Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 42 of 97
Found at i:17224662 original size:127 final size:125
Alignment explanation
Indices: 17224439--17224960 Score: 493
Period size: 126 Copynumber: 4.1 Consensus size: 125
17224429 AAAAAATATT
* * * * * *
17224439 GTTACATGCCATGTT-TAAAAAAA-TGTTGTTACACGTCATGTTCAAAAAAAAAAATTATTGTTA
1 GTTACACGCCATGTTGAAAAAAAAGTGTTATTACACGCCATGTT--GAAAAAAAAGTTA---TTA
** * *
17224502 CACGTCATGTTTAAAGTGTTTAACTCTAAGAGTTTATGTCTTAGTGAAATACAAAAATAGAGATC
61 CACACCATGTTTAAGGTGTTTAACTC-AAGAGTTTATGTC-TAGTGAAATACAAAAATAGAGACC
17224567 AA
124 AA
* * *
17224569 GTTACACGCCATGTTGAAAAACAAA-T-TTGTTACATGCCATGTTGAAAAAAAAAGTTATTATAC
1 GTTACACGCCATGTTGAAAAA-AAAGTGTTATTACACGCCATGTTG-AAAAAAAAGTTATTACAC
*
17224632 ACCATGTTTAAGGTGTTTAACTTCAAGAGTTTATGTCCTAGTGAAATACAAAGATAGAGACCAA
64 ACCATGTTTAAGGTGTTTAAC-TCAAGAGTTTATGT-CTAGTGAAATACAAAAATAGAGACCAA
* * ** * * **
17224696 GCTGCACGCTGTGTAGAAAAAAAATTGTTATTACACGCCATGTTG-AAAAAAAGTTATTACATGC
1 GTTACACGCCATGTTGAAAAAAAAGTGTTATTACACGCCATGTTGAAAAAAAAGTTATTACACAC
** * * * *
17224760 CATGTTTAACATGTTTAACTCCAGCAATTTATGTGCTAGTGAAATACAAAGATAGAAACCAA
66 CATGTTTAAGGTGTTTAACTCAAG-AGTTTATGT-CTAGTGAAATACAAAAATAGAGACCAA
** * * * *
17224822 GTTATGCGACATATTGAAAAAAAAG-GTTATTATATGCCATGTTGAAAAAAAAGTTATTACACAC
1 GTTACACGCCATGTTGAAAAAAAAGTGTTATTACACGCCATGTTGAAAAAAAAGTTATTACACAC
* * * * *
17224886 TATGTGTAAGGTGTTTAACTTCAAGAGTTTATGTCTAGT-AAA-ACACAAAGTAGACATCAA
66 CATGTTTAAGGTGTTTAAC-TCAAGAGTTTATGTCTAGTGAAATACA-AAAATAGAGACCAA
*
17224946 GTTACATGCCATGTT
1 GTTACACGCCATGTT
17224961 TAAAGTGTAA
Statistics
Matches: 324, Mismatches: 57, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
123 3 0.01
124 23 0.07
125 26 0.08
126 125 0.39
127 80 0.25
128 19 0.06
130 25 0.08
131 19 0.06
132 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (125 bp):
GTTACACGCCATGTTGAAAAAAAAGTGTTATTACACGCCATGTTGAAAAAAAAGTTATTACACAC
CATGTTTAAGGTGTTTAACTCAAGAGTTTATGTCTAGTGAAATACAAAAATAGAGACCAA
Found at i:17224751 original size:26 final size:27
Alignment explanation
Indices: 17224713--17224765 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
17224703 GCTGTGTAGA
17224713 AAAAAAATTGTTATTACACGCCATGTTG
1 AAAAAAA-TGTTATTACACGCCATGTTG
*
17224741 AAAAAAA-GTTATTACATGCCATGTT
1 AAAAAAATGTTATTACACGCCATGTT
17224766 TAACATGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 17 0.71
28 7 0.29
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (27 bp):
AAAAAAATGTTATTACACGCCATGTTG
Found at i:17224890 original size:27 final size:28
Alignment explanation
Indices: 17224835--17224890 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
17224825 ATGCGACATA
* **
17224835 TTGAAAAAAAAGGTTATTATATGCCATG
1 TTGAAAAAAAAGGTTATTACACACCATG
*
17224863 TTGAAAAAAAA-GTTATTACACACTATG
1 TTGAAAAAAAAGGTTATTACACACCATG
17224890 T
1 T
17224891 GTAAGGTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (28 bp):
TTGAAAAAAAAGGTTATTACACACCATG
Found at i:17226447 original size:2 final size:2
Alignment explanation
Indices: 17226434--17226469 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
17226424 TATTCGTGTT
*
17226434 TA TA TA TG 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 TA TA TA
17226470 CTTGTGCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17230214 original size:138 final size:138
Alignment explanation
Indices: 17229991--17230249 Score: 322
Period size: 138 Copynumber: 1.9 Consensus size: 138
17229981 ATACCCACTC
** * ** *
17229991 TTTCCCCTTTTAAAGCCCAGTGTAAGGGTAAGAATACCACAGGACCAAGATGGGTGAATGTACCC
1 TTTCCCCTTCCAAAGCCCAGTGTAAGGGTAAGAATACCACAGGACCAAGATGAGCAAATGTACAC
* * * * *
17230056 ATTCTTGTTCCTTAAAAAAGCTTAGTGTGGAGGTAAAAATTCCACAAGGTCTAGTTGGGAAAATG
66 ATTATTGTCCCTTAAAAAAGCCTAGAGTGGA-GTAAAAATACCACAAGGTCTAGTTGGGAAAATG
17230121 AATCCACCT
130 AATCCACCT
* * *
17230130 TTTCCCCTTCCAAAGCTCAGTGT-GGGGTAAGAATACCACAGGACCAAGATGAGCAAATGTACAT
1 TTTCCCCTTCCAAAGCCCAGTGTAAGGGTAAGAATACCACAGGACCAAGATGAGCAAATGTACAC
*** * **
17230194 ATTATTGTCCCTTTCTAAAGCCTGGAGTTTAGTAAAAATACCACAAGGTCTAGTTG
66 ATTATTGTCCCTTAAAAAAGCCTAGAGTGGAGTAAAAATACCACAAGGTCTAGTTG
17230250 AGTGAATGTG
Statistics
Matches: 100, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
137 24 0.24
138 56 0.56
139 20 0.20
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (138 bp):
TTTCCCCTTCCAAAGCCCAGTGTAAGGGTAAGAATACCACAGGACCAAGATGAGCAAATGTACAC
ATTATTGTCCCTTAAAAAAGCCTAGAGTGGAGTAAAAATACCACAAGGTCTAGTTGGGAAAATGA
ATCCACCT
Found at i:17234315 original size:15 final size:15
Alignment explanation
Indices: 17234295--17234340 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
17234285 AGGAAGGAGT
17234295 AAGAAAAGAAAAAGA
1 AAGAAAAGAAAAAGA
*
17234310 AAGAAAAG-AAAACA
1 AAGAAAAGAAAAAGA
* *
17234324 AGGAAAAGAAAATGA
1 AAGAAAAGAAAAAGA
17234339 AA
1 AA
17234341 ATCTTGATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (15 bp):
AAGAAAAGAAAAAGA
Found at i:17234329 original size:14 final size:14
Alignment explanation
Indices: 17234295--17234335 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
17234285 AGGAAGGAGT
*
17234295 AAGAAAAGAAAAAGA
1 AAGAAAAG-AAAACA
17234310 AAGAAAAGAAAACA
1 AAGAAAAGAAAACA
*
17234324 AGGAAAAGAAAA
1 AAGAAAAGAAAA
17234336 TGAAAATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (14 bp):
AAGAAAAGAAAACA
Found at i:17235385 original size:27 final size:29
Alignment explanation
Indices: 17235355--17235408 Score: 78
Period size: 27 Copynumber: 1.9 Consensus size: 29
17235345 TCAAAAAAAA
17235355 ATCTAAT-AAGCCT-T-TATTATTTATTGT
1 ATCTAATCAAGCCTCTATATT-TTTATTGT
17235382 ATCTAATCAAGCCTCTATATTTTTATT
1 ATCTAATCAAGCCTCTATATTTTTATT
17235409 TTATGCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 7 0.29
28 6 0.25
29 7 0.29
30 4 0.17
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.50
Consensus pattern (29 bp):
ATCTAATCAAGCCTCTATATTTTTATTGT
Found at i:17242239 original size:34 final size:35
Alignment explanation
Indices: 17242196--17242264 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
17242186 TGCCCCATAA
17242196 AAGATAATAGGGGTATATAG-TTTATGGTGTGATT
1 AAGATAATAGGGGTATATAGTTTTATGGTGTGATT
17242230 AAGATAATAGGGGTATATAGTTTTATGGTGTGATT
1 AAGATAATAGGGGTATATAGTTTTATGGTGTGATT
17242265 GTTGTGCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 20 0.59
35 14 0.41
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (35 bp):
AAGATAATAGGGGTATATAGTTTTATGGTGTGATT
Found at i:17242727 original size:26 final size:26
Alignment explanation
Indices: 17242671--17242750 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
17242661 AGAAAAAGAT
* * *
17242671 GAAAATTACTAACGGAAATTTTTGTT
1 GAAAATTACCAACGAAAATTTTTGTC
*
17242697 AAAAATTACCAACGAAAATTTTCT-TC
1 GAAAATTACCAACGAAAATTTT-TGTC
* *
17242723 GAAAATTACCAATGAAATTTTTTGTC
1 GAAAATTACCAACGAAAATTTTTGTC
17242749 GA
1 GA
17242751 TAATATGTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
25 1 0.02
26 43 0.96
27 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.35
Consensus pattern (26 bp):
GAAAATTACCAACGAAAATTTTTGTC
Found at i:17242864 original size:56 final size:56
Alignment explanation
Indices: 17242802--17242966 Score: 158
Period size: 56 Copynumber: 2.9 Consensus size: 56
17242792 GAAATTTTTG
* * * * *
17242802 TTGGTAATTTAGTCATTAGCTACGAATTTCTG-TGGAAAATTATTAATGTAA-TTCTA
1 TTGGTAATTTAATCATTAGCTACGGATTTCTGAT-GAAAATTATCAACGGAATTTC-A
* * *
17242858 TTGGTAATTTAATTATT-GCTTTCGGATTTTTGATGAAAATTATCAACGGAATTTCA
1 TTGGTAATTTAATCATTAGC-TACGGATTTCTGATGAAAATTATCAACGGAATTTCA
* * * *
17242914 TTGGTAATTTAATCATTACCTACGGATTT-TCATTGAAAATTACCAACGAAATT
1 TTGGTAATTTAATCATTAGCTACGGATTTCTGA-TGAAAATTATCAACGGAATT
17242967 GAAATACCCC
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
55 4 0.04
56 81 0.90
57 5 0.06
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (56 bp):
TTGGTAATTTAATCATTAGCTACGGATTTCTGATGAAAATTATCAACGGAATTTCA
Found at i:17243646 original size:20 final size:20
Alignment explanation
Indices: 17243621--17243658 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
17243611 TTTTAGCCCC
17243621 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
17243641 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
17243659 GGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:17243664 original size:20 final size:20
Alignment explanation
Indices: 17243621--17243666 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
17243611 TTTTAGCCCC
*
17243621 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTAGA
*
17243641 ATTTGACTTATTGGAGTAGG
1 ATTTGACTTATTGGAGTAGA
17243661 ATTTGA
1 ATTTGA
17243667 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTAGA
Found at i:17249744 original size:32 final size:31
Alignment explanation
Indices: 17249706--17249886 Score: 102
Period size: 32 Copynumber: 5.6 Consensus size: 31
17249696 TTTTAATGTC
17249706 ATATATTTTATTTTCATTTTTATTATAATATT
1 ATATATTTTATTTT-ATTTTTATTATAATATT
* *
17249738 ATATATTTTATTTTTATTTTTTTAATATAATTTT
1 ATATATTTTA-TTTTA--TTTTTATTATAATATT
* * *
17249772 TTATATTATATATTTTATTTTTATT-T-CTTTT
1 ATATATT-T-TATTTTATTTTTATTATAATATT
* ** * * *
17249803 ACCTATATTATA-TAAATTTTAATTTCTTATATT
1 A--TATATTTTATTTTATTTTTA-TTATAATATT
* * *
17249836 -T-TATTTTATTTTTATTTTAATTCTTATATT
1 ATATATTTTA-TTTTATTTTTATTATAATATT
17249866 ATATATTTTATTTTAATTTTT
1 ATATATTTTATTTT-ATTTTT
17249887 TTGTTTTAAT
Statistics
Matches: 118, Mismatches: 16, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
29 6 0.05
30 18 0.15
31 21 0.18
32 25 0.21
33 20 0.17
34 20 0.17
35 6 0.05
36 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (31 bp):
ATATATTTTATTTTATTTTTATTATAATATT
Found at i:17249750 original size:26 final size:25
Alignment explanation
Indices: 17249706--17249879 Score: 105
Period size: 26 Copynumber: 6.8 Consensus size: 25
17249696 TTTTAATGTC
17249706 ATATATT-T-TATTTTCATTTTTATT
1 ATATATTATATATTTT-ATTTTTATT
17249730 ATAATATTATATATTTTATTTTTATT
1 AT-ATATTATATATTTTATTTTTATT
* * *
17249756 -T-TTTTAATATAATTT-TTTATATT
1 ATATATT-ATATATTTTATTTTTATT
*
17249779 ATATATTTTAT-TTTTATTTCTT-TT
1 ATATATTATATATTTTATTT-TTATT
17249803 ACCTATATTATATAAATTTTAATTTCTTA-T
1 A--TATATTATAT--ATTTT-ATTT-TTATT
* * *
17249833 ATTTTATTTTAT-TTTTATTTTAATT
1 A-TATATTATATATTTTATTTTTATT
*
17249858 CTTATATTATATATTTTATTTT
1 -ATATATTATATATTTTATTTT
17249880 AATTTTTTTG
Statistics
Matches: 117, Mismatches: 15, Indels: 34
0.70 0.09 0.20
Matches are distributed among these distances:
23 13 0.11
24 22 0.19
25 23 0.20
26 32 0.27
27 6 0.05
29 12 0.10
30 9 0.08
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (25 bp):
ATATATTATATATTTTATTTTTATT
Found at i:17249754 original size:15 final size:14
Alignment explanation
Indices: 17249736--17249880 Score: 65
Period size: 15 Copynumber: 10.2 Consensus size: 14
17249726 TATTATAATA
17249736 TTATATATTTTATT
1 TTATATATTTTATT
17249750 TT-TAT-TTTT-TT
1 TTATATATTTTATT
* * *
17249761 AATATAATTTTTTATA
1 -TTAT-ATATTTTATT
17249777 TTATATATTTTATTT
1 TTATATATTTTA-TT
* *
17249792 TTATTTCTTTTACCTAT
1 TTATATATTTTA--T-T
17249809 ATTATATAAATTTTAATT
1 -TTATAT--ATTTT-ATT
17249827 TCT-TATATTTTA-T
1 T-TATATATTTTATT
17249840 TT-TAT-TTTTATT
1 TTATATATTTTATT
* *
17249852 TTA-AT-TCTTATA
1 TTATATATTTTATT
17249864 TTATATATTTTATT
1 TTATATATTTTATT
17249878 TTA
1 TTA
17249881 ATTTTTTTGT
Statistics
Matches: 100, Mismatches: 14, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
11 7 0.07
12 22 0.22
13 8 0.08
14 20 0.20
15 23 0.23
16 2 0.02
17 5 0.05
18 7 0.07
19 1 0.01
20 4 0.04
21 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATATATTTTATT
Found at i:17249767 original size:34 final size:34
Alignment explanation
Indices: 17249706--17249793 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 34
17249696 TTTTAATGTC
* *
17249706 ATATATTTTATTTTCA--TTTTTATTATAATATT
1 ATATATTTTATTTTTATTTTTTTAATATAATATT
*
17249738 ATATATTTTATTTTTATTTTTTTAATATAATTTT
1 ATATATTTTATTTTTATTTTTTTAATATAATATT
* *
17249772 TTATATTATATATTTTATTTTT
1 ATATATTTTAT-TTTTATTTTT
17249794 ATTTCTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 15 0.31
34 23 0.48
35 10 0.21
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (34 bp):
ATATATTTTATTTTTATTTTTTTAATATAATATT
Found at i:17249842 original size:5 final size:5
Alignment explanation
Indices: 17249818--17249894 Score: 50
Period size: 5 Copynumber: 15.2 Consensus size: 5
17249808 TATTATATAA
* * * *
17249818 ATTTT AATTT CTTAT ATTTT ATTTT ATTTTT ATTTT AATTCTT ATATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT -ATT-TT ATTTT
* * *
17249866 A-TAT ATTTT ATTTT AATTT -TTTT GTTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
17249895 ATTATAACAT
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
4 5 0.09
5 37 0.69
6 10 0.19
7 2 0.04
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (5 bp):
ATTTT
Found at i:17249880 original size:26 final size:27
Alignment explanation
Indices: 17249772--17249883 Score: 84
Period size: 30 Copynumber: 4.0 Consensus size: 27
17249762 ATATAATTTT
*
17249772 TTATA-TTATATATTTTATTTTTATTTC
1 TTATATTTATATATTTTA-TTTTAATTC
* ** **
17249799 TTTTACCTATATTATATAAATTTTAATTTC
1 TTATATTTATA-TAT-TTTATTTTAA-TTC
*
17249829 TTATATTTTATTTTATTTTTATTTTAATTC
1 TTATA-TTTA-TATA-TTTTATTTTAATTC
17249859 TTATA-TTATATATTTTATTTTAATT
1 TTATATTTATATATTTTATTTTAATT
17249884 TTTTTGTTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
26 13 0.20
27 7 0.11
28 7 0.11
29 8 0.12
30 17 0.26
31 12 0.18
32 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (27 bp):
TTATATTTATATATTTTATTTTAATTC
Found at i:17249884 original size:57 final size:57
Alignment explanation
Indices: 17249765--17249870 Score: 148
Period size: 55 Copynumber: 1.9 Consensus size: 57
17249755 TTTTTTAATA
* *
17249765 TAATTTTTTATATTATATATTTTATTTTTATTTCTTTTACCTATATTATATAAATTT
1 TAATTTCTTATATTATATATTTTATTTTTATTTCTATTACCTATATTATATAAATTT
*
17249822 TAATTTCTTATATT-T-TATTTTATTTTTATTT-TAATT-CTTATATTATATA
1 TAATTTCTTATATTATATATTTTATTTTTATTTCT-ATTACCTATATTATATA
17249871 TTTTATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 13 0.29
55 18 0.40
56 1 0.02
57 13 0.29
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (57 bp):
TAATTTCTTATATTATATATTTTATTTTTATTTCTATTACCTATATTATATAAATTT
Found at i:17249886 original size:12 final size:12
Alignment explanation
Indices: 17249834--17249886 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
17249824 ATTTCTTATA
17249834 TTTTATTTT-AT
1 TTTTATTTTAAT
17249845 TTTTATTTTAAT
1 TTTTATTTTAAT
* *
17249857 TCTTATATTATAT
1 TTTTATTTTA-AT
17249870 ATTTTATTTTAAT
1 -TTTTATTTTAAT
17249883 TTTT
1 TTTT
17249887 TTGTTTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 9 0.26
12 14 0.40
13 4 0.11
14 8 0.23
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTATTTTAAT
Found at i:17249900 original size:32 final size:37
Alignment explanation
Indices: 17249709--17249883 Score: 64
Period size: 37 Copynumber: 4.6 Consensus size: 37
17249699 TAATGTCATA
* * *
17249709 TATTTTAT-TTTCATTTTTATTATAATATTATATATTT
1 TATTTTATATTT-ATTTTAATTCTTATATTATATATTT
* *
17249746 TATTTT-TATTTTTTTAATATAATTTTTTATATTATATATTT
1 TATTTTATA-TTTATT--T-TAA-TTCTTATATTATATATTT
* *
17249787 TATTTT-TATTTCTTTT-A--CCTATATTATATAAATTT
1 TATTTTATATTTATTTTAATTCTTATATTATAT--ATTT
*
17249822 TAATTTCTTATATTTTATTTT-ATT-TT-TATTTTA-ATTCT
1 T-A-TT-TTATA-TTTATTTTAATTCTTATATTATATATT-T
17249860 TATATTATATATTTTATTTTAATT
1 TAT-TT-TATA-TTTATTTTAATT
17249884 TTTTTGTTTT
Statistics
Matches: 109, Mismatches: 10, Indels: 37
0.70 0.06 0.24
Matches are distributed among these distances:
33 10 0.09
35 5 0.05
36 5 0.05
37 29 0.27
38 11 0.10
39 3 0.03
40 21 0.19
41 25 0.23
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (37 bp):
TATTTTATATTTATTTTAATTCTTATATTATATATTT
Found at i:17252615 original size:16 final size:18
Alignment explanation
Indices: 17252576--17252621 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 18
17252566 TACGTTATCT
17252576 ATATCTAGATTTGGATGTA
1 ATAT-TAGATTTGGATGTA
17252595 A-ATTAGA-TTGGATG-A
1 ATATTAGATTTGGATGTA
17252610 ATATTAGGATTT
1 ATATTA-GATTT
17252622 AATTCATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 6 0.25
18 4 0.17
19 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (18 bp):
ATATTAGATTTGGATGTA
Found at i:17253123 original size:53 final size:54
Alignment explanation
Indices: 17253048--17253206 Score: 185
Period size: 53 Copynumber: 2.9 Consensus size: 54
17253038 GCTATTATAT
* * **
17253048 AGCTATTAATGAAAAACCATGAATGTTCATTCCCTAAAGTGAATGTGACAAACG
1 AGCTACTAATAAAAAATTATGAATGTTCATTCCCTAAAGTGAATGTGACAAACG
* * *
17253102 AGCTACTAAT-AAAAATTATGAATGTTCATTCCCTTAAGTAAATGTGACATACG
1 AGCTACTAATAAAAAATTATGAATGTTCATTCCCTAAAGTGAATGTGACAAACG
* * * * *
17253155 AACTACTAATAAAAAATTATAAATTCGTCCATTCCCTGAAGTGAATGCGACA
1 AGCTACTAATAAAAAATTATGAA-T-GTTCATTCCCTAAAGTGAATGTGACA
17253207 TCATTTAATA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 47 0.52
54 20 0.22
55 1 0.01
56 22 0.24
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (54 bp):
AGCTACTAATAAAAAATTATGAATGTTCATTCCCTAAAGTGAATGTGACAAACG
Found at i:17257746 original size:16 final size:17
Alignment explanation
Indices: 17257711--17257752 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
17257701 TTATCTATAT
17257711 TTAGATTTGGATGTAAA
1 TTAGATTTGGATGTAAA
17257728 TTAGA-TTGGATG-AATA
1 TTAGATTTGGATGTAA-A
17257744 TTAGGATTT
1 TTA-GATTT
17257753 AATTCATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.09
16 11 0.50
17 7 0.32
18 2 0.09
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (17 bp):
TTAGATTTGGATGTAAA
Found at i:17262081 original size:43 final size:43
Alignment explanation
Indices: 17262034--17262149 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
17262024 CTAGCTCATA
** *
17262034 CGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CAGG-TTATG
1 CGCACTCCCTACTCGCACATAACCGGGTCATC-CTC-GGCTTATG
*
17262077 CGCACTCCCTACTCTCACATAACCGGGTCATCCTCGGCTTATG
1 CGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTATG
* * *
17262120 CACACTCCCTACTCGCACATAGCCGAGTCA
1 CGCACTCCCTACTCGCACATAACCGGGTCA
17262150 ATATAATTAC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 3 0.05
43 60 0.95
ACGTcount: A:0.21, C:0.39, G:0.18, T:0.22
Consensus pattern (43 bp):
CGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTATG
Found at i:17265446 original size:22 final size:22
Alignment explanation
Indices: 17265419--17265462 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17265409 AATTTAATTT
*
17265419 TAGTTAGTTAATTTAGTGCTTA
1 TAGTTAGTTAATTTAGCGCTTA
17265441 TAGTTAGTTAATTTAGCGCTTA
1 TAGTTAGTTAATTTAGCGCTTA
17265463 CTTAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (22 bp):
TAGTTAGTTAATTTAGCGCTTA
Found at i:17270905 original size:21 final size:22
Alignment explanation
Indices: 17270867--17270910 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
17270857 AACCTAAAGT
* *
17270867 AATTTAAATAAATTTAACATAA
1 AATTAAAATAAATATAACATAA
*
17270889 AATTAAAATAAA-ATAACTTAA
1 AATTAAAATAAATATAACATAA
17270910 A
1 A
17270911 CTAAACTACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTAAAATAAATATAACATAA
Found at i:17272111 original size:61 final size:63
Alignment explanation
Indices: 17272024--17272181 Score: 221
Period size: 61 Copynumber: 2.5 Consensus size: 63
17272014 ATCATCACCA
* * *
17272024 GCATGTGCACTGCCCACTCCGTACATGCACGGTTGTAAATATCATGACAGCATCATT-ACT-G
1 GCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAAATATCACGACAGCATCATTCAATCG
* * ***
17272085 GCATGTGCATTGCCCACTCCGCACATGCACGGTTGTAATTATCACGACATTGTCATTCAATCG
1 GCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAAATATCACGACAGCATCATTCAATCG
*
17272148 ACATGTGCACTGCCCACTCCGCACATGCACGGTT
1 GCATGTGCACTGCCCACTCCGCACATGCACGGTT
17272182 ACATCAATTA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
61 50 0.59
62 2 0.02
63 33 0.39
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (63 bp):
GCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAAATATCACGACAGCATCATTCAATCG
Found at i:17284334 original size:18 final size:18
Alignment explanation
Indices: 17284313--17284357 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
17284303 AGCAAGCAAA
17284313 AAAAAAATAAAG-AAAGGG
1 AAAAAAA-AAAGAAAAGGG
* *
17284331 AAAAGAAAGAGAAAAGGG
1 AAAAAAAAAAGAAAAGGG
17284349 AAAAAAAAA
1 AAAAAAAAA
17284358 TCTAGCTAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAGAAAAGGG
Found at i:17286540 original size:20 final size:20
Alignment explanation
Indices: 17286517--17286555 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17286507 TAAGGAGGTA
*
17286517 TAACCTTTCTTTACCTTTTC
1 TAACCTTTCTCTACCTTTTC
*
17286537 TAACGTTTCTCTACCTTTT
1 TAACCTTTCTCTACCTTTT
17286556 ACATTGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.03, T:0.54
Consensus pattern (20 bp):
TAACCTTTCTCTACCTTTTC
Found at i:17287587 original size:27 final size:27
Alignment explanation
Indices: 17287534--17287588 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
17287524 ATTTGGAGTA
17287534 TAGGGGCGAAATGGTAATTTTACCACCC
1 TAGGGGCGAAATGGTAATTTTA-CACCC
17287562 TAGGGGC-AAATCGGTAAATTTT-CACCC
1 TAGGGGCGAAAT-GGT-AATTTTACACCC
17287589 CCAACACTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 9 0.36
28 10 0.40
29 6 0.24
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (27 bp):
TAGGGGCGAAATGGTAATTTTACACCC
Found at i:17288734 original size:13 final size:13
Alignment explanation
Indices: 17288716--17288740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17288706 AGAGAAATTG
17288716 TGATTTTATAAAA
1 TGATTTTATAAAA
17288729 TGATTTTATAAA
1 TGATTTTATAAA
17288741 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:17291114 original size:84 final size:84
Alignment explanation
Indices: 17290929--17291114 Score: 232
Period size: 84 Copynumber: 2.2 Consensus size: 84
17290919 AACATGATAG
* * * ** * *
17290929 TCATATATCATTATCATGTTTAGCTTATAGTGTATATGAAATTCTCAACACATACATCTCATGGC
1 TCATAAATCATCATCATGCTTAGCCCATACTGTACATGAAATTCTCAACACATACATCTCATGGC
17290994 ATACATATCATATTTAACC
66 ATACATATCATATTTAACC
* *
17291013 TCATAAACCATTC-TCATGCTTAGCCCATACTGTACATGATATTCTCAACACATACATCTCATGG
1 TCATAAATCA-TCATCATGCTTAGCCCATACTGTACATGAAATTCTCAACACATACATCTCATGG
* * *
17291077 CATACATTTCATCTCTT-ATC
65 CATACATATCATAT-TTAACC
17291097 TCATAAATCATCATCATG
1 TCATAAATCATCATCATG
17291115 TAATGAGAGG
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
83 2 0.02
84 81 0.94
85 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.36
Consensus pattern (84 bp):
TCATAAATCATCATCATGCTTAGCCCATACTGTACATGAAATTCTCAACACATACATCTCATGGC
ATACATATCATATTTAACC
Found at i:17292168 original size:20 final size:20
Alignment explanation
Indices: 17292143--17292214 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
17292133 AAAACGACGT
17292143 CATCTATCGATACATGGGGC
1 CATCTATCGATACATGGGGC
17292163 CATCTATCGATACATGGGGC
1 CATCTATCGATACATGGGGC
* * * *
17292183 CATCTATTGATATATGTGTC
1 CATCTATCGATACATGGGGC
*
17292203 CATCTATTGATA
1 CATCTATCGATA
17292215 GATGATGAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (20 bp):
CATCTATCGATACATGGGGC
Found at i:17292229 original size:21 final size:20
Alignment explanation
Indices: 17292183--17292240 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
17292173 TACATGGGGC
* **
17292183 CATCTATTGATATATGTGTC
1 CATCTATTGATAGATGTGAA
17292203 CATCTATTGATAGATGATGAA
1 CATCTATTGATAGATG-TGAA
**
17292224 CATCTATCCATAGATGT
1 CATCTATTGATAGATGT
17292241 TCTTTAGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
CATCTATTGATAGATGTGAA
Found at i:17292323 original size:21 final size:21
Alignment explanation
Indices: 17292275--17292327 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
17292265 TTTGGGTTAT
*
17292275 ATCTATCAATAGATAAAGAAA
1 ATCTATTAATAGATAAAGAAA
* **
17292296 ATATATTAATAGATAAAGAGC
1 ATCTATTAATAGATAAAGAAA
17292317 ATCTATTAATA
1 ATCTATTAATA
17292328 AATAGGTTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (21 bp):
ATCTATTAATAGATAAAGAAA
Found at i:17295795 original size:23 final size:24
Alignment explanation
Indices: 17295752--17295801 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
17295742 CCTAGCTTTA
17295752 GCCAACCCATCTAACCATATTATT
1 GCCAACCCATCTAACCATATTATT
*
17295776 GCCAACCCATCT-ACCATATTGTT
1 GCCAACCCATCTAACCATATTATT
17295799 GCC
1 GCC
17295802 TTCTCGTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.28
Consensus pattern (24 bp):
GCCAACCCATCTAACCATATTATT
Found at i:17315417 original size:29 final size:28
Alignment explanation
Indices: 17315335--17315401 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
17315325 AAAAGCTAGT
* * *
17315335 ATGGGTTTGTGGTG-ATCTGATTAAAAGC
1 ATGGGTTTGTGGTGAACCAG-TTAAAACC
17315363 ATGGGTTTGTGGTGAACCAGTTAAAACC
1 ATGGGTTTGTGGTGAACCAGTTAAAACC
17315391 ATGGGTTTGTG
1 ATGGGTTTGTG
17315402 CTTGAACTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 32 0.91
29 3 0.09
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.34
Consensus pattern (28 bp):
ATGGGTTTGTGGTGAACCAGTTAAAACC
Found at i:17320357 original size:21 final size:22
Alignment explanation
Indices: 17320332--17320372 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
17320322 CCTAGGTGGA
*
17320332 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
17320353 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
17320373 AAAAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:17320373 original size:20 final size:21
Alignment explanation
Indices: 17320332--17320376 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
17320322 CCTAGGTGGA
*
17320332 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
17320353 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
17320373 AAAA
1 AAAA
17320377 AAATGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:17320377 original size:21 final size:20
Alignment explanation
Indices: 17320330--17320377 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
17320320 ACCCTAGGTG
*
17320330 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
17320350 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
17320372 GAAAAA
1 GAAAAA
17320378 AATGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:17324750 original size:45 final size:45
Alignment explanation
Indices: 17324701--17324794 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
17324691 ATTAAATTTA
* * *
17324701 AATAATACTAAATAATGT-TCTTTATTACATTTATTATATTCAAAT
1 AATAATACTAAATAATATGT-TTTATAACATTTATTATAGTCAAAT
* * * *
17324746 AATAATATTAAGTAATATGTTTTATAATATTTATTATAGTGAAAT
1 AATAATACTAAATAATATGTTTTATAACATTTATTATAGTCAAAT
17324791 AATA
1 AATA
17324795 TTAATATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 40 0.98
46 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (45 bp):
AATAATACTAAATAATATGTTTTATAACATTTATTATAGTCAAAT
Found at i:17325430 original size:30 final size:30
Alignment explanation
Indices: 17325372--17325430 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
17325362 AAATACCTTT
* * **
17325372 TATTATAATATTAAATATTTATTTTTAAAA
1 TATTAAAATATTAAAAATTTATAATTAAAA
17325402 TATTAAAATATTAAAAATTTATAATTAAA
1 TATTAAAATATTAAAAATTTATAATTAAA
17325431 TCTTAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TATTAAAATATTAAAAATTTATAATTAAAA
Found at i:17325852 original size:23 final size:26
Alignment explanation
Indices: 17325808--17325857 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
17325798 TAAATTGAAA
17325808 TTAAATTTATGTTATAATGGTAATTT
1 TTAAATTTATGTTATAATGGTAATTT
17325834 TTAAATTTAT-TTA-AA-GGTAATTT
1 TTAAATTTATGTTATAATGGTAATTT
17325857 T
1 T
17325858 ATCTAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 9 0.38
24 2 0.08
25 3 0.12
26 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (26 bp):
TTAAATTTATGTTATAATGGTAATTT
Found at i:17331624 original size:61 final size:60
Alignment explanation
Indices: 17331511--17331625 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
17331501 GCATTTTGAG
* * *
17331511 CATTTTGGAGTAGTTTTTGATATATGAAGAAAACCTGTGAGCGTTTTGAGCATTTTTAAA
1 CATTTTGGAGTAGTTTTTGATATATGAAGAAAAACTGTGAACATTTTGAGCATTTTTAAA
* * *
17331571 CATTTTTGAGT-GATTTTTGATATATGAAGAAAAACTTTCGAATATTTTGAGCATT
1 CATTTTGGAGTAG-TTTTTGATATATGAAGAAAAACTGT-GAACATTTTGAGCATT
17331626 CATATTTGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 1 0.02
60 33 0.70
61 13 0.28
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (60 bp):
CATTTTGGAGTAGTTTTTGATATATGAAGAAAAACTGTGAACATTTTGAGCATTTTTAAA
Found at i:17331772 original size:26 final size:25
Alignment explanation
Indices: 17331743--17332138 Score: 180
Period size: 26 Copynumber: 16.5 Consensus size: 25
17331733 TAGTTTTTAA
17331743 GCATTGCGTGACTGATTTTTGATAAG
1 GCATTGCGTGACT-ATTTTTGATAAG
* *
17331769 GCATTGCATGACTAGTTTCTGATAAG
1 GCATTGCGTGACTA-TTTTTGATAAG
*** * *
17331795 GCATTATATGACTA--GTTAAT-AG
1 GCATTGCGTGACTATTTTTGATAAG
*
17331817 GCATTGCGTGACTGA-CTTTG----G
1 GCATTGCGTGACT-ATTTTTGATAAG
* * *
17331838 GCATTACGTGATTGATTTTTGATGAG
1 GCATTGCGTGACT-ATTTTTGATAAG
*
17331864 GCATTGCGTGACTAGTTTCTGATAAG
1 GCATTGCGTGACTA-TTTTTGATAAG
* * *
17331890 GCATTGTGTGACTA--GTTAAT-AG
1 GCATTGCGTGACTATTTTTGATAAG
* * *
17331912 ACATTACGTGACTGA-CTTTG----G
1 GCATTGCGTGACT-ATTTTTGATAAG
*
17331933 GCATTGCGTGACTAGTTTTTTATAAG
1 GCATTGCGTGACTA-TTTTTGATAAG
* *
17331959 GCATTGCGTGACTAGTTTCTGATAAA
1 GCATTGCGTGACTA-TTTTTGATAAG
* * **
17331985 GCATTGTGTGACAAACTTTG----G
1 GCATTGCGTGACTATTTTTGATAAG
17332006 GCATTGCGTGACTAGTTTTTGATAAG
1 GCATTGCGTGACTA-TTTTTGATAAG
* * *
17332032 GCATTGCATGATTAGTTTCTGATAAG
1 GCATTGCGTGACTA-TTTTTGATAAG
* *
17332058 GCATTGCATGACTA--GTTGAT-AG
1 GCATTGCGTGACTATTTTTGATAAG
* * *
17332080 GCATTGCGTGACT-TGTTAG-TATG
1 GCATTGCGTGACTATTTTTGATAAG
* * *
17332103 ACATTGCGTGACTA-GTTCG-TAAG
1 GCATTGCGTGACTATTTTTGATAAG
*
17332126 GCATTGTGTGACT
1 GCATTGCGTGACT
17332139 TAGGCATTGC
Statistics
Matches: 284, Mismatches: 60, Indels: 55
0.71 0.15 0.14
Matches are distributed among these distances:
20 1 0.00
21 38 0.13
22 50 0.18
23 45 0.16
24 4 0.01
25 5 0.02
26 141 0.50
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.36
Consensus pattern (25 bp):
GCATTGCGTGACTATTTTTGATAAG
Found at i:17331906 original size:95 final size:95
Alignment explanation
Indices: 17331743--17331996 Score: 402
Period size: 95 Copynumber: 2.7 Consensus size: 95
17331733 TAGTTTTTAA
* * *
17331743 GCATTGCGTGACTGATTTTTGATAAGGCATTGCATGACTAGTTTCTGATAAGGCATTATATGACT
1 GCATTGCGTGACTGATTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAAGGCATTGTGTGACT
* *
17331808 AGTTAATAGGCATTGCGTGACTGACTTTGG
66 AGTTAATAGACATTACGTGACTGACTTTGG
* * *
17331838 GCATTACGTGATTGATTTTTGATGAGGCATTGCGTGACTAGTTTCTGATAAGGCATTGTGTGACT
1 GCATTGCGTGACTGATTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAAGGCATTGTGTGACT
17331903 AGTTAATAGACATTACGTGACTGACTTTGG
66 AGTTAATAGACATTACGTGACTGACTTTGG
* *
17331933 GCATTGCGTGACT-AGTTTTTTATAAGGCATTGCGTGACTAGTTTCTGATAAAGCATTGTGTGAC
1 GCATTGCGTGACTGA-TTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAAGGCATTGTGTGAC
17331997 AAACTTTGGG
Statistics
Matches: 145, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
94 1 0.01
95 144 0.99
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (95 bp):
GCATTGCGTGACTGATTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAAGGCATTGTGTGACT
AGTTAATAGACATTACGTGACTGACTTTGG
Found at i:17332019 original size:73 final size:73
Alignment explanation
Indices: 17331863--17332069 Score: 269
Period size: 73 Copynumber: 2.9 Consensus size: 73
17331853 TTTTTGATGA
* * * * *
17331863 GGCATTGCGTGACTAGTTTCTGATAAGGCATTGTGTGACTAG--T-TAATAGA-CATTACGTGAC
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAAAGCATTGCGTGAC
**
17331924 TGACTTTG
66 AAACTTTG
* *
17331932 GGCATTGCGTGACTAGTTTTTTATAAGGCATTGCGTGACTAGTTTCTGATAAAGCATTGTGTGAC
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAAAGCATTGCGTGAC
17331997 AAACTTTG
66 AAACTTTG
* * * *
17332005 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCATGATTAGTTTCTGATAAGGCATTGCATGAC
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAAAGCATTGCGTGAC
17332070 TAGTTGATAG
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
69 39 0.33
71 1 0.01
72 5 0.04
73 74 0.62
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.36
Consensus pattern (73 bp):
GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAAAGCATTGCGTGAC
AAACTTTG
Found at i:17332107 original size:23 final size:23
Alignment explanation
Indices: 17332081--17332139 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
17332071 AGTTGATAGG
*
17332081 CATTGCGTGACTTGTTAGTATGA
1 CATTGCGTGACTTGTTAGTAAGA
* * *
17332104 CATTGCGTGACTAGTTCGTAAGG
1 CATTGCGTGACTTGTTAGTAAGA
*
17332127 CATTGTGTGACTT
1 CATTGCGTGACTT
17332140 AGGCATTGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.37
Consensus pattern (23 bp):
CATTGCGTGACTTGTTAGTAAGA
Found at i:17332191 original size:22 final size:21
Alignment explanation
Indices: 17332166--17332228 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
17332156 TCAATCATCC
*
17332166 AATGTATAAAAACTATTCACGT
1 AATG-ATAAAAACTAATCACGT
* *
17332188 AATGCCT-AAAACCAATCACGT
1 AATG-ATAAAAACTAATCACGT
*
17332209 AATGACTAAAAACTAGTCAC
1 AATGA-TAAAAACTAATCAC
17332229 ATGGTGATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.24
Consensus pattern (21 bp):
AATGATAAAAACTAATCACGT
Found at i:17336310 original size:25 final size:25
Alignment explanation
Indices: 17336254--17336304 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
17336244 AATTGAGCAA
* *
17336254 CATATTTTTTATTATTTTTTATATTT
1 CATA-TTTTTATTAATATTTATATTT
17336280 CATATTTTTATTAATATTT-TATTT
1 CATATTTTTATTAATATTTATATTT
17336304 C
1 C
17336305 TTTATTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 13 0.57
26 4 0.17
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (25 bp):
CATATTTTTATTAATATTTATATTT
Found at i:17337758 original size:17 final size:17
Alignment explanation
Indices: 17337736--17337768 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17337726 AAGTGAGGAT
17337736 TGCTCCCCCTAAGTATA
1 TGCTCCCCCTAAGTATA
17337753 TGCTCCCCCTAAGTAT
1 TGCTCCCCCTAAGTAT
17337769 GTGCATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.30
Consensus pattern (17 bp):
TGCTCCCCCTAAGTATA
Found at i:17338424 original size:20 final size:20
Alignment explanation
Indices: 17338399--17338450 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
17338389 TTTTAATTCT
17338399 TGCACCCATTCTCTGGTCCC
1 TGCACCCATTCTCTGGTCCC
* *
17338419 TGCACCCATTCTTTGGTTCC
1 TGCACCCATTCTCTGGTCCC
*
17338439 TACACCCATTCT
1 TGCACCCATTCT
17338451 ACTCCCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.13, C:0.40, G:0.12, T:0.35
Consensus pattern (20 bp):
TGCACCCATTCTCTGGTCCC
Found at i:17342507 original size:2 final size:2
Alignment explanation
Indices: 17342500--17342546 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
17342490 NNNNNNNNNN
17342500 TA TA TA TA TA TA 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 TA TA TA TA TA TA
17342542 TA TA T
1 TA TA T
17342547 TCATCATCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17342664 original size:42 final size:42
Alignment explanation
Indices: 17342573--17342698 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 42
17342563 TCTCCCATCG
* * * * * * *
17342573 TCATCAGCTCATGTGCACTCCCCATTAGCACATGGTTGGGTGA
1 TCATCGGCTTATGTACACTCCCC-CTAGCACATAGTCGGGTCA
17342616 TCATCGGCTTATGTACACTCCCCCTAGCACATAGTCGGGTCA
1 TCATCGGCTTATGTACACTCCCCCTAGCACATAGTCGGGTCA
* ** *
17342658 TTATCGGCTTATGTACACTCCTACTCGCACATAGTCGGGTC
1 TCATCGGCTTATGTACACTCCCCCTAGCACATAGTCGGGTC
17342699 CACATCAACA
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 52 0.72
43 20 0.28
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.29
Consensus pattern (42 bp):
TCATCGGCTTATGTACACTCCCCCTAGCACATAGTCGGGTCA
Found at i:17343259 original size:3 final size:3
Alignment explanation
Indices: 17343251--17343278 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17343241 AACGTGAAAG
17343251 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
17343279 AATTTGCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:17354967 original size:30 final size:31
Alignment explanation
Indices: 17354917--17354992 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
17354907 ACCATTAGTC
*
17354917 ATAAGA-CTTATTTGACTC-AAAATAAAAGT
1 ATAAGAGCTTGTTTGACTCAAAAATAAAAGT
*
17354946 ATAAGAGCTTGTTTGGCTCAAAAATAAAAGT
1 ATAAGAGCTTGTTTGACTCAAAAATAAAAGT
* * *
17354977 TTAAGGGCTTGATTGA
1 ATAAGAGCTTGTTTGA
17354993 ACGTAATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 6 0.15
30 10 0.26
31 23 0.59
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (31 bp):
ATAAGAGCTTGTTTGACTCAAAAATAAAAGT
Found at i:17354972 original size:31 final size:30
Alignment explanation
Indices: 17354917--17355009 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 30
17354907 ACCATTAGTC
*
17354917 ATAAGA-CTTATTTGACTCAAAATAAAAGT
1 ATAAGAGCTTGTTTGACTCAAAATAAAAGT
*
17354946 ATAAGAGCTTGTTTGGCTCAAAAATAAAAGT
1 ATAAGAGCTTGTTTGACTC-AAAATAAAAGT
* * * * **
17354977 TTAAGGGCTTGATTGA-ACGTAATAAAAGT
1 ATAAGAGCTTGTTTGACTCAAAATAAAAGT
17355006 ATAA
1 ATAA
17355010 AAACTTACTT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
29 18 0.35
30 11 0.21
31 23 0.44
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (30 bp):
ATAAGAGCTTGTTTGACTCAAAATAAAAGT
Found at i:17357304 original size:2 final size:2
Alignment explanation
Indices: 17357299--17357378 Score: 151
Period size: 2 Copynumber: 40.0 Consensus size: 2
17357289 AGAGAGAGTG
17357299 TA TA TA TA TA TA 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 TA TA TA TA TA TA
*
17357341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17357379 CGGTATATGG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17365146 original size:2 final size:2
Alignment explanation
Indices: 17365134--17365174 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
17365124 CATACCTCTA
*
17365134 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17365175 CCTTGTTGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:17365581 original size:28 final size:28
Alignment explanation
Indices: 17365549--17365607 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
17365539 GGGGATACTT
* *
17365549 ATCTTAAACTTATGTCTCATCGCATGTG
1 ATCTTAAACTTATGTCTCACCACATGTG
17365577 ATCTTAAACTTATGTCTCACCACATGTG
1 ATCTTAAACTTATGTCTCACCACATGTG
17365605 ATC
1 ATC
17365608 ACTTAACCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (28 bp):
ATCTTAAACTTATGTCTCACCACATGTG
Found at i:17366220 original size:19 final size:19
Alignment explanation
Indices: 17366198--17366236 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17366188 TTAATATTTT
17366198 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
17366217 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
17366236 A
1 A
17366237 TTCACCACTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATTATTTTATTAATAA
Found at i:17368053 original size:18 final size:18
Alignment explanation
Indices: 17368026--17368060 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17368016 ACCAGATGAT
*
17368026 CCATCAGAGTGGGAATTA
1 CCATCAGAGTGGCAATTA
*
17368044 CCATCTGAGTGGCAATT
1 CCATCAGAGTGGCAATT
17368061 GCAAAGCATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (18 bp):
CCATCAGAGTGGCAATTA
Found at i:17369144 original size:30 final size:30
Alignment explanation
Indices: 17369108--17369174 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
17369098 TGGTTGGTAT
*
17369108 ACGCCATACCAATGAATTATTAGGTGCTAC
1 ACGCCATACCAACGAATTATTAGGTGCTAC
* *
17369138 ACGCCATACCAACGTATTATTGGGTGCTAC
1 ACGCCATACCAACGAATTATTAGGTGCTAC
*
17369168 ACACCAT
1 ACGCCAT
17369175 GATTATGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (30 bp):
ACGCCATACCAACGAATTATTAGGTGCTAC
Found at i:17370750 original size:29 final size:29
Alignment explanation
Indices: 17370718--17370776 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
17370708 AACATGAGAA
*
17370718 TATGTGACACGCCATGTAT-ACCCTGCTGT
1 TATGCGACACGCCATGT-TGACCCTGCTGT
* *
17370747 TATGCGACATGCCATGTTGACTCTGCTGT
1 TATGCGACACGCCATGTTGACCCTGCTGT
17370776 T
1 T
17370777 CTACAACACG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (29 bp):
TATGCGACACGCCATGTTGACCCTGCTGT
Found at i:17375767 original size:2 final size:2
Alignment explanation
Indices: 17375760--17375788 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17375750 TATAATGTTG
17375760 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
17375789 NNNNNNNNNN
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:17379357 original size:43 final size:43
Alignment explanation
Indices: 17379310--17379419 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 43
17379300 TCCCCAGCTC
** *
17379310 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCATCGAG-TT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCATCG-GCTT
* *
17379353 ATGCGCACTCCCTACTCGAACATAACCGGGTCATCATCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCATCGGCTT
17379396 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
17379420 GCCGAGTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCATCGGCTT
Found at i:17385134 original size:2 final size:2
Alignment explanation
Indices: 17385129--17385169 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
17385119 TATAATGTTG
17385129 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17385170 GTCATAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17387000 original size:29 final size:28
Alignment explanation
Indices: 17386968--17387126 Score: 90
Period size: 29 Copynumber: 5.5 Consensus size: 28
17386958 ACCCTTACAT
* *
17386968 GTGAAGATGCGACACGCCATGCCTAATAA
1 GTGAATATGCGACATGCCATGCCTAAT-A
* * ***
17386997 GTGATTATGTGACATGCCATTTTTAATA
1 GTGAATATGCGACATGCCATGCCTAATA
17387025 GTCGAATATGCGACATGCCATGCCTAACT-
1 GT-GAATATGCGACATGCCATGCCTAA-TA
* * **
17387054 G-GCAATAATGCCACACGCCAACCCTAATA
1 GTG-AAT-ATGCGACATGCCATGCCTAATA
* * * *
17387083 G-GCCAATATGCAACATGTCATGGCTAAAA
1 GTG--AATATGCGACATGCCATGCCTAATA
17387112 TGTGAATATGCGACA
1 -GTGAATATGCGACA
17387127 GACCATGGTT
Statistics
Matches: 98, Mismatches: 24, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
27 1 0.01
28 7 0.07
29 83 0.85
30 6 0.06
31 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (28 bp):
GTGAATATGCGACATGCCATGCCTAATA
Found at i:17387195 original size:29 final size:28
Alignment explanation
Indices: 17387138--17387200 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
17387128 ACCATGGTTG
* *
17387138 ACATGCTAATATCCACACTTCATGCCTA
1 ACATGCTAATATCCACACTACATACCTA
*
17387166 ACATGCTAATATGCCACAC-ACCTACACTA
1 ACATGCTAATAT-CCACACTACATAC-CTA
17387195 ACATGC
1 ACATGC
17387201 GAACACGCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.35, C:0.33, G:0.08, T:0.24
Consensus pattern (28 bp):
ACATGCTAATATCCACACTACATACCTA
Found at i:17387231 original size:29 final size:29
Alignment explanation
Indices: 17387199--17387263 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
17387189 ACACTAACAT
17387199 GCGAACACGCGACACGCCATGCCTAATAG
1 GCGAACACGCGACACGCCATGCCTAATAG
** * * * *
17387228 GCGATTATGTGACATGCCATTCCTAATAG
1 GCGAACACGCGACACGCCATGCCTAATAG
*
17387257 TCGAACA
1 GCGAACA
17387264 TCCCTAAACC
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (29 bp):
GCGAACACGCGACACGCCATGCCTAATAG
Found at i:17387450 original size:29 final size:29
Alignment explanation
Indices: 17387361--17387450 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
17387351 ATGTGTGACT
* *
17387361 CCATGCCTAACATGTGAATATC-CCAAACA
1 CCATGCCTAACATGTGAATA-CACCACACG
* * * * *
17387390 CCATGCCTAACATATTAATATACAACATG
1 CCATGCCTAACATGTGAATACACCACACG
17387419 CCATGCCTTAA-ATGTGAATACACCACACG
1 CCATGCC-TAACATGTGAATACACCACACG
17387448 CCA
1 CCA
17387451 ACCCTAATTA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
29 44 0.94
30 3 0.06
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.22
Consensus pattern (29 bp):
CCATGCCTAACATGTGAATACACCACACG
Found at i:17391244 original size:22 final size:23
Alignment explanation
Indices: 17391205--17391247 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17391195 GAGATTAATG
*
17391205 AAAATAAATAAATGAATAAAATA
1 AAAATAAATAAATAAATAAAATA
*
17391228 AAAATAATTAAA-AAATAAAA
1 AAAATAAATAAATAAATAAAA
17391248 GTTTTGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (23 bp):
AAAATAAATAAATAAATAAAATA
Found at i:17403332 original size:19 final size:20
Alignment explanation
Indices: 17403305--17403350 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17403295 AGGAGACAAG
*
17403305 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
17403324 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
17403343 ATAATATT
1 ATAATATT
17403351 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:17417393 original size:3 final size:3
Alignment explanation
Indices: 17417385--17417471 Score: 51
Period size: 3 Copynumber: 30.0 Consensus size: 3
17417375 ACCATATACC
* * *
17417385 CAT CAT CAT CAT GCA- CAC CAT C-C CAT CAT CAT CAT CAT GCA- CAC
1 CAT CAT CAT CAT -CAT CAT CAT CAT CAT CAT CAT CAT CAT -CAT CAT
* * *
17417429 CAT C-C CAT CAT CAT CAT CAT GCA- CAC CAT C-C CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT -CAT CAT CAT CAT CAT CAT CAT CAT
17417472 TCCCAACTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
2 9 0.14
3 51 0.77
4 6 0.09
ACGTcount: A:0.31, C:0.41, G:0.03, T:0.24
Consensus pattern (3 bp):
CAT
Found at i:17417414 original size:26 final size:26
Alignment explanation
Indices: 17417385--17417471 Score: 174
Period size: 26 Copynumber: 3.3 Consensus size: 26
17417375 ACCATATACC
17417385 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
17417411 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
17417437 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
17417463 CATCATCAT
1 CATCATCAT
17417472 TCCCAACTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.31, C:0.41, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:17417529 original size:43 final size:42
Alignment explanation
Indices: 17417481--17417633 Score: 234
Period size: 43 Copynumber: 3.6 Consensus size: 42
17417471 TTCCCAACTC
**
17417481 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACCAGGTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACC-GGTT
17417524 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACC-GGTT
* * *
17417567 ATGCGCACTCCCTACTCGCATATAACCAGGTCATCATCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGG-TT
17417610 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
17417634 GCCGAATCAA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 2 0.02
43 100 0.98
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGGTT
Found at i:17419020 original size:164 final size:164
Alignment explanation
Indices: 17418749--17419076 Score: 629
Period size: 164 Copynumber: 2.0 Consensus size: 164
17418739 NNNNNNNNNN
17418749 GAGACTAAGAGAGTTTTAAATAGATTTTACAAGGAAATTCTAGAATGATCCAAGCTTGACACATG
1 GAGACTAAGAGAGTTTTAAATAGATTTTACAAGGAAATTCTAGAATGATCCAAGCTTGACACATG
17418814 GCATGTTTCCATTGGTCCATGTGTAATACTTATCCATTAAGCAATCTCTCTCCACCACATAAAAT
66 GCATGTTTCCATTGGTCCATGTGTAATACTTATCCATTAAGCAATCTCTCTCCACCACATAAAAT
*
17418879 GTTTCAATTATCCACAATGTAAAATGTTAATGGC
131 GTTTCAATTATCCACAATGTAAAATATTAATGGC
17418913 GAGACTAAGAGAGTTTTAAATAGATTTTACAAGGAAATTCTAGAATGATCCAAGCTTGACACATG
1 GAGACTAAGAGAGTTTTAAATAGATTTTACAAGGAAATTCTAGAATGATCCAAGCTTGACACATG
17418978 GCATGTTTCCATTGGTCCATGTGTAATACTTATCCATTAAGCAATCTCTCTCCACCACATAAAAT
66 GCATGTTTCCATTGGTCCATGTGTAATACTTATCCATTAAGCAATCTCTCTCCACCACATAAAAT
* *
17419043 GTTTCAATTATCTACAATGTAAACTATTAATGGC
131 GTTTCAATTATCCACAATGTAAAATATTAATGGC
17419077 TGAAATCCAT
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 161 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (164 bp):
GAGACTAAGAGAGTTTTAAATAGATTTTACAAGGAAATTCTAGAATGATCCAAGCTTGACACATG
GCATGTTTCCATTGGTCCATGTGTAATACTTATCCATTAAGCAATCTCTCTCCACCACATAAAAT
GTTTCAATTATCCACAATGTAAAATATTAATGGC
Found at i:17422058 original size:49 final size:49
Alignment explanation
Indices: 17421986--17422127 Score: 257
Period size: 49 Copynumber: 2.9 Consensus size: 49
17421976 AGAACTACAA
* * *
17421986 ATCAAGTATTGTCCTTTACTTCCCATTTACTGCTAAGATGACAACCAGT
1 ATCAAGTGTTGTCTTTTACTTCCCATTTACTGCTAAGATGACAACCAAT
17422035 ATCAAGTGTTGTCTTTTACTTCCCATTTACTGCTAAGATGACAACCAAT
1 ATCAAGTGTTGTCTTTTACTTCCCATTTACTGCTAAGATGACAACCAAT
17422084 ATCAAGTGTTGTCTTTTACTTCCCATTTACTGCTAAGATGACAA
1 ATCAAGTGTTGTCTTTTACTTCCCATTTACTGCTAAGATGACAA
17422128 TCGGTTTACT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 90 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (49 bp):
ATCAAGTGTTGTCTTTTACTTCCCATTTACTGCTAAGATGACAACCAAT
Found at i:17422641 original size:6 final size:6
Alignment explanation
Indices: 17422630--17422734 Score: 66
Period size: 6 Copynumber: 16.5 Consensus size: 6
17422620 TGAGGACATG
* * * * *
17422630 TATACA TATACA CATTCATA TATACA TATACA TATATA TTTATA TATACA
1 TATACA TATACA TA-T-ACA TATACA TATACA TATACA TATACA TATACA
* * * * *
17422680 CATACATA TATACA TATACA TATATA TATTTATA TATACA CATACA TATATA
1 TATAC--A TATACA TATACA TATACA TA--TACA TATACA TATACA TATACA
17422732 TAT
1 TAT
17422735 GTATACATGT
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
6 62 0.79
7 2 0.03
8 14 0.18
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (6 bp):
TATACA
Found at i:17422654 original size:14 final size:14
Alignment explanation
Indices: 17422635--17422731 Score: 80
Period size: 14 Copynumber: 7.4 Consensus size: 14
17422625 ACATGTATAC
*
17422635 ATATACACATTCAT
1 ATATACACATACAT
*
17422649 ATATACATATACAT
1 ATATACACATACAT
**
17422663 ATAT----ATTTAT
1 ATATACACATACAT
17422673 ATATACACATACAT
1 ATATACACATACAT
*
17422687 ATATACATATACAT
1 ATATACACATACAT
* **
17422701 ATAT--ATATTTAT
1 ATATACACATACAT
17422713 ATATACACATACAT
1 ATATACACATACAT
17422727 ATATA
1 ATATA
17422732 TATGTATACA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
10 8 0.12
12 10 0.15
14 47 0.72
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATACACATACAT
Found at i:17422688 original size:38 final size:39
Alignment explanation
Indices: 17422635--17422731 Score: 169
Period size: 40 Copynumber: 2.5 Consensus size: 39
17422625 ACATGTATAC
*
17422635 ATATACACATTCATATATACATATAC-ATATATATTTAT
1 ATATACACATACATATATACATATACAATATATATTTAT
17422673 ATATACACATACATATATACATATACATATATATATTTAT
1 ATATACACATACATATATACATATACA-ATATATATTTAT
17422713 ATATACACATACATATATA
1 ATATACACATACATATATA
17422732 TATGTATACA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
38 25 0.45
40 31 0.55
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (39 bp):
ATATACACATACATATATACATATACAATATATATTTAT
Found at i:17422732 original size:26 final size:26
Alignment explanation
Indices: 17422685--17422739 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
17422675 ATACACATAC
* *
17422685 ATATATACATATACATATATATATTT
1 ATATATACACATACATATATATATGT
17422711 ATATATACACATACATATATATATGT
1 ATATATACACATACATATATATATGT
17422737 ATA
1 ATA
17422740 CATGTGTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (26 bp):
ATATATACACATACATATATATATGT
Found at i:17422734 original size:20 final size:20
Alignment explanation
Indices: 17422625--17422731 Score: 119
Period size: 20 Copynumber: 5.5 Consensus size: 20
17422615 TTTTATGAGG
*
17422625 ACATGTATACATATACACAT
1 ACATATATACATATACACAT
*
17422645 TCATATATACATAT--ACAT
1 ACATATATACATATACACAT
* * *
17422663 ATATATTTATATATACACAT
1 ACATATATACATATACACAT
*
17422683 ACATATATACATATACATAT
1 ACATATATACATATACACAT
* * *
17422703 ATATATTTATATATACACAT
1 ACATATATACATATACACAT
17422723 ACATATATA
1 ACATATATA
17422732 TATGTATACA
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
18 14 0.20
20 55 0.80
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (20 bp):
ACATATATACATATACACAT
Found at i:17422739 original size:6 final size:6
Alignment explanation
Indices: 17422647--17422739 Score: 69
Period size: 6 Copynumber: 15.5 Consensus size: 6
17422637 ATACACATTC
* * * * * * *
17422647 ATATAT ACATAT ACATAT ATATTT ATATAT ACACAT ACATAT ATACAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * *
17422695 ATACAT ATATAT ATTTAT ATATAC ACATAC ATATAT ATATGT ATA
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATA
17422740 CATGTGTGTA
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (6 bp):
ATATAT
Found at i:17422742 original size:20 final size:20
Alignment explanation
Indices: 17422647--17422742 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
17422637 ATACACATTC
* *
17422647 ATATATACATATACATATAT
1 ATATATATATATACATACAT
* *
17422667 ATTTATATATACACATACAT
1 ATATATATATATACATACAT
* * * *
17422687 ATATACATATACATATATAT
1 ATATATATATATACATACAT
* *
17422707 ATTTATATATACACATACAT
1 ATATATATATATACATACAT
*
17422727 ATATATATGTATACAT
1 ATATATATATATACAT
17422743 GTGTGTATAT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (20 bp):
ATATATATATATACATACAT
Found at i:17422774 original size:2 final size:2
Alignment explanation
Indices: 17422769--17422900 Score: 189
Period size: 2 Copynumber: 67.0 Consensus size: 2
17422759 GTGTTTGTAT
*
17422769 AG AG AG AA 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 AG
** **
17422811 AG AG AG AG AG AG AG AG AG NC AG CAG TT AG AG AG A- 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 AG
17422853 AG AG AG AG A- AG AG AG AG AG AG A- 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 AG
17422893 AG AG AG AG
1 AG AG AG AG
17422901 GGATGAGCTT
Statistics
Matches: 116, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
1 3 0.03
2 111 0.96
3 2 0.02
ACGTcount: A:0.50, C:0.02, G:0.46, T:0.02
Consensus pattern (2 bp):
AG
Found at i:17426199 original size:67 final size:67
Alignment explanation
Indices: 17426086--17426218 Score: 248
Period size: 67 Copynumber: 2.0 Consensus size: 67
17426076 ATAAGATTTG
*
17426086 CCTATAAATATCTTGAATTTCTAGCAGCTTCTAGAGATTTTCCAGCAGCTGGTCTTCTTCTTCTT
1 CCTATAAATATCTTGAATTTCTAACAGCTTCTAGAGATTTTCCAGCAGCTGGTCTTCTTCTTCTT
17426151 CA
66 CA
*
17426153 CCTATAAATATCTTGAATTTCTAACAGCTTCTAGAGATTTTTCAGCAGCTGGTCTTCTTCTTCTT
1 CCTATAAATATCTTGAATTTCTAACAGCTTCTAGAGATTTTCCAGCAGCTGGTCTTCTTCTTCTT
17426218 C
66 C
17426219 TCCTTTCTCA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (67 bp):
CCTATAAATATCTTGAATTTCTAACAGCTTCTAGAGATTTTCCAGCAGCTGGTCTTCTTCTTCTT
CA
Found at i:17427086 original size:42 final size:43
Alignment explanation
Indices: 17426994--17427101 Score: 146
Period size: 42 Copynumber: 2.5 Consensus size: 43
17426984 TGACTCGACT
** * **
17426994 ATGTGCGAGTAGGGAGTGCGCATAAGTCGAGGATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAGCC
* *
17427037 ATATGCGAGTAGGGAGTGCGCAT-ACCCGATGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAGCC
17427079 ATGTGCGAGTAGGGAGTGCGCAT
1 ATGTGCGAGTAGGGAGTGCGCAT
17427102 GAGCTGGTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.61
43 22 0.39
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAGCC
Found at i:17433899 original size:21 final size:21
Alignment explanation
Indices: 17433875--17433925 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
17433865 TTGATGTATT
*
17433875 GATACATTTTGGCAATGTC-TC
1 GATACATTTTGACAATG-CATC
*
17433896 GATATATTTTGACAATGCATC
1 GATACATTTTGACAATGCATC
17433917 GATACATTT
1 GATACATTT
17433926 GCCCTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (21 bp):
GATACATTTTGACAATGCATC
Found at i:17438537 original size:231 final size:231
Alignment explanation
Indices: 17438183--17438688 Score: 603
Period size: 231 Copynumber: 2.2 Consensus size: 231
17438173 ACACAAAAAA
* *
17438183 GGAAAGGG-ATAGATGGTTATATGAATTATTATGTGTGGGTGTGTCTGTTGCAACCATGCTTATG
1 GGAAAGGGAAT-GATGGTTATATGAATTATTTTGGGTGGGTGTGTCTGTTGCAACCATGCTTATG
* * *
17438247 TACTTTTACACACTCAATATGTACTAGGAGAAGGATGATTGCATCAACCATTATGTTAGTACATG
65 TACTTTTACACACACAATATGTACTAGGAGAAGGATGATTGCAGCAACCAATATGTTAGTACATG
* * * *
17438312 TGTACATCCACCATAGCATGTAAGG-TAAAAGAAAAAGCCTTTTGACTACAAATATTTAAAATCT
130 TGTACATCCACCATAGCATGCAAGGAAAAAAGAAAAAGCCTTTTGACTACAAATATTCAAAAGC-
* * *
17438376 TTTTTTCTTGAGATGTTAGAGGAAAGAAAAAAAGAAAG
194 ATTTTTCTAGAGACGTTAGAGGAAAGAAAAAAAGAAAG
*
17438414 GGAAAGGGAATG-TGGTTATATGAATTATTTTGGGTGGGTGTGTCTGTTTGTAACCATG-TCTAT
1 GGAAAGGGAATGATGGTTATATGAATTATTTTGGGTGGGTGTGTCTG-TTGCAACCATGCT-TAT
* * * * * *
17438477 GT-GTTTCTACACTCACAATGTGTACTAGGAGAATGATGATTGTAGCAACCAATGTGTTAGTACA
64 GTACTTT-TACACACACAATATGTACTAGGAGAAGGATGATTGCAGCAACCAATATGTTAGTACA
* * * * * **
17438541 TGTGTGCATCCACCATAGTATGCAAGGACAAAAAGGAAAAGCTTTTTGGCTATGAATATTCAAAA
128 TGTGTACATCCACCATAGCATGCAAGGA-AAAAAGAAAAAGCCTTTTGACTACAAATATTCAAAA
* * * *
17438606 GCATTTTTCTAGAGACGTTAGAGTAGAGAAGAAAGGAAAG
192 GCATTTTTCTAGAGACGTTAGAGGAAAGAAAAAAAGAAAG
* * *
17438646 GGAATGGGAAGGAT-GTTAATATAAATTATTTT-GGTGGGTGTGT
1 GGAAAGGGAATGATGGTT-ATATGAATTATTTTGGGTGGGTGTGT
17438689 GTCATGACCC
Statistics
Matches: 234, Mismatches: 33, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
230 36 0.15
231 97 0.41
232 57 0.24
233 44 0.19
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (231 bp):
GGAAAGGGAATGATGGTTATATGAATTATTTTGGGTGGGTGTGTCTGTTGCAACCATGCTTATGT
ACTTTTACACACACAATATGTACTAGGAGAAGGATGATTGCAGCAACCAATATGTTAGTACATGT
GTACATCCACCATAGCATGCAAGGAAAAAAGAAAAAGCCTTTTGACTACAAATATTCAAAAGCAT
TTTTCTAGAGACGTTAGAGGAAAGAAAAAAAGAAAG
Found at i:17445597 original size:19 final size:19
Alignment explanation
Indices: 17445573--17445611 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17445563 ATACTTCATG
*
17445573 GCTACATTTTCTTTAGTTT
1 GCTACATTATCTTTAGTTT
*
17445592 GCTACATTATCTTTATTTT
1 GCTACATTATCTTTAGTTT
17445611 G
1 G
17445612 ATTTTGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.10, T:0.56
Consensus pattern (19 bp):
GCTACATTATCTTTAGTTT
Found at i:17450355 original size:17 final size:17
Alignment explanation
Indices: 17450333--17450367 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17450323 AATTATTATC
17450333 TTATTTTTTATAACATA
1 TTATTTTTTATAACATA
17450350 TTATTTTTTATAACATA
1 TTATTTTTTATAACATA
17450367 T
1 T
17450368 ATATATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTTTTTATAACATA
Found at i:17452552 original size:40 final size:38
Alignment explanation
Indices: 17452508--17452605 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 38
17452498 CACACCCGGC
* * *
17452508 TCATGTACATCCCCCCACATCCTGCGTATAGTCGGTGACA
1 TCATGTACATCCCCCCACATCCTGC--ACAATCAGTGACA
* * * * *
17452548 TCATGTGCATTCTCCCACATCGTGCACAATCAGTGCCA
1 TCATGTACATCCCCCCACATCCTGCACAATCAGTGACA
*
17452586 TCATGTACATCCCCTCACAT
1 TCATGTACATCCCCCCACAT
17452606 TGTGTACACG
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
38 25 0.54
40 21 0.46
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.27
Consensus pattern (38 bp):
TCATGTACATCCCCCCACATCCTGCACAATCAGTGACA
Found at i:17457148 original size:27 final size:27
Alignment explanation
Indices: 17457118--17457175 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
17457108 TAAGCATTTA
17457118 TTATCTGGTTATAAAGGTACCATGATT
1 TTATCTGGTTATAAAGGTACCATGATT
17457145 TTATCTGGTTATAAAGGTACCATGATT
1 TTATCTGGTTATAAAGGTACCATGATT
17457172 TTAT
1 TTAT
17457176 TGAGATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (27 bp):
TTATCTGGTTATAAAGGTACCATGATT
Found at i:17458107 original size:23 final size:23
Alignment explanation
Indices: 17458077--17458150 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
17458067 ATAATTTAAC
17458077 TTATTTAAGATGGAATGCATGCT
1 TTATTTAAGATGGAATGCATGCT
* ** *
17458100 TTATTTAATTCG-TAGAATTTA-AC-
1 TTATTTAA---GATGGAATGCATGCT
17458123 TTATTTAAGATGGAATGCATGCT
1 TTATTTAAGATGGAATGCATGCT
17458146 TTATT
1 TTATT
17458151 CAATTGTTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 6 0.16
22 1 0.03
23 21 0.57
24 1 0.03
25 6 0.16
26 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (23 bp):
TTATTTAAGATGGAATGCATGCT
Found at i:17458129 original size:46 final size:46
Alignment explanation
Indices: 17458062--17458155 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
17458052 CCCACTTAGC
* *
17458062 TTCGTATAATTTAACTTATTTAAGATGGAATGCATGCTTTATTTAA
1 TTCGTAGAATTTAACTTATTTAAGATGGAATGCATGCTTTATTCAA
17458108 TTCGTAGAATTTAACTTATTTAAGATGGAATGCATGCTTTATTCAA
1 TTCGTAGAATTTAACTTATTTAAGATGGAATGCATGCTTTATTCAA
17458154 TT
1 TT
17458156 GTTTAAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (46 bp):
TTCGTAGAATTTAACTTATTTAAGATGGAATGCATGCTTTATTCAA
Found at i:17458232 original size:21 final size:21
Alignment explanation
Indices: 17458191--17458232 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17458181 AGGTTTATAT
*
17458191 GTTGTCTTAATTAAGATAAGA
1 GTTGTCTTAATTAAGACAAGA
17458212 GTTGTCTTAA-TATAGACAAGA
1 GTTGTCTTAATTA-AGACAAGA
17458233 ATTTATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (21 bp):
GTTGTCTTAATTAAGACAAGA
Found at i:17458262 original size:50 final size:50
Alignment explanation
Indices: 17458184--17458310 Score: 175
Period size: 50 Copynumber: 2.6 Consensus size: 50
17458174 AAATGGTAGG
*
17458184 TTTATATGTTGTCTTAATTAAGATAAGAGTTGTCTTAATATAGACAAGAA
1 TTTATATGTTGTCTTAATTAAGACAAGAGTTGTCTTAATATAGACAAGAA
* *
17458234 TTTATATGTTGTCTTGATTAAGACAAGAGTTGTCTTAATTTAGACAAG-A
1 TTTATATGTTGTCTTAATTAAGACAAGAGTTGTCTTAATATAGACAAGAA
** * **
17458283 TACATATGATGTCTTAATTTTGACAAGA
1 TTTATATGTTGTCTTAATTAAGACAAGA
17458311 AAACATGTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 23 0.34
50 45 0.66
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (50 bp):
TTTATATGTTGTCTTAATTAAGACAAGAGTTGTCTTAATATAGACAAGAA
Found at i:17458265 original size:21 final size:21
Alignment explanation
Indices: 17458241--17458282 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17458231 GAATTTATAT
*
17458241 GTTGTCTTGATTAAGACAAGA
1 GTTGTCTTAATTAAGACAAGA
*
17458262 GTTGTCTTAATTTAGACAAGA
1 GTTGTCTTAATTAAGACAAGA
17458283 TACATATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (21 bp):
GTTGTCTTAATTAAGACAAGA
Found at i:17458296 original size:28 final size:28
Alignment explanation
Indices: 17458264--17458357 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
17458254 AGACAAGAGT
* *
17458264 TGTCTTAATTTAGACAAG-ATACATATGA
1 TGTCTTAATTTAGACAAGAAAACATGT-A
* *
17458292 TGTCTTAATTTTGACAAGAAAACATGTT
1 TGTCTTAATTTAGACAAGAAAACATGTA
17458320 TGTCTTAATTTAGACAAGAAAACATGT-
1 TGTCTTAATTTAGACAAGAAAACATGTA
17458347 TAGTCTTAATT
1 T-GTCTTAATT
17458358 AAGATAAACG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
27 1 0.02
28 52 0.88
29 6 0.10
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (28 bp):
TGTCTTAATTTAGACAAGAAAACATGTA
Found at i:17480529 original size:16 final size:18
Alignment explanation
Indices: 17480501--17480537 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
17480491 TAAGTTTTAA
17480501 TTATAATTTAG-TTATTT
1 TTATAATTTAGTTTATTT
17480518 TTATAA-TTAGTTTATTT
1 TTATAATTTAGTTTATTT
17480535 TTA
1 TTA
17480538 GTGAGTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTATAATTTAGTTTATTT
Found at i:17495326 original size:2 final size:2
Alignment explanation
Indices: 17495319--17495378 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
17495309 CATTATGATG
17495319 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
17495361 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
17495379 GTGTGTGTGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17495603 original size:40 final size:38
Alignment explanation
Indices: 17495510--17495615 Score: 149
Period size: 38 Copynumber: 2.7 Consensus size: 38
17495500 ATAGTGCCCG
** *
17495510 TGTGCACGATGTGGGGGGATGTACACAATGGCACTGAT
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACGGAT
* *
17495548 TGTGCACGATGTGGGGGGATGCACATGATGGCACCGGCT
1 TGTGCACGATGTGGGGGGATGTACATGATGGCA-CGGAT
17495587 ATGTGCACGATGTGGGGGGATGTACATGA
1 -TGTGCACGATGTGGGGGGATGTACATGA
17495616 GTAGGGTGTG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 30 0.50
39 3 0.05
40 27 0.45
ACGTcount: A:0.22, C:0.16, G:0.40, T:0.23
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCACGGAT
Found at i:17500558 original size:29 final size:29
Alignment explanation
Indices: 17500525--17500611 Score: 120
Period size: 29 Copynumber: 2.9 Consensus size: 29
17500515 GGATTATTTA
17500525 AAAAATATATATAATAAATAAAAAGTTTTT
1 AAAAATATATATAATAAATAAAAA-TTTTT
* * * *
17500555 AAAATTATAAATAAAAAATCAAAATTTTT
1 AAAAATATATATAATAAATAAAAATTTTT
17500584 AAAAATATATATAATAAATAAAATATTT
1 AAAAATATATATAATAAATAAAA-ATTT
17500612 AAACAATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 24 0.50
30 24 0.50
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (29 bp):
AAAAATATATATAATAAATAAAAATTTTT
Found at i:17506305 original size:2 final size:2
Alignment explanation
Indices: 17506298--17506376 Score: 95
Period size: 2 Copynumber: 38.0 Consensus size: 2
17506288 TGTATGTATT
* * *
17506298 TA TA TA TA TA TA CA TA TA GTA TA TA TA TA TG TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
*
17506341 TA TA GTA TA TA TA TA TG TA TA TA TA TA TA CTA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
17506377 GAGATGTTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
2 60 0.91
3 6 0.09
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:17506340 original size:29 final size:29
Alignment explanation
Indices: 17506300--17506367 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
17506290 TATGTATTTA
17506300 TATATATATACATATAGTATATATATATG
1 TATATATATACATATAGTATATATATATG
17506329 TATATATATACATATAGTATATATATATG
1 TATATATATACATATAGTATATATATATG
17506358 TATATATATA
1 TATATATATA
17506368 TACTATATAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (29 bp):
TATATATATACATATAGTATATATATATG
Found at i:17506383 original size:25 final size:25
Alignment explanation
Indices: 17506333--17506383 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
17506323 TATATGTATA
* * *
17506333 TATATACATATAGTATATATATATG
1 TATATACATATACTATATAGAGATG
*
17506358 TATATATATATACTATATAGAGATG
1 TATATACATATACTATATAGAGATG
17506383 T
1 T
17506384 TTGGACTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (25 bp):
TATATACATATACTATATAGAGATG
Found at i:17510229 original size:20 final size:18
Alignment explanation
Indices: 17510200--17510253 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
17510190 ATTAGGTTAC
17510200 TTTTAAGTTAGTTATTTTAA
1 TTTT-AGTTA-TTATTTTAA
*
17510220 TTTTATGTTATTCATGTTAA
1 TTTTA-GTTATT-ATTTTAA
17510240 -TTTAGTTATTATTT
1 TTTTAGTTATTATTT
17510254 ATTAGTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 3 0.10
18 6 0.20
19 7 0.23
20 14 0.47
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (18 bp):
TTTTAGTTATTATTTTAA
Found at i:17510973 original size:54 final size:54
Alignment explanation
Indices: 17510818--17510973 Score: 267
Period size: 54 Copynumber: 2.9 Consensus size: 54
17510808 ACACGATGGC
*
17510818 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGACGAGGTG
1 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTG
* *
17510872 TCCGACTATGTGCACGATGTGGGGGGATGCACATGAGTTGGGTGAGATGAGGTG
1 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTG
* *
17510926 TCCGGCTATGTGCACGATGTGGGGGGATGCACATTAGCTGGGCGAGAT
1 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGAT
17510974 AGTGGTGTAT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.19, C:0.16, G:0.42, T:0.22
Consensus pattern (54 bp):
TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTG
Found at i:17515861 original size:40 final size:40
Alignment explanation
Indices: 17515800--17515947 Score: 269
Period size: 40 Copynumber: 3.7 Consensus size: 40
17515790 CACATCCAGC
*
17515800 TCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTTA
1 TCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCA
**
17515840 TCATGTGCATCCCCCTGCATCGTGCACATAGCCGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCA
17515880 TCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCA
17515920 TCATGTGCATCCCCCCACATCGTGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
17515948 ATCAGTGCCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (40 bp):
TCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCA
Found at i:17515887 original size:23 final size:23
Alignment explanation
Indices: 17515861--17515928 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 23
17515851 CCCCTGCATC
17515861 GTGCACATAGCCGGAGTCATCAT
1 GTGCACATAGCCGGAGTCATCAT
** **
17515884 GTG--CATCCCCCCA--CATC--
1 GTGCACATAGCCGGAGTCATCAT
17515901 GTGCACATAGCCGGAGTCATCAT
1 GTGCACATAGCCGGAGTCATCAT
17515924 GTGCA
1 GTGCA
17515929 TCCCCCCACA
Statistics
Matches: 31, Mismatches: 8, Indels: 12
0.61 0.16 0.24
Matches are distributed among these distances:
17 3 0.10
19 10 0.32
21 10 0.32
23 8 0.26
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (23 bp):
GTGCACATAGCCGGAGTCATCAT
Found at i:17519781 original size:18 final size:18
Alignment explanation
Indices: 17519755--17519794 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
17519745 TATTGATGAT
17519755 GAAGATGGGAGTGGTTTG
1 GAAGATGGGAGTGGTTTG
*
17519773 GAAGCTGGGAGTGGTTTG
1 GAAGATGGGAGTGGTTTG
17519791 GAAG
1 GAAG
17519795 TGTAACGACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.03, G:0.50, T:0.25
Consensus pattern (18 bp):
GAAGATGGGAGTGGTTTG
Found at i:17520822 original size:25 final size:25
Alignment explanation
Indices: 17520794--17520853 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
17520784 GTGATCGCAA
* **
17520794 CCACGTATATCAACTTGTGGCCTAG
1 CCACATATATCAACTCATGGCCTAG
*
17520819 CCACATATATCAACTCATGGCCTTG
1 CCACATATATCAACTCATGGCCTAG
*
17520844 CCACCTATAT
1 CCACATATAT
17520854 ATCACAAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (25 bp):
CCACATATATCAACTCATGGCCTAG
Found at i:17525034 original size:179 final size:179
Alignment explanation
Indices: 17524734--17525094 Score: 695
Period size: 179 Copynumber: 2.0 Consensus size: 179
17524724 TCAACCTCCC
*
17524734 TTAATCTTGTCCTTGTACGTTGATGATTTATTAATTACTGGAGGTAATTCAACTCAGGTTAAGAA
1 TTAATCTTGTCCTTGTACGTGGATGATTTATTAATTACTGGAGGTAATTCAACTCAGGTTAAGAA
17524799 ACTCAAGGAGTTATTGGAGAAAGAATTCAGCATGTCTGATCTTGGGTTAATGCCATACTTTCTAG
66 ACTCAAGGAGTTATTGGAGAAAGAATTCAGCATGTCTGATCTTGGGTTAATGCCATACTTTCTAG
*
17524864 GAATTGAAGTCAAGTAGGAAGATGATGGCATTCTGTTATGTCAACAGAA
131 GAATTGAAGTCAAGGAGGAAGATGATGGCATTCTGTTATGTCAACAGAA
17524913 TTAATCTTGTCCTTGTACGTGGATGATTTATTAATTACTGGAGGTAATTCAACTCAGGTTAAGAA
1 TTAATCTTGTCCTTGTACGTGGATGATTTATTAATTACTGGAGGTAATTCAACTCAGGTTAAGAA
17524978 ACTCAAGGAGTTATTGGAGAAAGAATTCAGCATGTCTGATCTTGGGTTAATGCCATACTTTCTAG
66 ACTCAAGGAGTTATTGGAGAAAGAATTCAGCATGTCTGATCTTGGGTTAATGCCATACTTTCTAG
*
17525043 GAATTGAAGTCAAGGAGGAAGATGATGGCATTCTGTTATGTGAACAGAA
131 GAATTGAAGTCAAGGAGGAAGATGATGGCATTCTGTTATGTCAACAGAA
17525092 TTA
1 TTA
17525095 TGTCAAAGAG
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
179 179 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.33
Consensus pattern (179 bp):
TTAATCTTGTCCTTGTACGTGGATGATTTATTAATTACTGGAGGTAATTCAACTCAGGTTAAGAA
ACTCAAGGAGTTATTGGAGAAAGAATTCAGCATGTCTGATCTTGGGTTAATGCCATACTTTCTAG
GAATTGAAGTCAAGGAGGAAGATGATGGCATTCTGTTATGTCAACAGAA
Found at i:17527135 original size:12 final size:13
Alignment explanation
Indices: 17527118--17527146 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17527108 AATATATGAA
17527118 TTTTTTTTTA-TT
1 TTTTTTTTTACTT
17527130 TTTTTTTTTACTT
1 TTTTTTTTTACTT
17527143 TTTT
1 TTTT
17527147 AATATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.07, C:0.03, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTACTT
Found at i:17527179 original size:17 final size:18
Alignment explanation
Indices: 17527159--17527197 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
17527149 TATTAATAAT
*
17527159 TTAATAATTTTT-AAATA
1 TTAAAAATTTTTAAAATA
17527176 TTAAAAATTTTTAAAATA
1 TTAAAAATTTTTAAAATA
17527194 TTAA
1 TTAA
17527198 CATGTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAAATTTTTAAAATA
Found at i:17527875 original size:22 final size:24
Alignment explanation
Indices: 17527847--17527893 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
17527837 AGGCAATAAT
17527847 AGGAAAAAAAG-AGAAAAAA-AAA
1 AGGAAAAAAAGAAGAAAAAAGAAA
*
17527869 AGGAAAATAAGAAGAAAAAAGAAA
1 AGGAAAAAAAGAAGAAAAAAGAAA
17527893 A
1 A
17527894 TATTTATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
23 8 0.36
24 4 0.18
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (24 bp):
AGGAAAAAAAGAAGAAAAAAGAAA
Found at i:17528891 original size:26 final size:26
Alignment explanation
Indices: 17528861--17528919 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
17528851 TATGACTATT
17528861 TCATCATGTAACATCAACATACCATG
1 TCATCATGTAACATCAACATACCATG
* *
17528887 TCATCATGTCACGTCAACATACCATG
1 TCATCATGTAACATCAACATACCATG
17528913 TCATCAT
1 TCATCAT
17528920 CCATTATGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (26 bp):
TCATCATGTAACATCAACATACCATG
Done.