Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_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: 5609167
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 23
Found at i:3317847 original size:19 final size:19
Alignment explanation
Indices: 3317822--3317935 Score: 157
Period size: 19 Copynumber: 6.2 Consensus size: 19
3317812 TCGCAACGTG
3317822 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
*
3317841 TAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
3317860 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
3317879 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
3317896 G-AGTG--AATCGCAATGC
1 GAAATGAAAATCGCAATGC
*
3317912 GAAAATGAAAATCGCAACGC
1 G-AAATGAAAATCGCAATGC
3317932 GAAA
1 GAAA
3317936 CTAATTTTGC
Statistics
Matches: 84, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
14 8 0.10
16 5 0.06
17 2 0.02
18 3 0.04
19 55 0.65
20 11 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:3317961 original size:19 final size:19
Alignment explanation
Indices: 3317939--3318098 Score: 106
Period size: 19 Copynumber: 8.8 Consensus size: 19
3317929 CGCGAAACTA
*
3317939 ATTTTGCGTTGCGATTTTC
1 ATTTTGCATTGCGATTTTC
*
3317958 ATTTTCGCATTGC-A-ATTC
1 ATTTT-GCATTGCGATTTTC
* * * *
3317976 A--CT-CGTTGTGATTTTT
1 ATTTTGCATTGCGATTTTC
* *
3317992 ATTTCGCATTGTGATTTTC
1 ATTTTGCATTGCGATTTTC
*
3318011 ATTTCGCATTGCGATTTTC
1 ATTTTGCATTGCGATTTTC
3318030 ATTTTCGCATTGCGA--TTC
1 ATTTT-GCATTGCGATTTTC
* * *
3318048 A--CT-CGTTGCGATTTTT
1 ATTTTGCATTGCGATTTTC
*
3318064 ATTTCGCATTGCGATTTTC
1 ATTTTGCATTGCGATTTTC
*
3318083 ATTTCGCATTGCGATT
1 ATTTTGCATTGCGATT
3318099 CTCTCGTTGC
Statistics
Matches: 109, Mismatches: 20, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
14 11 0.10
15 1 0.01
16 8 0.07
18 8 0.07
19 66 0.61
20 15 0.14
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.49
Consensus pattern (19 bp):
ATTTTGCATTGCGATTTTC
Found at i:3317999 original size:72 final size:72
Alignment explanation
Indices: 3317923--3318098 Score: 199
Period size: 72 Copynumber: 2.4 Consensus size: 72
3317913 AAAATGAAAA
* * *
3317923 TCGCAACGCGAAACTAATTTTGCGTTGCGATTTTCATTTTCGCATTGCAATTCACTCGTTGTGAT
1 TCGCAACGCGAAACTAATTTCGCATTGCGATTTTCATTTTCGCATTGCAATTCACTCGTTGCGAT
3317988 TTTTATT
66 TTTTATT
** * *** * *
3317995 TCGCATTGTGATTTTCATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGAT
1 TCGCAACGCGAAACTAATTTCGCATTGCGATTTTCATTTTCGCATTGCAATTCACTCGTTGCGAT
3318060 TTTTATT
66 TTTTATT
** *** *
3318067 TCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TCGCAACGCGAAACTAATTTCGCATTGCGATT
3318099 CTCTCGTTGC
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 92 1.00
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (72 bp):
TCGCAACGCGAAACTAATTTCGCATTGCGATTTTCATTTTCGCATTGCAATTCACTCGTTGCGAT
TTTTATT
Found at i:3318110 original size:52 final size:53
Alignment explanation
Indices: 3318004--3318131 Score: 195
Period size: 53 Copynumber: 2.4 Consensus size: 53
3317994 TTCGCATTGT
3318004 GATTTTCATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGC
* *
3318057 GATTTTTATTTCGCATTGCGATTTTCA-TTTCGCATTGCGATTCTCTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGC
** *
3318109 GATAGTCATTTCCGCGTTGCGAT
1 GATTTTCATTT-CGCATTGCGAT
3318132 AGTCAATTCC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 32 0.47
53 36 0.53
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.45
Consensus pattern (53 bp):
GATTTTCATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGC
Found at i:3318127 original size:72 final size:72
Alignment explanation
Indices: 3317947--3318131 Score: 207
Period size: 72 Copynumber: 2.6 Consensus size: 72
3317937 TAATTTTGCG
* * * * * * *
3317947 TTGCGATTTTCATTTTCGCATTGCAATTCACTCGTTGTGATTTTTATTTCGCATTGTGATTTTCA
1 TTGCGATTTTCAGTTGCGCATAGCGATTCACGCGTTGCGATTTTTATTTCGCATTGCGATTTTCA
3318012 TTTCGCA
66 TTTCGCA
* * * *
3318019 TTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTTATTTCGCATTGCGATTTTCA
1 TTGCGATTTTCAGTTGCGCATAGCGATTCACGCGTTGCGATTTTTATTTCGCATTGCGATTTTCA
3318084 TTTCGCA
66 TTTCGCA
3318091 TTGCGATTCTCTC-GTTGCG-ATAGTC-ATTTC-CGCGTTGCGAT
1 TTGCGATT-T-TCAGTTGCGCATAG-CGA-TTCACGCGTTGCGAT
3318132 AGTCAATTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
72 91 0.89
73 9 0.09
74 2 0.02
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (72 bp):
TTGCGATTTTCAGTTGCGCATAGCGATTCACGCGTTGCGATTTTTATTTCGCATTGCGATTTTCA
TTTCGCA
Found at i:3318128 original size:20 final size:20
Alignment explanation
Indices: 3318103--3318157 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
3318093 GCGATTCTCT
* *
3318103 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCAATTCCA
3318123 CGTTGCGATAGTCAATTCCA
1 CGTTGCGATAGTCAATTCCA
*
3318143 CATTGCGATAGTCAA
1 CGTTGCGATAGTCAA
3318158 ATGAATGTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCA
Found at i:3324362 original size:32 final size:31
Alignment explanation
Indices: 3324324--3324400 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
3324314 CAGAGCCGTG
* *
3324324 GGGCCTACCTAAGAACACATCTTAGGGCTGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
3324356 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
3324387 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
3324401 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:3324393 original size:63 final size:63
Alignment explanation
Indices: 3324277--3324400 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
3324267 CCCTAAGGGA
* ** *
3324277 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCAGAGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGAGCCGCAGAGCCTACCTAAGAAC
* * *
3324340 ACATCTTAGGG-CTGCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGAGCCGCAGAGCCTACCTAAGA
3324401 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 4 0.08
63 48 0.92
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGAGCCGCAGAGCCTACCTAAGAAC
Found at i:3325298 original size:17 final size:17
Alignment explanation
Indices: 3325276--3325341 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
3325266 GAAAGTCAAC
3325276 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
3325293 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
3325310 GGTC-A--GTCAGGTCG
1 GGTCAACGGTCGGGTCG
3325324 GGTCAGACGGGTCGGGTC
1 GGTCA-AC-GGTCGGGTC
3325342 AGACCGGTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
14 12 0.29
16 2 0.05
17 20 0.49
19 7 0.17
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:3325322 original size:14 final size:14
Alignment explanation
Indices: 3325284--3325343 Score: 75
Period size: 14 Copynumber: 4.1 Consensus size: 14
3325274 ACGGTCAACG
3325284 GTCGGGTCGGGTCAACA
1 GTCGGGTCGGGT---CA
3325301 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
*
3325315 GTCAGGTCGGGTCA
1 GTCGGGTCGGGTCA
*
3325329 GACGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3325343 G
1 G
3325344 ACCGGTCCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
14 28 0.70
17 12 0.30
ACGTcount: A:0.13, C:0.22, G:0.47, T:0.18
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:3325344 original size:14 final size:14
Alignment explanation
Indices: 3325303--3325350 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
3325293 GGTCAACAGT
*
3325303 CGGGTCGGGTCAGT
1 CGGGTCGGGTCAGA
*
3325317 CAGGTCGGGTCAGA
1 CGGGTCGGGTCAGA
3325331 CGGGTCGGGTCAGA
1 CGGGTCGGGTCAGA
*
3325345 CCGGTC
1 CGGGTC
3325351 CAGACCGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.12, C:0.25, G:0.46, T:0.17
Consensus pattern (14 bp):
CGGGTCGGGTCAGA
Found at i:3325375 original size:10 final size:10
Alignment explanation
Indices: 3325344--3325408 Score: 64
Period size: 9 Copynumber: 6.7 Consensus size: 10
3325334 GTCGGGTCAG
* *
3325344 ACCGGTCCAG
1 ACCGGTTCAA
3325354 ACCGGTT-AA
1 ACCGGTTCAA
*
3325363 ACCGGTTCGA
1 ACCGGTTCAA
3325373 ACCGG-TCAA
1 ACCGGTTCAA
3325382 ACCGGTTCAAA
1 ACCGGTTC-AA
*
3325393 ACTGG-TCAA
1 ACCGGTTCAA
3325402 ACCGGTT
1 ACCGGTT
3325409 TTCCAGCAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
9 22 0.49
10 17 0.38
11 6 0.13
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.18
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:3325401 original size:20 final size:19
Alignment explanation
Indices: 3325338--3325408 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
3325328 AGACGGGTCG
* * *
3325338 GGTCAGACCGGTCCAGACC
1 GGTCAAACCGGTTCAAACC
* *
3325357 GGTTAAACCGGTTCGAACC
1 GGTCAAACCGGTTCAAACC
*
3325376 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AAACC
3325396 GGTCAAACCGGTT
1 GGTCAAACCGGTT
3325409 TTCCAGCAGC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 27 0.63
20 16 0.37
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAAACC
Found at i:3327870 original size:20 final size:19
Alignment explanation
Indices: 3327849--3328107 Score: 116
Period size: 20 Copynumber: 12.9 Consensus size: 19
3327839 GCAATAGTCA
3327849 GAATCTCGTTGCGATTTAC
1 GAATCTCGTTGCGATTTAC
* * *
3327868 AGATTCGCATTGCGATTTAC
1 -GAATCTCGTTGCGATTTAC
3327888 -ATAT-TCGCATTGCGATTTAC
1 GA-ATCTCG--TTGCGATTTAC
* *
3327908 GTAT-TCGTATTGCGATTTAT
1 GAATCTCG--TTGCGATTTAC
* * *
3327928 GGATACACATTGCGATTTAC
1 GAAT-CTCGTTGCGATTTAC
*
3327948 GTATTCTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
*
3327968 -AGATACGCGTTGCGATTTAC
1 GA-AT-CTCGTTGCGATTTAC
*
3327988 GTATTCTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* *
3328008 GGATACGCGTTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
* *
3328029 GTATTGTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* * *
3328049 GGAT-ACGCTTGTGATTTTAC
1 GAATCTCG-TTGCGA-TTTAC
* *
3328069 GGATACTCGTTGCGATAGT-C
1 GAAT-CTCGTTGCGAT-TTAC
*
3328089 AGAATCACGTTGCGATTTA
1 -GAATCTCGTTGCGATTTA
3328108 TATGTTCGCG
Statistics
Matches: 180, Mismatches: 38, Indels: 42
0.69 0.15 0.16
Matches are distributed among these distances:
18 5 0.03
19 10 0.06
20 135 0.75
21 25 0.14
22 5 0.03
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (19 bp):
GAATCTCGTTGCGATTTAC
Found at i:3327924 original size:60 final size:60
Alignment explanation
Indices: 3327856--3328084 Score: 221
Period size: 60 Copynumber: 3.8 Consensus size: 60
3327846 TCAGAATCTC
* * * *
3327856 GTTGCGATTTACAGATTCGCATTGCGATTTACATATTCGCATTGCGATTTACGTATTCGT
1 GTTGCGATTTACGGATACGCATTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGT
* * * * * *
3327916 ATTGCGATTTATGGATACACATTGCGATTTACGTATTCTCGTTGCGATTTACAG-ATACGC
1 GTTGCGATTTACGGATACGCATTGCGATTTACGTATTCGCGTTGCGATTTAC-GTATTCGT
* * * * * *
3327976 GTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATT-GT
1 GTTGCGATTTACGGATACGCATTGCGATTTACGTATTCGCGTTGCGA-TTTACGTATTCGT
* * * *
3328036 CGTTGCGATTTACGGATACGC-TTGTGATTTTACGGATACTCGTTGCGAT
1 -GTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCGCGTTGCGAT
3328085 AGTCAGAATC
Statistics
Matches: 138, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
60 94 0.68
61 44 0.32
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.39
Consensus pattern (60 bp):
GTTGCGATTTACGGATACGCATTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGT
Found at i:3328078 original size:81 final size:80
Alignment explanation
Indices: 3327857--3328145 Score: 257
Period size: 80 Copynumber: 3.6 Consensus size: 80
3327847 CAGAATCTCG
* * * * * *
3327857 TTGCGATTTACAG-ATTCGCATTGCGATTTACATATTCGCATTGCGATTTAC-G-TATTCGTATT
1 TTGCGATTTAC-GTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGGATACTCG--TT
*
3327919 GCGATTTATGGATACACA
63 GCGATTTACGGATACACA
* *
3327937 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGGATACTCGTTGCG
* *
3328002 ATTTACGGATACGCG
66 ATTTACGGATACACA
* * *
3328017 TTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC-TTGTGATTTTACGGATACTCGTTG
1 TTGCGA-TTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGA-TTTACGGATACTCGTTG
* * *
3328081 CGATAGT-CAGA-ATCACG
64 CGAT-TTACGGATA-CACA
** * * * * *
3328098 TTGCGATTTATATGTTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATT
3328146 CTGGAAAATC
Statistics
Matches: 172, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
79 1 0.01
80 99 0.58
81 67 0.39
82 5 0.03
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (80 bp):
TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGGATACTCGTTGCG
ATTTACGGATACACA
Found at i:3328079 original size:40 final size:40
Alignment explanation
Indices: 3327855--3328084 Score: 268
Period size: 40 Copynumber: 5.7 Consensus size: 40
3327845 GTCAGAATCT
* * ** *
3327855 CGTTGCGATTTACAG-ATTCGCATTGCGATTTACATATTCG
1 CGTTGCGATTTAC-GTATTCTCGTTGCGATTTACGGATACG
* * * *
3327895 CATTGCGATTTACGTATTCGT-ATTGCGATTTATGGATACA
1 CGTTGCGATTTACGTATTC-TCGTTGCGATTTACGGATACG
* *
3327935 CATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
3327975 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
*
3328015 CGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACG
1 CGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACG
* * *
3328056 C-TTGTGATTTTACGGATACTCGTTGCGAT
1 CGTTGCGA-TTTACGTATTCTCGTTGCGAT
3328085 AGTCAGAATC
Statistics
Matches: 168, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 2 0.01
40 134 0.80
41 32 0.19
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
Found at i:3328119 original size:20 final size:20
Alignment explanation
Indices: 3328096--3328145 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
3328086 GTCAGAATCA
*
3328096 CGTTGCGATTTAT-ATGTTCG
1 CGTTGCGATTT-TCATATTCG
3328116 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTTCATATTCG
3328136 CGTTGCGATT
1 CGTTGCGATT
3328146 CTGGAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTTCATATTCG
Found at i:3334840 original size:22 final size:24
Alignment explanation
Indices: 3334815--3334902 Score: 83
Period size: 25 Copynumber: 3.8 Consensus size: 24
3334805 GTTTTTTGTC
*
3334815 CATTCGTTTTTATT-TT-TATTAT
1 CATTCATTTTTATTATTATATTAT
*
3334837 CATTTATTTTTATTATTATATTAT
1 CATTCATTTTTATTATTATATTAT
* * *
3334861 TATATTATTATTATTATTATATTAT
1 CAT-TCATTTTTATTATTATATTAT
* *
3334886 TATT-ATTGTTATTATTA
1 CATTCATTTTTATTATTA
3334903 ATTTTATTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.21
23 14 0.24
24 9 0.16
25 23 0.40
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.66
Consensus pattern (24 bp):
CATTCATTTTTATTATTATATTAT
Found at i:3334852 original size:3 final size:3
Alignment explanation
Indices: 3334824--3334911 Score: 94
Period size: 3 Copynumber: 30.0 Consensus size: 3
3334814 CCATTCGTTT
* * *
3334824 TTA TTT TTA TTA TCA TTTA TTT TTA TTA TTA -TA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
3334868 TTA TTA TTA TTA -TA TTA TTA TTA TTG TTA TTA TTAA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
3334912 CAAATCAGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
2 8 0.11
3 58 0.82
4 5 0.07
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3334860 original size:17 final size:17
Alignment explanation
Indices: 3334824--3334902 Score: 78
Period size: 16 Copynumber: 4.9 Consensus size: 17
3334814 CCATTCGTTT
*
3334824 TTATTTTTATTATCAT-
1 TTATTTTTATTATTATA
3334840 TTATTTTTATTATTATA
1 TTATTTTTATTATTATA
*
3334857 TTA-TTATATTA-T-TA
1 TTATTTTTATTATTATA
*
3334871 TTATTATTA-TATTATTA
1 TTATTTTTATTATTA-TA
*
3334888 TTATTGTTATTATTA
1 TTATTTTTATTATTA
3334903 ATTTTATTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
14 7 0.13
15 5 0.10
16 22 0.42
17 13 0.25
18 5 0.10
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (17 bp):
TTATTTTTATTATTATA
Found at i:3335993 original size:2 final size:2
Alignment explanation
Indices: 3335986--3336015 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3335976 TGTCACATTA
3335986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3336016 GAAAAATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3345290 original size:42 final size:42
Alignment explanation
Indices: 3345243--3345324 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
3345233 GAGATTAACG
*
3345243 TAAATCCTTCGGGTCATCAGTAAG-TTTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGATTTTT-GAGCAAGATGCT
*
3345285 TAAATCCTTCGGGTCATCTGTAAGATTTTTGAGCAAGATG
1 TAAATCCTTCGGGTCATCAGTAAGATTTTTGAGCAAGATG
3345325 ATAAGAACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 32 0.86
43 5 0.14
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCAGTAAGATTTTTGAGCAAGATGCT
Found at i:3345981 original size:22 final size:19
Alignment explanation
Indices: 3345963--3346017 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
3345953 TATTCATTCG
3345963 TTTTTATTTTTATTATCAT
1 TTTTTATTTTTATTATCAT
*
3345982 TTTTTATTATTATTAT-AT
1 TTTTTATTTTTATTATCAT
*
3346000 TATTATTATTATTATTAT
1 T-TT-TTATTTTTATTAT
3346018 TATTATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 3 0.09
19 17 0.52
20 13 0.39
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTATTTTTATTATCAT
Found at i:3345991 original size:3 final size:3
Alignment explanation
Indices: 3345966--3346025 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
3345956 TCATTCGTTT
* *
3345966 TTA TTT TTA TTA TCA TT- TT- TTA TTA TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3346011 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
3346026 AATAATTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 6 0.12
3 45 0.88
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3346282 original size:17 final size:17
Alignment explanation
Indices: 3346260--3346302 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
3346250 CAAAAAAACT
*
3346260 CTAGGGTTTTACCAACC
1 CTAGGGTTTCACCAACC
3346277 CTAGGGTTTCACCAACC
1 CTAGGGTTTCACCAACC
3346294 CTAGGGTTT
1 CTAGGGTTT
3346303 ATTTCGGCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (17 bp):
CTAGGGTTTCACCAACC
Found at i:3346970 original size:2 final size:2
Alignment explanation
Indices: 3346963--3346997 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3346953 AGTCACATTA
3346963 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3346998 ATTCATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3352810 original size:245 final size:248
Alignment explanation
Indices: 3352366--3352858 Score: 965
Period size: 245 Copynumber: 2.0 Consensus size: 248
3352356 AAGTCACCAA
3352366 TGGAGATGTGGACTGGTAAACCAGCTGATTATTGAAACCTCCATGTATTTAGAAGTATCGTGTAC
1 TGGAGATGTGGACTGGTAAACCAGCTGATTATTGAAACCTCCATGTATTTAGAAGTATCGTGTAC
3352431 GTGATTTACAACTCCCAAGAAATTTCAAAGTTGGATCCAAAATCCAGGAAATACAAATTCTTGGG
66 GTGATTTACAACTCCCAAGAAATTTCAAAGTTGGATCCAAAATCCAGGAAATACAAATTCTTGGG
3352496 GTATGCTGATGGTGTAAAGGGGTATCGCTTGTGGGATCCCACTGCCCGTAAAGTGATAATCAACA
131 GTATGCTGATGGTGTAAAGGGGTATCGCTTGTGGGATCCCACTGCCCGTAAAGTGATAATCAACA
3352561 GGGATGTTATCTTTGTAGAATATAAACTAAAAAGAAAAGAAGACGA-GATAGC
196 GGGATGTTATCTTTGTAGAATATAAACTAAAAAGAAAAGAAGACGATGATAGC
3352613 TGGAGATGTGGACTGGTAAACCAGCTGA-TATTGAAACCTCCATGTATTTAGAAGTATCGTGTAC
1 TGGAGATGTGGACTGGTAAACCAGCTGATTATTGAAACCTCCATGTATTTAGAAGTATCGTGTAC
3352677 GTGATTTACAACTCCCAAGAAATTTCAAAGTTGGATCCAAAATCCAGG-AATACAAATTCTTGGG
66 GTGATTTACAACTCCCAAGAAATTTCAAAGTTGGATCCAAAATCCAGGAAATACAAATTCTTGGG
3352741 GTATGCTGATGGTGTAAAGGGGTATCGCTTGTGGGATCCCACTGCCCGTAAAGTGATAATCAACA
131 GTATGCTGATGGTGTAAAGGGGTATCGCTTGTGGGATCCCACTGCCCGTAAAGTGATAATCAACA
3352806 GGGATGTTATCTTTGTAGAATATAAACTAAAAAGAAAAGAAGACGATGATAGC
196 GGGATGTTATCTTTGTAGAATATAAACTAAAAAGAAAAGAAGACGATGATAGC
3352859 ACTGAAAAGT
Statistics
Matches: 245, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
245 127 0.52
246 90 0.37
247 28 0.11
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (248 bp):
TGGAGATGTGGACTGGTAAACCAGCTGATTATTGAAACCTCCATGTATTTAGAAGTATCGTGTAC
GTGATTTACAACTCCCAAGAAATTTCAAAGTTGGATCCAAAATCCAGGAAATACAAATTCTTGGG
GTATGCTGATGGTGTAAAGGGGTATCGCTTGTGGGATCCCACTGCCCGTAAAGTGATAATCAACA
GGGATGTTATCTTTGTAGAATATAAACTAAAAAGAAAAGAAGACGATGATAGC
Found at i:3356163 original size:17 final size:17
Alignment explanation
Indices: 3356132--3356165 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3356122 AATAAGTTTC
*
3356132 AATAATCTTCTATTATT
1 AATAATCTTCAATTATT
*
3356149 AATAATCTTGAATTATT
1 AATAATCTTCAATTATT
3356166 TCTCATTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (17 bp):
AATAATCTTCAATTATT
Found at i:3361232 original size:15 final size:15
Alignment explanation
Indices: 3361212--3361241 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3361202 ATTTCTCATA
3361212 GTTGTTGTTGGAATT
1 GTTGTTGTTGGAATT
*
3361227 GTTGTTGTTGTAATT
1 GTTGTTGTTGGAATT
3361242 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
GTTGTTGTTGGAATT
Found at i:3365121 original size:43 final size:42
Alignment explanation
Indices: 3365047--3365244 Score: 194
Period size: 43 Copynumber: 4.8 Consensus size: 42
3365037 ATAAATACAT
* * *
3365047 CAAACTAACGTATTATAACAAAAGTAACAATCTCCAAAAACAC
1 CAAACTAACATATTACAACCAAAGTAACAAT-TCCAAAAACAC
* * *
3365090 CAAATTAACATATTACAACCAAAGTAGCAA-TCCATAAACA-
1 CAAACTAACATATTACAACCAAAGTAACAATTCCAAAAACAC
* * *
3365130 C-AACAAAC-TA--ACAACTAAAGTAACAA-TACATAAATACAC
1 CAAACTAACATATTACAACCAAAGTAACAATTCCA-AAA-ACAC
* * * *
3365169 CAAACTAAAATATTACAACCAAAATAACAATTCACAAATACAT
1 CAAACTAACATATTACAACCAAAGTAACAATTC-CAAAAACAC
3365212 CAAACTAACATATTACAACCAAAGTAACAATTC
1 CAAACTAACATATTACAACCAAAGTAACAATTC
3365245 ATAAATATGC
Statistics
Matches: 125, Mismatches: 21, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
36 17 0.14
37 2 0.02
38 5 0.04
39 6 0.05
40 6 0.05
41 11 0.09
43 73 0.58
44 3 0.02
45 2 0.02
ACGTcount: A:0.55, C:0.23, G:0.03, T:0.19
Consensus pattern (42 bp):
CAAACTAACATATTACAACCAAAGTAACAATTCCAAAAACAC
Found at i:3365151 original size:36 final size:36
Alignment explanation
Indices: 3365104--3365176 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
3365094 TTAACATATT
* *
3365104 ACAACCAAAGTAGCAATCCATAAACACAACAAACTA
1 ACAACCAAAGTAACAATACATAAACACAACAAACTA
* * *
3365140 ACAACTAAAGTAACAATACATAAATACACCAAACTA
1 ACAACCAAAGTAACAATACATAAACACAACAAACTA
3365176 A
1 A
3365177 AATATTACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.58, C:0.25, G:0.04, T:0.14
Consensus pattern (36 bp):
ACAACCAAAGTAACAATACATAAACACAACAAACTA
Found at i:3365257 original size:24 final size:24
Alignment explanation
Indices: 3365230--3365275 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3365220 CATATTACAA
* *
3365230 CCAAAGTAACAATTCATAAATATG
1 CCAAAGTAACAATCCACAAATATG
3365254 CCAAAGTAACAATCCACAAATA
1 CCAAAGTAACAATCCACAAATA
3365276 CACTAAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.22, G:0.07, T:0.20
Consensus pattern (24 bp):
CCAAAGTAACAATCCACAAATATG
Found at i:3366115 original size:43 final size:43
Alignment explanation
Indices: 3366062--3366190 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 43
3366052 CAAGACGTAT
* *
3366062 CGAGATGTAAAGGGTCCTTAGAGCCTAGGCGTAGAACGAAGAC
1 CGAGATGTAAAAGGTCCTTAGAACCTAGGCGTAGAACGAAGAC
* * * **
3366105 CGAGACGTAAAAGATCCTCAGAACCTAGGCGTAGATTGAAGAC
1 CGAGATGTAAAAGGTCCTTAGAACCTAGGCGTAGAACGAAGAC
* * *
3366148 CGACATGTAAAAGGTCCTTAGAACCTAGGCATAGAGCGAAGAC
1 CGAGATGTAAAAGGTCCTTAGAACCTAGGCGTAGAACGAAGAC
3366191 GATTTTTGTA
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.36, C:0.20, G:0.28, T:0.16
Consensus pattern (43 bp):
CGAGATGTAAAAGGTCCTTAGAACCTAGGCGTAGAACGAAGAC
Found at i:3368208 original size:23 final size:24
Alignment explanation
Indices: 3368167--3368220 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
3368157 CAATGATTAA
*
3368167 ATGTAAATTAATATTGTTTAATCT
1 ATGTAAATTAATATAGTTTAATCT
*
3368191 ATGTAAATT-ATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATCT
3368214 ATGTAAA
1 ATGTAAA
3368221 GAAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (24 bp):
ATGTAAATTAATATAGTTTAATCT
Found at i:3371669 original size:6 final size:6
Alignment explanation
Indices: 3371658--3371708 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
3371648 GGTTTTTTTA
** * *
3371658 GGTTTG GGTTTG GGTTTG GGTTTG GGTTCA GGTTTAG GGGTTG AGTTTG
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTT-G GGTTTG GGTTTG
3371707 GG
1 GG
3371709 GTTAGGGCTG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
6 32 0.89
7 4 0.11
ACGTcount: A:0.06, C:0.02, G:0.49, T:0.43
Consensus pattern (6 bp):
GGTTTG
Found at i:3371681 original size:18 final size:19
Alignment explanation
Indices: 3371654--3371715 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 19
3371644 TTAGGGTTTT
3371654 TTTA-GGTTTGGGTTTGGG
1 TTTAGGGTTTGGGTTTGGG
**
3371672 TTT-GGGTTTGGGTTCAGG
1 TTTAGGGTTTGGGTTTGGG
* *
3371690 TTTAGGGGTTGAGTTTGGG
1 TTTAGGGTTTGGGTTTGGG
*
3371709 GTTAGGG
1 TTTAGGG
3371716 CTGAGGTTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
18 18 0.51
19 17 0.49
ACGTcount: A:0.08, C:0.02, G:0.47, T:0.44
Consensus pattern (19 bp):
TTTAGGGTTTGGGTTTGGG
Found at i:3372498 original size:6 final size:6
Alignment explanation
Indices: 3372487--3372564 Score: 58
Period size: 6 Copynumber: 13.2 Consensus size: 6
3372477 ACTATTTATA
3372487 ATTAAT ATTAAT ATTAAT A-T-A- ATTATAT ATT-AT AATTAAT ATTAAT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTA-AT ATTAAT -ATTAAT ATTAAT
* **
3372533 ATAAAAT ATTGTTT ATTAAT ATTAAT A-TAAT A
1 AT-TAAT ATT-AAT ATTAAT ATTAAT ATTAAT A
3372565 AATGGTTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
3 1 0.02
4 2 0.03
5 8 0.14
6 33 0.57
7 14 0.24
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (6 bp):
ATTAAT
Found at i:3372522 original size:24 final size:23
Alignment explanation
Indices: 3372457--3372522 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 23
3372447 ATTTCATCCC
3372457 TATATAATT-TATATTAATAAACTAT
1 TATATAATTATATATT-AT-AA-TAT
3372482 T-TATAATTA-ATA-T-TAATAT
1 TATATAATTATATATTATAATAT
3372501 TAATATAATTATATATTATAAT
1 T-ATATAATTATATATTATAAT
3372523 TAATATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
19 4 0.11
20 2 0.06
21 9 0.26
22 3 0.09
23 2 0.06
24 14 0.40
25 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATATAATTATATATTATAATAT
Found at i:3372524 original size:22 final size:21
Alignment explanation
Indices: 3372483--3372528 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
3372473 ATAAACTATT
3372483 TATAATTAATATTAATATTAA
1 TATAATTAATATTAATATTAA
3372504 TATAATTATATATT-ATAATTAA
1 TATAATTA-ATATTAAT-ATTAA
3372526 TAT
1 TAT
3372529 TAATATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATAATTAATATTAATATTAA
Found at i:3372572 original size:26 final size:25
Alignment explanation
Indices: 3372492--3372574 Score: 87
Period size: 26 Copynumber: 3.1 Consensus size: 25
3372482 TTATAATTAA
* *
3372492 TATTAATATTAATATAATTATATATT
1 TATTAATATTAATATAA-TAAATGTT
3372518 ATAATTAATATTAATATAA-AATATTGTT
1 -T-ATTAATATTAATATAATAA-A-TGTT
3372546 TATTAATATTAATATAATAAATGGTT
1 TATTAATATTAATATAATAAAT-GTT
3372572 TAT
1 TAT
3372575 AAACTATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
25 1 0.02
26 24 0.49
27 5 0.10
28 19 0.39
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
TATTAATATTAATATAATAAATGTT
Found at i:3372696 original size:36 final size:36
Alignment explanation
Indices: 3372656--3372729 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
3372646 TAATGTAAAC
*
3372656 TATAGTTTATAAACTATCTACTACATTAATACAAAT
1 TATAGTTTATAAACTATATACTACATTAATACAAAT
* * *
3372692 TATAGTTTATAAACTATATATTATATTAATATAAAT
1 TATAGTTTATAAACTATATACTACATTAATACAAAT
3372728 TA
1 TA
3372730 CAATTAACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (36 bp):
TATAGTTTATAAACTATATACTACATTAATACAAAT
Found at i:3372810 original size:21 final size:21
Alignment explanation
Indices: 3372781--3372820 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3372771 TAATATAAAA
* *
3372781 ATAGTTTATAAATTATATACT
1 ATAGGTTATAAACTATATACT
3372802 ATAGGTTATAAACTATATA
1 ATAGGTTATAAACTATATA
3372821 GTACACTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (21 bp):
ATAGGTTATAAACTATATACT
Found at i:3372966 original size:3 final size:3
Alignment explanation
Indices: 3372958--3372990 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
3372948 GTTTACATAT
3372958 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3372991 AAAATCCGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3383039 original size:62 final size:63
Alignment explanation
Indices: 3382894--3383046 Score: 184
Period size: 63 Copynumber: 2.4 Consensus size: 63
3382884 TCTTACAGTG
* *
3382894 AATCCTTGACTTCCTCGTGAAGAGAAGTAAACTTTTGTTATTCCCTAACTCCTCAGGGGAACC
1 AATCCTTGACTTCCTCGTGAAGAGAAGTAAACTTGTGTTATTCCCTAACTCCTCAGGAGAACC
* * * * * * **
3382957 AATCCTTGACTTCATCGTGAAGAAAAGTCAACTTGTGTTATT-TCTGACTCC-CTAGTAGAGTC
1 AATCCTTGACTTCCTCGTGAAGAGAAGTAAACTTGTGTTATTCCCTAACTCCTC-AGGAGAACC
*
3383019 AATCCTTGACTTCCTTGTGAAGAGAAGT
1 AATCCTTGACTTCCTCGTGAAGAGAAGT
3383047 TAATATTATT
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
61 1 0.01
62 37 0.49
63 38 0.50
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (63 bp):
AATCCTTGACTTCCTCGTGAAGAGAAGTAAACTTGTGTTATTCCCTAACTCCTCAGGAGAACC
Found at i:3383568 original size:137 final size:137
Alignment explanation
Indices: 3383306--3384585 Score: 1444
Period size: 137 Copynumber: 9.4 Consensus size: 137
3383296 GGAGCAGACC
* * * * * *
3383306 AGTCATTATTAGATAGACATACGTCTTCATCGTGAAGGAATCGTGTTATCTCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* * * * * * * * * *
3383371 TATGGCCAAACGTCATCATCGCAAAGGAACAATGTCATCCACGGTCCAAAACTTCTTATCATGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTA
3383436 GGAGTCG
131 GGAGTCG
** * *
3383443 AGTCATTCTTAGATAGTTAGACGTCCTCATCGCGAAAGAACCGTGTTGTCTCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
*
3383508 GATGGCCAGACGTCCTCATCGCGAAGGAAAAATGTCATCCGCCGACCAGAACTCCAT-ATCATGT
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCC-TCATCATGT
* *
3383572 AGGAGCCA
130 AGGAGTCG
* * * **
3383580 AGTCATTTTTAGATAGCCAGATG-CCTCATCGCGAAGCAACCGTGTTATCTCTCTTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* * * **
3383644 GATGGCTAGACGTCCTCATCACGAAGGAATAATGTCATCTTCCGACCAGAACTCCTCATCATGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTA
*
3383709 GGAGTTG
131 GGAGTCG
* * * ** ** *
3383716 AGTAATTCTTAGATAG-TAGACTTTTTCATTACGAAGGAACTGTGTTATCTCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
** * * * * * ** * *
3383780 GATATCCAAACGTCCTTATCACGAAGGAATAATGTCATCTGCTAATCAAAACTCCTCATCATGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTA
*
3383845 AGAGTCG
131 GGAGTCG
* * *
3383852 AGTCATTCTTAGATAGCTAGGCGTCCTCATCGCGAAGGAACCATGTTATCTCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* * ** * *
3383917 GATGGACAGACGCCCTCATCATGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCTTGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTA
3383982 GGAG-CTG
131 GGAGTC-G
* * *
3383989 AGTCATTCTTAGAT-GCCAGAAGTCTTCATCGCGAAGGAACCGTGTTATCGCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* ** *** *
3384053 GATGGCCAAACGTCCTCATCGCGAATTAACAATGTCATCCGGTAACCAAAACTCCGT-ATCATGT
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCC-TCATCATGT
* *
3384117 AAGA-ACTG
130 AGGAGTC-G
* * ** * * *
3384125 AGTCATTTTTAGATAGCCAGATGTCCTCATCATGAAGGAACCGTGTTATCTCACTTAACTTTATA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* *
3384190 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCTGACCAGAACTCGTCATCATGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTA
*
3384255 GGAGCCG
131 GGAGTCG
* * * *
3384262 AGTCATTCTTAGAAAG-CACGACATCCTCATCGTGAAGGAATCGTGTTATCTCAATTATCTTTAA
1 AGTCATTCTTAGATAGCCA-GACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAA
** * ** * *
3384326 AGATGGCCAGACGTCCTCATCTTGAAGGAAAAATGTCATCTACCAATCAGAACTCCTCATCATGT
65 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGT
3384391 AGGAGTCG
130 AGGAGTCG
* * * * * *
3384399 AGTCATTCTTAGATAGCCATACATCCTAATCACGAAAGAACCGTGTTGTCTCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* *** * *
3384464 GATGGCCAGACGTCCTCATCGCGAATGAACAATGTCATCCGTTAATCAGAACTCCTCATCATATA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTA
3384529 GGAGTCG
131 GGAGTCG
* **
3384536 AGTCATTCTTAGATAACCAGACGTCCTCATCGC-AATGGAACAATGTTATC
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAA-GGAACCGTGTTATC
3384586 CACCAATTAG
Statistics
Matches: 959, Mismatches: 171, Indels: 26
0.83 0.15 0.02
Matches are distributed among these distances:
135 4 0.00
136 338 0.35
137 613 0.64
138 4 0.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (137 bp):
AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTA
GGAGTCG
Found at i:3383886 original size:273 final size:274
Alignment explanation
Indices: 3383306--3386552 Score: 2021
Period size: 274 Copynumber: 11.7 Consensus size: 274
3383296 GGAGCAGACC
* * * * * *
3383306 AGTCATTATTAGATAGACATACGTCTTCATCGTGAAGGAATCGTGTTATCTCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* * * * * * * * *
3383371 TATGGCCAAACGTCATCATCGCAAAGGAACAATGTCATCCACGGTCCAAAACTTCTTATCATGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCATGTA
** * *
3383436 GGAGTCGAGTCATTCTTAGATAGTTAGACGTCCTCATCGCGAAAGAACCGTGTTGTCTCAATTAT
131 GGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTAT
* * *
3383501 CTTTAAAGATGGCCAGACGTCCTCATCGCGAAGGAAAAATGTCATCCGCCGACCAGAACTCCATA
196 CTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAAAAATGTCATCCGCCAACCAAAACTCCATA
* * *
3383566 TCATGTAGGAGCCA
261 TCATGTAAGAGTCG
* * * **
3383580 AGTCATTTTTAGATAGCCAGATG-CCTCATCGCGAAGCAACCGTGTTATCTCTCTTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* * * **
3383644 GATGGCTAGACGTCCTCATCACGAAGGAATAATGTCATCTTCCGACCAGAACTCCTCATCATGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCATGTA
* * * * ** ** *
3383709 GGAGTTGAGTAATTCTTAGATAG-TAGACTTTTTCATTACGAAGGAACTGTGTTATCTCAATTAT
131 GGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTAT
** * * * * * *
3383773 CTTTAAAGATATCCAAACGTCCTTATCACGAAGGAATAATGTCATCTGCTAATCAAAACTCC-TC
196 CTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAAAAATGTCATCCGCCAACCAAAACTCCAT-
3383837 ATCATGTAAGAGTCG
260 ATCATGTAAGAGTCG
* * *
3383852 AGTCATTCTTAGATAGCTAGGCGTCCTCATCGCGAAGGAACCATGTTATCTCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* * ** *
3383917 GATGGACAGACGCCCTCATCATGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCTTGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCATGTA
* * *
3383982 GGAG-CTGAGTCATTCTTAGAT-GCCAGAAGTCTTCATCGCGAAGGAACCGTGTTATCGCAATTA
131 GGAGTC-GAGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTA
** * ** *
3384045 TCTTTAAAGATGGCCAAACGTCCTCATCGCGAATTAACAATGTCATCCGGTAACCAAAACTCCGT
195 TCTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAAAAATGTCATCCGCCAACCAAAACTCCAT
*
3384110 ATCATGTAAGA-ACTG
260 ATCATGTAAGAGTC-G
* * ** * * *
3384125 AGTCATTTTTAGATAGCCAGATGTCCTCATCATGAAGGAACCGTGTTATCTCACTTAACTTTATA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* * *
3384190 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCTGACCAGAACTCGTCATCATGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCATGTA
* * * * *
3384255 GGAGCCGAGTCATTCTTAGAAAG-CACGACATCCTCATCGTGAAGGAATCGTGTTATCTCAATTA
131 GGAGTCGAGTCATTCTTAGATAGCCA-GACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTA
* ** ** * *
3384319 TCTTTAAAGATGGCCAGACGTCCTCATCTTGAAGGAAAAATGTCATCTACCAATCAGAACTCC-T
195 TCTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAAAAATGTCATCCGCCAACCAAAACTCCAT
*
3384383 CATCATGTAGGAGTCG
260 -ATCATGTAAGAGTCG
* * * * * *
3384399 AGTCATTCTTAGATAGCCATACATCCTAATCACGAAAGAACCGTGTTGTCTCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* **** * *
3384464 GATGGCCAGACGTCCTCATCGCGAATGAACAATGTCATCCGTTAATCAGAACTCCTCATCATATA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCATGTA
* **
3384529 GGAGTCGAGTCATTCTTAGATAACCAGACGTCCTCATCGC-AATGGAACAATGTTATC-C----A
131 GGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAA-GGAACCGTGTTATCTCAATTA
* * * ** * ** * ** ** *
3384588 -C---CAA-TTAG---AAC-TCCTCATCATGTAGGAATCGA-GTCATTCATAGATAGTC-AGACA
195 TCTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAA-AAATGTCA-TC--CGCCAACCAAAAC-
3384642 TCC-TCATCATG-AAGGAACTGT-G
255 TCCAT-ATCATGTAA-G-A--GTCG
* * * * * ** *
3384664 TTATCTCAATTATCTTTAAAGATGGTCAAACGTCCTCATCGCGAAGAAACAATGTCATC-C----
1 --A-GTC-A-T-TC-TT--AGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATT
* *** * * * * *** *
3384724 GTC------GAT---CAGAAC-TCCTCATTATGTAGGAGCTGA-GTCATTCTTAGA-TAGCTAAG
57 ATCTTTAAAGATGGCCAG-ACGTCCTCATCGCGAAGGAAC-AATGTCATCCACCGACCAG---A-
* * * * * * * *
3384777 AGTCATCATCATGAAGGAACCGTGGTATCTCAATTATTTTTAAAGAT-GACCAAACGTTCTCATC
116 ACTCCTCATCATGTAGG-A--GTCG-A-GTC----ATTCTT--AGATAG-CCAGACGTCCTCATC
** * * * * * * ** * *** * **
3384841 GCGAAGGAACAATATCATCTGCCAATCAGAACTCCTCATCAT-G-TAGGGGTCGAGTCATTCTTA
169 GCGAAGGAACCGTGTTATCT--CAAT--TATCT-TTAAAGATGGCCAAACGTC--CTCA-TC-GC
** * * * ** ** * * * *
3384904 GATA-GCCAGACGTCCTCACCGTGAAGGAATAA-TGTCAT-TCGCCGATCTGA-ACTC-
225 GA-AGGAAAAATGTCAT--CCGCCAACCAA-AACT-CCATAT---C-ATGTAAGAGTCG
* * * * * * * * * ** ** *
3384958 -GTCA-TCATAAAGGAGCTGAGTCATTCTTAGATAGCCAGAA-GTCCTCATTGTGAAGGAAC-CA
1 AGTCATTCTTAGA-TAGC-CAGAC-GTCCT-CATCG-C-GAAGGAAC-C---GTG--TTATCTCA
** * * * ***
3385019 TGTTATCTTAATTATCTTTAAAGATTTCCAAACGTCCTCATCGTGAAGGAAAAATGTCATTTGCC
54 ----A---T---TATCTTTAAAGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACC
* * * * **
3385084 GACCAAAACTCCTCATCATGTAAGAGCCGAGTCATTTTTAGATAGCCAGACGTTATCATCGCGAA
109 GACCAGAACTCCTCATCATGTAGGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAA
* * *
3385149 GGAACCGTGTTATCTCACA-TATCTTTAAAGATGGTCAGACGTCCTCATCGCGAAGGAACAATGT
174 GGAACCGTGTTATCTCA-ATTATCTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAAAAATGT
* * **
3385213 CATCCGCCAACCAGAACTCTTCA-A-CATGTAGGAACCG
238 CATCCGCCAACCAAAACTC--CATATCATGTAAGAGTCG
* ** * * *
3385250 AGTCATTCTTAGATAGCCGGAATTCCTCATCGTGAAGGAACCATGTTATCTCAATAATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* ** * * *
3385315 GATGGCCAGACGTCCTCATCGTGAAGGAACAATGTCATCTGCCAATCAGAACCCCTCATCATGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCATGTA
* * * * *
3385380 GGAGTCGAGTCATTCTTAGATAGTCAGATGTCCTCATTGTGAAGGAACCATGTTATCTCAATTAT
131 GGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTAT
* * * * * * * *
3385445 CTTTAAAGATGACTAGACGTCCTCATCACGAAAGAACAATGTCATCCGCCAATCAGAACT-CATC
196 CTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAAAAATGTCATCCGCCAACCAAAACTCCAT-
*
3385509 ATCATGTAGGAGTCG
260 ATCATGTAAGAGTCG
* * *
3385524 AGTTATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACTGTGTTATCTCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* * * * * * * * *
3385589 GATTGCCAGACTTCCTCATCACAAAGGAACAAAGTCATCCGCCAATCAGAACTCCTCATTATGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCATGTA
* * * ** *
3385654 GGAGTCGAGTCATTCCTAGATAGTCAGACGTCCTCA-CTGCGAAAGAAATGTGTTATCTCAATTT
131 GGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATC-GCGAAGGAACCGTGTTATCTCAATTA
* * * * * * * *
3385718 TCTTTAAAGTTGGCCATACATCCTCATCGTGAAGGAACAATGTCATCCGCCGATCAGAACTCC-T
195 TCTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAAAAATGTCATCCGCCAACCAAAACTCCAT
* *
3385782 CATAATGT-AGTAG-CTA
260 -ATCATGTAAG-AGTC-G
* * * * * *
3385798 ATTCATTCTTAAATAGCTAGAAGTCCTCATCGCGAAGGAAGCGTATTATCTCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* * * *
3385863 AATGGCCAAACGTCCTCATCGCGAAGGAATAATGTCATCCACCAACCAGAACAT-CTCATCATGT
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCGACCAGAAC-TCCTCATCATGT
*
3385927 AGGAG-CTGAGTCATTTTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATT
130 AGGAGTC-GAGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATT
* * * * * *
3385991 ATCTTTAAAGATGGCCAAACGTCCTCATCGTGAAGGAATAGTGTCATCCGTCGACCAGAACTCC-
194 ATCTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAAAAATGTCATCCGCCAACCAAAACTCCA
** *
3386055 TCATCATGTCGGAGCCG
259 T-ATCATGTAAGAGTCG
* *
3386072 AGTCATTCTTAGATAGCCAGACATCCTCATCGTGAAGGAACCGTGTTAGAACCGTGTTATCTCAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATC--G--CGAA----G---GAACCGTGTTATCTCAA
* * *
3386137 TTAT-TTTTAAGTATGGCCAGACGTCCTCATCGCGAAGGAACAATATCATCC-GCGAACCAGAAC
55 TTATCTTTAAAG-ATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCG-ACCAGAAC
* * ** * * * *
3386200 TCCTCATCTTGTAGGAGCCGAGTCATTCTTAGATAGTTAGACGTCCTCATAGTGAAGTAATCGTG
118 TCCTCATCATGTAGGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTG
* * ** * *
3386265 TTATCTCAATTATCTTTAAATATGGCCAGACGTCCTCATCGCGAA-GAAACAATGTCATATGTCG
183 TTATCTCAATTATCTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAAA-AATGTCATCCGCCA
* * * * *
3386329 ACCAGAACTAC-TCATCATATATGAGCCG
247 ACCAAAACTCCAT-ATCATGTAAGAGTCG
* * * ** * * *
3386357 AGTCATTCTTAGATAGCGAGATGTTCTCATCGTAAAGGAACCATGCTATCCCAATTATCTTTAAA
1 AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
* * ** *
3386422 GATGGCCAGACGTCCTCATCACGAAGGAATAATGTCATCCGTCAACCAGAACTCCTCATCATGTA
66 GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCATGTA
* * * * *
3386487 GGAGCCGAGTCATTTTTAGATAGCCAGACGTCCTCATCACGAAGGTACCGTGTTATCTCAGTTAT
131 GGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTAT
3386552 C
196 C
3386553 CCTAGGCATG
Statistics
Matches: 2320, Mismatches: 483, Indels: 340
0.74 0.15 0.11
Matches are distributed among these distances:
259 2 0.00
260 42 0.02
261 8 0.00
262 4 0.00
263 31 0.01
264 4 0.00
265 3 0.00
266 5 0.00
267 2 0.00
268 5 0.00
269 4 0.00
270 1 0.00
271 5 0.00
272 124 0.05
273 458 0.20
274 1127 0.49
275 17 0.01
276 1 0.00
277 3 0.00
278 3 0.00
280 1 0.00
281 2 0.00
282 1 0.00
283 6 0.00
284 14 0.01
285 225 0.10
286 6 0.00
287 3 0.00
288 9 0.00
289 7 0.00
290 8 0.00
291 9 0.00
292 3 0.00
293 12 0.01
294 25 0.01
295 10 0.00
296 13 0.01
297 3 0.00
298 9 0.00
299 5 0.00
300 5 0.00
301 2 0.00
302 1 0.00
303 33 0.01
304 1 0.00
305 6 0.00
308 2 0.00
309 2 0.00
310 1 0.00
311 2 0.00
313 1 0.00
314 16 0.01
315 1 0.00
316 3 0.00
317 23 0.01
318 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (274 bp):
AGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTATCTTTAAA
GATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCATGTA
GGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATTAT
CTTTAAAGATGGCCAAACGTCCTCATCGCGAAGGAAAAATGTCATCCGCCAACCAAAACTCCATA
TCATGTAAGAGTCG
Found at i:3384608 original size:83 final size:83
Alignment explanation
Indices: 3384469--3384649 Score: 247
Period size: 83 Copynumber: 2.2 Consensus size: 83
3384459 TTAAAGATGG
*** *
3384469 CCAGACGTCCTCATCGCGAATGAACAATGTCATCCGTTAATCAGAACTCCTCATCATATAGGAGT
1 CCAGACGTCCTCATCGCGAATGAACAATGTCATCCACCAATCAGAACTCCTCATCATATAGGAAT
*
3384534 CGAGTCATTCTTAGATAA
66 CGAGTCATTCATAGATAA
* * *
3384552 CCAGACGTCCTCATCGC-AATGGAACAATGTTATCCACCAATTAGAACTCCTCATCATGTAGGAA
1 CCAGACGTCCTCATCGCGAAT-GAACAATGTCATCCACCAATCAGAACTCCTCATCATATAGGAA
*
3384616 TCGAGTCATTCATAGATAG
65 TCGAGTCATTCATAGATAA
* *
3384635 TCAGACATCCTCATC
1 CCAGACGTCCTCATC
3384650 ATGAAGGAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 3 0.03
83 83 0.97
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (83 bp):
CCAGACGTCCTCATCGCGAATGAACAATGTCATCCACCAATCAGAACTCCTCATCATATAGGAAT
CGAGTCATTCATAGATAA
Found at i:3384717 original size:220 final size:219
Alignment explanation
Indices: 3384332--3384770 Score: 641
Period size: 220 Copynumber: 2.0 Consensus size: 219
3384322 TTAAAGATGG
* *
3384332 CCAGACGTCCTCATCTTGAAGGAAAAATGTCATCTACCAATCAGAACTCCTCATCATGTAGGAGT
1 CCAGACGTCCTCATC-TGAAGGAAAAATGTCATCCACCAATCAGAACTCCTCATCATGTAGGAAT
* * *
3384397 CGAGTCATTCTTAGATAGCCATACATCCTAATCACGAAAGAACCGTGTTGTCTCAATTATCTTTA
65 CGAGTCATTCATAGATAGCCAGACATCCTAATCACGAAAGAACCGTGTTATCTCAATTATCTTTA
* *
3384462 AAGATGGCCAGACGTCCTCATCGCGAATGAACAATGTCATCCGTTAATCAGAACTCCTCATCATA
130 AAGATGGCCAAACGTCCTCATCGCGAATGAACAATGTCATCCGTCAATCAGAACTCCTCATCATA
3384527 TAGGAG-TCGAGTCATTCTTAGATAA
195 TAGGAGCT-GAGTCATTCTTAGATAA
* * *
3384552 CCAGACGTCCTCATC-GCAATGGAACAATGTTATCCACCAATTAGAACTCCTCATCATGTAGGAA
1 CCAGACGTCCTCATCTG-AA-GGAAAAATGTCATCCACCAATCAGAACTCCTCATCATGTAGGAA
* * * * *
3384616 TCGAGTCATTCATAGATAGTCAGACATCCTCATCATGAAGGAACTGTGTTATCTCAATTATCTTT
64 TCGAGTCATTCATAGATAGCCAGACATCCTAATCACGAAAGAACCGTGTTATCTCAATTATCTTT
* * *
3384681 AAAGATGGTCAAACGTCCTCATCGCGAA-GAAACAATGTCATCCGTCGATCAGAACTCCTCATTA
129 AAAGATGGCCAAACGTCCTCATCGCGAATG-AACAATGTCATCCGTCAATCAGAACTCCTCATCA
*
3384745 TGTAGGAGCTGAGTCATTCTTAGATA
193 TATAGGAGCTGAGTCATTCTTAGATA
3384771 GCTAAGAGTC
Statistics
Matches: 196, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
218 1 0.01
219 3 0.02
220 191 0.97
221 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (219 bp):
CCAGACGTCCTCATCTGAAGGAAAAATGTCATCCACCAATCAGAACTCCTCATCATGTAGGAATC
GAGTCATTCATAGATAGCCAGACATCCTAATCACGAAAGAACCGTGTTATCTCAATTATCTTTAA
AGATGGCCAAACGTCCTCATCGCGAATGAACAATGTCATCCGTCAATCAGAACTCCTCATCATAT
AGGAGCTGAGTCATTCTTAGATAA
Found at i:3384853 original size:357 final size:355
Alignment explanation
Indices: 3384188--3385295 Score: 1336
Period size: 357 Copynumber: 3.1 Consensus size: 355
3384178 CTTAACTTTA
* * **
3384188 TAGATGGCCAGACGTCCTCATCG-CGAAGGAACAATGTCATCCGCTGACCAGAACTCGTCATCAT
1 TAGATAGCCAGACGTCCTCATCGTC-AAGGAACAATGTCATCCGCCGATTAGAACTCGTCATCAT
* *
3384252 GTAGGAGCCGAGTCATTCTTAGAAAGCACGACATCCTCATCGTGAAGGAA-TCGTGTTATCTCAA
65 GTAGGAACCGAGTCATTCTTAGATAGCA-GACATCCTCATCGTGAAGGAACT-GTGTTATCTCAA
* * * * *
3384316 TTATCTTTAAAGATGGCCAGACGTCCTCATCTTGAAGGAAAAATGTCATCTACCAATCAGAACTC
128 TTATCTTTAAAGATGGTCAAACGTCCTCATCGTGAAGGAAAAATGTCATCTGCCGATCAGAACTC
* * * *
3384381 CTCATCATGTAGGAG-TCGAGTCATTCTTAGATAGCCATACA-TCCTAATCACGAAAGAACCGTG
193 CTCATCATGTAGGAGCT-GAGTCATTCTTAGATAG-CA-AGAGTCATCATCACGAAGGAACCGTG
* * **
3384444 TTGTCTCAATTATCTTTAAAGATGGCCAGACGTCCTCATCGCGAATGAACAATGTCATCCGTTAA
255 TTATCTCAATTATCTTTAAAGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAA
*
3384509 TCAGAACTCCTCATCATATAGGAGTCGAGTCATTCT
320 TCAGAACTCCTCATCATGTAGGAGTCGAGTCATTCT
* * * * *
3384545 TAGATAACCAGACGTCCTCATCG-CAATGGAACAATGTTATCCACCAATTAGAACTCCTCATCAT
1 TAGATAGCCAGACGTCCTCATCGTCAA-GGAACAATGTCATCCGCCGATTAGAACTCGTCATCAT
* * *
3384609 GTAGGAATCGAGTCATTCATAGATAGTCAGACATCCTCATCATGAAGGAACTGTGTTATCTCAAT
65 GTAGGAACCGAGTCATTCTTAGATAG-CAGACATCCTCATCGTGAAGGAACTGTGTTATCTCAAT
* * *
3384674 TATCTTTAAAGATGGTCAAACGTCCTCATCGCGAA-GAAACAATGTCATCCGTCGATCAGAACTC
129 TATCTTTAAAGATGGTCAAACGTCCTCATCGTGAAGGAAA-AATGTCATCTGCCGATCAGAACTC
* * *
3384738 CTCATTATGTAGGAGCTGAGTCATTCTTAGATAGCTAAGAGTCATCATCATGAAGGAACCGTGGT
193 CTCATCATGTAGGAGCTGAGTCATTCTTAGATAGC-AAGAGTCATCATCACGAAGGAACCGTGTT
* * * * * *
3384803 ATCTCAATTATTTTTAAAGATGACCAAACGTTCTCATCGCGAAGGAACAATATCATCTGCCAATC
257 ATCTCAATTATCTTTAAAGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAATC
*
3384868 AGAACTCCTCATCATGTAGGGGTCGAGTCATTCT
322 AGAACTCCTCATCATGTAGGAGTCGAGTCATTCT
* * * *
3384902 TAGATAGCCAGACGTCCTCACCGTGAAGGAATAATGTCATTCGCCGATCT-GAACTCGTCATCAT
1 TAGATAGCCAGACGTCCTCATCGTCAAGGAACAATGTCATCCGCCGAT-TAGAACTCGTCATCAT
** * * * ** *
3384966 AAAGGAGCTGAGTCATTCTTAGATAGCCAGA-AGTCCTCATTGTGAAGGAACCATGTTATCTTAA
65 GTAGGAACCGAGTCATTCTTAGATAG-CAGACA-TCCTCATCGTGAAGGAACTGTGTTATCTCAA
* * * *
3385030 TTATCTTTAAAGAT-TTCCAAACGTCCTCATCGTGAAGGAAAAATGTCATTTGCCGACCAAAACT
128 TTATCTTTAAAGATGGT-CAAACGTCCTCATCGTGAAGGAAAAATGTCATCTGCCGATCAGAACT
* * * * * *
3385094 CCTCATCATGTAAGAGCCGAGTCATTTTTAGATAGCCAGACGTTATCATCGCGAAGGAACCGTGT
192 CCTCATCATGTAGGAGCTGAGTCATTCTTAGATAGCAAGA-GTCATCATCACGAAGGAACCGTGT
*
3385159 TATCTCACA-TATCTTTAAAGATGGTCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAA
256 TATCTCA-ATTATCTTTAAAGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAA
* * * **
3385223 CCAGAACTCTTCAACATGTAGGAACCGAGTCATTCT
320 TCAGAACTCCTCATCATGTAGGAGTCGAGTCATTCT
* ** * *
3385259 TAGATAGCCGGAATTCCTCATCGTGAAGGAACCATGT
1 TAGATAGCCAGACGTCCTCATCGTCAAGGAACAATGT
3385296 TATCTCAATA
Statistics
Matches: 640, Mismatches: 97, Indels: 28
0.84 0.13 0.04
Matches are distributed among these distances:
356 14 0.02
357 614 0.96
358 12 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (355 bp):
TAGATAGCCAGACGTCCTCATCGTCAAGGAACAATGTCATCCGCCGATTAGAACTCGTCATCATG
TAGGAACCGAGTCATTCTTAGATAGCAGACATCCTCATCGTGAAGGAACTGTGTTATCTCAATTA
TCTTTAAAGATGGTCAAACGTCCTCATCGTGAAGGAAAAATGTCATCTGCCGATCAGAACTCCTC
ATCATGTAGGAGCTGAGTCATTCTTAGATAGCAAGAGTCATCATCACGAAGGAACCGTGTTATCT
CAATTATCTTTAAAGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAATCAGAA
CTCCTCATCATGTAGGAGTCGAGTCATTCT
Found at i:3384919 original size:220 final size:220
Alignment explanation
Indices: 3384693--3385149 Score: 583
Period size: 220 Copynumber: 2.1 Consensus size: 220
3384683 AGATGGTCAA
* * **
3384693 ACGTCCTCATCGCGAAGAAACAATGTCATCCGTCGATCAGAACTCCTCATTATGTAGGAGCTGAG
1 ACGTCCTCATCGCGAAGAAACAATGTCATCCGCCGATCAGAACTCCTCATCATAAAGGAGCTGAG
* *
3384758 TCATTCTTAGATAGCTAAG-AGTCATCATCATGAAGGAACCGTGGTATCTCAATTATTTTTAAAG
66 TCATTCTTAGATAGC-AAGAAGTCATCATCATGAAGGAACCATGGTATCTCAATTATCTTTAAAG
* * * * *
3384822 ATGACCAAACGTTCTCATCGCGAAGGAACAATATCATCTGCCAATCAGAACTCCTCATCATGTAG
130 ATGACCAAACGTCCTCATCGCGAAGGAAAAATATCATCTGCCAACCAAAACTCCTCATCATGTAA
* *
3384887 GGGTCGAGTCATTCTTAGATAGCCAG
195 GAGCCGAGTCATTCTTAGATAGCCAG
* * * * * * *
3384913 ACGTCCTCACCGTGAAGGAATAATGTCATTCGCCGATCTGAACTCGTCATCATAAAGGAGCTGAG
1 ACGTCCTCATCGCGAAGAAACAATGTCATCCGCCGATCAGAACTCCTCATCATAAAGGAGCTGAG
* * ** * *
3384978 TCATTCTTAGATAGCCAGAAGTCCTCATTGTGAAGGAACCATGTTATCTTAATTATCTTTAAAGA
66 TCATTCTTAGATAGCAAGAAGTCATCATCATGAAGGAACCATGGTATCTCAATTATCTTTAAAGA
** * * * *
3385043 TTTCCAAACGTCCTCATCGTGAAGGAAAAATGTCATTTGCCGACCAAAACTCCTCATCATGTAAG
131 TGACCAAACGTCCTCATCGCGAAGGAAAAATATCATCTGCCAACCAAAACTCCTCATCATGTAAG
*
3385108 AGCCGAGTCATTTTTAGATAGCCAG
196 AGCCGAGTCATTCTTAGATAGCCAG
**
3385133 ACGTTATCATCGCGAAG
1 ACGTCCTCATCGCGAAG
3385150 GAACCGTGTT
Statistics
Matches: 199, Mismatches: 37, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
219 2 0.01
220 197 0.99
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (220 bp):
ACGTCCTCATCGCGAAGAAACAATGTCATCCGCCGATCAGAACTCCTCATCATAAAGGAGCTGAG
TCATTCTTAGATAGCAAGAAGTCATCATCATGAAGGAACCATGGTATCTCAATTATCTTTAAAGA
TGACCAAACGTCCTCATCGCGAAGGAAAAATATCATCTGCCAACCAAAACTCCTCATCATGTAAG
AGCCGAGTCATTCTTAGATAGCCAG
Found at i:3384929 original size:137 final size:137
Alignment explanation
Indices: 3384546--3384932 Score: 492
Period size: 137 Copynumber: 2.8 Consensus size: 137
3384536 AGTCATTCTT
* * * * *
3384546 AGATAACCAGACGTCCTCATCGC-AATGGAACAATGTTATCCACCAATTAGAACTCCTCATCATG
1 AGATGACCAAACGTCCTCATCGCGAA-GGAACAATGTCATCCGCCAATCAGAACTCCTCATCATG
* * * * * *
3384610 TAGGAATCGAGTCATTCATAGATAGTCAGACATCCTCATCATGAAGGAACTGTGTTATCTCAATT
65 TAGGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCATGAAGGAACCGTGGTATCTCAATT
3384675 ATCTTTAA
130 ATCTTTAA
** * * * *
3384683 AGATGGTCAAACGTCCTCATCGCGAAGAAACAATGTCATCCGTCGATCAGAACTCCTCATTATGT
1 AGATGACCAAACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAATCAGAACTCCTCATCATGT
* *
3384748 AGGAG-CTGAGTCATTCTTAGATAGCTAAGA-GTCATCATCATGAAGGAACCGTGGTATCTCAAT
66 AGGAGTC-GAGTCATTCTTAGATAGC-CAGACGTCCTCATCATGAAGGAACCGTGGTATCTCAAT
*
3384811 TATTTTTAA
129 TATCTTTAA
* * *
3384820 AGATGACCAAACGTTCTCATCGCGAAGGAACAATATCATCTGCCAATCAGAACTCCTCATCATGT
1 AGATGACCAAACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAATCAGAACTCCTCATCATGT
* * *
3384885 AGGGGTCGAGTCATTCTTAGATAGCCAGACGTCCTCACCGTGAAGGAA
66 AGGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCATGAAGGAA
3384933 TAATGTCATT
Statistics
Matches: 211, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
136 4 0.02
137 201 0.95
138 6 0.03
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (137 bp):
AGATGACCAAACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAATCAGAACTCCTCATCATGT
AGGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCATGAAGGAACCGTGGTATCTCAATTA
TCTTTAA
Found at i:3385126 original size:137 final size:137
Alignment explanation
Indices: 3384903--3386552 Score: 1904
Period size: 137 Copynumber: 12.0 Consensus size: 137
3384893 AGTCATTCTT
* * * * * * * * * **
3384903 AGATAGCCAGACGTCCTCACCGTGAAGGAATAATGTCATTCGCCGATCTGAACTCGTCATCATAA
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
* * * * *
3384968 AGGAGCTGAGTCATTCTTAGATAGCCAGAAGTCCTCATTGTGAAGGAACCATGTTATCTTAATTA
66 AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCAATTA
3385033 TCTTTAA
131 TCTTTAA
** * * * ** * *
3385040 AGATTTCCAAACGTCCTCATCGTGAAGGAAAAATGTCATTTGCCGACCAAAACTCCTCATCATGT
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
* * ** *
3385105 AAGAGCCGAGTCATTTTTAGATAGCCAGACGTTATCATCGCGAAGGAACCGTGTTATCTCACA-T
66 AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCA-ATT
3385169 ATCTTTAA
130 ATCTTTAA
* * *
3385177 AGATGGTCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCTTCAACATGT
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
* * ** * *
3385242 AGGAACCGAGTCATTCTTAGATAGCCGGAATTCCTCATCGTGAAGGAACCATGTTATCTCAATAA
66 AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCAATTA
3385307 TCTTTAA
131 TCTTTAA
* * * *
3385314 AGATGGCCAGACGTCCTCATCGTGAAGGAACAATGTCATCTGCCAATCAGAACCCCTCATCATGT
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
* * * * *
3385379 AGGAGTCGAGTCATTCTTAGATAGTCAGATGTCCTCATTGTGAAGGAACCATGTTATCTCAATTA
66 AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCAATTA
3385444 TCTTTAA
131 TCTTTAA
* * * * * *
3385451 AGATGACTAGACGTCCTCATCACGAAAGAACAATGTCATCCGCCAATCAGAACTCATCATCATGT
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
* * *
3385516 AGGAGTCGAGTTATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACTGTGTTATCTCAATTA
66 AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCAATTA
3385581 TCTTTAA
131 TCTTTAA
* * * * * * *
3385588 AGATTGCCAGACTTCCTCATCACAAAGGAACAAAGTCATCCGCCAATCAGAACTCCTCATTATGT
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
* * * * * **
3385653 AGGAGTCGAGTCATTCCTAGATAGTCAGACGTCCTCA-CTGCGAAAGAAATGTGTTATCTCAATT
66 AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATC-GTGAAGGAACCGTGTTATCTCAATT
*
3385717 TTCTTTAA
130 ATCTTTAA
* * * * * * *
3385725 AGTTGGCCATACATCCTCATCGTGAAGGAACAATGTCATCCGCCGATCAGAACTCCTCATAATGT
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
* ** * * * * * * *
3385790 AGTAGCTAATTCATTCTTAAATAGCTAGAAGTCCTCATCGCGAAGGAAGCGTATTATCTCAATTA
66 AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCAATTA
3385855 TCTTTAA
131 TCTTTAA
* * * *
3385862 AAATGGCCAAACGTCCTCATCGCGAAGGAATAATGTCATCCACCAACCAGAACAT-CTCATCATG
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAAC-TCCTCATCATG
* * *
3385926 TAGGAGCTGAGTCATTTTTAGATAGCCAGACGTCCTCATCGCGAAGGAACCGTGTTATCTCAATT
65 TAGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCAATT
3385991 ATCTTTAA
130 ATCTTTAA
* * * * * *
3385999 AGATGGCCAAACGTCCTCATCGTGAAGGAATAGTGTCATCCGTCGACCAGAACTCCTCATCATGT
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
* *
3386064 CGGAGCCGAGTCATTCTTAGATAGCCAGACATCCTCATCGTGAAGGAACCGTGTTAGAACCGTGT
66 AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGT----GAA----G---GAACCGTGT
*
3386129 TATCTCAATTAT-TTTTA
120 TATCTCAATTATCTTTAA
* * *
3386146 AGTATGGCCAGACGTCCTCATCGCGAAGGAACAATATCATCCGCGAACCAGAACTCCTCATCTTG
1 AG-ATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATG
** * * *
3386211 TAGGAGCCGAGTCATTCTTAGATAGTTAGACGTCCTCATAGTGAAGTAATCGTGTTATCTCAATT
65 TAGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCAATT
3386276 ATCTTTAA
130 ATCTTTAA
* * ** * * * *
3386284 ATATGGCCAGACGTCCTCATCGCGAAGAAACAATGTCATATGTCGACCAGAACTACTCATCATAT
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
* * * * * * * *
3386349 ATGAGCCGAGTCATTCTTAGATAGCGAGATGTTCTCATCGTAAAGGAACCATGCTATCCCAATTA
66 AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCAATTA
3386414 TCTTTAA
131 TCTTTAA
* * *
3386421 AGATGGCCAGACGTCCTCATCACGAAGGAATAATGTCATCCGTCAACCAGAACTCCTCATCATGT
1 AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
* ** * *
3386486 AGGAGCCGAGTCATTTTTAGATAGCCAGACGTCCTCATCACGAAGGTACCGTGTTATCTCAGTTA
66 AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCAATTA
3386551 TC
131 TC
3386553 CCTAGGCATG
Statistics
Matches: 1286, Mismatches: 208, Indels: 38
0.84 0.14 0.02
Matches are distributed among these distances:
136 3 0.00
137 1150 0.89
138 8 0.01
140 1 0.00
141 3 0.00
144 3 0.00
145 1 0.00
147 6 0.00
148 111 0.09
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (137 bp):
AGATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCCTCATCATGT
AGGAGCCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCGTGTTATCTCAATTA
TCTTTAA
Found at i:3385550 original size:494 final size:493
Alignment explanation
Indices: 3384062--3385563 Score: 1649
Period size: 494 Copynumber: 3.0 Consensus size: 493
3384052 AGATGGCCAA
* ** * *** *
3384062 ACGTCCTCATCGCGAATTAACAATGTCATCCGGTAACCAAAACTCCGT-ATCATGTAAGAACTGA
1 ACGTCCTCATCGTGAAGGAAAAATGTCATCCACCAACCAAAACTCC-TCATCATGTAAGAACCGA
* * * *
3384126 GTCATTTTTAGATAGCCAGATGTCCTCATCATGAAGGAACCGTGTTATCTCACTTAACTTTATAG
65 GTCATTTTTAGATAGCCAGACGTCCTCATCATGAAGGAACCGTGTTATCTCACATATCTTTAAAG
* * *
3384191 ATGGCCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCTGACCAGAACTCGTCATCATGTAG
130 ATGGTCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTAG
* *
3384256 GAGCCGAGTCATTCTTAGAAAGCACGACATCCTCATCGTGAAGGAATCGTGTTATCTCAATTATC
195 GAGCCGAGTCATTCTTAGATAGC-CGACATCCTCATCGTGAAGGAACCGTGTTATCTCAATTATC
* * *
3384321 TTTAAAGATGGCCAGACGTCCTCATCTTGAAGGAAAAATGTCATCTACCAATCAGAACTCCTCAT
259 TTTAAAGATGGCCAGACGTCCTCATCGTGAAGGAACAATGTCATCTGCCAATCAGAACTCCTCAT
* * * ** * * *
3384386 CATGTAGGAGTCGAGTCATTCTTAGATAGCCATACATCCTAATCACGAAAGAACCGTGTTGTCTC
324 CATGTAGGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCATGTTATCTC
* * * *
3384451 AATTATCTTTAAAGATGGCCAGACGTCCTCATCGCGAATGAACAATGTCATCCGTTAATCAGAAC
389 AATTATCTTTAAAGATGACTAGACGTCCTCATCACGAAAGAACAATGTCATCCGTTAATCAGAAC
* *
3384516 TCCTCATCATATAGGAGTCGAGTCATTCTTAGATAACCAG
454 TCCTCATCATGTAGGAGTCGAGTTATTCTTAGATAACCAG
* * * ** * * *
3384556 ACGTCCTCATCG-CAATGGAACAATGTTATCCACCAATTAGAACTCCTCATCATGTAGGAATCGA
1 ACGTCCTCATCGTGAA-GGAAAAATGTCATCCACCAACCAAAACTCCTCATCATGTAAGAACCGA
** * * *
3384620 GTCATTCATAGATAGTCAGACATCCTCATCATGAAGGAACTGTGTTATCTCA-ATTATCTTTAAA
65 GTCATTTTTAGATAGCCAGACGTCCTCATCATGAAGGAACCGTGTTATCTCACA-TATCTTTAAA
* * * * *
3384684 GATGGTCAAACGTCCTCATCGCGAAGAAACAATGTCATCCGTCGATCAGAACTCCTCATTATGTA
129 GATGGTCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTA
* ** * * * *
3384749 GGAGCTGAGTCATTCTTAGATAGCTAAGAGTCATCATCATGAAGGAACCGTGGTATCTCAATTAT
194 GGAGCCGAGTCATTCTTAGATAGCCGACA-TCCTCATCGTGAAGGAACCGTGTTATCTCAATTAT
* * * * * *
3384814 TTTTAAAGATGACCAAACGTTCTCATCGCGAAGGAACAATATCATCTGCCAATCAGAACTCCTCA
258 CTTTAAAGATGGCCAGACGTCCTCATCGTGAAGGAACAATGTCATCTGCCAATCAGAACTCCTCA
* * ** *
3384879 TCATGTAGGGGTCGAGTCATTCTTAGATAGCCAGACGTCCTCACCGTGAAGGAATAATGTCAT-T
323 TCATGTAGGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCATGTTATCT
**** * * * * *
3384943 CGCCGATC--T---GA--ACT---CGTCATCAT-A--AAGGAGCTGA-GTCATTC-TTAGATAGC
388 CAATTATCTTTAAAGATGACTAGACGTCCTCATCACGAAAGAAC-AATGTCATCCGTTA-AT---
* ** * ** * ** *
3384993 CAGAAGTCCTCATTGTGAAGGAACCATGTTATCTTAATTATCTTTAAAGATTTCCAA
448 CAGAACTCCTCATCATGTAGGAGTC--G--A-GTT-A-T-TC-TT--AGATAACCAG
*** * *
3385050 ACGTCCTCATCGTGAAGGAAAAATGTCATTTGCCGACCAAAACTCCTCATCATGTAAGAGCCGAG
1 ACGTCCTCATCGTGAAGGAAAAATGTCATCCACCAACCAAAACTCCTCATCATGTAAGAACCGAG
** **
3385115 TCATTTTTAGATAGCCAGACGTTATCATCGCGAAGGAACCGTGTTATCTCACATATCTTTAAAGA
66 TCATTTTTAGATAGCCAGACGTCCTCATCATGAAGGAACCGTGTTATCTCACATATCTTTAAAGA
* * *
3385180 TGGTCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCAACCAGAACTCTTCAACATGTAGG
131 TGGTCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTAGG
* * *
3385245 AACCGAGTCATTCTTAGATAGCCGGA-ATTCCTCATCGTGAAGGAACCATGTTATCTCAATAATC
196 AGCCGAGTCATTCTTAGATAGCC-GACA-TCCTCATCGTGAAGGAACCGTGTTATCTCAATTATC
*
3385309 TTTAAAGATGGCCAGACGTCCTCATCGTGAAGGAACAATGTCATCTGCCAATCAGAACCCCTCAT
259 TTTAAAGATGGCCAGACGTCCTCATCGTGAAGGAACAATGTCATCTGCCAATCAGAACTCCTCAT
* * *
3385374 CATGTAGGAGTCGAGTCATTCTTAGATAGTCAGATGTCCTCATTGTGAAGGAACCATGTTATCTC
324 CATGTAGGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCATGTTATCTC
**
3385439 AATTATCTTTAAAGATGACTAGACGTCCTCATCACGAAAGAACAATGTCATCCGCCAATCAGAAC
389 AATTATCTTTAAAGATGACTAGACGTCCTCATCACGAAAGAACAATGTCATCCGTTAATCAGAAC
* *
3385504 TCATCATCATGTAGGAGTCGAGTTATTCTTAGATAGCCAG
454 TCCTCATCATGTAGGAGTCGAGTTATTCTTAGATAACCAG
3385544 ACGTCCTCATCGTGAAGGAA
1 ACGTCCTCATCGTGAAGGAA
3385564 CTGTGTTATC
Statistics
Matches: 807, Mismatches: 162, Indels: 78
0.77 0.15 0.07
Matches are distributed among these distances:
479 3 0.00
480 13 0.02
481 1 0.00
483 26 0.03
485 1 0.00
486 1 0.00
487 1 0.00
488 3 0.00
489 1 0.00
490 1 0.00
491 3 0.00
492 2 0.00
493 10 0.01
494 674 0.84
495 9 0.01
496 2 0.00
497 3 0.00
498 1 0.00
499 1 0.00
500 4 0.00
501 1 0.00
502 3 0.00
503 1 0.00
505 26 0.03
506 1 0.00
507 1 0.00
508 13 0.02
509 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (493 bp):
ACGTCCTCATCGTGAAGGAAAAATGTCATCCACCAACCAAAACTCCTCATCATGTAAGAACCGAG
TCATTTTTAGATAGCCAGACGTCCTCATCATGAAGGAACCGTGTTATCTCACATATCTTTAAAGA
TGGTCAGACGTCCTCATCGCGAAGGAACAATGTCATCCGCCGACCAGAACTCCTCATCATGTAGG
AGCCGAGTCATTCTTAGATAGCCGACATCCTCATCGTGAAGGAACCGTGTTATCTCAATTATCTT
TAAAGATGGCCAGACGTCCTCATCGTGAAGGAACAATGTCATCTGCCAATCAGAACTCCTCATCA
TGTAGGAGTCGAGTCATTCTTAGATAGCCAGACGTCCTCATCGTGAAGGAACCATGTTATCTCAA
TTATCTTTAAAGATGACTAGACGTCCTCATCACGAAAGAACAATGTCATCCGTTAATCAGAACTC
CTCATCATGTAGGAGTCGAGTTATTCTTAGATAACCAG
Found at i:3388517 original size:13 final size:13
Alignment explanation
Indices: 3388499--3388577 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 13
3388489 GTCTCGACAG
3388499 TTACATATATAGT
1 TTACATATATAGT
3388512 TTACATATAAATAGAT
1 TTACATAT--ATAG-T
* *
3388528 TGTATATATACATAAT
1 T-TACATAT--ATAGT
* * *
3388544 ATATATACTATAGG
1 TTACATA-TATAGT
3388558 TTACATATATAGT
1 TTACATATATAGT
3388571 TTACATA
1 TTACATA
3388578 AAAATAGATT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
13 20 0.38
14 8 0.15
15 10 0.19
16 4 0.08
17 10 0.19
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (13 bp):
TTACATATATAGT
Found at i:3388606 original size:22 final size:22
Alignment explanation
Indices: 3388581--3388625 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3388571 TTACATAAAA
3388581 ATAGATTGTATATAATATATAT
1 ATAGATTGTATATAATATATAT
* * *
3388603 ATAGTTTTTATATATTATATAT
1 ATAGATTGTATATAATATATAT
3388625 A
1 A
3388626 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (22 bp):
ATAGATTGTATATAATATATAT
Found at i:3388677 original size:21 final size:21
Alignment explanation
Indices: 3388651--3388700 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
3388641 TACTATAAGT
3388651 TACATATATAGTTTACATGTA
1 TACATATATAGTTTACATGTA
3388672 TACATATATAGTTTACATGTA
1 TACATATATAGTTTACATGTA
3388693 TACATATA
1 TACATATA
3388701 CTATATGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (21 bp):
TACATATATAGTTTACATGTA
Found at i:3388797 original size:14 final size:16
Alignment explanation
Indices: 3388760--3388805 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
3388750 ACATATATAA
3388760 TTTATATAAACTATTG
1 TTTATATAAACTATTG
3388776 TTTATATAAACTATTG
1 TTTATATAAACTATTG
3388792 TTTATATAAACTAT
1 TTTATATAAACTAT
3388806 ATATGAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (16 bp):
TTTATATAAACTATTG
Found at i:3388958 original size:13 final size:13
Alignment explanation
Indices: 3388940--3389036 Score: 140
Period size: 13 Copynumber: 7.3 Consensus size: 13
3388930 TAATTTACTT
3388940 TATATAGTTTATATA
1 TATATAG-TT-TATA
*
3388955 TATATAGGTTATA
1 TATATAGTTTATA
3388968 TATATAGTTTATA
1 TATATAGTTTATA
* *
3388981 TATATAGGTTATG
1 TATATAGTTTATA
3388994 TATATAGTTTATA
1 TATATAGTTTATA
*
3389007 TATATAGGTTATA
1 TATATAGTTTATA
3389020 TATATAGTTTATA
1 TATATAGTTTATA
3389033 TATA
1 TATA
3389037 CTATACGTAG
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
13 66 0.89
14 1 0.01
15 7 0.09
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:3388980 original size:26 final size:26
Alignment explanation
Indices: 3388940--3389036 Score: 167
Period size: 26 Copynumber: 3.7 Consensus size: 26
3388930 TAATTTACTT
3388940 TATATAGTTTATATATATATAGGTTATA
1 TATATAG-TT-TATATATATAGGTTATA
*
3388968 TATATAGTTTATATATATAGGTTATG
1 TATATAGTTTATATATATAGGTTATA
3388994 TATATAGTTTATATATATAGGTTATA
1 TATATAGTTTATATATATAGGTTATA
3389020 TATATAGTTTATATATA
1 TATATAGTTTATATATA
3389037 CTATACGTAG
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
26 58 0.87
27 2 0.03
28 7 0.10
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
TATATAGTTTATATATATAGGTTATA
Found at i:3389113 original size:16 final size:16
Alignment explanation
Indices: 3389092--3389143 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
3389082 TTTACATGTA
3389092 TACATATACTATAGGT
1 TACATATACTATAGGT
* *
3389108 TACATATATTAACTATTGT
1 TACATATACT-A-TA-GGT
3389127 T-CATATACTATAGGT
1 TACATATACTATAGGT
3389142 TA
1 TA
3389144 ATGTTACATA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 3 0.11
16 11 0.39
17 2 0.07
18 9 0.32
19 3 0.11
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (16 bp):
TACATATACTATAGGT
Found at i:3389399 original size:15 final size:15
Alignment explanation
Indices: 3389379--3389414 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
3389369 CTATATACTT
3389379 TATATAGTTTATACA
1 TATATAGTTTATACA
*
3389394 TATATAGTTTATATA
1 TATATAGTTTATACA
3389409 TATATA
1 TATATA
3389415 AATTATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:3389399 original size:62 final size:62
Alignment explanation
Indices: 3389327--3389470 Score: 202
Period size: 62 Copynumber: 2.3 Consensus size: 62
3389317 TTAGCTATAC
*
3389327 ATACATATATA-TACTATAT-TAATATAAATTATAATTTATAAACTATATACTTTATATAGTTT
1 ATACATATATAGT-CTATATAT-ATATAAATTATAATTTATAAACTATAGACTTTATATAGTTT
* * *
3389389 ATACATATATAGTTTATATATATATAAATTATAGTTTATAAACTATAGACTTTTTATAGTTT
1 ATACATATATAGTCTATATATATATAAATTATAATTTATAAACTATAGACTTTATATAGTTT
* *
3389451 ATACATATATAATTTATATA
1 ATACATATATAGTCTATATA
3389471 CATAGTTTAT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
62 73 0.97
63 2 0.03
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (62 bp):
ATACATATATAGTCTATATATATATAAATTATAATTTATAAACTATAGACTTTATATAGTTT
Found at i:3389409 original size:13 final size:13
Alignment explanation
Indices: 3389379--3389575 Score: 103
Period size: 13 Copynumber: 15.3 Consensus size: 13
3389369 CTATATACTT
3389379 TATATAGTTTATACA
1 TATATAGTTTAT--A
3389394 TATATAGTTTATA
1 TATATAGTTTATA
*
3389407 TATATA---TAAA
1 TATATAGTTTATA
3389417 T-TATAGTTTATA
1 TATATAGTTTATA
* *
3389429 AACTATAGACTT-T-
1 TA-TATAG-TTTATA
3389442 T-TATAGTTTATACA
1 TATATAGTTTAT--A
*
3389456 TATATAATTTATA
1 TATATAGTTTATA
*
3389469 TACATAGTTTATA
1 TATATAGTTTATA
*
3389482 TATATAATTCATATA
1 TATATAGTT--TATA
* * *
3389497 AACATAATTTATA
1 TATATAGTTTATA
*
3389510 TATATAGCTTATA
1 TATATAGTTTATA
3389523 -ATA-A--TTATA
1 TATATAGTTTATA
* *
3389532 TAGTTTA-TAATATA
1 TA-TATAGT-TTATA
*
3389546 AATATAGTTTATA
1 TATATAGTTTATA
3389559 TATATAGTTTATA
1 TATATAGTTTATA
3389572 TATA
1 TATA
3389576 AACTTATATT
Statistics
Matches: 140, Mismatches: 23, Indels: 40
0.69 0.11 0.20
Matches are distributed among these distances:
9 9 0.06
10 7 0.05
11 8 0.06
12 7 0.05
13 62 0.44
14 13 0.09
15 34 0.24
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:3389420 original size:15 final size:15
Alignment explanation
Indices: 3389348--3389421 Score: 51
Period size: 15 Copynumber: 4.8 Consensus size: 15
3389338 TACTATATTA
3389348 ATATAAATTATA-AT
1 ATATAAATTATATAT
* *
3389362 TTATAAACTATATACTTT
1 ATATAAA-T-TATA-TAT
** *
3389380 ATATAGTTTATACAT
1 ATATAAATTATATAT
**
3389395 ATATAGTTTATATAT
1 ATATAAATTATATAT
3389410 ATATAAATTATA
1 ATATAAATTATA
3389422 GTTTATAAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
14 6 0.13
15 26 0.57
16 8 0.17
17 1 0.02
18 5 0.11
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATAAATTATATAT
Found at i:3389550 original size:18 final size:18
Alignment explanation
Indices: 3389506--3389564 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
3389496 AAACATAATT
*
3389506 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
3389524 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
3389542 TATAAATATAGTTTAT-A
1 TATATATATAGTTTATAA
3389559 TATATA
1 TATATA
3389565 GTTTATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.19
18 28 0.78
19 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:3389588 original size:28 final size:28
Alignment explanation
Indices: 3389443--3389589 Score: 97
Period size: 28 Copynumber: 5.0 Consensus size: 28
3389433 ATAGACTTTT
3389443 TATAGTTTATACATATATAATT-TA-TATA
1 TATAGTTTAT--ATATATAATTATATTATA
* *
3389471 CATAGTTTATATATATAATTCATA-TAAA
1 TATAGTTTATATATATAATT-ATATTATA
* * * *
3389499 CATAATTTATATATATAGCTTATAATAATTA
1 TATAGTTTATATATATA-ATTAT-ATTA-TA
*
3389530 TATAGTTTATA-ATATAAATATAGTTTATATA
1 TATAGTTTATATATAT-AAT-TA-TAT-TATA
3389561 TATAGTTTATATATA-AACTTATATTATA
1 TATAGTTTATATATATAA-TTATATTATA
3389589 T
1 T
3389590 TAATATAAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
26 10 0.11
28 37 0.39
29 5 0.05
30 10 0.11
31 28 0.29
32 5 0.05
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (28 bp):
TATAGTTTATATATATAATTATATTATA
Found at i:3389613 original size:19 final size:19
Alignment explanation
Indices: 3389559--3389613 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
3389549 ATAGTTTATA
3389559 TATATAGTTTATATATAAACT
1 TATATA-TTTA-ATATAAACT
3389580 TATATTATATTAATATAAA-T
1 TATA-TAT-TTAATATAAACT
3389600 TATATACTTTAATA
1 TATATA-TTTAATA
3389614 CTTAATACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 8 0.26
20 6 0.19
21 12 0.39
22 5 0.16
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
TATATATTTAATATAAACT
Found at i:3389718 original size:2 final size:2
Alignment explanation
Indices: 3389704--3389872 Score: 63
Period size: 2 Copynumber: 87.0 Consensus size: 2
3389694 ATAAACTATT
*
3389704 TA TA TA GTA -A TA TA TA TA TA TG TA CT- TA -A TA TA T- TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
3389744 TA TA AA CTA TA TA CA TA AA TC T- TA TA TA T- TA TA TA TT TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
3389785 TA TA TA AA T- TA CA TA GTT TA T- TA -A TA AA CTA CA TA TA AA CTA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * * *
3389827 TA TA TA T- TA TA TA TT TT TC TT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3389868 T- TA TA
1 TA TA TA
3389873 ATTTTTTTCA
Statistics
Matches: 123, Mismatches: 27, Indels: 34
0.67 0.15 0.18
Matches are distributed among these distances:
1 11 0.09
2 105 0.85
3 7 0.06
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3389870 original size:63 final size:59
Alignment explanation
Indices: 3389732--3389866 Score: 132
Period size: 61 Copynumber: 2.3 Consensus size: 59
3389722 TATGTACTTA
* * *
3389732 ATATAT-TATATATATAAACTATATACATAAATCTTATATATTATATATTTATATATAT
1 ATATATATATATATATTAACTAAATACATAAAACTTATATATTATATATTTATATATAT
* * * * * *
3389790 AAAT-TACATAGTTTATTAA-TAAACTACATATAAACTATATATATTATATATTTTTCTTTAT
1 ATATATATATA-TATATTAACTAAA-TACATA-AAACT-TATATATTATATATTTATATATAT
3389851 ATATATATATATATAT
1 ATATATATATATATAT
3389867 ATTATAATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
57 1 0.02
58 9 0.15
59 12 0.20
60 4 0.07
61 28 0.47
62 5 0.08
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (59 bp):
ATATATATATATATATTAACTAAATACATAAAACTTATATATTATATATTTATATATAT
Found at i:3391075 original size:11 final size:11
Alignment explanation
Indices: 3391054--3391142 Score: 61
Period size: 11 Copynumber: 7.9 Consensus size: 11
3391044 AACTCCGGAC
*
3391054 TCAAACTCGAT
1 TCAAGCTCGAT
*
3391065 TGAAGCTCGAT
1 TCAAGCTCGAT
*
3391076 TCAAACTCGATT
1 TCAAGCTCGA-T
*
3391088 TTAAGCTCGAT
1 TCAAGCTCGAT
* *
3391099 TCAAACTTGAT
1 TCAAGCTCGAT
** *
3391110 TGTGAGCTCAAT
1 T-CAAGCTCGAT
*
3391122 TCAAACTCGAT
1 TCAAGCTCGAT
*
3391133 TTAAGCTCGA
1 TCAAGCTCGA
3391143 GGATGGGTTA
Statistics
Matches: 56, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
11 41 0.73
12 15 0.27
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (11 bp):
TCAAGCTCGAT
Found at i:3391097 original size:23 final size:22
Alignment explanation
Indices: 3391054--3391142 Score: 124
Period size: 23 Copynumber: 4.0 Consensus size: 22
3391044 AACTCCGGAC
*
3391054 TCAAACTCGATTGAAGCTCGAT
1 TCAAACTCGATTTAAGCTCGAT
3391076 TCAAACTCGATTTTAAGCTCGAT
1 TCAAACTCGA-TTTAAGCTCGAT
* * *
3391099 TCAAACTTGATTGTGAGCTCAAT
1 TCAAACTCGATT-TAAGCTCGAT
3391122 TCAAACTCGATTTAAGCTCGA
1 TCAAACTCGATTTAAGCTCGA
3391143 GGATGGGTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
22 19 0.33
23 39 0.67
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (22 bp):
TCAAACTCGATTTAAGCTCGAT
Found at i:3393170 original size:7 final size:7
Alignment explanation
Indices: 3393154--3393258 Score: 99
Period size: 7 Copynumber: 15.4 Consensus size: 7
3393144 TCACATAATC
*
3393154 GGGTTAA
1 GGGTTTA
3393161 GGGTTTA
1 GGGTTTA
3393168 GGGTTTA
1 GGGTTTA
3393175 -GGTTTA
1 GGGTTTA
3393181 -GGTTTA
1 GGGTTTA
3393187 GGGTTTA
1 GGGTTTA
3393194 GGGTTTA
1 GGGTTTA
3393201 GGGTTTA
1 GGGTTTA
**
3393208 ATGTTTA
1 GGGTTTA
* *
3393215 AGATTTA
1 GGGTTTA
*
3393222 GGGCTTA
1 GGGTTTA
3393229 -GGTTTA
1 GGGTTTA
** *
3393235 TAGCTTA
1 GGGTTTA
3393242 GGGTTTA
1 GGGTTTA
*
3393249 GGATTTA
1 GGGTTTA
3393256 GGG
1 GGG
3393259 ATCATTGCAA
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
6 17 0.21
7 63 0.79
ACGTcount: A:0.20, C:0.02, G:0.36, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:3393452 original size:25 final size:26
Alignment explanation
Indices: 3393407--3393455 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
3393397 AATAATTAGT
3393407 TATTAAAAATATTATCATTAGATATA
1 TATTAAAAATATTATCATTAGATATA
* *
3393433 TATTAAATAT-TTGTCATTAGATA
1 TATTAAAAATATTATCATTAGATA
3393456 AATAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (26 bp):
TATTAAAAATATTATCATTAGATATA
Found at i:3393771 original size:11 final size:11
Alignment explanation
Indices: 3393755--3393816 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
3393745 ATATTATAGA
3393755 ATTTTTAATAT
1 ATTTTTAATAT
3393766 ATTTTTAA-A-
1 ATTTTTAATAT
3393775 ATTTTATAAT-T
1 ATTTT-TAATAT
** *
3393786 ATTAATAATGT
1 ATTTTTAATAT
3393797 A-TTTTAATAT
1 ATTTTTAATAT
3393807 ATTTTTAATA
1 ATTTTTAATA
3393817 ATGTAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
9 5 0.12
10 15 0.37
11 21 0.51
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:3393826 original size:14 final size:14
Alignment explanation
Indices: 3393781--3393828 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
3393771 TAAAATTTTA
3393781 TAATTATTAATAATG
1 TAATT-TTAATAATG
3393796 T-ATTTTAAT-A--
1 TAATTTTAATAATG
*
3393806 TATTTTTAATAATG
1 TAATTTTAATAATG
3393820 TAATTTTAA
1 TAATTTTAA
3393829 AAAATCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
10 1 0.04
11 7 0.26
12 2 0.07
13 5 0.19
14 11 0.41
15 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (14 bp):
TAATTTTAATAATG
Found at i:3395584 original size:31 final size:31
Alignment explanation
Indices: 3395549--3395616 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
3395539 TGATGAACAC
*
3395549 ATCTTAATTAAATAAAAACGAAAGTGACAAT
1 ATCTTAATTAAATAAAAACGAAAGAGACAAT
*
3395580 ATCTTAATTAAATAAAAACGAAAGAGACTAT
1 ATCTTAATTAAATAAAAACGAAAGAGACAAT
3395611 ATCTTA
1 ATCTTA
3395617 TGATTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.28
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACGAAAGAGACAAT
Found at i:3395735 original size:3 final size:3
Alignment explanation
Indices: 3395727--3395758 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3395717 ATGACACAAT
3395727 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3395759 TATTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3396205 original size:13 final size:13
Alignment explanation
Indices: 3396189--3396224 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3396179 AGATTTAATC
3396189 TAAAGAAATTAAA
1 TAAAGAAATTAAA
3396202 TAAAGAAATTAAA
1 TAAAGAAATTAAA
*
3396215 TAAAGTAATT
1 TAAAGAAATT
3396225 GAGATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (13 bp):
TAAAGAAATTAAA
Found at i:3398002 original size:14 final size:15
Alignment explanation
Indices: 3397963--3398002 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
3397953 GAACAGATTA
3397963 TTTCTGCACTGTATT
1 TTTCTGCACTGTATT
**
3397978 TTTCTATACTGTATT
1 TTTCTGCACTGTATT
3397993 TTT-TGCACTG
1 TTTCTGCACTG
3398003 ATAAAACCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.55
Consensus pattern (15 bp):
TTTCTGCACTGTATT
Found at i:3400294 original size:194 final size:194
Alignment explanation
Indices: 3399965--3400396 Score: 630
Period size: 194 Copynumber: 2.2 Consensus size: 194
3399955 TTTTCTTTTA
*
3399965 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTAAACATATATGGTAGCG
1 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTAAACATATACGGTAGCG
* * *
3400030 CTCTACCGGTTTTGTCATATTGAAACCGATTTTATCATATTTTAACCTGTTATATTGTAATGTAT
66 CTCTACCGATTTTGTCATATTGAAACAGATTTTATCATATTTTAACATGTTATATTGTAATGTAT
* * * *
3400095 CGATACATATTTCTAAAGTATTGATACTTTATAGGTGTTATTATTGCAATTCTTTTAAATTCTT
131 CGATACATATTTCTAAAGTATCGATACTTTATAGGCGCTATTATTGCAATTCTTTTAAATTCAT
** * * * *
3400159 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATATTTTCAATATATCCGGTAGCT
1 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTAAACATATACGGTAGCG
* ** * * * *
3400224 CTTTATTGATTTTTTCATATTGAAACAGGTTTTGTCATATTTTAACATGTTATATTGTTATGTAT
66 CTCTACCGATTTTGTCATATTGAAACAGATTTTATCATATTTTAACATGTTATATTGTAATGTAT
*
3400289 CGATACATGTTTCTAAAGTATCGATACTTTATAGGCGCTATTATTGCAATTCTTTTAAATTCAT
131 CGATACATATTTCTAAAGTATCGATACTTTATAGGCGCTATTATTGCAATTCTTTTAAATTCAT
* * * *
3400353 AAAGTATCGATAATTTGGTGCATATACTTAGAAAAGTATCGATA
1 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATA
3400397 ATTTGATGCA
Statistics
Matches: 212, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
194 212 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (194 bp):
AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTAAACATATACGGTAGCG
CTCTACCGATTTTGTCATATTGAAACAGATTTTATCATATTTTAACATGTTATATTGTAATGTAT
CGATACATATTTCTAAAGTATCGATACTTTATAGGCGCTATTATTGCAATTCTTTTAAATTCAT
Found at i:3400389 original size:32 final size:32
Alignment explanation
Indices: 3400353--3400429 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
3400343 TTAAATTCAT
* *
3400353 AAAGTATCGATAATTTGGTGCATATACTTAGA
1 AAAGTATCGATAATTTGATGCATATACTTAAA
3400385 AAAGTATCGATAATTTGATGCATATACTTAAA
1 AAAGTATCGATAATTTGATGCATATACTTAAA
3400417 AAAGTATCGATAA
1 AAAGTATCGATAA
3400430 AAATTTCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (32 bp):
AAAGTATCGATAATTTGATGCATATACTTAAA
Found at i:3400898 original size:2 final size:2
Alignment explanation
Indices: 3400891--3400915 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3400881 GGGTTTTAAC
3400891 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3400916 AGAGGGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3401141 original size:17 final size:17
Alignment explanation
Indices: 3401128--3401197 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 17
3401118 AATTAAACAT
*
3401128 ATAATTAAAATAAAAAA
1 ATAAATAAAATAAAAAA
3401145 ATAAATAAAATGGAAATAAA
1 ATAAATAAAAT--AAA-AAA
3401165 A-AAAT-AAATAAAATGGAA
1 ATAAATAAAATAAAA---AA
3401183 ATAAA-AAAATAAAAA
1 ATAAATAAAATAAAAA
3401198 TTAAGCAAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 17
0.71 0.02 0.27
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 10 0.23
18 7 0.16
19 18 0.41
20 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.19
Consensus pattern (17 bp):
ATAAATAAAATAAAAAA
Found at i:3401150 original size:12 final size:12
Alignment explanation
Indices: 3401135--3401195 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
3401125 CATATAATTA
3401135 AAATAAAAAAAT
1 AAATAAAAAAAT
***
3401147 AAAT-AAAATGG
1 AAATAAAAAAAT
3401158 AAATAAAAAAAT
1 AAATAAAAAAAT
***
3401170 AAAT-AAAATGG
1 AAATAAAAAAAT
3401181 AAATAAAAAAAT
1 AAATAAAAAAAT
3401193 AAA
1 AAA
3401196 AATTAAGCAA
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
11 16 0.46
12 19 0.54
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (12 bp):
AAATAAAAAAAT
Found at i:3401161 original size:23 final size:23
Alignment explanation
Indices: 3401135--3401195 Score: 122
Period size: 23 Copynumber: 2.7 Consensus size: 23
3401125 CATATAATTA
3401135 AAATAAAAAAATAAATAAAATGG
1 AAATAAAAAAATAAATAAAATGG
3401158 AAATAAAAAAATAAATAAAATGG
1 AAATAAAAAAATAAATAAAATGG
3401181 AAATAAAAAAATAAA
1 AAATAAAAAAATAAA
3401196 AATTAAGCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (23 bp):
AAATAAAAAAATAAATAAAATGG
Found at i:3402482 original size:30 final size:29
Alignment explanation
Indices: 3402433--3402499 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
3402423 ATTTTTCTTC
*
3402433 TTTCTC-TTGGATCTTGTGTCAACTATTT
1 TTTCTCTTTGGATCTTGTGTCAACTATTA
* *
3402461 TTTCTCTTTGGGATTTTGTGTCAACTCTTA
1 TTTCTCTTT-GGATCTTGTGTCAACTATTA
3402491 TTTCTCTTT
1 TTTCTCTTT
3402500 AGGGTTCTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 6 0.18
29 2 0.06
30 26 0.76
ACGTcount: A:0.12, C:0.18, G:0.13, T:0.57
Consensus pattern (29 bp):
TTTCTCTTTGGATCTTGTGTCAACTATTA
Found at i:3406694 original size:23 final size:23
Alignment explanation
Indices: 3406668--3406734 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
3406658 TGCCATATAA
3406668 TTGTCCCGAATGACCACATAGTT
1 TTGTCCCGAATGACCACATAGTT
*
3406691 TTGTCCCGAATGACCATATAGTT
1 TTGTCCCGAATGACCACATAGTT
* *
3406714 TTGTCTCGAACGACCACATAG
1 TTGTCCCGAATGACCACATAG
3406735 AACCCTCGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (23 bp):
TTGTCCCGAATGACCACATAGTT
Found at i:3406708 original size:44 final size:45
Alignment explanation
Indices: 3406647--3406734 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 45
3406637 GCTCACATAA
*
3406647 TTGTACCGAAGTGCCATATA-ATTGTCCCGAATGACCACATAGTT
1 TTGTACCGAAGTGCCATATAGATTGTCCCGAACGACCACATAGTT
* * *
3406691 TTGTCCCGAA-TGACCATATAGTTTTGTCTCGAACGACCACATAG
1 TTGTACCGAAGTG-CCATATAG-ATTGTCCCGAACGACCACATAG
3406735 AACCCTCGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 2 0.05
44 16 0.43
46 19 0.51
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
TTGTACCGAAGTGCCATATAGATTGTCCCGAACGACCACATAGTT
Found at i:3411046 original size:24 final size:23
Alignment explanation
Indices: 3410970--3411054 Score: 118
Period size: 23 Copynumber: 3.7 Consensus size: 23
3410960 TCGAGGGTTT
* * *
3410970 TATGTGGTCATTTGGGATAAATC
1 TATGTGGTCCTTCGGGACAAATC
3410993 TATGTGGTCCTTCGGGACAAATC
1 TATGTGGTCCTTCGGGACAAATC
3411016 TATGTGGTCCTTCGGGACAAATTC
1 TATGTGGTCCTTCGGGACAAA-TC
3411040 TATGTGG-CACTTCGG
1 TATGTGGTC-CTTCGG
3411055 TGCGAATTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 42 0.74
24 15 0.26
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGACAAATC
Found at i:3411066 original size:46 final size:45
Alignment explanation
Indices: 3410969--3411067 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 45
3410959 GTCGAGGGTT
* *
3410969 TTATGTGGTCATTTGGGATAAATCTATGTGGTCCTTCGGGACAAA
1 TTATGTGGTCATTCGGGACAAATCTATGTGGTCCTTCGGGACAAA
* *
3411014 TCTATGTGGTCCTTCGGGACAAATTCTATGTGG-CACTTCGGTG-CGAA
1 T-TATGTGGTCATTCGGGACAAA-TCTATGTGGTC-CTTCGG-GACAAA
3411061 TTATGTG
1 TTATGTG
3411068 AGAAGTGGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
45 1 0.02
46 25 0.54
47 19 0.41
48 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.35
Consensus pattern (45 bp):
TTATGTGGTCATTCGGGACAAATCTATGTGGTCCTTCGGGACAAA
Found at i:3414267 original size:21 final size:20
Alignment explanation
Indices: 3414198--3414316 Score: 123
Period size: 21 Copynumber: 5.6 Consensus size: 20
3414188 ACCCCGTGTA
*
3414198 GGGTATCGATACCA-TCAGG
1 GGGTATCGATACCATTCAAG
*
3414217 GGGTATTGATATCCATTCAAG
1 GGGTATCGATA-CCATTCAAG
*
3414238 GATGGTATCGATACCTATTTAAG
1 G--GGTATCGATACC-ATTCAAG
3414261 GGGTATCGATACCTATTCAAAGG
1 GGGTATCGATACC-ATTC-AA-G
*
3414284 GGGTATCGATACCAGTCTAAG
1 GGGTATCGATACCATTC-AAG
3414305 GGGTATCGATAC
1 GGGTATCGATAC
3414317 TCTATGCACA
Statistics
Matches: 86, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.12
20 3 0.03
21 34 0.40
22 9 0.10
23 30 0.35
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACCATTCAAG
Found at i:3414279 original size:44 final size:43
Alignment explanation
Indices: 3414198--3414321 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 43
3414188 ACCCCGTGTA
* * *
3414198 GGGTATCGATACCA-TCAGGGGGTATTGATATCC-ATTC-AAGG
1 GGGTATCGATACCATTTAAGGGGTATCGATA-CCTATTCAAAGG
*
3414239 ATGGTATCGATACCTATTTAAGGGGTATCGATACCTATTCAAAGG
1 -GGGTATCGATACC-ATTTAAGGGGTATCGATACCTATTCAAAGG
*
3414284 GGGTATCGATACCAGTCTAAGGGGTATCGATACTCTAT
1 GGGTATCGATACCA-TTTAAGGGGTATCGATAC-CTAT
3414322 GCACACAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
42 12 0.17
43 4 0.06
44 46 0.66
45 8 0.11
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
GGGTATCGATACCATTTAAGGGGTATCGATACCTATTCAAAGG
Found at i:3422244 original size:13 final size:13
Alignment explanation
Indices: 3422226--3422250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3422216 TTTTATTAAT
3422226 TCGGTTAATTCAA
1 TCGGTTAATTCAA
3422239 TCGGTTAATTCA
1 TCGGTTAATTCA
3422251 GTTAAAACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TCGGTTAATTCAA
Found at i:3423006 original size:23 final size:23
Alignment explanation
Indices: 3422976--3423021 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3422966 GTGATGCTGC
3422976 CGTTTTGCTCTCGACCCTTCGTT
1 CGTTTTGCTCTCGACCCTTCGTT
3422999 CGTTTTGCTCTCGACCCTTCGTT
1 CGTTTTGCTCTCGACCCTTCGTT
3423022 ATTTTGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.04, C:0.35, G:0.17, T:0.43
Consensus pattern (23 bp):
CGTTTTGCTCTCGACCCTTCGTT
Found at i:3426337 original size:240 final size:241
Alignment explanation
Indices: 3425914--3426394 Score: 955
Period size: 240 Copynumber: 2.0 Consensus size: 241
3425904 GGGGTTGCAG
3425914 GATCGAGTAATACATCTGTATCTAGTAAACAAAAGTCTGCAGAACTTAATGTTGTTGATGACATG
1 GATCGAGTAATACATCTGTATCTAGTAAACAAAAGTCTGCAGAACTTAATGTTGTTGATGACATG
3425979 AGGAAATTTTGAGTCAACACGGCTGGTGCATGTTAAGGAACAACTTCTGATGATATGAATCTGGC
66 AGGAAATTTTGAGTCAACACGGCTGGTGCATGTTAAGGAACAACTTCTGATGATATGAATCTGGC
3426044 TGGCTTAACTGAGGCTATTCCACAGGAGGCAGTTAATGCAGGTGAAGATAGTGTGGATAGAAACT
131 TGGCTTAACTGAGGCTATTCCACAGGAGGCAGTTAATGCAGGTGAAGATAGTGTGGATAGAAACT
3426109 CTGGTCATTTGGGTCA-GTACTAATTAGCATGGGTGAAACTTCTCT
196 CTGGTCATTTGGGTCAGGTACTAATTAGCATGGGTGAAACTTCTCT
3426154 GATCGAGTAATACATCTGTATCTAGTAAACAAAAGTCTGCAGAACTTAATGTTGTTGATGACATG
1 GATCGAGTAATACATCTGTATCTAGTAAACAAAAGTCTGCAGAACTTAATGTTGTTGATGACATG
3426219 AGGAAATTTTGAGTCAACACGGCTGGTGCATGTTAAGGAACAACTTCTGATGATATGAATCTGGC
66 AGGAAATTTTGAGTCAACACGGCTGGTGCATGTTAAGGAACAACTTCTGATGATATGAATCTGGC
3426284 TGGCTTAACTGAGGCTATTCCACAGGAGGCAGTTAATGCAGGTGAAGATAGTGTGGATAGAAACT
131 TGGCTTAACTGAGGCTATTCCACAGGAGGCAGTTAATGCAGGTGAAGATAGTGTGGATAGAAACT
3426349 CTGGTCATTTGGGTCAGGTACTAATTAGCATGGGTGAAACTTCTCT
196 CTGGTCATTTGGGTCAGGTACTAATTAGCATGGGTGAAACTTCTCT
3426395 AGAAGCTGCT
Statistics
Matches: 240, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
240 211 0.88
241 29 0.12
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (241 bp):
GATCGAGTAATACATCTGTATCTAGTAAACAAAAGTCTGCAGAACTTAATGTTGTTGATGACATG
AGGAAATTTTGAGTCAACACGGCTGGTGCATGTTAAGGAACAACTTCTGATGATATGAATCTGGC
TGGCTTAACTGAGGCTATTCCACAGGAGGCAGTTAATGCAGGTGAAGATAGTGTGGATAGAAACT
CTGGTCATTTGGGTCAGGTACTAATTAGCATGGGTGAAACTTCTCT
Found at i:3430533 original size:20 final size:20
Alignment explanation
Indices: 3430508--3430549 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
3430498 AAAGATTATA
3430508 ACTGTACGGTCGCATGACGT
1 ACTGTACGGTCGCATGACGT
*
3430528 ACTGTACGGTCGCATGATGT
1 ACTGTACGGTCGCATGACGT
3430548 AC
1 AC
3430550 GGTGCGACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (20 bp):
ACTGTACGGTCGCATGACGT
Found at i:3438208 original size:23 final size:23
Alignment explanation
Indices: 3438179--3438264 Score: 97
Period size: 23 Copynumber: 3.9 Consensus size: 23
3438169 TAGATCATTA
3438179 AAATAATATTATTTCAAATAAAT
1 AAATAATATTATTTCAAATAAAT
* * *
3438202 AATTAATTTTGTTTCAAATAAAT
1 AAATAATATTATTTCAAATAAAT
* *
3438225 AAATAATATGATTT-AAAAAAAT
1 AAATAATATTATTTCAAATAAAT
*
3438247 AAATAA-A-TATTTTAAATA
1 AAATAATATTATTTCAAATA
3438265 CTTTCATAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
20 4 0.08
21 5 0.10
22 13 0.25
23 30 0.58
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATAATATTATTTCAAATAAAT
Found at i:3439593 original size:69 final size:69
Alignment explanation
Indices: 3439512--3439654 Score: 279
Period size: 69 Copynumber: 2.1 Consensus size: 69
3439502 TGGCGCCACG
3439512 TGGGG-TAAGGCGCCCCCCTGTAGCGCGCCTTATGCTGACTTGGATACACCTAGCTAAAGTGCGG
1 TGGGGCTAAGGCGCCCCCCTGTAGCGCGCCTTATGCTGACTTGGATACACCTAGCTAAAGTGCGG
3439576 CCCC
66 CCCC
3439580 TGGGGCTAAGGCGCCCCCCTGTAGCGCGCCTTATGCTGACTTGGATACACCTAGCTAAAGTGCGG
1 TGGGGCTAAGGCGCCCCCCTGTAGCGCGCCTTATGCTGACTTGGATACACCTAGCTAAAGTGCGG
3439645 CCCC
66 CCCC
3439649 TGGGGC
1 TGGGGC
3439655 GCTTCTTACG
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 5 0.07
69 69 0.93
ACGTcount: A:0.17, C:0.32, G:0.31, T:0.20
Consensus pattern (69 bp):
TGGGGCTAAGGCGCCCCCCTGTAGCGCGCCTTATGCTGACTTGGATACACCTAGCTAAAGTGCGG
CCCC
Found at i:3440124 original size:22 final size:22
Alignment explanation
Indices: 3440099--3440145 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
3440089 TAAATTATTT
*
3440099 AAATTATATACGTTTATGTGTA
1 AAATGATATACGTTTATGTGTA
*
3440121 AAATGATTTACGTTTATGTGTA
1 AAATGATATACGTTTATGTGTA
3440143 AAA
1 AAA
3440146 ATTTTATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AAATGATATACGTTTATGTGTA
Found at i:3452110 original size:160 final size:160
Alignment explanation
Indices: 3451846--3452165 Score: 640
Period size: 160 Copynumber: 2.0 Consensus size: 160
3451836 TAATGGAAGT
3451846 TTTAAATTTTCTTTGAATTTTGTCCAGAATCAAAGTTTGAAAAGTCAATGTGACACCTCAGACTT
1 TTTAAATTTTCTTTGAATTTTGTCCAGAATCAAAGTTTGAAAAGTCAATGTGACACCTCAGACTT
3451911 GGATCCGGGTCGGGTACGGGGTGGGGATGTTACAGAGGCAAACAATTCGACCTTAAAGGGTGCAC
66 GGATCCGGGTCGGGTACGGGGTGGGGATGTTACAGAGGCAAACAATTCGACCTTAAAGGGTGCAC
3451976 GTCACTTACCTATAGCAGCTTTGGTGAAAA
131 GTCACTTACCTATAGCAGCTTTGGTGAAAA
3452006 TTTAAATTTTCTTTGAATTTTGTCCAGAATCAAAGTTTGAAAAGTCAATGTGACACCTCAGACTT
1 TTTAAATTTTCTTTGAATTTTGTCCAGAATCAAAGTTTGAAAAGTCAATGTGACACCTCAGACTT
3452071 GGATCCGGGTCGGGTACGGGGTGGGGATGTTACAGAGGCAAACAATTCGACCTTAAAGGGTGCAC
66 GGATCCGGGTCGGGTACGGGGTGGGGATGTTACAGAGGCAAACAATTCGACCTTAAAGGGTGCAC
3452136 GTCACTTACCTATAGCAGCTTTGGTGAAAA
131 GTCACTTACCTATAGCAGCTTTGGTGAAAA
3452166 CTACATATTT
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (160 bp):
TTTAAATTTTCTTTGAATTTTGTCCAGAATCAAAGTTTGAAAAGTCAATGTGACACCTCAGACTT
GGATCCGGGTCGGGTACGGGGTGGGGATGTTACAGAGGCAAACAATTCGACCTTAAAGGGTGCAC
GTCACTTACCTATAGCAGCTTTGGTGAAAA
Found at i:3453069 original size:21 final size:19
Alignment explanation
Indices: 3453044--3453104 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 19
3453034 ACAAACTTAC
3453044 AATAAGTATTAAATGGTAAAT
1 AATAA-TATTAAAT-GTAAAT
3453065 AATAATA--AAAT-TACAAT
1 AATAATATTAAATGTA-AAT
3453082 AACTAATATTAAATGATAAAT
1 AA-TAATATTAAATG-TAAAT
3453103 AA
1 AA
3453105 ATTAACTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.06
17 5 0.15
18 9 0.26
20 6 0.18
21 10 0.29
22 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (19 bp):
AATAATATTAAATGTAAAT
Found at i:3453412 original size:6 final size:6
Alignment explanation
Indices: 3453396--3453433 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
3453386 ACTCCTCGCT
* *
3453396 GTCATC ATCATC GTCATC GTTATC GTCATC GTCATC GT
1 GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GT
3453434 GAGAAGCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.37
Consensus pattern (6 bp):
GTCATC
Found at i:3453746 original size:33 final size:33
Alignment explanation
Indices: 3453693--3453760 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
3453683 TCCTCCAGGA
* * * *
3453693 GGGGTCATATAACTATGTGAAGGTGGCGGCGGC
1 GGGGTCATAAAACCAGGTGAAGGCGGCGGCGGC
3453726 GGGGTCATAAAACCAGGTGAAGGCGGCGGCGGC
1 GGGGTCATAAAACCAGGTGAAGGCGGCGGCGGC
3453759 GG
1 GG
3453761 CATCTGGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.22, C:0.18, G:0.46, T:0.15
Consensus pattern (33 bp):
GGGGTCATAAAACCAGGTGAAGGCGGCGGCGGC
Found at i:3455521 original size:20 final size:20
Alignment explanation
Indices: 3455496--3455533 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3455486 TCTGGAAAAA
3455496 AAATAAACAAATAAAATATT
1 AAATAAACAAATAAAATATT
**
3455516 AAATAATTAAATAAAATA
1 AAATAAACAAATAAAATA
3455534 ATAACAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATAAACAAATAAAATATT
Found at i:3456498 original size:21 final size:21
Alignment explanation
Indices: 3456456--3456498 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3456446 TTTCTGGGTT
* * *
3456456 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
3456477 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
3456498 A
1 A
3456499 TGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:3456559 original size:66 final size:67
Alignment explanation
Indices: 3456456--3456627 Score: 224
Period size: 67 Copynumber: 2.6 Consensus size: 67
3456446 TTTCTGGGTT
* * *
3456456 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCCTCAAT-G-AAATGAATTTCCAGAAT
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTC-ATCGTAAATGAAATTCCAGAAT
3456518 GCTAG
63 GCTAG
* *
3456523 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGCT
*
3456588 TG
66 AG
* *
3456590 AGGGGAATCGATACCCCCAGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCC
3456628 ATGAGAAAGA
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
65 4 0.04
66 20 0.21
67 70 0.74
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (67 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGCT
AG
Found at i:3456616 original size:20 final size:20
Alignment explanation
Indices: 3456591--3456628 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3456581 GATTGCTTGA
*
3456591 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
3456611 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
3456629 TGAGAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:3456978 original size:29 final size:29
Alignment explanation
Indices: 3456930--3457000 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
3456920 CATATTATGA
**
3456930 TACATGAC-TGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
3456958 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
3456987 TACATGACATGAAT
1 TACATGACATGAAT
3457001 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 8 0.21
29 31 0.79
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:3457057 original size:30 final size:31
Alignment explanation
Indices: 3457015--3457074 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
3457005 AGAAAAAGTT
*
3457015 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
3457046 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
3457075 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:3457315 original size:22 final size:22
Alignment explanation
Indices: 3457287--3457353 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
3457277 CTTATGGAAT
3457287 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
3457309 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
3457331 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
3457353 A
1 A
3457354 TTATACGAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:3463109 original size:66 final size:66
Alignment explanation
Indices: 3463003--3463159 Score: 187
Period size: 66 Copynumber: 2.4 Consensus size: 66
3462993 TTTCTGGGTT
* * *
3463003 AGGGGAATCGGTACCCATTCA-AGGGGAACCGTACCCCCTCAAT-G-AAATGAATTTCCAGAATG
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGTACCCCCTC-ATCGTAAATGAAATTCCAGAATG
3463065 CTAG
63 CTAG
* *
3463069 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCG-TACCCCCTCATCGTAAATGAAATTCCAGAATGCT
*
3463134 TG
65 AG
*
3463136 AGGGGAATCGATA-CCCCAGGGGGG
1 AGGGGAATCGGTACCCCCAGGGGGG
3463160 GGAAACCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
64 2 0.03
65 11 0.14
66 37 0.46
67 30 0.38
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.18
Consensus pattern (66 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGTACCCCCTCATCGTAAATGAAATTCCAGAATGCTA
G
Found at i:3463160 original size:67 final size:67
Alignment explanation
Indices: 3463025--3463175 Score: 184
Period size: 67 Copynumber: 2.3 Consensus size: 67
3463015 ACCCATTCAA
* *
3463025 GGGGAACCG-TACCCCCTCAATGAAATGAATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA-
1 GGGGAACCGATACCCCCTCAATGAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
3463088 GG
66 GG
* * *
3463090 GGGGAACCGATACCCCCTC-ATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATA-CCCC
1 GGGGAACCGATACCCCCTCAAT-G-AAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCC
3463153 AGGGG
64 A-GGG
*
3463158 GGGGAAACCGATTCCCCC
1 GGGG-AACCGATACCCCC
3463176 ATGAGAAAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
65 11 0.15
66 15 0.20
67 30 0.41
68 6 0.08
69 12 0.16
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAATGAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
GG
Found at i:3463199 original size:15 final size:16
Alignment explanation
Indices: 3463179--3463208 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3463169 TTCCCCCATG
3463179 AGAAAAGAAG-AAGAA
1 AGAAAAGAAGCAAGAA
3463194 AGAAAAGAAGCAAGA
1 AGAAAAGAAGCAAGA
3463209 CTAAGCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAGCAAGAA
Found at i:3463525 original size:27 final size:28
Alignment explanation
Indices: 3463469--3463543 Score: 107
Period size: 27 Copynumber: 2.6 Consensus size: 28
3463459 CATATTATGA
*
3463469 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAA-TTGCATTAAATGTAT
*
3463498 TACATGACATGAATT-CATTATATGTAT
1 TACATGACATGAATTGCATTAAATGTAT
3463525 TACATGACATGAATATGCA
1 TACATGACATGAAT-TGCA
3463544 GAAAAGTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 24 0.57
28 3 0.07
29 15 0.36
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (28 bp):
TACATGACATGAATTGCATTAAATGTAT
Found at i:3463593 original size:30 final size:31
Alignment explanation
Indices: 3463551--3463610 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
3463541 GCAGAAAAGT
*
3463551 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
3463582 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
3463611 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:3463877 original size:21 final size:22
Alignment explanation
Indices: 3463826--3463891 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
3463816 CTTAGGACAT
3463826 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
3463848 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
3463870 AA-TCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
3463891 A
1 A
3463892 TTTATACGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 20 0.45
22 24 0.55
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:3470546 original size:20 final size:20
Alignment explanation
Indices: 3470521--3470594 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
3470511 ACGAAATAAA
*
3470521 AATCGCAATGCGATCTCCAG
1 AATCGCAACGCGATCTCCAG
** *
3470541 AATCGCAAATCAGTTC-CCAG
1 AATCGCAACGC-GATCTCCAG
* *
3470561 AATCGTAACGCGATTTTCCAG
1 AATCGCAACGCGA-TCTCCAG
3470582 AATCGCAACGCGA
1 AATCGCAACGCGA
3470595 ATATGAAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 22 0.52
21 19 0.45
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGATCTCCAG
Found at i:3470698 original size:20 final size:20
Alignment explanation
Indices: 3470633--3470778 Score: 123
Period size: 20 Copynumber: 7.2 Consensus size: 20
3470623 TCTGACTATA
*
3470633 GCAACGAGTATCCGTAAAATC
1 GCAACGAGTATACGT-AAATC
* * * *
3470654 GCAACGCGTATCCGTAGATT
1 GCAACGAGTATACGTAAATC
* *
3470674 TCAACGAGAATACGTAAATC
1 GCAACGAGTATACGTAAATC
* *
3470694 GCAACGCGTGT-CTGTAAATC
1 GCAACGAGTATAC-GTAAATC
*
3470714 GCAACGAGAATACGTAAATC
1 GCAACGAGTATACGTAAATC
* * *
3470734 GCAATGCGTATTCGTAAATC
1 GCAACGAGTATACGTAAATC
**
3470754 GCAACGACAATACGTAAAATC
1 GCAACGAGTATACGT-AAATC
3470775 GCAA
1 GCAA
3470779 TGCGATTTTT
Statistics
Matches: 97, Mismatches: 25, Indels: 6
0.76 0.20 0.05
Matches are distributed among these distances:
19 1 0.01
20 72 0.74
21 24 0.25
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
GCAACGAGTATACGTAAATC
Found at i:3470701 original size:40 final size:41
Alignment explanation
Indices: 3470633--3470778 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 41
3470623 TCTGACTATA
* * * *
3470633 GCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAGATT
1 GCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
* * *
3470674 TCAACGAGAATACGT-AAATCGCAACGCGTGTCTGTAAATC
1 GCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
* *
3470714 GCAACGAGAATACGT-AAATCGCAATGCGTATTCGTAAATC
1 GCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
*
3470754 GCAACGACAATACGTAAAATCGCAA
1 GCAACGAGAATACGTAAAATCGCAA
3470779 TGCGATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 70 0.77
41 21 0.23
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (41 bp):
GCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
Done.