Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 134 of 279
Found at i:43208577 original size:37 final size:39
Alignment explanation
Indices: 43208518--43208613 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
43208508 CGGATAGATT
* * * *
43208518 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
43208555 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
43208594 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
43208614 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:43224050 original size:13 final size:12
Alignment explanation
Indices: 43224032--43224068 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
43224022 TTATATATAT
43224032 TTTAAACTAAAAA
1 TTTAAAC-AAAAA
43224045 TTTAAACAAAAA
1 TTTAAACAAAAA
*
43224057 GTTAAACAAAAA
1 TTTAAACAAAAA
43224069 AGGAGAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (12 bp):
TTTAAACAAAAA
Found at i:43237163 original size:23 final size:23
Alignment explanation
Indices: 43237136--43237182 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
43237126 AAAATACATG
43237136 TGTAAAAA-TATTATACATATACT
1 TGTAAAAATTA-TATACATATACT
* *
43237159 TGTAATAATTATATACATTTACT
1 TGTAAAAATTATATACATATACT
43237182 T
1 T
43237183 ATTATTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (23 bp):
TGTAAAAATTATATACATATACT
Found at i:43237265 original size:18 final size:19
Alignment explanation
Indices: 43237230--43237280 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
43237220 AAATATAAAA
43237230 GAAACAAAACAAAAAGAAT
1 GAAACAAAACAAAAAGAAT
* *
43237249 GAAA-AAAAGAAACAGAAT
1 GAAACAAAACAAAAAGAAT
43237267 AGCAAACGAAAACA
1 -G-AAAC-AAAACA
43237281 GAGGAGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 12 0.48
19 5 0.20
20 3 0.12
22 5 0.20
ACGTcount: A:0.71, C:0.12, G:0.14, T:0.04
Consensus pattern (19 bp):
GAAACAAAACAAAAAGAAT
Found at i:43238986 original size:37 final size:37
Alignment explanation
Indices: 43238929--43239080 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
43238919 TATGATCACT
*
43238929 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
43238964 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
43239001 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
43239046 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
43239081 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:43239064 original size:46 final size:46
Alignment explanation
Indices: 43238997--43239265 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
43238987 TAAGTGTAGC
* **
43238997 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
43239043 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
43239089 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
43239141 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
43239187 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
43239239 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
43239266 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:43239116 original size:52 final size:52
Alignment explanation
Indices: 43239040--43239259 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
43239030 TAGCTAAAGC
* *
43239040 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
43239093 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
43239145 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
43239191 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
43239243 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
43239260 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:43239162 original size:98 final size:98
Alignment explanation
Indices: 43238997--43239265 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
43238987 TAAGTGTAGC
* * *
43238997 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
43239062 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
43239096 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
43239161 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
43239194 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
43239259 GATCAGA
66 GATCAGA
43239266 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:43247556 original size:15 final size:15
Alignment explanation
Indices: 43247536--43247564 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43247526 AGAAATTGAA
43247536 TAAAAATTTGAGAAC
1 TAAAAATTTGAGAAC
43247551 TAAAAATTTGAGAA
1 TAAAAATTTGAGAA
43247565 AATTGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.14, T:0.28
Consensus pattern (15 bp):
TAAAAATTTGAGAAC
Found at i:43248128 original size:21 final size:21
Alignment explanation
Indices: 43248095--43248134 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
43248085 CTAATAACTC
*
43248095 TATTTAAACATAATTAAATAA
1 TATTTAAACATAAATAAATAA
**
43248116 TATTTAATTATAAATAAAT
1 TATTTAAACATAAATAAAT
43248135 GCTGAAATCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTTAAACATAAATAAATAA
Found at i:43249044 original size:40 final size:39
Alignment explanation
Indices: 43248986--43249067 Score: 137
Period size: 40 Copynumber: 2.1 Consensus size: 39
43248976 ATTAAGACAC
*
43248986 AGTCCTGCTGACGCCTTCGGCCATCCAGTGACTACAGAT
1 AGTCCTGCTGAAGCCTTCGGCCATCCAGTGACTACAGAT
*
43249025 AGTNCCTGCTGAAGCCTTCGGCCATCCAGTGACTGCAGAT
1 AGT-CCTGCTGAAGCCTTCGGCCATCCAGTGACTACAGAT
43249065 AGT
1 AGT
43249068 GGTTATGGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 3 0.08
40 37 0.93
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.23
Consensus pattern (39 bp):
AGTCCTGCTGAAGCCTTCGGCCATCCAGTGACTACAGAT
Found at i:43249161 original size:42 final size:43
Alignment explanation
Indices: 43249106--43249213 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 43
43249096 TAGGCAATAA
* * * * * *
43249106 GGGATGTGCAGGCAACGGTGG-TGGTGGTGGTTTTGGCAGGGG
1 GGGAGGTGTAGGCAATGGTGGTTGGTGGAGGTTTCGGCAGAGG
43249148 GGGAGGTGTAGGCAATGGTGGTCTTGGTGGAGGTTTCGGCAGAGG
1 GGGAGGTGTAGGCAATGGTGG--TTGGTGGAGGTTTCGGCAGAGG
**
43249193 GGGAGGCATAGGCAATGGTGG
1 GGGAGGTGTAGGCAATGGTGG
43249214 AACCGGGGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 18 0.33
45 37 0.67
ACGTcount: A:0.16, C:0.09, G:0.53, T:0.22
Consensus pattern (43 bp):
GGGAGGTGTAGGCAATGGTGGTTGGTGGAGGTTTCGGCAGAGG
Found at i:43249176 original size:45 final size:45
Alignment explanation
Indices: 43249127--43249213 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
43249117 GCAACGGTGG
* * * **
43249127 TGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGGTGGTCT
1 TGGTGGAGGTTTCGGCAGAGGGGGAGGCATAGGCAATGGTGGTCT
43249172 TGGTGGAGGTTTCGGCAGAGGGGGAGGCATAGGCAATGGTGG
1 TGGTGGAGGTTTCGGCAGAGGGGGAGGCATAGGCAATGGTGG
43249214 AACCGGGGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.15, C:0.08, G:0.53, T:0.24
Consensus pattern (45 bp):
TGGTGGAGGTTTCGGCAGAGGGGGAGGCATAGGCAATGGTGGTCT
Found at i:43250766 original size:13 final size:13
Alignment explanation
Indices: 43250748--43250795 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 13
43250738 CAATTATTTT
43250748 TATTAAAAAATTA
1 TATTAAAAAATTA
*
43250761 TATTAAATAATGATA
1 TATTAAAAAAT--TA
43250776 TATTAAATAAAATTA
1 TATT-AA-AAAATTA
43250791 TATTA
1 TATTA
43250796 CGTGTATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 10 0.34
14 1 0.03
15 12 0.41
16 2 0.07
17 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
TATTAAAAAATTA
Found at i:43250792 original size:15 final size:15
Alignment explanation
Indices: 43250754--43250795 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
43250744 TTTTTATTAA
43250754 AAAATTATATTAAAT
1 AAAATTATATTAAAT
*
43250769 AATGA-TATATTAAAT
1 AA-AATTATATTAAAT
43250784 AAAATTATATTA
1 AAAATTATATTA
43250796 CGTGTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
AAAATTATATTAAAT
Found at i:43257060 original size:17 final size:17
Alignment explanation
Indices: 43257040--43257073 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43257030 CTTGTGATTC
*
43257040 TTCTTTTCTTGTTTTTT
1 TTCTTTTCTTCTTTTTT
*
43257057 TTCTTTTTTTCTTTTTT
1 TTCTTTTCTTCTTTTTT
43257074 ACATATATTT
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:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTCTTTTCTTCTTTTTT
Found at i:43257796 original size:18 final size:18
Alignment explanation
Indices: 43257773--43257807 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43257763 TTTTAATATA
43257773 ATAATTATAATTATAAGT
1 ATAATTATAATTATAAGT
* *
43257791 ATAATTTTAATTTTAAG
1 ATAATTATAATTATAAG
43257808 AAAATAGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
ATAATTATAATTATAAGT
Found at i:43262262 original size:9 final size:9
Alignment explanation
Indices: 43262248--43262276 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
43262238 TTTCCCCTTT
43262248 CCCTCAAAC
1 CCCTCAAAC
43262257 CCCTCAAAC
1 CCCTCAAAC
43262266 CCCTCAAAC
1 CCCTCAAAC
43262275 CC
1 CC
43262277 TTTTATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.59, G:0.00, T:0.10
Consensus pattern (9 bp):
CCCTCAAAC
Found at i:43265508 original size:3 final size:3
Alignment explanation
Indices: 43265500--43265545 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
43265490 GTTAAAGAGT
43265500 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
43265546 AGTCTTATTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:43268007 original size:5 final size:5
Alignment explanation
Indices: 43267997--43268068 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
43267987 TGTTAAAAAA
* *
43267997 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATTATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT A-TATT
43268043 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
43268069 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 32 0.57
6 11 0.20
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:43268050 original size:19 final size:19
Alignment explanation
Indices: 43268026--43268068 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
43268016 ATTATGTTTT
43268026 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
43268045 TATATTATATTATATTATA
1 TATATTATATTATATTATA
43268064 TATAT
1 TATAT
43268069 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:43268100 original size:17 final size:17
Alignment explanation
Indices: 43268078--43268111 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43268068 TACATAAAAC
*
43268078 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
43268095 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
43268112 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:43268107 original size:9 final size:9
Alignment explanation
Indices: 43268078--43268111 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
43268068 TACATAAAAC
43268078 AAAAGAAAG
1 AAAAGAAAG
*
43268087 AATAGAAA-
1 AAAAGAAAG
43268095 AAAAGAAAG
1 AAAAGAAAG
43268104 AAAAGAAA
1 AAAAGAAA
43268112 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:43273022 original size:29 final size:30
Alignment explanation
Indices: 43272963--43273020 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
43272953 TCCGAGCCTT
*
43272963 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
43272993 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
43273021 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:43273250 original size:13 final size:13
Alignment explanation
Indices: 43273232--43273263 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
43273222 TTTCCAGCAA
43273232 TTATGAATTTATT
1 TTATGAATTTATT
43273245 TTATGAATTTATT
1 TTATGAATTTATT
*
43273258 TGATGA
1 TTATGA
43273264 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:43273438 original size:50 final size:50
Alignment explanation
Indices: 43273358--43273542 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
43273348 ATTTGGGTAA
*
43273358 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
43273408 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
43273458 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
43273508 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
43273543 TTTGGCATGT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.26, C:0.24, G:0.33, T:0.17
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:43275650 original size:25 final size:24
Alignment explanation
Indices: 43275622--43275685 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
43275612 TATTGATTTA
43275622 AGCTCTTATGAGCTT-CCTAATACTC
1 AGCTC-TATGAGCTTACC-AATACTC
* *
43275647 AGCTC-GTGAGCTTACCGATACTC
1 AGCTCTATGAGCTTACCAATACTC
*
43275670 AGCTCGTATAAGCTTA
1 AGCTC-TATGAGCTTA
43275686 GCGTTATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
23 18 0.56
24 2 0.06
25 12 0.38
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (24 bp):
AGCTCTATGAGCTTACCAATACTC
Found at i:43275657 original size:23 final size:23
Alignment explanation
Indices: 43275630--43275676 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
43275620 TAAGCTCTTA
43275630 TGAGCTT-CCTAATACTCAGCTCG
1 TGAGCTTACC-AATACTCAGCTCG
*
43275653 TGAGCTTACCGATACTCAGCTCG
1 TGAGCTTACCAATACTCAGCTCG
43275676 T
1 T
43275677 ATAAGCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (23 bp):
TGAGCTTACCAATACTCAGCTCG
Found at i:43275731 original size:24 final size:25
Alignment explanation
Indices: 43275669--43275731 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
43275659 TACCGATACT
* *
43275669 CAGCTCGTATAAGCTTAGCGTTATT
1 CAGCTCGTATGAGCTTAGCGTTATA
* * * *
43275694 CATCTCGGAAGAGCTTATCGTT-TA
1 CAGCTCGTATGAGCTTAGCGTTATA
43275718 CAGCTCGTATGAGC
1 CAGCTCGTATGAGC
43275732 ATACATGTAC
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTAGCGTTATA
Found at i:43285861 original size:19 final size:20
Alignment explanation
Indices: 43285839--43285878 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
43285829 GGATGACAAT
43285839 GGAA-CTTACCACTGACATA
1 GGAACCTTACCACTGACATA
*
43285858 GGAACTCTTACTACTGACATA
1 GGAAC-CTTACCACTGACATA
43285879 TTAAATTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (20 bp):
GGAACCTTACCACTGACATA
Found at i:43289832 original size:14 final size:14
Alignment explanation
Indices: 43289813--43289839 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43289803 AGACAACATA
43289813 TATGTATGTATATG
1 TATGTATGTATATG
43289827 TATGTATGTATAT
1 TATGTATGTATAT
43289840 ATGTATAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (14 bp):
TATGTATGTATATG
Found at i:43291442 original size:23 final size:22
Alignment explanation
Indices: 43291395--43291443 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
43291385 AATTTCTTTT
* *
43291395 TAAAAATAATGTTTGATAAACA
1 TAAAAATAATGTTTGAAAAAAA
43291417 TAAAAATTAA-GTTATGAAAAAAA
1 TAAAAA-TAATGTT-TGAAAAAAA
43291440 TAAA
1 TAAA
43291444 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (22 bp):
TAAAAATAATGTTTGAAAAAAA
Found at i:43291847 original size:17 final size:16
Alignment explanation
Indices: 43291822--43291865 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
43291812 AAAATTAAAT
* *
43291822 TTTAAATTTTATAATA
1 TTTAAATTTAAGAATA
43291838 TTTAATATTTAAGAATA
1 TTTAA-ATTTAAGAATA
*
43291855 TTTAAAATTAA
1 TTTAAATTTAA
43291866 AATTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TTTAAATTTAAGAATA
Found at i:43291979 original size:23 final size:23
Alignment explanation
Indices: 43291952--43292008 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
43291942 ACTATTTACT
43291952 AATGAATATTTT-ATAATATAAA
1 AATGAATATTTTAATAATATAAA
* *
43291974 ATATGAGTATTTTAATAGTATAAA
1 A-ATGAATATTTTAATAATATAAA
43291998 AATGAA-ATTTT
1 AATGAATATTTT
43292009 GTTTAACTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 6 0.20
23 14 0.47
24 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (23 bp):
AATGAATATTTTAATAATATAAA
Found at i:43309290 original size:16 final size:16
Alignment explanation
Indices: 43309269--43309299 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43309259 GATATTTTAA
43309269 TATATTATATTAATAT
1 TATATTATATTAATAT
*
43309285 TATATTATGTTAATA
1 TATATTATATTAATA
43309300 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:43309396 original size:12 final size:12
Alignment explanation
Indices: 43309379--43309409 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
43309369 GAAGCAGGGG
43309379 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
43309391 AGAAAAAGGGAA
1 AGAAAAAGAGAA
43309403 AGAAAAA
1 AGAAAAA
43309410 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:43334721 original size:25 final size:25
Alignment explanation
Indices: 43334687--43334736 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
43334677 TTTAAGTTGC
*
43334687 TAGCTATGATCAATCTAATATTATA
1 TAGCTATGATCAATCAAATATTATA
43334712 TAGCTATGATCAATCAAATATTATA
1 TAGCTATGATCAATCAAATATTATA
43334737 CATTGGTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (25 bp):
TAGCTATGATCAATCAAATATTATA
Found at i:43335764 original size:32 final size:30
Alignment explanation
Indices: 43335728--43335799 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 30
43335718 ACATATGTTT
43335728 TATATATACAAAAAATTAACAAAAAAAGTCAA
1 TATATATACAAAAAA-TAA-AAAAAAAGTCAA
* *
43335760 TATATATGAC-ATATATAAAAAAAAAGTCAA
1 TATATAT-ACAAAAAATAAAAAAAAAGTCAA
* *
43335790 AATAGATACA
1 TATATATACA
43335800 CTATGCATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 2 0.06
30 17 0.50
31 3 0.09
32 10 0.29
33 2 0.06
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24
Consensus pattern (30 bp):
TATATATACAAAAAATAAAAAAAAAGTCAA
Found at i:43335774 original size:41 final size:43
Alignment explanation
Indices: 43335689--43335783 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 43
43335679 AATATCCATG
* ***
43335689 TATAAAAAAAACTTAACAAAAAAATGTCAACATATGTTTTATA
1 TATAAAAAAAACTTAACAAAAAAATGTCAACATATATGACATA
* *
43335732 TATACAAAAAA-TTAACAAAAAAA-GTCAATATATATGACATA
1 TATAAAAAAAACTTAACAAAAAAATGTCAACATATATGACATA
43335773 TATAAAAAAAA
1 TATAAAAAAAA
43335784 AGTCAAAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 23 0.51
42 12 0.27
43 10 0.22
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.26
Consensus pattern (43 bp):
TATAAAAAAAACTTAACAAAAAAATGTCAACATATATGACATA
Found at i:43335775 original size:43 final size:43
Alignment explanation
Indices: 43335689--43335784 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
43335679 AATATCCATG
***
43335689 TATAAAAAAAACTTAACAAAAAAATGTCAACATATGTTTTATA
1 TATAAAAAAAACTTAACAAAAAAATGTCAACATATGACATATA
* *
43335732 TATACAAAAAA-TTAACAAAAAAA-GTCAATATATATGACATATA
1 TATAAAAAAAACTTAACAAAAAAATGTC-A-ACATATGACATATA
43335775 TA-AAAAAAAA
1 TATAAAAAAAA
43335785 GTCAAAATAG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 3 0.07
42 20 0.44
43 22 0.49
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.26
Consensus pattern (43 bp):
TATAAAAAAAACTTAACAAAAAAATGTCAACATATGACATATA
Found at i:43339226 original size:6 final size:6
Alignment explanation
Indices: 43339215--43339241 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
43339205 AAATTAAGCC
43339215 GAGGGA GAGGGA GAGGGA GAGGGA GAG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAG
43339242 AAGTTAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:43346463 original size:90 final size:89
Alignment explanation
Indices: 43346363--43346531 Score: 266
Period size: 90 Copynumber: 1.9 Consensus size: 89
43346353 CAAAATAGNG
* * * *
43346363 CTCTTCCCCACTATCCCTTTTCCTCTGTTAATAATTTTTTGTTTCTAGATCACCAAAAAAAGCAA
1 CTCTCCCCCACTATCCCTTTCCCTCTGTTAATAATTTCTTGTTTCTAGATAACCAAAAAAAGCAA
43346428 CCCAAAAAAGAATTCGGCTCTCTCC
66 CCCAAAAAA-AATTCGGCTCTCTCC
* * *
43346453 CTCTCCCCCACTATCCCTTTCCCTCTGTTAATCATTTCTTGTTTCTAGATAATCGAAAAAAGCAA
1 CTCTCCCCCACTATCCCTTTCCCTCTGTTAATAATTTCTTGTTTCTAGATAACCAAAAAAAGCAA
43346518 CCCAAAAAAAATTC
66 CCCAAAAAAAATTC
43346532 AATTTTTTGG
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 5 0.07
90 67 0.93
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (89 bp):
CTCTCCCCCACTATCCCTTTCCCTCTGTTAATAATTTCTTGTTTCTAGATAACCAAAAAAAGCAA
CCCAAAAAAAATTCGGCTCTCTCC
Found at i:43351703 original size:16 final size:16
Alignment explanation
Indices: 43351684--43351717 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43351674 TCGGGTTTGG
43351684 ATTTTTTTAATATATT
1 ATTTTTTTAATATATT
* *
43351700 ATTTTTTTTATGTATT
1 ATTTTTTTAATATATT
43351716 AT
1 AT
43351718 AAATATACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTTTTAATATATT
Found at i:43352290 original size:27 final size:28
Alignment explanation
Indices: 43352231--43352290 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 28
43352221 ATTGATTCTA
*
43352231 TATTTTTTGTTTTGAGCAATTTATTTTT
1 TATTTTTTGTTTTGAACAATTTATTTTT
43352259 T-TTTTGTT-TTTTGAAC-ATTT-TTTTT
1 TATTTT-TTGTTTTGAACAATTTATTTTT
43352284 CTATTTT
1 -TATTTT
43352291 CATTTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 5 0.18
26 5 0.18
27 15 0.54
28 3 0.11
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (28 bp):
TATTTTTTGTTTTGAACAATTTATTTTT
Found at i:43363342 original size:46 final size:46
Alignment explanation
Indices: 43363289--43363464 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
43363279 TATTTGAGCA
*
43363289 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
43363335 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
43363382 TCCGAACTCGTTGAGTTGAGTCCGAGTTAATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
43363428 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43363465 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 27 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:43363445 original size:93 final size:93
Alignment explanation
Indices: 43363286--43363456 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
43363276 GAATATTTGA
* * *
43363286 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
43363351 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
43363379 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAGT
43363444 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43363457 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43363642 original size:24 final size:24
Alignment explanation
Indices: 43363612--43363661 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
43363602 ATAAATGTTG
43363612 TGAAATGGATACTTTGAACAGGTA
1 TGAAATGGATACTTTGAACAGGTA
43363636 TGAAATGGATACTTTGAACAGGTA
1 TGAAATGGATACTTTGAACAGGTA
43363660 TG
1 TG
43363662 TACTTAACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (24 bp):
TGAAATGGATACTTTGAACAGGTA
Found at i:43365869 original size:17 final size:16
Alignment explanation
Indices: 43365845--43365880 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
43365835 TTCAATATCA
*
43365845 GTTTTAGTTTATTTTT
1 GTTTTAGTTCATTTTT
43365861 GTTTCTAGTTCATTTTT
1 GTTT-TAGTTCATTTTT
43365878 GTT
1 GTT
43365881 AATTGTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (16 bp):
GTTTTAGTTCATTTTT
Found at i:43373263 original size:12 final size:12
Alignment explanation
Indices: 43373246--43373272 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43373236 TCCGTCGAAG
43373246 CCCGAGAAACAC
1 CCCGAGAAACAC
43373258 CCCGAGAAACAC
1 CCCGAGAAACAC
43373270 CCC
1 CCC
43373273 ATTTTCTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.48, G:0.15, T:0.00
Consensus pattern (12 bp):
CCCGAGAAACAC
Found at i:43375742 original size:74 final size:74
Alignment explanation
Indices: 43375631--43375772 Score: 250
Period size: 74 Copynumber: 1.9 Consensus size: 74
43375621 ACCAAAAATT
* *
43375631 AAAGAAACATTTTAAGTCAAAAGAAAGGTTTGGCTTAGAGATCAAAAATCAAAATAAATATAACA
1 AAAGAAACATTTTAAGTCAAAAGAAAGGTTTGACTTAGAGATAAAAAATCAAAATAAATATAACA
43375696 CTGCCAAAA
66 CTGCCAAAA
43375705 AAAGAAAACATTTTAAGTCAAAA-AAAGGTTTGACTTAGAGATAAAAAATCAAAATAAATATAAC
1 AAAG-AAACATTTTAAGTCAAAAGAAAGGTTTGACTTAGAGATAAAAAATCAAAATAAATATAAC
43375769 ACTG
65 ACTG
43375773 AAGATAATAG
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
74 47 0.72
75 18 0.28
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.23
Consensus pattern (74 bp):
AAAGAAACATTTTAAGTCAAAAGAAAGGTTTGACTTAGAGATAAAAAATCAAAATAAATATAACA
CTGCCAAAA
Found at i:43378864 original size:29 final size:29
Alignment explanation
Indices: 43378831--43378887 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
43378821 AGCTCACAAT
*
43378831 TTCAGAGATAAATTATTAAGCATATCTGA
1 TTCAGAGATAAATTATTAAGCAAATCTGA
43378860 TTCAGAGATAAATTATTAAGCAAATCTG
1 TTCAGAGATAAATTATTAAGCAAATCTG
43378888 GTAAGACCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TTCAGAGATAAATTATTAAGCAAATCTGA
Found at i:43390889 original size:13 final size:13
Alignment explanation
Indices: 43390871--43390901 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
43390861 CCTTGAATGA
43390871 GAAACGATTTTAT
1 GAAACGATTTTAT
43390884 GAAACGATTTTAT
1 GAAACGATTTTAT
43390897 GAAAC
1 GAAAC
43390902 AGTGATGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (13 bp):
GAAACGATTTTAT
Found at i:43391726 original size:14 final size:13
Alignment explanation
Indices: 43391703--43391756 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 13
43391693 GTTTGTCAGT
*
43391703 AAAATAATTTTTGA
1 AAAATGATTTTT-A
43391717 AAAATGATTTTTA
1 AAAATGATTTTTA
*
43391730 GAAAATGGTTTTTA
1 -AAAATGATTTTTA
43391744 AAAGATGATTTTT
1 AAA-ATGATTTTT
43391757 TCCTGGTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.11
14 31 0.89
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (13 bp):
AAAATGATTTTTA
Found at i:43391980 original size:14 final size:15
Alignment explanation
Indices: 43391961--43391989 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43391951 ATTTATTTAT
43391961 AAATAAATAA-AATA
1 AAATAAATAATAATA
43391975 AAATAAATAATAATA
1 AAATAAATAATAATA
43391990 CTCAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATAATAATA
Found at i:43394012 original size:21 final size:21
Alignment explanation
Indices: 43393988--43394028 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
43393978 TCAACCTATG
43393988 GCGAGAAATTTATGCTCTAAA
1 GCGAGAAATTTATGCTCTAAA
43394009 GCGAGAAATTTATGCTCTAA
1 GCGAGAAATTTATGCTCTAA
43394029 GTATCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (21 bp):
GCGAGAAATTTATGCTCTAAA
Found at i:43403643 original size:11 final size:11
Alignment explanation
Indices: 43403627--43403653 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
43403617 TAGAAATTAG
43403627 TTTGTGAAACT
1 TTTGTGAAACT
43403638 TTTGTGAAACT
1 TTTGTGAAACT
43403649 TTTGT
1 TTTGT
43403654 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:43414195 original size:21 final size:21
Alignment explanation
Indices: 43414171--43414216 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
43414161 ACATTTTTCT
43414171 AAATTTCTCAAAAAATCTCTC
1 AAATTTCTCAAAAAATCTCTC
***
43414192 AAATTTCTCCCTAAATCTCTC
1 AAATTTCTCAAAAAATCTCTC
43414213 AAAT
1 AAAT
43414217 CTCTTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATTTCTCAAAAAATCTCTC
Found at i:43414408 original size:19 final size:20
Alignment explanation
Indices: 43414375--43414413 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
43414365 GTTAATTTTA
*
43414375 ATTTTTTAATATTATTTAAT
1 ATTTTTTAATATTATGTAAT
*
43414395 ATTTTTTCAT-TTATGTAAT
1 ATTTTTTAATATTATGTAAT
43414414 TTTAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTTTAATATTATGTAAT
Found at i:43414417 original size:25 final size:23
Alignment explanation
Indices: 43414389--43414449 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 23
43414379 TTTAATATTA
43414389 TTTAATATTTTTTCATTTATGTAAT
1 TTTAATATTTTTTCATTT-T-TAAT
*
43414414 TTTAATTATTTTTTTATTTTTAAT
1 TTTAA-TATTTTTTCATTTTTAAT
43414438 TTATAAT-TTTTT
1 TT-TAATATTTTT
43414450 ATAACAATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.15
24 7 0.21
25 9 0.27
26 12 0.36
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTAATATTTTTTCATTTTTAAT
Found at i:43414450 original size:33 final size:35
Alignment explanation
Indices: 43414366--43414450 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 35
43414356 ATGGTAAGTG
43414366 TTAATTT-TAATTTTTTAATATTATTTAATATTTT
1 TTAATTTATAATTTTTTAATATTATTTAATATTTT
* *
43414400 TTCATTTATGTAA--TTTTAATTATT-TTT-TTA-TTT
1 TTAATTTA--TAATTTTTTAA-TATTATTTAATATTTT
43414433 TTAATTTATAATTTTTTA
1 TTAATTTATAATTTTTTA
43414451 TAACAATCTG
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
31 3 0.07
33 15 0.36
34 8 0.19
35 9 0.21
36 4 0.10
37 3 0.07
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (35 bp):
TTAATTTATAATTTTTTAATATTATTTAATATTTT
Found at i:43419985 original size:126 final size:126
Alignment explanation
Indices: 43419756--43420121 Score: 520
Period size: 126 Copynumber: 2.9 Consensus size: 126
43419746 AAACAGGAAT
* * * *
43419756 TACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACATTGCATCCCGC
1 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
* * *
43419821 TTGAAACGTTTTTGACACTATTTTTTCAA-AATAGTCTTCTCAAAATTATTTTTTCAAG-AAC
66 TTGAAGCGTTTTTGACACTATTTTTT-AAGAATTGTCTTCTCAAAATTATTTTTGC-AGTAAC
* *
43419882 TACTGTAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTAC
1 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
* * *
43419947 TTGAAGCGTTTTTAAAACTATTTTTTAAGAATTTTCTTCTCAAAATTATTTTTGCAGTAAC
66 TTGAAGCGTTTTTGACACTATTTTTTAAGAATTGTCTTCTCAAAATTATTTTTGCAGTAAC
* * * *
43420008 TACTATAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGTTGACAGTACATCCTGC
1 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
* * * *
43420073 TTGAAGCATTTTTGACATTATCTTTTCAGAATTGTCTTCTCAAAATTAT
66 TTGAAGCGTTTTTGACACTATTTTTTAAGAATTGTCTTCTCAAAATTAT
43420122 AGGAATAGGC
Statistics
Matches: 213, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
125 4 0.02
126 209 0.98
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (126 bp):
TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
TTGAAGCGTTTTTGACACTATTTTTTAAGAATTGTCTTCTCAAAATTATTTTTGCAGTAAC
Found at i:43422625 original size:255 final size:255
Alignment explanation
Indices: 43422174--43422684 Score: 1022
Period size: 255 Copynumber: 2.0 Consensus size: 255
43422164 AGTAAAAATC
43422174 TACTAATCCCAAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTGGATCTAAATA
1 TACTAATCCCAAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTGGATCTAAATA
43422239 AATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAATTCAACTA
66 AATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAATTCAACTA
43422304 TTATTTATAATTCATTCAAAGCTGTCTACTTGAGTCATAGTCACTAAATTATTTATAACTTGAGC
131 TTATTTATAATTCATTCAAAGCTGTCTACTTGAGTCATAGTCACTAAATTATTTATAACTTGAGC
43422369 TACGGAACTCAAAATTAAGATCCGTTAATTTTCCCTGAAACTAGACTCATATATATATTT
196 TACGGAACTCAAAATTAAGATCCGTTAATTTTCCCTGAAACTAGACTCATATATATATTT
43422429 TACTAATCCCAAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTGGATCTAAATA
1 TACTAATCCCAAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTGGATCTAAATA
43422494 AATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAATTCAACTA
66 AATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAATTCAACTA
43422559 TTATTTATAATTCATTCAAAGCTGTCTACTTGAGTCATAGTCACTAAATTATTTATAACTTGAGC
131 TTATTTATAATTCATTCAAAGCTGTCTACTTGAGTCATAGTCACTAAATTATTTATAACTTGAGC
43422624 TACGGAACTCAAAATTAAGATCCGTTAATTTTCCCTGAAACTAGACTCATATATATATTT
196 TACGGAACTCAAAATTAAGATCCGTTAATTTTCCCTGAAACTAGACTCATATATATATTT
43422684 T
1 T
43422685 TACCATAAAA
Statistics
Matches: 256, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 256 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.40
Consensus pattern (255 bp):
TACTAATCCCAAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTGGATCTAAATA
AATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAATTCAACTA
TTATTTATAATTCATTCAAAGCTGTCTACTTGAGTCATAGTCACTAAATTATTTATAACTTGAGC
TACGGAACTCAAAATTAAGATCCGTTAATTTTCCCTGAAACTAGACTCATATATATATTT
Found at i:43430141 original size:29 final size:28
Alignment explanation
Indices: 43430094--43430157 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
43430084 AAGTAAAAGT
43430094 TAAATTTTTTTATAAAAAAATATTATTA
1 TAAATTTTTTTATAAAAAAATATTATTA
* *
43430122 TAAATTTTTTTTTAATAAAAATATTTTTA
1 TAAATTTTTTTATAA-AAAAATATTATTA
*
43430151 AAAATTT
1 TAAATTT
43430158 AAAATATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TAAATTTTTTTATAAAAAAATATTATTA
Found at i:43444325 original size:18 final size:18
Alignment explanation
Indices: 43444304--43444460 Score: 73
Period size: 18 Copynumber: 8.3 Consensus size: 18
43444294 GAACAATTAT
43444304 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
43444322 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
43444340 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
43444358 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
43444384 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
43444402 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
43444419 ATATTCAGTAGCAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
43444438 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
43444456 TTATT
1 TTATT
43444461 TGGTAACGAT
Statistics
Matches: 99, Mismatches: 30, Indels: 20
0.66 0.20 0.13
Matches are distributed among these distances:
17 12 0.12
18 56 0.57
19 15 0.15
21 2 0.02
22 1 0.01
23 2 0.02
26 11 0.11
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:43444496 original size:54 final size:54
Alignment explanation
Indices: 43444383--43444496 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
43444373 CAATTGATCG
* * * *
43444383 GTTATCCAGTAACAGTCAATTATTTAGTAAAATCAGATATTCAGTAGCAATTAA
1 GTTATTCAGTAACAGTCAATTATTTAGTAAAATCAGATATTCAGAAACAATCAA
* * *
43444437 GTTATTCAGTAACAGTCAATTATTTGGTAACGATCA-ATTATTCAGAAATAATCAA
1 GTTATTCAGTAACAGTCAATTATTTAGTAA-AATCAGA-TATTCAGAAACAATCAA
43444492 -TTATT
1 GTTATT
43444497 TTATACCTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (54 bp):
GTTATTCAGTAACAGTCAATTATTTAGTAAAATCAGATATTCAGAAACAATCAA
Found at i:43444670 original size:6 final size:6
Alignment explanation
Indices: 43444659--43444683 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43444649 ACAAATTCGG
43444659 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
43444684 TTCAACATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:43444712 original size:39 final size:39
Alignment explanation
Indices: 43444667--43444761 Score: 163
Period size: 39 Copynumber: 2.4 Consensus size: 39
43444657 GGAACAGTAA
* *
43444667 CAGTAACAGTAACAGTATTCAACATACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
*
43444706 CGGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
43444745 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
43444762 ACAGTAACAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
Found at i:43444756 original size:6 final size:6
Alignment explanation
Indices: 43444745--43444779 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
43444735 AGTGCCGAAT
43444745 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
43444780 GTCGGCACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:43448515 original size:13 final size:14
Alignment explanation
Indices: 43448497--43448525 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
43448487 AAACCCTAAA
43448497 TTTTCTTT-TTTCT
1 TTTTCTTTCTTTCT
43448510 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
43448524 TT
1 TT
43448526 CTCCCCTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:43450373 original size:24 final size:24
Alignment explanation
Indices: 43450345--43450396 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
43450335 TTTCTAGAAG
*
43450345 ATTTAGTATTTATTAGTATAGTAT
1 ATTTAGCATTTATTAGTATAGTAT
*
43450369 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAGTAT
43450393 ATTT
1 ATTT
43450397 GGCTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAGTAT
Found at i:43461315 original size:2 final size:2
Alignment explanation
Indices: 43461308--43461333 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43461298 AAAGAGGAAA
43461308 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
43461334 TTGCTAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43473522 original size:24 final size:24
Alignment explanation
Indices: 43473462--43473532 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 24
43473452 TTCGAGTTTG
43473462 TTTAAAATTTATATATATT-TTTAAAA
1 TTTAAAATTTAT-T-T-TTATTTAAAA
* * *
43473488 ATTACATTTTATTTTTATTTAAAA
1 TTTAAAATTTATTTTTATTTAAAA
43473512 TTTAAAATTTATTTTTTATTT
1 TTTAAAATTTA-TTTTTATTT
43473533 TGATCAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 2 0.05
24 16 0.43
25 10 0.27
26 9 0.24
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTAAAATTTATTTTTATTTAAAA
Found at i:43473548 original size:22 final size:22
Alignment explanation
Indices: 43473516--43473557 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43473506 TTAAAATTTA
43473516 AAATTTATTTTT-TATTTTGATC
1 AAATTTATTTTTGT-TTTTGATC
*
43473538 AAATTTCTTTTTGTTTTTGA
1 AAATTTATTTTTGTTTTTGA
43473558 AAATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (22 bp):
AAATTTATTTTTGTTTTTGATC
Found at i:43473642 original size:27 final size:29
Alignment explanation
Indices: 43473594--43473647 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
43473584 ATAAACAAAT
*
43473594 TAAAAAAATTATATTTACTAAATATTAAA
1 TAAAAAAATTATATCTACTAAATATTAAA
*
43473623 TAAAAATATTATA-CTA-TAAATATTA
1 TAAAAAAATTATATCTACTAAATATTA
43473648 TGAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 2 0.09
29 12 0.52
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAAAAAATTATATCTACTAAATATTAAA
Found at i:43475318 original size:24 final size:27
Alignment explanation
Indices: 43475271--43475327 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 27
43475261 AATATTTTTA
*
43475271 ATAAAAATAAAAAAAATAATATTTTAT
1 ATAAAAATAAAAAAAATAATATTTAAT
* *
43475298 TTAAAAA-ACAAAAAA-AA-ATTTAAT
1 ATAAAAATAAAAAAAATAATATTTAAT
43475322 ATAAAA
1 ATAAAA
43475328 TAATTATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 11 0.42
25 2 0.08
26 7 0.27
27 6 0.23
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (27 bp):
ATAAAAATAAAAAAAATAATATTTAAT
Found at i:43478714 original size:15 final size:15
Alignment explanation
Indices: 43478687--43478728 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
43478677 ATCATTTATT
43478687 ATATATTATTTTTAA
1 ATATATTATTTTTAA
43478702 ATAT-TTATATTTTAA
1 ATATATTAT-TTTTAA
* *
43478717 ATTTGTTATTTT
1 ATATATTATTTT
43478729 CTTGTTCGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
ATATATTATTTTTAA
Found at i:43485881 original size:30 final size:30
Alignment explanation
Indices: 43485845--43485906 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
43485835 AATATTTAGT
43485845 TGTATGATCTTCATCAAGCAATGATGAATC
1 TGTATGATCTTCATCAAGCAATGATGAATC
*
43485875 TGTATGATCTTCATCAGGCAATGATGAATC
1 TGTATGATCTTCATCAAGCAATGATGAATC
43485905 TG
1 TG
43485907 CTTTGAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (30 bp):
TGTATGATCTTCATCAAGCAATGATGAATC
Found at i:43489167 original size:25 final size:26
Alignment explanation
Indices: 43489127--43489190 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
43489117 ATAGTGATAA
* *
43489127 ATTTTTTTAATATAATCAACATTTTAC-
1 ATTTTTTTAGTA-ATTCAA-ATTTTACT
* *
43489154 ATTTTTTTAGTAATTTAATTTTTACT
1 ATTTTTTTAGTAATTCAAATTTTACT
43489180 ATTTTTTTAGT
1 ATTTTTTTAGT
43489191 TAAATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 6 0.19
26 15 0.47
27 11 0.34
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (26 bp):
ATTTTTTTAGTAATTCAAATTTTACT
Found at i:43489183 original size:26 final size:27
Alignment explanation
Indices: 43489148--43489200 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
43489138 ATAATCAACA
43489148 TTTTACATTTTTTTAG-T-AATTTAAT
1 TTTTACATTTTTTTAGTTAAATTTAAT
43489173 TTTTACTATTTTTTTAGTTAAATTTAAT
1 TTTTAC-ATTTTTTTAGTTAAATTTAAT
43489201 CATTAATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.24
26 10 0.40
27 1 0.04
28 8 0.32
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTACATTTTTTTAGTTAAATTTAAT
Found at i:43490067 original size:14 final size:14
Alignment explanation
Indices: 43490050--43490091 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
43490040 TAAATACAAT
*
43490050 ACTCTAAACCCTAA
1 ACTCTAAACCTTAA
43490064 ACTCT-AACCTTAA
1 ACTCTAAACCTTAA
43490077 A-TACTAAACCTTAA
1 ACT-CTAAACCTTAA
43490091 A
1 A
43490092 TTCTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 10 0.40
14 14 0.56
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
ACTCTAAACCTTAA
Found at i:43497414 original size:6 final size:6
Alignment explanation
Indices: 43497403--43497446 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
43497393 GGGTACTGGA
* * *
43497403 TTGGGG TTGGGG TTAGGG TTAGGG TTGGGG TTGGAG TTGGGG TT
1 TTGGGG TTGGGG TTGGGG TTGGGG TTGGGG TTGGGG TTGGGG TT
43497447 TGAAAGGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.07, C:0.00, G:0.57, T:0.36
Consensus pattern (6 bp):
TTGGGG
Found at i:43498031 original size:19 final size:18
Alignment explanation
Indices: 43497992--43498033 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
43497982 TATATTTTTT
*
43497992 AAAATATTAATTATTATA
1 AAAATATTAATTATGATA
*
43498010 AAAATTATTAA-TATGATG
1 AAAA-TATTAATTATGATA
43498028 AAAATA
1 AAAATA
43498034 ATTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 13 0.62
19 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATATTAATTATGATA
Found at i:43498696 original size:16 final size:16
Alignment explanation
Indices: 43498672--43498719 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
43498662 ATTAAGTAAA
* *
43498672 AATAAATAAATTTTAT
1 AATATATAACTTTTAT
43498688 AATATATAACTTTTAT
1 AATATATAACTTTTAT
43498704 AA-ATA-AACTTTTAT
1 AATATATAACTTTTAT
43498718 AA
1 AA
43498720 ATTGTCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 11 0.37
15 3 0.10
16 16 0.53
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATATAACTTTTAT
Found at i:43498714 original size:14 final size:14
Alignment explanation
Indices: 43498673--43498721 Score: 73
Period size: 14 Copynumber: 3.4 Consensus size: 14
43498663 TTAAGTAAAA
43498673 ATAAATAAA-TTTT
1 ATAAATAAACTTTT
43498686 ATAATATATAACTTTT
1 ATAA-ATA-AACTTTT
43498702 ATAAATAAACTTTT
1 ATAAATAAACTTTT
43498716 ATAAAT
1 ATAAAT
43498722 TGTCCAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.12
14 16 0.48
15 5 0.15
16 8 0.24
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAATAAACTTTT
Found at i:43498763 original size:11 final size:12
Alignment explanation
Indices: 43498747--43498794 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
43498737 ATAACATTTC
43498747 TTATAAAT-ATT
1 TTATAAATAATT
43498758 TTATAAATAATT
1 TTATAAATAATT
*
43498770 TTAAAAAGTTATATT
1 TTATAAA--TA-ATT
43498785 TTATAAATAA
1 TTATAAATAA
43498795 ATTATGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 8 0.26
12 10 0.32
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
TTATAAATAATT
Found at i:43501372 original size:148 final size:148
Alignment explanation
Indices: 43501104--43501399 Score: 556
Period size: 148 Copynumber: 2.0 Consensus size: 148
43501094 CCATCAATCT
* *
43501104 CAACAACAACCATGAATTAACAAAGTGCTGACTTCATTCCAAGTTAATTATAAACCTAGAGTCAA
1 CAACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAA
*
43501169 TAACACCAAACTGCCGATAGCTGTAAATATCCTTCCATCCATTCCACATAGTTAATCTTTATTCC
66 TAACACCAAACTGCCGATAGCTGTAAATATCCTTCCATACATTCCACATAGTTAATCTTTATTCC
43501234 CAGCAACTAAAATTTGTG
131 CAGCAACTAAAATTTGTG
43501252 CAACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAA
1 CAACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAA
*
43501317 TAACATCAAACTGCCGATAGCTGTAAATATCCTTCCATACATTCCACATAGTTAATCTTTATTCC
66 TAACACCAAACTGCCGATAGCTGTAAATATCCTTCCATACATTCCACATAGTTAATCTTTATTCC
43501382 CAGCAACTAAAATTTGTG
131 CAGCAACTAAAATTTGTG
43501400 AAAGATATAA
Statistics
Matches: 144, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
148 144 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (148 bp):
CAACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAA
TAACACCAAACTGCCGATAGCTGTAAATATCCTTCCATACATTCCACATAGTTAATCTTTATTCC
CAGCAACTAAAATTTGTG
Found at i:43504137 original size:27 final size:26
Alignment explanation
Indices: 43504106--43504157 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43504096 GTAATTTTTA
43504106 AAATTTAAAATATTTATAAAAAATATT
1 AAATTTAAAAT-TTTATAAAAAATATT
** *
43504133 AAATTTTGAATTTTTTAAAAAATAT
1 AAATTTAAAATTTTATAAAAAATAT
43504158 AAAAATTCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AAATTTAAAATTTTATAAAAAATATT
Found at i:43509275 original size:90 final size:90
Alignment explanation
Indices: 43509112--43510102 Score: 1957
Period size: 90 Copynumber: 11.0 Consensus size: 90
43509102 ATTATATAAC
43509112 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTTGTGTGT
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTA-TTTGTGTGT
43509177 CATG-TTTTTGAGAATGTGAATAAGT
65 CATGTTTTTTGAGAATGTGAATAAGT
43509202 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
43509267 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
43509292 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
43509357 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
43509382 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
43509447 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
43509472 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
43509537 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
43509562 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
43509627 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
43509652 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
43509717 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
43509742 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
43509807 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
43509832 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
43509897 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
43509922 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
43509987 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
43510012 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
*
43510077 ATGTTTTTTGAGAGTGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
43510102 T
1 T
43510103 ATCAACTTAT
Statistics
Matches: 899, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
89 13 0.01
90 886 0.99
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (90 bp):
TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
ATGTTTTTTGAGAATGTGAATAAGT
Found at i:43517818 original size:45 final size:45
Alignment explanation
Indices: 43517753--43517843 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
43517743 TTATTTGATT
43517753 TGACACCATCTACTGCCTGCTGAACTATGAACTCTGATTCTGCCC
1 TGACACCATCTACTGCCTGCTGAACTATGAACTCTGATTCTGCCC
*
43517798 TGACACCATCTACTGGCTGCTGAACTATGAACTCTGATTCTGCCC
1 TGACACCATCTACTGCCTGCTGAACTATGAACTCTGATTCTGCCC
43517843 T
1 T
43517844 CCAGAAAGCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (45 bp):
TGACACCATCTACTGCCTGCTGAACTATGAACTCTGATTCTGCCC
Found at i:43518396 original size:7 final size:7
Alignment explanation
Indices: 43518384--43518413 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
43518374 CCTAAATATG
43518384 CCATTAT
1 CCATTAT
43518391 CCATTAT
1 CCATTAT
43518398 CCATTAT
1 CCATTAT
43518405 CCATTAT
1 CCATTAT
43518412 CC
1 CC
43518414 CATTGCTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (7 bp):
CCATTAT
Found at i:43525388 original size:11 final size:11
Alignment explanation
Indices: 43525372--43525397 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43525362 TTTCATTACT
43525372 TTATGTTATTA
1 TTATGTTATTA
43525383 TTATGTTATTA
1 TTATGTTATTA
43525394 TTAT
1 TTAT
43525398 NNNNNNNNNN
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (11 bp):
TTATGTTATTA
Found at i:43538084 original size:75 final size:75
Alignment explanation
Indices: 43537697--43538077 Score: 694
Period size: 75 Copynumber: 5.1 Consensus size: 75
43537687 CAAATTCTAC
* *
43537697 TTTCAATTACTGTTTGT--CAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
43537760 GCTGAGGTAT
66 GCTGAGGTAT
43537770 TTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
43537835 GCTGAGGTAT
66 GCTGAGGTAT
43537845 TTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
43537910 GCTGAGGTAT
66 GCTGAGGTAT
43537920 TTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
43537985 GCTGAGGTAT
66 GCTGAGGTAT
* * * *
43537995 TTTCAATTATTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
43538060 GCTGAGGTAT
66 GCTGAGGTAT
43538070 TTTCAATT
1 TTTCAATT
43538078 GATGTTTTTT
Statistics
Matches: 300, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
73 16 0.05
75 284 0.95
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (75 bp):
TTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
GCTGAGGTAT
Found at i:43538150 original size:88 final size:88
Alignment explanation
Indices: 43538015--43538193 Score: 272
Period size: 88 Copynumber: 2.0 Consensus size: 88
43538005 TGTTTGTCAA
*
43538015 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTGA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT-A
*
43538080 T-GTTTTTTCAATTTACGCTTTTC
65 TCATTTTTTCAATTTACGCTTTTC
* * *
43538103 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGA-ACGCTGATGTATTTTCAATTT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTA
*
43538167 TCATTTTTTCAATTTATGCTTTTC
65 TCATTTTTTCAATTTACGCTTTTC
43538191 AAA
1 AAA
43538194 TTCTGCTTTC
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
87 1 0.01
88 79 0.95
89 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTAT
CATTTTTTCAATTTACGCTTTTC
Found at i:43538353 original size:89 final size:90
Alignment explanation
Indices: 43538183--43538353 Score: 238
Period size: 89 Copynumber: 1.9 Consensus size: 90
43538173 TTTCAATTTA
** * * * *
43538183 TGCTTTTCAAATTCTGCTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TGCTTTTCAAATTAAGCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCT
*
43538248 CACATGTCGAGGTATTTTCAAAATC
66 CACATGTCGAGCTATTTTCAAAATC
*
43538273 TGCTTTTCAAATTAAG-TTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTAGCT
1 TGCTTTTCAAATTAAGCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCT
*
43538337 CACGTG-CTGAGCTATTT
66 CACATGTC-GAGCTATTT
43538354 CTGTTATAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
88 1 0.01
89 56 0.79
90 14 0.20
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (90 bp):
TGCTTTTCAAATTAAGCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCT
CACATGTCGAGCTATTTTCAAAATC
Found at i:43539371 original size:18 final size:19
Alignment explanation
Indices: 43539348--43539383 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
43539338 CATTAAGGTG
*
43539348 ATTTTTTATTTT-TTTTCT
1 ATTTTTAATTTTGTTTTCT
43539366 ATTTTTAATTTTGTTTTC
1 ATTTTTAATTTTGTTTTC
43539384 AGACCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.78
Consensus pattern (19 bp):
ATTTTTAATTTTGTTTTCT
Found at i:43539986 original size:11 final size:11
Alignment explanation
Indices: 43539970--43540029 Score: 84
Period size: 11 Copynumber: 5.3 Consensus size: 11
43539960 TTTCATTACT
*
43539970 TTATGTTATTA
1 TTATATTATTA
*
43539981 TTATGTTATTA
1 TTATATTATTA
43539992 TTATATTATTA
1 TTATATTATTA
43540003 TTATTATTATTA
1 TTA-TATTATTA
43540015 TTATTATTATTA
1 TTA-TATTATTA
43540027 TTA
1 TTA
43540030 CTAGTATATG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
11 24 0.51
12 23 0.49
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
TTATATTATTA
Found at i:43540048 original size:3 final size:3
Alignment explanation
Indices: 43539975--43540029 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
43539965 TTACTTTATG
*
43539975 TTA TTA TTA -TG TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43540021 TTA TTA TTA
1 TTA TTA TTA
43540030 CTAGTATATG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 3 0.06
3 45 0.94
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:43540656 original size:49 final size:48
Alignment explanation
Indices: 43540603--43540698 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
43540593 TGTACCTAAA
* * * *
43540603 TACTATGTTATATGTATATATTCCAATACCATATTAAGTATGTTTTTTG
1 TACTATCTTATATGTACATATT-AAATACCATATTAAGTATGTATTTTG
* * * *
43540652 TACTATCTTATGTGTACATCTTAAATACTATATTATGTATGTATTTT
1 TACTATCTTATATGTACATATTAAATACCATATTAAGTATGTATTTT
43540699 AAACACCTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
48 21 0.54
49 18 0.46
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.50
Consensus pattern (48 bp):
TACTATCTTATATGTACATATTAAATACCATATTAAGTATGTATTTTG
Found at i:43540902 original size:17 final size:17
Alignment explanation
Indices: 43540871--43540916 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
43540861 TATGTATGCC
*
43540871 ATGTATATATATATGTAT
1 ATGTATAT-TTTATGTAT
43540889 ATGTATATTTTATGTAT
1 ATGTATATTTTATGTAT
43540906 ATTGT-TATTTT
1 A-TGTATATTTT
43540917 CTATCGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (17 bp):
ATGTATATTTTATGTAT
Found at i:43545119 original size:18 final size:18
Alignment explanation
Indices: 43545096--43545134 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43545086 ATTTTATAAT
* * *
43545096 ATTTTTACTTATTTTTTA
1 ATTTTTAATAATTTTTCA
43545114 ATTTTTAATAATTTTTCA
1 ATTTTTAATAATTTTTCA
43545132 ATT
1 ATT
43545135 GAATTGGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTAATAATTTTTCA
Found at i:43546026 original size:9 final size:9
Alignment explanation
Indices: 43546012--43546036 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43546002 GTTCTTATTT
43546012 TTTTTTTAC
1 TTTTTTTAC
43546021 TTTTTTTAC
1 TTTTTTTAC
43546030 TTTTTTT
1 TTTTTTT
43546037 CTTATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:43546124 original size:36 final size:37
Alignment explanation
Indices: 43546052--43546125 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
43546042 ATTTTGTCTC
*
43546052 TTTCTTAGATTTTTTTCTTTTTTAAGTTTCATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAGTTTCATATTAT
43546089 TTTCTTA-ATTTATTTTGCTTATTTAA-TTT-ATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTCATATTAT
43546125 T
1 T
43546126 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.68
Consensus pattern (37 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTCATATTAT
Found at i:43546163 original size:23 final size:21
Alignment explanation
Indices: 43546115--43546203 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 21
43546105 GCTTATTTAA
*
43546115 TTTATATTATTAATTTTAAAAAT
1 TTTATAATATT-A-TTTAAAAAT
* *
43546138 TTTGTAATATATATTTAAAATGT
1 TTTATAATAT-TATTTAAAA-AT
*
43546161 TTTATAATATTTTTTAAAAAT
1 TTTATAATATTATTTAAAAAT
*
43546182 TTTAATTATCATT-TTTAAAAAT
1 TTT-ATAAT-ATTATTTAAAAAT
43546204 ATTTTTTAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
21 4 0.07
22 28 0.51
23 22 0.40
24 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTATAATATTATTTAAAAAT
Found at i:43546184 original size:21 final size:22
Alignment explanation
Indices: 43546128--43546203 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
43546118 ATATTATTAA
*
43546128 TTTTAAAAATTTTGTAATATAT
1 TTTTAAAAATTTTATAATATAT
* *
43546150 ATTTAAAATGTTTTATAATAT-T
1 TTTTAAAA-ATTTTATAATATAT
*
43546172 TTTTAAAAATTTTA-ATTATCAT
1 TTTTAAAAATTTTATAATAT-AT
43546194 TTTTAAAAAT
1 TTTTAAAAAT
43546204 ATTTTTTAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.09
21 5 0.11
22 26 0.58
23 10 0.22
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (22 bp):
TTTTAAAAATTTTATAATATAT
Found at i:43546490 original size:18 final size:18
Alignment explanation
Indices: 43546467--43546513 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
43546457 GTGACTATTA
43546467 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
43546485 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
43546501 ATATA-TTAAATAT
1 ATAAATTTAAATAT
43546514 TATTTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 4 0.17
16 9 0.38
17 1 0.04
18 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:43546738 original size:26 final size:27
Alignment explanation
Indices: 43546689--43546751 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
43546679 TTTTAAATAC
* * *
43546689 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
43546716 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
43546742 AATATTTTAA
1 AATTTTTTAA
43546752 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:43546901 original size:23 final size:22
Alignment explanation
Indices: 43546847--43546921 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 22
43546837 TTATTATTAA
* *
43546847 TTTTAAATTTTTTTAATGTATAT
1 TTTTAAATTTTTATAATATAT-T
**
43546870 TTAAAAATTTTTATAATATATT
1 TTTTAAATTTTTATAATATATT
43546892 TTTTACAA-TTTTA-AATAT-TAT
1 TTTTA-AATTTTTATAATATAT-T
43546913 TTTTAAATT
1 TTTTAAATT
43546922 CTTTTTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 3 0.07
21 12 0.28
22 9 0.21
23 19 0.44
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTTAAATTTTTATAATATATT
Found at i:43546917 original size:21 final size:21
Alignment explanation
Indices: 43546878--43546921 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
43546868 ATTTAAAAAT
43546878 TTTTATAATATATTTTTTACAA
1 TTTTATAATATATTTTTTA-AA
43546900 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
43546920 TT
1 TT
43546922 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:43547046 original size:18 final size:18
Alignment explanation
Indices: 43547023--43547065 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
43547013 GTGACTATTA
*
43547023 ATAAATTTAAATATACAT
1 ATAAATTTAAAAATACAT
*
43547041 ATAAATTTAAAAATATAT
1 ATAAATTTAAAAATACAT
43547059 ATTAAAT
1 A-TAAAT
43547066 ATATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAAAATACAT
Found at i:43550096 original size:30 final size:30
Alignment explanation
Indices: 43550060--43550182 Score: 174
Period size: 30 Copynumber: 4.1 Consensus size: 30
43550050 GTCCCAGAGC
*
43550060 AGTTCATATAACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* * *
43550090 AGTTCATATCACTCGAACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
43550120 AGTTCTTATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
43550150 AGTTCATATCACCCGGATATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
43550180 AGT
1 AGT
43550183 CCATTTGACC
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:43558869 original size:2 final size:2
Alignment explanation
Indices: 43558857--43558885 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
43558847 AACGCTACAT
43558857 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
43558886 AGCAAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:43565615 original size:41 final size:41
Alignment explanation
Indices: 43565558--43565648 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
43565548 ATACGCATAG
43565558 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
1 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
*
43565599 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGT
1 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
43565640 TATACATTT
1 TATA-ATTT
43565649 CTAACTTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 44 0.92
42 4 0.08
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (41 bp):
TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
Found at i:43572512 original size:18 final size:18
Alignment explanation
Indices: 43572491--43572594 Score: 74
Period size: 18 Copynumber: 5.8 Consensus size: 18
43572481 GAAAGTTTTT
* *
43572491 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
43572509 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
*
43572527 --TTTGTAAACACGA-ATA
1 TTTTTGAAAACACGAGA-A
* *
43572543 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
43572560 TTTTTGGAAAAAAACGA-AA
1 TTTTT-G-AAAACACGAGAA
*
43572579 TTTTCTTAAAACACGA
1 TTTT-TGAAAACACGA
43572595 CATTTTTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
15 1 0.01
16 13 0.19
17 13 0.19
18 29 0.41
19 6 0.09
20 8 0.11
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:43572530 original size:16 final size:16
Alignment explanation
Indices: 43572497--43572562 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
43572487 TTTTTTTTTT
*
43572497 AAAATACGAGAATTTTTG
1 AAAACACGAGAA--TTTG
43572515 AAAACACGAGAATTTG
1 AAAACACGAGAATTTG
* *
43572531 TAAACACGA-ATATTTT
1 AAAACACGAGA-ATTTG
*
43572547 AGAAACACGAAAATTT
1 A-AAACACGAGAATTT
43572563 TTGGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.02
16 16 0.39
17 12 0.29
18 12 0.29
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (16 bp):
AAAACACGAGAATTTG
Found at i:43587168 original size:29 final size:29
Alignment explanation
Indices: 43587135--43587251 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
43587125 TGTAATTTTT
*
43587135 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
43587164 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
43587194 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
43587223 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
43587252 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:43587190 original size:30 final size:30
Alignment explanation
Indices: 43587150--43587251 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
43587140 ATTTAGGATT
*
43587150 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
43587180 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
43587210 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
43587240 AAAATGCAATTT
1 AAAATGAAATTT
43587252 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:43587276 original size:18 final size:19
Alignment explanation
Indices: 43587249--43587287 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
43587239 CAAAATGCAA
43587249 TTTTTATTTTTTT-AAATT
1 TTTTTATTTTTTTGAAATT
*
43587267 TTTTTTTTTTTTTGAAATT
1 TTTTTATTTTTTTGAAATT
43587286 TT
1 TT
43587288 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTTTGAAATT
Found at i:43587277 original size:16 final size:16
Alignment explanation
Indices: 43587247--43587276 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43587237 GTCAAAATGC
43587247 AATTTTTATTTTTTTA
1 AATTTTTATTTTTTTA
43587263 AATTTTT-TTTTTTT
1 AATTTTTATTTTTTT
43587277 TTTGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
AATTTTTATTTTTTTA
Found at i:43587277 original size:19 final size:19
Alignment explanation
Indices: 43587249--43587287 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
43587239 CAAAATGCAA
*
43587249 TTTTTATTTTTTTAAATTT
1 TTTTTATTTTTTGAAATTT
*
43587268 TTTTTTTTTTTTGAAATTT
1 TTTTTATTTTTTGAAATTT
43587287 T
1 T
43587288 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTTGAAATTT
Found at i:43592384 original size:16 final size:19
Alignment explanation
Indices: 43592353--43592392 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
43592343 TTACGAGTAG
43592353 GTTTTTGTATGTTATTT-T
1 GTTTTTGTATGTTATTTCT
43592371 GTTTTTG-A-GTTATTTCT
1 GTTTTTGTATGTTATTTCT
43592388 GTTTT
1 GTTTT
43592393 AGAACTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 7 0.33
18 7 0.33
ACGTcount: A:0.10, C:0.03, G:0.17, T:0.70
Consensus pattern (19 bp):
GTTTTTGTATGTTATTTCT
Done.