Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold905
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: 72065
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Found at i:7844 original size:2 final size:2
Alignment explanation
Indices: 7832--7867 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
7822 GATTCATTGA
*
7832 AT AT AT CT 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
7868 TACTATAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9841 original size:17 final size:16
Alignment explanation
Indices: 9794--9841 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
9784 GAAATAATTT
*
9794 AAATAAT-TATTTTTA
1 AAATAATATAATTTTA
* *
9809 AAATAATTTAAATTTA
1 AAATAATATAATTTTA
9825 AATATAATATAATTTTA
1 AA-ATAATATAATTTTA
9842 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 7 0.26
16 8 0.30
17 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATAATATAATTTTA
Found at i:9891 original size:7 final size:7
Alignment explanation
Indices: 9881--9915 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
9871 AAAATAATAA
9881 TATAATT
1 TATAATT
9888 TATAATT
1 TATAATT
9895 TATAATT
1 TATAATT
9902 TATAATT
1 TATAATT
9909 TATAATT
1 TATAATT
9916 ATCATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATAATT
Found at i:11411 original size:16 final size:16
Alignment explanation
Indices: 11390--11425 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
11380 AATTTAAATA
11390 AAAATAAATCAAAT-TT
1 AAAATAAAT-AAATCTT
11406 AAAATAAATAAATCTT
1 AAAATAAATAAATCTT
11422 AAAA
1 AAAA
11426 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATAAATAAATCTT
Found at i:11416 original size:20 final size:21
Alignment explanation
Indices: 11380--11419 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11370 AAATCTAATT
11380 AATTTAAATAAAAATAAATCA
1 AATTTAAATAAAAATAAATCA
*
11401 AATTTAAA-ATAAATAAATC
1 AATTTAAATAAAAATAAATC
11420 TTAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTTAAATAAAAATAAATCA
Found at i:16927 original size:13 final size:13
Alignment explanation
Indices: 16900--16929 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
16890 GATATGATTC
16900 AAATATAACATAA
1 AAATATAACATAA
16913 AAAT-TAACATAA
1 AAATATAACATAA
16925 AAATA
1 AAATA
16930 ATAGAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATATAACATAA
Found at i:17523 original size:2 final size:2
Alignment explanation
Indices: 17518--17549 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17508 AATTAATTAC
17518 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
17550 AAAGAGGGAA
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:18378 original size:17 final size:16
Alignment explanation
Indices: 18355--18406 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
18345 AAATAAACTA
18355 ATTATTAAAATATTAT
1 ATTATTAAAATATTAT
* * *
18371 TTTGATTAATAT-TTCT
1 ATT-ATTAAAATATTAT
18387 ATTATTAAAATATTAAT
1 ATTATTAAAATATT-AT
18404 ATT
1 ATT
18407 TTATATTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
15 7 0.26
16 9 0.33
17 11 0.41
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
ATTATTAAAATATTAT
Found at i:18415 original size:21 final size:23
Alignment explanation
Indices: 18375--18417 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
18365 TATTATTTTG
18375 ATTAATATTTCTATTATTAAAAT
1 ATTAATATTTCTATTATTAAAAT
18398 ATTAATATTT-TA-TATTAAAA
1 ATTAATATTTCTATTATTAAAA
18418 ACAATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 2 0.10
23 10 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTAATATTTCTATTATTAAAAT
Found at i:19229 original size:5 final size:5
Alignment explanation
Indices: 19219--19248 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
19209 ATTTAAATAT
19219 TTTTA TTTTA TTTTA TTTTA TTTTAA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTT
19249 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:19371 original size:13 final size:14
Alignment explanation
Indices: 19348--19376 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19338 ACTCTTTAAT
19348 CAAATAATTTTTTA
1 CAAATAATTTTTTA
19362 CAAA-AATTTTTTA
1 CAAATAATTTTTTA
19375 CA
1 CA
19377 TTGAACCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (14 bp):
CAAATAATTTTTTA
Found at i:20048 original size:45 final size:48
Alignment explanation
Indices: 19979--20079 Score: 120
Period size: 45 Copynumber: 2.2 Consensus size: 48
19969 TATTAAAATT
*
19979 ATTTAATAATATAAAAATAAAAAATTTAAT-TTATTAA-TA-ATAAAA
1 ATTTAATAATATAAAAAGAAAAAATTTAATATTATTAATTATATAAAA
** * *
20024 ATTTAATAATATAATTAGATAAAATTTAATATTTTTAATTTATATAAAA
1 ATTTAATAATATAAAAAGAAAAAATTTAATATTATTAA-TTATATAAAA
20073 A-TTAATA
1 ATTTAATA
20080 TTAAATTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
45 26 0.55
46 6 0.13
48 8 0.17
49 7 0.15
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (48 bp):
ATTTAATAATATAAAAAGAAAAAATTTAATATTATTAATTATATAAAA
Found at i:20051 original size:23 final size:21
Alignment explanation
Indices: 19979--20054 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 21
19969 TATTAAAATT
*
19979 ATTTAATAATATAAAAATAAAAA
1 ATTTAATAATATAATAAT--AAA
*
20002 ATTTAAT-TTATTAATAATAAAA
1 ATTTAATAATA-TAATAAT-AAA
20024 ATTTAATAATATAATTAGATAAA
1 ATTTAATAATATAA-TA-ATAAA
20047 ATTTAATA
1 ATTTAATA
20055 TTTTTAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
22 16 0.35
23 28 0.61
24 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (21 bp):
ATTTAATAATATAATAATAAA
Found at i:20803 original size:19 final size:21
Alignment explanation
Indices: 20781--20819 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20771 AATATTAAAA
20781 TATTAATA-TA-TTTATATAC
1 TATTAATATTATTTTATATAC
*
20800 TATTTATATTATTTTATATA
1 TATTAATATTATTTTATATA
20820 ATGTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTAATATTATTTTATATAC
Found at i:21888 original size:24 final size:26
Alignment explanation
Indices: 21861--21931 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 26
21851 AATATAACTG
21861 TTTTAATAATA-TATA-TTAAATATT
1 TTTTAATAATATTATATTTAAATATT
*
21885 TTTTAATAAATATTATATTTTAATATT
1 TTTTAAT-AATATTATATTTAAATATT
*
21912 TATATTAATAAAAATTATAT
1 T-T-TTAAT-AATATTATAT
21932 GAATATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.17
25 4 0.10
26 4 0.10
27 9 0.22
28 1 0.03
29 15 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTTAATAATATTATATTTAAATATT
Found at i:21928 original size:29 final size:28
Alignment explanation
Indices: 21870--21931 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
21860 GTTTTAATAA
*
21870 TATATATTAAATATTTTTTAATAAATAT
1 TATATATTAAATATTTTTTAATAAAAAT
*
21898 TATAT-TTTAATATTTATATTAATAAAAAT
1 TATATATTAAATATTT-T-TTAATAAAAAT
21927 TATAT
1 TATAT
21932 GAATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 9 0.30
28 6 0.20
29 15 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATATTAAATATTTTTTAATAAAAAT
Found at i:21944 original size:27 final size:27
Alignment explanation
Indices: 21872--21944 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
21862 TTTAATAATA
* *
21872 TATATTAAATATTTT-TTAATAAATAT
1 TATATTGAATATTTTATTAATAAAAAT
*
21898 TATATTTTAATATTTATATTAATAAAAAT
1 TATA-TTGAATATTT-TATTAATAAAAAT
21927 TATA-TGAATATTATTATT
1 TATATTGAATATT-TTATT
21945 TTAAATATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 4 0.10
27 20 0.50
28 2 0.05
29 14 0.35
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
TATATTGAATATTTTATTAATAAAAAT
Found at i:22631 original size:33 final size:33
Alignment explanation
Indices: 22594--22692 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 33
22584 TTATGTTTAG
22594 AATATTTTATATTTATATATATTTTGATATATT
1 AATATTTTATATTTATATATATTTTGATATATT
* * * *
22627 AATA-TTTATA-TTATATAAATTATGAAACATT
1 AATATTTTATATTTATATATATTTTGATATATT
* * *
22658 TATATATTAATATTGTAT-TATATTTTAATTATATT
1 AATAT-TTTATATT-TATATATATTTTGA-TATATT
22693 TATAATCATA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
31 20 0.40
32 6 0.12
33 9 0.18
34 8 0.16
35 7 0.14
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (33 bp):
AATATTTTATATTTATATATATTTTGATATATT
Found at i:22693 original size:11 final size:12
Alignment explanation
Indices: 22674--22706 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22664 TTAATATTGT
22674 ATTATATTT-TA
1 ATTATATTTATA
22685 ATTATATTTATA
1 ATTATATTTATA
*
22697 ATCATATTTA
1 ATTATATTTA
22707 ATATTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATATTTATA
Found at i:23013 original size:2 final size:2
Alignment explanation
Indices: 23006--23043 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22996 TCTACCTTTA
23006 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
23044 CTACATATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24164 original size:2 final size:2
Alignment explanation
Indices: 24087--24150 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
24077 CTTAAGCACC
24087 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24129 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
24151 AGGATCCATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24239 original size:4 final size:4
Alignment explanation
Indices: 24226--24256 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
24216 CAATGGGTTA
24226 ATTT -TTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
24257 TTACTTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:28756 original size:13 final size:13
Alignment explanation
Indices: 28740--28768 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
28730 TAGAGAGAGT
28740 ATTAAGAGATAAA
1 ATTAAGAGATAAA
28753 ATTAAGAGATAAA
1 ATTAAGAGATAAA
28766 ATT
1 ATT
28769 GTGAGGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (13 bp):
ATTAAGAGATAAA
Found at i:34312 original size:2 final size:2
Alignment explanation
Indices: 34307--34339 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
34297 TCTCTCCACA
34307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34340 AATCAAACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36237 original size:2 final size:2
Alignment explanation
Indices: 36230--36274 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
36220 ATGTACATGT
36230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36271 TA TA
1 TA TA
36275 ATCTATTTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38042 original size:17 final size:17
Alignment explanation
Indices: 38016--38056 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
38006 AAACTAACCT
*
38016 AATTTATTTTAAAAATA
1 AATTTCTTTTAAAAATA
*
38033 AATTTCTTTTAACAATA
1 AATTTCTTTTAAAAATA
*
38050 ATTTTCT
1 AATTTCT
38057 CTCGTATTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTTCTTTTAAAAATA
Found at i:38281 original size:24 final size:26
Alignment explanation
Indices: 38254--38311 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
38244 TAATATTTAT
38254 TATTATTATAAT-TAATTATAAT-AA
1 TATTATTATAATATAATTATAATAAA
*
38278 TATTTATTATATTCATAATTATAATAAA
1 TA-TTATTATAAT-ATAATTATAATAAA
38306 TATTAT
1 TATTAT
38312 AAAATTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.07
25 9 0.31
27 14 0.48
28 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTATTATAATATAATTATAATAAA
Found at i:38282 original size:31 final size:32
Alignment explanation
Indices: 38225--38298 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 32
38215 AGTATAGCAG
*
38225 TTATAATTTAATATAATATTAATATTTATTATTA
1 TTATAA-TTAATATAATAATAATATTTATTA-TA
38259 TTATAATTAAT-T-ATAATAATATTTATTATA
1 TTATAATTAATATAATAATAATATTTATTATA
38289 TTCATAATTA
1 TT-ATAATTA
38299 TAATAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
30 4 0.11
31 22 0.58
32 1 0.03
33 5 0.13
34 6 0.16
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (32 bp):
TTATAATTAATATAATAATAATATTTATTATA
Found at i:38298 original size:12 final size:11
Alignment explanation
Indices: 38252--38300 Score: 50
Period size: 10 Copynumber: 4.5 Consensus size: 11
38242 ATTAATATTT
38252 ATTATTATTATA
1 ATTA-TATTATA
38264 ATTA-ATTATA
1 ATTATATTATA
*
38274 ATAATATT-T-
1 ATTATATTATA
38283 ATTATATTCATA
1 ATTATATT-ATA
38295 ATTATA
1 ATTATA
38301 ATAAATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 7 0.23
10 10 0.32
11 4 0.13
12 10 0.32
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTATATTATA
Found at i:38322 original size:27 final size:27
Alignment explanation
Indices: 38266--38323 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
38256 TTATTATAAT
* *
38266 TAATTATAATAATATTTATTATATTCA
1 TAATTATAATAATATTTATAAAATTCA
*
38293 TAATTATAATAA-ATATTATAAAATTTA
1 TAATTATAATAATAT-TTATAAAATTCA
38320 TAAT
1 TAAT
38324 CGTAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATTATAATAATATTTATAAAATTCA
Found at i:38661 original size:14 final size:14
Alignment explanation
Indices: 38639--38667 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
38629 CTATTGACCC
38639 TTTCCTTTTTTTTT
1 TTTCCTTTTTTTTT
38653 TTT-CTTTTTTTTT
1 TTTCCTTTTTTTTT
38666 TT
1 TT
38668 AGCTTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.80
14 3 0.20
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCCTTTTTTTTT
Found at i:41112 original size:20 final size:20
Alignment explanation
Indices: 41087--41154 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 20
41077 AATTATATTT
41087 TAAAATATTAA-ATATTTATA
1 TAAAAT-TTAATATATTTATA
41107 TAAAATTTAATATATTTATATCA
1 TAAAATTTAATATA-TT-TAT-A
41130 TAAAACTTTTAATATATTTATA
1 TAAAA--TTTAATATATTTATA
41152 TAA
1 TAA
41155 TTTTTATGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.10
20 9 0.21
21 2 0.05
22 7 0.17
23 9 0.21
24 2 0.05
25 9 0.21
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAATTTAATATATTTATA
Found at i:41126 original size:18 final size:19
Alignment explanation
Indices: 41080--41126 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
41070 TTATTATAAT
41080 TATATTT-TAAAATATTAA
1 TATATTTATAAAATATTAA
41098 -ATATTTATATAAA-ATTTAA
1 TATATTTATA-AAATA-TTAA
41117 TATATTTATA
1 TATATTTATA
41127 TCATAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.24
18 3 0.12
19 7 0.28
20 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATTTATAAAATATTAA
Found at i:41134 original size:43 final size:45
Alignment explanation
Indices: 41069--41154 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 45
41059 GTATGATAAT
* **
41069 TTTATTATAATTATATTTTAAAA-TATTAA-ATATTTATATAAAA
1 TTTAATATAATTATATCATAAAACTATTAATATATTTATATAAAA
* *
41112 TTTAATATATTTATATCATAAAACTTTTAATATATTTATATAA
1 TTTAATATAATTATATCATAAAACTATTAATATATTTATATAA
41155 TTTTTATGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 19 0.53
44 5 0.14
45 12 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (45 bp):
TTTAATATAATTATATCATAAAACTATTAATATATTTATATAAAA
Found at i:53455 original size:2 final size:2
Alignment explanation
Indices: 53448--53482 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
53438 AGGACTAGGC
53448 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 T
53483 GATGATACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58986 original size:12 final size:12
Alignment explanation
Indices: 58950--58986 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58940 TTTTAAATAA
58950 TAATTTAAATTT
1 TAATTTAAATTT
*
58962 TAAATTAAA--T
1 TAATTTAAATTT
58972 TAATTTAAATTT
1 TAATTTAAATTT
58984 TAA
1 TAA
58987 CTGCAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 9 0.43
12 12 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:59611 original size:4 final size:4
Alignment explanation
Indices: 59602--59626 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
59592 CTTCTGCTTC
59602 TTCT TTCT TTCT TTCT TTCT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT T
59627 GCTCAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:60386 original size:45 final size:45
Alignment explanation
Indices: 60332--60421 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
60322 GATTGAATAG
60332 GCATCTAAAGTCCTTTGGTTGAGGACAACACGACTGAGATTTCAT
1 GCATCTAAAGTCCTTTGGTTGAGGACAACACGACTGAGATTTCAT
60377 GCATCTAAAGTCCTTTGGTTGAGGACAACACGACTGAGATTTCAT
1 GCATCTAAAGTCCTTTGGTTGAGGACAACACGACTGAGATTTCAT
60422 ACAAGGGGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (45 bp):
GCATCTAAAGTCCTTTGGTTGAGGACAACACGACTGAGATTTCAT
Found at i:60744 original size:2 final size:2
Alignment explanation
Indices: 60739--60793 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
60729 GCCCATAGAC
*
60739 AT AT AT AT AG 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
*
60781 AT AT AT AT TT AT A
1 AT AT AT AT AT AT A
60794 AATTTGGCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61706 original size:6 final size:6
Alignment explanation
Indices: 61687--61722 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
61677 CTTACTTGAA
61687 TTTT-T TTTTC- TTTTCT TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TT
61723 AAGGTTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.31
6 20 0.69
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:62422 original size:13 final size:14
Alignment explanation
Indices: 62396--62443 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
62386 TATATTTTAA
62396 AATTTATATAATAT
1 AATTTATATAATAT
*
62410 AATTTATTAATATATTAA
1 AATTTA-T-ATA-A-TAT
62428 AATTTATATAATAT
1 AATTTATATAATAT
62442 AA
1 AA
62444 AATATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 10 0.36
15 2 0.07
16 6 0.21
17 2 0.07
18 8 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTTATATAATAT
Found at i:62422 original size:18 final size:18
Alignment explanation
Indices: 62401--62466 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
62391 TTTAAAATTT
62401 ATATAATATAATTTATTA
1 ATATAATATAATTTATTA
* *
62419 ATATATTAAAATTTATATA
1 ATATAATATAATTTAT-TA
* *
62438 ATATAAAAT-ATTT-TAA
1 ATATAATATAATTTATTA
62454 ATATAATTATAAT
1 ATATAA-TATAAT
62467 ATAATAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
16 7 0.18
17 3 0.08
18 20 0.53
19 8 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATAATATAATTTATTA
Found at i:62436 original size:48 final size:46
Alignment explanation
Indices: 62383--62486 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 46
62373 TAAAATATGA
* * *
62383 ATATATATTTTAAAAT-TTATATAATATAATTTATTAATATATTAAAAT
1 ATATATAATATAAAATATTATA-AATATAA-TTA-TAATATAATAAAAT
* *
62431 TTATATAATATAAAATATTTTAAATATAATTATAATATAATAAAAT
1 ATATATAATATAAAATATTATAAATATAATTATAATATAATAAAAT
62477 ATATA-AATAT
1 ATATATAATAT
62487 GTAAAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 5 0.10
46 17 0.35
47 3 0.06
48 20 0.41
49 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (46 bp):
ATATATAATATAAAATATTATAAATATAATTATAATATAATAAAAT
Found at i:65513 original size:2 final size:2
Alignment explanation
Indices: 65508--65532 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65498 TATATATATA
65508 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
65533 ATTGTAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:67237 original size:25 final size:26
Alignment explanation
Indices: 67209--67265 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
67199 CTCATTACTT
*
67209 TTTTATTTATTA-TTATTTAATAT-AA
1 TTTTATTTATTATTTA-TAAATATAAA
*
67234 TTTTAATTATTATTTATAAATATAAA
1 TTTTATTTATTATTTATAAATATAAA
67260 TTTTAT
1 TTTTAT
67266 AATTTATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTATTTATTATTTATAAATATAAA
Found at i:67691 original size:16 final size:15
Alignment explanation
Indices: 67662--67707 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 15
67652 TATTTGATTC
67662 TTATAAATAAATTTT
1 TTATAAATAAATTTT
* *
67677 TTATAAA-ATATATT
1 TTATAAATAAATTTT
67691 TTA-AAAT-AATTTT
1 TTATAAATAAATTTT
67704 TTAT
1 TTAT
67708 GAAGGTACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
13 10 0.40
14 8 0.32
15 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATAAATAAATTTT
Found at i:67887 original size:103 final size:106
Alignment explanation
Indices: 67772--68052 Score: 315
Period size: 103 Copynumber: 2.6 Consensus size: 106
67762 AATACTAATA
*
67772 TATTAATTTTTAATAAAAATAAAAATAATTGTTAATTAATTTTTAAAAATTTATATTAATAAATT
1 TATT-ATTTTTAATAAAAATAAAAATAATT-TTAATTAATTTTTAAAAATTTACATTAATAAATT
* *
67837 AAAATATTAATT-A-TTTT-T-AAATTAAAAAAGGTTTATTAT
64 AAAATATTAATTAATTTTTATAAAAATAAAAAAGATTTATTAT
* *
67876 TATTATTTTTAATAAAATTAAAAATAATATTTAATTAA-ATTTAAAAA-TTACATTAATAAATTA
1 TATTATTTTTAATAAAAATAAAAATAAT-TTTAATTAATTTTTAAAAATTTACATTAATAAATTA
** *
67939 AAATATTAATTACATGTTTTTATAAAAATAAAAATTATTTTTTAT
65 AAATATTAATTA-A--TTTTTATAAAAATAAAAAAGATTTATTAT
* * ** *
67984 TATTATTTTTTAAT-AAAATAAAAAATGATATTAATTAAATTTAAAAAAATTTACATTAACAAAT
1 TATTA-TTTTTAATAAAAAT-AAAAATAATTTTAATT-AATTTTTAAAAATTTACATTAATAAAT
68048 TAAAA
63 TAAAA
68053 AAATAACATT
Statistics
Matches: 149, Mismatches: 15, Indels: 19
0.81 0.08 0.10
Matches are distributed among these distances:
101 26 0.17
102 8 0.05
103 32 0.21
104 5 0.03
106 4 0.03
107 1 0.01
108 31 0.21
109 18 0.12
110 6 0.04
111 18 0.12
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (106 bp):
TATTATTTTTAATAAAAATAAAAATAATTTTAATTAATTTTTAAAAATTTACATTAATAAATTAA
AATATTAATTAATTTTTATAAAAATAAAAAAGATTTATTAT
Found at i:67909 original size:22 final size:22
Alignment explanation
Indices: 67883--67941 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
67873 TATTATTATT
*
67883 TTTAATAAAATTAAAAATAATA
1 TTTAATAAAATTAAAAATAACA
* *
67905 TTTAATTAAATTTAAAAATTACA
1 TTTAA-TAAAATTAAAAATAACA
67928 -TTAAT-AAATTAAAA
1 TTTAATAAAATTAAAA
67942 TATTAATTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.25
21 1 0.03
22 9 0.28
23 14 0.44
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAATAAAATTAAAAATAACA
Found at i:68022 original size:108 final size:101
Alignment explanation
Indices: 67772--68052 Score: 314
Period size: 108 Copynumber: 2.7 Consensus size: 101
67762 AATACTAATA
* * *
67772 TATTAATTTTTAATAAAA-ATAAAAATAATTGTTAATTAATTTTTAAAAATTTATATTAATAAAT
1 TATT-ATTTTTAATAAAATA-AAAAATAA-TATTAATTAA-ATTTAAAAATTTACATTAATAAAT
* *
67836 TAAAATATTAATTATTTTTAAATTAAAAAAGGTTTATTAT
62 TAAAATATTAATTATTTTTAAAATAAAAAAGATTTATTAT
*
67876 TATTATTTTTAATAAAATTAAAAATAATATTTAATTAAATTTAAAAA-TTACATTAATAAATTAA
1 TATTATTTTTAATAAAATAAAAAATAATA-TTAATTAAATTTAAAAATTTACATTAATAAATTAA
** *
67940 AATATTAATTACATGTTTTTATAAAAATAAAAATTATTTTTTAT
65 AATATTAATT--A---TTTT-T-AAAATAAAAAAGATTTATTAT
* *
67984 TATTATTTTTTAATAAAATAAAAAATGATATTAATTAAATTTAAAAAAATTTACATTAACAAATT
1 TATTA-TTTTTAATAAAATAAAAAATAATATTAATTAAATTT--AAAAATTTACATTAATAAATT
68049 AAAA
63 AAAA
68053 AAATAACATT
Statistics
Matches: 152, Mismatches: 12, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
101 26 0.17
102 9 0.06
103 30 0.20
104 4 0.03
106 4 0.03
107 1 0.01
108 33 0.22
109 22 0.14
110 5 0.03
111 18 0.12
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (101 bp):
TATTATTTTTAATAAAATAAAAAATAATATTAATTAAATTTAAAAATTTACATTAATAAATTAAA
ATATTAATTATTTTTAAAATAAAAAAGATTTATTAT
Found at i:68050 original size:23 final size:23
Alignment explanation
Indices: 68024--68078 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
68014 TTAATTAAAT
*
68024 TTAAAAAAATTTACA-TTAACAAA
1 TTAAAAAAA-TAACATTTAACAAA
**
68047 TTAAAAAAATAACATTTAAGGAA
1 TTAAAAAAATAACATTTAACAAA
68070 TTAAAAAAA
1 TTAAAAAAA
68079 GTTATTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (23 bp):
TTAAAAAAATAACATTTAACAAA
Found at i:68556 original size:121 final size:119
Alignment explanation
Indices: 68372--68619 Score: 358
Period size: 121 Copynumber: 2.1 Consensus size: 119
68362 AAAAAATATT
* *
68372 ATTATAATAAAAACTTTTTTAATTTAAATTTTTTTATTTTTAAAAACATAATAATTAATATTTTA
1 ATTATAATAAAAACCTTTTTAATTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTA
* * *
68437 ATTT-TTCAATGTAA-TTTTTAAATTTAATTAAATATTATTTTTTATTTTATTGAAA
66 ATTTGTT-AATATAATTTTTTAAACTTAATTAAATATTA-TTTTAATTTTATT-AAA
*
68492 ATTATAATAAAAAACCTTTTTATTTTAAAATTTTTTATTTTTTAAAAACATAATAATTAA-ATTT
1 ATTATAAT-AAAAACCTTTTTAATTTAAAATTTTTTA-TTTTTAAAAACATAATAATTAATATTT
*
68556 TAATTTGTTAATATAATTTTTTTAACTTAATTAAATATTATTTTAATTTTATTAAA
64 TAATTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTAATTTTATTAAA
*
68612 ATAATAAT
1 ATTATAAT
68620 TGTCGCGACG
Statistics
Matches: 116, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
120 18 0.16
121 53 0.46
122 45 0.39
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (119 bp):
ATTATAATAAAAACCTTTTTAATTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTA
ATTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTAATTTTATTAAA
Found at i:68613 original size:22 final size:21
Alignment explanation
Indices: 68552--68614 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
68542 TAATAATTAA
* *
68552 ATTTTAATTTGTTAATATAATT
1 ATTTTAATTTATTAAAAT-ATT
* *
68574 TTTTTAACTTAATT-AAATATT
1 ATTTTAA-TTTATTAAAATATT
68595 ATTTTAATTTTATTAAAATA
1 ATTTTAA-TTTATTAAAATA
68615 ATAATTGTCG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 14 0.44
22 14 0.44
23 4 0.12
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTAATTTATTAAAATATT
Found at i:69676 original size:51 final size:51
Alignment explanation
Indices: 69568--69712 Score: 132
Period size: 51 Copynumber: 2.8 Consensus size: 51
69558 CACCCGACGA
* * * * *
69568 AAAATTCAATATTTTGGAGATAACAA-CGGGGCTGGAGTACCCCTGATTATGG
1 AAAA-TCAATATTCTAGAAATAA-AACCGGGGTTGGAGTATCCCTGATTATGG
* * * * *
69620 AAAATCGATGTTCTAGAAATAAAATCGGGGTTGAAGTATCCCTGATTGT-G
1 AAAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCCTGATTATGG
* * *
69670 AGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCC
1 A-AAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCC
69713 CTTGGAAATA
Statistics
Matches: 75, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
50 4 0.05
51 67 0.89
52 4 0.05
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
AAAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCCTGATTATGG
Found at i:69780 original size:79 final size:79
Alignment explanation
Indices: 69645--69948 Score: 383
Period size: 79 Copynumber: 3.8 Consensus size: 79
69635 GAAATAAAAT
* * * *
69645 CGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
69710 CCCCTTGGAAATAA
66 CCCCTCGGAAATAA
* **
69724 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAAAAATAAAATTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
69789 CCCCTCAGAAATAA
66 CCCCTCGGAAATAA
* * * ** *
69803 CAGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAGGCCGGGGTTGGAGCAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
69868 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* * * * * * * *
69882 CGGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTTGGAAATAAAATCGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAAT-ATTTTAGAAATAAAACCGGGGTTGGAGTA
69947 TC
65 TC
69949 TCCGATTATA
Statistics
Matches: 190, Mismatches: 34, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
79 167 0.88
80 23 0.12
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:69955 original size:52 final size:52
Alignment explanation
Indices: 69886--70067 Score: 219
Period size: 51 Copynumber: 3.5 Consensus size: 52
69876 AAATAACGGG
* * *
69886 GTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAAAATAAAATCGGA
* * * *
69938 GTTGGAGTATCTCCGATTAT-AGAAATTTG-GTGTTTTGAAAATAAAA-CTGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGT-TTTTGAAAATAAAATC-GGA
* * *
69989 GTTAGAGTATCCCCGATTGTGAAAAATTAGTG-TTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAAAATAAAATCGGA
*
70040 GTTGGAATATCCCCGATTATGAAAAATT
1 GTTGGAGTATCCCCGATTATGAAAAATT
70068 GAGAAACTTA
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
50 3 0.03
51 79 0.73
52 25 0.23
53 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAAAATAAAATCGGA
Found at i:70698 original size:10 final size:11
Alignment explanation
Indices: 70676--70704 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
70666 GCTCTTTGAG
70676 AGAAAAATATC
1 AGAAAAATATC
70687 AGAAAAAT-TC
1 AGAAAAATATC
70697 AGAAAAAT
1 AGAAAAAT
70705 CGTTTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.66, C:0.07, G:0.10, T:0.17
Consensus pattern (11 bp):
AGAAAAATATC
Done.