Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168071.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_32, 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: 761692
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 11 of 17
Found at i:436791 original size:32 final size:31
Alignment explanation
Indices: 436731--436792 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
436721 AATACTTAGT
*
436731 TATAATAATTATTATTTATAATATAAATAAC
1 TATAATAATTATTATTTATAATAAAAATAAC
436762 TATATATAATTATT-TTTATAATTAAAAATAA
1 TATA-ATAATTATTATTTATAA-TAAAAATAA
436793 TAAAACTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
TATAATAATTATTATTTATAATAAAAATAAC
Found at i:436853 original size:17 final size:17
Alignment explanation
Indices: 436801--436882 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 17
436791 AATAAAACTT
*
436801 ATTATAGTATTA-TACTA
1 ATTATA-TATTATTATTA
436818 ATTATATATTATTATTA
1 ATTATATATTATTATTA
436835 ATTATAATAATT-TTATAATA
1 ATTAT-AT-ATTATTAT--TA
436855 ATTATATAATTA-TATTA
1 ATTATAT-ATTATTATTA
436872 AGGTTATATAT
1 A--TTATATAT
436883 AATATAAGTT
Statistics
Matches: 56, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
16 5 0.09
17 18 0.32
18 8 0.14
19 18 0.32
20 7 0.12
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (17 bp):
ATTATATATTATTATTA
Found at i:436878 original size:28 final size:28
Alignment explanation
Indices: 436819--436899 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
436809 ATTATACTAA
* **
436819 TTATATATTATTATTAATTATAATAATT
1 TTATATATAATTATTAATTATAATAAGG
*
436847 TTATA-ATAATTATATAATTATATTAAGG
1 TTATATATAATTAT-TAATTATAATAAGG
436875 TTATATATAA-TA-TAAGTTATAATAA
1 TTATATATAATTATTAA-TTATAATAA
436900 TATTATAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.07
27 15 0.33
28 23 0.51
29 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (28 bp):
TTATATATAATTATTAATTATAATAAGG
Found at i:436889 original size:37 final size:35
Alignment explanation
Indices: 436801--436889 Score: 85
Period size: 37 Copynumber: 2.5 Consensus size: 35
436791 AATAAAACTT
* *
436801 ATTATAGT-ATTATACTAATTATATATTATTATTA
1 ATTATAATAATTATAATAATTATATATTATTATTA
436835 ATTATAATAATTTTATAATAATTATATAATTA-TATTA
1 ATTATAATAA--TTATAATAATTATAT-ATTATTATTA
436872 AGGTTATATATAA-TATAA
1 A--TTATA-ATAATTATAA
436890 GTTATAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 7 0.15
35 1 0.02
37 25 0.54
38 4 0.09
39 5 0.11
40 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (35 bp):
ATTATAATAATTATAATAATTATATATTATTATTA
Found at i:436899 original size:15 final size:16
Alignment explanation
Indices: 436859--436902 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
436849 ATAATAATTA
*
436859 TATAATTATATTAAGGT
1 TATAATAATA-TAAGGT
436876 TATATATAATATAA-GT
1 TATA-ATAATATAAGGT
436892 TATAATAATAT
1 TATAATAATAT
436903 TATAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 7 0.28
16 6 0.24
17 7 0.28
18 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (16 bp):
TATAATAATATAAGGT
Found at i:436907 original size:11 final size:11
Alignment explanation
Indices: 436835--436909 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
436825 ATTATTATTA
436835 ATTATAATAAT
1 ATTATAATAAT
*
436846 TTTATAATAAT
1 ATTATAATAAT
*
436857 -TATATAATTAT
1 AT-TATAATAAT
* *
436868 ATTA-AGGTTAT
1 ATTATA-ATAAT
436879 A-TATAAT-AT
1 ATTATAATAAT
436888 AAGTTATAATAAT
1 -A-TTATAATAAT
436901 ATTATAATA
1 ATTATAATA
436910 TTAATAGTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
9 2 0.04
10 6 0.12
11 34 0.65
12 8 0.15
13 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (11 bp):
ATTATAATAAT
Found at i:436911 original size:41 final size:42
Alignment explanation
Indices: 436847--436928 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 42
436837 TATAATAATT
*
436847 TTATAATAATTATATAATTATATTAAGGTTA-TATATAATATAAG
1 TTATAATAATTATATAATAATATTAA---TAGTATATAATATAAG
436891 TTATAATAA-TAT-T-ATAATATTAATAGTATATAATATAA
1 TTATAATAATTATATAATAATATTAATAGTATATAATATAA
436929 AAATGACTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
38 2 0.06
39 12 0.33
41 9 0.25
42 1 0.03
43 3 0.08
44 9 0.25
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (42 bp):
TTATAATAATTATATAATAATATTAATAGTATATAATATAAG
Found at i:437112 original size:27 final size:27
Alignment explanation
Indices: 437085--437137 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
437075 TATTATTTTA
437085 AATTAATATAAAT-TAATTATATTATT
1 AATTAATATAAATATAATTATATTATT
* * *
437111 AATTAGTTTAAATATAATTGTATTATT
1 AATTAATATAAATATAATTATATTATT
437138 TTATAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
AATTAATATAAATATAATTATATTATT
Found at i:437174 original size:26 final size:26
Alignment explanation
Indices: 437146--437210 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
437136 TTTTATAATT
* *
437146 TATAAATTATATAAAATATTAGATATTA
1 TATAAGTTA-ATAAAAT-TTAAATATTA
*
437174 TATAAGTTAATAATATTTAAATATTA
1 TATAAGTTAATAAAATTTAAATATTA
*
437200 TTATATGTTAA
1 -TATAAGTTAA
437211 AATTAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.28
27 15 0.47
28 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (26 bp):
TATAAGTTAATAAAATTTAAATATTA
Found at i:438547 original size:20 final size:19
Alignment explanation
Indices: 438511--438554 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
438501 TAATTATCGA
*
438511 TTATAACTAATCTAATAAT
1 TTATAACTAATCAAATAAT
*
438530 TTATGAACTATTCAAATAAT
1 TTAT-AACTAATCAAATAAT
*
438550 GTATA
1 TTATA
438555 TTCTAGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (19 bp):
TTATAACTAATCAAATAAT
Found at i:438616 original size:16 final size:17
Alignment explanation
Indices: 438597--438643 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
438587 TTATTCATAA
438597 AACTAATTA-TAATTAT
1 AACTAATTATTAATTAT
438613 AACTAATTATTAATTA-
1 AACTAATTATTAATTAT
438629 AA-T-ATT-TTAATTAT
1 AACTAATTATTAATTAT
438643 A
1 A
438644 TTATTAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.24
14 4 0.14
15 1 0.03
16 11 0.38
17 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
AACTAATTATTAATTAT
Found at i:438672 original size:26 final size:26
Alignment explanation
Indices: 438638--438735 Score: 76
Period size: 25 Copynumber: 3.8 Consensus size: 26
438628 AAATATTTTA
*
438638 ATTATATTATTAATAAATCATAATAT
1 ATTATATTATTAATAAATAATAATAT
* * *
438664 ATTATATTA-TATTTAATAAT-TTAT
1 ATTATATTATTAATAAATAATAATAT
* * * *
438688 ATTATAAATTATAAATTAATTATAAAAT
1 ATTAT--ATTATTAATAAATAATAATAT
*
438716 ATTA-ATTATTAATAATTAAT
1 ATTATATTATTAATAAATAAT
438736 TATTATCATA
Statistics
Matches: 55, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
24 8 0.15
25 20 0.36
26 13 0.24
27 8 0.15
28 6 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTATATTATTAATAAATAATAATAT
Found at i:438701 original size:19 final size:20
Alignment explanation
Indices: 438658--438713 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
438648 TAATAAATCA
* *
438658 TAATATATTATATTAT-ATT
1 TAATAAATTATATTATAAAT
*
438677 TAATAATTTATATTATAAAT
1 TAATAAATTATATTATAAAT
438697 T-ATAAATTA-ATTATAAA
1 TAATAAATTATATTATAAA
438714 ATATTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.25
19 21 0.66
20 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATAAATTATATTATAAAT
Found at i:438711 original size:18 final size:18
Alignment explanation
Indices: 438688--438723 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
438678 AATAATTTAT
*
438688 ATTATAAATTATAAATTA
1 ATTATAAAATATAAATTA
*
438706 ATTATAAAATATTAATTA
1 ATTATAAAATATAAATTA
438724 TTAATAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTATAAAATATAAATTA
Found at i:438727 original size:7 final size:7
Alignment explanation
Indices: 438702--438740 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
438692 TAAATTATAA
438702 ATTAATT
1 ATTAATT
* *
438709 ATAAAAT
1 ATTAATT
438716 ATTAATT
1 ATTAATT
*
438723 ATTAATA
1 ATTAATT
438730 ATTAATT
1 ATTAATT
438737 ATTA
1 ATTA
438741 TCATAATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (7 bp):
ATTAATT
Found at i:438739 original size:14 final size:14
Alignment explanation
Indices: 438695--438740 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
438685 TATATTATAA
*
438695 ATTATAAATTAATT
1 ATTAAAAATTAATT
438709 A-TAAAATATTAATT
1 ATTAAAA-ATTAATT
*
438723 ATTAATAATTAATT
1 ATTAAAAATTAATT
438737 ATTA
1 ATTA
438741 TCATAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 4 0.14
14 20 0.71
15 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTAAAAATTAATT
Found at i:439041 original size:12 final size:14
Alignment explanation
Indices: 439007--439108 Score: 56
Period size: 12 Copynumber: 7.4 Consensus size: 14
438997 TTAAATAAGT
439007 ATTTAATTATATAA
1 ATTTAATTATATAA
*
439021 ATATAATTAT-T-A
1 ATTTAATTATATAA
*
439033 ATTTAATTA-AT-T
1 ATTTAATTATATAA
* *
439045 ATATAA-GATA-AA
1 ATTTAATTATATAA
*
439057 TTTTAATTATATAA
1 ATTTAATTATATAA
439071 ATATTAATTTATATTTAA
1 AT-TTAA-TTATA--TAA
*
439089 ATTAATATTATAT-A
1 ATTTA-ATTATATAA
439103 ATTTAA
1 ATTTAA
439109 ATAATTACCA
Statistics
Matches: 66, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
11 1 0.02
12 20 0.30
13 5 0.08
14 17 0.26
15 5 0.08
16 5 0.08
17 7 0.11
18 6 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (14 bp):
ATTTAATTATATAA
Found at i:439195 original size:21 final size:20
Alignment explanation
Indices: 439146--439196 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
439136 TTTAAAATTA
439146 TATTTATATAATATTAATAAT
1 TATTTATA-AATATTAATAAT
** *
439167 TAGCTATAAATATTAGTATAT
1 TATTTATAAATATTAATA-AT
439188 TATTTATAA
1 TATTTATAA
439197 TAATAAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (20 bp):
TATTTATAAATATTAATAAT
Found at i:440792 original size:30 final size:32
Alignment explanation
Indices: 440718--440795 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 32
440708 CTATAATATA
* *
440718 TATTAATTTTAAA-T-ATTAAATCTAATTTATT
1 TATTAATTTAAAATTAATTAAATCT-ATTTACT
440749 TATATAA-TTAAAATTAATTAAAT-T-TTTACT
1 TAT-TAATTTAAAATTAATTAAATCTATTTACT
440779 TATTAATTTAAAATTAA
1 TATTAATTTAAAATTAA
440796 AATAATTGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 3 0.07
30 18 0.44
31 8 0.20
32 5 0.12
33 7 0.17
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (32 bp):
TATTAATTTAAAATTAATTAAATCTATTTACT
Found at i:440847 original size:17 final size:17
Alignment explanation
Indices: 440805--440857 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
440795 AAATAATTGT
440805 TATAATTAA--ATAATAA
1 TATAATTAATTATAAT-A
*
440821 TCTAATTTAATTATAATA
1 TATAA-TTAATTATAATA
*
440839 TATAATTAATTAAAATA
1 TATAATTAATTATAATA
440856 TA
1 TA
440858 ATATAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.13
17 17 0.55
18 5 0.16
19 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAATTAATTATAATA
Found at i:440848 original size:22 final size:23
Alignment explanation
Indices: 440807--440862 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
440797 ATAATTGTTA
440807 TAATTA-AATA-ATAATCTAATT
1 TAATTATAATATATAATCTAATT
440828 TAATTATAATATATAAT-TAATT
1 TAATTATAATATATAATCTAATT
* *
440850 AAAATATAATATA
1 TAATTATAATATA
440863 AATATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 20 0.65
23 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATTATAATATATAATCTAATT
Found at i:440981 original size:13 final size:13
Alignment explanation
Indices: 440965--440989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
440955 AATACAAATA
440965 AATCTAATTATTT
1 AATCTAATTATTT
440978 AATCTAATTATT
1 AATCTAATTATT
440990 AATAAAGTAT
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
AATCTAATTATTT
Found at i:441045 original size:21 final size:22
Alignment explanation
Indices: 441015--441069 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
441005 AGTTTATTAT
441015 ATAAACTATTGTTAT-AAGTATA
1 ATAAACTATTGTTATGAA-TATA
*
441037 ATAAA-TATTG-CATGAATATA
1 ATAAACTATTGTTATGAATATA
*
441057 ATAAATTATTGTT
1 ATAAACTATTGTT
441070 TATTATAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 11 0.39
21 12 0.43
22 5 0.18
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (22 bp):
ATAAACTATTGTTATGAATATA
Found at i:441076 original size:20 final size:19
Alignment explanation
Indices: 441006--441087 Score: 58
Period size: 20 Copynumber: 4.0 Consensus size: 19
440996 GTATTAATTA
441006 GTTTATTAT-ATAAACTATT
1 GTTTATTATAATAAA-TATT
*
441025 GTTATAAGTATAATAAATATT
1 GTT-T-ATTATAATAAATATT
* * *
441046 GCATGAATATAATAAATTATT
1 G-TTTATTATAATAAA-TATT
441067 GTTTATTATAAGTTAAATATT
1 GTTTATTATAA--TAAATATT
441088 AATATAAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
19 3 0.06
20 18 0.37
21 18 0.37
22 10 0.20
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (19 bp):
GTTTATTATAATAAATATT
Found at i:441475 original size:21 final size:18
Alignment explanation
Indices: 441459--441502 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
441449 TAATTAATAT
*
441459 ATAATTTATTAATATTAAA
1 ATAA-TTATTAACATTAAA
441478 ATAATTATTAACATT-AA
1 ATAATTATTAACATTAAA
441495 ATAATTAT
1 ATAATTAT
441503 ATTATAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 10 0.42
18 10 0.42
19 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTATTAACATTAAA
Found at i:441475 original size:27 final size:29
Alignment explanation
Indices: 441416--441480 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
441406 AAAATTATAT
* *
441416 TATTATAATATAATATATAATTATTTTGA
1 TATTATAATATAATATATAATTATATTAA
441445 -ATTATAAT-TAATATATAATT-TATTAA
1 TATTATAATATAATATATAATTATATTAA
*
441471 TATTAAAATA
1 TATTATAATA
441481 ATTATTAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.13
27 19 0.61
28 8 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
TATTATAATATAATATATAATTATATTAA
Found at i:441574 original size:19 final size:20
Alignment explanation
Indices: 441546--441584 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
441536 CAATATCTGC
441546 TTCAAGTTA-TTATATATTTA
1 TTCAAGTTATTTATA-ATTTA
441566 TTCAA-TTATTTATAATTTA
1 TTCAAGTTATTTATAATTTA
441585 ATATTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
TTCAAGTTATTTATAATTTA
Found at i:442500 original size:18 final size:18
Alignment explanation
Indices: 442477--442517 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
442467 TAGTTTATAA
*
442477 TATAAATTATAAATTAAT
1 TATAAAATATAAATTAAT
*
442495 TATAAAATATTAATTAAT
1 TATAAAATATAAATTAAT
*
442513 AATAA
1 TATAA
442518 TTAATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAAATATAAATTAAT
Found at i:442524 original size:18 final size:15
Alignment explanation
Indices: 442488--442525 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
442478 ATAAATTATA
442488 AATTAATTATAAAAT
1 AATTAATTATAAAAT
*
442503 -ATTAATTA-ATAAT
1 AATTAATTATAAAAT
442516 AATTAATTAT
1 AATTAATTAT
442526 TATCATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAATTATAAAAT
Found at i:442611 original size:27 final size:26
Alignment explanation
Indices: 442572--442622 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
442562 AATTGTTAGT
442572 TATAATTTATATTAAACTATAAATTA
1 TATAATTTATATTAAACTATAAATTA
*
442598 TATAATATTATATTATACTATAAAT
1 TATAAT-TTATATTAAACTATAAAT
442623 CAAATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (26 bp):
TATAATTTATATTAAACTATAAATTA
Found at i:443003 original size:69 final size:68
Alignment explanation
Indices: 442925--443081 Score: 164
Period size: 69 Copynumber: 2.3 Consensus size: 68
442915 TAGATAATAA
* *
442925 ATTAA-TAATTAGATTAATATTATTATAATTTATTATAT-ATA-TATATTATATT-TATATAATT
1 ATTAATTAATTA-ATTAATATTATTATAATATATTAAATAATATTATATTAT-TTATATATAA-T
442986 ATATATT
63 AT-TATT
* *
442993 ATTAATTAATTTACTATAA-ATTATTATTATATATTAAATAATATTATATTATTTATATATAATA
1 ATTAATTAA-TTAAT-TAATATTATTATAATATATTAAATAATATTATATTATTTATATATAATA
443057 TTATT
64 TTATT
*
443062 -TAAATTATATTAATTAATAT
1 ATTAATTA-ATTAATTAATAT
443082 AACATATTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 16
0.77 0.06 0.16
Matches are distributed among these distances:
67 3 0.04
68 17 0.23
69 26 0.35
70 14 0.19
71 15 0.20
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.54
Consensus pattern (68 bp):
ATTAATTAATTAATTAATATTATTATAATATATTAAATAATATTATATTATTTATATATAATATT
ATT
Found at i:443028 original size:28 final size:27
Alignment explanation
Indices: 442937--443071 Score: 93
Period size: 28 Copynumber: 4.7 Consensus size: 27
442927 TAATAATTAG
442937 ATTAATATTATTATAATTTATTATATATATAT
1 ATTAAT-TTA-TATAA-TTA-TATAT-TATAT
442969 ATTATATTTATATAATTATATATTAT-T
1 ATTA-ATTTATATAATTATATATTATAT
442996 AATTAATTTACTATAAATTAT-TATTATAT
1 -ATTAATTTA-TAT-AATTATATATTATAT
*
443025 ATTAA-ATA-AT-ATTATATTATT-TAT
1 ATTAATTTATATAATTATA-TATTATAT
*
443049 ATATAATATTATTTAAATTATAT
1 AT-TAAT-TTATAT-AATTATAT
443072 TAATTAATAT
Statistics
Matches: 87, Mismatches: 3, Indels: 29
0.73 0.03 0.24
Matches are distributed among these distances:
23 5 0.06
24 5 0.06
25 9 0.10
27 10 0.11
28 22 0.25
29 13 0.15
30 9 0.10
31 5 0.06
32 7 0.08
33 2 0.02
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTAATTTATATAATTATATATTATAT
Found at i:443028 original size:32 final size:31
Alignment explanation
Indices: 442948--443082 Score: 88
Period size: 31 Copynumber: 4.5 Consensus size: 31
442938 TTAATATTAT
* *
442948 TATAATTTATTATATATA-TATATTATATTTA
1 TATAAATTATTATATATATTAGATTA-ATTTA
442979 TAT-AATTA-TATAT-TATTA-ATTAATTTA
1 TATAAATTATTATATATATTAGATTAATTTA
*
443006 CTATAAATTATTATTATATATTA-AATAATATTA
1 -TATAAATTATTA-TATATATTAGATTAAT-TTA
* * * *
443039 TATTATTTA-TATATAATATTA-TTTAAATTA
1 TATAAATTATTATAT-ATATTAGATTAATTTA
* *
443069 TATTAATTAATATA
1 TATAAATTATTATA
443083 ACATATTATA
Statistics
Matches: 87, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
27 5 0.06
28 9 0.10
29 12 0.14
30 20 0.23
31 21 0.24
32 17 0.20
33 3 0.03
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (31 bp):
TATAAATTATTATATATATTAGATTAATTTA
Found at i:443079 original size:24 final size:23
Alignment explanation
Indices: 442919--443081 Score: 86
Period size: 21 Copynumber: 7.4 Consensus size: 23
442909 ATTGAATAGA
*
442919 TAATAA-ATTA-A-TAATTAGAT
1 TAATAATATTATATTAATTATAT
* *
442939 TAATATTATTATAATTTATTATA-
1 TAATAATATTAT-ATTAATTATAT
*
442962 T-ATATATATTATATTTA-TATAAT
1 TAATA-ATATTATATTAATTAT-AT
* *
442985 TATATATTATTA-ATTAATT-TAC
1 TA-ATAATATTATATTAATTATAT
443007 T-ATAA-ATTATTATT-A-TATAT
1 TAATAATATTA-TATTAATTATAT
*
443027 TAAATAATATTATATTATTTATA-
1 T-AATAATATTATATTAATTATAT
443050 T-ATAATATTAT-TTAAATTATAT
1 TAATAATATTATATT-AATTATAT
443072 TAATTAATAT
1 TAA-TAATAT
443082 AACATATTAT
Statistics
Matches: 110, Mismatches: 11, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
19 5 0.05
20 14 0.13
21 26 0.24
22 20 0.18
23 20 0.18
24 22 0.20
25 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.53
Consensus pattern (23 bp):
TAATAATATTATATTAATTATAT
Found at i:443120 original size:17 final size:16
Alignment explanation
Indices: 443087--443141 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
443077 AATATAACAT
*
443087 ATTATAATTATTTATAA
1 ATTATAATTATTAAT-A
443104 ATTATGAATT-TTAATA
1 ATTAT-AATTATTAATA
443120 ATTAT-ATTATTATTATA
1 ATTATAATTATTA--ATA
443137 ATTAT
1 ATTAT
443142 TTATACTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 6 0.18
17 17 0.52
18 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTATAATTATTAATA
Found at i:443577 original size:10 final size:10
Alignment explanation
Indices: 443562--443595 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
443552 CAATGTTAAC
443562 TATTAATAAT
1 TATTAATAAT
443572 TATTAATAAT
1 TATTAATAAT
*
443582 T-TTAATTAT
1 TATTAATAAT
443591 TATTA
1 TATTA
443596 CAAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATTAATAAT
Found at i:443967 original size:21 final size:20
Alignment explanation
Indices: 443943--443993 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
443933 TATATTTAGT
443943 ATATAGATTTTTTATT-AAATA
1 ATATA-ATTTTTTATTGAAA-A
*
443964 ATATAAATTTTTATTGAAAA
1 ATATAATTTTTTATTGAAAA
443984 ATATATATTT
1 ATATA-ATTT
443994 GTGAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
ATATAATTTTTTATTGAAAA
Found at i:443974 original size:20 final size:20
Alignment explanation
Indices: 443951--443993 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
443941 GTATATAGAT
443951 TTTTTATT-AAATAATATAAA
1 TTTTTATTGAAA-AATATAAA
*
443971 TTTTTATTGAAAAATATATA
1 TTTTTATTGAAAAATATAAA
443991 TTT
1 TTT
443994 GTGAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTTTATTGAAAAATATAAA
Found at i:444352 original size:18 final size:19
Alignment explanation
Indices: 444318--444353 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
444308 TAATAGTCAT
444318 ATATTAGTTAATATTTATA
1 ATATTAGTTAATATTTATA
*
444337 ATATTA-TTACTATTTAT
1 ATATTAGTTAATATTTAT
444354 TATAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATTAGTTAATATTTATA
Found at i:444430 original size:14 final size:15
Alignment explanation
Indices: 444389--444504 Score: 57
Period size: 18 Copynumber: 7.5 Consensus size: 15
444379 ATGTAATGAT
444389 TTAATAA-ATTATTA
1 TTAATAATATTATTA
444403 -TAATTAA-A-TATTA
1 TTAA-TAATATTATTA
444416 TTAATAATATT-TTA
1 TTAATAATATTATTA
* *
444430 TGAATCATATTAATTA
1 TTAATAATATT-ATTA
444446 TT-ATAATATGTAATTA
1 TTAATAATAT-T-ATTA
*
444462 -TAATTGTATATTATATA
1 TTAA-T-AATATTAT-TA
444479 TTATATAATAATTATTTA
1 TTA-ATAAT-ATTA-TTA
444497 TTATATAA
1 TTA-ATAA
444505 ATTTAATTGG
Statistics
Matches: 81, Mismatches: 6, Indels: 26
0.72 0.05 0.23
Matches are distributed among these distances:
13 11 0.14
14 20 0.25
15 8 0.10
16 13 0.16
17 6 0.07
18 21 0.26
19 2 0.02
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
TTAATAATATTATTA
Found at i:444463 original size:13 final size:13
Alignment explanation
Indices: 444444--444476 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
444434 TCATATTAAT
444444 TATTATAATATGTA
1 TATTATAAT-TGTA
444458 -ATTATAATTGTA
1 TATTATAATTGTA
444470 TATTATA
1 TATTATA
444477 TATTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (13 bp):
TATTATAATTGTA
Found at i:444489 original size:25 final size:25
Alignment explanation
Indices: 444444--444503 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
444434 TCATATTAAT
* *
444444 TATTATAATATGTAATTATAATTGTA
1 TATTAT-ATATGTAATAATAATTATA
*
444470 TATTATATAT-TATATAATAATTATT
1 TATTATATATGTA-ATAATAATTATA
444495 TATTATATA
1 TATTATATA
444504 AATTTAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.07
25 22 0.73
26 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (25 bp):
TATTATATATGTAATAATAATTATA
Found at i:444605 original size:13 final size:12
Alignment explanation
Indices: 444559--444610 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
444549 ATTGATTGAC
444559 AATAATAGTTAAT
1 AATAATA-TTAAT
444572 AA-AATATTAAT
1 AATAATATTAAT
444583 AATAACTATTAACT
1 AATAA-TATTAA-T
*
444597 ATTAATATT-AT
1 AATAATATTAAT
444608 AAT
1 AAT
444611 TAATTATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 10 0.29
12 7 0.21
13 12 0.35
14 5 0.15
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:444708 original size:32 final size:32
Alignment explanation
Indices: 444656--444716 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
444646 TTATATTTAA
*
444656 ATTTTAATTTAATTATTAATAGTAATTTAGTT
1 ATTTTAATTTAATTATTAATAATAATTTAGTT
444688 ATTTT-ATTATAAGTTA-TAATAATAATTTA
1 ATTTTAATT-TAA-TTATTAATAATAATTTA
444717 ATATTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 3 0.12
32 20 0.77
33 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (32 bp):
ATTTTAATTTAATTATTAATAATAATTTAGTT
Found at i:444922 original size:13 final size:13
Alignment explanation
Indices: 444885--444932 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
444875 TAATATACTA
*
444885 AATAATATATTTAT
1 AATAAT-TATTAAT
*
444899 AATAATAATTAAT
1 AATAATTATTAAT
*
444912 AATTATTATTAATT
1 AATAATTATTAA-T
444926 AATAATT
1 AATAATT
444933 TAATTACTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATAATTATTAAT
Found at i:445107 original size:25 final size:24
Alignment explanation
Indices: 445062--445108 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
445052 GTTTATATAA
* *
445062 ATAATTATTATTATAATTAATTGT
1 ATAATTATTATAATAAATAATTGT
445086 ATAATTATTTATAATAAATAATT
1 ATAATTA-TTATAATAAATAATT
445109 ATTATACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
ATAATTATTATAATAAATAATTGT
Found at i:445108 original size:17 final size:16
Alignment explanation
Indices: 445086--445184 Score: 78
Period size: 17 Copynumber: 6.0 Consensus size: 16
445076 AATTAATTGT
445086 ATAATTATTTATAATAA
1 ATAATTA-TTATAATAA
*
445103 ATAATTATTATACAAAA
1 ATAATTATTATA-ATAA
445120 ATAATAATAGTTATAATAAA
1 ATAAT--TA-TTATAAT-AA
*
445140 ATTATTATTATAATAA
1 ATAATTATTATAATAA
* *
445156 ATAGTTA--ATAATAT
1 ATAATTATTATAATAA
*
445170 ATAA-TATTATTATAA
1 ATAATTATTATAATAA
445185 TGTTATTATA
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
13 2 0.03
14 9 0.14
15 5 0.08
16 12 0.18
17 22 0.33
18 2 0.03
19 3 0.05
20 11 0.17
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (16 bp):
ATAATTATTATAATAA
Found at i:445155 original size:32 final size:32
Alignment explanation
Indices: 445120--445185 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
445110 TTATACAAAA
445120 ATAAT-AATAGTT-ATAATA-A-AATTATTATT
1 ATAATAAATAGTTAATAATATATAA-TATTATT
445149 ATAATAAATAGTTAATAATATATAATATTATT
1 ATAATAAATAGTTAATAATATATAATATTATT
445181 ATAAT
1 ATAAT
445186 GTTATTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 5 0.15
30 7 0.21
31 6 0.18
32 13 0.39
33 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (32 bp):
ATAATAAATAGTTAATAATATATAATATTATT
Found at i:445182 original size:38 final size:38
Alignment explanation
Indices: 445055--445182 Score: 120
Period size: 38 Copynumber: 3.4 Consensus size: 38
445045 AATAATAGTT
* * *
445055 TATATAA-ATAATTATTATTATAATTAATTGTATAATTA
1 TATATAATATAATTATTATTATAATAAATAGT-TAATAA
* * * * *
445093 TTTATAATA-AATAATTATTATACAAAAATA-ATAATAG
1 TATATAATATAATTATTATTATA-ATAAATAGTTAATAA
*
445130 T-TATAATAAAATTATTATTATAATAAATAGTTAATAA
1 TATATAATATAATTATTATTATAATAAATAGTTAATAA
*
445167 TATATAATATTATTAT
1 TATATAATATAATTAT
445183 AATGTTATTA
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
36 13 0.18
37 23 0.32
38 30 0.42
39 5 0.07
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (38 bp):
TATATAATATAATTATTATTATAATAAATAGTTAATAA
Found at i:445200 original size:57 final size:54
Alignment explanation
Indices: 445044--445201 Score: 139
Period size: 53 Copynumber: 2.9 Consensus size: 54
445034 AATAACAATT
* * *
445044 TAAT-AATAGTTTATATAAATAATTATTATTATAAT-TAATTGTATAATTA-TTTA
1 TAATAAATAG-TTATATATATAA-TATTATTATAATGTTATTATATAATTATTTTA
* * * * * *
445097 TAATAAATAATTAT-TATACAA-A-AATAATAATAGTTATAATAAAATTATTATTA
1 TAATAAATAGTTATATATATAATATTATTATAAT-GTTATTATATAATTATT-TTA
445150 TAATAAATAGTTAATAATATATAATATTATTATAATGTTATTATATAATTAT
1 TAATAAATAGTT-AT-ATATATAATATTATTATAATGTTATTATATAATTAT
445202 AAATATATTA
Statistics
Matches: 80, Mismatches: 15, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
49 7 0.09
50 1 0.01
51 10 0.12
52 6 0.08
53 22 0.28
54 6 0.08
56 6 0.08
57 15 0.19
58 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (54 bp):
TAATAAATAGTTATATATATAATATTATTATAATGTTATTATATAATTATTTTA
Found at i:445253 original size:21 final size:18
Alignment explanation
Indices: 445229--445271 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
445219 TTTAACACAT
445229 TTATAATTTAAATAACTTATA
1 TTATAA-TTAAATAA-TTA-A
*
445250 TTATTATTAAATAATTAA
1 TTATAATTAAATAATTAA
445268 TTAT
1 TTAT
445272 CATATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 3 0.14
20 8 0.38
21 5 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATAATTAAATAATTAA
Found at i:445278 original size:20 final size:20
Alignment explanation
Indices: 445236--445271 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
445226 CATTTATAAT
445236 TTAAATAACTTATATTATTA
1 TTAAATAACTTATATTATTA
445256 TTAAATAA-TTA-ATTAT
1 TTAAATAACTTATATTAT
445272 CATATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.31
19 3 0.19
20 8 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATAACTTATATTATTA
Found at i:445900 original size:31 final size:30
Alignment explanation
Indices: 445850--445907 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
445840 TAAATGTTAA
**
445850 TATTAATTTATAATTAATAATTATAATCAT
1 TATTAATTTATAAACAATAATTATAATCAT
445880 TATTAATATTATAAACAATAATTATAAT
1 TATTAAT-TTATAAACAATAATTATAAT
445908 TTAAAATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (30 bp):
TATTAATTTATAAACAATAATTATAATCAT
Found at i:445903 original size:19 final size:19
Alignment explanation
Indices: 445859--445912 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
445849 ATATTAATTT
*
445859 ATAATTAATAATTATAATC
1 ATAATTAATAATTATAAAC
*
445878 ATTATTAAT-ATTATAAAC
1 ATAATTAATAATTATAAAC
445896 AATAATT-ATAATT-TAAA
1 -ATAATTAATAATTATAAA
445913 ATATCTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATTAATAATTATAAAC
Found at i:445940 original size:19 final size:19
Alignment explanation
Indices: 445896--445962 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
445886 TATTATAAAC
445896 AATAA-TTATAATTTA-A-
1 AATAATTTATAATTTATAT
445912 AAT-ATCTTATAATTTATAT
1 AATAAT-TTATAATTTATAT
*
445931 AATAATTTAT-ATTGTTTAT
1 AATAATTTATAATT-TATAT
*
445950 TATAATTTATAAT
1 AATAATTTATAAT
445963 ATTAAATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
15 1 0.02
16 3 0.07
17 10 0.24
18 4 0.10
19 20 0.48
20 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
AATAATTTATAATTTATAT
Found at i:446011 original size:22 final size:22
Alignment explanation
Indices: 445952--446011 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
445942 TTGTTTATTA
*
445952 TAATTTATAATATTAAATT-AT
1 TAATTTATATTATTAAATTAAT
* * *
445973 T-A--GATATTAGTATATTAAT
1 TAATTTATATTATTAAATTAAT
445992 TAATTTATATTATTAAATTA
1 TAATTTATATTATTAAATTA
446012 TTATGGAAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 7
0.67 0.17 0.17
Matches are distributed among these distances:
18 10 0.36
19 3 0.11
20 2 0.07
21 1 0.04
22 12 0.43
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
TAATTTATATTATTAAATTAAT
Found at i:446069 original size:4 final size:4
Alignment explanation
Indices: 446043--446084 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
446033 TATATTATCA
* *
446043 TAAT TAAT CAAT TAAT AATAT TAAT T-AT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TA-AT TAAT TAAT TAAT TAAT TAAT TA
446085 TGCTAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 3 0.09
4 26 0.81
5 3 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:446076 original size:28 final size:31
Alignment explanation
Indices: 446025--446084 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 31
446015 TGGAAACATT
446025 ATAATATTTATATTATCATAATTAATCAATTA
1 ATAATATTTATATTAT-ATAATTAATCAATTA
*
446057 ATAATA-TTA-ATTAT-TAATTAATTAATTA
1 ATAATATTTATATTATATAATTAATCAATTA
446085 TGCTAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 13 0.48
30 5 0.19
31 3 0.11
32 6 0.22
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
ATAATATTTATATTATATAATTAATCAATTA
Found at i:446091 original size:24 final size:24
Alignment explanation
Indices: 446045--446095 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
446035 TATTATCATA
*
446045 ATTAATCAATTAATAATATTAATT
1 ATTAATCAATTAATAATACTAATT
* * *
446069 ATTAATTAATTAATTATGCTAATT
1 ATTAATCAATTAATAATACTAATT
446093 ATT
1 ATT
446096 TTAACAAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTAATCAATTAATAATACTAATT
Found at i:446286 original size:15 final size:17
Alignment explanation
Indices: 446266--446297 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
446256 AAATAATTAT
446266 TATAAAT-G-TATATAA
1 TATAAATAGTTATATAA
446281 TATAAATAGTTATATAA
1 TATAAATAGTTATATAA
446298 CTATTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
TATAAATAGTTATATAA
Found at i:446670 original size:21 final size:22
Alignment explanation
Indices: 446645--446720 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 22
446635 ATTATATCAG
446645 ATAATTATTAACTATAAAA-TA
1 ATAATTATTAACTATAAAATTA
*
446666 ATAATTATACTAAATA-AAAATTA
1 ATAATTAT--TAACTATAAAATTA
446689 ATAA-T-TTAACTATAAAAATTA
1 ATAATTATTAACTAT-AAAATTA
* *
446710 TTAAATATTAA
1 ATAATTATTAA
446721 GTTATAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 5 0.11
21 19 0.42
22 6 0.13
23 15 0.33
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAATTATTAACTATAAAATTA
Found at i:446972 original size:12 final size:11
Alignment explanation
Indices: 446936--446976 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
446926 TAATTAAATT
*
446936 TAATATTATAA
1 TAATATAATAA
*
446947 TATTATAATAA
1 TAATATAATAA
446958 TAATATAATTAA
1 TAATATAA-TAA
446970 TAATATA
1 TAATATA
446977 TTAGTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATATAATAA
Found at i:447527 original size:13 final size:13
Alignment explanation
Indices: 447480--447536 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
447470 TTTAATATTA
447480 AATTAATATAATAT
1 AATTAATATAAT-T
*
447494 AACT-ATAT-ATT
1 AATTAATATAATT
447505 AAATTATAATATAATT
1 -AA-T-TAATATAATT
447521 AATTAATATAATT
1 AATTAATATAATT
447534 AAT
1 AAT
447537 ATTAACCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
11 1 0.03
12 4 0.11
13 17 0.47
14 5 0.14
15 6 0.17
16 3 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTAATATAATT
Found at i:447540 original size:15 final size:16
Alignment explanation
Indices: 447471--447555 Score: 65
Period size: 15 Copynumber: 5.4 Consensus size: 16
447461 ATTTACTATT
*
447471 TTAATATTAAAT-TAA
1 TTAATATTAACTATAA
447486 TATAATA-TAACTATATA
1 T-TAATATTAACTATA-A
*
447503 TTAA-ATTATAATATAA
1 TTAATATTA-ACTATAA
447519 TT-A-ATTAA-TATAA
1 TTAATATTAACTATAA
447532 TTAATATTAACCTAGTAA
1 TTAATATTAA-CTA-TAA
447550 TTAATA
1 TTAATA
447556 ATATTGTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
13 7 0.12
14 2 0.03
15 16 0.28
16 15 0.26
17 9 0.16
18 9 0.16
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (16 bp):
TTAATATTAACTATAA
Found at i:447743 original size:20 final size:20
Alignment explanation
Indices: 447720--447774 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
447710 ATAGTTATTA
*
447720 ATATTATATAA-ATAATAATT
1 ATATAATATAATAT-ATAATT
*
447740 ATATAATATATTATATAATT
1 ATATAATATAATATATAATT
* *
447760 ATATAGTACAATATA
1 ATATAATATAATATA
447775 ATAGTATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATATAATATAATATATAATT
Found at i:447764 original size:15 final size:14
Alignment explanation
Indices: 447716--447760 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 14
447706 TATAATAGTT
447716 ATTAATATTATATA
1 ATTAATATTATATA
*
447730 AATAATAATTATATA
1 ATTAAT-ATTATATA
447745 A-T-ATATTATATA
1 ATTAATATTATATA
447757 ATTA
1 ATTA
447761 TATAGTACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 3 0.11
14 6 0.22
15 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTAATATTATATA
Found at i:447812 original size:26 final size:28
Alignment explanation
Indices: 447770--447821 Score: 65
Period size: 26 Copynumber: 1.9 Consensus size: 28
447760 ATATAGTACA
447770 ATATAATAGTATAA-TTTAT-AAATATG
1 ATATAATAGTATAATTTTATCAAATATG
*
447796 ATATAACTAG-ATTATTTTATCAAATA
1 ATATAA-TAGTATAATTTTATCAAATA
447822 GTTAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 9 0.41
27 8 0.36
28 5 0.23
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (28 bp):
ATATAATAGTATAATTTTATCAAATATG
Found at i:448350 original size:28 final size:27
Alignment explanation
Indices: 448298--448380 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
448288 AATAAATATT
**
448298 TAATATTATTTTAC-AAAT-AAT-ATA
1 TAATATTATTTTACTATTTGAATAATA
448322 TAATATATATTTATA-TATTTGAATAATA
1 TAATAT-TATTT-TACTATTTGAATAATA
*
448350 TAATATTATTTTACTATTTGATTAAT-
1 TAATATTATTTTACTATTTGAATAATA
448376 TAATA
1 TAATA
448381 ACTGTTGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
24 6 0.12
25 5 0.10
26 11 0.22
27 19 0.38
28 9 0.18
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
TAATATTATTTTACTATTTGAATAATA
Found at i:448492 original size:8 final size:8
Alignment explanation
Indices: 448454--448533 Score: 53
Period size: 8 Copynumber: 10.1 Consensus size: 8
448444 AATTTATCAT
*
448454 TAATTTTA
1 TAATATTA
448462 TAATATTAA
1 TAATATT-A
448471 TTAAT-TATA
1 -TAATAT-TA
*
448480 AAATATTA
1 TAATATTA
448488 TAATACTTA
1 TAATA-TTA
448497 TAATATTA
1 TAATATTA
448505 T-A-A-T-
1 TAATATTA
448509 TAATATTA
1 TAATATTA
*
448517 TAAAATTA
1 TAATATTA
*
448525 TAAAATTA
1 TAATATTA
448533 T
1 T
448534 TTATAAATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
4 1 0.02
5 2 0.03
6 2 0.03
7 2 0.03
8 35 0.59
9 12 0.20
10 5 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (8 bp):
TAATATTA
Found at i:448503 original size:17 final size:17
Alignment explanation
Indices: 448459--448533 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 17
448449 ATCATTAATT
*
448459 TTATAATATTA-ATTAA
1 TTATAATATTATAATAA
*
448475 TTATAAAATATTATAATAC
1 TTAT--AATATTATAATAA
448494 TTATAATATTATAATTAATA
1 TTATAATATTATAA-T-A-A
*
448514 TTATAAAATTATAA-AA
1 TTATAATATTATAATAA
448530 TTAT
1 TTAT
448534 TTATAAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
16 9 0.18
17 11 0.22
18 8 0.16
19 8 0.16
20 13 0.27
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATAATATTATAATAA
Found at i:448869 original size:26 final size:27
Alignment explanation
Indices: 448840--448907 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
448830 TATAGTAATA
*
448840 AATTAATATATTAATTT-AA-TATTTAT
1 AATTAATA-ATTAATTTCAATTAGTTAT
448866 AATTAATAATATAATTTCAATTAGTTAT
1 AATTAATAAT-TAATTTCAATTAGTTAT
*
448894 -ATTATTAATTAATT
1 AATTAATAATTAATT
448908 ATTATTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 2 0.05
26 19 0.51
27 10 0.27
28 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
AATTAATAATTAATTTCAATTAGTTAT
Found at i:448915 original size:17 final size:17
Alignment explanation
Indices: 448884--448926 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
448874 ATATAATTTC
*
448884 AATTAGTTA-TATTATT
1 AATTAATTATTATTATT
448900 AATTAATTATTATTATT
1 AATTAATTATTATTATT
*
448917 AAATAATTAT
1 AATTAATTAT
448927 AAATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTAATTATTATTATT
Found at i:448928 original size:6 final size:6
Alignment explanation
Indices: 448919--449003 Score: 54
Period size: 6 Copynumber: 14.3 Consensus size: 6
448909 TTATTATTAA
* *
448919 ATAATT ATAAAT ATATATT ATAGTT AT-ATT ATAA-T ATAAATT AATAAATT
1 ATAATT ATAATT ATA-ATT ATAATT ATAATT ATAATT AT-AATT -AT-AATT
* * *
448969 AT-ATA ATAGTT ATAATT ATAA-- ATAATT ATATTT AT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT AT
449004 TAAATATATA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
4 4 0.06
5 11 0.18
6 32 0.52
7 8 0.13
8 7 0.11
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:448972 original size:36 final size:36
Alignment explanation
Indices: 448906--448998 Score: 113
Period size: 36 Copynumber: 2.6 Consensus size: 36
448896 TATTAATTAA
* *
448906 TTATTATTATTAAAT-AATTATAAATATATATTATAG
1 TTATAATTA-TAAATAAATTATAAATATATATAATAG
448942 TTAT-ATTATAATATAAATTAATAAAT-TATATAATAG
1 TTATAATTATAA-ATAAATT-ATAAATATATATAATAG
448978 TTATAATTATAAAT-AATTATA
1 TTATAATTATAAATAAATTATA
448999 TTTATTAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
34 6 0.12
35 10 0.19
36 23 0.44
37 13 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (36 bp):
TTATAATTATAAATAAATTATAAATATATATAATAG
Found at i:448998 original size:25 final size:24
Alignment explanation
Indices: 448905--449032 Score: 83
Period size: 24 Copynumber: 5.4 Consensus size: 24
448895 TTATTAATTA
*
448905 ATTATTATTATTAAATAATTATAA-
1 ATTATAATTA-TAAATAATTATAAT
**
448929 A-TATATATTATAGTTATATTATAAT
1 ATTATA-ATTATAAATA-ATTATAAT
*
448954 A-TA-AATTAATAAATTA-TATAAT
1 ATTATAATT-ATAAATAATTATAAT
*
448976 AGTTATAATTATAAATAATTATATTT
1 A-TTATAATTATAAATAATTATA-AT
449002 ATTA-AATATATAAATAATT-T-AT
1 ATTATAAT-TATAAATAATTATAAT
*
449024 ATAATAATT
1 ATTATAATT
449033 TGTATTGTTA
Statistics
Matches: 83, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
22 12 0.14
23 14 0.17
24 30 0.36
25 25 0.30
26 2 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTATAATTATAAATAATTATAAT
Found at i:449007 original size:17 final size:17
Alignment explanation
Indices: 448890--449009 Score: 79
Period size: 17 Copynumber: 6.9 Consensus size: 17
448880 TTTCAATTAG
*
448890 TTAT-ATTATTAATTAA
1 TTATAATTATTAAATAA
*
448906 TTATTATTATTAAATAA
1 TTATAATTATTAAATAA
* * *
448923 TTATAAATATATATTATAG
1 TTATAATTAT-TA-AATAA
448942 TTAT-ATTA-TAATATAAA
1 TTATAATTATTAA-AT-AA
*
448959 TTAATAAATTA-TATAATAG
1 TT-AT-AATTATTA-AATAA
448978 TTATAATTA-TAAATAA
1 TTATAATTATTAAATAA
*
448994 TTATATTTATTAAATA
1 TTATAATTATTAAATA
449010 TATAAATAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
16 20 0.24
17 35 0.42
18 9 0.11
19 10 0.12
20 8 0.10
21 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TTATAATTATTAAATAA
Found at i:449335 original size:17 final size:17
Alignment explanation
Indices: 449313--449351 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
449303 TTATCTATTT
449313 TAATAATATCT-ATATAA
1 TAATAATA-CTAATATAA
*
449330 TAATAATACTAATTTAA
1 TAATAATACTAATATAA
449347 TAATA
1 TAATA
449352 TAATTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAATACTAATATAA
Found at i:449347 original size:14 final size:14
Alignment explanation
Indices: 449311--449358 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
449301 TTTTATCTAT
449311 TTTAATAATATCTATA
1 TTTAATAATA-CTA-A
*
449327 TAATAATAATACTAA
1 T-TTAATAATACTAA
449342 TTTAATAATA-TAA
1 TTTAATAATACTAA
449355 TTTA
1 TTTA
449359 TATATTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 7 0.24
14 8 0.28
15 2 0.07
16 4 0.14
17 8 0.28
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTAATAATACTAA
Found at i:449367 original size:14 final size:13
Alignment explanation
Indices: 449330--449369 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
449320 ATCTATATAA
449330 TAATAATACTAATT
1 TAATAATA-TAATT
449344 TAATAATATAATT
1 TAATAATATAATT
*
449357 TATATATTATAAT
1 TA-ATAATATAAT
449370 AAGTAAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TAATAATATAATT
Found at i:449392 original size:34 final size:33
Alignment explanation
Indices: 449311--449399 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 33
449301 TTTTATCTAT
* *
449311 TTTAATAATATCTATATA--ATAATAATACTAA
1 TTTAATAATATTTATATATTATAATAATACAAA
449342 TTTAATAATATAATTTATATATTATAATAAGTA-AACA
1 TTTAAT-A-AT-ATTTATATATTATAATAA-TACAA-A
449379 TTTAATAATATTTATA-ATTAT
1 TTTAATAATATTTATATATTAT
449400 TATCTTTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
31 6 0.12
32 1 0.02
33 7 0.14
34 15 0.31
35 2 0.04
36 9 0.18
37 9 0.18
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (33 bp):
TTTAATAATATTTATATATTATAATAATACAAA
Found at i:450227 original size:19 final size:19
Alignment explanation
Indices: 450205--450242 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
450195 TAATTATAGT
450205 AAATA-AAATTAGTTATTTA
1 AAATATAAATTA-TTATTTA
*
450224 AAATATTAATTATTATTTA
1 AAATATAAATTATTATTTA
450243 TAATTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AAATATAAATTATTATTTA
Found at i:450444 original size:20 final size:21
Alignment explanation
Indices: 450421--450471 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
450411 CAAATATTTC
450421 AATAATTATTAAAT-TA-TTA
1 AATAATTATTAAATATAGTTA
* *
450440 TAATAAATAAT-AATATAGTTA
1 -AATAATTATTAAATATAGTTA
450461 AATAATTATTA
1 AATAATTATTA
450472 TTAATGATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AATAATTATTAAATATAGTTA
Found at i:451632 original size:13 final size:13
Alignment explanation
Indices: 451614--451638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
451604 AGGATTTATT
451614 ATAAAATTATTAG
1 ATAAAATTATTAG
451627 ATAAAATTATTA
1 ATAAAATTATTA
451639 ATATTTTACT
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
ATAAAATTATTAG
Found at i:452359 original size:180 final size:179
Alignment explanation
Indices: 451807--452374 Score: 537
Period size: 180 Copynumber: 3.2 Consensus size: 179
451797 AAATGGTTAA
* * * * * * *
451807 GACTATTAGAATAATTATATACTTCAAATCGTTTTGACCATTT-TTTAGTCATAAAACAATTGTT
1 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTATTTTGTCATAAAACAATTGTT
* * * * * * ** *
451871 TCAATTCATTCAAGCTTATTCAAAATAAATTAATACTAATTTATTAACATTTGGAAATTTAATAA
66 TTAATTAATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCCAAAATTAATAA
* * * *
451936 GAAAGAGATTTAAAAAATAAATTTATTTGCCGAACAAGTTCAAATAGTTAT
131 G-AA-AGATTTAAAAAATAAATTTGTTTACCAAACAAGTTCAAATAATTAT
* * * * * * * * *
451987 TATTATTTGAACCATTGTCTATTTAAAAACGTTAT-AACTTTTAATTTATCATAAAACAATTGTT
1 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTATTTTGTCATAAAACAATTGTT
* * * * *
452051 TCAGTTAATACAAGCTTAGAT-GGAATAAAATAATACTAATTTATT-ATATTTCCTAAATTAATA
66 TTAATTAATACAAGCTTA-TTCGAAATAAAATAATACTAATTTATTAATATTTCCAAAATTAATA
* *
452114 AG-AA-A-TTAAAAAATAAATTTGTTTACCAAATTAA-TTAAAATAATTAT
130 AGAAAGATTTAAAAAATAAATTTGTTTACCAAA-CAAGTTCAAATAATTAT
* * * *
452161 G-GTCATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTATTTTGTCATAATACAATTGT
1 GACT-ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTATTTTGTCATAAAACAATTG-
* * *
452225 TTTTTATT-ATACAAGCTTATTCGAAATAAAATAATACTAATTGATTAATATTT-CAAAAATAAT
64 TTTTAATTAATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCCAAAATTAAT
* * * *
452288 AGGTAATAGATTTAAACAATAAATCTGTTTACCAAACCAGTTCAAATAATTAT
129 AAG-AA-AGATTTAAAAAATAAATTTGTTTACCAAACAAGTTCAAATAATTAT
* * *
452341 GACTATTTGAACAATTATCAATCTCAAATTGTTA
1 GACTATTTGAACAATTATCTATTTCAAATCGTTA
452375 AAATTTTTGT
Statistics
Matches: 307, Mismatches: 66, Indels: 30
0.76 0.16 0.07
Matches are distributed among these distances:
173 1 0.00
174 59 0.19
175 69 0.22
176 12 0.04
177 2 0.01
178 1 0.00
179 22 0.07
180 139 0.45
181 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (179 bp):
GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTATTTTGTCATAAAACAATTGTT
TTAATTAATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCCAAAATTAATAA
GAAAGATTTAAAAAATAAATTTGTTTACCAAACAAGTTCAAATAATTAT
Found at i:452527 original size:17 final size:17
Alignment explanation
Indices: 452505--452544 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
452495 TAATAACTAA
452505 TTATTAAAA-AATTGTAT
1 TTATTAAAATAATT-TAT
452522 TTATTAAAATAATTTAT
1 TTATTAAAATAATTTAT
*
452539 ATATTA
1 TTATTA
452545 TTTATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTATTAAAATAATTTAT
Found at i:452618 original size:16 final size:15
Alignment explanation
Indices: 452599--452681 Score: 62
Period size: 16 Copynumber: 5.3 Consensus size: 15
452589 ATTAATAGTG
*
452599 ATATATTAATTTAATT
1 ATATATTAA-TTAATA
452615 ATATATATAATTAATA
1 ATATAT-TAATTAATA
452631 ATATATT-A-TAATA
1 ATATATTAATTAATA
* *
452644 ATTATAATAATTTATA
1 A-TATATTAATTAATA
*
452660 ATAATTATTTATTAATTA
1 AT-A-TATTAATTAA-TA
452678 ATAT
1 ATAT
452682 GAATATATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
13 6 0.11
14 6 0.11
15 3 0.06
16 24 0.44
17 11 0.20
18 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATATTAATTAATA
Found at i:452632 original size:19 final size:19
Alignment explanation
Indices: 452568--452666 Score: 63
Period size: 19 Copynumber: 5.4 Consensus size: 19
452558 AAGCATTATG
452568 ATAATT-ATAATT-TGAT-T
1 ATAATTAATAATTAT-ATAT
* *
452585 ATAAATTAATAGTGATATAT
1 AT-AATTAATAATTATATAT
452605 -TAATT--TAATTATATAT
1 ATAATTAATAATTATATAT
452621 ATAATTAATAA-TATATTAT
1 ATAATTAATAATTATA-TAT
452640 AATAATTATAATAATT-TATA-
1 -ATAA-T-TAATAATTATATAT
452660 ATAATTA
1 ATAATTA
452667 TTTATTAATT
Statistics
Matches: 66, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
16 9 0.14
17 9 0.14
18 13 0.20
19 17 0.26
20 6 0.09
21 3 0.05
22 8 0.12
23 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
ATAATTAATAATTATATAT
Found at i:452667 original size:19 final size:19
Alignment explanation
Indices: 452610--452667 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 19
452600 TATATTAATT
452610 TAATTATATATATAATTAATAA
1 TAATT-TATA-ATAATT-ATAA
452632 T-ATATTATAATAATTATAA
1 TAAT-TTATAATAATTATAA
452651 TAATTTATAATAATTAT
1 TAATTTATAATAATTAT
452668 TTATTAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 18 0.53
20 8 0.24
21 6 0.18
22 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATTTATAATAATTATAA
Found at i:454419 original size:22 final size:22
Alignment explanation
Indices: 454374--454415 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
454364 TATATATAGT
* *
454374 ATATAAATTTTTTTATTAAATA
1 ATATAAATATTATTATTAAATA
454396 ATATAAATATTATT-TTAAAT
1 ATATAAATATTATTATTAAAT
454416 TAATTAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATAAATATTATTATTAAATA
Found at i:454714 original size:18 final size:18
Alignment explanation
Indices: 454691--454841 Score: 62
Period size: 18 Copynumber: 8.1 Consensus size: 18
454681 ATTTGGCTAT
454691 TATAATTTAATATATTAA
1 TATAATTTAATATATTAA
454709 TATAATTTCAAT-T-TTAA
1 TATAATTT-AATATATTAA
* * *
454726 -ACTAATAGTCATATATTAG
1 TA-TAAT-TTAATATATTAA
* *
454745 T-TAATATTTATAATATTAT
1 TATAAT-TTAAT-ATATTAA
* * *
454764 TACAATTTATTATAATAA
1 TATAATTTAATATATTAA
454782 T-TAATTTATATAGTATCATGAA
1 TATAATTTA-ATA-TAT--T-AA
* *
454804 -ATAATTTAATAAATTAT
1 TATAATTTAATATATTAA
*
454821 TATAATTAAATATTATTAA
1 TATAATTTAATA-TATTAA
454840 TA
1 TA
454842 ATATGTAATT
Statistics
Matches: 98, Mismatches: 19, Indels: 31
0.66 0.13 0.21
Matches are distributed among these distances:
16 1 0.01
17 17 0.17
18 38 0.39
19 24 0.24
20 5 0.05
21 4 0.04
22 9 0.09
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (18 bp):
TATAATTTAATATATTAA
Found at i:454874 original size:50 final size:46
Alignment explanation
Indices: 454818--454926 Score: 116
Period size: 47 Copynumber: 2.3 Consensus size: 46
454808 TTTAATAAAT
* * *
454818 TATTATAATTAAATATTATTAATAATATGTAATTATAATTGTATATTATA
1 TATTATAATTAAATATTATT--TAATATATAATT-TAATTGGACA-TATA
*
454868 TATTAT-A-T-AATATTATTTATTATATAATTTAATTGGACATATA
1 TATTATAATTAAATATTATTTAATATATAATTTAATTGGACATATA
454911 TATTAATAATTAAATA
1 TATT-ATAATTAAATA
454927 ACATAACAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
43 8 0.16
44 10 0.20
45 11 0.22
46 1 0.02
47 13 0.25
48 1 0.02
49 1 0.02
50 6 0.12
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.50
Consensus pattern (46 bp):
TATTATAATTAAATATTATTTAATATATAATTTAATTGGACATATA
Found at i:454878 original size:22 final size:22
Alignment explanation
Indices: 454851--454921 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
454841 AATATGTAAT
454851 TATAATTGTATATTATATATTA
1 TATAATTGTATATTATATATTA
*
454873 TATAATAT-TAT-TTATTATATAA
1 TATAAT-TGTATATTA-TATATTA
* * *
454895 TTTAATTGGACA-TATATATTA
1 TATAATTGTATATTATATATTA
454916 -ATAATT
1 TATAATT
454922 AAATAACATA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
20 5 0.13
21 10 0.26
22 23 0.59
23 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (22 bp):
TATAATTGTATATTATATATTA
Found at i:454882 original size:17 final size:17
Alignment explanation
Indices: 454860--454895 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
454850 TTATAATTGT
454860 ATATTATATATTATATA
1 ATATTATATATTATATA
*
454877 ATATTATTTATTATATA
1 ATATTATATATTATATA
454894 AT
1 AT
454896 TTAATTGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTATATATTATATA
Found at i:454994 original size:13 final size:12
Alignment explanation
Indices: 454948--454999 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
454938 ATTGTTTGAC
454948 AATAATAGTTAAT
1 AATAATA-TTAAT
454961 AA-AATATTAAT
1 AATAATATTAAT
454972 AATAACTATTAACT
1 AATAA-TATTAA-T
*
454986 ATTAATATT-AT
1 AATAATATTAAT
454997 AAT
1 AAT
455000 TAATTATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 10 0.29
12 7 0.21
13 12 0.35
14 5 0.15
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:455576 original size:13 final size:13
Alignment explanation
Indices: 455558--455596 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
455548 AATTACAAAC
455558 ATAATTAAATATT
1 ATAATTAAATATT
*
455571 ATAATTAAATAAT
1 ATAATTAAATATT
*
455584 ATGAATTATATAT
1 AT-AATTAAATAT
455597 AGATTATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATAATTAAATATT
Found at i:456381 original size:16 final size:17
Alignment explanation
Indices: 456360--456392 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
456350 TAGCAATTAG
456360 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
456376 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
456393 TGTACTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:456736 original size:357 final size:353
Alignment explanation
Indices: 456076--456744 Score: 738
Period size: 357 Copynumber: 1.9 Consensus size: 353
456066 AATCTTTTAT
* * * **
456076 TTATTAATTTTTAAAATATTAATAAATAATATTATTTTAATTCGAATAGGCTTTTATGAAGAAAA
1 TTATTAATTTTTAAAATATTAATAAATAATATTATATTAATTCAAATAAGCTAGTATGAAG-AAA
* * *
456141 ACAATTGTGTCATGAGAAACAAAAAGTCATAACAATTTGAAATAAATAATTGTTCAAATAGTAAT
65 ACAATTGTGTCATGAAAAACAAAAAGTCATAACAATTTGAAATAAATAATTATTCAAACAGTAAT
* * * * * * * *
456206 AATTATTTAAACTTATTTGATAAATAGATTTATTTTTTAAATCTTTTACTTATTAGTTGTCTAAA
130 AATTATTTAAACTGATTAGACAAATAGATTCATTCTTTAAATCTATTACTTATTAATTGTCAAAA
* * * * *
456271 TATTAATAAATTTGTATAATTTTATTTGAAATATGCTTGTATGAATAGAAAATTATGTTTTAGGA
195 TATTAATAAATTAGTATAACTTTATTTGAAATAAGCTTATATGAACAGAAAATTA-GTTTTAGGA
* *
456336 CAAAACAAAAGGCATAGCAATTAGAAATAGATAATTATTCAAATAGTCATAATTATTTGTACTTG
259 CAAAACAAAAGGCATAACAATTAGAAATAAATAATTATTCAAATAGTCATAATTATTTGTACTTG
456401 TTCGATAAATAGATGCATTTTTTAAATCTC
324 TTCGATAAATAGATGCATTTTTTAAATCTC
* *
456431 TTATTAATTTTTAGAATATTAATAAAATAGA-ATTATATTATTTCAAATAAGCTAGTATAGACAG
1 TTATTAATTTTTAAAATATTAAT-AAATA-ATATTATATTAATTCAAATAAGCTAGTAT-GA-AG
* ** * ** *
456495 -AAACAATTGTTTTGTGATAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAACAG
62 AAAACAATTGTGTCATGA-AAAACAAAAAGTCATAACAATTTGAAATAAATAATTATTCAAACAG
* ** * * * * *
456559 TTATAATTATTTGCACTGGTTAGGCCAATTGATTCATTCTTTAAATCTATTAGTTATTAATT-TC
126 TAATAATTATTTAAACTGATTAGACAAATAGATTCATTCTTTAAATCTATTACTTATTAATTGTC
* *
456623 AAAATATTGATAAATTAGTATTACTTTATTCTG-AATAAGAC-TATATGAACAGAAATAATTA-T
191 AAAATATTAATAAATTAGTATAACTTTATT-TGAAATAAG-CTTATATGAACAG-AA-AATTAGT
* * * ** * * *
456685 TTTATGACAATACAAATGGTCATAATTATTTGAAATAAATAATTGTTCAAATAGTTATAA
252 TTTAGGACAAAACAAAAGG-CATAACAATTAGAAATAAATAATTATTCAAATAGTCATAA
456745 CTAATTGAAC
Statistics
Matches: 254, Mismatches: 50, Indels: 18
0.79 0.16 0.06
Matches are distributed among these distances:
355 22 0.09
356 98 0.39
357 127 0.50
358 7 0.03
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (353 bp):
TTATTAATTTTTAAAATATTAATAAATAATATTATATTAATTCAAATAAGCTAGTATGAAGAAAA
CAATTGTGTCATGAAAAACAAAAAGTCATAACAATTTGAAATAAATAATTATTCAAACAGTAATA
ATTATTTAAACTGATTAGACAAATAGATTCATTCTTTAAATCTATTACTTATTAATTGTCAAAAT
ATTAATAAATTAGTATAACTTTATTTGAAATAAGCTTATATGAACAGAAAATTAGTTTTAGGACA
AAACAAAAGGCATAACAATTAGAAATAAATAATTATTCAAATAGTCATAATTATTTGTACTTGTT
CGATAAATAGATGCATTTTTTAAATCTC
Found at i:456743 original size:180 final size:174
Alignment explanation
Indices: 456060--456759 Score: 541
Period size: 180 Copynumber: 3.9 Consensus size: 174
456050 AACATATTTA
* * * * *
456060 TTTTAAAATCTTTTATTTATTAATTTTTAAAATATTAATAAA-TAATATTATTTTAATTCGAATA
1 TTTTTAAATCTATTA-TTATT-A-TTTCAAAATATTAATAAATTAGTATTA-TTT-ATTTGAATA
* * * * * * * * *
456124 GGCTTTTATGAAGAAAAACAATTGTGTCATGA-GAAACAAAAAGTCATAACAATTTGAAATAAAT
61 AGC-TATATGAACAGAAA-AATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAAT
* * * ** * *
456188 AATTGTTCAAATAGTAATAATTATTTAAACTTATTTGATAAATAGATTTAT
124 AATTATTCAAATAGTTATAATTATTTGAACTGGTTAGATAAATAGATTCAT
* * * *
456239 TTTTTAAATCTTTTACTTATTAGTTGTCTAAATATTAATAAATTTGTATAATTTTATTTGAAATA
1 TTTTTAAATCTATTA-TTATTA-TT-TCAAAATATTAATAAATTAGTATTA-TTTATTTG-AATA
* * * * * * *
456304 TGCTTGTATGAATAG-AAAATTATGTTTTAGGACAAAACAAAAGG-CATAGCAATTAGAAATAGA
61 AGC-TATATGAACAGAAAAATTA--TTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAA
* * * * *
456367 TAATTATTCAAATAGTCATAATTATTTGTACTTGTTCGATAAATAGATGCAT
123 TAATTATTCAAATAGTTATAATTATTTGAACTGGTTAGATAAATAGATTCAT
* * * * *
456419 TTTTTAAATCTCTTATTAATT-TTT-AGAATATTAATAAAATAGAATTATATTATTTCAAATAAG
1 TTTTTAAATCTATTATT-ATTATTTCAAAATATTAATAAATTAGTATTAT-TTATTT-GAATAAG
* * * ** *
456482 CTAGTAT-AGACAGAAACAATTGTTTTGTGATAAAACAAAAGGTCATAATGATTTGAAATAGATA
63 CTA-TATGA-ACAGAAA-AATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATA
* * *** *
456546 ATTATTCAAACAGTTATAATTATTTGCACTGGTTAGGCCAATTGATTCAT
125 ATTATTCAAATAGTTATAATTATTTGAACTGGTTAGATAAATAGATTCAT
* *
456596 TCTTTAAATCTATTAGTTATTAATTTCAAAATATTGATAAATTAGTATTACTTTATTCTGAATAA
1 TTTTTAAATCTATTA-TTATT-ATTTCAAAATATTAATAAATTAGTATTA-TTTATT-TGAATAA
* * **
456661 GACTATATGAACAGAAATAATTATTTTATGACAATACAAATGGTCATAATTATTTGAAATAAATA
62 G-CTATATGAACAGAAA-AATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATA
* * *
456726 ATTGTTCAAATAGTTATAACTAATTGAACTGGTT
125 ATTATTCAAATAGTTATAATTATTTGAACTGGTT
456760 TAGTATACAC
Statistics
Matches: 420, Mismatches: 79, Indels: 43
0.77 0.15 0.08
Matches are distributed among these distances:
175 3 0.01
176 52 0.12
177 76 0.18
178 15 0.04
179 44 0.10
180 215 0.51
181 15 0.04
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.41
Consensus pattern (174 bp):
TTTTTAAATCTATTATTATTATTTCAAAATATTAATAAATTAGTATTATTTATTTGAATAAGCTA
TATGAACAGAAAAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATT
CAAATAGTTATAATTATTTGAACTGGTTAGATAAATAGATTCAT
Found at i:457278 original size:30 final size:31
Alignment explanation
Indices: 457234--457293 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
457224 TGACAACAAT
457234 TAAATTTAATAAATTACTTA-TTAAACTTTAA
1 TAAATTTAATAAATTACTTATTTAAA-TTTAA
* *
457265 TAAA-TTAGTAAATTATTTATTTAAATTTA
1 TAAATTTAATAAATTACTTATTTAAATTTA
457294 TCCAAGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (31 bp):
TAAATTTAATAAATTACTTATTTAAATTTAA
Found at i:457587 original size:19 final size:21
Alignment explanation
Indices: 457560--457610 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
457550 ATCATTATAT
457560 TTAACTAAT-TATAT-TAATTA
1 TTAA-TAATATATATATAATTA
*
457580 TTAATAATATATATAATAATTG
1 TTAATAATATATAT-ATAATTA
457602 TTAATAATA
1 TTAATAATA
457611 ATTGAGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 4 0.15
20 9 0.33
22 14 0.52
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
TTAATAATATATATATAATTA
Found at i:457599 original size:22 final size:22
Alignment explanation
Indices: 457569--457610 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
457559 TTTAACTAAT
*
457569 TATATTAATTATTAATAATATA
1 TATAATAATTATTAATAATATA
*
457591 TATAATAATTGTTAATAATA
1 TATAATAATTATTAATAATA
457611 ATTGAGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TATAATAATTATTAATAATATA
Found at i:457983 original size:15 final size:16
Alignment explanation
Indices: 457963--458004 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
457953 TGATAAACTA
*
457963 TATTATTATCTAA-AT
1 TATTATTATATAACAT
457978 TATTATTAATTATAACAT
1 TATTATT-A-TATAACAT
457996 TATTATTAT
1 TATTATTAT
458005 TATCTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 7 0.30
16 2 0.09
17 5 0.22
18 9 0.39
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATTATATAACAT
Found at i:459137 original size:182 final size:181
Alignment explanation
Indices: 458104--459179 Score: 1011
Period size: 181 Copynumber: 6.0 Consensus size: 181
458094 TAATTAATTA
* * * *
458104 AAATAGTCATAACTATTTGAA-TTGGTTTAGTAAATAGATT-TAGTTTTTAAATC---T-CTTAT
1 AAATAGTCATAACTATTTGAACTT-GTTCAGTAAACAAATTAT-TTTTTTAAATCTTTTACTTAT
* * * * * *
458163 TAATTTTTAAAATATTAATAAATCAAAATTATTGTATTTTGAATAA-TTCTATATGAACAGAAAC
64 TAATTTTTAGAATATTAATAAATTATAATTATTTTATTTTGAATAAGCT-TATATGAATAGAAAC
* *
458227 AATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTC
128 AATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAGATAATTGTTC
* * * * * ** *
458281 TAATAGACATGATTATTTGAACTTGTTC-GATAAACAAATT-TATTTTTAAATCTCCTACCTATT
1 AAATAGTCATAACTATTTGAACTTGTTCAG-TAAACAAATTATTTTTTTAAATCTTTTACTTATT
** * * * * *
458344 AATTTGCAAAATATTAATAAAGTAGT-ATTATTTTATTTTGAATAAACTTGTATGAATATAAAAC
65 AATTTTTAGAATATTAATAAATTA-TAATTATTTTATTTTGAATAAGCTTATATGAATA-GAAAC
* * * *
458408 AATTGTTTTATGACAAAACAAAAGATCATAACTATTAGAAATAAAAAATTGTTC
128 AATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAGATAATTGTTC
* * ** * * * * * *
458462 AAACAATTTTAACTATTTGAGCTTACTT-GGTAAATAGATT-TATTTTTTAGATCTTTTACTTAT
1 AAATAGTCATAACTATTTGAACTT-GTTCAGTAAACAAATTAT-TTTTTTAAATCTTTTACTTAT
* * *
458525 TAATTGTTGGAATATTATTAAATTAGT-ATTATTTTATTTTGAATAAGCTTATAT-AGATAGAAA
64 TAATTTTTAGAATATTAATAAATTA-TAATTATTTTATTTTGAATAAGCTTATATGA-ATAGAAA
* **** *
458588 CAATTGGTTCCCCACAAAACAAAAGTTCATAACTATTTGAAATAGATAATTGTTC
127 CAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAGATAATTGTTC
** * *
458643 AAATAGTCGGATCTATTTGAACATGTTCA--AAA-AAA-TA--TTTTTAAAT-TTTTACTTATTA
1 AAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAATTATTTTTTTAAATCTTTTACTTATTA
* * * ** * * *
458701 AATTTTGGAATATTAATAAATT-TAATTACTTTATTCAGAATAAGCTTGTATGGATAGAAAAAAT
66 ATTTTTAGAATATTAATAAATTATAATTATTTTATTTTGAATAAGCTTATATGAATAGAAACAAT
* * * *
458765 TGGTTTATCACAAAACAAAATGTCATAACTATTTGAAATAAATAATTGTTC
131 TGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAGATAATTGTTC
* * * **
458816 AAATAGTCAAAACTATTCGAACATGTTCAAAAAACAAATTTATTTTTTT-AAT-TTTTACTTATT
1 AAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAA-TTATTTTTTTAAATCTTTTACTTATT
* * * *
458879 AAATTTTGGAATATTAATTAATT-TAATTATTTTA-TTTGAAATAAGCTTGTATGAATAGAAACA
65 AATTTTTAGAATATTAATAAATTATAATTATTTTATTTTG-AATAAGCTTATATGAATAGAAACA
* *
458942 ATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTTTTC
129 ATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAGATAATTGTTC
* * * * *
458995 AAACAGTCATCACTATTTAAACTTGTTCAGTAAACAGATTCATTTTTTTAAATCTTTTACTCATT
1 AAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAATT-ATTTTTTTAAATCTTTTACTTATT
** * * * *
459060 AATTTTTAGAATATTAATAAATTAGTAA-TATTTTATTTCCAATAAGCCTATATGAATTGATATA
65 AATTTTTAGAATATTAATAAATTA-TAATTATTTTATTTTGAATAAGCTTATATGAATAGAAACA
* *
459124 ATTGTTTTATGACAAAACAATAGGTCATAA-TGATTTGAAATAGATAATTATTC
129 ATTGTTTTATGACAAAACAAAAGGTCATAACT-ATTTGAAATAGATAATTGTTC
459177 AAA
1 AAA
459180 AAGTTAAGAA
Statistics
Matches: 740, Mismatches: 127, Indels: 59
0.80 0.14 0.06
Matches are distributed among these distances:
172 1 0.00
173 103 0.14
174 31 0.04
175 11 0.01
176 14 0.02
177 30 0.04
178 10 0.01
179 156 0.21
180 61 0.08
181 173 0.23
182 145 0.20
183 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (181 bp):
AAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAATTATTTTTTTAAATCTTTTACTTATTA
ATTTTTAGAATATTAATAAATTATAATTATTTTATTTTGAATAAGCTTATATGAATAGAAACAAT
TGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAGATAATTGTTC
Found at i:459196 original size:534 final size:533
Alignment explanation
Indices: 458233--459197 Score: 1201
Period size: 534 Copynumber: 1.8 Consensus size: 533
458223 AAACAATTAT
* * * ** *
458233 TTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCTAATAGACATGATTATT
1 TTTATCACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGTTCAAATAGACAAAACTATT
* * * *
458298 TGAACTTGTTCGATAAACAAATTTATTTTTAAATCTCCTACCTATTAATTTGCAAAATATTAATA
66 CGAACATGTTCAAAAAACAAATTTATTTTTAAATCTCCTACCTATTAATTTG-AAAATATTAATA
458363 AAGTAGTATTATTTTATTTTGAATAAACTTGTATGAATATAAAACAATTGTTTTATGACAAAACA
130 AAGTAG-ATTATTTTATTTTGAATAAACTTGTATGAATATAAAACAATTGTTTTATGACAAAACA
* ** * * *
458428 AAAGATCATAACTATTAGAAATAAAAAATTGTTCAAACAATTTTAACTATTTGAGCTTACTTGGT
194 AAAGATCATAACAATTAGAAATAAAAAATTGTTCAAACAATCATAACTATTTAAACTTACTTAGT
* * * * * * *
458493 AAATAGATTTATTTTTTAGATCTTTTACTTATTAATTGTTGGAATATTATTAAATTAGTATTATT
259 AAACAGATTCATTTTTTAAATCTTTTACTCATTAATTGTTAGAATATTAATAAATTAGTAATATT
** * * *
458558 TTATTTTGAATAAGCTTATATAGATAGAAACAATTGGTTCCCCACAAAACAAAAGTTCATAACTA
324 TTATTTCCAATAAGCCTATATAGATAGAAACAATTGGTTCACCACAAAACAAAAGGTCATAACTA
* * ** *
458623 TTTGAAATAGATAATTGTTCAAATAGTCGGATCTATTTGAACATGTTCAAAAAAATATTTTTAAA
389 TTTGAAATAGATAATTATTCAAAAAGTAAGATATATTTGAACATGTTCAAAAAAATATTTTTAAA
458688 TTTTTACTTATTAAATTTTGGAATATTAATAAATTTAATTACTTTATTCAGAATAAGCTTGTATG
454 TTTTTACTTATTAAATTTTGGAATATTAATAAATTTAATTACTTTATTCAGAATAAGCTTGTATG
458753 GATAGAAAAAATTGG
519 GATAGAAAAAATTGG
* * *
458768 TTTATCACAAAACAAAATGTCATAACTATTTGAAATAAATAATTGTTCAAATAGTCAAAACTATT
1 TTTATCACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGTTCAAATAGACAAAACTATT
* ** * *
458833 CGAACATGTTCAAAAAACAAATTTATTTTTTTAAT-TTTTACTTATTAAATTTTG-GAATATTAA
66 CGAACATGTTCAAAAAACAAATTTA-TTTTTAAATCTCCTACCTATT-AA-TTTGAAAATATTAA
** * *
458896 TTAATTTA-ATTATTTTA-TTTGAAATAAGCTTGTATGAATA-GAAACAATTGTTTTATGACAAA
128 -TAAAGTAGATTATTTTATTTTG-AATAAACTTGTATGAATATAAAACAATTGTTTTATGACAAA
* * * * * * * *
458958 ACAAAAGGTCATAACAATTTGAAATAGATAATTTTTCAAACAGTCATCACTATTTAAACTT-GTT
191 ACAAAAGATCATAACAATTAGAAATAAAAAATTGTTCAAACAATCATAACTATTTAAACTTACTT
*
459022 CAGTAAACAGATTCATTTTTTTAAATCTTTTACTCATTAATTTTTAGAATATTAATAAATTAGTA
256 -AGTAAACAGATTCA-TTTTTTAAATCTTTTACTCATTAATTGTTAGAATATTAATAAATTAGTA
* * * * * ** *
459087 ATATTTTATTTCCAATAAGCCTATAT-GAATTGATATAATTGTTTTATGACAAAACAATAGGTCA
319 ATATTTTATTTCCAATAAGCCTATATAG-ATAGAAACAATTGGTTCACCACAAAACAAAAGGTCA
459151 TAA-TGATTTGAAATAGATAATTATTCAAAAAGTTAAGA-ATATTTGAA
383 TAACT-ATTTGAAATAGATAATTATTCAAAAAG-TAAGATATATTTGAA
459198 TTATAAGATT
Statistics
Matches: 358, Mismatches: 62, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
532 2 0.01
533 87 0.24
534 154 0.43
535 96 0.27
536 15 0.04
537 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (533 bp):
TTTATCACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGTTCAAATAGACAAAACTATT
CGAACATGTTCAAAAAACAAATTTATTTTTAAATCTCCTACCTATTAATTTGAAAATATTAATAA
AGTAGATTATTTTATTTTGAATAAACTTGTATGAATATAAAACAATTGTTTTATGACAAAACAAA
AGATCATAACAATTAGAAATAAAAAATTGTTCAAACAATCATAACTATTTAAACTTACTTAGTAA
ACAGATTCATTTTTTAAATCTTTTACTCATTAATTGTTAGAATATTAATAAATTAGTAATATTTT
ATTTCCAATAAGCCTATATAGATAGAAACAATTGGTTCACCACAAAACAAAAGGTCATAACTATT
TGAAATAGATAATTATTCAAAAAGTAAGATATATTTGAACATGTTCAAAAAAATATTTTTAAATT
TTTACTTATTAAATTTTGGAATATTAATAAATTTAATTACTTTATTCAGAATAAGCTTGTATGGA
TAGAAAAAATTGG
Found at i:459227 original size:182 final size:175
Alignment explanation
Indices: 458214--459234 Score: 646
Period size: 182 Copynumber: 5.7 Consensus size: 175
458204 AATAATTCTA
* * * * *
458214 TATGAACAGAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGT
1 TATGAATAGAAAAAATTGTTTTATGACAAAACAAAAGGTCATAA-TATTTGAAATAGATAATTAT
* * * * * ** * ** *
458279 TCTAATAGACATGATTATTTGAACTTGTTCGATAAACAAATT--TATTTTTAAATCTCCTACCTA
65 TCAAAAAGTCA-AAATATTTGAA-TT-TAAGAT-AACAAATTCATTTTTTTAAAT-TTTTACTTA
* * ** *
458342 TT-AA-TTTGCAAAATATTAATAAA-GTAGTATTATTTTATTTTGAATAAACTTG
125 TTAAATTTTG--GAATATTAATAAATTTA--ATTATTTTATTTCAAATAAGCTTG
* * * * * *
458394 TATGAATATAAAACAATTGTTTTATGACAAAACAAAAGATCATAACTATTAGAAATAAAAAATTG
1 TATGAATAGAAAA-AATTGTTTTATGACAAAACAAAAGGTCATAA-TATTTGAAATAGATAATTA
* ** * ** * * * *
458459 TTCAAACAATTTTAACTATTTGAGCTTACTTGGTAA-ATAGATTTA-TTTTTTAGATCTTTTACT
64 TTCAAA-AAGTCAAAATATTTGAATTTA--AGATAACA-A-ATTCATTTTTTTAAAT-TTTTACT
* ** *
458522 TATT-AATTGTTGGAATATTATTAAA-TTAGTATTATTTTATTTTGAATAAGCTTA
123 TATTAAATT-TTGGAATATTAATAAATTTA--ATTATTTTATTTCAAATAAGCTTG
* * **** * *
458576 TAT-AGATAGAAACAATTGGTTCCCCACAAAACAAAAGTTCATAACTATTTGAAATAGATAATTG
1 TATGA-ATAGAAAAAATTGTTTTATGACAAAACAAAAGGTCATAA-TATTTGAAATAGATAATTA
* * ** *
458640 TTCAAATAGTCGGATCTATTTGAACATGTTCA-A-AA-AAA-T-A--TTTTTAAATTTTTACTTA
64 TTCAAAAAGTC-AAAATATTTG-A-AT-TTAAGATAACAAATTCATTTTTTTAAATTTTTACTTA
*
458698 TTAAATTTTGGAATATTAATAAATTTAATTACTTTA-TTCAGAATAAGCTTG
125 TTAAATTTTGGAATATTAATAAATTTAATTATTTTATTTCA-AATAAGCTTG
* * * * * *
458749 TATGGATAGAAAAAATTGGTTTATCACAAAACAAAATGTCATAACTATTTGAAATAAATAATTGT
1 TATGAATAGAAAAAATTGTTTTATGACAAAACAAAAGGTCATAA-TATTTGAAATAGATAATTAT
* * * *
458814 TCAAATAGTCAAAACTATTCGAACATGTTCAA-AAAACAAATTTATTTTTTT-AATTTTTACTTA
65 TCAAAAAGTCAAAA-TATTTG-A-AT-TT-AAGATAACAAATTCATTTTTTTAAATTTTTACTTA
* *
458877 TTAAATTTTGGAATATTAATTAATTTAATTATTTTATTTGAAATAAGCTTG
125 TTAAATTTTGGAATATTAATAAATTTAATTATTTTATTTCAAATAAGCTTG
* * *
458928 TATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTTT
1 TATGAATAGAAAAAATTGTTTTATGACAAAACAAAAGGTCATAA-TATTTGAAATAGATAATTAT
* * * * * * *
458993 TCAAACAGTCATCACTATTTAAACTTGTTCAG-TAAACAGATTCATTTTTTTAAATCTTTTACTC
65 TCAAAAAGTCA-AAATATTTGAA--T-TTAAGAT-AACAAATTCATTTTTTTAAAT-TTTTACTT
* * * * *
459057 ATTAATTTTTAGAATATTAATAAATTAGTAA-TATTTTATTTCCAATAAGCCTA
124 ATTAAATTTTGGAATATTAATAAATT--TAATTATTTTATTTCAAATAAGCTTG
* * * *
459110 TATGAATTGATATAATTGTTTTATGACAAAACAATAGGTCATAATGATTTGAAATAGATAATTAT
1 TATGAATAGAAAAAATTGTTTTATGACAAAACAAAAGGTCATAAT-ATTTGAAATAGATAATTAT
* ** *
459175 TCAAAAAGTTAAGAATATTTGAATTATAAGATTTCAAATTCAATTGTTTTTAAATCTTTA
65 TCAAAAAGTCAA-AATATTTGAATT-TAAGATAACAAATTC-ATT-TTTTTAAATTTTTA
459235 TTAACAAAAT
Statistics
Matches: 682, Mismatches: 116, Indels: 85
0.77 0.13 0.10
Matches are distributed among these distances:
172 3 0.00
173 96 0.14
174 28 0.04
175 17 0.02
176 4 0.01
177 3 0.00
178 4 0.01
179 150 0.22
180 41 0.06
181 158 0.23
182 169 0.25
183 4 0.01
184 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (175 bp):
TATGAATAGAAAAAATTGTTTTATGACAAAACAAAAGGTCATAATATTTGAAATAGATAATTATT
CAAAAAGTCAAAATATTTGAATTTAAGATAACAAATTCATTTTTTTAAATTTTTACTTATTAAAT
TTTGGAATATTAATAAATTTAATTATTTTATTTCAAATAAGCTTG
Found at i:459337 original size:27 final size:27
Alignment explanation
Indices: 459288--459339 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
459278 ACATATTTAA
459288 TTAATATTAAATTTATGAATATTGATT
1 TTAATATTAAATTTATGAATATTGATT
* *
459315 TTAAT-TTAAATATTTTGATTATTGA
1 TTAATATTAAAT-TTATGAATATTGA
459340 ATTCTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (27 bp):
TTAATATTAAATTTATGAATATTGATT
Found at i:459362 original size:20 final size:22
Alignment explanation
Indices: 459320--459376 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
459310 TGATTTTAAT
* *
459320 TTAAATATTTTGATT-ATTGAA
1 TTAATTATTTTAATTAATTGAA
*
459341 TT-CTTATTTTAATTAATT-AA
1 TTAATTATTTTAATTAATTGAA
*
459361 TTAATAATTTTAATTA
1 TTAATTATTTTAATTA
459377 TGGACTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
TTAATTATTTTAATTAATTGAA
Found at i:459979 original size:15 final size:15
Alignment explanation
Indices: 459951--459992 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
459941 AATTAATAAC
*
459951 TTAATTATTAATATTTA
1 TTAATAATT-ATA-TTA
459968 TT-ATAATTATATTA
1 TTAATAATTATATTA
459982 TTAATAATTAT
1 TTAATAATTAT
459993 TCTAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 5 0.22
15 11 0.48
16 5 0.22
17 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAATAATTATATTA
Found at i:460520 original size:22 final size:22
Alignment explanation
Indices: 460495--460553 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
460485 TTAAAAAATT
*
460495 ATAATAAATTTATTAATT-ATTA
1 ATAATAAATTTATT-ATTAATAA
460517 ATAAGT-AATTTATTATTAATAA
1 ATAA-TAAATTTATTATTAATAA
460539 ATAATAAATTATATT
1 ATAATAAATT-TATT
460554 TATAATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.12
22 23 0.72
23 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAATAAATTTATTATTAATAA
Found at i:460549 original size:18 final size:18
Alignment explanation
Indices: 460490--460550 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
460480 TAATTTTAAA
*
460490 AAATTA-TAATAAATTTAT
1 AAATTATTAATAAA-TAAT
* *
460508 TAATTATTAATAAGTAAT
1 AAATTATTAATAAATAAT
**
460526 TTATTATTAATAAATAAT
1 AAATTATTAATAAATAAT
460544 AAATTAT
1 AAATTAT
460551 ATTTATAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
18 29 0.83
19 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AAATTATTAATAAATAAT
Found at i:460661 original size:14 final size:14
Alignment explanation
Indices: 460642--460691 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
460632 ATATTATTGA
460642 AATAATAATTATAT
1 AATAATAATTATAT
*
460656 AATAATTATTATAT
1 AATAATAATTATAT
* *
460670 --TATTTATTAT-T
1 AATAATAATTATAT
460681 AATAATAATTA
1 AATAATAATTA
460692 ATTTATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
11 1 0.03
12 9 0.30
13 7 0.23
14 13 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAATAATTATAT
Found at i:460707 original size:28 final size:28
Alignment explanation
Indices: 460649--460712 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
460639 TGAAATAATA
*
460649 ATTATATAATAATTATTATATTATTTATT
1 ATTA-ATAATAATTATTATATTATATATT
460678 ATTAATAATAATTAATT-TA-TATATACTT
1 ATTAATAATAATT-ATTATATTATATA-TT
*
460706 ATAAATA
1 ATTAATA
460713 TACATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 5 0.16
28 19 0.61
29 7 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTAATAATAATTATTATATTATATATT
Found at i:461114 original size:18 final size:18
Alignment explanation
Indices: 461075--461116 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
461065 TATTAATTTT
* *
461075 ATATTATAATTTATACTT
1 ATATTATAAATTATACTA
461093 ATATTATAAATTA-ACATA
1 ATATTATAAATTATAC-TA
461111 ATATTA
1 ATATTA
461117 AATAAGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATTATAAATTATACTA
Found at i:461202 original size:25 final size:24
Alignment explanation
Indices: 461155--461202 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
461145 ATAATTCAAT
*
461155 TTAAATTTAATATAAGTTTCTTAA
1 TTAAATTTAATATAAGTTACTTAA
461179 TTAAATTATAATAATAA-TTACTTA
1 TTAAATT-TAAT-ATAAGTTACTTA
461203 TATAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
TTAAATTTAATATAAGTTACTTAA
Found at i:461692 original size:16 final size:17
Alignment explanation
Indices: 461660--461692 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
461650 ACAAAAGGTC
*
461660 ATAATTATTTGAAATAG
1 ATAATTATTTCAAATAG
461677 ATAATTA-TTCAAATAG
1 ATAATTATTTCAAATAG
461693 TCAAATCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (17 bp):
ATAATTATTTCAAATAG
Found at i:462320 original size:182 final size:179
Alignment explanation
Indices: 461852--462357 Score: 499
Period size: 182 Copynumber: 2.8 Consensus size: 179
461842 AAATTAATAA
* * * * * *
461852 TTTTATGATTAAACAAAATGTCAGAATGATTTGAAATAGATAATTATTCT-AATAATCTTAACTA
1 TTTTATGATAAAACAAAATGTCAAAATGATTTTAAATAGATAATTGTT-TAAATAGTCATAACTA
** * * * * *
461916 TTTGAACTAATCGACAAACACATTTATTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTAT
65 TTTGAACTGTTCGAAAAACAGATTTATTTTTTAAATCTCTTGCTTA-TAATTTTTGAAATATTAA
*
461981 TAAATTAGTATTATTTTTATTTGAATAAGCTTATATGATAAAAAAAACAATTG
129 TAAATTAGTATTA-TTTTATTTAAATAAGCTTATAT-ATAAAAAAAACAATTG
* * *
462034 TTTTATGATAAAAC-AAA-GATCATAATGA-TTTAAGATTA-ATATTTGTTCAAATAGTCATAAC
1 TTTTATGATAAAACAAAATG-TCAAAATGATTTTAA-A-TAGATAATTGTTTAAATAGTCATAAC
* * * * * *
462095 TATTAGAACTGCTTTGAAAAATAGTTTTAGTTTTTATATCTCTTGCTTAATAATTTTTGAAATAT
63 TATTTGAACTG-TTCGAAAAACAGATTTATTTTTTAAATCTCTTGCTT-ATAATTTTTGAAATAT
* * * *** *
462160 TAATAAACTAGTATTATTTTATTTCAAATAAGTTTTTAT-TAATTGAAACAATTT
126 TAATAAATTAGTATTATTTTATTT-AAATAAGCTTATATATAAAAAAAACAATTG
* * *
462214 TTTTATGATAAAACAAAATGTCAAAATAATTTTAAACAGATAATTGTTTAAATAGTCATATCTAT
1 TTTTATGATAAAACAAAATGTCAAAATGATTTTAAATAGATAATTGTTTAAATAGTCATAACTAT
* * *
462279 TTGAAATTGTTC-AGTAAACAGATTTATTTTTTTAAATCTCTTGCTT-TAATTTTTTG-AATGTT
66 TTG-AACTGTTCGA-AAAACAGATTTA-TTTTTTAAATCTCTTGCTTATAA-TTTTTGAAATATT
462341 AATAAATTAGTATTATT
127 AATAAATTAGTATTATT
462358 AATTAATTAT
Statistics
Matches: 264, Mismatches: 45, Indels: 32
0.77 0.13 0.09
Matches are distributed among these distances:
180 56 0.21
181 99 0.38
182 108 0.41
183 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (179 bp):
TTTTATGATAAAACAAAATGTCAAAATGATTTTAAATAGATAATTGTTTAAATAGTCATAACTAT
TTGAACTGTTCGAAAAACAGATTTATTTTTTAAATCTCTTGCTTATAATTTTTGAAATATTAATA
AATTAGTATTATTTTATTTAAATAAGCTTATATATAAAAAAAACAATTG
Found at i:462406 original size:39 final size:42
Alignment explanation
Indices: 462363--462481 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 42
462353 TTATTAATTA
*
462363 ATTATAAT-ATATTAATTAATT-TATACTAATTT-AATAACT
1 ATTATAATAATATTAATTAATTATATAATAATTTAAATAACT
* *
462402 ATTAT-ATAATATATAATTAAATTATTTAATAATTTAAATAATT
1 ATTATAATAATAT-TAATT-AATTATATAATAATTTAAATAACT
* *
462445 ATTAAAATAACTATTAATTATATAATAGTAAT-ATTTA
1 ATTATAATAA-TATTAATTA-ATTATA-TAATAATTTA
462482 TATTAATTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
38 2 0.03
39 9 0.14
40 5 0.08
41 4 0.06
42 9 0.14
43 11 0.17
44 18 0.28
45 7 0.11
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (42 bp):
ATTATAATAATATTAATTAATTATATAATAATTTAAATAACT
Found at i:462486 original size:26 final size:25
Alignment explanation
Indices: 462456--462506 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
462446 TTAAAATAAC
*
462456 TATTAATTATATAATAGTAATATTTA
1 TATTAATTAAATAAT-GTAATATTTA
*
462482 TATTAATTAAATAATTTAATATTTA
1 TATTAATTAAATAATGTAATATTTA
462507 AATGGAGACG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATTAATTAAATAATGTAATATTTA
Found at i:462553 original size:18 final size:17
Alignment explanation
Indices: 462522--462572 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
462512 AGACGGATAA
462522 TATT-AATAACTTATTAT
1 TATTAAATAA-TTATTAT
462539 TCATTAAATAATTATTAT
1 T-ATTAAATAATTATTAT
*
462557 TATTTAATAA-TATTAT
1 TATTAAATAATTATTAT
462573 ATAATATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 6 0.19
17 9 0.29
18 11 0.35
19 5 0.16
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTAAATAATTATTAT
Found at i:462684 original size:24 final size:22
Alignment explanation
Indices: 462614--462684 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 22
462604 TAATATAAGA
*
462614 TTATATTAATTAATTTATATCAAG
1 TTAT-TTAA-TAATTTATATCAAT
* *
462638 TTATTTAATAATTAATATTAAT
1 TTATTTAATAATTTATATCAAT
*
462660 TTAATTTTAATAATTTATAACAAT
1 TT-A-TTTAATAATTTATATCAAT
462684 T
1 T
462685 AATATTATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 13 0.33
23 5 0.13
24 21 0.54
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (22 bp):
TTATTTAATAATTTATATCAAT
Done.