Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 159 of 171
Found at i:47284888 original size:11 final size:11
Alignment explanation
Indices: 47284872--47284896 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47284862 TTTCTTCCAA
47284872 CATCACAACAC
1 CATCACAACAC
47284883 CATCACAACAC
1 CATCACAACAC
47284894 CAT
1 CAT
47284897 GGTTCAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (11 bp):
CATCACAACAC
Found at i:47290103 original size:22 final size:23
Alignment explanation
Indices: 47290044--47290105 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
47290034 TAAGGGCCAA
* *
47290044 AATTAAATTATAATTTTTATGAT
1 AATTAAATTAAAATTTTTATAAT
* * *
47290067 AATAAAAATACAATTTTTA-AAT
1 AATTAAATTAAAATTTTTATAAT
*
47290089 GATTAAATTAAAATTTT
1 AATTAAATTAAAATTTT
47290106 ATTTTTTAGG
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (23 bp):
AATTAAATTAAAATTTTTATAAT
Found at i:47290860 original size:21 final size:21
Alignment explanation
Indices: 47290836--47290881 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
47290826 TTTTAGTTGA
* *
47290836 TGTTTTGGTGTTATTTTTTAC
1 TGTTTTGATATTATTTTTTAC
*
47290857 TGTTTTGATATTGTTTTTTAC
1 TGTTTTGATATTATTTTTTAC
47290878 TGTT
1 TGTT
47290882 ATTTTTGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.04, G:0.17, T:0.67
Consensus pattern (21 bp):
TGTTTTGATATTATTTTTTAC
Found at i:47290893 original size:25 final size:25
Alignment explanation
Indices: 47290859--47290923 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
47290849 TTTTTTACTG
* *
47290859 TTTTGATATTGTTTTTTACTGTTAT
1 TTTTGTTATTGTTTTTTACTGCTAT
47290884 TTTTGTTATTG-TTTTTACTGCTAT
1 TTTTGTTATTGTTTTTTACTGCTAT
* *
47290908 TTTTGTTGTTATTTTT
1 TTTTGTTATTGTTTTT
47290924 GTTGTTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 21 0.60
25 14 0.40
ACGTcount: A:0.12, C:0.05, G:0.12, T:0.71
Consensus pattern (25 bp):
TTTTGTTATTGTTTTTTACTGCTAT
Found at i:47290924 original size:12 final size:12
Alignment explanation
Indices: 47290878--47290929 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
47290868 TGTTTTTTAC
47290878 TGTTATTTTTGT
1 TGTTATTTTTGT
* * **
47290890 TATTGTTTTTAC
1 TGTTATTTTTGT
*
47290902 TGCTATTTTTGT
1 TGTTATTTTTGT
47290914 TGTTATTTTTGT
1 TGTTATTTTTGT
47290926 TGTT
1 TGTT
47290930 TGAATGTTAT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.10, C:0.04, G:0.15, T:0.71
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:47290962 original size:23 final size:23
Alignment explanation
Indices: 47290936--47290987 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
47290926 TGTTTGAATG
*
47290936 TTATTTTCTATG-CGTTTTTACTA
1 TTATTTTCT-TGTCGTTTTTAATA
* *
47290959 TTATTTTGTTGTCTTTTTTAATA
1 TTATTTTCTTGTCGTTTTTAATA
47290982 TTATTT
1 TTATTT
47290988 GAATATTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.17, C:0.08, G:0.08, T:0.67
Consensus pattern (23 bp):
TTATTTTCTTGTCGTTTTTAATA
Found at i:47310743 original size:14 final size:15
Alignment explanation
Indices: 47310724--47310752 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47310714 AATTGTAAAC
47310724 AATA-TTTTTAAAAA
1 AATATTTTTTAAAAA
47310738 AATATTTTTTAAAAA
1 AATATTTTTTAAAAA
47310753 TTAATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTTTTTAAAAA
Found at i:47316590 original size:23 final size:21
Alignment explanation
Indices: 47316545--47316587 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47316535 TTCTTCATTA
47316545 TTGCATATATGATTGTGTGTG
1 TTGCATATATGATTGTGTGTG
47316566 TTGCATATATGATTGTGTGTG
1 TTGCATATATGATTGTGTGTG
47316587 T
1 T
47316588 GTTACACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.28, T:0.49
Consensus pattern (21 bp):
TTGCATATATGATTGTGTGTG
Found at i:47320038 original size:24 final size:26
Alignment explanation
Indices: 47320011--47320058 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
47320001 AGAGAAATGT
47320011 AAATG-TGATATATGA-A-ATTATGAG
1 AAATGATGA-ATATGAGAGATTATGAG
47320035 AAATGATGAATATGAGAGATTATG
1 AAATGATGAATATGAGAGATTATG
47320059 CCCATGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGATGAATATGAGAGATTATGAG
Found at i:47320151 original size:22 final size:22
Alignment explanation
Indices: 47320119--47320248 Score: 107
Period size: 22 Copynumber: 5.5 Consensus size: 22
47320109 GAACACTAGC
47320119 GTGCTTACTGTTCAGCACTGTAT
1 GTGCTT-CTGTTCAGCACTGTAT
* *
47320142 ATGCTTCTGTTTAGCACTGTAT
1 GTGCTTCTGTTCAGCACTGTAT
* * *
47320164 GTGCTTCTGTTCAGAATTGTGT
1 GTGCTTCTGTTCAGCACTGTAT
*
47320186 GTGCTTCTGTTTCCCCAGCACTGTGT
1 GTGCTTCTG-TT---CAGCACTGTAT
* *
47320212 GTGCTTCTATTTCCCCAGCACTGTGT
1 GTGCTTCT-GTT---CAGCACTGTAT
47320238 GTGCTTCTGTT
1 GTGCTTCTGTT
47320249 TCCCCAGCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
22 41 0.45
23 7 0.08
25 2 0.02
26 41 0.45
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.42
Consensus pattern (22 bp):
GTGCTTCTGTTCAGCACTGTAT
Found at i:47320217 original size:26 final size:26
Alignment explanation
Indices: 47320181--47320259 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
47320171 TGTTCAGAAT
47320181 TGTGTGTGCTTCTGTTTCCCCAGCAC
1 TGTGTGTGCTTCTGTTTCCCCAGCAC
*
47320207 TGTGTGTGCTTCTATTTCCCCAGCAC
1 TGTGTGTGCTTCTGTTTCCCCAGCAC
47320233 TGTGTGTGCTTCTGTTTCCCCAGCAC
1 TGTGTGTGCTTCTGTTTCCCCAGCAC
47320259 T
1 T
47320260 TATGCGCTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.09, C:0.30, G:0.22, T:0.39
Consensus pattern (26 bp):
TGTGTGTGCTTCTGTTTCCCCAGCAC
Found at i:47321105 original size:24 final size:23
Alignment explanation
Indices: 47321049--47321106 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 23
47321039 GTGAATCAAA
47321049 AAATAAAAATAATTAAAAATTAGT
1 AAATAAAAATAATTAAAAA-TAGT
47321073 AAATAAAAATAATTATAAAA-AGT
1 AAATAAAAATAATTA-AAAATAGT
*
47321096 AATTATAAAAT
1 AAATA-AAAAT
47321107 TGGAGATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 7 0.23
24 20 0.65
25 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (23 bp):
AAATAAAAATAATTAAAAATAGT
Found at i:47321645 original size:15 final size:16
Alignment explanation
Indices: 47321625--47321663 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
47321615 GAGCAAAATG
47321625 TAATTTTA-TTTTTAT
1 TAATTTTATTTTTTAT
*
47321640 TAATTTAATTTTTTAT
1 TAATTTTATTTTTTAT
*
47321656 AAATTTTA
1 TAATTTTA
47321664 AAGTGGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TAATTTTATTTTTTAT
Found at i:47323906 original size:11 final size:11
Alignment explanation
Indices: 47323892--47323935 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
47323882 CAAAACGGTG
*
47323892 AGAAAACAATA
1 AGAAAACAACA
* *
47323903 AGAAAATAGCA
1 AGAAAACAACA
*
47323914 ACAAAACAACA
1 AGAAAACAACA
47323925 AGAAAACAACA
1 AGAAAACAACA
47323936 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.70, C:0.16, G:0.09, T:0.05
Consensus pattern (11 bp):
AGAAAACAACA
Found at i:47327435 original size:31 final size:31
Alignment explanation
Indices: 47327396--47327488 Score: 134
Period size: 31 Copynumber: 3.0 Consensus size: 31
47327386 ACTTTTTGAA
*
47327396 TTTT-GAAACGGTCAATTTTAATTTCTATAT
1 TTTTCGAAACGGTCAATTTTAGTTTCTATAT
* *
47327426 TTTTCGAAACGGTCAATTTTAGCTTCTATAC
1 TTTTCGAAACGGTCAATTTTAGTTTCTATAT
* *
47327457 TTTTCGAAATGGTCAATTTTAGTTTTTATAT
1 TTTTCGAAACGGTCAATTTTAGTTTCTATAT
47327488 T
1 T
47327489 GTTTTGAGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.07
31 51 0.93
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (31 bp):
TTTTCGAAACGGTCAATTTTAGTTTCTATAT
Found at i:47328101 original size:3 final size:3
Alignment explanation
Indices: 47328077--47328117 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
47328067 TATTTAGAAC
* * *
47328077 AGA AGA TGA GGA AGA GGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
47328118 GAGGAGGTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:47328343 original size:2 final size:2
Alignment explanation
Indices: 47328336--47328364 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47328326 GCTGCATCTC
47328336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47328365 AGGTTAATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47328593 original size:19 final size:21
Alignment explanation
Indices: 47328543--47328598 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 21
47328533 TATATTTAAA
47328543 TTAGTAAAAATAATTTATATTTT
1 TTAGTAAAAAT-A-TTATATTTT
* *
47328566 TTTGTAAAATTATTATA-TTT
1 TTAGTAAAAATATTATATTTT
47328586 TTAG-AAAAATATT
1 TTAGTAAAAATATT
47328599 TTTTAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 8 0.28
20 6 0.21
21 5 0.17
22 1 0.03
23 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAGTAAAAATATTATATTTT
Found at i:47340433 original size:31 final size:31
Alignment explanation
Indices: 47340398--47340467 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
47340388 TTAGGACGTG
* *
47340398 ATTTTTAATCATTTTAAATATTTTTA-AATTT
1 ATTTTTAATAAATTT-AATATTTTTATAATTT
47340429 ATTTTTAATAAATTTAATATTTTTATAATTT
1 ATTTTTAATAAATTTAATATTTTTATAATTT
*
47340460 -TTTATAAT
1 ATTTTTAAT
47340468 TCTTAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (31 bp):
ATTTTTAATAAATTTAATATTTTTATAATTT
Found at i:47341216 original size:2 final size:2
Alignment explanation
Indices: 47341209--47341233 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47341199 TTATTATAGG
47341209 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 T
47341234 TGTAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47343267 original size:27 final size:28
Alignment explanation
Indices: 47343225--47343280 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
47343215 ATCTCGAATA
47343225 AAAAAAATAAGTTTTTCGGTTTAACTCG
1 AAAAAAATAAGTTTTTCGGTTTAACTCG
*
47343253 AAAAAAGTAAGTTTTTCGGTTTAACTCG
1 AAAAAAATAAGTTTTTCGGTTTAACTCG
47343281 GATACAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (28 bp):
AAAAAAATAAGTTTTTCGGTTTAACTCG
Found at i:47352638 original size:2 final size:2
Alignment explanation
Indices: 47352631--47352657 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47352621 TTGAGAAATA
47352631 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
47352658 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47352662 original size:2 final size:2
Alignment explanation
Indices: 47352657--47352697 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
47352647 ATATATATAT
47352657 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
47352698 ATATTAACAA
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:47354127 original size:18 final size:19
Alignment explanation
Indices: 47354104--47354151 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
47354094 AAATTTTAAA
47354104 TATTTAATAATTA-AATAT
1 TATTTAATAATTATAATAT
*
47354122 TATTTATATAAATATAATAT
1 TATTTA-ATAATTATAATAT
*
47354142 T-TTAAATAAT
1 TATTTAATAAT
47354152 GTTATTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 10 0.40
19 9 0.36
20 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTAATAATTATAATAT
Found at i:47355345 original size:2 final size:2
Alignment explanation
Indices: 47355338--47355397 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
47355328 GGGTTTTGAA
47355338 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
47355380 AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT A
47355398 AGTTAGAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47356283 original size:60 final size:57
Alignment explanation
Indices: 47356121--47356286 Score: 183
Period size: 60 Copynumber: 2.8 Consensus size: 57
47356111 GTATCTAAAT
* *
47356121 TTGATTTTTTTTTCTAATTTGGTACC-AA-CTTTTTTGACTCAATTTGGTATTTGAAC
1 TTGATTTTTTTTTCTAATTT-GTACCTAAGCTTTTTTGACTCAATTTGGCACTTGAAC
* *** *
47356177 TCGACAATTTTTTCTAATTTGATACCTAAGCTTTTTTGGACCCAATTTGGCACTTGAAC
1 TTGATTTTTTTTTCTAATTTG-TACCTAAGCTTTTTT-GACTCAATTTGGCACTTGAAC
* *
47356236 TTGATTTTTTTTTCCTAATTTAGTACCTAAGTTTTTTTAGATTCAATTTGG
1 TTGATTTTTTTTT-CTAATTT-GTACCTAAGCTTTTTT-GACTCAATTTGG
47356287 TACCTAAATT
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
55 1 0.01
56 20 0.22
57 2 0.02
58 7 0.08
59 27 0.30
60 31 0.35
61 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.13, T:0.50
Consensus pattern (57 bp):
TTGATTTTTTTTTCTAATTTGTACCTAAGCTTTTTTGACTCAATTTGGCACTTGAAC
Found at i:47356549 original size:31 final size:30
Alignment explanation
Indices: 47356497--47356580 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 30
47356487 CCCAAAAAGG
*
47356497 TTAAGTACCAATTTAAAAAAAGTGTCAAAT
1 TTAAGTACCAATTAAAAAAAAGTGTCAAAT
* *
47356527 TTAGGTACCAACTTAAAAAAAAGTGTCAAGT
1 TTAAGTACCAA-TTAAAAAAAAGTGTCAAAT
47356558 TTAAGTACCAAATTAAACAAAAA
1 TTAAGTACC-AATTAAA-AAAAA
47356581 AATTAAATAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
30 10 0.21
31 30 0.64
32 7 0.15
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.26
Consensus pattern (30 bp):
TTAAGTACCAATTAAAAAAAAGTGTCAAAT
Found at i:47356613 original size:25 final size:25
Alignment explanation
Indices: 47356563--47356613 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
47356553 CAAGTTTAAG
*
47356563 TACCAAATTAAACAAAAAAATTAAA
1 TACCAAATTAAACAAAAAAATCAAA
*
47356588 TACCAAATTAGAA-AAAACAATCAAA
1 TACCAAATTA-AACAAAAAAATCAAA
47356613 T
1 T
47356614 TTAAGTACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.65, C:0.14, G:0.02, T:0.20
Consensus pattern (25 bp):
TACCAAATTAAACAAAAAAATCAAA
Found at i:47356626 original size:31 final size:30
Alignment explanation
Indices: 47356497--47356626 Score: 108
Period size: 31 Copynumber: 4.4 Consensus size: 30
47356487 CCCAAAAAGG
* **
47356497 TTAAGTACCAATTTAAAAAAAGTGTCAAAT
1 TTAAGTACCAAATTAAAAAAAGAATCAAAT
* * ** *
47356527 TTAGGTACCAACTTAAAAAAAAGTGTCAAGT
1 TTAAGTACCAAATT-AAAAAAAGAATCAAAT
*
47356558 TTAAGTACCAAATT-AAACAA-AA--AAA-
1 TTAAGTACCAAATTAAAAAAAGAATCAAAT
* *
47356583 TTAAATACCAAATTAGAAAAAACAATCAAAT
1 TTAAGTACCAAATTA-AAAAAAGAATCAAAT
47356614 TTAAGTACCAAAT
1 TTAAGTACCAAAT
47356627 ATTATATTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 13
0.76 0.11 0.12
Matches are distributed among these distances:
25 13 0.16
26 2 0.02
27 5 0.06
28 2 0.02
29 5 0.06
30 15 0.19
31 39 0.48
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.25
Consensus pattern (30 bp):
TTAAGTACCAAATTAAAAAAAGAATCAAAT
Found at i:47362071 original size:23 final size:24
Alignment explanation
Indices: 47362032--47362089 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
47362022 CGTCCATCTT
* **
47362032 TGCTAACTAGA-CTTTCTGGAAGC
1 TGCTAACTGGATCTTTCTAAAAGC
47362055 TGCTAACTGGATC-TTCTAAAAGC
1 TGCTAACTGGATCTTTCTAAAAGC
* *
47362078 TACTGACTGGAT
1 TGCTAACTGGAT
47362090 GCCACGTCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
TGCTAACTGGATCTTTCTAAAAGC
Found at i:47362859 original size:9 final size:9
Alignment explanation
Indices: 47362810--47362840 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47362800 TAAGCAACCA
47362810 TTTTTTTTC
1 TTTTTTTTC
*
47362819 TTCTTTTTC
1 TTTTTTTTC
47362828 TTTTTTTTC
1 TTTTTTTTC
47362837 TTTT
1 TTTT
47362841 CGAACCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:47362866 original size:9 final size:10
Alignment explanation
Indices: 47362847--47362871 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47362837 TTTTCGAACC
47362847 TTTTTCTTTT
1 TTTTTCTTTT
47362857 TTTTTCTTTT
1 TTTTTCTTTT
47362867 TTTTT
1 TTTTT
47362872 GCTATTCGAA
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:47362869 original size:37 final size:34
Alignment explanation
Indices: 47362813--47362882 Score: 86
Period size: 37 Copynumber: 2.0 Consensus size: 34
47362803 GCAACCATTT
* *
47362813 TTTTTCTTCTTTTTCTTTTTTTTCTTTTCGAACC
1 TTTTTCTTCTTTTTCTTTTTTTGCTATTCGAACC
*
47362847 TTTTTCTTTTTTTTTCTTTTTTTTTGCTATTCGAAC
1 TTTTTC-TTCTTTTTC--TTTTTTTGCTATTCGAAC
47362883 AACGTACGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 6 0.20
35 8 0.27
37 16 0.53
ACGTcount: A:0.07, C:0.17, G:0.04, T:0.71
Consensus pattern (34 bp):
TTTTTCTTCTTTTTCTTTTTTTGCTATTCGAACC
Found at i:47363579 original size:32 final size:31
Alignment explanation
Indices: 47363543--47363605 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
47363533 CCAATCGAAT
*
47363543 AAGCAATACAAAAATTTGATGCAAATTCTACC
1 AAGCAAGA-AAAAATTTGATGCAAATTCTACC
*
47363575 AAGCAAGATAAAATTTGATGCAAATTCTACC
1 AAGCAAGAAAAAATTTGATGCAAATTCTACC
47363606 CCCTCACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 22 0.76
32 7 0.24
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.25
Consensus pattern (31 bp):
AAGCAAGAAAAAATTTGATGCAAATTCTACC
Found at i:47363870 original size:24 final size:24
Alignment explanation
Indices: 47363851--47363901 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
47363841 TAAAATACCA
47363851 AATATAAAATAAGTGAAAATAAAAT
1 AATAT-AAATAAGTGAAAATAAAAT
* *
47363876 AATATAAATAATTG-AAATAAATT
1 AATATAAATAAGTGAAAATAAAAT
47363899 AAT
1 AAT
47363902 GACGAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.46
24 8 0.33
25 5 0.21
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (24 bp):
AATATAAATAAGTGAAAATAAAAT
Found at i:47372477 original size:30 final size:29
Alignment explanation
Indices: 47372450--47372800 Score: 328
Period size: 30 Copynumber: 11.8 Consensus size: 29
47372440 AAGAAGTTCG
* * * *
47372450 AGGGTCAAAATATGATTTTGGAAAAGTTCA
1 AGGGTTAAAATGTAATTTTGGAAAAGTT-T
** * *
47372480 AAAGTTAAAATGTGA-TTTGGAAATGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTT
* *
47372508 AGGGGTTAAAATATGATTTTGGAAAAGTTT
1 A-GGGTTAAAATGTAATTTTGGAAAAGTTT
*
47372538 AGGGGTTAAAATGTAATTTT-GAAATGTTT
1 A-GGGTTAAAATGTAATTTTGGAAAAGTTT
* *
47372567 AGGGGTTAAAATATAATTATGGAAAAGTTT
1 A-GGGTTAAAATGTAATTTTGGAAAAGTTT
* * *
47372597 AGAGTTAAAATATAATTATGGAAAAGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTT
* *
47372626 AGGGTCAAAATGTAATTATGGAAAAGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTT
* * *
47372655 AGGGGTCAAAAGGTAATGTTGGAAAAGTTT
1 A-GGGTTAAAATGTAATTTTGGAAAAGTTT
* *
47372685 AAGGGTCAAAATGTAATTTTGGAAAATTTT
1 -AGGGTTAAAATGTAATTTTGGAAAAGTTT
* * *
47372715 AAGGGTCAAGATGTAATTTTGGAAAATTTTT
1 -AGGGTTAAAATGTAATTTTGGAAAA-GTTT
* * *
47372746 AGGGGTTAAAATATGATTTTGGAGAAGTTT
1 A-GGGTTAAAATGTAATTTTGGAAAAGTTT
*
47372776 GAAGGTTAAAATGTAATTTTGGAAA
1 -AGGGTTAAAATGTAATTTTGGAAA
47372801 TGACCAATTT
Statistics
Matches: 276, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.00
29 102 0.37
30 148 0.54
31 25 0.09
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (29 bp):
AGGGTTAAAATGTAATTTTGGAAAAGTTT
Found at i:47372527 original size:59 final size:59
Alignment explanation
Indices: 47372451--47372802 Score: 368
Period size: 59 Copynumber: 5.9 Consensus size: 59
47372441 AGAAGTTCGA
* * ** *
47372451 GGGTCAAAATATGATTTTGGAAAAGTTCAAAAGTTAAAATGTGATTTGGAAATGTTTAG
1 GGGTCAAAATATAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTGGAAATGTTTAG
* * * *
47372510 GGGTTAAAATATGATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGAAATGTTTAG
1 GGGTCAAAATATAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTGGAAATGTTTAG
* * * * *
47372569 GGGTTAAAATATAATTATGGAAAAGTTT-AGAGTTAAAATATAATTATGGAAAAGTTTA-
1 GGGTCAAAATATAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATT-TGGAAATGTTTAG
* * * * * * *
47372627 GGGTCAAAATGTAATTATGGAAAAGTTTAGGGGTCAAAAGGTAATGTTGGAAAAGTTTAA
1 GGGTCAAAATATAATTTTGGAAAAGTTTAAGGGTTAAAATGTAAT-TTGGAAATGTTTAG
* * * * *
47372687 GGGTCAAAATGTAATTTTGGAAAATTTTAAGGGTCAAGATGTAATTTTGGAAAATTTTTAG
1 GGGTCAAAATATAATTTTGGAAAAGTTTAAGGGTTAAAATGTAA-TTTGG-AAATGTTTAG
* * *
47372748 GGGTTAAAATATGATTTTGGAGAAGTTTGAA-GGTTAAAATGTAATTTTGGAAATG
1 GGGTCAAAATATAATTTTGGAAAAGTTT-AAGGGTTAAAATGTAA-TTTGGAAATG
47372803 ACCAATTTAA
Statistics
Matches: 249, Mismatches: 37, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
58 40 0.16
59 111 0.45
60 48 0.19
61 48 0.19
62 2 0.01
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (59 bp):
GGGTCAAAATATAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTGGAAATGTTTAG
Found at i:47373396 original size:17 final size:16
Alignment explanation
Indices: 47373365--47373402 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
47373355 AAAAACTTCC
*
47373365 TTTTTTATTTTTTTCA
1 TTTTTCATTTTTTTCA
47373381 TTTTTCATTTTATTTCA
1 TTTTTCATTTT-TTTCA
47373398 TTTTT
1 TTTTT
47373403 AAAACCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCATTTTTTTCA
Found at i:47374856 original size:97 final size:97
Alignment explanation
Indices: 47374739--47374934 Score: 302
Period size: 97 Copynumber: 2.0 Consensus size: 97
47374729 ACTACTGTAG
* * * *
47374739 TTTTAATCCAACTTCGCTGCAACTTCAGGAAGATAGGATTTGACGTCGAAGCTTCACATTGCTCT
1 TTTTAATCAAACTTCACTGCAACTTCAAGAAGATAGAATTTGACGTCGAAGCTTCACATTGCTCT
* *
47374804 TACTGCAACTTCAGATAGATAAAGACTTGCTA
66 TACTGCAACTTCAAAGAGATAAAGACTTGCTA
* * * *
47374836 TTTTAATCAAACTTTACTGCAACTTCAAGAGGATAGAATTTGACGTTGAAGCTTCACCTTGCTCT
1 TTTTAATCAAACTTCACTGCAACTTCAAGAAGATAGAATTTGACGTCGAAGCTTCACATTGCTCT
47374901 TACTGCAACTTCAAAGAGATAAAGACTTGCTA
66 TACTGCAACTTCAAAGAGATAAAGACTTGCTA
47374933 TT
1 TT
47374935 GTAGTTTTGA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (97 bp):
TTTTAATCAAACTTCACTGCAACTTCAAGAAGATAGAATTTGACGTCGAAGCTTCACATTGCTCT
TACTGCAACTTCAAAGAGATAAAGACTTGCTA
Found at i:47375186 original size:98 final size:98
Alignment explanation
Indices: 47375084--47375349 Score: 367
Period size: 98 Copynumber: 2.7 Consensus size: 98
47375074 TCGCCATTGT
*
47375084 GACTTAAATCTTTCCCTTCATATCCTTGTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCC
1 GACTTAAACCTTTCCCTTCATATCCTTGTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCC
* *
47375149 TTCATGCTTTTGAGGTACAAGGTTCGTTGTTGC
66 TTCATGCTTTTAAGGTACAAGGTTCGCTGTTGC
* * *
47375182 GACTTAAACCTTTCTC-TCAATATCCTTGTGGTACTGGATTCGTCGCTGC-AGCTTAAATCTTTC
1 GACTTAAACCTTTCCCTTC-ATATCCTTGTGGTACTGGATTCGCCGTTGCGA-CTTAAATCTTTC
47375245 CCTTCATGCTTTTAAGGTACAAGGTTCGCTGTTGC
64 CCTTCATGCTTTTAAGGTACAAGGTTCGCTGTTGC
* * * * **
47375280 GACTTAAACCTTTCCCTCCATAT-CTTCGTCGTACTAGATTCGCCATTGCGGTTTAAATCTTTCC
1 GACTTAAACCTTTCCCTTCATATCCTT-GTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCC
*
47375344 TTTCAT
65 CTTCAT
47375350 ATCTTCCTGG
Statistics
Matches: 147, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
97 6 0.04
98 140 0.95
99 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (98 bp):
GACTTAAACCTTTCCCTTCATATCCTTGTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCC
TTCATGCTTTTAAGGTACAAGGTTCGCTGTTGC
Found at i:47375329 original size:49 final size:48
Alignment explanation
Indices: 47375044--47375354 Score: 259
Period size: 49 Copynumber: 6.4 Consensus size: 48
47375034 CGGACGTAAC
* * * *
47375044 CTTTCCCTCCATACCTTCGTGGTACTAGATTCGCCATTGTGACTTAAAT
1 CTTTCCCTTCATATCTT-GTGGTACTAGATTCGCCGTTGCGACTTAAAT
*
47375093 CTTTCCCTTCATATCCTTGTGGTACTGGATTCGCCGTTGCGACTTAAAT
1 CTTTCCCTTCATAT-CTTGTGGTACTAGATTCGCCGTTGCGACTTAAAT
* * * * * ** *
47375142 CTTTCCCTTCATGCTTTTGAGGTACAAGGTTCGTTGTTGCGACTTAAAC
1 CTTTCCCTTCAT-ATCTTGTGGTACTAGATTCGCCGTTGCGACTTAAAT
* * * *
47375191 CTTTCTC-TCAATATCCTTGTGGTACTGGATTCGTCGCTGC-AGCTTAAAT
1 CTTTCCCTTC-ATAT-CTTGTGGTACTAGATTCGCCGTTGCGA-CTTAAAT
* * * * * *
47375240 CTTTCCCTTCAT-GCTTTTAAGGTACAAGGTTCGCTGTTGCGACTTAAAC
1 CTTTCCCTTCATATCTTGT--GGTACTAGATTCGCCGTTGCGACTTAAAT
* * * **
47375289 CTTTCCCTCCATATCTTCGTCGTACTAGATTCGCCATTGCGGTTTAAAT
1 CTTTCCCTTCATATCTT-GTGGTACTAGATTCGCCGTTGCGACTTAAAT
*
47375338 CTTTCCTTTCATATCTT
1 CTTTCCCTTCATATCTT
47375355 CCTGGTTATG
Statistics
Matches: 204, Mismatches: 47, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
47 4 0.02
48 4 0.02
49 185 0.91
50 10 0.05
51 1 0.00
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.39
Consensus pattern (48 bp):
CTTTCCCTTCATATCTTGTGGTACTAGATTCGCCGTTGCGACTTAAAT
Found at i:47380431 original size:29 final size:29
Alignment explanation
Indices: 47380394--47380507 Score: 201
Period size: 29 Copynumber: 3.9 Consensus size: 29
47380384 TTGTCATGCC
47380394 ATTTCATAGAAAATGCAAAGGATCATAAT
1 ATTTCATAGAAAATGCAAAGGATCATAAT
* *
47380423 ATTTTATAGAAAATGCAAAGGACCATAAT
1 ATTTCATAGAAAATGCAAAGGATCATAAT
47380452 ATTTCATAGAAAATGCAAAGGATCATAAT
1 ATTTCATAGAAAATGCAAAGGATCATAAT
*
47380481 ATTTCATAGAAAATGAAAAGGATCATA
1 ATTTCATAGAAAATGCAAAGGATCATA
47380508 TATCAATTTA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (29 bp):
ATTTCATAGAAAATGCAAAGGATCATAAT
Found at i:47381398 original size:30 final size:30
Alignment explanation
Indices: 47381371--47381704 Score: 207
Period size: 30 Copynumber: 11.1 Consensus size: 30
47381361 GAAATTTTAA
47381371 AAAAGTTCGAGGGTCAAAATATGATTTTGG
1 AAAAGTTCGAGGGTCAAAATATGATTTTGG
* * *
47381401 AAAA-TCTCAAGGGTTAAAATGTGATTTTGG
1 AAAAGT-TCGAGGGTCAAAATATGATTTTGG
* * * * *
47381431 AAATGTTTAGGGGGGTGAAAATATGACTTTGG
1 AAAAG-TT-CGAGGGTCAAAATATGATTTTGG
** *
47381463 AAAAGTTTAAGGGTCAAAATATAATTTTGG
1 AAAAGTTCGAGGGTCAAAATATGATTTTGG
* * * *
47381493 AAAAAATTAG-GGGTCAAAATGTAATTTTGG
1 -AAAAGTTCGAGGGTCAAAATATGATTTTGG
* * *
47381523 AAAAGTTTG-GGGATCAAAATGTAATTTTGG
1 AAAAGTTCGAGGG-TCAAAATATGATTTTGG
* * * *
47381553 AAAAGTAT-GAGGGTTAAAATGTAATTTTTG
1 AAAAGT-TCGAGGGTCAAAATATGATTTTGG
* * *
47381583 AAAAGTT-TAGGGGT-AAAATGTAATTTTGG
1 AAAAGTTCGA-GGGTCAAAATATGATTTTGG
* * * *
47381612 AAAAGTT-TAAGGTCAAAATGTAATTTTGG
1 AAAAGTTCGAGGGTCAAAATATGATTTTGG
* * * * *
47381641 AAAAGTT-TAGGGGTTAAAATGTAATTTTAG
1 AAAAGTTCGA-GGGTCAAAATATGATTTTGG
* * *
47381671 AAAAGTTTGGGGGTTAAAATATGATTTTGG
1 AAAAGTTCGAGGGTCAAAATATGATTTTGG
47381701 AAAA
1 AAAA
47381705 TTTTAGGCTT
Statistics
Matches: 256, Mismatches: 36, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.01
29 60 0.23
30 158 0.62
31 13 0.05
32 22 0.09
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (30 bp):
AAAAGTTCGAGGGTCAAAATATGATTTTGG
Found at i:47381428 original size:60 final size:58
Alignment explanation
Indices: 47381356--47381731 Score: 290
Period size: 60 Copynumber: 6.3 Consensus size: 58
47381346 ACTCGAGGTG
* * *
47381356 AAAATGAAATTTTAAAAAAGTTCGAGGGTCAAAATATGATTTTGGAAAA-TCTCAAGGGTT
1 AAAATGTAATTTTAGAAAAGTT-GAGGGTCAAAATATAATTTTGGAAAAGT-T-AAGGGTT
* * * * * * * *
47381416 AAAATGTGATTTTGGAAATGTTTAGGGGGGTGAAAATATGACTTTGGAAAAGTTTAAGGGTC
1 AAAATGTAATTTTAGAAAAG-TT--GAGGGTCAAAATATAATTTTGGAAAAG-TTAAGGGTT
* * * * ** *
47381478 AAAATATAATTTTGGAAAAAATT-AGGGGTCAAAATGTAATTTTGGAAAAGTTTGGGGATC
1 AAAATGTAATTTTAG-AAAAGTTGA-GGGTCAAAATATAATTTTGGAAAAGTTAAGGG-TT
* * * * * *
47381538 AAAATGTAATTTTGGAAAAGTATGAGGGTTAAAATGTAATTTTTGAAAAGTTTAGGGGT
1 AAAATGTAATTTTAGAAAAGT-TGAGGGTCAAAATATAATTTTGGAAAAGTTAAGGGTT
* * * * *
47381597 AAAATGTAATTTTGGAAAAGTTTAAGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTAGAAAAGTTGAGGGTCAAAATATAATTTTGGAAAAG-TTAAGGGTT
* * * * * *
47381656 AAAATGTAATTTTAGAAAAGTTTGGGGGTTAAAATATGATTTTGGAAAATTTTAGGCTT
1 AAAATGTAATTTTAGAAAAG-TTGAGGGTCAAAATATAATTTTGGAAAAGTTAAGGGTT
*
47381715 -AAATGTAATTTTTGAAA
1 AAAATGTAATTTTAGAAA
47381732 TTTTAGAGAC
Statistics
Matches: 258, Mismatches: 47, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
58 40 0.16
59 62 0.24
60 104 0.40
61 3 0.01
62 44 0.17
63 4 0.02
64 1 0.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (58 bp):
AAAATGTAATTTTAGAAAAGTTGAGGGTCAAAATATAATTTTGGAAAAGTTAAGGGTT
Found at i:47381604 original size:29 final size:29
Alignment explanation
Indices: 47381410--47381731 Score: 326
Period size: 30 Copynumber: 10.8 Consensus size: 29
47381400 GAAAATCTCA
* * *
47381410 AGGGTTAAAATGTGATTTTGGAAATGTTT
1 AGGGGTAAAATGTAATTTTGGAAAAGTTT
* * *
47381439 AGGGGGGTGAAAATATGACTTTGGAAAAGTTT
1 A--GGGGT-AAAATGTAATTTTGGAAAAGTTT
* * **
47381471 AAGGGTCAAAATATAATTTTGGAAAAAATT
1 AGGGGT-AAAATGTAATTTTGGAAAAGTTT
47381501 AGGGGTCAAAATGTAATTTTGGAAAAGTTT
1 AGGGGT-AAAATGTAATTTTGGAAAAGTTT
*
47381531 -GGGGATCAAAATGTAATTTTGGAAAAGTATG
1 AGGGG-T-AAAATGTAATTTTGGAAAAGT-TT
* *
47381562 AGGGTTAAAATGTAATTTTTGAAAAGTTT
1 AGGGGTAAAATGTAATTTTGGAAAAGTTT
47381591 AGGGGTAAAATGTAATTTTGGAAAAGTTT
1 AGGGGTAAAATGTAATTTTGGAAAAGTTT
*
47381620 A-AGGTCAAAATGTAATTTTGGAAAAGTTT
1 AGGGGT-AAAATGTAATTTTGGAAAAGTTT
*
47381649 AGGGGTTAAAATGTAATTTTAGAAAAGTTT
1 AGGGG-TAAAATGTAATTTTGGAAAAGTTT
* * * *
47381679 GGGGGTTAAAATATGATTTTGGAAAATTTT
1 AGGGG-TAAAATGTAATTTTGGAAAAGTTT
* * *
47381709 A-GGCTTAAATGTAATTTTTGAAA
1 AGGGGTAAAATGTAATTTTGGAAA
47381732 TTTTAGAGAC
Statistics
Matches: 250, Mismatches: 34, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
28 18 0.07
29 60 0.24
30 141 0.56
31 7 0.03
32 24 0.10
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (29 bp):
AGGGGTAAAATGTAATTTTGGAAAAGTTT
Found at i:47382395 original size:10 final size:9
Alignment explanation
Indices: 47382370--47382402 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
47382360 AAAAACTTCC
47382370 TTTTTTT-A
1 TTTTTTTCA
47382378 TTTTTTTCA
1 TTTTTTTCA
47382387 TTTTATTTCA
1 TTTT-TTTCA
47382397 TTTTTT
1 TTTTTT
47382403 AAAACCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 7 0.30
10 9 0.39
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:47394355 original size:10 final size:10
Alignment explanation
Indices: 47394340--47394389 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
47394330 GTTTTAATAT
47394340 AAATTTATCA
1 AAATTTATCA
47394350 AAATTTATACA
1 AAATTTAT-CA
47394361 ACCTAATTTATC-
1 A---AATTTATCA
47394373 -AATTTATCA
1 AAATTTATCA
47394382 AAATTTAT
1 AAATTTAT
47394390 TTAATATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
8 8 0.24
10 15 0.44
11 3 0.09
13 1 0.03
14 7 0.21
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (10 bp):
AAATTTATCA
Found at i:47397541 original size:13 final size:13
Alignment explanation
Indices: 47397523--47397559 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
47397513 TAATAATATA
47397523 TTATTTTAAATTT
1 TTATTTTAAATTT
47397536 TTATTTTAAA-TT
1 TTATTTTAAATTT
*
47397548 TTATTTTTAATT
1 TTATTTTAAATT
47397560 AATAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTTTAAATTT
Found at i:47397678 original size:14 final size:14
Alignment explanation
Indices: 47397619--47397678 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 14
47397609 TTTTAGTAAA
47397619 TATAATTTTTATATT
1 TATAATTTTTATA-T
* *
47397634 TGTAATATTTATAT
1 TATAATTTTTATAT
47397648 TATAATATTTATGATAT
1 TATAAT-TTT-T-ATAT
*
47397665 TCTAATTTTTATAT
1 TATAATTTTTATAT
47397679 GAAAAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.27
15 14 0.38
16 4 0.11
17 9 0.24
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (14 bp):
TATAATTTTTATAT
Found at i:47397678 original size:23 final size:22
Alignment explanation
Indices: 47397621--47397678 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
47397611 TTAGTAAATA
*
47397621 TAATTTTTATATTTGTAATATT
1 TAATTTTTATATTTATAATATT
* * *
47397643 TATATTATAATATTTATGATATT
1 TA-ATTTTTATATTTATAATATT
47397666 CTAATTTTTATAT
1 -TAATTTTTATAT
47397679 GAAAAATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 2 0.07
23 24 0.86
24 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (22 bp):
TAATTTTTATATTTATAATATT
Found at i:47398020 original size:37 final size:32
Alignment explanation
Indices: 47397965--47398031 Score: 80
Period size: 37 Copynumber: 1.9 Consensus size: 32
47397955 AATAAAAGAG
*
47397965 TTATTAATTAAAATAAAATTGAAACTAATATAT
1 TTATTAATTAAAATAAAATTAAAAC-AATATAT
47397998 TTATTAATTAAAAATAAAAAAATTAAAACAATAT
1 TTATTAATT-AAAAT---AAAATTAAAACAATAT
47398032 GAAATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 9 0.31
34 5 0.17
36 5 0.17
37 10 0.34
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (32 bp):
TTATTAATTAAAATAAAATTAAAACAATATAT
Found at i:47402019 original size:20 final size:20
Alignment explanation
Indices: 47401978--47402017 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
47401968 GACCTTACTC
**
47401978 ATTAATTTTCTTATTGATAA
1 ATTAATTTTAATATTGATAA
47401998 ATTAATTTTAATATT-ATAA
1 ATTAATTTTAATATTGATAA
47402017 A
1 A
47402018 ATATGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTAATTTTAATATTGATAA
Found at i:47402535 original size:22 final size:20
Alignment explanation
Indices: 47402510--47402549 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47402500 ATATGCATTA
47402510 TAAAACAAAGTACATATTTTAT
1 TAAAA-AAA-TACATATTTTAT
*
47402532 TAAAAAAATAGATATTTT
1 TAAAAAAATACATATTTT
47402550 TCTTAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 3 0.18
22 5 0.29
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAAAATACATATTTTAT
Found at i:47415609 original size:18 final size:18
Alignment explanation
Indices: 47415586--47415634 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
47415576 AAAACATCAT
47415586 TGTTCAATAGGGAG-CTAC
1 TGTTCAA-AGGGAGACTAC
*
47415604 TGTTC-AGGGGAGACTAC
1 TGTTCAAAGGGAGACTAC
*
47415621 TGTTCAAAAGGAGA
1 TGTTCAAAGGGAGA
47415635 TTGTTGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 10 0.38
18 11 0.42
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (18 bp):
TGTTCAAAGGGAGACTAC
Found at i:47415622 original size:17 final size:16
Alignment explanation
Indices: 47415595--47415626 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
47415585 TTGTTCAATA
47415595 GGGAGCTACTGTTCAG
1 GGGAGCTACTGTTCAG
47415611 GGGAGACTACTGTTCA
1 GGGAG-CTACTGTTCA
47415627 AAAGGAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (16 bp):
GGGAGCTACTGTTCAG
Found at i:47418631 original size:73 final size:73
Alignment explanation
Indices: 47418511--47418688 Score: 193
Period size: 74 Copynumber: 2.4 Consensus size: 73
47418501 GCACGCGCCT
* * * *
47418511 GTGTGTCCAGGCCGTGTAACTCACAGGTTT-TGATTCCCCAAGTCAGTATA-CCAACACGATCT-
1 GTGTGTCCAGACCGTGTAACTCAC-TGTTTCTGACTCCCCAAG-CAGTACACCCAACACGATCTA
47418573 GACACATGCCC
64 G-CACATGCCC
*
47418584 GTGTGTCCAGACCGTGTAACTCACTGTTTCTGACTCCATCCAA-CAGTACACCCTACACGATCTA
1 GTGTGTCCAGACCGTGTAACTCACTGTTTCTGACTCC--CCAAGCAGTACACCCAACACGATCTA
47418648 GCACATGCCC
64 GCACATGCCC
* * * * *
47418658 ATGTATCCAAACCGTGTAACTTAATGTTTCT
1 GTGTGTCCAGACCGTGTAACTCACTGTTTCT
47418689 AAACTTTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
72 4 0.04
73 35 0.39
74 46 0.51
75 5 0.06
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (73 bp):
GTGTGTCCAGACCGTGTAACTCACTGTTTCTGACTCCCCAAGCAGTACACCCAACACGATCTAGC
ACATGCCC
Found at i:47435633 original size:18 final size:18
Alignment explanation
Indices: 47435610--47435645 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47435600 AAAATATTTC
*
47435610 TTATAAAAATTCAAAATT
1 TTATAAAAATTAAAAATT
47435628 TTATAAAAATTAAAAATT
1 TTATAAAAATTAAAAATT
47435646 AAAAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TTATAAAAATTAAAAATT
Found at i:47435641 original size:25 final size:25
Alignment explanation
Indices: 47435613--47435662 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
47435603 ATATTTCTTA
* *
47435613 TAAAAATTCAAAATTTTATAAAAAT
1 TAAAAATTAAAAATTATATAAAAAT
47435638 TAAAAATTAAAAATTATATAAAAAT
1 TAAAAATTAAAAATTATATAAAAAT
47435663 CTATAGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAAAATTAAAAATTATATAAAAAT
Found at i:47437035 original size:18 final size:19
Alignment explanation
Indices: 47436975--47437102 Score: 97
Period size: 20 Copynumber: 6.7 Consensus size: 19
47436965 TCTCTCAACA
47436975 AAAATTTCAAAATAATTT-T
1 AAAATTTCAAAAT-ATTTAT
*
47436994 CAAAATTTCAAAATCATTTTT
1 -AAAATTTCAAAAT-ATTTAT
47437015 AAAA-TTCAAAATATTTAT
1 AAAATTTCAAAATATTTAT
47437033 AAAAATTTC-AAA-ATTTAT
1 -AAAATTTCAAAATATTTAT
* * *
47437051 --ATTTTCAAAAAAATTAT
1 AAAATTTCAAAATATTTAT
* * *
47437068 AAAATTCTAAAAATATATAA
1 AAAATT-TCAAAATATTTAT
47437088 AAAATTTCTAAAATA
1 AAAATTTC-AAAATA
47437103 ATAATTTTAG
Statistics
Matches: 88, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
15 5 0.06
16 3 0.03
17 5 0.06
18 11 0.12
19 19 0.22
20 44 0.50
21 1 0.01
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTTCAAAATATTTAT
Found at i:47437081 original size:35 final size:35
Alignment explanation
Indices: 47437019--47437086 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
47437009 ATTTTTAAAA
* * * *
47437019 TTCAAAATATTTATAAAAATTTCAAAATTTATATT
1 TTCAAAAAAATTATAAAAATTTAAAAATATATATT
47437054 TTCAAAAAAATTAT-AAAATTCTAAAAATATATA
1 TTCAAAAAAATTATAAAAATT-TAAAAATATATA
47437087 AAAAATTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 6 0.21
35 22 0.79
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (35 bp):
TTCAAAAAAATTATAAAAATTTAAAAATATATATT
Found at i:47437101 original size:20 final size:19
Alignment explanation
Indices: 47437068--47437106 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
47437058 AAAAAATTAT
47437068 AAAATTCTAAAAATATATAA
1 AAAATTCTAAAAATA-ATAA
47437088 AAAATTTCT-AAAATAATAA
1 AAAA-TTCTAAAAATAATAA
47437107 TTTTAGGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATTCTAAAAATAATAA
Found at i:47438514 original size:2 final size:2
Alignment explanation
Indices: 47438507--47438536 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47438497 AGAATGTAAT
47438507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47438537 AAATATTGTT
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):
TA
Found at i:47442293 original size:10 final size:11
Alignment explanation
Indices: 47442232--47442295 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
47442222 AAATTTAATG
47442232 ATAAATAAATAA
1 ATAAATAAA-AA
*
47442244 ATAAACAAACAA
1 ATAAATAAA-AA
47442256 GAT-AAT-AAAA
1 -ATAAATAAAAA
*
47442266 ATAAATACAAA
1 ATAAATAAAAA
*
47442277 TTAAATAAAAA
1 ATAAATAAAAA
47442288 AT-AATAAA
1 ATAAATAAA
47442296 GAGATAACAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
9 2 0.05
10 11 0.26
11 15 0.36
12 12 0.29
13 2 0.05
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:47442354 original size:15 final size:15
Alignment explanation
Indices: 47442318--47442364 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
47442308 AAATGACATG
47442318 AAAATAAAT-AACAA
1 AAAATAAATAAACAA
*
47442332 CAAGATAAATAAACAA
1 -AAAATAAATAAACAA
* *
47442348 AAAATAACTAAATAA
1 AAAATAAATAAACAA
47442363 AA
1 AA
47442365 TTAAAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAATAAATAAACAA
Found at i:47447821 original size:23 final size:22
Alignment explanation
Indices: 47447791--47447837 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
47447781 AAAATTCAAT
47447791 AAAAAATA-AATACATAAATATTA
1 AAAAAATATAATA-ATAAAT-TTA
47447814 AAAAAATATAATAATAAATTTA
1 AAAAAATATAATAATAAATTTA
47447836 AA
1 AA
47447838 TATTATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.22
23 14 0.61
24 4 0.17
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAAAATATAATAATAAATTTA
Found at i:47447852 original size:18 final size:18
Alignment explanation
Indices: 47447817--47447867 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
47447807 AATATTAAAA
* *
47447817 AAATATAATAATAAATTT
1 AAATATTATATTAAATTT
*
47447835 AAATATTATATTATATTT
1 AAATATTATATTAAATTT
*
47447853 ATAT-TTATATTAAAT
1 AAATATTATATTAAAT
47447868 AAAATATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 10 0.36
18 18 0.64
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATATTATATTAAATTT
Found at i:47449155 original size:21 final size:21
Alignment explanation
Indices: 47449131--47449173 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
47449121 CTCCCCCCAA
47449131 TCTCTCTTCTTCT-ACTTTCTT
1 TCTCTCTTCTTCTCA-TTTCTT
*
47449152 TCTCTCTTTTTCTCATTTCTT
1 TCTCTCTTCTTCTCATTTCTT
47449173 T
1 T
47449174 TGTGTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (21 bp):
TCTCTCTTCTTCTCATTTCTT
Found at i:47450449 original size:234 final size:234
Alignment explanation
Indices: 47450036--47450503 Score: 866
Period size: 234 Copynumber: 2.0 Consensus size: 234
47450026 CTTAAATATT
*
47450036 ATTTTGATATAGAATTATTCTGGTGGCTTAATAATTTCCTCAAGCGTTATCTTTTCCCTTGTCTT
1 ATTTTGATATAGAATTATTCTGGTGGCTTAATAATTTCCTCAAACGTTATCTTTTCCCTTGTCTT
47450101 TTATTATTGTTATGGTTATTTTTAGTTAGTATGTCAACATCCGGGATATATAATATATTAATAAA
66 TTATTATTGTTATGGTTATTTTTAGTTAGTATGTCAACATCCGGGATATATAATATATTAATAAA
*
47450166 TTTATTATAAATTTGGATCATAATGCTTAAAATTACTCGTAATCCCTCTCTAA-TCCATAAATAG
131 TTTATTATAAATTTGGATCATAATGCTTAAAATTACTCGTAACCCCTCTCTAACT-CATAAATAG
*
47450230 GAGGATAATATATTTTAATTAGACTTATTCATGAGTCGGG
195 GAGGATAATATATTTTAATTAGACTTACTCATGAGTCGGG
*
47450270 ATTTTGATATATAATTATTCTGGTGGCTTAATAATTTCCTCAAACGTTATCTTTTCCCTTGTCTT
1 ATTTTGATATAGAATTATTCTGGTGGCTTAATAATTTCCTCAAACGTTATCTTTTCCCTTGTCTT
47450335 TTATTATTGTTATGGTTATTTTTAGTTAGTATGTCAACATCCGGGATATATAATATATTAATAAA
66 TTATTATTGTTATGGTTATTTTTAGTTAGTATGTCAACATCCGGGATATATAATATATTAATAAA
47450400 TTTATTATAAATTTGGATCATAATGCTTAAAATTACTCGTAACCCCTCTCTAACTCATAAATAGG
131 TTTATTATAAATTTGGATCATAATGCTTAAAATTACTCGTAACCCCTCTCTAACTCATAAATAGG
* *
47450465 AGGATAATGTATTTTAATTAGACTTACTCATGGGTCGGG
196 AGGATAATATATTTTAATTAGACTTACTCATGAGTCGGG
47450504 CTACATGTCT
Statistics
Matches: 227, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
234 226 1.00
235 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (234 bp):
ATTTTGATATAGAATTATTCTGGTGGCTTAATAATTTCCTCAAACGTTATCTTTTCCCTTGTCTT
TTATTATTGTTATGGTTATTTTTAGTTAGTATGTCAACATCCGGGATATATAATATATTAATAAA
TTTATTATAAATTTGGATCATAATGCTTAAAATTACTCGTAACCCCTCTCTAACTCATAAATAGG
AGGATAATATATTTTAATTAGACTTACTCATGAGTCGGG
Found at i:47450687 original size:10 final size:10
Alignment explanation
Indices: 47450672--47450696 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47450662 CCGTTTTAAG
47450672 TTTATAATAT
1 TTTATAATAT
47450682 TTTATAATAT
1 TTTATAATAT
47450692 TTTAT
1 TTTAT
47450697 TTTTATATAT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:47450864 original size:16 final size:17
Alignment explanation
Indices: 47450830--47450866 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
47450820 ATAAAATTAT
47450830 TAAATATTAAAATAAAA
1 TAAATATTAAAATAAAA
*
47450847 TAAATATTTAAA-AAAA
1 TAAATATTAAAATAAAA
47450863 TAAA
1 TAAA
47450867 AAAATATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAATATTAAAATAAAA
Found at i:47459855 original size:29 final size:29
Alignment explanation
Indices: 47459823--47460081 Score: 80
Period size: 29 Copynumber: 8.8 Consensus size: 29
47459813 GGATACTCGA
47459823 GGGTAAAATGGTAATTTTGGAAAAGTTCG
1 GGGTAAAATGGTAATTTTGGAAAAGTTCG
* * *
47459852 GGGTCAAAAAT-GAAATTTT-TAGATA-TTCG
1 GGGT--AAAATGGTAATTTTGGA-AAAGTTCG
* * **
47459881 GGGTAAAATGGTAA-ATT-AAAAAAATCG
1 GGGTAAAATGGTAATTTTGGAAAAGTTCG
** * *
47459908 GGGTCAAAAATAATATTTTTGG--AAGTTTAG
1 GGGT--AAAATGGTAATTTTGGAAAAG-TTCG
* * *
47459938 GAGTAAAATGATAATTTTTGGAGAAA-TT-A
1 GGGTAAAATGGTAA-TTTTGGA-AAAGTTCG
*
47459967 GGGTAAAAAATGG-AATTTTGG-AAAGTTTGG
1 GGGT--AAAATGGTAATTTTGGAAAAG-TTCG
*
47459997 GGGTAAAATAGTAATTTTTGGAATAA-TT-G
1 GGGTAAAATGGTAA-TTTTGGAA-AAGTTCG
* *
47460026 GGGTCAAAAATGG-AATTTTTTG-AAAGTTTGG
1 GGGT--AAAATGGTAA-TTTTGGAAAAG-TTCG
*
47460057 GGGTAAAATTGTAATTTTTGGAAAA
1 GGGTAAAATGGTAA-TTTTGGAAAA
47460082 AGAGTTAAAA
Statistics
Matches: 172, Mismatches: 28, Indels: 58
0.67 0.11 0.22
Matches are distributed among these distances:
26 2 0.01
27 18 0.10
28 19 0.11
29 53 0.31
30 50 0.29
31 26 0.15
32 4 0.02
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.33
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTGGAAAAGTTCG
Found at i:47459985 original size:59 final size:58
Alignment explanation
Indices: 47459922--47460194 Score: 265
Period size: 59 Copynumber: 4.7 Consensus size: 58
47459912 CAAAAATAAT
* *
47459922 ATTTTTGGAAGTTTAGGAGTAAAATGATAATTTTTGGAGAAATTAGGGTAAAAAATGGA
1 ATTTTTGGAAGTTTAGGGGTAAAATGATAATTTTTGGA-AAATTAGGGTTAAAAATGGA
* * *
47459981 A-TTTTGGAAAGTTTGGGGGTAAAAT-AGTAATTTTTGGAATAATTGGGGTCAAAAATGGA
1 ATTTTTGG-AAGTTTAGGGGTAAAATGA-TAATTTTTGGAA-AATTAGGGTTAAAAATGGA
* * *
47460040 ATTTTTTGAAAGTTTGGGGGTAAAATTG-TAATTTTTGGAAAA--AGAGTTAAAAATGGA
1 A-TTTTTGGAAGTTTAGGGGTAAAA-TGATAATTTTTGGAAAATTAGGGTTAAAAATGGA
* * *** *
47460097 ATTTTTGGAAGTTTAAGGGTAAAAATG-CAATTTTCAAAAAATTTAGGGTTAAAAATTGA
1 ATTTTTGGAAGTTTAGGGGT-AAAATGATAATTTTTGGAAAA-TTAGGGTTAAAAATGGA
47460156 A-TTTTGGAAAGTTTAAGGGGTAAAACT-ATAATTTTTGGA
1 ATTTTTGG-AAGTTT-AGGGGTAAAA-TGATAATTTTTGGA
47460195 GAGTTTAGGG
Statistics
Matches: 177, Mismatches: 22, Indels: 29
0.78 0.10 0.13
Matches are distributed among these distances:
56 28 0.16
57 17 0.10
58 14 0.08
59 71 0.40
60 41 0.23
61 6 0.03
ACGTcount: A:0.39, C:0.01, G:0.24, T:0.36
Consensus pattern (58 bp):
ATTTTTGGAAGTTTAGGGGTAAAATGATAATTTTTGGAAAATTAGGGTTAAAAATGGA
Found at i:47460128 original size:29 final size:28
Alignment explanation
Indices: 47459922--47460204 Score: 141
Period size: 29 Copynumber: 9.6 Consensus size: 28
47459912 CAAAAATAAT
47459922 ATTTTTGGAAGTTTAGGAGT-AAAATGATA
1 ATTTTTGGAAGTTTAGG-GTAAAAATG-TA
** *
47459951 ATTTTTGGAGAAATTAGGGTAAAAAATGGA
1 ATTTTTGGA-AGTTTAGGGT-AAAAATGTA
*
47459981 A-TTTTGGAAAGTTTGGGGGT-AAAATAGTA
1 ATTTTTGG-AAGTTT-AGGGTAAAAAT-GTA
* *
47460010 ATTTTTGGAA-TAATTGGGGTCAAAAATGGA
1 ATTTTTGGAAGT--TTAGGGT-AAAAATGTA
* * *
47460040 ATTTTTTGAAAGTTTGGGGGTAAAATTGTA
1 A-TTTTTGGAAGTTT-AGGGTAAAAATGTA
** * *
47460070 ATTTTTGGAA--AAAGAGTTAAAAATGGA
1 ATTTTTGGAAGTTTAG-GGTAAAAATGTA
*
47460097 ATTTTTGGAAGTTTAAGGGTAAAAATGCA
1 ATTTTTGGAAGTTT-AGGGTAAAAATGTA
*** *
47460126 ATTTTCAAAAAATTTAGGGTTAAAAAT-TGA
1 ATTTT-TGGAAGTTTAGGG-TAAAAATGT-A
* *
47460156 A-TTTTGGAAAGTTTAAGGGGTAAAACTATA
1 ATTTTTGG-AAGTTT-A-GGGTAAAAATGTA
47460186 ATTTTTGGAGAGTTTAGGG
1 ATTTTTGGA-AGTTTAGGG
47460205 ACCTTTAGGG
Statistics
Matches: 195, Mismatches: 32, Indels: 54
0.69 0.11 0.19
Matches are distributed among these distances:
26 1 0.01
27 19 0.10
28 6 0.03
29 68 0.35
30 61 0.31
31 39 0.20
32 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.25, T:0.35
Consensus pattern (28 bp):
ATTTTTGGAAGTTTAGGGTAAAAATGTA
Found at i:47460180 original size:30 final size:30
Alignment explanation
Indices: 47459922--47460204 Score: 187
Period size: 30 Copynumber: 9.6 Consensus size: 30
47459912 CAAAAATAAT
* *
47459922 ATTTTTGG-AAGTTTAGGAGT-AAAATGATA
1 ATTTTTGGAAAGTTTAGGGGTAAAAATG-GA
*
47459951 ATTTTTGGAGAA-ATTA-GGGTAAAAAATGGA
1 ATTTTTGGA-AAGTTTAGGGGT-AAAAATGGA
* *
47459981 A-TTTTGGAAAGTTTGGGGGT-AAAATAGTA
1 ATTTTTGGAAAGTTTAGGGGTAAAAAT-GGA
*
47460010 ATTTTTGGAATA-ATT-GGGGTCAAAAATGGA
1 ATTTTTGGAA-AGTTTAGGGGT-AAAAATGGA
* * * *
47460040 ATTTTTTGAAAGTTTGGGGGTAAAATTGTA
1 ATTTTTGGAAAGTTTAGGGGTAAAAATGGA
* * *
47460070 ATTTTTGGAAA---AAGAGTTAAAAATGGA
1 ATTTTTGGAAAGTTTAGGGGTAAAAATGGA
* *
47460097 ATTTTTGG-AAGTTTAAGGGTAAAAATGCA
1 ATTTTTGGAAAGTTTAGGGGTAAAAATGGA
*** * * *
47460126 ATTTTCAAAAAATTTAGGGTTAAAAATTGA
1 ATTTTTGGAAAGTTTAGGGGTAAAAATGGA
* **
47460156 A-TTTTGGAAAGTTTAAGGGGTAAAACTATA
1 ATTTTTGGAAAGTTT-AGGGGTAAAAATGGA
*
47460186 ATTTTTGGAGAGTTTAGGG
1 ATTTTTGGAAAGTTTAGGG
47460205 ACCTTTAGGG
Statistics
Matches: 194, Mismatches: 41, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
26 2 0.01
27 18 0.09
28 7 0.04
29 54 0.28
30 82 0.42
31 31 0.16
ACGTcount: A:0.38, C:0.01, G:0.25, T:0.35
Consensus pattern (30 bp):
ATTTTTGGAAAGTTTAGGGGTAAAAATGGA
Found at i:47462039 original size:6 final size:6
Alignment explanation
Indices: 47462013--47462099 Score: 74
Period size: 6 Copynumber: 15.0 Consensus size: 6
47462003 ATTTATTTAT
* ** *
47462013 TTTAAA TTTATAA --TAAT TTTAAA TTTAAA AATAAA TTTAAA CTTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
47462060 -TGAAA TTTAAA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
47462100 ACAAATTTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
4 1 0.02
5 10 0.16
6 51 0.80
7 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:47462048 original size:29 final size:27
Alignment explanation
Indices: 47462015--47462109 Score: 75
Period size: 29 Copynumber: 3.3 Consensus size: 27
47462005 TTATTTATTT
47462015 TAAATTTATAATAATTTTAAATTTAAAAA
1 TAAATTTA-AATAA-TTTAAATTTAAAAA
* * **
47462044 TAAATTTAAACTTAAATGAAATTTAAATT
1 TAAATTTAAA--TAATTTAAATTTAAAAA
*
47462073 TAAATTTAAAATAAATCTAAATTT-AAAA
1 TAAATTT-AAAT-AATTTAAATTTAAAAA
*
47462101 CAAATTTAA
1 TAAATTTAA
47462110 CCTTAAAATA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
27 2 0.04
28 11 0.21
29 33 0.63
30 6 0.12
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (27 bp):
TAAATTTAAATAATTTAAATTTAAAAA
Found at i:47462072 original size:23 final size:23
Alignment explanation
Indices: 47462044--47462099 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
47462034 AATTTAAAAA
*
47462044 TAAATTTAAACTT-AAATGAAATT
1 TAAATTTAAACTTAAAAT-AAATC
*
47462067 TAAATTTAAATTTAAAATAAATC
1 TAAATTTAAACTTAAAATAAATC
47462090 TAAATTTAAA
1 TAAATTTAAA
47462100 ACAAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAATTTAAACTTAAAATAAATC
Found at i:47462087 original size:17 final size:17
Alignment explanation
Indices: 47462013--47462125 Score: 100
Period size: 17 Copynumber: 6.2 Consensus size: 17
47462003 ATTTATTTAT
* *
47462013 TTTAAATTTATAATAAT
1 TTTAAATTTAAAATAAA
47462030 TTTAAATTTAAAAATAAA
1 TTTAAATTT-AAAATAAA
*
47462048 TTTAAACTTAAATGAAATTTAAA
1 TTTAAA-TT---T-AAA-ATAAA
47462071 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
47462088 TCTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
**
47462105 TTTAACCTTAAAATAAA
1 TTTAAATTTAAAATAAA
47462122 TTTA
1 TTTA
47462126 GAAAGAGCCC
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
17 45 0.57
18 15 0.19
19 3 0.04
22 6 0.08
23 10 0.13
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:47466280 original size:381 final size:376
Alignment explanation
Indices: 47465582--47466330 Score: 1031
Period size: 381 Copynumber: 2.0 Consensus size: 376
47465572 CAAACCATTA
* ** *
47465582 CTGCAAATGCTCTTCAAATTTGGTAATTCTTGCAATTCCAACTTTCTCAATTTGGGAAGATATAA
1 CTGCAAATGCTCTTCAAATTTGGTAATTCCTGCAATTCCAACACTCTCAAATTGGGAAGATATAA
* * * **
47465647 TTGATGCATCACTCCCTTTTTCTTCACCTTCTGATGTTGGTGCTCCCAATATTTCTACTAGCTCA
66 TTGATGCATCACTACATTTTTCTTCAACACCTGATGTTGGTGCTCCCAATATTTCTACTAGCTCA
* * **
47465712 TCTCATTCTGACACCCAAATTACTTCCAGGTTTAGGAGGTATGGAAGCAACCAATGTGGAAGCAA
131 TCACAATCACACACCCAAATTACTTCCAGGTTTAGGAGGTATGGAAGCAACCAATGTGGAAGCAA
* * *
47465777 TGTCTTCACACTTGAGCATCTCGATATAGTAATTTCCTTAAGATGGGAAAAGGTGGCAGATGGAG
196 CGTCTTCACACTTGAGCATCTCCATATAGTAATTTCCTTAAGATGGGAAAAGGTGGCAGACGGAG
* *
47465842 CCAATATTGATGTTGTTGCTAAACCAATTCCTTCATCTTTGATAATAAGGGCACTCAACTTTGGC
261 CCAAAATTGATGTTGTTGCTAAACCAATTCCTTCATCTTAGATAATAAGGGCACTCAACTTTGGC
* * *
47465907 AGAGC-CCGAAGATCCAACATCTCGAGGCTCTGAAATGGATGAGCCAAAAAG
326 AAAGCTCC-AAGATACAACATCTCAAGGCTCTGAAATGGATGAGCCAAAAAG
47465958 CTGCAAACTG-TCTTCAAATTTGGTAATTCCTGCAATTCCAACACTCTCAAATTGGGAAGATGGA
1 CTGCAAA-TGCTCTTCAAATTTGGTAATTCCTGCAATTCCAACACTCTCAAATTGGGAAGAT--A
47466022 -AATTGGTTAATGCATCACTACATTTTTCTTCAACACCTGATGTTGGTGCTCCCAATATTTCTAC
63 TAATT-G---ATGCATCACTACATTTTTCTTCAACACCTGATGTTGGTGCTCCCAATATTTCTAC
** * ** ** * *
47466086 TAGCTCATCACAATCACACACTGATATTTGTTCCAGGTTTTTGAGGTTTGGAAGCAGCCAATGTG
124 TAGCTCATCACAATCACACACCCAAATTACTTCCAGGTTTAGGAGGTATGGAAGCAACCAATGTG
* * *
47466151 GGAGCAACGTCTTCATACTTGCA-CATCTCCATATA-TGAATTTCCTTAAGATTGGAAAAGGTGG
189 GAAGCAACGTCTTCACACTTG-AGCATCTCCATATAGT-AATTTCCTTAAGATGGGAAAAGGTGG
* *
47466214 CAGACGGAGGCAAAATTGATGTTGTTGCTGAACCAATTCCTTCATCTTAGATAATAAGGGCACTC
252 CAGACGGAGCCAAAATTGATGTTGTTGCTAAACCAATTCCTTCATCTTAGATAATAAGGGCACTC
* * *
47466279 AACTTTGGCAAAGCTTCAAGATACAACTTCTCAAGGCTCTTAAATGGATGAG
317 AACTTTGGCAAAGCTCCAAGATACAACATCTCAAGGCTCTGAAATGGATGAG
47466331 TGGAAGAAGA
Statistics
Matches: 325, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
376 54 0.17
377 6 0.02
378 2 0.01
380 1 0.00
381 260 0.80
382 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (376 bp):
CTGCAAATGCTCTTCAAATTTGGTAATTCCTGCAATTCCAACACTCTCAAATTGGGAAGATATAA
TTGATGCATCACTACATTTTTCTTCAACACCTGATGTTGGTGCTCCCAATATTTCTACTAGCTCA
TCACAATCACACACCCAAATTACTTCCAGGTTTAGGAGGTATGGAAGCAACCAATGTGGAAGCAA
CGTCTTCACACTTGAGCATCTCCATATAGTAATTTCCTTAAGATGGGAAAAGGTGGCAGACGGAG
CCAAAATTGATGTTGTTGCTAAACCAATTCCTTCATCTTAGATAATAAGGGCACTCAACTTTGGC
AAAGCTCCAAGATACAACATCTCAAGGCTCTGAAATGGATGAGCCAAAAAG
Found at i:47473602 original size:25 final size:25
Alignment explanation
Indices: 47473549--47473595 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
47473539 GTTGGATCCA
47473549 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
*
47473574 AATTAAA-TCTAAACA-ATAATTT
1 AATTAAATTCTAAAAAGATAATTT
47473596 CCTAATTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:47474126 original size:56 final size:56
Alignment explanation
Indices: 47474022--47474130 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 56
47474012 CCTGAAATAG
* * ** *
47474022 CAAAACAGTATATTCACACGGCCTGGCACATGACTGTGTGCTCGGCCCGTGTGACA
1 CAAAACAGTATACTCACACGGCCTGACACATGACCATGTGCTCAGCCCGTGTGACA
* * *
47474078 CAAAATAGTATACTCACACGGTCTGACACATGCCCATGTGC-CTAGCCCGTGTG
1 CAAAACAGTATACTCACACGGCCTGACACATGACCATGTGCTC-AGCCCGTGTG
47474131 TCCCTTATAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
55 1 0.02
56 43 0.98
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (56 bp):
CAAAACAGTATACTCACACGGCCTGACACATGACCATGTGCTCAGCCCGTGTGACA
Found at i:47474205 original size:28 final size:26
Alignment explanation
Indices: 47474150--47474199 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
47474140 CGCTATTTCC
* * *
47474150 CAAAAGAGTATGCACACATGGTGTCA
1 CAAAACAGTATGCACACACGGTCTCA
47474176 CAAAACAGTATGCACACACGGTCT
1 CAAAACAGTATGCACACACGGTCT
47474200 AGCACACGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
CAAAACAGTATGCACACACGGTCTCA
Found at i:47478631 original size:21 final size:22
Alignment explanation
Indices: 47478598--47478640 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
47478588 ATAGAAATCG
*
47478598 GATATGAGTGTTAC-ATTTAGT
1 GATATGAGAGTTACGATTTAGT
*
47478619 GATATTAGAGTTACGATTTAGT
1 GATATGAGAGTTACGATTTAGT
47478641 CGATTCTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (22 bp):
GATATGAGAGTTACGATTTAGT
Found at i:47483993 original size:29 final size:29
Alignment explanation
Indices: 47483956--47484021 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
47483946 GATTATTTCA
*
47483956 TGAAACTTAAACACTTTGAGCGCTTTGAG
1 TGAATCTTAAACACTTTGAGCGCTTTGAG
* *
47483985 TGAATCTTAAACTCTTTGAGCTCTTTGAG
1 TGAATCTTAAACACTTTGAGCGCTTTGAG
47484014 TGAATCTT
1 TGAATCTT
47484022 TAATGAGGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (29 bp):
TGAATCTTAAACACTTTGAGCGCTTTGAG
Found at i:47485879 original size:42 final size:42
Alignment explanation
Indices: 47485817--47485959 Score: 148
Period size: 43 Copynumber: 3.4 Consensus size: 42
47485807 GAGAAACGCC
*
47485817 GCTAAAGAACATGGTGTTTAGCTGCGCTTTCCTCACAAATGCA
1 GCTAAAGAACATGGTCTTTAGCTGCGCTTTCC-CACAAATGCA
* * * *
47485860 GCTAAA-AACATTGTCTTTAG-TGACGTTTTCGCCACAAACGCT
1 GCTAAAGAACATGGTCTTTAGCTG-CGCTTTC-CCACAAATGCA
* * *
47485902 GCTAAACAACATGGTCTTTAGCGGCCCTTTCCCCACAAATGCCA
1 GCTAAAGAACATGGTCTTTAGCTGCGCTTT-CCCACAAATG-CA
47485946 -CTAAAGAACATGGT
1 GCTAAAGAACATGGT
47485960 TGTAACACCC
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 32 0.39
43 45 0.55
44 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (42 bp):
GCTAAAGAACATGGTCTTTAGCTGCGCTTTCCCACAAATGCA
Found at i:47487135 original size:36 final size:36
Alignment explanation
Indices: 47487095--47487230 Score: 209
Period size: 36 Copynumber: 3.8 Consensus size: 36
47487085 CGATATTTGA
* * *
47487095 TTTACTCCTTGCTGACACAAAGGTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
47487131 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
*
47487167 TTTACTCCATGTTGACCCAAAGGTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
* * *
47487203 CTTAGTCCCTATTGACCCAAAGGTCATG
1 TTTACTCCCTGTTGACCCAAAGGTCATG
47487231 CCTGTTACCA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 92 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (36 bp):
TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
Found at i:47489611 original size:41 final size:41
Alignment explanation
Indices: 47489526--47489949 Score: 295
Period size: 41 Copynumber: 10.3 Consensus size: 41
47489516 CTATTGCTTA
* * ** * * *
47489526 ACCTTTAGCGGCGTTTTTCACATAAATGCCGCTATTACTTTG
1 ACCTTTAGCGGCG-CTTTCCCATAAGCGCCGCTAATGCTCTG
* *
47489568 ACCTTTAACGGCGCTTTCCCATAAGCGCTGCTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTAATGCTCTG
* ***
47489609 ACCTTTAGCGGTG-TTT-ATGTGGAAGCGCCGCTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCCCAT--AAGCGCCGCTAATGCTCTG
* * ** *** *
47489650 ACTTTTAGCAGCATTTATGTGA-AAGCGCTGCTAATGCTCTG
1 ACCTTTAGCGGCGCTT-TCCCATAAGCGCCGCTAATGCTCTG
* * ***
47489691 ACCTTTAACGAC-CTTT-ATGTGAAAGCGCCGCTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCCCAT--AAGCGCCGCTAATGCTCTG
* * * * *
47489732 ACCTTTAGTGGCGTTTTCCCACAAGCACCGCTAATGCTTTG
1 ACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTAATGCTCTG
*
47489773 ACCTTTAGCGGTGCTTTCCCATAAGCGCCGCTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTAATGCTCTG
* * * * * *
47489814 ACCTATAGCGGTGCTTTCCTATGAGCGTCGCTAATGCTTTG
1 ACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTAATGCTCTG
* * ** * * *
47489855 ACCTTTAGCTGCGC-TTCCTCAAAAATGCCGCTAAAGGTCAG
1 ACCTTTAGCGGCGCTTTCC-CATAAGCGCCGCTAATGCTCTG
* *
47489896 AGCATTAGCGGCG-TTGTCCCATAAGCGCCGCTAATGCTCTG
1 ACCTTTAGCGGCGCTT-TCCCATAAGCGCCGCTAATGCTCTG
*
47489937 ACCTTTAGTGGCG
1 ACCTTTAGCGGCG
47489950 TTTTTTCTAT
Statistics
Matches: 291, Mismatches: 78, Indels: 27
0.73 0.20 0.07
Matches are distributed among these distances:
39 2 0.01
40 9 0.03
41 259 0.89
42 20 0.07
43 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.31
Consensus pattern (41 bp):
ACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTAATGCTCTG
Found at i:47491248 original size:41 final size:41
Alignment explanation
Indices: 47491191--47491371 Score: 263
Period size: 41 Copynumber: 4.4 Consensus size: 41
47491181 TTATGCTCTA
* * * * *
47491191 TCGAGTCATAAGTCTTCTTTAACCATATTCTCATTCTCATC
1 TCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCATC
*
47491232 TCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCATT
1 TCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCATC
* **
47491273 TCGAGACAGGAGTCTTCCTTGTTCATAATCTCATTCTCATC
1 TCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCATC
* *
47491314 TCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCATT
1 TCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCATC
47491355 TCGAGACATGAGTCTTC
1 TCGAGACATGAGTCTTC
47491372 TATTTATACA
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (41 bp):
TCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCATC
Found at i:47493775 original size:41 final size:41
Alignment explanation
Indices: 47493710--47493881 Score: 254
Period size: 41 Copynumber: 4.2 Consensus size: 41
47493700 TCGAGTTATA
* * * * *
47493710 AGTCTTCCTTAACCATATTATCATTCTTATCCCGAGACATG
1 AGTCTTCCTTAATCATAATCTCATTCTCATCTCGAGACATG
* *
47493751 AGTCTTCCTTAATCATAATCTCATTCTCATTTTGAGACATG
1 AGTCTTCCTTAATCATAATCTCATTCTCATCTCGAGACATG
*
47493792 AGTCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATG
1 AGTCTTCCTTAATCATAATCTCATTCTCATCTCGAGACATG
* *
47493833 AGTCTTCCTTATTCATAATCTCATTCTCATTTCGAGACATG
1 AGTCTTCCTTAATCATAATCTCATTCTCATCTCGAGACATG
47493874 AGTCTTCC
1 AGTCTTCC
47493882 ATTTATACAA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 120 1.00
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.40
Consensus pattern (41 bp):
AGTCTTCCTTAATCATAATCTCATTCTCATCTCGAGACATG
Found at i:47493849 original size:82 final size:82
Alignment explanation
Indices: 47493710--47493926 Score: 274
Period size: 82 Copynumber: 2.6 Consensus size: 82
47493700 TCGAGTTATA
* *
47493710 AGTCTTCCTTAACCATATTATCATTCTTATCCCGAGACATGAGTCTTCCTTAATCATAATCTCAT
1 AGTCTTCCTTAACCATAATATCATTCTCATCCCGAGACATGAGTCTTCCTTAATCATAATCTCAT
*
47493775 TCTCATTTTGAGACATG
66 TCTCATTTCGAGACATG
** * * *
47493792 AGTCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATGAGTCTTCCTTATTCATAATCTCAT
1 AGTCTTCCTTAACCATAATATCATTCTCATCCCGAGACATGAGTCTTCCTTAATCATAATCTCAT
47493857 TCTCATTTCGAGACATG
66 TCTCATTTCGAGACATG
* * * * * *
47493874 AGTCTTCCATTTATACAAT-TTTTCATGCTCAACCCGAGACAAGAGTCTTCCTT
1 AGTCTTCC--TTA-ACCATAATATCATTCTCATCCCGAGACATGAGTCTTCCTT
47493927 TTTATACACC
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
82 82 0.71
84 31 0.27
85 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (82 bp):
AGTCTTCCTTAACCATAATATCATTCTCATCCCGAGACATGAGTCTTCCTTAATCATAATCTCAT
TCTCATTTCGAGACATG
Found at i:47504691 original size:2 final size:2
Alignment explanation
Indices: 47504686--47504710 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47504676 CACACATGTG
47504686 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 T
47504711 GAGCATGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47510553 original size:23 final size:23
Alignment explanation
Indices: 47510524--47510580 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
47510514 CGTCCATCCT
* *
47510524 TGCTGACTGGACCTTTTGGAAGC
1 TGCTGACTGGACCTTCTAGAAGC
*
47510547 TGTTGACTGGACCTTCTAGAAGC
1 TGCTGACTGGACCTTCTAGAAGC
47510570 TGCTGACTGGA
1 TGCTGACTGGA
47510581 TGCCACGTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (23 bp):
TGCTGACTGGACCTTCTAGAAGC
Found at i:47516632 original size:23 final size:23
Alignment explanation
Indices: 47516604--47516660 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
47516594 CGTCCATCCT
* *
47516604 TGCTGACTGGACCTTTTAGAAGC
1 TGCTGACTGGACCTTCTAGAAAC
47516627 TGCTGACTGGACCTTCTAGAAAC
1 TGCTGACTGGACCTTCTAGAAAC
*
47516650 TGCTGATTGGA
1 TGCTGACTGGA
47516661 TGCCATGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
TGCTGACTGGACCTTCTAGAAAC
Found at i:47521485 original size:20 final size:20
Alignment explanation
Indices: 47521444--47521486 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
47521434 TTAAAAATCA
*
47521444 AAATTTAATTCATAATACATT
1 AAATTTAA-TCATAATAAATT
47521465 AAATTTAA-CATAAATAAATT
1 AAATTTAATCAT-AATAAATT
47521485 AA
1 AA
47521487 TAGTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 9 0.45
21 8 0.40
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATTTAATCATAATAAATT
Found at i:47523237 original size:32 final size:31
Alignment explanation
Indices: 47523166--47523237 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
47523156 ATTCTATTTT
* *
47523166 GAGTT-AATTTGACCCTCAACATTTAAAAAA
1 GAGTTAAATTTAACCATCAACATTTAAAAAA
* * *
47523196 AAGTCAAATTTAACCATCAACCTTTAGAAAAA
1 GAGTTAAATTTAACCATCAACATTTA-AAAAA
47523228 GAGTTAAATT
1 GAGTTAAATT
47523238 GATTTGTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
30 3 0.09
31 17 0.52
32 13 0.39
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (31 bp):
GAGTTAAATTTAACCATCAACATTTAAAAAA
Found at i:47534340 original size:12 final size:12
Alignment explanation
Indices: 47534323--47534347 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47534313 TGTTTATTTC
47534323 TTTATTATAAGT
1 TTTATTATAAGT
47534335 TTTATTATAAGT
1 TTTATTATAAGT
47534347 T
1 T
47534348 GTTCTAATTC
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:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTTATTATAAGT
Found at i:47535342 original size:17 final size:17
Alignment explanation
Indices: 47535320--47535358 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
47535310 CTCCACCTTG
*
47535320 ACAAGAATTCTCT-ACGA
1 ACAAGAACTCT-TAACGA
47535337 ACAAGAACTCTTAACGA
1 ACAAGAACTCTTAACGA
47535354 ACAAG
1 ACAAG
47535359 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (17 bp):
ACAAGAACTCTTAACGA
Found at i:47544239 original size:28 final size:29
Alignment explanation
Indices: 47544182--47544243 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
47544172 GTCAATAAAT
* *
47544182 AAAAAAATAGAATAAAATGATTAAACTTA
1 AAAAAAATAAAATAAAAGGATTAAACTTA
*
47544211 AAAAAAATAAAAT-AAAGGACTT-AATTTA
1 AAAAAAATAAAATAAAAGGA-TTAAACTTA
47544239 AAAAA
1 AAAAA
47544244 GAAAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (29 bp):
AAAAAAATAAAATAAAAGGATTAAACTTA
Found at i:47546574 original size:52 final size:52
Alignment explanation
Indices: 47546470--47546656 Score: 189
Period size: 52 Copynumber: 3.6 Consensus size: 52
47546460 TGCATATTCG
* * * * ** *
47546470 ATACTCACGATGACACAGAGTCATCGGACCT-TTAATCCGTATTGAGAATCAT
1 ATACTCACGATGACACATAGTAATCGGACCTCATAATCCATAAAG-GATTCAT
** **
47546522 ATACTCATTATGACACATAGTTAAT-GGTTCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAG-TAATCGGACCTCATAATCCATAAAGGATTCAT
* * *
47546574 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAGGGATTCAT
1 ATACTCACGATGACACATAGTAATCGGACCTCATAATCCATAAAGGATTCAT
* * *
47546626 ATACTCACGATGACACAGAGTCATCAGACCT
1 ATACTCACGATGACACATAGTAATCGGACCT
47546657 ATTTCATTCA
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
51 3 0.03
52 97 0.87
53 12 0.11
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTAATCGGACCTCATAATCCATAAAGGATTCAT
Found at i:47548530 original size:47 final size:47
Alignment explanation
Indices: 47548376--47548934 Score: 437
Period size: 47 Copynumber: 11.9 Consensus size: 47
47548366 TGATTTGGTA
* * * *
47548376 GCTTCAATCTGCCCCTCTAGATTTAAAGGTCTAAGACTTGATGTGATG
1 GCTTCAATCTACCCCTCTAGATTT-GAGGTATAAGACTGGATGTGATG
* * * *
47548424 GCTTAAATGTACCCCTCTGGATTTG-GGATATAAGA-TAGATGTGATG
1 GCTTCAATCTACCCCTCTAGATTTGAGG-TATAAGACTGGATGTGATG
* * * * * *
47548470 ACTTCAATTTACCCTTCTGGATTTGAGGTATAATACTGGATGTGGTG
1 GCTTCAATCTACCCCTCTAGATTTGAGGTATAAGACTGGATGTGATG
* * ** *
47548517 GCTTCAATCTACCCCTTTAGATATTG-GGTATAATACTATATATGATG
1 GCTTCAATCTACCCCTCTAGAT-TTGAGGTATAAGACTGGATGTGATG
* *
47548564 GCTTTAATCTACCCCTCTGGATTTG-GAGTATAAGACTGGATGTGATG
1 GCTTCAATCTACCCCTCTAGATTTGAG-GTATAAGACTGGATGTGATG
* * *
47548611 ACTTCAATCTACCCCTCTAAATTTGAGGTATAAGATTGGATGTGATG
1 GCTTCAATCTACCCCTCTAGATTTGAGGTATAAGACTGGATGTGATG
* * * * * *
47548658 ACTTCAATTTGCCTCTCTAGATTTGGGGTATAAGACTGGATATGATG
1 GCTTCAATCTACCCCTCTAGATTTGAGGTATAAGACTGGATGTGATG
* * * * ** *
47548705 GCTTTAATCTGCCTCTCTAAATTTGAGGTATAAGACTAAATGTGATA
1 GCTTCAATCTACCCCTCTAGATTTGAGGTATAAGACTGGATGTGATG
* * ** * * * * ** **
47548752 GCTTTAATTTGTCTCTCTAAATTTGGGGTATAAGATTTAATAAGATG
1 GCTTCAATCTACCCCTCTAGATTTGAGGTATAAGACTGGATGTGATG
* * * * * * *
47548799 GCTTCAATTTGCCCTTTTGGATTTGAGGTATAAGACTAGATGCGATG
1 GCTTCAATCTACCCCTCTAGATTTGAGGTATAAGACTGGATGTGATG
* * * * *
47548846 GCTTCAATCTGCCCCTTTAGATTTG-GCGTATAAAATTTGATGTGATG
1 GCTTCAATCTACCCCTCTAGATTTGAG-GTATAAGACTGGATGTGATG
* * * *
47548893 GTTTCAAACTGCCCCTAT-GAATTTGAGGTATAAGACTGGATG
1 GCTTCAATCTACCCCTCTAG-ATTTGAGGTATAAGACTGGATG
47548935 GACGTTTCAA
Statistics
Matches: 417, Mismatches: 85, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
46 45 0.11
47 347 0.83
48 25 0.06
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (47 bp):
GCTTCAATCTACCCCTCTAGATTTGAGGTATAAGACTGGATGTGATG
Found at i:47548976 original size:42 final size:41
Alignment explanation
Indices: 47548919--47549105 Score: 176
Period size: 42 Copynumber: 4.5 Consensus size: 41
47548909 ATGAATTTGA
* * * *
47548919 GGTATAAGACTGGATGGACGTTTCAATCTGCCCGCTAGTTGG
1 GGTAAAAGATTGGATGGA-GTTTCAATCTACCCACTAGTTGG
* * * * ** *
47548961 GGTAAAAAATTGGATGGTAGCTTCAATTTTCCCTTTAGATGG
1 GGTAAAAGATTGGATGG-AGTTTCAATCTACCCACTAGTTGG
* * * *
47549003 GGTAAAAGATTTGATGGTGATTTCAATCTACCTACTGGTTGG
1 GGTAAAAGATTGGATGGAG-TTTCAATCTACCCACTAGTTGG
* * *
47549045 GGTAAAAGATTGGATAGAGGTTTCAATCTACCCATTGGTTGG
1 GGTAAAAGATTGGATGGA-GTTTCAATCTACCCACTAGTTGG
47549087 GGTAAAAGATTGGATGGAG
1 GGTAAAAGATTGGATGGAG
47549106 ATATAACTTC
Statistics
Matches: 116, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.02
42 112 0.97
43 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.32
Consensus pattern (41 bp):
GGTAAAAGATTGGATGGAGTTTCAATCTACCCACTAGTTGG
Found at i:47549019 original size:84 final size:85
Alignment explanation
Indices: 47548919--47549104 Score: 198
Period size: 84 Copynumber: 2.2 Consensus size: 85
47548909 ATGAATTTGA
* * * * *
47548919 GGTATAAGACTGGATGGACG-TTTCAATCTGCCCGCTAGTTGGGGTAAAAAATTGGATGGTA-GC
1 GGTAAAAGATTGGATGGACGATTTCAATCTACCCACTAGTTGGGGTAAAAAATTGGATAG-AGGC
* * *
47548982 TTCAATTTTCCCTTTAGATGG
65 TTCAATCTACCCATTAGATGG
* * * * * *
47549003 GGTAAAAGATTTGATGG-TGATTTCAATCTACCTACTGGTTGGGGTAAAAGATTGGATAGAGGTT
1 GGTAAAAGATTGGATGGACGATTTCAATCTACCCACTAGTTGGGGTAAAAAATTGGATAGAGGCT
* *
47549067 TCAATCTACCCATTGGTTGG
66 TCAATCTACCCATTAGATGG
47549087 GGTAAAAGATTGGATGGA
1 GGTAAAAGATTGGATGGA
47549105 GATATAACTT
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
83 2 0.02
84 80 0.98
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (85 bp):
GGTAAAAGATTGGATGGACGATTTCAATCTACCCACTAGTTGGGGTAAAAAATTGGATAGAGGCT
TCAATCTACCCATTAGATGG
Found at i:47550279 original size:9 final size:9
Alignment explanation
Indices: 47550267--47550291 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
47550257 TTCTCTTTTC
47550267 TTTTTCTCT
1 TTTTTCTCT
47550276 TTTTTCTCT
1 TTTTTCTCT
47550285 TTTTTCT
1 TTTTTCT
47550292 TTTGGGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:47550827 original size:15 final size:15
Alignment explanation
Indices: 47550809--47550841 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47550799 CATATCGACT
47550809 TTTTTCTTCTTTTTC
1 TTTTTCTTCTTTTTC
*
47550824 TTTTTCTTTTTTTTC
1 TTTTTCTTCTTTTTC
47550839 TTT
1 TTT
47550842 CTTTGGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTCTTCTTTTTC
Found at i:47556651 original size:27 final size:27
Alignment explanation
Indices: 47556602--47556843 Score: 170
Period size: 27 Copynumber: 8.8 Consensus size: 27
47556592 TTGTAAAGCA
*
47556602 AGGGAAAAAGCTGTAAAATTTGAAAAAT
1 AGGGAAAAA-CTATAAAATTTGAAAAAT
* * * * *
47556630 ATGGCAAAATTGTAAAATTTGAAAAAC
1 AGGGAAAAACTATAAAATTTGAAAAAT
* *
47556657 AAGGAAAAACTATAAAATCT-AAAAATGT
1 AGGGAAAAACTATAAAATTTGAAAAA--T
* * * * * *
47556685 GGGGCAAAATTGTAAAATCT-AAATAACA
1 AGGGAAAAACTATAAAATTTGAAA-AA-T
*
47556713 AGGGAAAAACTATAAAATCTGAATAAA-
1 AGGGAAAAACTATAAAATTTGAA-AAAT
*
47556740 ATGGGTAAAACTATAAAAATTTGAAAAAT
1 A-GGGAAAAACTAT-AAAATTTGAAAAAT
* * * *
47556769 AGGGGAAAATTATAAAATGTGATAAAT
1 AGGGAAAAACTATAAAATTTGAAAAAT
*
47556796 AGGGTAAAACTATAAAATTTG-AAAAT
1 AGGGAAAAACTATAAAATTTGAAAAAT
47556822 AGAGGAAAAAC-AGTAAAATTTG
1 AG-GGAAAAACTA-TAAAATTTG
47556844 GAAACCAATG
Statistics
Matches: 172, Mismatches: 32, Indels: 21
0.76 0.14 0.09
Matches are distributed among these distances:
26 12 0.07
27 78 0.45
28 65 0.38
29 16 0.09
30 1 0.01
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.23
Consensus pattern (27 bp):
AGGGAAAAACTATAAAATTTGAAAAAT
Found at i:47556696 original size:55 final size:56
Alignment explanation
Indices: 47556574--47556820 Score: 238
Period size: 56 Copynumber: 4.4 Consensus size: 56
47556564 CATAAAATTT
* * * * *
47556574 TGGGCCAAATTGTAAAATTTGTAAAGCAAGGGAAAAAGCTGTAAAATTTGAAAAATA
1 TGGGCAAAATTGTAAAATTTGAAAAACAAGGGAAAAA-CTATAAAATCTGAAAAATA
*
47556631 T-GGCAAAATTGTAAAATTTGAAAAACAA-GGAAAAACTATAAAATCT-AAAAATG
1 TGGGCAAAATTGTAAAATTTGAAAAACAAGGGAAAAACTATAAAATCTGAAAAATA
*
47556684 TGGGGCAAAATTGTAAAATCT-AAATAACAAGGGAAAAACTATAAAATCTGAATAAA-A
1 T-GGGCAAAATTGTAAAATTTGAAA-AACAAGGGAAAAACTATAAAATCTGAA-AAATA
* * * * * * * *
47556741 TGGGTAAAACTATAAAAATTTGAAAAA-TAGGGGAAAATTATAAAATGTGATAAATA
1 TGGGCAAAATTGT-AAAATTTGAAAAACAAGGGAAAAACTATAAAATCTGAAAAATA
* * *
47556797 -GGGTAAAACTATAAAATTTGAAAA
1 TGGGCAAAATTGTAAAATTTGAAAA
47556821 TAGAGGAAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 21
0.81 0.08 0.10
Matches are distributed among these distances:
53 7 0.04
54 24 0.15
55 44 0.27
56 71 0.43
57 12 0.07
58 6 0.04
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.24
Consensus pattern (56 bp):
TGGGCAAAATTGTAAAATTTGAAAAACAAGGGAAAAACTATAAAATCTGAAAAATA
Found at i:47556721 original size:28 final size:27
Alignment explanation
Indices: 47556642--47556757 Score: 92
Period size: 28 Copynumber: 4.2 Consensus size: 27
47556632 GGCAAAATTG
*
47556642 TAAAATTTGAAAAACAA-GGAAAAACTA
1 TAAAATCT-AAAAACAAGGGAAAAACTA
*** * * *
47556669 TAAAATCTAAAAATGTGGGGCAAAATTG
1 TAAAATCTAAAAA-CAAGGGAAAAACTA
47556697 TAAAATCTAAATAACAAGGGAAAAACTA
1 TAAAATCTAAA-AACAAGGGAAAAACTA
* *
47556725 TAAAATCTGAATAAA-ATGGGTAAAACTA
1 TAAAATCT-AA-AAACAAGGGAAAAACTA
47556753 TAAAA
1 TAAAA
47556758 ATTTGAAAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
26 5 0.07
27 7 0.10
28 50 0.72
29 6 0.09
30 1 0.01
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.22
Consensus pattern (27 bp):
TAAAATCTAAAAACAAGGGAAAAACTA
Found at i:47563054 original size:24 final size:24
Alignment explanation
Indices: 47563022--47563078 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
47563012 AATCTTTTAG
47563022 TTAAACTCTGTTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
* *
47563046 TTAAACTCTGTTTATTTGTTTGAG
1 TTAAACTCTGTTTATTTGTTTCAA
47563070 TTAAACTCT
1 TTAAACTCT
47563079 TATTACTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.53
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTTCAA
Found at i:47565044 original size:24 final size:24
Alignment explanation
Indices: 47564982--47565032 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
47564972 AGAAATAATC
* * *
47564982 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTATTTAATTG
47565006 TTTCAATTAAACTCTATTTAATTG
1 TTTCAATTAAACTCTATTTAATTG
47565030 TTT
1 TTT
47565033 GATTCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTAATTG
Found at i:47565783 original size:28 final size:28
Alignment explanation
Indices: 47565739--47565795 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
47565729 TTACTTCCAG
47565739 TTATTTTGACCTCTCAAAATTTTATAAT
1 TTATTTTGACCTCTCAAAATTTTATAAT
*
47565767 TTATTTTGACCTGTCAAAATTTTATAAT
1 TTATTTTGACCTCTCAAAATTTTATAAT
47565795 T
1 T
47565796 CAAGGATGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (28 bp):
TTATTTTGACCTCTCAAAATTTTATAAT
Found at i:47566835 original size:20 final size:20
Alignment explanation
Indices: 47566810--47566856 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
47566800 CAACTGCTTG
47566810 CTGATGCCGCTCGATGATGC
1 CTGATGCCGCTCGATGATGC
** * *
47566830 CTGATGTTGCTCGATGCTGG
1 CTGATGCCGCTCGATGATGC
47566850 CTGATGC
1 CTGATGC
47566857 AGTTGGCTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.13, C:0.26, G:0.32, T:0.30
Consensus pattern (20 bp):
CTGATGCCGCTCGATGATGC
Found at i:47566995 original size:19 final size:19
Alignment explanation
Indices: 47566971--47567009 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
47566961 CATAAGCAAG
47566971 AGGTTTAGTCAAAATATCT
1 AGGTTTAGTCAAAATATCT
47566990 AGGTTTAGTCAAAATATCT
1 AGGTTTAGTCAAAATATCT
47567009 A
1 A
47567010 CAAATTGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
AGGTTTAGTCAAAATATCT
Found at i:47580308 original size:209 final size:208
Alignment explanation
Indices: 47579948--47580496 Score: 777
Period size: 209 Copynumber: 2.6 Consensus size: 208
47579938 GCTAACCATT
* *
47579948 AGGAAGCTAACCATTTTATTGGTT-AGACCTGCTTCTCAATATCTCATTAGGAAGCTGGGGGTTC
1 AGGAAGCTAACCATTTTATTGCTTCA-ACCTGCTTCTCAATATCTCATCAGGAAG-TGGGGGTTC
* *
47580012 AAAGATTTGCTCACTTTGAGCCTGGCTTCATTGATTTGGTCTCTTCTCAGTATCTCATCAGGAAG
64 GAAGATTTGCTCACTTTGAGCCTGGCTTCATTGA-CTGGTCTCTTCTCAGTATCTCATCAGGAAG
* * * *
47580077 ATGA-TCGCATCACTTGTTTCAATCCGCTTCTCGGTGTCTCATCAGGAAGACGGATTTGGTCTAC
128 ATGACTCGCATCACTTGTTTCAATCCGCTTCTCGGTATCTCATCAGGAAGACGAATTTAGTCAAC
47580141 TTCTCAATATCTCATC
193 TTCTCAATATCTCATC
* * *
47580157 AGGAAGCCAACCATTTTATTGCTTCAACCTGCTTCTCAGTATCTCATCAAGAAGATGGGGGTTCG
1 AGGAAGCTAACCATTTTATTGCTTCAACCTGCTTCTCAATATCTCATCAGGAAG-TGGGGGTTCG
*
47580222 AAGATTTGCTCACTTTGAGTCTGGCTTCATTGAGCTGGTCTCTTCTCAGTATCTCATCAGGAAGA
65 AAGATTTGCTCACTTTGAGCCTGGCTTCATTGA-CTGGTCTCTTCTCAGTATCTCATCAGGAAGA
* *
47580287 TGACT-GCATCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTAGTCAACT
129 TGACTCGCATCACTTGTTTCAATCCGCTTCTCGGTATCTCATCAGGAAGACGAATTTAGTCAACT
*
47580351 TCTCAGTATCTCATC
194 TCTCAATATCTCATC
* * * *
47580366 AGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAATATCTCATCAGGAAGTTGAGGTTCGA
1 AGGAAGCTAACCATTTTATTGCTTCAACCTGCTTCTCAATATCTCATCAGGAAGTGGGGGTTCGA
* * * * *
47580431 AGATTTACTCACTTTGAGCCTAGGTTTGATT--C-GGTCTACTTCTTAGTATCTCATTAGGAAGA
66 AGATTTGCTCACTTTGAGCCT-GGCTTCATTGACTGGTCT-CTTCTCAGTATCTCATCAGGAAGA
47580493 TGAC
129 TGAC
47580497 CGCCTCGTTT
Statistics
Matches: 306, Mismatches: 30, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
205 5 0.02
206 27 0.09
208 28 0.09
209 244 0.80
210 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (208 bp):
AGGAAGCTAACCATTTTATTGCTTCAACCTGCTTCTCAATATCTCATCAGGAAGTGGGGGTTCGA
AGATTTGCTCACTTTGAGCCTGGCTTCATTGACTGGTCTCTTCTCAGTATCTCATCAGGAAGATG
ACTCGCATCACTTGTTTCAATCCGCTTCTCGGTATCTCATCAGGAAGACGAATTTAGTCAACTTC
TCAATATCTCATC
Found at i:47580618 original size:39 final size:39
Alignment explanation
Indices: 47580575--47580670 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 39
47580565 TACCCTATGG
*
47580575 TCGGGGTAAAAGATCGAATGACT-GCAATCTGCCCCAAGC
1 TCGGGGTAAGAGATCGAATGA-TGGCAATCTGCCCCAAGC
* ** **
47580614 TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGC
1 TCGGGGTAAGAGATCGAATGATGGCAATCTGCCCCAAGC
*
47580653 TCGGGGCAAGAGATCGAA
1 TCGGGGTAAGAGATCGAA
47580671 ATCTTCATTC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
38 1 0.02
39 45 0.98
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.19
Consensus pattern (39 bp):
TCGGGGTAAGAGATCGAATGATGGCAATCTGCCCCAAGC
Found at i:47581099 original size:50 final size:49
Alignment explanation
Indices: 47581045--47581476 Score: 164
Period size: 50 Copynumber: 8.7 Consensus size: 49
47581035 CCATTACAAT
*
47581045 CTCAATCCTT-CCTATCGCATCTTCTAAGGTACCAGGTTCACCATTGTGGC
1 CTCAA-CCTTCCCT-TCACATCTTCTAAGGTACCAGGTTCACCATTGTGGC
* * * *
47581095 CTCAACCTTTCCCTTCACATCTTCTTAGGTATCGGGTTTACCATTGTGGC
1 CTCAACC-TTCCCTTCACATCTTCTAAGGTACCAGGTTCACCATTGTGGC
* ** * *
47581145 CTCAACCTTTCCC-TCTACATCCTTTTAAGGTA-TTGAATTCACCATTGTGAC
1 CTCAACC-TTCCCTTC-ACAT-CTTCTAAGGTACCAG-GTTCACCATTGTGGC
* * * * * ** * * *
47581196 CTTAATCCTCCCCTGC-CATC-TCTTCATGGTACTACATTCACCGTTGCGAC
1 CTCAA-CCTTCCCTTCACATCTTC-T-AAGGTACCAGGTTCACCATTGTGGC
* * * *** * *
47581246 CTCAACCTTTCCCATCACATCTTCTTAGGCATTTGGTT-AGCCGTTGCGGC
1 CTCAACC-TTCCCTTCACATCTTCTAAGGTACCAGGTTCA-CCATTGTGGC
* * * ** * **
47581296 CTCAACCTTTCCCTTCACATCTTCTTAGGTATC-GGATTTACTGTTGCGAT
1 CTCAACC-TTCCCTTCACATCTTCTAAGGTACCAGG-TTCACCATTGTGGC
* * * ** ** *
47581346 CTCAGCCTTTCCCTTTACATCTTC-ATGGTACCAGGTTTGCTGTTGGGGC
1 CTCAACC-TTCCCTTCACATCTTCTAAGGTACCAGGTTCACCATTGTGGC
* * ** ** *
47581395 CTCAACCCTTCCCATCACATCTTCTTAGGTA-TTGAGTTTGCCGTTGTGGC
1 CTCAA-CCTTCCCTTCACATCTTCTAAGGTACCAG-GTTCACCATTGTGGC
*
47581445 CTCAACCTTTCCCTTCA-ATCTTTTAAGGTACC
1 CTCAACC-TTCCCTTCACATCTTCTAAGGTACC
47581477 GAATTCACCA
Statistics
Matches: 299, Mismatches: 61, Indels: 44
0.74 0.15 0.11
Matches are distributed among these distances:
48 1 0.00
49 58 0.19
50 196 0.66
51 39 0.13
52 5 0.02
ACGTcount: A:0.18, C:0.31, G:0.15, T:0.36
Consensus pattern (49 bp):
CTCAACCTTCCCTTCACATCTTCTAAGGTACCAGGTTCACCATTGTGGC
Found at i:47581475 original size:99 final size:99
Alignment explanation
Indices: 47581235--47581476 Score: 254
Period size: 99 Copynumber: 2.4 Consensus size: 99
47581225 TACTACATTC
* * * *** * *
47581235 ACCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTAGGCATTTGGTTAGCCGTTGCGGCCTCA
1 ACCGTTGCGACCTCAACCTTTCCCTTCACATCTTC-AAGGTACCAGGTTTGCTGTTGCGGCCTCA
* *
47581300 ACCTTTCCCTTCACATCTTCTTAGGTATCGGATTT
65 ACCCTTCCCATCACATCTTCTTAGGTATCGGATTT
* * * * * *
47581335 ACTGTTGCGATCTCAGCCTTTCCCTTTACATCTTCATGGTACCAGGTTTGCTGTTGGGGCCTCAA
1 ACCGTTGCGACCTCAACCTTTCCCTTCACATCTTCAAGGTACCAGGTTTGCTGTTGCGGCCTCAA
*
47581400 CCCTTCCCATCACATCTTCTTAGGTAT-TGAGTTT
66 CCCTTCCCATCACATCTTCTTAGGTATCGGA-TTT
* * * *
47581434 GCCGTTGTGGCCTCAACCTTTCCCTTCA-ATCTTTTAAGGTACC
1 ACCGTTGCGACCTCAACCTTTCCCTTCACATC-TTCAAGGTACC
47581477 GAATTCACCA
Statistics
Matches: 114, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
98 5 0.04
99 79 0.69
100 30 0.26
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.36
Consensus pattern (99 bp):
ACCGTTGCGACCTCAACCTTTCCCTTCACATCTTCAAGGTACCAGGTTTGCTGTTGCGGCCTCAA
CCCTTCCCATCACATCTTCTTAGGTATCGGATTT
Found at i:47582437 original size:11 final size:11
Alignment explanation
Indices: 47582423--47582496 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
47582413 TCTCCTTTTC
*
47582423 TTTTCCTTTGT
1 TTTTCTTTTGT
*
47582434 TTTTGTTCTTGT
1 TTTTCTT-TTGT
*
47582446 TTTTCTTTTTT
1 TTTTCTTTTGT
*
47582457 TTTTCTTTTAT
1 TTTTCTTTTGT
47582468 TTTTCTTCATT-T
1 TTTTCTT--TTGT
* *
47582480 TTTTATTTTAT
1 TTTTCTTTTGT
47582491 TTTTCT
1 TTTTCT
47582497 CATTGAATCT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
10 2 0.04
11 31 0.60
12 17 0.33
13 2 0.04
ACGTcount: A:0.05, C:0.11, G:0.04, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTGT
Found at i:47582461 original size:34 final size:34
Alignment explanation
Indices: 47582418--47582495 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
47582408 CGACCTCTCC
* * * *
47582418 TTTTCTTTTCCTTTGTTTTTGTTC-TTGTTTTTCT
1 TTTTTTTTTCCTTTATTTTTCTTCATT-TTTTTAT
*
47582452 TTTTTTTTTCTTTTATTTTTCTTCATTTTTTTAT
1 TTTTTTTTTCCTTTATTTTTCTTCATTTTTTTAT
*
47582486 TTTATTTTTC
1 TTTTTTTTTC
47582496 TCATTGAATC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 35 0.95
35 2 0.05
ACGTcount: A:0.05, C:0.12, G:0.04, T:0.79
Consensus pattern (34 bp):
TTTTTTTTTCCTTTATTTTTCTTCATTTTTTTAT
Found at i:47582471 original size:23 final size:23
Alignment explanation
Indices: 47582445--47582500 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
47582435 TTTGTTCTTG
* *
47582445 TTTTTCTT-TTTTTTTTCTTTTA
1 TTTTTCTTCATTTTTTTATTTTA
47582467 TTTTTCTTCATTTTTTTATTTTA
1 TTTTTCTTCATTTTTTTATTTTA
47582490 TTTTTC-TCATT
1 TTTTTCTTCATT
47582501 GAATCTGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTCTTCATTTTTTTATTTTA
Found at i:47587517 original size:29 final size:29
Alignment explanation
Indices: 47587484--47587605 Score: 126
Period size: 29 Copynumber: 4.3 Consensus size: 29
47587474 CAAAAATACG
* *
47587484 ATTTTTGGATGCTCGGGGGTAAAATGATA
1 ATTTTTGGATACTCGGGGGTAAAATGGTA
* * * *
47587513 ATTTTTGGAGATTCGAGAGTAAAATGGTA
1 ATTTTTGGATACTCGGGGGTAAAATGGTA
*
47587542 A-TTTTGGATATTCGGGGG--AAATGGTA
1 ATTTTTGGATACTCGGGGGTAAAATGGTA
* *
47587568 ATTTTTGGAAACTCGGGGGCAAAAAT-GTA
1 ATTTTTGGATACTCGGGGG-TAAAATGGTA
47587597 ATTTTTGGA
1 ATTTTTGGA
47587606 AGTTCAAGAG
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
26 9 0.12
27 15 0.19
28 14 0.18
29 36 0.46
30 4 0.05
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.34
Consensus pattern (29 bp):
ATTTTTGGATACTCGGGGGTAAAATGGTA
Done.