13147375 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
13147395 TATCTCGTTGCGA
1 TATCGCGTTGCGA
13147408 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:13147441 original size:20 final size:20
Alignment explanation
Indices: 13147335--13147449 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
13147325 CGCTTTGAAA
*
13147335 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
13147356 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
13147376 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
13147396 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
13147417 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*
13147437 ATCGCACTGCGAT
1 ATCGCATTGCGAT
13147450 TTTCCCAATT
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
19 2 0.03
20 49 0.65
21 24 0.32
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:13147448 original size:41 final size:41
Alignment explanation
Indices: 13147375--13147452 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
13147365 CGAAAGTCAG
* * **
13147375 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCACTGCGATTTTTTAT
* *
13147416 TATCGCATTGCGATAGTCAGTATCGCACTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCACTGCGATTTT
13147453 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCACTGCGATTTTTTAT
Found at i:13147468 original size:21 final size:21
Alignment explanation
Indices: 13147444--13147512 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
13147434 AGTATCGCAC
13147444 TGCGATTTTCCCAATTCGCGT
1 TGCGATTTTCCCAATTCGCGT
* ** *
13147465 TGCGA-TTTACTTATTCGCAT
1 TGCGATTTTCCCAATTCGCGT
13147485 TGCGATTTTCCCAATTCGCGT
1 TGCGATTTTCCCAATTCGCGT
13147506 TGCGATT
1 TGCGATT
13147513 ATTTATTCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.41
21 23 0.59
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.41
Consensus pattern (21 bp):
TGCGATTTTCCCAATTCGCGT
Found at i:13147468 original size:41 final size:41
Alignment explanation
Indices: 13147438--13147529 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
13147428 ATAGTCAGTA
* *
13147438 TCGCACTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCACTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* **
13147479 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATT-ATTTAT
1 TCGCACTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
*
13147519 TCGCATTGCGA
1 TCGCACTGCGA
13147530 ATTGGGAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 16 0.33
41 33 0.67
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (41 bp):
TCGCACTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:13153102 original size:22 final size:23
Alignment explanation
Indices: 13153077--13153132 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
13153067 TTAATTTTAC
*
13153077 TATTAATTTTTA-AAATTAAATA
1 TATTAATTTTTATAAACTAAATA
* *
13153099 TATTAATTATTATTAACTAAATA
1 TATTAATTTTTATAAACTAAATA
13153122 -ATGTAATTTTT
1 TAT-TAATTTTT
13153133 TTATTTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTAATTTTTATAAACTAAATA
Found at i:13155307 original size:21 final size:21
Alignment explanation
Indices: 13155278--13155330 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
13155268 ATTCTGACTA
13155278 TCGCATTGCGATTTT-CTAAAT
1 TCGCATTGCGATTTTCCT-AAT
*
13155299 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
*
13155320 TCGCAATGCGA
1 TCGCATTGCGA
13155331 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCTAAT
Found at i:13155345 original size:20 final size:20
Alignment explanation
Indices: 13155320--13155360 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13155310 TTTTCCTAAT
13155320 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
13155340 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
13155360 T
1 T
13155361 TGTAACGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:13155596 original size:22 final size:22
Alignment explanation
Indices: 13155571--13155636 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
13155561 GGCGACATCC
13155571 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
13155593 GTCCCCATCTCTGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
13155615 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
13155637 TTCACGATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:13156031 original size:20 final size:20
Alignment explanation
Indices: 13156006--13156053 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13155996 CAATTCTTGC
13156006 GTTGCGATAGTCAAATTCGT
1 GTTGCGATAGTCAAATTCGT
** **
13156026 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCAAATTCGT
13156046 GTTGCGAT
1 GTTGCGAT
13156054 TTAAAGTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.44
Consensus pattern (20 bp):
GTTGCGATAGTCAAATTCGT
Found at i:13156063 original size:20 final size:20
Alignment explanation
Indices: 13156021--13156063 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13156011 GATAGTCAAA
** *
13156021 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTAAAGT
13156041 TTCGTGTTGCGATTTAAAGT
1 TTCGTGTTGCGATTTAAAGT
13156061 TTC
1 TTC
13156064 AGAAACTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.51
Consensus pattern (20 bp):
TTCGTGTTGCGATTTAAAGT
Found at i:13157998 original size:20 final size:20
Alignment explanation
Indices: 13157975--13158061 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
13157965 CAAAAACAAA
*
13157975 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
13157995 ATCGCAATGCAAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
13158015 ATCACAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
13158035 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
13158055 ATCGCAA
1 ATCGCAA
13158062 CGAAAGAATC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:13158008 original size:33 final size:33
Alignment explanation
Indices: 13157908--13158008 Score: 98
Period size: 33 Copynumber: 3.0 Consensus size: 33
13157898 AATAGTTTCT
* *
13157908 ATCGCAATGCAAAAATGACTATCGCAACGAG-AGA
1 ATCGCAATGCGAAAATGACTATCGCAA--AGCAAA
** *
13157942 ATCGCAATGCG-AAATGAAAATCGCAAAAACAAA
1 ATCGCAATGCGAAAATGACTATCGC-AAAGCAAA
* *
13157975 ATCGCAACGCGAAAATGACTATCGCAATGCAAA
1 ATCGCAATGCGAAAATGACTATCGCAAAGCAAA
13158008 A
1 A
13158009 ATGACTATCA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
32 1 0.02
33 30 0.56
34 23 0.43
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAAATGACTATCGCAAAGCAAA
Found at i:13158197 original size:20 final size:20
Alignment explanation
Indices: 13158105--13158229 Score: 157
Period size: 20 Copynumber: 6.3 Consensus size: 20
13158095 CGATTTCTCG
*
13158105 TTGCGATAGTCAAATTT-GCA
1 TTGCGATAGTC-ATTTTCGCA
* **
13158125 CTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
13158145 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
13158165 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
* *
13158185 TTGCGATAGTCATTTTCACG
1 TTGCGATAGTCATTTTCGCA
13158205 TTGCGATAGTCATTTTC-C-
1 TTGCGATAGTCATTTTCGCA
13158223 TTGCGAT
1 TTGCGAT
13158230 TTTAAGTTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
18 7 0.07
19 5 0.05
20 85 0.88
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Done.