Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 128 of 172
Found at i:36555710 original size:13 final size:13
Alignment explanation
Indices: 36555694--36555718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36555684 TTTAAAAGCA
36555694 TTTCTCAAAAATT
1 TTTCTCAAAAATT
36555707 TTTCTCAAAAAT
1 TTTCTCAAAAAT
36555719 ATTACTAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTCTCAAAAATT
Found at i:36566711 original size:19 final size:19
Alignment explanation
Indices: 36566687--36566732 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
36566677 ACGCGTCAGG
*
36566687 ATGCACTTCGTGTGCCACT
1 ATGCACTTCGTGTGCCACC
36566706 ATGCACTTCGTGTGCCACC
1 ATGCACTTCGTGTGCCACC
36566725 ATGCACTT
1 ATGCACTT
36566733 TACGTACTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.30
Consensus pattern (19 bp):
ATGCACTTCGTGTGCCACC
Found at i:36570221 original size:42 final size:42
Alignment explanation
Indices: 36570169--36570266 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
36570159 GCTCTCGGTA
* *
36570169 TCGCACACTTAGTGCCCCTTATTCAACATCATTATTTAAATT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTAAATT
* * * *
36570211 TCGCACACTTAGTTCCCATTATTCAACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTAAATT
36570253 TCGCACACTTAGTG
1 TCGCACACTTAGTG
36570267 TCGTTCATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.26, C:0.27, G:0.10, T:0.38
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTAAATT
Found at i:36573354 original size:92 final size:92
Alignment explanation
Indices: 36573189--36573377 Score: 270
Period size: 92 Copynumber: 2.1 Consensus size: 92
36573179 ATATCACATT
* * *
36573189 TGGTACATGTATTTTCATAAAATGTCCAATATGATCCCTGTACTTTGAAAATATTTAATGTGGTA
1 TGGTACATGTACTTTCATAAAATGTCCAATATGATACCTGTACTTTGAAAATATATAATGTGGTA
** *
36573254 TTTGAACTATCAATATGTGTTTTATTA
66 CCTAAACTATCAATATGTGTTTTATTA
* * * * *
36573281 TGGTACATTTACTTTCATAAAATGTCCAATGTGGTACTTGTACTTTGAAAATGTATAATGTGGTA
1 TGGTACATGTACTTTCATAAAATGTCCAATATGATACCTGTACTTTGAAAATATATAATGTGGTA
*
36573346 CCTAAACTATCAATATTTGTTTTATTA
66 CCTAAACTATCAATATGTGTTTTATTA
36573373 TGGTA
1 TGGTA
36573378 GTGGGTGTTA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (92 bp):
TGGTACATGTACTTTCATAAAATGTCCAATATGATACCTGTACTTTGAAAATATATAATGTGGTA
CCTAAACTATCAATATGTGTTTTATTA
Found at i:36573515 original size:5 final size:5
Alignment explanation
Indices: 36573507--36573531 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36573497 AAACTAAAAT
36573507 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
36573532 GAAAAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:36582490 original size:62 final size:62
Alignment explanation
Indices: 36582393--36582521 Score: 249
Period size: 62 Copynumber: 2.1 Consensus size: 62
36582383 CTTTACTTCG
36582393 GCTCAACACTCGAAAACCTAGTCTTGAAAGATTGAAATGATTTATCTTGTTAGTAAATCATC
1 GCTCAACACTCGAAAACCTAGTCTTGAAAGATTGAAATGATTTATCTTGTTAGTAAATCATC
36582455 GCTCAACACTCGAAAACCTAGTCTTGAAAGATTGAAATGATTTATCTTGTTAGTAAATCATC
1 GCTCAACACTCGAAAACCTAGTCTTGAAAGATTGAAATGATTTATCTTGTTAGTAAATCATC
*
36582517 ACTCA
1 GCTCA
36582522 CTTAGGCCCC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (62 bp):
GCTCAACACTCGAAAACCTAGTCTTGAAAGATTGAAATGATTTATCTTGTTAGTAAATCATC
Found at i:36584091 original size:6 final size:6
Alignment explanation
Indices: 36584082--36584140 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
36584072 TTTATTACTA
* * *
36584082 TTATTT TTATTT TT-TATT TTA-TT TTATTT TTACTT TTACTT TTACGTT
1 TTATTT TTATTT TTAT-TT TTATTT TTATTT TTATTT TTATTT TTA-TTT
*
36584130 TTATTT ATATT
1 TTATTT TTATT
36584141 AAACATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 6 0.13
6 34 0.76
7 5 0.11
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:36584108 original size:17 final size:16
Alignment explanation
Indices: 36584086--36584140 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 16
36584076 TTACTATTAT
36584086 TTTTATTTTTTATTTTA
1 TTTTA-TTTTTATTTTA
36584103 TTTTATTTTTACTTTTA
1 TTTTATTTTTA-TTTTA
*
36584120 CTTTTACGTTTTATTTATA
1 -TTTTA-TTTTTATTT-TA
36584139 TT
1 TT
36584141 AAACATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 6 0.18
17 10 0.30
18 10 0.30
19 7 0.21
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:36584112 original size:23 final size:25
Alignment explanation
Indices: 36584076--36584140 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
36584066 AACAGTTTTA
*
36584076 TTACTATTATTTTTATTTTTTA-TT
1 TTACTTTTATTTTTATTTTTTACTT
*
36584100 TTA-TTTTATTTTTA-CTTTTACTT
1 TTACTTTTATTTTTATTTTTTACTT
*
36584123 TTACGTTTTATTTATATT
1 TTAC-TTTTATTTTTATT
36584141 AAACATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 5 0.15
23 15 0.45
24 3 0.09
25 10 0.30
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (25 bp):
TTACTTTTATTTTTATTTTTTACTT
Found at i:36584118 original size:12 final size:12
Alignment explanation
Indices: 36584076--36584135 Score: 61
Period size: 12 Copynumber: 5.0 Consensus size: 12
36584066 AACAGTTTTA
*
36584076 TTACTATTATTT
1 TTACTTTTATTT
*
36584088 TTA-TTTTTTATT
1 TTACTTTTAT-TT
36584100 TTA-TTTTATTT
1 TTACTTTTATTT
*
36584111 TTACTTTTACTT
1 TTACTTTTATTT
36584123 TTACGTTTTATTT
1 TTAC-TTTTATTT
36584136 ATATTAAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 9 0.22
12 24 0.60
13 7 0.17
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (12 bp):
TTACTTTTATTT
Found at i:36591969 original size:12 final size:12
Alignment explanation
Indices: 36591952--36591976 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36591942 CCATCACCAA
36591952 ACTTTATGAAAC
1 ACTTTATGAAAC
36591964 ACTTTATGAAAC
1 ACTTTATGAAAC
36591976 A
1 A
36591977 TATTGTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ACTTTATGAAAC
Found at i:36595831 original size:151 final size:150
Alignment explanation
Indices: 36595648--36595952 Score: 434
Period size: 151 Copynumber: 2.0 Consensus size: 150
36595638 GTTTTGAAAT
* *
36595648 TAATAATAATATATATGAATATGTGCTATGAAATTTAAAAAATAAATTTATTTAAATTGTGAGTA
1 TAATAATAATATATATGAATA-GTGCTATGAAATTAAAAAAATAAATTTATTTAAATTGTAAGTA
* *** ***
36595713 AAATTAAATTTAAATAGGTAAATACATATGATAAAAAATATTAAATGCACTTTAATTATTTTTCT
65 AAAATAAATTTAAATAAACAAATACATATGATAAAAAATATTAAATGCACCCCAATT-TTTTTCT
*
36595778 AGCTCAGTGTTGTCATTTTTCTA
129 AACT-AGTGTTGTCATTTTTCTA
36595801 TAATAATAATATATATGTAATA-TG-TATGAAATTAAAAAAATAAATTTATTTAAATTGTAAGTA
1 TAATAATAATATATATG-AATAGTGCTATGAAATTAAAAAAATAAATTTATTTAAATTGTAAGTA
* *
36595864 AAAATAAATTTAATTAAACAAATACATATGATCAAAAATATTAAATGCACCCCAATTTTTTTCTA
65 AAAATAAATTTAAATAAACAAATACATATGATAAAAAATATTAAATGCACCCCAATTTTTTTCTA
* *
36595929 ACTAGTGTTGTCGTTTTTTTA
130 ACTAGTGTTGTCATTTTTCTA
36595950 TAA
1 TAA
36595953 CACCTTACAA
Statistics
Matches: 137, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
149 19 0.14
150 10 0.07
151 85 0.62
152 2 0.01
153 17 0.12
154 4 0.03
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.40
Consensus pattern (150 bp):
TAATAATAATATATATGAATAGTGCTATGAAATTAAAAAAATAAATTTATTTAAATTGTAAGTAA
AAATAAATTTAAATAAACAAATACATATGATAAAAAATATTAAATGCACCCCAATTTTTTTCTAA
CTAGTGTTGTCATTTTTCTA
Found at i:36598056 original size:30 final size:30
Alignment explanation
Indices: 36598022--36598085 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
36598012 GCCCTTACCA
* *
36598022 TTGCTGTTGCCCT-TGCCCTTACCATTGCTG
1 TTGCTGTTGCCATAT-CCATTACCATTGCTG
*
36598052 TTGCTGTTGCCATATCCATTACCATTGTTG
1 TTGCTGTTGCCATATCCATTACCATTGCTG
36598082 TTGC
1 TTGC
36598086 CATTCCCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.11, C:0.28, G:0.19, T:0.42
Consensus pattern (30 bp):
TTGCTGTTGCCATATCCATTACCATTGCTG
Found at i:36598062 original size:24 final size:24
Alignment explanation
Indices: 36598000--36598055 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
36597990 TGCCATCGTC
*
36598000 GCTGTCGCCCTTGCCCTTACCATT
1 GCTGTTGCCCTTGCCCTTACCATT
36598024 GCTGTTGCCCTTGCCCTTACCATT
1 GCTGTTGCCCTTGCCCTTACCATT
36598048 GCTGTTGC
1 GCTGTTGC
36598056 TGTTGCCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.38, G:0.20, T:0.36
Consensus pattern (24 bp):
GCTGTTGCCCTTGCCCTTACCATT
Found at i:36598071 original size:24 final size:24
Alignment explanation
Indices: 36598000--36598064 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
36597990 TGCCATCGTC
* *
36598000 GCTGTCGCCCTTGCCCTTACCATT
1 GCTGTTGCCCTTGCCATTACCATT
*
36598024 GCTGTTGCCCTTGCCCTTACCATT
1 GCTGTTGCCCTTGCCATTACCATT
**
36598048 GCTGTTGCTGTTGCCAT
1 GCTGTTGCCCTTGCCAT
36598065 ATCCATTACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.08, C:0.35, G:0.20, T:0.37
Consensus pattern (24 bp):
GCTGTTGCCCTTGCCATTACCATT
Found at i:36601719 original size:101 final size:99
Alignment explanation
Indices: 36601613--36601911 Score: 304
Period size: 91 Copynumber: 3.1 Consensus size: 99
36601603 ATTTAATATT
36601613 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
36601678 ATCATTATTAAAT-TA--T-AT-TTAA-TA--TT-
66 AT-ATTATTAAATATATTTAATATTAATTATTTTA
36601704 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
*
36601769 ATTATTATTAAATTATATTTAATAATAATTATTTTA
66 A-TATTATTAAA-TATATTTAATATTAATTATTTTA
** * * * *
36601805 AATTA-TACAAATTCATATAAGAAAATTTAT-TAGGTATAA-TTATTAT--A-AATTTTATTAAA
1 AATTATTTTAAATT-ATAT----AAATTCATATAAG-AAAATTTATTATCAAGAATTTTATGAAA
* * *
36601864 TCATATATTTTAATTAAAATATATTTAATATTAATTATTTCA
60 TTATATATATT-ATT-AAATATATTTAATATTAATTATTTTA
36601906 AATTAT
1 AATTAT
36601912 ATTTTATAGT
Statistics
Matches: 177, Mismatches: 11, Indels: 29
0.82 0.05 0.13
Matches are distributed among these distances:
91 75 0.42
92 2 0.01
93 2 0.01
95 1 0.01
96 2 0.01
97 3 0.02
98 2 0.01
100 11 0.06
101 55 0.31
102 4 0.02
104 10 0.06
105 10 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (99 bp):
AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
ATATTATTAAATATATTTAATATTAATTATTTTA
Found at i:36601855 original size:91 final size:91
Alignment explanation
Indices: 36601578--36601836 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
36601568 TTAAATGTAT
36601578 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
36601643 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
36601669 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
36601734 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
36601760 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
36601825 GAAAATTTATTA
66 GAAAATTTATTA
36601837 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:36602007 original size:16 final size:16
Alignment explanation
Indices: 36601986--36602027 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
36601976 TTATTAAATT
*
36601986 ATATATTTTAATTATA
1 ATATATTTTAATAATA
36602002 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
36602017 AT-TATGTTTAA
1 ATATAT-TTTAA
36602028 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:36602012 original size:15 final size:15
Alignment explanation
Indices: 36601977--36602018 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
36601967 TTAAGAATTT
*
36601977 TATTAAATTAT-ATA
1 TATTTAATTATAATA
36601991 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
36602005 TATTTAATAATAAT
1 TATTTAATTATAAT
36602019 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:36602268 original size:16 final size:16
Alignment explanation
Indices: 36602243--36602278 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
36602233 GATTTGCTAT
*
36602243 TACACCTCTAATCCAA
1 TACACATCTAATCCAA
36602259 TACACATCTAATCCAA
1 TACACATCTAATCCAA
36602275 TACA
1 TACA
36602279 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACATCTAATCCAA
Found at i:36605814 original size:29 final size:28
Alignment explanation
Indices: 36605768--36605836 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
36605758 ATTTTATGTT
36605768 TTTTTTTATGAAATTTTTATATATTTTAAA
1 TTTTTTT-TGAAATTTTTATA-ATTTTAAA
36605798 TTTTTTTTG-AATATTTTATAATTTTAAA
1 TTTTTTTTGAAAT-TTTTATAATTTTAAA
36605826 TTATTTTTTGA
1 TT-TTTTTTGA
36605837 CGTAACATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
28 13 0.36
29 16 0.44
30 7 0.19
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTTTTTTGAAATTTTTATAATTTTAAA
Found at i:36607377 original size:30 final size:30
Alignment explanation
Indices: 36607296--36607383 Score: 113
Period size: 31 Copynumber: 2.9 Consensus size: 30
36607286 GTTGATGTAT
** **
36607296 AGGGTTTAATTGTTATTTTAATTATTTTATG
1 AGGGTTTAATTAAT-TTTTAATTATTTTAAA
*
36607327 AGGGCTTAATTAATTTTTTAATTATTTTAAA
1 AGGGTTTAATTAA-TTTTTAATTATTTTAAA
36607358 AGGGTTTAATTAATTTTTAATTATTT
1 AGGGTTTAATTAATTTTTAATTATTT
36607384 AAGTCTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 13 0.26
31 36 0.72
32 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (30 bp):
AGGGTTTAATTAATTTTTAATTATTTTAAA
Found at i:36611483 original size:18 final size:18
Alignment explanation
Indices: 36611448--36611492 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
36611438 AAAAAAGTAT
* **
36611448 TTTAAAAATATTTTAAAA
1 TTTAAAAAAATTAAAAAA
36611466 TTTAAAAAAATTAAAAAA
1 TTTAAAAAAATTAAAAAA
36611484 -TTAAAAAAA
1 TTTAAAAAAA
36611493 AAGTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TTTAAAAAAATTAAAAAA
Found at i:36611938 original size:2 final size:2
Alignment explanation
Indices: 36611931--36611958 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36611921 CAACCGTTTG
36611931 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
36611959 TCGAATACAT
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:36613989 original size:8 final size:10
Alignment explanation
Indices: 36613976--36614031 Score: 59
Period size: 10 Copynumber: 6.1 Consensus size: 10
36613966 TAAGCTCTTC
36613976 ATTTTCT-T-
1 ATTTTCTATA
*
36613984 ATTTTCTGTA
1 ATTTTCTATA
36613994 ATTTTCTATA
1 ATTTTCTATA
36614004 ATTTT-TAT-
1 ATTTTCTATA
*
36614012 ATTTT-TATT
1 ATTTTCTATA
36614021 ATTTTCTATA
1 ATTTTCTATA
36614031 A
1 A
36614032 CTTATTGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
8 15 0.36
9 9 0.21
10 18 0.43
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTTCTATA
Found at i:36621934 original size:27 final size:27
Alignment explanation
Indices: 36621904--36621972 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
36621894 TCAGAACCAC
36621904 TAGCCCAATAACCCAATAGCCTACCCT
1 TAGCCCAATAACCCAATAGCCTACCCT
36621931 TAGCCCAATAACCCAATAGCCTACCCT
1 TAGCCCAATAACCCAATAGCCTACCCT
*
36621958 CAGCCCAA-AACCCAA
1 TAGCCCAATAACCCAA
36621973 AAACAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 7 0.17
27 34 0.83
ACGTcount: A:0.36, C:0.42, G:0.07, T:0.14
Consensus pattern (27 bp):
TAGCCCAATAACCCAATAGCCTACCCT
Found at i:36623123 original size:3 final size:3
Alignment explanation
Indices: 36623117--36623151 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
36623107 TTGTTTATTC
36623117 TAT TAT TAT TAT TAT TAT TAT TAT TAT TACT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T
36623152 TGTTTGTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:36623707 original size:18 final size:18
Alignment explanation
Indices: 36623686--36623720 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36623676 TATACACCCA
*
36623686 TATATATGTACATATTTT
1 TATATATATACATATTTT
36623704 TATATATATACATATTT
1 TATATATATACATATTT
36623721 ATCGTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:36625055 original size:44 final size:45
Alignment explanation
Indices: 36624999--36625091 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 45
36624989 TTTCAATTCA
* * *
36624999 ATTTTGAGAAAATCACATTTATTTTTGAATG-ATTCCATTTCTCC
1 ATTTTGAGAAAATCACAATCATTTCTGAATGTATTCCATTTCTCC
* * *
36625043 ATTTTG-GAAAAATCATAATCATTTCTGAATGTTTTCCATTTCTCT
1 ATTTTGAG-AAAATCACAATCATTTCTGAATGTATTCCATTTCTCC
36625088 ATTT
1 ATTT
36625092 CTATTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 25 0.61
45 15 0.37
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (45 bp):
ATTTTGAGAAAATCACAATCATTTCTGAATGTATTCCATTTCTCC
Found at i:36628060 original size:15 final size:16
Alignment explanation
Indices: 36628037--36628071 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
36628027 TTAATCAAAA
36628037 TTAACTTAATTAACTC
1 TTAACTTAATTAACTC
*
36628053 TTAA-TTAATTAAGTC
1 TTAACTTAATTAACTC
36628068 TTAA
1 TTAA
36628072 GGATAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (16 bp):
TTAACTTAATTAACTC
Found at i:36631467 original size:19 final size:20
Alignment explanation
Indices: 36631440--36631484 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
36631430 CTTATACACC
* *
36631440 AAAAAATATATAATT-AATT
1 AAAATATATAAAATTCAATT
36631459 AAAATATATAAAATTCAATT
1 AAAATATATAAAATTCAATT
*
36631479 TAAATA
1 AAAATA
36631485 ATTAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATATATAAAATTCAATT
Found at i:36642269 original size:18 final size:18
Alignment explanation
Indices: 36642245--36642280 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36642235 TATTTATGGT
36642245 AATATAT-TAT-TTTTAA
1 AATATATATATATTTTAA
36642261 AATATATATATATTTTAA
1 AATATATATATATTTTAA
36642279 AA
1 AA
36642281 AAATTAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATATATATATATTTTAA
Found at i:36642282 original size:20 final size:18
Alignment explanation
Indices: 36642246--36642281 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
36642236 ATTTATGGTA
*
36642246 ATATATTATTTTTAAAAT
1 ATATATTATTTTAAAAAT
36642264 ATATATATATTTTAAAAA
1 ATATAT-TATTTTAAAAA
36642282 AATTAATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATATTATTTTAAAAAT
Found at i:36648795 original size:20 final size:19
Alignment explanation
Indices: 36648752--36648795 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
36648742 AAGGATTATT
*
36648752 TTTTAATATTTAAAATATA
1 TTTTAATATTTAAAATAAA
* *
36648771 GTTTATATATTTAAATTAAA
1 TTTTA-ATATTTAAAATAAA
36648791 TTTTA
1 TTTTA
36648796 CAAAAAATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTAATATTTAAAATAAA
Found at i:36650358 original size:24 final size:24
Alignment explanation
Indices: 36650323--36650370 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
36650313 AATTTAAATT
36650323 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
36650348 TTATATT-ATATTAAATAAAATAA
1 TTATATTAATATTAAATAAAATAA
36650371 AGATCCCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.17
24 12 0.52
25 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:36650841 original size:21 final size:19
Alignment explanation
Indices: 36650807--36650850 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
36650797 TAATACAAAA
*
36650807 TTTAAAATTATTATTATATT
1 TTTAAAAATATTA-TATATT
*
36650827 TTTAAAAATATTTATGTATT
1 TTTAAAAATA-TTATATATT
36650847 TTTA
1 TTTA
36650851 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTAAAAATATTATATATT
Found at i:36659750 original size:82 final size:81
Alignment explanation
Indices: 36659650--36659805 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
36659640 AAGTCCTAAT
* * *
36659650 TTTTCTAAATTCAAAATTCACATCCTAGATAGCGTTCAGATTAATCTATTTATATTCT-ATTAAA
1 TTTTCTAAATTCAAAATTCACATCCTAGATAGCATTCAGATT-ATCTATTTACATT-TGATCAAA
36659714 CACATGCAAGGTAATTTG
64 CACATGCAAGGTAATTTG
* * *** * *
36659732 TTTTCTAAGTTCAAAATTCATATCCTTTTTAGCATTCTGATTATCTATTTACATTTGATCAATCA
1 TTTTCTAAATTCAAAATTCACATCCTAGATAGCATTCAGATTATCTATTTACATTTGATCAAACA
36659797 CATGCAAGG
66 CATGCAAGG
36659806 CAAATGATGC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.02
81 27 0.43
82 35 0.56
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (81 bp):
TTTTCTAAATTCAAAATTCACATCCTAGATAGCATTCAGATTATCTATTTACATTTGATCAAACA
CATGCAAGGTAATTTG
Found at i:36662804 original size:23 final size:23
Alignment explanation
Indices: 36662774--36662821 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
36662764 GACTTTTGCT
36662774 TACCATGAAGAACCTGTACACAG
1 TACCATGAAGAACCTGTACACAG
36662797 TACCATGAAGAACCTGTACACAG
1 TACCATGAAGAACCTGTACACAG
36662820 TA
1 TA
36662822 ACATAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (23 bp):
TACCATGAAGAACCTGTACACAG
Found at i:36670425 original size:11 final size:13
Alignment explanation
Indices: 36670399--36670427 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36670389 CCGTATTAAC
36670399 TTTTTTATATTAT
1 TTTTTTATATTAT
36670412 TTTTTTATATT-T
1 TTTTTTATATTAT
36670424 TTTT
1 TTTT
36670428 AAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTATATTAT
Found at i:36671343 original size:6 final size:6
Alignment explanation
Indices: 36671334--36671364 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
36671324 ATAATTTACT
36671334 TTAGGA TTAGGA TTAGGA TTAGGA TTAGGA T
1 TTAGGA TTAGGA TTAGGA TTAGGA TTAGGA T
36671365 GATACTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (6 bp):
TTAGGA
Found at i:36671652 original size:28 final size:27
Alignment explanation
Indices: 36671586--36671655 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
36671576 CTTGAATCTC
* * *
36671586 AAACCCAAAATCATGAACCCTAAATCT
1 AAACCCAAAATCCTGAACCCAAAACCT
*
36671613 AGAATCTC-AAATCCTGAACCCAAAACCTT
1 A-AA-CCCAAAATCCTGAACCCAAAACC-T
36671642 AAACCCAAAATCCT
1 AAACCCAAAATCCT
36671656 AAACTTGATC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.09
28 27 0.79
29 4 0.12
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (27 bp):
AAACCCAAAATCCTGAACCCAAAACCT
Found at i:36671658 original size:14 final size:14
Alignment explanation
Indices: 36671586--36671659 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
36671576 CTTGAATCTC
*
36671586 AAACCCAAAATCAT
1 AAACCCAAAATCCT
* *
36671600 GAACCCTAAAT-CT
1 AAACCCAAAATCCT
*
36671613 AGAATCTC-AAATCCT
1 A-AA-CCCAAAATCCT
*
36671628 GAACCCAAAA-CCTT
1 AAACCCAAAATCC-T
36671642 AAACCCAAAATCCT
1 AAACCCAAAATCCT
36671656 AAAC
1 AAAC
36671660 TTGATCACCG
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
13 5 0.11
14 35 0.76
15 6 0.13
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.18
Consensus pattern (14 bp):
AAACCCAAAATCCT
Found at i:36677372 original size:8 final size:8
Alignment explanation
Indices: 36677361--36677398 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
36677351 ATATAAAAAT
*
36677361 ATTTTTAG
1 ATTTTTAA
36677369 ATTTTTAA
1 ATTTTTAA
36677377 ATTTTTAA
1 ATTTTTAA
36677385 ATTTTTAA
1 ATTTTTAA
36677393 ATTTTT
1 ATTTTT
36677399 TAAAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (8 bp):
ATTTTTAA
Found at i:36677522 original size:17 final size:18
Alignment explanation
Indices: 36677491--36677524 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36677481 CAAATAACAC
*
36677491 AAATTCAAAAGTTAAAAA
1 AAATTCAAAAATTAAAAA
36677509 AAATT-AAAAATTAAAA
1 AAATTCAAAAATTAAAA
36677525 TAATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (18 bp):
AAATTCAAAAATTAAAAA
Found at i:36679503 original size:30 final size:30
Alignment explanation
Indices: 36679469--36679525 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
36679459 CATACCAGAT
*
36679469 GAGGTTGACGGAAGAGATATTGAGATAGAG
1 GAGGTCGACGGAAGAGATATTGAGATAGAG
* * *
36679499 GAGGTCGATGGAAGCGATGTTGAGATA
1 GAGGTCGACGGAAGAGATATTGAGATA
36679526 TTAATAGAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.40, T:0.21
Consensus pattern (30 bp):
GAGGTCGACGGAAGAGATATTGAGATAGAG
Found at i:36679536 original size:36 final size:37
Alignment explanation
Indices: 36679482--36679564 Score: 132
Period size: 36 Copynumber: 2.2 Consensus size: 37
36679472 GTTGACGGAA
36679482 GAGATATTGAGATAGAGGAGGTCGATGGAAGCGATGTT
1 GAGATATT-AGATAGAGGAGGTCGATGGAAGCGATGTT
* *
36679520 GAGATATTA-ATAGAGGAGGTGGATGGAAGGGATGTT
1 GAGATATTAGATAGAGGAGGTCGATGGAAGCGATGTT
36679556 GAGATATTA
1 GAGATATTA
36679565 TAGTTATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 34 0.79
37 1 0.02
38 8 0.19
ACGTcount: A:0.34, C:0.02, G:0.39, T:0.25
Consensus pattern (37 bp):
GAGATATTAGATAGAGGAGGTCGATGGAAGCGATGTT
Found at i:36681621 original size:15 final size:15
Alignment explanation
Indices: 36681601--36681654 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
36681591 ATACTACAAA
36681601 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
36681616 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
36681633 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
36681650 ATATT
1 ATATT
36681655 AATACCGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:36681622 original size:31 final size:31
Alignment explanation
Indices: 36681584--36681659 Score: 82
Period size: 34 Copynumber: 2.4 Consensus size: 31
36681574 GGCATATTTT
36681584 AATATTTATACTACA-AAATATTTATTATTAA
1 AATATTTATACTA-ATAAATATTTATTATTAA
* *
36681615 TATATTTATAATTGTAATAAATATTTATTATTAA
1 AATATTTAT-A--CTAATAAATATTTATTATTAA
*
36681649 AATATTAATAC
1 AATATTTATAC
36681660 CGAATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
31 8 0.22
32 1 0.03
33 2 0.06
34 25 0.69
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (31 bp):
AATATTTATACTAATAAATATTTATTATTAA
Found at i:36684813 original size:42 final size:42
Alignment explanation
Indices: 36684756--36684873 Score: 173
Period size: 42 Copynumber: 2.8 Consensus size: 42
36684746 GTTTACAAAC
* *
36684756 AAAAACGCCGCTAAAGACCATGATCTTTAGCGGCACTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCACTTAGAA
* * *
36684798 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCACTTAGAA
**
36684840 AAAAACGCCGCTAAAGTTCATGTTCTTTAGCGGC
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
36684874 GTTTTTCTCT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCACTTAGAA
Found at i:36684938 original size:41 final size:42
Alignment explanation
Indices: 36684858--36684962 Score: 176
Period size: 41 Copynumber: 2.5 Consensus size: 42
36684848 CGCTAAAGTT
*
36684858 CATGTTCTTTAGCGGCGTTTTTCTCTAAGCGCCTTTAAAGAA
1 CATGTTCTTTAGCGGCGTTTTTCTCTAAGCGCCTCTAAAGAA
* *
36684900 CATGGTCTTTAGCGGCATTTTT-TCTAAGCGCCTCTAAAGAA
1 CATGTTCTTTAGCGGCGTTTTTCTCTAAGCGCCTCTAAAGAA
36684941 CATGTTCTTTAGCGGCGTTTTT
1 CATGTTCTTTAGCGGCGTTTTT
36684963 ATACAAAAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
41 38 0.66
42 20 0.34
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (42 bp):
CATGTTCTTTAGCGGCGTTTTTCTCTAAGCGCCTCTAAAGAA
Found at i:36685304 original size:21 final size:21
Alignment explanation
Indices: 36685278--36685327 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
36685268 TTTTACTCTG
*
36685278 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
36685299 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
36685320 CTCTGCTT
1 CTCTGCTT
36685328 TAAGTTGCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.46, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:36686868 original size:58 final size:58
Alignment explanation
Indices: 36686746--36686866 Score: 143
Period size: 58 Copynumber: 2.1 Consensus size: 58
36686736 CATTCTTTTT
* * *
36686746 TTTTTCATTTTCATTTTAGAGAAAACCACATTCATTTCTAAATAATTCCATTTATCCA
1 TTTTTCATTTTCATTTTAGAGAAAAACACAATCATTTCCAAATAATTCCATTTATCCA
* * * * ** *
36686804 TTTTTCATTTTCATTTTGGAGAAAAATATAATCATTTCCGAATGTTTCACATTTCTCCA
1 TTTTTCATTTTCATTTTAGAGAAAAACACAATCATTTCCAAATAATTC-CATTTATCCA
36686863 TTTT
1 TTTT
36686867 CACCATTTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
58 39 0.75
59 13 0.25
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (58 bp):
TTTTTCATTTTCATTTTAGAGAAAAACACAATCATTTCCAAATAATTCCATTTATCCA
Found at i:36688087 original size:13 final size:13
Alignment explanation
Indices: 36688069--36688099 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
36688059 GGTTTGAATA
36688069 GCAAGGCAGATAG
1 GCAAGGCAGATAG
36688082 GCAAGGCAGATAG
1 GCAAGGCAGATAG
36688095 GCAAG
1 GCAAG
36688100 CTTCCGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.39, T:0.06
Consensus pattern (13 bp):
GCAAGGCAGATAG
Found at i:36690038 original size:103 final size:103
Alignment explanation
Indices: 36689909--36690277 Score: 562
Period size: 103 Copynumber: 3.6 Consensus size: 103
36689899 ATTGCATATA
** * *
36689909 AAGGGGTTGCTGTGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
36689974 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
* *
36690012 GAGGGGTTGCTAAGTGCTGATTCCCCTA-CCTATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATCC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
36690076 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
65 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
** * *
36690115 TCGGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATCCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
* *
36690180 CTGAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCC
65 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
** * *
36690218 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGAATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGGTTGCTAAGTGCTGATTCCACC
36690278 AATAACGGTT
Statistics
Matches: 246, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
102 28 0.11
103 177 0.72
104 41 0.17
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:36692665 original size:32 final size:32
Alignment explanation
Indices: 36692624--36692692 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
36692614 ATTAAGAAAA
36692624 ACATTAGTAACTTTTGTGCAATTTTTTCAATG
1 ACATTAGTAACTTTTGTGCAATTTTTTCAATG
*
36692656 ACATTAGTAACTTTTGTGCAATTTTTTCCATG
1 ACATTAGTAACTTTTGTGCAATTTTTTCAATG
*
36692688 TCATT
1 ACATT
36692693 GACACATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (32 bp):
ACATTAGTAACTTTTGTGCAATTTTTTCAATG
Found at i:36692730 original size:7 final size:7
Alignment explanation
Indices: 36692718--36692747 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
36692708 TAATTATTTT
36692718 ACCTTGA
1 ACCTTGA
36692725 ACCTTGA
1 ACCTTGA
*
36692732 ACCTCGA
1 ACCTTGA
36692739 ACCTTGA
1 ACCTTGA
36692746 AC
1 AC
36692748 TCGAACCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.23
Consensus pattern (7 bp):
ACCTTGA
Found at i:36692752 original size:13 final size:14
Alignment explanation
Indices: 36692718--36692754 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
36692708 TAATTATTTT
*
36692718 ACCTTGAACCTTGA
1 ACCTCGAACCTTGA
36692732 ACCTCGAACCTTGA
1 ACCTCGAACCTTGA
36692746 A-CTCGAACC
1 ACCTCGAACC
36692755 CTAAACATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.30, C:0.35, G:0.14, T:0.22
Consensus pattern (14 bp):
ACCTCGAACCTTGA
Found at i:36694373 original size:19 final size:19
Alignment explanation
Indices: 36694351--36694426 Score: 75
Period size: 18 Copynumber: 3.9 Consensus size: 19
36694341 ATAAAAAAAC
*
36694351 ATAAAAAATCATTAAAATT
1 ATAAAAAATAATTAAAATT
36694370 ATAAAAAA-AATTAAAATT
1 ATAAAAAATAATTAAAATT
*
36694388 -TAACAAAATTATTAGAAATT
1 ATAA-AAAATAATTA-AAATT
* *
36694408 AATTAAAAATAATAAAAAT
1 -ATAAAAAATAATTAAAAT
36694427 ACTTTATTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
17 3 0.06
18 13 0.28
19 12 0.26
20 9 0.19
21 8 0.17
22 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAAAAAATAATTAAAATT
Found at i:36695731 original size:11 final size:10
Alignment explanation
Indices: 36695715--36695757 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
36695705 AAATCTTAAC
36695715 TTTTTATACAA
1 TTTTTATA-AA
36695726 TTTTTATAAA
1 TTTTTATAAA
*
36695736 TTTTTAAAAA
1 TTTTTATAAA
*
36695746 TTTTTAAAAA
1 TTTTTATAAA
36695756 TT
1 TT
36695758 ATATATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 23 0.74
11 8 0.26
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:36700477 original size:207 final size:207
Alignment explanation
Indices: 36699946--36700965 Score: 1445
Period size: 207 Copynumber: 4.9 Consensus size: 207
36699936 TTGCGATAAA
* * * *
36699946 TCTTCAATCATACGCCTCATCTTTGACAACTCTATTTCTTGACTTTGATTTTCTCTTTCTTGACC
1 TCTTCTATCATACGCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCTCTTCCTTGACC
* * * * *
36700011 TCTTATATGCCCATTCATGGCTTAAAAGTGATTTCTAATATAAGTCATAGGATCTAATTA-AGCT
66 TCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCTAATTAGA-CT
* * *
36700075 CTGATACCAAAATTGATGTGGTAAATTATTTGGTTGAGTGAAAAACCTAAATAGCTAAAAAAATT
130 CTGATACCAAAATTGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAATT
*
36700140 AAAATGTGTCAAT
195 AAAATGTGACAAT
*
36700153 TCTTTTATCATA-GCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCTCTTCCTTGACC
1 TCTTCTATCATACGCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCTCTTCCTTGACC
* *
36700217 TCTTGTATGTCCAATCATGGCTTAAAAGTGATTTTCAATATAAGTCATAAGATCTAATTAGACTC
66 TCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCTAATTAGACTC
* *
36700282 TGATACCAAAATTGATGCT-GTAAATTATTAAGTTGAGTGGAAAATCTAAATAGTTAAAAAAATT
131 TGATACCAAAATTGATG-TGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAATT
36700346 AAAATGTGACAAT
195 AAAATGTGACAAT
* * * *
36700359 TCTTCTATCATACGCCTCATCTCTGACAACTCTATTTTTTGGCTTTGATTTTCTCTTACTTTACC
1 TCTTCTATCATACGCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCTCTTCCTTGACC
* * * **
36700424 TCTTGTATGTCTAGTCTTGGCTTAAAAGTGATTTCCAATATAAGTCCTAAGATCTAATTATTCTC
66 TCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCTAATTAGACTC
*
36700489 TGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAATTA
131 TGATACCAAAATTGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAATTA
*
36700554 AAATGGGACAAT
196 AAATGTGACAAT
* ** * * *
36700566 TCTTCTATCATGCATCTCATCTCTGACAACTCTGTTTGTTGGTTTTGATTTTCTCTTCCTTTGAC
1 TCTTCTATCATACGCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCTCTTCC-TTGAC
* * * * *
36700631 CTCTTGTATGTTCAGTCATGGCTTAAAAGCGATTTCCAATATAAGT-TTTAGAATCTAATTAGGC
65 CTCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAG-ATCTAATTAGAC
* * * *
36700695 TTTGATATCACAATTGATGTGGTAAATTATTTGGTTGAGTGGAAAATCTAAATAGCTAAAAAAAT
129 TCTGATACCAAAATTGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAAT
**
36700760 TAAAATGCAACAAT
194 TAAAATGTGACAAT
** *
36700774 TCTTCTATCATGGGCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCTTTTCCTTGACC
1 TCTTCTATCATACGCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCTCTTCCTTGACC
* * * * ** *
36700839 TCTTGTATGTCCAGTCATAGCTTAAAAGTGATTTCCAATAGATGTCCTAAGATCTAATTAGGGTT
66 TCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCTAATTAGACTC
* * *
36700904 TGATACAAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAGTCTAAATAGCTAAAAAAA
131 TGATACCAAAATTGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAA
36700966 ACAGGAGATA
Statistics
Matches: 729, Mismatches: 77, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
206 187 0.26
207 359 0.49
208 183 0.25
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (207 bp):
TCTTCTATCATACGCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCTCTTCCTTGACC
TCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCTAATTAGACTC
TGATACCAAAATTGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAATTA
AAATGTGACAAT
Found at i:36700808 original size:415 final size:413
Alignment explanation
Indices: 36699946--36700965 Score: 1488
Period size: 415 Copynumber: 2.5 Consensus size: 413
36699936 TTGCGATAAA
* * *
36699946 TCTTCAATCATACGCCTCATCTTTGACAACTCTATTTCTTGACTTTGATTTTCTCTTTCTTGACC
1 TCTTCTATCATACGCCTCATCTTTGACAACTCTATTTCTTGGCTTTGATTTTCTCTTACTTGACC
* * * * * *
36700011 TCTTATATGCCCATTCATGGCTTAAAAGTGATTTCTAATATAAGTCATAGGATCTAATTAAGCTC
66 TCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCCTAAGATCTAATTAAGCTC
* * * *
36700076 TGATACCAAAATTGATGTGGTAAATTATTTGGTTGAGTGAAAAACCTAAATAGCTAAAAAAATTA
131 TGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAATTA
* * * *
36700141 AAATGTGTCAATTCTTTTATCATAGCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCT
196 AAATGGGACAATTCTTCTATCATAGCCTCATCTCTGACAACTCTATTTGTTGGCTTTGATTTTCT
* *
36700206 CTTCCTTGACCTCTTGTATGTCCAATCATGGCTTAAAAGTGATTTTCAATATAAGTCATAAGATC
261 CTTCCTTGACCTCTTGTATGTCCAATCATGGCTTAAAAGCGATTTCCAATATAAGTCATAAGATC
*
36700271 TAATTAGACTCTGATACCAAAATTGATGCTGTAAATTATTAAGTTGAGTGGAAAATCTAAATAGT
326 TAATTAGACTCTGATACCAAAATTGATGCTGTAAATTATTAAGTTGAGTGGAAAATCTAAATAGC
**
36700336 TAAAAAAATTAAAATGTGACAAT
391 TAAAAAAATTAAAATGCAACAAT
* * *
36700359 TCTTCTATCATACGCCTCATCTCTGACAACTCTATTTTTTGGCTTTGATTTTCTCTTACTTTACC
1 TCTTCTATCATACGCCTCATCTTTGACAACTCTATTTCTTGGCTTTGATTTTCTCTTACTTGACC
* * **
36700424 TCTTGTATGTCTAGTCTTGGCTTAAAAGTGATTTCCAATATAAGTCCTAAGATCTAATTATTCTC
66 TCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCCTAAGATCTAATTAAGCTC
36700489 TGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAATTA
131 TGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAATTA
* *
36700554 AAATGGGACAATTCTTCTATCAT-GCATCTCATCTCTGACAACTCTGTTTGTTGGTTTTGATTTT
196 AAATGGGACAATTCTTCTATCATAGC--CTCATCTCTGACAACTCTATTTGTTGGCTTTGATTTT
* * * *
36700618 CTCTTCCTTTGACCTCTTGTATGTTCAGTCATGGCTTAAAAGCGATTTCCAATATAAGT-TTTAG
259 CTCTTCC-TTGACCTCTTGTATGTCCAATCATGGCTTAAAAGCGATTTCCAATATAAGTCATAAG
* * * * **
36700682 AATCTAATTAGGCTTTGATATCACAATTGATG-TGGTAAATTATTTGGTTGAGTGGAAAATCTAA
323 -ATCTAATTAGACTCTGATACCAAAATTGATGCT-GTAAATTATTAAGTTGAGTGGAAAATCTAA
36700746 ATAGCTAAAAAAATTAAAATGCAACAAT
386 ATAGCTAAAAAAATTAAAATGCAACAAT
** * * *
36700774 TCTTCTATCATGGGCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCTTTTCCTTGACC
1 TCTTCTATCATACGCCTCATCTTTGACAACTCTATTTCTTGGCTTTGATTTTCTCTTACTTGACC
* * * * * *
36700839 TCTTGTATGTCCAGTCATAGCTTAAAAGTGATTTCCAATAGATGTCCTAAGATCTAATTAGGGTT
66 TCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCCTAAGATCTAATTAAGCTC
* *
36700904 TGATACAAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAGTCTAAATAGCTAAAAAAA
131 TGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAA
36700966 ACAGGAGATA
Statistics
Matches: 543, Mismatches: 59, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
412 2 0.00
413 195 0.36
414 45 0.08
415 301 0.55
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (413 bp):
TCTTCTATCATACGCCTCATCTTTGACAACTCTATTTCTTGGCTTTGATTTTCTCTTACTTGACC
TCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCCTAAGATCTAATTAAGCTC
TGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAAAAAAATTA
AAATGGGACAATTCTTCTATCATAGCCTCATCTCTGACAACTCTATTTGTTGGCTTTGATTTTCT
CTTCCTTGACCTCTTGTATGTCCAATCATGGCTTAAAAGCGATTTCCAATATAAGTCATAAGATC
TAATTAGACTCTGATACCAAAATTGATGCTGTAAATTATTAAGTTGAGTGGAAAATCTAAATAGC
TAAAAAAATTAAAATGCAACAAT
Found at i:36708472 original size:18 final size:17
Alignment explanation
Indices: 36708424--36708472 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
36708414 AAATAATCTT
*
36708424 AAAAAAATATAAATATTA
1 AAAAAAATA-AAAAATTA
*
36708442 AAAAAAATAAAAAATTCC
1 AAAAAAATAAAAAATT-A
36708460 AAAAAAATAAAAA
1 AAAAAAATAAAAA
36708473 TAAAAGGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.21
18 22 0.79
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAAATAAAAAATTA
Found at i:36708473 original size:17 final size:16
Alignment explanation
Indices: 36708422--36708477 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
36708412 ACAAATAATC
*
36708422 TTAAAAAAATATAAATA
1 TTAAAAAAA-ATAAAAA
36708439 TTAAAAAAAATAAAAAA
1 TTAAAAAAAAT-AAAAA
*
36708456 TTCCAAAAAAATAAAAA
1 TT-AAAAAAAATAAAAA
36708473 -TAAAA
1 TTAAAA
36708478 GGTTCATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.09
16 3 0.09
17 20 0.59
18 8 0.24
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (16 bp):
TTAAAAAAAATAAAAA
Found at i:36715450 original size:16 final size:15
Alignment explanation
Indices: 36715429--36715459 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
36715419 TAGAATCGGG
36715429 AGTCGCCGAGTCACCA
1 AGTCGCCGAGT-ACCA
36715445 AGTCGCCGAGTACCA
1 AGTCGCCGAGTACCA
36715460 GGTTTGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.26, C:0.35, G:0.26, T:0.13
Consensus pattern (15 bp):
AGTCGCCGAGTACCA
Found at i:36719215 original size:37 final size:37
Alignment explanation
Indices: 36719161--36719312 Score: 216
Period size: 37 Copynumber: 4.1 Consensus size: 37
36719151 TTATGTGTTA
36719161 ATTC-AAGACTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
* *
36719197 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTT
1 ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
* * *
36719234 ATTTAAAGATTTATGTAATGCTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
* *
36719271 ATTTAAAGATTTATGTAATGCTTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATG--TTTTTAATTATGTAGTG
36719310 ATT
1 ATT
36719313 TAATTCGGGT
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
36 4 0.04
37 82 0.78
39 19 0.18
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.49
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
Found at i:36719249 original size:20 final size:20
Alignment explanation
Indices: 36719187--36719287 Score: 79
Period size: 20 Copynumber: 5.3 Consensus size: 20
36719177 ATGTTTTTAA
* *
36719187 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTTAAAGAT
* **
36719207 TTATGTAAT-ATTTTTA-A-
1 TTATGTAGTGATTTAAAGAT
*
36719224 TTATGTAGTTATTTAAAGAT
1 TTATGTAGTGATTTAAAGAT
* * *
36719244 TTATGTAATGCTTT-TA-A-
1 TTATGTAGTGATTTAAAGAT
36719261 TTATGTAGTGATTTAAAGAT
1 TTATGTAGTGATTTAAAGAT
36719281 TTATGTA
1 TTATGTA
36719288 ATGCTTTTTT
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
17 20 0.33
18 8 0.13
19 7 0.11
20 26 0.43
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.49
Consensus pattern (20 bp):
TTATGTAGTGATTTAAAGAT
Found at i:36719269 original size:74 final size:75
Alignment explanation
Indices: 36719149--36719315 Score: 239
Period size: 74 Copynumber: 2.2 Consensus size: 75
36719139 CTTACATGTC
* * *
36719149 AATTATGT-GTTAATTCAAGACTTATGTAATGTTTTTAATTATGTAGTGATTCAAAGACTTATGT
1 AATTATGTAGTTATTTAAAGACTTATGTAATGCTTTTAATTATGTAGTGATTCAAAGACTTATGT
36719213 AAT-ATTTTT
66 AATCATTTTT
* * *
36719222 AATTATGTAGTTATTTAAAGATTTATGTAATGCTTTTAATTATGTAGTGATTTAAAGATTTATGT
1 AATTATGTAGTTATTTAAAGACTTATGTAATGCTTTTAATTATGTAGTGATTCAAAGACTTATGT
*
36719287 AATGCTTTTTT
66 AAT-CATTTTT
*
36719298 AATTATGTAGTGATTTAA
1 AATTATGTAGTTATTTAA
36719316 TTCGGGTAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
73 8 0.10
74 53 0.64
76 22 0.27
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (75 bp):
AATTATGTAGTTATTTAAAGACTTATGTAATGCTTTTAATTATGTAGTGATTCAAAGACTTATGT
AATCATTTTT
Found at i:36719331 original size:9 final size:9
Alignment explanation
Indices: 36719313--36719438 Score: 146
Period size: 9 Copynumber: 13.6 Consensus size: 9
36719303 TGTAGTGATT
36719313 TAATTCGGG
1 TAATTCGGG
*
36719322 TAATTTGGG
1 TAATTCGGG
36719331 TAATTTTCGGG
1 TAA--TTCGGG
36719342 TAATTCGGG
1 TAATTCGGG
**
36719351 TAATTTAGG
1 TAATTCGGG
36719360 TAATTTTCGGG
1 TAA--TTCGGG
36719371 TAATTCGGG
1 TAATTCGGG
36719380 TAATTCGGG
1 TAATTCGGG
36719389 TAAATT-GGG
1 T-AATTCGGG
*
36719398 TAATTCGAG
1 TAATTCGGG
*
36719407 TAAATCGGG
1 TAATTCGGG
36719416 TAATTCGGG
1 TAATTCGGG
*
36719425 TATTTCGGG
1 TAATTCGGG
36719434 TAATT
1 TAATT
36719439 TTTAACCAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
8 4 0.04
9 76 0.77
10 4 0.04
11 15 0.15
ACGTcount: A:0.25, C:0.08, G:0.29, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:36719355 original size:29 final size:28
Alignment explanation
Indices: 36719313--36719439 Score: 159
Period size: 29 Copynumber: 4.5 Consensus size: 28
36719303 TGTAGTGATT
36719313 TAATTCGGGTAATTTGGGTAATTTTCGGG
1 TAATTCGGGTAATTTGGGTAA-TTTCGGG
*
36719342 TAATTCGGGTAATTTAGGTAATTTTCGGG
1 TAATTCGGGTAATTTGGGTAA-TTTCGGG
* *
36719371 TAATTCGGGTAATTCGGGTAAATT-GGG
1 TAATTCGGGTAATTTGGGTAATTTCGGG
* * *
36719398 TAATTCGAGTAAATCGGGTAA-TTCGGG
1 TAATTCGGGTAATTTGGGTAATTTCGGG
*
36719425 TATTTCGGGTAATTT
1 TAATTCGGGTAATTT
36719440 TTAACCAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.02
27 36 0.41
28 2 0.02
29 47 0.54
ACGTcount: A:0.24, C:0.08, G:0.29, T:0.39
Consensus pattern (28 bp):
TAATTCGGGTAATTTGGGTAATTTCGGG
Found at i:36720896 original size:20 final size:20
Alignment explanation
Indices: 36720857--36720897 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
36720847 ATATTAAACG
*
36720857 ATAAAAACTAAATGAATATC
1 ATAAAAACTAAATAAATATC
36720877 ATAAAAA-TAAATAAATTATC
1 ATAAAAACTAAATAAA-TATC
36720897 A
1 A
36720898 ATTTAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
ATAAAAACTAAATAAATATC
Found at i:36725222 original size:14 final size:14
Alignment explanation
Indices: 36725203--36725230 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36725193 CTCACATTTC
36725203 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
36725217 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
36725231 GATTTCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:36727622 original size:10 final size:10
Alignment explanation
Indices: 36727604--36727676 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
36727594 ATATAAGAAT
*
36727604 AATTATATTG
1 AATTATATTA
*
36727614 AATTTTATTA
1 AATTATATTA
36727624 AATTATA-T-
1 AATTATATTA
* *
36727632 ATTTTTATTA
1 AATTATATTA
*
36727642 AATTATATTT
1 AATTATATTA
36727652 AA-TA-ATT-
1 AATTATATTA
*
36727659 -ATTATTTTA
1 AATTATATTA
36727668 AATTATATT
1 AATTATATT
36727677 TTATAGTATT
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 10 0.21
9 4 0.09
10 30 0.64
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (10 bp):
AATTATATTA
Found at i:36727761 original size:18 final size:17
Alignment explanation
Indices: 36727735--36727768 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
36727725 AATATTAAGA
36727735 ATTTTATTAAATTATAC
1 ATTTTATTAAATTATAC
36727752 ATTTTGATTAAATTATA
1 ATTTT-ATTAAATTATA
36727769 TTTAACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTTATTAAATTATAC
Found at i:36727802 original size:120 final size:120
Alignment explanation
Indices: 36727542--36727904 Score: 607
Period size: 115 Copynumber: 3.1 Consensus size: 120
36727532 AATAAATTAG
*
36727542 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAAT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
36727607 T-ATATT--GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATT
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
36727659 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
* * *
36727724 TAATATTAAGAATTTTATTAAATTATACATTTTGATTAAATTATATTTAACAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
36727779 ATTATTTTAAATTATATTTTATAG---TAT-TA-TATGATTTTAGTAAATTCATATAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
36727839 TAATATTAAGAATTTTATTAAATTAAATATTTTTATTAAATTATATTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
*
36727894 ATTATGTTAAA
1 ATTATTTTAAA
36727905 ATATGATTAA
Statistics
Matches: 233, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
115 92 0.39
116 2 0.01
117 68 0.29
118 5 0.02
120 66 0.28
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (120 bp):
ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
Found at i:36728132 original size:45 final size:44
Alignment explanation
Indices: 36728043--36728135 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
36728033 ATTACAATAT
* *
36728043 CATTTCTTTCAACCAAACACAAGAATACTATTACAATTCTATTC
1 CATTTCATTCAACCAAACACAAGAATACTATTACAACTCTATTC
* **
36728087 CATTTCATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTC
1 CATTTCATTCAACCAAACACA-AGAA-TACTATTACAACTCTATTC
36728132 CATT
1 CATT
36728136 ACACCTCTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.50
45 20 0.48
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (44 bp):
CATTTCATTCAACCAAACACAAGAATACTATTACAACTCTATTC
Found at i:36728142 original size:16 final size:16
Alignment explanation
Indices: 36728117--36728152 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
36728107 TTGAATTACT
*
36728117 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
36728133 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
36728149 ATTA
1 ATTA
36728153 TAGCGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:36730860 original size:5 final size:5
Alignment explanation
Indices: 36730850--36730875 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36730840 TAGTTATTAC
36730850 AATAT AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT A
36730876 TACTTAACTT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:36732742 original size:21 final size:20
Alignment explanation
Indices: 36732695--36732742 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
36732685 TCTATATAAT
* *
36732695 CAAATTTAACTAATTTAATT
1 CAAATTTAACTAATTCAATC
* *
36732715 CATATTTTACTCAATTCAATC
1 CAAATTTAACT-AATTCAATC
36732736 CAAATTT
1 CAAATTT
36732743 CATGTTATGG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.44
Consensus pattern (20 bp):
CAAATTTAACTAATTCAATC
Found at i:36735375 original size:25 final size:25
Alignment explanation
Indices: 36735363--36735415 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
36735353 ACAAGCTGTG
36735363 AATCGGGAAGCTCATACAAGCTACA
1 AATCGGGAAGCTCATACAAGCTACA
* *
36735388 AATCGGGAAGCTCATACGAGCTATA
1 AATCGGGAAGCTCATACAAGCTACA
36735413 AAT
1 AAT
36735416 AAGCTCATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (25 bp):
AATCGGGAAGCTCATACAAGCTACA
Found at i:36736727 original size:16 final size:16
Alignment explanation
Indices: 36736703--36736734 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36736693 TGGGTCGGGT
*
36736703 CCAATCAAAATTCTAG
1 CCAACCAAAATTCTAG
36736719 CCAACCAAAATTCTAG
1 CCAACCAAAATTCTAG
36736735 ACCTAATTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (16 bp):
CCAACCAAAATTCTAG
Found at i:36736858 original size:12 final size:12
Alignment explanation
Indices: 36736841--36736875 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
36736831 CCACCCATAT
36736841 TAATTTTTTATA
1 TAATTTTTTATA
36736853 TAATTTTTTTATA
1 TAA-TTTTTTATA
36736866 TAATTTTTTA
1 TAATTTTTTA
36736876 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:36736860 original size:13 final size:13
Alignment explanation
Indices: 36736844--36736874 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
36736834 CCCATATTAA
36736844 TTTTTTATATAAT
1 TTTTTTATATAAT
36736857 TTTTTTATATAAT
1 TTTTTTATATAAT
36736870 TTTTT
1 TTTTT
36736875 AAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTATATAAT
Found at i:36740926 original size:43 final size:43
Alignment explanation
Indices: 36740862--36740953 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
36740852 GTTCTTCCAA
36740862 ATATATGGAAAACTTAGAAGAATTGAGCATAACCATGTCAGAC
1 ATATATGGAAAACTTAGAAGAATTGAGCATAACCATGTCAGAC
*
36740905 ATATATGGAAAACTTATAAGAATTGAGCATAACCATGTCAGAC
1 ATATATGGAAAACTTAGAAGAATTGAGCATAACCATGTCAGAC
*
36740948 ACATAT
1 ATATAT
36740954 CCATATTTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (43 bp):
ATATATGGAAAACTTAGAAGAATTGAGCATAACCATGTCAGAC
Found at i:36755631 original size:18 final size:18
Alignment explanation
Indices: 36755593--36755628 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36755583 TTATTATTTT
*
36755593 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
36755611 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
36755629 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:36760505 original size:20 final size:20
Alignment explanation
Indices: 36760464--36760503 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
36760454 TAAATATATG
36760464 ATTTTTACATATATGATAAA
1 ATTTTTACATATATGATAAA
36760484 ATTTTTA-ATATTAT-ATAAA
1 ATTTTTACATA-TATGATAAA
36760503 A
1 A
36760504 ATACGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTTTTACATATATGATAAA
Found at i:36761583 original size:31 final size:31
Alignment explanation
Indices: 36761548--36761614 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
36761538 TAATTTAATC
*
36761548 AATTTGAGTTCATTTA-TCTTTCAAATTGTT-A
1 AATTTGAGTTCATCTACT-TTTCAAATT-TTCA
* *
36761579 AATTTTAGTTTATCTACTTTTCAAATTTTCA
1 AATTTGAGTTCATCTACTTTTCAAATTTTCA
36761610 AATTT
1 AATTT
36761615 TATATTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 2 0.06
31 28 0.90
32 1 0.03
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (31 bp):
AATTTGAGTTCATCTACTTTTCAAATTTTCA
Found at i:36771120 original size:12 final size:12
Alignment explanation
Indices: 36771103--36771129 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36771093 CTTTTATTCA
36771103 AAAATGATAAAT
1 AAAATGATAAAT
36771115 AAAATGATAAAT
1 AAAATGATAAAT
36771127 AAA
1 AAA
36771130 TCTGCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (12 bp):
AAAATGATAAAT
Found at i:36786018 original size:18 final size:18
Alignment explanation
Indices: 36785995--36786029 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36785985 ATGAATCACT
36785995 TTATTTTA-TCATATTATA
1 TTATTTTAGTCAT-TTATA
36786013 TTATTTTAGTCATTTAT
1 TTATTTTAGTCATTTAT
36786030 TTTGAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTATTTTAGTCATTTATA
Found at i:36786440 original size:43 final size:44
Alignment explanation
Indices: 36786370--36786542 Score: 121
Period size: 44 Copynumber: 3.9 Consensus size: 44
36786360 TCAACTAAGC
36786370 GCGCCGCTAAAGTAAAATGATCTTTAGC-AGCATTTTTTGCTAA
1 GCGCCGCTAAAGTAAAATGATCTTTAGCGAGCATTTTTTGCTAA
* * * *
36786413 GCGCCGCTAAAAG-AACATTGATC-TTAGCGGGCGTTTTTTTCTAA
1 GCGCCGCT-AAAGTAA-AATGATCTTTAGCGAGCATTTTTTGCTAA
* * *
36786457 GCGCCAGCTTAA-TAAGAGCATGATCGTTTAGGCGGCTGCGTTTTTT-CTAA
1 GCGCC-GCTAAAGTAA-A--ATGATC-TTTA-GC-G-AGCATTTTTTGCTAA
*
36786507 GCGCCGCTAAAG--ACATG-TCTTTAGCG-GCATTTTTTG
1 GCGCCGCTAAAGTAAAATGATCTTTAGCGAGCATTTTTTG
36786543 GATGTTACTA
Statistics
Matches: 105, Mismatches: 11, Indels: 31
0.71 0.07 0.21
Matches are distributed among these distances:
39 8 0.08
41 1 0.01
42 2 0.02
43 19 0.18
44 34 0.32
45 6 0.06
46 5 0.05
48 4 0.04
49 7 0.07
50 10 0.10
51 9 0.09
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (44 bp):
GCGCCGCTAAAGTAAAATGATCTTTAGCGAGCATTTTTTGCTAA
Found at i:36790403 original size:42 final size:43
Alignment explanation
Indices: 36790301--36790407 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 43
36790291 TTTGACCACT
* * * *
36790301 TTCACGTCAATACATGAA-ACAAGATCTGACTTTTTCGATCTAC
1 TTCACGCCAATATATGAAGACAAGACCT-ACTTCTTCGATCTAC
* *
36790344 TTCAC-CC-CTGT-TGGAAGACAAGACCT-CTTCTTCGATCTAC
1 TTCACGCCAATATAT-GAAGACAAGACCTACTTCTTCGATCTAC
36790384 TTCACGCCAATATATGAAGACAAG
1 TTCACGCCAATATATGAAGACAAG
36790408 TATGCTATCT
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
40 19 0.37
41 6 0.12
42 20 0.39
43 6 0.12
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (43 bp):
TTCACGCCAATATATGAAGACAAGACCTACTTCTTCGATCTAC
Found at i:36791640 original size:97 final size:89
Alignment explanation
Indices: 36791129--36792221 Score: 522
Period size: 97 Copynumber: 11.5 Consensus size: 89
36791119 GATTGGCTAC
* *
36791129 CTTCTACGTCCAGTACATGAAGACAAGATCTTGCTATATCTTCGATCTACTTCGCCACAAAGTAT
1 CTTC-ACG-CCAGTACATGAAGACAAGATC-TGCT-T-TCTTCGATCTACTTCCCCAC-CAGTAT
* *
36791194 GGTGAAGACAAGATCTCTCATCTTTGATCTTA
60 GG-GAAGACAAGATCTGTTATCTTTGATC-TA
* * * *
36791226 C-TCACGCCAGTTGACCGTGAAGACAAGATCTG-TTTCTATCGATCTGCTTCGCCACCACGTATA
1 CTTCACGCCAG-T-A-CATGAAGACAAGATCTGCTTTCT-TCGATCTACTTCCCCACCA-GTATG
36791289 GGAAGAC-AGATCTGTTATCTTTGATCTA
61 GGAAGACAAGATCTGTTATCTTTGATCTA
* * *
36791317 CTTCATGCCAGTACGTTG-AGAAAAGATCTGCTTTCTGTCGATCATAC--CCGCCACCAGTCATG
1 CTTCACGCCAGTAC-ATGAAGACAAGATCTGCTTTCT-TCGATC-TACTTCC-CCACCAGT-ATG
36791379 GGAAGACAAGATC-GTTATC-TTGATCTA
61 GGAAGACAAGATCTGTTATCTTTGATCTA
*
36791406 -TTCACGGCCAAGTACATGAAGACAAGATCTGCTTTCTTCGAATTCTACTTTGCCCACCCAGTAT
1 CTTCAC-GCC-AGTACATGAAGACAAGATCTGCTTTCTTCG-A-TCTAC-TTCCCCA-CCAGTAT
36791470 GGGAAGACAAGATCTGTTATCTTTGATCTA
60 GGGAAGACAAGATCTGTTATCTTTGATCTA
36791500 CTTCACGCCAGCACAGTACATG-AGACAAGATTCTGCTTTTCTTCGATCTTACTTCCCCACCAGT
1 CTTCA---C-GC-CAGTACATGAAGACAAGA-TCTGC-TTTCTTCGATC-TACTTCCCCACCAGT
*
36791564 ATGGGAAGAACAAGGATTCTGCTATACTATTGATTCTTA
58 ATGGGAAG-ACAA-GA-TCTGTTAT-CT-TTGA-TC-TA
* * * *
36791603 CTTCACGCCAGTAGATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCTTACCAGAAATGGT
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CC-CACCAG---T-AT
* *
36791668 GGGAAAGAC-ATATCTAATTACTCCTATTGAATCTA
60 GGG-AAGACAAGATCT-GTTA-T-CT-TTG-ATCTA
* * *
36791703 CATTTTCACTCCA-TACA-GAAGATAACG-TCTGCTTTTCTTCCGATCTACTT-CCCATCAGTTA
1 C---TTCACGCCAGTACATGAAGACAA-GATCTGC-TTTCTT-CGATCTACTTCCCCACCAG-TA
* *
36791764 TAGGAAGAC-AGATCTCGTTATCTTTGATCGA
59 TGGGAAGACAAGATCT-GTTATCTTTGATCTA
* * * * *
36791795 CTTCACGGGGCCAAAAAAGCCAGACATGAAGACAAAGATCTACTCTTCTCCTGATTCTACATCGC
1 CTTCAC---GCC-----AG---TACATGAAGAC-AAGATCTGCT-TTCTTC-GA-TCTACTTCCC
* ** *
36791860 CACCAGTGATGGGAAGACAAGAAAATCCT-ATATCACT-CTCT-
51 CACCAGT-ATGGGAAGACAAG---AT-CTGTTATCTTTGATCTA
* * * * * *** * ***
36791901 CTCTC-CGCCAAAGTACATGAAGACAAG-TCTAC-TTC-GCCA-CCAGTAT-GGGA--AGGACAA
1 CT-TCACGCC--AGTACATGAAGACAAGATCTGCTTTCTTCGATCTACT-TCCCCACCAGTATGG
* ** * *
36791958 G-ATACTTG-TCTATCAT-TTTGATCTA
62 GAAGACAAGATCTGTTATCTTTGATCTA
* * *
36791983 CTTCACGCTAGTACATTTGAAGAACAAGATCGTGCTTTCTTCGATCTACTTCGCCTCCAGTATGG
1 CTTCACGCCAGTACA--TGAAG-ACAAGATC-TGCTTTCTTCGATCTACTTCCCCACCAGTATGG
36792048 GAAGACCAAGAATCTGTTATCTTTGCATCTA
62 GAAGA-CAAG-ATCTGTTATCTTTG-ATCTA
* *
36792079 CTTTCACTGCCTAGTACATGAAGAC-AGATTCTGATTATCTTCGATCTTACTTCGCCACCAGTTA
1 C-TTCAC-GCC-AGTACATGAAGACAAGA-TCTGCTT-TCTTCGATC-TACTTCCCCACCAG-TA
36792143 TGGGGAAGAACAA-ATCTGTTTATCTTTGATCTA
59 T-GGGAAG-ACAAGATCTG-TTATCTTTGATCTA
* * *
36792176 CTTCACGCTAGTACATGACAGAACAAGATCTGCTTTTTTTGATCTA
1 CTTCACGCCAGTACATGA-AG-ACAAGATCTGCTTTCTTCGATCTA
36792222 TCTGATTTAC
Statistics
Matches: 780, Mismatches: 100, Indels: 235
0.70 0.09 0.21
Matches are distributed among these distances:
80 9 0.01
81 8 0.01
82 10 0.01
83 5 0.01
84 2 0.00
85 6 0.01
86 5 0.01
87 5 0.01
88 8 0.01
89 40 0.05
90 66 0.08
91 16 0.02
92 54 0.07
93 28 0.04
94 53 0.07
95 37 0.05
96 72 0.09
97 99 0.13
98 54 0.07
99 44 0.06
100 18 0.02
101 31 0.04
102 27 0.03
103 43 0.06
104 7 0.01
105 15 0.02
106 5 0.01
107 4 0.01
108 5 0.01
109 2 0.00
110 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (89 bp):
CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCCACCAGTATGGGAAG
ACAAGATCTGTTATCTTTGATCTA
Found at i:36792078 original size:48 final size:46
Alignment explanation
Indices: 36792020--36792179 Score: 128
Period size: 49 Copynumber: 3.3 Consensus size: 46
36792010 GATCGTGCTT
*
36792020 TCTTCGATCTACTTCGCCTCCAGTATGGGAAGACCAAGAATCTG-TTA
1 TCTTTGATCTACTTCGCCTCCAGTATGGGAAGA-C-AGAATCTGATTA
* *** *
36792067 TCTTTGCATCTACTTTC-ACTGCCTAGTACATGAAGACAGATTCTGATTA
1 TCTTTG-ATCTAC-TTCGCCT-CC-AGTATGGGAAGACAGAATCTGATTA
* * *
36792116 TCTTCGATCTTACTTCGCCACCAGTTATGGGGAAGAACA-AATCTGTTTA
1 TCTTTGATC-TACTTCGCCTCCAG-TAT-GGGAAG-ACAGAATCTGATTA
36792165 TCTTTGATCTACTTC
1 TCTTTGATCTACTTC
36792180 ACGCTAGTAC
Statistics
Matches: 88, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
47 7 0.08
48 31 0.35
49 38 0.43
50 12 0.14
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (46 bp):
TCTTTGATCTACTTCGCCTCCAGTATGGGAAGACAGAATCTGATTA
Found at i:36815855 original size:6 final size:6
Alignment explanation
Indices: 36815844--36815873 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
36815834 TTACTCTTTC
*
36815844 CTTTTT CTTTTT CTTTTT CCTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
36815874 GTAAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:36815861 original size:12 final size:12
Alignment explanation
Indices: 36815839--36815873 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
36815829 TCTTATTACT
*
36815839 CTTTCCTTTTTC
1 CTTTTCTTTTTC
*
36815851 TTTTTCTTTTTC
1 CTTTTCTTTTTC
36815863 CTTTTCTTTTT
1 CTTTTCTTTTT
36815874 GTAAACAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
CTTTTCTTTTTC
Found at i:36816430 original size:5 final size:5
Alignment explanation
Indices: 36816420--36816453 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
36816410 ACAACGTCCA
*
36816420 TTAAT TTAAT TTAAT TTAAT TTAAT TTACT TTAA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAA
36816454 ATTGTGTGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
TTAAT
Found at i:36824933 original size:178 final size:181
Alignment explanation
Indices: 36824626--36824958 Score: 505
Period size: 178 Copynumber: 1.9 Consensus size: 181
36824616 AGTACCCTTA
* *
36824626 TTATATTATATAAAAAATAATTAATAATAAGAATTTAAAATTTATAAATAAATTAATTAACTTTG
1 TTATATTAAATAAAAAATAATTAATAATAAGAATTTAAAATTTATAAATAAA-TAATTAACTTTA
* * *
36824691 TTTACAAAATAACTAAAATTTTCTTATTAATTTTTAATGCTTAAATTATCTCTATTGGTTTTTTT
65 TTTACAAAATAACTAAAATTATCTTATTAATTTCTAATGCTTAAATTATCTCTATTGATTTTTTT
*
36824756 ATTCTGCCTAAAATAACCCTATTAATTTTTTATACTCTTAAAGCACCTTTAT
130 ATTCTACCTAAAATAACCCTATTAATTTTTTATACTCTTAAAGCACCTTTAT
*
36824808 TTATATTAAAT-AAAAATAATTAATAGTAAGTAA-TTAAAATTTATAAA-AAA-AATTAACTTTA
1 TTATATTAAATAAAAAATAATTAATAATAAG-AATTTAAAATTTATAAATAAATAATTAACTTTA
* * *
36824869 TTTACAAAAT-ACTTAAATTATCTTTATTAATTTCTAATGCTTAAATTATTTCTATTTATTTTTT
65 TTTACAAAATAACTAAAATTATC-TTATTAATTTCTAATGCTTAAATTATCTCTATTGATTTTTT
*
36824933 TATTCTACCTAAAATACCCCTATTAA
129 TATTCTACCTAAAATAACCCTATTAA
36824959 CTCTTGAACA
Statistics
Matches: 138, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
177 10 0.07
178 81 0.59
180 3 0.02
181 32 0.23
182 12 0.09
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.46
Consensus pattern (181 bp):
TTATATTAAATAAAAAATAATTAATAATAAGAATTTAAAATTTATAAATAAATAATTAACTTTAT
TTACAAAATAACTAAAATTATCTTATTAATTTCTAATGCTTAAATTATCTCTATTGATTTTTTTA
TTCTACCTAAAATAACCCTATTAATTTTTTATACTCTTAAAGCACCTTTAT
Found at i:36834262 original size:26 final size:26
Alignment explanation
Indices: 36834233--36834315 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
36834223 GATTTTCTCG
* *
36834233 AAATTTTATTAGGGATAAAATCGTCA
1 AAATTTTATTGGGGGTAAAATCGTCA
36834259 AAATTTTATTGGGGGTAAAATCGTCA
1 AAATTTTATTGGGGGTAAAATCGTCA
*
36834285 AAATTTTATTGGGGGTAAAATCATCA
1 AAATTTTATTGGGGGTAAAATCGTCA
36834311 AAATT
1 AAATT
36834316 CTACCGGGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (26 bp):
AAATTTTATTGGGGGTAAAATCGTCA
Found at i:36834328 original size:26 final size:26
Alignment explanation
Indices: 36834233--36834344 Score: 127
Period size: 26 Copynumber: 4.3 Consensus size: 26
36834223 GATTTTCTCG
*
36834233 AAATTTTATTAGGGA-TAAAATCGTCA
1 AAATTTTATT-GGGAGTAAAATCATCA
* *
36834259 AAATTTTATTGGGGGTAAAATCGTCA
1 AAATTTTATTGGGAGTAAAATCATCA
*
36834285 AAATTTTATTGGGGGTAAAATCATCA
1 AAATTTTATTGGGAGTAAAATCATCA
* ** * *
36834311 AAATTCTACCGGGAGTAAAATTATTA
1 AAATTTTATTGGGAGTAAAATCATCA
36834337 AAATTTTA
1 AAATTTTA
36834345 CTAGGGTAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (26 bp):
AAATTTTATTGGGAGTAAAATCATCA
Found at i:36834329 original size:52 final size:52
Alignment explanation
Indices: 36834233--36834356 Score: 142
Period size: 52 Copynumber: 2.4 Consensus size: 52
36834223 GATTTTCTCG
* * ** *
36834233 AAATTTTATTAGGGATAAAATCGTCAAAATTTTATTGGGGGTAAAATCGTCA
1 AAATTTTATTAGGGATAAAATCATCAAAATTCTACCGGGAGTAAAATCGTCA
* * ** *
36834285 AAATTTTATTGGGGGTAAAATCATCAAAATTCTACCGGGAGTAAAATTATTA
1 AAATTTTATTAGGGATAAAATCATCAAAATTCTACCGGGAGTAAAATCGTCA
*
36834337 AAATTTTACTAGGG-TAAAAT
1 AAATTTTATTAGGGATAAAAT
36834357 TGGGGTGAGA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
51 6 0.10
52 54 0.90
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTTATTAGGGATAAAATCATCAAAATTCTACCGGGAGTAAAATCGTCA
Found at i:36835262 original size:38 final size:38
Alignment explanation
Indices: 36835206--36835279 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
36835196 CTTGGATCAA
36835206 AAGTATGTTTTTTAACTCATTGATGAGTACTGACCACC
1 AAGTATGTTTTTTAACTCATTGATGAGTACTGACCACC
*
36835244 AAGTCTGTTTTTTAACTCATTGATGAGTACTGACCA
1 AAGTATGTTTTTTAACTCATTGATGAGTACTGACCA
36835280 ACTATACCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (38 bp):
AAGTATGTTTTTTAACTCATTGATGAGTACTGACCACC
Found at i:36839991 original size:27 final size:25
Alignment explanation
Indices: 36839953--36840054 Score: 127
Period size: 24 Copynumber: 4.0 Consensus size: 25
36839943 AATACCTAAC
36839953 ACAAGGGATTAAAAAAAAAAAGAGAGG
1 ACAAGGGATT--AAAAAAAAAGAGAGG
* *
36839980 ACAAGAGATT-AAAGAAAAGAGAGG
1 ACAAGGGATTAAAAAAAAAGAGAGG
36840004 ACACAAGGGATTAAAAAAAAAGAGAGG
1 --ACAAGGGATTAAAAAAAAAGAGAGG
*
36840031 ACAAGGGATT-AAAGAAAAGAGAGG
1 ACAAGGGATTAAAAAAAAAGAGAGG
36840055 GGCTGTAATA
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
24 26 0.39
25 10 0.15
26 9 0.13
27 22 0.33
ACGTcount: A:0.59, C:0.05, G:0.28, T:0.08
Consensus pattern (25 bp):
ACAAGGGATTAAAAAAAAAGAGAGG
Found at i:36840041 original size:51 final size:52
Alignment explanation
Indices: 36839951--36840054 Score: 183
Period size: 51 Copynumber: 2.0 Consensus size: 52
36839941 TGAATACCTA
36839951 ACACAAGGGATTAAAAAAAAAAAGAGAGGACAAGAGATTAAAGAAAAGAGAGG
1 ACACAAGGGATT-AAAAAAAAAAGAGAGGACAAGAGATTAAAGAAAAGAGAGG
*
36840004 ACACAAGGGATT-AAAAAAAAAGAGAGGACAAGGGATTAAAGAAAAGAGAGG
1 ACACAAGGGATTAAAAAAAAAAGAGAGGACAAGAGATTAAAGAAAAGAGAGG
36840055 GGCTGTAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 38 0.76
53 12 0.24
ACGTcount: A:0.59, C:0.06, G:0.28, T:0.08
Consensus pattern (52 bp):
ACACAAGGGATTAAAAAAAAAAGAGAGGACAAGAGATTAAAGAAAAGAGAGG
Found at i:36843065 original size:50 final size:50
Alignment explanation
Indices: 36842953--36843201 Score: 327
Period size: 50 Copynumber: 4.8 Consensus size: 50
36842943 ATTTGGGTAA
* *
36842953 AGAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
*
36843009 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
36843059 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
36843109 AGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
36843159 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
36843202 TGTTATTATC
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
50 97 0.56
51 33 0.19
53 3 0.02
55 2 0.01
56 39 0.22
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:36843142 original size:100 final size:103
Alignment explanation
Indices: 36842953--36843202 Score: 362
Period size: 100 Copynumber: 2.4 Consensus size: 103
36842943 ATTTGGGTAA
*
36842953 AGAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
* * * *
36843018 CTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
63 CCGTAAGACCATGTCTGAGACATGGCATGGGCACCGACATG
* *
36843059 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCCG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCCCG
36843121 TAAGACCATGTCTGAGACATGGCATGGGCACCGACATG
66 TAAGACCATGTCTGAGACATGGCATGGGCACCGACATG
* *
36843159 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
36843203 GTTATTATCA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 51 0.39
101 37 0.28
103 3 0.02
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCCCG
TAAGACCATGTCTGAGACATGGCATGGGCACCGACATG
Found at i:36849707 original size:6 final size:7
Alignment explanation
Indices: 36849674--36849727 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
36849664 TTTATTTATT
*
36849674 TTTTATA
1 TTTTAAA
36849681 TTTTAAA
1 TTTTAAA
36849688 TTTTAAA
1 TTTTAAA
36849695 TTTTAAA
1 TTTTAAA
36849702 -TTTAAA
1 TTTTAAA
*
36849708 TATTAATA
1 TTTTAA-A
*
36849716 TTGTTACA
1 TT-TTAAA
36849724 TTTT
1 TTTT
36849728 TTGATTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 6 0.15
7 26 0.65
8 5 0.12
9 3 0.08
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Found at i:36852251 original size:122 final size:122
Alignment explanation
Indices: 36852034--36852280 Score: 485
Period size: 122 Copynumber: 2.0 Consensus size: 122
36852024 TATGGCCGCT
*
36852034 AATAATGTCATATACCTGATTCACTAATCTAGGGTTTAGGGTTTAAGGTGTTGATTTCTGGAAAA
1 AATAATGTCATATACCTGATTCACTAATCTAGGGTTTAGGGTTTAAGGGGTTGATTTCTGGAAAA
36852099 TGTGAAATTTTGTTATGAGAAATTGTGCCAATAATTTTTGTTATTATTTTTTGCTGC
66 TGTGAAATTTTGTTATGAGAAATTGTGCCAATAATTTTTGTTATTATTTTTTGCTGC
36852156 AATAATGTCATATACCTGATTCACTAATCTAGGGTTTAGGGTTTAAGGGGTTGATTTCTGGAAAA
1 AATAATGTCATATACCTGATTCACTAATCTAGGGTTTAGGGTTTAAGGGGTTGATTTCTGGAAAA
36852221 TGTGAAATTTTGTTATGAGAAATTGTGCCAATAATTTTTGTTATTATTTTTTGCTGC
66 TGTGAAATTTTGTTATGAGAAATTGTGCCAATAATTTTTGTTATTATTTTTTGCTGC
36852278 AAT
1 AAT
36852281 TTTTCCTTAC
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 124 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (122 bp):
AATAATGTCATATACCTGATTCACTAATCTAGGGTTTAGGGTTTAAGGGGTTGATTTCTGGAAAA
TGTGAAATTTTGTTATGAGAAATTGTGCCAATAATTTTTGTTATTATTTTTTGCTGC
Found at i:36852336 original size:35 final size:35
Alignment explanation
Indices: 36852290--36852359 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
36852280 TTTTTCCTTA
36852290 CAAATCCGTTTTCCTGGTAAATTCAAAGGAAACGT
1 CAAATCCGTTTTCCTGGTAAATTCAAAGGAAACGT
36852325 CAAATCCGTTTTCCTGGTAAATTCAAAGGAAACGT
1 CAAATCCGTTTTCCTGGTAAATTCAAAGGAAACGT
36852360 TTCCTCAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (35 bp):
CAAATCCGTTTTCCTGGTAAATTCAAAGGAAACGT
Found at i:36855511 original size:19 final size:18
Alignment explanation
Indices: 36855476--36855527 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
36855466 TAAATTATTA
36855476 TTTAATAATTACAATAT-TT
1 TTTAA-AATTA-AATATGTT
36855495 GTTTAAAATTAATATATGTT
1 -TTTAAAATTAA-ATATGTT
*
36855515 TTTAATATTAAAT
1 TTTAAAATTAAAT
36855528 GAAAAGTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 7 0.24
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
TTTAAAATTAAATATGTT
Found at i:36859992 original size:21 final size:21
Alignment explanation
Indices: 36859963--36860004 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36859953 ATCGAGGTAA
* *
36859963 CCAACTTAAACTATTACCTTC
1 CCAAATTAAAATATTACCTTC
*
36859984 CCAAATTAAAATATTGCCTTC
1 CCAAATTAAAATATTACCTTC
36860005 GATTTTGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (21 bp):
CCAAATTAAAATATTACCTTC
Found at i:36888107 original size:43 final size:43
Alignment explanation
Indices: 36888044--36888140 Score: 167
Period size: 43 Copynumber: 2.3 Consensus size: 43
36888034 TTCTTCACTC
*
36888044 AAACAAATATTACTTTTTCTTATCCTATTAATTTGAAAAAAAA
1 AAACAAATATTACTTCTTCTTATCCTATTAATTTGAAAAAAAA
36888087 AAACAAATATTACTTCTTCTTATCCTATTAATTTGAAAAAAAA
1 AAACAAATATTACTTCTTCTTATCCTATTAATTTGAAAAAAAA
**
36888130 AATTAAATATT
1 AAACAAATATT
36888141 TAACTCAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.39
Consensus pattern (43 bp):
AAACAAATATTACTTCTTCTTATCCTATTAATTTGAAAAAAAA
Found at i:36888296 original size:26 final size:27
Alignment explanation
Indices: 36888252--36888305 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
36888242 TTTTTAATTA
* *
36888252 AATTTGACTATTAACCTTTCA-AAAAG
1 AATTTGACCATCAACCTTTCAGAAAAG
* *
36888278 AATTTGACCATCAATCTTTTAGAAAAG
1 AATTTGACCATCAACCTTTCAGAAAAG
36888305 A
1 A
36888306 GTCAAAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (27 bp):
AATTTGACCATCAACCTTTCAGAAAAG
Found at i:36888394 original size:12 final size:12
Alignment explanation
Indices: 36888357--36888395 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
36888347 AAAATTTTAA
36888357 ATATGACAATCT
1 ATATGACAATCT
**
36888369 GCATGACAATCT
1 ATATGACAATCT
36888381 ATATGACAATCT
1 ATATGACAATCT
36888393 ATA
1 ATA
36888396 GTACTTCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (12 bp):
ATATGACAATCT
Found at i:36888423 original size:10 final size:10
Alignment explanation
Indices: 36888408--36888455 Score: 60
Period size: 10 Copynumber: 4.4 Consensus size: 10
36888398 ACTTCATGCT
36888408 ATTTTTTAAA
1 ATTTTTTAAA
36888418 ATTTTTTAAAA
1 ATTTTTT-AAA
36888429 TTTATTTTTTAAA
1 ---ATTTTTTAAA
36888442 ATTTTTTAAA
1 ATTTTTTAAA
36888452 ATTT
1 ATTT
36888456 ACTTTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 21 0.62
11 3 0.09
13 3 0.09
14 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:36888434 original size:24 final size:24
Alignment explanation
Indices: 36888407--36888461 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
36888397 TACTTCATGC
36888407 TATTTTTTAAAATTTTTTAAAATT
1 TATTTTTTAAAATTTTTTAAAATT
36888431 TATTTTTTAAAATTTTTTAAAATT
1 TATTTTTTAAAATTTTTTAAAATT
*
36888455 TACTTTT
1 TATTTTT
36888462 ATTTTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
TATTTTTTAAAATTTTTTAAAATT
Found at i:36888437 original size:14 final size:14
Alignment explanation
Indices: 36888418--36888445 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36888408 ATTTTTTAAA
36888418 ATTTTTTAAAATTT
1 ATTTTTTAAAATTT
36888432 ATTTTTTAAAATTT
1 ATTTTTTAAAATTT
36888446 TTTAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTTTAAAATTT
Found at i:36888605 original size:62 final size:62
Alignment explanation
Indices: 36888495--36888621 Score: 184
Period size: 62 Copynumber: 2.0 Consensus size: 62
36888485 ATTATTTGTT
* * *
36888495 AACTTAATGTATAAGATAAATTGACAAATGATGTTAAGATGATCTTTAAATGGATTGAGAAAA
1 AACTTAATGTATAAGAAAAATTGA-AAATGAAGTTAACATGATCTTTAAATGGATTGAGAAAA
* *
36888558 AACTTAATGTATAAGAAAAATATG-ATATTAAGTTAACATGATCTTTAAATGGATTGAGAAAA
1 AACTTAATGTATAAGAAAAAT-TGAAAATGAAGTTAACATGATCTTTAAATGGATTGAGAAAA
36888620 AA
1 AA
36888622 TGTAAGCGCA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
62 36 0.62
63 20 0.34
64 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.31
Consensus pattern (62 bp):
AACTTAATGTATAAGAAAAATTGAAAATGAAGTTAACATGATCTTTAAATGGATTGAGAAAA
Found at i:36896192 original size:45 final size:46
Alignment explanation
Indices: 36896119--36896210 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 46
36896109 ATACAAAAGC
* *
36896119 ATTTAATATGCAATTGAAAAAATGATCTATATTTGTGGCAGTTTAG
1 ATTTAATATGCAATGGAAAAAATGATCTATATTAGTGGCAGTTTAG
*
36896165 ATTTAATAT-CAGTGGAAAAAATGATCTATATTAGTGGCAGTTTAG
1 ATTTAATATGCAATGGAAAAAATGATCTATATTAGTGGCAGTTTAG
36896210 A
1 A
36896211 AGAAGGATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
45 34 0.79
46 9 0.21
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (46 bp):
ATTTAATATGCAATGGAAAAAATGATCTATATTAGTGGCAGTTTAG
Found at i:36903920 original size:21 final size:20
Alignment explanation
Indices: 36903882--36903921 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36903872 GAAAGTAGTA
*
36903882 AAAAAAAGAACAGGTGAGAG
1 AAAAAAAGAACAAGTGAGAG
*
36903902 AAAAAAAGAATCAATTGAGA
1 AAAAAAAGAA-CAAGTGAGA
36903922 ATGGGGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.62, C:0.05, G:0.23, T:0.10
Consensus pattern (20 bp):
AAAAAAAGAACAAGTGAGAG
Found at i:36905354 original size:19 final size:19
Alignment explanation
Indices: 36905312--36905357 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
36905302 TTAGAATTTT
*
36905312 TTTTGAAATTTTTATAAATA
1 TTTTGAAA-TTTTAAAAATA
36905332 TTTTGAAA-TTTAAAAATTA
1 TTTTGAAATTTTAAAAA-TA
36905351 TTTTGAA
1 TTTTGAA
36905358 TTATTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
20 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
TTTTGAAATTTTAAAAATA
Found at i:36919625 original size:25 final size:25
Alignment explanation
Indices: 36919597--36919661 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
36919587 GATATTTGGT
*
36919597 TCTCACGAGCTTCCCAATTAATGGC
1 TCTCACGAACTTCCCAATTAATGGC
** *
36919622 TCTCTTGAACTTCCCAATTTATGGC
1 TCTCACGAACTTCCCAATTAATGGC
*
36919647 TCAT-ATGAACTTCCC
1 TC-TCACGAACTTCCC
36919662 GATATACAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (25 bp):
TCTCACGAACTTCCCAATTAATGGC
Done.