Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 18 of 240
Found at i:6652052 original size:21 final size:21
Alignment explanation
Indices: 6652024--6652119 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
6652014 TTAATTTTAA
6652024 AATATTTTTAAAATACTTTTT
1 AATATTTTTAAAATACTTTTT
* **
6652045 ATTATTTTT-AAAT--TTTAA
1 AATATTTTTAAAATACTTTTT
6652063 AATATTTTTAAAATACTTTTT
1 AATATTTTTAAAATACTTTTT
* *
6652084 AAAATTTTTAAAATAAATTTTT
1 AATATTTTTAAAAT-ACTTTTT
*
6652106 AGTATTTATTAAAA
1 AATATTT-TTAAAA
6652120 AATGGGCCGG
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
18 11 0.18
19 4 0.07
20 4 0.07
21 24 0.40
22 11 0.18
23 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (21 bp):
AATATTTTTAAAATACTTTTT
Found at i:6652059 original size:39 final size:39
Alignment explanation
Indices: 6652001--6652095 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 39
6651991 ATATATTTAT
* *
6652001 TTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAAATTTTTAAATTTTAAAATATTTTTAAAATAC
**
6652040 TTTTTATTATTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAAATTTTTAAATTTTAAAATATTTTTAAAATAC
6652079 TTTTTAAAATTTTTAAA
1 TTTTTAAAATTTTTAAA
6652096 ATAAATTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (39 bp):
TTTTTAAAATTTTTAAATTTTAAAATATTTTTAAAATAC
Found at i:6655247 original size:18 final size:18
Alignment explanation
Indices: 6655220--6655254 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6655210 TATGATTTAC
*
6655220 AATTTAAATTAGTTCTTA
1 AATTTAAATTAGATCTTA
*
6655238 AATTTTAATTAGATCTT
1 AATTTAAATTAGATCTT
6655255 TTCGTTATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (18 bp):
AATTTAAATTAGATCTTA
Found at i:6656042 original size:20 final size:21
Alignment explanation
Indices: 6656019--6656058 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6656009 AATTTTTTTA
6656019 TAAATTTGTA-AAAA-TATTAT
1 TAAATTT-TATAAAAGTATTAT
6656039 TAAATTTTATAAAAGTATTA
1 TAAATTTTATAAAAGTATTA
6656059 AATAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 11 0.61
21 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
TAAATTTTATAAAAGTATTAT
Found at i:6663868 original size:23 final size:19
Alignment explanation
Indices: 6663817--6663868 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 19
6663807 ATTGAGTAGG
6663817 TATATTAAACAAGTTAATA
1 TATATTAAACAAGTTAATA
6663836 TATATATAAACAATTGTATAATAA
1 TATAT-TAAACAA--GT-TAAT-A
6663860 TATATTAAA
1 TATATTAAA
6663869 ACAAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 5 0.18
20 7 0.25
22 2 0.07
23 8 0.29
24 6 0.21
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
TATATTAAACAAGTTAATA
Found at i:6663945 original size:3 final size:3
Alignment explanation
Indices: 6663910--6663990 Score: 58
Period size: 3 Copynumber: 26.3 Consensus size: 3
6663900 ATAAGAAAAC
* * * * *
6663910 ATA ATA CTA ACA ATA GTA TTA ATA A-A TATA ATA ATA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
6663954 GATA ATA ATG ATA ATA ATA ATA ACTAA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA A
6663991 AAAATTACTA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
2 2 0.03
3 53 0.87
4 4 0.07
5 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6671363 original size:12 final size:13
Alignment explanation
Indices: 6671337--6671365 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6671327 TTTTTGAAAA
6671337 TTATGAGGATTTT
1 TTATGAGGATTTT
6671350 TTATGAGG-TTTT
1 TTATGAGGATTTT
6671362 TTAT
1 TTAT
6671366 TAAAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (13 bp):
TTATGAGGATTTT
Found at i:6676244 original size:119 final size:119
Alignment explanation
Indices: 6676111--6676409 Score: 494
Period size: 119 Copynumber: 2.5 Consensus size: 119
6676101 TGAATCTAGA
*
6676111 TAATTATTTA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCA
1 TAATTA-TTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCA
* *
6676175 AATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATAT
65 AATTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
* *
6676230 TGATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTA
1 TAATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCA
*
6676294 ATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
65 AATTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
*
6676349 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 TAATTATT-AGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
6676410 GTTTAAATAT
Statistics
Matches: 168, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
118 3 0.02
119 114 0.68
120 51 0.30
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (119 bp):
TAATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAA
ATTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
Found at i:6676267 original size:18 final size:18
Alignment explanation
Indices: 6676241--6676296 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
6676231 GATTATTAGA
6676241 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
6676258 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
6676274 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
6676288 ATTTTAATT
1 ATTTTAATT
6676297 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:6676389 original size:18 final size:17
Alignment explanation
Indices: 6676361--6676395 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6676351 ATTATTAAGA
*
6676361 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6676378 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6676396 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6676503 original size:147 final size:149
Alignment explanation
Indices: 6676349--6676623 Score: 491
Period size: 147 Copynumber: 1.9 Consensus size: 149
6676339 ATAAGAATAT
* *
6676349 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTAATAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
6676414 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
6676477 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
6676496 TAATTATTAAGAATTTTAATAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTAATAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
6676561 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
6676624 CAATAATCAT
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
147 89 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTAATAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:6676528 original size:17 final size:18
Alignment explanation
Indices: 6676508--6676542 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6676498 ATTATTAAGA
*
6676508 ATTTTAA-TAAATTATAT
1 ATTTTAATTAAAATATAT
6676525 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
6676543 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:6676753 original size:44 final size:45
Alignment explanation
Indices: 6676704--6676798 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
6676694 TTACACCTCT
* * *
6676704 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
6676748 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
6676793 ATTACA
1 ATTACA
6676799 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:6685935 original size:23 final size:23
Alignment explanation
Indices: 6685904--6685954 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
6685894 ACCTACTTTC
* *
6685904 TTACTGTAGTAATTTTCAGGGTA
1 TTACAGTAGTAATTTTCAGGATA
*
6685927 TTACAGTAGTAATTTTTAGGATA
1 TTACAGTAGTAATTTTCAGGATA
6685950 TTACA
1 TTACA
6685955 ATTTTGTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:6690296 original size:9 final size:9
Alignment explanation
Indices: 6690279--6690315 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
6690269 TGATTTTTCA
6690279 AATTCGAAT
1 AATTCGAAT
*
6690288 AACTCGAAT
1 AATTCGAAT
6690297 AATTCGAAT
1 AATTCGAAT
6690306 AATTCGAAT
1 AATTCGAAT
6690315 A
1 A
6690316 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:6691787 original size:308 final size:303
Alignment explanation
Indices: 6691182--6691794 Score: 1091
Period size: 303 Copynumber: 2.0 Consensus size: 303
6691172 GTGACAATGG
6691182 TTACAAGGACCCAAAATTATTTTTTAAAATTTAACTCAAAAAAATATATTCGATTCGATTCGATT
1 TTACAAGGACCCAAAATTATTTTTTAAAATTTAACTCAAAAAAATATATTCGATTCGATTCGATT
6691247 CGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAACGAGA
66 CGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAACGAGA
* ** *
6691312 TTTGAAAACTCGATTAACTTGAAAATTTTCGATTCGATTCGATCGAATGCTCACCCTTATTCGTC
131 TTCGAAAACTCGATTAACTAAAAAATTTTCGATTCGATTCGATCGAATGCTCACCCCTATTCGTC
6691377 ATAAAGCGCGTCTCGTAGCAAAAGGCTGTTCTCAAGTTTCGAGTTGTGATTTTCAGGAAATGTTC
196 ATAAAGCGCGTCTCGTAGCAAAAGGCTGTTCTCAAGTTTCGAGTTGTGATTTTCAGGAAATGTTC
*
6691442 AGTCCAGTAGTGAAACCTGCCGCCATCAGGGTCATTTTGTCGA
261 AGTCCAGTAGTGAAACCTGCCACCATCAGGGTCATTTTGTCGA
*
6691485 TTACAAGGACCCAAAATTATTTTTTAAAATTTAACTCGAAAAAATATATTCGATTCGATTCGATT
1 TTACAAGGACCCAAAATTATTTTTTAAAATTTAACTCAAAAAAATATATTCGATTCGATTCGATT
* *
6691550 CGAATTCCATCTCACTCGACTTGATTCGAGAAAACTTCAAATAAAGTTAGGATGATACAACGAGA
66 CGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAACGAGA
*
6691615 TTCGAAAACTCGATTAACTCAAAAAAATTTTATTCGATTCGATTCTATCGAATGCTCACCCCTAT
131 TTCGAAAACTCGATTAACT--AAAAAA--TT-TTCGATTCGATTCGATCGAATGCTCACCCCTAT
*
6691680 TTGTCATAAAGCGCGTCTCGTAGCAAAAGGCTGTTCTCAAGTTTCGAGTTGTGATTTTCAGGAAA
191 TCGTCATAAAGCGCGTCTCGTAGCAAAAGGCTGTTCTCAAGTTTCGAGTTGTGATTTTCAGGAAA
6691745 TGTTCAGTCCAGTAGTGAAACCTGCCACCATCAGGGTCATTTTGTCGA
256 TGTTCAGTCCAGTAGTGAAACCTGCCACCATCAGGGTCATTTTGTCGA
6691793 TT
1 TT
6691795 GTTGTCTCTA
Statistics
Matches: 295, Mismatches: 10, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
303 145 0.49
305 4 0.01
307 2 0.01
308 144 0.49
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (303 bp):
TTACAAGGACCCAAAATTATTTTTTAAAATTTAACTCAAAAAAATATATTCGATTCGATTCGATT
CGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAACGAGA
TTCGAAAACTCGATTAACTAAAAAATTTTCGATTCGATTCGATCGAATGCTCACCCCTATTCGTC
ATAAAGCGCGTCTCGTAGCAAAAGGCTGTTCTCAAGTTTCGAGTTGTGATTTTCAGGAAATGTTC
AGTCCAGTAGTGAAACCTGCCACCATCAGGGTCATTTTGTCGA
Found at i:6700310 original size:11 final size:11
Alignment explanation
Indices: 6700294--6700320 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6700284 TTATTATAGT
6700294 AAATATTATTA
1 AAATATTATTA
6700305 AAATATTATTA
1 AAATATTATTA
6700316 AAATA
1 AAATA
6700321 AAATCATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAATATTATTA
Found at i:6701168 original size:27 final size:27
Alignment explanation
Indices: 6701138--6701214 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
6701128 GGCCAATCAC
6701138 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
* * *
6701165 ATTGGCGGCACCAATGGTGCCAATGTG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
6701192 ATTGGCGGCACCAATA-GTGCCAA
1 ATTGGCGGCACCAA-AGGTGCCAA
6701215 GGACTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:6701386 original size:12 final size:12
Alignment explanation
Indices: 6701371--6701398 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6701361 TTAATAACTC
6701371 TATTAATTTTTT
1 TATTAATTTTTT
6701383 TATTAATTTTTT
1 TATTAATTTTTT
6701395 TATT
1 TATT
6701399 CCCCTTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTAATTTTTT
Found at i:6701513 original size:19 final size:19
Alignment explanation
Indices: 6701489--6701584 Score: 106
Period size: 19 Copynumber: 5.2 Consensus size: 19
6701479 TCTAATTAAG
*
6701489 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
6701508 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
*
6701526 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
** *
6701545 TAATAA-AATATTCTCATT
1 TAATAACTCTATTTTCATT
*
6701563 TAATAACTCTATGTTCATT
1 TAATAACTCTATTTTCATT
6701582 TAA
1 TAA
6701585 AATATAAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
18 29 0.48
19 32 0.52
ACGTcount: A:0.39, C:0.12, G:0.01, T:0.48
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:6701518 original size:18 final size:18
Alignment explanation
Indices: 6701497--6701568 Score: 81
Period size: 18 Copynumber: 3.9 Consensus size: 18
6701487 AGTAATAACT
*
6701497 CTATTTTAATTTAATAAA
1 CTATTCTAATTTAATAAA
* *
6701515 CTATTCTCATTTAATAACT
1 CTATTCTAATTTAATAA-A
*
6701534 CTATTTTAATTTAATAAA
1 CTATTCTAATTTAATAAA
* *
6701552 ATATTCTCATTTAATAA
1 CTATTCTAATTTAATAA
6701569 CTCTATGTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 29 0.66
19 15 0.34
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTCTAATTTAATAAA
Found at i:6701530 original size:37 final size:37
Alignment explanation
Indices: 6701489--6701584 Score: 165
Period size: 37 Copynumber: 2.6 Consensus size: 37
6701479 TCTAATTAAG
*
6701489 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAAATATTCTCATT
6701526 TAATAACTCTATTTTAATTTAATAAAATATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAAATATTCTCATT
* *
6701563 TAATAACTCTATGTTCATTTAA
1 TAATAACTCTATTTTAATTTAA
6701585 AATATAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.39, C:0.12, G:0.01, T:0.48
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAAATATTCTCATT
Found at i:6701829 original size:42 final size:41
Alignment explanation
Indices: 6701783--6701892 Score: 95
Period size: 37 Copynumber: 2.7 Consensus size: 41
6701773 AATTTATAAA
6701783 ATTAAAATAGTTTAATTTAATTTTTTAAATTAAAATAGAGTT
1 ATTAAAATAG-TTAATTTAATTTTTTAAATTAAAATAGAGTT
* * *
6701825 ATT-AAATGAG--AA--TAGTTTATTACATTAAAATAGAGTT
1 ATTAAAAT-AGTTAATTTAATTTTTTAAATTAAAATAGAGTT
* * * *
6701862 ATTAAATTAAATTATTTTAATTTTATAAATT
1 ATTAAAAT-AGTTAATTTAATTTTTTAAATT
6701893 TAATATATTC
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
37 25 0.49
38 4 0.08
39 2 0.04
40 1 0.02
41 4 0.08
42 15 0.29
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (41 bp):
ATTAAAATAGTTAATTTAATTTTTTAAATTAAAATAGAGTT
Found at i:6701831 original size:19 final size:19
Alignment explanation
Indices: 6701807--6701872 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
6701797 ATTTAATTTT
6701807 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
6701826 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
*
6701844 TTACATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
6701863 TTAAATTAAA
1 TTAAATTAAA
6701873 TTATTTTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:6702307 original size:27 final size:27
Alignment explanation
Indices: 6702277--6702330 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
6702267 TTGTTTTTTG
6702277 TTTTTTTGAT-ATATTTTGGTAAATAAA
1 TTTTTTT-ATAATATTTTGGTAAATAAA
6702304 TTTTTTTATAATATTTTGGTAAATAAA
1 TTTTTTTATAATATTTTGGTAAATAAA
6702331 AAAAAGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (27 bp):
TTTTTTTATAATATTTTGGTAAATAAA
Found at i:6702716 original size:12 final size:12
Alignment explanation
Indices: 6702699--6702723 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6702689 TTCTTCTCCT
6702699 CTTTCCCCTTCC
1 CTTTCCCCTTCC
6702711 CTTTCCCCTTCC
1 CTTTCCCCTTCC
6702723 C
1 C
6702724 CTTGGGTTGC
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:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (12 bp):
CTTTCCCCTTCC
Found at i:6704742 original size:101 final size:101
Alignment explanation
Indices: 6704567--6704770 Score: 399
Period size: 101 Copynumber: 2.0 Consensus size: 101
6704557 TTCAGTTACT
6704567 AGCCAACGGTTGGTTTTAGTTTTGAAGTTATTTGGTGCTAGCAATGTCTTGCATTGAGTTACTGA
1 AGCCAACGGTTGGTTTTAGTTTTGAAGTTATTTGGTGCTAGCAATGTCTTGCATTGAGTTACTGA
6704632 TAACAAACATTTGAAATAACATGCATTAAGACACAC
66 TAACAAACATTTGAAATAACATGCATTAAGACACAC
6704668 AGCCAACGGTTGGTTTTAGTTTTGAAGTTATTTGGTGCTAGCAATGTCTTGCATTGAGTTACTGA
1 AGCCAACGGTTGGTTTTAGTTTTGAAGTTATTTGGTGCTAGCAATGTCTTGCATTGAGTTACTGA
*
6704733 TAACAAACATTTGAAATAACATGCATTAAGATACAC
66 TAACAAACATTTGAAATAACATGCATTAAGACACAC
6704769 AG
1 AG
6704771 ACATTGAAAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (101 bp):
AGCCAACGGTTGGTTTTAGTTTTGAAGTTATTTGGTGCTAGCAATGTCTTGCATTGAGTTACTGA
TAACAAACATTTGAAATAACATGCATTAAGACACAC
Found at i:6704915 original size:28 final size:26
Alignment explanation
Indices: 6704870--6704942 Score: 67
Period size: 28 Copynumber: 2.8 Consensus size: 26
6704860 TAATTCATTT
* *
6704870 TTAA-TTAATTATTATTAAAAATAAA
1 TTAATTTAATAATTTTTAAAAATAAA
* **
6704895 TATAATTGTAATAATTTTTAATAATTTA
1 T-TAATT-TAATAATTTTTAAAAATAAA
*
6704923 TTAATTTTATAATTTTTAAA
1 TTAATTTAATAATTTTTAAA
6704943 TAATTTTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.03
26 15 0.39
27 6 0.16
28 16 0.42
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
TTAATTTAATAATTTTTAAAAATAAA
Found at i:6704920 original size:19 final size:19
Alignment explanation
Indices: 6704896--6704950 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
6704886 AAAAATAAAT
6704896 ATAATTGTAATAATTTT-TA
1 ATAATT-TAATAATTTTATA
*
6704915 ATAATTTATTAATTTTATA
1 ATAATTTAATAATTTTATA
*
6704934 AT-TTTTAAATAATTTTA
1 ATAATTT-AATAATTTTA
6704951 AAAACTTCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATAATTTAATAATTTTATA
Found at i:6704952 original size:10 final size:9
Alignment explanation
Indices: 6704896--6704951 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
6704886 AAAAATAAAT
*
6704896 ATAATTGTA
1 ATAATTTTA
6704905 ATAATTTTTA
1 ATAA-TTTTA
6704915 ATAA-TTTA
1 ATAATTTTA
*
6704923 TTAATTTT-
1 ATAATTTTA
6704931 ATAATTTTTAA
1 ATAA-TTTT-A
6704942 ATAATTTTA
1 ATAATTTTA
6704951 A
1 A
6704952 AAACTTCTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
8 10 0.26
9 13 0.33
10 12 0.31
11 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
ATAATTTTA
Found at i:6705081 original size:18 final size:17
Alignment explanation
Indices: 6705036--6705084 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 17
6705026 CCCTCAATAC
6705036 TAGCCTATCCAATCTC-
1 TAGCCTATCCAATCTCA
* *
6705052 -A-CATATCTAATCTCAA
1 TAGCCTATCCAATCTC-A
6705068 TAGCCTATCCAATCTCA
1 TAGCCTATCCAATCTCA
6705085 CCGCTAGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
14 11 0.44
15 1 0.04
17 2 0.08
18 11 0.44
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.31
Consensus pattern (17 bp):
TAGCCTATCCAATCTCA
Found at i:6705104 original size:21 final size:21
Alignment explanation
Indices: 6705078--6705122 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
6705068 TAGCCTATCC
6705078 AATCTCACCGCTAGAGTAACT
1 AATCTCACCGCTAGAGTAACT
6705099 AATCTCACCGCTAGAGTAACT
1 AATCTCACCGCTAGAGTAACT
6705120 AAT
1 AAT
6705123 TTCTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTAGAGTAACT
Found at i:6725138 original size:35 final size:35
Alignment explanation
Indices: 6725099--6725167 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
6725089 ACTTGCCTCT
6725099 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
6725134 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
6725168 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:6725194 original size:34 final size:35
Alignment explanation
Indices: 6725116--6725195 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
6725106 CTCCCATGCT
* * * * *
6725116 GTCTGCCACCAGCACCACTCCCACTCTCCCATGCT
1 GTCTGCCACCAGCACCACTCACACACCCCCATACC
6725151 GTCTGCCACCAGCACCA-TCACACACCCCCATACC
1 GTCTGCCACCAGCACCACTCACACACCCCCATACC
*
6725185 GTCTACCACCA
1 GTCTGCCACCA
6725196 CCATGCCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 22 0.56
35 17 0.44
ACGTcount: A:0.23, C:0.51, G:0.10, T:0.16
Consensus pattern (35 bp):
GTCTGCCACCAGCACCACTCACACACCCCCATACC
Found at i:6725703 original size:11 final size:11
Alignment explanation
Indices: 6725689--6725722 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6725679 CCCTTCCCCT
6725689 TCCCTTCTCTC
1 TCCCTTCTCTC
6725700 TCCCTTCTCTC
1 TCCCTTCTCTC
6725711 TTCCC-TCTCTC
1 -TCCCTTCTCTC
6725722 T
1 T
6725723 TCTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 17 0.77
12 4 0.18
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:6725705 original size:22 final size:22
Alignment explanation
Indices: 6725679--6725722 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6725669 GGCCGGATTC
6725679 CCCTTC-CCCTTCCCTTCTCTCT
1 CCCTTCTCCCTTCCC-TCTCTCT
*
6725701 CCCTTCTCTCTTCCCTCTCTCT
1 CCCTTCTCCCTTCCCTCTCTCT
6725723 TCTTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (22 bp):
CCCTTCTCCCTTCCCTCTCTCT
Found at i:6725723 original size:11 final size:11
Alignment explanation
Indices: 6725687--6725724 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
6725677 TCCCCTTCCC
6725687 CTTCCCT-TCT
1 CTTCCCTCTCT
6725697 CTCTCCCTTCTCT
1 CT-TCCC-TCTCT
6725710 CTTCCCTCTCT
1 CTTCCCTCTCT
6725721 CTTC
1 CTTC
6725725 TTTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 5 0.20
13 5 0.20
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
CTTCCCTCTCT
Found at i:6726209 original size:3 final size:3
Alignment explanation
Indices: 6726201--6726234 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6726191 TGTATTTCAA
6726201 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6726235 GTACATTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6728196 original size:10 final size:10
Alignment explanation
Indices: 6728166--6728203 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
6728156 TTGTATTTCA
*
6728166 TTTTTGTAAT
1 TTTTTATAAT
*
6728176 TTATT-TAAT
1 TTTTTATAAT
6728185 TTTTTATAAT
1 TTTTTATAAT
6728195 TTTTTATAA
1 TTTTTATAA
6728204 CAGTCGGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:6730242 original size:59 final size:59
Alignment explanation
Indices: 6730126--6730311 Score: 273
Period size: 59 Copynumber: 3.2 Consensus size: 59
6730116 CATTAATTTT
* * * * * *
6730126 TTTTAAATATATTTGTACAAACTATTTTTATATTGTTTCATTGAATAAAATAGAAGTTG
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATATAAGTTG
* *
6730185 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAAAAAAACATAAGTTG
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATATAAGTTG
* * *
6730244 TTTTGAATATTTTTGTACAAATTATTTTTATATTGCTCTATTTAATAAAATATAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATATAAGTTG
6730303 TTTTGAATA
1 TTTTGAATA
6730312 AGGCAATACA
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 114 1.00
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATATAAGTTG
Found at i:6730322 original size:59 final size:58
Alignment explanation
Indices: 6730126--6730351 Score: 256
Period size: 59 Copynumber: 3.8 Consensus size: 58
6730116 CATTAATTTT
* * * *
6730126 TTTTAAATATATTTGTACAAACTATTTTTATATTGTTTCATTGAATAAAATAGAAGTTG
1 TTTTGAATATTTTTGTACAAACTATTTTTATATTGTTT-ATTTAATAAAATATAAGTTG
* * *
6730185 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAAAAAAACATAAGTTG
1 TTTTGAATATTTTTGTACAAACTATTTTTATATTG-TTTATTTAATAAAATATAAGTTG
* * *
6730244 TTTTGAATATTTTTGTACAAATTATTTTTATATTGCTCTATTTAATAAAATATAAGTTC
1 TTTTGAATATTTTTGTACAAACTATTTTTATATTG-TTTATTTAATAAAATATAAGTTG
******
6730303 TTTTGAATAAGGCAATACAAACTATTTTT-TCATTGTTTCATTTAATAAA
1 TTTTGAATATTTTTGTACAAACTATTTTTAT-ATTGTTT-ATTTAATAAA
6730352 TTAGGAGTTA
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
58 3 0.02
59 138 0.96
60 3 0.02
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (58 bp):
TTTTGAATATTTTTGTACAAACTATTTTTATATTGTTTATTTAATAAAATATAAGTTG
Found at i:6733227 original size:28 final size:29
Alignment explanation
Indices: 6733196--6733283 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
6733186 AACAAAAAAA
6733196 CAAAATTCATCTTGTCAAA-ATATTTTTT
1 CAAAATTCATCTTGTCAAATATATTTTTT
** ** *
6733224 CAAAACACATCACGTCAAATTTATTTTTT
1 CAAAATTCATCTTGTCAAATATATTTTTT
* *
6733253 C-ATATCTCATCTTGTCAAATTTATTTCTTT
1 CAAAAT-TCATCTTGTCAAATATATTT-TTT
6733283 C
1 C
6733284 GGAACAATAC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
28 17 0.36
29 26 0.55
30 4 0.09
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (29 bp):
CAAAATTCATCTTGTCAAATATATTTTTT
Found at i:6733263 original size:29 final size:29
Alignment explanation
Indices: 6733216--6733283 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
6733206 CTTGTCAAAA
6733216 TATTTTTTCAAAACACATCACGTCAAATT
1 TATTTTTTCAAAACACATCACGTCAAATT
* * * **
6733245 TATTTTTTCATATCTCATCTTGTCAAATT
1 TATTTTTTCAAAACACATCACGTCAAATT
6733274 TATTTCTTTC
1 TATTT-TTTC
6733284 GGAACAATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 29 0.88
30 4 0.12
ACGTcount: A:0.28, C:0.19, G:0.03, T:0.50
Consensus pattern (29 bp):
TATTTTTTCAAAACACATCACGTCAAATT
Found at i:6733392 original size:28 final size:27
Alignment explanation
Indices: 6733332--6733396 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
6733322 CAATAGACCC
* * *
6733332 TAAACCTTAATTTATTTTTTAAAACTA
1 TAAACCCTAATTTATTTTTCAAAAATA
*
6733359 TAAACCCTAATTTATTTTTCCAAAAATC
1 TAAACCCTAATTTATTTTT-CAAAAATA
*
6733387 TTAACCCTAA
1 TAAACCCTAA
6733397 CCCTAAGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAACCCTAATTTATTTTTCAAAAATA
Found at i:6745337 original size:13 final size:13
Alignment explanation
Indices: 6745321--6745346 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6745311 TATACACTGT
6745321 TTTATAATTTATA
1 TTTATAATTTATA
6745334 TTTATAATTTATA
1 TTTATAATTTATA
6745347 ATACTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATAATTTATA
Found at i:6754784 original size:20 final size:20
Alignment explanation
Indices: 6754761--6754799 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6754751 TTTAATTTCC
6754761 TTTTAAATTTTAAAATTTTA
1 TTTTAAATTTTAAAATTTTA
** *
6754781 TTTTATGTTTTCAAATTTT
1 TTTTAAATTTTAAAATTTT
6754800 CCTTAATGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTAAATTTTAAAATTTTA
Found at i:6763212 original size:20 final size:20
Alignment explanation
Indices: 6763168--6763212 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
6763158 TAATGGTTCT
*
6763168 ATTTTAATATTTAAATTATA
1 ATTTTAATAATTAAATTATA
6763188 A-TTTATATAATTAAATTA-A
1 ATTTTA-ATAATTAAATTATA
6763207 ATTTTA
1 ATTTTA
6763213 CAAATGACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTAATAATTAAATTATA
Found at i:6771362 original size:3 final size:3
Alignment explanation
Indices: 6771326--6771350 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6771316 AGGCGTCGGC
6771326 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
6771351 GTGATGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6779895 original size:21 final size:22
Alignment explanation
Indices: 6779866--6779912 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6779856 CAGAAGGAGT
*
6779866 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6779888 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6779909 GAGT
1 GAGT
6779913 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6783489 original size:58 final size:57
Alignment explanation
Indices: 6783393--6783505 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 57
6783383 TAACCATATT
* **
6783393 TTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTTATAAAATTC
1 TTAACATAATTATTATT-AATATAATTTAAAAAAATAATATATAATACTATAAAATTC
*
6783451 TTAATATAATTATTATT-ATATGAA-TTAAAAAATCATAATATATAATACTATAAAA
1 TTAACATAATTATTATTAATAT-AATTTAAAAAA--ATAATATATAATACTATAAAA
6783506 ATAATATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
56 11 0.23
57 2 0.04
58 35 0.73
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (57 bp):
TTAACATAATTATTATTAATATAATTTAAAAAAATAATATATAATACTATAAAATTC
Found at i:6785338 original size:50 final size:47
Alignment explanation
Indices: 6785260--6785382 Score: 119
Period size: 50 Copynumber: 2.6 Consensus size: 47
6785250 ACCTTAGCGC
* * *
6785260 GCTCTCTGATTATTAGCAAATCAATGCTC-TCTGATTATTAGCACATCAAT
1 GCTCTCTGATTATTAGCACATTAGTGCTCTTC-G---ATTAGCACATCAAT
* *
6785310 GCTCTCTGATTATTAGCACGTTAGTGCTCTTCGATTAGCACATCTAT
1 GCTCTCTGATTATTAGCACATTAGTGCTCTTCGATTAGCACATCAAT
* *
6785357 GCTATCTG--TA-TAGCACTTTAGTGCTC
1 GCTCTCTGATTATTAGCACATTAGTGCTC
6785383 CCTGTTCATT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
44 15 0.23
45 2 0.03
47 20 0.31
50 26 0.40
51 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (47 bp):
GCTCTCTGATTATTAGCACATTAGTGCTCTTCGATTAGCACATCAAT
Found at i:6785346 original size:25 final size:25
Alignment explanation
Indices: 6785260--6785328 Score: 129
Period size: 25 Copynumber: 2.8 Consensus size: 25
6785250 ACCTTAGCGC
*
6785260 GCTCTCTGATTATTAGCAAATCAAT
1 GCTCTCTGATTATTAGCACATCAAT
6785285 GCTCTCTGATTATTAGCACATCAAT
1 GCTCTCTGATTATTAGCACATCAAT
6785310 GCTCTCTGATTATTAGCAC
1 GCTCTCTGATTATTAGCAC
6785329 GTTAGTGCTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAAT
Found at i:6785394 original size:47 final size:46
Alignment explanation
Indices: 6785296--6785382 Score: 124
Period size: 47 Copynumber: 1.9 Consensus size: 46
6785286 CTCTCTGATT
*
6785296 ATTAGCACATCAATGCTCTCTGATTATTAGCACGTTAGTGCTCTTCG
1 ATTAGCACATCAATGCTATCTGA-TATTAGCACGTTAGTGCTCTTCG
* *
6785343 ATTAGCACATCTATGCTATCTG-TA-TAGCACTTTAGTGCTC
1 ATTAGCACATCAATGCTATCTGATATTAGCACGTTAGTGCTC
6785383 CCTGTTCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 15 0.41
45 2 0.05
47 20 0.54
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (46 bp):
ATTAGCACATCAATGCTATCTGATATTAGCACGTTAGTGCTCTTCG
Found at i:6790790 original size:42 final size:43
Alignment explanation
Indices: 6790715--6790801 Score: 131
Period size: 42 Copynumber: 2.0 Consensus size: 43
6790705 CATTATGAGC
* *
6790715 ATGGTGAATTCTAATATTATAAAATAAAATAATTATTTTAAAT
1 ATGGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAAT
* *
6790758 ATGGTAAAATCTAATA-TATAAAATCAATTAATTATTTTAAAT
1 ATGGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAAT
6790800 AT
1 AT
6790802 AATTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 26 0.65
43 14 0.35
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.41
Consensus pattern (43 bp):
ATGGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAAT
Found at i:6790805 original size:19 final size:18
Alignment explanation
Indices: 6790774--6790824 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
6790764 AAATCTAATA
6790774 TATAAA-ATCAATTAATTATT
1 TATAAATAT-AATT-ATT-TT
6790794 T-TAAATATAATTATTTT
1 TATAAATATAATTATTTT
6790811 TAGTAAATATAATT
1 TA-TAAATATAATT
6790825 TTTATATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.11
18 3 0.11
19 19 0.68
20 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TATAAATATAATTATTTT
Found at i:6803743 original size:21 final size:21
Alignment explanation
Indices: 6803717--6803757 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6803707 CCAGCTGGTG
6803717 GTTGGCTACAAAACAGTTTTA
1 GTTGGCTACAAAACAGTTTTA
6803738 GTTGGCTACAAAACAGTTTT
1 GTTGGCTACAAAACAGTTTT
6803758 TCTTTTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (21 bp):
GTTGGCTACAAAACAGTTTTA
Found at i:6810116 original size:96 final size:95
Alignment explanation
Indices: 6809948--6810237 Score: 476
Period size: 96 Copynumber: 3.1 Consensus size: 95
6809938 ACTCTTGGGT
*
6809948 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTTCTCT
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
*
6810013 CCTCTTTAACCGTCATTTATTCAATTCTAC
66 CCTCTTTAACCGCCATTTATTCAATTCTAC
* *
6810043 GTTTCGTGGCAATAAACAAGGTTGTGGGTCTCGATTTTGGTGAGGTAAGCCAACATCTCTTGCTC
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGA-TTTGGTGAGGTAAGCCAACATCTCTTGCTC
6810108 TCCTCTTTAA-CGCCCATTTATTCAATTCTAC
65 TCCTCTTTAACCG-CCATTTATTCAATTCTAC
6810139 GTTTTGT-GCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
* * *
6810203 CCTCTTTAACCCCCATTTGTTTAATTCTAC
66 CCTCTTTAACCGCCATTTATTCAATTCTAC
*
6810233 TTTTT
1 GTTTT
6810238 TTGAATTTAG
Statistics
Matches: 182, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
94 60 0.33
95 60 0.33
96 62 0.34
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (95 bp):
GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
CCTCTTTAACCGCCATTTATTCAATTCTAC
Found at i:6815270 original size:754 final size:754
Alignment explanation
Indices: 6813823--6815334 Score: 3024
Period size: 754 Copynumber: 2.0 Consensus size: 754
6813813 TTCAACAGGT
6813823 GCAGACTTAAATTCTCCCAAGAGCTGCTTAGCTAGCTTCATCATCATCATGTATATTGTAATCCA
1 GCAGACTTAAATTCTCCCAAGAGCTGCTTAGCTAGCTTCATCATCATCATGTATATTGTAATCCA
6813888 GGAAATAGGATTGGTATTTATCTACAACTTGATAAATAATTTTAAGTCTCTGATATATGGGTTCT
66 GGAAATAGGATTGGTATTTATCTACAACTTGATAAATAATTTTAAGTCTCTGATATATGGGTTCT
6813953 TGTTAGTTGTATCTTTTGTATGGTATCATCTAAATTAATATATATTTCTAAACCCCAAATTAAAA
131 TGTTAGTTGTATCTTTTGTATGGTATCATCTAAATTAATATATATTTCTAAACCCCAAATTAAAA
6814018 GGAAATTAACCATAATCAACCAAAAGAAGAAAGAGAAAGAGAGAGAAAAAGAACATGTGATGTTG
196 GGAAATTAACCATAATCAACCAAAAGAAGAAAGAGAAAGAGAGAGAAAAAGAACATGTGATGTTG
6814083 GCTCAGTCTGCCACCCCAAGATGTTTAAACAAGTGAAGTCACTATCATACCTTTTGTATGCAACT
261 GCTCAGTCTGCCACCCCAAGATGTTTAAACAAGTGAAGTCACTATCATACCTTTTGTATGCAACT
6814148 ACATTCAAAGCTAACATAATAAAAGTAAAGACCTTAAACAGCTAATTGTTGATTTTGATGGGTGG
326 ACATTCAAAGCTAACATAATAAAAGTAAAGACCTTAAACAGCTAATTGTTGATTTTGATGGGTGG
6814213 AATCTTCTTCATTGAAACATAAATGGAGGTTTAGTGATCTTCCAAGGCTTAAAGAGGATTCCACA
391 AATCTTCTTCATTGAAACATAAATGGAGGTTTAGTGATCTTCCAAGGCTTAAAGAGGATTCCACA
6814278 ATACTTGGAGGACATTGCTGCAACATGGTCTCTCTTTTCAGGTAGGAGTAGTATGTATTAAAGGT
456 ATACTTGGAGGACATTGCTGCAACATGGTCTCTCTTTTCAGGTAGGAGTAGTATGTATTAAAGGT
6814343 ATTGGGGGTTACATTTAACTGGAAACCCAATCCAAACAGAAAATCCACTTCTAGGAAGTTCATTT
521 ATTGGGGGTTACATTTAACTGGAAACCCAATCCAAACAGAAAATCCACTTCTAGGAAGTTCATTT
6814408 CTGTTGTGCTGATTCCTCCTACTTTTGCATAGTAAGCATTGTTGTAATACCTGAAGAGTTTTCAC
586 CTGTTGTGCTGATTCCTCCTACTTTTGCATAGTAAGCATTGTTGTAATACCTGAAGAGTTTTCAC
6814473 ATGCTGAAGAAAATAAAATCCAAGAATCATGTATGGTTTACTAAAGAGTTTAAGAACTTACATGT
651 ATGCTGAAGAAAATAAAATCCAAGAATCATGTATGGTTTACTAAAGAGTTTAAGAACTTACATGT
6814538 CATCCATGAACTTTGCAGCGACCATCACGCTTGTGATAA
716 CATCCATGAACTTTGCAGCGACCATCACGCTTGTGATAA
6814577 GCAGACTTAAATTCTCCCAAGAGCTGCTTAGCTAGCTTCATCATCATCATGTATATTGTAATCCA
1 GCAGACTTAAATTCTCCCAAGAGCTGCTTAGCTAGCTTCATCATCATCATGTATATTGTAATCCA
6814642 GGAAATAGGATTGGTATTTATCTACAACTTGATAAATAATTTTAAGTCTCTGATATATGGGTTCT
66 GGAAATAGGATTGGTATTTATCTACAACTTGATAAATAATTTTAAGTCTCTGATATATGGGTTCT
6814707 TGTTAGTTGTATCTTTTGTATGGTATCATCTAAATTAATATATATTTCTAAACCCCAAATTAAAA
131 TGTTAGTTGTATCTTTTGTATGGTATCATCTAAATTAATATATATTTCTAAACCCCAAATTAAAA
6814772 GGAAATTAACCATAATCAACCAAAAGAAGAAAGAGAAAGAGAGAGAAAAAGAACATGTGATGTTG
196 GGAAATTAACCATAATCAACCAAAAGAAGAAAGAGAAAGAGAGAGAAAAAGAACATGTGATGTTG
6814837 GCTCAGTCTGCCACCCCAAGATGTTTAAACAAGTGAAGTCACTATCATACCTTTTGTATGCAACT
261 GCTCAGTCTGCCACCCCAAGATGTTTAAACAAGTGAAGTCACTATCATACCTTTTGTATGCAACT
6814902 ACATTCAAAGCTAACATAATAAAAGTAAAGACCTTAAACAGCTAATTGTTGATTTTGATGGGTGG
326 ACATTCAAAGCTAACATAATAAAAGTAAAGACCTTAAACAGCTAATTGTTGATTTTGATGGGTGG
6814967 AATCTTCTTCATTGAAACATAAATGGAGGTTTAGTGATCTTCCAAGGCTTAAAGAGGATTCCACA
391 AATCTTCTTCATTGAAACATAAATGGAGGTTTAGTGATCTTCCAAGGCTTAAAGAGGATTCCACA
6815032 ATACTTGGAGGACATTGCTGCAACATGGTCTCTCTTTTCAGGTAGGAGTAGTATGTATTAAAGGT
456 ATACTTGGAGGACATTGCTGCAACATGGTCTCTCTTTTCAGGTAGGAGTAGTATGTATTAAAGGT
6815097 ATTGGGGGTTACATTTAACTGGAAACCCAATCCAAACAGAAAATCCACTTCTAGGAAGTTCATTT
521 ATTGGGGGTTACATTTAACTGGAAACCCAATCCAAACAGAAAATCCACTTCTAGGAAGTTCATTT
6815162 CTGTTGTGCTGATTCCTCCTACTTTTGCATAGTAAGCATTGTTGTAATACCTGAAGAGTTTTCAC
586 CTGTTGTGCTGATTCCTCCTACTTTTGCATAGTAAGCATTGTTGTAATACCTGAAGAGTTTTCAC
6815227 ATGCTGAAGAAAATAAAATCCAAGAATCATGTATGGTTTACTAAAGAGTTTAAGAACTTACATGT
651 ATGCTGAAGAAAATAAAATCCAAGAATCATGTATGGTTTACTAAAGAGTTTAAGAACTTACATGT
6815292 CATCCATGAACTTTGCAGCGACCATCACGCTTGTGATAA
716 CATCCATGAACTTTGCAGCGACCATCACGCTTGTGATAA
6815331 GCAG
1 GCAG
6815335 GCGATGAACG
Statistics
Matches: 758, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
754 758 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (754 bp):
GCAGACTTAAATTCTCCCAAGAGCTGCTTAGCTAGCTTCATCATCATCATGTATATTGTAATCCA
GGAAATAGGATTGGTATTTATCTACAACTTGATAAATAATTTTAAGTCTCTGATATATGGGTTCT
TGTTAGTTGTATCTTTTGTATGGTATCATCTAAATTAATATATATTTCTAAACCCCAAATTAAAA
GGAAATTAACCATAATCAACCAAAAGAAGAAAGAGAAAGAGAGAGAAAAAGAACATGTGATGTTG
GCTCAGTCTGCCACCCCAAGATGTTTAAACAAGTGAAGTCACTATCATACCTTTTGTATGCAACT
ACATTCAAAGCTAACATAATAAAAGTAAAGACCTTAAACAGCTAATTGTTGATTTTGATGGGTGG
AATCTTCTTCATTGAAACATAAATGGAGGTTTAGTGATCTTCCAAGGCTTAAAGAGGATTCCACA
ATACTTGGAGGACATTGCTGCAACATGGTCTCTCTTTTCAGGTAGGAGTAGTATGTATTAAAGGT
ATTGGGGGTTACATTTAACTGGAAACCCAATCCAAACAGAAAATCCACTTCTAGGAAGTTCATTT
CTGTTGTGCTGATTCCTCCTACTTTTGCATAGTAAGCATTGTTGTAATACCTGAAGAGTTTTCAC
ATGCTGAAGAAAATAAAATCCAAGAATCATGTATGGTTTACTAAAGAGTTTAAGAACTTACATGT
CATCCATGAACTTTGCAGCGACCATCACGCTTGTGATAA
Found at i:6823276 original size:3 final size:3
Alignment explanation
Indices: 6823268--6823298 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6823258 ATGTCTCTAA
6823268 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6823299 GAGTTATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6840039 original size:29 final size:26
Alignment explanation
Indices: 6839998--6840050 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
6839988 TATAAATATA
6839998 TAATATAAAAAATATTTATTATATTTTT
1 TAATATAAAAAATA-TT-TTATATTTTT
*
6840026 TAATATAGTAAAATATTTTATATTT
1 TAATATA-AAAAATATTTTATATTT
6840051 ATGGTAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 9 0.39
29 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TAATATAAAAAATATTTTATATTTTT
Found at i:6840081 original size:16 final size:16
Alignment explanation
Indices: 6840060--6840090 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6840050 TATGGTAATG
6840060 TTTTTAATATAAATAC
1 TTTTTAATATAAATAC
6840076 TTTTTAATATAAATA
1 TTTTTAATATAAATA
6840091 ACATCAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTTAATATAAATAC
Found at i:6840268 original size:22 final size:20
Alignment explanation
Indices: 6840238--6840308 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 20
6840228 CTGTCAAGTC
6840238 TTTTATTTTTAATTAATGTT
1 TTTTATTTTTAATTAATGTT
6840258 TTGATTA-TTTT--TT-AT-TT
1 TT--TTATTTTTAATTAATGTT
6840275 TTTTATTTTTAATTAATGTATT
1 TTTTATTTTTAATTAATG--TT
6840297 TTTTATTTTTAA
1 TTTTATTTTTAA
6840309 CTCTTTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
15 3 0.07
16 4 0.10
17 4 0.10
18 4 0.10
19 4 0.10
20 2 0.05
21 4 0.10
22 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTAATTAATGTT
Found at i:6840282 original size:15 final size:15
Alignment explanation
Indices: 6840262--6840306 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
6840252 AATGTTTTGA
6840262 TTATTTTTTATTTTT
1 TTATTTTTTATTTTT
* **
6840277 TTATTTTTAATTAAT
1 TTATTTTTTATTTTT
*
6840292 GTATTTTTTATTTTT
1 TTATTTTTTATTTTT
6840307 AACTCTTTTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
TTATTTTTTATTTTT
Found at i:6843418 original size:51 final size:51
Alignment explanation
Indices: 6843330--6843528 Score: 206
Period size: 51 Copynumber: 3.9 Consensus size: 51
6843320 CCCTTATGAT
* * * *
6843330 CAATGCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGAC
1 CAATACTATCTGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
* * *
6843381 CAATACCATCTGGTACATGTAGTAGCCTGCACATAGTACTACACATGTGAC
1 CAATACTATCTGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
* * * * * * *
6843432 CAA-AGCTATCCGGTACACATAATAGCTTGCACTTAGTACTACATATGTGAC
1 CAATA-CTATCTGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
**
6843483 C-ATAACTATCTTATAC-TCATAGTAGCCTACACATAGTACTACACAT
1 CAAT-ACTATCTGGTACAT-ATAGTAGCCTACACATAGTACTACACAT
6843529 AAGTTCTCAT
Statistics
Matches: 120, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
50 2 0.02
51 117 0.98
52 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (51 bp):
CAATACTATCTGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
Found at i:6843483 original size:102 final size:102
Alignment explanation
Indices: 6843334--6843528 Score: 277
Period size: 102 Copynumber: 1.9 Consensus size: 102
6843324 TATGATCAAT
* *
6843334 GCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCA-ATACCATCTGGTACA
1 GCTATCCGGTACACATAATAGCCTACACTTAGTACTACACATGTGACCATA-ACCATCTGATAC-
* *
6843398 T-GTAGTAGCCTGCACATAGTACTACACATGTGACCAAA
64 TCATAGTAGCCTACACATAGTACTACACATGTGACCAAA
* * * * *
6843436 GCTATCCGGTACACATAATAGCTTGCACTTAGTACTACATATGTGACCATAACTATCTTATACTC
1 GCTATCCGGTACACATAATAGCCTACACTTAGTACTACACATGTGACCATAACCATCTGATACTC
6843501 ATAGTAGCCTACACATAGTACTACACAT
66 ATAGTAGCCTACACATAGTACTACACAT
6843529 AAGTTCTCAT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
101 1 0.01
102 80 0.98
103 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (102 bp):
GCTATCCGGTACACATAATAGCCTACACTTAGTACTACACATGTGACCATAACCATCTGATACTC
ATAGTAGCCTACACATAGTACTACACATGTGACCAAA
Found at i:6846046 original size:50 final size:50
Alignment explanation
Indices: 6845952--6846051 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
6845942 TCATAACTTT
* * * *
6845952 TAAGTTACTGGTTAATCTACATAGGGTAATGCTCATTATTTCTTACAATG
1 TAAGTTACTGGTTAATCCACATAGGATAATACTCATTATATCTTACAATG
* *
6846002 TAAGTTACTGGTTAGTCCACATAGGATAATACTCATT-TCATCTTATAATG
1 TAAGTTACTGGTTAATCCACATAGGATAATACTCATTAT-ATCTTACAATG
6846052 CACCATAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.02
50 42 0.98
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (50 bp):
TAAGTTACTGGTTAATCCACATAGGATAATACTCATTATATCTTACAATG
Found at i:6847006 original size:20 final size:20
Alignment explanation
Indices: 6846981--6847049 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
6846971 CAAATTAAAG
**
6846981 GTATCGATATTTATCAACTA
1 GTATCGATATTTATCAAAAA
* *
6847001 GTATCGGTAGTTTATGAAAAA
1 GTATCGATA-TTTATCAAAAA
* *
6847022 GTATCGATACTTAT-ATAAA
1 GTATCGATATTTATCAAAAA
6847041 -TATCGATAT
1 GTATCGATAT
6847050 CATTTTGGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 8 0.20
19 4 0.10
20 12 0.30
21 16 0.40
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (20 bp):
GTATCGATATTTATCAAAAA
Found at i:6854679 original size:41 final size:41
Alignment explanation
Indices: 6854599--6854706 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 41
6854589 GGCTCTATGT
* * * ** *
6854599 GCCTAGCAGGCTTGATGCCGGTGAAATATTTCAGATTTTAT
1 GCCTAGCAGGCTTCATGCCGGTGTATTAAATCAGATTTTAA
*
6854640 GTCTAGCAGGCTTCATGCCGGTGTATTAAATCA-AGTTTTAA
1 GCCTAGCAGGCTTCATGCCGGTGTATTAAATCAGA-TTTTAA
**
6854681 GCCTAGCAGGCTTTGTGCCGGTGTAT
1 GCCTAGCAGGCTTCATGCCGGTGTAT
6854707 CATTTCAAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 1 0.02
41 55 0.98
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (41 bp):
GCCTAGCAGGCTTCATGCCGGTGTATTAAATCAGATTTTAA
Found at i:6858844 original size:15 final size:17
Alignment explanation
Indices: 6858810--6858846 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6858800 GAGGTATCAG
*
6858810 AATTCCAAAAACATAAA
1 AATTACAAAAACATAAA
6858827 AATTACAAAAA-A-AAA
1 AATTACAAAAACATAAA
6858842 AATTA
1 AATTA
6858847 AACTAGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 1 0.05
17 10 0.53
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (17 bp):
AATTACAAAAACATAAA
Found at i:6860381 original size:61 final size:59
Alignment explanation
Indices: 6860268--6860393 Score: 164
Period size: 61 Copynumber: 2.1 Consensus size: 59
6860258 TTAATATAAA
* * * *
6860268 AATAATTATATTAAAAATGTTATTAAATTATATATTATTTTTATTTAATTATATTTAAT
1 AATAATTATATTAAAAATATGATTAAATTATATATTATCTTTATTAAATTATATTTAAT
* *
6860327 AATAATTATA-TAAAAATATGATTAAACTTTTTATTCTTATCTTTATTAAATTATATTTAAT
1 AATAATTATATTAAAAATATGATTAAA--TTATA-TATTATCTTTATTAAATTATATTTAAT
6860388 AATAAT
1 AATAAT
6860394 CCTATTAAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
58 14 0.24
59 10 0.17
60 4 0.07
61 30 0.52
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (59 bp):
AATAATTATATTAAAAATATGATTAAATTATATATTATCTTTATTAAATTATATTTAAT
Found at i:6868597 original size:14 final size:14
Alignment explanation
Indices: 6868578--6868610 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6868568 ATTATGTCAA
6868578 ATTAAAATATAAAT
1 ATTAAAATATAAAT
*
6868592 ATTAAACTATAAAT
1 ATTAAAATATAAAT
6868606 -TTAAA
1 ATTAAA
6868611 CATAGTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAAAATATAAAT
Found at i:6871665 original size:4 final size:4
Alignment explanation
Indices: 6871658--6871684 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6871648 TAATATATAT
6871658 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
6871685 CACCACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:6875919 original size:4 final size:4
Alignment explanation
Indices: 6875910--6875934 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6875900 AATCAAATAT
6875910 CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA C
6875935 TCCATTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:6878135 original size:3 final size:3
Alignment explanation
Indices: 6878127--6878151 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6878117 GCAGACATAA
6878127 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
6878152 CAATTTACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6882469 original size:98 final size:99
Alignment explanation
Indices: 6882334--6882531 Score: 317
Period size: 98 Copynumber: 2.0 Consensus size: 99
6882324 GTGCAATAAA
* * *
6882334 ACTTTAAAAAAAACATTCACTTATCCAATATTTAAGAAATCGCACCCAATACGTTAGGGCACGAT
1 ACTTTAAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGAT
*
6882399 TCCTCTAAAATCCCAAACTTAGAATATTTCCTTT
66 TCCTCTAAAATCCCAAACTCAGAATATTTCCTTT
* *
6882433 ACTTT-AAAAGAACATCCATTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGAT
1 ACTTTAAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGAT
* *
6882497 TCCTCTAAAATTCCAAACTCGGAATATTTCCTTT
66 TCCTCTAAAATCCCAAACTCAGAATATTTCCTTT
6882531 A
1 A
6882532 TTATTTTTAA
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
98 86 0.95
99 5 0.05
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (99 bp):
ACTTTAAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGAT
TCCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:6886058 original size:30 final size:30
Alignment explanation
Indices: 6886024--6886082 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6886014 TTTAACAAGT
*
6886024 AAATG-CTTCTAAAATAATAACAAAATTAAC
1 AAATGTCTT-TAAAATAATAAAAAAATTAAC
6886054 AAATGTCTTTAAAATAATAAAAAAATTAA
1 AAATGTCTTTAAAATAATAAAAAAATTAA
6886083 TAATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGTCTTTAAAATAATAAAAAAATTAAC
Found at i:6886585 original size:23 final size:23
Alignment explanation
Indices: 6886559--6886618 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
6886549 TTCACAAACT
*
6886559 AATTCTCTCTCAAATTTCC-TCTC
1 AATT-TCTCTCAAATTTCCTTCTA
6886582 AATTTGCTCTCAAA-TTCCTTCTA
1 AATTT-CTCTCAAATTTCCTTCTA
6886605 AATTTCTCTCAAAT
1 AATTTCTCTCAAAT
6886619 CCATATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 13 0.39
23 20 0.61
ACGTcount: A:0.27, C:0.28, G:0.02, T:0.43
Consensus pattern (23 bp):
AATTTCTCTCAAATTTCCTTCTA
Found at i:6886618 original size:11 final size:11
Alignment explanation
Indices: 6886559--6886669 Score: 65
Period size: 11 Copynumber: 10.3 Consensus size: 11
6886549 TTCACAAACT
6886559 AATTCTCTCTCA
1 AATT-TCTCTCA
6886571 AATTTCCTCTC-
1 AATTT-CTCTCA
6886582 AATTTGCTCTCA
1 AATTT-CTCTCA
*
6886594 AATTCCT-TCTA
1 AATTTCTCTC-A
6886605 AATTTCTCTCA
1 AATTTCTCTCA
6886616 AA----TC-CA
1 AATTTCTCTCA
* *
6886622 TATTTAATCTCA
1 AATTT-CTCTCA
*
6886634 AATTGCTCTCA
1 AATTTCTCTCA
* *
6886645 AATTGCTCTTA
1 AATTTCTCTCA
*
6886656 AATTTCTCTTA
1 AATTTCTCTCA
6886667 AAT
1 AAT
6886670 CCCTATTTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
6 3 0.04
7 2 0.03
10 2 0.03
11 53 0.66
12 20 0.25
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.43
Consensus pattern (11 bp):
AATTTCTCTCA
Found at i:6886640 original size:51 final size:51
Alignment explanation
Indices: 6886578--6886677 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
6886568 TCAAATTTCC
*
6886578 TCTCAATTTGCTCTCAAATTCCT-TCTAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAAATTCCTCT-TAAATTTCTCTCAAATCCATATTTAA
* * *
6886629 TCTCAAATTGCTCTCAAATTGCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCATATTT
6886678 TTAAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:6886691 original size:10 final size:10
Alignment explanation
Indices: 6886676--6886700 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6886666 AAATCCCTAT
6886676 TTTTAAATAA
1 TTTTAAATAA
6886686 TTTTAAATAA
1 TTTTAAATAA
6886696 TTTTA
1 TTTTA
6886701 TTTTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:6893294 original size:33 final size:33
Alignment explanation
Indices: 6893257--6893323 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
6893247 TTCAAATGAA
*
6893257 CACTTTCCGAATTTATATTTTTGTTCAAAATTT
1 CACTTTCCGAATTTATATTTTTGCTCAAAATTT
6893290 CACTTTCCGAATTTATATTTTTGCTCAAAATTT
1 CACTTTCCGAATTTATATTTTTGCTCAAAATTT
6893323 C
1 C
6893324 CTGAGATTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (33 bp):
CACTTTCCGAATTTATATTTTTGCTCAAAATTT
Found at i:6899203 original size:63 final size:63
Alignment explanation
Indices: 6899130--6899249 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
6899120 TAAGAAAATG
* * *
6899130 TGTATTTCAGTATGTTGAAACACATTATACTCCTATTTATAGATC-GGAGAGAGACTAAAAACA
1 TGTATTTCAGTACGTTAAAACACATTATACTCATATTTATAGATCGGGA-AGAGACTAAAAACA
* *
6899193 TGTATTTCAGTACGTTAAAACGCATTATACTCATATTTATAGATTGGGAAGAGACTA
1 TGTATTTCAGTACGTTAAAACACATTATACTCATATTTATAGATCGGGAAGAGACTA
6899250 TAAGTAGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 48 0.94
64 3 0.06
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (63 bp):
TGTATTTCAGTACGTTAAAACACATTATACTCATATTTATAGATCGGGAAGAGACTAAAAACA
Found at i:6903182 original size:9 final size:9
Alignment explanation
Indices: 6903168--6903227 Score: 84
Period size: 9 Copynumber: 6.7 Consensus size: 9
6903158 TTTGGTTAAA
6903168 AATTAACCG
1 AATTAACCG
6903177 AATTAACCG
1 AATTAACCG
* *
6903186 AATTATCCA
1 AATTAACCG
6903195 AATTAACCG
1 AATTAACCG
*
6903204 AATTACCCG
1 AATTAACCG
*
6903213 AATTACCCG
1 AATTAACCG
6903222 AATTAA
1 AATTAA
6903228 ATCACTACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:6903205 original size:27 final size:27
Alignment explanation
Indices: 6903167--6903227 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
6903157 TTTTGGTTAA
*
6903167 AAATTAACCGAATTAACCGAATTATCC
1 AAATTAACCGAATTAACCGAATTACCC
*
6903194 AAATTAACCGAATTACCCGAATTACCC
1 AAATTAACCGAATTAACCGAATTACCC
*
6903221 GAATTAA
1 AAATTAA
6903228 ATCACTACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (27 bp):
AAATTAACCGAATTAACCGAATTACCC
Found at i:6903368 original size:18 final size:18
Alignment explanation
Indices: 6903328--6903371 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6903318 AATTTTTATG
**
6903328 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
6903346 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
6903364 CTTGGGTT
1 ATTGGGTT
6903372 TGAATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:6905573 original size:27 final size:26
Alignment explanation
Indices: 6905516--6905573 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
6905506 ATTATGTTAT
6905516 TATATAAGAATTTTTTTATATAATAA
1 TATATAAGAATTTTTTTATATAATAA
*
6905542 TATATAA-ACTTTTTATTATGATAA-ATA
1 TATATAAGAATTTTT-TTAT-ATAATA-A
6905569 TATAT
1 TATAT
6905574 TTTAATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.21
26 12 0.43
27 10 0.36
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (26 bp):
TATATAAGAATTTTTTTATATAATAA
Found at i:6906331 original size:5 final size:5
Alignment explanation
Indices: 6906321--6906358 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
6906311 AAACTTGTGC
6906321 TCTAA TCTAA TCTAA TCTAA TCTAA TCTAA TCTAA TCT
1 TCTAA TCTAA TCTAA TCTAA TCTAA TCTAA TCTAA TCT
6906359 TTATTTTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (5 bp):
TCTAA
Found at i:6912292 original size:20 final size:21
Alignment explanation
Indices: 6912267--6912311 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
6912257 TAAAAAAAAA
* *
6912267 TTTTAAGACA-TGTATTTTAT
1 TTTTAAAACATTGTACTTTAT
6912287 TTTTAAAACATTGTACTTTAT
1 TTTTAAAACATTGTACTTTAT
6912308 TTTT
1 TTTT
6912312 TAATTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTTAAAACATTGTACTTTAT
Found at i:6913431 original size:262 final size:262
Alignment explanation
Indices: 6912966--6913493 Score: 1056
Period size: 262 Copynumber: 2.0 Consensus size: 262
6912956 TTCTTGAGCC
6912966 ATGTACAGTAACTCATTGGGATGGCTTCGGCGGCAGCAGTAATGAACCTGCAGTGGCATCCATGT
1 ATGTACAGTAACTCATTGGGATGGCTTCGGCGGCAGCAGTAATGAACCTGCAGTGGCATCCATGT
6913031 CCACTTTTGAGAAAGCTTCCCCATCAGTGCCCCGAACTGTGGAGCCACAAGTGCTTTGATAGGGC
66 CCACTTTTGAGAAAGCTTCCCCATCAGTGCCCCGAACTGTGGAGCCACAAGTGCTTTGATAGGGC
6913096 TGAAACCTATGGCATTTGAAAATGAGGATGAGTAGAAGTAAGAATCATACTACTGACGCTGCCCT
131 TGAAACCTATGGCATTTGAAAATGAGGATGAGTAGAAGTAAGAATCATACTACTGACGCTGCCCT
6913161 CCCATCAGATATGGAGACCATGTTAATTTGAGAACTGTTGGTGATGAAGAAAAGACGGTTGACAA
196 CCCATCAGATATGGAGACCATGTTAATTTGAGAACTGTTGGTGATGAAGAAAAGACGGTTGACAA
6913226 TA
261 TA
6913228 ATGTACAGTAACTCATTGGGATGGCTTCGGCGGCAGCAGTAATGAACCTGCAGTGGCATCCATGT
1 ATGTACAGTAACTCATTGGGATGGCTTCGGCGGCAGCAGTAATGAACCTGCAGTGGCATCCATGT
6913293 CCACTTTTGAGAAAGCTTCCCCATCAGTGCCCCGAACTGTGGAGCCACAAGTGCTTTGATAGGGC
66 CCACTTTTGAGAAAGCTTCCCCATCAGTGCCCCGAACTGTGGAGCCACAAGTGCTTTGATAGGGC
6913358 TGAAACCTATGGCATTTGAAAATGAGGATGAGTAGAAGTAAGAATCATACTACTGACGCTGCCCT
131 TGAAACCTATGGCATTTGAAAATGAGGATGAGTAGAAGTAAGAATCATACTACTGACGCTGCCCT
6913423 CCCATCAGATATGGAGACCATGTTAATTTGAGAACTGTTGGTGATGAAGAAAAGACGGTTGACAA
196 CCCATCAGATATGGAGACCATGTTAATTTGAGAACTGTTGGTGATGAAGAAAAGACGGTTGACAA
6913488 TA
261 TA
6913490 ATGT
1 ATGT
6913494 GGTTGAACCC
Statistics
Matches: 266, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
262 266 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (262 bp):
ATGTACAGTAACTCATTGGGATGGCTTCGGCGGCAGCAGTAATGAACCTGCAGTGGCATCCATGT
CCACTTTTGAGAAAGCTTCCCCATCAGTGCCCCGAACTGTGGAGCCACAAGTGCTTTGATAGGGC
TGAAACCTATGGCATTTGAAAATGAGGATGAGTAGAAGTAAGAATCATACTACTGACGCTGCCCT
CCCATCAGATATGGAGACCATGTTAATTTGAGAACTGTTGGTGATGAAGAAAAGACGGTTGACAA
TA
Found at i:6917078 original size:9 final size:9
Alignment explanation
Indices: 6917064--6917091 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6917054 TTTTGTTACA
6917064 ACAATTAAT
1 ACAATTAAT
6917073 ACAATTAAT
1 ACAATTAAT
6917082 ACAATTAAT
1 ACAATTAAT
6917091 A
1 A
6917092 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:6917148 original size:54 final size:50
Alignment explanation
Indices: 6917068--6917185 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 50
6917058 GTTACAACAA
6917068 TTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATT
1 TTAATACAATT-ATACAATTAATAATTTGATAAATTTACTAA-C-AA--TTA-ATT
*
6917124 TTAATACAATTA-ACAATTAATAATTTGATAATTTTACTAACAATTAATT
1 TTAATACAATTATACAATTAATAATTTGATAAATTTACTAACAATTAATT
6917173 TTAATAACAATTA
1 TTAAT-ACAATTA
6917186 GTTTTAATTT
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
49 8 0.13
50 10 0.17
52 2 0.03
53 1 0.02
54 27 0.45
55 1 0.02
56 11 0.18
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (50 bp):
TTAATACAATTATACAATTAATAATTTGATAAATTTACTAACAATTAATT
Found at i:6917164 original size:27 final size:27
Alignment explanation
Indices: 6917082--6917171 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
6917072 TACAATTAAT
*
6917082 ACAATTAATAATTTGATAAATTTACTA
1 ACAATTAATAATTTGATAATTTTACTA
* ** *** *
6917109 ATCAAATGTTAGATTT--TAATACAATTA
1 A-CAATTAATA-ATTTGATAATTTTACTA
6917136 ACAATTAATAATTTGATAATTTTACTA
1 ACAATTAATAATTTGATAATTTTACTA
6917163 ACAATTAAT
1 ACAATTAAT
6917172 TTTAATAACA
Statistics
Matches: 44, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
25 4 0.09
26 6 0.14
27 24 0.55
28 6 0.14
29 4 0.09
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (27 bp):
ACAATTAATAATTTGATAATTTTACTA
Found at i:6917173 original size:16 final size:16
Alignment explanation
Indices: 6917152--6917193 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
6917142 AATAATTTGA
*
6917152 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
6917168 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
6917184 TAGTTTTAAT
1 TAATTTTAAT
6917194 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:6917177 original size:22 final size:22
Alignment explanation
Indices: 6917167--6917227 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
6917157 TTACTAACAA
* * *
6917167 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
6917189 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
6917211 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
6917228 CGGGCCGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:6918433 original size:101 final size:101
Alignment explanation
Indices: 6918315--6918600 Score: 457
Period size: 101 Copynumber: 2.8 Consensus size: 101
6918305 AAAGTGATGG
*
6918315 TCACGTGTGTAGTACTATGTGTAGTCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
6918380 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
*
6918416 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGTATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
*
6918481 TATGTGCAGGCTACCATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * * * * *
6918517 TCATGTGTGTAGTACTATATGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
*
6918581 ACTATGTGCATGCTACTATG
64 ACTATGTGCAGGCTACTATG
6918601 TGAATCCGCG
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
101 135 0.79
102 32 0.19
103 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:6918435 original size:51 final size:50
Alignment explanation
Indices: 6918315--6918600 Score: 242
Period size: 51 Copynumber: 5.7 Consensus size: 50
6918305 AAAGTGATGG
* * * * * * * *
6918315 TCACGTGTGTAGTACTATGTGTAGTCTACTACGTGTACCAGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA-GTTCGA
* *
6918365 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTCGA
* * * *
6918416 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCG-
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACC-G---GATAGTTCGA
*
6918469 T-A--TGTGTAGTACTATGTGCAGGCTACCATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTCGA
* * * * * *
6918517 TCATGTGTGTAGTACTATATGCAGGCTACTACGTGTATCGGATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT--TCGA
* *
6918568 TCACATGTGTAGTACTATGTGCATGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
6918601 TGAATCCGCG
Statistics
Matches: 191, Mismatches: 32, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
46 5 0.03
47 3 0.02
48 1 0.01
49 2 0.01
50 67 0.35
51 101 0.53
52 3 0.02
53 1 0.01
54 3 0.02
55 5 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTCGA
Found at i:6918602 original size:26 final size:26
Alignment explanation
Indices: 6918522--6918602 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
6918512 TTCGATCATG
* *
6918522 TGTGTAGTACTATATGCAGGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
* * *
6918548 CGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCATGCT-ACTA
6918573 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
6918599 TGTG
1 TGTG
6918603 AATCCGCGTC
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCATGCTACTA
Found at i:6918725 original size:41 final size:42
Alignment explanation
Indices: 6918611--6918736 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 42
6918601 TGAATCCGCG
* *
6918611 TCATTGAATATAAAGGTGGTTGCTAAGTTCTGATTCCACCGTA
1 TCATTGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGTA
* * *
6918654 TCCTTGACTGTGA-AAGG-AGTTGCTATGTGCTGATTCC-CCGTA
1 TCATTGA-T-T-ATAAGGTGGTTGCTAAGTGCTGATTCCACCGTA
6918696 TCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 TCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
6918737 GTAACGGTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 19 0.28
42 15 0.22
43 23 0.33
44 4 0.06
45 1 0.01
46 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
TCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTA
Found at i:6928173 original size:22 final size:22
Alignment explanation
Indices: 6928145--6928191 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
6928135 TCCTTTTAAA
6928145 AGCATGAGAGAATAAAACTTAC
1 AGCATGAGAGAATAAAACTTAC
6928167 AGCATGAGAGAATAAAACTTAC
1 AGCATGAGAGAATAAAACTTAC
6928189 AGC
1 AGC
6928192 TTTTGGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (22 bp):
AGCATGAGAGAATAAAACTTAC
Found at i:6935626 original size:6 final size:6
Alignment explanation
Indices: 6935617--6935650 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6935607 ATGAAAAGTA
6935617 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
6935651 GCATAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6940575 original size:3 final size:3
Alignment explanation
Indices: 6940567--6940593 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6940557 CAAACAAACC
6940567 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
6940594 TAAAAAAAAC
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6943777 original size:51 final size:51
Alignment explanation
Indices: 6943696--6943911 Score: 328
Period size: 51 Copynumber: 4.3 Consensus size: 51
6943686 ACTTCTGATC
6943696 AGTGACAAGTGATAAGT-AGTAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGA-TAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
6943747 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
6943798 AGTGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
6943849 AGTGGCAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
*
6943899 AGTGATAAGTGAT
1 AGTGACAAGTGAT
6943912 CATACGTAAG
Statistics
Matches: 152, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
50 35 0.23
51 116 0.76
52 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:6944131 original size:21 final size:21
Alignment explanation
Indices: 6944093--6944133 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6944083 TGTTATATAA
* *
6944093 GCAAAAAGTGATATTTTCATT
1 GCAAAAAGTGAGAATTTCATT
*
6944114 GCAAAAATTGAGAATTTCAT
1 GCAAAAAGTGAGAATTTCAT
6944134 AAATGTGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (21 bp):
GCAAAAAGTGAGAATTTCATT
Found at i:6945106 original size:40 final size:39
Alignment explanation
Indices: 6945057--6945172 Score: 128
Period size: 37 Copynumber: 2.9 Consensus size: 39
6945047 TTTGGCACCT
* *
6945057 AGTGCCTCATCGGATAATTCGAAGTAATAAATTGACACTC
1 AGTGCCTCATCGGTTAATCCGAAGT-ATAAATTGACACTC
* * * *
6945097 AGTGTCTCATTGGTTAAACCGAAG--TAAATTGGCACTC
1 AGTGCCTCATCGGTTAATCCGAAGTATAAATTGACACTC
*
6945134 AGTGCCTCATCGAGTTAATCCGAAGTAGTAAATTAACAC
1 AGTGCCTCATCG-GTTAATCCGAAGTA-TAAATTGACAC
6945173 CTAGTATCTC
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
37 22 0.36
38 11 0.18
40 19 0.31
41 9 0.15
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (39 bp):
AGTGCCTCATCGGTTAATCCGAAGTATAAATTGACACTC
Found at i:6946046 original size:17 final size:17
Alignment explanation
Indices: 6946007--6946046 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6945997 CTAACTTTTC
6946007 TCCTTC-TTTCTTTCTT
1 TCCTTCTTTTCTTTCTT
**
6946023 TTTTTCTTTTCTTTCTT
1 TCCTTCTTTTCTTTCTT
6946040 TCCTTCT
1 TCCTTCT
6946047 CTGTTTTGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
TCCTTCTTTTCTTTCTT
Found at i:6946053 original size:21 final size:21
Alignment explanation
Indices: 6946010--6946095 Score: 63
Period size: 21 Copynumber: 4.3 Consensus size: 21
6946000 ACTTTTCTCC
* * *
6946010 TTCTTTCTTTCTTTTTTTCTT
1 TTCTTTCTTTCCTTCTCTCTT
*
6946031 TTCTTTCTTTCCTTCTCTGTT
1 TTCTTTCTTTCCTTCTCTCTT
*
6946052 TTGTTTCTTT-C-TCTC-CTT
1 TTCTTTCTTTCCTTCTCTCTT
* * * *
6946070 TTTTTTATTTCTTTTTCT-TT
1 TTCTTTCTTTCCTTCTCTCTT
6946090 TTCTTT
1 TTCTTT
6946096 ATCATTATAA
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
18 10 0.20
19 4 0.08
20 11 0.22
21 26 0.51
ACGTcount: A:0.01, C:0.21, G:0.02, T:0.76
Consensus pattern (21 bp):
TTCTTTCTTTCCTTCTCTCTT
Found at i:6946151 original size:8 final size:8
Alignment explanation
Indices: 6946138--6946167 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
6946128 TTTTAAGTTT
6946138 TAATATTA
1 TAATATTA
6946146 TAATATTA
1 TAATATTA
6946154 TAATATTA
1 TAATATTA
6946162 TAATAT
1 TAATAT
6946168 ATATTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TAATATTA
Found at i:6946156 original size:51 final size:53
Alignment explanation
Indices: 6946099--6946200 Score: 147
Period size: 51 Copynumber: 2.0 Consensus size: 53
6946089 TTTCTTTATC
*
6946099 ATTATAATATAATAATATATATACTTAACTTTTAA-GTTT-TAATAT-TATAAT
1 ATTATAATATAATAATATATAT-CTTAACTTTAAATGTTTATAATATATATAAT
* *
6946150 ATTATAATATTATAATATATATTTTAACTTTAAATGTTTATAATATATATA
1 ATTATAATATAATAATATATATCTTAACTTTAAATGTTTATAATATATATA
6946201 CACTTATGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 10 0.22
51 25 0.56
52 6 0.13
53 4 0.09
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (53 bp):
ATTATAATATAATAATATATATCTTAACTTTAAATGTTTATAATATATATAAT
Found at i:6951371 original size:41 final size:40
Alignment explanation
Indices: 6951326--6951458 Score: 166
Period size: 40 Copynumber: 3.4 Consensus size: 40
6951316 CTTCGAGTCA
6951326 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATTCG
* * *
6951367 ATGAGACACTGGGTGCCAA-TT-TACTTCGGTTTAA-CCG
1 ATGAGACACTGGGTGTCAATTTATACTTCGGATTAATTCG
* *
6951404 ATGAGACACTGGGTGTCAATTTATTACTTCGAATT-ATTCA
1 ATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATTCG
*
6951444 ATGAGGCACTGGGTG
1 ATGAGACACTGGGTG
6951459 CCAAACTTGT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
37 20 0.25
38 14 0.18
39 1 0.01
40 26 0.33
41 18 0.23
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAATTTATACTTCGGATTAATTCG
Found at i:6951415 original size:37 final size:38
Alignment explanation
Indices: 6951326--6951426 Score: 141
Period size: 37 Copynumber: 2.6 Consensus size: 38
6951316 CTTCGAGTCA
*
6951326 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGACACTGGGTGTCAA-TT--TACTTCGGATTAATCCG
* *
6951367 ATGAGACACTGGGTGCCAATTTACTTCGGTTTAA-CCG
1 ATGAGACACTGGGTGTCAATTTACTTCGGATTAATCCG
6951404 ATGAGACACTGGGTGTCAATTTA
1 ATGAGACACTGGGTGTCAATTTA
6951427 TTACTTCGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
37 24 0.43
38 12 0.21
40 2 0.04
41 18 0.32
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (38 bp):
ATGAGACACTGGGTGTCAATTTACTTCGGATTAATCCG
Found at i:6956438 original size:136 final size:138
Alignment explanation
Indices: 6956217--6956463 Score: 338
Period size: 136 Copynumber: 1.8 Consensus size: 138
6956207 TATACATGTG
*
6956217 TCATAAGACCTAGTTTTAAGTCCATGGAAAAATAAAGCCCACATAACACAAATAAAAGACTAACA
1 TCATAAGACCCAGTTTTAAGTCCATGGAAAAATAAAGCCCACATAACACAAATAAAAGACTAACA
* * * *
6956282 AAATAGATCTAGCAACAAGTCCATTAATACATGAAATGCTACTTCCAAACATACTAAAACCTATA
66 AAATAAATCAAACAACAAGTCCACTAATACATGAAATGCTACTTCCAAACATACTAAAACCTATA
6956347 TATAAGCA
131 TATAAGCA
* ** * *
6956355 TCATAAGCCCCAGTTTTAAGTCCATGGGGATA-AAAGCCCACCTAAC-CAAAT-AAAGACTAACA
1 TCATAAGACCCAGTTTTAAGTCCATGGAAAAATAAAGCCCACATAACACAAATAAAAGACTAACA
* * * *
6956417 AAATAAATCAAACAAAGAAGTCCACTGATGCATGAAATGTTACTTCC
66 AAATAAATCAAAC-AACAAGTCCACTAATACATGAAATGCTACTTCC
6956464 TAATTTACAT
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
135 21 0.22
136 33 0.35
137 13 0.14
138 27 0.29
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.22
Consensus pattern (138 bp):
TCATAAGACCCAGTTTTAAGTCCATGGAAAAATAAAGCCCACATAACACAAATAAAAGACTAACA
AAATAAATCAAACAACAAGTCCACTAATACATGAAATGCTACTTCCAAACATACTAAAACCTATA
TATAAGCA
Found at i:6966772 original size:68 final size:68
Alignment explanation
Indices: 6966663--6966800 Score: 242
Period size: 68 Copynumber: 2.0 Consensus size: 68
6966653 GGAACGAATC
6966663 TCAAGGAAAACTTGTTCTTAGTTGAGCCCATATCTATCTTCGCCGCCTATAAAGCATGGTTCTTT
1 TCAAGGAAAACTTGTTCTTAGTTGAGCCCATATCTATCTTCGCCGCCTATAAAGCATGGTTCTTT
6966728 ATT
66 ATT
* *
6966731 TCAAGGAAAACTT-TTATTTAGTTGAGCCCATATCTATCTTCGCCGCCTATAAAGCATGGTTTTT
1 TCAAGGAAAACTTGTT-CTTAGTTGAGCCCATATCTATCTTCGCCGCCTATAAAGCATGGTTCTT
6966795 TATT
65 TATT
6966799 TC
1 TC
6966801 GGGTTAGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 2 0.03
68 65 0.97
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (68 bp):
TCAAGGAAAACTTGTTCTTAGTTGAGCCCATATCTATCTTCGCCGCCTATAAAGCATGGTTCTTT
ATT
Found at i:6968560 original size:26 final size:26
Alignment explanation
Indices: 6968531--6968603 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
6968521 CCTGTTATAT
*
6968531 GGCTCTTCATGAGCTTCCCGATTAAA
1 GGCTCTTCATGAGCTTCCCAATTAAA
* * * *
6968557 GGCTCTTTATGAACTTCCTAATTAAT
1 GGCTCTTCATGAGCTTCCCAATTAAA
* *
6968583 GGCTCCTC-GGAGCTTCCCAAT
1 GGCTCTTCATGAGCTTCCCAAT
6968604 ATGGCTCGCT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
25 10 0.27
26 27 0.73
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCCAATTAAA
Found at i:6968736 original size:25 final size:26
Alignment explanation
Indices: 6968688--6968747 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
6968678 TGGCTCGCAT
*
6968688 GAGCTTCCCGTTATACAGCTCGGA-A
1 GAGCTTCCCGTTATACAACTCGGATA
6968713 GAGCTTCCCGTTATACAAAC-CGGATA
1 GAGCTTCCCGTTATAC-AACTCGGATA
6968739 -AGCTTCCCG
1 GAGCTTCCCG
6968748 ATACATGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 29 0.91
26 3 0.09
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (26 bp):
GAGCTTCCCGTTATACAACTCGGATA
Found at i:6971819 original size:105 final size:101
Alignment explanation
Indices: 6971709--6971902 Score: 237
Period size: 105 Copynumber: 1.9 Consensus size: 101
6971699 TTTGTAGTGC
* *
6971709 CATAACCCAATTATGGTCTTATCATCAGAATGT-CATAGCCCAACTATGGTCTTACACATGTATC
1 CATAACCCAATTATGGTCTTATCATCAAAAT-TCCATAGCCCAACTATGGTCTT--ACAT-T-TA
* *
6971773 TATATTGCCATGGTCCAACCATGGTCTTACATTAAAGGTGT
61 AATATTACCATGGTCCAACCATGGTCTTACATTAAAGGTGT
* * * * **
6971814 CATAACCCAGTTATGGTCTTTTCATTAAAATTCCATAGCTCATTTATGGTCTTACATTTAAATAT
1 CATAACCCAATTATGGTCTTATCATCAAAATTCCATAGCCCAACTATGGTCTTACATTTAAATAT
*
6971879 TACCATGGTTCAACCATGGTCTTA
66 TACCATGGTCCAACCATGGTCTTA
6971903 TCCGTCAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
101 27 0.35
102 1 0.01
103 4 0.05
104 1 0.01
105 44 0.57
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (101 bp):
CATAACCCAATTATGGTCTTATCATCAAAATTCCATAGCCCAACTATGGTCTTACATTTAAATAT
TACCATGGTCCAACCATGGTCTTACATTAAAGGTGT
Found at i:6974823 original size:9 final size:9
Alignment explanation
Indices: 6974805--6974878 Score: 71
Period size: 9 Copynumber: 8.1 Consensus size: 9
6974795 AGTATAAATG
*
6974805 AGTTAGGTA
1 AGTTATGTA
6974814 AGTTATGTA
1 AGTTATGTA
6974823 ATGTATTATGTA
1 A-G--TTATGTA
*
6974835 AGTTATGAA
1 AGTTATGTA
*
6974844 AGTAATGT-
1 AGTTATGTA
6974852 A-TTATGTA
1 AGTTATGTA
*
6974860 AGTTATTTA
1 AGTTATGTA
6974869 AGTTATGTA
1 AGTTATGTA
6974878 A
1 A
6974879 TAAGTTCTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
7 5 0.09
8 2 0.04
9 36 0.68
10 1 0.02
11 1 0.02
12 8 0.15
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.43
Consensus pattern (9 bp):
AGTTATGTA
Found at i:6975027 original size:30 final size:30
Alignment explanation
Indices: 6974991--6975081 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
6974981 AAATTTTATC
* *
6974991 TTAATATAATATAAGTTATGTAATGAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
* *
6975021 TTAATATTATCTAAGTTATGTTATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
6975051 TTAATATTATATAAGTTATGTAATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
6975081 T
1 T
6975082 CTTATCTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.43
Consensus pattern (30 bp):
TTAATATTATATAAGTTATGTAATTAGAAA
Found at i:6975142 original size:22 final size:20
Alignment explanation
Indices: 6975083--6975148 Score: 89
Period size: 20 Copynumber: 3.2 Consensus size: 20
6975073 ATTAGAAATC
6975083 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
6975103 TTATC-CAACTCAATTATATAAG
1 TTATCTTAA-T--ATTATATAAG
6975125 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
6975145 TTAT
1 TTAT
6975149 GTAAGTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 2 0.05
20 20 0.50
22 16 0.40
23 2 0.05
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:6975199 original size:40 final size:40
Alignment explanation
Indices: 6975154--6975236 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
6975144 GTTATGTAAG
*
6975154 TTTATGTATGAAAGCTATGCAAGTTATGTAATGTATCAAT
1 TTTATGTAGGAAAGCTATGCAAGTTATGTAATGTATCAAT
* * *
6975194 TTTATGTAGGTAGGTTATGCAAGTTATGTAATGTATCAAT
1 TTTATGTAGGAAAGCTATGCAAGTTATGTAATGTATCAAT
6975234 TTT
1 TTT
6975237 TAAAAATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.43
Consensus pattern (40 bp):
TTTATGTAGGAAAGCTATGCAAGTTATGTAATGTATCAAT
Found at i:6975403 original size:35 final size:35
Alignment explanation
Indices: 6975364--6975460 Score: 112
Period size: 35 Copynumber: 2.8 Consensus size: 35
6975354 ACATTTAAGT
6975364 TATTTAAGTAATGTAAGTT-A-TAAATTTTAAAAATA
1 TATTTAAGTAA--TAAGTTAATTAAATTTTAAAAATA
*
6975399 TATTT-ATTAATAAGTTAAATTAAATTTTAAAAATA
1 TATTTAAGTAATAAGTT-AATTAAATTTTAAAAATA
*
6975434 TATTT-ATTAATAAGTTAAATTAAATTT
1 TATTTAAGTAATAAGTT-AATTAAATTT
6975461 ATTAATAAGT
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
32 6 0.10
34 5 0.09
35 47 0.81
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (35 bp):
TATTTAAGTAATAAGTTAATTAAATTTTAAAAATA
Done.