Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 7 of 213
Found at i:2154298 original size:31 final size:30
Alignment explanation
Indices: 2154255--2154326 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
2154245 GATTGATTCA
* * *
2154255 AAATTAAAGTTTCATATATATATTTGAACC
1 AAATCAAAGTTTCATATAGATAATTGAACC
* *
2154285 ACAATCAAAGTTTCATGTAGATAATTGCACC
1 A-AATCAAAGTTTCATATAGATAATTGAACC
*
2154316 AAATTAAAGTT
1 AAATCAAAGTT
2154327 CGTGTATCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (30 bp):
AAATCAAAGTTTCATATAGATAATTGAACC
Found at i:2185391 original size:3 final size:3
Alignment explanation
Indices: 2185383--2185409 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2185373 ATACATAATT
2185383 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
2185410 TAATAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:2186617 original size:21 final size:23
Alignment explanation
Indices: 2186591--2186637 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
2186581 TATAAAAATT
2186591 TAAAAATAATT-TTAAATT-AAA
1 TAAAAATAATTATTAAATTCAAA
*
2186612 TAAAAATAATTATTCAATTCAAA
1 TAAAAATAATTATTAAATTCAAA
2186635 TAA
1 TAA
2186638 TCGCGATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.48
22 6 0.26
23 6 0.26
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAAAATAATTATTAAATTCAAA
Found at i:2189025 original size:12 final size:11
Alignment explanation
Indices: 2189010--2189052 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
2189000 GTAATTAAAA
2189010 ACTTGATTAATG
1 ACTTGATTAA-G
*
2189022 ACTTGATACAAG
1 ACTTGAT-TAAG
2189034 ACTTGATTCAAG
1 ACTTGATT-AAG
2189046 ACTTGAT
1 ACTTGAT
2189053 GATAAAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 25 0.93
13 2 0.07
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (11 bp):
ACTTGATTAAG
Found at i:2202701 original size:20 final size:19
Alignment explanation
Indices: 2202676--2202724 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
2202666 ATAAATGTGT
2202676 TAAAAATTATTAATTAAAAA
1 TAAAAATTATT-ATTAAAAA
* * *
2202696 TAAAAAATATTTTTTAAAA
1 TAAAAATTATTATTAAAAA
*
2202715 TACAAATTAT
1 TAAAAATTAT
2202725 AAATATTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAATTATTATTAAAAA
Found at i:2202781 original size:33 final size:35
Alignment explanation
Indices: 2202744--2202840 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
2202734 ATGGTTATAT
2202744 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
2202777 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
2202812 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
2202841 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:2203038 original size:13 final size:13
Alignment explanation
Indices: 2203022--2203063 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2203012 TTTAAACCAA
2203022 ACTTTTCAAAATC
1 ACTTTTCAAAATC
* *
2203035 ACTTTTCCACATC
1 ACTTTTCAAAATC
*
2203048 ACTTTTCAAAAGC
1 ACTTTTCAAAATC
2203061 ACT
1 ACT
2203064 GCAAACTAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAATC
Found at i:2205593 original size:30 final size:31
Alignment explanation
Indices: 2205540--2205605 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
2205530 GCTATTAAGT
**
2205540 TTTTTTATTTATTTAGAAATTAGTCTATATA
1 TTTTTTATTTATCAAGAAATTAGTCTATATA
* * *
2205571 TTTTTTATTT-TCAAGAATTTAGTCTTTTTA
1 TTTTTTATTTATCAAGAAATTAGTCTATATA
2205601 TTTTT
1 TTTTT
2205606 CAGATTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.64
Consensus pattern (31 bp):
TTTTTTATTTATCAAGAAATTAGTCTATATA
Found at i:2220079 original size:13 final size:13
Alignment explanation
Indices: 2220057--2220087 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2220047 ATTAAATAGA
2220057 TATT-TATTAAAT
1 TATTATATTAAAT
2220069 TATTATATTAAAT
1 TATTATATTAAAT
2220082 TATTAT
1 TATTAT
2220088 TGTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTATATTAAAT
Found at i:2220205 original size:23 final size:22
Alignment explanation
Indices: 2220179--2220258 Score: 94
Period size: 21 Copynumber: 3.7 Consensus size: 22
2220169 TACATTAGGG
*
2220179 ACTTTATGTGTCGTATCTCAAGC
1 ACTTTATGTGTCGTAT-TCAGGC
2220202 ACTTTATGTGTCGTA-TCAGGC
1 ACTTTATGTGTCGTATTCAGGC
* *
2220223 ACCTTGTGTGTCGT-TTCAGGC
1 ACTTTATGTGTCGTATTCAGGC
*
2220244 AC-TTATGTGCCGTAT
1 ACTTTATGTGTCGTAT
2220259 ACTAATCAGG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
20 9 0.18
21 26 0.52
23 15 0.30
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (22 bp):
ACTTTATGTGTCGTATTCAGGC
Found at i:2221290 original size:7 final size:7
Alignment explanation
Indices: 2221278--2221303 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2221268 AAGGTGATAC
2221278 ACAATCA
1 ACAATCA
2221285 ACAATCA
1 ACAATCA
2221292 ACAATCA
1 ACAATCA
2221299 ACAAT
1 ACAAT
2221304 ATTAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
ACAATCA
Found at i:2226286 original size:30 final size:30
Alignment explanation
Indices: 2226250--2226310 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
2226240 ATTCATAAGC
2226250 TGTTCAAATTTATTTTGTTATGGGTCTGGT
1 TGTTCAAATTTATTTTGTTATGGGTCTGGT
2226280 TGTTCAAATTTATTTTGTTATGGGTCTGGT
1 TGTTCAAATTTATTTTGTTATGGGTCTGGT
2226310 T
1 T
2226311 ATATTTCGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.07, G:0.23, T:0.54
Consensus pattern (30 bp):
TGTTCAAATTTATTTTGTTATGGGTCTGGT
Found at i:2231961 original size:26 final size:26
Alignment explanation
Indices: 2231932--2231983 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2231922 ACCCAAAATA
2231932 AAATAGAATGAGCTA-ACTGGACCCAG
1 AAATAGAATGAGC-AGACTGGACCCAG
2231958 AAATAGAATGAGCAGACTGGACCCAG
1 AAATAGAATGAGCAGACTGGACCCAG
2231984 CAAAGCGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.13
Consensus pattern (26 bp):
AAATAGAATGAGCAGACTGGACCCAG
Found at i:2235970 original size:11 final size:11
Alignment explanation
Indices: 2235954--2235978 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2235944 TAAATATATT
2235954 AATGTATGGTA
1 AATGTATGGTA
2235965 AATGTATGGTA
1 AATGTATGGTA
2235976 AAT
1 AAT
2235979 TTGTTAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (11 bp):
AATGTATGGTA
Found at i:2236044 original size:13 final size:14
Alignment explanation
Indices: 2236003--2236044 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2235993 TTGAAATTCT
2236003 AATTCTATTAGTTA
1 AATTCTATTAGTTA
*
2236017 AATT-TGTTAGGTTA
1 AATTCTATTA-GTTA
2236031 AATTCTATTA-TTA
1 AATTCTATTAGTTA
2236044 A
1 A
2236045 CCCGGTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 8 0.33
14 12 0.50
15 4 0.17
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.50
Consensus pattern (14 bp):
AATTCTATTAGTTA
Found at i:2236543 original size:5 final size:5
Alignment explanation
Indices: 2236535--2236562 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2236525 TCTTTTCAGT
2236535 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
2236563 ACATTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:2240696 original size:38 final size:37
Alignment explanation
Indices: 2240644--2240717 Score: 130
Period size: 38 Copynumber: 2.0 Consensus size: 37
2240634 ATTTTTAAAA
2240644 TTTTTTTAAATTTAAAATATTTTAAAAATACTTTTTAT
1 TTTTTTTAAATTTAAAATATTTTAAAAATA-TTTTTAT
*
2240682 TTTTTTTAATTTTAAAATATTTTAAAAATATTTTTA
1 TTTTTTTAAATTTAAAATATTTTAAAAATATTTTTA
2240718 AAATACTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 6 0.17
38 29 0.83
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (37 bp):
TTTTTTTAAATTTAAAATATTTTAAAAATATTTTTAT
Found at i:2240727 original size:12 final size:11
Alignment explanation
Indices: 2240691--2240728 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
2240681 TTTTTTTTAA
2240691 TTTTAAAATAT
1 TTTTAAAATAT
*
2240702 TTTAAAAATAT
1 TTTTAAAATAT
2240713 TTTTAAAATACT
1 TTTTAAAATA-T
2240725 TTTT
1 TTTT
2240729 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:2240750 original size:21 final size:21
Alignment explanation
Indices: 2240711--2240750 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2240701 TTTTAAAAAT
***
2240711 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAAATTTTTA
2240732 ATTTTTAAAATAAAATTTT
1 ATTTTTAAAATAAAATTTT
2240751 GGTATTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTAAAATAAAATTTTTA
Found at i:2248026 original size:11 final size:11
Alignment explanation
Indices: 2248007--2248041 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2247997 GTATCCAAAT
2248007 AATAATAGCAA
1 AATAATAGCAA
*
2248018 AATAGTAGCAA
1 AATAATAGCAA
*
2248029 TATAATAGCAA
1 AATAATAGCAA
2248040 AA
1 AA
2248042 AAAACAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:2251213 original size:11 final size:11
Alignment explanation
Indices: 2251197--2251221 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2251187 TTGAAAGTAG
2251197 AAAAAAAAACA
1 AAAAAAAAACA
2251208 AAAAAAAAACA
1 AAAAAAAAACA
2251219 AAA
1 AAA
2251222 TAGCAACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:2254391 original size:16 final size:16
Alignment explanation
Indices: 2254362--2254395 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2254352 CTGTTGGTTG
*
2254362 TTTAGGTTGACTTTGT
1 TTTAGCTTGACTTTGT
*
2254378 TTTAGCTTGCCTTTGT
1 TTTAGCTTGACTTTGT
2254394 TT
1 TT
2254396 CTACAAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.59
Consensus pattern (16 bp):
TTTAGCTTGACTTTGT
Found at i:2275246 original size:22 final size:22
Alignment explanation
Indices: 2275210--2275268 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
2275200 GGCCCGGCCT
2275210 ATTT-TTTAAATAAATACTAAAA
1 ATTTATTTAAA-AAATACTAAAA
*
2275232 ATTTATTTAAAAAAT-TTAAAA
1 ATTTATTTAAAAAATACTAAAA
** *
2275253 AAGTATTTTAAAAATA
1 ATTTATTTAAAAAATA
2275269 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 17 0.55
22 8 0.26
23 6 0.19
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTTATTTAAAAAATACTAAAA
Found at i:2275265 original size:11 final size:11
Alignment explanation
Indices: 2275227--2275307 Score: 62
Period size: 12 Copynumber: 7.5 Consensus size: 11
2275217 AAATAAATAC
*
2275227 TAAAAATTTATT
1 TAAAAATAT-TT
2275239 TAAAAA-ATTT
1 TAAAAATATTT
*
2275249 AAAAAAGTATTT
1 TAAAAA-TATTT
2275261 TAAAAATATTT
1 TAAAAATATTT
*
2275272 T--AAA-ATTA
1 TAAAAATATTT
*
2275280 AAAAAAGTATTT
1 TAAAAA-TATTT
*
2275292 TAAAAACATTT
1 TAAAAATATTT
2275303 TAAAA
1 TAAAA
2275308 TTAAAAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
8 3 0.05
9 3 0.05
10 10 0.18
11 16 0.29
12 23 0.42
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:2275284 original size:31 final size:31
Alignment explanation
Indices: 2275242--2275316 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
2275232 ATTTATTTAA
* *
2275242 AAAATTTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAGTATTTTAAAAACATTTT
2275273 AAAATTAAAAAAAGTATTTTAAAAACATTTT
1 AAAATTAAAAAAAGTATTTTAAAAACATTTT
2275304 AAAATTAAAAAAA
1 AAAATTAAAAAAA
2275317 TAAATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAATTAAAAAAAGTATTTTAAAAACATTTT
Found at i:2279051 original size:11 final size:11
Alignment explanation
Indices: 2279035--2279065 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2279025 ATTATATATT
2279035 TAAAAATTATA
1 TAAAAATTATA
*
2279046 TAAAAATAATA
1 TAAAAATTATA
2279057 TAAAAATTA
1 TAAAAATTA
2279066 ATATGGGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:2279062 original size:12 final size:11
Alignment explanation
Indices: 2279035--2279069 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2279025 ATTATATATT
*
2279035 TAAAAATTATA
1 TAAAAATAATA
2279046 TAAAAATAATA
1 TAAAAATAATA
2279057 TAAAAATTAATA
1 TAAAAA-TAATA
2279069 T
1 T
2279070 GGGTGGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:2279519 original size:6 final size:6
Alignment explanation
Indices: 2279508--2279532 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2279498 AGTTAAATTA
2279508 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
2279533 TTATTACAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:2285726 original size:27 final size:27
Alignment explanation
Indices: 2285678--2285798 Score: 95
Period size: 27 Copynumber: 4.5 Consensus size: 27
2285668 TGGAGGGGTT
* * *
2285678 CTGATTGGCGCCACCAAAGGTGCCAAA
1 CTGATTGGCGGCACCGATGGTGCCAAA
*
2285705 CTGATTGGCGGCATCGATGGTG-C-AA
1 CTGATTGGCGGCACCGATGGTGCCAAA
** * *
2285730 -TGAGGTTGGAAGCATCGATGGTGCCATA
1 CTGA--TTGGCGGCACCGATGGTGCCAAA
* * * *
2285758 CAGGTTGGCAGCACCGATGGTGCCATA
1 CTGATTGGCGGCACCGATGGTGCCAAA
2285785 CTGATTGGCGGCAC
1 CTGATTGGCGGCAC
2285799 TACTCGTCTT
Statistics
Matches: 75, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
24 3 0.04
25 2 0.03
26 17 0.23
27 51 0.68
28 1 0.01
29 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (27 bp):
CTGATTGGCGGCACCGATGGTGCCAAA
Found at i:2289548 original size:162 final size:162
Alignment explanation
Indices: 2289328--2289873 Score: 611
Period size: 162 Copynumber: 3.4 Consensus size: 162
2289318 TTTATTACTT
* * *
2289328 TAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTA
1 TAAAAATATTTTATTTTCTAATTTTATAATTTTACATTATTCCAGTGCATAATGTTTGAAATTTA
*
2289393 TTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTACT
66 TTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTGCT
2289458 CGTATTATTTTCCCGATTTTTATTACTTTCAA
131 CGTATTATTTTCCCGATTTTTATTACTTTCAA
* * **
2289490 TAAAAATATTTTATTTTCGT-ATTTTATTATTTTATATTATTCCAGTGCATTTTGTTTGAAATAT
1 TAAAAATATTTTATTTTC-TAATTTTATAATTTTACATTATTCCAGTGCATAATGTTTG-AA-A-
* * * ** * **
2289554 TTGTATTAA-TTATTCCTGAATTTTTAAA--AA--AAGT-T-AGTAAAAAAACTCTTA-CTTTGT
62 TT-TATTAATTTAGT-GTG-TTTTTTAAATTAATTTGGTGTAAG-AAAAAAACCCTTATCCCTG-
* * * *
2289611 CCATTTGTTCATATTTTTTTCTCCGCATTTTT-TTA-TTT---
122 CCCTTTGCTCGTATTATTTTC-CCG-ATTTTTATTACTTTCAA
* *
2289649 TAGAAAATATTATAATTTT-TAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
1 TA-AAAATATT-TTATTTTCTAATTTTATAATTTTACATTATTCCAGTGCATAATGTTTGAAATT
*
2289713 TATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTCATCCCTGCCCTTTG
64 TATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTG
2289778 CTCGTATTATTTTCCCGATTTTTATTACTTTCAA
129 CTCGTATTATTTTCCCGATTTTTATTACTTTCAA
* * **
2289812 TAAAAATATTTTATTTTCGT-ATTTTATTATTTTATATTATTCCAGTGCATTTTGTTTGAAAT
1 TAAAAATATTTTATTTTC-TAATTTTATAATTTTACATTATTCCAGTGCATAATGTTTGAAAT
2289874 ATTTGTATTA
Statistics
Matches: 310, Mismatches: 45, Indels: 58
0.75 0.11 0.14
Matches are distributed among these distances:
155 8 0.03
156 8 0.03
157 8 0.03
158 7 0.02
159 13 0.04
160 73 0.24
161 22 0.07
162 126 0.41
163 14 0.05
164 7 0.02
165 8 0.03
166 8 0.03
167 8 0.03
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (162 bp):
TAAAAATATTTTATTTTCTAATTTTATAATTTTACATTATTCCAGTGCATAATGTTTGAAATTTA
TTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTGCT
CGTATTATTTTCCCGATTTTTATTACTTTCAA
Found at i:2289697 original size:322 final size:319
Alignment explanation
Indices: 2289260--2290037 Score: 1357
Period size: 322 Copynumber: 2.4 Consensus size: 319
2289250 CTGCAAGTTG
2289260 AAAAAAAGTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTA-TTTTTTCTCCGCATTTTATT
1 AAAAAAAGTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATT
* *
2289324 ACTTTAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAA
66 ATTTTAAAAATAT-TTAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAA
*
2289389 TTTATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTT
130 TTTATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTCATCCCTGCCCTT
2289454 TACTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATTA
195 TACTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATTA
2289519 TTTTATATTATTCCAGTGCATTTTGTTTGAAATATTTGTATTAATTAT-TCCTGAATTTTT
260 TTTTATATTATTCCAGTGCATTTTGTTTGAAATATTTGTATTAATTATCT-CTGAATTTTT
* * * *
2289579 AAAAAAAGTTAGTAAAAAAACTCTTACTTTGTCCATTTGTTCATATTTTTTTCTCCGCATTTTTT
1 AAAAAAAGTTAGT-AAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTAT
2289644 TATTTTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGA
65 TATTTTA-AAAATATT-TAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGA
2289709 AATTTATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTCATCCCTGCCC
128 AATTTATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTCATCCCTGCCC
*
2289774 TTTGCTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTAT
193 TTTACTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTAT
2289839 TATTTTATATTATTCCAGTGCATTTTGTTTGAAATATTTGTATTAATTATCTCTGAATTTTT
258 TATTTTATATTATTCCAGTGCATTTTGTTTGAAATATTTGTATTAATTATCTCTGAATTTTT
* *
2289901 -TAAAAAGTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTATCCGCATTTTATT
1 AAAAAAAGTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATT
* *
2289965 ATTTTAAAAATATCGTAATTTTTAATTTTATCAA-TTTACATTATTTCAGTGCATTATGTTTGAA
66 ATTTTAAAAATAT-TTAATTTTTAATTTTAT-AATTTTACATTATTTCAGTGCATAATGTTTGAA
2290029 ATTTATTAA
129 ATTTATTAA
2290038 ATATACAATT
Statistics
Matches: 436, Mismatches: 16, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
319 74 0.17
320 83 0.19
321 36 0.08
322 242 0.56
323 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (319 bp):
AAAAAAAGTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATT
ATTTTAAAAATATTTAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAAT
TTATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTCATCCCTGCCCTTT
ACTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATTAT
TTTATATTATTCCAGTGCATTTTGTTTGAAATATTTGTATTAATTATCTCTGAATTTTT
Found at i:2290433 original size:43 final size:42
Alignment explanation
Indices: 2290368--2290519 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 42
2290358 TAAAAATTAC
* * *
2290368 CTTTTTTTCTTTTTTTTTTCCTTCCTTCCCTCTT-CTTCTTCTTT
1 CTTTTTTT-TTTCTCTTCTCCTTCCTTCCCT-TTCCTTCTT-TTT
**
2290412 CTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTT
1 CTTTTTTTTTTCTCTTCTCC-TTCCTTCCCTTTCCTTCTTTTT
* **
2290455 C-TTTTTTTTTCTTCTTCTCCTTTTCTTTTCTTTCCTTCTTTTT
1 CTTTTTTTTTTC-TCTTCTCC-TTCCTTCCCTTTCCTTCTTTTT
* ** *
2290498 CTTTCTTTCCTCTCCTCTCCTT
1 CTTTTTTTTTTCTCTTCTCCTT
2290520 TTCTTTCTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
42 12 0.13
43 53 0.56
44 29 0.31
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (42 bp):
CTTTTTTTTTTCTCTTCTCCTTCCTTCCCTTTCCTTCTTTTT
Found at i:2290451 original size:24 final size:23
Alignment explanation
Indices: 2290399--2290548 Score: 125
Period size: 23 Copynumber: 6.6 Consensus size: 23
2290389 TTCCTTCCCT
*
2290399 CTTCTTCTTCTTTCTTTT-TTTT
1 CTTCTTCTTCTTTCTTTTCTTTC
* *
2290421 TTCTCTTCTCCTTTCCTTTTCTTTC
1 CT-TCTTCTTCTTT-CTTTTCTTTC
*
2290446 CTTCTTTTTC-TT-TTTT-TTT-
1 CTTCTTCTTCTTTCTTTTCTTTC
*
2290465 CTTCTTCTCCTTTTCTTTTCTTTC
1 CTTCTTCTTC-TTTCTTTTCTTTC
* * *
2290489 CTTCTTTTTCTTTCTTTCCTCTC
1 CTTCTTCTTCTTTCTTTTCTTTC
2290512 CTCTCCTT-TTCTTTC-TTTCTTTC
1 CT-T-CTTCTTCTTTCTTTTCTTTC
*
2290535 TTTCTTCTTCTTTC
1 CTTCTTCTTCTTTC
2290549 CCTCTCCTTC
Statistics
Matches: 102, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
19 8 0.08
20 3 0.03
21 9 0.09
22 13 0.13
23 35 0.34
24 27 0.26
25 7 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
CTTCTTCTTCTTTCTTTTCTTTC
Found at i:2290476 original size:38 final size:37
Alignment explanation
Indices: 2290367--2290546 Score: 132
Period size: 38 Copynumber: 4.7 Consensus size: 37
2290357 ATAAAAATTA
2290367 CCTTTTTTTCTTTTTTTTTTCCTTCCTTC-CCTCTTCTTCT
1 CCTTTTTTTC-TTTTTTTTT-CTT-CTTCTCCTCTTCTT-T
* * *
2290407 TCTTTCTTTT-TTTTTTCTCTTCTCCTT-TCCTTTTCTTT
1 CCTTT-TTTTCTTTTTT-T-TTCTTCTTCTCCTCTTCTTT
*
2290445 CCTTCTTTTTCTTTTTTTTTCTTCTTCTCCTTTTCTTT
1 CCTT-TTTTTCTTTTTTTTTCTTCTTCTCCTCTTCTTT
* ** * * *
2290483 TCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTCTCCTTT
1 CCTTTTTTTCTTTTTTTTTC-TTCTTCTCCTCTTCTTT
* * *
2290521 TCTTTCTTTCTTTCTTTCTTCTTCTT
1 CCTTTTTTTCTTT-TTTTTTCTTCTT
2290547 TCCCTCTCCT
Statistics
Matches: 115, Mismatches: 16, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
37 20 0.17
38 53 0.46
39 29 0.25
40 7 0.06
41 6 0.05
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (37 bp):
CCTTTTTTTCTTTTTTTTTCTTCTTCTCCTCTTCTTT
Found at i:2290520 original size:43 final size:43
Alignment explanation
Indices: 2290402--2290556 Score: 172
Period size: 43 Copynumber: 3.6 Consensus size: 43
2290392 CTTCCCTCTT
* ** * *
2290402 CTTCTTCTTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTT-TTTCTTTCTTTCCTCTCCTCTCCTTTTCTTTTCTTTC
** *
2290446 CTTCTTTTTCTTT-TTTTTTCTTCTTCTCCTTTTCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTCCTC-TCCTCTCCTTTTCTTTTCTTTC
2290489 CTTCTTTTTCTTTCTTTCCTCTCCTCTCCTTTTC-TTTCTTTC
1 CTTCTTTTTCTTTCTTTCCTCTCCTCTCCTTTTCTTTTCTTTC
*
2290531 TTTCTTTCTTC-TTCTTTCCCTCTCCT
1 CTTCTTT-TTCTTTCTTT-CCTCTCCT
2290557 TCTCTCCCCC
Statistics
Matches: 102, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
42 27 0.26
43 64 0.63
44 11 0.11
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (43 bp):
CTTCTTTTTCTTTCTTTCCTCTCCTCTCCTTTTCTTTTCTTTC
Found at i:2290936 original size:32 final size:34
Alignment explanation
Indices: 2290870--2290932 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
2290860 AGAGGGCATG
2290870 CAAAAAAGAAAAGGAAGAAGAAAGAAAGAAAATTA
1 CAAAAAAGAAAA-GAAGAAGAAAGAAAGAAAATTA
*
2290905 CAAAAAA-AAAA-AAGAAGAAA-AAGGAAAA
1 CAAAAAAGAAAAGAAGAAGAAAGAAAGAAAA
2290933 ATTATGACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 7 0.26
32 9 0.33
34 4 0.15
35 7 0.26
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (34 bp):
CAAAAAAGAAAAGAAGAAGAAAGAAAGAAAATTA
Found at i:2297679 original size:16 final size:17
Alignment explanation
Indices: 2297643--2297684 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
2297633 TCCAAACTTG
2297643 AAAATAATTTAAAACTA
1 AAAATAATTTAAAACTA
*
2297660 AAAATAATTTAAAA-TT
1 AAAATAATTTAAAACTA
2297676 AAAATAATT
1 AAAATAATT
2297685 CAAACCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATAATTTAAAACTA
Found at i:2298854 original size:43 final size:43
Alignment explanation
Indices: 2298788--2299055 Score: 385
Period size: 43 Copynumber: 6.3 Consensus size: 43
2298778 GATATGTTTT
* *
2298788 TAGCTGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
*
2298831 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
2298874 TAGCGGCGTTAGTGGGAAAAGCGCCACTAAAGGTCCTAATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* *
2298917 TAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTCCTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
2298960 TAGCGGCGTTTG-GGAAAAAGCGCCGCAAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * * * *
2299002 TAGCGGCGTTTTTAGAAAAAGCACCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
2299045 TAGCGGCGTTT
1 TAGCGGCGTTT
2299056 ATTTCTATAA
Statistics
Matches: 205, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 36 0.18
43 169 0.82
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:2299536 original size:30 final size:31
Alignment explanation
Indices: 2299500--2299563 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
2299490 TTGATACATG
* *
2299500 AACTTTGATT-TGATGCAATTGTACACATCA
1 AACTTTGATTATGATGCAAATGTACACATAA
* *
2299530 AACTTTGATTATGATTCAAATGTATACATAA
1 AACTTTGATTATGATGCAAATGTACACATAA
2299561 AAC
1 AAC
2299564 ATTTAAAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 10 0.34
31 19 0.66
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (31 bp):
AACTTTGATTATGATGCAAATGTACACATAA
Found at i:2300646 original size:20 final size:20
Alignment explanation
Indices: 2300608--2300661 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
2300598 CCTAGCCTCT
* *
2300608 GCCACCGCCACCAAC-GTCAT
1 GCCACCACCACC-ACGGTCAC
*
2300628 GCCACCACCGCCACGGTCAC
1 GCCACCACCACCACGGTCAC
*
2300648 GTCACCACCACCAC
1 GCCACCACCACCAC
2300662 TTGCACCGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.24, C:0.54, G:0.15, T:0.07
Consensus pattern (20 bp):
GCCACCACCACCACGGTCAC
Found at i:2301640 original size:3 final size:3
Alignment explanation
Indices: 2301632--2301666 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2301622 CATATTCTAG
2301632 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2301667 CCTACTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2301731 original size:27 final size:26
Alignment explanation
Indices: 2301701--2301777 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
2301691 AAATCTCGAT
*
2301701 ATATATATACATGTATATATTTTTATG
1 ATATATATACAT-TATATATTTTTATA
* *
2301728 ATATACATACATTAT-TTTTTTTATA
1 ATATATATACATTATATATTTTTATA
2301753 ACTTATATATAC-TTATATATTTTTA
1 A--TATATATACATTATATATTTTTA
2301778 CATATTTTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 9 0.21
26 7 0.17
27 26 0.62
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (26 bp):
ATATATATACATTATATATTTTTATA
Found at i:2302042 original size:18 final size:17
Alignment explanation
Indices: 2302019--2302057 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
2302009 TGCTTTAATT
*
2302019 TTTTATTTGTTTATTTAC
1 TTTTATTTGTTGATTT-C
2302037 TTTTATTTGTTGATTTC
1 TTTTATTTGTTGATTTC
2302054 TTTT
1 TTTT
2302058 CATTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (17 bp):
TTTTATTTGTTGATTTC
Found at i:2302453 original size:111 final size:109
Alignment explanation
Indices: 2302173--2302570 Score: 638
Period size: 109 Copynumber: 3.7 Consensus size: 109
2302163 ACGAATTTTT
2302173 TTTC-AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
*
2302237 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAT
66 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
* * *
2302281 TTTTAAAATAAGGCAATGTTTTGAGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGC
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
2302346 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAAA
66 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT--AAAAA
* * *
2302392 TTTCAAAATATGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCTTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* ** *
2302457 TGATTTTTCTTATTCAACCAAATGGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
* * *
2302501 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACATGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
2302565 CGATTT
66 CGATTT
2302571 CTCGATTGAC
Statistics
Matches: 266, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
108 29 0.11
109 139 0.52
111 98 0.37
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
Found at i:2303666 original size:13 final size:13
Alignment explanation
Indices: 2303648--2303685 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
2303638 AAAAAAATCT
*
2303648 AATATTCTAATAC
1 AATATTCTAAAAC
2303661 AATATTCTAAAAC
1 AATATTCTAAAAC
2303674 AATATTCATAAA
1 AATATTC-TAAA
2303686 TCAGACATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (13 bp):
AATATTCTAAAAC
Found at i:2303847 original size:13 final size:13
Alignment explanation
Indices: 2303829--2303862 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
2303819 GAAAAAAATT
2303829 CAATATTCTAATA
1 CAATATTCTAATA
2303842 CAATATTCTAATA
1 CAATATTCTAATA
2303855 CAATATTC
1 CAATATTC
2303863 ATAAATCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (13 bp):
CAATATTCTAATA
Found at i:2303873 original size:182 final size:184
Alignment explanation
Indices: 2303566--2303932 Score: 652
Period size: 182 Copynumber: 2.0 Consensus size: 184
2303556 TTGTAACATC
2303566 TCGCTCCTATGTATCAATATAAGATCATTTTCTCCCACTAAGACTTTCCCTTGAAATCTTAGCTT
1 TCGCTCCTATGTATCAATATAAGATCATTTTCTCCCACTAAGACTTTCCCTTGAAATCTTAGCTT
2303631 CAAACTGAAAAAAATCTAATATTCTAATACAATATTCTAAAACAATATTCATAAATCAGACATGC
66 CAAACTGAAAAAAATCTAATATTCTAATACAATATTCTAAAACAATATTCATAAATCAGACATGC
2303696 TAGAAGTATTAATTTCCACGAACAGGGTGACAT-A-CTAGTTGAATACAATATA
131 TAGAAGTATTAATTTCCACGAACAGGGTGACATCAGCTAGTTGAATACAATATA
2303748 TCGCTCCTATGTATCAATATAAGATCATTTTC-CCTCACTAAGACTTTCCCTTGAAATCTTAGCT
1 TCGCTCCTATGTATCAATATAAGATCATTTTCTCC-CACTAAGACTTTCCCTTGAAATCTTAGCT
*
2303812 TCAAACTGAAAAAAAT-TCAATATTCTAATACAATATTCTAATACAATATTCATAAATCAGACAT
65 TCAAACTGAAAAAAATCT-AATATTCTAATACAATATTCTAAAACAATATTCATAAATCAGACAT
*
2303876 GCTAGAAGTATTAATTTCCATGAACAGGGTGACATGCATGCTAGTTGAATACAATAT
129 GCTAGAAGTATTAATTTCCACGAACAGGGTGACAT-CA-GCTAGTTGAATACAATAT
2303933 TCTAATACAA
Statistics
Matches: 177, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
181 3 0.02
182 156 0.88
184 1 0.01
186 17 0.10
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (184 bp):
TCGCTCCTATGTATCAATATAAGATCATTTTCTCCCACTAAGACTTTCCCTTGAAATCTTAGCTT
CAAACTGAAAAAAATCTAATATTCTAATACAATATTCTAAAACAATATTCATAAATCAGACATGC
TAGAAGTATTAATTTCCACGAACAGGGTGACATCAGCTAGTTGAATACAATATA
Found at i:2307508 original size:21 final size:21
Alignment explanation
Indices: 2307482--2307522 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2307472 AGACGAGCAA
* *
2307482 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2307503 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2307523 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2313225 original size:43 final size:43
Alignment explanation
Indices: 2313166--2313314 Score: 178
Period size: 43 Copynumber: 3.5 Consensus size: 43
2313156 GCGGCGCCTT
* * *
2313166 TCACAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTA
1 TCACAAACGCCACTAAAGAACATGACCTTTAGCGACGCTTCTA
*
2313209 TCACAAACGCCACTAAAGAACATGACCTTTAGCGACGCTTTTA
1 TCACAAACGCCACTAAAGAACATGACCTTTAGCGACGCTTCTA
* * * *
2313252 TCATAAACGCCGCTAAA-AACA-AACCTTTAGCGACGCTTCTC
1 TCACAAACGCCACTAAAGAACATGACCTTTAGCGACGCTTCTA
* * *
2313293 GCAAAAACGCCAC-AAAAAACAT
1 TCACAAACGCCACTAAAGAACAT
2313315 AACATTTAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
40 3 0.03
41 31 0.34
42 4 0.04
43 54 0.59
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (43 bp):
TCACAAACGCCACTAAAGAACATGACCTTTAGCGACGCTTCTA
Found at i:2316663 original size:38 final size:38
Alignment explanation
Indices: 2316620--2316701 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
2316610 TAAAACAATT
* * * *
2316620 GATAAACCAAACTTTGTGAGATAAACATGTAAAAAGCA
1 GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
*
2316658 GATAAAAGAAAATTTGTGAGATAAACATATAAAAAACA
1 GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
2316696 GATAAA
1 GATAAA
2316702 GTTTGTAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.21
Consensus pattern (38 bp):
GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
Found at i:2317286 original size:40 final size:40
Alignment explanation
Indices: 2317237--2317351 Score: 203
Period size: 40 Copynumber: 2.9 Consensus size: 40
2317227 AATAAATATT
2317237 AGCATTAGTGACGCTTTCTCAAAAACGCCACTAAAAATAG
1 AGCATTAGTGACGCTTTCTCAAAAACGCCACTAAAAATAG
2317277 AGCATTAGTGACGCTTTCTCAAAAACGCCACTAAAAATAG
1 AGCATTAGTGACGCTTTCTCAAAAACGCCACTAAAAATAG
* * *
2317317 AGCATTAGTGGCGCTTTTTCAAAAACGCCGCTAAA
1 AGCATTAGTGACGCTTTCTCAAAAACGCCACTAAA
2317352 GCCTCAAAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (40 bp):
AGCATTAGTGACGCTTTCTCAAAAACGCCACTAAAAATAG
Found at i:2318043 original size:7 final size:7
Alignment explanation
Indices: 2318023--2318091 Score: 66
Period size: 7 Copynumber: 9.9 Consensus size: 7
2318013 CACTAACTCT
*
2318023 TAACCTC
1 TAACCCC
2318030 TAACCCC
1 TAACCCC
*
2318037 TAGCCCC
1 TAACCCC
*
2318044 AAACCCC
1 TAACCCC
2318051 TAACCCC
1 TAACCCC
**
2318058 TAACTAC
1 TAACCCC
*
2318065 TATCCCC
1 TAACCCC
*
2318072 TATCCCC
1 TAACCCC
*
2318079 TAACCCT
1 TAACCCC
2318086 TAACCC
1 TAACCC
2318092 TTCTTTTACA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.28, C:0.51, G:0.01, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:2318105 original size:183 final size:183
Alignment explanation
Indices: 2317883--2318256 Score: 676
Period size: 183 Copynumber: 2.0 Consensus size: 183
2317873 ATAAACCCTA
* *
2317883 AACCCATATCCCCTATCCCCTAACCCCTCTTTTACAATTATATAAGAACTTAATTAATATATAAA
1 AACCCCTATCCCCTAACCCCTAACCCCTCTTTTACAATTATATAAGAACTTAATTAATATATAAA
2317948 TTAAAAAATACTAATTAATTTAAACCTTAAACCCTAACCCGACCCCGAATCTCTAAACCTTAAAT
66 TTAAAAAATACTAATTAATTTAAACCTTAAACCCTAACCCGACCCCGAATCTCTAAACCTTAAAT
* * *
2318013 CACTAACTCTTAACCTCTAACCCCTAGCCCCAAACCCCTAACCCCTAACTACT
131 CACTAACTATTAACCTCTAACCCCTAACCCCAAACCCCAAACCCCTAACTACT
* * *
2318066 ATCCCCTATCCCCTAACCCTTAACCCTTCTTTTACAATTATATAAGAACTTAATTAATATATAAA
1 AACCCCTATCCCCTAACCCCTAACCCCTCTTTTACAATTATATAAGAACTTAATTAATATATAAA
2318131 TTAAAAAATACTAATTAATTTAAACCTTAAACCCTAACCCGACCCCGAATCTCTAAACCTTAAAT
66 TTAAAAAATACTAATTAATTTAAACCTTAAACCCTAACCCGACCCCGAATCTCTAAACCTTAAAT
2318196 CACTAACTATTAACCTCTAACCCCTAACCCCAAACCCCAAACCCCTAACTACT
131 CACTAACTATTAACCTCTAACCCCTAACCCCAAACCCCAAACCCCTAACTACT
2318249 AACCCCTA
1 AACCCCTA
2318257 AACCTTATTT
Statistics
Matches: 182, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 182 1.00
ACGTcount: A:0.38, C:0.33, G:0.02, T:0.27
Consensus pattern (183 bp):
AACCCCTATCCCCTAACCCCTAACCCCTCTTTTACAATTATATAAGAACTTAATTAATATATAAA
TTAAAAAATACTAATTAATTTAAACCTTAAACCCTAACCCGACCCCGAATCTCTAAACCTTAAAT
CACTAACTATTAACCTCTAACCCCTAACCCCAAACCCCAAACCCCTAACTACT
Found at i:2318216 original size:7 final size:7
Alignment explanation
Indices: 2318206--2318257 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
2318196 CACTAACTAT
*
2318206 TAACCTC
1 TAACCCC
2318213 TAACCCC
1 TAACCCC
2318220 TAACCCC
1 TAACCCC
*
2318227 AAACCCC
1 TAACCCC
*
2318234 AAACCCC
1 TAACCCC
**
2318241 TAACTAC
1 TAACCCC
2318248 TAACCCC
1 TAACCCC
2318255 TAA
1 TAA
2318258 ACCTTATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:2318252 original size:21 final size:21
Alignment explanation
Indices: 2318198--2318260 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
2318188 CCTTAAATCA
* * *
2318198 CTAACTATTAACCTCTAACCC
1 CTAACTACTAACCCCAAACCC
** *
2318219 CTAACCCCAAACCCCAAACCC
1 CTAACTACTAACCCCAAACCC
2318240 CTAACTACTAACCCCTAAACC
1 CTAACTACTAACCCC-AAACC
2318261 TTATTTAATA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (21 bp):
CTAACTACTAACCCCAAACCC
Found at i:2318712 original size:41 final size:41
Alignment explanation
Indices: 2318660--2318809 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
2318650 CAATGTTTTT
* * *
2318660 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCATGAGCAATA
1 GCGGAGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
*
2318701 GCGGAGCTTTTTCAAAAACGCAGCTAAAAGCCTGAGCATTA
1 GCGGAGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
*
2318742 GC-GACGCTTTTTCACAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGA-GCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
2318783 GCGGCGCTTTTTCAAAAACGCCACTAA
1 GCGGAGCTTTTTCAAAAACGCCGCTAA
2318810 TGCCCCAAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.02
41 95 0.97
42 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (41 bp):
GCGGAGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
Found at i:2318912 original size:39 final size:40
Alignment explanation
Indices: 2318869--2318983 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
2318859 GTTTTTCCAA
*
2318869 GAAGCGCCGCTAATGCTC-ATTTTTAGCGGCACTTTTCTG-
1 GAAGCGCCGCTAATGCTCAATTTTTAGCGGC-CTTTTATGT
* *
2318908 GAAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTTATGT
1 GAAGCGCCGCTAATGCTCAATTTTTAGCGGCCTTTTATGT
* * * *
2318948 AAAGCGCCACTAATACTCAATTTTTAGCGGCGTTTT
1 GAAGCGCCGCTAATGCTCAATTTTTAGCGGCCTTTT
2318984 TTGTCCAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 24 0.36
40 43 0.64
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (40 bp):
GAAGCGCCGCTAATGCTCAATTTTTAGCGGCCTTTTATGT
Found at i:2318979 original size:40 final size:40
Alignment explanation
Indices: 2318870--2319000 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
2318860 TTTTTCCAAG
* * * *
2318870 AAGCGCCGCTAATGCTC-ATTTTTAGCGGCACTTTTCTG-G
1 AAGCGCCACTAATGCTCAATTTTTAGCGGC-GTTTTATGTA
* *
2318909 AAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTTATGTA
1 AAGCGCCACTAATGCTCAATTTTTAGCGGCGTTTTATGTA
* *
2318949 AAGCGCCACTAATACTCAATTTTTAGCGGCGTTTTTTGTCCA
1 AAGCGCCACTAATGCTCAATTTTTAGCGGCGTTTTATGT--A
2318991 AA-CGCCACTA
1 AAGCGCCACTA
2319001 GAAATGCCGC
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 23 0.29
40 46 0.57
41 8 0.10
42 3 0.04
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (40 bp):
AAGCGCCACTAATGCTCAATTTTTAGCGGCGTTTTATGTA
Found at i:2319539 original size:15 final size:16
Alignment explanation
Indices: 2319504--2319550 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
2319494 TTTTCAAAAA
* *
2319504 TATTTTTAAAATACTT
1 TATTTTTAAATTATTT
2319520 T-TTTTTAAATT-TTT
1 TATTTTTAAATTATTT
2319534 TATTTTTAAATTATTT
1 TATTTTTAAATTATTT
2319550 T
1 T
2319551 TACAATACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 3 0.11
15 19 0.70
16 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTTAAATTATTT
Found at i:2319549 original size:41 final size:40
Alignment explanation
Indices: 2319479--2319572 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 40
2319469 AATATATTTA
2319479 TTTTTTTATTTTTTATTTTCAAAAATATTTTTAAAATACT
1 TTTTTTTATTTTTTATTTTCAAAAATATTTTTAAAATACT
* * *
2319519 TTTTTTTAAATTTTTTATTTT-TAAATTATTTTTACAATAC-
1 TTTTTTT--ATTTTTTATTTTCAAAAATATTTTTAAAATACT
2319559 -TTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
2319573 AATTTTCTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
37 8 0.16
39 6 0.12
40 7 0.14
41 16 0.33
42 12 0.24
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (40 bp):
TTTTTTTATTTTTTATTTTCAAAAATATTTTTAAAATACT
Found at i:2320775 original size:18 final size:17
Alignment explanation
Indices: 2320710--2320789 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 17
2320700 ATTTTCTTTG
*
2320710 AAAAACATGAAAAATTTT
1 AAAAACACG-AAAATTTT
* * *
2320728 TAAAACACGAGAACTTT
1 AAAAACACGAAAATTTT
* * *
2320745 AGAGACACAAAAATTCTT
1 AAAAACACGAAAATT-TT
2320763 AAAAACACGAAAATTTT
1 AAAAACACGAAAATTTT
*
2320780 GAAAACACGA
1 AAAAACACGA
2320790 CAAGTTGGAA
Statistics
Matches: 47, Mismatches: 14, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
17 26 0.55
18 21 0.45
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.21
Consensus pattern (17 bp):
AAAAACACGAAAATTTT
Found at i:2320902 original size:18 final size:17
Alignment explanation
Indices: 2320829--2320925 Score: 65
Period size: 18 Copynumber: 5.5 Consensus size: 17
2320819 AACCCGATTT
*
2320829 TTTTTG-AAACGCAAAAA
1 TTTTTGAAAACG-GAAAA
* *
2320846 TTTATGAAACAC-GAGAA
1 TTTTTGAAA-ACGGAAAA
* * *
2320863 TTGTTGAAAACACGCAAA
1 TTTTTGAAAAC-GGAAAA
2320881 TTTTTGAAATAC-GAAAA
1 TTTTTGAAA-ACGGAAAA
2320898 TTTTTTGAAAACGTGAAAA
1 -TTTTTGAAAACG-GAAAA
2320917 TTTTTGAAA
1 TTTTTGAAA
2320926 CACCGAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
16 2 0.03
17 21 0.33
18 31 0.49
19 9 0.14
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAAACGGAAAA
Found at i:2320915 original size:19 final size:17
Alignment explanation
Indices: 2320842--2320925 Score: 71
Period size: 18 Copynumber: 4.8 Consensus size: 17
2320832 TTGAAACGCA
* *
2320842 AAAATTTATGAAACACG
1 AAAATTTTTGAAATACG
* * *
2320859 AGAATTGTTGAAAACACG
1 AAAATTTTTG-AAATACG
*
2320877 CAAATTTTTGAAATACG
1 AAAATTTTTGAAATACG
2320894 AAAATTTTTTGAAA-ACGTG
1 AAAA-TTTTTGAAATAC--G
2320913 AAAATTTTTGAAA
1 AAAATTTTTGAAA
2320926 CACCGAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
17 18 0.33
18 32 0.58
19 5 0.09
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.31
Consensus pattern (17 bp):
AAAATTTTTGAAATACG
Found at i:2320926 original size:17 final size:17
Alignment explanation
Indices: 2320720--2320957 Score: 115
Period size: 17 Copynumber: 13.6 Consensus size: 17
2320710 AAAAACATGA
*
2320720 AAAATTTTTAAAACACG
1 AAAATTTTTGAAACACG
* * * * *
2320737 AGAACTTTAGAGACACA
1 AAAATTTTTGAAACACG
**
2320754 AAAATTCTTAAAAACACG
1 AAAATT-TTTGAAACACG
2320772 AAAA-TTTTGAAAACACG
1 AAAATTTTTG-AAACACG
* * *
2320789 ACAA-GTTGGAAACACG
1 AAAATTTTTGAAACACG
* *
2320805 CAAATTTTTTTGAAAACCCG
1 -AAA-ATTTTTG-AAACACG
*** * *
2320825 ATTTTTTTTGAAACGCA
1 AAAATTTTTGAAACACG
*
2320842 AAAATTTATGAAACACG
1 AAAATTTTTGAAACACG
* *
2320859 AGAATTGTTGAAAACACG
1 AAAATTTTTG-AAACACG
* *
2320877 CAAATTTTTGAAATACG
1 AAAATTTTTGAAACACG
2320894 AAAATTTTTTGAAA-ACGTG
1 AAAA-TTTTTGAAACAC--G
2320913 AAAATTTTTGAAACACCG
1 AAAATTTTTGAAACA-CG
** *
2320931 AATTTTTTTTAAACAC-
1 AAAATTTTTGAAACACG
*
2320947 AAATTTTTTGA
1 AAAATTTTTGA
2320958 TTTTTTTTAT
Statistics
Matches: 165, Mismatches: 44, Indels: 25
0.71 0.19 0.11
Matches are distributed among these distances:
16 18 0.11
17 66 0.40
18 64 0.39
19 10 0.06
20 7 0.04
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (17 bp):
AAAATTTTTGAAACACG
Found at i:2320938 original size:18 final size:17
Alignment explanation
Indices: 2320917--2320955 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2320907 AACGTGAAAA
*
2320917 TTTTTGAAACACCGAATT
1 TTTTTGAAACA-CAAATT
*
2320935 TTTTTTAAACACAAATT
1 TTTTTGAAACACAAATT
2320952 TTTT
1 TTTT
2320956 GATTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.49
Consensus pattern (17 bp):
TTTTTGAAACACAAATT
Found at i:2321104 original size:20 final size:20
Alignment explanation
Indices: 2321064--2321120 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
2321054 ACCTTATTAT
*
2321064 TATTATTTTGAAA-ACGTGAA
1 TATT-TTTTGAAACACGAGAA
2321084 TATTTTTTGAAACACGAGAA
1 TATTTTTTGAAACACGAGAA
2321104 T-TTTTTTGAAGACACGA
1 TATTTTTTGAA-ACACGA
2321121 AAATTTTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (20 bp):
TATTTTTTGAAACACGAGAA
Found at i:2321125 original size:20 final size:19
Alignment explanation
Indices: 2321086--2321127 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
2321076 AACGTGAATA
*
2321086 TTTTTTGAAACACGAGAAT
1 TTTTTTGAAACACGAAAAT
2321105 TTTTTTGAAGACACGAAAAT
1 TTTTTTGAA-ACACGAAAAT
2321125 TTT
1 TTT
2321128 GAAGCGCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (19 bp):
TTTTTTGAAACACGAAAAT
Found at i:2321127 original size:19 final size:19
Alignment explanation
Indices: 2321069--2321127 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
2321059 ATTATTATTA
*
2321069 TTTTGAAA-ACGTGAATATT
1 TTTTGAAACACGAGAA-ATT
*
2321088 TTTTGAAACACGAGAATTT
1 TTTTGAAACACGAGAAATT
2321107 TTTTGAAGACACGA-AAATT
1 TTTTGAA-ACACGAGAAATT
2321126 TT
1 TT
2321128 GAAGCGCGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 23 0.66
20 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (19 bp):
TTTTGAAACACGAGAAATT
Found at i:2321166 original size:38 final size:36
Alignment explanation
Indices: 2321069--2321168 Score: 92
Period size: 38 Copynumber: 2.7 Consensus size: 36
2321059 ATTATTATTA
*
2321069 TTTTGAAAACGTGAATATTTTTTGAAACACGAGAATTT
1 TTTTGAAAACATG-A-ATTTTTTGAAACACGAGAATTT
* * ** * * *
2321107 TTTTGAAGACACGAAAATTTTGAAGCGCGAGATTTTTT
1 TTTTGAAAACATGAATTTTTTGAAACACGAGA--ATTT
2321145 TTTTGAAAACATGAATTTTTTGAA
1 TTTTGAAAACATGAATTTTTTGAA
2321169 TATTTACAAT
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
36 14 0.29
37 1 0.02
38 33 0.69
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (36 bp):
TTTTGAAAACATGAATTTTTTGAAACACGAGAATTT
Found at i:2321306 original size:5 final size:5
Alignment explanation
Indices: 2321293--2321336 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
2321283 AAAATACTAA
* *
2321293 AAATA AAATT AAATT GAATT AAAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT -AAATT AAATT AAATT AAATT AAA
2321337 AAATATAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (5 bp):
AAATT
Found at i:2321316 original size:21 final size:21
Alignment explanation
Indices: 2321292--2321337 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
2321282 AAAAATACTA
*
2321292 AAAATAAAATTAAATTGAATT
1 AAAATAAAATTAAATTAAATT
*
2321313 AAAATTAAATTAAATTAAATT
1 AAAATAAAATTAAATTAAATT
2321334 AAAA
1 AAAA
2321338 AATATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATAAAATTAAATTAAATT
Found at i:2321317 original size:16 final size:16
Alignment explanation
Indices: 2321296--2321336 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2321286 ATACTAAAAA
*
2321296 TAAAATTAAATTGAAT
1 TAAAATTAAATTAAAT
2321312 TAAAATTAAATTAAAT
1 TAAAATTAAATTAAAT
2321328 T-AAATTAAA
1 TAAAATTAAA
2321337 AAATATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAATTAAATTAAAT
Found at i:2321534 original size:14 final size:15
Alignment explanation
Indices: 2321512--2321556 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
2321502 TTTTTCCTCT
2321512 TTTTCTTTTTCTTTA
1 TTTTCTTTTTCTTTA
2321527 TTTT-TTTTTCTTTCA
1 TTTTCTTTTTCTTT-A
*
2321542 TTCTCTTTCTTCTTT
1 TTTTCTTT-TTCTTT
2321557 TTTGTTGGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 9 0.35
15 8 0.31
16 3 0.12
17 6 0.23
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTTTTTCTTTA
Found at i:2321817 original size:12 final size:12
Alignment explanation
Indices: 2321802--2321833 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2321792 TTTTTTTTGA
2321802 TTTTT-TTCTCT
1 TTTTTCTTCTCT
2321813 TTTTTCTTCTC-
1 TTTTTCTTCTCT
2321824 TTTTTCTTCT
1 TTTTTCTTCT
2321834 TTCTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTCTTCTCT
Found at i:2321827 original size:20 final size:23
Alignment explanation
Indices: 2321804--2321845 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2321794 TTTTTTGATT
2321804 TTTTTC-TCTTT-T-TTCTTCTC
1 TTTTTCTTCTTTCTCTTCTTCTC
2321824 TTTTTCTTCTTTCTCTTCTTCT
1 TTTTTCTTCTTTCTCTTCTTCT
2321846 TCCCCTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 1 0.05
23 7 0.37
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTCTTCTTTCTCTTCTTCTC
Found at i:2321831 original size:18 final size:21
Alignment explanation
Indices: 2321805--2321842 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
2321795 TTTTTGATTT
2321805 TTTTCTCTT-TTT-TCTTCTC
1 TTTTCTCTTCTTTCTCTTCTC
2321824 TTTT-TCTTCTTTCTCTTCT
1 TTTTCTCTTCTTTCTCTTCT
2321843 TCTTCCCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCTCTTCTTTCTCTTCTC
Found at i:2322154 original size:13 final size:13
Alignment explanation
Indices: 2322138--2322184 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
2322128 TTGTTGCTGA
*
2322138 TTTTTTTCTCTTG
1 TTTTTTTCTCTTC
2322151 TTTTTTTCT-TTC
1 TTTTTTTCTCTTC
* *
2322163 TCTTTTTCTCCTC
1 TTTTTTTCTCTTC
2322176 TTTTTTTCT
1 TTTTTTTCT
2322185 TTTGGAGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTTTTCTCTTC
Found at i:2322391 original size:30 final size:30
Alignment explanation
Indices: 2322357--2322482 Score: 150
Period size: 30 Copynumber: 4.2 Consensus size: 30
2322347 GGTTAAAACA
*
2322357 TAATTTTGAGAAAGTTTAGGGGTCAAGATG
1 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
* * **
2322387 TAA-TTTCA-AAATCTTTAGGGGTTGAAATG
1 TAATTTTGAGAAA-GTTTAGGGGTCAAAATG
* *
2322416 TAATTTTGAAAAAGTTTAGGGGTTAAAATG
1 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
2322446 TAATTTT-AGAAAAGTTTAGGGGTCAAAATG
1 TAATTTTGAG-AAAGTTTAGGGGTCAAAATG
2322476 TAATTTT
1 TAATTTT
2322483 TTTAAACACA
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.04
29 21 0.26
30 55 0.67
31 3 0.04
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (30 bp):
TAATTTTGAGAAAGTTTAGGGGTCAAAATG
Found at i:2322420 original size:59 final size:58
Alignment explanation
Indices: 2322335--2322482 Score: 179
Period size: 59 Copynumber: 2.5 Consensus size: 58
2322325 GTAATGGCAG
* ** * *
2322335 CAAAACTTTTGGGGTTAAAACATAATTTTGAGAAAGTTTAGGGGTCAAGATGTAATTT
1 CAAAACTTTAGGGGTTAAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATGTAATTT
* *
2322393 CAAAATCTTTAGGGGTTGAAATGTAATTTTGAAAAAGTTTAGGGGTTAAAATGTAATTTT
1 CAAAA-CTTTAGGGGTTAAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATGTAA-TTT
* * *
2322453 AGAAAAGTTTAGGGGTCAAAATGTAATTTT
1 -CAAAACTTTAGGGGTTAAAATGTAATTTT
2322483 TTTAAACACA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
58 5 0.07
59 43 0.57
60 24 0.32
61 4 0.05
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (58 bp):
CAAAACTTTAGGGGTTAAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATGTAATTT
Found at i:2322582 original size:96 final size:96
Alignment explanation
Indices: 2322454--2322649 Score: 365
Period size: 96 Copynumber: 2.0 Consensus size: 96
2322444 TGTAATTTTA
2322454 GAAAAGTTTAGGGGTCAAAATGTAATTTTTTTAAACACAAAATTATTCCAGGACAAAATTCAGTG
1 GAAAAGTTTAGGGGTCAAAATGTAATTTTTTTAAACACAAAATTATTCCAGGACAAAATTCAGTG
*
2322519 ATTACAGCTGCCCCTCTTTGCTCATCGCTAT
66 ATTACAACTGCCCCTCTTTGCTCATCGCTAT
2322550 GAAAAGTTTAGGGGTCAAAATGTAATTTTTTTAAACACAAAATTATTCCAGGACAAAATTCAGTG
1 GAAAAGTTTAGGGGTCAAAATGTAATTTTTTTAAACACAAAATTATTCCAGGACAAAATTCAGTG
* *
2322615 ATTACAACTGCCCCTTTTTGCTCATCGCTGT
66 ATTACAACTGCCCCTCTTTGCTCATCGCTAT
2322646 GAAA
1 GAAA
2322650 CAGGGATAGA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (96 bp):
GAAAAGTTTAGGGGTCAAAATGTAATTTTTTTAAACACAAAATTATTCCAGGACAAAATTCAGTG
ATTACAACTGCCCCTCTTTGCTCATCGCTAT
Found at i:2322895 original size:91 final size:92
Alignment explanation
Indices: 2322783--2322960 Score: 279
Period size: 91 Copynumber: 1.9 Consensus size: 92
2322773 GAATTATGAG
**
2322783 TTGATTTTTTGAAAAACAGAAATTGAAAAG-AATACATCGGCATGCGACTTGAGGCTCAACTCAC
1 TTGATTTTTTGAAAAACAGAAATTGAAAAGAAATACATCGGCATGCG-CCCGAGGCTCAACTCAC
2322847 CTCTCGCAATATGAGTTGATTTTGATTT
65 CTCTCGCAATATGAGTTGATTTTGATTT
* * * *
2322875 TTGA-TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACC
1 TTGATTTTTTGAAAAACAGAAATTGAAAAGAAATACATCGGCATGCGCCCGAGGCTCAACTCACC
2322939 TCTCGCAATATGAGTTGATTTT
66 TCTCGCAATATGAGTTGATTTT
2322961 TTAAAAACAA
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
91 62 0.78
92 17 0.22
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (92 bp):
TTGATTTTTTGAAAAACAGAAATTGAAAAGAAATACATCGGCATGCGCCCGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTGATTT
Found at i:2323001 original size:75 final size:75
Alignment explanation
Indices: 2322875--2323357 Score: 344
Period size: 75 Copynumber: 6.1 Consensus size: 75
2322865 ATTTTGATTT
* * *
2322875 TTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCT
1 TTGATTTTTTAAAAACA-AAAATT-GAA-AAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCT
*
2322940 CTCGCAATATGAG
63 CTCACAATATGAG
2322953 TTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTC
1 TTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTC
*
2323018 GCAATATGAG
66 ACAATATGAG
******** * * **** ** *
2323028 TTGATTTTGATTTTTGTTTTTTGAAA-GGCAAAAAT--TTAAAAGAAATACCTCGGCATGTGCCT
1 TTGA---T--TTTTTAAAAACAAAAATTG-AAAAATACCTCGGCG-TGTGCC-C-G-A-G-G-CT
* * *
2323090 GAGGCTCAACTCACCTCTCGCAATATGAG
53 CA-ACTCA-----CCTCTCACAATATGAG
* * * * *
2323119 TTGATTTTTGAAAAATACAAATTGAAAAATACCTCAGCGTG-ACCCGAGGCTCAACTCACCTCTC
1 TTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTC
2323183 ACAATATGAG
66 ACAATATGAG
* * *
2323193 TTGATTCTTTTTAAAACAGAAATTGAAAAATACCTCGGCGTGTGCTCGAGGCTCAACTCACCTCT
1 TTGATT-TTTTAAAAACAAAAATTGAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCT
2323258 CACAATATGAG
65 CACAATATGAG
* * * ** *
2323269 TTGATTTTTGAAAAACATAAATTTACAAGAAATACCTCGGTATGTGACCTGAGGCTCAACTCACC
1 TTGATTTTTTAAAAACA-AAAATT-GAA-AAATACCTCGGCGTGTG-CCCGAGGCTCAACTCACC
2323334 TCTCACAATATGAG
62 TCTCACAATATGAG
2323348 TTGATTTTTT
1 TTGATTTTTT
2323358 TTTGAAAAAA
Statistics
Matches: 320, Mismatches: 57, Indels: 55
0.74 0.13 0.13
Matches are distributed among these distances:
74 21 0.07
75 92 0.29
76 43 0.13
77 7 0.02
78 34 0.11
79 47 0.15
80 18 0.06
81 2 0.01
82 2 0.01
83 2 0.01
84 2 0.01
85 4 0.01
86 21 0.07
87 1 0.00
88 4 0.01
91 20 0.06
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (75 bp):
TTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTC
ACAATATGAG
Found at i:2323029 original size:166 final size:167
Alignment explanation
Indices: 2322757--2323362 Score: 759
Period size: 166 Copynumber: 3.7 Consensus size: 167
2322747 GCGAGTCAAA
* * *
2322757 GCTCAACTCACCTCTTG-AATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAGAATACATC
1 GCTCAACTCACCTCTCGCAA-TATGAGTTGA-TTTTTGAAAAACAAAAATTG-AAA-AATACCTC
* ** *
2322821 GGCATGCGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGATTTTTGA
62 GGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTGATTTTTGATTTTTGA
2322886 AAAACAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAG
127 AAAACAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAG
* *
2322927 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGCA
* * **
2322992 TGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAGG
66 TGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTGATTTTTGATTTTTGAAAAA
* * *
2323056 CAAAAATTTAAAAGAAATACCTCGGCATGTGCCTGAG
131 CAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAG
* * *
2323093 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATACAAATTGAAAAATACCTCAGC-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGCA
*
2323157 -GTGACCCGAGGCTCAACTCACCTCTCACAATATGA---G---TTGA---TT-CTTTTT--AAAA
66 TGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTGATTTTTGATTTTTGAAAAA
* *
2323209 CAGAAA-TT-GAA-AAATACCTCGGCGTGTGCTCGAG
131 CAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAG
* * *
2323243 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACATAAATTTACAAGAAATACCTCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAAATT-GAA-AAATACCTCG
* *
2323308 GTATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT--TTTTTGA
63 GCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTGATTTTTGA
2323363 AAAAACAGAA
Statistics
Matches: 383, Mismatches: 36, Indels: 41
0.83 0.08 0.09
Matches are distributed among these distances:
150 61 0.16
151 6 0.02
152 4 0.01
153 17 0.04
155 39 0.10
156 2 0.01
158 1 0.00
159 4 0.01
161 2 0.01
162 3 0.01
164 3 0.01
165 30 0.08
166 149 0.39
167 13 0.03
168 3 0.01
169 18 0.05
170 26 0.07
171 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (167 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGCA
TGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTGATTTTTGATTTTTGAAAAA
CAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAG
Found at i:2323177 original size:74 final size:74
Alignment explanation
Indices: 2323070--2323356 Score: 369
Period size: 75 Copynumber: 3.8 Consensus size: 74
2323060 AATTTAAAAG
* *
2323070 AAATACCTCGGCATGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCGGC--GTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAA
*
2323134 TACAAATTGAA
64 CACAAATTGAA
* **
2323145 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTTAAAAC
1 AAATACCTCGGCGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATT-TTTGAAAAAC
*
2323210 AGAAATTGAA
65 ACAAATTGAA
* *
2323220 AAATACCTCGGCGTGTGCTCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAAC
1 AAATACCTCGGCGTG-ACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAAC
* *
2323285 ATAAATTTACAA
65 ACAAA-TT-GAA
* *
2323297 GAAATACCTCGGTATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 -AAATACCTCGG--CGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
2323357 TTTTGAAAAA
Statistics
Matches: 186, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
73 3 0.02
74 36 0.19
75 53 0.28
76 39 0.21
77 2 0.01
78 11 0.06
79 39 0.21
80 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (74 bp):
AAATACCTCGGCGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACA
CAAATTGAA
Found at i:2324244 original size:11 final size:10
Alignment explanation
Indices: 2324227--2324273 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
2324217 TTCATCTTGA
2324227 TTTTTCTTTT
1 TTTTTCTTTT
2324237 TCTTTTCTTTT
1 T-TTTTCTTTT
*
2324248 TTTTTGTTTT
1 TTTTTCTTTT
2324258 TTGTTT-TTTT
1 TT-TTTCTTTT
2324268 GTTTTT
1 -TTTTT
2324274 TTAGGCATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 18 0.55
11 15 0.45
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:2324257 original size:8 final size:8
Alignment explanation
Indices: 2324233--2324275 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
2324223 TTGATTTTTC
*
2324233 TTTTTCTT
1 TTTTTGTT
*
2324241 TTCTT-TT
1 TTTTTGTT
2324248 TTTTTG-T
1 TTTTTGTT
2324255 TTTTTGTT
1 TTTTTGTT
2324263 TTTTTGTT
1 TTTTTGTT
2324271 TTTTT
1 TTTTT
2324276 AGGCATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 13 0.42
8 18 0.58
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (8 bp):
TTTTTGTT
Found at i:2324257 original size:15 final size:14
Alignment explanation
Indices: 2324227--2324275 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
2324217 TTCATCTTGA
* *
2324227 TTTTTCTTTTTCTT
1 TTTTTTTTTTTGTT
2324241 TTCTTTTTTTTTGTT
1 TT-TTTTTTTTTGTT
2324256 TTTTGTTTTTTTGTT
1 TTTT-TTTTTTTGTT
2324271 TTTTT
1 TTTTT
2324276 AGGCATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 5 0.16
15 26 0.84
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTTTGTT
Found at i:2331092 original size:3 final size:3
Alignment explanation
Indices: 2331084--2331130 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
2331074 GTGAGGTAAG
2331084 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2331131 AGATGAGTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2331303 original size:23 final size:24
Alignment explanation
Indices: 2331287--2331332 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2331277 TGGATTAATT
2331287 ATTG-ATTGAAAGATGGAGAAATG
1 ATTGAATTGAAAGATGGAGAAATG
2331310 ATTGAATTGAAA-ATGTGAGAAAT
1 ATTGAATTGAAAGATG-GAGAAAT
2331333 TGTGATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (24 bp):
ATTGAATTGAAAGATGGAGAAATG
Found at i:2332928 original size:21 final size:22
Alignment explanation
Indices: 2332904--2332945 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2332894 TGATCCAATC
*
2332904 AAAATACGAA-TTTTTTAAAAA
1 AAAATACGAAGATTTTTAAAAA
2332925 AAAATACGAAGATTTTTAAAA
1 AAAATACGAAGATTTTTAAAA
2332946 CAATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (22 bp):
AAAATACGAAGATTTTTAAAAA
Found at i:2333128 original size:18 final size:18
Alignment explanation
Indices: 2332962--2333288 Score: 156
Period size: 18 Copynumber: 18.2 Consensus size: 18
2332952 TTTTCTTGGA
2332962 AAAACACGAAAAATTTTT-
1 AAAACACG-AAAATTTTTG
* * *
2332980 AAAACACGAGAACTTTAG
1 AAAACACGAAAATTTTTG
* * * *
2332998 -AGACACAAAAATTCTTA
1 AAAACACGAAAATTTTTG
*
2333015 AAAACACAAAAATTTTTG
1 AAAACACGAAAATTTTTG
* *
2333033 AAAATACGACAA-TTTTG
1 AAAACACGAAAATTTTTG
* *
2333050 AAGCACAC-AAATTTTTTTTG
1 AA-AACACGAAA--ATTTTTG
* ***
2333070 AAAACCCGATTTTTTTTG
1 AAAACACGAAAATTTTTG
* * *
2333088 -AAACGCAAAAATTTGTG
1 AAAACACGAAAATTTTTG
* *
2333105 -AAACACGAGAATTGTTG
1 AAAACACGAAAATTTTTG
2333122 AAAACAC-ACAAATTTTTG
1 AAAACACGA-AAATTTTTG
*
2333140 AAAACAGGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
2333158 -AAACACGAAATTTTTTAG
1 AAAACACGAAAATTTTT-G
* * *
2333176 GAAACATGAAAAAAAAATTTTG
1 AAAACACG----AAAATTTTTG
* *
2333198 ATTATCA-G--AATTTTTG
1 A-AAACACGAAAATTTTTG
2333214 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
2333232 -AAACATGAAAATTTTTG
1 AAAACACGAAAATTTTTG
* * *
2333249 AAAACATGGGAATTTTTTG
1 AAAACA-CGAAAATTTTTG
**
2333268 AAAACGTGAAAATTTTTG
1 AAAACACGAAAATTTTTG
2333286 AAA
1 AAA
2333289 CACCGAATTT
Statistics
Matches: 230, Mismatches: 57, Indels: 44
0.69 0.17 0.13
Matches are distributed among these distances:
15 3 0.01
16 9 0.04
17 79 0.34
18 95 0.41
19 24 0.10
20 8 0.03
22 2 0.01
23 10 0.04
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:2333265 original size:92 final size:92
Alignment explanation
Indices: 2333112--2333279 Score: 234
Period size: 92 Copynumber: 1.8 Consensus size: 92
2333102 GTGAAACACG
*
2333112 AGAATTGTTGAAAACACACAAATTTTTGAAAACAGGAAAATTTTTGAAACACGAAATTTTTTAGG
1 AGAATTGTTGAAAACACACAAATTTTTGAAAACAGGAAAATTTTTGAAACACGAAATTTTTTAGA
2333177 AAACATGAAAAAAAAATTTTGATTATC
66 AAACATGAAAAAAAAATTTTGATTATC
* * * *
2333204 AGAATTTTTGAAAACACGA-AAATTTTTG-AAACATGAAAATTTTTGAAAACATGGGAATTTTTT
1 AGAATTGTTGAAAACAC-ACAAATTTTTGAAAACAGGAAAATTTTTG-AAACA-CGAAATTTTTT
*
2333267 -GAAAACGTGAAAA
63 AGAAAACATGAAAA
2333280 TTTTTGAAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
91 16 0.24
92 41 0.61
93 10 0.15
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (92 bp):
AGAATTGTTGAAAACACACAAATTTTTGAAAACAGGAAAATTTTTGAAACACGAAATTTTTTAGA
AAACATGAAAAAAAAATTTTGATTATC
Found at i:2333302 original size:37 final size:36
Alignment explanation
Indices: 2333206--2333307 Score: 113
Period size: 35 Copynumber: 2.9 Consensus size: 36
2333196 TGATTATCAG
*
2333206 AATTTTTGAAAACA--CGAAAATTTTTGAAACATGAA
1 AATTTTTGAAAACATCCG-AATTTTTTGAAACATGAA
** *
2333241 AATTTTTGAAAACATGGGAATTTTTTGAAAACGTGAA
1 AATTTTTGAAAACATCCGAATTTTTTG-AAACATGAA
*
2333278 AATTTTTG-AAACA-CCGAATTTTTTTAAACA
1 AATTTTTGAAAACATCCGAATTTTTTGAAACA
2333308 CAAATTTTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
34 4 0.07
35 23 0.40
36 13 0.23
37 17 0.30
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (36 bp):
AATTTTTGAAAACATCCGAATTTTTTGAAACATGAA
Found at i:2333449 original size:20 final size:20
Alignment explanation
Indices: 2333424--2333488 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
2333414 GCCTTATTAT
2333424 TATTTTTTTGAAAACGCGAA
1 TATTTTTTTGAAAACGCGAA
*
2333444 TA-TTTTTTGAAACACGAGAA
1 TATTTTTTTGAAA-ACGCGAA
* *
2333464 T-TTTTTTTGAAGACACGAA
1 TATTTTTTTGAAAACGCGAA
*
2333483 AATTTT
1 TATTTT
2333489 GAAGCGCGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 15 0.41
20 22 0.59
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (20 bp):
TATTTTTTTGAAAACGCGAA
Found at i:2333451 original size:19 final size:19
Alignment explanation
Indices: 2333427--2333488 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
2333417 TTATTATTAT
2333427 TTTTTTGAAAACGCGAATA
1 TTTTTTGAAAACGCGAATA
* *
2333446 TTTTTTGAAACACGAGAATT
1 TTTTTTGAAA-ACGCGAATA
* * *
2333466 TTTTTTGAAGACACGAAAA
1 TTTTTTGAAAACGCGAATA
2333485 TTTT
1 TTTT
2333489 GAAGCGCGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTTTTGAAAACGCGAATA
Found at i:2333527 original size:38 final size:37
Alignment explanation
Indices: 2333426--2333529 Score: 93
Period size: 38 Copynumber: 2.7 Consensus size: 37
2333416 CTTATTATTA
* *
2333426 TTTTTTTGAAAACGCGAATATTTTTTGAAACACGAGAAT
1 TTTTTTTGAAGACACG-A-ATTTTTTGAAACACGAGAAT
** * * *
2333465 TTTTTTTGAAGACACGAAAATTTTGAAGCGCGAGATTT
1 TTTTTTTGAAGACACGAATTTTTTGAAACACGAGA-AT
*
2333503 TTTTTTTG-AGAACATGAATTTTTTGAA
1 TTTTTTTGAAG-ACACGAATTTTTTGAA
2333530 TATTTACAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
37 16 0.30
38 23 0.43
39 14 0.26
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (37 bp):
TTTTTTTGAAGACACGAATTTTTTGAAACACGAGAAT
Found at i:2333667 original size:5 final size:5
Alignment explanation
Indices: 2333654--2333697 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
2333644 AAAATATTAA
* *
2333654 AAATA AAATT AAATT GAATT AAAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT -AAATT AAATT AAATT AAATT AAA
2333698 AAAATATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (5 bp):
AAATT
Found at i:2333667 original size:10 final size:10
Alignment explanation
Indices: 2333654--2333709 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
2333644 AAAATATTAA
2333654 AAATAAAATT
1 AAATAAAATT
**
2333664 AAATTGAATT
1 AAATAAAATT
*
2333674 AAAATTAAATT
1 -AAATAAAATT
*
2333685 AAATTAAATT
1 AAATAAAATT
2333695 AAA-AAAATAT
1 AAATAAAAT-T
2333705 AAATA
1 AAATA
2333710 CAAAAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
9 4 0.10
10 25 0.64
11 10 0.26
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (10 bp):
AAATAAAATT
Found at i:2333677 original size:21 final size:21
Alignment explanation
Indices: 2333653--2333698 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
2333643 AAAAATATTA
*
2333653 AAAATAAAATTAAATTGAATT
1 AAAATAAAATTAAATTAAATT
*
2333674 AAAATTAAATTAAATTAAATT
1 AAAATAAAATTAAATTAAATT
2333695 AAAA
1 AAAA
2333699 AAATATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATAAAATTAAATTAAATT
Found at i:2333678 original size:16 final size:16
Alignment explanation
Indices: 2333657--2333697 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2333647 ATATTAAAAA
*
2333657 TAAAATTAAATTGAAT
1 TAAAATTAAATTAAAT
2333673 TAAAATTAAATTAAAT
1 TAAAATTAAATTAAAT
2333689 T-AAATTAAA
1 TAAAATTAAA
2333698 AAAATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAATTAAATTAAAT
Found at i:2333707 original size:15 final size:15
Alignment explanation
Indices: 2333675--2333722 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
2333665 AATTGAATTA
*
2333675 AAATTAAATTAAAT-T
1 AAATTAAA-AAAATAT
2333690 AAATTAAAAAAATAT
1 AAATTAAAAAAATAT
2333705 AAA-TACAAAAAATAT
1 AAATTA-AAAAAATAT
2333720 AAA
1 AAA
2333723 AATGCATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 6 0.20
15 24 0.80
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTAAAAAAATAT
Found at i:2333878 original size:18 final size:19
Alignment explanation
Indices: 2333855--2333901 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
2333845 CAAATTGAAC
*
2333855 CTTTTTTTTCTTT-TCTTT
1 CTTTTTTTTCTTTCTCTCT
2333873 CTTTTTTTTCTTTCTCTCT
1 CTTTTTTTTCTTTCTCTCT
2333892 CTTTCTTTTT
1 CTTT-TTTTT
2333902 TTTGTTGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 13 0.50
19 8 0.31
20 5 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
CTTTTTTTTCTTTCTCTCT
Found at i:2333898 original size:23 final size:21
Alignment explanation
Indices: 2333856--2333904 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 21
2333846 AAATTGAACC
*
2333856 TTTTTTTTCTTTTCTTTCTTT
1 TTTTTTTTCTTCTCTTTCTTT
2333877 TTTTTCTTTCTCTCTCTTTCTTT
1 TTTTT-TTTCT-TCTCTTTCTTT
2333900 TTTTT
1 TTTTT
2333905 GTTGGGTCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.20
22 5 0.20
23 15 0.60
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTTTCTTCTCTTTCTTT
Found at i:2334177 original size:15 final size:15
Alignment explanation
Indices: 2334157--2334186 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2334147 TTTTGATTTT
*
2334157 TTTCTCTTTTTCTTC
1 TTTCTCTTCTTCTTC
2334172 TTTCTCTTCTTCTTC
1 TTTCTCTTCTTCTTC
2334187 CCCTCCCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCTCTTCTTCTTC
Found at i:2334763 original size:59 final size:59
Alignment explanation
Indices: 2334655--2334823 Score: 185
Period size: 59 Copynumber: 2.8 Consensus size: 59
2334645 TGGCTGCCAG
* ** * * ** *
2334655 AGGGACCAAAATGTAATGGCAGCAAAACTTTTGGGGTTGAAACATAATTTTGAGAAAGTTT
1 AGGGATCAAAATGTAATTTCA--AAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAGTTT
** *
2334716 AGGGATCAAAATGTAATTTCAAAATGTTTAGGGGTTGAAATGTAATTTTGAAAAATTTT
1 AGGGATCAAAATGTAATTTCAAAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAGTTT
* * **
2334775 AGGGGTCAAAATGTAATTTTAAAAAATTTAGGGGTCAAAATGTAATTTT
1 AGGGATCAAAATGTAATTTCAAAAAATTTAGGGGTTGAAATGTAATTTT
2334824 TTTAAACACA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
59 74 0.80
61 18 0.20
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (59 bp):
AGGGATCAAAATGTAATTTCAAAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAGTTT
Found at i:2334823 original size:29 final size:30
Alignment explanation
Indices: 2334699--2334823 Score: 164
Period size: 29 Copynumber: 4.2 Consensus size: 30
2334689 GGTTGAAACA
* *
2334699 TAATTTTGAGAAAGTTTAGGGATCAAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
* * **
2334729 TAA-TTTCAAAATGTTTAGGGGTTGAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
*
2334758 TAATTTTGAAAAATTTTAGGGGTCAAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
*
2334788 TAATTTT-AAAAAATTTAGGGGTCAAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
2334817 TAATTTT
1 TAATTTT
2334824 TTTAAACACA
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
29 51 0.62
30 31 0.38
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.38
Consensus pattern (30 bp):
TAATTTTGAAAAAGTTTAGGGGTCAAAATG
Found at i:2335171 original size:43 final size:43
Alignment explanation
Indices: 2335087--2335172 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
2335077 CAATCATGTG
* * **
2335087 AGCTAAATTTAAGAATATTAATACTTGAATTATTTTTCTTGCA
1 AGCTAAATTTAAGAAAATTAATACTTGAATTATGTAGCTTGCA
* *
2335130 AGCTGAATTTGAGAAAATTAATACTTGAATTGA-GTAGCTTGCA
1 AGCTAAATTTAAGAAAATTAATACTTGAATT-ATGTAGCTTGCA
2335173 GTTTAACTCG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (43 bp):
AGCTAAATTTAAGAAAATTAATACTTGAATTATGTAGCTTGCA
Found at i:2340897 original size:26 final size:26
Alignment explanation
Indices: 2340868--2340919 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
2340858 ATGAAATAAA
2340868 TTATAAAAAGTAAAAAGATACATAGT
1 TTATAAAAAGTAAAAAGATACATAGT
2340894 TTATAAAAAGTAAAAAGATACATAGT
1 TTATAAAAAGTAAAAAGATACATAGT
2340920 GTGTGCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.27
Consensus pattern (26 bp):
TTATAAAAAGTAAAAAGATACATAGT
Found at i:2341469 original size:3 final size:3
Alignment explanation
Indices: 2341461--2341502 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
2341451 CAAAAATATG
2341461 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2341503 GTAAACAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2342728 original size:15 final size:15
Alignment explanation
Indices: 2342685--2342728 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
2342675 ACTATTGAGA
*
2342685 ATTTGGGTTGGGTCTG
1 ATTT-GGTTGGGTTTG
2342701 ATTTGGTTGGGTTTG
1 ATTTGGTTGGGTTTG
2342716 ATTTGGTTGGGTT
1 ATTTGGTTGGGTT
2342729 AGGGGTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.07, C:0.02, G:0.41, T:0.50
Consensus pattern (15 bp):
ATTTGGTTGGGTTTG
Found at i:2343612 original size:58 final size:58
Alignment explanation
Indices: 2343547--2343671 Score: 232
Period size: 58 Copynumber: 2.1 Consensus size: 58
2343537 AAAGTAAGAA
*
2343547 GAAAAAATAATGAGGTGCTTAGTGCTCCAAGAAATTTCAAATCTTGATGTAAACATTT
1 GAAAAAATAAAGAGGTGCTTAGTGCTCCAAGAAATTTCAAATCTTGATGTAAACATTT
2343605 GAAAAAATAAAGAGGTGCTTAGTGCTCCAAGAAATTTCAAATCTTGATGTAAACATTT
1 GAAAAAATAAAGAGGTGCTTAGTGCTCCAAGAAATTTCAAATCTTGATGTAAACATTT
2343663 GAAGAAAAT
1 GAA-AAAAT
2343672 TGAGTTGAGT
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 60 0.92
59 5 0.08
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (58 bp):
GAAAAAATAAAGAGGTGCTTAGTGCTCCAAGAAATTTCAAATCTTGATGTAAACATTT
Found at i:2343935 original size:21 final size:21
Alignment explanation
Indices: 2343909--2343951 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2343899 TCCGATTGGG
2343909 ATTCTTCAGCTTGGCTAACTC
1 ATTCTTCAGCTTGGCTAACTC
2343930 ATTCTTCAGCTTGGCTAACTC
1 ATTCTTCAGCTTGGCTAACTC
2343951 A
1 A
2343952 AGCAATCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (21 bp):
ATTCTTCAGCTTGGCTAACTC
Found at i:2352703 original size:14 final size:14
Alignment explanation
Indices: 2352675--2352716 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
2352665 TACAACCACC
2352675 TTAACTGCT-ACTG
1 TTAACTGCTAACTG
2352688 TTAACTGCTAACTG
1 TTAACTGCTAACTG
*
2352702 TTAACTACTAACTG
1 TTAACTGCTAACTG
2352716 T
1 T
2352717 AATAACAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (14 bp):
TTAACTGCTAACTG
Found at i:2357809 original size:15 final size:15
Alignment explanation
Indices: 2357789--2357819 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2357779 GTTATGTAAG
2357789 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
2357804 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
2357819 T
1 T
2357820 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:2358758 original size:27 final size:27
Alignment explanation
Indices: 2358728--2358800 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
2358718 CTCAAAGCCT
2358728 TCGAGGTAAA-GGTCGTGGTCGTGGAGA
1 TCGAGG-AAATGGTCGTGGTCGTGGAGA
2358755 TCGAGGAAATGGTCGTGGTCGTGGAGA
1 TCGAGGAAATGGTCGTGGTCGTGGAGA
2358782 TCGAGGAAATGGTCGTGGT
1 TCGAGGAAATGGTCGTGGT
2358801 GGAAAAGGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
26 3 0.07
27 42 0.93
ACGTcount: A:0.22, C:0.11, G:0.44, T:0.23
Consensus pattern (27 bp):
TCGAGGAAATGGTCGTGGTCGTGGAGA
Found at i:2358810 original size:15 final size:15
Alignment explanation
Indices: 2358786--2358815 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2358776 TGGAGATCGA
*
2358786 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
2358801 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
2358816 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:2366083 original size:26 final size:23
Alignment explanation
Indices: 2366029--2366084 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
2366019 TAGTAAAATG
*
2366029 TATTTTTATATTATGTTTTGATA
1 TATTTTTATATTATATTTTGATA
* *
2366052 TGTTTTTATTATTTTATTTTGATCA
1 TATTTTTA-TATTATATTTTGAT-A
2366077 TAATTTTT
1 T-ATTTTT
2366085 CATTTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 7 0.27
24 12 0.46
25 2 0.08
26 5 0.19
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (23 bp):
TATTTTTATATTATATTTTGATA
Found at i:2373077 original size:21 final size:20
Alignment explanation
Indices: 2373049--2373087 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2373039 AATTTTTTTT
* *
2373049 AATTGAGTCGAGTGAAATGA
1 AATTGAGTCAAGTCAAATGA
2373069 AATTCGAGTCAAGTCAAAT
1 AATT-GAGTCAAGTCAAAT
2373088 AGAATCAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (20 bp):
AATTGAGTCAAGTCAAATGA
Found at i:2373379 original size:18 final size:19
Alignment explanation
Indices: 2373358--2373396 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2373348 TTTTGGAAAT
*
2373358 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
2373376 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
2373395 TT
1 TT
2373397 CTATTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:2377362 original size:16 final size:17
Alignment explanation
Indices: 2377333--2377366 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2377323 TGAATTGTAT
2377333 ATATGTATACATATATA
1 ATATGTATACATATATA
*
2377350 ATATGT-TATATATATA
1 ATATGTATACATATATA
2377366 A
1 A
2377367 GTAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGTATACATATATA
Done.