Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold253
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: 2064896
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 13
Found at i:143 original size:14 final size:15
Alignment explanation
Indices: 126--158 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
116 ATAATTTTTT
126 AATTTAA-TTAAATA
1 AATTTAATTTAAATA
140 AATTTAATTTAAATA
1 AATTTAATTTAAATA
155 AATT
1 AATT
159 AAGATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAATTTAAATA
Found at i:2223 original size:16 final size:16
Alignment explanation
Indices: 2202--2260 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
2192 AATAAAGATC
2202 ATATATTTATTTAAAT
1 ATATATTTATTTAAAT
2218 ATATATTT-TATTAAAT
1 ATATATTTAT-TTAAAT
*
2234 ATTTATTTTATTT-AAT
1 ATATA-TTTATTTAAAT
*
2250 ATTTATTTATT
1 ATATATTTATT
2261 ATTAAATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 7 0.18
16 26 0.67
17 5 0.13
18 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATATTTATTTAAAT
Found at i:3499 original size:2 final size:2
Alignment explanation
Indices: 3494--3524 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3484 CCATCTTATC
3494 TA TA TA -A 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
3525 AAATACAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4075 original size:115 final size:117
Alignment explanation
Indices: 3947--4182 Score: 291
Period size: 116 Copynumber: 2.0 Consensus size: 117
3937 GTGTTTAATA
* * * * **
3947 TAATATATTAA-TTTATCTCATTCTTAATCATTAAATTTAACATAATATATTAATTTTATTTGTT
1 TAATATATTAATTTTATCTCAGTCTTAATCATTAAATTTAACAGAATATAATAATTTCATTAATT
* * * *
4011 -GTTTTTTTAATTTCATTTTAA-C-TTTTAATGTAGTTTAAATGGTTAAATTAC
66 AG--TTTTGAATTTCATTTTAATCTTTTTAATATAATTTAAATGATTAAATTAC
* * * *
4062 TAATATATTAATTTTATTTCAGTCTTATTTATTAAATTTAATAGAATATAATAATTTCATTAATT
1 TAATATATTAATTTTATCTCAGTCTTAATCATTAAATTTAACAGAATATAATAATTTCATTAATT
4127 AGTTTTGAATTTCATTTTAATTCTTTTTAATATAATTTAAATGATTAAATTAC
66 AGTTTTGAATTTCATTTTAA-TCTTTTTAATATAATTTAAATGATTAAATTAC
4180 TAA
1 TAA
4183 AAATATAATA
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
115 28 0.27
116 43 0.42
117 2 0.02
118 29 0.28
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.53
Consensus pattern (117 bp):
TAATATATTAATTTTATCTCAGTCTTAATCATTAAATTTAACAGAATATAATAATTTCATTAATT
AGTTTTGAATTTCATTTTAATCTTTTTAATATAATTTAAATGATTAAATTAC
Found at i:4260 original size:19 final size:19
Alignment explanation
Indices: 4233--4296 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
4223 TTTATTGAAT
4233 TTAAATTTAATATAATATA
1 TTAAATTTAATATAATATA
* * **
4252 TTAATTTTATCTTATTCTCATTA
1 TTAAATTTA--ATATAAT-A-TA
4275 TTAAATTTAATATAATATA
1 TTAAATTTAATATAATATA
4294 TTA
1 TTA
4297 CTTTTATTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 13 0.39
20 1 0.03
21 8 0.24
22 1 0.03
23 10 0.30
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAATTTAATATAATATA
Found at i:6024 original size:2 final size:2
Alignment explanation
Indices: 6017--6061 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
6007 ATCAATATTA
6017 AT AT AT AT AT AT AT AT 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 AT AT AT AT
6059 AT A
1 AT A
6062 CCCATTAGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7759 original size:2 final size:2
Alignment explanation
Indices: 7752--7781 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7742 GTACCTGCAA
7752 AT AT 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
7782 TGCATTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8961 original size:37 final size:34
Alignment explanation
Indices: 8915--8987 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
8905 ATATATATAT
*
8915 ATATATATATTTATACAAAAAAATATTATCATAATTAA
1 ATATATATATTTA-A-AAAAAAA-ATTAT-ACAATTAA
*
8953 ATAT-TATATTTAAATAAAAAATTATACAATTAA
1 ATATATATATTTAAAAAAAAAATTATACAATTAA
8986 AT
1 AT
8988 TAAATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 9 0.27
34 5 0.15
35 6 0.18
36 1 0.03
37 8 0.24
38 4 0.12
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (34 bp):
ATATATATATTTAAAAAAAAAATTATACAATTAA
Found at i:10968 original size:31 final size:33
Alignment explanation
Indices: 10926--10994 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 33
10916 ATTTTTTGTA
10926 TTATATTATATAAAATTTAATA-ATTTA-ATAAT
1 TTATATTATATAAAATTTAATATATTTATAT-AT
*
10958 TTAT-TTATATAAATTTTAATATATTTATATAT
1 TTATATTATATAAAATTTAATATATTTATATAT
10990 TTATA
1 TTATA
10995 ATTCATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
31 16 0.48
32 15 0.45
33 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
TTATATTATATAAAATTTAATATATTTATATAT
Found at i:11003 original size:39 final size:40
Alignment explanation
Indices: 10940--11033 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 40
10930 ATTATATAAA
*
10940 ATTTA-ATAATTTAATAATTTATTTATA-TAAATTTTAATAT
1 ATTTATAT-ATTT-ATAATTCATTTATATTAAATTTTAATAT
** *
10980 ATTTATATATTTATAATTCATTTATATTATTTTTTATTAT
1 ATTTATATATTTATAATTCATTTATATTAAATTTTAATAT
11020 ATTTATATTATTTA
1 ATTTATA-TATTTA
11034 ATATTAAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 13 0.28
40 26 0.55
41 8 0.17
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (40 bp):
ATTTATATATTTATAATTCATTTATATTAAATTTTAATAT
Found at i:11024 original size:21 final size:21
Alignment explanation
Indices: 10971--11032 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
10961 TTTATATAAA
*
10971 TTTTAATATATTTATA-TATT
1 TTTTATTATATTTATATTATT
* * *
10991 TATAATT-CATTTATATTATT
1 TTTTATTATATTTATATTATT
11011 TTTTATTATATTTATATTATT
1 TTTTATTATATTTATATTATT
11032 T
1 T
11033 AATATTAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 7 0.21
20 13 0.39
21 13 0.39
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTATTATATTTATATTATT
Found at i:11037 original size:10 final size:9
Alignment explanation
Indices: 10979--11039 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 9
10969 AATTTTAATA
10979 TATTTATA-
1 TATTTATAT
10987 TATTTATAAT
1 TATTTAT-AT
10997 TCATTTATAT
1 T-ATTTATAT
*
11007 TATTTTTTATT
1 TA-TTTATA-T
11018 ATATTTATAT
1 -TATTTATAT
11028 TATTTAATAT
1 TATTT-ATAT
11038 TA
1 TA
11040 AATGTTCGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
8 7 0.16
9 7 0.16
10 16 0.36
11 12 0.27
12 2 0.05
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TATTTATAT
Found at i:11038 original size:31 final size:31
Alignment explanation
Indices: 10981--11039 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
10971 TTTTAATATA
10981 TTTATATATTTATAATTCATTTATATTATTT
1 TTTATATATTTATAATTCATTTATATTATTT
11012 TTTATTATATTTAT-ATT-ATTTAATATTA
1 TTTA-TATATTTATAATTCATTT-ATATTA
11040 AATGTTCGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.15
31 13 0.50
32 9 0.35
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (31 bp):
TTTATATATTTATAATTCATTTATATTATTT
Found at i:12593 original size:13 final size:13
Alignment explanation
Indices: 12575--12601 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12565 AATATTATAG
12575 TATAACTGTACAA
1 TATAACTGTACAA
12588 TATAACTGTACAA
1 TATAACTGTACAA
12601 T
1 T
12602 TAAAAGGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (13 bp):
TATAACTGTACAA
Found at i:15559 original size:21 final size:22
Alignment explanation
Indices: 15520--15577 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
15510 TAAATATGGA
* *
15520 TATATTTAT-TTTTTTAAAAAT
1 TATATTTATATATTTAAAAAAT
*
15541 TTTA-TTATATATTTAAAAAAT
1 TATATTTATATATTTAAAAAAT
*
15562 TATATTTTTATATTTA
1 TATATTTATATATTTA
15578 CCTTTGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.13
21 16 0.53
22 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATTTATATATTTAAAAAAT
Found at i:15573 original size:22 final size:21
Alignment explanation
Indices: 15535--15577 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15525 TTATTTTTTT
*
15535 AAAAATTTTATTATATATTTA
1 AAAAATTATATTATATATTTA
*
15556 AAAAATTATATTTTTATATTTA
1 AAAAATTATA-TTATATATTTA
15578 CCTTTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAAATTATATTATATATTTA
Found at i:16568 original size:19 final size:19
Alignment explanation
Indices: 16540--16577 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16530 ATAACCATCT
* *
16540 AAAAATTTTTAAATATATA
1 AAAAAATTTTAAAAATATA
16559 AAAAAATTTTAAAAATATA
1 AAAAAATTTTAAAAATATA
16578 TATATCCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAAATTTTAAAAATATA
Found at i:16574 original size:21 final size:20
Alignment explanation
Indices: 16540--16579 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16530 ATAACCATCT
*
16540 AAAAATTTTTAAATATATAA
1 AAAAATTTTAAAATATATAA
16560 AAAAATTTTAAAAATATATA
1 AAAAATTTT-AAAATATATA
16580 TATCCGTATC
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTTTAAAATATATAA
Found at i:17198 original size:21 final size:18
Alignment explanation
Indices: 17174--17212 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
17164 TATTTAATAA
17174 ATTTAAAATTTTAATTTTATT
1 ATTT-AAATTTT--TTTTATT
17195 ATTTAAATTTTTTTTATT
1 ATTTAAATTTTTTTTATT
17213 TTCACATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTAAATTTTTTTTATT
Found at i:18017 original size:20 final size:20
Alignment explanation
Indices: 17976--18020 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17966 TAACTTTATA
*
17976 ATTTAAATTGTTAAATCATT
1 ATTTAAATTGTTAAATAATT
*
17996 ATTTTAATTG-TAAATAATTT
1 ATTTAAATTGTTAAATAA-TT
18016 ATTTA
1 ATTTA
18021 CTTATTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (20 bp):
ATTTAAATTGTTAAATAATT
Found at i:18096 original size:149 final size:150
Alignment explanation
Indices: 17913--18186 Score: 428
Period size: 149 Copynumber: 1.8 Consensus size: 150
17903 ACGAGGATAA
* * *
17913 TAAAATTATTTTATTTAAAAGTTAGCTTTTAAATTAT-AAAAGTTTAATTTTTTTAACTTTATAA
1 TAAAATTATTTTATTTAAAAATAAGCTTTTAAATTATAAAAACTTTAA-TTTTTTAACTTTATAA
* *
17977 TTTAAATTGTTAAATCATTATTTTAATTGT-AAATAATTTATTTACTTATTTAATATTTTATCTG
65 TTTAAATTATTAAATCATTATTTTAACTGTAAAATAATTTATTTACTTATTTAATATTTTATCTG
18041 TATTGAAATATACTTTTTAAC
130 TATTGAAATATACTTTTTAAC
* *
18062 TAAAATTATTTTATTTAAAAATAAG-TTTTAAAATTATAAAAACTTTAATTTTTTAATTTTATGA
1 TAAAATTATTTTATTTAAAAATAAGCTTTT-AAATTATAAAAACTTTAATTTTTTAACTTTATAA
*
18126 TTTAAATTATTAAATTATTATTTTAACTGTAAAAATAATTTATTTACTTATTTAATATTTT
65 TTTAAATTATTAAATCATTATTTTAACTGT-AAAATAATTTATTTACTTATTTAATATTTT
18187 GTTCATAAAT
Statistics
Matches: 113, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
148 4 0.04
149 71 0.63
150 9 0.08
151 29 0.26
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (150 bp):
TAAAATTATTTTATTTAAAAATAAGCTTTTAAATTATAAAAACTTTAATTTTTTAACTTTATAAT
TTAAATTATTAAATCATTATTTTAACTGTAAAATAATTTATTTACTTATTTAATATTTTATCTGT
ATTGAAATATACTTTTTAAC
Found at i:19119 original size:20 final size:20
Alignment explanation
Indices: 19019--19120 Score: 54
Period size: 20 Copynumber: 5.1 Consensus size: 20
19009 TCTTGAACAT
19019 ATTTTTT-TATTAATT-TAA
1 ATTTTTTATATTAATTATAA
19037 ATTAATATTTA-A-TAATTA-AA
1 ATT--T-TTTATATTAATTATAA
19057 ATTTATTTATATTTAATTATAA
1 ATTT-TTTATA-TTAATTATAA
* ** * * *
19079 A-TATAAAAATATATTTTTAA
1 ATTTTTTATAT-TAATTATAA
19099 ATTTTTTATATTAATTATAA
1 ATTTTTTATATTAATTATAA
19119 AT
1 AT
19121 AATACATGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 20
0.66 0.13 0.22
Matches are distributed among these distances:
18 9 0.15
19 2 0.03
20 31 0.51
21 16 0.26
22 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTTTATATTAATTATAA
Found at i:22387 original size:24 final size:24
Alignment explanation
Indices: 22341--22388 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
22331 ATTTTTAAAG
* *
22341 AAACTATTCACTTTATTAAAAAAA
1 AAACTACTCACTTTATCAAAAAAA
* *
22365 AAACTACTCACTTTGTCAGAAAAA
1 AAACTACTCACTTTATCAAAAAAA
22389 CATGCACTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (24 bp):
AAACTACTCACTTTATCAAAAAAA
Found at i:23011 original size:2 final size:2
Alignment explanation
Indices: 23006--23053 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
22996 AAAAAATGTC
*
23006 AT AT AT AT AT AT AT AG AT AT AT AT -T A- AT AT AT AT AT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23044 AT AT AT AT AT
1 AT AT AT AT AT
23054 TCGTCCATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 4 0.10
2 36 0.90
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23054 original size:12 final size:12
Alignment explanation
Indices: 23006--23054 Score: 71
Period size: 12 Copynumber: 3.9 Consensus size: 12
22996 AAAAAATGTC
23006 ATATATATATATA
1 ATATATATAT-TA
*
23019 TAGATATATATTA
1 -ATATATATATTA
23032 ATATATATATTA
1 ATATATATATTA
23044 ATATATATATT
1 ATATATATATT
23055 CGTCCATAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 22 0.67
13 2 0.06
14 9 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
ATATATATATTA
Found at i:25127 original size:25 final size:25
Alignment explanation
Indices: 25099--25155 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
25089 ACTTTCATTC
* *
25099 ATTTTATTGATCTTTTCCTAGTGTA
1 ATTTTATTGAACTATTCCTAGTGTA
* *
25124 ATTTTTTTGAAGTATTCCTAGTGTA
1 ATTTTATTGAACTATTCCTAGTGTA
25149 ATATTTA
1 AT-TTTA
25156 AATTATAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.25, C:0.09, G:0.12, T:0.54
Consensus pattern (25 bp):
ATTTTATTGAACTATTCCTAGTGTA
Found at i:25303 original size:23 final size:23
Alignment explanation
Indices: 25257--25304 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
25247 TCATTAACTC
25257 AAGGTGGTTAAAATTTGAAAATT
1 AAGGTGGTTAAAATTTGAAAATT
* *
25280 AAGGTGGGTTAATATTT-AATATT
1 AAGGT-GGTTAAAATTTGAAAATT
25303 AA
1 AA
25305 CTCAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.38
Consensus pattern (23 bp):
AAGGTGGTTAAAATTTGAAAATT
Found at i:26014 original size:16 final size:16
Alignment explanation
Indices: 25995--26061 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
25985 TTTGTTCAAT
25995 TTTAAATTATTTTGAA
1 TTTAAATTATTTTGAA
* * *
26011 TTTAAATTAATTAGCA
1 TTTAAATTATTTTGAA
* *
26027 TTTCAAAAT-TTTTAAA
1 TTT-AAATTATTTTGAA
* *
26043 TTTAAATAATTTTCAA
1 TTTAAATTATTTTGAA
26059 TTT
1 TTT
26062 TTATTGAATT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
15 3 0.08
16 31 0.82
17 4 0.11
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTAAATTATTTTGAA
Found at i:31577 original size:15 final size:16
Alignment explanation
Indices: 31541--31580 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
31531 TTTAATATTT
*
31541 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
31558 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
31573 ATAAAATT
1 ATAAAATT
31581 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:31583 original size:16 final size:17
Alignment explanation
Indices: 31541--31583 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
31531 TTTAATATTT
*
31541 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
31558 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
31573 ATAAAATTTAT
1 ATAAAATTTAT
31584 TTAAAAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:32483 original size:30 final size:31
Alignment explanation
Indices: 32427--32493 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
32417 ATATAAGCAT
* *
32427 GATAAA-AATATACTAATATATCAAAATATA
1 GATAAATAATATACTAACATATAAAAATATA
* *
32457 GATAAATAATA-ATTAACATATAAAAATTTA
1 GATAAATAATATACTAACATATAAAAATATA
*
32487 TATAAAT
1 GATAAAT
32494 TTATTTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (31 bp):
GATAAATAATATACTAACATATAAAAATATA
Found at i:33397 original size:15 final size:14
Alignment explanation
Indices: 33373--33424 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
33363 ATATATATTT
33373 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
*
33387 TTTCGTTTTTCTTTT
1 TTTC-TTTTTCTTTC
* *
33402 TTTCTCCTATCTTTC
1 TTTCT-TTTTCTTTC
33417 TTT-TTTTT
1 TTTCTTTTT
33425 AGCTCTATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 2 0.07
14 6 0.20
15 22 0.73
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:34041 original size:2 final size:2
Alignment explanation
Indices: 34028--34071 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
34018 TATTCTTACC
* *
34028 AT AT AT AC AT AT AT AT AT AT AT AT AT AC 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 AT AT AT AT
34070 AT
1 AT
34072 GGAAGCTGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:35933 original size:36 final size:36
Alignment explanation
Indices: 35883--35954 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
35873 CTTTATTCAC
*
35883 AGCAAATACCCACCCATTCATTCTATCAATGGACAA
1 AGCAAATACACACCCATTCATTCTATCAATGGACAA
35919 AGCAAATACACACCCATTCATTCTATCAATGGACAA
1 AGCAAATACACACCCATTCATTCTATCAATGGACAA
35955 GTTGAAGCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.29, G:0.08, T:0.22
Consensus pattern (36 bp):
AGCAAATACACACCCATTCATTCTATCAATGGACAA
Found at i:41856 original size:10 final size:11
Alignment explanation
Indices: 41836--41868 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
41826 CAATCAGAAG
41836 ATAATAATAAA
1 ATAATAATAAA
41847 ATAA-AATAAA
1 ATAATAATAAA
41857 ATAATAAATAAA
1 ATAAT-AATAAA
41869 GAGATGAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:43650 original size:21 final size:21
Alignment explanation
Indices: 43621--43667 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
43611 TAATACAAGC
43621 TGAA-CGAACTAACTGAGCCG
1 TGAATCGAACTAACTGAGCCG
* *
43641 TGAATCGAACTAACTGCGCCT
1 TGAATCGAACTAACTGAGCCG
43662 TGAATC
1 TGAATC
43668 AGTCTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (21 bp):
TGAATCGAACTAACTGAGCCG
Found at i:47664 original size:30 final size:30
Alignment explanation
Indices: 47601--47664 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
47591 TTTATTTGAT
**
47601 CAATCCAAATAAATATTCAATATTTTTTAA
1 CAATCCAAATAAATATTCAATATTTTAGAA
* * * *
47631 CAATCCGAGTAAATATTTAATATTTTAGGA
1 CAATCCAAATAAATATTCAATATTTTAGAA
47661 CAAT
1 CAAT
47665 AATTTTTTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (30 bp):
CAATCCAAATAAATATTCAATATTTTAGAA
Found at i:54504 original size:24 final size:24
Alignment explanation
Indices: 54473--54532 Score: 81
Period size: 22 Copynumber: 2.6 Consensus size: 24
54463 TAATAGAATT
54473 AAAAATAATTAATAATTA-TTTTTA
1 AAAAATAATTAA-AATTATTTTTTA
54497 AAAAATAA--AAAATTATTTTTTA
1 AAAAATAATTAAAATTATTTTTTA
*
54519 AAAAAAAATTAAAA
1 AAAAATAATTAAAA
54533 ATAAAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.16
22 15 0.47
24 12 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAAATAATTAAAATTATTTTTTA
Found at i:54791 original size:25 final size:25
Alignment explanation
Indices: 54737--54801 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
54727 AATATTGAGA
* *
54737 TAAAAAGCAAATATT-TTTAGAAACT
1 TAAAAAG-AAATATTAATTAGAAAAT
54762 TAAAAAGAAATATTAATTA-AAAAT
1 TAAAAAGAAATATTAATTAGAAAAT
*
54786 TAAAAAATAAATATTA
1 T-AAAAAGAAATATTA
54802 TAAAAACATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.34
25 23 0.66
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (25 bp):
TAAAAAGAAATATTAATTAGAAAAT
Found at i:56276 original size:27 final size:28
Alignment explanation
Indices: 56246--56306 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
56236 TAAATATATA
*
56246 TTTAATAAAA-A-TATAAATTAATAATTT
1 TTTAATAAAATATTAAAAATT-ATAATTT
* *
56273 TTTATTAAAATATTAAAAATTTTAATTT
1 TTTAATAAAATATTAAAAATTATAATTT
56301 TTTAAT
1 TTTAAT
56307 TTTTTATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 9 0.32
28 12 0.43
29 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTAATAAAATATTAAAAATTATAATTT
Found at i:56703 original size:28 final size:28
Alignment explanation
Indices: 56650--56703 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
56640 AAAAGAGAGT
*
56650 AAAAATAGATTAAAATTGATTTAATTGA
1 AAAAATAGATTAAAATTGATTAAATTGA
* *
56678 AAAAATTA-ATTAAATTTGGTTAAATT
1 AAAAA-TAGATTAAAATTGATTAAATT
56704 AGTTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 20 0.91
29 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (28 bp):
AAAAATAGATTAAAATTGATTAAATTGA
Found at i:56866 original size:16 final size:16
Alignment explanation
Indices: 56847--56877 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56837 TAAAATATAA
*
56847 ATTTAAATTTAAACTT
1 ATTTAAATATAAACTT
56863 ATTTAAATATAAACT
1 ATTTAAATATAAACT
56878 AAAAATTTAT
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:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAAATATAAACTT
Found at i:56960 original size:27 final size:27
Alignment explanation
Indices: 56907--56960 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
56897 AATTAAAAGC
*
56907 CTAATTAAAATAAAAAAGTAATAAAAT
1 CTAATTAAAATAAAAAAGAAATAAAAT
56934 CTAATTAAAATAAAAAA-AAATATAAAT
1 CTAATTAAAATAAAAAAGAAATA-AAAT
56961 GGAAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (27 bp):
CTAATTAAAATAAAAAAGAAATAAAAT
Found at i:58423 original size:25 final size:25
Alignment explanation
Indices: 58384--58443 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 25
58374 TATATATATG
58384 AATAATTTATA-TTATATTATAAAA
1 AATAATTTATATTTATATTATAAAA
*
58408 AATAATTTATATTTATATTATATAA
1 AATAATTTATATTTATATTATAAAA
*
58433 AAT-TTTTATAT
1 AATAATTTATAT
58444 ATTTTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
AATAATTTATATTTATATTATAAAA
Found at i:58470 original size:19 final size:21
Alignment explanation
Indices: 58436--58474 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
58426 TATATAAAAT
58436 TTTTATATATTTTTATATTAA
1 TTTTATATATTTTTATATTAA
58457 TTTTAT-TA-TTTTATATTA
1 TTTTATATATTTTTATATTA
58475 TATCATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATATATTTTTATATTAA
Found at i:62078 original size:13 final size:12
Alignment explanation
Indices: 62052--62115 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 12
62042 ATTTAATTAT
62052 AAAT-ATAAATA
1 AAATAATAAATA
62063 AAATAATAATATA
1 AAATAATAA-ATA
* *
62076 AAATAAT-ATTT
1 AAATAATAAATA
62087 AAATAATATAAT-
1 AAATAATA-AATA
*
62099 AATTAATAAAATA
1 AAATAAT-AAATA
62112 AAAT
1 AAAT
62116 TTTAATTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
11 12 0.29
12 14 0.33
13 16 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:62136 original size:31 final size:31
Alignment explanation
Indices: 62052--62117 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
62042 ATTTAATTAT
* *
62052 AAATATAAATAAAATAATAA-T-ATAAAATA
1 AAATTTAAATAATATAATAATTAATAAAATA
*
62081 ATATTTAAATAATATAATAATTAATAAAATA
1 AAATTTAAATAATATAATAATTAATAAAATA
62112 AAATTT
1 AAATTT
62118 TAATTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 17 0.55
30 1 0.03
31 13 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
AAATTTAAATAATATAATAATTAATAAAATA
Found at i:62384 original size:24 final size:24
Alignment explanation
Indices: 62337--62384 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
62327 TTTATTCAAC
* *
62337 TATATTAAATAAACTCATATTTTT
1 TATATTAAAAAAACTCATACTTTT
* *
62361 TATATTAAAAAAAGTTATACTTTT
1 TATATTAAAAAAACTCATACTTTT
62385 ATCCTACTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (24 bp):
TATATTAAAAAAACTCATACTTTT
Found at i:62973 original size:31 final size:28
Alignment explanation
Indices: 62911--62964 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
62901 TGATTTAATA
62911 TTTATATTTAATTTATTTAAAAATAAAT
1 TTTATATTTAATTTATTTAAAAATAAAT
*
62939 TTTAT-TTTATTTTATTTATAAAATAA
1 TTTATATTTAATTTATTTA-AAAATAA
62965 TATATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTATATTTAATTTATTTAAAAATAAAT
Found at i:63126 original size:23 final size:23
Alignment explanation
Indices: 63058--63128 Score: 61
Period size: 27 Copynumber: 2.9 Consensus size: 23
63048 AATTTAAATA
* **
63058 AAAATATATAATAAAATTTAATT
1 AAAATTTATAATAAAAAATAATT
* *
63081 AAAATTTATTTTTATTAATAAATAATT
1 AAAATTTA----TAATAAAAAATAATT
63108 AAAATTTATAATAAAAAATAA
1 AAAATTTATAATAAAAAATAA
63129 AAAAGTTCAG
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
23 18 0.49
27 19 0.51
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATTTATAATAAAAAATAATT
Found at i:63131 original size:20 final size:21
Alignment explanation
Indices: 63091--63131 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
63081 AAAATTTATT
* *
63091 TTTATTAATAAATAATTAAAA
1 TTTATTAATAAAAAATAAAAA
63112 TTTA-TAATAAAAAATAAAAA
1 TTTATTAATAAAAAATAAAAA
63132 AGTTCAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TTTATTAATAAAAAATAAAAA
Found at i:67023 original size:17 final size:17
Alignment explanation
Indices: 66984--67034 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
66974 TTTTATTTAA
*
66984 ATTTAAGTAT-AAATAAA
1 ATTTAA-TATAAAATAAT
*
67001 AATTAATATAAAATAAT
1 ATTTAATATAAAATAAT
67018 ATTTAA-ATAATAATAAT
1 ATTTAATATAA-AATAAT
67035 GAATAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
ATTTAATATAAAATAAT
Found at i:74315 original size:28 final size:28
Alignment explanation
Indices: 74284--74358 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 28
74274 TCATTAAGAG
* * *
74284 AATTATATTTTTTTAATATATATTTAAT
1 AATTAAATTTTTTTAATATATAATAAAT
* *
74312 AATTAAAATTTTTT-ATATTTAATAAAT
1 AATTAAATTTTTTTAATATATAATAAAT
* *
74339 AGTTAAATATTTTTAATATA
1 AATTAAATTTTTTTAATATA
74359 CTCAAATTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (28 bp):
AATTAAATTTTTTTAATATATAATAAAT
Found at i:75816 original size:2 final size:2
Alignment explanation
Indices: 75809--75836 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
75799 ATAGCACTGA
75809 AT 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
75837 CTTATGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78348 original size:16 final size:16
Alignment explanation
Indices: 78327--78361 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
78317 TATTTAATAG
78327 TTTTATTAAATATTTA
1 TTTTATTAAATATTTA
**
78343 TTTTATTTGATATTTA
1 TTTTATTAAATATTTA
78359 TTT
1 TTT
78362 AATTTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTATTAAATATTTA
Found at i:78366 original size:16 final size:15
Alignment explanation
Indices: 78336--78381 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
78326 GTTTTATTAA
*
78336 ATATTTATTTTATTT
1 ATATTTATTTAATTT
78351 GATATTTATTTAATTT
1 -ATATTTATTTAATTT
*
78367 A-ATTTTTTTAATTT
1 ATATTTATTTAATTT
78381 A
1 A
78382 ACTAAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 13 0.46
15 1 0.04
16 14 0.50
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
ATATTTATTTAATTT
Found at i:78376 original size:14 final size:14
Alignment explanation
Indices: 78338--78382 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
78328 TTTATTAAAT
*
78338 ATTTATTTTATTTGA
1 ATTTATTTAATTT-A
78353 TATTTATTTAATTTA
1 -ATTTATTTAATTTA
*
78368 ATTTTTTTAATTTA
1 ATTTATTTAATTTA
78382 A
1 A
78383 CTAAGAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 14 0.52
15 1 0.04
16 12 0.44
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
ATTTATTTAATTTA
Found at i:78450 original size:21 final size:22
Alignment explanation
Indices: 78413--78456 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
78403 GAATAATCAA
*
78413 ATCTATTAATGATATTATTTTAT
1 ATCTATTAA-GATATTAATTTAT
78436 ATCTATTAA-ATATTAATTTAT
1 ATCTATTAAGATATTAATTTAT
78457 TTATGATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
23 9 0.45
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (22 bp):
ATCTATTAAGATATTAATTTAT
Found at i:79253 original size:20 final size:20
Alignment explanation
Indices: 79203--79254 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
79193 ATATTCATAT
79203 AATTTTAATAATAATTTTTAA
1 AATTTTAAT-ATAATTTTTAA
* *
79224 AATATT-ATATGTATTTTT-A
1 AATTTTAATAT-AATTTTTAA
79243 AATTTTAATATA
1 AATTTTAATATA
79255 TTAATAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
19 8 0.32
20 12 0.48
21 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTTAATATAATTTTTAA
Found at i:79278 original size:32 final size:30
Alignment explanation
Indices: 79213--79335 Score: 114
Period size: 32 Copynumber: 4.1 Consensus size: 30
79203 AATTTTAATA
* * *
79213 ATAATTTTTAAAATATTATATGTAT-TT-T
1 ATAAATTTTAATATATTATATTTATATTAT
79241 -TAAATTTTAATATATTAATAATTTATATTAT
1 ATAAATTTTAATATATT-AT-ATTTATATTAT
*
79272 ATAAATTTTAATATTTTAGTA-TTATATTCAT
1 ATAAATTTTAATATATTA-TATTTATATT-AT
*
79303 ATTAAATTTT-TTATATT-TATTTATATTAT
1 A-TAAATTTTAATATATTATATTTATATTAT
79332 ATAA
1 ATAA
79336 TCAAATCCTA
Statistics
Matches: 80, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
27 14 0.17
28 5 0.06
29 10 0.12
30 16 0.20
31 11 0.14
32 24 0.30
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.57
Consensus pattern (30 bp):
ATAAATTTTAATATATTATATTTATATTAT
Found at i:80195 original size:20 final size:20
Alignment explanation
Indices: 80149--80196 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
80139 TATAAAATTA
80149 ATTTAATTTTATGTATTTAGT
1 ATTT-ATTTTATGTATTTAGT
*
80170 A-ATATTTTATGTAATTTA-T
1 ATTTATTTTATGT-ATTTAGT
80189 ATTTATTT
1 ATTTATTT
80197 AATTTGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 11 0.48
20 11 0.48
21 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
ATTTATTTTATGTATTTAGT
Found at i:81293 original size:31 final size:30
Alignment explanation
Indices: 81231--81294 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
81221 ATATCTTTAA
* * **
81231 TTTTATATTTTTTAAATAATTTTATTTTAT
1 TTTTATATTTTTTAAATAAATTAATAATAT
*
81261 TTTTATTATTTTTTAATTAAATTAATAATAT
1 TTTTA-TATTTTTTAAATAAATTAATAATAT
81292 TTT
1 TTT
81295 ACTTGTGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (30 bp):
TTTTATATTTTTTAAATAAATTAATAATAT
Found at i:82384 original size:6 final size:6
Alignment explanation
Indices: 82350--82391 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
82340 CACGTCATTT
* *
82350 AATATA AAAAT- AATATA AATTTA AA-ATA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AA
82392 AAATTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 8 0.27
6 22 0.73
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:82400 original size:17 final size:17
Alignment explanation
Indices: 82350--82409 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
82340 CACGTCATTT
82350 AATAT-AAAAATAATATA
1 AATATAAAAAAT-ATATA
*
82367 AATTTAAAATAA-ATATA
1 AATATAAAA-AATATATA
*
82384 AATATAAAAAATTTATA
1 AATATAAAAAATATATA
82401 TAATATAAA
1 -AATATAAA
82410 TTATTAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 2 0.06
17 21 0.58
18 11 0.31
19 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATAAAAAATATATA
Found at i:82419 original size:18 final size:18
Alignment explanation
Indices: 82378--82435 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
82368 ATTTAAAATA
**
82378 AATATAAATATAAAAAATT
1 AATAT-AATATAAATTATT
*
82397 TATATAATATAAATTATT
1 AATATAATATAAATTATT
82415 AATAT-AT-TAAATT-TT
1 AATATAATATAAATTATT
82430 -ATATAA
1 AATATAA
82436 ATTAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 4 0.12
15 3 0.09
16 6 0.18
17 2 0.06
18 15 0.44
19 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATAATATAAATTATT
Found at i:82427 original size:16 final size:16
Alignment explanation
Indices: 82395--82441 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
82385 ATATAAAAAA
82395 TTTATAT-AATATAAAT
1 TTTATATAAAT-TAAAT
*
82411 TATTA-ATATATTAAAT
1 T-TTATATAAATTAAAT
82427 TTTATATAAATTAAA
1 TTTATATAAATTAAA
82442 ATTTGAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 3 0.12
16 18 0.69
17 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTATATAAATTAAAT
Found at i:82427 original size:31 final size:31
Alignment explanation
Indices: 82375--82435 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
82365 TAAATTTAAA
82375 ATAAATATAAATATAAAAAA-TTTATATAAT
1 ATAAATATAAATATAAAAAATTTTATATAAT
* **
82405 ATAAATTATTAATATATTAAATTTTATATAA
1 ATAAA-TATAAATATAAAAAATTTTATATAA
82436 ATTAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 5 0.19
31 12 0.46
32 9 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
ATAAATATAAATATAAAAAATTTTATATAAT
Found at i:82692 original size:26 final size:27
Alignment explanation
Indices: 82635--82696 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
82625 ATTAATATTT
* * *
82635 TTTATTAATTAAATTGATATTATTTAA
1 TTTATAAATTAAATTGATATTAATAAA
* *
82662 CTTATAAATTAAATTTA-ATTAATAAA
1 TTTATAAATTAAATTGATATTAATAAA
82688 TTTATAAAT
1 TTTATAAAT
82697 AGAATAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTATAAATTAAATTGATATTAATAAA
Found at i:82829 original size:17 final size:17
Alignment explanation
Indices: 82797--82841 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 17
82787 TCACAATAAA
82797 TAAATAAAATATTAATA-T
1 TAAATAAAA-A-TAATATT
82815 TAATATAAAAATAATATT
1 TAA-ATAAAAATAATATT
82833 TAAATAAAA
1 TAAATAAAA
82842 CAAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.44
18 8 0.32
19 6 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATAAAAATAATATT
Found at i:83070 original size:29 final size:29
Alignment explanation
Indices: 83035--83094 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
83025 TTTCCGTTAA
83035 TTAATTT-TTATTAATATATAAATTAATAT
1 TTAATTTATT-TTAATATATAAATTAATAT
* * *
83064 TTAATTTATTTTATTTTATAATTTAATAT
1 TTAATTTATTTTAATATATAAATTAATAT
83093 TT
1 TT
83095 TAAAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TTAATTTATTTTAATATATAAATTAATAT
Found at i:84136 original size:24 final size:24
Alignment explanation
Indices: 84079--84150 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 24
84069 TTTTAATATT
*
84079 TTTATATATTATAATTATATTTAAAA
1 TTTATATATT-TAATTAT-TTAAAAA
**
84105 TAAGATATATTTAATTATTTAAAAA
1 T-TTATATATTTAATTATTTAAAAA
84130 TTTATATATTTATATATATTT
1 TTTATATATTTA-AT-TATTT
84151 TGATATATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 9 0.24
25 9 0.24
26 13 0.34
27 7 0.18
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (24 bp):
TTTATATATTTAATTATTTAAAAA
Found at i:84140 original size:8 final size:8
Alignment explanation
Indices: 84109--84226 Score: 73
Period size: 8 Copynumber: 14.0 Consensus size: 8
84099 TTAAAATAAG
84109 ATATATTT
1 ATATATTT
84117 A-ATTATTT
1 ATA-TATTT
* *
84125 AAAAATTT
1 ATATATTT
84133 ATATATTT
1 ATATATTT
84141 ATATATATT
1 ATATAT-TT
*
84150 TTGATATATT
1 AT-ATAT-TT
84160 A-ATAATTT
1 ATAT-ATTT
84168 A-A-ATTAT
1 ATATATT-T
*
84175 ATAAATTTT
1 ATATA-TTT
84184 AATATATTT
1 -ATATATTT
84193 ATATATTT
1 ATATATTT
*
84201 ATATAATGT
1 ATAT-ATTT
84210 ATATATTT
1 ATATATTT
84218 ATTATATTT
1 A-TATATTT
84227 TAATTATTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
6 3 0.03
7 3 0.03
8 46 0.51
9 25 0.28
10 13 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (8 bp):
ATATATTT
Found at i:84175 original size:32 final size:33
Alignment explanation
Indices: 84139--84201 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
84129 ATTTATATAT
* *
84139 TTATATATATTTTGATATATTAATA-ATTTAAA
1 TTATATAAATTTTAATATATTAATATATTTAAA
*
84171 TTATATAAATTTTAATATATTTATATATTTA
1 TTATATAAATTTTAATATATTAATATATTTA
84202 TATAATGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (33 bp):
TTATATAAATTTTAATATATTAATATATTTAAA
Found at i:84218 original size:50 final size:52
Alignment explanation
Indices: 84109--84218 Score: 124
Period size: 52 Copynumber: 2.2 Consensus size: 52
84099 TTAAAATAAG
* *
84109 ATATATTT-AATTATTTAAAAATTTATATATTTATATATATTTTGATATATT
1 ATATATTTAAATTATATAAAAATTTATATATTTATATATATTATGATATATT
*
84160 A-ATAATTTAAATTATAT-AAATTTTAATATATTTATATAT-TTAT-ATA-ATGT
1 ATAT-ATTTAAATTATATAAAAATTT-ATATATTTATATATATTATGATATAT-T
84210 ATATATTTA
1 ATATATTTA
84219 TTATATTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
49 2 0.04
50 12 0.24
51 16 0.31
52 21 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (52 bp):
ATATATTTAAATTATATAAAAATTTATATATTTATATATATTATGATATATT
Found at i:84404 original size:23 final size:24
Alignment explanation
Indices: 84372--84427 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
84362 TTTAAAATTT
* *
84372 ATATATATATTTATTTAAAAATAAA
1 ATATA-ATATTGATATAAAAATAAA
*
84397 ATA-AATA-TGATATAAAAATATA
1 ATATAATATTGATATAAAAATAAA
84419 ATATAATAT
1 ATATAATAT
84428 AAAAATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 15 0.58
23 7 0.27
24 1 0.04
25 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATAATATTGATATAAAAATAAA
Found at i:84427 original size:18 final size:18
Alignment explanation
Indices: 84394--84507 Score: 71
Period size: 18 Copynumber: 6.4 Consensus size: 18
84384 ATTTAAAAAT
*
84394 AAAATA-AATATGATATA
1 AAAATATAATATAATATA
84411 AAAATATAATATAATATA
1 AAAATATAATATAATATA
*
84429 AAAAT-TAATACGAATATA
1 AAAATATAATA-TAATATA
84447 ATATAA-AT-ATATAAATATA
1 A-A-AATATAATAT-AATATA
* * *
84466 TAAAATTTTATAAAATAT-
1 -AAAATATAATATAATATA
* *
84484 AAAATA-ATTTTAA-ATA
1 AAAATATAATATAATATA
84500 AAAATATA
1 AAAATATA
84508 TAAACATAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 22
0.70 0.09 0.20
Matches are distributed among these distances:
15 2 0.03
16 9 0.12
17 17 0.22
18 24 0.32
19 17 0.22
20 7 0.09
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATATAATATAATATA
Found at i:84508 original size:25 final size:24
Alignment explanation
Indices: 84412--84539 Score: 74
Period size: 25 Copynumber: 5.5 Consensus size: 24
84402 TATGATATAA
*
84412 AAATATAATATAATAT-AA-AAAT
1 AAATATAAAATAATATAAATAAAT
* * * *
84434 TAATACGAATATAATATAAATATAT
1 AAATA-TAAAATAATATAAATAAAT
* * *
84459 AAATATATAA-AAT-T--TTATA-
1 AAATATAAAATAATATAAATAAAT
*
84478 AAATATAAAATAATTTTAAATAAA-
1 AAATATAAAATAA-TATAAATAAAT
84502 AATATATAAACATAATATAAATAAAT
1 AA-ATATAAA-ATAATATAAATAAAT
84528 AAATTATAAAAT
1 AAA-TATAAAAT
84540 CTAACCCTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 21
0.71 0.10 0.18
Matches are distributed among these distances:
19 9 0.11
20 6 0.07
21 1 0.01
22 6 0.07
23 13 0.16
24 9 0.11
25 26 0.32
26 12 0.15
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (24 bp):
AAATATAAAATAATATAAATAAAT
Found at i:84510 original size:10 final size:11
Alignment explanation
Indices: 84387--84522 Score: 50
Period size: 11 Copynumber: 12.4 Consensus size: 11
84377 TATATTTATT
*
84387 TAAAAATAAAA
1 TAAAAATAATA
* *
84398 TAAATATGATA
1 TAAAAATAATA
84409 T--AAA-AATA
1 TAAAAATAATA
*
84417 T-AATATAATA
1 TAAAAATAATA
84427 TAAAAATTAATA
1 TAAAAA-TAATA
** *
84439 CGAATATAATA
1 TAAAAATAATA
84450 TAAATATATAAATA
1 TAAA-A-AT-AATA
**
84464 TATAAAATTTTA
1 TA-AAAATAATA
*
84476 TAAAATATAAAA
1 TAAAA-ATAATA
***
84488 TAATTTTAA-A
1 TAAAAATAATA
84498 TAAAAAT-ATA
1 TAAAAATAATA
*
84508 TAAACATAATA
1 TAAAAATAATA
84519 TAAA
1 TAAA
84523 TAAATAAATT
Statistics
Matches: 89, Mismatches: 25, Indels: 22
0.65 0.18 0.16
Matches are distributed among these distances:
8 4 0.04
9 5 0.06
10 17 0.19
11 32 0.36
12 18 0.20
13 4 0.04
14 7 0.08
15 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:84531 original size:8 final size:9
Alignment explanation
Indices: 84390--84531 Score: 52
Period size: 8 Copynumber: 15.4 Consensus size: 9
84380 ATTTATTTAA
*
84390 AAATAAAAT
1 AAATAATAT
84399 AAATATGATAT
1 AAATA--ATAT
84410 AAA-AATAT
1 AAATAATAT
84418 AATATAATAT
1 AA-ATAATAT
*
84428 AAAAATTAATACG
1 --AAA-TAATA-T
84441 AATATAATAT
1 AA-ATAATAT
84451 AAAT-ATAT
1 AAATAATAT
84459 AAAT-ATAT
1 AAATAATAT
* *
84467 AAA-ATTTT
1 AAATAATAT
84475 ATAA-AATAT
1 A-AATAATAT
*
84484 AAAATAATTTT
1 -AAATAA-TAT
84495 AAAT-A-A-
1 AAATAATAT
84501 AAAT-ATAT
1 AAATAATAT
84509 AAACATAATAT
1 -AA-ATAATAT
84520 AAATAA-AT
1 AAATAATAT
84528 AAAT
1 AAAT
84532 TATAAAATCT
Statistics
Matches: 105, Mismatches: 9, Indels: 39
0.69 0.06 0.25
Matches are distributed among these distances:
6 5 0.05
7 1 0.01
8 30 0.29
9 22 0.21
10 19 0.18
11 20 0.19
12 8 0.08
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
AAATAATAT
Found at i:86268 original size:14 final size:15
Alignment explanation
Indices: 86241--86274 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
86231 AGATAAGTAT
86241 AATAAAAAATTAATG
1 AATAAAAAATTAATG
86256 AATAAAAAA-TAATG
1 AATAAAAAATTAATG
*
86270 GATAA
1 AATAA
86275 GATCGTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (15 bp):
AATAAAAAATTAATG
Found at i:87881 original size:6 final size:6
Alignment explanation
Indices: 87870--87907 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
87860 TGTTAAAATA
*
87870 TTATAT TTATAT TTATAT TTATAT TTA-AT ATATAT TTA
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTA
87908 AATATGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TTATAT
Found at i:88080 original size:14 final size:14
Alignment explanation
Indices: 88061--88090 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
88051 AAGCTTATAG
88061 AGCCAAACTATACC
1 AGCCAAACTATACC
88075 AGCCAAACTATACC
1 AGCCAAACTATACC
88089 AG
1 AG
88091 TTTGTTGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.33, G:0.10, T:0.13
Consensus pattern (14 bp):
AGCCAAACTATACC
Found at i:88360 original size:19 final size:18
Alignment explanation
Indices: 88332--88379 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
88322 GAGGTTAATA
88332 TAAA-ATTTATTAAAAAT
1 TAAATATTTATTAAAAAT
* *
88349 TAAATTATTTATTTAAATT
1 TAAA-TATTTATTAAAAAT
*
88368 TATATATTTATT
1 TAAATATTTATT
88380 TAATATTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 8 0.31
19 14 0.54
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAAATATTTATTAAAAAT
Found at i:89463 original size:39 final size:40
Alignment explanation
Indices: 89420--89508 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 40
89410 ATAGTATAAA
89420 AAAATTAAAATAAAATATAA-TATAAATATA-TAATATTT-T
1 AAAATTAAAATAAAATA-AATTATAAATATATTAA-ATTTAT
* * *
89459 AAAATTAATATAATATAAATTATTAATATATTAAATTTAT
1 AAAATTAAAATAAAATAAATTATAAATATATTAAATTTAT
*
89499 AAAATAAAAA
1 AAAATTAAAA
89509 ATATTTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
38 2 0.05
39 28 0.67
40 12 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (40 bp):
AAAATTAAAATAAAATAAATTATAAATATATTAAATTTAT
Found at i:89471 original size:32 final size:33
Alignment explanation
Indices: 89423--89493 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
89413 GTATAAAAAA
89423 ATTAAAATAAAATATAATATAAA-TATATAATAT
1 ATTAAAATAAAATATAATATAAATTAT-TAATAT
* *
89456 TTTAAAAT-TAATATAATATAAATTATTAATAT
1 ATTAAAATAAAATATAATATAAATTATTAATAT
89488 ATTAAA
1 ATTAAA
89494 TTTATAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 24 0.71
33 10 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
ATTAAAATAAAATATAATATAAATTATTAATAT
Found at i:91848 original size:80 final size:80
Alignment explanation
Indices: 91760--91928 Score: 268
Period size: 80 Copynumber: 2.1 Consensus size: 80
91750 CAAAGTAATT
*
91760 AATTTTTTTCTCTACTTGCACAG-TGTATATTTGCAATTTAGGCTTAGTTTAAGGAATTAATTCT
1 AATTTTTTTCTCTACTTGCAC-GCTATATATTTGCAATTTAGGCTTAGTTTAAGGAATTAATTCT
*
91824 GTGATAAGTTGAATAG
65 ATGATAAGTTGAATAG
* **
91840 AATTTTTTTCTCTACTTGCACGCTATGTATTTGCAATTTAGGCTTAGTTTAAGGAATTGGTTCTA
1 AATTTTTTTCTCTACTTGCACGCTATATATTTGCAATTTAGGCTTAGTTTAAGGAATTAATTCTA
*
91905 TGATAAGTTGAATTG
66 TGATAAGTTGAATAG
91920 AATTTTTTT
1 AATTTTTTT
91929 TGCCTGTGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
79 1 0.01
80 81 0.99
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (80 bp):
AATTTTTTTCTCTACTTGCACGCTATATATTTGCAATTTAGGCTTAGTTTAAGGAATTAATTCTA
TGATAAGTTGAATAG
Found at i:96935 original size:21 final size:21
Alignment explanation
Indices: 96896--96935 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
96886 AAATGTATTT
*
96896 TTTTAAAAAATAATTATTATA
1 TTTTAAAAAATAATAATTATA
*
96917 TTTTAAAAAATTATAATTA
1 TTTTAAAAAATAATAATTA
96936 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTAAAAAATAATAATTATA
Found at i:100306 original size:2 final size:2
Alignment explanation
Indices: 100299--100328 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
100289 AGCTATGATA
*
100299 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100329 CTATCAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100839 original size:24 final size:22
Alignment explanation
Indices: 100798--100841 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
100788 AAATTTTTAT
*
100798 AAATTTATTTTATTATTAAAAA
1 AAATTTATTTTATAATTAAAAA
100820 AAATTATATTTTTATAATTAAA
1 AAATT-TA-TTTTATAATTAAA
100842 TTTAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 2 0.11
24 12 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATTTATTTTATAATTAAAAA
Found at i:105058 original size:2 final size:2
Alignment explanation
Indices: 105053--105084 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
105043 AAAATATCTA
105053 AT AT AT 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
105085 CTTAGTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106699 original size:23 final size:23
Alignment explanation
Indices: 106668--106716 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
106658 TTCAACAAGC
106668 TAACAATTAATAAAATAAAAT-TA
1 TAACAATTAATAAAA-AAAATATA
* * *
106691 TAACTATTATTATAAAAAATATA
1 TAACAATTAATAAAAAAAATATA
106714 TAA
1 TAA
106717 TTATAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
TAACAATTAATAAAAAAAATATA
Found at i:106725 original size:23 final size:21
Alignment explanation
Indices: 106675--106730 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
106665 AGCTAACAAT
*
106675 TAATAAAATAAAATTATAACTA
1 TAATTAAA-AAAATTATAACTA
* *
106697 TTATTATAAAAAATATATAATTA
1 TAATTA-AAAAAAT-TATAACTA
106720 TAATTAAAAAA
1 TAATTAAAAAA
106731 TCTTATTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TAATTAAAAAAATTATAACTA
Found at i:107314 original size:14 final size:12
Alignment explanation
Indices: 107288--107312 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
107278 TAAAATAATT
107288 ATATAATTAAAA
1 ATATAATTAAAA
107300 ATATAATTAAAA
1 ATATAATTAAAA
107312 A
1 A
107313 AAAGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATAATTAAAA
Found at i:112101 original size:17 final size:17
Alignment explanation
Indices: 112075--112107 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
112065 ACGAGTGTGA
112075 GTGTTAGATATGGATAT
1 GTGTTAGATATGGATAT
*
112092 GTGTTCGATATGGATA
1 GTGTTAGATATGGATA
112108 CGTTCAATTT
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:0.27, C:0.03, G:0.30, T:0.39
Consensus pattern (17 bp):
GTGTTAGATATGGATAT
Found at i:113984 original size:24 final size:24
Alignment explanation
Indices: 113957--114006 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
113947 TGTAATGACC
*
113957 TCAGGCTCTTCTTCTACTTCCTCT
1 TCAGACTCTTCTTCTACTTCCTCT
* *
113981 TCAGACTCTTCTTCTTCTTCTTCT
1 TCAGACTCTTCTTCTACTTCCTCT
114005 TC
1 TC
114007 CTCCACTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.36, G:0.06, T:0.50
Consensus pattern (24 bp):
TCAGACTCTTCTTCTACTTCCTCT
Found at i:115479 original size:26 final size:24
Alignment explanation
Indices: 115418--115479 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
115408 TAATTAAATT
* * *
115418 TAAATAAAATTTTATTTTAATTAA
1 TAAATTAAATTTAAATTTAATTAA
115442 TAAATTATAATTTAAATTTAATTGAA
1 TAAATTA-AATTTAAATTTAATT-AA
*
115468 TTAATTTAAATT
1 -TAAATTAAATT
115480 ATACAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 6 0.19
25 13 0.42
26 6 0.19
27 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TAAATTAAATTTAAATTTAATTAA
Found at i:115736 original size:29 final size:29
Alignment explanation
Indices: 115704--115767 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
115694 ACTAGTATTT
*
115704 TAATAATGATTTTTTAAAAT-TA-TAATAAA
1 TAATAAT-ATTTTATAAAATATATTAA-AAA
115733 TAATAATATTTTATAAAATATATTAAAAA
1 TAATAATATTTTATAAAATATATTAAAAA
115762 TAATAA
1 TAATAA
115768 AAAATATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 11 0.34
29 18 0.56
30 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (29 bp):
TAATAATATTTTATAAAATATATTAAAAA
Found at i:115782 original size:26 final size:25
Alignment explanation
Indices: 115753--115816 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 25
115743 TTATAAAATA
115753 TATTAAAAATAATAAAAAATATTAAT
1 TATTAAAAATAATAAAAAATATT-AT
* ** *
115779 TATTACATTTAAT--ATAATATTAT
1 TATTAAAAATAATAAAAAATATTAT
*
115802 TATTATAAATAATAA
1 TATTAAAAATAATAA
115817 TTAATGAACT
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
23 12 0.41
24 7 0.24
26 10 0.34
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TATTAAAAATAATAAAAAATATTAT
Found at i:116115 original size:22 final size:22
Alignment explanation
Indices: 116090--116134 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
116080 AAAATATATG
116090 TAAAAAATAAATAATTAATAAA
1 TAAAAAATAAATAATTAATAAA
* * * *
116112 TAAAATATATATCATTTATAAA
1 TAAAAAATAAATAATTAATAAA
116134 T
1 T
116135 TTGTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAAAATAAATAATTAATAAA
Found at i:116483 original size:22 final size:22
Alignment explanation
Indices: 116440--116484 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
116430 AAAAATTAAA
*
116440 ATATTATTTTATATTATTATTT
1 ATATTATTTTATATTATAATTT
*
116462 ATATTTTTTTATAATT-TAATTT
1 ATATTATTTTAT-ATTATAATTT
116484 A
1 A
116485 AATATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
ATATTATTTTATATTATAATTT
Found at i:116744 original size:47 final size:45
Alignment explanation
Indices: 116662--116749 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
116652 CATATTTTAA
* * * *
116662 AATAAAAAAATTATAAAAATTAAGATTTAATTTTTATATTTGTTT
1 AATAAAAAAATTATAAAAATTAAAAATTAAATTTTAAATTTGTTT
* *
116707 AATAAAAAATTTATATAAATTAATTAAATTAAATTTTAAATTT
1 AATAAAAAAATTATAAAAATTAA--AAATTAAATTTTAAATTT
116750 ATAAAAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 21 0.60
47 14 0.40
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (45 bp):
AATAAAAAAATTATAAAAATTAAAAATTAAATTTTAAATTTGTTT
Found at i:117639 original size:20 final size:20
Alignment explanation
Indices: 117602--117640 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
117592 ATTGAGATTC
* *
117602 AAAATTGAATTTTTATTTTT
1 AAAATTGAAATTTGATTTTT
*
117622 AAAATTTAAATTTGATTTT
1 AAAATTGAAATTTGATTTT
117641 AAATTAAGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
AAAATTGAAATTTGATTTTT
Found at i:117950 original size:24 final size:24
Alignment explanation
Indices: 117886--117941 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
117876 CAAATTAAAT
* *
117886 ATTAAT-ATTAAAATCTAA-CTTA
1 ATTAATAATTTAAATATAATCTTA
*
117908 TTTAATAATTTAAATATAATCTTA
1 ATTAATAATTTAAATATAATCTTA
117932 ATTAATAATT
1 ATTAATAATT
117942 ATATAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 5 0.18
23 10 0.36
24 13 0.46
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTAATAATTTAAATATAATCTTA
Found at i:121227 original size:2 final size:2
Alignment explanation
Indices: 121220--121259 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
121210 TCAACCCAAT
*
121220 TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
121260 ACAGGTATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:121841 original size:2 final size:2
Alignment explanation
Indices: 121836--121863 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
121826 AGAGAACTAC
121836 AT 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
121864 CTTTTCAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123303 original size:38 final size:40
Alignment explanation
Indices: 123223--123309 Score: 99
Period size: 38 Copynumber: 2.2 Consensus size: 40
123213 ATTTAAAAAT
*
123223 ATTAAATATTAAAAAAACATTATTATATTAATATTTATATA
1 ATTAAAT-TTAAAAAAACATTATTATATTAATAATTATATA
* *
123264 ATTAAATTTAAATAAATATT-TT-TATTAAATAATTA-ATA
1 ATTAAATTTAAAAAAACATTATTATATT-AATAATTATATA
*
123302 ATAAAATT
1 ATTAAATT
123310 AGAATGTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 14 0.34
39 9 0.22
40 11 0.27
41 7 0.17
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (40 bp):
ATTAAATTTAAAAAAACATTATTATATTAATAATTATATA
Found at i:128745 original size:14 final size:15
Alignment explanation
Indices: 128728--128765 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
128718 ATATTAATAT
128728 TTATTTATTTTTT-A
1 TTATTTATTTTTTAA
*
128742 TTATTAATTTTTTAA
1 TTATTTATTTTTTAA
*
128757 TTTTTTATT
1 TTATTTATT
128766 ATAAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTATTTTTTAA
Found at i:128759 original size:22 final size:24
Alignment explanation
Indices: 128719--128767 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
128709 ATAAACAATA
*
128719 TATTAATATTTATTTATTTTTTAT
1 TATTAATATTTATTAATTTTTTAT
128743 TATTAAT-TTT-TTAATTTTTTAT
1 TATTAATATTTATTAATTTTTTAT
128765 TAT
1 TAT
128768 AAAATAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 14 0.58
23 3 0.12
24 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (24 bp):
TATTAATATTTATTAATTTTTTAT
Found at i:128781 original size:9 final size:9
Alignment explanation
Indices: 128769--128801 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
128759 TTTTATTATA
128769 AAATAATAT
1 AAATAATAT
128778 AAATAATAT
1 AAATAATAT
128787 AAATAA-ATT
1 AAATAATA-T
128796 AAATAA
1 AAATAA
128802 ATTTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 1 0.04
9 22 0.96
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAATAATAT
Found at i:130218 original size:30 final size:30
Alignment explanation
Indices: 130159--130215 Score: 107
Period size: 29 Copynumber: 1.9 Consensus size: 30
130149 TATATATATT
130159 AAATATAAATATTTTAAAAAAATAAAAATC
1 AAATATAAATATTTTAAAAAAATAAAAATC
130189 AAATATAAATA-TTTAAAAAAATAAAAA
1 AAATATAAATATTTTAAAAAAATAAAAA
130216 ATCTGAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (30 bp):
AAATATAAATATTTTAAAAAAATAAAAATC
Found at i:130233 original size:29 final size:29
Alignment explanation
Indices: 130159--130238 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
130149 TATATATATT
*
130159 AAATATAAATATTTTAAAAAAATAAAAATC
1 AAATATAAATA-CTTAAAAAAATAAAAATC
*
130189 AAATATAAATATTTAAAAAAATAAAAAATC
1 AAATATAAATACTTAAAAAAAT-AAAAATC
** *
130219 TGA-ATAAATGCTTAAAAAAA
1 AAATATAAATACTTAAAAAAA
130239 GATAAGAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 26 0.58
30 19 0.42
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.28
Consensus pattern (29 bp):
AAATATAAATACTTAAAAAAATAAAAATC
Found at i:131245 original size:19 final size:20
Alignment explanation
Indices: 131221--131258 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
131211 TTACATCCGA
131221 AAATGTGAT-AAAAAGTGAT
1 AAATGTGATGAAAAAGTGAT
*
131240 AAATGTGATGAAAATGTGA
1 AAATGTGATGAAAAAGTGA
131259 CCGTAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (20 bp):
AAATGTGATGAAAAAGTGAT
Found at i:132736 original size:23 final size:22
Alignment explanation
Indices: 132701--132746 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 22
132691 AACTATTTAA
132701 AAAATAAATTATTTGTATTATTAT
1 AAAATAAATTA-TTGTA-TATTAT
132725 AAAA-AAATTATTGTATATTAT
1 AAAATAAATTATTGTATATTAT
132746 A
1 A
132747 TAACTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 5 0.23
23 6 0.27
24 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
AAAATAAATTATTGTATATTAT
Found at i:132748 original size:23 final size:24
Alignment explanation
Indices: 132701--132749 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
132691 AACTATTTAA
*
132701 AAAATAAATTATTTGTATTATTAT
1 AAAATAAATTATTTATATTATTAT
132725 AAAA-AAATTATTGTATATTA-TAT
1 AAAATAAATTATT-TATATTATTAT
132748 AA
1 AA
132750 CTTTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
AAAATAAATTATTTATATTATTAT
Found at i:132791 original size:16 final size:16
Alignment explanation
Indices: 132770--132800 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
132760 TTATATAAAT
*
132770 ATATTTTACTTATATG
1 ATATTTTAATTATATG
132786 ATATTTTAATTATAT
1 ATATTTTAATTATAT
132801 ATAAAATATA
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:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
ATATTTTAATTATATG
Found at i:135171 original size:23 final size:23
Alignment explanation
Indices: 135140--135222 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
135130 AATACATATC
*
135140 ATTATATTAGATTATATAAACTT
1 ATTAGATTAGATTATATAAACTT
135163 ATTAGATTAGATTATATAAACTT
1 ATTAGATTAGATTATATAAACTT
* * *
135186 ATTA-A-TATATTACATATA-TT
1 ATTAGATTAGATTATATAAACTT
135206 ATTAGATTAGATTATAT
1 ATTAGATTAGATTATAT
135223 GATTGATGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
20 6 0.12
21 11 0.21
22 9 0.17
23 26 0.50
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (23 bp):
ATTAGATTAGATTATATAAACTT
Found at i:135826 original size:33 final size:34
Alignment explanation
Indices: 135781--135858 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 34
135771 TTATATTTAA
* *
135781 AATAT-TTTATATTTTTATAAATTTTAATATATT
1 AATATATTTATATTTATATAAATTTTAAAATATT
135814 AAT-TATTTATA-TTATATAAATTTTAAAATATT
1 AATATATTTATATTTATATAAATTTTAAAATATT
*
135846 TATATATTTATAT
1 AATATATTTATAT
135859 AATAGAATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 22 0.56
33 17 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (34 bp):
AATATATTTATATTTATATAAATTTTAAAATATT
Found at i:135835 original size:32 final size:33
Alignment explanation
Indices: 135781--135886 Score: 108
Period size: 33 Copynumber: 3.1 Consensus size: 33
135771 TTATATTTAA
*
135781 AATAT-TTTATATTTTTATAAATTTTAATATATT
1 AATATATTTATA-TTATATAAATTTTAATATATT
*
135814 AAT-TATTTATATTATATAAATTTTAAAATATT
1 AATATATTTATATTATATAAATTTTAATATATT
* * *
135846 TATATATTTATATAATAGAATCATATTTAATAATATT
1 AATATATTTATATTATATAA--AT-TTTAAT-ATATT
135883 AATA
1 AATA
135887 GCACTCATCA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
32 22 0.37
33 23 0.38
35 2 0.03
36 5 0.08
37 8 0.13
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (33 bp):
AATATATTTATATTATATAAATTTTAATATATT
Found at i:136462 original size:16 final size:17
Alignment explanation
Indices: 136443--136478 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
136433 ATTATATTAC
136443 ATTAATTA-AATTTTAA
1 ATTAATTATAATTTTAA
*
136459 ATTATTTATAATTTTAA
1 ATTAATTATAATTTTAA
136476 ATT
1 ATT
136479 TGAATTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTAATTATAATTTTAA
Found at i:136722 original size:18 final size:18
Alignment explanation
Indices: 136630--136727 Score: 55
Period size: 19 Copynumber: 5.5 Consensus size: 18
136620 TAATTATTTT
136630 AATTATTTTTATAATA-A
1 AATTATTTTTATAATATA
*
136647 AA-TATTATT-T-ATATA
1 AATTATTTTTATAATATA
* *
136662 AATT-TTGATATATTAATAATT
1 AATTATT--TTTA-TAAT-ATA
* *
136683 TATTATTTATATAATATA
1 AATTATTTTTATAATATA
*
136701 AATTTATTTTTA-AATTTA
1 AA-TTATTTTTATAATATA
136719 AATTATTTT
1 AATTATTTT
136728 ATTTAAAACA
Statistics
Matches: 62, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
14 3 0.05
15 6 0.10
16 7 0.11
17 10 0.16
18 10 0.16
19 13 0.21
20 6 0.10
21 5 0.08
22 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (18 bp):
AATTATTTTTATAATATA
Done.