Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold275
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: 1025155
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:1847 original size:39 final size:40
Alignment explanation
Indices: 1772--1859 Score: 117
Period size: 39 Copynumber: 2.2 Consensus size: 40
1762 ATTTGTGTGC
** *
1772 CTATGCCAATCCACGAAATTTTAAATATGCAGTTGGGTGG
1 CTATGCCAATCCACGAAATAATAAATATACAGTTGGGTGG
1812 CTATGCCAATCCACGAAA-AATAAATGA-ACAGTTGGGTGG
1 CTATGCCAATCCACGAAATAATAAAT-ATACAGTTGGGTGG
*
1851 CTTTGCCAA
1 CTATGCCAA
1860 CTACATAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 24 0.56
40 19 0.44
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (40 bp):
CTATGCCAATCCACGAAATAATAAATATACAGTTGGGTGG
Found at i:3233 original size:15 final size:16
Alignment explanation
Indices: 3210--3239 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3200 AATAGTTAAA
3210 AATTAAATAAAATATC
1 AATTAAATAAAATATC
3226 AATT-AATAAAATAT
1 AATTAAATAAAATAT
3240 TTTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAATAAAATATC
Found at i:3464 original size:13 final size:12
Alignment explanation
Indices: 3445--3493 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
3435 TATATCATTT
3445 AAAATAAAATAA
1 AAAATAAAATAA
*
3457 AAACATAAATTTAA
1 AAA-ATAAA-ATAA
3471 AAAATTAAAATAA
1 AAAA-TAAAATAA
*
3484 ATAATAAAAT
1 AAAATAAAAT
3494 TTTTTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 9 0.29
13 12 0.39
14 10 0.32
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:4655 original size:13 final size:15
Alignment explanation
Indices: 4626--4657 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
4616 ACTCTTCAAC
4626 ATAAATTATATATTT
1 ATAAATTATATATTT
4641 ATAAATT-TA-ATTT
1 ATAAATTATATATTT
4654 ATAA
1 ATAA
4658 TTTGTGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 2 0.12
15 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAAATTATATATTT
Found at i:5932 original size:27 final size:28
Alignment explanation
Indices: 5884--5937 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
5874 GTTCGATAAT
*
5884 TATTTATTATATAAAATTTTTTATATTA
1 TATTTATTATATAAAATATTTTATATTA
* *
5912 TATTTA-TATATTACATATTTTATATT
1 TATTTATTATATAAAATATTTTATATT
5938 TATCAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TATTTATTATATAAAATATTTTATATTA
Found at i:7043 original size:3 final size:3
Alignment explanation
Indices: 7035--7059 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7025 ATAACAGTAT
7035 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
7060 GCACTCATTT
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:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10407 original size:86 final size:86
Alignment explanation
Indices: 10308--10485 Score: 302
Period size: 86 Copynumber: 2.1 Consensus size: 86
10298 TAAAAAATTG
* * **
10308 AAATCAAATTATGAAATAAATTTTTTTAATTTTTTCTCGAGTTGGTTGAATAAAATAAAAATAAA
1 AAATAAAATTATGAAATAAATTTTTTTAATTTTTTCTCGAGTTGATCAAATAAAATAAAAATAAA
10373 AAATTAAATCTAAAAAAACCA
66 AAATTAAATCTAAAAAAACCA
10394 AAATAAAATTATGAAATAAATTTTTTTAATTTTTTCTCGAGTTGATCAAATAAAATAAAAATAAA
1 AAATAAAATTATGAAATAAATTTTTTTAATTTTTTCTCGAGTTGATCAAATAAAATAAAAATAAA
* *
10459 AAATTAAATTTAAAAAAATCA
66 AAATTAAATCTAAAAAAACCA
10480 AAATAA
1 AAATAA
10486 TTTTGTCCAT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (86 bp):
AAATAAAATTATGAAATAAATTTTTTTAATTTTTTCTCGAGTTGATCAAATAAAATAAAAATAAA
AAATTAAATCTAAAAAAACCA
Found at i:10712 original size:19 final size:19
Alignment explanation
Indices: 10685--10748 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
10675 CTAATTCTTT
10685 TAAATATAAATAATTTAAAA
1 TAAA-ATAAATAATTTAAAA
*
10705 TAAAATAAAAAATTTAAAA
1 TAAAATAAATAATTTAAAA
**
10724 TTTAA-AAATAATTAATAAAA
1 TAAAATAAATAATT--TAAAA
10744 TAAAA
1 TAAAA
10749 ATTTTAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 7 0.19
19 17 0.47
20 12 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATAAATAATTTAAAA
Found at i:10749 original size:26 final size:26
Alignment explanation
Indices: 10685--10752 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 26
10675 CTAATTCTTT
10685 TAAATATAAATAATTTAAAATAAAATAA
1 TAAA-ATAAA-AATTTAAAATAAAATAA
* *
10713 -AAAATTTAAAATTTAAAA-ATAATTAA
1 TAAAA-TAAAAATTTAAAATA-AAATAA
10739 TAAAATAAAAATTT
1 TAAAATAAAAATTT
10753 TAATTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
25 1 0.03
26 23 0.68
27 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
TAAAATAAAAATTTAAAATAAAATAA
Found at i:11793 original size:30 final size:28
Alignment explanation
Indices: 11736--11794 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
11726 TTAATTAAAA
*
11736 AATTAATTAATTTTAGTTTAATCAATTT
1 AATTAATCAATTTTAGTTTAATCAATTT
* *
11764 AATTAATACAATTTTAATTTTAGTCAATTT
1 AATTAAT-CAATTTT-AGTTTAATCAATTT
11794 A
1 A
11795 GGATTTCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 7 0.27
29 6 0.23
30 13 0.50
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTAATCAATTTTAGTTTAATCAATTT
Found at i:19862 original size:24 final size:25
Alignment explanation
Indices: 19805--19868 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 25
19795 AAACTACCCA
* *
19805 TTGTTTGTCAAAAATGGTGGTTTCTTT
1 TTGTTTGTCAAAAATGGTGG--TCATG
*
19832 TTATTTGTCAAAAATGGTGG-CATG
1 TTGTTTGTCAAAAATGGTGGTCATG
19856 TTGTTTGTCAAAA
1 TTGTTTGTCAAAA
19869 TTTGTGGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 14 0.42
27 19 0.58
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (25 bp):
TTGTTTGTCAAAAATGGTGGTCATG
Found at i:23543 original size:34 final size:34
Alignment explanation
Indices: 23488--23704 Score: 267
Period size: 34 Copynumber: 6.4 Consensus size: 34
23478 GCCTCCCTTC
*
23488 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * * *
23521 TATTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* *
23555 TGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* ** *
23589 TGTTGATTAAATGAGAAATTTGGTAGCTTAGCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* *
23623 TATTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * *
23657 TGTTGACTAAAT-GGTAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGT-GATTTGGTAGCTTACCAT
23691 TGTTGATTAAATGG
1 TGTTGATTAAATGG
23705 TGGTTTTTAC
Statistics
Matches: 156, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
33 14 0.09
34 141 0.90
35 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (34 bp):
TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
Found at i:23628 original size:102 final size:101
Alignment explanation
Indices: 23488--23704 Score: 344
Period size: 102 Copynumber: 2.1 Consensus size: 101
23478 GCCTCCCTTC
** * * *
23488 TGTTGATTAAATGGTGATTTGGTAGTTTACCATTATTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACC
23553 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
66 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
*
23589 TGTTGATTAAATGAGAAATTTGGTAGCTTAGCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
1 TGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
* * *
23654 CATTGTTGACTAAATGGTAGATTTGGTAGGTTGCCAT
65 CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
23691 TGTTGATTAAATGG
1 TGTTGATTAAATGG
23705 TGGTTTTTAC
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
101 14 0.13
102 92 0.87
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (101 bp):
TGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACC
ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:28172 original size:34 final size:34
Alignment explanation
Indices: 28115--28333 Score: 280
Period size: 34 Copynumber: 6.5 Consensus size: 34
28105 AAGTGGGAGA
*
28115 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * * *
28148 ATTATTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
28182 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
28216 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
28250 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
28284 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
28318 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
28334 TGGTTTTTAC
Statistics
Matches: 160, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
33 16 0.10
34 143 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:28255 original size:102 final size:101
Alignment explanation
Indices: 28115--28333 Score: 357
Period size: 102 Copynumber: 2.2 Consensus size: 101
28105 AAGTGGGAGA
** * * *
28115 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTATTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
28180 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
28216 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* * *
28281 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
28318 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
28334 TGGTTTTTAC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
101 16 0.15
102 93 0.85
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:30334 original size:20 final size:18
Alignment explanation
Indices: 30306--30365 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 18
30296 ATAAATAAAC
30306 ATTTATAAAATATGGTAAATT
1 ATTT-TAAAATAT--TAAATT
30327 ATTTTAAAAATTATTAAATT
1 ATTTT-AAAA-TATTAAATT
* *
30347 TTTTTAAAAT-TTTAATT
1 ATTTTAAAATATTAAATT
30364 AT
1 AT
30366 AAATTACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 7 0.21
18 1 0.03
19 4 0.12
20 11 0.32
21 8 0.24
22 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (18 bp):
ATTTTAAAATATTAAATT
Found at i:31176 original size:14 final size:13
Alignment explanation
Indices: 31147--31180 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
31137 TTTAATTTTG
*
31147 TATATATTTAAAA
1 TATATTTTTAAAA
31160 TATATTTTTATAAA
1 TATATTTTTA-AAA
31174 TATATTT
1 TATATTT
31181 AAATATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATTTTTAAAA
Found at i:31202 original size:17 final size:19
Alignment explanation
Indices: 31180--31216 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
31170 TAAATATATT
31180 TAAATATT-TAT-TAAATA
1 TAAATATTGTATATAAATA
31197 TAAATATTGTATATAAATA
1 TAAATATTGTATATAAATA
31216 T
1 T
31217 TTTAATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TAAATATTGTATATAAATA
Found at i:32654 original size:20 final size:20
Alignment explanation
Indices: 32607--32655 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
32597 AATTAAATAA
32607 AAATATTAAAAATTAAAAATT
1 AAAT-TTAAAAATTAAAAATT
*
32628 AAA-TTAAAATATTAAACA-T
1 AAATTTAAAA-ATTAAAAATT
32647 AAATTTAAA
1 AAATTTAAA
32656 CTAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 10 0.40
20 12 0.48
21 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTTAAAAATTAAAAATT
Found at i:32885 original size:17 final size:17
Alignment explanation
Indices: 32856--32888 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32846 TGTTTATATT
32856 ATTTATTTTAATTTTTA
1 ATTTATTTTAATTTTTA
32873 ATTT-TTTTAAATTTTT
1 ATTTATTTT-AATTTTT
32889 TAAAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTATTTTAATTTTTA
Found at i:33418 original size:23 final size:25
Alignment explanation
Indices: 33388--33437 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
33378 GATTTGGTTT
* *
33388 TTTTATTAATTTTGTTA-AAT-TTA
1 TTTTATTAAATTTATTATAATATTA
33411 TTTTATTAAATTTATTATAATATTA
1 TTTTATTAAATTTATTATAATATTA
33436 TT
1 TT
33438 AATTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
24 3 0.13
25 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTATTAAATTTATTATAATATTA
Found at i:33419 original size:14 final size:14
Alignment explanation
Indices: 33396--33426 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33386 TTTTTTATTA
*
33396 ATTTTGTTAAATTT
1 ATTTTATTAAATTT
33410 ATTTTATTAAATTT
1 ATTTTATTAAATTT
33424 ATT
1 ATT
33427 ATAATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
ATTTTATTAAATTT
Found at i:33511 original size:44 final size:44
Alignment explanation
Indices: 33422--33511 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
33412 TTTATTAAAT
* * *
33422 TTATTATAATATTATTAATTTTTATTTATATTCTTAATTTTATA
1 TTATTATAATATTAATAATTTTTATTTATATTATTAATTTGATA
* *
33466 TTATTATAATATTAAT-ATTTTT-TTTATCTATATTACTATTGATA
1 TTATTATAATATTAATAATTTTTATTTATAT-TATTAAT-TTGATA
33510 TT
1 TT
33512 TTTTATTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
42 6 0.15
43 11 0.28
44 22 0.56
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (44 bp):
TTATTATAATATTAATAATTTTTATTTATATTATTAATTTGATA
Found at i:33731 original size:13 final size:14
Alignment explanation
Indices: 33701--33736 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
33691 GTATAAAATA
*
33701 TTTAATTTAAATTG
1 TTTAATTTAAACTG
33715 TTTAATTTAAACT-
1 TTTAATTTAAACTG
33728 TTTAATTTA
1 TTTAATTTA
33737 GTTCGTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTAAACTG
Found at i:34479 original size:191 final size:191
Alignment explanation
Indices: 34155--34538 Score: 768
Period size: 191 Copynumber: 2.0 Consensus size: 191
34145 TAGGGTGTGC
34155 TTGATGTTAACTCAAGACTAAGATTGGTTAGAATATCGAACTCATCTTCGGTTATTTTGTAAACC
1 TTGATGTTAACTCAAGACTAAGATTGGTTAGAATATCGAACTCATCTTCGGTTATTTTGTAAACC
34220 ATGACTACTTTAATATGTAATCTGACCTCCCTTAATATCCTTGAATTAGTTTGAGATATTTTTTG
66 ATGACTACTTTAATATGTAATCTGACCTCCCTTAATATCCTTGAATTAGTTTGAGATATTTTTTG
34285 TTTGAGGTGCTGAAGGTGTGGACCTAGTGAAAACTCTTATTGAACAGTGCATTCATGTTCA
131 TTTGAGGTGCTGAAGGTGTGGACCTAGTGAAAACTCTTATTGAACAGTGCATTCATGTTCA
34346 TTGATGTTAACTCAAGACTAAGATTGGTTAGAATATCGAACTCATCTTCGGTTATTTTGTAAACC
1 TTGATGTTAACTCAAGACTAAGATTGGTTAGAATATCGAACTCATCTTCGGTTATTTTGTAAACC
34411 ATGACTACTTTAATATGTAATCTGACCTCCCTTAATATCCTTGAATTAGTTTGAGATATTTTTTG
66 ATGACTACTTTAATATGTAATCTGACCTCCCTTAATATCCTTGAATTAGTTTGAGATATTTTTTG
34476 TTTGAGGTGCTGAAGGTGTGGACCTAGTGAAAACTCTTATTGAACAGTGCATTCATGTTCA
131 TTTGAGGTGCTGAAGGTGTGGACCTAGTGAAAACTCTTATTGAACAGTGCATTCATGTTCA
34537 TT
1 TT
34539 CATCAATTAT
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 193 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (191 bp):
TTGATGTTAACTCAAGACTAAGATTGGTTAGAATATCGAACTCATCTTCGGTTATTTTGTAAACC
ATGACTACTTTAATATGTAATCTGACCTCCCTTAATATCCTTGAATTAGTTTGAGATATTTTTTG
TTTGAGGTGCTGAAGGTGTGGACCTAGTGAAAACTCTTATTGAACAGTGCATTCATGTTCA
Found at i:34607 original size:42 final size:42
Alignment explanation
Indices: 34561--34644 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
34551 AATCTACTTT
*
34561 ATACACTGGCATGCTTCATCCTTAGTTAAAATATGCTTAATA
1 ATACACTGACATGCTTCATCCTTAGTTAAAATATGCTTAATA
34603 ATACACTGACATGCTTCATCCTTAGTTAAAATATGCTTAATA
1 ATACACTGACATGCTTCATCCTTAGTTAAAATATGCTTAATA
34645 TCAGAAGGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (42 bp):
ATACACTGACATGCTTCATCCTTAGTTAAAATATGCTTAATA
Found at i:38471 original size:21 final size:21
Alignment explanation
Indices: 38445--38495 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
38435 CATTTTTTTA
38445 ATCCAAAAAATGCATTC-TTTC
1 ATCCAAAAAATGCA-TCATTTC
**
38466 ATCCAACCAATGCATCATTTC
1 ATCCAAAAAATGCATCATTTC
38487 ATCCAAAAA
1 ATCCAAAAA
38496 TACCTTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.41, C:0.27, G:0.04, T:0.27
Consensus pattern (21 bp):
ATCCAAAAAATGCATCATTTC
Found at i:40710 original size:20 final size:20
Alignment explanation
Indices: 40665--40716 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
40655 GTAGCCAAAC
* **
40665 TTGTATCGATACACTAAGTA
1 TTGTATCGATACACCAAAAA
40685 -TGTATCGATACACCAAAAA
1 TTGTATCGATACACCAAAAA
40704 TTGTATCGATACA
1 TTGTATCGATACA
40717 TTAGGCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACACCAAAAA
Found at i:42951 original size:21 final size:21
Alignment explanation
Indices: 42918--42967 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
42908 TTGCAAGTTG
*
42918 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
42940 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
42961 AAATAAA
1 AAATAAA
42968 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:46889 original size:13 final size:13
Alignment explanation
Indices: 46871--46907 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
46861 TTTTTCTTTA
*
46871 TATCGATACATTG
1 TATCGATACAGTG
*
46884 TATCGATACGGTG
1 TATCGATACAGTG
46897 TATCGATACAG
1 TATCGATACAG
46908 GGGGTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:48719 original size:6 final size:6
Alignment explanation
Indices: 48710--48747 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
48700 GTGCAAATAA
48710 TTTT-T TTTT-T TTTTGT TTTTGT TTTTGT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTT
48748 AAGTACGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 9 0.28
6 23 0.72
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (6 bp):
TTTTGT
Found at i:49514 original size:20 final size:20
Alignment explanation
Indices: 49469--49520 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
49459 GTAGCCAAAC
**
49469 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACCAAAAA
49489 -TGTATCGATACACCAAAAA
1 TTGTATCGATACACCAAAAA
49508 TTGTATCGATACA
1 TTGTATCGATACA
49521 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACCAAAAA
Found at i:52707 original size:52 final size:52
Alignment explanation
Indices: 52629--52738 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
52619 AGTTGCTTGT
* *
52629 ATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGACACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGC
* *
52681 ATGTATCGACACATTTTATAATGTATCGATACATCTGGGCAAATTTGCTTGC
1 ATGTATCGACACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGC
52733 ATGTAT
1 ATGTAT
52739 TGATACAAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (52 bp):
ATGTATCGACACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGC
Found at i:52758 original size:52 final size:52
Alignment explanation
Indices: 52629--52765 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
52619 AGTTGCTTGT
* *
52629 ATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGACACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
*** * *
52681 ATGTATCGACACATTTTATAATGTATCGATACATCTGGGCAAATTTGCTTGC
1 ATGTATCGACACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
* *
52733 ATGTATTGATACA-AAGATCAGTGTATCGATACA
1 ATGTATCGACACATAAGAT-AGTGTATCGATACA
52766 ATGTATCGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 4 0.05
52 69 0.95
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (52 bp):
ATGTATCGACACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
Found at i:52772 original size:13 final size:13
Alignment explanation
Indices: 52754--52778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52744 CAAAGATCAG
52754 TGTATCGATACAA
1 TGTATCGATACAA
52767 TGTATCGATACA
1 TGTATCGATACA
52779 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:52856 original size:33 final size:33
Alignment explanation
Indices: 52819--52885 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
52809 AGTAGCTTAA
52819 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
52852 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
52885 A
1 A
52886 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:52859 original size:13 final size:13
Alignment explanation
Indices: 52841--52865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52831 CAAAAAAATA
52841 TGTATCGATACAT
1 TGTATCGATACAT
52854 TGTATCGATACA
1 TGTATCGATACA
52866 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:54082 original size:19 final size:20
Alignment explanation
Indices: 54037--54088 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
54027 TTACAAGCCA
**
54037 ATGTATCGATACATTTTATG
1 ATGTATCGATACATACTATG
*
54057 ATGTATCGATACATACTGTG
1 ATGTATCGATACATACTATG
54077 -TGTATCGATACA
1 ATGTATCGATACA
54089 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATACTATG
Found at i:54168 original size:20 final size:21
Alignment explanation
Indices: 54121--54173 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
54111 GCCAATGACT
**
54121 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
54142 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
54162 TGTATCGATACA
1 TGTATCGATACA
54174 ATGCAATCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:54185 original size:20 final size:20
Alignment explanation
Indices: 54162--54212 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
54152 CATTTGGTCA
*
54162 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
54182 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
54202 TGTATCGATAC
1 TGTATCGATAC
54213 TTTTTAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:55156 original size:29 final size:30
Alignment explanation
Indices: 55099--55156 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
55089 ACAAATAGTA
* * *
55099 TTAAAAACTTTCATCTGATAAATTTAATAG
1 TTAAAAACTTACATCAGATAAATCTAATAG
*
55129 TTAAAAACTTACATCAGA-CAATCTAATA
1 TTAAAAACTTACATCAGATAAATCTAATA
55157 ATTGTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (30 bp):
TTAAAAACTTACATCAGATAAATCTAATAG
Found at i:58799 original size:29 final size:29
Alignment explanation
Indices: 58757--58823 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
58747 AATTTTATAC
58757 ATTTAAAAATAATAATATTCTAATAAATA
1 ATTTAAAAATAATAATATTCTAATAAATA
* * * * *
58786 ATTTAAAAATAATATTATTTTGATAATTT
1 ATTTAAAAATAATAATATTCTAATAAATA
58815 ATTTAAAAA
1 ATTTAAAAA
58824 CTCAAGATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (29 bp):
ATTTAAAAATAATAATATTCTAATAAATA
Found at i:59959 original size:3 final size:3
Alignment explanation
Indices: 59951--60002 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
59941 TAGACCTTAC
59951 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59999 AAT A
1 AAT A
60003 TTGACAACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:61259 original size:2 final size:2
Alignment explanation
Indices: 61252--61281 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
61242 TTTAAGGTTA
61252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61282 GCTGCTAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62252 original size:2 final size:2
Alignment explanation
Indices: 62247--62287 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
62237 ATATATATAT
62247 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
62288 ATGACTAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:64120 original size:2 final size:2
Alignment explanation
Indices: 64113--64152 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
64103 CCAATTTCCA
64113 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
64153 GCAATCCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:65887 original size:18 final size:18
Alignment explanation
Indices: 65846--65884 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
65836 AAACCCTCTC
* *
65846 AAATATTAAATAAATTTT
1 AAATTTTAAATAAAATTT
65864 AAATTTTAAATAAAAATTT
1 AAATTTTAAAT-AAAATTT
65883 AA
1 AA
65885 TTTAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTTTAAATAAAATTT
Found at i:67622 original size:17 final size:17
Alignment explanation
Indices: 67588--67637 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
67578 AATATGGTAA
* * *
67588 ATATTTAATATAAAAAT
1 ATATTTATTTTAATAAT
67605 ATATTTATTTTAATAAT
1 ATATTTATTTTAATAAT
*
67622 ATA-AT-TTTTAATAAT
1 ATATTTATTTTAATAAT
67637 A
1 A
67638 ATTAAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 11 0.38
16 1 0.03
17 17 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTATTTTAATAAT
Found at i:69679 original size:3 final size:3
Alignment explanation
Indices: 69664--69708 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
69654 AGCTTCCAAG
* * * *
69664 CAA CAA CAG CAA CAA CAG CAA CAA CAA CAG CAG CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
69709 TCACCCCTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.58, C:0.33, G:0.09, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:69688 original size:12 final size:12
Alignment explanation
Indices: 69664--69707 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
69654 AGCTTCCAAG
69664 CAACAACAGCAA
1 CAACAACAGCAA
* *
69676 CAACAGCAACAA
1 CAACAACAGCAA
*
69688 CAACAGCAGCAA
1 CAACAACAGCAA
69700 CAACAACA
1 CAACAACA
69708 ATCACCCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.57, C:0.34, G:0.09, T:0.00
Consensus pattern (12 bp):
CAACAACAGCAA
Found at i:69691 original size:15 final size:15
Alignment explanation
Indices: 69667--69708 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
69657 TTCCAAGCAA
*
69667 CAACAGCAACAACAG
1 CAACAACAACAACAG
*
69682 CAACAACAACAGCAG
1 CAACAACAACAACAG
69697 CAACAACAACAA
1 CAACAACAACAA
69709 TCACCCCTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.33, G:0.10, T:0.00
Consensus pattern (15 bp):
CAACAACAACAACAG
Found at i:71201 original size:2 final size:2
Alignment explanation
Indices: 71194--71221 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
71184 TCTACCTCAC
71194 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
71222 GTGCAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:71275 original size:2 final size:2
Alignment explanation
Indices: 71268--71299 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
71258 AGTTTAGCAG
*
71268 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71300 GCTAATTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:73464 original size:2 final size:2
Alignment explanation
Indices: 73457--73486 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
73447 AATTAGGATA
73457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73487 GAAAAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73609 original size:2 final size:2
Alignment explanation
Indices: 73602--73649 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
73592 AGCTTTGTCC
73602 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73644 AT -T AT A
1 AT AT AT A
73650 AGAGGGCCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74596 original size:3 final size:3
Alignment explanation
Indices: 74588--74636 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
74578 TTTAACAGCT
*
74588 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
74636 A
1 A
74637 ATTTTGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:75440 original size:30 final size:30
Alignment explanation
Indices: 75384--75440 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
75374 TTTGTATCAC
*
75384 ATATATAATAAATATATGTAATATTATAAT
1 ATATATAAAAAATATATGTAATATTATAAT
75414 ATATATTAAAAAATA-ATGTTAA-ATTAT
1 ATATA-TAAAAAATATATG-TAATATTAT
75441 TTTCGTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (30 bp):
ATATATAAAAAATATATGTAATATTATAAT
Found at i:76331 original size:2 final size:2
Alignment explanation
Indices: 76320--76350 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
76310 AAATTTTAAA
76320 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76351 TTCTTTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:76571 original size:2 final size:2
Alignment explanation
Indices: 76564--76608 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
76554 GAAACAAAGA
*
76564 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76606 AT A
1 AT A
76609 CAACTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:77453 original size:69 final size:69
Alignment explanation
Indices: 77328--77479 Score: 169
Period size: 69 Copynumber: 2.2 Consensus size: 69
77318 TAAAAATGAG
** *** * * * *
77328 CCCTAATCTCTTAATTTGAATCCAAAACAAACCTTAATTTCTTAACCTGAATCCAAAATAAACCC
1 CCCTAATCTCTTAACCTGAAAATAAAACAAACCCTAATCTCTTAAACTGAAACCAAAATAAACCC
77393 CAAT
66 CAAT
* * * * *
77397 CCTTAATTTCTTAACCTGAAAATAAAACAAGCCCTAATCTCTTAAATTGAAACCAAAATGAACCC
1 CCCTAATCTCTTAACCTGAAAATAAAACAAACCCTAATCTCTTAAACTGAAACCAAAATAAACCC
*
77462 TAAT
66 CAAT
77466 CCCTAATCTCTTAA
1 CCCTAATCTCTTAA
77480 ACATCAAATC
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.29
Consensus pattern (69 bp):
CCCTAATCTCTTAACCTGAAAATAAAACAAACCCTAATCTCTTAAACTGAAACCAAAATAAACCC
CAAT
Found at i:81865 original size:175 final size:175
Alignment explanation
Indices: 81574--82068 Score: 764
Period size: 175 Copynumber: 2.8 Consensus size: 175
81564 ACAAAACATC
* *
81574 GCTATTAACATGAAGAGCCATGAATAATTCAAAGCATTAAATTCATTAAATTAGCGGCGTTTTTA
1 GCTATTAACATGAAGAGCCATGAATAATTCAAAGCATTAAATTCATTAAATTAGTGGCATTTTTA
* *
81639 AAATAAACGTCACTAAATTTGTACATTTAACGGAGTTTACTAAAAATAAACGTCA-TGAAAAAAT
66 AAATAAACGCCACTAAATTTGAACATTTAACGGAGTTTACTAAAAATAAACGTCACT-AAAAAAT
* * *
81703 TGCCACTAAATTTAAGAAATTAGCAACATTTTTCAGT-TAAAACGCG
130 TGCCACTAAATTTAAGAAATTAGCAAC-GTTTTAACTATAAAACGCG
81749 GCTATTAACATGAAGAGCCATGAATAATTCAAAGCATTAAATTCATTAAATTAGTGGCATTTTTA
1 GCTATTAACATGAAGAGCCATGAATAATTCAAAGCATTAAATTCATTAAATTAGTGGCATTTTTA
*
81814 AAATAAACACCACTAAATTTGAACATTTAACGGAGTTTACTAAAAATAAACGTCACTAAAAAATT
66 AAATAAACGCCACTAAATTTGAACATTTAACGGAGTTTACTAAAAATAAACGTCACTAAAAAATT
** *
81879 ATCACTAAATTTTAA-AAATTAGCGACGTTTTAACTATAAAACGCG
131 GCCACTAAA-TTTAAGAAATTAGCAACGTTTTAACTATAAAACGCG
*
81924 GCTATTAACATGAAGAGCCATGAATAATTCAAAGCATTAAATTCATTAAAGTAGTGGCATTTTTA
1 GCTATTAACATGAAGAGCCATGAATAATTCAAAGCATTAAATTCATTAAATTAGTGGCATTTTTA
* * * * * *
81989 AAATAAATGCCACTAAATTTAAATATTTAGCAGCGTTTACTAAAAATAAACG-CTACTAAAAAAT
66 AAATAAACGCCACTAAATTTGAACATTTAACGGAGTTTACTAAAAATAAACGTC-ACTAAAAAAT
82053 TGCCACTAAATTTAAG
130 TGCCACTAAATTTAAG
82069 TATTTAGTGG
Statistics
Matches: 294, Mismatches: 21, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
174 12 0.04
175 276 0.94
176 6 0.02
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (175 bp):
GCTATTAACATGAAGAGCCATGAATAATTCAAAGCATTAAATTCATTAAATTAGTGGCATTTTTA
AAATAAACGCCACTAAATTTGAACATTTAACGGAGTTTACTAAAAATAAACGTCACTAAAAAATT
GCCACTAAATTTAAGAAATTAGCAACGTTTTAACTATAAAACGCG
Found at i:84623 original size:20 final size:20
Alignment explanation
Indices: 84598--84694 Score: 88
Period size: 20 Copynumber: 4.7 Consensus size: 20
84588 TTTTACCCAG
* *
84598 ATGTATCGATACATGGATGA
1 ATGTATCGATACATGCATCA
* *
84618 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATGCATCA
* *
84638 ATGTATCGATACATTCTACCTA
1 ATGTATCGATACATGC-ATC-A
*
84660 GATGTATCGATACATTG-TTCA
1 -ATGTATCGATACA-TGCATCA
84681 ATGTATCGATACAT
1 ATGTATCGATACAT
84695 CTAGTTAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 45 0.70
21 2 0.03
22 2 0.03
23 13 0.20
24 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATGCATCA
Found at i:84625 original size:51 final size:51
Alignment explanation
Indices: 84536--84634 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
84526 AAAAGTTACA
***
84536 TTTTTACCCAGATATATCGATACATTTTTCAATATATCGATACATTCTGTC
1 TTTTTACCCAGATATATCGATACATGGATCAATATATCGATACATTCTGTC
* * *
84587 TTTTTACCCAGATGTATCGATACATGGATGAATGTATCGATACATTCT
1 TTTTTACCCAGATATATCGATACATGGATCAATATATCGATACATTCT
84635 TCAATGTATC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (51 bp):
TTTTTACCCAGATATATCGATACATGGATCAATATATCGATACATTCTGTC
Found at i:84668 original size:23 final size:20
Alignment explanation
Indices: 84617--84694 Score: 102
Period size: 20 Copynumber: 3.8 Consensus size: 20
84607 TACATGGATG
*
84617 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTCC
84637 AATGTATCGATACATTCTACC
1 AATGTATCGATACATTCT-CC
* *
84658 TAGATGTATCGATACATTGTTC
1 -A-ATGTATCGATACATTCTCC
84680 AATGTATCGATACAT
1 AATGTATCGATACAT
84695 CTAGTTAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
20 32 0.62
21 2 0.04
22 2 0.04
23 16 0.31
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTCTCC
Found at i:93229 original size:24 final size:22
Alignment explanation
Indices: 93188--93231 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
93178 CAAATATATA
93188 AATATTAAAAAAAATTTAAATT
1 AATATTAAAAAAAATTTAAATT
*
93210 AATATTTAAATAATAATTTAAA
1 AATA-TTAAA-AAAAATTTAAA
93232 ATTTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 5 0.26
24 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATTAAAAAAAATTTAAATT
Found at i:104042 original size:36 final size:36
Alignment explanation
Indices: 104000--104079 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
103990 AAAAATTCTC
* * *
104000 TAAATTTTATCATTTTACATTTTTATTTTAT-C-CAAA
1 TAAATTTTA-AATTTTA-ATTTATAGTTTATACTCAAA
*
104036 TAAATTTTAAATTTTAATTTATGGTTTATACTCAAA
1 TAAATTTTAAATTTTAATTTATAGTTTATACTCAAA
104072 TAAATTTT
1 TAAATTTT
104080 TTAAGCTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 10 0.26
35 7 0.18
36 21 0.55
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (36 bp):
TAAATTTTAAATTTTAATTTATAGTTTATACTCAAA
Found at i:104158 original size:29 final size:29
Alignment explanation
Indices: 104126--104183 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
104116 TAATTAATTT
* *
104126 TTAAAAATAAAAATTTATTTAAATATAAA
1 TTAAAAATAAAAACTTAATTAAATATAAA
104155 TTAAAAATAAAAACTTAATTAAATATAAA
1 TTAAAAATAAAAACTTAATTAAATATAAA
104184 AAATATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (29 bp):
TTAAAAATAAAAACTTAATTAAATATAAA
Found at i:104192 original size:19 final size:19
Alignment explanation
Indices: 104146--104192 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
104136 AAATTTATTT
104146 AAATATAAATTAAAAATAAA
1 AAATAT-AATTAAAAATAAA
* *
104166 AACT-TAATTAAATATAAA
1 AAATATAATTAAAAATAAA
104184 AAATATAAT
1 AAATATAAT
104193 AACTTATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 15 0.65
19 5 0.22
20 3 0.13
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATATAATTAAAAATAAA
Found at i:106876 original size:2 final size:2
Alignment explanation
Indices: 106869--106911 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
106859 TTGTTTAAGA
106869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106911 A
1 A
106912 ATTTCATCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:111295 original size:32 final size:30
Alignment explanation
Indices: 111233--111324 Score: 89
Period size: 34 Copynumber: 2.9 Consensus size: 30
111223 TATAAATTAA
*
111233 AATTTTTT-ATTTTTATTAAAAATATATAAAAAT
1 AATTTTTTAAATTTT-TT-AAAAT-T-TAAAAAT
111266 -ATTTTTTAAAATTTTTTATTAAATTTAAAAAT
1 AATTTTTT-AAATTTTTTA--AAATTTAAAAAT
111298 AAATTTTTTAAATTTTTTAAAATTTAA
1 -AATTTTTTAAATTTTTTAAAATTTAA
111325 TTATACATCA
Statistics
Matches: 52, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
31 8 0.15
32 15 0.29
33 13 0.25
34 16 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
AATTTTTTAAATTTTTTAAAATTTAAAAAT
Found at i:111326 original size:24 final size:24
Alignment explanation
Indices: 111266--111326 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 24
111256 ATATAAAAAT
111266 ATTTTTTAAAATTT--TTTATTAA
1 ATTTTTTAAAATTTAATTTATTAA
* * *
111288 A---TTTAAAAATAAATTTTTTAA
1 ATTTTTTAAAATTTAATTTATTAA
111309 ATTTTTTAAAATTTAATT
1 ATTTTTTAAAATTTAATT
111327 ATACATCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
19 8 0.28
21 8 0.28
22 1 0.03
24 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTTTAAAATTTAATTTATTAA
Found at i:111910 original size:27 final size:26
Alignment explanation
Indices: 111880--111950 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 26
111870 AATTTAAAAT
111880 TTATATTTTATATTTTTAAATAA-ATAA
1 TTATA-TTTATATTTTTAAATAATAT-A
*
111907 TTATA-TTA-AATTTTAAATAATATA
1 TTATATTTATATTTTTAAATAATATA
111931 TATATAATTTATATATTTTA
1 T-TAT-ATTTATAT-TTTTA
111951 TTATTATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
24 13 0.36
25 8 0.22
26 1 0.03
27 8 0.22
28 1 0.03
29 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTATATTTATATTTTTAAATAATATA
Found at i:111939 original size:21 final size:20
Alignment explanation
Indices: 111842--111940 Score: 63
Period size: 21 Copynumber: 4.5 Consensus size: 20
111832 TTAGTAATGA
* *
111842 ATATAAAATATTTATATAAAT
1 ATATATAAT-TTTAAATAAAT
* **
111863 ATATATTAATTTAAAATTTAT
1 ATATA-TAATTTTAAATAAAT
* *
111884 ATTTTATATTTTTAAATAAAT
1 A-TATATAATTTTAAATAAAT
111905 AATTATATTAAATTTTAAATAATAT
1 -A-TATA-T-AATTTTAAATAA-AT
111930 ATATATAATTT
1 ATATATAATTT
111941 ATATATTTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
21 29 0.48
22 12 0.20
23 5 0.08
24 12 0.20
25 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATAATTTTAAATAAAT
Found at i:112275 original size:16 final size:17
Alignment explanation
Indices: 112244--112277 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
112234 TAGCAATTTA
112244 ATAAAATTTATAAATAT
1 ATAAAATTTATAAATAT
*
112261 ATAATATTT-TAAATAT
1 ATAAAATTTATAAATAT
112277 A
1 A
112278 ATTATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAAATAT
Found at i:112275 original size:29 final size:31
Alignment explanation
Indices: 112243--112319 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 31
112233 GTAGCAATTT
*
112243 AATAAAATTTATAAATATATAA-TAT-TTTA
1 AATAAAATTTATAAATATATAATTATATATA
*
112272 AATATAA-TTAT-AATATATAATTATATATA
1 AATAAAATTTATAAATATATAATTATATATA
* * *
112301 AATAACATATAAAAATATA
1 AATAAAATTTATAAATATA
112320 ATCCCAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 9 0.24
28 7 0.18
29 14 0.37
30 2 0.05
31 6 0.16
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (31 bp):
AATAAAATTTATAAATATATAATTATATATA
Found at i:113251 original size:3 final size:3
Alignment explanation
Indices: 113243--113284 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
113233 TTTATTTACA
*
113243 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
113285 GTATATAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:113375 original size:19 final size:20
Alignment explanation
Indices: 113334--113377 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
113324 AGATTTGATT
113334 TAAAAATATATTTGAAAGGTA
1 TAAAAATATATTTGAAA-GTA
113355 TAAAAATATATATT-AAA-TA
1 TAAAAATATAT-TTGAAAGTA
113374 TAAA
1 TAAA
113378 TACGTAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.27
21 14 0.64
22 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (20 bp):
TAAAAATATATTTGAAAGTA
Found at i:113695 original size:112 final size:112
Alignment explanation
Indices: 113567--113790 Score: 430
Period size: 112 Copynumber: 2.0 Consensus size: 112
113557 CGAATTACAT
* *
113567 AACCAATATTGTTTTATTTTATTAACACATTATATTGAAATTAATAATTAAAACATTAAAAAGAA
1 AACCAATATTGTTTTATTTTATTAACACATAATATTGAAATTAAGAATTAAAACATTAAAAAGAA
113632 TTTTCAACACAAAGAAAAAAAAACAATAAAAAACACATAATTATAAG
66 TTTTCAACACAAAGAAAAAAAAACAATAAAAAACACATAATTATAAG
113679 AACCAATATTGTTTTATTTTATTAACACATAATATTGAAATTAAGAATTAAAACATTAAAAAGAA
1 AACCAATATTGTTTTATTTTATTAACACATAATATTGAAATTAAGAATTAAAACATTAAAAAGAA
113744 TTTTCAACACAAAGAAAAAAAAACAATAAAAAACACATAATTATAAG
66 TTTTCAACACAAAGAAAAAAAAACAATAAAAAACACATAATTATAAG
113791 TATATTAAAT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (112 bp):
AACCAATATTGTTTTATTTTATTAACACATAATATTGAAATTAAGAATTAAAACATTAAAAAGAA
TTTTCAACACAAAGAAAAAAAAACAATAAAAAACACATAATTATAAG
Found at i:114144 original size:5 final size:5
Alignment explanation
Indices: 114134--114176 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
114124 GTATGCAAAT
* * *
114134 TTTTA TTTTA TTTTG TTTTG TTTTG TTTTA TTTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
114177 TAATTGTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:114381 original size:24 final size:25
Alignment explanation
Indices: 114345--114391 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
114335 ATTAGTGTTC
114345 TTAATTATAAATACAAAA-ATTTTA
1 TTAATTATAAATACAAAATATTTTA
*
114369 TTAA-TATATAATATAAAATATTT
1 TTAATTATA-AATACAAAATATTT
114392 AAAATGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TTAATTATAAATACAAAATATTTTA
Found at i:114441 original size:2 final size:2
Alignment explanation
Indices: 114434--114462 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
114424 AAATATGAAG
114434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
114463 CATTACAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:122232 original size:16 final size:18
Alignment explanation
Indices: 122201--122265 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
122191 TAAAATTTTT
122201 ATTTATAAATATAATAAA
1 ATTTATAAATATAATAAA
122219 ATTTATAAATAATAA-AAA
1 ATTTATAAAT-ATAATAAA
122237 ATATT-TAAA-ATAATAAA
1 AT-TTATAAATATAATAAA
*
122254 ATTAAT-AATATA
1 ATTTATAAATATA
122266 TCAAACAACT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
16 7 0.17
17 9 0.22
18 19 0.46
19 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTATAAATATAATAAA
Found at i:122247 original size:19 final size:20
Alignment explanation
Indices: 122200--122254 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
122190 TTAAAATTTT
*
122200 TATTTATAAAT-ATAATAAA
1 TATTTATAAATAATAAAAAA
122219 -ATTTATAAATAATAAAAAA
1 TATTTATAAATAATAAAAAA
122238 TATTTA-AAATAATAAAA
1 TATTTATAAATAATAAAA
122255 TTAATAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 10 0.30
19 18 0.55
20 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TATTTATAAATAATAAAAAA
Found at i:126943 original size:6 final size:6
Alignment explanation
Indices: 126932--126960 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
126922 TTCTATGGCA
126932 ATGTAT ATGTAT ATGTAT ATGTAT ATGTA
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTA
126961 ATAGTTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:127149 original size:13 final size:13
Alignment explanation
Indices: 127131--127155 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127121 ATCTCTCAAC
127131 CATTTATGTAACG
1 CATTTATGTAACG
127144 CATTTATGTAAC
1 CATTTATGTAAC
127156 TTGATTAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
CATTTATGTAACG
Found at i:128349 original size:32 final size:32
Alignment explanation
Indices: 128313--128381 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
128303 TCGGACTATT
* *
128313 TATTTAAATATTAAT-TTAATAATTAAAATATA
1 TATTTAAATATAAATATTAA-AATTAAAAAATA
*
128345 TATTTAAATATAAATATTAAATTTAAAAAATA
1 TATTTAAATATAAATATTAAAATTAAAAAATA
*
128377 AATTT
1 TATTT
128382 GTATTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
TATTTAAATATAAATATTAAAATTAAAAAATA
Found at i:128379 original size:20 final size:20
Alignment explanation
Indices: 128317--128379 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
128307 ACTATTTATT
* *
128317 TAAATATT-AATTTAATAAT
1 TAAATATTAAATTTAAAAAA
* *
128336 TAAA-ATATATATTT-AAATA
1 TAAATAT-TAAATTTAAAAAA
128355 TAAATATTAAATTTAAAAAA
1 TAAATATTAAATTTAAAAAA
128375 TAAAT
1 TAAAT
128380 TTGTATTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 2 0.06
19 17 0.50
20 15 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATATTAAATTTAAAAAA
Found at i:132382 original size:2 final size:2
Alignment explanation
Indices: 132371--132409 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
132361 TACATAAAAC
132371 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
132410 GTATTGTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:136255 original size:32 final size:31
Alignment explanation
Indices: 136214--136274 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
136204 ATATTTTAAT
*
136214 TATTATTTAATGTAAAGATAATTTTTAATACA
1 TATTATTTAATATAAAGATAA-TTTTAATACA
*
136246 TATTATTTAATATAAATATAATTTTAATA
1 TATTATTTAATATAAAGATAATTTTAATA
136275 ATTTTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (31 bp):
TATTATTTAATATAAAGATAATTTTAATACA
Found at i:136303 original size:38 final size:40
Alignment explanation
Indices: 136231--136327 Score: 117
Period size: 38 Copynumber: 2.4 Consensus size: 40
136221 TAATGTAAAG
*
136231 ATAATTTTTAATACATATTATTTAATATAAATATAA-TTTTA
1 ATAATTTTTAAT--ATATTATTTAACATAAATATAATTTTTA
*
136272 ATAATTTTTAAT-TATTATTTAACATAGATATAATTTTTA
1 ATAATTTTTAATATATTATTTAACATAAATATAATTTTTA
*
136311 ATTATTTATTATATATA
1 ATAATTT-TTA-ATATA
136328 CACATTTCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 19 0.39
39 11 0.22
40 3 0.06
41 14 0.29
42 2 0.04
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (40 bp):
ATAATTTTTAATATATTATTTAACATAAATATAATTTTTA
Found at i:138611 original size:2 final size:2
Alignment explanation
Indices: 138604--138634 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
138594 GCAATCTTTA
*
138604 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
138635 AGTGTAGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:139959 original size:3 final size:3
Alignment explanation
Indices: 139951--139977 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
139941 AACTGAGCAA
139951 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
139978 TGTACTTAAT
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:140304 original size:49 final size:48
Alignment explanation
Indices: 140174--140320 Score: 147
Period size: 49 Copynumber: 3.0 Consensus size: 48
140164 GGGGGAATGC
* *
140174 ATATGGTAA-GGAAATAAATAATAGGCAAGTTTTAGAGAAATTAGATTTT
1 ATATGG-AATGGAAATAAACAATAGGCAA-ATTTAGAGAAATTAGATTTT
* * * *
140223 TTATGGTATGTAAAT-AA-AATCAGTGGACAATTTAGAGAAATTAGATTTT
1 ATATGGAATGGAAATAAACAAT-AG-GCA-AATTTAGAGAAATTAGATTTT
* *
140272 ATATGGAATGGAAATAAGACAATAGGCAAATTTTGGGAAATTAGATTTT
1 ATATGGAATGGAAATAA-ACAATAGGCAAATTTAGAGAAATTAGATTTT
140321 TATTTGTTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
47 3 0.04
48 5 0.06
49 62 0.77
50 4 0.05
51 3 0.04
52 3 0.04
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.33
Consensus pattern (48 bp):
ATATGGAATGGAAATAAACAATAGGCAAATTTAGAGAAATTAGATTTT
Found at i:140832 original size:32 final size:31
Alignment explanation
Indices: 140796--140857 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
140786 TATTCGAAAA
140796 TATTTTTCATATATATATTTAAAAATATTTAG
1 TATTTTTCATATATATA-TTAAAAATATTTAG
* *
140828 TATTTTTTATATATATATTAAAAATGTTTA
1 TATTTTTCATATATATATTAAAAATATTTA
140858 AAATATGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (31 bp):
TATTTTTCATATATATATTAAAAATATTTAG
Found at i:140841 original size:30 final size:32
Alignment explanation
Indices: 140796--140857 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
140786 TATTCGAAAA
140796 TATTTTTCATATATATAT-TTAAAAATATTTAG
1 TATTTTT-ATATATATATATTAAAAATATTTAG
*
140828 TATTTTT-TATATATATATTAAAAATGTTTA
1 TATTTTTATATATATATATTAAAAATATTTA
140858 AAATATGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 9 0.32
31 12 0.43
32 7 0.25
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (32 bp):
TATTTTTATATATATATATTAAAAATATTTAG
Found at i:141729 original size:20 final size:21
Alignment explanation
Indices: 141694--141734 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
141684 ATAATTAAAT
141694 TTAAATATAAAATTTAAATTA
1 TTAAATATAAAATTTAAATTA
*
141715 TTAAATAT-CAATTTAAATTA
1 TTAAATATAAAATTTAAATTA
141735 ATTCAACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAATATAAAATTTAAATTA
Found at i:142376 original size:13 final size:13
Alignment explanation
Indices: 142342--142369 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
142332 ATATTTAAAA
142342 TAATTTTAATTTT
1 TAATTTTAATTTT
142355 TAATTTTAATTTT
1 TAATTTTAATTTT
142368 TA
1 TA
142370 TTATTAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TAATTTTAATTTT
Found at i:144021 original size:11 final size:11
Alignment explanation
Indices: 143988--144023 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
143978 AAAATCTGAT
143988 TATAATATAAA
1 TATAATATAAA
* *
143999 AATAACATAAA
1 TATAATATAAA
144010 TATAATATAAA
1 TATAATATAAA
144021 TAT
1 TAT
144024 TAAATCTCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
TATAATATAAA
Found at i:144585 original size:19 final size:19
Alignment explanation
Indices: 144551--144599 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
144541 TAAATTCTGA
144551 CATATA-TTTTAATATATT
1 CATATATTTTTAATATATT
*
144569 CATATATTTTTATTATATT
1 CATATATTTTTAATATATT
*
144588 AATATTATTTTT
1 CATA-TATTTTT
144600 TCATGTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 6 0.22
19 14 0.52
20 7 0.26
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (19 bp):
CATATATTTTTAATATATT
Found at i:145164 original size:23 final size:22
Alignment explanation
Indices: 145118--145164 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
145108 TTTTATTTTA
**
145118 AAATTATTAAAAAAATTATTAT
1 AAATTATTAAAAAAATTAAAAT
*
145140 AAATTATCTACAAAAATTAAAAT
1 AAATTAT-TAAAAAAATTAAAAT
145163 AA
1 AA
145165 TAATAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATTATTAAAAAAATTAAAAT
Found at i:145642 original size:15 final size:14
Alignment explanation
Indices: 145622--145673 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
145612 TATAAATAAT
145622 AATCAAATTAACTCA
1 AATCAAATTAA-TCA
* *
145637 AATCAAACTAATTTA
1 AATCAAATTAA-TCA
145652 AATCATAA-TAATCA
1 AATCA-AATTAATCA
145666 AATCAAAT
1 AATCAAAT
145674 CAAATTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 2 0.06
14 7 0.23
15 20 0.65
16 2 0.06
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (14 bp):
AATCAAATTAATCA
Found at i:145923 original size:27 final size:27
Alignment explanation
Indices: 145885--145989 Score: 80
Period size: 27 Copynumber: 4.1 Consensus size: 27
145875 CCTATTGACG
*
145885 ATAATTTGTATATTTTTATTAAATTTA
1 ATAATTTATATATTTTTATTAAATTTA
* *
145912 ATAATTTATATATTTATT-TTATATTTT
1 ATAATTTATATATTT-TTATTAAATTTA
* * *
145939 ATTATGTA-ATATTTTTATTTAA---A
1 ATAATTTATATATTTTTATTAAATTTA
* *
145962 AT-ATTT-TATATTTATATTAATTTTA
1 ATAATTTATATATTTTTATTAAATTTA
145987 ATA
1 ATA
145990 TATTAATAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
22 14 0.24
23 2 0.03
25 5 0.08
26 9 0.15
27 27 0.46
28 2 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
ATAATTTATATATTTTTATTAAATTTA
Found at i:145964 original size:15 final size:16
Alignment explanation
Indices: 145946--145975 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
145936 TTTATTATGT
145946 AATATTTT-TATTTAA
1 AATATTTTATATTTAA
145961 AATATTTTATATTTA
1 AATATTTTATATTTA
145976 TATTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATATTTTATATTTAA
Found at i:145979 original size:28 final size:27
Alignment explanation
Indices: 145893--145979 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
145883 CGATAATTTG
* *
145893 TATATTTTTA-TTAA-ATTTAATAATT
1 TATATTTTTATTTAATATTTTATTATT
* *
145918 TATATATTTATTTTATATTTTATTATGT
1 TATATTTTTATTTAATATTTTATTAT-T
*
145946 AATATTTTTATTTAAAATATTTTA-TATT
1 TATATTTTTATTT--AATATTTTATTATT
145974 TATATT
1 TATATT
145980 AATTTTAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
25 9 0.18
26 3 0.06
27 8 0.16
28 18 0.37
29 3 0.06
30 8 0.16
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (27 bp):
TATATTTTTATTTAATATTTTATTATT
Found at i:146205 original size:2 final size:2
Alignment explanation
Indices: 146186--146224 Score: 51
Period size: 2 Copynumber: 18.5 Consensus size: 2
146176 TTAATAAATT
*
146186 TA TA TA TT TA TA TCA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA T-A TA T
146225 TTTTTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 29 0.88
3 4 0.12
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:146681 original size:14 final size:14
Alignment explanation
Indices: 146646--146682 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
146636 TTTAAATATA
146646 AATAATTTTTTAAT
1 AATAATTTTTTAAT
* *
146660 ATTTATTTTTTAAT
1 AATAATTTTTTAAT
146674 AATAATTTT
1 AATAATTTT
146683 AAAATTAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
AATAATTTTTTAAT
Found at i:146982 original size:11 final size:13
Alignment explanation
Indices: 146952--146977 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
146942 ATTCATGTGC
146952 TATATTATTTTTT
1 TATATTATTTTTT
146965 TATATTATTTTTT
1 TATATTATTTTTT
146978 AATTAAGTAT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATATTATTTTTT
Found at i:147238 original size:21 final size:19
Alignment explanation
Indices: 147205--147250 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
147195 TAAAAAAACG
*
147205 AAAACTTTAAAAAATATATAT
1 AAAAATTTAAAAAA-AT-TAT
*
147226 AAAAATTTCAAAAAATTAT
1 AAAAATTTAAAAAAATTAT
147245 AAAAAT
1 AAAAAT
147251 CTTGAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
20 2 0.09
21 12 0.52
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAATTTAAAAAAATTAT
Found at i:147259 original size:21 final size:22
Alignment explanation
Indices: 147211--147259 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 22
147201 AACGAAAACT
147211 TTAAAAAATATATATAAAAAT-
1 TTAAAAAATATATATAAAAATC
*
147232 TTCAAAAA-AT-TATAAAAATC
1 TTAAAAAATATATATAAAAATC
*
147252 TTGAAAAA
1 TTAAAAAA
147260 CCTTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (22 bp):
TTAAAAAATATATATAAAAATC
Found at i:147428 original size:23 final size:23
Alignment explanation
Indices: 147401--147450 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
147391 CTGAAAAAAA
* *
147401 AAAAAAAAGAAAGGAAGAGAGAGG
1 AAAAGAAA-AAAGGAAGAGAGAAG
*
147425 AAAAGAAAAAAGGAAGGGAGAAG
1 AAAAGAAAAAAGGAAGAGAGAAG
147448 AAA
1 AAA
147451 TGAGGGAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAAAGGAAGAGAGAAG
Found at i:147811 original size:20 final size:22
Alignment explanation
Indices: 147763--147814 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
147753 CTATTTTTAA
147763 TTTTATATTTATTTTAATAATTG
1 TTTTA-ATTTATTTTAATAATTG
*
147786 TATTTAATTTTTTTTAA-AATT-
1 T-TTTAATTTATTTTAATAATTG
147807 TTTTAATT
1 TTTTAATT
147815 GAATTAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.26
21 1 0.04
22 4 0.15
23 11 0.41
24 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTAATTTATTTTAATAATTG
Found at i:147892 original size:3 final size:3
Alignment explanation
Indices: 147884--147912 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
147874 ATTAATATAA
147884 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
147913 GTGATACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:148551 original size:26 final size:26
Alignment explanation
Indices: 148522--148571 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
148512 TAATATAAAT
*
148522 ATTATTATTTTAAT-AATAATTAATCA
1 ATTATTAATTTAATGAAT-ATTAATCA
148548 ATTATTAATTTAATGAATATTAAT
1 ATTATTAATTTAATGAATATTAAT
148572 TATTATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTATTAATTTAATGAATATTAATCA
Found at i:148684 original size:24 final size:24
Alignment explanation
Indices: 148657--148707 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
148647 TTTAATAGCA
148657 TAAATATTCATAGAAATAATATTT
1 TAAATATTCATAGAAATAATATTT
* * * *
148681 TAAATATTTATATAATTAATTTTT
1 TAAATATTCATAGAAATAATATTT
148705 TAA
1 TAA
148708 TAATAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
TAAATATTCATAGAAATAATATTT
Found at i:148905 original size:32 final size:31
Alignment explanation
Indices: 148851--148914 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
148841 CTAAAAAATG
* *
148851 TAAAAATAATATTTAATAATAATTATATTAA
1 TAAAAACAATATTTAATAATAATTATAATAA
*
148882 TAAAAACAATATTTTAATGATAATTATAATAA
1 TAAAAACAATA-TTTAATAATAATTATAATAA
148914 T
1 T
148915 TTAAATATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (31 bp):
TAAAAACAATATTTAATAATAATTATAATAA
Found at i:148912 original size:44 final size:43
Alignment explanation
Indices: 148855--148955 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 43
148845 AAAATGTAAA
*
148855 AATAATATTTAATAATAA-TT-ATATTAATAAAAACAATATTTT
1 AATAATAATT-ATAATAATTTAATATTAATAAAAACAATATTTT
* * * **
148897 AATGATAATTATAATAATTTAAATATTGATATAATTAATATTTT
1 AATAATAATTATAATAATTT-AATATTAATAAAAACAATATTTT
148941 AATAATAATTATAAT
1 AATAATAATTATAAT
148956 TAACATTTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
41 7 0.14
42 10 0.20
44 32 0.65
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (43 bp):
AATAATAATTATAATAATTTAATATTAATAAAAACAATATTTT
Found at i:148953 original size:24 final size:24
Alignment explanation
Indices: 148889--148963 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 24
148879 TAATAAAAAC
*
148889 AATATTTTAATGATAATTATAA-T
1 AATATTTTAATAATAATTATAATT
* * *
148912 -A-ATTTAAATATTGA-TATAATT
1 AATATTTTAATAATAATTATAATT
148933 AATATTTTAATAATAATTATAATT
1 AATATTTTAATAATAATTATAATT
*
148957 AACATTT
1 AATATTT
148964 CTTATCTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
20 5 0.12
21 10 0.25
22 2 0.05
23 10 0.25
24 13 0.32
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (24 bp):
AATATTTTAATAATAATTATAATT
Found at i:154467 original size:44 final size:44
Alignment explanation
Indices: 154419--154504 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
154409 AGCATAAATT
*
154419 AAATTGAC-AAAAAATA-ATTTGCTTAAATTAAATTGTAAGAAAAC
1 AAATTG-CTAAAAAATAGA-TTGCTTAAATTAAATTGAAAGAAAAC
* *
154463 AAATTGCTAGAAACTAGATTGCTTAAATTAAATTGAAAGAAA
1 AAATTGCTAAAAAATAGATTGCTTAAATTAAATTGAAAGAAA
154505 GTAAATTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 35 0.95
45 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (44 bp):
AAATTGCTAAAAAATAGATTGCTTAAATTAAATTGAAAGAAAAC
Found at i:154470 original size:29 final size:29
Alignment explanation
Indices: 154354--154469 Score: 112
Period size: 29 Copynumber: 4.0 Consensus size: 29
154344 AATGTAGTGA
* *
154354 ATAAATTTAAATTTGCAAGAAAATAAATTAC
1 ATAAA-TTAAA-TTGTAAGAAAATAAATTGC
* *
154385 ATAAATTAAAAT-TAA-AAAATAAATAGC
1 ATAAATTAAATTGTAAGAAAATAAATTGC
* *
154412 ATAAATTAAATTG-ACAAAAAATAATTTGC
1 ATAAATTAAATTGTA-AGAAAATAAATTGC
* *
154441 TTAAATTAAATTGTAAGAAAACAAATTGC
1 ATAAATTAAATTGTAAGAAAATAAATTGC
154470 TAGAAACTAG
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
27 22 0.31
28 3 0.04
29 34 0.49
30 6 0.09
31 5 0.07
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (29 bp):
ATAAATTAAATTGTAAGAAAATAAATTGC
Found at i:154495 original size:29 final size:29
Alignment explanation
Indices: 154463--154584 Score: 111
Period size: 29 Copynumber: 4.2 Consensus size: 29
154453 GTAAGAAAAC
* *
154463 AAATTGCTAGAAACTAGATTGCT-TAAATT
1 AAATTGCAAGAAACTAAATTG-TATAAATT
* *
154492 AAATTGAAAGAAAGTAAATTGTATAAATT
1 AAATTGCAAGAAACTAAATTGTATAAATT
* ** *
154521 AAATTGCAAGAAAATAAATTACAAAAATT
1 AAATTGCAAGAAACTAAATTGTATAAATT
* * * **
154550 AAAATGCAAAAAAGTAAATTACATAAATT
1 AAATTGCAAGAAACTAAATTGTATAAATT
154579 AAATTG
1 AAATTG
154585 TAAAAAAATA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 1 0.01
29 77 0.99
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.29
Consensus pattern (29 bp):
AAATTGCAAGAAACTAAATTGTATAAATT
Done.