Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 70 of 127
Found at i:13611905 original size:35 final size:35
Alignment explanation
Indices: 13611854--13612044 Score: 201
Period size: 35 Copynumber: 5.5 Consensus size: 35
13611844 AAATTTCATA
* * **
13611854 AAATTCTAAACTCTAAACCCTAAACCCTAAACCAT
1 AAATCCTAAACCCTAAACTTTAAACCCTAAACCAT
*
13611889 AATATCC-AAACCCTAAATTTTAAACCCTAAACCAT
1 AA-ATCCTAAACCCTAAACTTTAAACCCTAAACCAT
*
13611924 AATATCC-AAACCCTAAATTTTAAACCCTAAACCAT
1 AA-ATCCTAAACCCTAAACTTTAAACCCTAAACCAT
** *
13611959 AAATCCTAAACCCTAAA-TCCCAAA-CCTCAAACCTT
1 AAATCCTAAACCCTAAACT-TTAAACCCT-AAACCAT
* * *
13611994 AAAACCTAAAACCTAAACTTTAAACCCTAAAACAT
1 AAATCCTAAACCCTAAACTTTAAACCCTAAACCAT
*
13612029 AAACCCTAAACCCTAA
1 AAATCCTAAACCCTAA
13612045 CATATACCTC
Statistics
Matches: 134, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
34 8 0.06
35 119 0.89
36 7 0.05
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (35 bp):
AAATCCTAAACCCTAAACTTTAAACCCTAAACCAT
Found at i:13613970 original size:27 final size:29
Alignment explanation
Indices: 13613924--13613977 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
13613914 ATTAAAACAC
*
13613924 AAAAAAAAAAATGGTAAAAGCAAAAAATT
1 AAAAAAAAAAATGATAAAAGCAAAAAATT
13613953 AAAAAAAAAAA-GAT-AAAGCAAAAAA
1 AAAAAAAAAAATGATAAAAGCAAAAAA
13613978 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 11 0.46
28 2 0.08
29 11 0.46
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (29 bp):
AAAAAAAAAAATGATAAAAGCAAAAAATT
Found at i:13614662 original size:10 final size:9
Alignment explanation
Indices: 13614620--13614661 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
13614610 ACTAGAAAAC
*
13614620 AAAAGAATG
1 AAAAAAATG
*
13614629 -AAAAAAGG
1 AAAAAAATG
*
13614637 ACAAAAATG
1 AAAAAAATG
13614646 AAAAAAATG
1 AAAAAAATG
13614655 AAAAAAA
1 AAAAAAA
13614662 AATTTTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.07
Consensus pattern (9 bp):
AAAAAAATG
Found at i:13614774 original size:21 final size:21
Alignment explanation
Indices: 13614758--13614795 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13614748 TCTTTTCTTT
13614758 TTTATATT-TAATATTTTTTG
1 TTTATATTGTAATATTTTTTG
13614778 TTTATATTGTAAT-TTTTT
1 TTTATATTGTAATATTTTT
13614796 AGAGCCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTATATTGTAATATTTTTTG
Found at i:13615075 original size:13 final size:14
Alignment explanation
Indices: 13615059--13615096 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
13615049 GAAAATGAAA
13615059 AAAAAAAAAGACG-
1 AAAAAAAAAGACGT
* *
13615072 AAAAACAAACACGT
1 AAAAAAAAAGACGT
13615086 AAAAAAAAAGA
1 AAAAAAAAAGA
13615097 AATTGAGTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.76, C:0.11, G:0.11, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAGACGT
Found at i:13616581 original size:23 final size:24
Alignment explanation
Indices: 13616555--13616614 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 24
13616545 TATTAGTTTC
*
13616555 AATAAAATTAAAATTAATGATAA-
1 AATAAGATTAAAATTAATGATAAT
*
13616578 AATAAGATT--AATT-ATTATAAT
1 AATAAGATTAAAATTAATGATAAT
13616599 AATAAGATTAAAATTA
1 AATAAGATTAAAATTA
13616615 GTAATAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 6 0.19
21 13 0.42
23 12 0.39
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (24 bp):
AATAAGATTAAAATTAATGATAAT
Found at i:13616589 original size:17 final size:18
Alignment explanation
Indices: 13616556--13616589 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13616546 ATTAGTTTCA
13616556 ATAAAATTAAAATTAATG
1 ATAAAATTAAAATTAATG
*
13616574 ATAAAA-TAAGATTAAT
1 ATAAAATTAAAATTAAT
13616590 TATTATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
ATAAAATTAAAATTAATG
Found at i:13616619 original size:21 final size:21
Alignment explanation
Indices: 13616555--13616621 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
13616545 TATTAGTTTC
*
13616555 AATAAAATTAAAATTAATGATAA-
1 AATAAGATTAAAATT-A-G-TAAT
*
13616578 AATAAGATTAATTATTA-TAAT
1 AATAAGATTAA-AATTAGTAAT
13616599 AATAAGATTAAAATTAGTAAT
1 AATAAGATTAAAATTAGTAAT
13616620 AA
1 AA
13616622 GATATGTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.18
21 17 0.45
23 11 0.29
24 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (21 bp):
AATAAGATTAAAATTAGTAAT
Found at i:13619111 original size:5 final size:5
Alignment explanation
Indices: 13619098--13619145 Score: 62
Period size: 5 Copynumber: 9.4 Consensus size: 5
13619088 TTGTAATTTA
*
13619098 ATAT- ATATG CTATG ATATG ATATG ATATG ATATG ATATATG ATATG AT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG --ATATG ATATG AT
13619146 TATTAAGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
4 4 0.10
5 30 0.77
7 5 0.13
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.42
Consensus pattern (5 bp):
ATATG
Found at i:13624761 original size:11 final size:11
Alignment explanation
Indices: 13624733--13624773 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
13624723 AATAAAATCT
13624733 TTTAA-TTT-A
1 TTTAATTTTAA
*
13624742 TTCAATTTTAA
1 TTTAATTTTAA
13624753 TTTAATTTTAA
1 TTTAATTTTAA
13624764 TTTTAATTTT
1 -TTTAATTTT
13624774 TTTTAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 4 0.15
10 3 0.11
11 11 0.41
12 9 0.33
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:13624762 original size:6 final size:6
Alignment explanation
Indices: 13624745--13624773 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
13624735 TAATTTATTC
13624745 AATTTT AA-TTT AATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT
13624774 TTTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
AATTTT
Found at i:13624842 original size:13 final size:14
Alignment explanation
Indices: 13624811--13624849 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
13624801 CTTAAATAAC
*
13624811 TATATATATTTTTA
1 TATAAATATTTTTA
13624825 TATAAATATTTTTAA
1 TATAAATATTTTT-A
*
13624840 TAAAAATATT
1 TATAAATATT
13624850 GACAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATAAATATTTTTA
Found at i:13624846 original size:15 final size:14
Alignment explanation
Indices: 13624816--13624849 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13624806 ATAACTATAT
*
13624816 ATATTTTTATATAA
1 ATATTTTTATAAAA
13624830 ATATTTTTAATAAAA
1 ATATTTTT-ATAAAA
13624845 ATATT
1 ATATT
13624850 GACAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTTTTATAAAA
Found at i:13624983 original size:13 final size:13
Alignment explanation
Indices: 13624962--13625003 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13624952 TCAATATATC
*
13624962 AATTTAAATTTTT
1 AATTAAAATTTTT
13624975 AATTAAAATTTTT
1 AATTAAAATTTTT
13624988 -ATTAAATCATTTTT
1 AATTAAA--ATTTTT
13625002 AA
1 AA
13625004 AAAATTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 6 0.24
13 12 0.48
14 6 0.24
15 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTAAAATTTTT
Found at i:13636540 original size:28 final size:27
Alignment explanation
Indices: 13636500--13636555 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
13636490 TTATTAGCAA
13636500 AATAACTAATTAATAAAATGAATAAAAT
1 AATAACTAATTAATAAAAT-AATAAAAT
* *
13636528 AATAAC-AATTTAATATAATAATTAAAT
1 AATAACTAA-TTAATAAAATAATAAAAT
13636555 A
1 A
13636556 TTATTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (27 bp):
AATAACTAATTAATAAAATAATAAAAT
Found at i:13636568 original size:13 final size:13
Alignment explanation
Indices: 13636552--13636596 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
13636542 ATAATAATTA
13636552 AATATTATTTATT
1 AATATTATTTATT
**
13636565 AATATTACATATT
1 AATATTATTTATT
*
13636578 AATATT-TTAATT
1 AATATTATTTATT
13636590 AATATTA
1 AATATTA
13636597 AATTAATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
AATATTATTTATT
Found at i:13636576 original size:7 final size:6
Alignment explanation
Indices: 13636537--13636604 Score: 52
Period size: 6 Copynumber: 11.0 Consensus size: 6
13636527 TAATAACAAT
* *
13636537 TTAATA -TAATAA TTAAATA TTATTTA TTAATA TTACATA TTAATA TT-TTAA
1 TTAATA TTAAT-A TT-AATA TTA-ATA TTAATA TTA-ATA TTAATA TTAAT-A
13636588 TTAATA TTAA-A TTAATA
1 TTAATA TTAATA TTAATA
13636605 AAAATAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
5 10 0.20
6 21 0.42
7 16 0.32
8 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:13636595 original size:25 final size:24
Alignment explanation
Indices: 13636537--13636604 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 24
13636527 TAATAACAAT
* *
13636537 TTAATATAATAATTAAATATTATTTA
1 TTAATATTA-AATT-AATATTATTAA
13636563 TTAATATTACATATTAATATT-TTAA
1 TTAATATTA-A-ATTAATATTATTAA
13636588 TTAATATTAAATTAATA
1 TTAATATTAAATTAATA
13636605 AAAATAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 7 0.18
24 1 0.03
25 12 0.32
26 15 0.39
27 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAATATTAAATTAATATTATTAA
Found at i:13636602 original size:11 final size:11
Alignment explanation
Indices: 13636562--13636604 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
13636552 AATATTATTT
13636562 ATTAATATTACA
1 ATTAATATTA-A
*
13636574 TATTAATATTTTA
1 -ATTAATA-TTAA
13636587 ATTAATATTAA
1 ATTAATATTAA
13636598 ATTAATA
1 ATTAATA
13636605 AAAATAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.37
12 7 0.26
13 8 0.30
14 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTAATATTAA
Found at i:13636648 original size:21 final size:20
Alignment explanation
Indices: 13636623--13636690 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 20
13636613 TATTTTTCAA
13636623 AATATTAAAAATTAACTTAAT
1 AATATTAAAAATTAA-TTAAT
* *
13636644 CATATTAAATATTAATTAAT
1 AATATTAAAAATTAATTAAT
** *
13636664 AATATTTTATATTAATTTAAT
1 AATATTAAAAATTAA-TTAAT
13636685 AATATT
1 AATATT
13636691 CTTATCTGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 17 0.41
21 24 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTAAAAATTAATTAAT
Found at i:13636702 original size:21 final size:21
Alignment explanation
Indices: 13636659--13636711 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
13636649 TAAATATTAA
*
13636659 TTAATAATATTTTATATTAAT
1 TTAATAATATTTTATACTAAT
*
13636680 TTAATAATATTCTTAT-CTGAT
1 TTAATAATATT-TTATACTAAT
13636701 TTAATAATATT
1 TTAATAATATT
13636712 AAATATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TTAATAATATTTTATACTAAT
Found at i:13636769 original size:21 final size:20
Alignment explanation
Indices: 13636737--13636854 Score: 68
Period size: 22 Copynumber: 5.9 Consensus size: 20
13636727 ATTATTATTT
*
13636737 AATATATATTTAATACTATAA
1 AATAT-TATTTAATAATATAA
* *
13636758 AACTGTTATTTAATAATATCA
1 AA-TATTATTTAATAATATAA
13636779 AATATTATTT-AT--T-T-A
1 AATATTATTTAATAATATAA
* * *
13636794 TATA-TATTTAAGAATATTA
1 AATATTATTTAATAATATAA
*
13636813 AATATTCAATTTAATATTATTAA
1 AATATT--ATTTAATAATA-TAA
*
13636836 GATATTATTTTAATAATAT
1 AATATTA-TTTAATAATAT
13636855 TAACTCTTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
14 5 0.07
15 5 0.07
16 1 0.01
17 2 0.03
18 1 0.01
19 6 0.08
20 8 0.11
21 19 0.26
22 20 0.27
23 7 0.09
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (20 bp):
AATATTATTTAATAATATAA
Found at i:13636824 original size:22 final size:21
Alignment explanation
Indices: 13636799--13636884 Score: 82
Period size: 22 Copynumber: 4.0 Consensus size: 21
13636789 ATTTATATAT
*
13636799 ATTTAAGAATATTAAATATTCA
1 ATTTAATAATATTAAATATT-A
*
13636821 ATTTAATATTATTAAGATATTA
1 ATTTAATAATATTAA-ATATTA
* * *
13636843 TTTTAATAATATTAACTCTTAA
1 ATTTAATAATATTAAATATT-A
* *
13636865 AATTAACAATATTAAATATT
1 ATTTAATAATATTAAATATT
13636885 TTAATATTTG
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
21 3 0.06
22 43 0.84
23 5 0.10
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTTAATAATATTAAATATTA
Found at i:13636876 original size:100 final size:100
Alignment explanation
Indices: 13636699--13636884 Score: 218
Period size: 100 Copynumber: 1.9 Consensus size: 100
13636689 TTCTTATCTG
* * * * *
13636699 ATTTAATAATATTAAATATTAAATTATTATTATTATTTAATATATATTTAATACTATAAAACTGT
1 ATTTAAGAATATTAAATATTAAATTATTAATATTATTAAATATATATTTAATAATATAAAACTCT
* *
13636764 TATTTAATAATATCAAATATTATTTATTTATATAT
66 TAATTAACAATATCAAATATTATTTATTTATATAT
* *
13636799 ATTTAAGAATATTAAATATTCAA-T-TTAATATTATTAAGATAT-TATTTTAATAATAT-TAACT
1 ATTTAAGAATATTAAATATTAAATTATTAATATTATTAA-ATATATA-TTTAATAATATAAAACT
*
13636860 CTTAAAATTAACAATATTAAATATT
64 CTT--AATTAACAATATCAAATATT
13636885 TTAATATTTG
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
98 19 0.26
99 15 0.21
100 38 0.53
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (100 bp):
ATTTAAGAATATTAAATATTAAATTATTAATATTATTAAATATATATTTAATAATATAAAACTCT
TAATTAACAATATCAAATATTATTTATTTATATAT
Found at i:13636991 original size:43 final size:41
Alignment explanation
Indices: 13636910--13637000 Score: 94
Period size: 43 Copynumber: 2.1 Consensus size: 41
13636900 TATTTAATAT
* *
13636910 TATTTTAATAATATTTTCATATTCTAGATCAAAGAAAATATAA
1 TATTTTAATAATATTTTCA-ATTCTAAATAAAAGAAAAT-TAA
* * *
13636953 TATTTTAATATTATTTTC-ATTCTAAATAAGGAATAAAATTGA
1 TATTTTAATAATATTTTCAATTCTAAATAA--AAGAAAATTAA
13636995 TATTTT
1 TATTTT
13637001 GTGGGAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
41 9 0.22
42 8 0.20
43 24 0.59
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (41 bp):
TATTTTAATAATATTTTCAATTCTAAATAAAAGAAAATTAA
Found at i:13638042 original size:17 final size:17
Alignment explanation
Indices: 13638020--13638067 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 17
13638010 AAACTCTTAC
13638020 TTTTATATTTAAAATTT
1 TTTTATATTTAAAATTT
*
13638037 TTTTAT-TTTAAAAATT
1 TTTTATATTTAAAATTT
*
13638053 TTTTACATTTAAAAT
1 TTTTATATTTAAAAT
13638068 CATAAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTATATTTAAAATTT
Found at i:13646188 original size:2 final size:2
Alignment explanation
Indices: 13646181--13646219 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13646171 TGACTTCAGG
13646181 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13646220 ATCTATCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:13648516 original size:18 final size:18
Alignment explanation
Indices: 13648493--13648527 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13648483 TTTAATCGAA
13648493 ATATAA-TAAAATATATAT
1 ATATAACTAAAA-ATATAT
13648511 ATATAACTAAAAATATA
1 ATATAACTAAAAATATA
13648528 CGAAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATAACTAAAAATATAT
Found at i:13650922 original size:2 final size:2
Alignment explanation
Indices: 13650915--13651044 Score: 136
Period size: 2 Copynumber: 64.5 Consensus size: 2
13650905 GCAAACCAAC
* * *
13650915 TA TA TA TA TG TA TA TA TG TA TA TA TA T- TA TA TA TCA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * * *
13650957 TA TA TG TA TA TA TT TGA TA TA TA CA TA TA TA CA TA TA TA TA CA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
13651000 TA TA TA CA TA TA TA TA TA TG TA TA TA TA TA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13651042 TA T
1 TA T
13651045 TTTGGTAATC
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
1 1 0.01
2 100 0.97
3 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:13654302 original size:30 final size:30
Alignment explanation
Indices: 13654219--13654304 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 30
13654209 GTGATCATCA
13654219 TTCAACAAAGTGGGTAGAAACAAAAGAAATG
1 TTCAACAAAGT-GGTAGAAACAAAAGAAATG
* * *
13654250 TGCATAC-AAGTTGCAGGAAACAAAAGAAATG
1 TTCA-ACAAAGTGGTA-GAAACAAAAGAAATG
13654281 TTCAACAAAGTGGTAGAAACAAAA
1 TTCAACAAAGTGGTAGAAACAAAA
13654305 TCCTATCTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
30 13 0.28
31 31 0.67
32 2 0.04
ACGTcount: A:0.51, C:0.12, G:0.21, T:0.16
Consensus pattern (30 bp):
TTCAACAAAGTGGTAGAAACAAAAGAAATG
Found at i:13658644 original size:21 final size:21
Alignment explanation
Indices: 13658620--13658660 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13658610 GCATAGCATG
*
13658620 GCTTCATTGTTCATATTTATA
1 GCTTCATTGTTCATAATTATA
*
13658641 GCTTCCTTGTTCATAATTAT
1 GCTTCATTGTTCATAATTAT
13658661 GTAACCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.51
Consensus pattern (21 bp):
GCTTCATTGTTCATAATTATA
Found at i:13663041 original size:13 final size:13
Alignment explanation
Indices: 13663025--13663051 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13663015 TTGAATTTTT
13663025 TGTTGAGTATTAA
1 TGTTGAGTATTAA
13663038 TGTTGAGTATTAA
1 TGTTGAGTATTAA
13663051 T
1 T
13663052 ATTAAGTACT
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:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTTGAGTATTAA
Found at i:13664661 original size:20 final size:20
Alignment explanation
Indices: 13664628--13664679 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
13664618 AACTATACTT
* *
13664628 TTATCAATGAAATTTCATTA
1 TTATCGATGAAATTTCATCA
* *
13664648 TTATCGATGGAATTTTATCA
1 TTATCGATGAAATTTCATCA
13664668 TTATCGATGAAA
1 TTATCGATGAAA
13664680 AAAAAAACCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (20 bp):
TTATCGATGAAATTTCATCA
Found at i:13665684 original size:14 final size:14
Alignment explanation
Indices: 13665619--13665684 Score: 63
Period size: 13 Copynumber: 5.1 Consensus size: 14
13665609 AATCATACCA
13665619 AATATCATG-TAAT
1 AATATCATGCTAAT
13665632 AATATCATGCT--T
1 AATATCATGCTAAT
*
13665644 -AGATCATGCTAA-
1 AATATCATGCTAAT
13665656 AATATTCATG-TAAT
1 AATA-TCATGCTAAT
*
13665670 AATATCATGCAAAT
1 AATATCATGCTAAT
13665684 A
1 A
13665685 TATTAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
11 9 0.21
12 1 0.02
13 19 0.44
14 14 0.33
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (14 bp):
AATATCATGCTAAT
Found at i:13665877 original size:32 final size:33
Alignment explanation
Indices: 13665841--13665908 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 33
13665831 TATATCTTGC
**
13665841 AATAAAT-ATAAAATCATGCAAATAAA-AATATT
1 AATAAATCATAAAATCACACAAATAAATAA-ATT
*
13665873 AAT-AATCATACAATCACACAAATAAATAAATT
1 AATAAATCATAAAATCACACAAATAAATAAATT
13665905 AATA
1 AATA
13665909 CTCATGCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
31 3 0.10
32 25 0.83
33 2 0.07
ACGTcount: A:0.62, C:0.10, G:0.01, T:0.26
Consensus pattern (33 bp):
AATAAATCATAAAATCACACAAATAAATAAATT
Found at i:13665952 original size:20 final size:20
Alignment explanation
Indices: 13665923--13666306 Score: 256
Period size: 20 Copynumber: 19.6 Consensus size: 20
13665913 TGCAAATAGA
*
13665923 CATGCAATTAAATATATAAC
1 CATGCAATTAAATATATAAT
* * *
13665943 CATACAATTAACA-ATGTAAA
1 CATGCAATTAA-ATATATAAT
*
13665963 CATGTC-ATTAAATATCTAAT
1 CATG-CAATTAAATATATAAT
* *
13665983 CATGCAATTAACA-ATGTAAAA
1 CATGCAATTAA-ATATAT-AAT
*
13666004 CATAG-AATTAAATATATGAT
1 CAT-GCAATTAAATATATAAT
*
13666024 CATACAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
* *
13666044 CATGCAATTAAATATACAAC
1 CATGCAATTAAATATATAAT
13666064 CATGCAATTAACA-ATATAAAT
1 CATGCAATTAA-ATATAT-AAT
*
13666085 CATGTAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
*
13666105 CATGCAATTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
*
13666126 CTTGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
* *
13666146 TATGCAATTAACA-A-A-AAA
1 CATGCAATTAA-ATATATAAT
* *
13666164 CATGCAATTAGATATATTAT
1 CATGCAATTAAATATATAAT
*
13666184 CATGCAATTAACA-ATATAACA
1 CATGCAATTAA-ATATATAA-T
13666205 CATGCAATT-AA-ATAT-AT
1 CATGCAATTAAATATATAAT
*
13666222 --T---ATTAAATAGATAAT
1 CATGCAATTAAATATATAAT
13666237 CATGCAATT-AATA-A-AA-
1 CATGCAATTAAATATATAAT
13666253 CAATGCAATTAAATATATAAT
1 C-ATGCAATTAAATATATAAT
* * *
13666274 AATACAAAT-AATAATATAAAT
1 CATGCAATTAAAT-ATAT-AAT
*
13666295 CATGCAAATAAA
1 CATGCAATTAAA
13666307 CATGCAATTA
Statistics
Matches: 287, Mismatches: 40, Indels: 72
0.72 0.10 0.18
Matches are distributed among these distances:
12 3 0.01
13 2 0.01
14 3 0.01
15 3 0.01
16 1 0.00
17 12 0.04
18 18 0.06
19 17 0.06
20 153 0.53
21 72 0.25
22 3 0.01
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:13666019 original size:81 final size:80
Alignment explanation
Indices: 13665922--13666219 Score: 356
Period size: 81 Copynumber: 3.7 Consensus size: 80
13665912 ATGCAAATAG
* *
13665922 ACATGCAATTAAATATATAACCATACAATTAACAATGTAAACATGTC-ATTAAATATCTAATCAT
1 ACATGCAATTAAATATATAATCATACAATTAACAATATAAACATG-CAATTAAATATCTAATCAT
13665986 GCAATTAACAATGTAAA
65 GCAATTAACAAT-TAAA
* * *
13666003 ACATAG-AATTAAATATATGATCATACAATTAA-ATATATAATCATGCAATTAAATATAC-AACC
1 ACAT-GCAATTAAATATATAATCATACAATTAACA-ATATAAACATGCAATTAAATAT-CTAATC
13666065 ATGCAATTAACAATATAAA
63 ATGCAATTAACAAT-TAAA
* * * * * *
13666084 TCATGTAATTAAATATATAATCATGCAATTAACAATATAAAACTTGCAATTAAATATATAATTAT
1 ACATGCAATTAAATATATAATCATACAATTAACAATAT-AAACATGCAATTAAATATCTAATCAT
13666149 GCAATTAACAA--AAA
65 GCAATTAACAATTAAA
* * *
13666163 ACATGCAATTAGATATATTATCATGCAATTAACAATATAACACATGCAATTAAATAT
1 ACATGCAATTAAATATATAATCATACAATTAACAATATAA-ACATGCAATTAAATAT
13666220 ATTATTAAAT
Statistics
Matches: 189, Mismatches: 19, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.01
79 52 0.28
80 3 0.02
81 98 0.52
82 34 0.18
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.31
Consensus pattern (80 bp):
ACATGCAATTAAATATATAATCATACAATTAACAATATAAACATGCAATTAAATATCTAATCATG
CAATTAACAATTAAA
Found at i:13666034 original size:61 final size:61
Alignment explanation
Indices: 13665923--13666221 Score: 248
Period size: 61 Copynumber: 5.0 Consensus size: 61
13665913 TGCAAATAGA
* * * * *
13665923 CATGCAATT-A-AATATATAACCATACAATTAACA-ATGTAAACATGTC-ATTAAATATCTAAT
1 CATGCAATTAACAATATA-AAACATGCAATTAA-ATATATAATCATG-CAATTAAATATATAAT
* * *
13665983 CATGCAATTAACAATGTAAAACATAG-AATTAAATATATGATCATACAATTAAATATATAAT
1 CATGCAATTAACAATATAAAACAT-GCAATTAAATATATAATCATGCAATTAAATATATAAT
* *
13666044 CATGCAATT-A-AATATACAACCATGCAATTAACA-ATATAAATCATGTAATTAAATATATAAT
1 CATGCAATTAACAATATA-AAACATGCAATTAA-ATATAT-AATCATGCAATTAAATATATAAT
* * *
13666105 CATGCAATTAACAATATAAAACTTGCAATTAAATATATAATTATGCAATTAACA-A-A-AAA
1 CATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAA-ATATATAAT
* * * *
13666164 CATGCAATT-A-GATATATTATCATGCAATTAACA-ATATAACACATGCAATTAAATATAT
1 CATGCAATTAACAATATA-AAACATGCAATTAA-ATATATAA-TCATGCAATTAAATATAT
13666222 TATTAAATAG
Statistics
Matches: 196, Mismatches: 24, Indels: 37
0.76 0.09 0.14
Matches are distributed among these distances:
57 5 0.03
58 19 0.10
59 29 0.15
60 29 0.15
61 85 0.43
62 23 0.12
63 6 0.03
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.31
Consensus pattern (61 bp):
CATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAAATATATAAT
Found at i:13666224 original size:41 final size:40
Alignment explanation
Indices: 13665922--13666221 Score: 367
Period size: 41 Copynumber: 7.5 Consensus size: 40
13665912 ATGCAAATAG
* * *
13665922 ACATGCAATTAAATATATAACCATACAATTAACAATGTAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAA
* *
13665962 ACATGTC-ATTAAATATCTAATCATGCAATTAACAATGTAAA
1 ACATG-CAATTAAATATATAATCATGCAATTAACAATAT-AA
* *
13666003 ACATAG-AATTAAATATATGATCATACAATTAA-ATATATAA
1 ACAT-GCAATTAAATATATAATCATGCAATTAACA-ATATAA
* * *
13666043 TCATGCAATTAAATATACAACCATGCAATTAACAATATAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAA
*
13666083 ATCATGTAATTAAATATATAATCATGCAATTAACAATATAAA
1 A-CATGCAATTAAATATATAATCATGCAATTAACAATAT-AA
* *
13666125 ACTTGCAATTAAATATATAATTATGCAATTAACAA-A-AA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAA
* *
13666163 ACATGCAATTAGATATATTATCATGCAATTAACAATATAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAA
13666203 CACATGCAATTAAATATAT
1 -ACATGCAATTAAATATAT
13666222 TATTAAATAG
Statistics
Matches: 224, Mismatches: 24, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
38 33 0.15
39 2 0.01
40 70 0.31
41 115 0.51
42 4 0.02
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.31
Consensus pattern (40 bp):
ACATGCAATTAAATATATAATCATGCAATTAACAATATAA
Found at i:13666283 original size:53 final size:53
Alignment explanation
Indices: 13666182--13666330 Score: 136
Period size: 53 Copynumber: 2.8 Consensus size: 53
13666172 TAGATATATT
* *
13666182 ATCATGCAATTAACAATATAACACATGCAATTAAATATAT--T-AT-TAAATAGATA
1 ATCATGCAATT-A-AATAAAACA-ATGCAATTAAATATATAATAATACAAATA-ATA
13666235 ATCATGCAATT-AATAAAACAATGCAATTAAATATATAATAATACAAATAATA
1 ATCATGCAATTAAATAAAACAATGCAATTAAATATATAATAATACAAATAATA
*
13666287 AT-AT-AAATCATGCAAAT-AAAC-ATGCAATTAAATATATAATAATA
1 ATCATGCAAT--T--AAATAAAACAATGCAATTAAATATATAATAATA
13666331 ATCATGCAAT
Statistics
Matches: 84, Mismatches: 3, Indels: 18
0.80 0.03 0.17
Matches are distributed among these distances:
49 16 0.19
50 11 0.13
51 3 0.04
52 8 0.10
53 39 0.46
54 4 0.05
55 3 0.04
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (53 bp):
ATCATGCAATTAAATAAAACAATGCAATTAAATATATAATAATACAAATAATA
Found at i:13666317 original size:90 final size:91
Alignment explanation
Indices: 13666123--13666326 Score: 241
Period size: 90 Copynumber: 2.3 Consensus size: 91
13666113 TAACAATATA
* * * * * *
13666123 AAACTTGCAATTAAATATATAATTATGCAATTAACAAAAAACATGCAATTAGATATATTATCATG
1 AAACATGCAATTAAATATATAATCATGCAATTAACAAAAAACATGCAATTAAATATATAATAATA
* *
13666188 CAATTAACAATATAACACATGCAATT
66 CAAATAACAATATAACACATGCAAAT
* *** * * *
13666214 AAATATATTATTAAATAGATAATCATGCAATTAATAAAACA-ATGCAATTAAATATATAATAATA
1 AAACATGCAATTAAATATATAATCATGCAATTAACAAAAAACATGCAATTAAATATATAATAATA
*
13666278 CAAATAATAATATAA-ATCATGCAAAT
66 CAAATAACAATATAACA-CATGCAAAT
13666304 AAACATGCAATTAAATATATAAT
1 AAACATGCAATTAAATATATAAT
13666327 AATAATCATG
Statistics
Matches: 91, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
89 1 0.01
90 58 0.64
91 32 0.35
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.31
Consensus pattern (91 bp):
AAACATGCAATTAAATATATAATCATGCAATTAACAAAAAACATGCAATTAAATATATAATAATA
CAAATAACAATATAACACATGCAAAT
Found at i:13666375 original size:20 final size:20
Alignment explanation
Indices: 13666350--13666423 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
13666340 TCACACAAAT
*
13666350 AAATAAATTGATAATCATGC
1 AAATAAATTAATAATCATGC
*
13666370 AAATAAATTAATAATCATGA
1 AAATAAATTAATAATCATGC
* * *
13666390 AAACATATTAATAGTCATGC
1 AAATAAATTAATAATCATGC
*
13666410 AAATATATTAATAA
1 AAATAAATTAATAA
13666424 ATCACAAGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:13666439 original size:41 final size:40
Alignment explanation
Indices: 13666364--13666442 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
13666354 AAATTGATAA
*
13666364 TCATGCAAATAAATTAATAATCATGAAAACATATTAATAG
1 TCATGCAAATAAATTAATAATCATCAAAACATATTAATAG
* *
13666404 TCATGCAAATATATTAATAAATCA-CAAGGACATATTAAT
1 TCATGCAAATAAATTAAT-AATCATCAA-AACATATTAAT
13666443 CATGTAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 19 0.56
41 15 0.44
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (40 bp):
TCATGCAAATAAATTAATAATCATCAAAACATATTAATAG
Found at i:13666523 original size:26 final size:26
Alignment explanation
Indices: 13666490--13666541 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
13666480 AAATTCATGC
*
13666490 AAAAATAAATACTATGTAA-TAAATAT
1 AAAAATAAA-ACTAAGTAATTAAATAT
*
13666516 AAAAATAAAAGTAAGTAATTAAATAT
1 AAAAATAAAACTAAGTAATTAAATAT
13666542 TATAAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (26 bp):
AAAAATAAAACTAAGTAATTAAATAT
Found at i:13667434 original size:42 final size:42
Alignment explanation
Indices: 13667371--13667566 Score: 177
Period size: 42 Copynumber: 4.6 Consensus size: 42
13667361 AATGCACCCC
* * * *
13667371 CACAACTGAGGTTTTGGAACTTTTGAAAATAAAATGCTTTCT
1 CACAACTAAGGCTTTGAAACTTTTGAAAATAAAATACTTTCT
* *
13667413 CACATCTAAGGCTTTGAAAC-TTTGAAAAATAAAATACTTTCC
1 CACAACTAAGGCTTTGAAACTTTTG-AAAATAAAATACTTTCT
* * *
13667455 CACAACTGAA-GCTTTGGAAC-TTCGAAAAAGTAAAATGCTCTTCT
1 CACAACT-AAGGCTTTGAAACTTTTG-AAAA-TAAAATACT-TTCT
* * *
13667499 -ACAACTAAGGCTTTGAAACTTTAGAAAATGAAATAC-TCCT
1 CACAACTAAGGCTTTGAAACTTTTGAAAATAAAATACTTTCT
* *
13667539 CCATAACTGAGGCTTTGAAACTTTTGAA
1 -CACAACTAAGGCTTTGAAACTTTTGAA
13667567 CACATGAGGC
Statistics
Matches: 127, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
40 3 0.02
41 4 0.03
42 85 0.67
43 29 0.23
44 6 0.05
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (42 bp):
CACAACTAAGGCTTTGAAACTTTTGAAAATAAAATACTTTCT
Found at i:13667519 original size:85 final size:82
Alignment explanation
Indices: 13667368--13667561 Score: 239
Period size: 85 Copynumber: 2.3 Consensus size: 82
13667358 AAAAATGCAC
* * *
13667368 CCCCACAACTGAGGTTTTGGAACTTTTGAAAATAAAATGCTTTCTCACATCTAAGGCTTTGAAAC
1 CCCCACAACTGAGGCTTTGGAAC-TTCGAAAATAAAATGCTTTCTCACAACTAAGGCTTTGAAAC
13667433 TTT-GAAAAATAAAATACTT
65 TTTAG-AAAATAAAATAC-T
* *
13667452 TCCCACAACTGAAGCTTTGGAACTTCGAAAAAGTAAAATGCTCTTCT-ACAACTAAGGCTTTGAA
1 CCCCACAACTGAGGCTTTGGAACTTCG-AAAA-TAAAATGCT-TTCTCACAACTAAGGCTTTGAA
*
13667516 ACTTTAGAAAATGAAATACT
63 ACTTTAGAAAATAAAATACT
* *
13667536 CCTCCATAACTGAGGCTTTGAAACTT
1 CC-CCACAACTGAGGCTTTGGAACTT
13667562 TTGAACACAT
Statistics
Matches: 95, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
83 3 0.03
84 26 0.27
85 61 0.64
86 5 0.05
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (82 bp):
CCCCACAACTGAGGCTTTGGAACTTCGAAAATAAAATGCTTTCTCACAACTAAGGCTTTGAAACT
TTAGAAAATAAAATACT
Found at i:13667614 original size:67 final size:67
Alignment explanation
Indices: 13667506--13667633 Score: 186
Period size: 67 Copynumber: 1.9 Consensus size: 67
13667496 TCTACAACTA
* * *
13667506 AGGCTTTGAAACTTTAGAAAATGAAATACTCCTCCATAACTGAGGCTTTGAAACTTTTGAACACA
1 AGGCTTTAAAACTTTAGAAAATAAAATACTCCTCCACAACTGAGGCTTTGAAACTTTTGAACACA
13667571 TG
66 TG
* * *
13667573 AGGCTTTAAAAC-TTAGGAAAATAAAATGCTGCTCCACAACTGAGGCTTTTAAACTTTTGAA
1 AGGCTTTAAAACTTTA-GAAAATAAAATACTCCTCCACAACTGAGGCTTTGAAACTTTTGAA
13667634 AAATAAAGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 3 0.06
67 51 0.94
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (67 bp):
AGGCTTTAAAACTTTAGAAAATAAAATACTCCTCCACAACTGAGGCTTTGAAACTTTTGAACACA
TG
Found at i:13667635 original size:42 final size:41
Alignment explanation
Indices: 13667571--13667887 Score: 222
Period size: 43 Copynumber: 7.7 Consensus size: 41
13667561 TTTGAACACA
**
13667571 TGAGGCTTTAAAACTTAGGAAAATAAAATGCTGCTCCACAAC
1 TGAGGCTTTAAAACTTTTGAAAATAAAATGCT-CTCCACAAC
*
13667613 TGAGGCTTTTAAACTTTTGAAAA-ATAAA-G-TAC-CCACAAC
1 TGAGGCTTTAAAACTTTTGAAAATA-AAATGCT-CTCCACAAC
* * * *
13667652 TGAGGTTTTGAAACTTTTGAAAAGTAAAA-----TACACAAT
1 TGAGGCTTTAAAACTTTTGAAAA-TAAAATGCTCTCCACAAC
* * *
13667689 TGAAGCTTTGAAAACTTTGGAAAATAAAATGTTC-CCTTACAAC
1 TGAGGCTTT-AAAACTTTTGAAAATAAAATGCTCTCC--ACAAC
* * *
13667732 CGAGGCTTTAAAACTTTTGACAAATAACATGCTTCCCCACAAC
1 TGAGGCTTTAAAACTTTTGA-AAATAAAATGC-TCTCCACAAC
* * ** ** * *
13667775 TAAGACTTTGGAACTTAAGAAAATAAAATGCTCCCCCATAAC
1 TGAGGCTTTAAAACTTTTGAAAATAAAATGCT-CTCCACAAC
* *
13667817 TGAGGCTTTGAAACTTTTGAAAAGTAAAATACTCTCCCACAAC
1 TGAGGCTTTAAAACTTTTGAAAA-TAAAATGCTCT-CCACAAC
* *
13667860 TGAAGCTTTGAAACTTTTGAAAAATAAA
1 TGAGGCTTTAAAACTTTTG-AAAATAAA
13667888 GGCCTTGAAA
Statistics
Matches: 219, Mismatches: 37, Indels: 37
0.75 0.13 0.13
Matches are distributed among these distances:
37 17 0.08
38 12 0.05
39 28 0.13
40 5 0.02
41 5 0.02
42 70 0.32
43 74 0.34
44 6 0.03
45 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (41 bp):
TGAGGCTTTAAAACTTTTGAAAATAAAATGCTCTCCACAAC
Found at i:13667882 original size:85 final size:81
Alignment explanation
Indices: 13667571--13667887 Score: 263
Period size: 85 Copynumber: 3.8 Consensus size: 81
13667561 TTTGAACACA
** * * *
13667571 TGAGGCTTTAAAACTTAGGAAAATAAAATGCTGCTCCACAACTGAGGCTTTTAAACTTTTGAAAA
1 TGAGGCTTTAAAACTTTTGAAAATAAAATACT--TCCACAACTGAAGCTTTGAAACTTTTGAAAA
*
13667636 -ATAAA-GT-ACCCACAAC
64 TA-AAATGTCCCCCACAAC
* * * *
13667652 TGAGGTTTTGAAACTTTTGAAAAGTAAAATA----CACAATTGAAGCTTTGAAAACTTTGGAAAA
1 TGAGGCTTTAAAACTTTTGAAAA-TAAAATACTTCCACAACTGAAGCTTTG-AAACTTTTGAAAA
**
13667713 TAAAATGTTCCCTTACAAC
64 TAAAATG-TCCCCCACAAC
* * * * **
13667732 CGAGGCTTTAAAACTTTTGACAAATAACATGCTTCCCCACAACT-AAGACTTTGGAACTTAAGAA
1 TGAGGCTTTAAAACTTTTGA-AAATAAAATACTT--CCACAACTGAAG-CTTTGAAACTTTTGAA
*
13667796 AATAAAATGCTCCCCCATAAC
62 AATAAAATG-TCCCCCACAAC
*
13667817 TGAGGCTTTGAAACTTTTGAAAAGTAAAATACTCTCCCACAACTGAAGCTTTGAAACTTTTGAAA
1 TGAGGCTTTAAAACTTTTGAAAA-TAAAATACT-T-CCACAACTGAAGCTTTGAAACTTTTG-AA
13667882 AATAAA
62 AATAAA
13667888 GGCCTTGAAA
Statistics
Matches: 186, Mismatches: 32, Indels: 31
0.75 0.13 0.12
Matches are distributed among these distances:
76 13 0.07
77 15 0.08
78 2 0.01
79 1 0.01
80 28 0.15
81 22 0.12
82 6 0.03
84 3 0.02
85 73 0.39
86 23 0.12
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (81 bp):
TGAGGCTTTAAAACTTTTGAAAATAAAATACTTCCACAACTGAAGCTTTGAAACTTTTGAAAATA
AAATGTCCCCCACAAC
Found at i:13667950 original size:68 final size:67
Alignment explanation
Indices: 13667819--13667954 Score: 184
Period size: 68 Copynumber: 2.0 Consensus size: 67
13667809 CCCATAACTG
* * * * *
13667819 AGGCTTTGAAACTTTTGAAAAGTAAAATACTCTCCCACAACTGAAGCTTTGAAACTTTTGAAAAA
1 AGGCCTTGAAACTTTTGAAAAATAAAATACTCCCCCACAACTGAAGCTTTGAAAC-TTAGGAAAA
13667884 TAA
65 TAA
* *
13667887 AGGCCTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACT-AAGGCTTTGGAACTTAGGAAAA
1 AGGCCTTGAAACTTTTGAAAAATAAAATACTCCCCCACAACTGAA-GCTTTGAAACTTAGGAAAA
13667951 TAA
65 TAA
13667954 A
1 A
13667955 ATGCTCCCTC
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
67 13 0.22
68 47 0.78
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (67 bp):
AGGCCTTGAAACTTTTGAAAAATAAAATACTCCCCCACAACTGAAGCTTTGAAACTTAGGAAAAT
AA
Found at i:13667992 original size:42 final size:41
Alignment explanation
Indices: 13667886--13667992 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 41
13667876 TTGAAAAATA
*
13667886 AAGGCCTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACT
1 AAGG-CTTGAAACTTTTG-AAAATAAAATGCTCCCCCACAACC
* ** *
13667929 AAGGCTTTGGAACTTAGGAAAATAAAATGCTCCCTCACAACC
1 AAGGC-TTGAAACTTTTGAAAATAAAATGCTCCCCCACAACC
*
13667971 AAGGTCTTAAAACTTTTGAAAA
1 AAGG-CTTGAAACTTTTGAAAA
13667993 ATAACATGAG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
42 39 0.74
43 14 0.26
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (41 bp):
AAGGCTTGAAACTTTTGAAAATAAAATGCTCCCCCACAACC
Found at i:13668821 original size:24 final size:24
Alignment explanation
Indices: 13668789--13668839 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
13668779 TCTTCATGCC
*
13668789 TTTTCTTCAGCTTCTCATTATGTT
1 TTTTCTTCAGCTTCTCATCATGTT
*
13668813 TTTTTTTCAGCTTCTCATCATGTT
1 TTTTCTTCAGCTTCTCATCATGTT
13668837 TTT
1 TTT
13668840 CTTTAACTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.20, G:0.08, T:0.61
Consensus pattern (24 bp):
TTTTCTTCAGCTTCTCATCATGTT
Found at i:13668849 original size:23 final size:23
Alignment explanation
Indices: 13668789--13668850 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
13668779 TCTTCATGCC
* *
13668789 TTTTCTTCAGCTTCTCATTATGT
1 TTTTCTTTAGCTTCTCATCATGT
*
13668812 TTTTTTTTCAGCTTCTCATCATGT
1 TTTTCTTT-AGCTTCTCATCATGT
*
13668836 TTTTCTTTAACTTCT
1 TTTTCTTTAGCTTCT
13668851 TTGGAACTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 12 0.36
24 21 0.64
ACGTcount: A:0.13, C:0.21, G:0.06, T:0.60
Consensus pattern (23 bp):
TTTTCTTTAGCTTCTCATCATGT
Found at i:13674935 original size:21 final size:21
Alignment explanation
Indices: 13674895--13674935 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13674885 GTTAGTTAAC
*
13674895 ATATACAAGGAATAACATAAT
1 ATATACAAGGAACAACATAAT
* *
13674916 ATATATAAGGAACAATATAA
1 ATATACAAGGAACAACATAA
13674936 AAGGTTAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (21 bp):
ATATACAAGGAACAACATAAT
Found at i:13676208 original size:41 final size:41
Alignment explanation
Indices: 13676171--13676837 Score: 686
Period size: 41 Copynumber: 16.1 Consensus size: 41
13676161 ACCATGCCAC
*
13676171 TAAATATCTAATCATGCAATTAACAAT-TAAAAACATGCAAT
1 TAAATATATAATCATGCAATTAACAATAT-AAAACATGCAAT
* * * * *
13676212 TAAATATATGATCATGCAATTAA-ATGTATCAATCATGTAAT
1 TAAATATATAATCATGCAATTAACA-ATATAAAACATGCAAT
*
13676253 TAAATATATAATCATGCAATTAACAATATAAATCATGCAAT
1 TAAATATATAATCATGCAATTAACAATATAAAACATGCAAT
*
13676294 AAAATATATAATCATGCAATTAACAATATAAAACATGC---
1 TAAATATATAATCATGCAATTAACAATATAAAACATGCAAT
*
13676332 TAAATATATTATCATGCAATTAACAATATAAAACATGCCAATATAT
1 TAAATATATAATCATGCAATTAACAATATAAAACATG-C---A-AT
* *
13676378 ATATATATATATAATCATGCAATTAACAATATAAAACAAGCAAC
1 -TA-A-ATATATAATCATGCAATTAACAATATAAAACATGCAAT
*
13676422 TAAATATATAATTATGCAATTAAC-A-A-AAAACATGCAAT
1 TAAATATATAATCATGCAATTAACAATATAAAACATGCAAT
* *
13676460 TAGATATATTATCATGCAATTAACAATATAAAACATGCAAT
1 TAAATATATAATCATGCAATTAACAATATAAAACATGCAAT
*
13676501 TAAATATATTATCATGCAATTAACAATATAAAACATGCCAATATATATAT
1 TAAATATATAATCATGCAATTAACAATATAAAACATG-C-------A-AT
* *
13676551 ATATATATATATAATCATGCAATTAACAATATAAAACAAGCAAC
1 -TA-A-ATATATAATCATGCAATTAACAATATAAAACATGCAAT
*
13676595 TAAATATATAATTATGCAATTAAC-A-A-AAAACATGCAAT
1 TAAATATATAATCATGCAATTAACAATATAAAACATGCAAT
* *
13676633 TAGATATATTATCATGCAATTAACAATATAAAACATGCAAT
1 TAAATATATAATCATGCAATTAACAATATAAAACATGCAAT
*
13676674 TAAATATATTATCATGCAATTAACAATATAAAACATGCAAT
1 TAAATATATAATCATGCAATTAACAATATAAAACATGCAAT
*
13676715 TAAATATATAATCATGCAATTAAC---AGAAAA-ATGCAAT
1 TAAATATATAATCATGCAATTAACAATATAAAACATGCAAT
* * ** *
13676752 TAACA-ATATAAAACAAGCAATT-A-AATATGTTATCATGCAAT
1 TAA-ATATAT-AATCATGCAATTAACAATAT-AAAACATGCAAT
* * * * * *
13676793 TAAATATATAATAATACAAATAATAATATAAATCATGCAAA
1 TAAATATATAATCATGCAATTAACAATATAAAACATGCAAT
13676834 TAAA
1 TAAA
13676838 CATGCAATTA
Statistics
Matches: 534, Mismatches: 50, Indels: 84
0.80 0.07 0.13
Matches are distributed among these distances:
37 15 0.03
38 113 0.21
39 6 0.01
40 14 0.03
41 293 0.55
42 10 0.02
43 4 0.01
44 2 0.00
45 2 0.00
47 2 0.00
48 2 0.00
49 33 0.06
50 2 0.00
51 2 0.00
52 2 0.00
53 32 0.06
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (41 bp):
TAAATATATAATCATGCAATTAACAATATAAAACATGCAAT
Found at i:13676361 original size:79 final size:80
Alignment explanation
Indices: 13676169--13676739 Score: 602
Period size: 79 Copynumber: 6.8 Consensus size: 80
13676159 AAACCATGCC
* *
13676169 ACTAAATATCTAATCATGCAATTAACAAT-TAAAAACATGCAATTAAATATATGATCATGCAATT
1 ACTAAATATATAATCATGCAATTAACAATAT-AAAACATGCAATTAAATATATAATCATGCAATT
* * *
13676233 AA-ATGTATCAATCATG
65 AACA-ATATAAAACATG
* * *
13676249 TAATTAAATATATAATCATGCAATTAACAATATAAATCATGCAATAAAATATATAATCATGCAAT
1 --ACTAAATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAAT
13676314 TAACAATATAAAACATG
64 TAACAATATAAAACATG
*
13676331 -CTAAATATATTATCATGCAATTAACAATATAAAACATGCCAATATATATATATATATATAATCA
1 ACTAAATATATAATCATGCAATTAACAATATAAAACATG-C---A-AT-TA-A-ATATATAATCA
*
13676395 TGCAATTAACAATATAAAACAAG
58 TGCAATTAACAATATAAAACATG
* * *
13676418 CAACTAAATATATAATTATGCAATTAAC-A-A-AAAACATGCAATTAGATATATTATCATGCAAT
1 --ACTAAATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAAT
13676480 TAACAATATAAAACATG
64 TAACAATATAAAACATG
* *
13676497 CAATTAAATATATTATCATGCAATTAACAATATAAAACATGCCAATATATATATATATATATATA
1 --ACTAAATATATAATCATGCAATTAACAATATAAAACATG-C-------A-AT-TA-A-ATATA
*
13676562 TAATCATGCAATTAACAATATAAAACAAG
52 TAATCATGCAATTAACAATATAAAACATG
* * *
13676591 CAACTAAATATATAATTATGCAATTAAC-A-A-AAAACATGCAATTAGATATATTATCATGCAAT
1 --ACTAAATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAAT
13676653 TAACAATATAAAACATG
64 TAACAATATAAAACATG
* *
13676670 CAATTAAATATATTATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAAT
1 --ACTAAATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAAT
13676735 TAACA
64 TAACA
13676740 GAAAAATGCA
Statistics
Matches: 423, Mismatches: 35, Indels: 62
0.81 0.07 0.12
Matches are distributed among these distances:
79 149 0.35
80 3 0.01
81 6 0.01
82 115 0.27
83 6 0.01
84 2 0.00
85 1 0.00
86 2 0.00
87 41 0.10
88 1 0.00
89 1 0.00
90 25 0.06
91 10 0.02
92 3 0.01
93 1 0.00
94 57 0.13
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.31
Consensus pattern (80 bp):
ACTAAATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTA
ACAATATAAAACATG
Found at i:13676602 original size:53 final size:53
Alignment explanation
Indices: 13676504--13676604 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
13676494 ATGCAATTAA
* * *
13676504 ATATATTATCATGCAATTAACAATATAAAACATGCCAATATATATATATATAT
1 ATATATAATCATGCAATTAACAATATAAAACAAGCCAATAAATATATATATAT
13676557 ATATATAATCATGCAATTAACAATATAAAACAAG-CAACTAAATATATA
1 ATATATAATCATGCAATTAACAATATAAAACAAGCCAA-TAAATATATA
13676605 ATTATGCAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 3 0.07
53 41 0.93
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (53 bp):
ATATATAATCATGCAATTAACAATATAAAACAAGCCAATAAATATATATATAT
Found at i:13676616 original size:173 final size:173
Alignment explanation
Indices: 13676253--13676795 Score: 816
Period size: 173 Copynumber: 3.1 Consensus size: 173
13676243 ATCATGTAAT
* * *
13676253 TAAATATATAATCATGCAATTAACAATATAAATCATGCAATAAAATATATAATCATGCAATTAAC
1 TAAATATATAATCATGCAATTAACAA-A-AAA-CATGCAATTAGATATATTATCATGCAATTAAC
13676318 AATATAAAACATGC---TAAATATATTATCATGCAATTAACAATATAAAACATGCC---A-ATAT
63 AATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCCAATATATAT
13676376 ATATATATATATATAATCATGCAATTAACAATATAAAACAAGCAAC
128 ATATATATATATATAATCATGCAATTAACAATATAAAACAAGCAAC
*
13676422 TAAATATATAATTATGCAATTAACAAAAAACATGCAATTAGATATATTATCATGCAATTAACAAT
1 TAAATATATAATCATGCAATTAACAAAAAACATGCAATTAGATATATTATCATGCAATTAACAAT
13676487 ATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCCAATATATATATA
66 ATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCCAATATATATATA
13676552 TATATATATATAATCATGCAATTAACAATATAAAACAAGCAAC
131 TATATATATATAATCATGCAATTAACAATATAAAACAAGCAAC
*
13676595 TAAATATATAATTATGCAATTAACAAAAAACATGCAATTAGATATATTATCATGCAATTAACAAT
1 TAAATATATAATCATGCAATTAACAAAAAACATGCAATTAGATATATTATCATGCAATTAACAAT
*
13676660 ATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATG-CAAT-TAAATATA
66 ATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCCAATATATATATA
* * ** *
13676723 TAATCATGCAATTAACAGAAAAATGCAATTAACAATATAAAACAAGCAAT
131 T-AT-AT---A-T-ATATAATCATGCAATTAACAATATAAAACAAGCAAC
* *
13676773 TAAATATGTTATCATGCAATTAA
1 TAAATATATAATCATGCAATTAA
13676796 ATATATAATA
Statistics
Matches: 347, Mismatches: 13, Indels: 19
0.92 0.03 0.05
Matches are distributed among these distances:
166 43 0.12
167 3 0.01
168 1 0.00
169 64 0.18
171 8 0.02
172 7 0.02
173 168 0.48
176 1 0.00
177 1 0.00
178 51 0.15
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (173 bp):
TAAATATATAATCATGCAATTAACAAAAAACATGCAATTAGATATATTATCATGCAATTAACAAT
ATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCCAATATATATATA
TATATATATATAATCATGCAATTAACAATATAAAACAAGCAAC
Found at i:13676698 original size:214 final size:221
Alignment explanation
Indices: 13676335--13676739 Score: 614
Period size: 214 Copynumber: 1.9 Consensus size: 221
13676325 AACATGCTAA
* *
13676335 ATATATTATCATGCAATTAACAATATAAAACATGCCAATATATATATATATATATAATCATGCAA
1 ATATATAATCATGCAATTAACAATATAAAACAAGCCAATATATATATATATATAT-ATCATGCAA
* *
13676400 TTAACAATATAAAACAAGCAACTAAATATATAATTATGCAATTAACAAAAAACATGCAATTAGAT
65 TTAACAATATAAAACAAGCAACTAAATATATAATCATGCAATTAACAAAAAACATGCAATTAAAT
*
13676465 ATATTATCATGCAATTAACAATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATAT
130 ATATTATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAACAATAT
13676530 AAAACATGCCAATATATATATATATAT
195 AAAACATGCCAATATATATATATATAT
*
13676557 ATATATAATCATGCAATTAACAATATAAAACAAG-CAA-CTA-A-ATATATA-AT-T-ATGCAAT
1 ATATATAATCATGCAATTAACAATATAAAACAAGCCAATATATATATATATATATATCATGCAAT
* * * *
13676615 TAAC-A-A-AAAACATGCAATTAGATATATTATCATGCAATTAACAATATAAAACATGCAATTAA
66 TAACAATATAAAACAAGCAACTAAATATATAATCATGCAATTAAC-A-A-AAAACATGCAATTAA
13676677 ATATATTATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAACA
128 ATATATTATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAACA
13676740 GAAAAATGCA
Statistics
Matches: 170, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
211 31 0.18
212 2 0.01
213 2 0.01
214 87 0.51
215 1 0.01
217 2 0.01
218 7 0.04
219 1 0.01
220 2 0.01
221 3 0.02
222 32 0.19
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (221 bp):
ATATATAATCATGCAATTAACAATATAAAACAAGCCAATATATATATATATATATATCATGCAAT
TAACAATATAAAACAAGCAACTAAATATATAATCATGCAATTAACAAAAAACATGCAATTAAATA
TATTATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAACAATATA
AAACATGCCAATATATATATATATAT
Found at i:13676827 original size:99 final size:99
Alignment explanation
Indices: 13676646--13676832 Score: 281
Period size: 99 Copynumber: 1.9 Consensus size: 99
13676636 ATATATTATC
* *
13676646 ATGCAATTAACAATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATG
1 ATGCAATTAACAATATAAAACAAGCAATTAAATATATTATCATGCAATTAACAATATAAAACATA
*
13676711 CAATTAAATATATAATCATGCAATTAACAGAAAA
66 CAATAAAATATATAATCATGCAATTAACAGAAAA
* *
13676745 ATGCAATTAACAATATAAAACAAGCAATTAAATATGTTATCATGCAATTAA-ATATATAATA-AT
1 ATGCAATTAACAATATAAAACAAGCAATTAAATATATTATCATGCAATTAACA-ATATAAAACAT
13676808 ACAAATAATAATATA-AATCATGCAA
65 AC-AATAA-AATATATAATCATGCAA
13676833 ATAAACATGC
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
98 4 0.05
99 70 0.88
100 6 0.08
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (99 bp):
ATGCAATTAACAATATAAAACAAGCAATTAAATATATTATCATGCAATTAACAATATAAAACATA
CAATAAAATATATAATCATGCAATTAACAGAAAA
Found at i:13676920 original size:20 final size:20
Alignment explanation
Indices: 13676895--13676933 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13676885 AAATTGGTAA
13676895 TCATGCAAACATATTAATAG
1 TCATGCAAACATATTAATAG
* *
13676915 TCATGCCAATATATTAATA
1 TCATGCAAACATATTAATA
13676934 AATCACCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (20 bp):
TCATGCAAACATATTAATAG
Found at i:13676976 original size:16 final size:16
Alignment explanation
Indices: 13676957--13677001 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
13676947 TTAATTATGT
13676957 AAATAAAATATTAGGC
1 AAATAAAATATTAGGC
* * *
13676973 AAATAAATTATCATGC
1 AAATAAAATATTAGGC
*
13676989 AAATATAATATTA
1 AAATAAAATATTA
13677002 ATCATTCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (16 bp):
AAATAAAATATTAGGC
Found at i:13677026 original size:20 final size:20
Alignment explanation
Indices: 13676982--13677032 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
13676972 CAAATAAATT
*
13676982 ATCATGCAAATATAATATTA
1 ATCATGCAAATATAATAATA
* *
13677002 ATCATTCAAATATGATAATA
1 ATCATGCAAATATAATAATA
*
13677022 GTCATGCAAAT
1 ATCATGCAAAT
13677033 TCATGCAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (20 bp):
ATCATGCAAATATAATAATA
Found at i:13677555 original size:18 final size:18
Alignment explanation
Indices: 13677532--13677576 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
13677522 TCTGATATAG
13677532 AATCTAAGAGTTGAATTA
1 AATCTAAGAGTTGAATTA
13677550 AATCTAAGAGTTGAATTA
1 AATCTAAGAGTTGAATTA
*
13677568 AATCCAAGA
1 AATCTAAGA
13677577 TTTTTCATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (18 bp):
AATCTAAGAGTTGAATTA
Found at i:13680572 original size:32 final size:30
Alignment explanation
Indices: 13680504--13680572 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
13680494 TAATAAATAA
*
13680504 TTTAAAAGTTTAGAATACAAATTATATTTT
1 TTTAAAAATTTAGAATACAAATTATATTTT
* *
13680534 TATAAAAATTTA-AGATATAAATTATATATATT
1 TTTAAAAATTTAGA-ATACAAATTATAT-T-TT
13680566 TTTAAAA
1 TTTAAAA
13680573 TATCAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 22 0.69
31 1 0.03
32 8 0.25
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (30 bp):
TTTAAAAATTTAGAATACAAATTATATTTT
Found at i:13680588 original size:23 final size:25
Alignment explanation
Indices: 13680542--13680606 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
13680532 TTTATAAAAA
* *
13680542 TTTAAGATATAAATTATATATA-TT
1 TTTAAAATATCAATTATATATATTT
13680566 TTTAAAATATCAATT-TATATATTT
1 TTTAAAATATCAATTATATATATTT
*
13680590 TTTAAAAT-TCAAATATA
1 TTTAAAATATCAATTATA
13680607 AAAAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 11 0.31
24 25 0.69
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTAAAATATCAATTATATATATTT
Found at i:13681037 original size:29 final size:30
Alignment explanation
Indices: 13681005--13681064 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
13680995 AATTAATAAA
* *
13681005 TTTATAATTTAATTATCATATTAAA-ATTT
1 TTTAAAATTTAAATATCATATTAAATATTT
*
13681034 TTTAAAATTTAAATATCATTTTAAATATTT
1 TTTAAAATTTAAATATCATATTAAATATTT
13681064 T
1 T
13681065 ACTAAGAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTAAAATTTAAATATCATATTAAATATTT
Found at i:13681784 original size:23 final size:22
Alignment explanation
Indices: 13681730--13681786 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
13681720 TTGAAATTAA
13681730 ATAATTTTAA-AAATTAATTTT
1 ATAATTTTAATAAATTAATTTT
*
13681751 TTATATATTTAATAAATATAATTTT
1 ATA-AT-TTTAATAAAT-TAATTTT
13681776 ATAATTTTAAT
1 ATAATTTTAAT
13681787 TATTATCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.07
22 2 0.07
23 11 0.37
24 6 0.20
25 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTTAATAAATTAATTTT
Found at i:13681940 original size:37 final size:37
Alignment explanation
Indices: 13681876--13681946 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
13681866 ACAAATTTTG
* *
13681876 TGTAATAACATTAAATAAATATGTTTTAGATTTTATA
1 TGTAATAACATTAAATAAATATATTTTACATTTTATA
*
13681913 TGTAATAATATTAAATAACA-ATATTTTACATTTT
1 TGTAATAACATTAAATAA-ATATATTTTACATTTT
13681947 TTTTCATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 29 0.97
38 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (37 bp):
TGTAATAACATTAAATAAATATATTTTACATTTTATA
Found at i:13682069 original size:73 final size:74
Alignment explanation
Indices: 13681990--13682169 Score: 208
Period size: 74 Copynumber: 2.4 Consensus size: 74
13681980 AAACATCATC
*
13681990 TTTTCAACAAAAA-TG-ATATTTTTATCTTAGAAAAAATTA-CTTTTATTGAATTCTAAAAAAAT
1 TTTTCAACAAAAATTGTAT-TTTTTATCTTAG-AAAAATTATC-TTTATTAAATT-TAAAAAAAT
13682052 -TATTTTTT-ATA
62 ATATTTTTTAATA
* ** *
13682063 TTTTCAACAAAAATTGTATTTTTTATCTTAGAAATATTATCTTTATTAAATTTTGAAATATATAT
1 TTTTCAACAAAAATTGTATTTTTTATCTTAGAAAAATTATCTTTATTAAATTTAAAAAAATATAT
13682128 TTTTTAATA
66 TTTTTAATA
** * *
13682137 TTTTCAACAATTATTGCATTTTTTATTTTAGAA
1 TTTTCAACAAAAATTGTATTTTTTATCTTAGAA
13682170 TATCATCTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
72 6 0.06
73 38 0.41
74 47 0.51
75 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (74 bp):
TTTTCAACAAAAATTGTATTTTTTATCTTAGAAAAATTATCTTTATTAAATTTAAAAAAATATAT
TTTTTAATA
Found at i:13682120 original size:24 final size:24
Alignment explanation
Indices: 13682093--13682140 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
13682083 TTTTATCTTA
13682093 GAAATAT-TATCTTTATTAA-ATTTT
1 GAAATATATAT-TTT-TTAATATTTT
13682117 GAAATATATATTTTTTAATATTTT
1 GAAATATATATTTTTTAATATTTT
13682141 CAACAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.18
24 15 0.68
25 3 0.14
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
GAAATATATATTTTTTAATATTTT
Found at i:13682139 original size:74 final size:72
Alignment explanation
Indices: 13681990--13682179 Score: 208
Period size: 73 Copynumber: 2.6 Consensus size: 72
13681980 AAACATCATC
* *
13681990 TTTTCAACAAAAA-TGATATTTTTATCTTAGAAAAAATTA-CTTTTATTGAATTCTAAAAAAATT
1 TTTTCAACAAAAATTGAT-TTTTTATCTTAG-AAATATTATC-TTTATTAAATTCTAAAAAAATT
13682053 ATTTTTTATA
63 ATTTTTTATA
** *
13682063 TTTTCAACAAAAATTGTATTTTTTATCTTAGAAATATTATCTTTATTAAATT-TTGAAATATATA
1 TTTTCAACAAAAATTG-ATTTTTTATCTTAGAAATATTATCTTTATTAAATTCTAAAAAAAT-TA
13682127 TTTTTTAATA
64 TTTTTT-ATA
** * *
13682137 TTTTCAACAATTATTGCATTTTTTATTTTAG-AATATCATCTTT
1 TTTTCAACAAAAATTG-ATTTTTTATCTTAGAAATATTATCTTT
13682180 TCAATAAAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
72 6 0.06
73 49 0.48
74 45 0.44
75 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.51
Consensus pattern (72 bp):
TTTTCAACAAAAATTGATTTTTTATCTTAGAAATATTATCTTTATTAAATTCTAAAAAAATTATT
TTTTATA
Found at i:13686526 original size:183 final size:184
Alignment explanation
Indices: 13686210--13686584 Score: 716
Period size: 183 Copynumber: 2.0 Consensus size: 184
13686200 TAACTTCAGC
13686210 AGGAATAAATGCAATTCTTGTAATATAAGAAATAAAGAAAAAAAAAAAAGAGCTATACTCTGAAT
1 AGGAATAAATGCAATTCTTGTAATATAAGAAATAAAGAAAAAAAAAAAAGAGCTATACTCTGAAT
13686275 TTAAGGACAACAGTCAACAAGCCAGAATAAATTAATCTTTTGGTTATTCTTTGAGATCATTGCTA
66 TTAAGGACAACAGTCAACAAGCCAGAATAAATTAATCTTTTGGTTATTCTTTGAGATCATTGCTA
13686340 CCAGCCCATCATATACCGGGAAAGAAAATCTAATCAAGCAAAGAAGTTGGACCT
131 CCAGCCCATCATATACCGGGAAAGAAAATCTAATCAAGCAAAGAAGTTGGACCT
*
13686394 AGGAATAAATGCAATTCTTTTAATATAAGAAATAAAG-AAAAAAAAAAAGAGCTATACTCTGAAT
1 AGGAATAAATGCAATTCTTGTAATATAAGAAATAAAGAAAAAAAAAAAAGAGCTATACTCTGAAT
* *
13686458 TTAAGGACAACAGTCAACAAGCCAGAATAAATTAATCTTTTGGTTATTCTTTTAGATCATTTCTA
66 TTAAGGACAACAGTCAACAAGCCAGAATAAATTAATCTTTTGGTTATTCTTTGAGATCATTGCTA
13686523 CCAGCCCATCATATACCGGGAAAGAAAATCTAATCAAGCAAAGAAGTTGGACCT
131 CCAGCCCATCATATACCGGGAAAGAAAATCTAATCAAGCAAAGAAGTTGGACCT
13686577 AGGAATAA
1 AGGAATAA
13686585 GTTGTATGGC
Statistics
Matches: 188, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
183 152 0.81
184 36 0.19
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (184 bp):
AGGAATAAATGCAATTCTTGTAATATAAGAAATAAAGAAAAAAAAAAAAGAGCTATACTCTGAAT
TTAAGGACAACAGTCAACAAGCCAGAATAAATTAATCTTTTGGTTATTCTTTGAGATCATTGCTA
CCAGCCCATCATATACCGGGAAAGAAAATCTAATCAAGCAAAGAAGTTGGACCT
Found at i:13687993 original size:20 final size:19
Alignment explanation
Indices: 13687963--13688006 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
13687953 AACAAAGAAT
13687963 AAAA-AGAAAAATTTTACATC
1 AAAATAGAAAAA-TTTAC-TC
13687983 AAAATAGAAAAATTTACTC
1 AAAATAGAAAAATTTACTC
13688002 AAAAT
1 AAAAT
13688007 TCATCAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.30
20 9 0.39
21 7 0.30
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.25
Consensus pattern (19 bp):
AAAATAGAAAAATTTACTC
Found at i:13690973 original size:2 final size:2
Alignment explanation
Indices: 13690961--13690995 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
13690951 ATTCCTCCTC
* *
13690961 AT AT CT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13690996 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13691300 original size:19 final size:21
Alignment explanation
Indices: 13691257--13691307 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
13691247 ATATAAATCC
*
13691257 ATATATATATAAATATATAGT
1 ATATACATATAAATATATAGT
*
13691278 ATATACATATATATA-ATAG-
1 ATATACATATAAATATATAGT
*
13691297 ATATCCATATA
1 ATATACATATA
13691308 CAGTAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 10 0.37
20 4 0.15
21 13 0.48
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (21 bp):
ATATACATATAAATATATAGT
Found at i:13691992 original size:44 final size:44
Alignment explanation
Indices: 13691944--13692028 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
13691934 AAGATCACTA
* * * *
13691944 GTGATTTATAATATTATACCAAATATGGTAATTTAATATTAATT
1 GTGATTTATAATATTATAACAAATATAGTAATGTAAGATTAATT
13691988 GTGATTTATAATATTATAACAAATATAGTAATGTAAGATTA
1 GTGATTTATAATATTATAACAAATATAGTAATGTAAGATTA
13692029 TCGACAATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (44 bp):
GTGATTTATAATATTATAACAAATATAGTAATGTAAGATTAATT
Found at i:13692335 original size:17 final size:17
Alignment explanation
Indices: 13692302--13692335 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13692292 ATTTGGCAAT
*
13692302 TTTTATTATATACAAAA
1 TTTTATTATATAAAAAA
*
13692319 TTTTATTCTATAAAAAA
1 TTTTATTATATAAAAAA
13692336 ATTGAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTATTATATAAAAAA
Found at i:13693149 original size:22 final size:22
Alignment explanation
Indices: 13693121--13693179 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
13693111 TAGTGAATGT
13693121 TTAATAATATT-ATAATAAATCA
1 TTAATAAT-TTAATAATAAATCA
* *
13693143 TTGATAATTTAATAATAAATTA
1 TTAATAATTTAATAATAAATCA
*
13693165 TTAATAACTTAATAA
1 TTAATAATTTAATAA
13693180 ATCACTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAATAATTTAATAATAAATCA
Found at i:13694245 original size:14 final size:14
Alignment explanation
Indices: 13694209--13694238 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13694199 TCAATCACTT
*
13694209 TTAATATTTTAAAA
1 TTAAAATTTTAAAA
13694223 TTAAAATTTTAAAA
1 TTAAAATTTTAAAA
13694237 TT
1 TT
13694239 TCAATTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAAATTTTAAAA
Found at i:13694650 original size:16 final size:16
Alignment explanation
Indices: 13694625--13694671 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
13694615 TAAATGATTT
* *
13694625 AAATTCGAATCAATTC
1 AAATTTGAATTAATTC
**
13694641 AAATTTGAATTAGGTC
1 AAATTTGAATTAATTC
13694657 AAATTTGAATTAATT
1 AAATTTGAATTAATT
13694672 TAAAATCAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (16 bp):
AAATTTGAATTAATTC
Found at i:13699690 original size:42 final size:43
Alignment explanation
Indices: 13699635--13699718 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 43
13699625 ACAGTAAAAA
* *
13699635 AAAGAAAAAATCATTTGTATTAAAAAGATAAATTAAGAAACAT
1 AAAGAAAAAATCATTTGTATAAAAAAGATAAATTAAAAAACAT
*
13699678 AAAG-AAAAATCATTTGTATAAAAAAGATTAATTAAAAAACA
1 AAAGAAAAAATCATTTGTATAAAAAAGATAAATTAAAAAACA
13699719 ATGTAGTCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 34 0.89
43 4 0.11
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.25
Consensus pattern (43 bp):
AAAGAAAAAATCATTTGTATAAAAAAGATAAATTAAAAAACAT
Found at i:13702962 original size:26 final size:26
Alignment explanation
Indices: 13702910--13702963 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
13702900 AAAAATTTTA
*
13702910 AAATAATTTTATTGATTTATTATAAT
1 AAATAATTTTATTGATTTAATATAAT
13702936 AAATAAATTTTATT-ATTGTAATA-AAT
1 AAAT-AATTTTATTGATT-TAATATAAT
13702962 AA
1 AA
13702964 TATGTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
AAATAATTTTATTGATTTAATATAAT
Found at i:13702971 original size:22 final size:22
Alignment explanation
Indices: 13702926--13702973 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13702916 TTTTATTGAT
*
13702926 TTATTATAATAAATAAATTTTA
1 TTATTATAATAAATAAATTGTA
*
13702948 TTATTGTAATAAAT-AATATGTA
1 TTATTATAATAAATAAAT-TGTA
13702970 TTAT
1 TTAT
13702974 ATTTTGATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
TTATTATAATAAATAAATTGTA
Found at i:13703192 original size:24 final size:24
Alignment explanation
Indices: 13703164--13703209 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13703154 TAATTTTACT
13703164 ATTATAATAATTAATCTCATCACC
1 ATTATAATAATTAATCTCATCACC
* **
13703188 ATTATTATTTTTAATCTCATCA
1 ATTATAATAATTAATCTCATCA
13703210 AAATTAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTATAATAATTAATCTCATCACC
Found at i:13706864 original size:19 final size:19
Alignment explanation
Indices: 13706833--13706870 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
13706823 CATCGGATTC
13706833 ATTAATGTATTTTTTAAAAA
1 ATTAATGTA-TTTTTAAAAA
13706853 ATTAAT-TATTTTTAAAAA
1 ATTAATGTATTTTTAAAAA
13706871 TAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTAATGTATTTTTAAAAA
Found at i:13707129 original size:88 final size:88
Alignment explanation
Indices: 13706978--13707150 Score: 215
Period size: 88 Copynumber: 2.0 Consensus size: 88
13706968 TTGTCTTAAG
*
13706978 AAAAATCATTAAATCTTTCAATAGTTTGATAAGATTCAACTTTAAAATTTAAATCCTCTAATAGT
1 AAAAATCATTAAACCTTTCAATAGTTTGATAAGATTCAACTTTAAAATTTAAATCCTCTAATAGT
* *
13707043 TTGGTAGGCTTAAAAATTTTTAT
66 TTGGTAAGATTAAAAATTTTTAT
* * * * * * * *
13707066 AAAAATTATTAAACCTTTCAATCGTTTGGTAAGATTTAA-TTATGAGATTTAAAT-ATTTCAATA
1 AAAAATCATTAAACCTTTCAATAGTTTGATAAGATTCAACTT-TAAAATTTAAATCCTCT-AATA
13707129 GTTTGGTAAGATTAAAAATTTT
64 GTTTGGTAAGATTAAAAATTTT
13707151 ATTTTAAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
87 4 0.06
88 68 0.94
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (88 bp):
AAAAATCATTAAACCTTTCAATAGTTTGATAAGATTCAACTTTAAAATTTAAATCCTCTAATAGT
TTGGTAAGATTAAAAATTTTTAT
Found at i:13713816 original size:23 final size:23
Alignment explanation
Indices: 13713790--13713837 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13713780 CACCTTAAAA
*
13713790 TAGCTCAATATCTTTTTATTAAG
1 TAGCCCAATATCTTTTTATTAAG
* *
13713813 TAGCCCCATATCTTTTTATTCAG
1 TAGCCCAATATCTTTTTATTAAG
13713836 TA
1 TA
13713838 ACTAGGGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (23 bp):
TAGCCCAATATCTTTTTATTAAG
Found at i:13714986 original size:9 final size:9
Alignment explanation
Indices: 13714906--13714995 Score: 53
Period size: 9 Copynumber: 9.8 Consensus size: 9
13714896 TTAAAAAGAC
13714906 ATAAAAATT
1 ATAAAAATT
*
13714915 AAAAAAATT
1 ATAAAAATT
*
13714924 ATGAAAAGTT
1 AT-AAAAATT
13714934 A-AAGAAATCT
1 ATAA-AAAT-T
*
13714944 A-AAACATT
1 ATAAAAATT
13714952 -TAAAAAATT
1 AT-AAAAATT
*
13714961 ATAAAGAAACT
1 AT-AA-AAATT
13714972 -TAAAAATT
1 ATAAAAATT
13714980 ATAAAAATT
1 ATAAAAATT
*
13714989 GTAAAAA
1 ATAAAAA
13714996 ACACAAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
8 7 0.11
9 37 0.58
10 16 0.25
11 4 0.06
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (9 bp):
ATAAAAATT
Found at i:13714995 original size:19 final size:18
Alignment explanation
Indices: 13714906--13714996 Score: 78
Period size: 19 Copynumber: 4.9 Consensus size: 18
13714896 TTAAAAAGAC
*
13714906 ATAAAAATTAAAAAAATT
1 ATAAAAATTTAAAAAATT
* *
13714924 ATGAAAAGTTAAAGAAATCT
1 ATAAAAATTTAAA-AAAT-T
*
13714944 A-AAACATTTAAAAAATT
1 ATAAAAATTTAAAAAATT
*
13714961 ATAAAGAAACTT-AAAAATT
1 AT-AA-AAATTTAAAAAATT
13714980 ATAAAAATTGTAAAAAA
1 ATAAAAATT-TAAAAAA
13714997 CACAAAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
17 6 0.11
18 17 0.30
19 28 0.49
20 6 0.11
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAAAAATTTAAAAAATT
Found at i:13715012 original size:26 final size:27
Alignment explanation
Indices: 13714983--13715040 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
13714973 AAAAATTATA
13714983 AAAATTGTAA-AAAACACAAAAAAATC-
1 AAAATTGTAATAAAA-ACAAAAAAATCT
* * *
13715009 AAAATTTTAATAAAAATAAAAAATTCT
1 AAAATTGTAATAAAAACAAAAAAATCT
13715036 AAAAT
1 AAAAT
13715041 AAAAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (27 bp):
AAAATTGTAATAAAAACAAAAAAATCT
Found at i:13715283 original size:21 final size:21
Alignment explanation
Indices: 13715259--13715299 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13715249 AAAAAAAGTA
13715259 AAAAAAATATAAAATT-AAAAT
1 AAAAAAATA-AAAATTCAAAAT
*
13715280 AAAATAATAAAAATTCAAAA
1 AAAAAAATAAAAATTCAAAA
13715300 AATATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAAAATAAAAATTCAAAAT
Found at i:13715300 original size:38 final size:40
Alignment explanation
Indices: 13715258--13715357 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 40
13715248 CAAAAAAAGT
13715258 AAAAAAAATAT-AAAATTAAAAT-AAAATAATAAAAATTC
1 AAAAAAAATATGAAAATTAAAATAAAAATAATAAAAATTC
* * * ** * *
13715296 AAAAAATATTTGAAAA-AAAAATAAAAATCTTAAAACTTT
1 AAAAAAAATATGAAAATTAAAATAAAAATAATAAAAATTC
*
13715335 AAAATAAATATGAAAATTAAAAT
1 AAAAAAAATATGAAAATTAAAAT
13715358 CTTCCGAAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
38 14 0.29
39 29 0.60
40 5 0.10
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (40 bp):
AAAAAAAATATGAAAATTAAAATAAAAATAATAAAAATTC
Found at i:13715303 original size:18 final size:20
Alignment explanation
Indices: 13715258--13715301 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13715248 CAAAAAAAGT
13715258 AAAAAA-AATATAAAATTAA
1 AAAAAATAATATAAAATTAA
13715277 AATAAAATAATA-AAAATTCAA
1 AA-AAAATAATATAAAATT-AA
13715298 AAAA
1 AAAA
13715302 TATTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 2 0.09
20 12 0.55
21 8 0.36
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAAATAATATAAAATTAA
Found at i:13716128 original size:12 final size:12
Alignment explanation
Indices: 13716113--13716147 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13716103 TATATACCGT
*
13716113 ATTATTTTTATG
1 ATTATTATTATG
*
13716125 ATTATGATTATG
1 ATTATTATTATG
13716137 ATTATTATTAT
1 ATTATTATTAT
13716148 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (12 bp):
ATTATTATTATG
Found at i:13717034 original size:5 final size:6
Alignment explanation
Indices: 13717018--13717053 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
13717008 AAGTTTTTCT
13717018 TTTTTCA TTTTTA -TTTTA TTTTTA TTTTTA TTTTTA
1 TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
13717054 ATATTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.18
6 18 0.64
7 5 0.18
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:13717044 original size:17 final size:18
Alignment explanation
Indices: 13717018--13717051 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13717008 AAGTTTTTCT
13717018 TTTTTCATTTTTATTTTA
1 TTTTTCATTTTTATTTTA
13717036 TTTTT-ATTTTTATTTT
1 TTTTTCATTTTTATTTT
13717052 TAATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCATTTTTATTTTA
Found at i:13717254 original size:45 final size:46
Alignment explanation
Indices: 13717166--13717254 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 46
13717156 AGAAAAAGTT
* *
13717166 GAATAAAAAAAAAGAAAAAAATCTTTTCAAATGAGTTAAAAAAAGG
1 GAATAAAAAAAAAGAAAAAAACCTTTTCAAATAAGTTAAAAAAAGG
* *
13717212 GAATGAAATAAAA-AAAAAAACCTTTTCAAATAAGTTAAAAAAA
1 GAATAAAAAAAAAGAAAAAAACCTTTTCAAATAAGTTAAAAAAA
13717255 TCTTTTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 28 0.72
46 11 0.28
ACGTcount: A:0.64, C:0.06, G:0.10, T:0.20
Consensus pattern (46 bp):
GAATAAAAAAAAAGAAAAAAACCTTTTCAAATAAGTTAAAAAAAGG
Found at i:13717278 original size:23 final size:23
Alignment explanation
Indices: 13717180--13717270 Score: 85
Period size: 23 Copynumber: 4.0 Consensus size: 23
13717170 AAAAAAAAAG
*
13717180 AAAAAAATCTTTTCAAATGAGTT
1 AAAAAAATCTTTTCAAATAAGTT
***** * **
13717203 AAAAAAAGGGAATGAAATAA-AA
1 AAAAAAATCTTTTCAAATAAGTT
*
13717225 AAAAAAACCTTTTCAAATAAGTT
1 AAAAAAATCTTTTCAAATAAGTT
13717248 AAAAAAATCTTTTCAAATAAGTT
1 AAAAAAATCTTTTCAAATAAGTT
13717271 TTGAAAATAA
Statistics
Matches: 49, Mismatches: 18, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
22 14 0.29
23 35 0.71
ACGTcount: A:0.56, C:0.08, G:0.09, T:0.27
Consensus pattern (23 bp):
AAAAAAATCTTTTCAAATAAGTT
Found at i:13717373 original size:22 final size:22
Alignment explanation
Indices: 13717339--13717381 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
13717329 TATAAAACCA
13717339 AAAAAATCCTTTC-AATAAAAT
1 AAAAAATCCTTTCAAATAAAAT
*
13717360 AAAAAATCTTTTTCAAATAAAA
1 AAAAAATC-CTTTCAAATAAAA
13717382 AATCCTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAAATCCTTTCAAATAAAAT
Found at i:13717378 original size:23 final size:21
Alignment explanation
Indices: 13717339--13717388 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 21
13717329 TATAAAACCA
13717339 AAAAAATCCTTTCAATAAAAT
1 AAAAAATCCTTTCAATAAAAT
* *
13717360 AAAAAAT-CTTT--TTCAAAT
1 AAAAAATCCTTTCAATAAAAT
13717378 AAAAAATCCTT
1 AAAAAATCCTT
13717389 ACAAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 4 0.15
21 7 0.27
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAAATCCTTTCAATAAAAT
Found at i:13717395 original size:18 final size:19
Alignment explanation
Indices: 13717355--13717398 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
13717345 TCCTTTCAAT
* *
13717355 AAAATAAAAAATCTTTTTC
1 AAAATAAAAAATCTCTTAC
13717374 -AAATAAAAAATC-CTTAC
1 AAAATAAAAAATCTCTTAC
13717391 AAAATAAA
1 AAAATAAA
13717399 TTCATGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATAAAAAATCTCTTAC
Found at i:13727896 original size:47 final size:47
Alignment explanation
Indices: 13727795--13727902 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 47
13727785 CTTGATCTAA
* * * * *
13727795 AAAAAAAAGGAAAAGTTCAAGTTGAAAACCCGAAAGGGTGACTTGAACC
1 AAAAAAAA--AAAAGCTCAAATTGAAAACCCAAAAGAGTGACATGAACC
* * *
13727844 TAAAAAAAAAAAGCTCAAATTGAAAACCTAAAAGAGTGGCATGAACC
1 AAAAAAAAAAAAGCTCAAATTGAAAACCCAAAAGAGTGACATGAACC
*
13727891 AAAAAAGAAAAA
1 AAAAAAAAAAAA
13727903 CGAGTTCAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
47 42 0.86
49 7 0.14
ACGTcount: A:0.56, C:0.13, G:0.18, T:0.13
Consensus pattern (47 bp):
AAAAAAAAAAAAGCTCAAATTGAAAACCCAAAAGAGTGACATGAACC
Found at i:13728360 original size:32 final size:32
Alignment explanation
Indices: 13728324--13728386 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
13728314 TGATCAATAA
*
13728324 TTGAACAAAGTCATAAGAAATTATGTGTTACT
1 TTGAACAAAGCCATAAGAAATTATGTGTTACT
13728356 TTGAACAAAGCCATAAGAAATTATGTGTTAC
1 TTGAACAAAGCCATAAGAAATTATGTGTTAC
13728387 CTTAGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGAACAAAGCCATAAGAAATTATGTGTTACT
Found at i:13729154 original size:119 final size:118
Alignment explanation
Indices: 13728835--13729168 Score: 348
Period size: 119 Copynumber: 2.8 Consensus size: 118
13728825 TTTTGTTAGT
* ** * * *
13728835 TCAGTCTAAATCATTTCTTATGACTTGTGGTTTCATCCCGATCATTCATTTTTGA-CTTGACTCG
1 TCAGTCCAAATCATTTCTTATGACTCATGGTTTCATCTCGATCATTCATTTTTAACCTCGACTCG
* * * ** * *
13728899 GTCCTGGTCGCTTTTTTCTAACTCGTGATTTTTTCCAGTCACCCAATCTTGGC
66 GTCCTAGTCGCTTCTTTCTAACTCGTGGTTTCGTCCAATCACCAAATCTTGGC
* * * * * *
13728952 TCAGTCCAAATCATTTCTTATGACTCGTGGTTTAATCTCGATCATTCATTTTCAACTTCAACTCA
1 TCAGTCCAAATCATTTCTTATGACTCATGGTTTCATCTCGATCATTCATTTTTAACCTCGACTCG
* * * * *
13729017 ATCCTTGTCGTTTCTTTCTAACTTGTGGTTTCGTCCTAATCACTAAATCTTGGC
66 GTCCTAGTCGCTTCTTTCTAACTCGTGGTTTCGTCC-AATCACCAAATCTTGGC
* * * * *
13729071 TCAGTCCAGATCATTTGTTATGA-TCCATGGTTTCGTCTCGATCATTTATTTTTTACCTCGACTC
1 TCAGTCCAAATCATTTCTTATGACT-CATGGTTTCATCTCGATCATTCATTTTTAACCTCGACTC
** *
13729135 GGTCCTAGTTACTTCTTTCTAACTCATGGTTTCG
65 GGTCCTAGTCGCTTCTTTCTAACTCGTGGTTTCG
13729169 ACCCTATCAT
Statistics
Matches: 175, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
117 49 0.28
118 34 0.19
119 92 0.53
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (118 bp):
TCAGTCCAAATCATTTCTTATGACTCATGGTTTCATCTCGATCATTCATTTTTAACCTCGACTCG
GTCCTAGTCGCTTCTTTCTAACTCGTGGTTTCGTCCAATCACCAAATCTTGGC
Found at i:13729482 original size:51 final size:53
Alignment explanation
Indices: 13729377--13729482 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 53
13729367 CTTGTATGTA
* *
13729377 TTATTATAATAATATAATATTAGTATAGTAGCATTATTACTGTTAGTATTATT
1 TTATTATAATAATATAATATTAGTATAGTAGCATTATTACTGATAGTATCATT
* * * *
13729430 TTATTATAGT-ATATAATA-TATTATATTAGCATTATTACT-ATATTCATCATT
1 TTATTATAATAATATAATATTAGTATAGTAGCATTATTACTGATAGT-ATCATT
13729481 TT
1 TT
13729483 TATATACCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
50 3 0.07
51 26 0.57
52 8 0.17
53 9 0.20
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.51
Consensus pattern (53 bp):
TTATTATAATAATATAATATTAGTATAGTAGCATTATTACTGATAGTATCATT
Found at i:13729535 original size:13 final size:14
Alignment explanation
Indices: 13729512--13729542 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
13729502 ATTATTTTTG
13729512 TTTTCATTTTTTCC
1 TTTTCATTTTTTCC
13729526 TTTTCA-TTTTTCC
1 TTTTCATTTTTTCC
13729539 TTTT
1 TTTT
13729543 GCTCTAATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTCATTTTTTCC
Found at i:13730563 original size:24 final size:24
Alignment explanation
Indices: 13730508--13730555 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
13730498 GAATGGAATA
13730508 AAAAAAAAACCTTTTCAAATAAGT
1 AAAAAAAAACCTTTTCAAATAAGT
*
13730532 AAAAAAAAATCTTTTCAAATAAGT
1 AAAAAAAAACCTTTTCAAATAAGT
13730556 TTTCAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAAAAAACCTTTTCAAATAAGT
Found at i:13730649 original size:22 final size:23
Alignment explanation
Indices: 13730625--13730667 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13730615 TAAAACCAAA
13730625 AAAATC-CTTTC-AATAAAAAAG
1 AAAATCTCTTTCAAATAAAAAAG
*
13730646 AAAATCTTTTTCAAATAAAAAA
1 AAAATCTCTTTCAAATAAAAAA
13730668 TCTCTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 4 0.21
23 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAATCTCTTTCAAATAAAAAAG
Found at i:13736986 original size:14 final size:14
Alignment explanation
Indices: 13736967--13737018 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
13736957 TATTTGTGAG
*
13736967 ATAGAGAGAGAGAG
1 ATAGAGAGAGAGAC
* * *
13736981 AGAGAGAAAGAAAC
1 ATAGAGAGAGAGAC
*
13736995 AAAGAGAGAGAGAC
1 ATAGAGAGAGAGAC
13737009 ATAGAGAGAG
1 ATAGAGAGAG
13737019 TTTAAAACAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.56, C:0.04, G:0.37, T:0.04
Consensus pattern (14 bp):
ATAGAGAGAGAGAC
Found at i:13738517 original size:3 final size:3
Alignment explanation
Indices: 13738511--13738547 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
13738501 TAGGATGATG
13738511 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13738548 CCATTAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13742049 original size:72 final size:72
Alignment explanation
Indices: 13741971--13742178 Score: 260
Period size: 72 Copynumber: 2.9 Consensus size: 72
13741961 AAATAAAGTT
* ** *
13741971 TTTTTTAT-CTTAAAAACACAAACTTTGTTAAAA-TTATAGAATTTTAAAAATAAAATTTCAACA
1 TTTTTTATGCTT-AAAACACGATTTTTGTTAAAATTTA-AGAATTTTAAAAATAAAGTTTCAACA
13742034 T-TAACAATA
64 TCT-ACAATA
* * * *
13742043 TTTTTTATGCTTAAAACGCGATTTTTATTAAAATTTCAGAATTTTGAAAATAAAGTTTCAACATC
1 TTTTTTATGCTTAAAACACGATTTTTGTTAAAATTTAAGAATTTTAAAAATAAAGTTTCAACATC
* *
13742108 TACTATG
66 TACAATA
* *
13742115 TTTTTTATGCTCAAAACACGATTTTTGTTAAAATTTAAGAATTTCAAAAATAAAGTTTCAACAT
1 TTTTTTATGCTTAAAACACGATTTTTGTTAAAATTTAAGAATTTTAAAAATAAAGTTTCAACAT
13742179 ACATGATCTT
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
72 111 0.95
73 6 0.05
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.41
Consensus pattern (72 bp):
TTTTTTATGCTTAAAACACGATTTTTGTTAAAATTTAAGAATTTTAAAAATAAAGTTTCAACATC
TACAATA
Found at i:13742320 original size:71 final size:72
Alignment explanation
Indices: 13742181--13742443 Score: 282
Period size: 72 Copynumber: 3.6 Consensus size: 72
13742171 TTCAACATAC
* * * * *
13742181 ATGATCTTTGTTAAAATTCTAATATTTCGAAAAAAAAAAGTTTCAA-AGTCCATTATGTTTTTTA
1 ATGATCTTTGTTAAAATTCTAAAATTT--TAAAATAAAA-TTTCAACAGTCCCTTATATTTTTTA
13742245 TCTTAAAAAT
63 TCTTAAAAAT
* * * *
13742255 TTGATTTTTGTTAAAATTTTAAAATTTCTAAAATAAAA-TTCAACA-TCCCTTATTTTTTTTATC
1 ATGATCTTTGTTAAAATTCTAAAATTT-TAAAATAAAATTTCAACAGTCCCTTATATTTTTTATC
*
13742318 TTAAAAAC
65 TTAAAAAT
* * * * ** *
13742326 ATGATCTTTGTTAAAATTTTAGAAATTTGAAAATAAAATTTTAACATTTAC-TACATTTTTTATC
1 ATGATCTTTGTTAAAATTCTA-AAATTTTAAAATAAAATTTCAACAGTCCCTTATATTTTTTATC
13742390 TTAAAAAT
65 TTAAAAAT
*
13742398 ATGATGTTTGTTAAAATTCTAAAATTTTAAAAATAAAATTTCAACA
1 ATGATCTTTGTTAAAATTCTAAAATTTT-AAAATAAAATTTCAACA
13742444 TTCACCACAT
Statistics
Matches: 161, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
71 62 0.39
72 66 0.41
73 10 0.06
74 23 0.14
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (72 bp):
ATGATCTTTGTTAAAATTCTAAAATTTTAAAATAAAATTTCAACAGTCCCTTATATTTTTTATCT
TAAAAAT
Found at i:13742457 original size:143 final size:141
Alignment explanation
Indices: 13742238--13742503 Score: 333
Period size: 143 Copynumber: 1.9 Consensus size: 141
13742228 GTCCATTATG
* * *
13742238 TTTTTTATCTTAAAAATTTGATTTTTGTTAAAATTTTAAAATTTCTAAAATAAAATTCAACATCC
1 TTTTTTATCTTAAAAATATGATGTTTGTTAAAATTCTAAAATTTCTAAAATAAAATTCAACATCC
** * * * *
13742303 CTTATTTTTTTTATCTTAAAAACATG-ATCTTTGTTAAAATTTTAGAAATTTGAAAATAAAATTT
66 C-TATCATTTTTATATGAAAAA-A-GAATCTTTGTTAAAAATTCAGAAATTTGAAAATAAAATTT
13742367 TAACATTTACTACA
128 TAACATTTACTACA
13742381 TTTTTTATCTTAAAAATATGATGTTTGTTAAAATTCTAAAATTT-TAAAAATAAAATTTCAACAT
1 TTTTTTATCTTAAAAATATGATGTTTGTTAAAATTCTAAAATTTCT-AAAATAAAA-TTCAACA-
* *
13742445 TCACC-A-CATTTTTATATGAAAAAAGCAATCTTTGTTAAAAATTCATAATTTTGAAAATA
63 TC-CCTATCATTTTTATATGAAAAAAG-AATCTTTGTTAAAAATTCAGAAATTTGAAAATA
13742504 TAGTTTATCT
Statistics
Matches: 106, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
141 1 0.01
142 2 0.02
143 91 0.86
144 8 0.08
145 2 0.02
146 2 0.02
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (141 bp):
TTTTTTATCTTAAAAATATGATGTTTGTTAAAATTCTAAAATTTCTAAAATAAAATTCAACATCC
CTATCATTTTTATATGAAAAAAGAATCTTTGTTAAAAATTCAGAAATTTGAAAATAAAATTTTAA
CATTTACTACA
Found at i:13742486 original size:72 final size:72
Alignment explanation
Indices: 13742181--13742503 Score: 243
Period size: 71 Copynumber: 4.5 Consensus size: 72
13742171 TTCAACATAC
* * * * ** **
13742181 ATGATCTTTGTTAAAATTCTAATATTTCGAAAAAAAAAAGTTTCAA-AGTCCATTATGTTTTTTA
1 ATGATCTTTGTTAAAATTCTAAAATTTTG-AAAATAAAA-TTTCAACA-TTCACCACATTTTTTA
* *
13742245 TCTTAAAAAT
63 TATGAAAAAT
* * * **
13742255 TTGATTTTTGTTAAAATTTTAAAATTTCT-AAAATAAAA-TTCAACA-TC-CCTTATTTTTTTTA
1 ATGATCTTTGTTAAAATTCTAAAATTT-TGAAAATAAAATTTCAACATTCACC--ACATTTTTTA
* * *
13742316 TCTTAAAAAC
63 TATGAAAAAT
* * * * *
13742326 ATGATCTTTGTTAAAATTTTAGAAA-TTTGAAAATAAAATTTTAACATTTACTACATTTTTTATC
1 ATGATCTTTGTTAAAATTCTA-AAATTTTGAAAATAAAATTTCAACATTCACCACATTTTTTATA
*
13742390 TTAAAAAT
65 TGAAAAAT
* *
13742398 ATGATGTTTGTTAAAATTCTAAAATTTTAAAAATAAAATTTCAACATTCACCACA-TTTTTATAT
1 ATGATCTTTGTTAAAATTCTAAAATTTTGAAAATAAAATTTCAACATTCACCACATTTTTTATAT
13742462 GAAAAA-
66 GAAAAAT
*
13742468 A-GCAATCTTTGTTAAAAATTC-ATAATTTTGAAAATA
1 ATG--ATCTTTGTT-AAAATTCTAAAATTTTGAAAATA
13742504 TAGTTTATCT
Statistics
Matches: 206, Mismatches: 30, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
69 1 0.00
70 3 0.01
71 90 0.44
72 79 0.38
73 9 0.04
74 24 0.12
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (72 bp):
ATGATCTTTGTTAAAATTCTAAAATTTTGAAAATAAAATTTCAACATTCACCACATTTTTTATAT
GAAAAAT
Found at i:13758190 original size:6 final size:6
Alignment explanation
Indices: 13758179--13758212 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
13758169 ATAAAATATA
13758179 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
13758213 AAACTCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:13758619 original size:18 final size:18
Alignment explanation
Indices: 13758593--13758648 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 18
13758583 CTTTGTTCTT
13758593 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
13758611 GATATATTTGAGGAGGTAGAG
1 GATACATTT---GAGGTGGAG
13758632 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
13758649 TAATAATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 15 0.48
21 16 0.52
ACGTcount: A:0.30, C:0.04, G:0.38, T:0.29
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:13758632 original size:21 final size:21
Alignment explanation
Indices: 13758602--13758644 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13758592 TGATACATTT
* *
13758602 GAGGTGGAGGATATATTTGAG
1 GAGGTAGAGGATACATTTGAG
13758623 GAGGTAGAGGATACATTTGAG
1 GAGGTAGAGGATACATTTGAG
13758644 G
1 G
13758645 TGGATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.42, T:0.26
Consensus pattern (21 bp):
GAGGTAGAGGATACATTTGAG
Found at i:13760383 original size:29 final size:27
Alignment explanation
Indices: 13760315--13760383 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
13760305 TTAAATTCCT
* * *
13760315 ATATATTCATCAATTAATTTTTAGAGTA
1 ATATA-TCATAAATTAATTTTTAAAATA
**
13760343 ATATATTTTAAATTAATATTTTAAAATA
1 ATATATCATAAATTAAT-TTTTAAAATA
13760371 ATGATATCATAAA
1 AT-ATATCATAAA
13760384 AAGATGCTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
27 9 0.28
28 15 0.47
29 8 0.25
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (27 bp):
ATATATCATAAATTAATTTTTAAAATA
Found at i:13762470 original size:26 final size:26
Alignment explanation
Indices: 13762421--13762469 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
13762411 TTTCAAAAAT
*
13762421 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
13762447 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
13762470 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Done.