Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1348
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: 233253
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
File 2 of 3
Found at i:106959 original size:97 final size:98
Alignment explanation
Indices: 106793--107045 Score: 268
Period size: 97 Copynumber: 2.6 Consensus size: 98
106783 AATAAATTTA
* ** ** *
106793 AAATTACTATTTAAAAA-AATAAAAAATAAAAATATATTTTATATTAAATCTCAAATTTTTATTT
1 AAATTACTATTTAAAAATAAT-AAAAATTAAAATATATTTTATATTAAATCTTGAATTAGTACTT
106857 AAAAAATAATAAAAATA-AAAAAATACTT-ATCTC
65 AAAAAATAATAAAAATATAAAAAATA-TTAATCTC
* *
106890 AAATTAATATTTAAAAATTAATAAAAATTTAAAATATATTTTATGTT-AATCTTGAATTAGTACT
1 AAATTACTATTTAAAAA-TAATAAAAA-TTAAAATATATTTTATATTAAATCTTGAATTAGTACT
**** *
106954 T-AAAAATAATAAAAATATATTTTATATTAAATCTT
64 TAAAAAATAATAAAAATATAAAAAATATT-AATCTC
* *
106989 GAATTACTATTTAAAAAATAATAAAAA-TAAAA-ATATTTTATATTCAATCTTGAATTA
1 AAATTACTATTT-AAAAATAATAAAAATTAAAATATATTTTATATTAAATCTTGAATTA
107046 CTTTTTAATA
Statistics
Matches: 132, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
96 11 0.08
97 51 0.39
98 22 0.17
99 43 0.33
100 5 0.04
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (98 bp):
AAATTACTATTTAAAAATAATAAAAATTAAAATATATTTTATATTAAATCTTGAATTAGTACTTA
AAAAATAATAAAAATATAAAAAATATTAATCTC
Found at i:107191 original size:20 final size:19
Alignment explanation
Indices: 107146--107202 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
107136 TACTAGATTT
*
107146 AATAATTATTAGGTTTGAA
1 AATAATTATTAGGTTTAAA
*
107165 AATAATTATTGGGTTTAAA
1 AATAATTATTAGGTTTAAA
* *
107184 AGATAATTACTAGATTTAA
1 A-ATAATTATTAGGTTTAA
107203 TAAAAATTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (19 bp):
AATAATTATTAGGTTTAAA
Found at i:107673 original size:22 final size:22
Alignment explanation
Indices: 107647--107756 Score: 139
Period size: 22 Copynumber: 5.0 Consensus size: 22
107637 TCTTTTTTAC
* *
107647 TATATATATATTTAGTTAAAAT
1 TATATATATATTTAATTATAAT
* * *
107669 TATATATACATATCATTATAAT
1 TATATATATATTTAATTATAAT
*
107691 TATATGTATATTTAATTATAAT
1 TATATATATATTTAATTATAAT
*
107713 TATTTATATATTTAATTATAAT
1 TATATATATATTTAATTATAAT
* *
107735 TATTTGTATATTTAATTATAAT
1 TATATATATATTTAATTATAAT
107757 CATAAACGTA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 76 1.00
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (22 bp):
TATATATATATTTAATTATAAT
Found at i:107706 original size:16 final size:16
Alignment explanation
Indices: 107687--107754 Score: 65
Period size: 16 Copynumber: 4.5 Consensus size: 16
107677 CATATCATTA
107687 TAATTATATGTATATT
1 TAATTATATGTATATT
*
107703 TAATTATA-AT-TATT
1 TAATTATATGTATATT
*
107717 T-A-TATATTTA-ATT
1 TAATTATATGTATATT
*
107730 ATAATTATTTGTATATT
1 -TAATTATATGTATATT
107747 TAATTATA
1 TAATTATA
107755 ATCATAAACG
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
12 4 0.10
13 5 0.12
14 6 0.15
15 2 0.05
16 21 0.51
17 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TAATTATATGTATATT
Found at i:107756 original size:6 final size:6
Alignment explanation
Indices: 107683--107737 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
107673 TATACATATC
107683 ATTATA ATTAT- ATGTAT- ATT-TA ATTATA ATTAT- -TTATA TATT-TA
1 ATTATA ATTATA AT-TATA ATTATA ATTATA ATTATA ATTATA -ATTATA
107727 ATTATA ATTAT
1 ATTATA ATTAT
107738 TTGTATATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
4 5 0.12
5 9 0.21
6 26 0.62
7 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (6 bp):
ATTATA
Found at i:107773 original size:44 final size:44
Alignment explanation
Indices: 107678--107773 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
107668 TTATATATAC
* * ** *
107678 ATATCATTATAATTATATGTATATTTAATTATAATTATTTATAT
1 ATATAATTATAATTATATGTATATTTAATTATAATCATAAACAT
* * *
107722 ATTTAATTATAATTATTTGTATATTTAATTATAATCATAAACGT
1 ATATAATTATAATTATATGTATATTTAATTATAATCATAAACAT
107766 ATATAATT
1 ATATAATT
107774 TAAATAAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (44 bp):
ATATAATTATAATTATATGTATATTTAATTATAATCATAAACAT
Found at i:112952 original size:20 final size:21
Alignment explanation
Indices: 112916--112955 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
112906 TCGATTAAGC
112916 GATCAAATTGATTAATTCGAT
1 GATCAAATTGATTAATTCGAT
*
112937 GATCAAATT-TTTAATTCGA
1 GATCAAATTGATTAATTCGA
112956 GTTGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
GATCAAATTGATTAATTCGAT
Found at i:113413 original size:28 final size:27
Alignment explanation
Indices: 113382--113477 Score: 77
Period size: 32 Copynumber: 3.3 Consensus size: 27
113372 ATGACATAAA
*
113382 AAATAATATGAATA-TTATATAAATATAT
1 AAAT-ATATGAAAATTTATAT-AATATAT
*
113410 AAATATATTAAAATTTATATAATATAAATT
1 AAATATATGAAAATTTATATAATAT--A-T
* *
113440 ATTAATATATTAAAATTTATATAAAATAT
1 A--AATATATGAAAATTTATATAATATAT
113469 ATAATATAT
1 A-AATATAT
113478 TAAATATAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
27 12 0.20
28 18 0.31
29 3 0.05
30 3 0.05
32 23 0.39
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (27 bp):
AAATATATGAAAATTTATATAATATAT
Found at i:113416 original size:16 final size:16
Alignment explanation
Indices: 113397--113485 Score: 58
Period size: 16 Copynumber: 5.2 Consensus size: 16
113387 ATATGAATAT
113397 TATATAAATATATAAA
1 TATATAAATATATAAA
* *
113413 TATATTAAA-ATTTATA
1 TATA-TAAATATATAAA
*
113429 TAATATAAAT-TATTAA
1 T-ATATAAATATATAAA
113445 TATATTAAAATTTATATAAA
1 TATA-T-AAA--TATATAAA
113465 -ATATATAATATATTAAA
1 TATATA-AATATA-TAAA
113482 TATA
1 TATA
113486 ATTATAACAC
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
15 3 0.05
16 23 0.41
17 15 0.27
18 6 0.11
19 4 0.07
20 5 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATAAATATATAAA
Found at i:113428 original size:18 final size:18
Alignment explanation
Indices: 113402--113460 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
113392 AATATTATAT
*
113402 AAATATATAAATATATTA
1 AAATTTATAAATATATTA
*
113420 AAATTTATATA-ATA-T-
1 AAATTTATAAATATATTA
*
113435 AAA-TTATTAATATATTA
1 AAATTTATAAATATATTA
113452 AAATTTATA
1 AAATTTATA
113461 TAAAATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
14 5 0.16
15 6 0.19
16 2 0.06
17 6 0.19
18 13 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTATAAATATATTA
Found at i:113429 original size:14 final size:14
Alignment explanation
Indices: 113412--113462 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
113402 AAATATATAA
113412 ATATATTAAAATTT
1 ATATATTAAAATTT
*
113426 ATATAATATAAATTATTA
1 ATAT-AT-TAAA--ATTT
113444 ATATATTAAAATTT
1 ATATATTAAAATTT
113458 ATATA
1 ATATA
113463 AAATATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 12 0.39
15 2 0.06
16 8 0.26
17 2 0.06
18 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:113450 original size:32 final size:33
Alignment explanation
Indices: 113393--113485 Score: 125
Period size: 32 Copynumber: 2.7 Consensus size: 33
113383 AATAATATGA
*
113393 ATATTATATAAATATATAAATATATTAAAATTT
1 ATATAATATAAATATATAAATATATTAAAATTT
*
113426 ATATAATATAAAT-TATTAATATATTAAAATTT
1 ATATAATATAAATATATAAATATATTAAAATTT
113458 ATATAAAATATATAATATATTAAATATA
1 ATAT--AATATA-AATATA-TAAATATA
113486 ATTATAACAC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
32 22 0.42
33 12 0.23
34 6 0.12
35 3 0.06
36 2 0.04
37 7 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
ATATAATATAAATATATAAATATATTAAAATTT
Found at i:113902 original size:19 final size:18
Alignment explanation
Indices: 113868--113921 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
113858 TAATTTGAGT
* *
113868 AATTTATGAATTTAATTA
1 AATTTATTATTTTAATTA
113886 AATTATATTATTTTAATTA
1 AATT-TATTATTTTAATTA
*
113905 AATTTTTTATTTTAATT
1 AATTTATTATTTTAATT
113922 TTTATTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
AATTTATTATTTTAATTA
Found at i:114665 original size:14 final size:15
Alignment explanation
Indices: 114648--114676 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
114638 ATATATATTT
114648 TTTATTAT-ATTATA
1 TTTATTATAATTATA
114662 TTTATTATAATTATA
1 TTTATTATAATTATA
114677 AATATTATTA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATTATAATTATA
Found at i:114692 original size:33 final size:32
Alignment explanation
Indices: 114649--114717 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 32
114639 TATATATTTT
*
114649 TTATTATATTATATTT-ATTATAATTAT-AAATA
1 TTATTATATTAT-TTTAATT-TAATAATAAAATA
114681 TTATTAATATTATTTTAATTTAATAATAAAATA
1 TTATT-ATATTATTTTAATTTAATAATAAAATA
114714 TTAT
1 TTAT
114718 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TTATTATATTATTTTAATTTAATAATAAAATA
Found at i:115940 original size:16 final size:16
Alignment explanation
Indices: 115902--116024 Score: 90
Period size: 16 Copynumber: 7.6 Consensus size: 16
115892 AATTGATTCG
115902 AATTTAAAATAATAAA
1 AATTTAAAATAATAAA
*
115918 AATTTTAAAATAATCAA
1 AA-TTTAAAATAATAAA
**
115935 AATTTAAAATAATTTA
1 AATTTAAAATAATAAA
* *
115951 ATTTTAAAATAATTTAA
1 AATTTAAAATAA-TAAA
*
115968 AA-TCAAAATAATATAA
1 AATTTAAAATAATA-AA
*
115984 AA-TT-AAATAATTTAA
1 AATTTAAAATAA-TAAA
* **
115999 ATTTTAAAATTTTAAA
1 AATTTAAAATAATAAA
*
116015 ATTTTAAAAT
1 AATTTAAAAT
116025 TTTAAATTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
15 10 0.11
16 54 0.62
17 23 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTTAAAATAATAAA
Found at i:115976 original size:32 final size:33
Alignment explanation
Indices: 115902--116024 Score: 108
Period size: 32 Copynumber: 3.8 Consensus size: 33
115892 AATTGATTCG
* * *
115902 AATTTAAAATAATAAAAATTTTAAAATAA-TCAA
1 AATTCAAAATAAT-ATAATTTTAAAATAATTTAA
* *
115935 AATTTAAAATAATTTAATTTTAAAATAATTTAA
1 AATTCAAAATAATATAATTTTAAAATAATTTAA
**
115968 AA-TCAAAATAATATAAAATT-AAATAATTTAA
1 AATTCAAAATAATATAATTTTAAAATAATTTAA
* * ** *
115999 ATTTTAAAATTTTAAAATTTTAAAAT
1 AATTCAAAATAATATAATTTTAAAAT
116025 TTTAAATTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
31 12 0.16
32 39 0.53
33 22 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (33 bp):
AATTCAAAATAATATAATTTTAAAATAATTTAA
Found at i:115978 original size:48 final size:46
Alignment explanation
Indices: 115924--116016 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 46
115914 TAAAAATTTT
*
115924 AAAATAATCA-AAATTTAAAATAATTT-AATTTTAAAATAATTTAAAATC
1 AAAATAAT-ATAAAATT-AAATAATTTAAATTTTAAAAT--TTTAAAATC
115972 AAAATAATATAAAATTAAATAATTTAAATTTTAAAATTTTAAAAT
1 AAAATAATATAAAATTAAATAATTTAAATTTTAAAATTTTAAAAT
116017 TTTAAAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 8 0.19
47 10 0.24
48 24 0.57
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (46 bp):
AAAATAATATAAAATTAAATAATTTAAATTTTAAAATTTTAAAATC
Found at i:116008 original size:8 final size:8
Alignment explanation
Indices: 115997--116039 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
115987 TAAATAATTT
115997 AAATTTTA
1 AAATTTTA
116005 AAATTTTA
1 AAATTTTA
116013 AAATTTTA
1 AAATTTTA
116021 AAATTTT-
1 AAATTTTA
116028 AAA-TTTA
1 AAATTTTA
116035 AAATT
1 AAATT
116040 AAATTCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 3 0.09
7 6 0.18
8 24 0.73
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
AAATTTTA
Found at i:117614 original size:49 final size:49
Alignment explanation
Indices: 117541--117639 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
117531 TTCACAGTAT
117541 TTGAAGGGTCTTAAAAGAGCCATATCTCATACTTCTATCTAAATATGTG
1 TTGAAGGGTCTTAAAAGAGCCATATCTCATACTTCTATCTAAATATGTG
* * *
117590 TTGAAGGGTCTTAAAAGGGTCATATCTCATACTTCTATTTAAATATGTG
1 TTGAAGGGTCTTAAAAGAGCCATATCTCATACTTCTATCTAAATATGTG
117639 T
1 T
117640 CGAACATGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (49 bp):
TTGAAGGGTCTTAAAAGAGCCATATCTCATACTTCTATCTAAATATGTG
Found at i:122186 original size:20 final size:20
Alignment explanation
Indices: 122161--122198 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
122151 ACACGACAAA
122161 TAAAAATA-ATAAAATTTTTT
1 TAAAAATATA-AAAATTTTTT
122181 TAAAAATATAAAAATTTT
1 TAAAAATATAAAAATTTT
122199 ATGACACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAATATAAAAATTTTTT
Found at i:122271 original size:20 final size:20
Alignment explanation
Indices: 122230--122267 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
122220 CATTTTTTTC
* *
122230 AAAAACTTTTTAAATACATA
1 AAAAAATTTTTAAATAAATA
122250 AAAAAATTTTTAAA-AAAT
1 AAAAAATTTTTAAATAAAT
122268 TAAATATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAAATTTTTAAATAAATA
Found at i:123106 original size:14 final size:13
Alignment explanation
Indices: 123080--123104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123070 TTATATATTT
123080 AAAATTATTTTTA
1 AAAATTATTTTTA
123093 AAAATTATTTTT
1 AAAATTATTTTT
123105 TATATTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAAATTATTTTTA
Found at i:125256 original size:23 final size:22
Alignment explanation
Indices: 125205--125261 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
125195 TAAAAAATAA
*
125205 AAATT-AATTT-AATTATTATT
1 AAATTAAATTTAAATTATGATT
*
125225 AAATAAAATTTAAATTATCGATT
1 AAATTAAATTTAAATTAT-GATT
125248 AAATTAAATTTAAA
1 AAATTAAATTTAAA
125262 GTATTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 5 0.16
22 6 0.19
23 16 0.52
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATTAAATTTAAATTATGATT
Found at i:125300 original size:21 final size:22
Alignment explanation
Indices: 125271--125311 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
125261 AGTATTTAAT
*
125271 ATTTGAATAGAATATTTTATGA
1 ATTTGAATAAAATATTTTATGA
*
125293 ATTT-AATAAAATTTTTTAT
1 ATTTGAATAAAATATTTTAT
125312 TTTATATTCT
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:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (22 bp):
ATTTGAATAAAATATTTTATGA
Found at i:125740 original size:21 final size:20
Alignment explanation
Indices: 125715--125754 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
125705 TTAATAAAAA
125715 TTAT-TTTTAT-ATTAATATT
1 TTATATTTTATAATTAA-ATT
125734 TTATATTTTATAATTAAATT
1 TTATATTTTATAATTAAATT
125754 T
1 T
125755 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 10 0.53
21 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATTTTATAATTAAATT
Found at i:125769 original size:19 final size:20
Alignment explanation
Indices: 125750--125785 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
125740 TTTATAATTA
125750 AATT-TAAATA-AAATTTTT
1 AATTATAAATATAAATTTTT
125768 AATTATAAATATAAATTT
1 AATTATAAATATAAATTT
125786 AAATCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.25
19 6 0.38
20 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTATAAATATAAATTTTT
Found at i:126019 original size:2 final size:2
Alignment explanation
Indices: 126014--126062 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
126004 ACACTCGAGC
* * * * *
126014 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT GT TT AA AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
126056 AT AT AT A
1 AT AT AT A
126063 AAAAATATTC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:126042 original size:22 final size:22
Alignment explanation
Indices: 126014--126062 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
126004 ACACTCGAGC
* *
126014 ATATATATGTATATATATATAT
1 ATATATATGTATAAATAAATAT
*
126036 ATATATATGTTTAAATAAATAT
1 ATATATATGTATAAATAAATAT
126058 ATATA
1 ATATA
126063 AAAAATATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
ATATATATGTATAAATAAATAT
Found at i:126709 original size:34 final size:36
Alignment explanation
Indices: 126652--126719 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 36
126642 TTTTTTATTA
126652 ATTTAAATTAATATTTAATAAATAAAT-AATATTTTT
1 ATTTAAATT-ATATTTAATAAATAAATAAATATTTTT
*
126688 ATTTAAATT-TATTT-ATAAAATATATAAATATT
1 ATTTAAATTATATTTAAT-AAATAAATAAATATT
126720 AATATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 2 0.07
34 12 0.41
35 6 0.21
36 9 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (36 bp):
ATTTAAATTATATTTAATAAATAAATAAATATTTTT
Found at i:127056 original size:25 final size:25
Alignment explanation
Indices: 126990--127056 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
126980 GAGAATTTAT
* * *
126990 TTTATTATTTAAAATAATATTAAAA
1 TTTATTAATTAAATTTATATTAAAA
**
127015 TTT-TTAAATTATTTTTATATTAAAA
1 TTTATT-AATTAAATTTATATTAAAA
127040 TTTATTAATTAAATTTA
1 TTTATTAATTAAATTTA
127057 AATAATAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
24 2 0.06
25 29 0.88
26 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTATTAATTAAATTTATATTAAAA
Found at i:127162 original size:8 final size:8
Alignment explanation
Indices: 127145--127271 Score: 50
Period size: 8 Copynumber: 14.9 Consensus size: 8
127135 TTAATTAAAT
127145 TTTATA-A
1 TTTATATA
*
127152 TTTATGTA
1 TTTATATA
127160 TTTATATATTA
1 -TT-TATA-TA
127171 TTTATATA
1 TTTATATA
127179 TTTATATAAA
1 TTTATAT--A
*
127189 TTTTAATAAA
1 -TTT-ATATA
*
127199 TTAATA-A
1 TTTATATA
127206 TTTATATTA
1 TTTATA-TA
127215 TATTA-ATA
1 T-TTATATA
*
127223 TATTA-CTA
1 T-TTATATA
127231 TTTATTATTA
1 TTTA-TA-TA
127241 TTT-TATA
1 TTTATATA
127248 TTT-TATA
1 TTTATATA
127255 TTATATTATA
1 TT-TA-TATA
127265 TTTATAT
1 TTTATAT
127272 TATATTTTAT
Statistics
Matches: 96, Mismatches: 7, Indels: 33
0.71 0.05 0.24
Matches are distributed among these distances:
7 25 0.26
8 29 0.30
9 13 0.14
10 21 0.22
11 5 0.05
12 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (8 bp):
TTTATATA
Found at i:127174 original size:11 final size:11
Alignment explanation
Indices: 127158--127274 Score: 50
Period size: 11 Copynumber: 10.3 Consensus size: 11
127148 ATAATTTATG
127158 TATTTATATAT
1 TATTTATATAT
127169 TATTTATATAT
1 TATTTATATAT
* *
127180 T-TATATAAAT
1 TATTTATATAT
* *
127190 T-TTAATAAAT
1 TATTTATATAT
127200 TAATAATT-TATAT
1 T-AT--TTATATAT
127213 TATATTAATATAT
1 TAT-TT-ATATAT
127226 TACTATT-TATTAT
1 TA-T-TTATA-TAT
127239 TATTT-TATAT
1 TATTTATATAT
127249 T-TTATATTATAT
1 TATT-TA-TATAT
127261 TATATT-TATAT
1 TAT-TTATATAT
127272 TAT
1 TAT
127275 ATTTTATTGC
Statistics
Matches: 87, Mismatches: 6, Indels: 26
0.73 0.05 0.22
Matches are distributed among these distances:
9 2 0.02
10 21 0.24
11 27 0.31
12 12 0.14
13 19 0.22
14 6 0.07
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTATATAT
Found at i:127193 original size:19 final size:19
Alignment explanation
Indices: 127151--127278 Score: 71
Period size: 17 Copynumber: 7.2 Consensus size: 19
127141 AAATTTTATA
* *
127151 ATTTATGTATTTATATATT
1 ATTTATATATTTATATAAT
127170 ATTTATATATTTATATAA-
1 ATTTATATATTTATATAAT
**
127188 ATTT-TA-ATAAAT-TAAT
1 ATTTATATATTTATATAAT
*
127204 AATT-TATA-TTATATTAAT
1 ATTTATATATTTATA-TAAT
* *
127222 ATATTA-CTATTTAT-TATT
1 AT-TTATATATTTATATAAT
*
127240 ATTT-TATATTT-TATATT
1 ATTTATATATTTATATAAT
* *
127257 ATAT-TATATTTATATTAT
1 ATTTATATATTTATATAAT
127275 ATTT
1 ATTT
127279 TATTGCGTCT
Statistics
Matches: 84, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
15 3 0.04
16 12 0.14
17 24 0.29
18 21 0.25
19 20 0.24
20 4 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (19 bp):
ATTTATATATTTATATAAT
Found at i:127217 original size:5 final size:5
Alignment explanation
Indices: 127207--127282 Score: 70
Period size: 5 Copynumber: 15.4 Consensus size: 5
127197 AATTAATAAT
* *
127207 TTATA TTATA TTA-A -TATA TTACTA TT-TA TTATTA TTTTA -TATT TTATA
1 TTATA TTATA TTATA TTATA TTA-TA TTATA TTA-TA TTATA TTATA TTATA
*
127255 TTATA TTATA TTTATA TTATA TTTTA TT
1 TTATA TTATA -TTATA TTATA TTATA TT
127283 GCGTCTTATA
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
3 2 0.03
4 8 0.14
5 36 0.61
6 13 0.22
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (5 bp):
TTATA
Found at i:127219 original size:18 final size:18
Alignment explanation
Indices: 127198--127277 Score: 65
Period size: 18 Copynumber: 4.2 Consensus size: 18
127188 ATTTTAATAA
127198 ATTAATAATTTATATTAT
1 ATTAATAATTTATATTAT
127216 ATTAAT-ATATTACTATT-T
1 ATTAATAAT-TTA-TATTAT
* *
127234 ATTATTATTTTATATTTTAT
1 ATTAATAATTTATA--TTAT
127254 ATTATATTATATTTATATTAT
1 ATTA-A-TA-ATTTATATTAT
127275 ATT
1 ATT
127278 TTATTGCGTC
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
17 4 0.08
18 18 0.37
19 7 0.14
20 5 0.10
21 7 0.14
22 2 0.04
23 6 0.12
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTAATAATTTATATTAT
Found at i:127247 original size:23 final size:22
Alignment explanation
Indices: 127205--127282 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 22
127195 TAAATTAATA
127205 ATTTATATTATATTAATATATTACT
1 ATTTATATTATATT--TATATTA-T
*
127230 ATTTATTATTAT-TTTATATTTT
1 ATTTA-TATTATATTTATATTAT
127252 ATATTATATTATATTTATATTAT
1 AT-TTATATTATATTTATATTAT
127275 ATTT-TATT
1 ATTTATATT
127283 GCGTCTTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.08
22 11 0.23
23 20 0.42
25 7 0.15
26 6 0.12
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTATATTATATTTATATTAT
Found at i:127767 original size:18 final size:18
Alignment explanation
Indices: 127744--127787 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
127734 TATTATGTAA
127744 AAAATAATTAATATAA-AT
1 AAAATAATT-ATATAATAT
127762 AAAATAA-TATATAATAT
1 AAAATAATTATATAATAT
127779 AAATATAAT
1 AAA-ATAAT
127788 ATGAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 6 0.26
18 11 0.48
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATAATTATATAATAT
Found at i:127784 original size:11 final size:11
Alignment explanation
Indices: 127752--127795 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
127742 AAAAAATAAT
127752 TAATATAAATA
1 TAATATAAATA
127763 -AA-ATAATATA
1 TAATATAA-ATA
127773 TAATATAAATA
1 TAATATAAATA
*
127784 TAATATGAATA
1 TAATATAAATA
127795 T
1 T
127796 TTTTTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
9 4 0.14
10 5 0.17
11 16 0.55
12 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
TAATATAAATA
Found at i:128056 original size:17 final size:17
Alignment explanation
Indices: 128040--128132 Score: 77
Period size: 17 Copynumber: 5.4 Consensus size: 17
128030 TAATAATATA
128040 AAAATAATTAGAATATAAT
1 AAAAT-ATTA-AATATAAT
128059 AAAATATTAAATATAAT
1 AAAATATTAAATATAAT
*
128076 ATAAATA-AAAATAT-AT
1 A-AAATATTAAATATAAT
*
128092 AAATATATTAAA-ATTTAT
1 AAA-ATATTAAATA-TAAT
* *
128110 ATAATATAAAATAT-AT
1 AAAATATTAAATATAAT
128126 AAAATAT
1 AAAATAT
128133 ATAATAGGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
15 2 0.03
16 15 0.24
17 27 0.43
18 14 0.22
19 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (17 bp):
AAAATATTAAATATAAT
Found at i:128089 original size:34 final size:33
Alignment explanation
Indices: 128043--128181 Score: 106
Period size: 34 Copynumber: 4.0 Consensus size: 33
128033 TAATATAAAA
*
128043 ATAAT-TAGAATATAATAAAATATT-AAATATAAT
1 ATAATATAAAATAT-ATAAAATATTAAAATAT-AT
*
128076 ATAA-ATAAAAATATATAAATATATTAAAATTTAT
1 ATAATAT-AAAATATATAAA-ATATTAAAATATAT
* *
128110 ATAATATAAAATATATAAAATATATAATAGGTTAAAT
1 ATAATATAAAATATATAAAATAT-TAA-A--ATATAT
* *
128147 ATAAT-TATAATATATAAAAAATATATAAATATAT
1 ATAATATAAAATATATAAAATAT-TA-AAATATAT
128181 A
1 A
128182 AATTTTTAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 19
0.76 0.08 0.17
Matches are distributed among these distances:
33 14 0.16
34 37 0.43
35 8 0.09
36 19 0.22
37 9 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (33 bp):
ATAATATAAAATATATAAAATATTAAAATATAT
Found at i:128121 original size:16 final size:16
Alignment explanation
Indices: 128028--128184 Score: 99
Period size: 16 Copynumber: 9.5 Consensus size: 16
128018 GAAAAGTAAT
128028 TATAATAATATA-AAAA
1 TATAA-AATATATAAAA
*
128044 TAATTAGAATATAATAAAA
1 T-A-TAAAATAT-ATAAAA
*
128063 TATTAAATATAATATAAA
1 TATAAAATAT-ATA-AAA
128081 TA-AAAATATATAAATA
1 TATAAAATATATAAA-A
* *
128097 TATTAAAATTTATATAA
1 TA-TAAAATATATAAAA
128114 TATAAAATATATAAAA
1 TATAAAATATATAAAA
* ** *
128130 TATATAATAGGTTAAA
1 TATAAAATATATAAAA
*
128146 TAT--AAT-TATAATA
1 TATAAAATATATAAAA
*
128159 TATAAAAAATATATAAA
1 TATAAAATATATA-AAA
128176 TATATAAAT
1 TATA-AAAT
128185 TTTTAAATCT
Statistics
Matches: 109, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
13 6 0.06
14 3 0.03
15 4 0.04
16 38 0.35
17 31 0.28
18 22 0.20
19 5 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
TATAAAATATATAAAA
Found at i:128146 original size:25 final size:24
Alignment explanation
Indices: 128061--128182 Score: 96
Period size: 25 Copynumber: 5.1 Consensus size: 24
128051 AATATAATAA
* *
128061 AATATTAAATATAATATAAATA-AA
1 AATATTAAATATATTA-AAATATAT
128085 AATATATAAATATATTAAAATTTATAT
1 AATAT-TAAATATATTAAAA--TATAT
*
128112 AATATAAAATATA-TAAAATATAT
1 AATATTAAATATATTAAAATATAT
*
128135 AATAGGTTAAATATAATTATAATATAT
1 AATA--TTAAATAT-ATTAAAATATAT
128162 AA-A--AAATATA-T-AAATATAT
1 AATATTAAATATATTAAAATATAT
128181 AA
1 AA
128183 ATTTTTAAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
19 9 0.11
20 1 0.01
21 1 0.01
22 6 0.07
23 9 0.11
24 8 0.10
25 22 0.26
26 11 0.13
27 17 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
AATATTAAATATATTAAAATATAT
Found at i:128357 original size:19 final size:18
Alignment explanation
Indices: 128330--128402 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 18
128320 ACCACAAATG
*
128330 ATAATTATATATATATATT
1 ATAAATATAT-TATATATT
* *
128349 ATAAATATATAATATAAATG
1 ATAAATATAT--TATATATT
*
128369 ATATAGTATATTATATATT
1 ATA-AATATATTATATATT
*
128388 TTAAAT-TATTATATA
1 ATAAATATATTATATA
128403 AATATATGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
17 9 0.20
18 2 0.05
19 17 0.39
20 10 0.23
21 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (18 bp):
ATAAATATATTATATATT
Found at i:128368 original size:39 final size:38
Alignment explanation
Indices: 128325--128424 Score: 111
Period size: 39 Copynumber: 2.7 Consensus size: 38
128315 TTTAAACCAC
*
128325 AAATGATA-ATTATATATATATATTATAAATATATAATAT
1 AAATGATATAGTATAT-TATATATTATAAAT-TATAATAT
* *
128364 AAATGATATAGTATATTATATATTTTAAATTATTATAT
1 AAATGATATAGTATATTATATATTATAAATTATAATAT
*
128402 AAAT-ATAT-GT-TATT-TTTATTATA
1 AAATGATATAGTATATTATATATTATA
128425 TATAAAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
34 7 0.13
35 4 0.07
36 2 0.04
37 4 0.07
38 11 0.20
39 21 0.38
40 6 0.11
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (38 bp):
AAATGATATAGTATATTATATATTATAAATTATAATAT
Found at i:128446 original size:13 final size:13
Alignment explanation
Indices: 128428--128465 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
128418 TATTATATAT
128428 AAAATATAATTAA
1 AAAATATAATTAA
*
128441 AAAATAAAATTAA
1 AAAATATAATTAA
128454 AAAGAT-TAATTA
1 AAA-ATATAATTA
128466 GTTTAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 20 0.91
14 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAATATAATTAA
Found at i:128676 original size:18 final size:17
Alignment explanation
Indices: 128632--128672 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
128622 TGAACTAATC
128632 AAATAAATTATTTTTTA
1 AAATAAATTATTTTTTA
*
128649 TAATAAATTA-TTTTTA
1 AAATAAATTATTTTTTA
128665 AAAGTAAA
1 AAA-TAAA
128673 ATTAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AAATAAATTATTTTTTA
Found at i:129780 original size:15 final size:15
Alignment explanation
Indices: 129760--129856 Score: 99
Period size: 15 Copynumber: 6.3 Consensus size: 15
129750 CAAAACTCGA
129760 TTAAATTAAAAATAT
1 TTAAATTAAAAATAT
*
129775 TTAAATCAAAAATAT
1 TTAAATTAAAAATAT
129790 TTAAATTTTAAAAA-AT
1 TTAAA--TTAAAAATAT
129806 TTAAATTATAAAA-AT
1 TTAAATTA-AAAATAT
* *
129821 TTAAATATAAAAAAAC
1 TTAAAT-TAAAAATAT
*
129837 TTAAATTTAAAATAAT
1 TTAAATTAAAAAT-AT
129853 TTAA
1 TTAA
129857 TCTCGGGCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.04
15 40 0.57
16 21 0.30
17 6 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAAATTAAAAATAT
Found at i:129808 original size:31 final size:31
Alignment explanation
Indices: 129764--129856 Score: 107
Period size: 31 Copynumber: 2.9 Consensus size: 31
129754 ACTCGATTAA
*
129764 ATTAAAAATATTTAAATCAAAAATATTTAAAT
1 ATTAAAAA-ATTTAAATTAAAAATATTTAAAT
*
129796 TTTAAAAAATTTAAATTATAAAA-ATTTAAAT
1 ATTAAAAAATTTAAATTA-AAAATATTTAAAT
* * *
129827 ATAAAAAAACTTAAATTTAAAATAATTTAA
1 ATTAAAAAATTTAAATTAAAAAT-ATTTAA
129857 TCTCGGGCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
30 4 0.08
31 31 0.60
32 17 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
ATTAAAAAATTTAAATTAAAAATATTTAAAT
Found at i:135709 original size:30 final size:31
Alignment explanation
Indices: 135661--135766 Score: 89
Period size: 30 Copynumber: 3.5 Consensus size: 31
135651 GGTAAAATAA
* *
135661 TAAAAAAATCTTTAAATTTTATAATTTTATT
1 TAAATAAATCTTTTAATTTTATAATTTTATT
135692 TAAATAAAT-TTTTAATTTT-T-ATTTTACATT
1 TAAATAAATCTTTTAATTTTATAATTTT--ATT
* * * *
135722 CAAATAAAT-ATTTAACTTTTA-ACTTTTATC
1 TAAATAAATCTTTTAA-TTTTATAATTTTATT
135752 TAAAT-AATCTTTTAA
1 TAAATAAATCTTTTAA
135767 CCCTTAATGT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
28 5 0.08
29 4 0.07
30 36 0.59
31 12 0.20
32 4 0.07
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.52
Consensus pattern (31 bp):
TAAATAAATCTTTTAATTTTATAATTTTATT
Found at i:136335 original size:25 final size:24
Alignment explanation
Indices: 136304--136370 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
136294 TAAATATCAA
136304 AAATTAAAAATAATAAAATTATTT
1 AAATTAAAAATAATAAAATTATTT
*
136328 AAACTTAAAAAATAA-AAATTTATTT
1 AAA-TT-AAAAATAATAAAATTATTT
*
136353 AAA-T-AAAATTATAAAATT
1 AAATTAAAAATAATAAAATT
136371 TAAGGAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 6 0.16
22 5 0.14
23 1 0.03
24 3 0.08
25 14 0.38
26 8 0.22
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATTAAAAATAATAAAATTATTT
Found at i:136344 original size:32 final size:34
Alignment explanation
Indices: 136272--136346 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 34
136262 TGTTTATTTT
*
136272 AAAT-AAAATATTAAAATTTAGTTAAATATCAAA
1 AAATAAAAATAATAAAATTTAGTTAAATATCAAA
* *
136305 AATTAAAAATAATAAAA-TTATTTAAACT-T-AAA
1 AAATAAAAATAATAAAATTTAGTTAAA-TATCAAA
136337 AAATAAAAAT
1 AAATAAAAAT
136347 TTATTTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 12 0.33
33 12 0.33
34 12 0.33
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (34 bp):
AAATAAAAATAATAAAATTTAGTTAAATATCAAA
Found at i:136368 original size:23 final size:24
Alignment explanation
Indices: 136310--136372 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
136300 TCAAAAATTA
136310 AAAATAATAAAA-TTATTTAAACTT
1 AAAATAATAAAATTTATTTAAAC-T
136334 AAAA-AATAAAAATTTATTTAAA-T
1 AAAATAAT-AAAATTTATTTAAACT
*
136357 AAAATTATAAAATTTA
1 AAAATAATAAAATTTA
136373 AGGAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 16 0.46
24 10 0.29
25 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATAATAAAATTTATTTAAACT
Found at i:144789 original size:11 final size:11
Alignment explanation
Indices: 144773--144836 Score: 60
Period size: 11 Copynumber: 6.0 Consensus size: 11
144763 TATCAAAATT
144773 ATATAAATATA
1 ATATAAATATA
* *
144784 AAAT-AATTTA
1 ATATAAATATA
* *
144794 ACATAATTATA
1 ATATAAATATA
*
144805 ATATAAAAAT-
1 ATATAAATATA
*
144815 ATATAAATATG
1 ATATAAATATA
144826 ATATAAATATA
1 ATATAAATATA
144837 CGAATTTTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
10 17 0.41
11 24 0.59
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (11 bp):
ATATAAATATA
Found at i:146470 original size:23 final size:23
Alignment explanation
Indices: 146444--146505 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
146434 TATTCATTTG
146444 ATAAAAATATTTTAAAT-TTAATT
1 ATAAAAATATTTTAAATATTAA-T
*
146467 ATAAAAATA-TATAAATATTAAT
1 ATAAAAATATTTTAAATATTAAT
146489 ATAAAATAATATTTTAA
1 AT-AAA-AATATTTTAA
146506 TACTTTCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 9 0.27
23 16 0.48
24 4 0.12
25 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAAAAATATTTTAAATATTAAT
Found at i:146481 original size:22 final size:23
Alignment explanation
Indices: 146444--146494 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
146434 TATTCATTTG
*
146444 ATAAAAATATTTTAAAT-TTAATT
1 ATAAAAATATTATAAATATTAA-T
146467 ATAAAAATA-TATAAATATTAAT
1 ATAAAAATATTATAAATATTAAT
146489 ATAAAA
1 ATAAAA
146495 TAATATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAAAAATATTATAAATATTAAT
Found at i:146500 original size:22 final size:22
Alignment explanation
Indices: 146447--146500 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
146437 TCATTTGATA
* *
146447 AAAATATTTTAAATTTAATTAT
1 AAAATAATATAAATTTAATTAT
146469 AAAA-ATATATAAATATTAA-TAT
1 AAAATA-ATATAAAT-TTAATTAT
146491 AAAATAATAT
1 AAAATAATAT
146501 TTTAATACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 1 0.04
22 21 0.78
23 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATAATATAAATTTAATTAT
Found at i:147276 original size:22 final size:21
Alignment explanation
Indices: 147248--147289 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
147238 TTATTAAAAA
147248 ATAT-TTTTATA-TTAATATTT
1 ATATATTTTATAGTTAA-ATTT
147268 ATATATTTTATAGTTAAATTT
1 ATATATTTTATAGTTAAATTT
147289 A
1 A
147290 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAGTTAAATTT
Found at i:147750 original size:18 final size:16
Alignment explanation
Indices: 147718--147748 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
147708 TTTCATTTTT
147718 ATATTATATTTATATC
1 ATATTATATTTATATC
*
147734 ATATTATATATATAT
1 ATATTATATTTATAT
147749 ATAGGTAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTATATTTATATC
Found at i:149745 original size:28 final size:27
Alignment explanation
Indices: 149713--149784 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 27
149703 TTTATTCGAC
149713 TTAAATATTATTTAAAATAAAAAATTAT
1 TTAAATATTATTTAAAATAAAAAA-TAT
149741 TTAAAT-TTATTT---AT-AAAAATAT
1 TTAAATATTATTTAAAATAAAAAATAT
*
149763 ATAAATATTAATTTAAACATAA
1 TTAAATATT-ATTTAAA-ATAA
149785 TTTTTTAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 13
0.72 0.02 0.26
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 6 0.17
27 6 0.17
28 8 0.22
29 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
TTAAATATTATTTAAAATAAAAAATAT
Found at i:150229 original size:13 final size:13
Alignment explanation
Indices: 150197--150239 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
150187 ATTAAAAAAG
150197 TAAATTTAATATT
1 TAAATTTAATATT
* *
150210 CAGATTTAATATT
1 TAAATTTAATATT
150223 TAAATTT-ATAATT
1 TAAATTTAAT-ATT
150236 TAAA
1 TAAA
150240 ACTATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (13 bp):
TAAATTTAATATT
Found at i:150482 original size:2 final size:2
Alignment explanation
Indices: 150475--150500 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
150465 TTAGTCAAAT
150475 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
150501 AACAGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:153974 original size:5 final size:6
Alignment explanation
Indices: 153938--153974 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
153928 TAATTTTAAA
153938 AAATTT AAAATTT AAATTT AAATTT AAATTT -AATTT A
1 AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT A
153975 GTTTGATCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
AAATTT
Found at i:154075 original size:19 final size:21
Alignment explanation
Indices: 154051--154099 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
154041 ATATCGATAT
154051 ATATTA-AAATTAAATAAA-A
1 ATATTATAAATTAAATAAATA
*
154070 ATATTATTTAATTAAATAAATA
1 ATATTA-TAAATTAAATAAATA
154092 ATATTATA
1 ATATTATA
154100 TTTAGATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
21 12 0.48
22 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATTATAAATTAAATAAATA
Found at i:154077 original size:22 final size:22
Alignment explanation
Indices: 154047--154098 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
154037 ATTAATATCG
154047 ATATATATTAAAATTAAATAAA-A
1 ATAT-TATT-AAATTAAATAAATA
*
154070 ATATTATTTAATTAAATAAATA
1 ATATTATTAAATTAAATAAATA
154092 ATATTAT
1 ATATTAT
154099 ATTTAGATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.41
22 12 0.44
23 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATTATTAAATTAAATAAATA
Found at i:154082 original size:21 final size:22
Alignment explanation
Indices: 154058--154098 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
154048 TATATATTAA
154058 AATTAAATAAA-AATATTATTT
1 AATTAAATAAATAATATTATTT
154079 AATTAAATAAATAATATTAT
1 AATTAAATAAATAATATTAT
154099 ATTTAGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTAAATAAATAATATTATTT
Found at i:154162 original size:2 final size:2
Alignment explanation
Indices: 154155--154194 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
154145 CTAATGCTTT
154155 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
154195 AGCAAAGGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:154281 original size:2 final size:2
Alignment explanation
Indices: 154267--154302 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
154257 TATATTTTTA
*
154267 AT AT AT -T AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
154303 GATAGATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:154466 original size:21 final size:21
Alignment explanation
Indices: 154417--154467 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
154407 TAATTAACAT
*
154417 ATTAAAATT-TTATTTTTATA
1 ATTAAATTTATTATTTTTATA
*
154437 A-AAATATTTATTATTTTTATA
1 ATTAA-ATTTATTATTTTTATA
154458 ATTAAATTTA
1 ATTAAATTTA
154468 AATAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.08
20 4 0.16
21 17 0.68
22 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTAAATTTATTATTTTTATA
Found at i:155619 original size:28 final size:29
Alignment explanation
Indices: 155547--155619 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
155537 TTAAATCATT
*
155547 ATTTATAAAATTAATATAAATAATTTTAA
1 ATTTATAAAATTATTATAAATAATTTTAA
* * *
155576 ATTT-TAAATTTTTTATGAA-AA-TTTAA
1 ATTTATAAAATTATTATAAATAATTTTAA
155602 ATATTATAAAATTATTAT
1 AT-TTATAAAATTATTAT
155620 TTTTAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
26 7 0.19
27 4 0.11
28 21 0.58
29 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
ATTTATAAAATTATTATAAATAATTTTAA
Found at i:160927 original size:127 final size:128
Alignment explanation
Indices: 160779--161031 Score: 427
Period size: 127 Copynumber: 2.0 Consensus size: 128
160769 TTAAATATAT
* * *
160779 TTTTAAATTTATATTCTTAAATTTTTAATATTAATTTTAAATTAAACAAGTTTATATGAACTTTC
1 TTTTAAA-TTATATTCTTAAATTGTTAACATTAATTTTAAATTAAACAAGTTCATATGAACTTTC
* *
160844 ATTAGCAAACTATACCAAACTTGATTCGATCTAATCTATAGATACTTAAAATCAAATATATTTA
65 ATTAGCAAACCATACCAAACTTGATTCGATCTAATCCATAGATACTTAAAATCAAATATATTTA
* *
160908 TTTTAAA-TATATTTTTAAATTGTTAACATTAATTTTAAATTAAACGAGTTCATATGAACTTTCA
1 TTTTAAATTATATTCTTAAATTGTTAACATTAATTTTAAATTAAACAAGTTCATATGAACTTTCA
160972 TTAGCAAACCATACCAAACTTGATTCGATCTAATCCATAGATACTTAAAATCAAATATAT
66 TTAGCAAACCATACCAAACTTGATTCGATCTAATCCATAGATACTTAAAATCAAATATAT
161032 AACTGACCAT
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
127 110 0.94
129 7 0.06
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (128 bp):
TTTTAAATTATATTCTTAAATTGTTAACATTAATTTTAAATTAAACAAGTTCATATGAACTTTCA
TTAGCAAACCATACCAAACTTGATTCGATCTAATCCATAGATACTTAAAATCAAATATATTTA
Found at i:161318 original size:25 final size:26
Alignment explanation
Indices: 161277--161335 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 26
161267 ATTTTTCACT
* *
161277 TTTATAATATAATATAT-TATTTTTTA
1 TTTAT-ATATAATATATGTAATTTATA
161303 TTTATATATAGA-ATATGTAATTTATA
1 TTTATATATA-ATATATGTAATTTATA
161329 -TTATATA
1 TTTATATA
161336 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (26 bp):
TTTATATATAATATATGTAATTTATA
Found at i:162774 original size:2 final size:2
Alignment explanation
Indices: 162769--162795 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
162759 ATATATATAT
162769 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
162796 AATCATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:164254 original size:17 final size:17
Alignment explanation
Indices: 164232--164267 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
164222 AAAAAATTGA
164232 ACATACCAGTATCAGAC
1 ACATACCAGTATCAGAC
* *
164249 ACATACCTGTATCTGAC
1 ACATACCAGTATCAGAC
164266 AC
1 AC
164268 TCATATCTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.31, G:0.11, T:0.22
Consensus pattern (17 bp):
ACATACCAGTATCAGAC
Found at i:166356 original size:2 final size:2
Alignment explanation
Indices: 166351--166387 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
166341 TGAAAAAAAT
166351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
166388 GGATTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:167069 original size:20 final size:21
Alignment explanation
Indices: 167044--167083 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
167034 AAAAATAAAT
* *
167044 TTTAAA-AATTATTTTAATTA
1 TTTAAATAATAATTTAAATTA
167064 TTTAAATAATAATTTAAATT
1 TTTAAATAATAATTTAAATT
167084 TAATTAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAAATAATAATTTAAATTA
Found at i:167283 original size:15 final size:15
Alignment explanation
Indices: 167233--167284 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
167223 TAATAACTCG
*
167233 AATTAGAAATAATTAA
1 AATTAAAAATAATT-A
167249 AATTAAAAATAATATA
1 AATTAAAAATAAT-TA
*
167265 AATTCAAAATAATTA
1 AATTAAAAATAATTA
167280 AATTA
1 AATTA
167285 GATAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 6 0.19
16 25 0.78
17 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
AATTAAAAATAATTA
Found at i:167410 original size:15 final size:15
Alignment explanation
Indices: 167392--167490 Score: 103
Period size: 15 Copynumber: 6.5 Consensus size: 15
167382 AATTTACTCA
167392 AAATTAAAATAATTT
1 AAATTAAAATAATTT
*
167407 AAATTTAAAATTATTT
1 AAA-TTAAAATAATTT
167423 AAAATT-AAATAATTT
1 -AAATTAAAATAATTT
167438 AAATTTAAAAATAATTT
1 AAA-TT-AAAATAATTT
* *
167455 AAAATATAA-AATTT
1 AAATTAAAATAATTT
**
167469 AAATTAATTTAATTT
1 AAATTAAAATAATTT
167484 AAATTAA
1 AAATTAA
167491 TTTTATAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
14 13 0.19
15 28 0.40
16 14 0.20
17 15 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATTAAAATAATTT
Found at i:167447 original size:31 final size:31
Alignment explanation
Indices: 167374--167473 Score: 116
Period size: 31 Copynumber: 3.2 Consensus size: 31
167364 AACTTACATA
* * *
167374 TTAAATTT-AATTTACTCAAAATTAAAATAAT
1 TTAAATTTAAAATTATTTAAAATT-AAATAAT
167405 TTAAATTTAAAATTATTTAAAATTAAATAAT
1 TTAAATTTAAAATTATTTAAAATTAAATAAT
*
167436 TTAAATTTAAAAATAATTTAAAA-TATAA-AAT
1 TTAAATTT-AAAATTATTTAAAATTA-AATAAT
167467 TTAAATT
1 TTAAATT
167474 AATTTAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
31 35 0.56
32 27 0.44
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (31 bp):
TTAAATTTAAAATTATTTAAAATTAAATAAT
Found at i:167449 original size:32 final size:31
Alignment explanation
Indices: 167391--167490 Score: 118
Period size: 31 Copynumber: 3.3 Consensus size: 31
167381 TAATTTACTC
*
167391 AAAATTAAAATAATTTAAATTTAAAATTATTT
1 AAAATT-AAATAATTTAAATTTAAAATAATTT
167423 AAAATTAAATAATTTAAATTTAAAAATAATTT
1 AAAATTAAATAATTTAAATTT-AAAATAATTT
**
167455 AAAA-TATAA-AATTTAAA-TTAATTTAATTT
1 AAAATTA-AATAATTTAAATTTAAAATAATTT
167484 -AAATTAA
1 AAAATTAA
167491 TTTTATAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
28 4 0.06
29 10 0.16
30 2 0.03
31 25 0.40
32 21 0.34
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
AAAATTAAATAATTTAAATTTAAAATAATTT
Found at i:167754 original size:3 final size:3
Alignment explanation
Indices: 167746--167770 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
167736 GTGGTCCTCA
167746 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
167771 CCACCAGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:167838 original size:3 final size:3
Alignment explanation
Indices: 167830--167855 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
167820 GCTTTCTTTT
167830 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
167856 ATTATTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:168725 original size:16 final size:16
Alignment explanation
Indices: 168704--168734 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
168694 GAACTCGAAG
168704 TCGAAATAACATGAAC
1 TCGAAATAACATGAAC
*
168720 TCGAAATAACCTGAA
1 TCGAAATAACATGAA
168735 AAATTAACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
TCGAAATAACATGAAC
Found at i:168898 original size:22 final size:22
Alignment explanation
Indices: 168870--168921 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
168860 TGCAATTATA
168870 TGTGTGTGTTGATGTGAATGTC
1 TGTGTGTGTTGATGTGAATGTC
168892 TGTGTGTGTTGATGTGAATGTC
1 TGTGTGTGTTGATGTGAATGTC
168914 TGTGTGTG
1 TGTGTGTG
168922 CATGTAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.12, C:0.04, G:0.38, T:0.46
Consensus pattern (22 bp):
TGTGTGTGTTGATGTGAATGTC
Found at i:180157 original size:52 final size:52
Alignment explanation
Indices: 180079--180182 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
180069 TAGAAGTGTA
180079 ACTTCTCTTTCTGTCATCCAACTTTCCCTTTATATTCCATTGTAAAATATCT
1 ACTTCTCTTTCTGTCATCCAACTTTCCCTTTATATTCCATTGTAAAATATCT
180131 ACTTCTCTTTCTGTCATCCAACTTTCCCTTTATATTCCATTGTAAAATATCT
1 ACTTCTCTTTCTGTCATCCAACTTTCCCTTTATATTCCATTGTAAAATATCT
180183 TTAACTCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.23, C:0.27, G:0.04, T:0.46
Consensus pattern (52 bp):
ACTTCTCTTTCTGTCATCCAACTTTCCCTTTATATTCCATTGTAAAATATCT
Found at i:182707 original size:2 final size:2
Alignment explanation
Indices: 182700--182805 Score: 95
Period size: 2 Copynumber: 53.0 Consensus size: 2
182690 ATTACCATAC
* * * * * * *
182700 AT AT AT AT AT AT AT GT GT GT AT AT GT GT AT AT AT GT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
182742 AT AT AT AT AT GT AT AT GT AT AT AT AT AT AT AT GT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
182784 AT AT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
182806 GAAAAACTTG
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (2 bp):
AT
Found at i:182744 original size:22 final size:22
Alignment explanation
Indices: 182700--182799 Score: 128
Period size: 22 Copynumber: 4.5 Consensus size: 22
182690 ATTACCATAC
* *
182700 ATATATATATATATGTGTGTAT
1 ATATATATATATATGTATATAT
* * *
182722 ATGTGTATATATGTGTATATAT
1 ATATATATATATATGTATATAT
*
182744 ATATATATGTATATGTATATAT
1 ATATATATATATATGTATATAT
*
182766 ATATATATGTATATGTATATAT
1 ATATATATATATATGTATATAT
*
182788 ATATATGTATAT
1 ATATATATATAT
182800 GTATATGAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 67 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (22 bp):
ATATATATATATATGTATATAT
Found at i:182784 original size:20 final size:20
Alignment explanation
Indices: 182701--182805 Score: 124
Period size: 20 Copynumber: 5.2 Consensus size: 20
182691 TTACCATACA
* * *
182701 TATATATATATATGTGTGTA
1 TATATATATATATGTATATG
* * *
182721 TATGTGTATATATGTGTA--
1 TATATATATATATGTATATG
182739 TATATATATATATGTATATG
1 TATATATATATATGTATATG
182759 TATATATATATATATGTATATG
1 --TATATATATATATGTATATG
182781 TATATATATATATGTATATG
1 TATATATATATATGTATATG
182801 TATAT
1 TATAT
182806 GAAAAACTTG
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
18 15 0.20
20 40 0.53
22 20 0.27
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.50
Consensus pattern (20 bp):
TATATATATATATGTATATG
Found at i:184251 original size:21 final size:21
Alignment explanation
Indices: 184225--184267 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
184215 GTCGAACTCG
184225 AACCTAAACAAAAGGCCTTCT
1 AACCTAAACAAAAGGCCTTCT
184246 AACCTAAACAAAAGGCCTTCT
1 AACCTAAACAAAAGGCCTTCT
184267 A
1 A
184268 GCTTGATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.28, G:0.09, T:0.19
Consensus pattern (21 bp):
AACCTAAACAAAAGGCCTTCT
Found at i:187556 original size:24 final size:25
Alignment explanation
Indices: 187529--187578 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
187519 TAAAATATAA
187529 GTTAG-TTATATATGTTAGTATTGT
1 GTTAGATTATATATGTTAGTATTGT
187553 GTTAGTATTATATATGTTAGTATTGT
1 GTTAG-ATTATATATGTTAGTATTGT
187579 TTTTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.21
26 19 0.79
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (25 bp):
GTTAGATTATATATGTTAGTATTGT
Found at i:188136 original size:2 final size:2
Alignment explanation
Indices: 188124--188157 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
188114 ATTACTACTC
*
188124 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
188158 TTTAGAGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:188353 original size:21 final size:21
Alignment explanation
Indices: 188300--188348 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
188290 ATTCACTAGC
*
188300 ATTTATATCTTTTAATTTTTTTA
1 ATTTA-AT-TTTTAATTTTTATA
188323 ATTTAATTTTTAATTTTTAATA
1 ATTTAATTTTTAATTTTT-ATA
188345 ATTT
1 ATTT
188349 TTTTTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
22 8 0.33
23 5 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTAATTTTTAATTTTTATA
Found at i:188437 original size:16 final size:17
Alignment explanation
Indices: 188416--188454 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
188406 TACTATAATT
*
188416 TATAAATTACAAGAT-A
1 TATAAATTACAAAATAA
188432 TATAAA-TACAAAATAA
1 TATAAATTACAAAATAA
188448 TATAAAT
1 TATAAAT
188455 ATTGATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (17 bp):
TATAAATTACAAAATAA
Found at i:188909 original size:20 final size:19
Alignment explanation
Indices: 188869--188917 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
188859 ATATCAGATG
*
188869 TAAACAT-AACATAATTAA
1 TAAACATAAAAATAATTAA
188887 TAAACATAAAAATAATATAA
1 TAAACATAAAAATAAT-TAA
*
188907 TAAAAATAAAA
1 TAAACATAAAA
188918 TAAATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 7 0.26
19 7 0.26
20 13 0.48
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAACATAAAAATAATTAA
Found at i:189217 original size:16 final size:16
Alignment explanation
Indices: 189198--189236 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
189188 TAATGGTTTA
*
189198 AATTTGAAATAAATT-G
1 AATTTAAAAT-AATTCG
189214 AATTTAAAATAATTCG
1 AATTTAAAATAATTCG
189230 AATTTAA
1 AATTTAA
189237 TTAATCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (16 bp):
AATTTAAAATAATTCG
Found at i:189276 original size:22 final size:22
Alignment explanation
Indices: 189194--189276 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 22
189184 TTCGTAATGG
*
189194 TTTAAATTTGAAA-TAAATTGAA
1 TTTAAATTTGAAATTTAATT-AA
189216 TTTAAAATAATTCG-AATTTAATTAA
1 TTT-AAAT--TT-GAAATTTAATTAA
* * * *
189241 TCTAAGTATCAAATTTAATTAA
1 TTTAAATTTGAAATTTAATTAA
189263 TTTAAATTTGAAAT
1 TTTAAATTTGAAAT
189277 AATTCAAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
22 25 0.54
23 4 0.09
24 3 0.07
25 8 0.17
26 6 0.13
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (22 bp):
TTTAAATTTGAAATTTAATTAA
Found at i:189342 original size:15 final size:17
Alignment explanation
Indices: 189315--189361 Score: 73
Period size: 15 Copynumber: 2.9 Consensus size: 17
189305 ATTTATAATC
189315 TAATTTAAAATTAAATT
1 TAATTTAAAATTAAATT
189332 T-ATTT-AAATT-AATT
1 TAATTTAAAATTAAATT
189346 TAATTTAAAATTAAAT
1 TAATTTAAAATTAAAT
189362 CGACCTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.19
15 9 0.33
16 9 0.33
17 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTTAAAATTAAATT
Found at i:189604 original size:19 final size:20
Alignment explanation
Indices: 189561--189601 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
189551 ATAAAAATAT
189561 TAAATAT-TTTTATATTTAA
1 TAAATATATTTTATATTTAA
189580 TAAATATATTTT-TATTT-A
1 TAAATATATTTTATATTTAA
189598 TAAA
1 TAAA
189602 ATAATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAATATATTTTATATTTAA
Found at i:190564 original size:3 final size:3
Alignment explanation
Indices: 190556--190587 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
190546 AAACAAAAGC
190556 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
190588 GCTCAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:190894 original size:18 final size:18
Alignment explanation
Indices: 190873--190914 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
190863 ATTTAAATTT
* *
190873 AATTATAAAATATATATA
1 AATTATAAAATAAAAATA
*
190891 AATTATAATATAAAAATA
1 AATTATAAAATAAAAATA
190909 AATTAT
1 AATTAT
190915 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTATAAAATAAAAATA
Found at i:193254 original size:15 final size:15
Alignment explanation
Indices: 193234--193294 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
193224 AGCTCTGAAT
193234 AATCTAAATTTAAAA
1 AATCTAAATTTAAAA
193249 AATCTAACA-TT-AAA
1 AATCTAA-ATTTAAAA
** *
193263 CTTTTAAATTTAAAA
1 AATCTAAATTTAAAA
*
193278 TAATCTAAATTCAAAA
1 -AATCTAAATTTAAAA
193294 A
1 A
193295 CAATCAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
13 1 0.03
14 9 0.26
15 13 0.37
16 12 0.34
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
AATCTAAATTTAAAA
Found at i:194076 original size:28 final size:27
Alignment explanation
Indices: 194020--194076 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
194010 ACAAAACGAA
* *
194020 TTTAAATAAAAAATATTATATACATAT
1 TTTAAATAAAAAATATTATATAAAAAT
* *
194047 TTTAAATAAAATATTATTTTATAAAAAT
1 TTTAAATAAAA-AATATTATATAAAAAT
194075 TT
1 TT
194077 AGTTTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TTTAAATAAAAAATATTATATAAAAAT
Found at i:194077 original size:27 final size:27
Alignment explanation
Indices: 194018--194077 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
194008 AAACAAAACG
*
194018 AATTTAAATAAAAAATATTATATACAT
1 AATTTAAATAAAAAATATTATATACAA
* * *
194045 ATTTTAAATAAAATATTATTTTATA-AA
1 AATTTAAATAAAA-AATATTATATACAA
194072 AATTTA
1 AATTTA
194078 GTTTTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
AATTTAAATAAAAAATATTATATACAA
Found at i:194406 original size:2 final size:2
Alignment explanation
Indices: 194358--194396 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
194348 GCTATACCTG
194358 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
194397 GCAAATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:194577 original size:22 final size:23
Alignment explanation
Indices: 194552--194610 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
194542 ACTAAACTTT
*
194552 TTTTATTATATAATATTTTAT-A
1 TTTTATTATATAATATTATATAA
*
194574 TTTTA-TATTTATATATTATATAA
1 TTTTATTATATA-ATATTATATAA
*
194597 TTTACATTATATAA
1 TTT-TATTATATAA
194611 AGATTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 5 0.17
22 13 0.45
23 4 0.14
24 2 0.07
25 5 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTATTATATAATATTATATAA
Found at i:194586 original size:13 final size:13
Alignment explanation
Indices: 194557--194594 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
194547 ACTTTTTTTA
*
194557 TTATATAATAT-T
1 TTATATATTATAT
*
194569 TTATATTTTATAT
1 TTATATATTATAT
194582 TTATATATTATAT
1 TTATATATTATAT
194595 AATTTACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATATTATAT
Found at i:203799 original size:28 final size:28
Alignment explanation
Indices: 203712--204408 Score: 283
Period size: 28 Copynumber: 23.9 Consensus size: 28
203702 TCCACGATTT
* * *
203712 AGTGGCAGCACTTTTTAAGTCCACAACTTC
1 AGTGGCA-CCCTTTTAAAGCCCACAAC-TC
203742 -GTGGCACCCTTTT-AAGCCCACAACTC
1 AGTGGCACCCTTTTAAAGCCCACAACTC
* *
203768 TGTGGCACCCTTTTAAAGTCCACAACTC
1 AGTGGCACCCTTTTAAAGCCCACAACTC
* * * * *
203796 TGTGGCACCTTTTTAAAGACCATAAGTC
1 AGTGGCACCCTTTTAAAGCCCACAACTC
* * *
203824 AGTGGCATCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTTAAAGCCCACAACTC
* * *
203852 AGTAGCACCCCTTTTTAAGCCCACAAGTC
1 AGTGGCA-CCCTTTTAAAGCCCACAACTC
* * * *
203881 AGTGGCATCATTTCAAAGCCTACACAAGTC
1 AGTGGCACCCTTTTAAAGCC--CACAACTC
* * * *
203911 AATGGCAACTCATTTGAAAGCCCACACAAGT-
1 AGTGGC-AC-CCTTTTAAAG-CC-CACAACTC
* * *
203942 TGTTGGCAACCCATTTGAAAGCCCACACAAGTC
1 AG-TGGC-ACCC-TTTTAAAG-CC-CACAACTC
* * * * *
203975 AATGGCATCATTTCAAAGCCCATACAAGTC
1 AGTGGCACCCTTTTAAAGCCC--ACAACTC
* * * * *
204005 GGTGACAACTCATTTGAAAGCCCACACAAGTC
1 AGTGGC-AC-CCTTTTAAAG-CC-CACAACTC
* * *
204037 GGTGGCAACCTATTTCAAAGCCCACATAAGTC
1 AGTGGCACCCT-TTT-AAAGCCCAC--AACTC
* * * *
204069 GGTGACAACCCATTTCAAAGCCCACAAGTC
1 AGTGGC-ACCC-TTTTAAAGCCCACAACTC
* * * *
204099 AGTGGCATCCTTCTCAAAACCCACACAAATC
1 AGTGGCACCCTT-T-TAAAGCC-CACAACTC
* *
204130 AGTGGCA-TCTTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTT-AAAGCCCACAACTC
* * *
204158 AGTGGCA-TCTTTTCAAATCCCACAAGTC
1 AGTGGCACCCTTTT-AAAGCCCACAACTC
* * *
204186 AGTGGCATCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTTAAAGCCCACAACTC
* ** * * *
204214 AGTTGCATGCTTCTCAAAG-CCACAAGTT
1 AGTGGCACCCTT-TTAAAGCCCACAACTC
* * *
204242 AGTGGCATCCTTCTCAAAGCCCACACAAATC
1 AGTGGCACCCTT-TTAAAG-CC-CACAACTC
* * *
204273 AGTGGCATCTTTTTAAAGCCCACAAATC
1 AGTGGCACCCTTTTAAAGCCCACAACTC
* * *
204301 AGTGGCA-TCTTTTCAAAGTCCACAAGTC
1 AGTGGCACCCTTTT-AAAGCCCACAACTC
* * *
204329 AGTGGCATCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTTAAAGCCCACAACTC
* * * *
204357 AGTGGCATCCTTTCAAAGCCCATAAGTC
1 AGTGGCACCCTTTTAAAGCCCACAACTC
* * * *
204385 ATTGGCATCCTTTCAAGGCCCACA
1 AGTGGCACCCTTTTAAAGCCCACA
204409 TAAGTTGGTG
Statistics
Matches: 554, Mismatches: 79, Indels: 70
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.00
27 27 0.05
28 266 0.48
29 58 0.10
30 58 0.10
31 41 0.07
32 91 0.16
33 9 0.02
34 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (28 bp):
AGTGGCACCCTTTTAAAGCCCACAACTC
Found at i:203931 original size:32 final size:32
Alignment explanation
Indices: 203819--204378 Score: 358
Period size: 28 Copynumber: 18.9 Consensus size: 32
203809 TAAAGACCAT
*
203819 AAGTCAGTGGC-A-TCCTTTCAAAG-CC-CAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
* * * **
203847 AAGTCAGTAGC-ACCCCTTTTTAAG-CC-CAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
*
203876 AAGTCAGTGGC-A-TCATTTCAAAGCCTACAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
* *
203906 AAGTCAATGGCAACTCATTTGAAAGCCCACAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
* * *
203938 AAGT-TGTTGGCAACCCATTTGAAAGCCCACAC
1 AAGTCAG-TGGCAACTCATTTCAAAGCCCACAC
* *
203970 AAGTCAATGGC-A-TCATTTCAAAGCCCATAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
* * *
204000 AAGTCGGTGACAACTCATTTGAAAGCCCACAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
* *
204032 AAGTCGGTGGCAAC-CTATTTCAAAGCCCACAT
1 AAGTCAGTGGCAACTC-ATTTCAAAGCCCACAC
* * *
204064 AAGTCGGTGACAACCCATTTCAAAG-CC-CAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
* *
204094 AAGTCAGTGGC-A-TCCTTCTCAAAACCCACAC
1 AAGTCAGTGGCAACTCATT-TCAAAGCCCACAC
* *
204125 AAATCAGTGGC-A-TCTTTTCAAAG-CC-CAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
* *
204153 AAGTCAGTGGC-A-TCTTTTCAAA-TCC-CAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
*
204181 AAGTCAGTGGC-A-TCCTTTCAAAG-CC-CAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
*
204209 AAGTCAGTTGC-A-TGC-TTCTCAAAG--C-CAC
1 AAGTCAGTGGCAACT-CATT-TCAAAGCCCACAC
* *
204237 AAGTTAGTGGC-A-TCCTTCTCAAAGCCCACAC
1 AAGTCAGTGGCAACTCATT-TCAAAGCCCACAC
* * *
204268 AAATCAGTGGC-A-TCTTTTTAAAGCCCACA-
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
* *
204297 AA-TCAGTGGC-A-TCTTTTCAAAG-TC-CAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
*
204324 AAGTCAGTGGC-A-TCCTTTCAAAG-CC-CAC
1 AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
*
204352 AAGTCAGTGGC-A-TCCTTTCAAAGCCCA
1 AAGTCAGTGGCAACTCATTTCAAAGCCCA
204379 TAAGTCATTG
Statistics
Matches: 454, Mismatches: 52, Indels: 50
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.00
27 4 0.01
28 179 0.39
29 44 0.10
30 66 0.15
31 41 0.09
32 117 0.26
33 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (32 bp):
AAGTCAGTGGCAACTCATTTCAAAGCCCACAC
Found at i:203970 original size:64 final size:64
Alignment explanation
Indices: 203889--204126 Score: 274
Period size: 62 Copynumber: 3.8 Consensus size: 64
203879 TCAGTGGCAT
* * * * *
203889 CATTTCAAAGCCTACACAAGTCAATGGCAACTCATTTGAAAGCCCACACAAGTTGTTGGCAACC
1 CATTTCAAAGCCCACACAAGTCAATGGCAACTCATTTCAAAGCCCACACAAGTCGGTGACAACC
* * *
203953 CATTTGAAAGCCCACACAAGTCAATGGC-A-TCATTTCAAAGCCCATACAAGTCGGTGACAACT
1 CATTTCAAAGCCCACACAAGTCAATGGCAACTCATTTCAAAGCCCACACAAGTCGGTGACAACC
* ** *
204015 CATTTGAAAGCCCACACAAGTCGGTGGCAAC-CTATTTCAAAGCCCACATAAGTCGGTGACAACC
1 CATTTCAAAGCCCACACAAGTCAATGGCAACTC-ATTTCAAAGCCCACACAAGTCGGTGACAACC
* * *
204079 CATTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTCTCAAAACCCACACAA
1 CATTTCAAAGCCCACACAAGTCAATGGCAACTCATT-TCAAAGCCCACACAA
204127 ATCAGTGGCA
Statistics
Matches: 151, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
60 2 0.01
61 15 0.10
62 66 0.44
63 5 0.03
64 63 0.42
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (64 bp):
CATTTCAAAGCCCACACAAGTCAATGGCAACTCATTTCAAAGCCCACACAAGTCGGTGACAACC
Found at i:204096 original size:94 final size:92
Alignment explanation
Indices: 203873--204363 Score: 310
Period size: 94 Copynumber: 5.5 Consensus size: 92
203863 TTTTTAAGCC
* * * *
203873 CACAAGTCAGTGGCATCATTTCAAAGCCTACACAAGTCAATGGCAACTCATTTGAAAGCCCACAC
1 CACAAGTCAATGACACCATTTCAAAGCC--CACAAGTCAGTGGCAACTCATTTGAAAGCCCACAC
* * * *
203938 AAGTTGTTGGCAACCCATTTGAAAGCCCA
64 AAGTCGGTGGCAACCTATTTCAAAGCCCA
* * * *
203967 CACAAGTCAATGGCATCATTTCAAAGCCCATACAAGTCGGTGACAACTCATTTGAAAGCCCACAC
1 CACAAGTCAATGACACCATTTCAAAGCCC--ACAAGTCAGTGGCAACTCATTTGAAAGCCCACAC
204032 AAGTCGGTGGCAACCTATTTCAAAGCCCA
64 AAGTCGGTGGCAACCTATTTCAAAGCCCA
* ** * * *
204061 CATAAGTCGGTGACAACCCATTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTCTCAAAACCCACA
1 CACAAGTCAATGAC-A-CCATTTCAAAGCCCACAAGTCAGTGGCAACTCATT-TGAAAGCCCACA
* * *
204124 CAAATCAGTGGC-ATCT-TTTCAAAG-CC-
63 CAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * * * * * *
204150 CACAAGTCAGTGGCATCTTTTCAAATCCCACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-CACAA
1 CACAAGTCAATGACACCATTTCAAAGCCCACAAGTCAGTGGCAACTCATTTGAAAGCCCACACAA
* * ** *
204211 GTCAGTTGCATGCT-TCTCAAAG--C-
66 GTCGGTGGCAACCTATTTCAAAGCCCA
* * * * * *
204234 CACAAGTTAGTGGCATCC-TTCTCAAAGCCCACACAAATCAGTGGC-A-TCTTTTTAAAGCCCAC
1 CACAAGTCAATGACA-CCATT-TCAAAG-CC-CACAAGTCAGTGGCAACTCATTTGAAAGCCCAC
* * *
204296 A-AA-TCAGTGGC-ATCT-TTTCAAAG-TC-
62 ACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
204321 CACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCA
1 CACAAGTCAATGACA-CCATTTCAAAGCCCACAAGTCAGTGGCA
204364 TCCTTTCAAA
Statistics
Matches: 338, Mismatches: 45, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
84 42 0.12
85 19 0.06
86 22 0.07
87 80 0.24
88 5 0.01
89 13 0.04
90 2 0.01
91 8 0.02
92 8 0.02
93 21 0.06
94 104 0.31
95 1 0.00
96 13 0.04
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.22
Consensus pattern (92 bp):
CACAAGTCAATGACACCATTTCAAAGCCCACAAGTCAGTGGCAACTCATTTGAAAGCCCACACAA
GTCGGTGGCAACCTATTTCAAAGCCCA
Found at i:204269 original size:115 final size:114
Alignment explanation
Indices: 203742--204408 Score: 578
Period size: 115 Copynumber: 5.7 Consensus size: 114
203732 CCACAACTTC
* * * * * * * * * *
203742 GTGGCACCCTTT-TAAGCCCACAACTCTGTGGCACCCTTTTAAAG-TC-CACAACTCTGTGGCAC
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCAT
* * *
203804 CTTTTTAAAGACCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
66 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * ** * * *
203853 GTAGCACCCCTTTTTAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCTACACAAGTCAATGGCA
1 GTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGC-
* * * * *
203918 ACTCATTTGAAAGCCCACACAAGT-TGTTGGCAACCCATTTGAAAGCCCACACAAGTCA
64 A-TCTTTTCAAAG-CC-CACAAGTCAG-TGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* * * * * * *
203976 ATGGCATCATTTCAAAGCCCATACAAGTCGGTGACAACTCATTTGAAAGCCCACACAAGTCGGTG
1 GTGGCATCCTTTCAAAGCCC--ACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACACAAGTCAGTG
* * * *
204041 GCAACCTATTTCAAAGCCCACATAAGTCGGTGACAACCCATTTCAAAGCCCACAAGTCA
62 GC-ATCT-TTTCAAAGCCCAC--AAGTCAGTGGC-ATCC-TTTCAAAGCCCACAAGTCA
* * *
204100 GTGGCATCCTTCTCAAAACCCACACAAATCAGTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGG
1 GTGGCATCCTT-TC-AAAGCC-CACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGG
*
204163 CATCTTTTCAAATCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
63 CATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
204215 GTTGCATGCTTCTCAAAG-CCACAAGTTAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGC
1 GTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACACAAGTCAGTGGC
* * * *
204279 ATCTTTTTAAAGCCCACAAATCAGTGGCATCTTTTCAAAGTCCACAAGTCA
64 ATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* *
204330 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-CATAAGTCATTGGCAT
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCAT
* *
204393 CCTTTCAAGGCCCACA
66 CTTTTCAAAGCCCACA
204409 TAAGTTGGTG
Statistics
Matches: 456, Mismatches: 72, Indels: 55
0.78 0.12 0.09
Matches are distributed among these distances:
111 5 0.01
112 49 0.11
113 36 0.08
114 17 0.04
115 130 0.29
116 4 0.01
117 17 0.04
118 2 0.00
119 22 0.05
120 6 0.01
121 20 0.04
122 14 0.03
123 22 0.05
124 33 0.07
125 18 0.04
126 59 0.13
127 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (114 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCAT
CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:204348 original size:143 final size:143
Alignment explanation
Indices: 203742--204408 Score: 589
Period size: 143 Copynumber: 4.6 Consensus size: 143
203732 CCACAACTTC
* * * * * * * * *
203742 GTGGCACCCTTT-TAAGCCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCA-CC
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * * * * * * *
203805 TTTTTAAAG-AC-CATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCACCCCTTTT-
66 TTCTCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAGCCCACAAATCAGTGGCA--TCTTTTC
* *
203867 TAAGCCCACAAGTCA
129 AAATCCCACAAGTCA
* * * * *
203882 GTGGCATCATTTCAAAGCCTACACAAGTCAATGGCAACTCATTTGAAAGCCCACACAAGT-TGTT
1 GTGGCATCCTTTCAAAGCC--CACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-CACAAGTCAG-T
* * * * * * * *
203946 GGCAACCCATT-TGAAAGCCCACACAAGTCAATGGCATCATTTCAAAGCCCATACAAGTCGGTGA
59 GGC-ATCC-TTCTCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAGCCC--ACAAATCAGTGG
* * * *
204010 CAACTCATTTGAAAGCCCACACAAGTCG
120 C-A-TCTTTTCAAA-TCC-CACAAGTCA
* * * *
204038 GTGGCAACCTATTTCAAAGCCCACATAAGTCGGTGACAACCCATTTCAAAGCCCACAAGTCAGTG
1 GTGGCATCC--TTTCAAAGCCCAC--AAGTCAGTGGC-ATCC-TTTCAAAGCCCACAAGTCAGTG
* *
204103 GCATCCTTCTCAAAACCCACACAAATCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCT
60 GCATCCTTCTCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAGCCCACAAATCAGTGGCATCT
204168 TTTCAAATCCCACAAGTCA
125 TTTCAAATCCCACAAGTCA
* * *
204187 GTGGCATCCTTTCAAAGCCCACAAGTCAGTTGCATGCTTCTCAAAG-CCACAAGTTAGTGGCATC
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATC
*
204251 CTTCTCAAAGCCCACACAAATCAGTGGCATCTTTTTAAAGCCCACAAATCAGTGGCATCTTTTCA
65 CTTCTCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAGCCCACAAATCAGTGGCATCTTTTCA
204316 AAGT-CCACAAGTCA
130 AA-TCCCACAAGTCA
* *
204330 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCATTGGCATCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
*
204395 TT-TCAAGGCCCACA
66 TTCTCAAAGCCCACA
204409 TAAGTTGGTG
Statistics
Matches: 437, Mismatches: 61, Indels: 56
0.79 0.11 0.10
Matches are distributed among these distances:
140 10 0.02
141 5 0.01
142 17 0.04
143 159 0.36
144 10 0.02
145 16 0.04
146 3 0.01
147 23 0.05
148 1 0.00
149 23 0.05
150 5 0.01
151 34 0.08
152 1 0.00
153 26 0.06
154 5 0.01
155 39 0.09
156 29 0.07
157 4 0.01
158 27 0.06
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (143 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
TTCTCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAGCCCACAAATCAGTGGCATCTTTTCAA
ATCCCACAAGTCA
Found at i:204391 original size:56 final size:56
Alignment explanation
Indices: 203742--204408 Score: 559
Period size: 56 Copynumber: 11.4 Consensus size: 56
203732 CCACAACTTC
* * * * * * * * *
203742 GTGGCACCCTTT-TAAGCCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCT
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
203797 GTGGCA-CCTTTTTAAAGACCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * ** *
203853 GTAGCACCCCTTTTTAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCTACACAAGTCA
1 GTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC--CACAAGTCA
* * * * * *
203912 ATGGCAACTCATTTGAAAGCCCACACAAGT-TGTTGGCAACCCATTTGAAAGCCCACACAAGTCA
1 GTGGC-A-TCCTTTCAAAG-CC-CACAAGTCAG-TGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* * * * * * *
203976 ATGGCATCATTTCAAAGCCCATACAAGTCGGTGACAACTCATTTGAAAGCCCACACAAGTCG
1 GTGGCATCCTTTCAAAGCCC--ACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-CACAAGTCA
* * * *
204038 GTGGCAACCTATTTCAAAGCCCACATAAGTCGGTGACAACCCATTTCAAAGCCCACAAGTCA
1 GTGGCATCC--TTTCAAAGCCCAC--AAGTCAGTGGC-ATCC-TTTCAAAGCCCACAAGTCA
* * *
204100 GTGGCATCCTTCTCAAAACCCACACAAATCAGTGGCATCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTT-TC-AAAGCC-CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* *
204159 GTGGCATCTTTTCAAATCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
204215 GTTGCATGCTTCTCAAAG-CCACAAGTTAGTGGCATCCTTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAG-CC-CACAAGTCA
* * * * *
204274 GTGGCATCTTTTTAAAGCCCACAAATCAGTGGCATCTTTTCAAAGTCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
*
204330 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* *
204386 TTGGCATCCTTTCAAGGCCCACA
1 GTGGCATCCTTTCAAAGCCCACA
204409 TAAGTTGGTG
Statistics
Matches: 510, Mismatches: 72, Indels: 59
0.80 0.11 0.09
Matches are distributed among these distances:
54 2 0.00
55 9 0.02
56 180 0.35
57 51 0.10
58 17 0.03
59 75 0.15
60 14 0.03
61 15 0.03
62 81 0.16
63 11 0.02
64 53 0.10
65 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (56 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:204430 original size:25 final size:25
Alignment explanation
Indices: 204396--204445 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
204386 TTGGCATCCT
* *
204396 TTCAAGGCCCACATAAGTTGGTGGC
1 TTCAAAGCCCACATAAGTTAGTGGC
204421 TTCAAAGCCCACATAAGTTAGTGGC
1 TTCAAAGCCCACATAAGTTAGTGGC
204446 ACCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
TTCAAAGCCCACATAAGTTAGTGGC
Found at i:204598 original size:27 final size:27
Alignment explanation
Indices: 204568--204647 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
204558 AGCCTAATGT
204568 CACTGGCCTTGAATCACCACATTGGTC
1 CACTGGCCTTGAATCACCACATTGGTC
**
204595 CACTTTTCCCTT-AA-C-CCA-A-T-GT-
1 CAC--TGGCCTTGAATCACCACATTGGTC
*
204617 CACTGGCCTTGAATCAGCACATTGGTC
1 CACTGGCCTTGAATCACCACATTGGTC
204644 CACT
1 CACT
204648 TTTCCCTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 18
0.63 0.08 0.29
Matches are distributed among these distances:
20 5 0.13
21 2 0.05
22 4 0.10
23 4 0.10
24 2 0.05
25 2 0.05
26 5 0.13
27 8 0.21
28 2 0.05
29 5 0.13
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.29
Consensus pattern (27 bp):
CACTGGCCTTGAATCACCACATTGGTC
Found at i:204619 original size:49 final size:49
Alignment explanation
Indices: 204563--204690 Score: 229
Period size: 49 Copynumber: 2.6 Consensus size: 49
204553 TTTTTAGCCT
*
204563 AATGTCACTGGCCTTGAATCACCACATTGGTCCACTTTTCCCTTAACCC
1 AATGTCACTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAACCC
204612 AATGTCACTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAACCC
1 AATGTCACTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAACCC
* *
204661 AATGTCACTAGCCTTGAATTAGCACATTGG
1 AATGTCACTGGCCTTGAATCAGCACATTGG
204691 CATTTTTCTC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (49 bp):
AATGTCACTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAACCC
Found at i:205353 original size:20 final size:20
Alignment explanation
Indices: 205324--205400 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
205314 AAGTACCCAG
205324 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* * *
205344 ATGAATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
205364 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
205384 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
205401 GTCTTTTTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:210389 original size:20 final size:20
Alignment explanation
Indices: 210364--210440 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
210354 GTAAAAACAC
* *
210364 AGAATGTATCGATATATTGA
1 AGAATGTATCGATACATTAA
*
210384 AGAATGTATCGATACATTCAT
1 AGAATGTATCGATACATT-AA
* *
210405 A-CATGTATTGATACATTAA
1 AGAATGTATCGATACATTAA
*
210424 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
210441 CTGGGTACTC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 44 0.94
21 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:214348 original size:21 final size:21
Alignment explanation
Indices: 214307--214348 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
214297 ATAAATAATG
* *
214307 AATAAAAAATTAGTATTTTTT
1 AATAAAAAATGAGTATATTTT
214328 AATAAAAAAGTGAG-ATATTTT
1 AATAAAAAA-TGAGTATATTTT
214349 TCACATAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (21 bp):
AATAAAAAATGAGTATATTTT
Found at i:214854 original size:21 final size:20
Alignment explanation
Indices: 214820--214859 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
214810 TTAAACTTAA
* *
214820 ATAAAAATATTTTTTATTAT
1 ATAAAAATAATTTTAATTAT
214840 ATAAATAATAATTTTAATTA
1 ATAAA-AATAATTTTAATTA
214860 GCTAAAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAAATAATTTTAATTAT
Done.