Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 20 of 74
Found at i:4979546 original size:16 final size:16
Alignment explanation
Indices: 4979521--4979702 Score: 113
Period size: 16 Copynumber: 11.3 Consensus size: 16
4979511 TTTTTCAACC
4979521 TCACAAGAATTTAGAT
1 TCACAAGAATTTAGAT
*
4979537 TCACATGAATTT-GAT
1 TCACAAGAATTTAGAT
* *
4979552 TCTCAA-AATTTCAGTT
1 TCACAAGAATTT-AGAT
*
4979568 TCACAAGGATTTAGAT
1 TCACAAGAATTTAGAT
*
4979584 TCACAA-AATTTTAAAT
1 TCACAAGAA-TTTAGAT
* * *
4979600 TCGCAAGATTTTTCAGTT
1 TCACAAGA-ATTT-AGAT
4979618 TCACAAG-ATTTCAGAT
1 TCACAAGAATTT-AGAT
** *
4979634 TTGCAAGAACTTAGAT
1 TCACAAGAATTTAGAT
* * * *
4979650 TCACAAAAACTCATAT
1 TCACAAGAATTTAGAT
*
4979666 TCATAA-AATTTTAGAT
1 TCACAAGAA-TTTAGAT
* *
4979682 TCATAAGAACTTAGAT
1 TCACAAGAATTTAGAT
4979698 TCACA
1 TCACA
4979703 TTTGAGAGAT
Statistics
Matches: 126, Mismatches: 30, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
14 5 0.04
15 10 0.08
16 90 0.71
17 13 0.10
18 8 0.06
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (16 bp):
TCACAAGAATTTAGAT
Found at i:4980115 original size:109 final size:107
Alignment explanation
Indices: 4979868--4980262 Score: 378
Period size: 109 Copynumber: 3.6 Consensus size: 107
4979858 TCAAAGTTTT
* * * *
4979868 TCATTCGATTTCCAAGATTCACATTTGATAAATTTTAGAGTTTCACATCTATATTCAAAGGTTCT
1 TCATTCGAGTTCAAAGATTCACATTCGATAAATTTTAGAGTTTCACATCTAAATTCAAAGG-T-T
** * * *
4979933 CATTCAAAACAAAAAATTAGGGGTTCACATCTAAAAATTTGAAAGCTTC
64 -ATT---ATTAAAAAATTTGGGGTTCACAT-TCAAAATTTTAAAGCTTC
* * * * * *
4979982 TTATTTGAGTTCAAAGATTTACATTCAATAAATTTTTGAGTTTCATATCTAAATTCAAAGGTTAT
1 TCATTCGAGTTCAAAGATTCACATTCGATAAATTTTAGAGTTTCACATCTAAATTCAAAGGTTAT
*
4980047 TATTAAAAAATTTCGAGGTTCACATTCAAAATTTTTAAAGCTTC
66 TATTAAAAAATTT-GGGGTTCACATTCAAAA-TTTTAAAGCTTC
** * * *
4980091 TCATTCGAGTTCAAAGATTCACATTCGATTGATTTTAGAGTTTCACATCT-AATTTAAAGTTTCT
1 TCATTCGAGTTCAAAGATTCACATTCGATAAATTTTAGAGTTTCACATCTAAATTCAAAGGTTAT
* * * * *
4980155 CATTTAAAAAAAATTTGGGGTTCATATCCAAAAGTTTCAAGCTTC
66 TA-TT--AAAAAATTTGGGGTTCACATTCAAAATTTTAAAGCTTC
* * * ** * *
4980200 TTATTCAAGTTCAAAGGTTCACATTCGATTGATTTTAAAGTTTTACATCTAAATTCAAAGGTT
1 TCATTCGAGTTCAAAGATTCACATTCGATAAATTTTAGAGTTTCACATCTAAATTCAAAGGTT
4980263 CTCATTTAAA
Statistics
Matches: 235, Mismatches: 40, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
108 26 0.11
109 120 0.51
110 24 0.10
111 12 0.05
112 1 0.00
113 1 0.00
114 51 0.22
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (107 bp):
TCATTCGAGTTCAAAGATTCACATTCGATAAATTTTAGAGTTTCACATCTAAATTCAAAGGTTAT
TATTAAAAAATTTGGGGTTCACATTCAAAATTTTAAAGCTTC
Found at i:4980279 original size:21 final size:21
Alignment explanation
Indices: 4980254--4980342 Score: 97
Period size: 21 Copynumber: 4.1 Consensus size: 21
4980244 ACATCTAAAT
*
4980254 TCAAAGGTTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
* *
4980275 TCAAAGATTCTTACTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
* *
4980296 TTAAAGTTTCTCATTTAAAACTTC
1 TCAAAGATTCTCATTTAAAA---C
*
4980320 TCAAAGATTCTAATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
4980341 TC
1 TC
4980343 TTTAAAGTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
21 37 0.67
24 18 0.33
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (21 bp):
TCAAAGATTCTCATTTAAAAC
Found at i:4980338 original size:45 final size:42
Alignment explanation
Indices: 4980256--4980341 Score: 118
Period size: 45 Copynumber: 2.0 Consensus size: 42
4980246 ATCTAAATTC
*
4980256 AAAGGTTCTCATTTAAAACTCAAAGATTCTTACTTAAAACTT
1 AAAGGTTCTCATTTAAAACTCAAAGATTCTAACTTAAAACTT
* *
4980298 AAAGTTTCTCATTTAAAACTTCTCAAAGATTCTAATTTAAAACT
1 AAAGGTTCTCATTTAAAA---CTCAAAGATTCTAACTTAAAACT
4980342 CTTTAAAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 17 0.45
45 21 0.55
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (42 bp):
AAAGGTTCTCATTTAAAACTCAAAGATTCTAACTTAAAACTT
Found at i:4980349 original size:24 final size:23
Alignment explanation
Indices: 4980256--4980358 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 23
4980246 ATCTAAATTC
*
4980256 AAAGGTTCTCATTTAAAACTC--
1 AAAGATTCTCATTTAAAACTCTT
* *
4980277 AAAGATTCTTACTTAAAA--CTT
1 AAAGATTCTCATTTAAAACTCTT
* *
4980298 AAAGTTTCTCATTTAAAACTTCTC
1 AAAGATTCTCATTTAAAAC-TCTT
*
4980322 AAAGATTCTAATTTAAAACTCTTT
1 AAAGATTCTCATTTAAAACTC-TT
* *
4980346 AAAGTTTTTCATT
1 AAAGATTCTCATT
4980359 ATTTTTAACT
Statistics
Matches: 63, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
19 1 0.02
21 30 0.48
23 2 0.03
24 30 0.48
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (23 bp):
AAAGATTCTCATTTAAAACTCTT
Found at i:4981555 original size:15 final size:15
Alignment explanation
Indices: 4981537--4981623 Score: 65
Period size: 15 Copynumber: 5.8 Consensus size: 15
4981527 GTTTTACATT
4981537 TTTTCATTTTTTTCA
1 TTTTCATTTTTTTCA
4981552 TTTTCA-TTTTTTC-
1 TTTTCATTTTTTTCA
* *
4981565 CTTTCATTTTTTTTA
1 TTTTCATTTTTTTCA
*
4981580 TTTT--TTAATTTCTCA
1 TTTTCATT--TTTTTCA
* *
4981595 TTTTTTATTTTTTTCT
1 -TTTTCATTTTTTTCA
4981611 TTTCTCATTTTTT
1 TTT-TCATTTTTT
4981624 ATTTTTTTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
13 7 0.12
14 13 0.23
15 17 0.30
16 17 0.30
18 2 0.04
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCATTTTTTTCA
Found at i:4981569 original size:13 final size:14
Alignment explanation
Indices: 4981538--4981576 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
4981528 TTTTACATTT
*
4981538 TTTCATTTTTTTCAT
1 TTTCA-TTTTTTCAC
4981553 TTTCATTTTTTC-C
1 TTTCATTTTTTCAC
4981566 TTTCATTTTTT
1 TTTCATTTTTT
4981577 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 7 0.30
15 5 0.22
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCATTTTTTCAC
Found at i:4981577 original size:14 final size:15
Alignment explanation
Indices: 4981538--4981577 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
4981528 TTTTACATTT
*
4981538 TTTCATTTTTTTCAT
1 TTTCATTTTTTTCAC
4981553 TTTCA-TTTTTTC-C
1 TTTCATTTTTTTCAC
4981566 TTTCATTTTTTT
1 TTTCATTTTTTT
4981578 TATTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 5 0.22
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTCATTTTTTTCAC
Found at i:4981585 original size:7 final size:7
Alignment explanation
Indices: 4981573--4981630 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
4981563 TCCTTTCATT
4981573 TTTTTTA
1 TTTTTTA
4981580 TTTTTTAA
1 TTTTTT-A
* *
4981588 TTTCTCA
1 TTTTTTA
4981595 TTTTTTA
1 TTTTTTA
4981602 TTTTTT-
1 TTTTTTA
4981608 TCTTTTCTCA
1 T-TTTT-T-A
4981618 TTTTTTA
1 TTTTTTA
4981625 TTTTTT
1 TTTTTT
4981631 TCTTTTCTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 1 0.02
7 29 0.69
8 7 0.17
9 4 0.10
10 1 0.02
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:4981598 original size:23 final size:23
Alignment explanation
Indices: 4981573--4981645 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
4981563 TCCTTTCATT
**
4981573 TTTTTTA-TTTTTTAATTTCTCA
1 TTTTTTATTTTTTTCTTTTCTCA
4981595 TTTTTTATTTTTTTCTTTTCTCA
1 TTTTTTATTTTTTTCTTTTCTCA
4981618 TTTTTTATTTTTTTCTTTTCTCA
1 TTTTTTATTTTTTTCTTTTCTCA
4981641 TTTTT
1 TTTTT
4981646 CATCCATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
22 7 0.15
23 41 0.85
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTATTTTTTTCTTTTCTCA
Found at i:4981607 original size:45 final size:46
Alignment explanation
Indices: 4981558--4981645 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
4981548 TTCATTTTCA
*
4981558 TTTTTTCC-TT-TCATTTTTTTTATTTTTTAATTTCTCATTTTTTAT
1 TTTTTTCCTTTCTCATTTTTTAT-TTTTTTAATTTCTCATTTTTTAT
* **
4981603 TTTTTTCTTTTCTCATTTTTTATTTTTTTCTTTTCTCATTTTT
1 TTTTTTCCTTTCTCATTTTTTATTTTTTTAATTTCTCATTTTT
4981646 CATCCATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 7 0.19
46 20 0.54
47 10 0.27
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.77
Consensus pattern (46 bp):
TTTTTTCCTTTCTCATTTTTTATTTTTTTAATTTCTCATTTTTTAT
Found at i:4986401 original size:12 final size:13
Alignment explanation
Indices: 4986370--4986420 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
4986360 AAATACTTTA
*
4986370 AAAATAAATAAAC
1 AAAATAAATAAAT
*
4986383 AAAATAAATGAAT
1 AAAATAAATAAAT
4986396 -AAATAAATAAAT
1 AAAATAAATAAAT
4986408 AAAATAAA-AAAT
1 AAAATAAATAAAT
4986420 A
1 A
4986421 CCAAAATAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
12 16 0.47
13 18 0.53
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:4986414 original size:5 final size:4
Alignment explanation
Indices: 4986371--4986420 Score: 57
Period size: 4 Copynumber: 12.2 Consensus size: 4
4986361 AATACTTTAA
* *
4986371 AAAT AAAT AAACA AAAT AAAT GAAT AAAT AAAT AAAT AAAAT AAA- AAAT
1 AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
4986420 A
1 A
4986421 CCAAAATAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 3 0.08
4 29 0.74
5 7 0.18
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:4986858 original size:18 final size:18
Alignment explanation
Indices: 4986835--4986869 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4986825 CCATTCATTC
*
4986835 TTTTTTTCAATTATCCAT
1 TTTTTTTCAAATATCCAT
*
4986853 TTTTTTTGAAATATCCA
1 TTTTTTTCAAATATCCA
4986870 GATAAATTTT
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:0.26, C:0.14, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTTTTCAAATATCCAT
Found at i:4986943 original size:14 final size:12
Alignment explanation
Indices: 4986912--4986958 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
4986902 GGAATACAAT
*
4986912 TAAAGATAAACAA
1 TAAA-ATAAATAA
4986925 T-AAATAAATAAGA
1 TAAAATAAAT-A-A
4986938 TAAAATAAATAA
1 TAAAATAAATAA
4986950 TAAAATAAA
1 TAAAATAAA
4986959 ATAAAAAGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 5 0.17
12 13 0.43
13 4 0.13
14 8 0.27
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:4986951 original size:17 final size:18
Alignment explanation
Indices: 4986923--4986963 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
4986913 AAAGATAAAC
*
4986923 AATAAATAAATAAGATAA
1 AATAAATAAATAAAATAA
4986941 AATAAAT-AATAAAATAA
1 AATAAATAAATAAAATAA
4986958 AATAAA
1 AATAAA
4986964 AAGGATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
AATAAATAAATAAAATAA
Found at i:4991648 original size:68 final size:68
Alignment explanation
Indices: 4991539--4991674 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 68
4991529 AAAAATAGAG
* *
4991539 CTAATTTTGTTCCCATTATTGGAAATTTGAAGAGTTTGGAATTCAAAAGAAAAATTCTTAAGAAT
1 CTAATTTTGTTCCCATTATTGGAAATTTGAAAAGTTTGGAATTCAAAAGAAAAAGTCTTAAGAAT
4991604 CTA
66 CTA
4991607 CTAATTTTGTTCCCATTATTGGAAATTTGAAAAGTTTGGAATTCAAAAGAAAAAGTCTTAAGAAT
1 CTAATTTTGTTCCCATTATTGGAAATTTGAAAAGTTTGGAATTCAAAAGAAAAAGTCTTAAGAAT
4991672 CTA
66 CTA
4991675 TGTACCACAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (68 bp):
CTAATTTTGTTCCCATTATTGGAAATTTGAAAAGTTTGGAATTCAAAAGAAAAAGTCTTAAGAAT
CTA
Found at i:4992026 original size:43 final size:42
Alignment explanation
Indices: 4991901--4992027 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 42
4991891 AGGACTCTAA
* * *
4991901 TTTAAAGTTATTTAGCCTTTGTATAAAAAAGCCTATTTCTTAG
1 TTTAAAGTTATTTAGCCTCTGTAT-AAAGAGCTTATTTCTTAG
* * ** **
4991944 TTTAAAGTTGTTTAGCCGCTAAATAAAGAAGCTCCTTTCTTAG
1 TTTAAAGTTATTTAGCCTCTGTATAAAG-AGCTTATTTCTTAG
* *
4991987 TTTAAAGTTACTTAGCCTCTGTATAGATGAGCTTATTTCTT
1 TTTAAAGTTATTTAGCCTCTGTATA-AAGAGCTTATTTCTT
4992028 TATTTATTAG
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
42 3 0.05
43 60 0.92
44 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (42 bp):
TTTAAAGTTATTTAGCCTCTGTATAAAGAGCTTATTTCTTAG
Found at i:4992858 original size:5 final size:5
Alignment explanation
Indices: 4992850--4993012 Score: 70
Period size: 5 Copynumber: 31.2 Consensus size: 5
4992840 ACTACCCTAT
*
4992850 TATTA TATTA CTACTA TA--A TATTA T-TATA GTATTA TATTA TATTA
1 TATTA TATTA -TATTA TATTA TATTA TAT-TA -TATTA TATTA TATTA
* * * *
4992895 TTATTA TAGTA TGCTGA TATTA TACTA CTA-T- TATTA TATTA GTATTA
1 -TATTA TATTA T-ATTA TATTA TATTA -TATTA TATTA TATTA -TATTA
* * * *
4992942 TATTA TAGTA TAGTA TA-T- TATTA TATTG TATTA GGTTATCA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA ---TATTA TATTA
4992988 TGATTA TTATTA TTATTAA TATTA T
1 T-ATTA -TATTA -TATT-A TATTA T
4993013 TATATTTGAT
Statistics
Matches: 125, Mismatches: 13, Indels: 40
0.70 0.07 0.22
Matches are distributed among these distances:
3 7 0.06
4 4 0.03
5 69 0.55
6 38 0.30
7 3 0.02
8 4 0.03
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (5 bp):
TATTA
Found at i:4992968 original size:8 final size:8
Alignment explanation
Indices: 4992847--4993030 Score: 87
Period size: 8 Copynumber: 22.1 Consensus size: 8
4992837 ATTACTACCC
4992847 TATTATTA
1 TATTATTA
*
4992855 TATTACTA
1 TATTATTA
4992863 CTA-TA--A
1 -TATTATTA
4992869 TATTATTA
1 TATTATTA
*
4992877 TAGTATTA
1 TATTATTA
4992885 TATTA-TA
1 TATTATTA
4992892 TTATTATTA
1 -TATTATTA
*
4992901 TAGTATGCTGA
1 TATTAT--T-A
4992912 TATTATACTA
1 TATTAT--TA
4992922 CTATTATTA
1 -TATTATTA
*
4992931 TATTAGTA
1 TATTATTA
4992939 T-TATATTA
1 TAT-TATTA
*
4992947 TAGTATAGTA
1 TA-T-TATTA
4992957 TATTATTA
1 TATTATTA
4992965 TATTGTATTA
1 TA-T-TATTA
** *
4992975 GGTTATCA
1 TATTATTA
4992983 TATTA-T-
1 TATTATTA
*
4992989 GATTATTA
1 TATTATTA
4992997 TTATTATTAA
1 -TATTATT-A
4993007 TATTATTA
1 TATTATTA
*
4993015 TATT-TGA
1 TATTATTA
4993022 TATTATTA
1 TATTATTA
4993030 T
1 T
4993031 TCCTTTTATT
Statistics
Matches: 136, Mismatches: 20, Indels: 40
0.69 0.10 0.20
Matches are distributed among these distances:
5 2 0.01
6 7 0.05
7 10 0.07
8 65 0.48
9 22 0.16
10 16 0.12
11 14 0.10
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (8 bp):
TATTATTA
Found at i:4993043 original size:3 final size:3
Alignment explanation
Indices: 4992847--4993031 Score: 57
Period size: 3 Copynumber: 67.3 Consensus size: 3
4992837 ATTACTACCC
* * * *
4992847 TAT TAT TA- TAT TAC TAC TA- TAA TAT TAT TA- TAG TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * *
4992890 TAT TAT TAT TA- TAG TAT GCT GA- TAT TA- TAC TAC TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
4992934 TAG TAT TA- TAT TA- TAG TA- TAG TA- TAT TAT TA- TAT T-G TAT TAGGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T
* * * *
4992978 TAT CA- TAT TAT GAT TAT TAT TAT TAT TAA TAT TAT TA- TAT T-T GA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4993022 TAT TAT TAT T
1 TAT TAT TAT T
4993032 CCTTTTATTA
Statistics
Matches: 140, Mismatches: 21, Indels: 42
0.69 0.10 0.21
Matches are distributed among these distances:
2 33 0.24
3 104 0.74
5 3 0.02
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (3 bp):
TAT
Found at i:4993864 original size:19 final size:19
Alignment explanation
Indices: 4993850--4993886 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4993840 TTTTTTTTCG
*
4993850 TTTTCATTTTATTTTTTAA
1 TTTTAATTTTATTTTTTAA
*
4993869 TTTTAATTTTAATTTTTA
1 TTTTAATTTTATTTTTTA
4993887 TTATTTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTAATTTTATTTTTTAA
Found at i:4993922 original size:30 final size:29
Alignment explanation
Indices: 4993859--4993935 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
4993849 GTTTTCATTT
* *
4993859 TATTTTTTAATTTTAATTTTAATTTTTAT
1 TATTTTTTAATTTTAATTTTAATTTTCAA
*
4993888 TATTTTCTTAAGTTTTTATTTT-ATTTTCAA
1 TATTTT-TTAA-TTTTAATTTTAATTTTCAA
4993918 TATTTTTT-A-TTTAATTTT
1 TATTTTTTAATTTTAATTTT
4993936 GCTAGTTTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 8 0.19
28 1 0.02
29 8 0.19
30 16 0.38
31 9 0.21
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (29 bp):
TATTTTTTAATTTTAATTTTAATTTTCAA
Found at i:4993944 original size:20 final size:20
Alignment explanation
Indices: 4993870--4993944 Score: 54
Period size: 21 Copynumber: 3.9 Consensus size: 20
4993860 ATTTTTTAAT
4993870 TTTAATTTT-A-A-TTTTTA
1 TTTAATTTTCATAGTTTTTA
*
4993887 -TT-ATTTTCTTAAGTTTTTA
1 TTTAATTTTCAT-AGTTTTTA
* *
4993906 TTTTATTTTCAATATTTTTTA
1 TTTAATTTTC-ATAGTTTTTA
4993927 TTTAATTTTGC-TAGTTTT
1 TTTAATTTT-CATAGTTTT
4993945 CAAAAAAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
15 5 0.11
16 2 0.04
18 1 0.02
19 6 0.13
20 8 0.18
21 21 0.47
22 2 0.04
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTAATTTTCATAGTTTTTA
Found at i:4994049 original size:21 final size:21
Alignment explanation
Indices: 4994025--4994066 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4994015 TAATCCCTCC
*
4994025 AAATAAGTTTAAAAAACAAAT
1 AAATAAGTCTAAAAAACAAAT
*
4994046 AAATAAGTCTAAAAAAGAAAT
1 AAATAAGTCTAAAAAACAAAT
4994067 CTTTTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAATAAGTCTAAAAAACAAAT
Found at i:4994869 original size:36 final size:38
Alignment explanation
Indices: 4994828--4994915 Score: 117
Period size: 36 Copynumber: 2.3 Consensus size: 38
4994818 TATTTTTCTT
*
4994828 ATTTATTTCTTTTCATTGCTTATAC-T-TTAATTATTC
1 ATTTATTTCTTTTCATTGCATATACTTCTTAATTATTC
* *
4994864 ATTTATTTCTTTTCATTGCATATGCTTGCTTAATTATTT
1 ATTTATTTCTTTTCATTGCATATACTT-CTTAATTATTC
*
4994903 ATTTATTTGTTTT
1 ATTTATTTCTTTT
4994916 ATATATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 23 0.51
37 1 0.02
39 21 0.47
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.62
Consensus pattern (38 bp):
ATTTATTTCTTTTCATTGCATATACTTCTTAATTATTC
Found at i:4995237 original size:28 final size:28
Alignment explanation
Indices: 4995170--4995226 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
4995160 ATTAGAGTTA
4995170 ACCCAAACCATATATAGTTAACTTTAAG
1 ACCCAAACCATATATAGTTAACTTTAAG
4995198 ACCCAAACCATATATAGTTAACTTTAAG
1 ACCCAAACCATATATAGTTAACTTTAAG
4995226 A
1 A
4995227 GCTCAACCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (28 bp):
ACCCAAACCATATATAGTTAACTTTAAG
Found at i:5000128 original size:48 final size:51
Alignment explanation
Indices: 5000028--5000128 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 51
5000018 ACTTTACTTA
* *
5000028 AACAAAAGAAAAAAGAGGAAGTTCAAGTTGAAAACCCGAAAGGGTAGTTTG
1 AACAAAAGAAAAAAGAGAAAGTTCAAGTTGAAAACCCGAAAGGGTAGCTTG
* *
5000079 AACAAAA-AAAAAA-A-AAAGTTCAAGTTGAAAACTCTGAAA-GGTGGCTTG
1 AACAAAAGAAAAAAGAGAAAGTTCAAGTTGAAAAC-CCGAAAGGGTAGCTTG
5000127 AA
1 AA
5000129 TGAGAGCATC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
48 26 0.58
49 6 0.13
50 6 0.13
51 7 0.16
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.17
Consensus pattern (51 bp):
AACAAAAGAAAAAAGAGAAAGTTCAAGTTGAAAACCCGAAAGGGTAGCTTG
Found at i:5000469 original size:60 final size:60
Alignment explanation
Indices: 5000337--5000471 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 60
5000327 AGACTTACAG
* * * * * *
5000337 TATCATTCCAATCATTAATCTATGATCTTGACTTGGTCTTGGTCACTTTCAAACTTGCAG
1 TATCATTCCAGTCATTAATATATGATCTTGACTCGATCTTGGTCACTTTCAAACTCGCAA
* * * * *
5000397 CATCGTTTCAGTCATTAATATATGA-CTTCGACTCGATCTTGGTTACTTTCAAACTCGTAA
1 TATCATTCCAGTCATTAATATATGATCTT-GACTCGATCTTGGTCACTTTCAAACTCGCAA
*
5000457 TATCATCCCAGTCAT
1 TATCATTCCAGTCAT
5000472 CTGATCTCGA
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
59 3 0.05
60 56 0.95
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (60 bp):
TATCATTCCAGTCATTAATATATGATCTTGACTCGATCTTGGTCACTTTCAAACTCGCAA
Found at i:5001272 original size:22 final size:19
Alignment explanation
Indices: 5001231--5001298 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
5001221 ATTTTTTACC
*
5001231 ACTATTGTTACATTATTAT
1 ACTATTATTACATTATTAT
5001250 ACTATTATTACATTACTACTAT
1 ACTATTATTACATTA-T--TAT
* *
5001272 ACTATTATAATATTATTAT
1 ACTATTATTACATTATTAT
*
5001291 AGTATTAT
1 ACTATTAT
5001299 ATTATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
19 24 0.57
20 1 0.02
21 1 0.02
22 16 0.38
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (19 bp):
ACTATTATTACATTATTAT
Found at i:5001296 original size:8 final size:8
Alignment explanation
Indices: 5001274--5001430 Score: 66
Period size: 8 Copynumber: 19.4 Consensus size: 8
5001264 ACTACTATAC
*
5001274 TATTATAA
1 TATTATTA
5001282 TATTATTA
1 TATTATTA
*
5001290 TAGTATTA
1 TATTATTA
5001298 TATTA-TA
1 TATTATTA
5001305 T-TATATTA
1 TAT-TATTA
5001313 TATTATTA
1 TATTATTA
*
5001321 TGA-TAGTA
1 T-ATTATTA
*
5001329 TGTTGA-TA
1 TATT-ATTA
5001337 T-TATATTA
1 TAT-TATTA
5001345 CTA-TATTA
1 -TATTATTA
*
5001353 TATTAGTA
1 TATTATTA
5001361 T-TATATTA
1 TAT-TATTA
5001369 TATTA-TA
1 TATTATTA
5001376 GTATT-TTA
1 -TATTATTA
5001384 T-TATATTA
1 TAT-TATTA
5001392 TATTAGGTTA
1 TATTA--TTA
5001402 TCA-TATTA
1 T-ATTATTA
*
5001410 TAATTTTTA
1 T-ATTATTA
5001419 TTATTATTA
1 -TATTATTA
5001428 TAT
1 TAT
5001431 CCGATATTAT
Statistics
Matches: 116, Mismatches: 10, Indels: 46
0.67 0.06 0.27
Matches are distributed among these distances:
6 2 0.02
7 14 0.12
8 76 0.66
9 16 0.14
10 7 0.06
11 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (8 bp):
TATTATTA
Found at i:5001303 original size:5 final size:5
Alignment explanation
Indices: 5001244--5001396 Score: 109
Period size: 5 Copynumber: 30.0 Consensus size: 5
5001234 ATTGTTACAT
* * * * *
5001244 TATTA TACTA TTATTA CATTA CTACTA TACTA TTATAA TATTA T-TATA
1 TATTA TATTA -TATTA TATTA -TATTA TATTA -TATTA TATTA TAT-TA
* * *
5001292 GTATTA TATTA TATTA TATTA TATTA TTATGA TAGTA TGTTGA TATTA
1 -TATTA TATTA TATTA TATTA TATTA -TATTA TATTA TATT-A TATTA
* *
5001340 TA-T- TACTA TATTA TATTA GTATTA TATTA TATTA TAGTA T-TT- TATTA
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA
5001387 TATTA TATTA
1 TATTA TATTA
5001397 GGTTATCATA
Statistics
Matches: 118, Mismatches: 17, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
3 3 0.03
4 6 0.05
5 82 0.69
6 26 0.22
7 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (5 bp):
TATTA
Found at i:5001303 original size:13 final size:13
Alignment explanation
Indices: 5001285--5001388 Score: 54
Period size: 13 Copynumber: 7.5 Consensus size: 13
5001275 ATTATAATAT
5001285 TATTATAGTATTA
1 TATTATAGTATTA
5001298 TA-T-TA-TATTA
1 TATTATAGTATTA
*
5001308 TATTATATTATTA
1 TATTATAGTATTA
*
5001321 TGATAGTATGTTGATATTA
1 T-AT--TA--TAG-TATTA
5001340 TATTACTA-TATTA
1 TATTA-TAGTATTA
*
5001353 TATTAGTATTATATTA
1 TATTA-TA--GTATTA
*
5001369 TATTATAGTATTT
1 TATTATAGTATTA
5001382 TATTATA
1 TATTATA
5001389 TTATATTAGG
Statistics
Matches: 72, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
10 7 0.10
11 3 0.04
12 3 0.04
13 31 0.43
14 2 0.03
15 3 0.04
16 14 0.19
18 3 0.04
19 6 0.08
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.56
Consensus pattern (13 bp):
TATTATAGTATTA
Found at i:5001402 original size:18 final size:16
Alignment explanation
Indices: 5001244--5001430 Score: 113
Period size: 16 Copynumber: 11.5 Consensus size: 16
5001234 ATTGTTACAT
*
5001244 TATTATACTATTATTA
1 TATTATATTATTATTA
* *
5001260 CATTACTACTATACTATTA
1 TATTA-TA-T-TATTATTA
5001279 TA--ATATTATTA-TA
1 TATTATATTATTATTA
5001292 GTATTATATTA-TATTA
1 -TATTATATTATTATTA
*
5001308 TATTATATTATTATGA
1 TATTATATTATTATTA
* *
5001324 TAGTATGTTGA-TATTA
1 TATTATATT-ATTATTA
*
5001340 TA-T-TACTA-TATTA
1 TATTATATTATTATTA
5001353 TATTAGTATTA-TATTA
1 TATTA-TATTATTATTA
*
5001369 TATTATAGTATTTTATTA
1 TATTATA-T-TATTATTA
*
5001387 TATTATATTAGGTTATCA
1 TATTATATTA--TTATTA
*
5001405 TATTATAATTTTTATTA
1 TATTAT-ATTATTATTA
5001422 TTATTATAT
1 -TATTATAT
5001431 CCGATATTAT
Statistics
Matches: 135, Mismatches: 17, Indels: 37
0.71 0.09 0.20
Matches are distributed among these distances:
13 10 0.07
14 9 0.07
15 16 0.12
16 47 0.35
17 13 0.10
18 29 0.21
19 11 0.08
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (16 bp):
TATTATATTATTATTA
Found at i:5001408 original size:23 final size:23
Alignment explanation
Indices: 5001294--5001411 Score: 72
Period size: 23 Copynumber: 5.3 Consensus size: 23
5001284 TTATTATAGT
5001294 ATTATATTATATTATA-T-T-AT
1 ATTATATTATATTATAGTATCAT
* * *
5001314 ATTATTATGATAGTAT-GT-TGAT
1 ATTA-TATTATATTATAGTATCAT
*
5001336 ATTATATTACTA-TATTA-TATTAGT
1 ATTATATTA-TATTA-TAGTATCA-T
**
5001360 ATTATATTATATTATAGTATTTT
1 ATTATATTATATTATAGTATCAT
*
5001383 ATTATATTATATTA-GGTTATCAT
1 ATTATATTATATTATAG-TATCAT
5001406 ATTATA
1 ATTATA
5001412 ATTTTTATTA
Statistics
Matches: 79, Mismatches: 8, Indels: 19
0.75 0.08 0.18
Matches are distributed among these distances:
20 4 0.05
21 17 0.22
22 11 0.14
23 31 0.39
24 16 0.20
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (23 bp):
ATTATATTATATTATAGTATCAT
Found at i:5002284 original size:20 final size:19
Alignment explanation
Indices: 5002242--5002295 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
5002232 TCTTTTTTTC
5002242 ATTTTCATTTTA-TTT-TTA
1 ATTTT-ATTTTATTTTCTTA
* *
5002260 ATTTTTTTTTGTTTTCTTA
1 ATTTTATTTTATTTTCTTA
5002279 AGTTTTATTTTATTTTC
1 A-TTTTATTTTATTTTC
5002296 AGTATTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.14
18 8 0.28
19 4 0.14
20 13 0.45
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.74
Consensus pattern (19 bp):
ATTTTATTTTATTTTCTTA
Found at i:5002409 original size:21 final size:21
Alignment explanation
Indices: 5002385--5002426 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5002375 AAATCCTTTC
*
5002385 AAATAAGTTTAAAAAACAAAT
1 AAATAAGTCTAAAAAACAAAT
*
5002406 AAATAAGTCTAAAAAAGAAAT
1 AAATAAGTCTAAAAAACAAAT
5002427 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAATAAGTCTAAAAAACAAAT
Found at i:5003697 original size:4 final size:4
Alignment explanation
Indices: 5003683--5003732 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
5003673 TTTTATATGC
* * *
5003683 TTAT CTTAT TTAT TTGTT TTAT TTAC TTAT TTAT TTAT TCAT TTAT TTAT
1 TTAT -TTAT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
5003733 CTACTTGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
4 31 0.82
5 7 0.18
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:5006544 original size:31 final size:29
Alignment explanation
Indices: 5006506--5006568 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 29
5006496 AGTGGGGTCA
5006506 AGAAAAGAAGTTAGACATATCGAAAATGAGG
1 AGAAAAGAAGTTAGAC--ATCGAAAATGAGG
*
5006537 AGAAAAGAAGTTAGACATCTAAAATGAGG
1 AGAAAAGAAGTTAGACATCGAAAATGAGG
5006566 AGA
1 AGA
5006569 TTTAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 15 0.48
31 16 0.52
ACGTcount: A:0.52, C:0.06, G:0.25, T:0.16
Consensus pattern (29 bp):
AGAAAAGAAGTTAGACATCGAAAATGAGG
Found at i:5008329 original size:22 final size:23
Alignment explanation
Indices: 5008299--5008351 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
5008289 ATAAAAAGTG
5008299 TTTTC-TTTGGACG-CCTTC-AAA
1 TTTTCTTTTGGA-GACCTTCAAAA
*
5008320 TTTTGTTTTGGAGACCTTCAAAA
1 TTTTCTTTTGGAGACCTTCAAAA
5008343 TTTTCTTTT
1 TTTTCTTTT
5008352 TGAACATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 5 0.19
22 11 0.41
23 11 0.41
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (23 bp):
TTTTCTTTTGGAGACCTTCAAAA
Found at i:5010878 original size:13 final size:13
Alignment explanation
Indices: 5010860--5010904 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
5010850 TTTTTAAAAA
5010860 TAACTTCCTTAAG
1 TAACTTCCTTAAG
*
5010873 TAACTT-TTTAAG
1 TAACTTCCTTAAG
*
5010885 GAACTTCCTTAAG
1 TAACTTCCTTAAG
5010898 TAACTTC
1 TAACTTC
5010905 TTGGTCATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (13 bp):
TAACTTCCTTAAG
Found at i:5015914 original size:18 final size:19
Alignment explanation
Indices: 5015879--5015916 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
5015869 ATCATTAGTA
5015879 AAAAAAAAAAACCTAAAGAAG
1 AAAAAAAAAAA-C-AAAGAAG
5015900 AAAAAAAAAAA-AAAGAA
1 AAAAAAAAAAACAAAGAA
5015917 AACTTATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
21 11 0.65
ACGTcount: A:0.84, C:0.05, G:0.08, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAACAAAGAAG
Found at i:5031385 original size:126 final size:126
Alignment explanation
Indices: 5031179--5031436 Score: 516
Period size: 126 Copynumber: 2.0 Consensus size: 126
5031169 TATCTTTAAC
5031179 TAAGAAAGAGACAACGACTCTATTTTTGAACACTTTGAAGTTATCTTATTATGAAAAGATGATAG
1 TAAGAAAGAGACAACGACTCTATTTTTGAACACTTTGAAGTTATCTTATTATGAAAAGATGATAG
5031244 GGAGCATGACTAAAAATTTTGTTGATATGGTGATCTTATGCAAGATCATTGAAAATGCAAT
66 GGAGCATGACTAAAAATTTTGTTGATATGGTGATCTTATGCAAGATCATTGAAAATGCAAT
5031305 TAAGAAAGAGACAACGACTCTATTTTTGAACACTTTGAAGTTATCTTATTATGAAAAGATGATAG
1 TAAGAAAGAGACAACGACTCTATTTTTGAACACTTTGAAGTTATCTTATTATGAAAAGATGATAG
5031370 GGAGCATGACTAAAAATTTTGTTGATATGGTGATCTTATGCAAGATCATTGAAAATGCAAT
66 GGAGCATGACTAAAAATTTTGTTGATATGGTGATCTTATGCAAGATCATTGAAAATGCAAT
5031431 TAAGAA
1 TAAGAA
5031437 TGGTAAGGTT
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 132 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (126 bp):
TAAGAAAGAGACAACGACTCTATTTTTGAACACTTTGAAGTTATCTTATTATGAAAAGATGATAG
GGAGCATGACTAAAAATTTTGTTGATATGGTGATCTTATGCAAGATCATTGAAAATGCAAT
Found at i:5031423 original size:63 final size:63
Alignment explanation
Indices: 5031230--5031424 Score: 145
Period size: 63 Copynumber: 3.1 Consensus size: 63
5031220 TATCTTATTA
5031230 TGAAAAGATGATAGGGAGCATGACTAAAAATTTTGTTGATATGGTGATCTTATGCAAGATCAT
1 TGAAAAGATGATAGGGAGCATGACTAAAAATTTTGTTGATATGGTGATCTTATGCAAGATCAT
* ** * * * * * ** *
5031293 TGAAAATGCAATTA-AGAAAG-A-GAC-AACGACTCTATTTTTGAACACT-TTGAAGTTAT-C-T
1 TGAAAA-G--ATGATAGGGAGCATGACTAA-AAAT-T-TTGTTG-ATA-TGGTGATCTTATGCAA
* *
5031351 TATTA-
58 GATCAT
5031356 TGAAAAGATGATAGGGAGCATGACTAAAAATTTTGTTGATATGGTGATCTTATGCAAGATCAT
1 TGAAAAGATGATAGGGAGCATGACTAAAAATTTTGTTGATATGGTGATCTTATGCAAGATCAT
5031419 TGAAAA
1 TGAAAA
5031425 TGCAATTAAG
Statistics
Matches: 90, Mismatches: 26, Indels: 32
0.61 0.18 0.22
Matches are distributed among these distances:
59 1 0.01
60 12 0.13
61 10 0.11
62 8 0.09
63 28 0.31
64 8 0.09
65 10 0.11
66 12 0.13
67 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (63 bp):
TGAAAAGATGATAGGGAGCATGACTAAAAATTTTGTTGATATGGTGATCTTATGCAAGATCAT
Found at i:5037639 original size:18 final size:17
Alignment explanation
Indices: 5037616--5037650 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
5037606 GCCATTCTTT
*
5037616 TTTTTTTTCAATTATCCA
1 TTTTTTTT-AAATATCCA
5037634 TTTTTTTTAAATATCCA
1 TTTTTTTTAAATATCCA
5037651 GATACATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTTTTAAATATCCA
Found at i:5038461 original size:15 final size:15
Alignment explanation
Indices: 5038338--5038469 Score: 72
Period size: 15 Copynumber: 8.5 Consensus size: 15
5038328 TCAACTTCGT
*
5038338 AAGAATTTATATTCAC
1 AAGAATTT-GATTCAC
*
5038354 AAGAATTTGATTCTC
1 AAGAATTTGATTCAC
*
5038369 AA-AATTTTAGTTCAC
1 AAGAATTTGA-TTCAC
* * *
5038384 AAGGATTAAAGATTCGC
1 AAGAATT--TGATTCAC
* *
5038401 AATAATTTGATTCTC
1 AAGAATTTGATTCAC
* * *
5038416 AA-ATTTTCAATTTCGC
1 AAGAATTT-GA-TTCAC
*
5038432 AAGGATTTAGATTCAC
1 AAGAATTT-GATTCAC
5038448 AAGAATTTGATTCAC
1 AAGAATTTGATTCAC
5038463 AA-AATTT
1 AAGAATTT
5038470 CATATTCGCA
Statistics
Matches: 88, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
14 15 0.17
15 31 0.35
16 28 0.32
17 13 0.15
18 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (15 bp):
AAGAATTTGATTCAC
Found at i:5038471 original size:47 final size:47
Alignment explanation
Indices: 5038326--5038485 Score: 173
Period size: 47 Copynumber: 3.4 Consensus size: 47
5038316 TAACACGATT
* * * *
5038326 TTTCAACTTCGTAAGAATTTATATTCACAAGAATTTGATTCTCAAAA
1 TTTCAATTTCGCAAGGATTTAGATTCACAAGAATTTGATTCTCAAAA
* * * * * * *
5038373 TTT-TAGTTCACAAGGATTAAAGATTCGCAATAATTTGATTCTCAAAT
1 TTTCAATTTCGCAAGGATT-TAGATTCACAAGAATTTGATTCTCAAAA
*
5038420 TTTCAATTTCGCAAGGATTTAGATTCACAAGAATTTGATTCACAAAA
1 TTTCAATTTCGCAAGGATTTAGATTCACAAGAATTTGATTCTCAAAA
5038467 TTTC-ATATTCGCAA-GATTT
1 TTTCAAT-TTCGCAAGGATTT
5038486 TTCAATTTCG
Statistics
Matches: 92, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
46 17 0.18
47 63 0.68
48 12 0.13
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (47 bp):
TTTCAATTTCGCAAGGATTTAGATTCACAAGAATTTGATTCTCAAAA
Found at i:5038485 original size:16 final size:15
Alignment explanation
Indices: 5038420--5038516 Score: 54
Period size: 16 Copynumber: 6.0 Consensus size: 15
5038410 ATTCTCAAAT
5038420 TTTCAATTTCGCAAGGA
1 TTTCAA-TTCGCAA-GA
*
5038437 TTT-AGATTCACAAGAA
1 TTTCA-ATTCGCAAG-A
* * *
5038453 TTT-GATTCACAAAA
1 TTTCAATTCGCAAGA
5038467 TTTCATATTCGCAAGA
1 TTTCA-ATTCGCAAGA
5038483 TTTTTCAATTTCGCAAGA
1 --TTTCAA-TTCGCAAGA
*
5038501 TTTCAAATTTGCAAGA
1 TTTC-AATTCGCAAGA
5038517 ACTTAGATTC
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
14 4 0.06
15 9 0.14
16 31 0.48
17 7 0.11
18 14 0.22
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (15 bp):
TTTCAATTCGCAAGA
Found at i:5038504 original size:34 final size:33
Alignment explanation
Indices: 5038410--5038516 Score: 87
Period size: 34 Copynumber: 3.3 Consensus size: 33
5038400 CAATAATTTG
* *
5038410 ATTCTCAA-ATTTTCAATTTCGCAAGGATTT-AG
1 ATTCGCAAGATTTTCAATTTCGCAA-GATTTCAA
* * * * * *
5038442 ATTCACAAGAATTT-GA-TTCACAAAATTTCAT
1 ATTCGCAAGATTTTCAATTTCGCAAGATTTCAA
5038473 ATTCGCAAGATTTTTCAATTTCGCAAGATTTCAA
1 ATTCGCAAGA-TTTTCAATTTCGCAAGATTTCAA
*
5038507 ATTTGCAAGA
1 ATTCGCAAGA
5038517 ACTTAGATTC
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
30 4 0.07
31 16 0.28
32 11 0.19
33 5 0.09
34 21 0.37
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (33 bp):
ATTCGCAAGATTTTCAATTTCGCAAGATTTCAA
Found at i:5038570 original size:16 final size:16
Alignment explanation
Indices: 5038507--5038573 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
5038497 AAGATTTCAA
5038507 ATTTGCAAGAACTTAG
1 ATTTGCAAGAACTTAG
** * *
5038523 ATTCACAAGAACTCAA
1 ATTTGCAAGAACTTAG
* *
5038539 ATTTGTAA-AATTTTAG
1 ATTTGCAAGAA-CTTAG
5038555 ATTTGCAAGAACTTAG
1 ATTTGCAAGAACTTAG
5038571 ATT
1 ATT
5038574 CACGTTTGAG
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
15 2 0.05
16 33 0.89
17 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (16 bp):
ATTTGCAAGAACTTAG
Found at i:5039097 original size:108 final size:109
Alignment explanation
Indices: 5038735--5039147 Score: 460
Period size: 109 Copynumber: 3.8 Consensus size: 109
5038725 ATTTCCAAGA
* * * * *
5038735 TTTCAAAGTTTCTCATTCGAGTTTC-AAGATTTATATTCGA-TAAATTTAGTAGTTTCACATCTA
1 TTTCAAAGCTTCTCATTCAAG-TTCAAAGATTCACATTCGATTAATTTTAG-AGTTTCACATCTA
* * * *
5038798 TATTCAAAGGTTCTCATTAAAAAAAATTTGGGGTTTACATCTAAAAT
64 AATTCAAAAGTTCTCATT-AAAAAAATTTGGGGTTCACATCCAAAAT
* * * * ** *
5038845 TTTCAAAGCTTCTTATTCAAGTTCAAAGATTCATATTTGATAAATTTTTTAGTTTCATATCTAAA
1 TTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTCGATTAATTTTAGAGTTTCACATCTAAA
* * *
5038910 TTCATAGGTTCTCATT-AAAAAATTTAGAGGTTCACATCCAAAAT
66 TTCAAAAGTTCTCATTAAAAAAATTT-GGGGTTCACATCCAAAAT
** *
5038954 TTTCAAAAATTCTCATTCAAGTTCAAAGATTCACATTCGATTGATTTTAGAGTTTCACATCT-AA
1 TTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTCGATTAATTTTAGAGTTTCACATCTAAA
* *
5039018 TTTAAAAGTTCTCATTCAAAAAAATTTGGGGTTCACATCCAAGA-
66 TTCAAAAGTTCTCATT-AAAAAAATTTGGGGTTCACATCCAAAAT
* * * * *
5039062 GTTCAAAGCCTCTTATTCGAGTTCAAAGATTCACATTTC-ATTAATTTTAGAGTTTTACATCTAA
1 TTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACA-TTCGATTAATTTTAGAGTTTCACATCTAA
*
5039126 ATTCAAAAGTTCTCATTTAAAA
65 ATTCAAAAGTTCTCATTAAAAA
5039148 CTCAAAGATT
Statistics
Matches: 256, Mismatches: 40, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
108 78 0.30
109 105 0.41
110 68 0.27
111 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (109 bp):
TTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTCGATTAATTTTAGAGTTTCACATCTAAA
TTCAAAAGTTCTCATTAAAAAAATTTGGGGTTCACATCCAAAAT
Found at i:5039185 original size:217 final size:219
Alignment explanation
Indices: 5038735--5039187 Score: 529
Period size: 217 Copynumber: 2.1 Consensus size: 219
5038725 ATTTCCAAGA
* * * *
5038735 TTTCAAAGTTTCTCATTCGAGTTTCAAGATTTATATTCGATAAATTTAGTAGTTTCACATCTATA
1 TTTCAAAGATTCTCATTCAAGTTTCAAGATTCACATTCGATAAATTTAGTAGTTTCACATCTATA
* * * * *
5038800 TTCAAAGGTTCTCATTAAAAAAAATTTGGGGTTTACATCTAAAATTTTCAAAGCTTCTTATTCAA
66 TTCAAAAGTTCTCATTAAAAAAAATTTGGGGTTCACATCCAAAATGTTCAAAGCCTCTTATTCAA
* * ** * * *
5038865 GTTCAAAGATTCATATTTGATAAATTTTTTAGTTTCATATCTAAATTCATAGGTTCTCATTAAAA
131 GTTCAAAGATTCACATTTCATAAATTTTAGAGTTTCACATCTAAATTCAAAAGTTCTCATTAAAA
* * * *
5038930 AATTTAGAGGTTCACATCCAAAAT
196 AACTCAAAGATTCACATCCAAAAT
* * *
5038954 TTTCAAAAATTCTCATTCAAG-TTCAAAGATTCACATTCGATTGATTTTAG-AGTTTCACATCTA
1 TTTCAAAGATTCTCATTCAAGTTTC-AAGATTCACATTCGA-TAAATTTAGTAGTTTCACATCTA
* * *
5039017 -ATTTAAAAGTTCTCATTCAAAAAAATTTGGGGTTCACATCCAAGA-GTTCAAAGCCTCTTATTC
64 TATTCAAAAGTTCTCATTAAAAAAAATTTGGGGTTCACATCCAAAATGTTCAAAGCCTCTTATTC
* * * *
5039080 GAGTTCAAAGATTCACATTTCATTAATTTTAGAGTTTTACATCTAAATTCAAAAGTTCTCATT-T
129 AAGTTCAAAGATTCACATTTCATAAATTTTAGAGTTTCACATCTAAATTCAAAAGTTCTCATTAA
** **
5039144 AAAACTCAAAGATTTTCATTTAAAACT
194 AAAACTCAAAGATTCACATCCAAAA-T
*
5039171 TTTTAAAGATTCTCATT
1 TTTCAAAGATTCTCATT
5039188 TAAAACTCCT
Statistics
Matches: 195, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
216 17 0.09
217 85 0.44
218 42 0.22
219 44 0.23
220 7 0.04
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (219 bp):
TTTCAAAGATTCTCATTCAAGTTTCAAGATTCACATTCGATAAATTTAGTAGTTTCACATCTATA
TTCAAAAGTTCTCATTAAAAAAAATTTGGGGTTCACATCCAAAATGTTCAAAGCCTCTTATTCAA
GTTCAAAGATTCACATTTCATAAATTTTAGAGTTTCACATCTAAATTCAAAAGTTCTCATTAAAA
AACTCAAAGATTCACATCCAAAAT
Found at i:5039200 original size:24 final size:23
Alignment explanation
Indices: 5039131--5039211 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 23
5039121 TCTAAATTCA
5039131 AAAG-TTCTCATTTAAAACTC--
1 AAAGATTCTCATTTAAAACTCTT
* *
5039151 AAAGATTTTCATTTAAAACTTTTT
1 AAAGATTCTCATTTAAAAC-TCTT
5039175 AAAGATTCTCATTTAAAACTCCTT
1 AAAGATTCTCATTTAAAACT-CTT
* *
5039199 AAAGTTTTTCATT
1 AAAGATTCTCATT
5039212 ATTTTAACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.08
21 13 0.26
22 1 0.02
23 1 0.02
24 31 0.62
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.43
Consensus pattern (23 bp):
AAAGATTCTCATTTAAAACTCTT
Found at i:5040392 original size:15 final size:15
Alignment explanation
Indices: 5040364--5040483 Score: 84
Period size: 15 Copynumber: 7.5 Consensus size: 15
5040354 TCATTTTCTC
*
5040364 TCATTTTACATTTTTT
1 TCATTTTTC-TTTTTT
5040380 T-ATTTTCTCTTTTTT
1 TCATTTT-TCTTTTTT
5040395 TCATTTTTCTTTTTT
1 TCATTTTTCTTTTTT
*
5040410 T--TCTTTTCATTTTT
1 TCAT-TTTTCTTTTTT
5040424 TCATTTTTTTCATTTTTT
1 TCA--TTTTTC-TTTTTT
*
5040442 TCATTTTTTAATTTTTTCT
1 TCA-TTTTT--CTTTTT-T
5040461 TCATTTTTCATTTTTT
1 TCATTTTTC-TTTTTT
*
5040477 TCCTTTT
1 TCATTTT
5040484 CTCATTTTCC
Statistics
Matches: 86, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.01
14 11 0.13
15 21 0.24
16 14 0.16
17 16 0.19
18 19 0.22
19 4 0.05
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (15 bp):
TCATTTTTCTTTTTT
Found at i:5040433 original size:26 final size:25
Alignment explanation
Indices: 5040374--5040476 Score: 89
Period size: 26 Copynumber: 3.9 Consensus size: 25
5040364 TCATTTTACA
* * *
5040374 TTTTTTTATTTTCTCTTTTTTTCATTT
1 TTTTTTTTTTTTTTCATTTTTTCA--T
5040401 TTCTTTTTTTTCTTTTCATTTTTTCAT
1 TT-TTTTTTTT-TTTTCATTTTTTCAT
* *
5040428 TTTTTTCATTTTTTTCATTTTTTAAT
1 TTTTTT-TTTTTTTTCATTTTTTCAT
**
5040454 TTTTTCTTCATTTTTCATTTTTT
1 TTTTT-TTTTTTTTTCATTTTTT
5040477 TCCTTTTCTC
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
26 36 0.56
27 9 0.14
28 7 0.11
29 12 0.19
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTTTTTTTTTTTCATTTTTTCAT
Found at i:5040474 original size:6 final size:7
Alignment explanation
Indices: 5040391--5040475 Score: 50
Period size: 7 Copynumber: 11.7 Consensus size: 7
5040381 ATTTTCTCTT
5040391 TTTTTCA
1 TTTTTCA
5040398 TTTTTC-
1 TTTTTCA
**
5040404 TTTTTTT
1 TTTTTCA
5040411 TCTTTTCA
1 T-TTTTCA
5040419 TTTTTTCA
1 -TTTTTCA
5040427 TTTTTTTCA
1 --TTTTTCA
5040436 TTTTTTTCA
1 --TTTTTCA
*
5040445 TTTTTTA
1 TTTTTCA
*
5040452 ATTTT--
1 TTTTTCA
*
5040457 TTCTTCA
1 TTTTTCA
5040464 TTTTTCA
1 TTTTTCA
5040471 TTTTT
1 TTTTT
5040476 TTCCTTTTCT
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
5 3 0.05
6 5 0.08
7 28 0.44
8 10 0.16
9 18 0.28
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:5040475 original size:8 final size:8
Alignment explanation
Indices: 5040353--5040491 Score: 99
Period size: 8 Copynumber: 17.0 Consensus size: 8
5040343 AATTTGAATC
5040353 TTCATTTT
1 TTCATTTT
5040361 CTCTCA-TTT
1 -T-TCATTTT
*
5040370 TACATTTT
1 TTCATTTT
*
5040378 TTTATTTT
1 TTCATTTT
* *
5040386 CTCTTTTT
1 TTCATTTT
5040394 TTCA-TTT
1 TTCATTTT
5040401 TTC-TTTT
1 TTCATTTT
5040408 TT--TTCTT
1 TTCATT-TT
5040415 TTCATTTT
1 TTCATTTT
5040423 TTCATTTTT
1 TTCA-TTTT
5040432 TTCATTTTT
1 TTCA-TTTT
5040441 TTCATTTT
1 TTCATTTT
*
5040449 TTAATTTT
1 TTCATTTT
*
5040457 TTCTTCATTT
1 TTCAT--TTT
5040467 TTCATTTTT
1 TTCA-TTTT
*
5040476 TTCCTTTT
1 TTCATTTT
*
5040484 CTCATTTT
1 TTCATTTT
5040492 CCATCCATTA
Statistics
Matches: 105, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
6 2 0.02
7 17 0.16
8 47 0.45
9 29 0.28
10 9 0.09
11 1 0.01
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (8 bp):
TTCATTTT
Found at i:5040483 original size:26 final size:24
Alignment explanation
Indices: 5040362--5040491 Score: 72
Period size: 26 Copynumber: 5.4 Consensus size: 24
5040352 CTTCATTTTC
* *
5040362 TCTCATTTTACATTTTTTTA-TTT
1 TCTCATTTTTCATTTTTTAACTTT
*
5040385 TCTCTTTTTTTCA-TTTTT--CTTT
1 TCTC-ATTTTTCATTTTTTAACTTT
** * *
5040407 T-TTTTCTTTTCATTTTTTCATTTT
1 TCTCAT-TTTTCATTTTTTAACTTT
* *
5040431 TTTCATTTTTTTCATTTTTTAATTTTT
1 TCTCA--TTTTTCATTTTTTAA-CTTT
**
5040458 TCTTCATTTTTCATTTTTTTCCTTT
1 TC-TCATTTTTCATTTTTTAACTTT
5040483 TCTCATTTT
1 TCTCATTTT
5040492 CCATCCATTA
Statistics
Matches: 85, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
20 2 0.02
21 7 0.08
22 9 0.11
23 9 0.11
24 17 0.20
25 6 0.07
26 26 0.31
27 6 0.07
28 3 0.04
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.75
Consensus pattern (24 bp):
TCTCATTTTTCATTTTTTAACTTT
Found at i:5040488 original size:17 final size:16
Alignment explanation
Indices: 5040353--5040491 Score: 126
Period size: 17 Copynumber: 8.5 Consensus size: 16
5040343 AATTTGAATC
*
5040353 TTCATTTTCTCTCATTT
1 TTCATTTT-TTTCATTT
*
5040370 TACATTTTTTT-ATTT
1 TTCATTTTTTTCATTT
5040385 TCTC-TTTTTTTCATTT
1 T-TCATTTTTTTCATTT
*
5040401 TTCTTTTTTTTC--TT
1 TTCATTTTTTTCATTT
5040415 TTCA-TTTTTTCATTTTT
1 TTCATTTTTTTCA--TTT
5040432 TTCATTTTTTTCATTTT
1 TTCATTTTTTTCA-TTT
*
5040449 TTAATTTTTTCTTCATTT
1 TTCA-TTTTT-TTCATTT
*
5040467 TTCATTTTTTTCCTTT
1 TTCATTTTTTTCATTT
5040483 TCTCATTTT
1 T-TCATTTT
5040492 CCATCCATTA
Statistics
Matches: 104, Mismatches: 7, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
13 7 0.07
14 5 0.05
15 14 0.13
16 23 0.22
17 32 0.31
18 19 0.18
19 4 0.04
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCATTTTTTTCATTT
Found at i:5049232 original size:12 final size:12
Alignment explanation
Indices: 5049210--5049266 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
5049200 TTTAATTATT
*
5049210 TATTTAATTTTA
1 TATTTATTTTTA
5049222 TATTTATTTTTA
1 TATTTATTTTTA
*
5049234 TAAATTT-TTATATA
1 T--ATTTATT-TTTA
*
5049248 TATTTAATTTTA
1 TATTTATTTTTA
5049260 TATTTAT
1 TATTTAT
5049267 ATTAAAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
12 25 0.69
13 3 0.08
14 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTATTTTTA
Found at i:5049286 original size:38 final size:37
Alignment explanation
Indices: 5049205--5049309 Score: 104
Period size: 38 Copynumber: 2.8 Consensus size: 37
5049195 ATTTTTTTAA
* * * * *
5049205 TTATTTATTTAATTTTATATTTATTTTTATAAATTTT
1 TTATATATTTAATTTTATATTTATATTAAAAAATATT
5049242 TATATATATTTAATTTTATATTTATATTAAAATAATATT
1 T-TATATATTTAATTTTATATTTATATTAAAA-AATATT
***
5049281 TTATAT-TTTAAAAATATATATTATATTAA
1 TTATATATTTAATTTTATAT-TTATATTAA
5049310 TTTCGGGTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
37 11 0.19
38 40 0.70
39 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (37 bp):
TTATATATTTAATTTTATATTTATATTAAAAAATATT
Found at i:5049293 original size:20 final size:20
Alignment explanation
Indices: 5049258--5049307 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
5049248 TATTTAATTT
*
5049258 TATATT-TATATT-AAAATAA
1 TATATTATATTTTAAAAAT-A
*
5049277 TATTTTATATTTTAAAAATA
1 TATATTATATTTTAAAAATA
5049297 TATATTATATT
1 TATATTATATT
5049308 AATTTCGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 16 0.62
21 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATTATATTTTAAAAATA
Found at i:5051363 original size:43 final size:43
Alignment explanation
Indices: 5051244--5051376 Score: 153
Period size: 43 Copynumber: 3.1 Consensus size: 43
5051234 AGGACTCTAA
* *
5051244 TTTAAAGTTGTTTAGCCTCTATATAGACAAGC-CTATTTCTTAG
1 TTTAAAGTTATTTAGCCTCTATATAGACGAGCTC-ATTTCTTAG
* * * *
5051287 TTTAAAGTTTTTTAGCCTTTAAATAG-GGAAGCTCATTTCTTAG
1 TTTAAAGTTATTTAGCCTCTATATAGACG-AGCTCATTTCTTAG
* * *
5051330 TTTAAAGTTATTTAGCCTCTATATAGATGAGCTCATTTTTTAA
1 TTTAAAGTTATTTAGCCTCTATATAGACGAGCTCATTTCTTAG
5051373 TTTA
1 TTTA
5051377 TTAGCCTTTG
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
43 74 0.97
44 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.45
Consensus pattern (43 bp):
TTTAAAGTTATTTAGCCTCTATATAGACGAGCTCATTTCTTAG
Found at i:5052178 original size:3 final size:3
Alignment explanation
Indices: 5052170--5052361 Score: 87
Period size: 3 Copynumber: 68.0 Consensus size: 3
5052160 ATTACTATAC
* * * * *
5052170 TAT TAT TA- TAT TAC TAC TA- TAC TAT TGT TA- TAT TAT TA- TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
5052214 TA- TAT TA- TAT TAT TAT TA- TAG TAT GT-T GA- TAT TAT ATAT CTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT -TAT
* * * *
5052257 TAT TA- TAT TAG TAT CA- TAT TA- TAT TA- TAG TA- TAC TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
5052299 TA- TAT TAGGT TAT CA- TAT TA- TAGT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TA--T TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
5052344 TCT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
5052362 ATTTGATATT
Statistics
Matches: 148, Mismatches: 18, Indels: 46
0.70 0.08 0.22
Matches are distributed among these distances:
2 31 0.21
3 105 0.71
4 9 0.06
5 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:5052179 original size:11 final size:11
Alignment explanation
Indices: 5052150--5052361 Score: 125
Period size: 11 Copynumber: 18.9 Consensus size: 11
5052140 TATTTTTGCC
5052150 ATTATAGTTAATT
1 ATTATA-TT-ATT
* *
5052163 ACTATACTATT
1 ATTATATTATT
*
5052174 ATTATATTACT
1 ATTATATTATT
* *
5052185 ACTATACTATT
1 ATTATATTATT
*
5052196 GTTATATTATT
1 ATTATATTATT
5052207 A-TAGTATTA-T
1 ATTA-TATTATT
5052217 ATTATATTATT
1 ATTATATTATT
*
5052228 ATTATAGTATGT
1 ATTATATTAT-T
*
5052240 -TGATATTA-T
1 ATTATATTATT
*
5052249 A-TAT-CTATT
1 ATTATATTATT
*
5052258 ATTATATTAGT
1 ATTATATTATT
*
5052269 ATCATATTA-T
1 ATTATATTATT
*
5052279 ATTATAGTATACT
1 ATTATA-T-TATT
5052292 ATTATATTA-T
1 ATTATATTATT
**
5052302 ATTAGGTTATCAT
1 ATTATATTAT--T
5052315 ATTATAGTTATT
1 ATTATA-TTATT
5052327 ATTATTATTATT
1 ATTA-TATTATT
*
5052339 ATTATTCTTATT
1 ATTA-TATTATT
5052351 ATTATTATTAT
1 ATTA-TATTAT
5052362 ATTTGATATT
Statistics
Matches: 156, Mismatches: 27, Indels: 33
0.72 0.12 0.15
Matches are distributed among these distances:
8 2 0.01
9 5 0.03
10 26 0.17
11 64 0.41
12 36 0.23
13 19 0.12
14 4 0.03
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (11 bp):
ATTATATTATT
Found at i:5052205 original size:5 final size:5
Alignment explanation
Indices: 5052173--5052364 Score: 93
Period size: 5 Copynumber: 34.8 Consensus size: 5
5052163 ACTATACTAT
* * *
5052173 TATTA TATTA CTACTA TACTA TTGTTA TATTA T-TATA GTATTA TATTA
1 TATTA TATTA -TATTA TATTA -TATTA TATTA TAT-TA -TATTA TATTA
* * *
5052221 TATTA TTATTA TAGTA TGTTGA TATTA TA-TA T-CTA TTATTA TATTA
1 TATTA -TATTA TATTA TATT-A TATTA TATTA TATTA -TATTA TATTA
* *
5052267 GTATCA TATTA TATTA TAGTATA CTATTA TATTA TATTA GGTTATCA TATTA
1 -TATTA TATTA TATTA TA-T-TA -TATTA TATTA TATTA ---TATTA TATTA
*
5052319 TAGTTA TTATTA TTATTA TTATTA TTCTTA TTATTA TTATTA TATT
1 TA-TTA -TATTA -TATTA -TATTA -TATTA -TATTA -TATTA TATT
5052365 TGATATTTTA
Statistics
Matches: 153, Mismatches: 15, Indels: 38
0.74 0.07 0.18
Matches are distributed among these distances:
4 6 0.04
5 73 0.48
6 62 0.41
7 6 0.04
8 6 0.04
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:5052328 original size:9 final size:8
Alignment explanation
Indices: 5052192--5052364 Score: 83
Period size: 8 Copynumber: 20.5 Consensus size: 8
5052182 ACTACTATAC
*
5052192 TATTGTTA
1 TATTATTA
5052200 TATTATTA
1 TATTATTA
*
5052208 TAGTATTA
1 TATTATTA
5052216 TATTA-TA
1 TATTATTA
5052223 TTATTATTA
1 -TATTATTA
*
5052232 TAGTATGTTGA
1 TA-T-TATT-A
5052243 TATTATATA
1 TATTAT-TA
5052252 TCTATTATTA
1 --TATTATTA
*
5052262 TATTAGTA
1 TATTATTA
5052270 TCA-TATTA
1 T-ATTATTA
5052278 TATTA-TA
1 TATTATTA
*
5052285 GTA-TACTA
1 -TATTATTA
5052293 T-TATATTA
1 TAT-TATTA
5052301 TATTAGGTTA
1 TATTA--TTA
5052311 TCA-TATTA
1 T-ATTATTA
5052319 TAGTTA-T-
1 TA-TTATTA
5052326 TATTATTA
1 TATTATTA
5052334 TTATTATTA
1 -TATTATTA
*
5052343 TTCTTATTA
1 -TATTATTA
5052352 TTATTATTA
1 -TATTATTA
5052361 TATT
1 TATT
5052365 TGATATTTTA
Statistics
Matches: 132, Mismatches: 10, Indels: 46
0.70 0.05 0.24
Matches are distributed among these distances:
6 3 0.02
7 12 0.09
8 60 0.45
9 34 0.26
10 13 0.10
11 10 0.08
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (8 bp):
TATTATTA
Found at i:5052343 original size:18 final size:18
Alignment explanation
Indices: 5052170--5052361 Score: 87
Period size: 16 Copynumber: 11.3 Consensus size: 18
5052160 ATTACTATAC
* *
5052170 TATTATTA-TATTACTAC
1 TATTATTATTATTATTAT
* *
5052187 TA-TACTATTGTTA-TAT
1 TATTATTATTATTATTAT
*
5052203 TATTA-TAGTATTA-TAT
1 TATTATTATTATTATTAT
*
5052219 TA-TATTATTATTA-TAG
1 TATTATTATTATTATTAT
*
5052235 TATGT-TGA-TATTATATAT
1 TAT-TATTATTATTAT-TAT
*
5052253 CTATTATTA-TATTAGTAT
1 -TATTATTATTATTATTAT
* *
5052271 CA-TATTA-TATTA-TAG
1 TATTATTATTATTATTAT
*
5052286 TA-TACTATTA-TATTA-
1 TATTATTATTATTATTAT
*
5052301 TATTAGGTTATCA-TATTA-
1 TATTA--TTATTATTATTAT
5052319 TAGTTATTATTATTATTAT
1 TA-TTATTATTATTATTAT
*
5052338 TATTATTCTTATTATTAT
1 TATTATTATTATTATTAT
5052356 TATTAT
1 TATTAT
5052362 ATTTGATATT
Statistics
Matches: 139, Mismatches: 19, Indels: 33
0.73 0.10 0.17
Matches are distributed among these distances:
15 13 0.09
16 51 0.37
17 16 0.12
18 44 0.32
19 15 0.11
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.56
Consensus pattern (18 bp):
TATTATTATTATTATTAT
Found at i:5052371 original size:21 final size:20
Alignment explanation
Indices: 5052197--5052377 Score: 103
Period size: 21 Copynumber: 8.7 Consensus size: 20
5052187 TATACTATTG
5052197 TTATATTATTATAGTATTATA-
1 TTATATTATTAT--TATTATAT
5052218 TTATATTATTATTA-TAGTAT
1 TTATATTATTATTATTA-TAT
5052238 GTTGATATTA-TA-TATCTAT-T
1 -TT-ATATTATTATTAT-TATAT
*
5052258 ATTATATTAGTATCATATTATA-
1 -TTATATTATTAT--TATTATAT
* *
5052280 TTATAGTA-TACTATTATA-
1 TTATATTATTATTATTATAT
*
5052298 TTATATTAGGTTATCATATTATAG
1 TTATATTA--TTAT--TATTATAT
5052322 TTATTATTATTATTATTATTAT
1 TTA-TATTATTATTATTA-TAT
5052344 TCT-TATTATTATTATTATAT
1 T-TATATTATTATTATTATAT
5052364 TTGATATT-TTATTA
1 TT-ATATTATTATTA
5052378 CTTTTAGTAT
Statistics
Matches: 132, Mismatches: 6, Indels: 45
0.72 0.03 0.25
Matches are distributed among these distances:
18 16 0.12
19 11 0.08
20 19 0.14
21 49 0.37
22 14 0.11
23 15 0.11
24 3 0.02
25 5 0.04
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (20 bp):
TTATATTATTATTATTATAT
Found at i:5053210 original size:13 final size:12
Alignment explanation
Indices: 5053175--5053209 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
5053165 TTTTTCTTCA
5053175 TTTTTATTTTAT
1 TTTTTATTTTAT
5053187 TTTTTGATTTTAT
1 TTTTT-ATTTTAT
5053200 TTTTTATTTT
1 TTTTTATTTT
5053210 TCTTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:5054185 original size:35 final size:37
Alignment explanation
Indices: 5054141--5054223 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 37
5054131 TTTGTCTTTC
5054141 TTATTTATTTCTTTTCATTGCTTA-C-ACTTAATTAT
1 TTATTTATTTCTTTTCATTGCTTAGCTACTTAATTAT
* *
5054176 TTATTTATTTCTTTTCATTGTTTATGCTTGCTTAATTAT
1 TTATTTATTTCTTTTCATTGCTTA-GC-TACTTAATTAT
5054215 TTATTTATT
1 TTATTTATT
5054224 AATTATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 23 0.55
37 1 0.02
39 18 0.43
ACGTcount: A:0.20, C:0.11, G:0.05, T:0.64
Consensus pattern (37 bp):
TTATTTATTTCTTTTCATTGCTTAGCTACTTAATTAT
Found at i:5063782 original size:51 final size:49
Alignment explanation
Indices: 5063703--5063852 Score: 167
Period size: 52 Copynumber: 3.0 Consensus size: 49
5063693 TGAACTAAAA
* * *
5063703 AAAAAAAAAACAAAAAGTTTAAGTTGAAAACCTAAAAAGGTAGCTTGAACC
1 AAAAAAAAAA-AAAAA-TTCAAGTTGAAAACCCAAAAAGGTAGCTTAAACC
* * *
5063754 AAAAAAGAAAAATAAAATTCAAGTTGAAAACTCGAAAAGGGTAGCTTAAACT
1 AAAAAA-AAAAA-AAAATTCAAGTTGAAAAC-CCAAAAAGGTAGCTTAAACC
* *
5063806 AAAAAAAAAAAAAAGTTCAAGTTGAAAACCCCAAAAGGT-GACTTAAA
1 AAAAAAAAAAAAAAATTCAAGTTGAAAACCCAAAAAGGTAG-CTTAAA
5063853 TGAGAGAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
48 1 0.01
49 13 0.15
50 17 0.20
51 25 0.29
52 30 0.35
ACGTcount: A:0.57, C:0.11, G:0.14, T:0.17
Consensus pattern (49 bp):
AAAAAAAAAAAAAAATTCAAGTTGAAAACCCAAAAAGGTAGCTTAAACC
Found at i:5063842 original size:50 final size:50
Alignment explanation
Indices: 5063704--5063843 Score: 174
Period size: 50 Copynumber: 2.8 Consensus size: 50
5063694 GAACTAAAAA
* * * *
5063704 AAAAAAAAACAAAAAGTTTAAGTTGAAAA-CCTAAAAAGGTAGCTTGAACC
1 AAAAAAAAA-AAAAAGTTCAAGTTGAAAACCCCAAAAGGGTAGCTTAAACC
* * * *
5063754 AAAAAAGAAAAATAAAATTCAAGTTGAAAACTCGAAAAGGGTAGCTTAAACT
1 AAAAAA-AAAAA-AAAGTTCAAGTTGAAAACCCCAAAAGGGTAGCTTAAACC
5063806 AAAAAAAAAAAAAAGTTCAAGTTGAAAACCCCAAAAGG
1 AAAAAAAAAAAAAAGTTCAAGTTGAAAACCCCAAAAGG
5063844 TGACTTAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 32 0.42
51 23 0.30
52 22 0.29
ACGTcount: A:0.58, C:0.11, G:0.14, T:0.16
Consensus pattern (50 bp):
AAAAAAAAAAAAAAGTTCAAGTTGAAAACCCCAAAAGGGTAGCTTAAACC
Found at i:5065293 original size:3 final size:3
Alignment explanation
Indices: 5065287--5065471 Score: 70
Period size: 3 Copynumber: 67.0 Consensus size: 3
5065277 ACTACTATAC
* *
5065287 TAT TAT TA- TAT TAT TA- TAA TAT TA- TAT TA- TAT TAT TAT TA- TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
5065330 TAT GT-T GA- TAT TA- TAT TAC TAT TAT TA- TAT TAG TAT TA- TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
5065371 CA- TAT TA- TAG TA- TAT TAT TA- TAT TA- TAT TAGGT TAT CA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT TAT
* * *
5065412 TA- TAGT TAT TAT TAT TAA TAT TAT TA- TAT T-T GA- AAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
5065454 TACT T-T TAT TAT TTT TAT
1 TA-T TAT TAT TAT TAT TAT
5065472 CAGATTTTCT
Statistics
Matches: 137, Mismatches: 19, Indels: 52
0.66 0.09 0.25
Matches are distributed among these distances:
2 35 0.26
3 94 0.69
4 5 0.04
5 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:5065298 original size:5 final size:5
Alignment explanation
Indices: 5065290--5065441 Score: 105
Period size: 5 Copynumber: 28.8 Consensus size: 5
5065280 ACTATACTAT
* * *
5065290 TATTA TATTA TTATAA TATTA TATTA TATTA TTATTA TAGTA TGTTGA
1 TATTA TATTA -TATTA TATTA TATTA TATTA -TATTA TATTA TATT-A
* *
5065338 TATTA TATTA CTA-T- TATTA TATTA GTATTA TATCA TATTA TAGTA TA-T-
1 TATTA TATTA -TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA
* *
5065386 TATTA TATTA TATTA GGTTATCA TATTA TAGTTA TTATTA TTAATA TTATTA
1 TATTA TATTA TATTA ---TATTA TATTA TA-TTA -TATTA -TATTA -TATTA
5065438 TATT
1 TATT
5065442 TGAAATTATT
Statistics
Matches: 120, Mismatches: 13, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
3 4 0.03
4 3 0.03
5 71 0.59
6 36 0.30
7 2 0.02
8 4 0.03
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:5065433 original size:9 final size:8
Alignment explanation
Indices: 5065287--5065441 Score: 83
Period size: 8 Copynumber: 18.5 Consensus size: 8
5065277 ACTACTATAC
5065287 TATTATTA
1 TATTATTA
5065295 TATTATTA
1 TATTATTA
*
5065303 TAATATTA
1 TATTATTA
5065311 TATTA-TA
1 TATTATTA
5065318 TTATTATTA
1 -TATTATTA
*
5065327 TAGTATGT-
1 TATTAT-TA
5065335 TGA-TATTA
1 T-ATTATTA
*
5065343 TATTACTA
1 TATTATTA
5065351 TTATTA-TA
1 -TATTATTA
*
5065359 TTAGTATTA
1 -TATTATTA
5065368 TATCATATTA
1 TAT--TATTA
5065378 TAGTATATTA
1 TA-T-TATTA
5065388 T-TATATTA
1 TAT-TATTA
5065396 TATTAGGTTA
1 TATTA--TTA
5065406 TCA-TATTA
1 T-ATTATTA
5065414 TAGTTA-T-
1 TA-TTATTA
5065421 TATTATTAA
1 TATTATT-A
5065430 TATTATTA
1 TATTATTA
5065438 TATT
1 TATT
5065442 TGAAATTATT
Statistics
Matches: 121, Mismatches: 6, Indels: 40
0.72 0.04 0.24
Matches are distributed among these distances:
6 3 0.02
7 8 0.07
8 67 0.55
9 21 0.17
10 20 0.17
11 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (8 bp):
TATTATTA
Found at i:5066262 original size:13 final size:13
Alignment explanation
Indices: 5066246--5066281 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
5066236 TTTTTTTTTC
5066246 TTTTTCATTTTAT
1 TTTTTCATTTTAT
5066259 TTTTTCATTTTAT
1 TTTTTCATTTTAT
5066272 TTTTT-ATTTT
1 TTTTTCATTTT
5066282 TCTTTGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCATTTTAT
Found at i:5066263 original size:19 final size:17
Alignment explanation
Indices: 5066235--5066286 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
5066225 CATTTCACAG
5066235 TTTTTTTTTTCTTTTTCA
1 TTTTTTTTTTCTTTTT-A
*
5066253 TTTTATTTTTTCATTTTA
1 TTTT-TTTTTTCTTTTTA
5066271 TTTTTTATTTTTCTTT
1 -TTTTT-TTTTTCTTT
5066287 GCTTTATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTTTCTTTTTA
Found at i:5066282 original size:13 final size:12
Alignment explanation
Indices: 5066235--5066312 Score: 61
Period size: 13 Copynumber: 6.3 Consensus size: 12
5066225 CATTTCACAG
*
5066235 TTTTTT-TTTTC
1 TTTTTTATTTTA
*
5066246 TTTTTCATTTTA
1 TTTTTTATTTTA
5066258 TTTTTTCATTTTA
1 TTTTTT-ATTTTA
*
5066271 TTTTTTATTTTTC
1 TTTTTTA-TTTTA
*
5066284 TTTGCTTTA-TTAA
1 TTT--TTTATTTTA
*
5066297 ATTTTTATTTTA
1 TTTTTTATTTTA
5066309 TTTT
1 TTTT
5066313 CAGTATTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
11 9 0.17
12 16 0.31
13 23 0.44
15 4 0.08
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.78
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:5067313 original size:21 final size:20
Alignment explanation
Indices: 5067271--5067314 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
5067261 TGGATTCAAG
*
5067271 TTTTTGAATTTTTTTTAGAT
1 TTTTTGAATTTTTTTGAGAT
5067291 TTTTTGAAATTTTCTTTGA-AT
1 TTTTTG-AATTTT-TTTGAGAT
5067312 TTT
1 TTT
5067315 CCTATAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (20 bp):
TTTTTGAATTTTTTTGAGAT
Found at i:5067314 original size:20 final size:20
Alignment explanation
Indices: 5067271--5067314 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5067261 TGGATTCAAG
* *
5067271 TTTTTGAATTTTTTTTAGAT
1 TTTTTGAATTTTCTTTAGAA
5067291 TTTTTGAAATTTTCTTT-GAA
1 TTTTTG-AATTTTCTTTAGAA
5067311 TTTT
1 TTTT
5067315 CCTATAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (20 bp):
TTTTTGAATTTTCTTTAGAA
Found at i:5067755 original size:4 final size:4
Alignment explanation
Indices: 5067748--5067784 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
5067738 ATTTGTTTGT
*
5067748 TTTA TTTA TTTA TTTA TTTA TTTA TTCA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
5067785 CTACTTGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:5072340 original size:22 final size:22
Alignment explanation
Indices: 5072315--5072356 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
5072305 AGATGTTTTC
5072315 TTTGGACG-CCTTCAAATTTTGT
1 TTTGGA-GACCTTCAAATTTTGT
5072337 TTTGGAGACCTTCAAATTTT
1 TTTGGAGACCTTCAAATTTT
5072357 TCTTTTGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (22 bp):
TTTGGAGACCTTCAAATTTTGT
Found at i:5072362 original size:23 final size:22
Alignment explanation
Indices: 5072310--5072363 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
5072300 ACAAAAGATG
5072310 TTTTC-TTTGGACGCCTTCAAA
1 TTTTCTTTTGGACGCCTTCAAA
*
5072331 TTTTGTTTTGGA-GACCTTCAAA
1 TTTTCTTTTGGACG-CCTTCAAA
5072353 TTTTTCTTTTG
1 -TTTTCTTTTG
5072364 AACATATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 5 0.18
22 14 0.50
23 9 0.32
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.52
Consensus pattern (22 bp):
TTTTCTTTTGGACGCCTTCAAA
Found at i:5079949 original size:2 final size:2
Alignment explanation
Indices: 5079944--5079981 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
5079934 AAGAAAATAC
* *
5079944 TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5079982 GTCAAGTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:5080231 original size:2 final size:2
Alignment explanation
Indices: 5080219--5080287 Score: 84
Period size: 2 Copynumber: 31.5 Consensus size: 2
5080209 GCCGAAAGGG
5080219 AT AT AT CAT AT AT CAT AT AT CAT AT AT CAT AT AT CAT AT AT CAT
1 AT AT AT -AT AT AT -AT AT AT -AT AT AT -AT AT AT -AT AT AT -AT
5080263 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
5080288 GGGAGAGGAG
Statistics
Matches: 61, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
2 49 0.80
3 12 0.20
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5080231 original size:7 final size:7
Alignment explanation
Indices: 5080219--5080284 Score: 111
Period size: 7 Copynumber: 9.9 Consensus size: 7
5080209 GCCGAAAGGG
5080219 ATATATC
1 ATATATC
5080226 ATATATC
1 ATATATC
5080233 ATATATC
1 ATATATC
5080240 ATATATC
1 ATATATC
5080247 ATATATC
1 ATATATC
5080254 ATATATC
1 ATATATC
5080261 ATATAT-
1 ATATATC
5080267 ATATAT-
1 ATATATC
5080273 ATATAT-
1 ATATATC
5080279 ATATAT
1 ATATAT
5080285 ATAGGGAGAG
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 18 0.31
7 41 0.69
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (7 bp):
ATATATC
Found at i:5082111 original size:17 final size:16
Alignment explanation
Indices: 5082067--5082116 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 16
5082057 TGTTTGATAT
5082067 ATAAAATTATAATAAG
1 ATAAAATTATAATAAG
*
5082083 ATAAGA-TA-AATAAG
1 ATAAAATTATAATAAG
*
5082097 ATAATATTATGAATAAG
1 ATAAAATTAT-AATAAG
5082114 ATA
1 ATA
5082117 TGATTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 11 0.38
15 4 0.14
16 5 0.17
17 9 0.31
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (16 bp):
ATAAAATTATAATAAG
Found at i:5082122 original size:17 final size:16
Alignment explanation
Indices: 5082072--5082127 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
5082062 GATATATAAA
*
5082072 ATTATAATAAGATAAG
1 ATTATAATAAGATATG
5082088 A-TA-AATAAGATAAT-
1 ATTATAATAAGAT-ATG
5082102 ATTATGAATAAGATATG
1 ATTAT-AATAAGATATG
5082119 ATTA-AATAA
1 ATTATAATAA
5082128 TATTATCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
14 9 0.26
15 10 0.29
16 3 0.09
17 12 0.35
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (16 bp):
ATTATAATAAGATATG
Found at i:5091078 original size:30 final size:31
Alignment explanation
Indices: 5091029--5091088 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
5091019 CTATTAAGGT
*
5091029 TTTGACTTTGTTGCTTTTTT-TTTTTTTTGG
1 TTTGACTTTGTTGCTTTTTTCTTCTTTTTGG
*
5091059 TTTG-CTTTGTTTTCTTTTTTCTTCTTTTTG
1 TTTGACTTTG-TTGCTTTTTTCTTCTTTTTG
5091089 CTATTGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 5 0.19
30 13 0.50
31 8 0.31
ACGTcount: A:0.02, C:0.10, G:0.13, T:0.75
Consensus pattern (31 bp):
TTTGACTTTGTTGCTTTTTTCTTCTTTTTGG
Found at i:5095404 original size:15 final size:16
Alignment explanation
Indices: 5095368--5095406 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
5095358 TTTTTTAAAA
5095368 ATAATTTTTAATAATTT
1 ATAA-TTTTAATAATTT
*
5095385 TTAATTTTAAT-ATTT
1 ATAATTTTAATAATTT
5095400 ATAATTT
1 ATAATTT
5095407 ATTTCTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
16 7 0.35
17 3 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTTTAATAATTT
Found at i:5098790 original size:2 final size:2
Alignment explanation
Indices: 5098783--5098818 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
5098773 TTTGTCCTTT
5098783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5098819 CTTCATTCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5101485 original size:6 final size:6
Alignment explanation
Indices: 5101474--5101498 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5101464 TAATATTTAA
5101474 TAAATT TAAATT TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
5101499 TGATTGTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:5102865 original size:23 final size:23
Alignment explanation
Indices: 5102838--5102886 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
5102828 TTTTATTAAA
5102838 ATTTTAATTTATATAATTATCAT
1 ATTTTAATTTATATAATTATCAT
* * *
5102861 ATTTTTATTTATATCATTTTCAT
1 ATTTTAATTTATATAATTATCAT
5102884 ATT
1 ATT
5102887 ATTTGATCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTAATTTATATAATTATCAT
Found at i:5116106 original size:13 final size:13
Alignment explanation
Indices: 5116090--5116116 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5116080 ATGTGGACCT
5116090 ATAAAAGAGTAAG
1 ATAAAAGAGTAAG
5116103 ATAAAAGAGTAAG
1 ATAAAAGAGTAAG
5116116 A
1 A
5116117 AATAAAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (13 bp):
ATAAAAGAGTAAG
Found at i:5122744 original size:30 final size:30
Alignment explanation
Indices: 5122710--5122794 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
5122700 AAAGATGGTG
*
5122710 ATGGATCTGATGCAGTTGATATTGAAGGTA
1 ATGGATCTGATGCTGTTGATATTGAAGGTA
* * * * *
5122740 ATGGATCTGATGCTGTTGGTGTTTAGGGTC
1 ATGGATCTGATGCTGTTGATATTGAAGGTA
* *
5122770 ATGGATCAGATGCTGTTGAAATTGA
1 ATGGATCTGATGCTGTTGATATTGA
5122795 GGAGGACTTG
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.25, C:0.08, G:0.32, T:0.35
Consensus pattern (30 bp):
ATGGATCTGATGCTGTTGATATTGAAGGTA
Found at i:5124827 original size:22 final size:22
Alignment explanation
Indices: 5124799--5124844 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
5124789 TTTTAAGGGC
5124799 TTAAATGATTATTGAATTATGG
1 TTAAATGATTATTGAATTATGG
5124821 TTAAATGATTATTGAATTATGG
1 TTAAATGATTATTGAATTATGG
5124843 TT
1 TT
5124845 CAAGGGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (22 bp):
TTAAATGATTATTGAATTATGG
Found at i:5127312 original size:13 final size:13
Alignment explanation
Indices: 5127279--5127322 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
5127269 TATCATGACT
5127279 ATAAATAATTATTA
1 ATAAATAA-TATTA
5127293 A-AAATAATATTA
1 ATAAATAATATTA
* *
5127305 ATATATAAAATTA
1 ATAAATAATATTA
5127318 ATAAA
1 ATAAA
5127323 AATTACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 6 0.23
13 19 0.73
14 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAAATAATATTA
Found at i:5128130 original size:23 final size:25
Alignment explanation
Indices: 5128098--5128163 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 25
5128088 TTCATAAGTA
* **
5128098 AAATTATTTAATTATT-TTTTC-AT
1 AAATTTTTTAATTATTCAATTCTAT
5128121 AAATTTTTTAA-TATTCAATTCTAT
1 AAATTTTTTAATTATTCAATTCTAT
*
5128145 AAATTTTATAATTATTCAA
1 AAATTTTTTAATTATTCAA
5128164 AATTTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.11
23 13 0.36
24 12 0.33
25 7 0.19
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATTTTTTAATTATTCAATTCTAT
Found at i:5128239 original size:21 final size:22
Alignment explanation
Indices: 5128195--5128240 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
5128185 CATAACTTAT
*
5128195 AATTTTTCAAAAATCAATTTCAA
1 AATTTTTCAAAAA-CAATTACAA
*
5128218 AATTTTTTAAAAA-AATTACAA
1 AATTTTTCAAAAACAATTACAA
5128239 AA
1 AA
5128241 GAATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
23 12 0.57
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTTTTCAAAAACAATTACAA
Found at i:5129819 original size:12 final size:12
Alignment explanation
Indices: 5129789--5129819 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5129779 GTTTACTGGT
*
5129789 TAGATTATGAAA
1 TAGATTGTGAAA
5129801 TAGATTGTGAAA
1 TAGATTGTGAAA
5129813 TAGATTG
1 TAGATTG
5129820 GACAGTGTGT
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (12 bp):
TAGATTGTGAAA
Found at i:5140450 original size:22 final size:22
Alignment explanation
Indices: 5140424--5140467 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5140414 TGTATATTTA
*
5140424 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
*
5140446 TATTTGTATCCCTATAATTAAG
1 TATTTGTATCCCTAGAATTAAG
5140468 GAAGATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:5140643 original size:23 final size:26
Alignment explanation
Indices: 5140631--5140683 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
5140621 ATTGCTGACT
5140631 TTTTTAGGCCTTCATTG-TCGAATCC
1 TTTTTAGGCCTTCATTGCTCGAATCC
* *
5140656 TGTTTAGGCCTTCATTGC-CGAACCC
1 TTTTTAGGCCTTCATTGCTCGAATCC
5140681 TTT
1 TTT
5140684 CAAAGAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (26 bp):
TTTTTAGGCCTTCATTGCTCGAATCC
Found at i:5144352 original size:22 final size:22
Alignment explanation
Indices: 5144326--5144369 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5144316 TGTATATTTA
*
5144326 TATTTGTATCTCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
*
5144348 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
5144370 GAAGATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:5145846 original size:115 final size:115
Alignment explanation
Indices: 5145639--5145873 Score: 371
Period size: 115 Copynumber: 2.0 Consensus size: 115
5145629 GAAGGATTAA
* * * * *
5145639 TTTATTTAACAGATGCCACTGCCAGTTAAAGATGAATATGAAACAAAGTTCAATTAGCTAAAGGA
1 TTTACTTAACAGATGCCACTGCCAGCTAAAGATGAACATGAAACAAAGTTCAATAAGCTAAAAGA
* *
5145704 TTGGCATAGTTGAGATTCTCTATGCCATCTAACACTTCCATTCAGGATAT
66 TTGGCACACTTGAGATTCTCTATGCCATCTAACACTTCCATTCAGGATAT
* *
5145754 TTTACTTAACAGATGCTACTGCCAGCTAAAGATGAACATGAAACAAAGTTCGATAAGCTAAAAGA
1 TTTACTTAACAGATGCCACTGCCAGCTAAAGATGAACATGAAACAAAGTTCAATAAGCTAAAAGA
* *
5145819 TTTGCACACTTGAGATTCTCTATGCCATTTAACACTTCCATTCAGGATAT
66 TTGGCACACTTGAGATTCTCTATGCCATCTAACACTTCCATTCAGGATAT
5145869 TTTAC
1 TTTAC
5145874 ATTTCTCAGT
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 109 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (115 bp):
TTTACTTAACAGATGCCACTGCCAGCTAAAGATGAACATGAAACAAAGTTCAATAAGCTAAAAGA
TTGGCACACTTGAGATTCTCTATGCCATCTAACACTTCCATTCAGGATAT
Found at i:5151156 original size:22 final size:22
Alignment explanation
Indices: 5151131--5151174 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5151121 TGTATATTTA
* * *
5151131 TATTTTTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
5151153 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
5151175 GATAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:5154254 original size:18 final size:17
Alignment explanation
Indices: 5154222--5154285 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 17
5154212 TTCTAAAATA
*
5154222 AAAAATCTTATAAATGAT
1 AAAAAT-TTAAAAATGAT
* *
5154240 AAAACTATTAAAAATTAT
1 AAAAAT-TTAAAAATGAT
5154258 AAAAATTTAAAAAT-A-
1 AAAAATTTAAAAATGAT
*
5154273 ACAAATTTAAAAA
1 AAAAATTTAAAAA
5154286 GGTGAATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
15 12 0.30
16 1 0.03
17 8 0.20
18 19 0.47
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAATTTAAAAATGAT
Found at i:5154269 original size:16 final size:15
Alignment explanation
Indices: 5154210--5154284 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 15
5154200 TCATGACATT
5154210 AATTCTAAAATA-AAA
1 AATT-TAAAATATAAA
5154225 AATCTTATAAATGATAAA
1 AAT-TTA-AAAT-ATAAA
*
5154243 ACTATTAAAAATTATAAA
1 A--ATTTAAAA-TATAAA
5154261 AATTTAAAA-ATAACA
1 AATTTAAAATATAA-A
5154276 AATTTAAAA
1 AATTTAAAA
5154285 AGGTGAATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
14 4 0.08
15 15 0.30
16 12 0.24
17 1 0.02
18 13 0.26
19 3 0.06
20 2 0.04
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (15 bp):
AATTTAAAATATAAA
Found at i:5155257 original size:34 final size:35
Alignment explanation
Indices: 5155219--5155309 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 35
5155209 AATATAATTC
**
5155219 TCAAAAATTTATTTTCAAAAAT-TATGTTATATTT
1 TCAAAAATTTATTTTCAAAAATGTACATTATATTT
* *
5155253 TCAAAAATTCAGTTTTC-AATATGTACATTATATTT
1 TCAAAAATTTA-TTTTCAAAAATGTACATTATATTT
*
5155288 TCGAAAATTTATTTTCAAAAAT
1 TCAAAAATTTATTTTCAAAAAT
5155310 ACATAAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
34 19 0.40
35 28 0.60
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (35 bp):
TCAAAAATTTATTTTCAAAAATGTACATTATATTT
Found at i:5155389 original size:21 final size:21
Alignment explanation
Indices: 5155365--5155404 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5155355 AATATTTAAT
5155365 TTTAATTAAAAAATAAATATA
1 TTTAATTAAAAAATAAATATA
**
5155386 TTTAATTTTAAAATAAATA
1 TTTAATTAAAAAATAAATA
5155405 ATACAAATAT
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:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAATTAAAAAATAAATATA
Found at i:5155543 original size:48 final size:48
Alignment explanation
Indices: 5155490--5155594 Score: 201
Period size: 48 Copynumber: 2.2 Consensus size: 48
5155480 CTTACTTAAT
5155490 CAAATGTGTGAATAGAAAAAATATGTTAATTTTCAAGCATGCATGGCA
1 CAAATGTGTGAATAGAAAAAATATGTTAATTTTCAAGCATGCATGGCA
5155538 CAAATGTGTGAATAGAAAAAATATGTTAATTTTCAAGCATGCATGGCA
1 CAAATGTGTGAATAGAAAAAATATGTTAATTTTCAAGCATGCATGGCA
*
5155586 TAAATGTGT
1 CAAATGTGT
5155595 TATTGTCTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (48 bp):
CAAATGTGTGAATAGAAAAAATATGTTAATTTTCAAGCATGCATGGCA
Found at i:5156401 original size:22 final size:22
Alignment explanation
Indices: 5156373--5156418 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
5156363 TAATATTTAC
5156373 TATCTTTCTCTCATT-CTTAAAT
1 TATCTTTCTCT-ATTACTTAAAT
*
5156395 TATCTTTCTCTTTTACTTAAAT
1 TATCTTTCTCTATTACTTAAAT
5156417 TA
1 TA
5156419 CAGTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.57
Consensus pattern (22 bp):
TATCTTTCTCTATTACTTAAAT
Found at i:5162120 original size:12 final size:12
Alignment explanation
Indices: 5162103--5162129 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5162093 CCCCTACAAA
5162103 GCATAAGAAATT
1 GCATAAGAAATT
5162115 GCATAAGAAATT
1 GCATAAGAAATT
5162127 GCA
1 GCA
5162130 GTCACATTTC
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:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (12 bp):
GCATAAGAAATT
Found at i:5166487 original size:1 final size:1
Alignment explanation
Indices: 5166481--5166511 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
5166471 ATAAGAGCAG
5166481 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5166512 CATGGATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5166925 original size:19 final size:18
Alignment explanation
Indices: 5166888--5166930 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
5166878 TATAATCAAT
* *
5166888 ATAAATTAACTAAAATAA
1 ATAAATAAACAAAAATAA
5166906 ATAAATAAACAAATAATAA
1 ATAAATAAACAAA-AATAA
5166925 ATAAAT
1 ATAAAT
5166931 TTAACTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAATAAACAAAAATAA
Found at i:5167017 original size:28 final size:29
Alignment explanation
Indices: 5166975--5167029 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
5166965 ATTACTTTGA
5166975 AAAAAAATCATATAAATAAATATAAAAAT
1 AAAAAAATCATATAAATAAATATAAAAAT
* *
5167004 AAAAAAATTA-ATAATTAAATATAAAA
1 AAAAAAATCATATAAATAAATATAAAA
5167030 TTAATTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (29 bp):
AAAAAAATCATATAAATAAATATAAAAAT
Found at i:5167902 original size:2 final size:2
Alignment explanation
Indices: 5167895--5167921 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5167885 TAAAATCAAC
5167895 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 A
5167922 AAATTGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5173583 original size:21 final size:22
Alignment explanation
Indices: 5173537--5173583 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
5173527 GCATATGTGC
* * *
5173537 ACATTTTTTACTATTTTGATGT
1 ACATTTTTTACTATATAGATGA
5173559 ACATTTTTTACTATATAGA-GA
1 ACATTTTTTACTATATAGATGA
5173580 ACAT
1 ACAT
5173584 CGAAATAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (22 bp):
ACATTTTTTACTATATAGATGA
Found at i:5178933 original size:15 final size:15
Alignment explanation
Indices: 5178915--5178962 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
5178905 TTTAATTTTA
5178915 TTTATTTTTTTAATT
1 TTTATTTTTTTAATT
* **
5178930 TTTATTTATAAAATT
1 TTTATTTTTTTAATT
*
5178945 TTTA-ATTTTTAATT
1 TTTATTTTTTTAATT
5178959 TTTA
1 TTTA
5178963 ATTTAAATTT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTTTTTAATT
Found at i:5178979 original size:29 final size:28
Alignment explanation
Indices: 5178889--5178981 Score: 105
Period size: 29 Copynumber: 3.1 Consensus size: 28
5178879 TAAAAATTCC
*
5178889 ATTTTTAATTTTTAATTTTAATTTTATTTA
1 ATTTTTAATTTTTAA-TTTAAATTT-TTTA
* * *
5178919 TTTTTTTAATTTTTATTTATAAAATTTTTA
1 -ATTTTTAATTTTTAATT-TAAATTTTTTA
5178949 ATTTTTAATTTTTAATTTAAATTTTTATA
1 ATTTTTAATTTTTAATTTAAATTTTT-TA
5178978 ATTT
1 ATTT
5178982 ATTTTTTTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 8 0.15
29 21 0.40
30 6 0.11
31 18 0.34
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (28 bp):
ATTTTTAATTTTTAATTTAAATTTTTTA
Done.