Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold211
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: 2157208
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 20444 characters in sequence are not A, C, G, or T
File 1 of 15
Found at i:1600 original size:12 final size:12
Alignment explanation
Indices: 1585--1635 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
1575 TAATTTATCA
1585 TATTTATTATAT
1 TATTTATTATAT
1597 TATTT-TTATATT
1 TATTTATTATA-T
* *
1609 TATTAAATATAT
1 TATTTATTATAT
*
1621 TATTTTTTATAT
1 TATTTATTATAT
1633 TAT
1 TAT
1636 ATTTAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 5 0.16
12 23 0.72
13 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTATTATAT
Found at i:2018 original size:2 final size:2
Alignment explanation
Indices: 2011--2039 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2001 CAATATTTAA
2011 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2040 GGAACTTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2926 original size:22 final size:21
Alignment explanation
Indices: 2901--2970 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 21
2891 AGTTTTTTTG
* *
2901 AATTATTAATTTTAATTGATTT
1 AATTATTAAATTAAATT-ATTT
2923 AATTAATTAAATTAAATTATTT
1 AATT-ATTAAATTAAATTATTT
* **
2945 AATTA--AAAATAAATTAAAT
1 AATTATTAAATTAAATTATTT
2964 AATTATT
1 AATTATT
2971 TATTTAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 16 0.40
21 1 0.03
22 12 0.30
23 11 0.28
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
AATTATTAAATTAAATTATTT
Found at i:3005 original size:30 final size:31
Alignment explanation
Indices: 2923--2985 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
2913 TAATTGATTT
*
2923 AATTAATTAAATTAAATTATTTAATTAAAAATA
1 AATTAAAT-AATT-AATTATTTAATTAAAAATA
*
2956 AATTAAATAATTATTTATTTAA-TAAAAATA
1 AATTAAATAATTAATTATTTAATTAAAAATA
2986 TATAATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 8 0.29
31 9 0.32
32 4 0.14
33 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
AATTAAATAATTAATTATTTAATTAAAAATA
Found at i:3838 original size:24 final size:24
Alignment explanation
Indices: 3802--3879 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
3792 ATATATTTTA
3802 TAATTAAATTTAAATAAAAATATAT
1 TAATT-AATTTAAATAAAAATATAT
* * *
3827 TAATTAATTTAAA-AATATTATTT
1 TAATTAATTTAAATAAAAATATAT
*
3850 TAAATTAATTTAAAATAAAAA-ATAA
1 T-AATTAATTT-AAATAAAAATATAT
3875 TAATT
1 TAATT
3880 TAAATCGAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
23 8 0.19
24 21 0.49
25 11 0.26
26 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TAATTAATTTAAATAAAAATATAT
Found at i:4119 original size:33 final size:33
Alignment explanation
Indices: 4081--4170 Score: 128
Period size: 32 Copynumber: 2.7 Consensus size: 33
4071 AAATATCAGA
*
4081 AATATAAATTTTTAAATATTTTAAAATTTATAT
1 AATATAAATTTTTAAATATATTAAAATTTATAT
*
4114 AATATAAATTATT-AATATATTAAAATTTATAT
1 AATATAAATTTTTAAATATATTAAAATTTATAT
*
4146 AATTATAAATATTTTAAAAATATTA
1 AA-TATAAAT-TTTTAAATATATTA
4171 TGTATATATG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
32 20 0.40
33 19 0.38
34 3 0.06
35 8 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
AATATAAATTTTTAAATATATTAAAATTTATAT
Found at i:4159 original size:18 final size:16
Alignment explanation
Indices: 4082--4159 Score: 54
Period size: 16 Copynumber: 4.8 Consensus size: 16
4072 AATATCAGAA
* *
4082 ATATAAATTTTTAAAT
1 ATATAAATATTTATAT
*
4098 ATTTTAAA-ATTTATAT
1 A-TATAAATATTTATAT
*
4114 AATATAAATTATTAATAT
1 -ATATAAA-TATTTATAT
4132 AT-TAAA-ATTTATAT
1 ATATAAATATTTATAT
4146 AATTATAAATATTT
1 -A-TATAAATATTT
4160 TAAAAATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
14 7 0.15
15 1 0.02
16 17 0.35
17 12 0.25
18 11 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATAAATATTTATAT
Found at i:4969 original size:22 final size:22
Alignment explanation
Indices: 4943--4988 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4933 AAAAAAATTA
4943 TATATATTGAAAT-TTAAATTTT
1 TATATATTGAAATATT-AATTTT
* *
4965 TATATTTTTAAATATTAATTTT
1 TATATATTGAAATATTAATTTT
4987 TA
1 TA
4989 ATTAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATATATTGAAATATTAATTTT
Found at i:6265 original size:20 final size:20
Alignment explanation
Indices: 6224--6299 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
6214 CTCAAAATTC
* *
6224 AAATATACATATATATATAT
1 AAATATACATAAATATAAAT
6244 AAATATACATGAAATA-AAAT
1 AAATATACAT-AAATATAAAT
** *
6264 AAAT-TATTTATATATAAA-
1 AAATATACATAAATATAAAT
* *
6282 AAATATATAAAAATATAA
1 AAATATACATAAATATAA
6300 TATTTTACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
18 8 0.18
19 16 0.36
20 17 0.38
21 4 0.09
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (20 bp):
AAATATACATAAATATAAAT
Found at i:6333 original size:6 final size:6
Alignment explanation
Indices: 6322--6347 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6312 AAAAAATAAC
6322 ATAAAT ATAAAT ATAAAT ATAAAT AT
1 ATAAAT ATAAAT ATAAAT ATAAAT AT
6348 TTTTCTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATAAAT
Found at i:6335 original size:33 final size:32
Alignment explanation
Indices: 6257--6336 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 32
6247 TATACATGAA
* *
6257 ATAAAATAAAT-TATTTATATATAAAAAATAT
1 ATAAAATAAATATATTTACATATAAAAAATAC
6288 ATAAAAATATAATAT-TTTACATATAAAAAATAAC
1 AT-AAAATA-AATATATTTACATATAAAAAAT-AC
6322 ATAAATATAAATATA
1 ATAAA-ATAAATATA
6337 AATATAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
31 2 0.05
32 6 0.15
33 26 0.63
34 7 0.17
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (32 bp):
ATAAAATAAATATATTTACATATAAAAAATAC
Found at i:6371 original size:15 final size:15
Alignment explanation
Indices: 6347--6406 Score: 77
Period size: 15 Copynumber: 3.9 Consensus size: 15
6337 AATATAAATA
6347 TTTTTCTCTTTTTTTC
1 TTTTT-TCTTTTTTTC
*
6363 TTTTTTCTTTCTTTC
1 TTTTTTCTTTTTTTC
6378 TTTTTTCTCTTTTTT-
1 TTTTTTCT-TTTTTTC
*
6393 TTCTTTCTTTTTTT
1 TTTTTTCTTTTTTT
6407 TTAAGTCGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
14 6 0.15
15 24 0.60
16 10 0.25
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:6373 original size:11 final size:10
Alignment explanation
Indices: 6347--6405 Score: 73
Period size: 11 Copynumber: 5.5 Consensus size: 10
6337 AATATAAATA
*
6347 TTTTTCTCTT
1 TTTTTCTTTT
6357 TTTTTCTTTT
1 TTTTTCTTTT
6367 TTCTTTCTTTCT
1 TT-TTTCTTT-T
6379 TTTTTCTCTTT
1 TTTTTCT-TTT
6390 TTTTTCTTTCT
1 TTTTTCTTT-T
6401 TTTTT
1 TTTTT
6406 TTTAAGTCGA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
10 13 0.30
11 26 0.59
12 5 0.11
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:6384 original size:22 final size:22
Alignment explanation
Indices: 6347--6405 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
6337 AATATAAATA
*
6347 TTTTTCTCT-TTTTTTCT-TTT
1 TTTTTCTTTCTTTTTTCTCTTT
6367 TTCTTTCTTTCTTTTTTCTCTTT
1 TT-TTTCTTTCTTTTTTCTCTTT
6390 TTTTTCTTTCTTTTTT
1 TTTTTCTTTCTTTTTT
6406 TTTAAGTCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 22 0.63
23 5 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTCTTTCTTTTTTCTCTTT
Found at i:6660 original size:16 final size:16
Alignment explanation
Indices: 6636--6689 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
6626 TTATTATAAG
*
6636 TATTTTATTTTAATTT
1 TATTATATTTTAATTT
6652 TATTATATTTTCATATTT
1 TATTATATTTT-A-ATTT
*
6670 TATTAAAGTTTT-ATTT
1 TATTATA-TTTTAATTT
6686 TATT
1 TATT
6690 TTACTTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 18 0.55
17 1 0.03
18 10 0.30
19 4 0.12
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTATATTTTAATTT
Found at i:6671 original size:29 final size:29
Alignment explanation
Indices: 6636--6691 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
6626 TTATTATAAG
*
6636 TATTTTATTTTAA-TTTTATTATATTTTCA
1 TATTTTA-TTAAAGTTTTATTATATTTTCA
*
6665 TATTTTATTAAAGTTTTATTTTATTTT
1 TATTTTATTAAAGTTTTATTATATTTT
6692 ACTTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (29 bp):
TATTTTATTAAAGTTTTATTATATTTTCA
Found at i:7148 original size:16 final size:16
Alignment explanation
Indices: 7127--7237 Score: 68
Period size: 15 Copynumber: 6.8 Consensus size: 16
7117 AAAAATAATT
7127 AAAATATAATATATTAAA
1 AAAATATAATATATT--A
7145 AATAATATAAATATATTA
1 AA-AATAT-AATATATTA
*
7163 AAAA-AT-ATATAATA
1 AAAATATAATATATTA
*
7177 TAAATTATTAATATATTA
1 -AAAATA-TAATATATTA
* *
7195 AAATTA-AATAAATT-
1 AAAATATAATATATTA
* * *
7209 TAAATATATTATAATA
1 AAAATATAATATATTA
*
7225 TAAATATAATATA
1 AAAATATAATATA
7238 AATATATAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
14 11 0.15
15 15 0.20
16 15 0.20
17 9 0.12
18 12 0.16
19 5 0.07
20 8 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATATAATATATTA
Found at i:7150 original size:25 final size:25
Alignment explanation
Indices: 7117--7244 Score: 86
Period size: 25 Copynumber: 5.0 Consensus size: 25
7107 ATATGATTTA
*
7117 AAAAATAATTAAAATATAATATATT
1 AAAAATAAATAAAATATAATATATT
*
7142 AAAAAT-AATATAAATAT-AT-TA-A
1 AAAAATAAATA-AAATATAATATATT
7164 AAAATATATAATATAAATTATTAATATATT
1 AAAA-ATA-AATA-AAA-TA-TAATATATT
* *
7194 AAAATTAAAT-AAATTTAAATATATT
1 AAAAATAAATAAAATAT-AATATATT
* *
7219 ATAATATAAATATAATATAAATATAT
1 A-AAAATAAATAAAATAT-AATATAT
7245 AAATTTATCA
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
22 4 0.05
23 4 0.05
24 6 0.07
25 30 0.37
26 12 0.15
27 13 0.16
28 5 0.06
29 4 0.05
30 4 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAAATAAATAAAATATAATATATT
Found at i:7172 original size:32 final size:32
Alignment explanation
Indices: 7148--7248 Score: 83
Period size: 32 Copynumber: 3.3 Consensus size: 32
7138 TATTAAAAAT
7148 AATATAAATATATTAAAAAATATATAATATAA
1 AATATAAATATATTAAAAAATATATAATATAA
* *
7180 ATTATTAATATATT---AAA-AT-TAA-AT-A
1 AATATAAATATATTAAAAAATATATAATATAA
*
7205 AATTTAAATATATTATAATATAA-ATATAATATAA
1 AATATAAATATATTA-AA-A-AATATATAATATAA
7239 ATATATAAAT
1 A-ATATAAAT
7249 TTATCAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
25 12 0.23
26 2 0.04
27 3 0.06
28 2 0.04
29 3 0.06
30 1 0.02
31 4 0.08
32 15 0.28
33 2 0.04
34 2 0.04
35 7 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
AATATAAATATATTAAAAAATATATAATATAA
Found at i:7191 original size:57 final size:59
Alignment explanation
Indices: 7129--7240 Score: 142
Period size: 57 Copynumber: 1.9 Consensus size: 59
7119 AAATAATTAA
*
7129 AATATAAT-ATATTAAAAATAATATAAATATATTA-AA-A-AATATATAATATAAATTATT
1 AATATAATAAAATTAAAAA-AATATAAATATATTATAATATAA-ATATAATATAAATTATT
* * *
7186 AATATATTAAAATTAAATAAATTTAAATATATTATAATATAAATATAATATAAAT
1 AATATAATAAAATTAAAAAAATATAAATATATTATAATATAAATATAATATAAAT
7241 ATATAAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
57 21 0.45
58 10 0.21
59 14 0.30
60 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (59 bp):
AATATAATAAAATTAAAAAAATATAAATATATTATAATATAAATATAATATAAATTATT
Found at i:7238 original size:16 final size:16
Alignment explanation
Indices: 7128--7243 Score: 71
Period size: 16 Copynumber: 7.1 Consensus size: 16
7118 AAAATAATTA
7128 AAATATAATAT-AT-T
1 AAATATAATATAATAT
*
7142 AAAAATAATATAAATAT
1 AAATATAATAT-AATAT
* *
7159 ATTAAAAAATATATAATAT
1 A--AATATA-ATATAATAT
*
7178 AAATTATTAATATATTA-
1 AAA-TA-TAATATAATAT
*
7195 AAAT-TAA-ATAAATTT
1 AAATATAATAT-AATAT
*
7210 AAATATATTATAATAT
1 AAATATAATATAATAT
7226 AAATATAATATAAATAT
1 AAATATAATAT-AATAT
7243 A
1 A
7244 TAAATTTATC
Statistics
Matches: 79, Mismatches: 10, Indels: 23
0.71 0.09 0.21
Matches are distributed among these distances:
13 2 0.03
14 15 0.19
15 4 0.05
16 19 0.24
17 15 0.19
18 8 0.10
19 12 0.15
20 4 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAATATAATAT
Found at i:7247 original size:41 final size:41
Alignment explanation
Indices: 7123--7251 Score: 108
Period size: 41 Copynumber: 3.1 Consensus size: 41
7113 TTTAAAAAAT
* * *
7123 AATTAAAATATAATAT-AT-TAAAAATAATATAAATATATTA
1 AATTTAAATATATTATAATATAAATATAATATAAATATA-TA
* * *
7163 AA---AAATATATAATATAAATTATTAATATATTA-AAATTAAATA
1 AATTTAAATATAT--TAT-AA-TATAAATATAATATAAA-TATATA
7205 AATTTAAATATATTATAATATAAATATAATATAAATATATA
1 AATTTAAATATATTATAATATAAATATAATATAAATATATA
7246 AATTTA
1 AATTTA
7252 TCAAATATAA
Statistics
Matches: 70, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
37 7 0.10
39 3 0.04
40 2 0.03
41 23 0.33
42 13 0.19
43 14 0.20
45 8 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (41 bp):
AATTTAAATATATTATAATATAAATATAATATAAATATATA
Found at i:7706 original size:8 final size:8
Alignment explanation
Indices: 7693--7747 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
7683 AGATATAGTA
7693 ATTTATAT
1 ATTTATAT
7701 ATTTATAT
1 ATTTATAT
7709 ATTT-TAT
1 ATTTATAT
*
7716 -TATATTAT
1 ATTTA-TAT
* *
7724 ATTAAAAT
1 ATTTATAT
7732 ATTT-TAT
1 ATTTATAT
7739 ATTTATAT
1 ATTTATAT
7747 A
1 A
7748 AATTTTAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
6 2 0.05
7 9 0.24
8 24 0.65
9 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTATAT
Found at i:7747 original size:23 final size:23
Alignment explanation
Indices: 7693--7747 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
7683 AGATATAGTA
* *
7693 ATTTATATATTTATATATTTTAT
1 ATTTATATATTAAAATATTTTAT
*
7716 -TATATTATATTAAAATATTTTAT
1 ATTTA-TATATTAAAATATTTTAT
7739 ATTTATATA
1 ATTTATATA
7748 AATTTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.12
23 20 0.77
24 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTATATATTAAAATATTTTAT
Found at i:7805 original size:31 final size:31
Alignment explanation
Indices: 7735--7805 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 31
7725 TTAAAATATT
*
7735 TTATATTTATATAAATTTTAATATAATTTTAA
1 TTATA-TTATATAAATTTTAATATAATTATAA
*
7767 TTCATATTATA-AAATTTTTATATATATTCAT-A
1 TT-ATATTATATAAATTTTAATATA-ATT-ATAA
7799 TTATATT
1 TTATATT
7806 TTTATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
31 17 0.50
32 13 0.38
33 4 0.12
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
TTATATTATATAAATTTTAATATAATTATAA
Found at i:7813 original size:26 final size:24
Alignment explanation
Indices: 7766--7829 Score: 58
Period size: 26 Copynumber: 2.6 Consensus size: 24
7756 TATAATTTTA
**
7766 ATTCATATTATAAAATTTTTATATAT
1 ATTCATATTAT-ATTTTTTTAT-TAT
*
7792 ATTCATATTATATTTTTATTATTTT
1 ATTCATATTATATTTTT-TTATTAT
*
7817 A-TAATATTATATT
1 ATTCATATTATATT
7830 CATATAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.33
25 7 0.21
26 15 0.45
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTCATATTATATTTTTTTATTAT
Found at i:10277 original size:39 final size:37
Alignment explanation
Indices: 10241--10331 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 37
10231 ATGTATTTGA
** *
10241 AAAAATCTTAAGTTTTTGTTGTGAA-CGAGATATATTT
1 AAAAATCTTAAGCATTTGTTG-AAATCGAGATATATTT
*
10278 AAATATCTTAAGCATTTGTTGAAATCGAGATATA-TT
1 AAAAATCTTAAGCATTTGTTGAAATCGAGATATATTT
*
10314 AAAAAGTCTCAAGC-TTTG
1 AAAAA-TCTTAAGCATTTG
10332 AGCAAAAACT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
36 12 0.26
37 34 0.74
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (37 bp):
AAAAATCTTAAGCATTTGTTGAAATCGAGATATATTT
Found at i:11705 original size:14 final size:14
Alignment explanation
Indices: 11686--11715 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11676 GATTATAATC
11686 TATTTTTAACTATA
1 TATTTTTAACTATA
*
11700 TATTTTTACCTATA
1 TATTTTTAACTATA
11714 TA
1 TA
11716 ATATTTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTTTAACTATA
Found at i:13255 original size:21 final size:23
Alignment explanation
Indices: 13229--13273 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13219 AAAAACTGAT
13229 TAAA-TTTAATAA-ATATTCATA
1 TAAATTTTAATAATATATTCATA
*
13250 TAAATTTTAATAATATATTTATA
1 TAAATTTTAATAATATATTCATA
13273 T
1 T
13274 TTATATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 9 0.43
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAATTTTAATAATATATTCATA
Found at i:13818 original size:17 final size:16
Alignment explanation
Indices: 13781--13827 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
13771 TTTTAATATT
*
13781 AAATAAATATTAAATA
1 AAATAAATATTTAATA
*
13797 TAATAAATATTTAATAA
1 AAATAAATATTTAAT-A
*
13814 AAATACATATTTAA
1 AAATAAATATTTAA
13828 CTAATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAAATATTTAATA
Found at i:14355 original size:29 final size:28
Alignment explanation
Indices: 14301--14373 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
14291 TCGCTTCTTA
*
14301 AAATAA-A-TTTATATTTTTATTGTATTT
1 AAATAATATTTTAT-TTTTTATTATATTT
14328 AAATAATATTTTATTTTTTATTAATATTT
1 AAATAATATTTTATTTTTTATT-ATATTT
*
14357 AAATAATTTTTTATTTT
1 AAATAATATTTTATTTT
14374 AAATGAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 6 0.15
28 9 0.22
29 26 0.63
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (28 bp):
AAATAATATTTTATTTTTTATTATATTT
Found at i:14374 original size:27 final size:26
Alignment explanation
Indices: 14301--14374 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 26
14291 TCGCTTCTTA
* * *
14301 AAATAAATTTATATTTTTATTGTATTT
1 AAATAATTTTTTA-TTTTATTATATTT
*
14328 AAATAATATTTTATTTTTTATTAATATTT
1 AAATAAT-TTTT-TATTTTATT-ATATTT
14357 AAATAATTTTTTATTTTA
1 AAATAATTTTTTATTTTA
14375 AATGAAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 12 0.31
28 14 0.36
29 13 0.33
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (26 bp):
AAATAATTTTTTATTTTATTATATTT
Found at i:14385 original size:29 final size:29
Alignment explanation
Indices: 14324--14385 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
14314 TTTTTATTGT
** * *
14324 ATTTAAATAATATTTTATTTTTTATTAAT
1 ATTTAAATAATATTTTATTTTAAATGAAA
*
14353 ATTTAAATAATTTTTTATTTTAAATGAAA
1 ATTTAAATAATATTTTATTTTAAATGAAA
14382 ATTT
1 ATTT
14386 GATTTATGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
ATTTAAATAATATTTTATTTTAAATGAAA
Found at i:15292 original size:17 final size:17
Alignment explanation
Indices: 15253--15292 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
15243 CGGATTATTA
15253 TGAATTTAAATCATTTT
1 TGAATTTAAATCATTTT
* *
15270 AG-ATTTAAGTCATTTT
1 TGAATTTAAATCATTTT
15286 TGAATTT
1 TGAATTT
15293 TGATTGGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (17 bp):
TGAATTTAAATCATTTT
Found at i:18385 original size:39 final size:37
Alignment explanation
Indices: 18327--18412 Score: 100
Period size: 39 Copynumber: 2.3 Consensus size: 37
18317 TTAATTTTTT
* * * *
18327 TAAAAAAAATATATTTAATTTAAATTTATGTATATTAAA
1 TAAAAATATTATATATAATTAAAATTTAT-TATA-TAAA
* *
18366 TATAAATATTATATATAATTAAAATTTATTATATAAG
1 TAAAAATATTATATATAATTAAAATTTATTATATAAA
18403 TAAAAATATT
1 TAAAAATATT
18413 TTATTTTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 12 0.30
38 4 0.10
39 24 0.60
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (37 bp):
TAAAAATATTATATATAATTAAAATTTATTATATAAA
Found at i:18390 original size:18 final size:20
Alignment explanation
Indices: 18369--18416 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
18359 TATTAAATAT
*
18369 AAATATTA-TATATAA-TTA
1 AAATATTATTATATAAGTAA
18387 AAAT-TTATTATATAAGTAA
1 AAATATTATTATATAAGTAA
18406 AAATATT-TTAT
1 AAATATTATTAT
18417 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 11 0.42
19 10 0.38
20 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AAATATTATTATATAAGTAA
Found at i:18503 original size:16 final size:16
Alignment explanation
Indices: 18482--18514 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18472 TTTAATTTTT
*
18482 TAAAAATATTTACTTA
1 TAAAAAAATTTACTTA
18498 TAAAAAAATTTACTTA
1 TAAAAAAATTTACTTA
18514 T
1 T
18515 TTTTAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAAAAATTTACTTA
Found at i:24913 original size:15 final size:14
Alignment explanation
Indices: 24891--24932 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
24881 CAGAGAATGT
24891 TATAAATATAATAA
1 TATAAATATAATAA
*
24905 TATTAAATATAATTA
1 TA-TAAATATAATAA
*
24920 TATCAATATAATA
1 TATAAATATAATA
24933 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAAATATAATAA
Found at i:26417 original size:22 final size:22
Alignment explanation
Indices: 26375--26417 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26365 TTAATATATT
* *
26375 ATTTAAAATCATGATATATTTC
1 ATTTAAAATCATAATAAATTTC
*
26397 ATTTAAAATTATAATAAATTT
1 ATTTAAAATCATAATAAATTT
26418 AAATATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTTAAAATCATAATAAATTTC
Found at i:27975 original size:22 final size:22
Alignment explanation
Indices: 27950--27998 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
27940 TATTATTTAA
*
27950 TAATAAAAAAATTATTTAAAT-T
1 TAATAAAAAAA-TATATAAATAT
* *
27972 TAATTATAAAATATATAAATAT
1 TAATAAAAAAATATATAAATAT
27994 TAATA
1 TAATA
27999 TTAATATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATAAAAAAATATATAAATAT
Found at i:29393 original size:2 final size:2
Alignment explanation
Indices: 29386--29417 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
29376 AAGTTTAGTT
29386 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
29418 AACTAGCCTT
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):
TA
Found at i:29515 original size:21 final size:22
Alignment explanation
Indices: 29481--29525 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
29471 TAACAACTGT
*
29481 ATTTAGTTTGATTTTTATT-AA
1 ATTTAGTTTGATTTTGATTCAA
* *
29502 ATTTATTTTTATTTTGATTCAA
1 ATTTAGTTTGATTTTGATTCAA
29524 AT
1 AT
29526 AATAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (22 bp):
ATTTAGTTTGATTTTGATTCAA
Found at i:29625 original size:19 final size:19
Alignment explanation
Indices: 29580--29628 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
29570 TTAAAAATCA
*
29580 TAATTATTTTAATTAAATTT
1 TAATT-TTTTATTTAAATTT
*
29600 T-ATTTTTTATTTAATTTT
1 TAATTTTTTATTTAAATTT
29618 TAATTTTTTAT
1 TAATTTTTTAT
29629 AATATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 13 0.50
19 12 0.46
20 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TAATTTTTTATTTAAATTT
Found at i:33555 original size:3 final size:3
Alignment explanation
Indices: 33547--33576 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
33537 GACAGTACTG
33547 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33577 CAACAACAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:33750 original size:22 final size:21
Alignment explanation
Indices: 33725--33790 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 21
33715 TCAACATTCG
33725 ATTAACTAATAATTATAAATTT
1 ATTAA-TAATAATTATAAATTT
33747 ATTAATATATTAA-TATAAATTT
1 ATTAATA-A-TAATTATAAATTT
33769 AATTTAA-AATAATT-TAAATTT
1 -A-TTAATAATAATTATAAATTT
33790 A
1 A
33791 AAAAATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
20 1 0.03
21 12 0.31
22 17 0.44
23 5 0.13
24 4 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTAATAATAATTATAAATTT
Found at i:33782 original size:44 final size:45
Alignment explanation
Indices: 33732--33827 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 45
33722 TCGATTAACT
** *
33732 AATAATTATAAATTT-ATTAATATA-TTAATATAAATTTAATTTAA
1 AATAATTATAAATTTAAAAAATAAATTTAATAT-AATTTAATTTAA
33776 AATAATT-TAAATTTAAAAAATAAATTTAATATAATTTAATTTAA
1 AATAATTATAAATTTAAAAAATAAATTTAATATAATTTAATTTAA
*
33820 AATTATTA
1 AATAATTA
33828 AATCAGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
43 7 0.16
44 31 0.69
45 7 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (45 bp):
AATAATTATAAATTTAAAAAATAAATTTAATATAATTTAATTTAA
Found at i:33990 original size:16 final size:17
Alignment explanation
Indices: 33964--33995 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
33954 TTATTTAAAT
33964 TTAATTATAAAAATATA
1 TTAATTATAAAAATATA
33981 TTAA-TATAAAAATAT
1 TTAATTATAAAAATAT
33996 TTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAATTATAAAAATATA
Found at i:34466 original size:13 final size:13
Alignment explanation
Indices: 34450--34512 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 13
34440 TTTATAATAT
34450 TATTAAATTAAAA
1 TATTAAATTAAAA
*
34463 TATTAAAATAAAA
1 TATTAAATTAAAA
34476 TAAAAATTAAATTAAAA
1 T----ATTAAATTAAAA
*
34493 -ATTTAAATTAAAT
1 TA-TTAAATTAAAA
34506 TATTAAA
1 TATTAAA
34513 ATATGTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
12 1 0.02
13 28 0.68
14 1 0.02
17 11 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATTAAATTAAAA
Found at i:34486 original size:17 final size:18
Alignment explanation
Indices: 34453--34492 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
34443 ATAATATTAT
*
34453 TAAATTAAAATATTAAAA
1 TAAAATAAAATATTAAAA
*
34471 TAAAATAAAA-ATTAAAT
1 TAAAATAAAATATTAAAA
34488 TAAAA
1 TAAAA
34493 ATTTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAATAAAATATTAAAA
Found at i:34491 original size:12 final size:12
Alignment explanation
Indices: 34467--34504 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
34457 TTAAAATATT
*
34467 AAAA-TAAAATA
1 AAAATTAAATTA
34478 AAAATTAAATTA
1 AAAATTAAATTA
34490 AAAATTTAAATTA
1 AAAA-TTAAATTA
34503 AA
1 AA
34505 TTATTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 4 0.17
12 10 0.42
13 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATTAAATTA
Found at i:34493 original size:18 final size:18
Alignment explanation
Indices: 34458--34507 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
34448 ATTATTAAAT
*
34458 TAAAATATTAAAAT-AAAA
1 TAAAA-ATTAAATTAAAAA
34476 TAAAAATTAAATTAAAAA
1 TAAAAATTAAATTAAAAA
**
34494 TTTAAATTAAATTA
1 TAAAAATTAAATTA
34508 TTAAAATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAAATTAAATTAAAAA
Found at i:34608 original size:25 final size:25
Alignment explanation
Indices: 34553--34608 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
34543 TTTTAAATAA
* * * *
34553 AATAAATATTATTATGATTAATTCT
1 AATAAATATTAATATAAATAATTAT
* *
34578 ATTAAATATTAATATAAATATTTAT
1 AATAAATATTAATATAAATAATTAT
34603 AATAAA
1 AATAAA
34609 AAATTTAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
AATAAATATTAATATAAATAATTAT
Found at i:34643 original size:22 final size:23
Alignment explanation
Indices: 34594--34655 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 23
34584 TATTAATATA
*
34594 AATATT-TATAATAAAAA-ATTT
1 AATATTATATAATAAAAATAATT
*
34615 AAAATTATATAATAAAAATAATT
1 AATATTATATAATAAAAATAATT
*
34638 ATATTATTATATTATAAA
1 A-A-TATTATATAATAAA
34656 TAAATAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.15
22 11 0.33
23 4 0.12
24 1 0.03
25 12 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATATTATATAATAAAAATAATT
Found at i:35065 original size:22 final size:22
Alignment explanation
Indices: 35033--35075 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35023 TAATTTTTTT
*
35033 AAAATTTTA-TTTATATATTTAA
1 AAAATTATATTTTA-ATATTTAA
35055 AAAATTATATTTTAATATTTA
1 AAAATTATATTTTAATATTTA
35076 TAATCGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AAAATTATATTTTAATATTTAA
Found at i:38374 original size:15 final size:16
Alignment explanation
Indices: 38354--38389 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
38344 AAATTACAAA
38354 ATTAAAT-ATATTTAT
1 ATTAAATAATATTTAT
38369 ATTAAATAAATATTTAT
1 ATTAAAT-AATATTTAT
38386 ATTA
1 ATTA
38390 TGGGTAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
17 12 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAAATAATATTTAT
Found at i:39387 original size:13 final size:13
Alignment explanation
Indices: 39369--39395 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39359 ATTTTTAAAA
39369 AAAAAATTATTTT
1 AAAAAATTATTTT
39382 AAAAAATTATTTT
1 AAAAAATTATTTT
39395 A
1 A
39396 TATTTATATT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAAATTATTTT
Found at i:39649 original size:27 final size:28
Alignment explanation
Indices: 39619--39682 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
39609 TTCAGGTTAG
* *
39619 ATTAAATTTAAATATTTAATTTA-ATTT
1 ATTAAATTAAAAAATTTAATTTATATTT
*
39646 ATTAAATTAAAAAATTTATTTTATTATTT
1 ATTAAATTAAAAAATTTAATTTA-TATTT
39675 -TTAAATTA
1 ATTAAATTA
39683 TTGAAAGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 20 0.62
28 8 0.25
29 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTAAATTAAAAAATTTAATTTATATTT
Found at i:39709 original size:15 final size:15
Alignment explanation
Indices: 39691--39728 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
39681 TATTGAAAGT
39691 TATTTTAT-TTTAT-
1 TATTTTATATTTATA
39704 TATATTTATATTTATA
1 TAT-TTTATATTTATA
39720 TATTTTATA
1 TATTTTATA
39729 ATTAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 5 0.23
15 11 0.50
16 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTATATTTATA
Found at i:40880 original size:27 final size:27
Alignment explanation
Indices: 40818--40886 Score: 95
Period size: 26 Copynumber: 2.6 Consensus size: 27
40808 ATTTTCAAAA
*
40818 AATAATTTTAAACATAAATATAAATAT
1 AATAATTTTAAATATAAATATAAATAT
* *
40845 CATAATTTTAAATAT-GATATAAATAT
1 AATAATTTTAAATATAAATATAAATAT
*
40871 AATAATTTTTAATATA
1 AATAATTTTAAATATA
40887 TTTAATAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 23 0.64
27 13 0.36
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (27 bp):
AATAATTTTAAATATAAATATAAATAT
Found at i:40907 original size:19 final size:19
Alignment explanation
Indices: 40870--40918 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
40860 GATATAAATA
* *
40870 TAATAATTTTTAATATATT
1 TAATAATTTATATTATATT
*
40889 TAATAATTTATATTTTATT
1 TAATAATTTATATTATATT
40908 T-AT-ATTTATAT
1 TAATAATTTATAT
40919 AATTAATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 8 0.30
18 2 0.07
19 17 0.63
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TAATAATTTATATTATATT
Found at i:42055 original size:17 final size:17
Alignment explanation
Indices: 42033--42068 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
42023 TAAATTAAAT
42033 TTAATTAA-TTTATATAA
1 TTAATTAACTTTA-ATAA
42050 TTAATTAACTTTAATAA
1 TTAATTAACTTTAATAA
42067 TT
1 TT
42069 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATTAACTTTAATAA
Found at i:42056 original size:27 final size:24
Alignment explanation
Indices: 42025--42083 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 24
42015 TTAAATATTA
42025 AATTAAATTTAATTAATTTATATAATT
1 AATTAAATTTAA-TAATTT-TA-AATT
*
42052 AATTAACTTTAATAATTTTAAATT
1 AATTAAATTTAATAATTTTAAATT
42076 --TTAAATTT
1 AATTAAATTT
42084 TAAAATCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 7 0.23
24 4 0.13
25 2 0.07
26 6 0.20
27 11 0.37
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAAATTTAATAATTTTAAATT
Found at i:42120 original size:14 final size:15
Alignment explanation
Indices: 42101--42129 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42091 TATATCTTAT
42101 TTTTTTTAT-TATAA
1 TTTTTTTATGTATAA
42115 TTTTTTTATGTATAA
1 TTTTTTTATGTATAA
42130 ATAAAAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTTTATGTATAA
Found at i:42202 original size:20 final size:21
Alignment explanation
Indices: 42172--42216 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
42162 AATTTTTTTA
*
42172 AAATATAAAAAATTATGAT-TT
1 AAATATAAAAAAATAT-ATATT
42193 AAATAT-AAAAAATATATATT
1 AAATATAAAAAAATATATATT
42213 AAAT
1 AAAT
42217 TTTAAATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 14 0.64
21 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATATAAAAAAATATATATT
Found at i:42707 original size:20 final size:20
Alignment explanation
Indices: 42682--42726 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
42672 TTTTTAAAAT
*
42682 TTAAATAAATATAAAATATA
1 TTAAATAAAAATAAAATATA
*
42702 TTAAATAAAAATATAATATA
1 TTAAATAAAAATAAAATATA
*
42722 ATAAA
1 TTAAA
42727 ATATACAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TTAAATAAAAATAAAATATA
Found at i:42714 original size:15 final size:15
Alignment explanation
Indices: 42685--42742 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
42675 TTAAAATTTA
42685 AATAAATATAAAATAT
1 AATAAATA-AAAATAT
*
42701 ATTAAATAAAAATAT
1 AATAAATAAAAATAT
*
42716 AATATAATAAAATATAC
1 AATA-AATAAAA-ATAT
42733 AATAAATAAA
1 AATAAATAAA
42743 TCGTAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 10 0.27
16 20 0.54
17 7 0.19
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAATAAAAATAT
Found at i:45013 original size:22 final size:22
Alignment explanation
Indices: 44988--45030 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44978 AATATTAAAA
*
44988 ATATTTTTAT-ATTAATATTTAT
1 ATATTTTAATAATTAA-ATTTAT
45010 ATATTTTAATAATTAAATTTA
1 ATATTTTAATAATTAAATTTA
45031 AATAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTTAATAATTAAATTTAT
Found at i:45246 original size:3 final size:3
Alignment explanation
Indices: 45196--45234 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
45186 TACTAACTTT
* *
45196 ATA ACA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45235 TCTCATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:45606 original size:2 final size:2
Alignment explanation
Indices: 45595--45625 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
45585 CTATTCTGAA
45595 AT AT -T 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
45626 GCATATTTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:47695 original size:14 final size:14
Alignment explanation
Indices: 47678--47716 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
47668 TTTTATATTA
47678 ATAATTTATAAAAT
1 ATAATTTATAAAAT
47692 ATAAATTT-TAAAAT
1 AT-AATTTATAAAAT
47706 ATATATTTATA
1 ATA-ATTTATA
47717 TCATATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.05
14 14 0.64
15 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAATTTATAAAAT
Found at i:47726 original size:39 final size:38
Alignment explanation
Indices: 47640--47761 Score: 106
Period size: 39 Copynumber: 3.1 Consensus size: 38
47630 ATTTTTTATT
* * * *
47640 ATATTATAATTATATTTAATTTAAATATTTTTATATTAATA
1 ATATTATAAATATA-ATATTTTAAATA-TTATAT-TTAATA
*
47681 AT-TTATAAAATATAA-ATTTTAAA-ATATATATTTATATC
1 ATATTAT-AAATATAATATTTTAAATAT-TATATTTA-ATA
* *
47719 ATATTATAAATTTAATATTTTATATATTATATTTAATA
1 ATATTATAAATATAATATTTTAAATATTATATTTAATA
47757 ATATT
1 ATATT
47762 TTTTAAATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
37 4 0.06
38 23 0.34
39 26 0.39
40 6 0.09
41 8 0.12
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (38 bp):
ATATTATAAATATAATATTTTAAATATTATATTTAATA
Found at i:48247 original size:3 final size:3
Alignment explanation
Indices: 48241--48270 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
48231 TGATTACAAT
48241 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48271 TTATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49927 original size:19 final size:19
Alignment explanation
Indices: 49898--49942 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
49888 TAATATAAAT
*
49898 ATATT-TAATATTTTTTAA
1 ATATTATAATATATTTTAA
49916 ATATTATAATATATTTTAA
1 ATATTATAATATATTTTAA
*
49935 AAATTATA
1 ATATTATA
49943 TTTTTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTATAATATATTTTAA
Found at i:50290 original size:2 final size:2
Alignment explanation
Indices: 50283--50330 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
50273 AAAGGACTTT
50283 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
50325 AG AG AG
1 AG AG AG
50331 GAATTAAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50871 original size:35 final size:36
Alignment explanation
Indices: 50793--50871 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 36
50783 TGATTTTTAC
* * * *
50793 TTTAAATTAAATATGAATTTTAAAAATTTAATTTAA
1 TTTAATTTAAATATAAATTTTAAAAAGTTAAATTAA
*
50829 TTAAATTTAAAT-TAAATTTT-AAAAGTTAAATTAA
1 TTTAATTTAAATATAAATTTTAAAAAGTTAAATTAA
50863 TTTTAATTT
1 -TTTAATTT
50872 TTTTTACATC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
34 12 0.33
35 14 0.39
36 10 0.28
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (36 bp):
TTTAATTTAAATATAAATTTTAAAAAGTTAAATTAA
Found at i:51256 original size:15 final size:14
Alignment explanation
Indices: 51224--51261 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
51214 ATTTTATCAA
51224 AATT-AAAAATAAT
1 AATTAAAAAATAAT
51237 AATTAAAAACATAAT
1 AATTAAAAA-ATAAT
*
51252 TATTAAAAAA
1 AATTAAAAAA
51262 ACTTACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 13 0.59
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
AATTAAAAAATAAT
Found at i:56500 original size:15 final size:15
Alignment explanation
Indices: 56453--56504 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
56443 TGAAGATGCT
56453 GATGAAGTTGAAAGA
1 GATGAAGTTGAAAGA
* * *
56468 GAGGAGGTGGAAAGA
1 GATGAAGTTGAAAGA
*
56483 GATGATGTTGAAAGA
1 GATGAAGTTGAAAGA
56498 GATGAAG
1 GATGAAG
56505 ACTCTGAATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.17
Consensus pattern (15 bp):
GATGAAGTTGAAAGA
Found at i:63333 original size:18 final size:18
Alignment explanation
Indices: 63306--63342 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
63296 TCTAAACCCA
*
63306 TCTTCTTTTTGATCTTCT
1 TCTTCCTTTTGATCTTCT
*
63324 TCTTCCTTTTGCTCTTCT
1 TCTTCCTTTTGATCTTCT
63342 T
1 T
63343 GTAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.03, C:0.27, G:0.05, T:0.65
Consensus pattern (18 bp):
TCTTCCTTTTGATCTTCT
Found at i:63824 original size:25 final size:23
Alignment explanation
Indices: 63784--63832 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
63774 ATTAAAGTTT
*
63784 ATCTATTTTTATTTTTTATTTAA
1 ATCTATTTTTAATTTTTATTTAA
63807 ATCTAATTTTTAAATTTTTATTTAA
1 ATCT-ATTTTT-AATTTTTATTTAA
63832 A
1 A
63833 AATTTTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.17
24 6 0.26
25 13 0.57
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (23 bp):
ATCTATTTTTAATTTTTATTTAA
Found at i:63994 original size:24 final size:25
Alignment explanation
Indices: 63948--63998 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
63938 TAAAAAGATA
* *
63948 TCAAATGTTTAAATTTTTTTTATTT
1 TCAAATGTTTAAATTTATGTTATTT
*
63973 TCAAAT-TTTAACTTTATGTTATTT
1 TCAAATGTTTAAATTTATGTTATTT
63997 TC
1 TC
63999 TTTAATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (25 bp):
TCAAATGTTTAAATTTATGTTATTT
Found at i:64030 original size:50 final size:48
Alignment explanation
Indices: 63961--64056 Score: 113
Period size: 50 Copynumber: 2.0 Consensus size: 48
63951 AATGTTTAAA
* ***
63961 TTTTTTTTATTTTCAAATTTTAACTTTATG-TTATTTTCTTTAATTATT
1 TTTTTTTTATTTTCAAATTTCAAAGCTA-GATTATTTTCTTTAATTATT
*
64009 TTTTTTTTCATTTTTTAAATTTCAAAGCTAGATTATTTTCTTTAATTA
1 TTTTTTTT-A-TTTTCAAATTTCAAAGCTAGATTATTTTCTTTAATTA
64057 AAATAAAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 8 0.20
49 2 0.05
50 30 0.75
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (48 bp):
TTTTTTTTATTTTCAAATTTCAAAGCTAGATTATTTTCTTTAATTATT
Found at i:64271 original size:45 final size:44
Alignment explanation
Indices: 64208--64334 Score: 184
Period size: 45 Copynumber: 2.8 Consensus size: 44
64198 TTTCAACTTT
64208 ATATTA-TTTTTTAATTAAAATAAATAGAGAAAAAAAGAAAAAA
1 ATATTATTTTTTTAATTAAAATAAATAGAGAAAAAAAGAAAAAA
** *
64251 ATATTATTTTCTTTAATTAAAATATTTAGAGAAAAAGAAAGAAAGAA
1 ATATTATTTT-TTTAATTAAAATAAATAGAG-AAAA-AAAGAAAAAA
*
64298 ATATTATTTTTTAAATTAAAATAAATAGAGAAAAAAA
1 ATATTATTTTTTTAATTAAAATAAATAGAGAAAAAAA
64335 AAAGATGAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
43 6 0.08
44 6 0.08
45 22 0.30
46 21 0.28
47 19 0.26
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (44 bp):
ATATTATTTTTTTAATTAAAATAAATAGAGAAAAAAAGAAAAAA
Found at i:64331 original size:46 final size:44
Alignment explanation
Indices: 64208--64335 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 44
64198 TTTCAACTTT
64208 ATATTATTTTTTAATTAAAATAAATAGAG-AAAAAAAGAAAAAA
1 ATATTATTTTTTAATTAAAATAAATAGAGAAAAAAAAGAAAAAA
** *
64251 ATATTATTTTCTTTAATTAAAATATTTAGAGAAAAAGAAAGAAAGAA
1 ATATTA-TTT-TTTAATTAAAATAAATAGAGAAAAA-AAAGAAAAAA
64298 ATATTATTTTTTAAATTAAAATAAATAGAGAAAAAAAA
1 ATATTATTTTTT-AATTAAAATAAATAGAGAAAAAAAA
64336 AAGATGAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
43 6 0.08
44 3 0.04
45 24 0.32
46 27 0.36
47 15 0.20
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.33
Consensus pattern (44 bp):
ATATTATTTTTTAATTAAAATAAATAGAGAAAAAAAAGAAAAAA
Found at i:65008 original size:21 final size:21
Alignment explanation
Indices: 64983--65035 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
64973 GTTACATTTT
*
64983 TTTCATCTAAAAAATGTATTC-
1 TTTCATCTAAAAAATGCA-TCA
**
65004 TTTCATCTAACCAATGCATCA
1 TTTCATCTAAAAAATGCATCA
65025 TTTCATCTAAA
1 TTTCATCTAAA
65036 TATATCTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.40
Consensus pattern (21 bp):
TTTCATCTAAAAAATGCATCA
Found at i:70034 original size:21 final size:21
Alignment explanation
Indices: 70010--70067 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
70000 TTAAAAGTTA
* *
70010 CATTTTTTTATCCAAAAAATG
1 CATTCTTTCATCCAAAAAATG
**
70031 CATTCTTTCATCCAATCAATG
1 CATTCTTTCATCCAAAAAATG
70052 CA-TCATTTCATCCAAA
1 CATTC-TTTCATCCAAA
70068 TATATCTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.38
Consensus pattern (21 bp):
CATTCTTTCATCCAAAAAATG
Found at i:72775 original size:28 final size:28
Alignment explanation
Indices: 72735--72790 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
72725 GTCAGACCCA
72735 AGACATCTATATGTAAATACAAAGCAGT
1 AGACATCTATATGTAAATACAAAGCAGT
72763 AGACATCTATATGTAAATACAAAGCAGT
1 AGACATCTATATGTAAATACAAAGCAGT
72791 TTCAAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (28 bp):
AGACATCTATATGTAAATACAAAGCAGT
Found at i:74483 original size:17 final size:18
Alignment explanation
Indices: 74452--74510 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 18
74442 TATTTTTATT
*
74452 TAAATTTAATTATAATAA
1 TAAATTTAATAATAATAA
74470 TAAA-TTAATAATAATAA
1 TAAATTTAATAATAATAA
*
74487 -AATATTTTTATAATAA-AA
1 TAA-A-TTTAATAATAATAA
74505 TAAATT
1 TAAATT
74511 ATCAAATCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 2 0.06
17 15 0.43
18 7 0.20
19 11 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATTTAATAATAATAA
Found at i:76819 original size:32 final size:33
Alignment explanation
Indices: 76768--76831 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
76758 TTAAATTTAA
* *
76768 AATATTTTATATTTATATAAATTTTAACATATT
1 AATAATTTATATTTATATAAATTTTAAAATATT
76801 AATAATTTATA-TTATATAAATTTTAAAATAT
1 AATAATTTATATTTATATAAATTTTAAAATAT
76832 ATTATCATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (33 bp):
AATAATTTATATTTATATAAATTTTAAAATATT
Found at i:76832 original size:16 final size:16
Alignment explanation
Indices: 76781--76833 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
76771 ATTTTATATT
*
76781 TATATAAATTTTAACA
1 TATATAAATTTTAAAA
* * *
76797 TAT-TAATAATTTATAT
1 TATATAA-ATTTTAAAA
76813 TATATAAATTTTAAAA
1 TATATAAATTTTAAAA
76829 TATAT
1 TATAT
76834 TATCATATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 3 0.11
16 22 0.79
17 3 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATAAATTTTAAAA
Found at i:76846 original size:32 final size:30
Alignment explanation
Indices: 76743--76847 Score: 94
Period size: 32 Copynumber: 3.5 Consensus size: 30
76733 ATTTATATAT
*
76743 TTTATTATATTATAAT-TAAA-TTTAAAATA
1 TTTA-TATATTATTATATAAATTTTAAAATA
*
76772 TTT-TATA-T-TTATATAAATTTTAACATA
1 TTTATATATTATTATATAAATTTTAAAATA
* *
76799 TTAATAATTTATATTATATAAATTTTAAAATA
1 TTTAT-ATAT-TATTATATAAATTTTAAAATA
76831 TATTATCATATTATTAT
1 T-TTAT-ATATTATTAT
76848 TTTATTATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
25 3 0.05
26 5 0.08
27 14 0.23
28 1 0.02
29 5 0.08
31 1 0.02
32 25 0.42
33 6 0.10
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTATATATTATTATATAAATTTTAAAATA
Found at i:79063 original size:187 final size:187
Alignment explanation
Indices: 78632--79444 Score: 873
Period size: 186 Copynumber: 4.3 Consensus size: 187
78622 TTTAAATAAC
* * * ** * *
78632 AATTAGAAATATATTTTCTATTGATAATAGTTATTGCGGTTGCTGATGAATGAATGTTATTATAG
1 AATTATAAATATATTTTTTATTGATAATAGCTATTTTGGTTGCTGACGAATGAATGTTATCATAG
* * * *
78697 TGATTATAATAAATATC-AGTGAT-AAAAAAATAATAATCGTAAAATATCGATTATCTATGTCTA
66 TGATTATGATAAATATCGA-TGATGAAAAAAATTATAATAGTAAAATATCGATTATCTATGTCCA
* * * ** * * ** * *
78760 CATTCAAAA-CTTTTTGCACTGTTGAGCTTTTTTTTCAAATCTTATAGATTTAAATTAC
130 CACTCAAAATCATTTCG-ACTACTAAGTTTTTTTTTTTAATCTTATAGATTAAAATTAT
* * * * *
78818 AATTGTAAATATATTTTTAATTGATAATAGTTATTGTGGTTGCTGACTAATGAATGTTATCATAG
1 AATTATAAATATATTTTTTATTGATAATAGCTATTTTGGTTGCTGACGAATGAATGTTATCATAG
* * * * * *
78883 TGATTATGATAAATATCGATAAT-AAAAAAATCATAATAGTAAAACATTGATTATTTATATCCAC
66 TGATTATGATAAATATCGATGATGAAAAAAATTATAATAGTAAAATATCGATTATCTATGTCCAC
* * * * * *
78947 ACTCAAAACCTTTTCGATTACTAAGTTTTTTTTTTTTAGTTTTATAAATTAAAATTAT
131 ACTCAAAATCATTTCGACTACTAAG-TTTTTTTTTTTAATCTTATAGATTAAAATTAT
* * * *
79005 AATTATAGATATATTTTTTATTGATAATAGCGATTTTGTTTGCTGACAAATGAATGTTATCATAG
1 AATTATAAATATATTTTTTATTGATAATAGCTATTTTGGTTGCTGACGAATGAATGTTATCATAG
* * * * * **
79070 TGATTATGATAAAAATCGATGGTGAAAAAAATTATAATCGTAAAATATCGATTATTTATCTTTAC
66 TGATTATGATAAATATCGATGATGAAAAAAATTATAATAGTAAAATATCGATTATCTATGTCCAC
* * *
79135 ACTCAAAATCATTTCGGCTGCTAAGCTTTTTTTTTTTTTGAGTCTTATAGATTAAAATTAT
131 ACTCAAAATCATTTCGACTACTAAG---TTTTTTTTTTT-AATCTTATAGATTAAAATTAT
** * *
79196 AATTGGAGATATATTTTTTATTGATAATAGCTATTTTGTTTGCTGACGAATGAATGTTATCATAG
1 AATTATAAATATATTTTTTATTGATAATAGCTATTTTGGTTGCTGACGAATGAATGTTATCATAG
* * *
79261 TGATTATGATAAATATTAGATGGTGAAAAAAAATTATAATCA-CAAAATATCGATTATCTATGTC
66 TGATTATGATAAATA-TCGATGATG-AAAAAAATTATAAT-AGTAAAATATCGATTATCTATGTC
* * *
79325 CACACTCAAAATCATTTCAACTACTTAA-TTTTTTTTTTGAATCTTATAGGTTAAAATTAT
128 CACACTCAAAATCATTTCGACTAC-TAAGTTTTTTTTTTTAATCTTATAGATTAAAATTAT
** * * *
79385 AATTATAAATATATTTTCGATTGATAATAGCCATTTTGGTTGTTGATGAATGAATGTTAT
1 AATTATAAATATATTTTTTATTGATAATAGCTATTTTGGTTGCTGACGAATGAATGTTAT
79445 AAATATATAT
Statistics
Matches: 533, Mismatches: 83, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
186 122 0.23
187 108 0.20
188 54 0.10
189 70 0.13
190 22 0.04
191 94 0.18
192 8 0.02
193 52 0.10
194 3 0.01
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (187 bp):
AATTATAAATATATTTTTTATTGATAATAGCTATTTTGGTTGCTGACGAATGAATGTTATCATAG
TGATTATGATAAATATCGATGATGAAAAAAATTATAATAGTAAAATATCGATTATCTATGTCCAC
ACTCAAAATCATTTCGACTACTAAGTTTTTTTTTTTAATCTTATAGATTAAAATTAT
Found at i:85299 original size:21 final size:21
Alignment explanation
Indices: 85274--85354 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 21
85264 CATAGTTAAT
85274 ATTTTTATTATATTAATTATA
1 ATTTTTATTATATTAATTATA
* *
85295 A-TTTTATTTATATAAATTATTTT
1 ATTTTTA-TTATATTAATTA--TA
*
85318 ATTTTTATTATATTTAAATA-A
1 ATTTTTATTATA-TTAATTATA
85339 ATTTTTATT-T-TTAATT
1 ATTTTTATTATATTAATT
85355 TATATTTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
18 5 0.10
20 6 0.12
21 21 0.43
23 7 0.14
24 10 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTATTATATTAATTATA
Found at i:85332 original size:29 final size:30
Alignment explanation
Indices: 85295--85388 Score: 117
Period size: 29 Copynumber: 3.2 Consensus size: 30
85285 ATTAATTATA
*
85295 ATTT-TATTTATATAAATTATTTTATTTTT
1 ATTTATATTTAAATAAATTATTTTATTTTT
85324 A-TTATATTTAAATAAA-T-TTTTATTTTT
1 ATTTATATTTAAATAAATTATTTTATTTTT
*
85351 AATTTATATTTAAATAAATTA-TTAATTTTT
1 -ATTTATATTTAAATAAATTATTTTATTTTT
85381 AATTTATA
1 -ATTTATA
85389 CTTGAATTCC
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
27 10 0.17
28 4 0.07
29 27 0.47
30 17 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTTATATTTAAATAAATTATTTTATTTTT
Found at i:86437 original size:22 final size:22
Alignment explanation
Indices: 86410--86456 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
86400 TTAATATTTA
* *
86410 AAAATTTATTTAGGTATAAATT
1 AAAATTTATTTAGATAAAAATT
*
86432 AAAATTTATTTTGATAAAAATT
1 AAAATTTATTTAGATAAAAATT
86454 AAA
1 AAA
86457 GTTCAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (22 bp):
AAAATTTATTTAGATAAAAATT
Found at i:86466 original size:30 final size:31
Alignment explanation
Indices: 86432--86505 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
86422 GGTATAAATT
*
86432 AAAATTTATTTTGA-TAAAAATTAAAGT-TCA
1 AAAATTTATTTTAAGTAAAAATTAAA-TATCA
* *
86462 AAAATTT-TATTTAAGTATAAATTAAATATTA
1 AAAATTTAT-TTTAAGTAAAAATTAAATATCA
86493 AAAATTTATTTTA
1 AAAATTTATTTTA
86506 TTGTAATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
29 1 0.03
30 12 0.32
31 23 0.62
32 1 0.03
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (31 bp):
AAAATTTATTTTAAGTAAAAATTAAATATCA
Found at i:86819 original size:2 final size:2
Alignment explanation
Indices: 86812--86848 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
86802 GTTTCTTATT
86812 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
86849 TAGATTGGGT
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:88784 original size:75 final size:75
Alignment explanation
Indices: 88652--88798 Score: 195
Period size: 75 Copynumber: 2.0 Consensus size: 75
88642 AGGGATCTCT
* * * * **
88652 TCCAATGTACATTATGTAGGCAAAAGTGAAAGTTATATAATTAACATTTCCTGCCCAACCAATGT
1 TCCAACGTACACTATGTAGGCAAAAGTGAAAGTTATATAATCAACATTTCCTACCCAACCAACAT
88717 CTGTGTACGC
66 CTGTGTACGC
* * * * *
88727 TCCAACGTACACTATGTAGGCAAAGGTGAAAGTTATATGATCAATATTTCTTACCCAATCAACAT
1 TCCAACGTACACTATGTAGGCAAAAGTGAAAGTTATATAATCAACATTTCCTACCCAACCAACAT
88792 CTGTGTA
66 CTGTGTA
88799 TGCATGTAGC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (75 bp):
TCCAACGTACACTATGTAGGCAAAAGTGAAAGTTATATAATCAACATTTCCTACCCAACCAACAT
CTGTGTACGC
Found at i:89210 original size:76 final size:76
Alignment explanation
Indices: 89072--89237 Score: 199
Period size: 76 Copynumber: 2.2 Consensus size: 76
89062 AACAAGTATC
* * * * *
89072 GATATTATTTACAAGATAAAAATGTACTGATTTATATGAAAACTTAATATTGACTTGAAGATTTG
1 GATATCATTTACAAGATAAAAATGTACTGATTTATATAAAAACTTAAGACTGACTTGAAGATTTA
*
89137 AATAAAATATT
66 AATAAAATACT
* * * * * *
89148 GATATCGTTTATAAGATAAAGATGTACT-ATTTTATATAAAAATTTAAGACTGATTTGGAGATTT
1 GATATCATTTACAAGATAAAAATGTACTGA-TTTATATAAAAACTTAAGACTGACTTGAAGATTT
*
89212 AAATAAGATACT
65 AAATAAAATACT
89224 GATATCATTTACAA
1 GATATCATTTACAA
89238 AATATTGATA
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
75 1 0.01
76 73 0.99
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (76 bp):
GATATCATTTACAAGATAAAAATGTACTGATTTATATAAAAACTTAAGACTGACTTGAAGATTTA
AATAAAATACT
Found at i:89929 original size:2 final size:2
Alignment explanation
Indices: 89917--89950 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
89907 CCGGTCAATG
*
89917 AT AT AT CT 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
89951 GTACATATAA
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:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90963 original size:13 final size:13
Alignment explanation
Indices: 90945--90978 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
90935 TTTAATAAAT
*
90945 TTATATATTTATA
1 TTATATATTAATA
*
90958 TTATATAATAATA
1 TTATATATTAATA
90971 TTATATAT
1 TTATATAT
90979 ATAAGTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATATTAATA
Found at i:90966 original size:26 final size:29
Alignment explanation
Indices: 90916--90980 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
90906 AAAATATTTT
*
90916 TTTATATATTTATATAAATTTTAATAA-A
1 TTTATATATTTATATAAATTATAATAATA
*
90944 TTTATATATTTATAT-TA-TATAATAATA
1 TTTATATATTTATATAAATTATAATAATA
90971 TTATATATAT
1 TT-TATATAT
90981 AAGTTATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 7 0.21
27 4 0.12
28 22 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TTTATATATTTATATAAATTATAATAATA
Found at i:91477 original size:35 final size:35
Alignment explanation
Indices: 91438--91505 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
91428 ATGTTAAGAA
*
91438 TTAATTTAAA-ATTAAATAATAATAAATAAAAAAAT
1 TTAATTTAAATATAAAATAAT-ATAAATAAAAAAAT
* *
91473 TTAATTTAAATATAAAATTATATAAATTAAAAA
1 TTAATTTAAATATAAAATAATATAAATAAAAAA
91506 TATAATGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 21 0.72
36 8 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (35 bp):
TTAATTTAAATATAAAATAATATAAATAAAAAAAT
Found at i:91516 original size:22 final size:21
Alignment explanation
Indices: 91444--91519 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
91434 AGAATTAATT
*
91444 TAAAATTAAAT-AA-TAATAAA
1 TAAAATTATATAAATTAA-AAA
** * * *
91464 TAAAAAAATTTAATTTAAATA
1 TAAAATTATATAAATTAAAAA
91485 TAAAATTATATAAATTAAAAA
1 TAAAATTATATAAATTAAAAA
*
91506 TATAATGTATATAA
1 TAAAAT-TATATAA
91520 GATAATATTA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
20 7 0.17
21 24 0.59
22 10 0.24
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (21 bp):
TAAAATTATATAAATTAAAAA
Found at i:91821 original size:12 final size:11
Alignment explanation
Indices: 91803--91835 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
91793 AATAATTATT
91803 TATTAATTTAA
1 TATTAATTTAA
91814 TAATTAATTTAA
1 T-ATTAATTTAA
91826 T-TTAATTTAA
1 TATTAATTTAA
91836 ATTTTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.43
11 1 0.05
12 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:91827 original size:17 final size:17
Alignment explanation
Indices: 91780--91831 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
91770 TCAATTTTAT
*
91780 TTAATTTAAATTGAATAA
1 TTAATTT-AATTTAATAA
*
91798 TTATTTATTAATTTAATAA
1 TTA-AT-TTAATTTAATAA
91817 TTAATTTAATTTAAT
1 TTAATTTAATTTAAT
91832 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 10 0.34
18 4 0.14
19 13 0.45
20 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTAATTTAATTTAATAA
Found at i:91843 original size:22 final size:21
Alignment explanation
Indices: 91776--91835 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
91766 TTATTCAATT
*
91776 TTATTTAATTTAAATTGAATAA
1 TTATTTAATTT-AATTTAATAA
91798 TTATTT-A-TTAATTTAATAA
1 TTATTTAATTTAATTTAATAA
91817 TTAATTTAATTTAATTTAA
1 TT-ATTTAATTTAATTTAA
91836 ATTTTAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 11 0.32
20 6 0.18
21 2 0.06
22 15 0.44
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTATTTAATTTAATTTAATAA
Found at i:92492 original size:21 final size:21
Alignment explanation
Indices: 92445--92492 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
92435 TACTAAAATT
* *
92445 TTAAAATTATAAATTAAAATA
1 TTAAAATTATAAAATAAAAAA
92466 TT-AAATT-TAATAATAAAAAA
1 TTAAAATTATAA-AATAAAAAA
92486 TTAAAAT
1 TTAAAAT
92493 ATTTTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.13
20 14 0.61
21 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAATTATAAAATAAAAAA
Found at i:100806 original size:3 final size:3
Alignment explanation
Indices: 100793--100822 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
100783 CAACAAAATT
100793 ATA ACTA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA AT
100823 TAGATTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:102516 original size:13 final size:13
Alignment explanation
Indices: 102498--102531 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
102488 TAAATTTAAT
102498 AAAAATAATATAA
1 AAAAATAATATAA
* *
102511 AAAAATATTTTAA
1 AAAAATAATATAA
102524 AAAAATAA
1 AAAAATAA
102532 AAATAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAATAATATAA
Found at i:102524 original size:24 final size:24
Alignment explanation
Indices: 102497--102544 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
102487 TTAAATTTAA
*
102497 TAAAAATAATATAAA-AAAATATTT
1 TAAAAA-AATAAAAATAAAATATTT
102521 TAAAAAAATAAAAATAAAATATTT
1 TAAAAAAATAAAAATAAAATATTT
102545 AAGTACTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAAAAAATAAAAATAAAATATTT
Found at i:102644 original size:16 final size:16
Alignment explanation
Indices: 102625--102666 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
102615 ATAAAATTAT
102625 TAATTATATTTTA-ATA
1 TAATTATATTTTATA-A
*
102641 TAATTTTATTTTATAA
1 TAATTATATTTTATAA
*
102657 TTATTATATT
1 TAATTATATT
102667 AATTAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTATATTTTATAA
Found at i:103883 original size:18 final size:18
Alignment explanation
Indices: 103862--103927 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 18
103852 TAGTTTATTC
103862 AATTTATTTTATAAATAT
1 AATTTATTTTATAAATAT
*
103880 AATTTTATTTT-TAAATTT
1 AA-TTTATTTTATAAATAT
* * *
103898 AAATTAATTTA-AATTAT
1 AATTTATTTTATAAATAT
*
103915 AA-TTATTTAATAA
1 AATTTATTTTATAA
103928 TAAAAATATT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
16 6 0.16
17 14 0.37
18 10 0.26
19 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTTATTTTATAAATAT
Found at i:104958 original size:20 final size:20
Alignment explanation
Indices: 104933--104981 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
104923 ATTATTTAAA
*
104933 AATATTAAAATTTTATAATT
1 AATATTAAAATATTATAATT
* *
104953 AATATTTAAATATTATTATT
1 AATATTAAAATATTATAATT
*
104973 AAAATTAAA
1 AATATTAAA
104982 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTAAAATATTATAATT
Found at i:105422 original size:65 final size:64
Alignment explanation
Indices: 105301--105427 Score: 159
Period size: 65 Copynumber: 2.0 Consensus size: 64
105291 GTTATAGAGA
* *
105301 TATATTTAAAAATAAATAATAACTAATTATGAGAAGTATTACCTATAATATATATTTAATAAAAG
1 TATATTTAAAAATAAATAATAAATAATTATGAGAAGTATTACCTAGAATATATATTT-ATAAAAG
* * * *
105366 TATATTTAAAAATATATAATAAATCATTATGAGACA-TATTATCTAAGAAT-TTTATTTATAAA
1 TATATTTAAAAATAAATAATAAATAATTATGAGA-AGTATTACCT-AGAATATATATTTATAAA
105428 GTTTTTTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
64 5 0.09
65 44 0.81
66 5 0.09
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (64 bp):
TATATTTAAAAATAAATAATAAATAATTATGAGAAGTATTACCTAGAATATATATTTATAAAAG
Found at i:106486 original size:16 final size:15
Alignment explanation
Indices: 106455--106501 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
106445 TTTTATATTT
*
106455 TTTAAAAAAATT-AA
1 TTTATAAAAATTAAA
106469 TTTGATAAAAATTAAA
1 TTT-ATAAAAATTAAA
*
106485 TTTTTAATAAATTAAA
1 TTTATAA-AAATTAAA
106501 T
1 T
106502 CATTTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 3 0.11
15 11 0.39
16 14 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
TTTATAAAAATTAAA
Found at i:107057 original size:20 final size:22
Alignment explanation
Indices: 107023--107076 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
107013 ATTAAATTAT
*
107023 TAATT-TAAAA-AATTTATCAAA
1 TAATTATAAAATATTTTAT-AAA
107044 -AA-TATAAAATATTTTATAAA
1 TAATTATAAAATATTTTATAAA
107064 TAATTATAAAATA
1 TAATTATAAAATA
107077 ATTAAAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 10 0.36
21 8 0.29
22 9 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATTATAAAATATTTTATAAA
Found at i:107499 original size:26 final size:26
Alignment explanation
Indices: 107466--107518 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
107456 ACGTCTTTAC
* *
107466 TTAATAATTTTTATATTTATTT-TAAT
1 TTAATAATATTTAT-TATATTTATAAT
107492 TTAATAATATTTATTATATTTATAAT
1 TTAATAATATTTATTATATTTATAAT
107518 T
1 T
107519 ATACTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TTAATAATATTTATTATATTTATAAT
Found at i:110030 original size:20 final size:18
Alignment explanation
Indices: 109997--110083 Score: 65
Period size: 17 Copynumber: 4.8 Consensus size: 18
109987 TTTAATTTTA
109997 AAATATGTTAAATATAAAAT
1 AAATAT-TT-AATATAAAAT
*
110017 AAATAATTTTAATATTAAAT
1 AAAT-A-TTTAATATAAAAT
* *
110037 AAGTA-TTAA-ATATAAT
1 AAATATTTAATATAAAAT
110053 AAATATTTAATA-AAAAT
1 AAATATTTAATATAAAAT
* *
110070 ATATAATTAA-ATAA
1 AAATATTTAATATAA
110084 TGTGTTATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
16 10 0.19
17 22 0.41
18 1 0.02
19 1 0.02
20 16 0.30
21 3 0.06
22 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AAATATTTAATATAAAAT
Found at i:117030 original size:22 final size:21
Alignment explanation
Indices: 117004--117058 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
116994 ATTTTTAGTT
117004 ATTAAAATATAAAATTAAATAA
1 ATTAAAATATAAAATTAAAT-A
* *
117026 ATTAAAATAATTAAATTTAATA
1 ATTAAAAT-ATAAAATTAAATA
*
117048 TTTAAAATATA
1 ATTAAAATATA
117059 TTTAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.07
22 16 0.57
23 10 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTAAAATATAAAATTAAATA
Found at i:117096 original size:22 final size:23
Alignment explanation
Indices: 117071--117130 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 23
117061 TAATAAAATA
*
117071 TAAATTTAAACTTAAA-TCTATT
1 TAAATTTAAACTTAAAGTCTATC
*
117093 TAAATTTAAACTAAAAGTCTATC
1 TAAATTTAAACTTAAAGTCTATC
117116 TAAATTTAAA-TTAAA
1 TAAATTTAAACTTAAA
117131 AGCCTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAATTTAAACTTAAAGTCTATC
Done.