Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 115 of 130
Found at i:22546547 original size:19 final size:19
Alignment explanation
Indices: 22546523--22546563 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
22546513 ATAAAAAAAT
22546523 AAAAAATAAAAGAATAAGA
1 AAAAAATAAAAGAATAAGA
*
22546542 AAAAAATAAAAGAATGAGA
1 AAAAAATAAAAGAATAAGA
22546561 AAA
1 AAA
22546564 TGTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (19 bp):
AAAAAATAAAAGAATAAGA
Found at i:22546549 original size:34 final size:34
Alignment explanation
Indices: 22546508--22546580 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
22546498 CTAATAGATG
22546508 AAAAAATAAAAAAAT-AAAAAATAAAAGAATAAGA
1 AAAAAATAAAAAAATGAAAAAATAAAA-AATAAGA
* * **
22546542 AAAAAATAAAAGAATGAGAAAATGTAAAATAAGA
1 AAAAAATAAAAAAATGAAAAAATAAAAAATAAGA
22546576 AAAAA
1 AAAAA
22546581 GGAATACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 26 0.76
35 8 0.24
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (34 bp):
AAAAAATAAAAAAATGAAAAAATAAAAAATAAGA
Found at i:22546552 original size:8 final size:8
Alignment explanation
Indices: 22546508--22546545 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
22546498 CTAATAGATG
22546508 AAAAAATA
1 AAAAAATA
22546516 AAAAAAT-
1 AAAAAATA
22546523 AAAAAATA
1 AAAAAATA
*
22546531 AAAGAATA
1 AAAAAATA
22546539 AGAAAAA
1 A-AAAAA
22546546 AATAAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 7 0.27
8 15 0.58
9 4 0.15
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:22547883 original size:21 final size:20
Alignment explanation
Indices: 22547835--22547896 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
22547825 TGGATAAAGT
*
22547835 TTTAAATGAGAACATTTGAG
1 TTTAAATGAGAATATTTGAG
22547855 TCTTAAATGAGAATATTTGAG
1 T-TTAAATGAGAATATTTGAG
* *
22547876 TTTCAAATAAGAATCTTTGAG
1 TTT-AAATGAGAATATTTGAG
22547897 ATATAAAGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.08
21 34 0.92
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (20 bp):
TTTAAATGAGAATATTTGAG
Found at i:22548463 original size:42 final size:42
Alignment explanation
Indices: 22548339--22548519 Score: 158
Period size: 42 Copynumber: 4.4 Consensus size: 42
22548329 TCGAGGAGCA
* ** * * *
22548339 TTTATTTTTTAAAGTTATTATGTATCTATTTAGAGGA-G-CA
1 TTTATTTTTTAAAGTTATTGTGCCTCTGTTTAGAAGAGGCCT
* * * *
22548379 TTTATTTTTCAAAGTTATTGTGCCTCTGCTT-GAAAAAGCCT
1 TTTATTTTTTAAAGTTATTGTGCCTCTGTTTAGAAGAGGCCT
*
22548420 TTTATTTTTTAAAGTTGTTGTGCCTCTGTTTAGAAGAGGCCT
1 TTTATTTTTTAAAGTTATTGTGCCTCTGTTTAGAAGAGGCCT
* * * *
22548462 TTTATTTTTCAAA-TTGTTAG-GCCTCTGTTTTAGATG-GAACCT
1 TTTATTTTTTAAAGTTATT-GTGCCTCTG-TTTAGAAGAG-GCCT
22548504 TTTATTTTTTAAAGTT
1 TTTATTTTTTAAAGTT
22548520 TTTTAGGCTT
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 26 0.22
41 42 0.36
42 43 0.37
43 2 0.02
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (42 bp):
TTTATTTTTTAAAGTTATTGTGCCTCTGTTTAGAAGAGGCCT
Found at i:22548479 original size:41 final size:41
Alignment explanation
Indices: 22548379--22548491 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
22548369 TAGAGGAGCA
* *
22548379 TTTATTTTTCAAAGTTATTGTGCCTCTGCTTGAAAAAGCCT
1 TTTATTTTTCAAAGTTGTTGTGCCTCTGTTTGAAAAAGCCT
* * *
22548420 TTTATTTTTTAAAGTTGTTGTGCCTCTGTTTAGAAGAGGCCT
1 TTTATTTTTCAAAGTTGTTGTGCCTCTGTTT-GAAAAAGCCT
22548462 TTTATTTTTCAAA-TTGTTAG-GCCTCTGTTT
1 TTTATTTTTCAAAGTTGTT-GTGCCTCTGTTT
22548492 TAGATGGAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
41 43 0.67
42 21 0.33
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.49
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTGTTGTGCCTCTGTTTGAAAAAGCCT
Found at i:22548636 original size:124 final size:126
Alignment explanation
Indices: 22548411--22548643 Score: 269
Period size: 124 Copynumber: 1.9 Consensus size: 126
22548401 CCTCTGCTTG
** * * *
22548411 AAAAAGCCTTTTATTTTTTAAAGTTGTTGTGCCTCTGTTTAGAAGAGGCCTTTTATTTTTCAAAT
1 AAAAAGCCTTTTATTTTTTAAAGTTGTTAAGCCTCTATGTAGAAGAGGCCTTTTATTTTTCAAAC
** *
22548476 TGTTAGGCCTCTGTTTTAGATGGAACCTTTTATTTTTT-AAAGTTTTTTAGGCTTTGTCGA
66 AATTAGGCCTCTGTTGTAGATGGAACCTTTTATTTTTTCAAAGTTTTTTAGGCTTTGTCGA
* * *
22548536 AAAAAGCC-TTTATTTTTTAAAGTTTTTAAGCCTCTATGTATATGA-GCCTTATT-TTTTTCAAA
1 AAAAAGCCTTTTATTTTTTAAAGTTGTTAAGCCTCTATGTAGAAGAGGCCTT-TTATTTTTCAAA
* * * *
22548598 CCAATTTGGCCTTTGTTGTAGA-GGAGCCTTTATTTTTTTTCAAAGT
65 -CAATTAGGCCTCTGTTGTAGATGGAACCTTT-TATTTTTTCAAAGT
22548644 CGTGAGCCGT
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
123 22 0.25
124 54 0.61
125 13 0.15
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (126 bp):
AAAAAGCCTTTTATTTTTTAAAGTTGTTAAGCCTCTATGTAGAAGAGGCCTTTTATTTTTCAAAC
AATTAGGCCTCTGTTGTAGATGGAACCTTTTATTTTTTCAAAGTTTTTTAGGCTTTGTCGA
Found at i:22548688 original size:42 final size:43
Alignment explanation
Indices: 22548616--22548704 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 43
22548606 GCCTTTGTTG
*
22548616 TAGAGGAGCCTTTATTTTTTTTCAAAGTCG-TGAGCCGTCTATT
1 TAGAAGAGCCTTTATTTTTTTTCAAAGTCGTTGAG-CGTCTATT
*
22548659 TAGAAGAGCCTTTA-TTTTTTTCAAAGTCGTTGAGCTTCTATT
1 TAGAAGAGCCTTTATTTTTTTTCAAAGTCGTTGAGCGTCTATT
22548701 TAGA
1 TAGA
22548705 GGAGTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 26 0.60
43 17 0.40
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (43 bp):
TAGAAGAGCCTTTATTTTTTTTCAAAGTCGTTGAGCGTCTATT
Found at i:22549184 original size:20 final size:21
Alignment explanation
Indices: 22549148--22549199 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
22549138 CCCGAAATTA
22549148 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
22549170 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
22549191 AT-AAATATT
1 ATAAAATATT
22549200 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:22549190 original size:21 final size:22
Alignment explanation
Indices: 22549148--22549199 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
22549138 CCCGAAATTA
22549148 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
22549170 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
22549191 AT-AAATATT
1 ATAAAATATT
22549200 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:22549207 original size:30 final size:30
Alignment explanation
Indices: 22549172--22549228 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
22549162 TTTAAAATAT
* * *
22549172 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
22549202 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
22549229 AATTAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:22549745 original size:19 final size:18
Alignment explanation
Indices: 22549721--22549775 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
22549711 TCATTTCATT
22549721 TTTTTAGGTATTTTTTGTA
1 TTTTTA-GTATTTTTTGTA
* *
22549740 TTTTTATTTATTTTTTATGTT
1 TTTTTA-GTA-TTTTT-TGTA
22549761 TTTTTAGTATTTTTT
1 TTTTTAGTATTTTTT
22549776 ACATGATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.03
19 13 0.43
20 7 0.23
21 9 0.30
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (18 bp):
TTTTTAGTATTTTTTGTA
Found at i:22549776 original size:10 final size:11
Alignment explanation
Indices: 22549720--22549776 Score: 61
Period size: 10 Copynumber: 5.6 Consensus size: 11
22549710 GTCATTTCAT
*
22549720 TTTTTTAGGTA
1 TTTTTTATGTA
22549731 -TTTTT-TGTA
1 TTTTTTATGTA
*
22549740 -TTTTTATTTA
1 TTTTTTATGTA
22549750 TTTTTTATGT-
1 TTTTTTATGTA
22549760 TTTTTTA-GTA
1 TTTTTTATGTA
22549770 TTTTTTA
1 TTTTTTA
22549777 CATGATTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 10 0.25
10 22 0.55
11 8 0.20
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (11 bp):
TTTTTTATGTA
Found at i:22549806 original size:14 final size:14
Alignment explanation
Indices: 22549789--22549821 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22549779 TGATTAAATT
22549789 TAAAAAAA-AAAGAA
1 TAAAAAAATAAA-AA
22549803 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
22549817 TAAAA
1 TAAAA
22549822 TTTTTTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:22554454 original size:6 final size:6
Alignment explanation
Indices: 22554443--22554474 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
22554433 CAAATGTGTT
22554443 TTTTTC TTTTTC TTTTTC TTTTT- TTTTT- TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
22554475 GTTTAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (6 bp):
TTTTTC
Found at i:22555803 original size:27 final size:27
Alignment explanation
Indices: 22555772--22555938 Score: 83
Period size: 29 Copynumber: 6.1 Consensus size: 27
22555762 ACTCTTGTAA
22555772 TAAAATTTTAATATAATATTTAAATTT
1 TAAAATTTTAATATAATATTTAAATTT
* * *
22555799 TAAAAATTTATAATATGACATTTAAATTA
1 T-AAAATTT-TAATATAATATTTAAATTT
* * *
22555828 TAAATTTATTAATA-AATA-TGATA-TT
1 TAAAATT-TTAATATAATATTTAAATTT
* * * *
22555853 T--ATTTTTAATATATTAATTAATTAATT
1 TAAAATTTTAATATAATATTTAA--ATTT
* * *
22555880 TATAATTTAAATATTATATTATAAATATT
1 TAAAATTTTAATATAATATT-TAAAT-TT
* * *
22555909 TAAAATTTAAATATCATATTAAATATTT
1 TAAAATTTTAATATAATATTTAA-ATTT
22555937 TA
1 TA
22555939 TTATAATTAA
Statistics
Matches: 106, Mismatches: 21, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
22 6 0.06
23 7 0.07
24 2 0.02
25 2 0.02
26 4 0.04
27 6 0.06
28 24 0.23
29 52 0.49
30 3 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (27 bp):
TAAAATTTTAATATAATATTTAAATTT
Found at i:22555909 original size:29 final size:27
Alignment explanation
Indices: 22555877--22555936 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
22555867 TAATTAATTA
* *
22555877 ATTTATAATTTAAATATTATATTATAAAT
1 ATTTAAAATTTAAATATCATA-T-TAAAT
22555906 ATTTAAAATTTAAATATCATATTAAAT
1 ATTTAAAATTTAAATATCATATTAAAT
22555933 ATTT
1 ATTT
22555937 TATTATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 9 0.31
28 1 0.03
29 19 0.66
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTAAAATTTAAATATCATATTAAAT
Found at i:22556722 original size:3 final size:3
Alignment explanation
Indices: 22556714--22556749 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
22556704 AAAATTACAA
*
22556714 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22556750 AAGGTGTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22562083 original size:1 final size:1
Alignment explanation
Indices: 22562077--22562102 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
22562067 CATGTATCTG
22562077 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
22562103 GGAAGTGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22565578 original size:32 final size:32
Alignment explanation
Indices: 22565546--22565607 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
22565536 TATAAAAATA
*
22565546 AATTTAAT-TTTATATTT-AATAAAAATTTAAT
1 AATTT-ATGTTTAAATTTGAATAAAAATTTAAT
*
22565577 AATTTATGTTTAAATTTGAATTAAAATTTAA
1 AATTTATGTTTAAATTTGAATAAAAATTTAA
22565608 AATATTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 2 0.07
31 13 0.48
32 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (32 bp):
AATTTATGTTTAAATTTGAATAAAAATTTAAT
Found at i:22567924 original size:104 final size:103
Alignment explanation
Indices: 22567740--22567933 Score: 259
Period size: 104 Copynumber: 1.9 Consensus size: 103
22567730 TGAAGTGGTA
* * *
22567740 AATAATGTTTGGTCCAATGAAGCTAAATATCTTCTTGTAGTGTCAACTTAGATCATTTTTTAATT
1 AATAATGTTTGGTCCAATGAAGCTAAATATCTTCTTCTAG-GTCAACTCAAATCATTTTTTAATT
* * *
22567805 TTAGTGTCAACTTAAATCATTACAAGAAATTATTATTAT
65 TTAGTATAAAATTAAATCATTACAAGAAATTATTATTAT
22567844 AATAATGTTTGGTCCAATGAAGCTAAATATCTTCTTCTA-G-C-ACTCAAATCATTTTTTAATTT
1 AATAATGTTTGGTCCAATGAAGCTAAATATCTTCTTCTAGGTCAACTCAAATCATTTTTTAA--T
*
22567906 TATTATTATAATAATTAAATCATTACAA
64 T-TTAGTATAA-AATTAAATCATTACAA
22567934 TGATCTTAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
100 16 0.20
101 1 0.01
102 3 0.04
103 6 0.08
104 53 0.67
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (103 bp):
AATAATGTTTGGTCCAATGAAGCTAAATATCTTCTTCTAGGTCAACTCAAATCATTTTTTAATTT
TAGTATAAAATTAAATCATTACAAGAAATTATTATTAT
Found at i:22568386 original size:18 final size:17
Alignment explanation
Indices: 22568341--22568391 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
22568331 TGAGTTGATA
*
22568341 TAAATTAAATTTAAGTT
1 TAAATTAAATTTAAATT
* *
22568358 TCAATTCAATTTAAATT
1 TAAATTAAATTTAAATT
*
22568375 TAAAATTTAATTTAAAT
1 T-AAATTAAATTTAAAT
22568392 ACGATTGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
TAAATTAAATTTAAATT
Found at i:22575756 original size:13 final size:13
Alignment explanation
Indices: 22575738--22575764 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22575728 TTCACCCCTC
22575738 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
22575751 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
22575764 T
1 T
22575765 TTTCAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:22576470 original size:32 final size:31
Alignment explanation
Indices: 22576404--22576470 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
22576394 ATTTGAGTTC
* * *
22576404 AATTAAATTTATTTTTTTGAACTTGATTTAT
1 AATTAAATTGATTTTTTTGAACTAGAATTAT
*
22576435 AATTTAATTGATTTTTTTGAAATCTAGAATT-T
1 AATTAAATTGATTTTTTTG-AA-CTAGAATTAT
22576467 AATT
1 AATT
22576471 GAGTTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 17 0.57
32 7 0.23
33 6 0.20
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (31 bp):
AATTAAATTGATTTTTTTGAACTAGAATTAT
Found at i:22586707 original size:32 final size:31
Alignment explanation
Indices: 22586658--22586717 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
22586648 TAAATTTAAT
* *
22586658 TTTATATTTAATAAAAATTTAATTATTTGTA
1 TTTAAATTTAATAAAAATTTAAATATTTGTA
*
22586689 TTTAAATTTGAATTAAAATTTAAATATTT
1 TTTAAATTT-AATAAAAATTTAAATATTT
22586718 TATCAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTAAATTTAATAAAAATTTAAATATTTGTA
Found at i:22594639 original size:31 final size:31
Alignment explanation
Indices: 22594574--22594639 Score: 73
Period size: 30 Copynumber: 2.1 Consensus size: 31
22594564 ATTCGAGTTC
* * *
22594574 AATTAAATTTATTTTTTTGAACTTGATTTAT
1 AATTAAATTGATTTTTTTGAACTAGAATTAT
22594605 AATT-AATTGATTTTTTTGAAATCTAGAATT-T
1 AATTAAATTGATTTTTTTG-AA-CTAGAATTAT
22594636 AATT
1 AATT
22594640 GAGTTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 13 0.43
31 11 0.37
32 6 0.20
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
AATTAAATTGATTTTTTTGAACTAGAATTAT
Found at i:22607134 original size:11 final size:11
Alignment explanation
Indices: 22607104--22607147 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
22607094 CATCAAAAAG
22607104 ATTTTCATTTTT
1 ATTTT-ATTTTT
*
22607116 ATCATTATTTTT
1 AT-TTTATTTTT
22607128 ATTTTATTTTT
1 ATTTTATTTTT
22607139 ATTTT-TTTT
1 ATTTTATTTT
22607148 ACATTAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 4 0.14
11 13 0.45
12 10 0.34
13 2 0.07
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:22614406 original size:15 final size:17
Alignment explanation
Indices: 22614374--22614411 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
22614364 TTCATATGAT
*
22614374 TTTTTTTATGTTTGTAA
1 TTTTTTTATGATTGTAA
22614391 TTTTTTTA-GATT-TAA
1 TTTTTTTATGATTGTAA
22614406 TTTTTT
1 TTTTTT
22614412 ATTGGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 3 0.15
17 8 0.40
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (17 bp):
TTTTTTTATGATTGTAA
Found at i:22615829 original size:6 final size:6
Alignment explanation
Indices: 22615814--22615846 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
22615804 TTTGAAAATA
22615814 TTTTATT TTTTAT TTTTAT TTTTA- TTTTAT TTT
1 TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTT
22615847 ACATTAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 15 0.60
7 5 0.20
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:22619112 original size:23 final size:24
Alignment explanation
Indices: 22619041--22619118 Score: 99
Period size: 24 Copynumber: 3.3 Consensus size: 24
22619031 ATCTATATTT
*
22619041 TTTCATTAATACAATTCATAATTG
1 TTTCATTTATACAATTCATAATTG
*
22619065 TTTCATTTATACAA-ACA-ACATT-
1 TTTCATTTATACAATTCATA-ATTG
22619087 TGTTCATTTATACAATTCATAATTG
1 T-TTCATTTATACAATTCATAATTG
22619112 TTTCATT
1 TTTCATT
22619119 CATAATTGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 2 0.04
23 18 0.39
24 24 0.52
25 2 0.04
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (24 bp):
TTTCATTTATACAATTCATAATTG
Found at i:22619121 original size:15 final size:15
Alignment explanation
Indices: 22619101--22619133 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
22619091 CATTTATACA
22619101 ATTCATAATTGTTTC
1 ATTCATAATTGTTTC
22619116 ATTCATAATTGTTTC
1 ATTCATAATTGTTTC
22619131 ATT
1 ATT
22619134 TATACAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTCATAATTGTTTC
Found at i:22619276 original size:26 final size:26
Alignment explanation
Indices: 22619222--22619276 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
22619212 TTATGGTTCA
* * * **
22619222 TATCTAAATTCAATCTATGTTTGTTG
1 TATCCAAATTCAATCTATATTGGCAG
22619248 TATCCAAATTCAATCTATATTGGCAG
1 TATCCAAATTCAATCTATATTGGCAG
22619274 TAT
1 TAT
22619277 ATATATACAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (26 bp):
TATCCAAATTCAATCTATATTGGCAG
Found at i:22619368 original size:32 final size:31
Alignment explanation
Indices: 22619317--22619383 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 31
22619307 AAACTGTAAC
*
22619317 TCAATCATATTTGTTGTATCCAAATCCAAAT
1 TCAATCATATTTGTCGTATCCAAATCCAAAT
*
22619348 TCAATCTATGTTTGTCGTATCCAAATCCAAAT
1 TCAATC-ATATTTGTCGTATCCAAATCCAAAT
22619380 TCAA
1 TCAA
22619384 GCTGTCAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 6 0.18
32 27 0.82
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.37
Consensus pattern (31 bp):
TCAATCATATTTGTCGTATCCAAATCCAAAT
Found at i:22624074 original size:4 final size:4
Alignment explanation
Indices: 22624065--22624096 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
22624055 CCACTTGATT
*
22624065 TTTA TTTA TTTA TTTA TTTA TTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
22624097 ATTAATAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:22627272 original size:21 final size:22
Alignment explanation
Indices: 22627240--22627283 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
22627230 AAAAAATAAA
*
22627240 AAAATCATAAAAATTAC-TTTT
1 AAAATCATAAAAAGTACATTTT
22627261 AAAAT-ATAAAAAAGTACATTTT
1 AAAATCAT-AAAAAGTACATTTT
22627283 A
1 A
22627284 GATATTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 13 0.65
22 5 0.25
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAATCATAAAAAGTACATTTT
Found at i:22627784 original size:21 final size:23
Alignment explanation
Indices: 22627754--22627806 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
22627744 GATATTTTTA
22627754 AATA-TTTATA-TTT-AAAAAAT
1 AATATTTTATATTTTAAAAAAAT
22627774 AATATTTTATATTTTAAAAAAAT
1 AATATTTTATATTTTAAAAAAAT
22627797 AATATTTTAT
1 AATATTTTAT
22627807 TAATTTCGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 3 0.10
23 17 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATATTTTATATTTTAAAAAAAT
Found at i:22632100 original size:15 final size:14
Alignment explanation
Indices: 22632075--22632106 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
22632065 ATTAAAACTT
22632075 TTTGAAAATTAAAA
1 TTTGAAAATTAAAA
22632089 TTTGATAAATTAAAA
1 TTTGA-AAATTAAAA
22632104 TTT
1 TTT
22632107 TTCAAGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
TTTGAAAATTAAAA
Found at i:22632187 original size:17 final size:17
Alignment explanation
Indices: 22632165--22632197 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22632155 CCATTTGTTA
22632165 AAATTT-TTTATCTATAC
1 AAATTTCTTT-TCTATAC
22632182 AAATTTCTTTTCTATA
1 AAATTTCTTTTCTATA
22632198 AGTTACCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATTTCTTTTCTATAC
Found at i:22633151 original size:21 final size:22
Alignment explanation
Indices: 22633127--22633195 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 22
22633117 CCAAGCTTCA
22633127 TTTTATTATTTT-CTTTCTCTT
1 TTTTATTATTTTACTTTCTCTT
*
22633148 TTTTA-GATTTTACTTTCTCTAT
1 TTTTATTATTTTACTTTCTCT-T
*
22633170 TTTTCCTTATTTTACTTT-T-TT
1 TTTT-ATTATTTTACTTTCTCTT
22633191 TTTTA
1 TTTTA
22633196 CTAGATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
20 5 0.12
21 18 0.45
22 6 0.15
23 1 0.03
24 10 0.25
ACGTcount: A:0.13, C:0.13, G:0.01, T:0.72
Consensus pattern (22 bp):
TTTTATTATTTTACTTTCTCTT
Found at i:22637071 original size:16 final size:16
Alignment explanation
Indices: 22637050--22637083 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22637040 ATAAATGCTG
*
22637050 TAAATTCATAAATAAT
1 TAAATTCAAAAATAAT
*
22637066 TAAATTTAAAAATAAT
1 TAAATTCAAAAATAAT
22637082 TA
1 TA
22637084 GATCCATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATTCAAAAATAAT
Found at i:22637586 original size:30 final size:30
Alignment explanation
Indices: 22637552--22637608 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
22637542 ATTTTTCTCT
* *
22637552 AAAAACAAACAAA-AGA-AAAAAGTCAAGA
1 AAAAAAAAAAAAACAGAGAAAAAGTCAAGA
22637580 AAAAAAAAAAAAACAGAGAAAAAGTCAAG
1 AAAAAAAAAAAAACAGAGAAAAAGTCAAG
22637609 GATTTGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.44
29 3 0.12
30 11 0.44
ACGTcount: A:0.75, C:0.09, G:0.12, T:0.04
Consensus pattern (30 bp):
AAAAAAAAAAAAACAGAGAAAAAGTCAAGA
Found at i:22642717 original size:16 final size:16
Alignment explanation
Indices: 22642680--22642724 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
22642670 TAAAATTTAT
22642680 TAAAAATTTAATAAAA
1 TAAAAATTTAATAAAA
*
22642696 TGAAAATTTAATAATAA
1 TAAAAATTTAATAA-AA
*
22642713 AAAAATATTTAA
1 TAAAA-ATTTAA
22642725 ATTAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
17 5 0.21
18 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAAATTTAATAAAA
Found at i:22642816 original size:2 final size:2
Alignment explanation
Indices: 22642809--22642834 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22642799 TAAATGATGC
22642809 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
22642835 CTTAGTCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22644793 original size:31 final size:32
Alignment explanation
Indices: 22644735--22644807 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
22644725 TGAATAATTT
22644735 AAAAATTAAAGACTAAAGTGAAACTAAAAT-A
1 AAAAATTAAAGACTAAAGTGAAACTAAAATGA
* ***
22644766 AAAAATTAAGGACTAAAGTGTCGCTAAAATGA
1 AAAAATTAAAGACTAAAGTGAAACTAAAATGA
*
22644798 AAAAGTTAAA
1 AAAAATTAAA
22644808 TGTCATGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 26 0.74
32 9 0.26
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (32 bp):
AAAAATTAAAGACTAAAGTGAAACTAAAATGA
Found at i:22645082 original size:29 final size:30
Alignment explanation
Indices: 22645032--22645106 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
22645022 CCAACTTTCT
* *
22645032 TAAATAAATTTTTA-TATTTAA-TTATA-C
1 TAAATAAGTTTTTATTTTTTAATTTATATC
*
22645059 TCAAATGAGTTTTTATTTTTTAATTTATATC
1 T-AAATAAGTTTTTATTTTTTAATTTATATC
*
22645090 TAAATAAGTTTTAATTT
1 TAAATAAGTTTTTATTT
22645107 CAAACAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 11 0.28
29 6 0.15
30 19 0.49
31 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (30 bp):
TAAATAAGTTTTTATTTTTTAATTTATATC
Found at i:22645182 original size:30 final size:30
Alignment explanation
Indices: 22645148--22645235 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
22645138 ATTTAAGAAT
*
22645148 AAATTAAAAGTTAAAAACTTATTTGAATAC
1 AAATTAAAAGTTAAAAACTTATTTAAATAC
* * ** *
22645178 AAATTAAAAATCAAAAACTTATTTCTATGC
1 AAATTAAAAGTTAAAAACTTATTTAAATAC
*
22645208 -AA-TAAAAGTATAAAAATTTATTTAAATA
1 AAATTAAAAGT-TAAAAACTTATTTAAATA
22645236 AGTAGATAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
28 6 0.13
29 15 0.33
30 25 0.54
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (30 bp):
AAATTAAAAGTTAAAAACTTATTTAAATAC
Found at i:22656037 original size:19 final size:19
Alignment explanation
Indices: 22656015--22656052 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22656005 TATTATTAAA
22656015 AAATGTTATTATTACATAT
1 AAATGTTATTATTACATAT
* *
22656034 AAATTTTATTATTATATAT
1 AAATGTTATTATTACATAT
22656053 TATATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
AAATGTTATTATTACATAT
Found at i:22656534 original size:22 final size:22
Alignment explanation
Indices: 22656506--22656548 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22656496 TTTTTTTTTT
22656506 ATTTTTATCAAAATTATAAATA
1 ATTTTTATCAAAATTATAAATA
* *
22656528 ATTTTTATTAAAATTTTAAAT
1 ATTTTTATCAAAATTATAAAT
22656549 CATTGTCGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTTATCAAAATTATAAATA
Found at i:22656594 original size:29 final size:29
Alignment explanation
Indices: 22656561--22656621 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
22656551 TTGTCGTGTC
22656561 TTTTTTTTATATCGTCCTACCATATCATA
1 TTTTTTTTATATCGTCCTACCATATCATA
*
22656590 TTTTTTTTATATCGTCCTATCATATCATA
1 TTTTTTTTATATCGTCCTACCATATCATA
22656619 TTT
1 TTT
22656622 AAAATTGACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.18, G:0.03, T:0.56
Consensus pattern (29 bp):
TTTTTTTTATATCGTCCTACCATATCATA
Found at i:22662326 original size:19 final size:19
Alignment explanation
Indices: 22662302--22662352 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
22662292 ATTATATATT
22662302 ATATTTATATTTAAAAA-TA
1 ATATTT-TATTTAAAAATTA
22662321 ATATTTTATATTAAAAATTA
1 ATATTTTAT-TTAAAAATTA
22662341 AT-TTTTATTTAA
1 ATATTTTATTTAA
22662353 TCAATTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.23
19 19 0.63
20 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTTTATTTAAAAATTA
Found at i:22662328 original size:20 final size:19
Alignment explanation
Indices: 22662305--22662352 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
22662295 ATATATTATA
22662305 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAA-AT
*
22662325 TTTATA-TTAAAAATTAAT
1 TTTATATTTAAAAATAAAT
22662343 TTT-TATTTAA
1 TTTATATTTAA
22662353 TCAATTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 9 0.35
19 9 0.35
20 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATATTTAAAAATAAAT
Found at i:22663231 original size:16 final size:16
Alignment explanation
Indices: 22663212--22663244 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22663202 TTTTCACAAA
*
22663212 AAAATTATTTATGAAT
1 AAAATTATTTATCAAT
22663228 AAAATTATTTATCAAT
1 AAAATTATTTATCAAT
22663244 A
1 A
22663245 TTTTTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAATTATTTATCAAT
Found at i:22663274 original size:22 final size:21
Alignment explanation
Indices: 22663249--22663333 Score: 65
Period size: 22 Copynumber: 4.1 Consensus size: 21
22663239 TCAATATTTT
22663249 TATTATAATTTTTAATAAATAA
1 TATTATAA-TTTTAATAAATAA
*
22663271 TATTAT-ATTAATAAATAAATAA
1 TATTATAATT--TTAATAAATAA
22663293 -ATTTATAA---TAATAAATAA
1 TA-TTATAATTTTAATAAATAA
* *
22663311 TA-TATTATATTAATAAATAA
1 TATTATAATTTTAATAAATAA
22663331 TAT
1 TAT
22663334 ATTAATATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
17 4 0.08
18 9 0.18
19 1 0.02
20 14 0.27
21 2 0.04
22 20 0.39
23 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTATAATTTTAATAAATAA
Found at i:22663283 original size:18 final size:18
Alignment explanation
Indices: 22663260--22663352 Score: 93
Period size: 22 Copynumber: 5.0 Consensus size: 18
22663250 ATTATAATTT
22663260 TTAATAAATAATATTATA
1 TTAATAAATAATATTATA
22663278 TTAATAAATAAATAAATTTATA
1 TTAATAAAT-AAT--A-TTATA
*
22663300 ATAATAAATAATATATTATA
1 TTAATAAAT-A-ATATTATA
22663320 TTAATAAAT-A-A-TATA
1 TTAATAAATAATATTATA
*
22663335 TTAATATATAATATTATA
1 TTAATAAATAATATTATA
22663353 ATATATTGAT
Statistics
Matches: 64, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
15 12 0.19
16 2 0.03
17 2 0.03
18 13 0.20
19 3 0.05
20 13 0.20
21 2 0.03
22 15 0.23
23 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAATAAATAATATTATA
Found at i:22663314 original size:15 final size:15
Alignment explanation
Indices: 22663261--22663355 Score: 56
Period size: 15 Copynumber: 6.3 Consensus size: 15
22663251 TTATAATTTT
22663261 TAATAAATAATATTATA
1 TAATAAATAATA-TA-A
22663278 TTAATAAATAA-ATAA
1 -TAATAAATAATATAA
*
22663293 -ATTTATAATAATA-AA
1 TA-ATA-AATAATATAA
* *
22663308 TAAT--ATATTATAT
1 TAATAAATAATATAA
*
22663321 TAATAAATAATATAT
1 TAATAAATAATATAA
* *
22663336 TAATATATAATATTA
1 TAATAAATAATATAA
22663351 TAATA
1 TAATA
22663356 TATTGATAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
12 5 0.08
13 6 0.10
14 2 0.03
15 34 0.55
16 4 0.06
17 1 0.02
18 10 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATAAATAATATAA
Found at i:22663340 original size:38 final size:38
Alignment explanation
Indices: 22663261--22663375 Score: 119
Period size: 38 Copynumber: 3.0 Consensus size: 38
22663251 TTATAATTTT
*
22663261 TAATAAAT-A-ATATTATATTAATAAATAAATAAATTTATAA
1 TAATAAATAATATATTATATTAATAAAT-AAT--ATAT-TAA
22663301 TAATAAATAATATATTATATTAATAAATAATATATTAA
1 TAATAAATAATATATTATATTAATAAATAATATATTAA
* * * *
22663339 T-ATATAATATTATAATATATTGATAAACAATATATTA
1 TAATA-AATAATATATTATATTAATAAATAATATATTA
22663376 TAACATATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
37 3 0.04
38 32 0.48
39 3 0.04
40 8 0.12
41 4 0.06
42 17 0.25
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (38 bp):
TAATAAATAATATATTATATTAATAAATAATATATTAA
Found at i:22663356 original size:15 final size:14
Alignment explanation
Indices: 22663300--22663358 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
22663290 TAAATTTATA
*
22663300 ATAATAAATAATAT
1 ATAATATATAATAT
* *
22663314 ATTATAT-TAATAA
1 ATAATATATAATAT
22663327 ATAATATATTAATAT
1 ATAATATA-TAATAT
22663342 ATAATATTATAATAT
1 ATAATA-TATAATAT
22663357 AT
1 AT
22663359 TGATAAACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
13 11 0.30
14 5 0.14
15 19 0.51
16 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATATATAATAT
Found at i:22663370 original size:23 final size:23
Alignment explanation
Indices: 22663327--22663385 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
22663317 ATATTAATAA
* *
22663327 ATAATATATTAATATATAATATT
1 ATAATATATTAATAAACAATATT
*
22663350 ATAATATATTGATAAACAATATATT
1 ATAATATATTAATAAAC-A-ATATT
*
22663375 ATAACATATTA
1 ATAATATATTA
22663386 TTATATTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 14 0.48
24 1 0.03
25 14 0.48
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAATATATTAATAAACAATATT
Found at i:22663388 original size:38 final size:38
Alignment explanation
Indices: 22663260--22663390 Score: 108
Period size: 38 Copynumber: 3.5 Consensus size: 38
22663250 ATTATAATTT
* * * * *
22663260 TTAATAAATAATATTATATTA-ATAAATAAATAA-ATT
1 TTAATACATAATATTATAATATATTAATAAACAATATA
* * *
22663296 TATAATA-ATAAATAATATATTATATTAATAAATAATATA
1 T-TAATACAT-AATATTATAATATATTAATAAACAATATA
* *
22663335 TTAATATATAATATTATAATATATTGATAAACAATATA
1 TTAATACATAATATTATAATATATTAATAAACAATATA
*
22663373 TT-ATAACATATTATTATA
1 TTAAT-ACATAATATTATA
22663391 TTTGTTTGTG
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
36 3 0.04
37 18 0.22
38 54 0.68
39 5 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.43
Consensus pattern (38 bp):
TTAATACATAATATTATAATATATTAATAAACAATATA
Found at i:22669048 original size:90 final size:89
Alignment explanation
Indices: 22668935--22669183 Score: 384
Period size: 90 Copynumber: 2.8 Consensus size: 89
22668925 AAAAATGATA
* *
22668935 TCATGATAAATAACCAAGCTTCATATCAATTATAGCAAGCTAAAATTCCATAAGATCTCAGAAGT
1 TCATGATAAATAACCAAGCTTCAT-TCAATTATAGTAAGCTAAAATTCCATAAGATCTTAGAAGT
*
22669000 TCTTGTCTTTTTTCCAATTAGGATG
65 TCTTATCTTTTTTCCAATTAGGATG
*
22669025 TCATGATAAATAACCAAGCTTCATGTCAATTATAGTAAGTTAAAATTCCATAAGATCTTAGAAGT
1 TCATGATAAATAACCAAGCTTCAT-TCAATTATAGTAAGCTAAAATTCCATAAGATCTTAGAAGT
*
22669090 TCCTATCTTTTTTCCAATTAGGATG
65 TCTTATCTTTTTTCCAATTAGGATG
*
22669115 TCATGATAAATAACCAAG---C-TTC-A-TATAGTAAGCTAAAATTCCACAAGATCTTAGAAGTT
1 TCATGATAAATAACCAAGCTTCATTCAATTATAGTAAGCTAAAATTCCATAAGATCTTAGAAGTT
22669174 CTTATCTTTT
66 CTTATCTTTT
22669184 CTCTTCATCA
Statistics
Matches: 150, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
83 43 0.29
84 1 0.01
85 2 0.01
86 1 0.01
87 1 0.01
90 102 0.68
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (89 bp):
TCATGATAAATAACCAAGCTTCATTCAATTATAGTAAGCTAAAATTCCATAAGATCTTAGAAGTT
CTTATCTTTTTTCCAATTAGGATG
Found at i:22676038 original size:22 final size:20
Alignment explanation
Indices: 22675988--22676038 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
22675978 AATTAATTTT
*
22675988 AATTATATTTTTAAGATTAA
1 AATTTTATTTTTAAGATTAA
22676008 ATATATTTATTTTTAAGATTTTAA
1 A-AT-TTTATTTTTAAGA--TTAA
22676032 AATTTTA
1 AATTTTA
22676039 AAGTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 2 0.08
22 16 0.62
23 2 0.08
24 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
AATTTTATTTTTAAGATTAA
Found at i:22677239 original size:8 final size:8
Alignment explanation
Indices: 22677228--22677258 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
22677218 TATTATAATT
22677228 TATATTAA
1 TATATTAA
22677236 TATATTAA
1 TATATTAA
22677244 TATATTAAA
1 TATATT-AA
22677253 TATATT
1 TATATT
22677259 TTTTTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATATTAA
Found at i:22683097 original size:5 final size:5
Alignment explanation
Indices: 22683087--22683112 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22683077 ACAAACCATG
22683087 TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
22683113 CCGGATCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:22690963 original size:16 final size:17
Alignment explanation
Indices: 22690942--22690974 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
22690932 AACATCTCTA
22690942 ACATCCAT-AAAATATT
1 ACATCCATAAAAATATT
22690958 ACATCCATAAAAATATT
1 ACATCCATAAAAATATT
22690975 TATAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (17 bp):
ACATCCATAAAAATATT
Found at i:22691889 original size:24 final size:24
Alignment explanation
Indices: 22691860--22691907 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
22691850 AATTACTTAA
22691860 ACTTTTAAGTTTATTTAATTTATT
1 ACTTTTAAGTTTATTTAATTTATT
22691884 ACTTTTAAGTTTATTTAATTTATT
1 ACTTTTAAGTTTATTTAATTTATT
22691908 CATGTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (24 bp):
ACTTTTAAGTTTATTTAATTTATT
Found at i:22693749 original size:13 final size:14
Alignment explanation
Indices: 22693725--22693763 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22693715 ATTGGTAATC
*
22693725 CATTGATAAAAT-T
1 CATTGGTAAAATGT
*
22693738 CGTTGGTAAAATGT
1 CATTGGTAAAATGT
22693752 CATTGGTAAAAT
1 CATTGGTAAAAT
22693764 CCATCGGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (14 bp):
CATTGGTAAAATGT
Found at i:22693759 original size:14 final size:13
Alignment explanation
Indices: 22693725--22693773 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
22693715 ATTGGTAATC
*
22693725 CATTGATAAAATT
1 CATTGGTAAAATT
*
22693738 CGTTGGTAAAATGT
1 CATTGGTAAAAT-T
*
22693752 CATTGGTAAAATC
1 CATTGGTAAAATT
*
22693765 CATCGGTAA
1 CATTGGTAA
22693774 TCTGTTGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 18 0.60
14 12 0.40
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (13 bp):
CATTGGTAAAATT
Found at i:22697968 original size:60 final size:57
Alignment explanation
Indices: 22697752--22698042 Score: 318
Period size: 60 Copynumber: 5.0 Consensus size: 57
22697742 AAAAAATATA
* * *
22697752 AAATAAAACTTTCAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTG
1 AAATAAAAATTT-AAAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * * *
22697810 AAA-AAAAATCT-CAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTACTTAA
1 AAATAAAAATTTAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-G
** * *
22697866 AAATAAAAATTTTTAAAAAGTATTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTG
1 AAATAAAAATTTAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * *
22697923 AAATTAAAATTTCAGAAAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAATTTTTCTTAA
1 AAATAAAAATTT---AAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-G
* *
22697984 AAATAAAAATTATAAAAAAAATATTTTTAAGGACAAGTTGAAAGTATCAATTTTTCTTG
1 AAATAAAAATT-TAAAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
22698043 TATAAAAGCA
Statistics
Matches: 194, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
54 24 0.12
55 13 0.07
56 3 0.02
57 24 0.12
58 41 0.21
59 10 0.05
60 68 0.35
61 10 0.05
62 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (57 bp):
AAATAAAAATTTAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:22698049 original size:118 final size:114
Alignment explanation
Indices: 22697751--22698042 Score: 399
Period size: 118 Copynumber: 2.5 Consensus size: 114
22697741 GAAAAAATAT
* * *
22697751 AAAATAAAACTTTCAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTGAAAAA
1 AAAATAAAAATTT-AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATA
*
22697815 AAATCTCAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTACTTA
65 AAATCTCAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAATTTTACTTA
** * * *
22697865 AAAATAAAAATTTTTAAAAAGTA-TTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAATTA
1 AAAATAAAAATTTAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAA-TA
* *
22697929 AAATTTCAGAAAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAATTTTTCTTA
65 AAATCTC----AAAAAATATTTTGAGAAAAAGTTGAAAGTACCAATTTTACTTA
*
22697983 AAAATAAAAATTATAAAAAAAATATTTTTAAGGACAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAAATT-TAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
22698043 TATAAAAGCA
Statistics
Matches: 153, Mismatches: 17, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
112 24 0.16
113 17 0.11
114 19 0.12
118 53 0.35
119 8 0.05
120 32 0.21
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (114 bp):
AAAATAAAAATTTAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATAA
AATCTCAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAATTTTACTTA
Found at i:22702508 original size:17 final size:17
Alignment explanation
Indices: 22702460--22702572 Score: 63
Period size: 17 Copynumber: 6.4 Consensus size: 17
22702450 TCTATAATGG
* *
22702460 ATGAAAGATGAAAAAAA
1 ATGAAAAATGGAAAAAA
*
22702477 AAGAAGAGAAT-GAAAAAA
1 ATGAA-A-AATGGAAAAAA
22702495 GATGAAAAA-GGAAAGAAA
1 -ATGAAAAATGGAAA-AAA
**
22702513 AAAAAAATGGATGGAAAAAA
1 ATGAAAA---ATGGAAAAAA
*
22702533 ATAAAAAAT--AAAAAA
1 ATGAAAAATGGAAAAAA
*
22702548 ATGAAAAATGAAAAAAA
1 ATGAAAAATGGAAAAAA
22702565 GATGAAAA
1 -ATGAAAA
22702573 TTAGAGAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
15 14 0.18
17 23 0.30
18 18 0.24
19 6 0.08
20 10 0.13
21 5 0.07
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.10
Consensus pattern (17 bp):
ATGAAAAATGGAAAAAA
Found at i:22702545 original size:15 final size:16
Alignment explanation
Indices: 22702485--22702564 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 16
22702475 AAAAGAAGAG
*
22702485 AATGAAAAAAGATGAAA
1 AATGAAAAAA-ATAAAA
* *
22702502 AAGGAAAGAAAAAAAAA
1 AATGAAA-AAAATAAAA
22702519 ATGGATGGAAAAAAATAAAA
1 A---AT-GAAAAAAATAAAA
*
22702539 AAT-AAAAAAATGAAA
1 AATGAAAAAAATAAAA
22702554 AATGAAAAAAA
1 AATGAAAAAAA
22702565 GATGAAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
15 14 0.27
16 7 0.14
17 13 0.25
18 3 0.06
20 10 0.20
21 4 0.08
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (16 bp):
AATGAAAAAAATAAAA
Found at i:22703662 original size:36 final size:35
Alignment explanation
Indices: 22703621--22703734 Score: 165
Period size: 36 Copynumber: 3.2 Consensus size: 35
22703611 TGAGAATCTT
22703621 TAAGAAATCATCAAATGAGAATCTTTGAGTTTTAAA
1 TAAGAAATC-TCAAATGAGAATCTTTGAGTTTTAAA
22703657 TAAGAAATTCTCAAATGAGAATCTTTGAGTTTTAAA
1 TAAGAAA-TCTCAAATGAGAATCTTTGAGTTTTAAA
* * *
22703693 TAAGAAATCCTTAAATGAGAATCTTTAAGTCTTAAA
1 TAAGAAAT-CTCAAATGAGAATCTTTGAGTTTTAAA
*
22703729 TGAGAA
1 TAAGAA
22703735 TCTTTAAGAC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
35 1 0.01
36 69 0.96
37 2 0.03
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (35 bp):
TAAGAAATCTCAAATGAGAATCTTTGAGTTTTAAA
Found at i:22703728 original size:21 final size:21
Alignment explanation
Indices: 22703702--22703742 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
22703692 ATAAGAAATC
22703702 CTTAAATGAGAATCTTTAAGT
1 CTTAAATGAGAATCTTTAAGT
22703723 CTTAAATGAGAATCTTTAAG
1 CTTAAATGAGAATCTTTAAG
22703743 ACGTTGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (21 bp):
CTTAAATGAGAATCTTTAAGT
Found at i:22703930 original size:122 final size:123
Alignment explanation
Indices: 22703697--22703987 Score: 318
Period size: 122 Copynumber: 2.3 Consensus size: 123
22703687 TTTAAATAAG
* * * * * * *
22703697 AAATCCTTAAATGAGAATCTTT-AAGTCTTAAATGAGAATCTTTAAGACGTTGTCAAATGGGGAT
1 AAATCCTTAAATGAGAATATTTAAAGTCTCAAATGAGAATC-TTAA-A-ATT-TTAATTGAGAAT
* * * * * *
22703761 TTTTGAGGTGTGAAATCTAAAATTTATCGAATATGAATCTTCGAACTCAAATGAGAATCTTC
62 CTTTAAGGTGTAAAATCTAAAATTTATCGAATATGAATCTTCAAACTCAAATGAAAATATTC
* * *
22703823 AAATCCTTAAATGAGACTATTT-GAGTGTCAAATGAGAATCTTAAAATTTTAATTGAGAATCTTT
1 AAATCCTTAAATGAGAATATTTAAAGTCTCAAATGAGAATCTTAAAATTTTAATTGAGAATCTTT
* * *
22703887 AAGGTGTAAAA-CTCAAAATTTATTGAATGTGAATCTTCAAACTCAAATGAAAATATTT
66 AAGGTGTAAAATCT-AAAATTTATCGAATATGAATCTTCAAACTCAAATGAAAATATTC
* * *
22703945 GAATCCTTAAATGAGAATCTTTAAATTCTCAAATGAGAATCTT
1 AAATCCTTAAATGAGAATATTTAAAGTCTCAAATGAGAATCTT
22703988 TGAGTTTTAA
Statistics
Matches: 138, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
121 2 0.01
122 77 0.56
123 19 0.14
124 1 0.01
125 4 0.03
126 35 0.25
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (123 bp):
AAATCCTTAAATGAGAATATTTAAAGTCTCAAATGAGAATCTTAAAATTTTAATTGAGAATCTTT
AAGGTGTAAAATCTAAAATTTATCGAATATGAATCTTCAAACTCAAATGAAAATATTC
Found at i:22703956 original size:22 final size:21
Alignment explanation
Indices: 22703931--22704008 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
22703921 CTTCAAACTC
*
22703931 AAATGAAAATATTTGAATCCTT
1 AAATGAAAATCTTTGAAT-CTT
* * *
22703953 AAATGAGAATCTTTAAATTCTC
1 AAATGAAAATCTTTGAA-TCTT
* * *
22703975 AAATGAGAATCTTTGAGTTTT
1 AAATGAAAATCTTTGAATCTT
22703996 AAATGAAAA-CTTT
1 AAATGAAAATCTTT
22704009 TAAGACATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 4 0.09
21 10 0.22
22 31 0.67
23 1 0.02
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (21 bp):
AAATGAAAATCTTTGAATCTT
Found at i:22704035 original size:46 final size:46
Alignment explanation
Indices: 22703929--22704080 Score: 184
Period size: 46 Copynumber: 3.3 Consensus size: 46
22703919 ATCTTCAAAC
* * * * * *
22703929 TCAAATGAAAATATTTGAATCCTTAAATGAGAATCTTT-A-A-ATTC
1 TCAAATGAGAATCTTTGAGT-CTTAAATGAAAACCTTTAAGACATTT
* *
22703973 TCAAATGAGAATCTTTGAGTTTTAAATGAAAACTTTTAAGACATTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAAAACCTTTAAGACATTT
* *
22704019 TCAAATAAGCATCTTTGAGTCTTAAATGAAAACCTTTAAGACATTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAAAACCTTTAAGACATTT
22704065 TCAAATGAGAATCTTT
1 TCAAATGAGAATCTTT
22704081 AAGATGTAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
43 13 0.14
44 18 0.20
45 1 0.01
46 59 0.65
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (46 bp):
TCAAATGAGAATCTTTGAGTCTTAAATGAAAACCTTTAAGACATTT
Found at i:22704569 original size:44 final size:44
Alignment explanation
Indices: 22704506--22704642 Score: 193
Period size: 44 Copynumber: 3.1 Consensus size: 44
22704496 ATGATCGTCA
* *
22704506 AGGAGCTTTATTTATTTTTTCAAAGTCGTTAAGCCTCTGATTAG
1 AGGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
*
22704550 AGGAGCCTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * **
22704594 AGAAGCTTTGTTTATTTTTTTTTAAAGTCGTTGAGCCTCTTTTTAG
1 AGGAGCTTTGTTTA--TTTTTTCAAAGTCGTTGAGCCTCTGATTAG
22704640 AGG
1 AGG
22704643 CGTTTTGGTT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 53 0.65
46 29 0.35
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (44 bp):
AGGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
Found at i:22704854 original size:12 final size:13
Alignment explanation
Indices: 22704832--22704872 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
22704822 AATTGTAGGG
22704832 ATTTTTA-TTCAT
1 ATTTTTATTTCAT
22704844 -TTTTTATTTCAT
1 ATTTTTATTTCAT
*
22704856 ATGTTTATTTCAT
1 ATTTTTATTTCAT
22704869 ATTT
1 ATTT
22704873 ATCATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.24
12 5 0.20
13 14 0.56
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.68
Consensus pattern (13 bp):
ATTTTTATTTCAT
Found at i:22706069 original size:10 final size:10
Alignment explanation
Indices: 22706056--22706104 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
22706046 TTTTGATTTT
22706056 TTTTTTGGTA
1 TTTTTTGGTA
*
22706066 TTTTTTGTTTA
1 TTTTTTG-GTA
*
22706077 TTTTTTTTGGTT
1 --TTTTTTGGTA
22706089 TTTTTTGGTA
1 TTTTTTGGTA
22706099 TTTTTT
1 TTTTTT
22706105 ATTTTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 22 0.69
11 2 0.06
12 1 0.03
13 7 0.22
ACGTcount: A:0.06, C:0.00, G:0.14, T:0.80
Consensus pattern (10 bp):
TTTTTTGGTA
Found at i:22706284 original size:58 final size:58
Alignment explanation
Indices: 22706194--22706476 Score: 308
Period size: 58 Copynumber: 4.9 Consensus size: 58
22706184 ATATAAAATG
* *
22706194 AAATTTTCAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAA
1 AAATTTTC-A-AAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAA
* * *
22706255 AAATTTTCAAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAATTA
1 AAATTTTCAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAA
* * *
22706312 GAA-TTTCAAAAAAGATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
1 AAATTTTC-AAAAA-ATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAA
** * *
22706371 AAATTATAAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTTC-TTAAACTAA
1 AAATT-TTCAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAA
* ** * *
22706430 AAACTTTC---AAATGCTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTT
1 AAATTTTCAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
22706477 ATATAAAAGC
Statistics
Matches: 189, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
54 28 0.15
55 5 0.03
56 4 0.02
57 20 0.11
58 52 0.28
59 34 0.18
60 37 0.20
61 9 0.05
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.36
Consensus pattern (58 bp):
AAATTTTCAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAA
Found at i:22706341 original size:116 final size:119
Alignment explanation
Indices: 22706198--22706418 Score: 351
Period size: 116 Copynumber: 1.9 Consensus size: 119
22706188 AAAATGAAAT
* *
22706198 TTTCAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAAAAATT-TT
1 TTTCAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTATA
* * *
22706262 CAAAAAGTA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAGAA
66 AAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTCTTTGAAATTAGAA
*
22706315 TTTCAA-AAAAGATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTAT
1 TTTCAAGAAAA-ATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTAT
22706378 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTT
65 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTT
22706419 TCTTAAACTA
Statistics
Matches: 95, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
116 49 0.52
117 17 0.18
118 29 0.31
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (119 bp):
TTTCAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTATA
AAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTCTTTGAAATTAGAA
Found at i:22708709 original size:17 final size:18
Alignment explanation
Indices: 22708671--22708710 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
22708661 TTTTGGAAAA
22708671 TAAA-AAGAAAATTTCGC
1 TAAAGAAGAAAATTTCGC
*
22708688 T-AAGAAGAAACTTTC-C
1 TAAAGAAGAAAATTTCGC
22708704 TAAAGAA
1 TAAAGAA
22708711 AAGGAAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (18 bp):
TAAAGAAGAAAATTTCGC
Found at i:22714311 original size:30 final size:30
Alignment explanation
Indices: 22714275--22714333 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
22714265 GTGATGTAGT
*
22714275 CAAAGATGAAAGAGATGCACGAAGGGATCA
1 CAAAGATGAAAGAGATGCACGAAGCGATCA
* *
22714305 CAAAGATGAAAGGGATGCATGAAGCGATC
1 CAAAGATGAAAGAGATGCACGAAGCGATC
22714334 TTAAGGGCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.14, G:0.31, T:0.12
Consensus pattern (30 bp):
CAAAGATGAAAGAGATGCACGAAGCGATCA
Found at i:22716337 original size:30 final size:29
Alignment explanation
Indices: 22716303--22716380 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 29
22716293 GTTTTGGGTT
*
22716303 TTAAGGTTT-TGGTTTTGGGATTTCAAGGTG
1 TTAAGGTTTATGGTTTTGGG-CTTCAA-GTG
*
22716333 TTAAGGTTTATGGTTTTAGGGCTTCAAGTT
1 TTAAGGTTTATGGTTTT-GGGCTTCAAGTG
*
22716363 TTAAGGTTTAGGGTTTTG
1 TTAAGGTTTATGGTTTTG
22716381 AATGTTTAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.02
30 27 0.63
31 12 0.28
32 3 0.07
ACGTcount: A:0.18, C:0.04, G:0.31, T:0.47
Consensus pattern (29 bp):
TTAAGGTTTATGGTTTTGGGCTTCAAGTG
Found at i:22716429 original size:16 final size:16
Alignment explanation
Indices: 22716408--22716469 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
22716398 GTAATTAGGG
*
22716408 TTTAGGGTTTTG-GATT
1 TTTAGGGTTTTGAG-CT
22716424 TTTAGGGTTTTGAGCT
1 TTTAGGGTTTTGAGCT
*
22716440 TTTAGGGTTTTAAAAG-T
1 TTTAGGGTTTT--GAGCT
22716457 TTTAGGGTTTTGA
1 TTTAGGGTTTTGA
22716470 AGGTTTTACG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 1 0.03
16 24 0.60
17 13 0.32
18 2 0.05
ACGTcount: A:0.18, C:0.02, G:0.29, T:0.52
Consensus pattern (16 bp):
TTTAGGGTTTTGAGCT
Found at i:22716445 original size:39 final size:38
Alignment explanation
Indices: 22716359--22716449 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 38
22716349 TAGGGCTTCA
*
22716359 AGTTTTAAGGTTTAGGGTTTTGAATGTTTAGCATTTGG
1 AGTTTTAGGGTTTAGGGTTTTGAATGTTTAGCATTTGG
* * * ** *
22716397 AGTAATTAGGGTTTAGGGTTTTGGATTTTTAGGGTTTTG
1 AGT-TTTAGGGTTTAGGGTTTTGAATGTTTAGCATTTGG
22716436 AGCTTTTAGGGTTT
1 AG-TTTTAGGGTTT
22716450 TAAAAGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
38 3 0.07
39 39 0.91
40 1 0.02
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (38 bp):
AGTTTTAGGGTTTAGGGTTTTGAATGTTTAGCATTTGG
Found at i:22716459 original size:17 final size:17
Alignment explanation
Indices: 22716439--22716477 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
22716429 GGTTTTGAGC
22716439 TTTTAGGGTTTTAAAAG
1 TTTTAGGGTTTTAAAAG
* *
22716456 TTTTAGGGTTTTGAAGG
1 TTTTAGGGTTTTAAAAG
22716473 TTTTA
1 TTTTA
22716478 CGATTTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (17 bp):
TTTTAGGGTTTTAAAAG
Found at i:22716504 original size:22 final size:23
Alignment explanation
Indices: 22716473--22716516 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
22716463 GTTTTGAAGG
*
22716473 TTTTACGATTTGGA-GTTTTGGA
1 TTTTAAGATTTGGAGGTTTTGGA
*
22716495 TTTTAAGATTTTGAGGTTTTGG
1 TTTTAAGATTTGGAGGTTTTGG
22716517 GGTTTTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.52
Consensus pattern (23 bp):
TTTTAAGATTTGGAGGTTTTGGA
Found at i:22716529 original size:24 final size:24
Alignment explanation
Indices: 22716431--22716569 Score: 90
Period size: 24 Copynumber: 5.8 Consensus size: 24
22716421 ATTTTTAGGG
* *
22716431 TTTTGAGCTTTTAGGGTTTTAAAA
1 TTTTGAGGTTTTAGGGTTTTAACA
*
22716455 GTTTT-AGGGTTTTGAAGGTTTT-ACGA
1 -TTTTGA-GGTTTT-AGGGTTTTAAC-A
* * *
22716481 TTTGGA-GTTTT-GGATTTTAAGA
1 TTTTGAGGTTTTAGGGTTTTAACA
*
22716503 TTTTGAGGTTTTGGGGTTTTAACA
1 TTTTGAGGTTTTAGGGTTTTAACA
* * *
22716527 TTTT-AGATTTTTAGGGTTTTGAGA
1 TTTTGAG-GTTTTAGGGTTTTAACA
* *
22716551 TTTTGGGGTTTTATGGTTT
1 TTTTGAGGTTTTAGGGTTT
22716570 AGGGATTTCA
Statistics
Matches: 88, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
22 11 0.12
23 8 0.09
24 46 0.52
25 14 0.16
26 9 0.10
ACGTcount: A:0.19, C:0.02, G:0.27, T:0.52
Consensus pattern (24 bp):
TTTTGAGGTTTTAGGGTTTTAACA
Found at i:22721086 original size:33 final size:31
Alignment explanation
Indices: 22721049--22721138 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 31
22721039 GTAAGTGATC
*
22721049 AAATTATATCCAAATAATAAAAAATAAATAATT
1 AAATTATAT-CAAATAATAAAAAATAAA-AATA
* *
22721082 AAATTATAT-TAA-AATAATAAATAAAAATA
1 AAATTATATCAAATAATAAAAAATAAAAATA
22721111 AAATTATATTCAAATAATGAAAAAATAA
1 AAATTATA-TCAAATAAT-AAAAAATAA
22721139 TAAAGTAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 11 0.23
30 13 0.27
31 4 0.08
32 3 0.06
33 17 0.35
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (31 bp):
AAATTATATCAAATAATAAAAAATAAAAATA
Found at i:22721103 original size:26 final size:27
Alignment explanation
Indices: 22721066--22721138 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 27
22721056 ATCCAAATAA
*
22721066 TAAAA-AATAAAT-AATTAAATTATAT
1 TAAAATAATAAATAAATAAAATTATAT
22721091 TAAAATAATAAATAAAAATAAAATTATAT
1 TAAAATAATAAAT--AAATAAAATTATAT
*
22721120 TCAAATAATGAAA-AAATAA
1 TAAAATAAT-AAATAAATAA
22721139 TAAAGTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 5 0.12
26 7 0.17
27 6 0.15
29 20 0.49
30 3 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (27 bp):
TAAAATAATAAATAAATAAAATTATAT
Found at i:22725889 original size:18 final size:18
Alignment explanation
Indices: 22725840--22725904 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
22725830 CACCATCATC
* *
22725840 ATCATCATCATCATCATCG
1 ATCATCATCATCGTC-TAG
* * *
22725859 -TCATCCTCGTCGTCTTG
1 ATCATCATCATCGTCTAG
22725876 ATCATCATCATCGTC-AG
1 ATCATCATCATCGTCTAG
22725893 AGTCATCATCAT
1 A-TCATCATCAT
22725905 TTTTTCCCTG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 4 0.11
18 33 0.89
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.34
Consensus pattern (18 bp):
ATCATCATCATCGTCTAG
Found at i:22725904 original size:3 final size:3
Alignment explanation
Indices: 22725826--22725887 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
22725816 GTGATTTTAG
* * * * * *
22725826 TCA TCA CCA TCA TCA TCA TCA TCA TCA TCA TCG TCA TCC TCG TCG TCT
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
*
22725874 TGA TCA TCA TCA TC
1 TCA TCA TCA TCA TC
22725888 GTCAGAGTCA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:22730046 original size:61 final size:61
Alignment explanation
Indices: 22729954--22730100 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 61
22729944 TAGATTTTTG
** * * *
22729954 AGAAGCTCAAAGGCTTATTAGAAATGGATTT-CTGAGAAGTCTTTAAACTTATGGA-TTTCTA
1 AGAAGCTTTAAGGCTTATCAGAAATGAATTTCCT-AGAAGCCTTTAAACTTATGGATTTTC-A
* * * *
22730015 AGAAGTTTTAAGGCTTATCGGAAATGAATTTCCTAGAAGCCTTTAAGCTTTTGGATTTTCA
1 AGAAGCTTTAAGGCTTATCAGAAATGAATTTCCTAGAAGCCTTTAAACTTATGGATTTTCA
*
22730076 AGAAGCTTTAAGGCTTCTCAGAAAT
1 AGAAGCTTTAAGGCTTATCAGAAAT
22730101 CCTTATCCAA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
61 66 0.92
62 6 0.08
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (61 bp):
AGAAGCTTTAAGGCTTATCAGAAATGAATTTCCTAGAAGCCTTTAAACTTATGGATTTTCA
Found at i:22733634 original size:22 final size:22
Alignment explanation
Indices: 22733592--22733633 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
22733582 AAAATCTTAA
22733592 AATTATAAAGAAAAAATAAAAC
1 AATTATAAAGAAAAAATAAAAC
*
22733614 AATTA-AAAGTAAAAATAAAA
1 AATTATAAAGAAAAAATAAAA
22733634 AGTGTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (22 bp):
AATTATAAAGAAAAAATAAAAC
Found at i:22734036 original size:35 final size:35
Alignment explanation
Indices: 22733983--22734053 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
22733973 AAGTGCAAAA
* *
22733983 ACCAATTTCAGTACGATAAAATCATATGGTTTCAC
1 ACCAATTTCAATACGATAAAACCATATGGTTTCAC
* * *
22734018 ACCAATTTCAATATGATAAAACCGTGTGGTTTCAC
1 ACCAATTTCAATACGATAAAACCATATGGTTTCAC
22734053 A
1 A
22734054 TGGTTTGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (35 bp):
ACCAATTTCAATACGATAAAACCATATGGTTTCAC
Found at i:22759711 original size:197 final size:198
Alignment explanation
Indices: 22759353--22759741 Score: 593
Period size: 197 Copynumber: 2.0 Consensus size: 198
22759343 CAAGTATAGC
*
22759353 TTTTTTATACATGTTTTTCTCTTATACAATATTGTCAATTTTTTTCAAATAATGTGGGCATCTGC
1 TTTTTTATACATGTTTTTCTCTTATACAATATTGTCAATTTTTTTCAAACAATGTGGGCATCTGC
* * * * *
22759418 CTCCTGCATTACATAATGGAATACGCTGATATCAACTCATTTTTTAATTGTAGCCAACGTCTTTT
66 CTCATACATTACATAATGAAACACGCTGATATCAACTCATTTTTTAATTATAGCCAACGTCTTTT
* * * * *
22759483 TGCCTAATTTCTTTCAGCTTTTATCTTTCATATCT-CTGGTTTAGGCGAATCACCCAATACCGAA
131 TACCTAACTTATTTCAACTTTTATCTTTCATATCTGCTGATTTAGGCGAATCACCCAATACCGAA
22759547 ACT
196 ACT
*
22759550 TTTTTTATACATGTTTTTCTCTTATACAATGTTGTCAATTTTTTTCAAACAATGTGGGCATCTGC
1 TTTTTTATACATGTTTTTCTCTTATACAATATTGTCAATTTTTTTCAAACAATGTGGGCATCTGC
* * *
22759615 CTCATACGTTACATGATGAAACACGCTGATATCAACTCATTTTTTTATTATAG-CAAGCGTCTTT
66 CTCATACATTACATAATGAAACACGCTGATATCAACTCATTTTTTAATTATAGCCAA-CGTCTTT
* * *
22759679 TTACCTAACTTATTTCAATTTTTATTTTTCATATCTGCTGATTTAGTCGAATCACCCAATACC
130 TTACCTAACTTATTTCAACTTTTATCTTTCATATCTGCTGATTTAGGCGAATCACCCAATACC
22759742 AGCTCATACA
Statistics
Matches: 172, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
196 3 0.02
197 145 0.84
198 24 0.14
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (198 bp):
TTTTTTATACATGTTTTTCTCTTATACAATATTGTCAATTTTTTTCAAACAATGTGGGCATCTGC
CTCATACATTACATAATGAAACACGCTGATATCAACTCATTTTTTAATTATAGCCAACGTCTTTT
TACCTAACTTATTTCAACTTTTATCTTTCATATCTGCTGATTTAGGCGAATCACCCAATACCGAA
ACT
Found at i:22763476 original size:16 final size:16
Alignment explanation
Indices: 22763447--22763479 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22763437 AAAATTTTGA
22763447 AAAATATTTCAAATTT
1 AAAATATTTCAAATTT
22763463 AAAAT-TTTCTAAATTT
1 AAAATATTTC-AAATTT
22763479 A
1 A
22763480 TATGTCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATATTTCAAATTT
Found at i:22768777 original size:16 final size:17
Alignment explanation
Indices: 22768739--22768782 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
22768729 ACGAAAACAA
*
22768739 ACGCTTATACACTTGTT
1 ACGCTTATACACTTGAT
*
22768756 AC-CTTACACACTT-AT
1 ACGCTTATACACTTGAT
22768771 ACGCTTATACAC
1 ACGCTTATACAC
22768783 ACGCTTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 3 0.13
16 18 0.78
17 2 0.09
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.34
Consensus pattern (17 bp):
ACGCTTATACACTTGAT
Found at i:22778759 original size:33 final size:34
Alignment explanation
Indices: 22778715--22778782 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
22778705 TTAAATAGAT
* *
22778715 TTATATAAAAAATCATATATAATATTTTA-TTTA
1 TTATATAAAAAATAATATATAATATATTACTTTA
* *
22778748 TTATATTAAAAATAATATTTAATATATTACTTTA
1 TTATATAAAAAATAATATATAATATATTACTTTA
22778782 T
1 T
22778783 AAAATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (34 bp):
TTATATAAAAAATAATATATAATATATTACTTTA
Found at i:22779125 original size:13 final size:12
Alignment explanation
Indices: 22779103--22779132 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
22779093 GGTTCAAATC
22779103 AAATTATATATT
1 AAATTATATATT
22779115 AAATGTATATATT
1 AAAT-TATATATT
22779128 AAATT
1 AAATT
22779133 CAGATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
AAATTATATATT
Found at i:22779282 original size:21 final size:21
Alignment explanation
Indices: 22779257--22779296 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22779247 TATATAAATA
*
22779257 TATTAAAATATATTAAAATCT
1 TATTAAAATATATAAAAATCT
22779278 TATTAAAATATATAAAAAT
1 TATTAAAATATATAAAAAT
22779297 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
TATTAAAATATATAAAAATCT
Found at i:22779283 original size:11 final size:10
Alignment explanation
Indices: 22779252--22779297 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
22779242 TTTTTTATAT
22779252 AAATATATTA
1 AAATATATTA
22779262 AAATATATTA
1 AAATATATTA
*
22779272 AAATCTTATTA
1 AAAT-ATATTA
*
22779283 AAATATATAA
1 AAATATATTA
22779293 AAATA
1 AAATA
22779298 AAAATAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
AAATATATTA
Found at i:22780235 original size:10 final size:10
Alignment explanation
Indices: 22780220--22780244 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22780210 GTCAATCAAT
22780220 TTTTTTAATA
1 TTTTTTAATA
22780230 TTTTTTAATA
1 TTTTTTAATA
22780240 TTTTT
1 TTTTT
22780245 ATATATAATG
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTAATA
Found at i:22786416 original size:7 final size:7
Alignment explanation
Indices: 22786404--22786434 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
22786394 TTTATTAAAA
22786404 TTTTAAT
1 TTTTAAT
22786411 TTTTAAT
1 TTTTAAT
22786418 TTTTAAT
1 TTTTAAT
22786425 TTTTATAT
1 TTTTA-AT
22786433 TT
1 TT
22786435 ACGAATCCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTAAT
Found at i:22799783 original size:5 final size:5
Alignment explanation
Indices: 22799773--22799802 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
22799763 TCAACCACAA
22799773 AATTT AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT
22799803 TTTTTATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:22800174 original size:4 final size:4
Alignment explanation
Indices: 22800161--22800235 Score: 53
Period size: 4 Copynumber: 16.5 Consensus size: 4
22800151 GAATATTTTT
22800161 ATAA AT-A ATAA ATAA ATTATA ATCAA ATAA ATTTAA ATAA ATAA ATTATA
1 ATAA ATAA ATAA ATAA A-TA-A AT-AA ATAA A--TAA ATAA ATAA A-TA-A
22800211 ATCAA ATAA ATTTAA ATAA ATAA AT
1 AT-AA ATAA A--TAA ATAA ATAA AT
22800236 CTTAATCAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 22
0.73 0.00 0.27
Matches are distributed among these distances:
3 3 0.05
4 31 0.52
5 12 0.20
6 14 0.23
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (4 bp):
ATAA
Found at i:22800180 original size:18 final size:18
Alignment explanation
Indices: 22800159--22800206 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 18
22800149 ACGAATATTT
22800159 TTATAAATAATAAATAAA
1 TTATAAATAATAAATAAA
*
22800177 TTAT-AAT--CAAATAAA
1 TTATAAATAATAAATAAA
22800192 TT-TAAATAAATAAAT
1 TTATAAAT-AATAAAT
22800207 TATAATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
14 1 0.04
15 12 0.50
17 3 0.12
18 8 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTATAAATAATAAATAAA
Found at i:22800188 original size:15 final size:13
Alignment explanation
Indices: 22800166--22800247 Score: 92
Period size: 15 Copynumber: 5.7 Consensus size: 13
22800156 TTTTTATAAA
22800166 TAATAAATAAATT
1 TAATAAATAAATT
22800179 ATAATCAAATAAATT
1 -TAAT-AAATAAATT
22800194 TAAATAAATAAATT
1 T-AATAAATAAATT
22800208 ATAATCAAATAAATT
1 -TAAT-AAATAAATT
22800223 TAAATAAATAAATCT
1 T-AATAAATAAAT-T
22800238 TAATCAAATA
1 TAAT-AAATA
22800248 TAAATGAATT
Statistics
Matches: 61, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
14 29 0.48
15 32 0.52
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (13 bp):
TAATAAATAAATT
Found at i:22800202 original size:29 final size:29
Alignment explanation
Indices: 22800167--22800247 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
22800157 TTTTATAAAT
22800167 AATAAATAAATTATAATCAAATAAATTTA
1 AATAAATAAATTATAATCAAATAAATTTA
22800196 AATAAATAAATTATAATCAAATAAATTTA
1 AATAAATAAATTATAATCAAATAAATTTA
22800225 AATAAATAAATCT-TAATCAAATA
1 AATAAATAAAT-TATAATCAAATA
22800248 TAAATGAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 50 0.98
30 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (29 bp):
AATAAATAAATTATAATCAAATAAATTTA
Found at i:22800364 original size:26 final size:27
Alignment explanation
Indices: 22800308--22800365 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
22800298 TTTATTATTA
**
22800308 TAAATGAACAATAAATTAATTAAATTT
1 TAAATGAACAATAAACGAATTAAATTT
*
22800335 TAAATGAATAATAAACGAA-TAAATTT
1 TAAATGAACAATAAACGAATTAAATTT
22800361 TAAAT
1 TAAAT
22800366 AAATTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (27 bp):
TAAATGAACAATAAACGAATTAAATTT
Found at i:22800366 original size:11 final size:11
Alignment explanation
Indices: 22800352--22800382 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22800342 ATAATAAACG
22800352 AATAAATTTTA
1 AATAAATTTTA
22800363 AATAAATTTTA
1 AATAAATTTTA
*
22800374 AATGAATTT
1 AATAAATTT
22800383 ATTATAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (11 bp):
AATAAATTTTA
Found at i:22800380 original size:26 final size:26
Alignment explanation
Indices: 22800308--22800380 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
22800298 TTTATTATTA
* * *
22800308 TAAATGAACAATAAATTAATTAAATTT
1 TAAATAAATAATAAATGAA-TAAATTT
* *
22800335 TAAATGAATAATAAACGAATAAATTT
1 TAAATAAATAATAAATGAATAAATTT
**
22800361 TAAATAAATTTTAAATGAAT
1 TAAATAAATAATAAATGAAT
22800381 TTATTATAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 23 0.59
27 16 0.41
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (26 bp):
TAAATAAATAATAAATGAATAAATTT
Found at i:22802347 original size:13 final size:12
Alignment explanation
Indices: 22802324--22802375 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
22802314 TGTATCTTAT
22802324 TTATT-TATTTA
1 TTATTATATTTA
22802335 TTATTACTATTTA
1 TTATTA-TATTTA
*
22802348 TTAATATATATTTT
1 TT-AT-TATATTTA
22802362 TTATTATTATTTA
1 TTATTA-TATTTA
22802375 T
1 T
22802376 CTGTTAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 5 0.15
12 2 0.06
13 16 0.47
14 9 0.26
15 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTATATTTA
Found at i:22802347 original size:17 final size:16
Alignment explanation
Indices: 22802320--22802488 Score: 65
Period size: 17 Copynumber: 10.9 Consensus size: 16
22802310 ATTTTGTATC
22802320 TTATT-TATTTATTTA
1 TTATTATATTTATTTA
22802335 TTATTACTATTTA-TTA
1 TTATTA-TATTTATTTA
*
22802351 ATA-TATATTT-TTTA
1 TTATTATATTTATTTA
* *
22802365 TTA-T-TATTTATCTG
1 TTATTATATTTATTTA
* **
22802379 TTAATATACATACTTTA
1 TTATTATATTTA-TTTA
*
22802396 TTATT-TATCTA-TTA
1 TTATTATATTTATTTA
* *
22802410 TTATTGTTATTTATCTA
1 TTATT-ATATTTATTTA
* *
22802427 TTAATATTTTTTATTTA
1 TTATTA-TATTTATTTA
*
22802444 TCTAAT-TATTT-TTT-
1 T-TATTATATTTATTTA
* * *
22802458 TTAGT-TATCTATTAA
1 TTATTATATTTATTTA
22802473 TATATTATATTTATTT
1 T-TATTATATTTATTT
22802489 TTTTTTCTTT
Statistics
Matches: 114, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
13 12 0.11
14 27 0.24
15 12 0.11
16 25 0.22
17 34 0.30
18 4 0.04
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATTATATTTATTTA
Found at i:22802383 original size:31 final size:30
Alignment explanation
Indices: 22802325--22802409 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 30
22802315 GTATCTTATT
*
22802325 TATTTATTTATTATTACTATTTATTAATATA
1 TATTT-TTTATTATTACTATCTATTAATATA
* *
22802356 TATTTTTTATTATTATTTATCTGTTAATATA
1 TATTTTTTATTATTA-CTATCTATTAATATA
* **
22802387 CATACTTTATTATT--TATCTATTA
1 TATTTTTTATTATTACTATCTATTA
22802410 TTATTGTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 8 0.17
30 10 0.22
31 28 0.61
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (30 bp):
TATTTTTTATTATTACTATCTATTAATATA
Found at i:22802434 original size:14 final size:14
Alignment explanation
Indices: 22802328--22802414 Score: 65
Period size: 14 Copynumber: 6.4 Consensus size: 14
22802318 TCTTATTTAT
22802328 TTATTTAT-TATTA
1 TTATTTATCTATTA
* *
22802341 CTATTTAT-TAATA
1 TTATTTATCTATTA
*
22802354 TATATTT-TTTATTA
1 T-TATTTATCTATTA
*
22802368 TTATTTATCTGTTA
1 TTATTTATCTATTA
* **
22802382 ATATACATACT-TTA
1 TTATTTAT-CTATTA
22802396 TTATTTATCTATTA
1 TTATTTATCTATTA
22802410 TTATT
1 TTATT
22802415 GTTATTTATC
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
13 19 0.33
14 36 0.63
15 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (14 bp):
TTATTTATCTATTA
Found at i:22802445 original size:21 final size:21
Alignment explanation
Indices: 22802396--22802486 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
22802386 ACATACTTTA
* *
22802396 TTATTTATCTATTATTA-TTG
1 TTATTTATCTATTAATATTTT
22802416 TTATTTATCTATTAATATTTT
1 TTATTTATCTATTAATATTTT
*
22802437 TTATTTATCTAATT-ATTTTTT
1 TTATTTATCT-ATTAATATTTT
* *
22802458 TTAGTTATCTATTAATATATT
1 TTATTTATCTATTAATATTTT
*
22802479 ATATTTAT
1 TTATTTAT
22802487 TTTTTTTTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
20 19 0.32
21 38 0.63
22 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTTATCTATTAATATTTT
Found at i:22802452 original size:42 final size:41
Alignment explanation
Indices: 22802396--22802486 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 41
22802386 ACATACTTTA
* *
22802396 TTATTTATCTATTATTATTGTTATTTATCTATTAATATTTT
1 TTATTTATCTATTATTATTGTTAGTTATCTATTAATATATT
* *
22802437 TTATTTATCTAATTATTTTTTTTAGTTATCTATTAATATATT
1 TTATTTATCT-ATTATTATTGTTAGTTATCTATTAATATATT
*
22802479 ATATTTAT
1 TTATTTAT
22802487 TTTTTTTTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 10 0.23
42 34 0.77
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (41 bp):
TTATTTATCTATTATTATTGTTAGTTATCTATTAATATATT
Found at i:22802515 original size:14 final size:13
Alignment explanation
Indices: 22802488--22802512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22802478 TATATTTATT
22802488 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
22802501 TTTTTTTCTTTT
1 TTTTTTTCTTTT
22802513 TCTGCTTACC
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Done.