Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 63 of 109
Found at i:20472297 original size:87 final size:88
Alignment explanation
Indices: 20472200--20472374 Score: 343
Period size: 87 Copynumber: 2.0 Consensus size: 88
20472190 TTTTTAGCCC
20472200 AAGCCTAATCCAACCCAACTTGAATATATTATGTTTTAAAAAATATTATATTAATTATATATGTT
1 AAGCCTAATCCAACCCAACTTGAATATATTATGTTTTAAAAAATATTATATTAATTATATATGTT
20472265 AAATAATAATTA-ATATATTTTA
66 AAATAATAATTATATATATTTTA
20472287 AAGCCTAATCCAACCCAACTTGAATATATTATGTTTTAAAAAATATTATATTAATTATATATGTT
1 AAGCCTAATCCAACCCAACTTGAATATATTATGTTTTAAAAAATATTATATTAATTATATATGTT
20472352 AAATAATAATTATATATATTTTA
66 AAATAATAATTATATATATTTTA
20472375 GCATTTTTTT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 77 0.89
88 10 0.11
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.42
Consensus pattern (88 bp):
AAGCCTAATCCAACCCAACTTGAATATATTATGTTTTAAAAAATATTATATTAATTATATATGTT
AAATAATAATTATATATATTTTA
Found at i:20479162 original size:13 final size:14
Alignment explanation
Indices: 20479144--20479174 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
20479134 TACCTATACA
20479144 TATTTTTAT-ACTT
1 TATTTTTATAACTT
20479157 TATTTTTATAACTT
1 TATTTTTATAACTT
20479171 TATT
1 TATT
20479175 ATATATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTTTTATAACTT
Found at i:20483389 original size:16 final size:16
Alignment explanation
Indices: 20483368--20483398 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20483358 ATCGAGTTGA
*
20483368 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
20483384 GAAAATTAATTAATT
1 GAAAATTAATTAATT
20483399 AATTTAAATT
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:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:20483409 original size:18 final size:19
Alignment explanation
Indices: 20483386--20483423 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
20483376 TTTAATTGGA
20483386 AAATTAATTAATTA-ATTT
1 AAATTAATTAATTATATTT
*
20483404 AAATTAATTTATTATATTT
1 AAATTAATTAATTATATTT
20483423 A
1 A
20483424 TTTTGGGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATTAATTAATTATATTT
Found at i:20484597 original size:5 final size:5
Alignment explanation
Indices: 20484587--20484620 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
20484577 TATTGGTAAC
20484587 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTA
20484621 TTAATGCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:20487079 original size:23 final size:24
Alignment explanation
Indices: 20487048--20487128 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 24
20487038 TTTCTCCCTA
*
20487048 TTTCTTTCTTTGTCTTCTCCTTCT
1 TTTCTTTCTTTATCTTCTCCTTCT
20487072 TTTC-TTCTGTTAT-TTCTCTTCTCTCT
1 TTTCTTTCT-TTATCTTCTC--CT-TCT
* *
20487098 ATTTCTTTCTTTCTCTTTTCCTTCT
1 -TTTCTTTCTTTATCTTCTCCTTCT
20487123 TTTCTT
1 TTTCTT
20487129 CTGTTATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
23 9 0.19
24 13 0.28
25 5 0.11
26 5 0.11
27 7 0.15
28 8 0.17
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTCTTTCTTTATCTTCTCCTTCT
Found at i:20487109 original size:51 final size:51
Alignment explanation
Indices: 20487039--20487137 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
20487029 AAACATTTTT
*
20487039 TTCTCCCTATTTCTTTCTTTGTCTTCTCCTTCTTTTCTTCTGTTATTTCTC
1 TTCTCCCTATTTCTTTCTTTCTCTTCTCCTTCTTTTCTTCTGTTATTTCTC
* *
20487090 TTCTCTCTATTTCTTTCTTTCTCTTTTCCTTCTTTTCTTCTGTTATTT
1 TTCTCCCTATTTCTTTCTTTCTCTTCTCCTTCTTTTCTTCTGTTATTT
20487138 TTTTTCTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.04, C:0.27, G:0.03, T:0.66
Consensus pattern (51 bp):
TTCTCCCTATTTCTTTCTTTCTCTTCTCCTTCTTTTCTTCTGTTATTTCTC
Found at i:20492926 original size:1 final size:1
Alignment explanation
Indices: 20492920--20492988 Score: 75
Period size: 1 Copynumber: 69.0 Consensus size: 1
20492910 GGGACTATCC
* * * *** *
20492920 AAAAAAAAAAAAAAAAAAAAAGAAACAACAAAGTTAAAAAAATAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20492985 AAAA
1 AAAA
20492989 CAGAAGCAAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.90, C:0.03, G:0.03, T:0.04
Consensus pattern (1 bp):
A
Found at i:20495339 original size:30 final size:29
Alignment explanation
Indices: 20495306--20495361 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
20495296 AAAATCCCAT
20495306 TTTTTAAAAAAATTACCGAAATGGGCCGG
1 TTTTTAAAAAAATTACCGAAATGGGCCGG
** * *
20495335 TTTTTAAATTATTTACCGGAATGGGCC
1 TTTTTAAAAAAATTACCGAAATGGGCC
20495362 ATTTTCCGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (29 bp):
TTTTTAAAAAAATTACCGAAATGGGCCGG
Found at i:20495800 original size:124 final size:124
Alignment explanation
Indices: 20495610--20495864 Score: 395
Period size: 124 Copynumber: 2.1 Consensus size: 124
20495600 AAATAGTGGG
** * * *
20495610 AAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
*
20495675 TCGCTAC-AGTGGTCATGTAAGAAATAAATTTTTTTGACGTTTTCTTAGCAAATAGTATA
66 TCGCTACAAGTGGTCATGTAAGAAATAAATTTTTTTGACG-TTTCTGAGCAAATAGTATA
20495734 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
* * * * *
20495799 TCGCTACAATTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTGTC
66 TCGCTACAAGTGGTCATGTAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATA
20495858 AAATCGC
1 AAATCGC
20495865 GCCCTCGTGG
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
124 90 0.76
125 29 0.24
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (124 bp):
AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
TCGCTACAAGTGGTCATGTAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:20498037 original size:14 final size:15
Alignment explanation
Indices: 20498020--20498053 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20498010 AATAAATATC
20498020 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
20498034 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
20498049 TAAAA
1 TAAAA
20498054 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:20498280 original size:22 final size:22
Alignment explanation
Indices: 20498250--20498291 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20498240 ATTTGGAGAT
*
20498250 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
20498272 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
20498292 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:20498312 original size:52 final size:51
Alignment explanation
Indices: 20498241--20498384 Score: 135
Period size: 52 Copynumber: 2.9 Consensus size: 51
20498231 TTAATATGGA
* * *
20498241 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
20498292 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGA-
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
* * *
20498343 ----GA-AATTTTGAAAGG-AATTGAGAGAAATTTTGAAAGAAATTGA
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGA
20498385 TATTGAATTT
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
44 25 0.30
45 11 0.13
46 2 0.02
51 4 0.05
52 31 0.38
53 9 0.11
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:20498318 original size:22 final size:22
Alignment explanation
Indices: 20498293--20498384 Score: 125
Period size: 22 Copynumber: 4.2 Consensus size: 22
20498283 ATTTGAGAGT
20498293 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTT-GAAGGAAA
* *
20498315 TTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAGGAAA
20498337 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTG-AAGGAAA
*
20498359 TTGAGAGAAATTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAGGAAA
20498381 TTGA
1 TTGA
20498385 TATTGAATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
21 3 0.05
22 50 0.79
23 10 0.16
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.29
Consensus pattern (22 bp):
TTGAGAGAAATTTTGAAGGAAA
Found at i:20498352 original size:12 final size:12
Alignment explanation
Indices: 20498315--20498382 Score: 54
Period size: 12 Copynumber: 6.0 Consensus size: 12
20498305 TGGAAGGAAA
*
20498315 TTGATAGAAATT
1 TTGAAAGAAATT
* *
20498327 TTGAAGGGAA--
1 TTGAAAGAAATT
*
20498337 TTGAGAGAAATT
1 TTGAAAGAAATT
*
20498349 TTGAAAGGAA--
1 TTGAAAGAAATT
*
20498359 TTGAGAGAAATT
1 TTGAAAGAAATT
20498371 TTGAAAGAAATT
1 TTGAAAGAAATT
20498383 GATATTGAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
10 15 0.37
12 26 0.63
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (12 bp):
TTGAAAGAAATT
Found at i:20499113 original size:83 final size:83
Alignment explanation
Indices: 20498961--20499113 Score: 209
Period size: 83 Copynumber: 1.8 Consensus size: 83
20498951 ACAATTTTAC
* * * *** ** *
20498961 TATATATTAATTTATAATTTCTTTATTTATAAGAGGATTGAATTGAAAATGTTTTATTTGCGGGG
1 TATATATTAATTTATAATTTCTCTATTTATAAGAGGACTAAATTGAAAAAAATCAATTTGCGGGA
20499026 GCCAAAGTACAAATTCAT
66 GCCAAAGTACAAATTCAT
20499044 TATATATTAATTTATAATTTCTCTATTTATAAGAGGACTAAATTGAAAAAAATCAATTTTG-GGG
1 TATATATTAATTTATAATTTCTCTATTTATAAGAGGACTAAATTGAAAAAAATCAA-TTTGCGGG
20499108 AGCCAA
65 AGCCAA
20499114 GACCTCTGCC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
83 56 0.93
84 4 0.07
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (83 bp):
TATATATTAATTTATAATTTCTCTATTTATAAGAGGACTAAATTGAAAAAAATCAATTTGCGGGA
GCCAAAGTACAAATTCAT
Found at i:20509518 original size:30 final size:31
Alignment explanation
Indices: 20509468--20509525 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
20509458 TATTTTTTAA
*
20509468 AAATATATTTTTATATAATTTTTAATTTGTT
1 AAATATATTTTTATAAAATTTTTAATTTGTT
*
20509499 AAATA-ATTTTTTTAAAATTTTTAATTT
1 AAATATATTTTTATAAAATTTTTAATTT
20509526 AAAAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (31 bp):
AAATATATTTTTATAAAATTTTTAATTTGTT
Found at i:20510803 original size:22 final size:22
Alignment explanation
Indices: 20510775--20510816 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20510765 TATATTTTAT
20510775 TTTATATATAAATATTTGTTTG
1 TTTATATATAAATATTTGTTTG
* *
20510797 TTTATATTTATATATTTGTT
1 TTTATATATAAATATTTGTT
20510817 CGCTAACGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTATATATAAATATTTGTTTG
Found at i:20511453 original size:86 final size:86
Alignment explanation
Indices: 20510924--20511576 Score: 907
Period size: 87 Copynumber: 7.5 Consensus size: 86
20510914 TGTTTCGAGA
* * ** *
20510924 TTTATTCCATTTTTTATTTTGTTTCCAAACGAGTATTAAAATTAAATAAAATCTGTTTTAGTATT
1 TTTATTCCATTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATCAGTTTCGGGATT
* *
20510989 TATTCCTGTCGTTCAACAGAT
66 TATTCCCGCCGTTCAACAGAT
* *
20511010 TTTATTTCATTTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAATATAATCAGTTTCGGGAT
1 TTTATTCCA-TTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATCAGTTTCGGGAT
20511075 TTATTCCCGCCGTTCAACAGAT
65 TTATTCCCGCCGTTCAACAGAT
*
20511097 TTTATTCCATTTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATCAGTTTCGGAAT
1 TTTATTCCA-TTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATCAGTTTCGGGAT
*
20511162 TTATTCCCGCCGTTCAAAAGAT
65 TTATTCCCGCCGTTCAACAGAT
* * *
20511184 TCTATTCTATTTTTTTATTTTATTTCCAAATGAGTATTAAAATTAAATAAAATCAGTTTCGGGAT
1 TTTATTCCA-TTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATCAGTTTCGGGAT
*
20511249 TTATTCCCGCCGTTCAAAAGAT
65 TTATTCCCGCCGTTCAACAGAT
* * * *
20511271 TTTATTCTATTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAAAAAAAAATCAGTTTTGAGA
1 TTTATTCCATTTTTTATTTTATTTCCAAACGAGTATTAAAATT--AAATAAAATCAGTTTCGGGA
*
20511336 TTTATTCCCGCCGTTCAATAGAT
64 TTTATTCCCGCCGTTCAACAGAT
* * *
20511359 TTTATTCCATTTTTTATTTTGTTTCTAAACGAGTATTAAAATTAAATAAAATTTA-TTTCGGGAT
1 TTTATTCCATTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAA-TCAGTTTCGGGAT
*** **
20511423 TTATTGTTGCCGTTTTACAGAT
65 TTATTCCCGCCGTTCAACAGAT
* *
20511445 TTTATTCCATTTTTTATTTTGTTTCCAAACGAGTATTAAAATTAAATAAAATTTA-TTTCGGGAT
1 TTTATTCCATTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAA-TCAGTTTCGGGAT
* * * *
20511509 TTATTTCCGTCATTCAACAAAT
65 TTATTCCCGCCGTTCAACAGAT
*
20511531 TTTATTCCATTTTTTATTTTATTTCCAAACAAGTATTAAAA-TAAAT
1 TTTATTCCATTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAAT
20511577 TTGGTCGTTC
Statistics
Matches: 516, Mismatches: 47, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
85 5 0.01
86 187 0.36
87 245 0.47
88 79 0.15
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (86 bp):
TTTATTCCATTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATCAGTTTCGGGATT
TATTCCCGCCGTTCAACAGAT
Found at i:20511794 original size:23 final size:24
Alignment explanation
Indices: 20511758--20511803 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
20511748 GTTAGCGAAT
20511758 AAATATATAAATAT-AAATAAAAA
1 AAATATATAAATATAAAATAAAAA
* *
20511781 AAATATTTATATATAAAATAAAA
1 AAATATATAAATATAAAATAAAA
20511804 TATAAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATATATAAATATAAAATAAAAA
Found at i:20511796 original size:19 final size:20
Alignment explanation
Indices: 20511769--20511806 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20511759 AATATATAAA
20511769 TATAAATAAAA-AAAATATT
1 TATAAATAAAATAAAATATT
*
20511788 TATATATAAAATAAAATAT
1 TATAAATAAAATAAAATAT
20511807 AAATTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TATAAATAAAATAAAATATT
Found at i:20513554 original size:11 final size:10
Alignment explanation
Indices: 20513513--20513568 Score: 76
Period size: 11 Copynumber: 5.2 Consensus size: 10
20513503 ACTTAATCAT
20513513 TTCTCTCAAA
1 TTCTCTCAAA
20513523 TTCTCTCTAATA
1 TTCTCTC-AA-A
20513535 TTCTCTCAAA
1 TTCTCTCAAA
20513545 TTCTTCTCAAA
1 TTC-TCTCAAA
20513556 TTCCTCTCAAA
1 TT-CTCTCAAA
20513567 TT
1 TT
20513569 ATTTTTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
10 11 0.26
11 22 0.52
12 9 0.21
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.45
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:20513620 original size:30 final size:29
Alignment explanation
Indices: 20513565--20513621 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
20513555 ATTCCTCTCA
20513565 AATTATTTTTAAAAAAGCTTTAATTTTTT
1 AATTATTTTTAAAAAAGCTTTAATTTTTT
* *
20513594 AATTATTTTTAAAAAAGTTTTAAATTTT
1 AATTATTTTTAAAAAAGCTTTAATTTTT
20513622 ATTTTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (29 bp):
AATTATTTTTAAAAAAGCTTTAATTTTTT
Found at i:20513621 original size:28 final size:29
Alignment explanation
Indices: 20513565--20513629 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
20513555 ATTCCTCTCA
*
20513565 AATTATTTTTAAAAAAGCTTTAATTTTTT
1 AATTATTTTTAAAAAAGCTTTAATATTTT
*
20513594 AATTATTTTTAAAAAAGTTTTAA-ATTTT
1 AATTATTTTTAAAAAAGCTTTAATATTTT
20513622 -ATT-TTTTT
1 AATTATTTTT
20513630 GAAATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.15
27 3 0.09
28 4 0.12
29 22 0.65
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (29 bp):
AATTATTTTTAAAAAAGCTTTAATATTTT
Found at i:20514755 original size:7 final size:7
Alignment explanation
Indices: 20514743--20514774 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
20514733 TAGTCGATTG
20514743 GTATTTA
1 GTATTTA
20514750 GTATTTA
1 GTATTTA
20514757 GTATTTA
1 GTATTTA
20514764 GTATTTA
1 GTATTTA
20514771 GTAT
1 GTAT
20514775 ATATAACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTTA
Found at i:20515890 original size:34 final size:35
Alignment explanation
Indices: 20515852--20515938 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
20515842 CCAATTTTTG
*
20515852 ATATTATTTAATATAATAAAATATAAA-TT-CTTCT
1 ATATT-TTTAATATAATAAAATAGAAATTTACTTCT
* * *
20515886 ATATTTTTTCATGTAATAAAATAGAAATTTACTTTT
1 ATA-TTTTTAATATAATAAAATAGAAATTTACTTCT
*
20515922 ACATTTTTAATATAATA
1 ATATTTTTAATATAATA
20515939 GATTTTCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
34 21 0.49
35 16 0.37
36 6 0.14
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (35 bp):
ATATTTTTAATATAATAAAATAGAAATTTACTTCT
Found at i:20516095 original size:61 final size:61
Alignment explanation
Indices: 20515978--20516098 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
20515968 AATAGATTAG
* * * *
20515978 ATTTTCTATGTAGCAATTGTAATTTACTTTTACATTTTTAGTATAATAGAAATTCTTTTAC
1 ATTTTCTATGTACCAATTGTAATTTACTTTAACATTTTTAATAGAATAGAAATTCTTTTAC
* * **
20516039 ATTTTCTATGTACCAATTGTAATTTACTTTAATATTTTTAATAGATTAGATTTTCTTTTA
1 ATTTTCTATGTACCAATTGTAATTTACTTTAACATTTTTAATAGAATAGAAATTCTTTTA
20516099 AATAAGTCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (61 bp):
ATTTTCTATGTACCAATTGTAATTTACTTTAACATTTTTAATAGAATAGAAATTCTTTTAC
Found at i:20519030 original size:110 final size:110
Alignment explanation
Indices: 20518837--20519050 Score: 392
Period size: 110 Copynumber: 1.9 Consensus size: 110
20518827 GTAGCAAAAA
* *
20518837 CGCGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCCTGCTTAAAGCGTTTTTG
1 CGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTAACAAAGCATCCTGCTTAAAGCGTTTTTG
20518902 ACACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTTTTCAAGG
66 ACACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTTTTCAAGG
* *
20518947 CGCGTCCACGTGGGAGCTTCTTTGAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTG
1 CGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTAACAAAGCATCCTGCTTAAAGCGTTTTTG
20519012 ACACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTTT
66 ACACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTTT
20519051 CCAGGAGCTA
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 100 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (110 bp):
CGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTAACAAAGCATCCTGCTTAAAGCGTTTTTG
ACACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTTTTCAAGG
Found at i:20519172 original size:125 final size:126
Alignment explanation
Indices: 20518946--20519220 Score: 462
Period size: 125 Copynumber: 2.2 Consensus size: 126
20518936 TTTTTTCAAG
*
20518946 GCGCGTCCACGTGGGAGCTTCTTTGAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTT
1 GCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTT
*
20519011 GACACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTTTCCAGGAGCTA-TATAGCAAAA
66 GACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAGCTACTATAGCAAAA
*
20519071 GCGCGTCCACGTGGGCGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTT
1 GCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTT
* * * *
20519136 GACACTATTTGCTCAGAAACGTCAATTCGAATTTATTTTTTCAGGAGCTACTGTAGCAAAA
66 GACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAGCTACTATAGCAAAA
* *
20519197 ACGCGTCCACGTAGGAGCTTCTTT
1 GCGCGTCCACGTGGGAGCTTCTTT
20519221 AAATTAACAA
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
125 109 0.78
126 30 0.22
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (126 bp):
GCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTT
GACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAGCTACTATAGCAAAA
Found at i:20521069 original size:28 final size:28
Alignment explanation
Indices: 20521003--20521070 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
20520993 AATAAACACA
20521003 AAAAAAATATTTTAAAAATAAAAATATT
1 AAAAAAATATTTTAAAAATAAAAATATT
*** * *
20521031 TTTAAAGTATTTTAAAATTAAAAA-ATT
1 AAAAAAATATTTTAAAAATAAAAATATT
20521058 AAAAAATATATTT
1 AAAAAA-ATATTT
20521071 ATTATATTCG
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (28 bp):
AAAAAAATATTTTAAAAATAAAAATATT
Found at i:20526939 original size:21 final size:21
Alignment explanation
Indices: 20526892--20526933 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20526882 GCCCTTATAG
*
20526892 AATACTAGTCAACGACCTAAC
1 AATACTAGTCAACCACCTAAC
*
20526913 AATACTAGTCAACCCCCTAAC
1 AATACTAGTCAACCACCTAAC
20526934 TTTACTTGCG
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:0.40, C:0.33, G:0.07, T:0.19
Consensus pattern (21 bp):
AATACTAGTCAACCACCTAAC
Found at i:20527259 original size:18 final size:17
Alignment explanation
Indices: 20527227--20527274 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
20527217 TGAGGCATTG
20527227 AAATT-AAAAAT-ATAT
1 AAATTCAAAAATAATAT
20527242 AAATTCAAAAAATAATAT
1 AAATTC-AAAAATAATAT
*
20527260 ATATTCAAAAATAAT
1 AAATTCAAAAATAAT
20527275 TTACAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 5 0.17
17 15 0.52
18 9 0.31
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATTCAAAAATAATAT
Found at i:20530717 original size:50 final size:50
Alignment explanation
Indices: 20530631--20530727 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
20530621 TGCCTGTCGA
* *
20530631 ATCATGGCTAATTGTGTTAATAATTAAGGATCATTTTAGTAAGAGATTCG
1 ATCATAGCTAATTGTGTTAATAATTAAGGATCATTTTAGAAAGAGATTCG
* *** *
20530681 ATCATAGCTTATTGTGTTAATAATTCTTGATTATTTTAGAAAGAGAT
1 ATCATAGCTAATTGTGTTAATAATTAAGGATCATTTTAGAAAGAGAT
20530728 GTTTCTTCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (50 bp):
ATCATAGCTAATTGTGTTAATAATTAAGGATCATTTTAGAAAGAGATTCG
Found at i:20531383 original size:15 final size:16
Alignment explanation
Indices: 20531363--20531397 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
20531353 ATAAAGTTTT
20531363 CTATGGTACTT-TTAC
1 CTATGGTACTTCTTAC
*
20531378 CTATGGTGCTTCTTAC
1 CTATGGTACTTCTTAC
20531394 CTAT
1 CTAT
20531398 ATTTCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (16 bp):
CTATGGTACTTCTTAC
Found at i:20534353 original size:25 final size:25
Alignment explanation
Indices: 20534250--20534361 Score: 111
Period size: 25 Copynumber: 4.5 Consensus size: 25
20534240 ATACATGTAC
20534250 GCTCATACGAGCT--ATAAACGGTAA
1 GCTCATACGAGCTGAAT-AACGGTAA
* * *
20534274 GCTCCTCCGAGCTGAATAACGGTCA
1 GCTCATACGAGCTGAATAACGGTAA
* * * *
20534299 GTTCCTTCGAGCTGAATAACGATAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
20534324 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
20534349 GCTCATAAGAGCT
1 GCTCATACGAGCT
20534362 TAAATCGGTA
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
24 11 0.15
25 59 0.82
26 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:20539031 original size:2 final size:2
Alignment explanation
Indices: 20539026--20539053 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
20539016 ACACACACAC
20539026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20539054 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20540483 original size:15 final size:14
Alignment explanation
Indices: 20540437--20540485 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
20540427 GAAGAGAATG
*
20540437 AAAAATAAAAAGAA
1 AAAAACAAAAAGAA
* *
20540451 AAAAACAGAAAGTTA
1 AAAAACAAAAAG-AA
20540466 AAAAACATAAAAGAA
1 AAAAACA-AAAAGAA
20540481 AAAAA
1 AAAAA
20540486 TAAATTGCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 10 0.36
15 14 0.50
16 4 0.14
ACGTcount: A:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (14 bp):
AAAAACAAAAAGAA
Found at i:20541054 original size:17 final size:16
Alignment explanation
Indices: 20541020--20541050 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20541010 TTAATTAATT
*
20541020 TTTTTTCAAATATTTA
1 TTTTTTAAAATATTTA
20541036 TTTTTTAAAATATTT
1 TTTTTTAAAATATTT
20541051 TATTATATTT
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:20541070 original size:23 final size:21
Alignment explanation
Indices: 20541030--20541073 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
20541020 TTTTTTCAAA
20541030 TATTTATTTTTTAAAATATTT
1 TATTTATTTTTTAAAATATTT
*
20541051 TATTATATTTTTATACAATATTT
1 TATT-TATTTTT-TAAAATATTT
20541074 ATCAATCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTATTTTTTAAAATATTT
Found at i:20546584 original size:24 final size:24
Alignment explanation
Indices: 20546515--20546597 Score: 125
Period size: 23 Copynumber: 3.5 Consensus size: 24
20546505 CTACCCTGTT
*
20546515 TTGGATAGC-TTTTATACATCAAA
1 TTGGACAGCATTTTATACATCAAA
*
20546538 TTGGACAGCA-TTTATACACCAAA
1 TTGGACAGCATTTTATACATCAAA
*
20546561 CTGGACAGCATTTTATACATCAAA
1 TTGGACAGCATTTTATACATCAAA
20546585 TTGGACAGCATTT
1 TTGGACAGCATTT
20546598 ATCATGTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
23 29 0.55
24 24 0.45
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (24 bp):
TTGGACAGCATTTTATACATCAAA
Found at i:20547478 original size:40 final size:40
Alignment explanation
Indices: 20547348--20547482 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 40
20547338 ATTATAATCC
* * * **
20547348 CGCACATTAAGTGCCTTACATAGCCGAAGCTATCTCAGTTT
1 CGCACACTAAGTGCCATAAATAGCCGAAGCTATCTC-GAAT
* * *
20547389 CGCACACTAAGTGTCATATATAGCCGAAGCTAT-TCCCAAT
1 CGCACACTAAGTGCCATAAATAGCCGAAGCTATCT-CGAAT
*
20547429 CGCACACTAAGTGCCATAAATAGTCGAAGCTATCTCGAAT
1 CGCACACTAAGTGCCATAAATAGCCGAAGCTATCTCGAAT
* *
20547469 CACATACTAAGTGC
1 CGCACACTAAGTGC
20547483 TAAACATAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
40 48 0.61
41 31 0.39
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (40 bp):
CGCACACTAAGTGCCATAAATAGCCGAAGCTATCTCGAAT
Found at i:20578609 original size:2 final size:2
Alignment explanation
Indices: 20578602--20578633 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20578592 ACCTTCTTCT
20578602 TC TC TC TC 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 TC
20578634 ATGCAACATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:20589955 original size:438 final size:438
Alignment explanation
Indices: 20588971--20590722 Score: 2619
Period size: 438 Copynumber: 4.0 Consensus size: 438
20588961 GACCTTGATG
* * * * * * * *
20588971 CAACGTATGCACCAGAGTTTCCTGAGTACTTATATATAATGCATGCTTATCGTTCGACAGAAGAT
1 CAACGCATGTACCAGAGTTCCCTGAGTACCTAGATATAATGCGTGCTCACCGTTCGACAGAAGAT
* *
20589036 ACATATTTTGATGAGTTGTTCATAGGGCAACAGTTCACGAACAAGGAGGATTGTGTTATTGCAAT
66 ACAAATTTTGATGAGTTGTTCATAGGGCAACAGTTCGCGAACAAGGAGGATTGTGTTATTGCAAT
* * * *
20589101 AAAAATGTATAGCATGTAGGCGTCTGTAGACTACAAAGTCACCAAGTCAACATCGACATTATACG
131 AAAAAGGTATAGCATGTAGGTGTCTGTGGACTACAAAGTCACCAACTCAACATCGACATTATACG
* * *
20589166 TTGGGGAGTGTTTGAGAGCTTAAGAATGGTGTAAATGGTGGGTTCGTGCTGCACTTATACAAAGG
196 TTAGGGAATGTTGGAGAGCTTAAGAATGGTGTAAATGGTGGGTTCGTGCTGCACTTATACAAAGG
* * *
20589231 ACTCAAATATAGACAATCAGCAAATTGGAAGGGCCCCATACATACACTGCAGAACGTATGACGTA
261 ACTCAAATGTGGACAATCAGCAAATTGGAAAGGCCCCATACATACACTGCAGAACGTATGACGTA
* * *
20589296 AGATCATAGGAAGCTAGATGC--AAATGATCTGCAACTATGGCCATTGGTGAAAGACACGTCAAC
326 AGATCATAGGAAGCTAGATGCAAAAATGATCTGCAATTGTGGCCATTGGTGAAAGACACGCCAAC
** * *
20589359 CATTCGTGTCTCAGTATTGATCGCCGACATGCAAGCCCGGTTTCAGTA
391 CATTATTGTCTCAGTATTGATTGCCGACATGCAAGCCCGGTTCCAGTA
* * **
20589407 CAATGCATGCACCAGAGTTCTTTGAGTACCTAGATATAATGCGTGCTCACCGTTCGACAGAAGAT
1 CAACGCATGTACCAGAGTTCCCTGAGTACCTAGATATAATGCGTGCTCACCGTTCGACAGAAGAT
* *
20589472 ACAAATTTTGATGAGTTGTTCATAGGGCAACAATTCGCGAACAAGGAGAATTGTGTTATTGCAAT
66 ACAAATTTTGATGAGTTGTTCATAGGGCAACAGTTCGCGAACAAGGAGGATTGTGTTATTGCAAT
* * *
20589537 AAAAAGGTATAGCATGTAGGTGTCTGTGGATTACAAATTCACTAACTCAACA-CTGACATTATAC
131 AAAAAGGTATAGCATGTAGGTGTCTGTGGACTACAAAGTCACCAACTCAACATC-GACATTATAC
* *
20589601 GTTAGGGAATGTTAGAGAGCTTAAGAATGGTGTAAATGGTGGGTTCGTGCTGCGCTTATACAAAG
195 GTTAGGGAATGTTGGAGAGCTTAAGAATGGTGTAAATGGTGGGTTCGTGCTGCACTTATACAAAG
* * * * *
20589666 GACTTAAATGTGGACAATCAGCAAATTGGAAGGGCCCCATACATACACTACAGAACTTATGACAT
260 GACTCAAATGTGGACAATCAGCAAATTGGAAAGGCCCCATACATACACTGCAGAACGTATGACGT
*
20589731 AAGATCATAGGAAGCTAGATGCAAAAATGATCTGCAATTGTGGCCATTGGTGAAAGACATGCCAA
325 AAGATCATAGGAAGCTAGATGCAAAAATGATCTGCAATTGTGGCCATTGGTGAAAGACACGCCAA
* *
20589796 CCATTCTTGTCTCAGTATTGATTGCCGATATGCAAGCCCGGTTCCAGTA
390 CCATTATTGTCTCAGTATTGATTGCCGACATGCAAGCCCGGTTCCAGTA
* * * *
20589845 CAACGCATGTACTAGAGTTCCCTGAGTACCTAGACATAATGCGTACTCACCGTTCGACGGAAGAT
1 CAACGCATGTACCAGAGTTCCCTGAGTACCTAGATATAATGCGTGCTCACCGTTCGACAGAAGAT
*
20589910 ACAAATTTTGATGAGTTGTTCATAGGGCAACAGTTCGTGAACAAGGAGGATTGTGTTATTGCAAT
66 ACAAATTTTGATGAGTTGTTCATAGGGCAACAGTTCGCGAACAAGGAGGATTGTGTTATTGCAAT
* * * * * *
20589975 AAAAAGGTATAGCATGTACGTGTCGGTGGATTACAAAGTCACCAACTTAGCACCGACATTATACG
131 AAAAAGGTATAGCATGTAGGTGTCTGTGGACTACAAAGTCACCAACTCAACATCGACATTATACG
*
20590040 TTAGGGAATGTTGGAGAGCTTAAGAATGGTGTAAATGGTGGGTTCGTGCTGCACTTATACAAATG
196 TTAGGGAATGTTGGAGAGCTTAAGAATGGTGTAAATGGTGGGTTCGTGCTGCACTTATACAAAGG
* * * * *
20590105 ACTTAAATGTGGACAATCAACAAATTGGAAAGGCCTCATACATACACTGCAGAATGTATAACGTA
261 ACTCAAATGTGGACAATCAGCAAATTGGAAAGGCCCCATACATACACTGCAGAACGTATGACGTA
* * *
20590170 AGATCATAGGAAGCTAGATGCAAAAATGATCTGTAATTGTGACCACTGGTGAAAGACACGCCAAC
326 AGATCATAGGAAGCTAGATGCAAAAATGATCTGCAATTGTGGCCATTGGTGAAAGACACGCCAAC
* *
20590235 CATTATTATCTCAGTATTGATTACCGACATGCAAGCCCGGTTCCAGTA
391 CATTATTGTCTCAGTATTGATTGCCGACATGCAAGCCCGGTTCCAGTA
* **
20590283 CAACGCATGTACCAGAGTTCCCTGAGTAGCTAGATATAATGCGTGCTCACCGTTCGATGGAAGAT
1 CAACGCATGTACCAGAGTTCCCTGAGTACCTAGATATAATGCGTGCTCACCGTTCGACAGAAGAT
*
20590348 ACAAATTTTGATGAGTTGTTCATAGGGCAACAGTTCGCGAACAAGGAGGATTTTGTTATTGCAAT
66 ACAAATTTTGATGAGTTGTTCATAGGGCAACAGTTCGCGAACAAGGAGGATTGTGTTATTGCAAT
* * * *
20590413 AAAAATGTATAGCATGTAGGTGTCTGTGGACTACAAAGCCACCAAGTCAACATCGACATTATACA
131 AAAAAGGTATAGCATGTAGGTGTCTGTGGACTACAAAGTCACCAACTCAACATCGACATTATACG
* * * * * *
20590478 TTGGGGAGTGTTGGAGAGCTTAAGAATGGTGTAAATGGTGGGTTAGTGTTGCACTTATGCAAATG
196 TTAGGGAATGTTGGAGAGCTTAAGAATGGTGTAAATGGTGGGTTCGTGCTGCACTTATACAAAGG
* * * *
20590543 ACTCAAATGTGGACATTCAGCAAATTGGAAAAGCCTCATACATACACTGCAGAACGTATGATGTA
261 ACTCAAATGTGGACAATCAGCAAATTGGAAAGGCCCCATACATACACTGCAGAACGTATGACGTA
* * * *
20590608 AGATCATAAGAAGCTAGATGCAAAAATGATCTGTAATTGTGGCCATTGGTAAAAGACATGCCAAC
326 AGATCATAGGAAGCTAGATGCAAAAATGATCTGCAATTGTGGCCATTGGTGAAAGACACGCCAAC
** ** *
20590673 CATTATTGTCTCAGTATTGATTGTTGACAAACAAGCCCGGTTCCAATA
391 CATTATTGTCTCAGTATTGATTGCCGACATGCAAGCCCGGTTCCAGTA
20590721 CA
1 CA
20590723 GGGTGTCATA
Statistics
Matches: 1196, Mismatches: 116, Indels: 6
0.91 0.09 0.00
Matches are distributed among these distances:
435 1 0.00
436 313 0.26
438 881 0.74
439 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (438 bp):
CAACGCATGTACCAGAGTTCCCTGAGTACCTAGATATAATGCGTGCTCACCGTTCGACAGAAGAT
ACAAATTTTGATGAGTTGTTCATAGGGCAACAGTTCGCGAACAAGGAGGATTGTGTTATTGCAAT
AAAAAGGTATAGCATGTAGGTGTCTGTGGACTACAAAGTCACCAACTCAACATCGACATTATACG
TTAGGGAATGTTGGAGAGCTTAAGAATGGTGTAAATGGTGGGTTCGTGCTGCACTTATACAAAGG
ACTCAAATGTGGACAATCAGCAAATTGGAAAGGCCCCATACATACACTGCAGAACGTATGACGTA
AGATCATAGGAAGCTAGATGCAAAAATGATCTGCAATTGTGGCCATTGGTGAAAGACACGCCAAC
CATTATTGTCTCAGTATTGATTGCCGACATGCAAGCCCGGTTCCAGTA
Found at i:20595283 original size:31 final size:31
Alignment explanation
Indices: 20595248--20595309 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
20595238 ATATTCCATG
20595248 TATTTACAACATATTTCACATCCTATTTTCA
1 TATTTACAACATATTTCACATCCTATTTTCA
* *
20595279 TATTTACAACATATTTCATATTCTATTTTCA
1 TATTTACAACATATTTCACATCCTATTTTCA
20595310 ATTCACTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.48
Consensus pattern (31 bp):
TATTTACAACATATTTCACATCCTATTTTCA
Found at i:20595462 original size:25 final size:25
Alignment explanation
Indices: 20595403--20595456 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
20595393 TTATTATGCA
*
20595403 CTAATGAA-CAGAGAGCACTGACGTG
1 CTAAT-AATCAGAGAGCACTGAAGTG
20595428 CTAATAATCAGAGAGCACTGAAGTG
1 CTAATAATCAGAGAGCACTGAAGTG
20595453 CTAA
1 CTAA
20595457 ATATCAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTGAAGTG
Found at i:20603037 original size:18 final size:18
Alignment explanation
Indices: 20603011--20603048 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
20603001 GCAATTGGGA
*
20603011 TTGATAATGAAGAGGAAG
1 TTGAGAATGAAGAGGAAG
20603029 TTGAGAATGAAGAGGAAG
1 TTGAGAATGAAGAGGAAG
20603047 TT
1 TT
20603049 AAAATCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.34, T:0.24
Consensus pattern (18 bp):
TTGAGAATGAAGAGGAAG
Found at i:20608317 original size:7 final size:7
Alignment explanation
Indices: 20608301--20608372 Score: 52
Period size: 7 Copynumber: 11.1 Consensus size: 7
20608291 GGTGCGGCCC
20608301 GAAG-AA
1 GAAGAAA
20608307 GAAGAAA
1 GAAGAAA
20608314 GAAGAAA
1 GAAGAAA
*
20608321 GAAAAAA
1 GAAGAAA
20608328 GAAG-AA
1 GAAGAAA
20608334 GAA-AAA
1 GAAGAAA
*
20608340 G-GGAGAA
1 GAAGA-AA
20608347 GAA-AAA
1 GAAGAAA
20608353 G-AGAAAA
1 GAAG-AAA
20608360 GAA-AAA
1 GAAGAAA
20608366 G-AGAAA
1 GAAGAAA
20608372 G
1 G
20608373 TAAAAGAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
5 2 0.04
6 24 0.45
7 26 0.49
8 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (7 bp):
GAAGAAA
Found at i:20608319 original size:13 final size:12
Alignment explanation
Indices: 20608301--20608380 Score: 72
Period size: 13 Copynumber: 6.2 Consensus size: 12
20608291 GGTGCGGCCC
20608301 GAAGAAGAAGAAA
1 GAAGAAGAA-AAA
20608314 GAAGAAAGAAAAAA
1 GAAG-AAG-AAAAA
20608328 GAAGAAGAAAAA
1 GAAGAAGAAAAA
*
20608340 GGGAGAAGAAAAA
1 -GAAGAAGAAAAA
*
20608353 GAGAAAAGAAAAA
1 GA-AGAAGAAAAA
*
20608366 G-AGAAAGTAAAA
1 GAAG-AAGAAAAA
20608378 GAA
1 GAA
20608381 AAAAATTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
11 1 0.02
12 14 0.25
13 29 0.52
14 10 0.18
15 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:20608377 original size:26 final size:25
Alignment explanation
Indices: 20608301--20608377 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 25
20608291 GGTGCGGCCC
20608301 GAAGAAGAAGAAAGAAGAAAGAAAAAA
1 GAAGAAGAA-AAAG-AGAAAGAAAAAA
*
20608328 GAAGAAGAAAAAGGGAGAAGAAAAAGA
1 GAAGAAGAAAAAGAGA-AAGAAAAA-A
*
20608355 GAA-AAGAAAAAGAGAAAGTAAAA
1 GAAGAAGAAAAAGAGAAAGAAAAA
20608378 GAAAAAAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 9 0.20
26 23 0.51
27 13 0.29
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.01
Consensus pattern (25 bp):
GAAGAAGAAAAAGAGAAAGAAAAAA
Found at i:20608665 original size:18 final size:18
Alignment explanation
Indices: 20608641--20608685 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
20608631 AAAAATCGTG
20608641 TTTCAAAAATTT-TCATA
1 TTTCAAAAATTTCTCATA
*
20608658 TCTTCAAAAATTTCTCGTA
1 T-TTCAAAAATTTCTCATA
20608677 TTTCAAAAA
1 TTTCAAAAA
20608686 ATCTTCACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 19 0.76
19 5 0.20
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (18 bp):
TTTCAAAAATTTCTCATA
Found at i:20608840 original size:44 final size:44
Alignment explanation
Indices: 20608760--20608847 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
20608750 GATGTTATCG
* * * * **
20608760 TGTTTTCAAAAAATTCCCGTGTTTGACAAATTTTCGTGTTTTCA
1 TGTTCTCAAAAAATTCCCATGTTTCAAAAAGCTTCGTGTTTTCA
*
20608804 TGTTCTCAAAAAATTCTCATGTTTCAAAAAGCTTCGTGTTTTCA
1 TGTTCTCAAAAAATTCCCATGTTTCAAAAAGCTTCGTGTTTTCA
20608848 AAAATCCTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.43
Consensus pattern (44 bp):
TGTTCTCAAAAAATTCCCATGTTTCAAAAAGCTTCGTGTTTTCA
Found at i:20608858 original size:35 final size:35
Alignment explanation
Indices: 20608812--20608885 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
20608802 CATGTTCTCA
*
20608812 AAAAATTCTCATGTTTCAAAAAGCTTCGTGTTTTC
1 AAAAATCCTCATGTTTCAAAAAGCTTCGTGTTTTC
* *
20608847 AAAAATCCTCATGTTTCCAAAATCTTCGTGTTTTC
1 AAAAATCCTCATGTTTCAAAAAGCTTCGTGTTTTC
20608882 AAAA
1 AAAA
20608886 TTCTAGTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (35 bp):
AAAAATCCTCATGTTTCAAAAAGCTTCGTGTTTTC
Found at i:20608933 original size:19 final size:18
Alignment explanation
Indices: 20608897--20609085 Score: 102
Period size: 17 Copynumber: 10.3 Consensus size: 18
20608887 TCTAGTGTAA
* * *
20608897 CAAAAATTTTCATATTTT
1 CAAAAATTTCCGTGTTTT
20608915 CAAAAATTTCCCGTGTTTT
1 CAAAAATTT-CCGTGTTTT
*
20608934 CAAACA-TTCTCGT-TTTT
1 CAAAAATTTC-CGTGTTTT
* * *
20608951 CGAAAATTTTCTTGTTTT
1 CAAAAATTTCCGTGTTTT
*
20608969 CAGAAAAAATTTCTGTGTTTT
1 C---AAAAATTTCCGTGTTTT
* * *
20608990 -ATATATTTTCGTGTTTT
1 CAAAAATTTCCGTGTTTT
* * *
20609007 CAAAAAAAAATCCCGT-CTTT
1 C---AAAAATTTCCGTGTTTT
*
20609027 CAAAAATTTTCGTGTTTT
1 CAAAAATTTCCGTGTTTT
*
20609045 CAAAAATTGACCGTG-TTT
1 CAAAAATT-TCCGTGTTTT
*
20609063 CATAAATTTCCGTG-TTT
1 CAAAAATTTCCGTGTTTT
20609080 CAAAAA
1 CAAAAA
20609086 AAAATCTTAT
Statistics
Matches: 127, Mismatches: 31, Indels: 27
0.69 0.17 0.15
Matches are distributed among these distances:
17 46 0.36
18 42 0.33
19 15 0.12
20 4 0.03
21 20 0.16
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (18 bp):
CAAAAATTTCCGTGTTTT
Found at i:20609052 original size:18 final size:18
Alignment explanation
Indices: 20608798--20609321 Score: 152
Period size: 18 Copynumber: 28.7 Consensus size: 18
20608788 AATTTTCGTG
* *
20608798 TTTTCATGTTCTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* *
20608817 TTCTCATG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
20608834 GCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
** * *
20608852 TCCTCATG-TTTCCAAAA
1 TTTTCGTGTTTTCAAAAA
*
20608869 TCTTCGTGTTTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
* * **
20608886 TTCTAGTG-TAACAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
20608903 TTTTCATATTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
20608921 TTTCCCGTGTTTTCAAACA
1 TTT-TCGTGTTTTCAAAAA
* *
20608940 TTCTCGT-TTTTCGAAAA
1 TTTTCGTGTTTTCAAAAA
*
20608957 TTTTCTTGTTTTCAGAAAAA
1 TTTTCGTGTTTTC--AAAAA
* * *
20608977 ATTTCTGTGTTTT-ATATA
1 TTTTC-GTGTTTTCAAAAA
20608995 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
*** **
20609014 AAATCCCGTCTTTCAAAAA
1 TTTTCGTGT-TTTCAAAAA
20609033 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
** *
20609051 TTGACCGTG-TTTCATAAA
1 TT-TTCGTGTTTTCAAAAA
*
20609069 TTTCCGTG-TTTCAAAAAAAAATCTTA
1 TTTTCGTGTTTTC-----AAAA----A
* **
20609095 TGTTTCGTAATTTATCAAATC
1 T-TTTCGT-GTTT-TCAAAAA
20609116 TTTT-GTGTTTTCAAAATAAAA
1 TTTTCGTGTTTTC---A-AAAA
20609137 TTTT-GTGTTTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
20609153 TTTTCGTG-TTTCAAAAAGAA
1 TTTTCGTGTTTTC--AAA-AA
** *
20609173 AATTCGTGTTTT---GAA
1 TTTTCGTGTTTTCAAAAA
*
20609188 --TCCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
20609204 TTTTCGTATTTTTAAGAA
1 TTTTCGTGTTTTCAAAAA
* *
20609222 TTTTCGTG-TCTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
20609239 TTCTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
20609256 TTTTTCGTGTTTTCAAAAA
1 -TTTTCGTGTTTTCAAAAA
** ***
20609275 AATAAATG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
20609292 TCTTCGTGTTTTTAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
20609310 TTCTCGTATTTT
1 TTTTCGTGTTTT
20609322 GATCTGATCG
Statistics
Matches: 365, Mismatches: 95, Indels: 91
0.66 0.17 0.17
Matches are distributed among these distances:
13 9 0.02
15 2 0.01
16 16 0.04
17 102 0.28
18 122 0.33
19 49 0.13
20 24 0.07
21 24 0.07
22 3 0.01
25 3 0.01
26 2 0.01
27 5 0.01
29 2 0.01
30 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:20609064 original size:36 final size:35
Alignment explanation
Indices: 20608912--20609085 Score: 118
Period size: 38 Copynumber: 4.8 Consensus size: 35
20608902 ATTTTCATAT
* * *
20608912 TTTCAAAAATTTCCCGTGTTTTCAAACATT-CTCGTT
1 TTTCAAAAATTT-TCGTGTTTTCAAAAATTAC-CGTG
* * * *
20608948 TTTCGAAAATTTTCTTGTTTTCAGAAAAAATTTCTGTG
1 TTTCAAAAATTTTCGTGTTTTC---AAAAATTACCGTG
* * * * * *
20608986 TTTTATATATTTTCGTGTTTTCAAAAAAAAATCCCGTC
1 TTTCAAAAATTTTCGTGTTTTC---AAAAATTACCGTG
20609024 TTTCAAAAATTTTCGTGTTTTCAAAAATTGACCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAATT-ACCGTG
* *
20609060 TTTCATAAATTTCCGTG-TTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAA
20609086 AAAATCTTAT
Statistics
Matches: 109, Mismatches: 24, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
35 23 0.21
36 30 0.28
38 55 0.50
39 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (35 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAATTACCGTG
Found at i:20609169 original size:17 final size:16
Alignment explanation
Indices: 20609133--20609168 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
20609123 TTTTCAAAAT
20609133 AAAATTTTGTGTTTTC
1 AAAATTTTGTGTTTTC
20609149 AAAATTTTCGTG-TTTC
1 AAAATTTT-GTGTTTTC
20609165 AAAA
1 AAAA
20609169 AGAAAATTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (16 bp):
AAAATTTTGTGTTTTC
Found at i:20614712 original size:8 final size:8
Alignment explanation
Indices: 20614700--20614747 Score: 78
Period size: 8 Copynumber: 5.9 Consensus size: 8
20614690 AAAAAGAGAA
20614700 AAAAACAAC
1 AAAAA-AAC
20614709 AAAAAAAC
1 AAAAAAAC
20614717 AAAAAAAC
1 AAAAAAAC
20614725 AAAAAAAC
1 AAAAAAAC
*
20614733 AAAAAAGC
1 AAAAAAAC
20614741 AAAAAAA
1 AAAAAAA
20614748 AAAGTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
8 32 0.86
9 5 0.14
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:20614759 original size:23 final size:23
Alignment explanation
Indices: 20614686--20614793 Score: 77
Period size: 23 Copynumber: 4.7 Consensus size: 23
20614676 ATATTATGCC
20614686 TAAAAAAAAGAGAAAAAAAC--A-
1 TAAAAAAAA-AGAAAAAAACAAAG
* *
20614707 -ACAAAAAAACAAAAAAACAAA-
1 TAAAAAAAAAGAAAAAAACAAAG
*
20614728 AAAACAAAAAAGCAAAAAAA-AAAG
1 TAAA-AAAAAAG-AAAAAAACAAAG
20614752 TAAAAAAAAAGAAGAAAAATC-AAG
1 TAAAAAAAAAGAA-AAAAA-CAAAG
20614776 ATAAAAAAAGAAGAAAAA
1 -TAAAAAAA-AAGAAAAA
20614794 TCAAGATAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
19 9 0.13
20 7 0.10
21 1 0.01
22 4 0.06
23 21 0.30
24 13 0.18
25 11 0.15
26 5 0.07
ACGTcount: A:0.81, C:0.06, G:0.08, T:0.04
Consensus pattern (23 bp):
TAAAAAAAAAGAAAAAAACAAAG
Found at i:20614770 original size:1 final size:1
Alignment explanation
Indices: 20614687--20614761 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
20614677 TATTATGCCT
* * * * * * * ** *
20614687 AAAAAAAAGAGAAAAAAACAACAAAAAAACAAAAAAACAAAAAAACAAAAAAGCAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
20614752 TAAAAAAAAA
1 AAAAAAAAAA
20614762 GAAGAAAAAT
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.85, C:0.08, G:0.05, T:0.01
Consensus pattern (1 bp):
A
Found at i:20614776 original size:13 final size:13
Alignment explanation
Indices: 20614760--20614799 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
20614750 AGTAAAAAAA
20614760 AAGAAGAAAAATC
1 AAGAAGAAAAATC
*
20614773 AAG-ATAAAAA--
1 AAGAAGAAAAATC
20614783 AAGAAGAAAAATC
1 AAGAAGAAAAATC
20614796 AAGA
1 AAGA
20614800 TAAAAACCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 3 0.14
11 6 0.27
12 6 0.27
13 7 0.32
ACGTcount: A:0.72, C:0.05, G:0.15, T:0.07
Consensus pattern (13 bp):
AAGAAGAAAAATC
Found at i:20614794 original size:23 final size:23
Alignment explanation
Indices: 20614755--20614805 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
20614745 AAAAAAGTAA
20614755 AAAAAAAGAAGAAAAATCAAGAT
1 AAAAAAAGAAGAAAAATCAAGAT
20614778 AAAAAAAGAAGAAAAATCAAGAT
1 AAAAAAAGAAGAAAAATCAAGAT
20614801 AAAAA
1 AAAAA
20614806 CCCGAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.76, C:0.04, G:0.12, T:0.08
Consensus pattern (23 bp):
AAAAAAAGAAGAAAAATCAAGAT
Found at i:20617411 original size:154 final size:150
Alignment explanation
Indices: 20616851--20618196 Score: 1385
Period size: 154 Copynumber: 8.8 Consensus size: 150
20616841 NNNNNNNNNN
20616851 TGCGAGAGGTGAGTTGAGCCTCGGGTCATCCTGAGGTA-TTTTCAA-TTTCTGTTTTTCAAAAAT
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATCC-GAGGTATTTTTCAATTTTC-GTTTTTCAAAAAT
* * * * * *
20616914 CAACCCATATTGCGATAGGTGAGTTGGGCCTCAGGTCGCACGCTGAGGTA----TTTTAAATTTC
64 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTTCTTTTAAATTTC
*
20616975 TGTTTTTCAAAAATCGACTCATAA
127 TGTTTTTCAAAAATCAACTCATAA
* * *
20616999 TGCGAGAAGCGAGTTGAGCCTTGGGTCATCCTGAGGTA-TTTTCAATTTAT-GTTTTTCAAAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATCC-GAGGTATTTTTCAATTT-TCGTTTTTC--AAAA
* * * *
20617062 ATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTGGGTCGCACGCTGAGGTA----TTTTAAATT
62 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTTCTTTTAAATT
*
20617123 TCTGTTTTTC-AAAATCAACTCATAT
125 TCTGTTTTTCAAAAATCAACTCATAA
* * *
20617148 TGCGAGAGGTGAGTTGAGCCTCGAGTCA-CATGAGGTATTTTTCAA-TTTCTGTTTTTTAAAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATC-CGAGGTATTTTTCAATTTTC-G-TTTTT-CAAAA
*
20617211 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTATGCCGAGGTATTTCTTTTAAATTT-
62 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTC
*
20617275 TCGTTTTTCAAAAAATCAACTCACAA
127 T-GTTTTTC-AAAAATCAACTCATAA
* *
20617301 TACGAGAGGTGAGTTGAGCCTCGGGTCATGTCGAGGTATTTCTTTCAAATTTTCGTTTTTCAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCAT-CCGAGGTA-TT-TTTC-AATTTTCGTTTTTCAAAA
* * *
20617366 ATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATACCGAGGTATTTCTTTTAAATTTC
62 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTT-
20617430 CT-TTTTTCAAAAAAGTCAACTCATAA
126 CTGTTTTTC-AAAAA-TCAACTCATAA
* * *
20617456 TAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCAT-CCGAGGTA-TT-TTTCAATTTTC-GTTTTTCAAAA
* * *
20617520 ATCAACTCATAATAC-AGAGGTAAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTC
62 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTC
20617584 TGTTTTTCAAAAATCAACTCATAA
127 TGTTTTTCAAAAATCAACTCATAA
* *
20617608 TAC-AGAGGTGAGTTGAGCCTCGGATCATGCCGAGGTATTTCTTTCAAATTTTCGTTTTTCAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCAT-CCGAGGTA-TT-TTTC-AATTTTCGTTTTTCAAAA
* * *
20617672 ATTAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTC
62 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTT-
* *
20617736 CGTTTTTTTCAAAAATCAACTCATAT
126 C-TGTTTTTCAAAAATCAACTCATAA
*
20617762 TGCGAGAGGTGAGTTGAGCCTCGGGTCATCCTGATGTATTTTTCAATTTTCGTGTTTTCAAAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATCC-GAGGTATTTTTCAATTTTCGT-TTTTC-----A
* * * *
20617827 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACGTCGAGGTA--T-TTTTCAAT
59 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAAT
* * *
20617889 TTTTGGTTTTCACAAAAATCAACTCATAT
124 TTCT-GTTTT-TCAAAAATCAACTCATAA
** *
20617918 TGCGAGAGGTGAGTTGAGCCTCAAGTCATATCCTGAGGTATTTTTCAA-TTTCTATTTTTCAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTC--ATCC-GAGGTATTTTTCAATTTTC-GTTTTTC--AA
* * * *
20617982 AAATCGACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGTCACATACCGATGTATTTCTTTTAAA
60 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTTCTTTTAAA
* *
20618047 TTTCTGCTTTTCAAAAAAATCAACTCATAT
123 TTTCTGTTTTTC--AAAAATCAACTCATAA
* * * * * *
20618077 TGCCAGAGGTGAGTTGAACCTCGGGTCACATATCGAGGTATTTCTTTTAAATTTCCGTTTCTCAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGT--CAT-CCGAGGTA--T-TTTTCAATTTTCGTTTTTCAA
* ** * * *
20618142 AAATCAACTCATAATGCGAGAGGCAAGTTGAGACTCGGATCATGCTGAGGTATTT
60 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT
20618197 TCAATTTCTA
Statistics
Matches: 1047, Mismatches: 92, Indels: 108
0.84 0.07 0.09
Matches are distributed among these distances:
147 10 0.01
148 58 0.06
149 87 0.08
150 76 0.07
151 17 0.02
152 135 0.13
153 68 0.06
154 252 0.24
155 65 0.06
156 69 0.07
157 14 0.01
158 56 0.05
159 87 0.08
160 37 0.04
161 2 0.00
162 11 0.01
163 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (150 bp):
TGCGAGAGGTGAGTTGAGCCTCGGGTCATCCGAGGTATTTTTCAATTTTCGTTTTTCAAAAATCA
ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCTGTT
TTTCAAAAATCAACTCATAA
Found at i:20617416 original size:76 final size:77
Alignment explanation
Indices: 20616851--20618196 Score: 1301
Period size: 76 Copynumber: 17.5 Consensus size: 77
20616841 NNNNNNNNNN
20616851 TGCGAGAGGTGAGTTGAGCCTCGGGTCAT-CCTGAGGTA--T-TTTC-AA-TTTCTGTTTTTCAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCC-GAGGTATTTCTTTCAAATTTTC-GTTTTTCAA
*
20616910 AAATCAACCCATAT
64 AAATCAACTCATAT
* * * * *
20616924 TGCGATAGGTGAGTTGGGCCTCAGGTCGCACGCTGAGGTA--T-TTT-AAA-TTTCTGTTTTTCA
1 TGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTTCTTTCAAATTTTC-GTTTTTCA
* *
20616984 AAAATCGACTCATAA
63 AAAATCAACTCATAT
* * *
20616999 TGCGAGAAGCGAGTTGAGCCTTGGGTCAT-CCTGAGGTA--T-TTTC-AATTTAT-GTTTTTCAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCC-GAGGTATTTCTTTCAAATTT-TCGTTTTTC--
20617058 AAAAATCAACTCATAT
62 AAAAATCAACTCATAT
* * * *
20617074 TGCGAGAGGTAAGTTGAGCCTTGGGTCGCACGCTGAGGTA--T-TTT-AAA-TTTCTGTTTTTC-
1 TGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTTCTTTCAAATTTTC-GTTTTTCA
20617133 AAAATCAACTCATAT
63 AAAATCAACTCATAT
* * *
20617148 TGCGAGAGGTGAGTTGAGCCTCGAGTCA--CATGAGGTA-TT-TTTC-AA-TTTCTGTTTTTTAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGC-CGAGGTATTTCTTTCAAATTTTC-G-TTTTT-C
20617207 AAAAATCAACTCATAT
62 AAAAATCAACTCATAT
* *
20617223 TGCGAGAGGTGAGTTGAGCCTCGGGTTATGCCGAGGTATTTCTTTTAAATTTTCGTTTTTCAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTCAAATTTTCGTTTTTC-AAA
* *
20617288 AATCAACTCACAA
65 AATCAACTCATAT
* *
20617301 TACGAGAGGTGAGTTGAGCCTCGGGTCATGTCGAGGTATTTCTTTCAAATTTTCGTTTTTCAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTCAAATTTTCGTTTTTCAAAA
*
20617366 ATCAACTCATAA
66 ATCAACTCATAT
* * * * *
20617378 TAC-AGAGGTGAGTTGAGCCTCGGGTCATACCGAGGTATTTCTTTTAAATTTCCTTTTTTCAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTCAAATTTTCGTTTTTC-AAA
*
20617442 AAGTCAACTCATAA
65 AA-TCAACTCATAT
* *
20617456 TAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAA-TTTCTGTTTTTCAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTCAAATTTTC-GTTTTTCAAA
*
20617519 AATCAACTCATAA
65 AATCAACTCATAT
* * *
20617532 TAC-AGAGGTAAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAA-TTTCTGTTTTTCAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTCAAATTTTC-GTTTTTCAAA
*
20617595 AATCAACTCATAA
65 AATCAACTCATAT
* *
20617608 TAC-AGAGGTGAGTTGAGCCTCGGATCATGCCGAGGTATTTCTTTCAAATTTTCGTTTTTCAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTCAAATTTTCGTTTTTCAAAA
* *
20617672 ATTAACTCATAA
66 ATCAACTCATAT
* * *
20617684 TAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTTTCAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTCAAATTTTCG--TTTTTCAA
20617748 AAATCAACTCATAT
64 AAATCAACTCATAT
*
20617762 TGCGAGAGGTGAGTTGAGCCTCGGGTCAT-CCTGATGTA-TT-TTTC-AATTTTCGTGTTTTCAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCC-GAGGTATTTCTTTCAAATTTTCGT-TTTTC--
20617823 AAAAAAAATCAACTCATAT
62 ---AAAAATCAACTCATAT
* * * * * *
20617842 TGCGAGAGGTGAGTTGAGCCTCGAGTCACGTCGAGGTA-TT-TTTCAATTTTTGGTTTTCACAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTCAAATTTTCGTTTT-TCAAA
20617905 AATCAACTCATAT
65 AATCAACTCATAT
** * *
20617918 TGCGAGAGGTGAGTTGAGCCTCAAGTCATATCCTGAGGTA-TT-TTTC-AA-TTTCTATTTTTCA
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCAT-GCC-GAGGTATTTCTTTCAAATTTTC-GTTTTTC-
*
20617979 AAAAAATCGACTCATAT
62 -AAAAATCAACTCATAT
* * * * *
20617996 TGCGAGAGGTGAGTTGAGTCTCGGGTCACATACCGATGTATTTCTTTTAAA-TTTCTGCTTTTCA
1 TGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTTCTTTCAAATTTTC-GTTTTTC-
20618060 AAAAAATCAACTCATAT
62 -AAAAATCAACTCATAT
* * ** * * *
20618077 TGCCAGAGGTGAGTTGAACCTCGGGTCACATATCGAGGTATTTCTTTTAAATTTCCGTTTCTCAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTTCTTTCAAATTTTCGTTTTTCAA
*
20618142 AAATCAACTCATAA
64 AAATCAACTCATAT
** * * *
20618156 TGCGAGAGGCAAGTTGAGACTCGGATCATGCTGAGGTATTT
1 TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT
20618197 TCAATTTCTA
Statistics
Matches: 1112, Mismatches: 104, Indels: 110
0.84 0.08 0.08
Matches are distributed among these distances:
70 1 0.00
71 7 0.01
72 15 0.01
73 49 0.04
74 41 0.04
75 144 0.13
76 319 0.29
77 80 0.07
78 225 0.20
79 72 0.06
80 67 0.06
81 89 0.08
82 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (77 bp):
TGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTCAAATTTTCGTTTTTCAAAA
ATCAACTCATAT
Found at i:20619040 original size:19 final size:17
Alignment explanation
Indices: 20619003--20619079 Score: 54
Period size: 17 Copynumber: 4.6 Consensus size: 17
20618993 AGAGAAATTG
20619003 AAACAAAAAGAGAAGCA
1 AAACAAAAAGAGAAGCA
*
20619020 AAACAAAAACGCAGCAGCA
1 AAACAAAAA-G-AGAAGCA
* *
20619039 AAA-AACAAGA-AA-AA
1 AAACAAAAAGAGAAGCA
*
20619053 AAACAAGAAA-AAAAGCA
1 AAACAA-AAAGAGAAGCA
*
20619070 AAAAAAAAAG
1 AAACAAAAAG
20619080 GTCCAAAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
14 4 0.09
15 4 0.09
16 8 0.17
17 16 0.35
18 5 0.11
19 9 0.20
ACGTcount: A:0.74, C:0.13, G:0.13, T:0.00
Consensus pattern (17 bp):
AAACAAAAAGAGAAGCA
Found at i:20619054 original size:11 final size:11
Alignment explanation
Indices: 20619038--20619077 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
20619028 ACGCAGCAGC
20619038 AAAAAACAAGAA
1 AAAAAACAAG-A
20619050 AAAAAACAAGA
1 AAAAAACAAGA
20619061 AAAAAAGCAA-A
1 AAAAAA-CAAGA
20619072 AAAAAA
1 AAAAAA
20619078 AGGTCCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 14 0.52
12 13 0.48
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAACAAGA
Found at i:20619055 original size:12 final size:12
Alignment explanation
Indices: 20619038--20619078 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
20619028 ACGCAGCAGC
20619038 AAAAAACAAGAA
1 AAAAAACAAGAA
20619050 AAAAAACAAGAA
1 AAAAAACAAGAA
*
20619062 AAAAAGCAA-AA
1 AAAAAACAAGAA
20619073 AAAAAA
1 AAAAAA
20619079 GGTCCAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAACAAGAA
Found at i:20619208 original size:13 final size:13
Alignment explanation
Indices: 20619190--20619269 Score: 66
Period size: 13 Copynumber: 6.5 Consensus size: 13
20619180 GGTGCGGCCC
20619190 GAAGAAGAAGAAA
1 GAAGAAGAAGAAA
*
20619203 GAAGAAAGAAAAAA
1 GAAG-AAGAAGAAA
20619217 GAAGAAGAA-AAA
1 GAAGAAGAAGAAA
*
20619229 GGGAGAAGAA-AAA
1 -GAAGAAGAAGAAA
20619242 GAA-AA-AAGAAA
1 GAAGAAGAAGAAA
20619253 -AAG-AGAAAGAAA
1 GAAGAAG-AAGAAA
20619265 -AAGAA
1 GAAGAA
20619270 AAAAAATTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
10 5 0.09
11 5 0.09
12 14 0.25
13 21 0.37
14 12 0.21
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAA
Found at i:20619253 original size:25 final size:26
Alignment explanation
Indices: 20619194--20619273 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
20619184 CGGCCCGAAG
* *
20619194 AAGAAGAAAGAAGAAAGAAAAA-AGAAG
1 AAGAAAAAAG-AGAAAGAAAAAGA-AAA
*
20619221 AAG-AAAAAGGGAGAAGAAAAAGAAAA
1 AAGAAAAAAGAGA-AAGAAAAAGAAAA
20619247 AAG-AAAAAGAGAAAGAAAAAGAAAA
1 AAGAAAAAAGAGAAAGAAAAAGAAAA
20619272 AA
1 AA
20619274 AATTAAAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
25 17 0.36
26 26 0.55
27 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (26 bp):
AAGAAAAAAGAGAAAGAAAAAGAAAA
Found at i:20619273 original size:7 final size:6
Alignment explanation
Indices: 20619194--20619272 Score: 77
Period size: 6 Copynumber: 12.3 Consensus size: 6
20619184 CGGCCCGAAG
* * *
20619194 AAGAAGA AAGAAGA AAGAAAA AAGAAG AAGAAA AAGGGAG AAGAAA AAGAAAA
1 AAGAA-A AAGAA-A AAG-AAA AAGAAA AAGAAA AA-GAAA AAGAAA AAG-AAA
*
20619247 AAGAAA AAGAGA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AA
20619273 AAATTAAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
6 35 0.57
7 24 0.39
8 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:20620092 original size:18 final size:18
Alignment explanation
Indices: 20620068--20620112 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
20620058 AAAAATCGTG
20620068 TTTCAAAAATTT-TCATA
1 TTTCAAAAATTTCTCATA
*
20620085 TCTTCAAAAATTTCTCGTA
1 T-TTCAAAAATTTCTCATA
20620104 TTTCAAAAA
1 TTTCAAAAA
20620113 ATCTTCACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 19 0.76
19 5 0.20
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (18 bp):
TTTCAAAAATTTCTCATA
Found at i:20620260 original size:18 final size:18
Alignment explanation
Indices: 20620229--20620296 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
20620219 TTTCGTGTTT
20620229 TCATGTTCTCAAAAAATTC
1 TCATGTT-TCAAAAAATTC
**
20620248 TCATGTTTCAAAAAGCT-
1 TCATGTTTCAAAAAATTC
* *
20620265 TCGTGTTTTC-AAAAATCC
1 TCATG-TTTCAAAAAATTC
20620283 TCATGTTTCAAAAA
1 TCATGTTTCAAAAA
20620297 TCTTCGTGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
17 12 0.31
18 20 0.51
19 7 0.18
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (18 bp):
TCATGTTTCAAAAAATTC
Found at i:20620268 original size:44 final size:44
Alignment explanation
Indices: 20620188--20620275 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
20620178 GATGTTATCG
* * * * **
20620188 TGTTTTCAAAAAATTCTCGTGTTTGACAAATTTTCGTGTTTTCA
1 TGTTCTCAAAAAATTCTCATGTTTCAAAAAGCTTCGTGTTTTCA
20620232 TGTTCTCAAAAAATTCTCATGTTTCAAAAAGCTTCGTGTTTTCA
1 TGTTCTCAAAAAATTCTCATGTTTCAAAAAGCTTCGTGTTTTCA
20620276 AAAATCCTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.44
Consensus pattern (44 bp):
TGTTCTCAAAAAATTCTCATGTTTCAAAAAGCTTCGTGTTTTCA
Found at i:20620286 original size:35 final size:35
Alignment explanation
Indices: 20620240--20620313 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
20620230 CATGTTCTCA
*
20620240 AAAAATTCTCATGTTTCAAAAAGCTTCGTGTTTTC
1 AAAAATCCTCATGTTTCAAAAAGCTTCGTGTTTTC
*
20620275 AAAAATCCTCATGTTTCAAAAATCTTCGTGTTTTC
1 AAAAATCCTCATGTTTCAAAAAGCTTCGTGTTTTC
20620310 AAAA
1 AAAA
20620314 TTCTAGTGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (35 bp):
AAAAATCCTCATGTTTCAAAAAGCTTCGTGTTTTC
Found at i:20620329 original size:34 final size:34
Alignment explanation
Indices: 20620241--20620347 Score: 108
Period size: 35 Copynumber: 3.1 Consensus size: 34
20620231 ATGTTCTCAA
* ** *
20620241 AAAATTCTCATGTTTCAAAAAGCTTCGTGTTTTC
1 AAAATCCTCATGTAACAAAAATCTTCGTGTTTTC
**
20620275 AAAAATCCTCATGTTTCAAAAATCTTCGTGTTTTC
1 -AAAATCCTCATGTAACAAAAATCTTCGTGTTTTC
* * *
20620310 AAAATTCT-AGTGTAACAAAAATTTTCATGTTTTC
1 AAAATCCTCA-TGTAACAAAAATCTTCGTGTTTTC
20620344 AAAA
1 AAAA
20620348 ATTTCCCGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
33 1 0.02
34 31 0.48
35 32 0.50
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (34 bp):
AAAATCCTCATGTAACAAAAATCTTCGTGTTTTC
Found at i:20620426 original size:39 final size:38
Alignment explanation
Indices: 20620381--20620521 Score: 135
Period size: 39 Copynumber: 3.7 Consensus size: 38
20620371 TCGTTTTTTG
* * * * *
20620381 AAAATTTTCTTGTTTTCAGAAAAAAATTTCCGTGTTTTA
1 AAAATTTTCGTGTTTTCA-AAAAAAAATCCCGTCTTTCA
*
20620420 TAAATTTTCGTGTTTTCAAAAAAAAAATCCCGTCTTTCA
1 AAAATTTTCGTGTTTTC-AAAAAAAAATCCCGTCTTTCA
*** *
20620459 AAAATTTTCGTGTTTTCAAAAATTGA--CCGTGTTTCA
1 AAAATTTTCGTGTTTTCAAAAAAAAATCCCGTCTTTCA
* *
20620495 TAAATTTCCGTG-TTTCAAAAAAAAATC
1 AAAATTTTCGTGTTTTCAAAAAAAAATC
20620522 TTATGTTTCG
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
35 10 0.12
36 19 0.23
38 6 0.07
39 47 0.57
40 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (38 bp):
AAAATTTTCGTGTTTTCAAAAAAAAATCCCGTCTTTCA
Found at i:20620475 original size:18 final size:18
Alignment explanation
Indices: 20620226--20620515 Score: 137
Period size: 17 Copynumber: 16.0 Consensus size: 18
20620216 AATTTTCGTG
* *
20620226 TTTTCATGTTCTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* *
20620245 TTCTCATG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
20620262 GCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
** *
20620280 TCCTCATG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
20620297 TCTTCGTGTTTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
* * **
20620314 TTCTAGTG-TAACAAAAA
1 TTTTCGTGTTTTCAAAAA
*
20620331 TTTTCATGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
20620349 TTTCCCGTATTTTCAAACA
1 TTT-TCGTGTTTTCAAAAA
* **
20620368 TTCTCGT-TTTTTGAAAA
1 TTTTCGTGTTTTCAAAAA
*
20620385 TTTTCTTGTTTTCAGAAAAAAA
1 TTTTCGTGTTTTC----AAAAA
* *
20620407 TTTCCGTGTTTT-ATAAA
1 TTTTCGTGTTTTCAAAAA
20620424 TTTTCGTGTTTTCAAAAAAA
1 TTTTCGTGTTTTC--AAAAA
*** **
20620444 AAATCCCGTCTTTCAAAAA
1 TTTTCGTGT-TTTCAAAAA
20620463 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
** *
20620481 TTGACCGTG-TTTCATAAA
1 TT-TTCGTGTTTTCAAAAA
*
20620499 TTTCCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
20620516 AAAATCTTAT
Statistics
Matches: 202, Mismatches: 54, Indels: 32
0.70 0.19 0.11
Matches are distributed among these distances:
16 2 0.01
17 82 0.41
18 59 0.29
19 33 0.16
20 8 0.04
21 4 0.02
22 14 0.07
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:20620599 original size:17 final size:16
Alignment explanation
Indices: 20620563--20620598 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
20620553 TTTTCAAAAT
20620563 AAAATTTTGTGTTTTC
1 AAAATTTTGTGTTTTC
20620579 AAAATTTTCGTG-TTTC
1 AAAATTTT-GTGTTTTC
20620595 AAAA
1 AAAA
20620599 AGAAAATTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (16 bp):
AAAATTTTGTGTTTTC
Found at i:20620612 original size:37 final size:37
Alignment explanation
Indices: 20620546--20620619 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
20620536 TTATCAAATC
* *
20620546 TTTTGTGTTTTCAAAATAAAATTTTGTGTTTTCAAAA
1 TTTTGTGTTTTCAAAATAAAAATTCGTGTTTTCAAAA
*
20620583 TTTTCGTG-TTTCAAAA-AGAAAATTCGTGTTTTGAAAA
1 TTTT-GTGTTTTCAAAATA-AAAATTCGTGTTTTCAAAA
20620620 AATTCTCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 1 0.03
37 28 0.88
38 3 0.09
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.46
Consensus pattern (37 bp):
TTTTGTGTTTTCAAAATAAAAATTCGTGTTTTCAAAA
Found at i:20622366 original size:29 final size:29
Alignment explanation
Indices: 20622318--20622375 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
20622308 CCAAATTCTA
20622318 CCCCAAACGTTTTTTTCCCCTCTGCTGGTT
1 CCCCAAAC-TTTTTTTCCCCTCTGCTGGTT
20622348 CCCCAAA-TTTTCTTTCCCCTCTGCTGGT
1 CCCCAAACTTTT-TTTCCCCTCTGCTGGT
20622376 GAAATTGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 4 0.15
29 16 0.59
30 7 0.26
ACGTcount: A:0.10, C:0.38, G:0.12, T:0.40
Consensus pattern (29 bp):
CCCCAAACTTTTTTTCCCCTCTGCTGGTT
Found at i:20625138 original size:7 final size:7
Alignment explanation
Indices: 20625128--20625159 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
20625118 GTTTTAGTAA
20625128 TTAGATT
1 TTAGATT
20625135 TTAGATT
1 TTAGATT
20625142 TTAGATT
1 TTAGATT
20625149 TTAGATT
1 TTAGATT
20625156 TTAG
1 TTAG
20625160 TTAGATAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
TTAGATT
Found at i:20625145 original size:21 final size:21
Alignment explanation
Indices: 20625119--20625159 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20625109 TAATATTGGG
20625119 TTTTAG-TAATTAGATTTTAGA
1 TTTTAGAT-ATTAGATTTTAGA
*
20625140 TTTTAGATTTTAGATTTTAG
1 TTTTAGATATTAGATTTTAG
20625160 TTAGATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (21 bp):
TTTTAGATATTAGATTTTAGA
Found at i:20627518 original size:45 final size:46
Alignment explanation
Indices: 20627449--20627543 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 46
20627439 TTACATTTAC
20627449 ATTTGCTGTGCCTTATAAAATTTAATC-TCATCAAGAGTTTTCAAA
1 ATTTGCTGTGCCTTATAAAATTTAATCTTCATCAAGAGTTTTCAAA
* * *
20627494 ATTTGTTGTGCCTTA-AAAATTTTAATCTTCATGAAGAGTTTTTAAA
1 ATTTGCTGTGCCTTATAAAA-TTTAATCTTCATCAAGAGTTTTCAAA
20627540 ATTT
1 ATTT
20627544 TAAATCTACA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 4 0.09
45 21 0.47
46 20 0.44
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (46 bp):
ATTTGCTGTGCCTTATAAAATTTAATCTTCATCAAGAGTTTTCAAA
Found at i:20640031 original size:15 final size:15
Alignment explanation
Indices: 20640008--20640042 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20639998 GGGTTTAGGC
* *
20640008 TAGTCGGGCTTGGTG
1 TAGTTGGGCTAGGTG
20640023 TAGTTGGGCTAGGTG
1 TAGTTGGGCTAGGTG
20640038 TAGTT
1 TAGTT
20640043 TGGGTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.11, C:0.09, G:0.43, T:0.37
Consensus pattern (15 bp):
TAGTTGGGCTAGGTG
Found at i:20640738 original size:17 final size:18
Alignment explanation
Indices: 20640707--20640740 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20640697 ATAAATTTTA
*
20640707 TATGTTAAATATTAATTT
1 TATGTAAAATATTAATTT
20640725 TATGTAAAAT-TTAATT
1 TATGTAAAATATTAATT
20640741 AGTATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
TATGTAAAATATTAATTT
Found at i:20641367 original size:20 final size:20
Alignment explanation
Indices: 20641328--20641366 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20641318 AAATATTAAA
*
20641328 AAAATATTTTTATAGTTTTT
1 AAAATAGTTTTATAGTTTTT
20641348 AAAATAGTTTTATA-TTTTT
1 AAAATAGTTTTATAGTTTTT
20641367 TTGTTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
AAAATAGTTTTATAGTTTTT
Found at i:20650654 original size:21 final size:22
Alignment explanation
Indices: 20650615--20650656 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20650605 TTCTCTCAAA
20650615 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
20650637 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
20650657 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:20650762 original size:29 final size:30
Alignment explanation
Indices: 20650700--20650762 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
20650690 TAAATTTCAT
* *
20650700 TTTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
*
20650730 TTTTTTAA-ATAATTTTAAAATTTTTAATA
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
20650759 TTTT
1 TTTT
20650763 CAACAATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:20650907 original size:24 final size:23
Alignment explanation
Indices: 20650852--20650907 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
20650842 TAAATTTTAA
*
20650852 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
20650875 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
20650901 ATTTTTT
1 ATTTTTT
20650908 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:20653775 original size:9 final size:9
Alignment explanation
Indices: 20653758--20653788 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
20653748 TCGAGTTGAT
20653758 TCGAATAAC
1 TCGAATAAC
*
20653767 TCGATTAAC
1 TCGAATAAC
20653776 TCGAATAAC
1 TCGAATAAC
20653785 TCGA
1 TCGA
20653789 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:20655969 original size:3 final size:3
Alignment explanation
Indices: 20655961--20655986 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20655951 TCATGTACCT
20655961 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
20655987 TGAAATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:20669637 original size:16 final size:16
Alignment explanation
Indices: 20669616--20669672 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
20669606 TTTGGTTCGC
*
20669616 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
20669632 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
20669648 AGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
20669664 TGTAATGGA
1 TGTAATGGA
20669673 AAAGCTGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.32
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:20681479 original size:5 final size:5
Alignment explanation
Indices: 20681469--20681514 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
20681459 TGAGCATTCG
20681469 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
20681515 AATTTTCGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
ATCGA
Found at i:20681612 original size:5 final size:5
Alignment explanation
Indices: 20681604--20681629 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20681594 GAGATGGAAT
20681604 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
20681630 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:20682397 original size:9 final size:9
Alignment explanation
Indices: 20682383--20682419 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
20682373 TATAGTTTGA
20682383 TATTCGAAT
1 TATTCGAAT
20682392 TATTCGAAT
1 TATTCGAAT
*
20682401 TATTCGAGT
1 TATTCGAAT
20682410 TATTCGAAT
1 TATTCGAAT
20682419 T
1 T
20682420 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:20682488 original size:18 final size:18
Alignment explanation
Indices: 20682462--20682504 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
20682452 AAAAAAAAAT
*
20682462 TCGAGTTAATTCAAATAAC
1 TCGA-TTAACTCAAATAAC
*
20682481 TCGATTAACTCGAATAAC
1 TCGATTAACTCAAATAAC
20682499 TCGATT
1 TCGATT
20682505 TGTTTAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (18 bp):
TCGATTAACTCAAATAAC
Found at i:20685024 original size:12 final size:12
Alignment explanation
Indices: 20684986--20685027 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
20684976 AAATAATATT
20684986 TTTTTTTGAATAAA
1 TTTTTTT-AAT-AA
20685000 TTTTTTT-AT-A
1 TTTTTTTAATAA
20685010 TTTTTTTAATAA
1 TTTTTTTAATAA
20685022 TTTTTT
1 TTTTTT
20685028 AAAAAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 8 0.31
11 2 0.08
12 9 0.35
14 7 0.27
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTTTTTAATAA
Found at i:20685028 original size:11 final size:11
Alignment explanation
Indices: 20684987--20685029 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
20684977 AATAATATTT
20684987 TTTTTTGAATAAA
1 TTTTTT-AAT-AA
* *
20685000 TTTTTTTATAT
1 TTTTTTAATAA
20685011 TTTTTTAATAA
1 TTTTTTAATAA
20685022 TTTTTTAA
1 TTTTTTAA
20685030 AAAAATACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 18 0.69
12 2 0.08
13 6 0.23
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TTTTTTAATAA
Found at i:20685110 original size:27 final size:27
Alignment explanation
Indices: 20685080--20685146 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
20685070 CCTATCAGGT
20685080 AGGCGCCAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
* *
20685107 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
20685134 AGGCGCCAATGAA
1 AGGCGCCAATGAA
20685147 TATTGTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.33, T:0.13
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:20685169 original size:19 final size:19
Alignment explanation
Indices: 20685145--20685310 Score: 64
Period size: 19 Copynumber: 8.6 Consensus size: 19
20685135 GGCGCCAATG
20685145 AATATTGTAATTTTGTATT
1 AATATTGTAATTTTGTATT
*
20685164 AATATTGTAATTAT-T-TT
1 AATATTGTAATTTTGTATT
* *
20685181 -ATAAT-TAAATTTGTATTT
1 AATATTGTAATTTTGTA-TT
* *
20685199 ATAGTTTTGGATTAGTATTTTGTATG
1 A-A-TATT-G--TA--ATTTTGTATT
*
20685225 AATATTGTAATTTTTTATAT
1 AATATTGTAATTTTGTAT-T
20685245 GAATATTGTAA-TTT-TA-T
1 -AATATTGTAATTTTGTATT
* *
20685262 AATTTTGTATGAATATTG---T
1 AATATTG--T-AATTTTGTATT
*
20685281 AATATTGTAATTTTGTATG
1 AATATTGTAATTTTGTATT
20685300 AATATTGTAAT
1 AATATTGTAAT
20685311 GTCGGGGTAN
Statistics
Matches: 109, Mismatches: 16, Indels: 44
0.64 0.09 0.26
Matches are distributed among these distances:
15 5 0.05
16 17 0.16
17 4 0.04
18 4 0.04
19 43 0.39
20 6 0.06
21 14 0.13
23 1 0.01
24 3 0.03
25 3 0.03
26 2 0.02
27 7 0.06
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
AATATTGTAATTTTGTATT
Found at i:20685245 original size:21 final size:21
Alignment explanation
Indices: 20685216--20685259 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
20685206 TGGATTAGTA
*
20685216 TTTTGTATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
20685237 TTTTATATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
20685258 TT
1 TT
20685260 ATAATTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (21 bp):
TTTTATATGAATATTGTAATT
Found at i:20685261 original size:61 final size:61
Alignment explanation
Indices: 20685154--20685268 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 61
20685144 GAATATTGTA
* * *
20685154 ATTTTGTATTAATATTGTAATTATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGT
1 ATTTTGTATGAATATTGTAATTATTTTATAATGAAATTTGTATTTATAATTTTGGATTAGT
20685215 ATTTTGTATGAATATTGTAATT-TTTTAT-ATG-AATATTGTAATTTTATAATTTTG
1 ATTTTGTATGAATATTGTAATTATTTTATAATGAAAT-TTGT-A-TTTATAATTTTG
20685269 TATGAATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
58 3 0.06
59 6 0.12
60 7 0.15
61 32 0.67
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (61 bp):
ATTTTGTATGAATATTGTAATTATTTTATAATGAAATTTGTATTTATAATTTTGGATTAGT
Found at i:20685272 original size:27 final size:25
Alignment explanation
Indices: 20685215--20685310 Score: 119
Period size: 27 Copynumber: 3.8 Consensus size: 25
20685205 TTGGATTAGT
20685215 ATTTTGTATGAATATTGTAA--TT-
1 ATTTTGTATGAATATTGTAATTTTA
*
20685237 -TTTTATATGAATATTGTAATTTTATA
1 ATTTTGTATGAATATTGTAA-TTT-TA
20685263 ATTTTGTATGAATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAAT-TT-TA
20685290 ATTTTGTATGAATATTGTAAT
1 ATTTTGTATGAATATTGTAAT
20685311 GTCGGGGTAN
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
21 18 0.28
24 1 0.02
25 1 0.02
26 1 0.02
27 43 0.67
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (25 bp):
ATTTTGTATGAATATTGTAATTTTA
Found at i:20693078 original size:17 final size:16
Alignment explanation
Indices: 20693056--20693098 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
20693046 AAAAATGCAT
20693056 AAATATATA-TATATATA
1 AAATATA-AGTATATA-A
20693073 AAATATAAGGTATATAA
1 AAATATAA-GTATATAA
20693090 AAATATAAG
1 AAATATAAG
20693099 GGATAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 16 0.67
18 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (16 bp):
AAATATAAGTATATAA
Found at i:20693099 original size:17 final size:18
Alignment explanation
Indices: 20693065--20693099 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
20693055 TAAATATATA
20693065 TATATATAAAATATAAGG
1 TATATATAAAATATAAGG
20693083 TATATA-AAAATATAAGG
1 TATATATAAAATATAAGG
20693100 GATAAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (18 bp):
TATATATAAAATATAAGG
Found at i:20693446 original size:115 final size:115
Alignment explanation
Indices: 20693327--20693557 Score: 437
Period size: 115 Copynumber: 2.0 Consensus size: 115
20693317 AAGTGATATT
*
20693327 GTAATAACAAATGAGTAACAGTATATTAAAAAAATAAAAAAACT-AATAAAGTAAGAAAAAACCA
1 GTAATAACAAATGAGTAACAGTATATTAAAAAAATAAAAAAACTGAATAAAGTAA-AAAAAAACA
20693391 AATTGAACAAAAGACCAAAAAATGGGGGCAAATTCATAAATAATAAAAAAG
65 AATTGAACAAAAGACCAAAAAATGGGGGCAAATTCATAAATAATAAAAAAG
20693442 GTAATAACAAATGAGTAACAGTATATTAAAAAAATAAAAAAACTGAATAAAGTAAAAAAAAACAA
1 GTAATAACAAATGAGTAACAGTATATTAAAAAAATAAAAAAACTGAATAAAGTAAAAAAAAACAA
20693507 ATTGAACAAAAGACCAAAAAATGGGGGCAAATTCATAAATAATAAAAAAG
66 ATTGAACAAAAGACCAAAAAATGGGGGCAAATTCATAAATAATAAAAAAG
20693557 G
1 G
20693558 ATCGATTCGA
Statistics
Matches: 114, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
115 104 0.91
116 10 0.09
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.17
Consensus pattern (115 bp):
GTAATAACAAATGAGTAACAGTATATTAAAAAAATAAAAAAACTGAATAAAGTAAAAAAAAACAA
ATTGAACAAAAGACCAAAAAATGGGGGCAAATTCATAAATAATAAAAAAG
Found at i:20694982 original size:287 final size:287
Alignment explanation
Indices: 20694466--20695040 Score: 1134
Period size: 287 Copynumber: 2.0 Consensus size: 287
20694456 TGTTGGGCCA
20694466 TTCTAGGTTTAGTTGGGCCCGGGCATTGTTGGGTTTGTACAAAATCATTTTTTATTTTTTATTTT
1 TTCTAGGTTTAGTTGGGCCCGGGCATTGTTGGGTTTGTACAAAATCATTTTTTATTTTTTATTTT
20694531 TTATAAACTTTATGAAAAAAAATTATTTATTTAAATTTTAAATAATCTTAATTTTGATATAATAT
66 TTATAAACTTTATGAAAAAAAATTATTTATTTAAATTTTAAATAATCTTAATTTTGATATAATAT
20694596 TTGTTATAATTTTTTATTTAATTATTATCTCAAACAAATTTAAAATAAAATAGATTGATTTATTC
131 TTGTTATAATTTTTTATTTAATTATTATCTCAAACAAATTTAAAATAAAATAGATTGATTTATTC
20694661 AGATTTTAAATGTTAGTTTTTCATTTTAAAAAATAATTAATAAAAACTTTATATCTTAAAATGGT
196 AGATTTTAAATGTTAGTTTTTCATTTTAAAAAATAATTAATAAAAACTTTATATCTTAAAATGGT
20694726 ATTCTATTTTACTTTTAAAATTATTTG
261 ATTCTATTTTACTTTTAAAATTATTTG
20694753 TTCTAGGTTTAGTTGGGCCCGGGCATTGTTGGGTTTGTACAAAATCATTTTTTATTTTTTATTTT
1 TTCTAGGTTTAGTTGGGCCCGGGCATTGTTGGGTTTGTACAAAATCATTTTTTATTTTTTATTTT
20694818 TTATAAACTTTATGAAAAAAAATTATTTATTTAAATTTTAAATAATCTTAATTTTGATATAATAT
66 TTATAAACTTTATGAAAAAAAATTATTTATTTAAATTTTAAATAATCTTAATTTTGATATAATAT
20694883 TTG-TATAATTTTTTTATTTAATTATTATCTCAAACAAATTTAAAATAAAATAGATTGATTTATT
131 TTGTTATAA-TTTTTTATTTAATTATTATCTCAAACAAATTTAAAATAAAATAGATTGATTTATT
20694947 CAGATTTTAAATGTTAGTTTTTCATTTTAAAAAATAATTAATAAAAACTTTATATCTTAAAATGG
195 CAGATTTTAAATGTTAGTTTTTCATTTTAAAAAATAATTAATAAAAACTTTATATCTTAAAATGG
20695012 TATTCTATTTTACTTTTAAAATTATTTG
260 TATTCTATTTTACTTTTAAAATTATTTG
20695040 T
1 T
20695041 ATAATTTTCT
Statistics
Matches: 287, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
286 5 0.02
287 282 0.98
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (287 bp):
TTCTAGGTTTAGTTGGGCCCGGGCATTGTTGGGTTTGTACAAAATCATTTTTTATTTTTTATTTT
TTATAAACTTTATGAAAAAAAATTATTTATTTAAATTTTAAATAATCTTAATTTTGATATAATAT
TTGTTATAATTTTTTATTTAATTATTATCTCAAACAAATTTAAAATAAAATAGATTGATTTATTC
AGATTTTAAATGTTAGTTTTTCATTTTAAAAAATAATTAATAAAAACTTTATATCTTAAAATGGT
ATTCTATTTTACTTTTAAAATTATTTG
Found at i:20695163 original size:15 final size:17
Alignment explanation
Indices: 20695143--20695177 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
20695133 TGTTAAACTA
20695143 TATTT-AAA-ATTATTT
1 TATTTAAAATATTATTT
20695158 TATTTAAAATATTATTT
1 TATTTAAAATATTATTT
20695175 TAT
1 TAT
20695178 CTACTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 3 0.17
17 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTAAAATATTATTT
Found at i:20697086 original size:21 final size:20
Alignment explanation
Indices: 20697066--20697105 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
20697056 CCCTCCCTGT
20697066 TTTACCCTGTGCCTCTTCTG
1 TTTACCCTGTGCCTCTTCTG
* *
20697086 -TTCCCCTTTGCCTCTTCTG
1 TTTACCCTGTGCCTCTTCTG
20697105 T
1 T
20697106 CGATTTGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.38, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTACCCTGTGCCTCTTCTG
Found at i:20697139 original size:14 final size:14
Alignment explanation
Indices: 20697120--20697149 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
20697110 TTGCTCCCTT
20697120 CCTTCTACCTTCTG
1 CCTTCTACCTTCTG
20697134 CCTTCTACCTTCTG
1 CCTTCTACCTTCTG
20697148 CC
1 CC
20697150 GATTTGCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.47, G:0.07, T:0.40
Consensus pattern (14 bp):
CCTTCTACCTTCTG
Found at i:20700797 original size:44 final size:45
Alignment explanation
Indices: 20700748--20700844 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
20700738 CTATTACACC
*
20700748 TCCATTCCATTCAACCAAACACA-AGA-TTACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATTTACTATTACGCCTCTAT
* *
20700792 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATTTACTATTACGCCTCTAT
20700837 TCCATTAC
1 TCCATTAC
20700845 GCCTCTATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATTTACTATTACGCCTCTAT
Found at i:20700845 original size:16 final size:16
Alignment explanation
Indices: 20700824--20700861 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
20700814 TTGATTTGCT
20700824 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
20700840 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
20700856 AATACG
1 ATTACG
20700862 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.34, G:0.08, T:0.34
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:20701885 original size:27 final size:27
Alignment explanation
Indices: 20701855--20701908 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
20701845 GTTTTAGTCC
20701855 CAAATCTGTT-TT-ATTTCAATTTATTTT
1 CAAATCTGTTATTCATTT--ATTTATTTT
*
20701882 CAAATTTGTTATTCATTTATTTATTTT
1 CAAATCTGTTATTCATTTATTTATTTT
20701909 AAACCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 18 0.75
28 2 0.08
29 4 0.17
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.61
Consensus pattern (27 bp):
CAAATCTGTTATTCATTTATTTATTTT
Found at i:20702038 original size:27 final size:26
Alignment explanation
Indices: 20702003--20702276 Score: 204
Period size: 26 Copynumber: 10.6 Consensus size: 26
20701993 TATTATTCAT
* *
20702003 TTTTTTATATTATTTATTTTTAAACTG
1 TTTTATATATTATTTA-TTTTAAATTG
* ** *
20702030 TTATATATATTATTTATTTTGGATTAT
1 TTTTATATATTATTTATTTTAAATT-G
* *
20702057 TTTTATACATATCATTTATTTTTAAACTG
1 TTTTAT--ATATTATTTA-TTTTAAATTG
* * *
20702086 TTTTGTATATTATTTATTTAAAACTTCT
1 TTTTATATATTATTTATTTTAAA-TT-G
* *
20702114 TTTTACATATTATTTATTTTAAA--C
1 TTTTATATATTATTTATTTTAAATTG
20702138 TTTT-TA-A-TA-TTATTTTAAATTG
1 TTTTATATATTATTTATTTTAAATTG
* *
20702160 TCTTATATGTTATTTATTTTAAATTG
1 TTTTATATATTATTTATTTTAAATTG
* * * *
20702186 TTTTGTATGTTGTTTATTTTAATTTG
1 TTTTATATATTATTTATTTTAAATTG
* *
20702212 TTTTACATATTATTTACTTTAAATTG
1 TTTTATATATTATTTATTTTAAATTG
* * *
20702238 -TTT-TATACTATTTACTTCAAATTG
1 TTTTATATATTATTTATTTTAAATTG
*
20702262 TTCTATATATTATTT
1 TTTTATATATTATTT
20702277 TGGTTCGCTT
Statistics
Matches: 193, Mismatches: 40, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
20 10 0.05
21 2 0.01
22 4 0.02
23 3 0.02
24 22 0.11
25 7 0.04
26 76 0.39
27 29 0.15
28 20 0.10
29 14 0.07
30 6 0.03
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.61
Consensus pattern (26 bp):
TTTTATATATTATTTATTTTAAATTG
Found at i:20702089 original size:29 final size:28
Alignment explanation
Indices: 20702009--20702143 Score: 120
Period size: 27 Copynumber: 4.9 Consensus size: 28
20701999 TCATTTTTTT
* *
20702009 ATATTATTTATTTTTAAAC-TGTTATAT
1 ATATTATTTATTTTTAAACTTTTTATAC
* *
20702036 ATATTATTTATTTTGGATTA-TTTTTATAC
1 ATATTATTTATTTT-TA-AACTTTTTATAC
* *
20702065 ATATCATTTATTTTTAAACTGTTTTGT--
1 ATATTATTTATTTTTAAACT-TTTTATAC
* *
20702092 ATATTATTTA-TTTAAAACTTCTTTTTAC
1 ATATTATTTATTTTTAAACTT-TTTATAC
20702120 ATATTATTTA-TTTTAAACTTTTTA
1 ATATTATTTATTTTTAAACTTTTTA
20702144 ATATTATTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
25 1 0.01
26 12 0.14
27 27 0.31
28 22 0.25
29 25 0.29
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (28 bp):
ATATTATTTATTTTTAAACTTTTTATAC
Found at i:20702250 original size:98 final size:101
Alignment explanation
Indices: 20702070--20702250 Score: 246
Period size: 98 Copynumber: 1.8 Consensus size: 101
20702060 TATACATATC
*
20702070 ATTTATTTTTAAACTGTTTTGTATATTATTTATTTAAAACTTCTTTTTACATATTATTTATTTTA
1 ATTTATTTTTAAACTGTTTTGTATATTATTTATTTAAAACTTCTTTTTACATATTATTTACTTTA
*
20702135 AACTTTTTAATATTATTTTAAATTGTCTTATATGTT
66 AACTTTTTAATACTATTTTAAATTGTCTTATATGTT
* * * *
20702171 ATTTA-TTTTAAATTGTTTTGTATGTTGTTTATTT-TAA-TT-TGTTTTACATATTATTTACTTT
1 ATTTATTTTTAAACTGTTTTGTATATTATTTATTTAAAACTTCT-TTTTACATATTATTTACTTT
*
20702232 AAA-TTGTTTTATACTATTT
65 AAACTT-TTTAATACTATTT
20702251 ACTTCAAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
97 3 0.04
98 35 0.49
99 2 0.03
100 26 0.37
101 5 0.07
ACGTcount: A:0.28, C:0.05, G:0.06, T:0.62
Consensus pattern (101 bp):
ATTTATTTTTAAACTGTTTTGTATATTATTTATTTAAAACTTCTTTTTACATATTATTTACTTTA
AACTTTTTAATACTATTTTAAATTGTCTTATATGTT
Found at i:20702277 original size:98 final size:98
Alignment explanation
Indices: 20702065--20702276 Score: 232
Period size: 100 Copynumber: 2.1 Consensus size: 98
20702055 ATTTTTATAC
*
20702065 ATATCATTTATTTTTAAACTGTTTTGTATATTATTTATTTAAAACTTCTTTTTACATATTATTTA
1 ATATTATTTA-TTTTAAACTGTTTTGTATATTATTTATTTAAAACTTCTTTTTACATATTATTTA
* * *
20702130 TTTTAAACTTTTTAATATTATTTTAAATTGTCTT
65 CTTTAAACTTTTTAATATTACTTCAAATTGTCTT
* * * *
20702164 ATATGTTATTTATTTTAAATTGTTTTGTATGTTGTTTATTT-TAA-TT-TGTTTTACATATTATT
1 ATA--TTATTTATTTTAAACTGTTTTGTATATTATTTATTTAAAACTTCT-TTTTACATATTATT
*
20702226 TACTTTAAATTGTTTTATACTATTTACTTCAAATTGTTCTAT
63 TACTTTAAACT-TTTTA-A-TA-TTACTTCAAATTG-TCT-T
20702268 ATATTATTT
1 ATATTATTT
20702277 TGGTTCGCTT
Statistics
Matches: 95, Mismatches: 9, Indels: 15
0.80 0.08 0.13
Matches are distributed among these distances:
97 1 0.01
98 25 0.26
99 10 0.11
100 27 0.28
101 8 0.08
102 17 0.18
103 3 0.03
104 4 0.04
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.60
Consensus pattern (98 bp):
ATATTATTTATTTTAAACTGTTTTGTATATTATTTATTTAAAACTTCTTTTTACATATTATTTAC
TTTAAACTTTTTAATATTACTTCAAATTGTCTT
Found at i:20702436 original size:16 final size:16
Alignment explanation
Indices: 20702415--20702470 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
20702405 CGTTTGGTTC
20702415 GCTGTAATTGAATAGA
1 GCTGTAATTGAATAGA
*
20702431 GCTGTAATTGAGTAGA
1 GCTGTAATTGAATAGA
*
20702447 GCTGTAATGGAATAGA
1 GCTGTAATTGAATAGA
*
20702463 ACTGTAAT
1 GCTGTAAT
20702471 AGTAATTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (16 bp):
GCTGTAATTGAATAGA
Found at i:20702506 original size:45 final size:44
Alignment explanation
Indices: 20702452--20702544 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
20702442 GTAGAGCTGT
20702452 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTT-GAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTAG-ATGG
*
20702497 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTAGATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTAGATGG
20702541 AATG
1 AATG
20702545 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
43 1 0.02
44 21 0.47
45 23 0.51
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTAGATGG
Found at i:20702791 original size:20 final size:21
Alignment explanation
Indices: 20702752--20702791 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
20702742 AATTTACTAA
*
20702752 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
20702773 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
20702792 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:20702881 original size:59 final size:59
Alignment explanation
Indices: 20702698--20702886 Score: 162
Period size: 59 Copynumber: 3.2 Consensus size: 59
20702688 CATAACTGTT
* *
20702698 ATAAAATATAATTTAATAAAATTGTTAATA-AA-TATTCTTATATGAATTTACTAATAAAATC
1 ATAATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTAC---T-AAATC
* * * * * *
20702759 ATAATATATAA--TACTAAAATATAATTTAAAATAATTATTATTAAACAT-AATTTAAT-AA--
1 ATAATATATAATTTAATAAAAT-T--CTTAATATAATTATTCTT--ATATGAATTTACTAAATC
20702817 A-AATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAATC
1 ATAATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAATC
20702875 ATAATATATAAT
1 ATAATATATAAT
20702887 AATATAAAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
54 3 0.03
55 7 0.07
56 17 0.17
57 9 0.09
58 3 0.03
59 26 0.26
60 3 0.03
61 10 0.10
62 6 0.06
63 2 0.02
64 6 0.06
65 6 0.06
66 3 0.03
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (59 bp):
ATAATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAATC
Done.