Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168215.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_45, 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: 205015
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Warning! 1000 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:41890 original size:26 final size:26
Alignment explanation
Indices: 41861--41912 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
41851 CTATAGTATA
* *
41861 ATCAATTATTATAATAATATATTAAT
1 ATCAATTATAATAATAAAATATTAAT
* *
41887 ATCAATTGTAATAATAAAATTTTAAT
1 ATCAATTATAATAATAAAATATTAAT
41913 TATGACTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
ATCAATTATAATAATAAAATATTAAT
Found at i:41989 original size:24 final size:25
Alignment explanation
Indices: 41955--42012 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
41945 ATTATATTAA
*
41955 TAAATAA-TTATAATTAATA-ACTT
1 TAAATAATTTATAATAAATATACTT
*
41978 TAAATAATTTATAATAAATATAGTT
1 TAAATAATTTATAATAAATATACTT
*
42003 TAAATTATTT
1 TAAATAATTT
42013 GTTTATCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 7 0.23
24 11 0.37
25 12 0.40
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TAAATAATTTATAATAAATATACTT
Found at i:42200 original size:23 final size:23
Alignment explanation
Indices: 42143--42200 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
42133 TATAAGTTGG
*
42143 ATAATTTA-ATATTTGATTATAA
1 ATAATTTATATAATTGATTATAA
42165 AT-ATTTATAATAATT-ATTAATAA
1 ATAATTTAT-ATAATTGATT-ATAA
42188 ATAATTTATATAA
1 ATAATTTATATAA
42201 CAAAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.16
22 5 0.16
23 15 0.48
24 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATAATTTATATAATTGATTATAA
Found at i:42206 original size:17 final size:17
Alignment explanation
Indices: 42186--42218 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42176 AATTATTAAT
*
42186 AAATAATTTATATAACA
1 AAATAATTAATATAACA
42203 AAATAATTAATATAAC
1 AAATAATTAATATAAC
42219 TATAACAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAATTAATATAACA
Found at i:42586 original size:14 final size:15
Alignment explanation
Indices: 42567--42595 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42557 ATTATAAATC
42567 AATTAATT-ATTATT
1 AATTAATTAATTATT
42581 AATTAATTAATTATT
1 AATTAATTAATTATT
42596 TATTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTAATTAATTATT
Found at i:42588 original size:18 final size:18
Alignment explanation
Indices: 42557--42595 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
42547 ATTTTACCAA
42557 ATTATAAATCAATTAATT
1 ATTATAAATCAATTAATT
* *
42575 ATTATTAATTAATTAATT
1 ATTATAAATCAATTAATT
42593 ATT
1 ATT
42596 TATTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTATAAATCAATTAATT
Found at i:42751 original size:14 final size:13
Alignment explanation
Indices: 42730--42764 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
42720 AATAATTATT
*
42730 ATAAATATTTATA
1 ATAAATATTAATA
42743 ATCAAATATTAATA
1 AT-AAATATTAATA
42757 ATAAATAT
1 ATAAATAT
42765 ATTTTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAATATTAATA
Found at i:42757 original size:24 final size:24
Alignment explanation
Indices: 42705--42753 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
42695 TTTTTGTTTA
*
42705 TATAAATAATTTATTAATAATTAT
1 TATAAATAATTTATTAATAAATAT
42729 TATAAAT-ATTTA-TAATCAAATAT
1 TATAAATAATTTATTAAT-AAATAT
42752 TA
1 TA
42754 ATAATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 12 0.52
24 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAAATAATTTATTAATAAATAT
Found at i:42830 original size:26 final size:29
Alignment explanation
Indices: 42801--42864 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 29
42791 TTAAATAAGT
42801 ATTAGTAATTAATTA-TTAATA-T-TATA
1 ATTAGTAATTAATTATTTAATAGTATATA
*
42827 ATTAAT-ATTAATTATTTAATAGTATATA
1 ATTAGTAATTAATTATTTAATAGTATATA
42855 ATTAAGTAAT
1 ATT-AGTAAT
42865 ATTAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 8 0.26
26 11 0.35
27 1 0.03
28 7 0.23
29 2 0.06
30 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (29 bp):
ATTAGTAATTAATTATTTAATAGTATATA
Found at i:42973 original size:29 final size:27
Alignment explanation
Indices: 42941--42995 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
42931 CCTATTGCAA
* *
42941 TATTTATTACTTAAAATAAATTTAATATT
1 TATTT-TTAATTAAAACAAA-TTAATATT
*
42970 TATTTTTAATTTAAACAAATTAATAT
1 TATTTTTAATTAAAACAAATTAATAT
42996 ATTAAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 7 0.30
28 11 0.48
29 5 0.22
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (27 bp):
TATTTTTAATTAAAACAAATTAATATT
Found at i:43630 original size:14 final size:13
Alignment explanation
Indices: 43613--43654 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
43603 TTTATTATAA
43613 TTATATTAATTTAT
1 TTATATT-ATTTAT
43627 TTATATTATTTA-
1 TTATATTATTTAT
**
43639 GAATATTATTTAT
1 TTATATTATTTAT
43652 TTA
1 TTA
43655 AATAATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 10 0.43
13 6 0.26
14 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATATTATTTAT
Found at i:43635 original size:25 final size:24
Alignment explanation
Indices: 43605--43676 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 24
43595 ATGATTAATT
43605 TATTATAATTATATTAATTTATTTA
1 TATTATAATTATATTAA-TTATTTA
* *
43630 TATTAT--TTAGAAT-ATTATTTA
1 TATTATAATTATATTAATTATTTA
*
43651 T-TTA-AATAATATTAAATTATTTA
1 TATTATAATTATATT-AATTATTTA
43674 TAT
1 TAT
43677 AGGCTTATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
20 3 0.08
21 12 0.32
22 1 0.03
23 14 0.38
24 1 0.03
25 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
TATTATAATTATATTAATTATTTA
Found at i:43947 original size:21 final size:21
Alignment explanation
Indices: 43923--43962 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43913 ATTTCTATCT
*
43923 TAAATTAAATATTATTTAAGA
1 TAAATTAAATATTACTTAAGA
43944 TAAATTAAATATTACTTAA
1 TAAATTAAATATTACTTAA
43963 TTATCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (21 bp):
TAAATTAAATATTACTTAAGA
Found at i:45111 original size:36 final size:37
Alignment explanation
Indices: 45071--45261 Score: 102
Period size: 33 Copynumber: 5.5 Consensus size: 37
45061 TACTTACAAT
45071 TTTATAACTATAATATTAATAAT-T-TGT-TAAAAATAA
1 TTTATAA-TATAATATTAATAATATAT-TATAAAAATAA
*
45107 TTTAT-A-ATACTATTAATAATATATTATAAAAATAA
1 TTTATAATATAATATTAATAATATATTATAAAAATAA
*
45142 --TAT--TATAATA-TAATAAT-TA-TATTAAAATAA
1 TTTATAATATAATATTAATAATATATTATAAAAATAA
* * * *
45172 TTTAAAACTTATAATGTTTAGTTAATAT-TTAT-GAAATAA
1 TTTATAA--TATAAT-ATTA-ATAATATATTATAAAAATAA
45211 TTGT-TAA-ATAATATTAATAATA-ATTAT----ATAA
1 TT-TATAATATAATATTAATAATATATTATAAAAATAA
45242 TTTATAATATTAA-ATTAATA
1 TTTATAATA-TAATATTAATA
45262 TAATTTATTT
Statistics
Matches: 125, Mismatches: 10, Indels: 44
0.70 0.06 0.25
Matches are distributed among these distances:
30 11 0.09
31 11 0.09
32 17 0.14
33 24 0.19
34 11 0.09
35 14 0.11
36 16 0.13
38 2 0.02
39 14 0.11
40 5 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (37 bp):
TTTATAATATAATATTAATAATATATTATAAAAATAA
Found at i:45127 original size:12 final size:11
Alignment explanation
Indices: 45083--45170 Score: 51
Period size: 10 Copynumber: 8.1 Consensus size: 11
45073 TATAACTATA
45083 ATATTAATAAT
1 ATATTAATAAT
* * *
45094 TTGTTAAAAAT
1 ATATTAATAAT
*
45105 A-ATTTATAAT
1 ATATTAATAAT
45115 ACTATTAATAAT
1 A-TATTAATAAT
45127 ATATT-ATAA-
1 ATATTAATAAT
* *
45136 A-AATAATATT
1 ATATTAATAAT
45146 ATAATATAATAATT
1 AT-AT-TAATAA-T
45160 ATATTAA-AAT
1 ATATTAATAAT
45170 A
1 A
45171 ATTTAAAACT
Statistics
Matches: 57, Mismatches: 12, Indels: 17
0.66 0.14 0.20
Matches are distributed among these distances:
8 2 0.04
9 4 0.07
10 14 0.25
11 14 0.25
12 13 0.23
13 7 0.12
14 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
ATATTAATAAT
Found at i:45163 original size:19 final size:19
Alignment explanation
Indices: 45098--45170 Score: 64
Period size: 19 Copynumber: 4.0 Consensus size: 19
45088 AATAATTTGT
45098 TAAAAATAAT-TTATAATA
1 TAAAAATAATATTATAATA
**
45116 CTATTAATAATA-TAT--TA
1 -TAAAAATAATATTATAATA
45133 TAAAAATAATATTATAATA
1 TAAAAATAATATTATAATA
* * *
45152 TAATAATTATATTAAAATA
1 TAAAAATAATATTATAATA
45171 ATTTAAAACT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
16 9 0.21
17 5 0.12
19 29 0.67
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAAATAATATTATAATA
Found at i:45173 original size:14 final size:15
Alignment explanation
Indices: 45117--45170 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
45107 TTTATAATAC
45117 TATTAATAATATATTA
1 TATTAA-AATATATTA
45133 TA--AAAATAATATTA
1 TATTAAAAT-ATATTA
* *
45147 TAATATAATA-ATTA
1 TATTAAAATATATTA
45161 TATTAAAATA
1 TATTAAAATA
45171 ATTTAAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.09
14 22 0.69
15 1 0.03
16 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATTAAAATATATTA
Found at i:45330 original size:22 final size:22
Alignment explanation
Indices: 45275--45406 Score: 64
Period size: 22 Copynumber: 6.0 Consensus size: 22
45265 TTTATTTATT
*
45275 TAATATA-TAAATTAATATTTA
1 TAATATATTAAATTAATATTAA
*
45296 TAAATATTTTTAAATTAAT-TTAA
1 T-AATA-TATTAAATTAATATTAA
* *
45319 TAATATAATTAATATT--TTTTAT
1 TAATAT-ATTAA-ATTAATATTAA
* * *
45341 TAATTTACTCAATTAAATATTAA
1 TAATATATTAAATT-AATATTAA
*
45364 TTAATATTTTAAA-TAATAATTAA
1 -TAATATATTAAATTAAT-ATTAA
45387 TACATA-ATT--ATTAATATTAA
1 TA-ATATATTAAATTAATATTAA
45407 GGTAATATTA
Statistics
Matches: 84, Mismatches: 14, Indels: 27
0.67 0.11 0.22
Matches are distributed among these distances:
20 9 0.11
21 10 0.12
22 27 0.32
23 21 0.25
24 17 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATATATTAAATTAATATTAA
Found at i:45438 original size:24 final size:23
Alignment explanation
Indices: 45411--45457 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
45401 TATTAAGGTA
* *
45411 ATATTATTTTATAACATATATATT
1 ATATAATTTAATAACATA-ATATT
*
45435 ATATAATTTAATATCATAATATT
1 ATATAATTTAATAACATAATATT
45458 TTAATTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATAATTTAATAACATAATATT
Found at i:45549 original size:24 final size:24
Alignment explanation
Indices: 45499--45554 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
45489 TAATTAATAT
* *
45499 TAATTAAT-TTAAATTTATTTTAT
1 TAATTAATAATAAATTTATTTTAA
* *
45522 TAATTAATAATAAGTTTGTTTTAA
1 TAATTAATAATAAATTTATTTTAA
*
45546 TAATAAATA
1 TAATTAATA
45555 TATATTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
TAATTAATAATAAATTTATTTTAA
Found at i:45921 original size:11 final size:11
Alignment explanation
Indices: 45871--45929 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 11
45861 TTTAAATATC
45871 TTATATAAT-A
1 TTATATAATAA
* * *
45881 TTTTATTATTA
1 TTATATAATAA
*
45892 TTATGT-ATAA
1 TTATATAATAA
45902 -TAT-TAATAA
1 TTATATAATAA
45911 TTATATAATAA
1 TTATATAATAA
45922 TTATATAA
1 TTATATAA
45930 ATTGATTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
8 1 0.03
9 7 0.17
10 13 0.32
11 19 0.47
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TTATATAATAA
Found at i:45942 original size:16 final size:16
Alignment explanation
Indices: 45916--45954 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
45906 AATAATTATA
*
45916 TAATAATTATATAAAT
1 TAATTATTATATAAAT
*
45932 TGATTATTATATAAAT
1 TAATTATTATATAAAT
45948 TAATTAT
1 TAATTAT
45955 ATTATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TAATTATTATATAAAT
Found at i:46652 original size:20 final size:20
Alignment explanation
Indices: 46624--46673 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
46614 TAAGAAAATT
* *
46624 TAATGTTATAATATATAAAA
1 TAATTTTATAATAAATAAAA
* *
46644 TAATTTTATATTAAATAAAT
1 TAATTTTATAATAAATAAAA
*
46664 TTATTTTATA
1 TAATTTTATA
46674 TATTTTTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATTTTATAATAAATAAAA
Found at i:46659 original size:15 final size:15
Alignment explanation
Indices: 46635--46686 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
46625 AATGTTATAA
*
46635 TATATAAAATAATTT
1 TATATTAAATAATTT
*
46650 TATATTAAATAAATT
1 TATATTAAATAATTT
* * *
46665 TATTTTATATATTTT
1 TATATTAAATAATTT
46680 TA-ATTAA
1 TATATTAA
46687 TTATTATAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 3 0.10
15 26 0.90
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATATTAAATAATTT
Found at i:46703 original size:14 final size:14
Alignment explanation
Indices: 46680--46729 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
46670 TATATATTTT
46680 TAAT-TAATTATTA
1 TAATATAATTATTA
*
46693 TAA-ATATATTATAA
1 TAATATA-ATTATTA
*
46707 TAATATAATTATTT
1 TAATATAATTATTA
46721 TATATATAA
1 TA-ATATAA
46730 ATAATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 5 0.17
14 16 0.53
15 9 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATAATTATTA
Found at i:46713 original size:19 final size:19
Alignment explanation
Indices: 46691--46746 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
46681 AATTAATTAT
46691 TATAAATATATTATAATAA
1 TATAAATATATTATAATAA
* *
46710 TATAATTATTTTATATATAA
1 TATAAATATATTATA-ATAA
*
46730 -AT-AATTTA-TATAATAA
1 TATAAATATATTATAATAA
46746 T
1 T
46747 TTATAATGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 3 0.10
19 15 0.50
20 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TATAAATATATTATAATAA
Found at i:46729 original size:15 final size:15
Alignment explanation
Indices: 46709--46747 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
46699 TATTATAATA
*
46709 ATATAATTATTTTAT
1 ATATAATTAATTTAT
*
46724 ATATAAATAATTTAT
1 ATATAATTAATTTAT
46739 ATAATAATT
1 AT-ATAATT
46748 TATAATGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATAATTAATTTAT
Found at i:46746 original size:12 final size:13
Alignment explanation
Indices: 46723--46751 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46713 AATTATTTTA
46723 TATATAAATAATT
1 TATATAAATAATT
46736 TATAT-AATAATT
1 TATATAAATAATT
46748 TATA
1 TATA
46752 ATGTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATATAAATAATT
Found at i:46967 original size:23 final size:23
Alignment explanation
Indices: 46920--46968 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
46910 TTTATTTGAT
* *
46920 AATTTATATATATTTTAAATTTA
1 AATTTATATATATTATAAATATA
46943 AATTTATATA-ATTATAAATAATA
1 AATTTATATATATTATAAAT-ATA
46966 AAT
1 AAT
46969 AATTTATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTTATATATATTATAAATATA
Found at i:47682 original size:19 final size:20
Alignment explanation
Indices: 47660--47698 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
47650 AAAAAGCAAC
* *
47660 AATTAATTAATTAT-ATTAT
1 AATTAAATAAATATAATTAT
47679 AATTAAATAAATATAATTAT
1 AATTAAATAAATATAATTAT
47699 TTATTAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTAAATAAATATAATTAT
Found at i:48360 original size:18 final size:18
Alignment explanation
Indices: 48337--48392 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
48327 ATTAAATAAA
48337 TATTTA-AATAATAACTAT
1 TATTTATAATAATAA-TAT
48355 TATTTATAA-ATATAATAT
1 TATTTATAATA-ATAATAT
48373 TAATTTATAATAATAA-AT
1 T-ATTTATAATAATAATAT
48391 TA
1 TA
48393 CTAATAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.03
18 14 0.41
19 18 0.53
20 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTTATAATAATAATAT
Found at i:48378 original size:19 final size:20
Alignment explanation
Indices: 48341--48388 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
48331 AATAAATATT
48341 TAAATAATAACTATTATTTA
1 TAAATAATAACTATTATTTA
48361 TAAAT-ATAA-TATTAATTTA
1 TAAATAATAACTATT-ATTTA
48380 T-AATAATAA
1 TAAATAATAA
48389 ATTACTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.27
19 14 0.54
20 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATAATAACTATTATTTA
Found at i:48405 original size:19 final size:19
Alignment explanation
Indices: 48383--48426 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
48373 TAATTTATAA
48383 TAATAAAT-TACTAATAAAT
1 TAATAAATATACT-ATAAAT
**
48402 TAATATTTATACTATAAAT
1 TAATAAATATACTATAAAT
48421 TAATAA
1 TAATAA
48427 CAATAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAAATATACTATAAAT
Found at i:48449 original size:21 final size:22
Alignment explanation
Indices: 48420--48460 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
48410 ATACTATAAA
*
48420 TTAATAACAATAATTAAAATGT
1 TTAATAACAATAATAAAAATGT
*
48442 TTAA-AACATTAATAAAAAT
1 TTAATAACAATAATAAAAAT
48461 TAACTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (22 bp):
TTAATAACAATAATAAAAATGT
Found at i:49422 original size:17 final size:15
Alignment explanation
Indices: 49404--49433 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49394 TACATTAGTT
49404 ATTATT-AAATATAA
1 ATTATTAAAATATAA
49418 ATTATTAAAATATAA
1 ATTATTAAAATATAA
49433 A
1 A
49434 CTAAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTATTAAAATATAA
Found at i:49749 original size:24 final size:23
Alignment explanation
Indices: 49691--49749 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
49681 ATATTAAAAA
* *
49691 TTATGACAATTTATAATTAATAT
1 TTATAACAATTTAAAATTAATAT
*
49714 TTATTATA-AATTTAAAATTAGTTAT
1 TTA-TA-ACAATTTAAAATTA-ATAT
49739 TTATAACAATT
1 TTATAACAATT
49750 ATATTAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 4 0.14
24 18 0.62
25 7 0.24
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
TTATAACAATTTAAAATTAATAT
Found at i:49986 original size:17 final size:15
Alignment explanation
Indices: 49968--49997 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49958 TACATTAGTT
49968 ATTATT-AAATATAA
1 ATTATTAAAATATAA
49982 ATTATTAAAATATAA
1 ATTATTAAAATATAA
49997 A
1 A
49998 CTAAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTATTAAAATATAA
Found at i:50066 original size:503 final size:499
Alignment explanation
Indices: 49096--50029 Score: 1098
Period size: 503 Copynumber: 1.9 Consensus size: 499
49086 ATCACAATTG
49096 TTATAATGTTATAAATATTAGTAATTTATATTTAATTATATGAATTAAATATAATTAATGATAAA
1 TTATAATGTTATAAATATTAGTAATTTATATTTAATTATATGAATTAAATATAATTAATGATAAA
* *
49161 ATCTATTTTATTTATTATATTAAAAATTATGACAACTTATAATTAATATTTATTATTAATTTAAA
66 ATCTATTTTATTGATTATATTAAAAATTATGACAACTTATAATTAATATTTATTATAAATTTAAA
* * **
49226 ATTAGTTATTTATAATAATTATATTAAAATGTTAATAAATAACAAATATTAAAAAATATTTAACA
131 ATTAGTTATTTATAACAATTATATTAAAATATTAATAAATAACAAATATTAAAAAATAAATAACA
* ** * * * * ** *
49291 ATTAATAACTTAATTATCTATTTAATGTTGTTATTAAATTTAATAACTATTTGACATAATTATAA
196 ATTAATAACGTAATTA-CTAAATAA-GATGTTAATAAATTTAACAAATATTAAAAATAATTATAA
* **
49356 AATTAATATATTAATAATATTATAAATTTTATTAATTATACATTAGTTATTATTAAATATAAATT
259 AATTAATATATTAATAATATTATAAATTTTATTAATTATACACTAGTTAACATTAAATATAAA-T
* *
49421 ATTAAAATATAAACTAAATAAATATTTTATTAATTATTTTAATATAAGTTAAGTATTAAATAACT
323 ATTAAAATATAAACTAAATAAATATTTTATTAATTATATTAATATAAGTTAAATATTAAATAACT
* *
49486 TAAATAGATAATTAAATATATATTAAATATTATTATTTAATATCTATACTAATTAAATTAATAAT
388 TAAATAGATAACTAAATAAATATT-AATATTATTATTTAATATCTATACTAATTAAATTAATAAT
*
49551 AATATAATTAAATCACAATTGTTATAATGTTATTAAAAATAACATTAT
452 AAGATAATTAAATCACAATTGTTATAATGTTATTAAAAATAACATTAT
49599 TTATAATGTTATAAATATTAGTAATTTATATTTAATTATATGAATTAAATATAATTAATGATAAA
1 TTATAATGTTATAAATATTAGTAATTTATATTTAATTATATGAATTAAATATAATTAATGATAAA
*
49664 ATCTATTTTATTGATTAATATTAAAAATTATGACAATTTATAATTAATATTTATTATAAATTTAA
66 ATCTATTTTATTGATT-ATATTAAAAATTATGACAACTTATAATTAATATTTATTATAAATTTAA
* * * * ** *
49729 AATTAGTTATTTATAACAATTATATTAAACTTAATTAATAATTAAC-TATCTTAATTATTAAAT-
130 AATTAGTTATTTATAACAATTATATTAAA-AT-ATTAATAAATAACAAATATTAAAAAATAAATA
* *
49792 ATAATTAATAA-GTAA-TA-TAAATAA-ATGTTAATAAA-TTAACAAATATTAAAAATCATT-TA
193 ACAATTAATAACGTAATTACTAAATAAGATGTTAATAAATTTAACAAATATTAAAAATAATTATA
* *
49851 ATAATTAATA-ACTTAATTATCTATT-TAATATTGTTATTAAATTTAATA-ACTATTTGAACA-T
258 A-AATTAATATA-TTAA-TA-ATATTATAA-ATT-TTATT-AA-TT-ATACACTAGTT-AACATT
* * * * *
49912 AATTATAAA-ATTAATATATTAA-TAATATTATAA-ATTTTATTAATTATACATTAGTTATTA-T
313 AAATATAAATATTAAAATATAAACTAA-A-TA-AATATTTTATTAATTAT--ATTA-ATATAAGT
* * *
49973 TAAATA-TAAATTA-TTAAA-ATATAAACTAAATAAATATT-TTATTAATTATTTTAATAT
372 TAAATATTAAATAACTTAAATAGAT-AACTAAATAAATATTAATATT-ATTA-TTTAATAT
50030 AAGTTAAGTA
Statistics
Matches: 366, Mismatches: 43, Indels: 46
0.80 0.09 0.10
Matches are distributed among these distances:
496 4 0.01
497 28 0.08
498 14 0.04
499 14 0.04
500 29 0.08
501 44 0.12
502 26 0.07
503 97 0.27
504 88 0.24
505 11 0.03
506 11 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (499 bp):
TTATAATGTTATAAATATTAGTAATTTATATTTAATTATATGAATTAAATATAATTAATGATAAA
ATCTATTTTATTGATTATATTAAAAATTATGACAACTTATAATTAATATTTATTATAAATTTAAA
ATTAGTTATTTATAACAATTATATTAAAATATTAATAAATAACAAATATTAAAAAATAAATAACA
ATTAATAACGTAATTACTAAATAAGATGTTAATAAATTTAACAAATATTAAAAATAATTATAAAA
TTAATATATTAATAATATTATAAATTTTATTAATTATACACTAGTTAACATTAAATATAAATATT
AAAATATAAACTAAATAAATATTTTATTAATTATATTAATATAAGTTAAATATTAAATAACTTAA
ATAGATAACTAAATAAATATTAATATTATTATTTAATATCTATACTAATTAAATTAATAATAAGA
TAATTAAATCACAATTGTTATAATGTTATTAAAAATAACATTAT
Found at i:50418 original size:6 final size:6
Alignment explanation
Indices: 50389--50492 Score: 56
Period size: 6 Copynumber: 17.0 Consensus size: 6
50379 TATAAATTCG
* *
50389 ATATTA ATACTTA ATTATTA ATATTT ATATGA ATATT- ATAATTA ATATTA
1 ATATTA ATA-TTA A-TATTA ATATTA ATATTA ATATTA AT-ATTA ATATTA
* * * *
50439 TTA-TA TATATTGA ATATT- -TAATA ATATTT ATAATA ATAATT- ATAGTTA
1 ATATTA -ATATT-A ATATTA ATATTA ATATTA ATATTA AT-ATTA ATA-TTA
50487 ATATTA
1 ATATTA
50493 TTCAAAATAG
Statistics
Matches: 74, Mismatches: 12, Indels: 24
0.67 0.11 0.22
Matches are distributed among these distances:
4 3 0.04
5 5 0.07
6 42 0.57
7 21 0.28
8 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:50520 original size:14 final size:13
Alignment explanation
Indices: 50420--50536 Score: 52
Period size: 12 Copynumber: 9.0 Consensus size: 13
50410 TATTTATATG
*
50420 AATATTATAATT-
1 AATATTATTATTA
50432 AATATTATTA-TA
1 AATATTATTATTA
* * *
50444 TATATTGAATATTT
1 AATATT-ATTATTA
* *
50458 AATAATATTTATAA
1 AATATTA-TTATTA
50472 TAATAATTA-TAGTT-
1 -AAT-ATTATTA-TTA
50486 AATATTATTCA--A
1 AATATTATT-ATTA
50498 AATAGTTATTATTA
1 AATA-TTATTATTA
50512 AATGATTATTA-TA
1 AAT-ATTATTATTA
50525 AATATT-TTATTA
1 AATATTATTATTA
50537 GTTTAATTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 30
0.66 0.09 0.25
Matches are distributed among these distances:
11 4 0.05
12 28 0.35
13 18 0.23
14 21 0.27
15 5 0.06
16 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:50565 original size:16 final size:16
Alignment explanation
Indices: 50542--50579 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
50532 TATTAGTTTA
*
50542 ATTA-ATATTATATTT
1 ATTATATATTATAATT
50557 ATTATATATTATAATT
1 ATTATATATTATAATT
50573 A-TATATA
1 ATTATATA
50580 ATAAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTATATATTATAATT
Found at i:50607 original size:20 final size:20
Alignment explanation
Indices: 50548--50608 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
50538 TTTAATTAAT
*
50548 ATTATATTTATTATATATTATA
1 ATTATATTAATTATA-A-TATA
*
50570 ATTATATATAA-TAAAATATA
1 ATTATAT-TAATTATAATATA
50590 ATTATATTAATTATAATAT
1 ATTATATTAATTATAATAT
50609 TTATAATAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.09
20 18 0.53
21 1 0.03
22 10 0.29
23 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATATTAATTATAATATA
Found at i:51084 original size:16 final size:16
Alignment explanation
Indices: 51045--51078 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
51035 GTTATTCATG
*
51045 ATATTATATTTAATTA
1 ATATTATATTTAAATA
51061 ATATTATATTTAAATA
1 ATATTATATTTAAATA
51077 AT
1 AT
51079 TGTATAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTATATTTAAATA
Found at i:51163 original size:14 final size:14
Alignment explanation
Indices: 51135--51167 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51125 ACTAATAAAA
51135 TATTT-ATAGTAAT
1 TATTTAATAGTAAT
*
51148 TATTTAATATTAAT
1 TATTTAATAGTAAT
51162 TATTTA
1 TATTTA
51168 TAAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TATTTAATAGTAAT
Found at i:51913 original size:181 final size:178
Alignment explanation
Indices: 51225--54425 Score: 1133
Period size: 181 Copynumber: 18.1 Consensus size: 178
51215 AATCAGTAAG
* * * * * ** *
51225 AGATTTAAAAAGTAAATCTGCTTACCAAACCATTTCAAATAGTTTTGATTATTTGAATAATTATC
1 AGATTTAAAAAATAAATCTGTTTACCAAA-CAGTTCAAATAATTATGACCATTTGAACAATTATC
* * * * * * * **
51290 TATTTCAAATCATTATAACC-TTTTATTTTGTCATCAAATAATT-TGTTCTATTTATACTATTTT
65 TATTTCAAAACATTATAACCTTTTTAATTTGTCATAAAACAATTGT-TTCAATTAATACAAGCTT
** * * * * *
51353 ATTTGAAATAAAATAATGCAAATTTAATAATATTCCAAAACTTAATAACCAAA
129 ATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAA-TTAATAA--GAA
* * ** * ** * * * **
51406 AAAATTAAAAAATAAATCTAATTACCAAACCAATTCAAATAATTAAAACTATATAAATGATTATC
1 AGATTTAAAAAATAAATCTGTTTACCAAA-CAGTTCAAATAATTATGACCATTTGAACAATTATC
*** * * * * * **
51471 TATTTCAAATTGTTATGACATTTTCT--TTTGTTACAAAACAATTGTCTT--GTTTGTACAAGCT
65 TATTTCAAAACATTATAACCTTTT-TAATTTGTCATAAAACAATTGT-TTCAATTAATACAAGCT
* * * * *
51532 TATTCATATTAAAATAATTCTAATTTCA-TAATATTTAAAAAATTAAAAAGTAAA
128 TATTCAAAATAAAATAATACTAATTT-ATTAATATTT-CAAAATTAATAAG--AA
* * * * * * * ** * ** * ** *
51586 ATATTTAAAAAATAAATTTATCTATCGAATCATTTCAAATGGTTAAGAATATTAGAGTAATTATA
1 AGATTTAAAAAATAAATCTGTTTA-CCAAACAGTTCAAATAATTATGACCATTTGAACAATTATC
* * * * * * * * * *
51651 TACTTCAAATCGTTTTGACCATTTT--TTAGTCATAAAATAATTTTTTCAATTCATACAAGCTTA
65 TATTTCAAAACATTATAACCTTTTTAATTTGTCATAAAACAATTGTTTCAATTAATACAAGCTTA
* * *
51714 TTCAAAATAAATTAATACTAATTTATTAACATTTGGAAAATTAATAAGAAA
130 TTCAAAATAAAATAATACTAATTTATTAATATTT-CAAAATTAATAAG-AA
* * * * * ** *
51765 GAGATTTAAAAAATATATCTGTTTGCCGAACAAGTTCAAATAGTTATTATTATTTGAACAATTGT
1 -AGATTTAAAAAATAAATCTGTTTACCAAAC-AGTTCAAATAATTATGACCATTTGAACAATTAT
51830 CTATTT-AATAACATTATAACC-TTTTAATTTGTCATAAAACAATTGTTTCAATTAATACAAGCT
64 CTATTTCAA-AACATTATAACCTTTTTAATTTGTCATAAAACAATTGTTTCAATTAATACAAGCT
* ** *
51893 TAGAT-GGAATAAAATAATACTAATTTATTAATATTTCCTAAATTAATAAG-A
128 TA-TTCAAAATAAAATAATACTAATTTATTAATATTT-CAAAATTAATAAGAA
* * * *
51944 A-ATTT-AAAAATAAATTTGTTTACCAAATCAGTTAAAATAATTATGGCCATTTGAATAATTATC
1 AGATTTAAAAAATAAATCTGTTTACCAAA-CAGTTCAAATAATTATGACCATTTGAACAATTATC
* * * * *
52007 TATTTCAAATCATTATGACCTTTTTTTATTTTGTCATAATACAATTGTTT--TTTATCATACAAG
65 TATTTCAAAACATTATAACC--TTTTTAATTTGTCATAAAACAATTGTTTCAATTA--ATACAAG
* * *
52070 CTTATTCAAAATAAAATAATACTAATTGATTAATATTTCAAAAATAATAGGTAA
126 CTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAATTAATAAG-AA
* *
52124 CAGATTTAAACAATAAATCTGTTTACCAAACTAGTTCAAATAATTATG---A--T-ATC-A--AT
1 -AGATTTAAAAAATAAATCTGTTTACCAAAC-AGTTCAAATAATTATGACCATTTGAACAATTAT
** * ** * * *
52180 C----TCAAATTATTA-AA-ATTTTTGTTTTGTCATAAAACAATTGTTTCTAA-TCATAGAAGCC
64 CTATTTCAAAACATTATAACCTTTTTAATTTGTCATAAAACAATTGTTTC-AATTAATACAAGCT
*** *
52238 TATTC-GGTTAAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAG--
128 TATTCAAAAT-AAAATAATACTAATTTATTAATATTTC-AAAATTAATAAGAA
* * * * * * * ** * * * *
52288 AGATTTAAAAATTTAATATGTTTGCTAAACCAGTTCAAATAGTAAAAACAATTAGAATAATTTTC
1 AGATTTAAAAAATAAATCTGTTTACCAAA-CAGTTCAAATAATTATGACCATTTGAACAATTATC
* *** * * * ** *
52353 CATTTCAAATGGTTCA-AACCTTTTGT--TTAGTCATAAAATATTTGTTTC-ATGTCTTATAAGC
65 TATTTCAAAACATT-ATAACCTTTT-TAATTTGTCATAAAACAATTGTTTCAAT-TAATACAAGC
*** * * * *
52414 TTATTTGGAATAAAATAAT-CCATATTTATGAACATTTGGAAAATTAATAAGCAAA
127 TTATTCAAAATAAAATAATACTA-ATTTATTAATATTT-CAAAATTAATAAG--AA
* * * * * *
52469 AGATTTGAAAAGAA-AAATTTGTATACCAAACAAGTTTAAA-AAGTTATGACTATTTGATCAAGT
1 AGATTT-AAAA-AATAAATCTGTTTACCAAAC-AGTTCAAATAA-TTATGACCATTTGAACAATT
* ** * ** * * *
52532 AT-T-TTTATAAAATTGTTATGA-CTTTTTGTTTTGACATAAAACAATTGTTTCAATTCATAAAA
62 ATCTATTT-CAAAA-CATTATAACCTTTTTAATTTGTCATAAAACAATTGTTTCAATTAATACAA
* * ** * *
52594 ACTTATTCAAAAT--AA-AA-A-GAA--T-TTAATA-AGCATGAGTT--T--GAA
125 GCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCA-AAATTAATAAGAA
* * * * * * * * * * *
52636 A-A---AATAAAT---T-TGTTTATCGACCAAATTCAGATAGTTACGACTATTTGATCAATTGTC
1 AGATTTAAAAAATAAATCTGTTTACCAAAC-AGTTCAAATAATTATGACCATTTGAACAATTATC
* * * * *
52693 TATTT-AAAATCATTATGA----TGT--TTTGTCATAAAATAATTGTTTCAGTTCATACAAGCTT
65 TATTTCAAAA-CATTATAACCTTTTTAATTTGTCATAAAACAATTGTTTCAATTAATACAAGCTT
*
52751 ATTCAAAATAAAATAATTCTAATTTATTAATATTTCAAAAATTAATAAGTAA
129 ATTCAAAATAAAATAATACTAATTTATTAATATTTC-AAAATTAATAAG-AA
* * * * * * * * *
52803 GGGATTTGAAAAGTGAATCTATTTACGAAATTAGTTCAAATAATTAT-AGTCATTTCAACAATTA
1 -AGATTTAAAAAATAAATCTGTTTACCAAA-CAGTTCAAATAATTATGA-CCATTTGAACAATTA
* * * * * * *
52867 TCTATTTCAAATCGTTATTACCTTTTGT--TTGGTCATATAACAATTGTTT--TTTATCATACAT
63 TCTATTTCAAAACATTATAACCTTTT-TAATTTGTCATAAAACAATTGTTTCAATTA--ATACAA
* ** * *
52928 GATTATTTGAAATAAAATAATAATAATTTATTAATCTTTCAAAAATTAATAAG--
125 GCTTATTCAAAATAAAATAATACTAATTTATTAATATTTC-AAAATTAATAAGAA
* * ** * * * * * *
52981 AGATTTAAAAAATGAATCTATTTACTGAACTAGTTTAGATAGTTATGACTATTTGAACAATTCTA
1 AGATTTAAAAAATAAATCTGTTTACCAAAC-AGTTCAAATAATTATGACCATTTGAACAATTATC
** * * * ** *
53046 TACTTT-TTATCATTATAA-CTTTTT-GTTATGTCATAAAACAATTATTTCTGTTCATACAAGCT
65 TA-TTTCAAAACATTATAACCTTTTTAATT-TGTCATAAAACAATTGTTTCAATTAATACAAGCT
* * * * * * *
53108 TATTGAAAATAAAACAATACTAATCTAATAATAGTCCAAAAATTAATAACTAA
128 TATTCAAAATAAAATAATACTAATTTATTAATATTTC-AAAATTAATAA-GAA
* * * * * * * * * * *
53161 GGGATTCAAAAAATAAATTTGTTTGTCGAACCAATTCAAATAGTTAAGACTATATGAACAATTAT
1 -AGATTTAAAAAATAAATCTGTTT-ACCAAACAGTTCAAATAATTATGACCATTTGAACAATTAT
*** * * * * *
53226 CTATTTCAAATTGTTATGACCTTTTGT--CTTGTCAT---ACAATT-TTCTCAATTCATACTAGT
64 CTATTTCAAAACATTATAACCTTTT-TAATTTGTCATAAAACAATTGTT-TCAATTAATACAAGC
* * *
53285 TTATTCGAAATAAAATAA-AATGAATTTATTAATATTTCAAAAAATAATAAGTAA
127 TTATTCAAAATAAAATAATACT-AATTTATTAATATTTC-AAAATTAATAAG-AA
* * * * * *
53339 GAGATTTAAAAAATAATTTTGTTTACCTAACCAGTTCAAAAAATCAT-ACTATTTGAACAATTAT
1 -AGATTTAAAAAATAAATCTGTTTACC-AAACAGTTCAAATAATTATGACCATTTGAACAATTAT
* * * ** * * *** * * *
53403 ATATTTCAAATCATTATTA-CTTTTTGTTTTGTCATACAACAAATGTTTTTGTTCATATAAGTTT
64 CTATTTCAAAACATTATAACCTTTTTAATTTGTCATAAAACAATTGTTTCAATTAATACAAGCTT
* *
53467 ATTCAAAATAAAGTAATACTAATCTATTAATATTTCAAAAGTTAATAAG--
129 ATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAA-TTAATAAGAA
* * * * * * * * * * * *
53516 TGA-TTAGATAATAAATCTATGTATCAAACTAGTTCAAATAGTTAAGACTATTTGAGCAACTATT
1 AGATTTAAAAAATAAATCTGTTTACCAAAC-AGTTCAAATAATTATGACCATTTGAACAATTATC
* * ** ** * **
53580 TATTTCAAATCATTATGA-CTTTTTGTTTTGTTGTAAAACAATTGTTTCTATCCATACAAGCTTA
65 TATTTCAAAACATTATAACCTTTTTAATTTGTCATAAAACAATTGTTTCAATTAATACAAGCTTA
*** * * * *
53644 TTTGCATTAAAATAATACTAATTTATTAATATTTTGACAATTAGTAAGTAA
130 TTCAAAATAAAATAATACTAATTTATTAATA-TTTCAAAATTAATAAG-AA
* * * * * * *
53695 AAATTTTAAAAAT--A--TGTTTACCACACTAGATCAAATAATCATGACAATTTGAATAATTATC
1 AGATTTAAAAAATAAATCTGTTTACCAAAC-AGTTCAAATAATTATGACCATTTGAACAATTATC
* * * * * * * * * * *
53756 TATTTCAAATCGTTATGACC-TTTTGATTTGTCATAAAAGAGTTGTTTTAGTTCATATAAACTTA
65 TATTTCAAAACATTATAACCTTTTTAATTTGTCATAAAACAATTGTTTCAATTAATACAAGCTTA
* * *
53820 TTCAAAATAAAATAATACTAATTTATTAATAATCCAAAAATTAATAATAAA
130 TTCAAAATAAAATAATACTAATTTATTAATATTTC-AAAATTAATAA-GAA
* * * * * ** *
53871 GAGATTTAAAAAATGACAT-TGTTTACTAAACAAATTTAAATAATTAGGACTGTTTGAATAATTA
1 -AGATTTAAAAAAT-AAATCTGTTTACCAAAC-AGTTCAAATAATTATGACCATTTGAACAATTA
* * * * * * *** *
53935 TCTA-TTCGAAATAGCTGTAACCTTTTGT--TTTGTAATAAAAGAAATT-TTTTTGTTCAT-CTA
63 TCTATTTCAAAACA-TTATAACCTTTT-TAATTTGTCATAAAA-CAATTGTTTCAATTAATAC-A
* * * *
53995 AGCTTATTTC-GAATAAAATAATTCAAATTTATTAATA-TTAAGACAATTAATAAGTAAA
124 AGCTTA-TTCAAAATAAAATAATACTAATTTATTAATATTTCA-A-AATTAATAAG--AA
* *** * * * * * *
54053 AGATTT-AAAAATAAATCTATTTATTGAACAAGTTCTAATCATTATGGCTATTTGAGCAATTATT
1 AGATTTAAAAAATAAATCTGTTTACCAAAC-AGTTCAAATAATTATGACCATTTGAACAATTATC
** ** * * ** * * * *
54117 TATTTCAGCATGTTATGA-TTTTTTGTTTTGTCATAAAACAATTATTTCTATTCATGCAAG-TTC
65 TATTTCAAAACATTATAACCTTTTTAATTTGTCATAAAACAATTGTTTCAATTAATACAAGCTT-
* * * * *
54180 ATTCAAATTAAAATAATATTAATTAATTAATATTTTGACAATTAATAAGTAAA
129 ATTCAAAATAAAATAATACTAATTTATTAATA-TTTCAAAATTAATAAG--AA
* * * * * * ** * *
54233 AGATCTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATTAATATTTCAATAATTATC
1 AGATTTAAAAAATAAATCTGTTTACCAAAC-AGTTCAAATAATTATGACCATTTGAACAATTATC
* * * * * * * *
54298 TATTTCAAATCATTATGACCTTTTCT--TTTCTAATAAAACACTTGTCTCAATTTATATAAGCTT
65 TATTTCAAAACATTATAACCTTTT-TAATTTGTCATAAAACAATTGTTTCAATTAATACAAGCTT
** * *
54361 ATTTGAAGTAAGATAATACTAATTTATTAATATTTCAAAAATTAATGAATGAA
129 ATTCAAAATAAAATAATACTAATTTATTAATATTTC-AAAATTAAT-AA-GAA
*
54414 AGAATTAAAAAA
1 AGATTTAAAAAA
54426 AGAATATCTA
Statistics
Matches: 2270, Mismatches: 569, Indels: 362
0.71 0.18 0.11
Matches are distributed among these distances:
153 41 0.02
155 4 0.00
156 2 0.00
158 46 0.02
159 3 0.00
160 4 0.00
161 8 0.00
162 7 0.00
163 36 0.02
164 2 0.00
165 1 0.00
166 66 0.03
167 15 0.01
168 1 0.00
169 4 0.00
170 11 0.00
171 1 0.00
172 7 0.00
173 3 0.00
174 10 0.00
175 33 0.01
176 347 0.15
177 262 0.12
178 120 0.05
179 122 0.05
180 400 0.18
181 556 0.24
182 115 0.05
183 43 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (178 bp):
AGATTTAAAAAATAAATCTGTTTACCAAACAGTTCAAATAATTATGACCATTTGAACAATTATCT
ATTTCAAAACATTATAACCTTTTTAATTTGTCATAAAACAATTGTTTCAATTAATACAAGCTTAT
TCAAAATAAAATAATACTAATTTATTAATATTTCAAAATTAATAAGAA
Found at i:53223 original size:358 final size:355
Alignment explanation
Indices: 52711--54401 Score: 1172
Period size: 358 Copynumber: 4.7 Consensus size: 355
52701 ATCATTATGA
* * * *
52711 TGTTTTGTCATAAAATAATTGTTTCAGTTCATACAAGCTTATTCAAAATAAAATAATTCTAATTT
1 TGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATCT
* * * * *
52776 ATTAATATTTCAAAAATTAATAAGTAAGGGATTTGAAAAGTGAATCTATTTACGAAATTAGTTCA
66 ATTAATATTTCAAAAATTAATAA-TAAGGGA-TTAAAAAATAAATCTATTTTCG-AACTAGTTCA
* * * *
52841 AATAATTATAGTC-ATTTCAACAATTATCTATTTCAAATCGTTATTACCTTTTGTTTGGTCATAT
128 AATAGTTA-AGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTT-GTC-TAT
* *
52905 AACAATTGTTTTTTATCATACATGATTATTTGAAATAAAATAATAATAATTTATTAATCTTTC-A
190 AACAATTGTTTTCTATCATACATGATTATTTGAAATAAAATAATAATAATTTATTAATATTTCAA
* * * * * *
52969 AAAAT-TAA-TAAGAGATTTAAAAAATGAA-TCTATTTA-CTGAACTAGTTTAGATAGTTATGAC
255 AAAATATAAGTAAGAGATTTAAAAAAT-AATTCTATTTACCT-AACCAGTTCAAAAAATCAT-AC
* **
53030 TATTTGAACAATTCTATACTTT-TTATCATTATAACTTTT
317 TATTTGAACAATTATATA-TTTCAAATCATTATAACTTTT
* * * *
53069 TGTTATGTCATAAAACAATTATTTCTGTTCATACAAGCTTATTGAAAATAAAACAATACTAATCT
1 TGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATCT
* * * * * * *
53134 AATAATAGTCCAAAAATTAATAACTAAGGGATTCAAAAAATAAATTTGTTTGTCGAACCAATTCA
66 ATTAATATTTCAAAAATTAATAA-TAAGGGATT-AAAAAATAAATCTATTT-TCGAACTAGTTCA
* *
53199 AATAGTTAAGACTATATGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTCTTGTC-AT-A
128 AATAGTTAAGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGT-TTGTCTATAA
* * * *
53262 CAATT-TTCTCAATTCATAC-TAGTTTATTCGAAATAAAATAA-AATGAATTTATTAATATTTCA
192 CAATTGTTTTCTA-TCATACAT-GATTATTTGAAATAAAATAATAAT-AATTTATTAATATTTCA
* *
53324 AAAAATAATAAGTAAGAGATTTAAAAAATAATTTTGTTTACCTAACCAGTTCAAAAAATCATACT
254 AAAAAT-ATAAGTAAGAGATTTAAAAAATAATTCTATTTACCTAACCAGTTCAAAAAATCATACT
*
53389 ATTTGAACAATTATATATTTCAAATCATTATTACTTTT
318 ATTTGAACAATTATATATTTCAAATCATTATAACTTTT
* * * * * *
53427 TGTTTTGTCATACAACAAATGTTTTTGTTCATATAAGTTTATTCAAAATAAAGTAATACTAATCT
1 TGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATCT
* * * * * *
53492 ATTAATATTTC-AAAAGT--TAATAAGTGATTAGATAATAAATCTATGTATCAAACTAGTTCAAA
66 ATTAATATTTCAAAAATTAATAATAAGGGATTAAAAAATAAATCTAT-TTTCGAACTAGTTCAAA
* * * * * * *
53554 TAGTTAAGACTATTTGAGCAACTATTTATTTCAAATCATTATGACTTTTTGTTTTGTTGTAAAAC
130 TAGTTAAGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTG-TTTG-TCTATAAC
* * * * * ** *
53619 AATTG-TTTCTATCCATACAAGCTTATTTGCATTAAAATAATACTAATTTATTAATATTTTGACA
193 AATTGTTTTCTAT-CATACATGATTATTTGAAATAAAATAATAATAATTTATTAATATTTCAAAA
* * * * * * * *
53683 ATTAGTAAGTAA-AAATTTTAAAAAT-A---TGTTTACC-ACACTAGATCAAATAATCATGACAA
257 AATA-TAAGTAAGAGATTTAAAAAATAATTCTATTTACCTA-ACCAGTTCAAAAAATCAT-ACTA
* * * * *
53742 TTTGAATAATTATCTATTTCAAATCGTTATGACCTTT
319 TTTGAACAATTATATATTTCAAATCATTATAACTTTT
* * * * * *
53779 TGATTTGTCATAAAAGAGTTGTTT-TAGTTCATATAAACTTATTCAAAATAAAATAATACTAATT
1 TGTTTTGTCATAAAACAATTGTTTCT-GTTCATACAAGCTTATTCAAAATAAAATAATACTAATC
* * * * * * * * *
53843 TATTAATAATCCAAAAATTAATAATAAAGAGATTTAAAAAATGACAT-TGTTTACTAAACAAATT
65 TATTAATATTTCAAAAATTAATAAT-AAGGGA-TTAAAAAAT-AAATCTATTTTC-GAACTAGTT
* * * * * * * * * *
53907 TAAATAATTAGGACTGTTTGAATAATTATCTA-TTCGAAATAGCTGTAACCTTTTGTTTTGTAAT
126 CAAATAGTTAAGACTATTTGAACAATTATCTATTTC-AAATCGTTATGACCTTTTG-TTTGT-CT
* * * * * * *
53971 AAAAGAAATTTTTTTGT-TCAT-CTAAGCTTATTTCG-AATAAAATAATTCA-AATTTATTAATA
188 ATAA-CAATTGTTTTCTATCATAC-ATGATTATTT-GAAATAAAATAA-TAATAATTTATTAATA
* * * * * * **
54032 -TT-AAGACAATTAATAAGTAAAAGATTT-AAAAATAAATCTATTTA-TTGAACAAGTTCTAATC
249 TTTCAA-A-AAAT-ATAAGTAAGAGATTTAAAAAATAATTCTATTTACCT-AACCAGTTCAAAAA
* * * * * * * *
54093 ATTATGGCTATTTGAGCAATTATTTATTTCAGCAT-GTTATGATTTTT
310 ATCAT-ACTATTTGAACAATTATATATTTCA-AATCATTATAACTTTT
* * * * *
54140 TGTTTTGTCATAAAACAATTATTTCTATTCATGCAAG-TTCATTCAAATTAAAATAATATTAAT-
1 TGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTT-ATTCAAAATAAAATAATACTAATC
** * ** * * * *
54203 TAATTAATATTTTGACAATTAATAAGTAAAAGATCTAAAAAATAAATATATTTACCAAACAAGTT
65 T-ATTAATATTTCAAAAATTAATAA-TAAGGGAT-TAAAAAATAAATCTATTT-TCGAACTAGTT
* ** * * * * *
54268 CAAATAGTCATTAATATTTCAATAATTATCTATTTCAAATCATTATGACCTTTTCTTT-TCTAAT
126 CAAATAGTTAAGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTGTCT-AT
* * * * * * * * * *
54332 AAAACACTTG-TCTCAATTTATATAAGCTTATTTGAAGTAAGATAATACTAATTTATTAATATTT
190 --AACAATTGTTTTCTA-TCATACATGATTATTTGAAATAAAATAATAATAATTTATTAATATTT
54396 CAAAAA
252 CAAAAA
54402 TTAATGAATG
Statistics
Matches: 1055, Mismatches: 208, Indels: 137
0.75 0.15 0.10
Matches are distributed among these distances:
350 1 0.00
351 24 0.02
352 98 0.09
353 75 0.07
354 20 0.02
355 67 0.06
356 79 0.07
357 129 0.12
358 269 0.25
359 48 0.05
360 17 0.02
361 214 0.20
362 12 0.01
363 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (355 bp):
TGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATCT
ATTAATATTTCAAAAATTAATAATAAGGGATTAAAAAATAAATCTATTTTCGAACTAGTTCAAAT
AGTTAAGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTGTCTATAACAAT
TGTTTTCTATCATACATGATTATTTGAAATAAAATAATAATAATTTATTAATATTTCAAAAAATA
TAAGTAAGAGATTTAAAAAATAATTCTATTTACCTAACCAGTTCAAAAAATCATACTATTTGAAC
AATTATATATTTCAAATCATTATAACTTTT
Found at i:53665 original size:534 final size:534
Alignment explanation
Indices: 52634--53645 Score: 1223
Period size: 534 Copynumber: 1.9 Consensus size: 534
52624 CATGAGTTTG
* * * * *
52634 AAAAAATAAATTTGTTTATCGACCAAATTCAGATAGTTACGACTATTTGATCAATTGTCTATTTA
1 AAAAAATAAATTTGTTTATCGACCAAATTCAAATAGTTAAGACTATATGAACAATTATCTATTTA
** * *
52699 AAATCATTATGATGTTTTGTCATAAAATAATTGTTTCAGTTCATACAAGCTTATTCAAAATAAAA
66 AAATCATTATGACCTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAA
* * * * * *
52764 TAATTCTAATTTATTAATATTTCAAAAATTAATAAGTAAGGGATTTGAAAAGTGAATCTATTTAC
131 TAAATCGAATTTATTAATATTTCAAAAAATAATAAGTAAGAGATTTAAAAAATGAATCTATTTAC
* ** * * * * *
52829 GAAATTAGTTCAAATAATTATAGTCATTTCAACAATTATCTATTTCAAATCGTTATTACCTTTTG
196 CAAACCAGTTCAAAAAATCATACTCATTTCAACAATTATATATTTCAAATCATTATTACCTTTTG
* * * ** *
52894 TTTGGTCATATAACAATTGTTTTTTATCATACATGATTATTTGAAATAAAATAATAATAATTTAT
261 TTTGGTCATACAACAAATGTTTTTTATCATACAAGATTATTCAAAATAAAATAATAATAATCTAT
* * * * * *
52959 TAATCTTTCAAAAATTAATAAGAGATTTAAAAAATGAATCTATTTACTGAACTAGTTTAGATAGT
326 TAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATCTATGTACTAAACTAGTTCAAATAGT
* * * **
53024 TATGACTATTTGAACAATTCTATACTTTTTATCATTATAACTTTTTGTTATGTCATAAAACAATT
391 TAAGACTATTTGAACAACTATATACTTTAAATCATTATAACTTTTTGTTATGTCATAAAACAATT
* *
53089 ATTTCTGTTCATACAAGCTTATTGAAAATAAAACAATACTAATCTAATAATAGTCCAAAAATTAA
456 ATTTCTATCCATACAAGCTTATTGAAAATAAAACAATACTAATCTAATAATAGTCCAAAAATTAA
53154 TAACTAAGGGATTC
521 TAACTAAGGGATTC
*
53168 AAAAAATAAATTTGTTTGTCGAACC-AATTCAAATAGTTAAGACTATATGAACAATTATCTATTT
1 AAAAAATAAATTTGTTTATCG-ACCAAATTCAAATAGTTAAGACTATATGAACAATTATCTATTT
* ** * * * * * *
53232 CAAATTGTTATGACCTTTTGTCTTGTCATACAATT-TTCTCAATTCATACTAGTTTATTCGAAAT
65 AAAATCATTATGACCTTTTGTC--ATAAAACAATTGTT-TCAATTCATACAAGCTTATTCAAAAT
*
53296 AAAATAAAAT-GAATTTATTAATATTTCAAAAAATAATAAGTAAGAGATTTAAAAAAT-AATTTT
127 AAAAT-AAATCGAATTTATTAATATTTCAAAAAATAATAAGTAAGAGATTTAAAAAATGAA-TCT
* * *
53359 GTTTACCTAACCAGTTCAAAAAATCATACT-ATTTGAACAATTATATATTTCAAATCATTATTAC
190 ATTTACCAAACCAGTTCAAAAAATCATACTCATTTCAACAATTATATATTTCAAATCATTATTAC
* * * * * *
53423 TTTTTGTTTTGTCATACAACAAATGTTTTTGT-TCATATAAGTTTATTCAAAATAAAGTAATACT
255 CTTTTGTTTGGTCATACAACAAATGTTTTT-TATCATACAAGATTATTCAAAATAAAATAATAAT
* * * *
53487 AATCTATTAATATTTCAAAAGTTAATAAGTGA-TTAGATAATAAATCTATGTA-TCAAACTAGTT
319 AATCTATTAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATCTATGTACT-AAACTAGTT
* * * * **
53550 CAAATAGTTAAGACTATTTGAGCAACTATTTA-TTTCAAATCATTATGACTTTTTGTTTTGTTGT
383 CAAATAGTTAAGACTATTTGAACAACTATATACTTT-AAATCATTATAACTTTTTGTTATGTCAT
*
53614 AAAACAATTGTTTCTATCCATACAAGCTTATT
447 AAAACAATTATTTCTATCCATACAAGCTTATT
53646 TGCATTAAAA
Statistics
Matches: 396, Mismatches: 73, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
533 4 0.01
534 171 0.43
535 117 0.30
536 101 0.26
537 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (534 bp):
AAAAAATAAATTTGTTTATCGACCAAATTCAAATAGTTAAGACTATATGAACAATTATCTATTTA
AAATCATTATGACCTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAA
TAAATCGAATTTATTAATATTTCAAAAAATAATAAGTAAGAGATTTAAAAAATGAATCTATTTAC
CAAACCAGTTCAAAAAATCATACTCATTTCAACAATTATATATTTCAAATCATTATTACCTTTTG
TTTGGTCATACAACAAATGTTTTTTATCATACAAGATTATTCAAAATAAAATAATAATAATCTAT
TAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATCTATGTACTAAACTAGTTCAAATAGT
TAAGACTATTTGAACAACTATATACTTTAAATCATTATAACTTTTTGTTATGTCATAAAACAATT
ATTTCTATCCATACAAGCTTATTGAAAATAAAACAATACTAATCTAATAATAGTCCAAAAATTAA
TAACTAAGGGATTC
Found at i:53881 original size:176 final size:177
Alignment explanation
Indices: 52674--54406 Score: 1184
Period size: 181 Copynumber: 9.7 Consensus size: 177
52664 AGATAGTTAC
* * * * * *
52674 GACTATTTGATCAATTGTCTATTTAAAATCATTATGA---TGT-TTTGTCATAAAATAATTGTTT
1 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTGTCATAAAACAATTGTTT
* *
52735 CAGTTCATACAAGCTTATTCAAAATAAAATAATTCTAATTTATTAATATTTCAAAAATTAATAAG
66 TAGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* * * * * *
52800 TAAGGGATTTGAAAAGTGAATCTATTTACGAAATTAGTTCAAATAATTAT
131 TAAGAGATTTAAAAAAT-AAT-TGTTTAC-CAACTAGTTCAAATAATTAT
* * * *
52850 -AGTCATTTCAACAATTATCTATTTCAAATCGTTATTACCTTTTGTTTGGTCATATAACAATTGT
1 GACT-ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTT-GTCATAAAACAATTGT
* * * ** * *
52914 TTT-TTATCATACATGATTATTTGAAATAAAATAATAATAATTTATTAATCTTTCAAAAA-T--T
64 TTTAGT-TCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAAT
* * * * *
52975 AA-TAAGAGATTTAAAAAATGAATCTATTTACTGAACTAGTTTAGATAGTTAT
128 AAGTAAGAGATTTAAAAAAT-AAT-TGTTTAC-CAACTAGTTCAAATAATTAT
* * ** * * * *
53027 GACTATTTGAACAATTCTATACTTT-TTATCATTATAACTTTTTGTTATGTCATAAAACAATTAT
1 GACTATTTGAACAATTATCTA-TTTCAAATCGTTATGACCTTTTGTT-TGTCATAAAACAATTGT
* * * * * *
53091 TTCT-GTTCATACAAGCTTATTGAAAATAAAACAATACTAATCTAATAATAGTCCAAAAATTAAT
64 TT-TAGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAAT
* * * * * * * * *
53155 AACTAAGGGATTCAAAAAATAAATTTGTTTGTCGAACCAATTCAAATAGTTAA
128 AAGTAAGAGATTTAAAAAAT-AA-TTGTTT-ACCAACTAGTTCAAATAATTAT
* *
53208 GACTATATGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTCTTGTCAT---ACAATT-TT
1 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGT-TTGTCATAAAACAATTGTT
* * * * * * *
53269 CTCAATTCATACTAGTTTATTCGAAATAAAATAA-AATGAATTTATTAATATTTCAAAAAATAAT
65 -TTAGTTCATACAAGCTTATTCAAAATAAAATAATACT-AATTTATTAATATTTCAAAAATTAAT
* * *
53333 AAGTAAGAGATTTAAAAAATAATTTTGTTTACCTAACCAGTTCAAAAAATCAT
128 AAGTAAGAGATTTAAAAAATAA--TTGTTTACC-AACTAGTTCAAATAATTAT
* * * * * *
53386 -ACTATTTGAACAATTATATATTTCAAATCATTATTACTTTTTGTTTTGTCATACAACAAATGTT
1 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTG-TTTGTCATAAAACAATTGTT
* * * * * *
53450 TTTGTTCATATAAGTTTATTCAAAATAAAGTAATACTAATCTATTAATATTTCAAAAGTTAATAA
65 TTAGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAA
** * * * * * *
53515 GTGATTAGA--TAATAAAT-CTATGTAT-CAAACTAGTTCAAATAGTTAA
130 GT-AAGAGATTTAAAAAATAAT-TGTTTACCAACTAGTTCAAATAATTAT
* * * * * **
53561 GACTATTTGAGCAACTATTTATTTCAAATCATTATGACTTTTTGTTTTGTTGTAAAACAATTGTT
1 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTG-TTTGTCATAAAACAATTGTT
* *** * ** * *
53626 TCTA-TCCATACAAGCTTATTTGCATTAAAATAATACTAATTTATTAATATTTTGACAATTAGTA
65 T-TAGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATA
* * * *
53690 AGTAA-AAATTTTAAAAAT-A-TGTTTACCACACTAGATCAAATAATCAT
129 AGTAAGAGATTTAAAAAATAATTGTTTACCA-ACTAGTTCAAATAATTAT
* * * *
53737 GACAATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGATTTGTCATAAAAGAGTTGTT
1 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTG-TTTGTCATAAAACAATTGTT
* * * *
53802 TTAGTTCATATAAACTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAAAAATTAATAA
65 TTAGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAA
* * * * *
53867 -TAAAGAGATTTAAAAAATGACATTGTTTACTAAACAAATTTAAATAATTAG
130 GT-AAGAGATTTAAAAAAT-A-ATTGTTTAC-CAACTAGTTCAAATAATTAT
* * * * * * * *
53918 GACTGTTTGAATAATTATCTA-TTCGAAATAGCTGTAACCTTTTGTTTTGTAATAAAAGAAATT-
1 GACTATTTGAACAATTATCTATTTC-AAATCGTTATGACCTTTTG-TTTGTCATAAAA-CAATTG
* * * *
53981 TTTTTGTTCAT-CTAAGCTTATTTC-GAATAAAATAATTCAAATTTATTAATA-TT-AAGACAAT
63 TTTTAGTTCATAC-AAGCTTA-TTCAAAATAAAATAATACTAATTTATTAATATTTCAA-A-AAT
* * ** * * *
54042 TAATAAGTAAAAGATTT-AAAAATAAATCTATTTATTGAACAAGTTCTAATCATTAT
124 TAATAAGTAAGAGATTTAAAAAAT-AAT-TGTTTA-CCAACTAGTTCAAATAATTAT
* * * * ** *
54098 GGCTATTTGAGCAATTATTTATTTCAGCAT-GTTATGATTTTTTGTTTTGTCATAAAACAATTAT
1 GACTATTTGAACAATTATCTATTTCA-AATCGTTATGACCTTTTG-TTTGTCATAAAACAATTGT
* * * * ** *
54162 TTCTA-TTCATGCAAG-TTCATTCAAATTAAAATAATATTAATTAATTAATATTTTGACAATTAA
64 TT-TAGTTCATACAAGCTT-ATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAA
* * * * * *
54225 TAAGTAAAAGATCTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCAT
127 TAAGTAAGAGATTTAAAAAAT-AAT-TGTTTACC-AACTAGTTCAAATAATTAT
* * * * * * *
54279 TAATATTTCAATAATTATCTATTTCAAATCATTATGACCTTTTCTTT-TCTAATAAAACACTTGT
1 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTGTC--ATAAAACAATTGT
* * * * * ** * *
54343 CTCAATTTATATAAGCTTATTTGAAGTAAGATAATACTAATTTATTAATATTTCAAAAATTAAT
64 TTTAGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAAT
54407 GAATGAAAGA
Statistics
Matches: 1211, Mismatches: 275, Indels: 137
0.75 0.17 0.08
Matches are distributed among these distances:
174 6 0.00
175 22 0.02
176 259 0.21
177 196 0.16
178 103 0.09
179 24 0.02
180 197 0.16
181 390 0.32
182 14 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (177 bp):
GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTGTCATAAAACAATTGTTT
TAGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
TAAGAGATTTAAAAAATAATTGTTTACCAACTAGTTCAAATAATTAT
Found at i:54470 original size:136 final size:136
Alignment explanation
Indices: 54294--54542 Score: 304
Period size: 136 Copynumber: 1.8 Consensus size: 136
54284 TTTCAATAAT
* * * * * *
54294 TATCTATTTCAAATCATTATGACCTTTTCTTTTCTAATAAAACACTTGTCTCAATTTATATAAGC
1 TATCTATTTCAAAACATTATGACATTTTCTTTTCTAATAAAACAATTGGCTCAATTCATACAAGC
*
54359 TTA-TTTGAAGTAAGATAATACT-AATTTATTAATATTTCAAAAATTAATGAATGAAAGAATTAA
66 TTATTTTGAA-TAAAATAAT-CTAAATTTATTAATATTTCAAAAATTAATGAATGAAAGAATTAA
54422 AAAAAGAA
129 AAAAAGAA
* * * * * *** *
54430 TATCTATTTCAAAACATTATGAGATTTTGTTTTGTCATAAAGCAATTGGCTTTGTTCATGCAAGC
1 TATCTATTTCAAAACATTATGACATTTTCTTTTCTAATAAAACAATTGGCTCAATTCATACAAGC
* *
54495 TTATTTTGAATAAAATAATTTAAATTTATTAATATTTTAAAAATTAAT
66 TTATTTTGAATAAAATAATCTAAATTTATTAATATTTCAAAAATTAAT
54543 AAGTAAAATT
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
135 1 0.01
136 86 0.92
137 6 0.06
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (136 bp):
TATCTATTTCAAAACATTATGACATTTTCTTTTCTAATAAAACAATTGGCTCAATTCATACAAGC
TTATTTTGAATAAAATAATCTAAATTTATTAATATTTCAAAAATTAATGAATGAAAGAATTAAAA
AAAGAA
Found at i:55128 original size:19 final size:19
Alignment explanation
Indices: 55104--55142 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
55094 TAAGAATCAT
*
55104 TAATTAATAAT-TGTATTAA
1 TAATTAACAATAT-TATTAA
55123 TAATTAACAATATTATTAA
1 TAATTAACAATATTATTAA
55142 T
1 T
55143 GGCTATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATTAACAATATTATTAA
Found at i:55472 original size:21 final size:20
Alignment explanation
Indices: 55442--55495 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 20
55432 TTATTATTTA
55442 ATAA-AGATTAAAATATTAATT
1 ATAATAGATTAAAATA--AATT
*
55463 ATAAT-TATT-AAATAAATT
1 ATAATAGATTAAAATAAATT
55481 ATAATAGATTAAAAT
1 ATAATAGATTAAAAT
55496 TAGTATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 9 0.32
19 3 0.11
20 9 0.32
21 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
ATAATAGATTAAAATAAATT
Found at i:55628 original size:14 final size:14
Alignment explanation
Indices: 55597--55637 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
55587 AATACTTTAT
*
55597 TAATAAT-TAAGT-
1 TAATAATATAATTA
*
55609 TAATAATATATTTA
1 TAATAATATAATTA
55623 TAATAATATAATTA
1 TAATAATATAATTA
55637 T
1 T
55638 TTAGTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 7 0.29
13 3 0.12
14 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
TAATAATATAATTA
Found at i:55697 original size:23 final size:23
Alignment explanation
Indices: 55626--55705 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
55616 ATATTTATAA
* *
55626 TAATATAATTATTTAGTTTTATATG
1 TAAT-TAATTATTTATTTTTA-ATT
* * *
55651 TAATTAATTAATGATTATCT-ATT
1 TAATTAATTATTTATT-TTTAATT
*
55674 TACTTAATTATTTATTTTTAATT
1 TAATTAATTATTTATTTTTAATT
*
55697 TAAATAATT
1 TAATTAATT
55706 CTAATAGTTT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
22 2 0.05
23 25 0.60
24 9 0.21
25 6 0.14
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (23 bp):
TAATTAATTATTTATTTTTAATT
Found at i:55871 original size:16 final size:16
Alignment explanation
Indices: 55808--55875 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
55798 ATTATTAAAA
* *
55808 TTAAATAAAATAATAT
1 TTAAATAAATTATTAT
*
55824 TTAAAATAAATAATT-T
1 TT-AAATAAATTATTAT
*
55840 ATTAATCATGAATTATTAT
1 -TTAA--ATAAATTATTAT
55859 TTAAATAAATTATTAT
1 TTAAATAAATTATTAT
55875 T
1 T
55876 ATCTTTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 17 0.41
17 11 0.27
18 12 0.29
19 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (16 bp):
TTAAATAAATTATTAT
Found at i:55911 original size:22 final size:24
Alignment explanation
Indices: 55886--55929 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
55876 ATCTTTATTT
55886 AATTATTAAT-T-TATTAAATATA
1 AATTATTAATGTATATTAAATATA
* *
55908 AATTGTTATTGTATATTAAATA
1 AATTATTAATGTATATTAAATA
55930 ATATTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 1 0.06
24 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (24 bp):
AATTATTAATGTATATTAAATATA
Found at i:55949 original size:11 final size:11
Alignment explanation
Indices: 55920--55955 Score: 58
Period size: 10 Copynumber: 3.5 Consensus size: 11
55910 TTGTTATTGT
55920 ATATTA-AATA
1 ATATTATAATA
55930 ATATT-TAATA
1 ATATTATAATA
55940 ATATTATAATA
1 ATATTATAATA
55951 ATATT
1 ATATT
55956 GAATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTATAATA
Found at i:57374 original size:181 final size:176
Alignment explanation
Indices: 56751--57542 Score: 542
Period size: 181 Copynumber: 4.5 Consensus size: 176
56741 CCTTGTAATT
* * * * * *
56751 CAAAAACAAGTGTTTTGTGACAAAATAAAAGGTCATAATGATTTAAAATAGATAATTGTTCAAAT
1 CAAAAATAATTGTTTTATGACAAAATAAAAGGTTATAATGATTTGAAATATATAATTGTTCAAAT
* * * *
56816 AGTCATAACTATTTGCAA-T-GGTCAGGCCAATAGATTCATTTTTTAAAT-TCGTTACTTATTAA
66 AGTCATAACTATTTG-AACTAGTTCA-GCAAATAAATTTATTTTTTAAATCTC-TTA-TTATTAA
* ** *
56878 TTGTTAGAATATTAATTAATTAGCGTTACTTTATTTCGATTAAGAC-TATATCAA
127 TT-TTAAAATATT-ATTAATTAGTATTA-TTT-TTTCGAATAAG-CTTATATCAA
* * * ** * * *
56932 TAGAAATAATTGTTTTATGACAAAATAAAGGGTTATAACAATATGAAATAAATAAATGTT-AAAT
1 CAAAAATAATTGTTTTATGACAAAATAAAAGGTTATAATGATTTGAAATATATAATTGTTCAAAT
* * * ** * * *
56996 TGTTATAACTAATTGAACTAGTTTGGTAAACAAATTTATTTTTTAAATCTCTTATTA--ATTTTT
66 AGTCATAACTATTTGAACTAGTTCAGCAAATAAATTTATTTTTTAAATCTCTTATTATTAATTTT
* * * * * ** *
57059 AAAATATTAATAAATTAATATTATTTATTCTAAACAAAATTATATTAA
131 AAAATATT-ATTAATTAGTATTATTTTTTC-GAATAAGCTTATATCAA
* * * ** * * *
57107 CAAAAACATTTATTTTATGACAAAATAAAAGAATATAACGATTTGAAAT-TGATAATTATTCATA
1 CAAAAATAATTGTTTTATGACAAAATAAAAGGTTATAATGATTTGAAATAT-ATAATTGTTCAAA
* * * *
57171 TAGCCTTAACTATTTGAACTAGTTCAACAAATAAATTTATTTTTCAAATCTCTTAATTATTAATT
65 TAGTCATAACTATTTGAACTAGTTCAGCAAATAAATTTATTTTTTAAATCTCTT-ATTATTAATT
* *
57236 TTCATAATATTATTAGATTAGTATTATTTTCTTTCGAATAAGCTTATATGAA
129 TT-AAAATATTATTA-ATTAGTATTA-TTT-TTTCGAATAAGCTTATATCAA
* * * * *
57288 CATAAATAATTGTTTTATGACAAAACAAAAGGTTATAATGACTTGAAACATATAATTGTTTAAAT
1 CAAAAATAATTGTTTTATGACAAAATAAAAGGTTATAATGATTTGAAATATATAATTGTTCAAAT
* * * *
57353 AGTCATAATTATTTGAACTAGTTCAGTAAA-CAA---A-----T-AATCTCCTACTTATTAATTT
66 AGTCATAACTATTTGAACTAGTTCAGCAAATAAATTTATTTTTTAAATCTCTTA-TTATTAA-TT
* * * * * * * *
57408 TTGAAATATTAATAAACTAGTATTATTTTATTCTAATTAGTCTTGTATGAT
129 TTAAAATATT-ATTAATTAGTATTATTTT-TTCGAATAAG-CTTATATCAA
* * * * * *
57459 GAAAAACAATTGTTTTATGACAAAA-AAAAAGTTCAAAATGATTTGAAATAGATAATTGTTTAAA
1 CAAAAATAATTGTTTTATGACAAAATAAAAGGTT-ATAATGATTTGAAATATATAATTGTTCAAA
* * *
57523 TGGCCATAACTATTTAAACT
65 TAGTCATAACTATTTGAACT
57543 GATTTGATAA
Statistics
Matches: 477, Mismatches: 113, Indels: 52
0.74 0.18 0.08
Matches are distributed among these distances:
169 1 0.00
170 19 0.04
171 101 0.21
172 7 0.01
174 3 0.01
175 59 0.12
176 65 0.14
177 8 0.02
179 13 0.03
180 56 0.12
181 141 0.30
182 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (176 bp):
CAAAAATAATTGTTTTATGACAAAATAAAAGGTTATAATGATTTGAAATATATAATTGTTCAAAT
AGTCATAACTATTTGAACTAGTTCAGCAAATAAATTTATTTTTTAAATCTCTTATTATTAATTTT
AAAATATTATTAATTAGTATTATTTTTTCGAATAAGCTTATATCAA
Found at i:58602 original size:359 final size:357
Alignment explanation
Indices: 57727--58968 Score: 1002
Period size: 359 Copynumber: 3.5 Consensus size: 357
57717 TTTTAATTCC
** * * **
57727 TTACTTATTAATTTTCTGAATGTTAATAAA-ATAGTATTATTTTATTTCGAATAAGGATGTATGA
1 TTACTTATTAATTTT-AAAATATTAATAAATTTA-TATTATTTTATTT-GAATAAGCTTGTATGA
* * * ** * * *
57791 ACT-G-AACAATTATTTTATGACTAAACAAAAGGTCAAAATGATTTGAAATAGATAATTATTATA
63 A-TAGAAACAATT-TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTCA-A
* * * * * * * *
57854 ATAATCTTAACTATTTGAAC-TAGTTCA-ACAAGTACATTTATTTTTTAAATCTCTTACTTATTA
125 ATAGTCATAACTATTTGAACTTATTTGATA-AA-CAGATTTATTTTTTAAATATCTTAC-CATTA
* * ** * * * ** ** * *
57917 ATTTTT-AGAATATTATTAGTTTAGCAATATTTTACTCCGAATAAGTTTGTATGGATAGAAACAA
187 ATTTTTGA-AATAGTAATAAATTAGTATTATTTTATTTTGAATAAGCCTATATGAATAGAAACAA
* * * * * * * *
57981 TTATTTTATGACAAAAC-AAAGATCATACCGATTTGAGATAGATAATTATTCAAATAGTCATAAC
251 TTGTTTAATGACGAAACAAAAGGTCATAACGAATTGAAATAAATAATTATTCAAATAGTCATAAC
* * ** * * * *
58045 TAATTGAA-TTGGTCTGATAAACAGATATAGTTTTT-AAATC--
316 TATTTGAACGTATTCT-AAAAAAAAATTTA-TTTTTAAAATCTT
* * **
58085 -T-CTTATTAATTTTTAAAATATTAATAAA-CTAGTATTATTTTATTTTCAATAATTTTGTATGA
1 TTACTTATTAA-TTTTAAAATATTAATAAATTTA-TATTATTTTA-TTTGAATAAGCTTGTATGA
* * * *
58147 ATAGAAACAATTGTTTTTATTACAAAAC-AAAGGATTATAACGATTTGAAATAAATAATTATTTA
63 ATAGAAACAA-T-TTTTTATGACAAAACAAAAGG-TTATAACAATTTGAAATAAATAATT-GTCA
* * * * *
58211 AATAGTCATAATTATTTGAACTCACTTGATAAACAAATTTATTTTTTAAATATTTTA-CATTAAT
124 AATAGTCATAACTATTTGAACTTATTTGATAAACAGATTTATTTTTTAAATATCTTACCATTAAT
** * *
58275 TTTTGAAATTTTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAATAGAAACAATTG
189 TTTTGAAATAGTAATAAATTAGTATTATTTTATTTTGAATAAGCCTATATGAATAGAAACAATT-
* * *
58340 GTTT-ATGAC-AAAGCAAAAGGTCATAAC-AATTTGAAATAAATAATTGTTCAAATGGTCATAAT
253 GTTTAATGACGAAA-CAAAAGGTCATAACGAA-TTGAAATAAATAATTATTCAAATAGTCATAAC
* *
58402 TATTTTGAACGTGTTC-AAAAAAAAATTTA-TTTTATATAT-TT
316 TA-TTTGAACGTATTCTAAAAAAAAATTTATTTTTA-AAATCTT
** *
58443 TTACTTATTAATCTTTGGAATATTAGTAAATTTATATTATTTTATTTGAAATAAGCTTGTATGAA
1 TTACTTATTAAT-TTTAAAATATTAATAAATTTATATTATTTTATTTG-AATAAGCTTGTATGAA
* * * * *
58508 TAGAAACAATTATTTTAGGGCAAAACAAAAGGTCATAACAATTTGAAATAGAGAATTGTCGAAAT
64 TAGAAACAATT-TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTC-AAAT
* * *
58573 AGTCATAACTATTTGAACTTATTTGATAAATAGATTCATTTTTTAAATCTCTTACTCATTAATTT
127 AGTCATAACTATTTGAACTTATTTGATAAACAGATTTATTTTTTAAATATCTTAC-CATTAATTT
* * * * *
58638 TTGGAATAGTAATAAGTTAGTATTATTTTATTTTGAATAAGCCTATATGAATTGATATAATTGTT
191 TTGAAATAGTAATAAATTAGTATTATTTTATTTTGAATAAGCCTATATGAATAGAAACAATTGTT
* * * * * *
58703 TAATGGCGAAACAAAAGGTCATAACGAATTGAAATAGATAATTATTTAGATAGTTATTACTATTT
256 TAATGACGAAACAAAAGGTCATAACGAATTGAAATAAATAATTATTCAAATAGTCATAACTATTT
* * * *
58768 GAACTTATTCTATAAACATATTTATTTTTAAAATCTT
321 GAACGTATTCTAAAAAAAAATTTATTTTTAAAATCTT
* ** **
58805 TTACTTATTAATTGTTAAAAT-TTAATAAATTAATATTATTTTAATCCGAATAAGCTAATATGAA
1 TTACTTATTAATT-TTAAAATATTAATAAATTTATATTATTTT-ATTTGAATAAGCTTGTATGAA
* * * * * *
58869 TA-AAATAATTGTTTATGACAAAAGAAAAGGTTTTAACAATTTGAAATAAATAATTGTTCCACTA
64 TAGAAACAATTTTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTG-TCAAATA
** * *
58933 GTCATAACTATTCAAAATTATTTGGTAAACAGATTT
128 GTCATAACTATTTGAACTTATTTGATAAACAGATTT
58969 GAAATAAGAT
Statistics
Matches: 716, Mismatches: 128, Indels: 79
0.78 0.14 0.09
Matches are distributed among these distances:
355 8 0.01
356 109 0.15
357 73 0.10
358 79 0.11
359 173 0.24
360 85 0.12
361 157 0.22
362 32 0.04
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (357 bp):
TTACTTATTAATTTTAAAATATTAATAAATTTATATTATTTTATTTGAATAAGCTTGTATGAATA
GAAACAATTTTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTCAAATAGTC
ATAACTATTTGAACTTATTTGATAAACAGATTTATTTTTTAAATATCTTACCATTAATTTTTGAA
ATAGTAATAAATTAGTATTATTTTATTTTGAATAAGCCTATATGAATAGAAACAATTGTTTAATG
ACGAAACAAAAGGTCATAACGAATTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACG
TATTCTAAAAAAAAATTTATTTTTAAAATCTT
Found at i:58717 original size:181 final size:180
Alignment explanation
Indices: 57699--58968 Score: 1080
Period size: 180 Copynumber: 7.1 Consensus size: 180
57689 TAATTGTTTG
* * * * *
57699 TTTGGTAAACAAATTT-TTTTTTAATTC-CTTACTTATTAATTTTCT-GAATGTTAATAAAATAG
1 TTTGATAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTT-TAGAATATTAATAAATTAG
* ** * *
57761 TATTATTTTATTTCGAATAAGGATGTATGAACT-G-AACAATTATTTTATGACTAAACAAAAGGT
65 TATTATTTTATTTTGAATAAGCTTGTATGAA-TAGAAACAATTGTTTTATGACAAAACAAAAGGT
* ** * * *
57824 CAAAATGATTTGAAATAGATAATTATTATAATAATCTTAACTATTTGAAC-TA
129 CATAACAATTTGAAATAGATAATTATCA-AATAGTCATAACTATTTGAACTTA
* * * * * **
57876 GTTCA-ACAAGTACATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTATTAGTTTA
1 TTTGATA-AA-CAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTAATAAATTA
* * * ** * * * *
57940 GCAATATTTTACTCCGAATAAGTTTGTATGGATAGAAACAATTATTTTATGACAAAAC-AAAGAT
64 GTATTATTTTATTTTGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGT
* * * * *
58004 CATACCGATTTGAGATAGATAATTATTCAAATAGTCATAACTAATTGAA-TTGG
129 CATAACAATTTGAAATAGATAATTA-TCAAATAGTCATAACTATTTGAACTT-A
* * * * *
58057 TCTGATAAACAGATATAGTTTTTAAA--TC-T-CTTATTAATTTTTAAAATATTAATAAACTAGT
1 TTTGATAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTAATAAATTAGT
* ** *
58118 ATTATTTTATTTTCAATAATTTTGTATGAATAGAAACAATTGTTTTTATTACAAAAC-AAAGGAT
66 ATTATTTTATTTTGAATAAGCTTGTATGAATAGAAACAATTG-TTTTATGACAAAACAAAAGG-T
* * * * * *
58182 TATAACGATTTGAAATAAATAATTATTTAAATAGTCATAATTATTTGAACTCA
129 CATAACAATTTGAAATAGATAATTA-TCAAATAGTCATAACTATTTGAACTTA
* * * * *
58235 CTTGATAAACAAATTTATTTTTTAAATATTTTAC--ATTAATTTTT-GAAATTTTAATAAATTAG
1 TTTGATAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAG-AATATTAATAAATTAG
* * *
58297 TATTATTTTATTTTGAATAAGCTTTTATGAATAGAAACAATTGGTTTATGACAAAGCAAAAGGTC
65 TATTATTTTATTTTGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTC
* * * * *
58362 ATAACAATTTGAAATAAATAATTGTTCAAATGGTCATAATTATTTTGAACGT-
130 ATAACAATTTGAAATAGATAATT-ATCAAATAGTCATAACTA-TTTGAACTTA
* * * * * * * * * * *
58414 GTTCAAAAAAAAATTTATTTTATATAT-TTTTACTTATTAATCTTTGGAATATTAGTAAATTTA-
1 TTTGATAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTAATAAA-TTAG
* * *
58477 TATTATTTTA-TTTGAAATAAGCTTGTATGAATAGAAACAATTATTTTAGGGCAAAACAAAAGGT
65 TATTATTTTATTTTG-AATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGT
* *
58541 CATAACAATTTGAAATAGAGAATTGTCGAAATAGTCATAACTATTTGAACTTA
129 CATAACAATTTGAAATAGATAATTATC-AAATAGTCATAACTATTTGAACTTA
* * * * * *
58594 TTTGATAAATAGATTCATTTTTTAAATCTCTTACTCATTAATTTTTGGAATAGTAATAAGTTAGT
1 TTTGATAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTAATAAATTAGT
* * * * * * * *
58659 ATTATTTTATTTTGAATAAGCCTATATGAATTGATATAATTGTTTAATGGCGAAACAAAAGGTCA
66 ATTATTTTATTTTGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCA
* * * *
58724 TAACGAA-TTGAAATAGATAATTATTTAGATAGTTATTACTATTTGAACTTA
131 TAAC-AATTTGAAATAGATAATTA-TCAAATAGTCATAACTATTTGAACTTA
* * * * * *
58775 TTCT-ATAAACATATTTATTTTTAAAATCTTTTACTTATTAATTGTTAAAAT-TTAATAAATTAA
1 TT-TGATAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTAATAAATTAG
* ** ** * * *
58838 TATTATTTTAATCCGAATAAGCTAATATGAATA-AAATAATTG-TTTATGACAAAAGAAAAGGTT
65 TATTATTTTATTTTGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTC
* * * * * ** *
58901 TTAACAATTTGAAATAAATAATTGTTCCACTAGTCATAACTATTCAAAATTA
130 ATAACAATTTGAAATAGATAATT-ATCAAATAGTCATAACTATTTGAACTTA
*
58953 TTTGGTAAACAGATTT
1 TTTGATAAACAGATTT
58969 GAAATAAGAT
Statistics
Matches: 883, Mismatches: 172, Indels: 75
0.78 0.15 0.07
Matches are distributed among these distances:
176 61 0.07
177 25 0.03
178 141 0.16
179 105 0.12
180 351 0.40
181 190 0.22
182 10 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (180 bp):
TTTGATAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTAATAAATTAGT
ATTATTTTATTTTGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCA
TAACAATTTGAAATAGATAATTATCAAATAGTCATAACTATTTGAACTTA
Found at i:59234 original size:16 final size:17
Alignment explanation
Indices: 59213--59245 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59203 TAATGATTTG
59213 AAATAG-ATAATTGTTC
1 AAATAGCATAATTGTTC
59229 AAATAGTCATAATTGTT
1 AAATAG-CATAATTGTT
59246 TGCACTGCTT
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:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTGTTC
Found at i:59294 original size:181 final size:178
Alignment explanation
Indices: 59011--59610 Score: 645
Period size: 181 Copynumber: 3.3 Consensus size: 178
59001 TTATGAGAGT
* * * *
59011 ACAAAAGGTTATAGCAATTT-AAACTAGATAATTGTTCAAATAGCCATAATTATTTGAACTTGTT
1 ACAAAAGGTCATAACGATTTGAAA-TAGATAATTGTTCAAATAGTCATAATTATTTGAAC-TGTT
* * * * *
59075 -CGGTAAACAAATTCATTTTTTAAATCTCTTTCTTATTAATTTTTGGAATATTAATAAATTAGAA
64 AAGGCAAACAGATTCATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGAA
*
59139 TTATGTTA-TTCTGAATAAGCTAGTATGAACAAAAACAATTGTTTTGTGAGAAA
129 TTAT-TTATTTC-GAATAAGCTA-TATGAACAAAAACAATTGTTTTATGA-AAA
* * *
59192 ACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAATTGTTTGCACTGCTTA
1 ACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTG-TTA
* * * ** *
59257 AGCCAAA-AGATACATTTTCTAAATC-CATTACTTATTAATTTTCAAAATATTAATAAATTAGCA
65 AGGCAAACAGATTCATTTTTTAAATCTC-TTACTTATTAATTTTTGAAATATTAATAAATTAGAA
* * * *
59320 TTACTTTATTTCGAATAAGATTATATGAATAGAAACAATTGTTTTATGATAA
129 TTA-TTTATTTCGAATAAG-CTATATGAACAAAAACAATTGTTTTATGAAAA
* * * * ** * * * * *
59372 ACAAATGATCATAACGATTTGAAATAAATATTTGGCCAAATAGTTATAACTAATTGAACTGGTAT
1 ACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTGTTAA
* *
59437 GGCAAACAGATTTATTTTTTAAATCTCTTACGTATTAATTTTTGAAATATTAATAAATTA-ATAT
66 GGCAAACAGATTCATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGA-AT
* * * *
59501 TATTTTATTTCAAACAAACTTATATGAACAAAAACATTTGTTTTATGACAAA
130 TA-TTTATTTCGAATAAGC-TATATGAACAAAAACAATTGTTTTATGA-AAA
* * *
59553 ACAAAAGGTAATAACAATTTGAAATAGATAATTATTCAAATAGTCATAATTATTTGAA
1 ACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAA
59611 ATAGTTTTGT
Statistics
Matches: 341, Mismatches: 66, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
179 7 0.02
180 140 0.41
181 181 0.53
182 13 0.04
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (178 bp):
ACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTGTTAA
GGCAAACAGATTCATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGAATT
ATTTATTTCGAATAAGCTATATGAACAAAAACAATTGTTTTATGAAAA
Found at i:59487 original size:180 final size:181
Alignment explanation
Indices: 59079--59610 Score: 558
Period size: 180 Copynumber: 2.9 Consensus size: 181
59069 CTTGTTCGGT
* * *
59079 AAACAAATTCATTTTTTAAATCTCTTTCTTATTAATTTTTGGAATATTAATAAATTAGAATTATG
1 AAACAGATTCATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTAT-
* * * *
59144 TTA-TTCTGAATAAG-CTAGTATGAACAAAAACAATTGTTTTGTGAGAAAACAAAAGGTCATAAT
65 TTATTTC-GAATAAGATTA-TATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC
* ** * ** * *
59207 GATTTGAAATAGATAATTGTTCAAATAGTCATAATTGTTTGCACTGCTTAAGCC
128 GATTTGAAATAAATAATTGGCCAAATAGTCATAACTAATTGAACTGCGTAAGCC
* * ** *
59261 AAA-AGATACATTTTCTAAATC-CATTACTTATTAATTTTCAAAATATTAATAAATTAGCATTAC
1 AAACAGATTCATTTTTTAAATCTC-TTACTTATTAATTTTTGAAATATTAATAAATTAGAATTA-
* * * * *
59324 TTTATTTCGAATAAGATTATATGAATAGAAACAATTGTTTTATGA-TAAACAAATGATCATAACG
64 TTTATTTCGAATAAGATTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACG
* * * *
59388 ATTTGAAATAAATATTTGGCCAAATAGTTATAACTAATTGAACTG-GTATGGC
129 ATTTGAAATAAATAATTGGCCAAATAGTCATAACTAATTGAACTGCGTAAGCC
* *
59440 AAACAGATTTATTTTTTAAATCTCTTACGTATTAATTTTTGAAATATTAATAAATTA-ATATTAT
1 AAACAGATTCATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGA-ATTA-
* * * *
59504 TTTATTTCAAACAA-ACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTAATAAC
64 TTTATTTCGAATAAGA-TTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC
* * *** * *
59568 AATTTGAAATAGATAATTATTCAAATAGTCATAATTATTTGAA
128 GATTTGAAATAAATAATTGGCCAAATAGTCATAACTAATTGAA
59611 ATAGTTTTGT
Statistics
Matches: 287, Mismatches: 54, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
179 8 0.03
180 139 0.48
181 131 0.46
182 9 0.03
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.38
Consensus pattern (181 bp):
AAACAGATTCATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATT
TATTTCGAATAAGATTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGAT
TTGAAATAAATAATTGGCCAAATAGTCATAACTAATTGAACTGCGTAAGCC
Found at i:59595 original size:16 final size:17
Alignment explanation
Indices: 59574--59606 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59564 TAACAATTTG
59574 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
59590 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
59607 TGAAATAGTT
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:59614 original size:19 final size:18
Alignment explanation
Indices: 59569--59615 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
59559 GGTAATAACA
59569 ATTTGAAATAG-ATAATT
1 ATTTGAAATAGTATAATT
*
59586 A-TTCAAATAGTCATAATT
1 ATTTGAAATAGT-ATAATT
59604 ATTTGAAATAGT
1 ATTTGAAATAGT
59616 TTTGTAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.32
17 1 0.04
18 7 0.28
19 9 0.36
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTTGAAATAGTATAATT
Found at i:59892 original size:181 final size:180
Alignment explanation
Indices: 59632--62373 Score: 1683
Period size: 181 Copynumber: 15.2 Consensus size: 180
59622 AACAGAATTG
* * * * *
59632 TTATGACTTTTTGTTTTGTAATAAAACAATTGTTTCT-GTTTATACAAGCTTATTTGAATTAAAA
1 TTATGAC-ATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTTGAAATAAAA
* * * * * *
59696 TAATATTAATTTATTAATATTTTGACAATTAACATGTGAAAGATTTAAAAAATAAATATGTTTAC
65 TAATACTAATTTATTAATATTCTAAAAATTAATAAGT-AAAGATTTAAAAAATAAATATGTTTAC
* * * *
59761 CAAACAAGTTCAAATAGTCAAGACTATTTGAATAATTATCTATTTCAAATAA
129 CGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * * * * *
59813 TTATGACCTTCTATTTTGTAATAAAATAATTGTTT-TAGTTAACATAAGCTTGTTTGAAATAAAA
1 TTATGACATT-TGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTTGAAATAAAA
* * * * * * **
59877 TAGCT-CTAATTTATTAATATACCAAAATTTAATGAA-TAAGAGAATTAAAAAAATGAATCCGTT
65 TA-ATACTAATTTATTAATATTCTAAAAATTAAT-AAGTAA-AG-ATTTAAAAAATAAATATGTT
* * * *
59940 TACCGAACAAGTTTAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAACA
126 TACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * **
59995 TTATGACCATTTGTTTTGTCATAAAATAATTAGTTT-T-GTCCATGCAAGCTTATTTCG-AATAA
1 TTATGA-CATTTGTTTTGTCATAAAACAATT-GTTTCTAGTTCACACAAGCTTATTT-GAAATAA
* * * * *
60057 AATAATA-TAAATTTATTAAAACTCCAAAAATTAATAAATAAAAATTTAAAAAATAAATATGTTT
63 AATAATACT-AATTTATTAATATTCTAAAAATTAATAAGTAAAGATTTAAAAAATAAATATGTTT
*** * *
60121 TTTGAACACA-TTC-AATAGTTATGACTATTTGAATAATTATCTATTTCAAACCG
127 ACCGAACA-AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * *
60174 TTATGACAATTTGTTTTGTCATAAACCAATTATTTCTA-TTCATACAAGCTTATTCGAAATAAAA
1 TTATGAC-ATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTTGAAATAAAA
* * * *
60238 TAATATTAATTTATTAATATTTCT-AAAATTAATAAATAAAAGATTTAAATAATAAATTTGTTTA
65 TAATACTAATTTATTAATA-TTCTAAAAATTAATAAGT-AAAGATTTAAAAAATAAATATGTTTA
* * * *
60302 -CTAAGCAAGTTCAAATAGTTATTACTATTTGAACT-ATTATATATTTCAAATCT
128 CCGAA-CAAGTTCAAATAGTTATGACTATTTGAA-TAATTATCTATTTCAAATCA
** * *
60355 TTATGATGTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCACACAAGTTTATTTGGAATAAAA
1 TTATGA-CATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTTGAAATAAAA
* * * * *
60419 TAATACTAACTTATTATTATTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATTTGTTTAT
65 TAATACTAATTTATTAATATTCTAAAAATTAATAAG-TAAAGATTTAAAAAATAAATATGTTTAC
* * * * * * * *
60484 CGAATAAGTTTAAATAGTCATGTCCATTTGAACT-GTTATTTATTTCAAATCG
129 CGAACAAGTTCAAATAGTTATGACTATTTGAA-TAATTATCTATTTCAAATCA
* * * * ** *
60536 TTATGACATTTTGTTTTATTATAAAATAATTGTTTCTA-TTCATACAAAATTA-TTCAGAATAAA
1 TTATGACA-TTTGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTTGA-AATAAA
* * * * *
60599 ATAATGCCAATTTATTACTATT-TCAAAAATTAATAAG----GATTT-AAAAATAAATGTGTTTT
64 ATAATACTAATTTATTAATATTCT-AAAAATTAATAAGTAAAGATTTAAAAAATAAATATGTTTA
* * * * *
60658 TCGAAGCAA-TTCAAATAGTTAAGACTA-TTGAACAATTATCTATTCCAAATTA
128 CCGAA-CAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * * * * * * ** * *
60710 TTTTGATCTTTTGTTTAGTCAAAAAATAATTGTTTC-ATTTCATACATGCTTATTCAAAATATAG
1 TTATGA-CATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTTGAAATAAAA
* * * *
60774 TAATACTAATTTATTAAAATT-TATAAAATTAATAAG--AA-ATTT-AAAAA-GAATCTATTTAC
65 TAATACTAATTTATTAATATTCTA-AAAATTAATAAGTAAAGATTTAAAAAATAAATATGTTTAC
* * * * *
60833 CGAATAAGTTCAAATAGTTATGACTATTTAAATAATTATTTATTTAAAATCG
129 CGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * * * * * * *
60885 TTATGACCTTTTATTTTATCATAAAACAACTGTTTC-AATACATAAAAG-TT-TTTCCAAAATAA
1 TTATGA-CATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTT--GAAATAA
* ** * ** * * *
60947 AATAATATTGCTTTATTAATATT-TCAAAAATTAAGAAGTTGGAGTTTTAAAAAACAAACCA-GT
63 AATAATACTAATTTATTAATATTCT-AAAAATTAATAAG-TAAAGATTTAAAAAATAAA-TATGT
* * ** * * * *
61010 TTATCAAATTA-TTCAAATAATTATGGCGATTTGAATAATTATCTATTTCAAATCG
125 TTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * * * *
61065 TTATAAACTTTTGTTTTGTCATAAAACAATTGTTTTTCA--TCATACAAGCCTATTTGGAATAAA
1 TTAT-GACATTTGTTTTGTCATAAAACAATTGTTTCT-AGTTCACACAAGCTTATTTGAAATAAA
* * * * *
61128 ATAATAGTAATTTACTAATATT-TCAAAAATTAAT-A--AAAGATTTAAAAAGTTAATCTGTTTA
64 ATAATACTAATTTATTAATATTCT-AAAAATTAATAAGTAAAGATTTAAAAAATAAATATGTTTA
* * * * * **
61189 CTGAACCAGTTTAAATAGTTATGACTATTTGAACAATTATATATTTCAAATTG
128 CCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * * * * **
61242 TTATAACCTTTTGTTATCTCATAAAACAATTATTTCTA-TTCACACAAGTTTATTCAAAATAAAA
1 TTATGA-CATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTTGAAATAAAA
* * * * *
61306 TAATACTAATATAATAATATTCTAAAAATTAATAACTAAGAGATTTAATAAATAAATTTGTTTAC
65 TAATACTAATTTATTAATATTCTAAAAATTAATAAGTAA-AGATTTAAAAAATAAATATGTTTAC
* * * * * * * * *
61371 TGAACTAGTTCAAATATTTAAGGCTATATGAACAATTCTTTATTTCAAATCA
129 CGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * * ** * *
61423 TTATGACATTTTGTTTTGTCGTAAAACAATTTTTTTTTCATTTCTTAGTAA-CTTA-TTCAGAAT
1 TTATGACA-TTTGTTTTGTCATAAAACAA-TTGTTTCT-AGTTCACA-CAAGCTTATTTGA-AAT
* * * * *
61486 AAAGTAAAACAAATTTATTAATATT-TCAAAACTTAATAAGCAAGAGATTTAAAAAA-ACAAT-T
61 AAAATAATACTAATTTATTAATATTCT-AAAAATTAATAAGTAA-AGATTTAAAAAATA-AATAT
* * * * **
61548 CAGTTTACCTAACCAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATTG
123 --GTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * ** * * * * * * *
61608 TTATGTTCTTTTATTTTGTCATAAAACAAAGGTTT-TTGTACATATAAGTTTGTTCGAAATAAAA
1 TTATG-ACATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTTGAAATAAAA
* * * * * *
61672 TGATATTAATTTATTAATATTTTAAAAATTAAGAAGTAAGAAATTTAAAAAGTAAA-ATTGTTTA
65 TAATACTAATTTATTAATATTCTAAAAATTAATAAGTAA-AGATTTAAAAAATAAATA-TGTTTA
** * * *
61736 CTAAACTAA-TTCAATTAGTT-TAACTATTTGAATAATTATTTATTTCAAATCA
128 CCGAAC-AAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * * * * * * *
61788 TTATGACCATTTGTATTGTCATAAAATAATTATTTTTA-TTCATACAATCTTATTCGGAATAAAG
1 TTATGA-CATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTTGAAATAAAA
* * ** * * * **
61852 TAATACTAAGTTATCAATATT-TTGAAATTAATAAATAATAGATTTAAAAAATGAATCA-ATTGG
65 TAATACTAATTTATTAATATTCTAAAAATTAATAAGTAA-AGATTTAAAAAATAAAT-ATGTTTA
* * * * *
61915 CCTG-ACTAGTGCATATAGTTATGACTGTTTGAATAATTATCTATTTTAAATCA
128 CC-GAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * * * *
61968 TTATGACTTTTCATTTTATCACAAAACAATTGTTTCATCACAAAACAATTGTTTCTATTTGTACT
1 TTATGACATTT-GTTTTGTCATAAAACAATTGTTTC-T---------A--G-TTC-A----CACA
* * * *
62033 AGATTATTTGAAATAATATAATTCTATTTTATTAATATTCTAAAAATTAATAAG---AGATTTAA
47 AGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATAAGTAAAGATTTAA
* * * * * * *
62095 AAAATGAATCTGTTTATCGAACAAGTACAAATAATTATGATTATTTGAATAATTATCTATTTCTA
112 AAAATAAATATGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAA
*
62160 ATCG
177 ATCA
* * ** * * * * *
62164 CTATAATGTTTTGTTTTGTCCTAAAACAAAAT-TTTCTA-TTCATACTAGCTTATTTCAAATAAA
1 TTATGA-CATTTGTTTTGTCATAAAAC-AATTGTTTCTAGTTCACACAAGCTTATTTGAAATAAA
* * * * * * * *
62227 ATTATACAAATTTATTAATATT-TGACAACTAATAAGTAAAAGATTTAACAAATAAATCTATTTA
64 ATAATACTAATTTATTAATATTCTAAAAATTAATAAGT-AAAGATTTAAAAAATAAATATGTTTA
* * * * * * **
62291 TCGAATAAGTTTAAATAATTATGA-TATTTGAACAATTATTTATTTCAAATTG
128 CCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * *
62343 TTATGACTTTTTGTTTTCTCATGACACAATT
1 TTATGAC-ATTTGTTTTGTCATAAAACAATT
62374 TAATATTTAT
Statistics
Matches: 2004, Mismatches: 437, Indels: 243
0.75 0.16 0.09
Matches are distributed among these distances:
173 6 0.00
174 122 0.06
175 135 0.07
176 42 0.02
177 150 0.07
178 12 0.01
179 207 0.10
180 365 0.18
181 464 0.23
182 209 0.10
183 21 0.01
184 61 0.03
185 72 0.04
186 2 0.00
190 1 0.00
194 3 0.00
195 3 0.00
196 79 0.04
197 7 0.00
199 32 0.02
200 11 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (180 bp):
TTATGACATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCACACAAGCTTATTTGAAATAAAAT
AATACTAATTTATTAATATTCTAAAAATTAATAAGTAAAGATTTAAAAAATAAATATGTTTACCG
AACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
Found at i:61769 original size:723 final size:703
Alignment explanation
Indices: 60134--61908 Score: 1813
Period size: 723 Copynumber: 2.5 Consensus size: 703
60124 GAACACATTC
* * *
60134 AATAGTTATGACTATTTGAATAATTATCTATTTCAAACCGTTATGACAATTTGTTTTGTCATAAA
1 AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGAC-TTTTATTTTGTCATAAA
* * * * * *
60199 CCAATTATTTCTATTCATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCT-A
65 ACAAATGTTTCTATACATAAAAG-TTTTTCGAAATAAAATAATATTAATTTATTAATATTT-TAA
* * * * *
60263 AAATTAATAAATAA-AAGATTTAAATAATAAATTTGTTTACTAAGC-AAGTTCAAATAGTTATTA
128 AAATTAAGAAGTAAGAA-ATTTAAA-AATAAAATTGTTTACTAAACTAA-TTCAAATAGTTATAA
* **
60326 CTATTTGAACT-ATTATATATTTCAAATCTTTATGATGTTTTGTTTTGTCATAAAACAATTGTTT
190 CTATTTGAA-TAATTATATATTTCAAATCATTATGAACTTTTGTTTTGTCATAAAACAATTGTTT
* * * *
60390 CTATTCACACAAGTTTATTTGGAATAAAATAATACTAACTTATTAT-TATTCTAAAAATTAATAA
254 TTATTCATACAAGCTTATTTGGAATAAAATAATACTAACTTATAATAT-TTC-AAAAATTAATAA
* * * **
60454 GTTAGAGATTTAAAAAATAAATTTGTTTATCGAATAAGTTTAAATAGTCATGTCCATTTGAACTG
317 ---A-AGATTTAAAAAATAAATCTGTTTATCGAACAAGTTTAAATAGTCATGACCATTTGAACAA
* * * * * * *
60519 TTATTTATTTCAAATCGTTATGACATTTTGTTTTATTATAAAATAATTGTTTCTATTCATACAAA
378 TTATATATTTCAAATCGTTATAACATTTTGTTATATCATAAAACAATTATTTCTATTCACACAAA
* * * * *
60584 ATTATTCAGAATAAAATAATGCCAATTTATTACTATTTCAAAAATTAATAAGGATTTAAAAATAA
443 ATTATTCAAAATAAAATAATACCAATATAATAATATTTCAAAAATTAATAAGGATTTAAAAATAA
* * *
60649 ATGTGTTTTTCGAAGCAATTCAAATAGTTAAGACTATTGAACAATTATCTATTCCAAATTATTTT
508 ATGTGTTTCTCGAAGCAATTCAAATAGTTAAGACTATTGAACAATTATCTATTCCAAATCATTAT
* * *
60714 GATCTTTTGTTTAGTCAAAAAATAATTGTTTCATTTCATACATGCTTATTCAAAATATAGTAATA
573 GATCTTTTGTTTAGTCAAAAAATAATTGTTTCATTTCATACATACTTATTCAAAATAAAGTAAAA
* * *
60779 CTAATTTATTAAAATTTATAAAATTAATAAGAAATTTAAAAAGAATCTATTTACCGAATAAGTTC
638 CAAATTTATTAAAATTTATAAAATTAATAAGAAATTTAAAAACAATCTATTTACCGAACAAGTTC
60844 A
703 A
* * * *
60845 AATAGTTATGACTATTTAAATAATTATTTATTTAAAATCGTTATGACCTTTTATTTTATCATAAA
1 AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGA-CTTTTATTTTGTCATAAA
* * * ** *
60910 ACAACTGTTTCAATACATAAAAGTTTTTCCAAAATAAAATAATATTGCTTTATTAATATTTCAAA
65 ACAAATGTTTCTATACATAAAAGTTTTT-CGAAATAAAATAATATTAATTTATTAATATTTTAAA
** ** ** * * **
60975 AATTAAGAAGTTGGAGTTTTAAAAA-ACAAACCAGTTTA-TCAAA-TTATTCAAATAATTATGGC
129 AATTAAGAAGTAAGAAATTTAAAAATA-AAA-TTGTTTACT-AAACTAATTCAAATAGTTATAAC
* * * *
61037 GATTTGAATAATTATCTATTTCAAATCGTTATAAACTTTTGTTTTGTCATAAAACAATTGTTTTT
191 TATTTGAATAATTATATATTTCAAATCATTATGAACTTTTGTTTTGTCATAAAACAATTGTTTTT
* * *
61102 CA-TCATACAAGCCTATTTGGAATAAAATAATAGTAATTTACTAATATTTCAAAAATTAATAAAA
256 -ATTCATACAAGCTTATTTGGAATAAAATAATACTAACTTA-TAATATTTCAAAAATTAATAAAA
* * * * *
61166 GATTTAAAAAGTTAATCTGTTTA-CTGAACCAGTTTAAATAGTTATGACTATTTGAACAATTATA
319 GATTTAAAAAATAAATCTGTTTATC-GAACAAGTTTAAATAGTCATGACCATTTGAACAATTATA
* * * **
61230 TATTTCAAATTGTTATAACCTTTTGTTATCTCATAAAACAATTATTTCTATTCACACAAGTTTAT
383 TATTTCAAATCGTTATAACATTTTGTTATATCATAAAACAATTATTTCTATTCACACAAAATTAT
*
61295 TCAAAATAAAATAATACTAATATAATAATA-TTCTAAAAATTAATAACTAAGAGATTTAATAAAT
448 TCAAAATAAAATAATACCAATATAATAATATTTC-AAAAA-T--TAA-TAAG-GATTTAA-AAAT
* * * * * * *
61359 AAATTTGTTTACT-GAA-CTAGTTCAAATATTTAAGGCTATATGAACAATTCTTTATTTCAAATC
506 AAATGTGTTT-CTCGAAGC-AATTCAAATAGTTAAGACTAT-TGAACAATTATCTATTCCAAATC
* ** * * * *
61422 ATTATGA-CATTTTGTTTTGTCGTAAAACAATTTTTTTTTCATTTCTTA-GTAACTTATTCAGAA
568 ATTATGATC-TTTTGTTTAGTC--AAAA-AATAATTGTTTCATTTCATACAT-ACTTATTCAAAA
* *
61485 TAAAGTAAAACAAATTTATTAATATTTCA-AAACTTAATAAGCAAGAGATTTAAAAAAACAAT-T
628 TAAAGTAAAACAAATTTATTAAAATTT-ATAAAATTAATAAG--A-A-ATTT--AAAAACAATCT
* *
61548 CAGTTTACCTAACCAGTTCA
686 -A-TTTACCGAACAAGTTCA
* * * *
61568 AATAATTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGTTCTTTTATTTTGTCATAAA
1 AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATG-ACTTTTATTTTGTCATAAA
* * * * *
61633 ACAAAGGTTTTTGTACATATAAGTTTGTTCGAAATAAAATGATATTAATTTATTAATATTTTAAA
65 ACAAATGTTTCTATACATAAAAGTTT-TTCGAAATAAAATAATATTAATTTATTAATATTTTAAA
*
61698 AATTAAGAAGTAAGAAATTTAAAAAGTAAAATTGTTTACTAAACTAATTCAATTAGTT-TAACTA
129 AATTAAGAAGTAAGAAATTTAAAAA-TAAAATTGTTTACTAAACTAATTCAAATAGTTATAACTA
* * * * * *
61762 TTTGAATAATTATTTATTTCAAATCATTATGACCATTTGTATTGTCATAAAATAATTATTTTTAT
193 TTTGAATAATTATATATTTCAAATCATTATGAACTTTTGTTTTGTCATAAAACAATTGTTTTTAT
* * * * * * *
61827 TCATACAATCTTATTCGGAATAAAGTAATACTAAGTTATCAATATTTTGAAATTAATAAATAATA
258 TCATACAAGCTTATTTGGAATAAAATAATACTAACTTAT-AATA-TTTCAAA--AATTAATAAAA
*
61892 GATTTAAAAAATGAATC
319 GATTTAAAAAATAAATC
61909 AATTGGCCTG
Statistics
Matches: 866, Mismatches: 150, Indels: 81
0.79 0.14 0.07
Matches are distributed among these distances:
705 4 0.00
706 135 0.16
707 2 0.00
709 5 0.01
710 127 0.15
711 142 0.16
712 38 0.04
713 37 0.04
715 5 0.01
716 60 0.07
717 1 0.00
718 1 0.00
719 1 0.00
720 4 0.00
721 1 0.00
722 11 0.01
723 244 0.28
724 23 0.03
725 1 0.00
726 24 0.03
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (703 bp):
AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGACTTTTATTTTGTCATAAAA
CAAATGTTTCTATACATAAAAGTTTTTCGAAATAAAATAATATTAATTTATTAATATTTTAAAAA
TTAAGAAGTAAGAAATTTAAAAATAAAATTGTTTACTAAACTAATTCAAATAGTTATAACTATTT
GAATAATTATATATTTCAAATCATTATGAACTTTTGTTTTGTCATAAAACAATTGTTTTTATTCA
TACAAGCTTATTTGGAATAAAATAATACTAACTTATAATATTTCAAAAATTAATAAAAGATTTAA
AAAATAAATCTGTTTATCGAACAAGTTTAAATAGTCATGACCATTTGAACAATTATATATTTCAA
ATCGTTATAACATTTTGTTATATCATAAAACAATTATTTCTATTCACACAAAATTATTCAAAATA
AAATAATACCAATATAATAATATTTCAAAAATTAATAAGGATTTAAAAATAAATGTGTTTCTCGA
AGCAATTCAAATAGTTAAGACTATTGAACAATTATCTATTCCAAATCATTATGATCTTTTGTTTA
GTCAAAAAATAATTGTTTCATTTCATACATACTTATTCAAAATAAAGTAAAACAAATTTATTAAA
ATTTATAAAATTAATAAGAAATTTAAAAACAATCTATTTACCGAACAAGTTCA
Found at i:62005 original size:24 final size:23
Alignment explanation
Indices: 61976--62027 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 23
61966 CATTATGACT
61976 TTTCATTTTATCACAAAACAATTG
1 TTTCA-TTTATCACAAAACAATTG
62000 TTTC----ATCACAAAACAATTG
1 TTTCATTTATCACAAAACAATTG
62019 TTTCTATTT
1 TTTC-ATTT
62028 GTACTAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
19 19 0.83
24 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (23 bp):
TTTCATTTATCACAAAACAATTG
Found at i:62009 original size:19 final size:19
Alignment explanation
Indices: 61985--62022 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
61975 TTTTCATTTT
61985 ATCACAAAACAATTGTTTC
1 ATCACAAAACAATTGTTTC
62004 ATCACAAAACAATTGTTTC
1 ATCACAAAACAATTGTTTC
62023 TATTTGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (19 bp):
ATCACAAAACAATTGTTTC
Found at i:62810 original size:17 final size:18
Alignment explanation
Indices: 62779--62820 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
62769 CACAAATATT
*
62779 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
62797 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
62814 AACTATT
1 AATTATT
62821 TGTTATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:63320 original size:26 final size:26
Alignment explanation
Indices: 63291--63357 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
63281 AATACTTATA
63291 ATTTATTATTAATTA-TCTAAATATTG
1 ATTT-TTATTAATTATTCTAAATATTG
* * * *
63317 ATTTTAATTTAAATATTTTAATTATTG
1 ATTTTTA-TTAATTATTCTAAATATTG
63344 ATTTTTATTAATTA
1 ATTTTTATTAATTA
63358 ATAGATATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 2 0.06
26 16 0.48
27 15 0.45
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (26 bp):
ATTTTTATTAATTATTCTAAATATTG
Found at i:63322 original size:27 final size:29
Alignment explanation
Indices: 63292--63359 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 29
63282 ATACTTATAA
63292 TTTATTATTAATTA-TCTAAATATTGA-T
1 TTTATTATTAATTATTCTAAATATTGATT
* * * *
63319 TTTAAT-TTAAATATTTTAATTATTGATT
1 TTTATTATTAATTATTCTAAATATTGATT
63347 TTTATTAATTAAT
1 TTTATT-ATTAAT
63360 AGATATCTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 6 0.19
27 15 0.48
28 6 0.19
30 4 0.13
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTATTATTAATTATTCTAAATATTGATT
Found at i:63810 original size:181 final size:181
Alignment explanation
Indices: 63392--64505 Score: 903
Period size: 181 Copynumber: 6.1 Consensus size: 181
63382 TTTAGATCTA
* * * * ** * * * * * *
63392 TTATTAATTTTTAAAATATTAATAGAGTAGTATTAATTTATTCCGAACAAACATATATGGA--CA
1 TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAATTGA
* * * * * *
63455 AAAACATTTGTTTTATGACAAAATAAAAGGTCATAATTATTTGAAATAAATAATTGTTCAAATAA
66 AAAA-A-TTGTTTTATGACAAAACAAAAGATCATAATGATTTAAAATAGATAATTGTTCAAATAG
* * * *
63520 TCATAATTATTTGAACTGGTT-AGGTAAGTAGAA-TTATTTGTTAAA--TC-T-C
129 TCATAACTATTTGAACTAGTTCA-GTAAATA-AATTTATTTTTTAAATCTCTTGC
* * **
63569 TTATTAATTTTTGAAATATTAATAAATTTA-TTTTATTTTATTCTGAATAAGCAAGTATGAATTG
1 TTATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTTTGAATAAGCTTGTATGAATTG
* * *
63633 AAAAAATTATTTTATGACAAAACAAAAGATCATAATGATTTAAAATAGATAATTATTCATATAGT
65 AAAAAATTGTTTTATGACAAAACAAAAGATCATAATGATTTAAAATAGATAATTGTTCAAATAGT
* * **
63698 CTTAACTATTTAAACTAGTTCAACAAATAAATTTATTTTTTAAATCTCTTAG-
130 CATAACTATTTGAACTAGTTCAGTAAATAAATTTATTTTTTAAATCTCTT-GC
* * * * *
63750 TTATTAATTTTT-AGAGTATTATTAGATCAGTATTATTTTATTTTGAATAAGCTTGTATGAACAT
1 TTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAA-TT
* * * * * * *
63814 G-AATAATTGTTTTATGACAGAACAAAAAATGTTTATTTTTTAAATAACTAATTTAAACTATACA
64 GAAAAAATTGTTTTATGACA-AA-ACAAAA-G---A-----T-CATAA-TGATTTAAAATAGATA
* * * *
63878 TTTGTTCAAATAGTCATAACTATTT-AAATGGGTTC-GATAAATAAATTTATTTTTTAAATTTCT
116 ATTGTTCAAATAGTCATAACTATTTGAACT-AGTTCAG-TAAATAAATTTATTTTTTAAATCTCT
63941 TGC
179 TGC
* **
63944 TTATTAACTTTTTGAAAGATTAATAAATTAGTATTATTTTATTTTG---AAGCTTGTATG-ATAA
1 TTATTAA-TTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAATTG
* * * * * * * *
64005 AAAACAATTGTTATATGACCAAACAAAAGGTAATATTGATTTCAAATAGATAATTGTTGAAAGAG
65 AAAA-AATTGTTTTATGACAAAACAAAAGATCATAATGATTTAAAATAGATAATTGTTCAAATAG
* * * * * * *
64070 CCATAATTATTTGAACTAATTCGGTAAATGGAA-TCATTTTTTAAA--TC--AC
129 TCATAACTATTTGAACTAGTTCAGTAAAT-AAATTTATTTTTTAAATCTCTTGC
* *
64119 TTATTAATTTTTGAAATATTAATAAA-TACTATTATTTTATTTTGAATAAGCTTGTATGAACT-A
1 TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAATTGA
* * * *
64182 AAACAATTGTTTTATGAGAAAACAAAATATCATAATGATTTTAAATAGATAATTGTTTAAATAGT
66 AAA-AATTGTTTTATGACAAAACAAAAGATCATAATGATTTAAAATAGATAATTGTTCAAATAGT
* * * * *
64247 CATAACTATTTGAATTTGTTTAGTAAACAAATTAATTTTTTTAAA-CTCTTGC
130 CATAACTATTTGAACTAGTTCAGTAAATAAATTTA-TTTTTTAAATCTCTTGC
* * *
64299 TTATTAATTTTTGAAATATTAAGAAATTAGTATTATTTTATTTTGGATAAGCTTTTATGAATTGA
1 TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAATTGA
* * * * * * * *
64364 GACAATTGTTTTTTGTCAAAACAAAATATCATAACGATTTTAAATAAATAATTGTTCAAATAGTC
66 AAAAATTGTTTTATGACAAAACAAAAGATCATAATGATTTAAAATAGATAATTGTTCAAATAGTC
* * * * * * *
64429 ATAACTATTTGAACTTGATCAGTAAACAGATTTATTTTTTCATATCTTTTGT
131 ATAACTATTTGAACTAGTTCAGTAAATAAATTTATTTTTT-AAATCTCTTGC
* *
64481 TTATTAATTTTTTAAATGTTAATAA
1 TTATTAATTTTTGAAATATTAATAA
64506 TTATAAATTT
Statistics
Matches: 754, Mismatches: 134, Indels: 93
0.77 0.14 0.09
Matches are distributed among these distances:
173 17 0.02
174 18 0.02
175 10 0.01
176 91 0.12
177 140 0.19
178 6 0.01
179 57 0.08
180 46 0.06
181 184 0.24
182 33 0.04
183 5 0.01
184 1 0.00
187 1 0.00
189 1 0.00
190 5 0.01
191 5 0.01
192 25 0.03
193 8 0.01
194 69 0.09
195 31 0.04
196 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (181 bp):
TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAATTGA
AAAAATTGTTTTATGACAAAACAAAAGATCATAATGATTTAAAATAGATAATTGTTCAAATAGTC
ATAACTATTTGAACTAGTTCAGTAAATAAATTTATTTTTTAAATCTCTTGC
Found at i:64550 original size:28 final size:29
Alignment explanation
Indices: 64490--64574 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 29
64480 TTTATTAATT
* *
64490 TTTTAAATGTTAATAATTATAAAT-TTTAAA
1 TTTTAAATATTTA-AATTATAAATATTT-AA
64520 TTTTAAATATTTAAATTA-AAATATTTAA
1 TTTTAAATATTTAAATTATAAATATTTAA
* * *
64548 TTTTTATTATTT-AATTATCAATATTTA
1 TTTTAAATATTTAAATTATAAATATTTA
64575 TTAATAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
27 5 0.10
28 24 0.50
29 8 0.17
30 11 0.23
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (29 bp):
TTTTAAATATTTAAATTATAAATATTTAA
Found at i:64572 original size:14 final size:14
Alignment explanation
Indices: 64503--64584 Score: 71
Period size: 14 Copynumber: 5.9 Consensus size: 14
64493 TAAATGTTAA
64503 TAATTATAAAT-TT
1 TAATTATAAATATT
*
64516 TAAATTTTAAATATT
1 T-AATTATAAATATT
64531 TAAATTA-AAATATT
1 T-AATTATAAATATT
* * *
64545 TAATTTTTATTATT
1 TAATTATAAATATT
*
64559 TAATTATCAATATT
1 TAATTATAAATATT
64573 T-ATTAATAAATA
1 TAATT-ATAAATA
64585 AGCTATGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 8 0.14
14 40 0.71
15 8 0.14
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTATAAATATT
Found at i:65125 original size:181 final size:182
Alignment explanation
Indices: 64821--65419 Score: 551
Period size: 182 Copynumber: 3.3 Consensus size: 182
64811 AGCTACGACT
* * ** * * * *
64821 ATTTGAATAATTGTCTATTTAAAATTGTTAAAACATTTTGTTTTGTCATAAAGCAATTGTTTTAG
1 ATTTGAACAATTATCTATTTAAAATTGTTATGACCTTTTGTTTTATCATAAAACAATTCTTTTAG
** * *
64886 TTCATACAAGCTTATTCAAAATAAAATAAAACTAATTTATTAATATTCCAAAAATTAATAACTAA
66 TTCATACAAAATTATTCAAAATAAAATAAAACTAATTTATTAACATTCCAAAAATTAATAAATAA
* * ** * *
64951 GTGATTT-AAAAAGTTCATTTGTTTA-TCAAATAAGTTCAAATAGTCAT-ATCC
131 GAGATTTGAAAAAATAAATCTGTTTACT-AAACAAGTTCAAATAGTCATGAT-C
* * * *
65002 ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTTTTCATAAAACAATTCTTTTT
1 ATTTGAACAATTATCTATTTAAAATTGTTATGACCTTTTG-TTTTATCATAAAACAATTCTTTTA
* * * *
65067 GTTCATGCAAAATTATTCAAAATAAAA-AATACTGATTTATTAACATTCTAAAAATTAATAAATA
65 GTTCATACAAAATTATTCAAAATAAAATAAAACTAATTTATTAACATTCCAAAAATTAATAAATA
* *
65131 AGAGATTTGAAAAAATAAATCTGTTTACTAAACAAGTTCAAATAGTTATGATT
130 AGAGATTTGAAAAAATAAATCTGTTTACTAAACAAGTTCAAATAGTCATGATC
* * *
65184 ATTTGAACAATTATCTATTTAAAATTGTTATGAACTTTTGTTTTATCATAAAACAATTGTTTCA-
1 ATTTGAACAATTATCTATTTAAAATTGTTATGACCTTTTGTTTTATCATAAAACAATTCTTTTAG
* * * * * * *
65248 CT-ATA-AAAGCTTATGCAAAATAAAATAATACTACTTTATTAATATTTCAAAAA-T--T-AATA
66 TTCATACAAA-ATTATTCAAAATAAAATAAAACTAATTTATTAACATTCCAAAAATTAATAAATA
* *** * ** * * * *
65307 AGAGATAT-AAAAAATAAATCAACTTACCAAATTAGATCAAATAATTATG-GC
130 AGAGATTTGAAAAAATAAATCTGTTTACTAAACAAGTTCAAATAGTCATGATC
* * * ** * * *
65358 -CTTGAATAATTATCTATTTCAAATCATTATTACCTTTCGTTTTATCATAAAACAATTGTTTT
1 ATTTGAACAATTATCTATTTAAAATTGTTATGACCTTTTGTTTTATCATAAAACAATTCTTTT
65420 CCAACATACA
Statistics
Matches: 349, Mismatches: 63, Indels: 20
0.81 0.15 0.05
Matches are distributed among these distances:
173 53 0.15
175 33 0.09
176 11 0.03
177 1 0.00
178 3 0.01
179 17 0.05
180 23 0.07
181 92 0.26
182 113 0.32
183 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (182 bp):
ATTTGAACAATTATCTATTTAAAATTGTTATGACCTTTTGTTTTATCATAAAACAATTCTTTTAG
TTCATACAAAATTATTCAAAATAAAATAAAACTAATTTATTAACATTCCAAAAATTAATAAATAA
GAGATTTGAAAAAATAAATCTGTTTACTAAACAAGTTCAAATAGTCATGATC
Found at i:65444 original size:173 final size:176
Alignment explanation
Indices: 65004--65446 Score: 436
Period size: 173 Copynumber: 2.5 Consensus size: 176
64994 TCATATCCAT
* * *
65004 TTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTTTTCATAAAACAATTCTTTTTGT
1 TTGAACAATTATCTATTTCAAATCGTTATGACCTTTTG-TTTTATCATAAAACAATT-GTTTT-C
* * **
65069 TCATGCAAAATTATTCAAAATAAAA-AATACTGATTTATTAACATTCTAAAAATTAATAAATAAG
63 ACATACAAGCTTATT--AAATAAAATAATACTGATTTATTAACATTCTAAAAATT-ATAAATAAG
* *** * * * * *
65133 AGATTTGAAAAAATAAATCTGTTTACTAAACAAGTTCAAATAGTTATGATTAT
125 AGATATGAAAAAATAAATCAACTTACCAAACAAGATCAAATAATTATGA-GAC
* * *
65186 TTGAACAATTATCTATTTAAAATTGTTATGAACTTTTGTTTTATCATAAAACAATTG-TTTCACT
1 TTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTTCAC-
* * *
65250 ATAAAAGCTTATGCAAAATAAAATAATACT-ACTTTATTAATATT-TCAAAAA-T-T-AATAAGA
65 ATACAAGCTTAT--TAAATAAAATAATACTGA-TTTATTAACATTCT-AAAAATTATAAATAAGA
** *
65310 GATAT-AAAAAATAAATCAACTTACCAAATTAGATCAAATAATTATG-GCC
126 GATATGAAAAAATAAATCAACTTACCAAACAAGATCAAATAATTATGAGAC
* * * *
65359 TTGAATAATTATCTATTTCAAATCATTATTACCTTTCGTTTTATCATAAAACAATTGTTTTCCAA
1 TTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTT-C-A
65424 CATACAAGCTTATTAAATAAAAT
64 CATACAAGCTTATTAAATAAAAT
65447 TGTTATTACC
Statistics
Matches: 218, Mismatches: 34, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
173 59 0.27
174 3 0.01
175 45 0.21
176 13 0.06
177 1 0.00
178 1 0.00
179 22 0.10
180 22 0.10
181 17 0.08
182 35 0.16
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (176 bp):
TTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTTCACA
TACAAGCTTATTAAATAAAATAATACTGATTTATTAACATTCTAAAAATTATAAATAAGAGATAT
GAAAAAATAAATCAACTTACCAAACAAGATCAAATAATTATGAGAC
Found at i:65490 original size:65 final size:67
Alignment explanation
Indices: 65384--65513 Score: 214
Period size: 65 Copynumber: 2.0 Consensus size: 67
65374 TTTCAAATCA
65384 TTATTACCTTTCGTTTTATCATAAAACAATTGTTTTCCAACATACAAGCTTA-TT-AAATAAAAT
1 TTATTACCTTTCGTTTTATCATAAAACAATTGTTTTCCAACATACAAGCTTATTTGAAATAAAAT
65447 TG
66 TG
65449 TTATTACCTTTC-TTTCTATCATAAAACAATTGCTTTT-CAACATACAAGCTTATTTGAAATAAA
1 TTATTACCTTTCGTTT-TATCATAAAACAATTG-TTTTCCAACATACAAGCTTATTTGAAATAAA
65512 AT
64 AT
65514 AAAACTAATT
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
64 3 0.05
65 43 0.70
66 6 0.10
67 9 0.15
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (67 bp):
TTATTACCTTTCGTTTTATCATAAAACAATTGTTTTCCAACATACAAGCTTATTTGAAATAAAAT
TG
Found at i:67457 original size:155 final size:155
Alignment explanation
Indices: 67138--67458 Score: 371
Period size: 155 Copynumber: 2.1 Consensus size: 155
67128 TAAGTAAAAG
** * * * * * * *
67138 ATTTAAAAAATAAATATATTTACTAAATAAGTTCAAATAGTCTGACTATTTGAATAATTATCTAT
1 ATTTAAAAAACGAATTTGTTTACTAAAAAAGTTCAAATAGTATGACTATCTAAACAATTATCTAT
* * ** *
67203 TTCAAATCATTATGACCTTTTGTTTTGTAATAAAACAATTGTTTCAGTTAATATAAATTATTAAA
66 TTCAAAACATTATGACCTTTTGTTTTGTAAGAAAACAATTGGATCAGTTAAGATAAATTATTAAA
67268 AATAAAATAATACTAATTTATTAAT
131 AATAAAATAATACTAATTTATTAAT
67293 ATTTAAAAAACGAATTTGTTTACTAAAAAAGTTCAAATAGTTATGAC-ATCTAAACAATTATCTA
1 ATTTAAAAAACGAATTTGTTTACTAAAAAAGTTCAAATAG-TATGACTATCTAAACAATTATCTA
* * * *
67357 TTTCAAAACATTATGACTTTTTGTTTTGTTAGAAAACAATTGGATCTA-TTCAGGA-AAGCTTAT
65 TTTCAAAACATTATGACCTTTTGTTTTGTAAGAAAACAATTGGATC-AGTT-AAGATAA-ATTAT
***
67420 TTTGAATAAAATAATA-TAAATTTATTAAT
127 TAAAAATAAAATAATACT-AATTTATTAAT
*
67449 ATTCAAAAAA
1 ATTTAAAAAA
67459 TTAATAAATA
Statistics
Matches: 139, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
155 94 0.68
156 45 0.32
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (155 bp):
ATTTAAAAAACGAATTTGTTTACTAAAAAAGTTCAAATAGTATGACTATCTAAACAATTATCTAT
TTCAAAACATTATGACCTTTTGTTTTGTAAGAAAACAATTGGATCAGTTAAGATAAATTATTAAA
AATAAAATAATACTAATTTATTAAT
Found at i:67525 original size:18 final size:18
Alignment explanation
Indices: 67504--67559 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
67494 TCTAAACATG
67504 TTTAAATAGTTATGACTA
1 TTTAAATAGTTATGACTA
* *
67522 TTTAAACAATTAT--CTA
1 TTTAAATAGTTATGACTA
*
67538 TTTCAAATTGTTATGACTA
1 TTT-AAATAGTTATGACTA
67557 TTT
1 TTT
67560 GTTTTGTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 11 0.37
19 6 0.20
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (18 bp):
TTTAAATAGTTATGACTA
Found at i:67554 original size:181 final size:175
Alignment explanation
Indices: 67322--68753 Score: 813
Period size: 181 Copynumber: 7.9 Consensus size: 175
67312 TTACTAAAAA
* * *
67322 AGTTCAAATAGTTATGAC-ATCTAAACAATTATCTATTTCAAAACATTATGACTTTTTGTTTTGT
1 AGTTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGT
* ** * * * *
67386 TAGAAAACAATTGGATCTATTCAGGAAAGCTTATTTTGAATAAAATAATATAAATTTATTAATAT
66 TATAAAACAATTGTTTCTATTCA-TAAAGCTTATTTAGAATAAAATAATATTAATTTATTAAAAT
* * *
67451 TCAAAAAATTAATAAATAATAATTTAAACAATAAATTTATTTTTCTAAAC
130 TC-AAAAATTAATAAGTAA-AATTTAAA-AATAAATCTATTTTAC-AAAC
** *
67501 ATGTTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATTGTTATGACTATTTGTTTTG
1 A-GTTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTG
* * * *
67566 TAATAAATCAATTGTTTCTGTTCATACAAGCTTATTTAGAACAAAATAATATTAATTTATTAAAA
65 TTATAAAACAATTGTTTCTATTCATA-AAGCTTATTTAGAATAAAATAATATTAATTTATTAAAA
* * *
67631 TTTCAAACATTAATAAGTAAAAGATT-AAAA-AAATCT-GTTTACCAAAC
129 -TTCAAAAATTAATAAGTAAAA-TTTAAAAATAAATCTATTTTA-CAAAC
* * * * * *
67678 GAGTTTAAATAGTTATGGCTATTTGAACAAATATTTATTTCAAATCATTATGA-TCTTTTCTTTG
1 -AGTTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACT-TTTTGTTTT
* * * * * * *
67742 GTCATAAAATAGTTGTTTCTATTCATAAAGTTTA-TTCGAAATAAAATAATATTAATATATTAAC
64 GTTATAAAACAATTGTTTCTATTCATAAAGCTTATTTAG-AATAAAATAATATTAATTTATTAAA
* *
67806 ATTCTAAAAATTAATAAGTTGGAGATTTAAAAAATAAATCTA-TTTAGCAAAC
128 ATTC-AAAAATTAATAAG-T-AAAATTT-AAAAATAAATCTATTTTA-CAAAC
* ** * * * * ** *
67858 AAGTTCAAATAGCCATGTCCATTTGAACTATTATCTATTTCAAATTGTTATGACATTTTGTTTTG
1 -AGTTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTG
* * ** * *
67923 TTGTAAAATACTACCATTGATTTAGAATAATTGGTATTCATACAAAATTATTCAAAATAAAATAA
65 -T-TATAA-A--A-CA---A-TT-G--T--TT-CTATTCATA-AAGCTTATTTAGAATAAAATAA
* * * * * * *
67988 TACTAATTTATTACTATTTCAAAAATTAATAAG---GATTTAAAAATAAATGTGTTTGT-CGAAT
113 TATTAATTTATTA-AAATTCAAAAATTAATAAGTAAAATTTAAAAATAAATCTATTT-TAC-AAA
68049 C
175 C
* * * * * *
68050 AGTTTAAATAGTTAAGACTA-TTAGAACAATTATCTGTTTCAACTCATTCTGACGTTTTGTTTAG
1 AGTTTAAATAGTTATGACTATTTA-AACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTG
* * * * ** * *
68114 TCATAAAATAATTGTTTC-A-GCATATATGCCAATTT-GAAATATAATAATACTAATTTATTAAT
65 TTATAAAACAATTGTTTCTATTCATA-AAGCTTATTTAG-AATAAAATAATATTAATTTATTAA-
* * * * * *
68176 ATTTAAAAAATTAATAGGCTAAAAATTAAAAAACATAAAT-TAGTTTACTGAAC
127 AATTCAAAAATTAATAAG-T-AAAATT-TAAAA-ATAAATCTATTTTAC-AAAC
* * * * * *
68229 AAGTTAAAATTGTTATGACTATTTGAACAATTATATATTTAAAATCATTATGACCTTTTTATTTT
1 -AGTTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGA-CTTTTTGTTTT
* * * * * *
68294 ATCATAAAACAATTGTTT-TAGTGCATAAAAGCTTATGTAAAATAAAATAATATT-ACTTATTAA
64 GTTATAAAACAATTGTTTCTA-TTCAT-AAAGCTTATTTAGAATAAAATAATATTAATTTATTAA
* * * *** *
68357 TATTTCAAAAATTGATATGTTAAAGATTTTAAAAA-AAAAAAAATTTATCAAATC
127 -AATTCAAAAATTAATAAG-TAAA-A-TTTAAAAATAAATCTATTTTA-CAAA-C
* * * * *
68411 AGTTCAAATAATTAT-AGCCATTTAAATAATTATCTATTTCAAATTATTATGAGC-TTTTGTTTT
1 AGTTTAAATAGTTATGA-CTATTTAAACAATTATCTATTTCAAATCATTATGA-CTTTTTGTTTT
* * * * * ** * * * *
68474 GTCATAAACCAATTGTTTTTTTATCATACAAGCCTATTCGGATTAAAATAAAACTAATTTACTAA
64 GTTATAAAACAATTGTTTCTAT-TCATA-AAGCTTATTTAGAATAAAATAATATTAATTTATTAA
* * * *
68539 TATTTTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATCT-GTTTACCAAACC
127 -AATTCAAAAATTAATAAG-TA-AAATTT-AAAAATAAATCTATTTTA-CAAA-C
* * * * * * * *
68593 AGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATTATTATAACCTTTTGTTATAT
1 AGTTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGT
* * * * * * * *
68658 CATAAAACAATTATTTCTATTCATACAAGTTTATTAAAAATAAAATAATACT-ATTGTAATAATA
66 TATAAAACAATTGTTTCTATTCATA-AAGCTTATTTAGAATAAAATAATATTAATT-TATTAAAA
*
68722 TTCTAAAAATTAATAACTAAGAGATTTAAAAA
129 TTC-AAAAATTAATAAGTAA-A-ATTTAAAAA
68754 ATTAAATAAA
Statistics
Matches: 967, Mismatches: 209, Indels: 153
0.73 0.16 0.12
Matches are distributed among these distances:
173 46 0.05
174 1 0.00
175 6 0.01
176 44 0.05
177 83 0.09
178 14 0.01
179 18 0.02
180 175 0.18
181 263 0.27
182 149 0.15
183 30 0.03
184 1 0.00
185 2 0.00
186 2 0.00
188 1 0.00
189 3 0.00
190 5 0.01
191 59 0.06
192 10 0.01
193 2 0.00
195 2 0.00
196 8 0.01
197 39 0.04
198 4 0.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (175 bp):
AGTTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGT
TATAAAACAATTGTTTCTATTCATAAAGCTTATTTAGAATAAAATAATATTAATTTATTAAAATT
CAAAAATTAATAAGTAAAATTTAAAAATAAATCTATTTTACAAAC
Found at i:68798 original size:11 final size:10
Alignment explanation
Indices: 68753--68802 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
68743 AGATTTAAAA
68753 AATTAAATA-
1 AATTAAATAT
68762 AATTAGAATAT
1 AATTA-AATAT
* *
68773 ATTTAATTAT
1 AATTAAATAT
68783 AATTAAATATT
1 AATTAAATA-T
68794 AATTAAATA
1 AATTAAATA
68803 AACTAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 5 0.15
10 15 0.44
11 14 0.41
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
AATTAAATAT
Found at i:68975 original size:21 final size:22
Alignment explanation
Indices: 68931--68981 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
68921 GATTTTTACT
*
68931 TAATTATTATTATATATTTGTA
1 TAATTATTATTATATAATTGTA
68953 TAATTA-TATTATATTAATT-TA
1 TAATTATTATTATA-TAATTGTA
68974 TAA-TATTA
1 TAATTATTA
68982 ATTAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.08
21 14 0.54
22 10 0.38
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATTATTATTATATAATTGTA
Found at i:68981 original size:13 final size:14
Alignment explanation
Indices: 68953--68985 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
68943 TATATTTGTA
*
68953 TAATTATATTATAT
1 TAATTATATAATAT
68967 TAATT-TATAATAT
1 TAATTATATAATAT
68980 TAATTA
1 TAATTA
68986 AAAATTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATTATATAATAT
Found at i:69105 original size:18 final size:18
Alignment explanation
Indices: 69074--69142 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
69064 ATAATCTTTA
**
69074 TAATAATTCTTATAATAT
1 TAATAATTAATATAATAT
69092 TAATAATTAATATAAT-T
1 TAATAATTAATATAATAT
* *
69109 TATTCAATTAAACAATAATAT
1 TAAT-AATT-AA-TATAATAT
*
69130 TAATAATTTATAT
1 TAATAATTAATAT
69143 TATTATTGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
17 4 0.10
18 20 0.50
19 3 0.08
20 9 0.22
21 4 0.10
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATTAATATAATAT
Found at i:73168 original size:23 final size:24
Alignment explanation
Indices: 73130--73178 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
73120 AAAAAAGATG
73130 ATGAAAAAAAAAAG-AATGAAAAA
1 ATGAAAAAAAAAAGAAATGAAAAA
**
73153 ATGAAAAAAATGAGAAAATGAAAAA
1 ATGAAAAAAAAAAG-AAATGAAAAA
73178 A
1 A
73179 AGAGAAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
25 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (24 bp):
ATGAAAAAAAAAAGAAATGAAAAA
Found at i:73177 original size:17 final size:17
Alignment explanation
Indices: 73097--73186 Score: 77
Period size: 17 Copynumber: 5.5 Consensus size: 17
73087 TCAACAATGG
73097 ATGA-AAAATGAGAAAAA
1 ATGAGAAAATGA-AAAAA
*
73114 A-GA-AAAA--AAAAAG
1 ATGAGAAAATGAAAAAA
*
73127 ATGATGAAAA-AAAAAAGA
1 ATGA-GAAAATGAAAAA-A
*
73145 ATGAAAAAATGAAAAAA
1 ATGAGAAAATGAAAAAA
73162 ATGAGAAAATGAAAAAA
1 ATGAGAAAATGAAAAAA
73179 A-GAGAAAA
1 ATGAGAAAA
73187 CCTGAAAGGG
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
13 5 0.08
14 3 0.05
16 17 0.27
17 28 0.45
18 9 0.15
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (17 bp):
ATGAGAAAATGAAAAAA
Found at i:74672 original size:41 final size:42
Alignment explanation
Indices: 74421--74716 Score: 390
Period size: 41 Copynumber: 7.1 Consensus size: 42
74411 ATGATTGTCA
74421 AGGAGCAATTTAC-TTTCCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCC-AAAGTCGTGGTGCCTCTGTTTAG
74463 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
74504 AGGAGCAGTTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
74545 AGGAGCAATTTA-TTTTCCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
74586 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * * * *
74627 AGGAGCAATTTATTTTTCCAAAGT-ATTGAGCCTCTGATTAA
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * * **
74668 AGGAGCCATTTA-TGTTTCTCAAAGTCATTGAGCCTCTGCCTAG
1 AGGAGCAATTTACT-TTTC-CAAAGTCGTGGTGCCTCTGTTTAG
74711 AGGAGC
1 AGGAGC
74717 TTTGATCAAA
Statistics
Matches: 233, Mismatches: 14, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
40 5 0.02
41 175 0.75
42 30 0.13
43 23 0.10
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:75030 original size:29 final size:33
Alignment explanation
Indices: 74991--75058 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 33
74981 TTATGTATTA
* * *
74991 ATATATGTATATCTTTATTTT-TTT-TCT-GTT
1 ATATATCTATATATGTATTTTATTTATCTAGTT
75021 A-ATATCTATATATGTATTTTATTTATCTAGTT
1 ATATATCTATATATGTATTTTATTTATCTAGTT
75053 ATATAT
1 ATATAT
75059 TTATTACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 16 0.52
30 4 0.13
31 3 0.10
32 4 0.13
33 4 0.13
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (33 bp):
ATATATCTATATATGTATTTTATTTATCTAGTT
Found at i:75096 original size:22 final size:22
Alignment explanation
Indices: 75070--75133 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
75060 TATTACTATA
*
75070 ATTTATTTGTTATTTTTTCTTT
1 ATTTATTTGTTATTTTTTATTT
75092 ATTTATCTTGTAGTATTTTTTATTT
1 ATTTAT-TTGT--TATTTTTTATTT
*
75117 ATCTTA-TTATTATTTTT
1 AT-TTATTTGTTATTTTT
75134 AATTATCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 13 0.36
23 4 0.11
24 3 0.08
25 13 0.36
26 3 0.08
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (22 bp):
ATTTATTTGTTATTTTTTATTT
Found at i:75132 original size:21 final size:19
Alignment explanation
Indices: 75089--75156 Score: 73
Period size: 21 Copynumber: 3.4 Consensus size: 19
75079 TTATTTTTTC
*
75089 TTTATTTATCTTGTAGTATTT
1 TTTATTTATCTTTTA-TA-TT
75110 TTTATTTATCTTATTATTATT
1 TTTATTTATCTT-TTA-TATT
* *
75131 TTTAATTATCTGTTATATT
1 TTTATTTATCTTTTATATT
75150 TTTATTT
1 TTTATTT
75157 TTTTCTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 10 0.24
20 3 0.07
21 24 0.59
22 4 0.10
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTATTTATCTTTTATATT
Found at i:76070 original size:34 final size:32
Alignment explanation
Indices: 76032--76124 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 32
76022 TTATTTAACA
76032 TTCTTTTTATCTTTATTTTATTTTTGTTTCACTT
1 TTCTTTTT-TCTTTATTTTATTTTT-TTTCACTT
* *
76066 TTCTTTATTTTTTTATTTTTATTTATTTTCACTT
1 TTCTTT-TTTCTTTA-TTTTATTTTTTTTCACTT
* * *
76100 TTATTTTGTTTCATTATTCTATTTT
1 TT-CTTT-TTTCTTTATTTTATTTT
76125 CTTTAAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
34 28 0.58
35 20 0.42
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (32 bp):
TTCTTTTTTCTTTATTTTATTTTTTTTCACTT
Found at i:76100 original size:29 final size:30
Alignment explanation
Indices: 76047--76106 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
76037 TTTATCTTTA
*
76047 TTTTATTTTTGTTTCACTTTTC-TTTATTT
1 TTTTATTTTTATTTCACTTTTCTTTTATTT
76076 TTTTATTTTTATTT-A-TTTTCACTTTTATTT
1 TTTTATTTTTATTTCACTTTT--CTTTTATTT
76106 T
1 T
76107 GTTTCATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.15
28 1 0.04
29 14 0.52
30 8 0.30
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (30 bp):
TTTTATTTTTATTTCACTTTTCTTTTATTT
Found at i:76267 original size:117 final size:118
Alignment explanation
Indices: 76141--76356 Score: 382
Period size: 117 Copynumber: 1.8 Consensus size: 118
76131 ATAAAAATAA
76141 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
* *
76205 GAGTTTTT-GAGGAACAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
66 AAGTTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
*
76258 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
76323 AAGTTTTTAGGGAAAAGTTGAAAGTATCAATTTT
66 AAGTTTTTAGGGAAAAGTTGAAAGTATCAATTTT
76357 TCTCGAAATT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
117 57 0.61
118 36 0.38
119 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (118 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
AAGTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
Found at i:76287 original size:59 final size:58
Alignment explanation
Indices: 76141--76356 Score: 328
Period size: 59 Copynumber: 3.7 Consensus size: 58
76131 ATAAAAATAA
76141 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
76199 AAAAAAGA-GTTTTTGAGGAACAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
1 AAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
*
76258 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
76316 AAAAAAAAAGTTTTT-AGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATA-TTTTTGA-GGAAAAGTTGAAAGTATCAATTTT
76357 TCTCGAAATT
Statistics
Matches: 142, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
58 61 0.43
59 81 0.57
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:76374 original size:31 final size:31
Alignment explanation
Indices: 76336--76403 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
76326 TTTTTAGGGA
*
76336 AAAGTTGAAAGTATCAATTTTTCTCGAAATT
1 AAAGTTGAAAGTATCAATTTTCCTCGAAATT
*
76367 AAAGTTGAAAGTATCAATTTTCCTCGGAATT
1 AAAGTTGAAAGTATCAATTTTCCTCGAAATT
76398 AAAGTT
1 AAAGTT
76404 TCAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (31 bp):
AAAGTTGAAAGTATCAATTTTCCTCGAAATT
Found at i:76406 original size:90 final size:92
Alignment explanation
Indices: 76277--76448 Score: 260
Period size: 90 Copynumber: 1.9 Consensus size: 92
76267 TTTTTGGGGA
* * *
76277 AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAAA-AAGTTTTT-AGGGAAAA
1 AAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCAAAAAAAATAAATTTTTGA-GGAAAA
76339 GTTGAAAGTATCAATTTTTCTCGAAATT
65 GTTGAAAGTATCAATTTTTCTCGAAATT
** *
76367 AAAGTTGAAAGTATCAATTTTCCTCGGAATTAAAGTTTCAAAAAAAATAAATTTTTGAGGAAAAG
1 AAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCAAAAAAAATAAATTTTTGAGGAAAAG
76432 TTGAAAGTATCAATTTT
66 TTGAAAGTATCAATTTT
76449 CCCTGCACAA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
90 34 0.47
91 7 0.10
92 31 0.42
93 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (92 bp):
AAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCAAAAAAAATAAATTTTTGAGGAAAAG
TTGAAAGTATCAATTTTTCTCGAAATT
Found at i:76938 original size:15 final size:14
Alignment explanation
Indices: 76915--77003 Score: 75
Period size: 15 Copynumber: 6.6 Consensus size: 14
76905 TTATGACAAT
76915 TATAATTAATTATAA
1 TATAATTAA-TATAA
*
76930 TATATTTAATATAAA
1 TATAATTAATAT-AA
76945 TATAATTAATATTAA
1 TATAATTAATA-TAA
76960 TAT--TTAA-AT-A
1 TATAATTAATATAA
*
76970 T-TTATTAAT-TAA
1 TATAATTAATATAA
76982 -ATAATATAATATAA
1 TATAAT-TAATATAA
76996 TATAATTA
1 TATAATTA
77004 TTATTAGATA
Statistics
Matches: 61, Mismatches: 3, Indels: 21
0.72 0.04 0.25
Matches are distributed among these distances:
9 1 0.02
10 2 0.03
11 6 0.10
12 5 0.08
13 8 0.13
14 8 0.13
15 30 0.49
16 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATAATTAATATAA
Found at i:76959 original size:36 final size:32
Alignment explanation
Indices: 76919--77017 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 32
76909 GACAATTATA
*
76919 ATTAATTATAATATATTTAATATAAATATAATTAAT
1 ATTAATTATAATATATTT-AT-T-AAT-TAAATAAT
*
76955 ATTAATATTTAA-ATATTTATTAATTAAATAAT
1 ATTAAT-TATAATATATTTATTAATTAAATAAT
* *
76987 A-TAA-TATAATATAATTATT-ATTAGATAAT
1 ATTAATTATAATATATTTATTAATTAAATAAT
77016 AT
1 AT
77018 ATTTTAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
29 14 0.25
30 8 0.15
31 3 0.05
32 8 0.15
33 3 0.05
34 1 0.02
35 2 0.04
36 12 0.22
37 4 0.07
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (32 bp):
ATTAATTATAATATATTTATTAATTAAATAAT
Found at i:77014 original size:29 final size:28
Alignment explanation
Indices: 76915--77027 Score: 80
Period size: 29 Copynumber: 4.1 Consensus size: 28
76905 TTATGACAAT
*
76915 TATAATTAATTA-TAATATATTTAATATAAA
1 TATAATT-ATTATTAATA-ATATAATAT-AA
*
76945 TATAATTAATATTAAT-AT-T--TA-AA
1 TATAATTATTATTAATAATATAATATAA
76968 TAT--TTATTAATTAAATAATATAATATAA
1 TATAATTATT-ATT-AATAATATAATATAA
* *
76996 TATAATTATTATTAGATAATATATTTTAA
1 TATAATTATTATTA-ATAATATAATATAA
77025 TAT
1 TAT
77028 TACTTAATTA
Statistics
Matches: 68, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
21 4 0.06
22 3 0.04
23 8 0.12
24 2 0.03
25 3 0.04
27 3 0.04
28 8 0.12
29 21 0.31
30 16 0.24
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
TATAATTATTATTAATAATATAATATAA
Found at i:77027 original size:57 final size:57
Alignment explanation
Indices: 76917--77041 Score: 141
Period size: 57 Copynumber: 2.2 Consensus size: 57
76907 ATGACAATTA
* *
76917 TAATTAATTATAATATATTTAATATAAATATAATTAATATTAATATTTAAATATTTA-T
1 TAATTAA-TATAATATATATAATATAAATATAATTAATAATAATATTTAAATA-TTACT
* * *
76975 TAATTAA-ATAATATAATATAATATAATTATTATTAGATAAT-ATATTTTAATATTACT
1 TAATTAATATAATAT-ATATAATATAAATATAATTA-ATAATAATATTTAAATATTACT
77032 TAATT-ATATA
1 TAATTAATATA
77042 CAATCTAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
56 11 0.19
57 36 0.62
58 11 0.19
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (57 bp):
TAATTAATATAATATATATAATATAAATATAATTAATAATAATATTTAAATATTACT
Found at i:77254 original size:11 final size:10
Alignment explanation
Indices: 77238--77308 Score: 64
Period size: 11 Copynumber: 7.3 Consensus size: 10
77228 AATTTAAAAT
77238 TTAATATTAA
1 TTAATATTAA
77248 CTTAATATTAA
1 -TTAATATTAA
77259 TT-ATATTAA
1 TTAATATTAA
77268 -T-A-ATTATA
1 TTAATATTA-A
77276 TT-A-ATTATA
1 TTAATATTA-A
77285 TTAATATTAA
1 TTAATATTAA
77295 CTTAATATTAA
1 -TTAATATTAA
77306 TTA
1 TTA
77309 TGTTTAATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
7 4 0.07
8 3 0.05
9 17 0.31
10 7 0.13
11 24 0.44
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (10 bp):
TTAATATTAA
Found at i:77266 original size:9 final size:9
Alignment explanation
Indices: 77241--77323 Score: 57
Period size: 11 Copynumber: 8.8 Consensus size: 9
77231 TTAAAATTTA
77241 ATATTAACTT
1 ATATTAA-TT
77251 AATATTAATT
1 -ATATTAATT
77261 ATATTAA-T
1 ATATTAATT
77269 A-ATTATATT
1 ATATTA-ATT
77278 A-ATTATATT
1 ATATTA-ATT
77287 AATATTAACTT
1 -ATATTAA-TT
77298 AATATTAATT
1 -ATATTAATT
*
77308 ATGTTTAATT
1 AT-ATTAATT
77318 -TATTAA
1 ATATTAA
77324 CAATGATTTG
Statistics
Matches: 64, Mismatches: 2, Indels: 15
0.79 0.02 0.19
Matches are distributed among these distances:
7 4 0.06
8 7 0.11
9 20 0.31
10 12 0.19
11 21 0.33
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (9 bp):
ATATTAATT
Found at i:77273 original size:12 final size:13
Alignment explanation
Indices: 77254--77300 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 13
77244 TTAACTTAAT
77254 ATTAATTATATTA
1 ATTAATTATATTA
77267 A-TAATTATATTA
1 ATTAATTATATTA
77279 ATTATATTAATATTA
1 ATTA-ATT-ATATTA
77294 ACTTAAT
1 A-TTAAT
77301 ATTAATTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 12 0.40
13 3 0.10
14 3 0.10
15 9 0.30
16 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTAATTATATTA
Found at i:77308 original size:21 final size:21
Alignment explanation
Indices: 77238--77308 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 21
77228 AATTTAAAAT
77238 TTAATATTAACTTAATATTAA
1 TTAATATTAACTTAATATTAA
*
77259 TT-ATATTAATAATTATATTAATTATA
1 TTAATATT-A-ACTTA-A-T-ATTA-A
77285 TTAATATTAACTTAATATTAA
1 TTAATATTAACTTAATATTAA
77306 TTA
1 TTA
77309 TGTTTAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
20 5 0.12
21 7 0.17
22 8 0.20
23 2 0.05
24 2 0.05
25 8 0.20
26 4 0.10
27 5 0.12
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAATATTAACTTAATATTAA
Found at i:77560 original size:27 final size:25
Alignment explanation
Indices: 77506--77566 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
77496 AATTATAAGA
77506 TTATAAATTAATAATTATATATAAT
1 TTATAAATTAATAATTATATATAAT
*
77531 TTATAAATATAATAAATTA-ATATTAT
1 TTATAAAT-TAAT-AATTATATATAAT
*
77557 TT-TATATTAA
1 TTATAAATTAA
77567 ATTATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 3 0.09
25 12 0.38
26 12 0.38
27 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATAAATTAATAATTATATATAAT
Found at i:77580 original size:34 final size:33
Alignment explanation
Indices: 77489--77580 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 33
77479 TATTATTAAA
77489 ATATTATAATTATAAGATTATAAATTAATAATTAT
1 ATATTA-AATTATAA-ATTATAAATTAATAATTAT
* *
77524 ATA-TAATTTATAAATATAATAAATTAATATTATTTT
1 ATATTAAATTATAAAT-T-ATAAATTAATA--ATTAT
77560 ATATTAAATTAT-AATTATAAA
1 ATATTAAATTATAAATTATAAA
77581 ATATAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
32 2 0.04
33 8 0.16
34 18 0.37
35 4 0.08
36 10 0.20
37 7 0.14
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (33 bp):
ATATTAAATTATAAATTATAAATTAATAATTAT
Found at i:78219 original size:16 final size:16
Alignment explanation
Indices: 78198--78251 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
78188 AATAATATTA
78198 ATTATAATATTATAAT
1 ATTATAATATTATAAT
78214 ATTATAATATTTTATAAT
1 ATTATAATA--TTATAAT
* *
78232 -TAATCAATATTATAAA
1 ATTAT-AATATTATAAT
78248 ATTA
1 ATTA
78252 ATGATAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 15 0.48
17 5 0.16
18 11 0.35
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTATAATATTATAAT
Found at i:78240 original size:18 final size:18
Alignment explanation
Indices: 78203--78253 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
78193 TATTAATTAT
*
78203 AATATTATAATATT-AT-
1 AATATTATAAAATTAATC
* *
78219 AATATTTTATAATTAATC
1 AATATTATAAAATTAATC
78237 AATATTATAAAATTAAT
1 AATATTATAAAATTAAT
78254 GATAAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 11 0.39
17 2 0.07
18 15 0.54
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATTATAAAATTAATC
Found at i:78240 original size:26 final size:27
Alignment explanation
Indices: 78180--78251 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
78170 TCAATTTATA
78180 AATAAT-TTAATAATATTAATTATAATAT
1 AATAATATT-ATAATATT-ATTATAATAT
*
78208 TATAATATTATAATATT-TTATAAT-T
1 AATAATATTATAATATTATTATAATAT
*
78233 AATCAATATTATAAAATTA
1 AAT-AATATTATAATATTA
78252 ATGATAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 3 0.08
26 20 0.53
28 13 0.34
29 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
AATAATATTATAATATTATTATAATAT
Found at i:78360 original size:27 final size:28
Alignment explanation
Indices: 78326--78386 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
78316 TTCAACAATT
78326 ATTA-ATTAATCAAATAGTA-AAATA-AC
1 ATTATATTAATCAAATA-TATAAATATAC
* *
78352 ATTATATTATTCAAATATATAAATATAT
1 ATTATATTAATCAAATATATAAATATAC
78380 ATTATAT
1 ATTATAT
78387 ATTATTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.20
27 16 0.53
28 8 0.27
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (28 bp):
ATTATATTAATCAAATATATAAATATAC
Found at i:78691 original size:23 final size:23
Alignment explanation
Indices: 78640--78691 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
78630 TTTTTTAAAA
*
78640 TATTAATAAAATAATATTATAAT
1 TATTATTAAAATAATATTATAAT
*
78663 TATTATTACAATAA-ATTAGTAAT
1 TATTATTAAAATAATATTA-TAAT
78686 TATTAT
1 TATTAT
78692 AATTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TATTATTAAAATAATATTATAAT
Found at i:78937 original size:13 final size:13
Alignment explanation
Indices: 78919--78962 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
78909 ATATTTATAA
78919 ATTATACTAATAT
1 ATTATACTAATAT
78932 ATTATACT-ATAT
1 ATTATACTAATAT
78944 AATTATA-TAATAT
1 -ATTATACTAATAT
78957 ATTATA
1 ATTATA
78963 TATTTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTATACTAATAT
Found at i:78944 original size:20 final size:20
Alignment explanation
Indices: 78921--78964 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
78911 ATTTATAAAT
* *
78921 TATACTAATATATTATACTA
1 TATAATAATATAATATACTA
* *
78941 TATAATTATATAATATATTA
1 TATAATAATATAATATACTA
78961 TATA
1 TATA
78965 TTTATTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
TATAATAATATAATATACTA
Found at i:78966 original size:7 final size:7
Alignment explanation
Indices: 78903--79002 Score: 51
Period size: 7 Copynumber: 15.0 Consensus size: 7
78893 ATAATCTAAT
*
78903 TATATCA
1 TATATTA
78910 TAT-TTA
1 TATATTA
*
78916 TAAATTA
1 TATATTA
78923 TACTA--A
1 TA-TATTA
78929 TATATTA
1 TATATTA
78936 TACTA-TA
1 TA-TATTA
78943 TA-ATTA
1 TATATTA
78949 TATA--A
1 TATATTA
78954 TATATTA
1 TATATTA
78961 TATATT-
1 TATATTA
78967 TATTATT-
1 TA-TATTA
78974 TATA-TA
1 TATATTA
78980 -ATATTAA
1 TATATT-A
78987 TAACTATTA
1 T-A-TATTA
78996 TATATTA
1 TATATTA
79003 AAGTTATTTA
Statistics
Matches: 74, Mismatches: 3, Indels: 32
0.68 0.03 0.29
Matches are distributed among these distances:
5 12 0.16
6 16 0.22
7 35 0.47
8 4 0.05
9 3 0.04
10 4 0.05
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (7 bp):
TATATTA
Found at i:78969 original size:20 final size:20
Alignment explanation
Indices: 78928--78969 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
78918 AATTATACTA
*
78928 ATATATTATACTATATAATT
1 ATATAATATACTATATAATT
* *
78948 ATATAATATATTATATATTT
1 ATATAATATACTATATAATT
78968 AT
1 AT
78970 TATTTATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATAATATACTATATAATT
Found at i:78977 original size:25 final size:25
Alignment explanation
Indices: 78914--78962 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
78904 ATATCATATT
78914 TATA-AATTATACTAATATATTATAC
1 TATATAATTATA-TAATATATTATAC
78939 TATATAATTATATAATATATTATA
1 TATATAATTATATAATATATTATA
78963 TATTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
TATATAATTATATAATATATTATAC
Found at i:79010 original size:37 final size:35
Alignment explanation
Indices: 78939--79041 Score: 98
Period size: 35 Copynumber: 3.1 Consensus size: 35
78929 TATATTATAC
*
78939 TATATAATTATATAATATATTATATATTTATTATT
1 TATATAATTATATAATATATTATATATTAATTATT
78974 TATATAA-TAT-TAATAACTATTATATATTAAAGTTA-T
1 TATATAATTATATAAT-A-TATTATATATT-AA-TTATT
79010 T-TATAATTAT-T-ATAT-TTAT-T-TTAATTATT
1 TATATAATTATATAATATATTATATATTAATTATT
79039 TAT
1 TAT
79042 TATTATTTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 19
0.75 0.01 0.24
Matches are distributed among these distances:
28 3 0.05
29 4 0.07
30 3 0.05
31 1 0.02
32 4 0.07
33 5 0.08
34 5 0.08
35 25 0.42
36 7 0.12
37 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (35 bp):
TATATAATTATATAATATATTATATATTAATTATT
Found at i:79028 original size:19 final size:19
Alignment explanation
Indices: 79006--79058 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
78996 TATATTAAAG
79006 TTATTTATAATTA-TTA-TA
1 TTATTT-TAATTATTTATTA
79024 TTTATTTTAATTATTTATTA
1 -TTATTTTAATTATTTATTA
79044 TTATTTTAATTATTT
1 TTATTTTAATTATTT
79059 GAAATAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.19
19 24 0.75
20 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTAATTATTTATTA
Found at i:79058 original size:9 final size:9
Alignment explanation
Indices: 79006--79058 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
78996 TATATTAAAG
79006 TTATTTATAA
1 TTATTT-TAA
* *
79016 TTATTATAT
1 TTATTTTAA
79025 TTATTTTAA
1 TTATTTTAA
*
79034 TTATTTATTA
1 TTATTT-TAA
79044 TTATTTTAA
1 TTATTTTAA
79053 TTATTT
1 TTATTT
79059 GAAATAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 23 0.64
10 13 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATTTTAA
Found at i:79315 original size:24 final size:24
Alignment explanation
Indices: 79288--79336 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
79278 TTTGAACGTG
79288 TTATAAATAATATATTA-TA-AATTA
1 TTAT-AATAATA-ATTATTACAATTA
79312 TTATAATAATAATTATTACAATTA
1 TTATAATAATAATTATTACAATTA
79336 T
1 T
79337 CTTAGTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.17
23 9 0.39
24 10 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATAATAATAATTATTACAATTA
Done.