Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold372
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: 1060101
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 9
Found at i:4953 original size:9 final size:8
Alignment explanation
Indices: 4934--4975 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
4924 AATTTATGTA
4934 TTTA-TTT
1 TTTATTTT
4941 TTTATTATT
1 TTTATT-TT
4950 TTTATTTT
1 TTTATTTT
4958 GTTTATTTT
1 -TTTATTTT
4967 TTATATTTT
1 TT-TATTTT
4976 ATATTTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 4 0.13
8 5 0.16
9 22 0.71
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTATTTT
Found at i:4964 original size:25 final size:25
Alignment explanation
Indices: 4934--4981 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
4924 AATTTATGTA
4934 TTTATTTTTTATTATTTT-TATTTTG
1 TTTATTTTTTA-TATTTTATATTTTG
4959 TTTATTTTTTATATTTTATATTT
1 TTTATTTTTTATATTTTATATTT
4982 ATATAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTATTTTTTATATTTTATATTTTG
Found at i:5005 original size:18 final size:17
Alignment explanation
Indices: 4971--5024 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
4961 TATTTTTTAT
4971 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
4988 ATTTTAATATATTA-AT-A
1 ATTTT-ATAT-TTATATAA
5005 A--TTATA-TTATATAA
1 ATTTTATATTTATATAA
5019 ATTTTA
1 ATTTTA
5025 GAACATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
12 3 0.10
13 2 0.06
14 5 0.16
15 2 0.06
16 3 0.10
17 7 0.23
18 6 0.19
19 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:5734 original size:9 final size:9
Alignment explanation
Indices: 5722--5749 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
5712 AATCGAATAA
5722 ATTTAATTT
1 ATTTAATTT
5731 ATTTAATTT
1 ATTTAATTT
5740 ATTTAATTT
1 ATTTAATTT
5749 A
1 A
5750 AAATTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTAATTT
Found at i:13330 original size:53 final size:53
Alignment explanation
Indices: 13250--13363 Score: 183
Period size: 53 Copynumber: 2.2 Consensus size: 53
13240 TTTTTTCACC
* * *
13250 TTCTCCCTGCTCGGAACTAAGGCGTTGCCTCACTAAGTGACACCAAGTTACTA
1 TTCTCCCTGCTCGCAACCAAGGCGTTGCCTCACTAAGTGACACCAAGTCACTA
* *
13303 TTCTCCCTGCTCGCCACCAAGGTGTTGCCTCACTAAGTGACACCAAGTCACTA
1 TTCTCCCTGCTCGCAACCAAGGCGTTGCCTCACTAAGTGACACCAAGTCACTA
13356 TTCTCCCT
1 TTCTCCCT
13364 AATTGCCACT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (53 bp):
TTCTCCCTGCTCGCAACCAAGGCGTTGCCTCACTAAGTGACACCAAGTCACTA
Found at i:13372 original size:53 final size:53
Alignment explanation
Indices: 13268--13392 Score: 169
Period size: 53 Copynumber: 2.4 Consensus size: 53
13258 GCTCGGAACT
* **
13268 AAGGCGTTGCCTCACTAAGTGACACCAAGTTACTATTCTCCCTGCTCGCCACC
1 AAGGCGTTGCCTCACTAAGTGACACCAAGTCACTATTCTCCCTAATCGCCACC
* * *
13321 AAGGTGTTGCCTCACTAAGTGACACCAAGTCACTATTCTCCCTAATTGCCACT
1 AAGGCGTTGCCTCACTAAGTGACACCAAGTCACTATTCTCCCTAATCGCCACC
* * *
13374 GAGGCATTGTCTCACTAAG
1 AAGGCGTTGCCTCACTAAG
13393 CATCACCAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (53 bp):
AAGGCGTTGCCTCACTAAGTGACACCAAGTCACTATTCTCCCTAATCGCCACC
Found at i:21945 original size:65 final size:65
Alignment explanation
Indices: 21864--22043 Score: 342
Period size: 65 Copynumber: 2.8 Consensus size: 65
21854 AATCTCATGA
21864 GTTTAAGGACTGGTTCTCTTTAGTTGTGTCCACTCTTGTTATTTGACTAATACCAAGTCTCCTGG
1 GTTTAAGGACTGGTTCTCTTTAGTTGTGTCCACTCTTGTTATTTGACTAATACCAAGTCTCCTGG
21929 GTTTAAGGACTGGTTCTCTTTAGTTGTGTCCACTCTTGTTATTTGACTAATACCAAGTCTCCTGG
1 GTTTAAGGACTGGTTCTCTTTAGTTGTGTCCACTCTTGTTATTTGACTAATACCAAGTCTCCTGG
* *
21994 GTTTAAGGACTGGTTCTCTTTAGTTGTGTCCACTCTTATTATTTGCCTAA
1 GTTTAAGGACTGGTTCTCTTTAGTTGTGTCCACTCTTGTTATTTGACTAA
22044 GTAAACATAT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 113 1.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.43
Consensus pattern (65 bp):
GTTTAAGGACTGGTTCTCTTTAGTTGTGTCCACTCTTGTTATTTGACTAATACCAAGTCTCCTGG
Found at i:23090 original size:14 final size:14
Alignment explanation
Indices: 23071--23099 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23061 ATATATATAT
23071 ACACACACGCGCGC
1 ACACACACGCGCGC
23085 ACACACACGCGCGC
1 ACACACACGCGCGC
23099 A
1 A
23100 TTTATGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.48, G:0.21, T:0.00
Consensus pattern (14 bp):
ACACACACGCGCGC
Found at i:29500 original size:251 final size:251
Alignment explanation
Indices: 29056--29526 Score: 834
Period size: 251 Copynumber: 1.9 Consensus size: 251
29046 TTTCTTATTT
*
29056 GGAAGAATTGGAAACAATTTGTTTCTTCTTTCGCAAATGTTCCATAACATTTATCTCAGCATTCA
1 GGAAGAATTGGAAACAATTTGTTTCTTCTTTCGCAAATATTCCATAACATTTATCTCAGCATTCA
* * * *
29121 TAGTCTGAACACCATCATTCCTTTCTAAATTATGGATATCTTCTTTGATTCTTAATCGAATCACA
66 TAGTCTAAACACCACCATTCCTTTCTAAATCATGGATATCTTCTTTGATTCTAAATCGAATCACA
* * *
29186 GTTTTTGAATCCACCATTTTGAAGTCCCAAAACTAGTTAACTATTAATTTCTTTGTTTCGGTATA
131 GTTTTCGAATCCACCATTTTGAAGTCCCAAAACTAGTTAACTATTAATTTCTTCGTATCGGTATA
*
29251 TTCAGTTTTGTACTTTTGATCCAATCACTCTCATAGCCAAATTTCTTATTGCCTTC
196 TTCAGTTTTATACTTTTGATCCAATCACTCTCATAGCCAAATTTCTTATTGCCTTC
29307 GGAAGAATTGGAAACAATTTGTTTCTTCTTTCGCAAATATTCCATAACATTTATCTCAGCATTCA
1 GGAAGAATTGGAAACAATTTGTTTCTTCTTTCGCAAATATTCCATAACATTTATCTCAGCATTCA
**
29372 TAGTCTAAACACCACCATTCCTTTCTAAATCATGGATATCTTCTTTGATTCTAAATCGAATCGTA
66 TAGTCTAAACACCACCATTCCTTTCTAAATCATGGATATCTTCTTTGATTCTAAATCGAATCACA
29437 GTTTTCGAATCCACCATTTTGAAGTCCCAAAACTAGTTAACTATTAATTTCTTCGTATCGGTATA
131 GTTTTCGAATCCACCATTTTGAAGTCCCAAAACTAGTTAACTATTAATTTCTTCGTATCGGTATA
*
29502 TTCAGTTTTATACTTTTGGTCCAAT
196 TTCAGTTTTATACTTTTGATCCAAT
29527 GACTTTCACA
Statistics
Matches: 208, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
251 208 1.00
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.40
Consensus pattern (251 bp):
GGAAGAATTGGAAACAATTTGTTTCTTCTTTCGCAAATATTCCATAACATTTATCTCAGCATTCA
TAGTCTAAACACCACCATTCCTTTCTAAATCATGGATATCTTCTTTGATTCTAAATCGAATCACA
GTTTTCGAATCCACCATTTTGAAGTCCCAAAACTAGTTAACTATTAATTTCTTCGTATCGGTATA
TTCAGTTTTATACTTTTGATCCAATCACTCTCATAGCCAAATTTCTTATTGCCTTC
Found at i:30248 original size:2 final size:2
Alignment explanation
Indices: 30231--30265 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
30221 TATATACTCA
*
30231 AT AT -T AT AT TT 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
30266 CATGAATCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:30705 original size:21 final size:21
Alignment explanation
Indices: 30681--30735 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
30671 AAACTGTATC
*
30681 AAATTTTAAATTTTAAAATCT
1 AAATTTTAAATTTCAAAATCT
* *
30702 AAA-TTTAAATCTTCAGAATTT
1 AAATTTTAAAT-TTCAAAATCT
*
30723 AAATTTAAAATTT
1 AAATTTTAAATTT
30736 AAATTTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.25
21 15 0.54
22 6 0.21
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
AAATTTTAAATTTCAAAATCT
Found at i:30710 original size:6 final size:6
Alignment explanation
Indices: 30685--30741 Score: 51
Period size: 6 Copynumber: 8.5 Consensus size: 6
30675 TGTATCAAAT
*
30685 TTTAAA TTTTAAAA TCTAAA TTTAAA TCTTCAGAA TTTAAA TTTAAAA
1 TTTAAA -TTT-AAA TTTAAA TTTAAA T-TT-A-AA TTTAAA TTT-AAA
30733 TTTAAA TTT
1 TTTAAA TTT
30742 CTAATGAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
6 20 0.47
7 14 0.33
8 6 0.14
9 3 0.07
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:30921 original size:22 final size:22
Alignment explanation
Indices: 30878--30936 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
30868 TGAAGCATTT
* *
30878 TATATTTATATATAATAACTTA
1 TATATTCATATATTATAACTTA
* **
30900 TATATTGATATATTATTTCTTA
1 TATATTCATATATTATAACTTA
* *
30922 TTTATTCATAAATTA
1 TATATTCATATATTA
30937 ACTAATTGAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (22 bp):
TATATTCATATATTATAACTTA
Found at i:34412 original size:15 final size:17
Alignment explanation
Indices: 34380--34417 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
34370 AACAAATTAA
*
34380 ATTTTTTATTTATGTAT
1 ATTTTTTAATTATGTAT
34397 ATTTTTTAATT-T-TAT
1 ATTTTTTAATTATGTAT
34412 ATTTTT
1 ATTTTT
34418 ATCTAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 1 0.05
17 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTTAATTATGTAT
Found at i:35231 original size:6 final size:6
Alignment explanation
Indices: 35220--35252 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
35210 AGGTTGTTTT
*
35220 AAAGCA AAAGCA AAAGCA AAAGCA GAAGCA AAA
1 AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA AAA
35253 CCATAACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.67, C:0.15, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGCA
Found at i:45342 original size:2 final size:2
Alignment explanation
Indices: 45330--45365 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
45320 CTTATTAAAA
45330 AT AT A- 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 AT AT A
45366 ATAATAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:47345 original size:3 final size:3
Alignment explanation
Indices: 47339--47382 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
47329 GTGGAAGAAG
*
47339 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT AAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
47383 AGAGGCGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:50246 original size:28 final size:28
Alignment explanation
Indices: 50214--50271 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
50204 GGACTTGACT
50214 AAGGGAAGACTTA-AAGTATATTGAATCC
1 AAGGGAAGACTTAGAA-TATATTGAATCC
*
50242 AAGGGAAGATTTAGAATATATTGAATCC
1 AAGGGAAGACTTAGAATATATTGAATCC
50270 AA
1 AA
50272 TTCTTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (28 bp):
AAGGGAAGACTTAGAATATATTGAATCC
Found at i:52795 original size:15 final size:14
Alignment explanation
Indices: 52766--52803 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
52756 AAAATCATTT
*
52766 TGATAAATTTTATA
1 TGATATATTTTATA
52780 TGATATATTATTATA
1 TGATATATT-TTATA
52795 TGA-ATATTT
1 TGATATATTT
52804 AAAATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 13 0.59
15 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (14 bp):
TGATATATTTTATA
Found at i:54223 original size:2 final size:2
Alignment explanation
Indices: 54216--54245 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
54206 AGTGATTAAC
54216 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
54246 GTAAGTCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55019 original size:23 final size:23
Alignment explanation
Indices: 54992--55070 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
54982 AGATAATATA
*
54992 AATTTAGATATTTATAATTATTT
1 AATTTAAATATTTATAATTATTT
**
55015 AATTT-TTTATTTAGATAA-TATTT
1 AATTTAAATATTT--ATAATTATTT
*
55038 ATATTTAAATA-TTATTATTATTT
1 A-ATTTAAATATTTATAATTATTT
*
55061 ACTTTAAATA
1 AATTTAAATA
55071 GATTTGAAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
22 16 0.36
23 17 0.38
24 10 0.22
25 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (23 bp):
AATTTAAATATTTATAATTATTT
Found at i:55059 original size:17 final size:16
Alignment explanation
Indices: 55014--55061 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
55004 TATAATTATT
* *
55014 TAATTTTTTATTTAGA
1 TAATATTTTATTTAAA
55030 TAATATTTATATTTAAA
1 TAATATTT-TATTTAAA
*
55047 TATTATTATTATTTA
1 TAATATT-TTATTTA
55062 CTTTAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 7 0.26
17 19 0.70
18 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TAATATTTTATTTAAA
Found at i:56418 original size:31 final size:31
Alignment explanation
Indices: 56383--56443 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
56373 TAAAATTACT
*
56383 ATATATTTTACGTTAC-AGTATTGCTACATAA
1 ATATATTTTACGTTACTAG-ATTACTACATAA
*
56414 ATATATTTTATGTTACTAGATTACTACATA
1 ATATATTTTACGTTACTAGATTACTACATA
56444 CTTTTATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (31 bp):
ATATATTTTACGTTACTAGATTACTACATAA
Found at i:56541 original size:20 final size:18
Alignment explanation
Indices: 56518--56566 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
56508 GTATTATTTA
56518 ATTATTTTTATCTCAAAATT
1 ATTATTTTTATCT--AAATT
*
56538 ATTATTTTGTTATCTAAGTT
1 ATTA-TTT-TTATCTAAATT
56558 ATTATTTTT
1 ATTATTTTT
56567 GTATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 12 0.46
21 3 0.12
22 6 0.23
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (18 bp):
ATTATTTTTATCTAAATT
Found at i:57625 original size:5 final size:5
Alignment explanation
Indices: 57579--57622 Score: 61
Period size: 5 Copynumber: 8.4 Consensus size: 5
57569 TTATCATCCC
*
57579 CAGCA CCAGCA CCAGCA CAGCA CAGCA CAGCA CAGCA CACCA CA
1 CAGCA -CAGCA -CAGCA CAGCA CAGCA CAGCA CAGCA CAGCA CA
57623 CCATTCCACA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
5 26 0.70
6 11 0.30
ACGTcount: A:0.39, C:0.45, G:0.16, T:0.00
Consensus pattern (5 bp):
CAGCA
Found at i:61105 original size:3 final size:3
Alignment explanation
Indices: 61097--61123 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
61087 TGAGCTATAC
61097 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
61124 GGCTGGCACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:61717 original size:3 final size:3
Alignment explanation
Indices: 61709--61741 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
61699 AAGCGGACCC
61709 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61742 GAGATCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:62069 original size:18 final size:18
Alignment explanation
Indices: 62046--62110 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
62036 TATGAAAATT
62046 ATTATAAATGTTAATAAA
1 ATTATAAATGTTAATAAA
62064 ATTATATTAATAGTTAA-AAA
1 ATTATA--AAT-GTTAATAAA
* *
62084 GCTATTATAAATATTAGTAAA
1 ---ATTATAAATGTTAATAAA
62105 ATTATA
1 ATTATA
62111 TAAAATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
18 12 0.32
20 9 0.24
21 11 0.29
23 6 0.16
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (18 bp):
ATTATAAATGTTAATAAA
Found at i:62136 original size:31 final size:31
Alignment explanation
Indices: 62095--62154 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
62085 CTATTATAAA
* *
62095 TATTAGTAAAA-TTATATAAAATTTTATTAAT
1 TATTAGTAAAAGTTAT-CAAAATTATATTAAT
*
62126 TATTATTAAAAGTTATCAAAATTATATTA
1 TATTAGTAAAAGTTATCAAAATTATATTA
62155 TGAAGTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (31 bp):
TATTAGTAAAAGTTATCAAAATTATATTAAT
Found at i:62153 original size:21 final size:20
Alignment explanation
Indices: 62015--62169 Score: 88
Period size: 21 Copynumber: 7.4 Consensus size: 20
62005 TTTATTTTGA
*
62015 TATAAAATTATATTAAAAAAT
1 TATAAAATTATATT-AAAAGT
*
62036 TATGAAAATTAT-TATAAATGT
1 TAT-AAAATTATAT-TAAAAGT
*
62057 TAATAAAATTATATTAATAGT
1 T-ATAAAATTATATTAAAAGT
*
62078 TA-AAAAGCTAT-TATAAATA-T
1 TATAAAA-TTATAT-TAAA-AGT
62098 TAGTAAAATTATA-TAAAA-T
1 TA-TAAAATTATATTAAAAGT
* *
62117 TTTATTAATTATTATTAAAAGT
1 TATA-AAATTA-TATTAAAAGT
*
62139 TATCAAAATTATATTATGAAGT
1 TAT-AAAATTATATTA-AAAGT
62161 TACTAAAAT
1 TA-TAAAAT
62170 CAAATAAAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 33
0.70 0.08 0.22
Matches are distributed among these distances:
18 2 0.02
19 13 0.12
20 16 0.15
21 37 0.35
22 35 0.33
23 2 0.02
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (20 bp):
TATAAAATTATATTAAAAGT
Found at i:62446 original size:21 final size:21
Alignment explanation
Indices: 62408--62466 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
62398 AATAATTATC
*
62408 TTACAAACGTTA-CTAAAATAA
1 TTACAAAAGTTATC-AAAATAA
*
62429 TTACAAATA-TTATCAAAATTA
1 TTACAAA-AGTTATCAAAATAA
*
62450 TTATAAAAGTTATCAAA
1 TTACAAAAGTTATCAAA
62467 TTTAAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (21 bp):
TTACAAAAGTTATCAAAATAA
Found at i:62734 original size:28 final size:27
Alignment explanation
Indices: 62685--62759 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 27
62675 AAATTTGTTA
62685 ATAAA-AAAAAATATAT-ATATATATATAT
1 ATAAATAAAAAAT-TATCA-ATATATA-AT
* *
62713 ATAAA-CAAAAATTAGTCAATATTTAAT
1 ATAAATAAAAAATTA-TCAATATATAAT
*
62740 TTAAATAAAAAATTATCAAT
1 ATAAATAAAAAATTATCAAT
62760 TGAGATTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 13 0.32
28 26 0.65
29 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (27 bp):
ATAAATAAAAAATTATCAATATATAAT
Found at i:63753 original size:2 final size:2
Alignment explanation
Indices: 63746--63773 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63736 TTTTATGTAA
63746 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
63774 GCAAGCGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66168 original size:2 final size:2
Alignment explanation
Indices: 66161--66196 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
66151 GAAACTGAGC
66161 GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A G- GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
66197 AGCCAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:69442 original size:22 final size:20
Alignment explanation
Indices: 69415--69483 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 20
69405 TAAAATTATA
69415 ATTTTTATTATATGCACATATT
1 ATTTTTATTATAT--ACATATT
*
69437 ATTTTT-TATATATATATATT
1 ATTTTTAT-TATATACATATT
*
69457 ATTTTTATTTTATATACGTATT
1 ATTTTTA--TTATATACATATT
69479 ATTTT
1 ATTTT
69484 ATTCAAATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 12 0.30
21 1 0.03
22 26 0.65
23 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTTATTATATACATATT
Found at i:69447 original size:20 final size:20
Alignment explanation
Indices: 69417--69462 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
69407 AAATTATAAT
*
69417 TTTTATTATATGCACATATTA
1 TTTT-TTATATACACATATTA
* *
69438 TTTTTTATATATATATATTA
1 TTTTTTATATACACATATTA
69458 TTTTT
1 TTTTT
69463 ATTTTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTTATATACACATATTA
Found at i:69932 original size:2 final size:2
Alignment explanation
Indices: 69925--69954 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
69915 ATATAACTAA
*
69925 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69955 TTCAAGGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:72492 original size:14 final size:15
Alignment explanation
Indices: 72473--72501 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
72463 TCGAATATTT
72473 TTTTATT-AAAAATA
1 TTTTATTCAAAAATA
72487 TTTTATTCAAAAATA
1 TTTTATTCAAAAATA
72502 ATCCTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTATTCAAAAATA
Found at i:72575 original size:29 final size:29
Alignment explanation
Indices: 72533--72593 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
72523 TATTCAAAAT
* *
72533 AATTTATGTTTAAAATAATTTTTGATCAA
1 AATTTATATTTAAAATAATTTATGATCAA
*
72562 AATTTATATTTAAAATAATTTATGTTCAA
1 AATTTATATTTAAAATAATTTATGATCAA
72591 AAT
1 AAT
72594 AATTTATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (29 bp):
AATTTATATTTAAAATAATTTATGATCAA
Found at i:72608 original size:16 final size:16
Alignment explanation
Indices: 72476--72608 Score: 82
Period size: 16 Copynumber: 8.6 Consensus size: 16
72466 AATATTTTTT
72476 TATTAAAAAT-ATTT-
1 TATTAAAAATAATTTA
72490 TATTCAAAAATAATCCTTA
1 TATT-AAAAATAAT--TTA
***
72509 T-TT-AAAATAACAAA
1 TATTAAAAATAATTTA
*
72523 TATTCAAAATAATTTA
1 TATTAAAAATAATTTA
* *
72539 TGTTTAAAATAATTT-
1 TATTAAAAATAATTTA
* **
72554 T-TGATCAA-AATTTA
1 TATTAAAAATAATTTA
*
72568 TATTTAAAATAATTTA
1 TATTAAAAATAATTTA
* *
72584 TGTTCAAAATAATTTA
1 TATTAAAAATAATTTA
72600 TATTAAAAA
1 TATTAAAAA
72609 AAGTTGTATC
Statistics
Matches: 89, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
13 5 0.06
14 10 0.11
15 12 0.13
16 57 0.64
18 4 0.04
19 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (16 bp):
TATTAAAAATAATTTA
Found at i:76776 original size:2 final size:2
Alignment explanation
Indices: 76769--76808 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
76759 ATTTGAACTC
*
76769 AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76809 TTAAGATTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:77074 original size:9 final size:9
Alignment explanation
Indices: 77052--77100 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
77042 TCTTTCAGCT
*
77052 GAAAAAAAA
1 GAAAAGAAA
*
77061 G-AAAGAAG
1 GAAAAGAAA
*
77069 GAAAAGAAG
1 GAAAAGAAA
*
77078 GAAAAAAAA
1 GAAAAGAAA
77087 GAAAAGAAA
1 GAAAAGAAA
77096 GAAAA
1 GAAAA
77101 AAATTTATCG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 6 0.18
9 28 0.82
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
GAAAAGAAA
Found at i:77075 original size:13 final size:13
Alignment explanation
Indices: 77052--77100 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
77042 TCTTTCAGCT
*
77052 GAAAAAAAAGAAA
1 GAAAGAAAAGAAA
* *
77065 GAAGGAAAAGAAG
1 GAAAGAAAAGAAA
*
77078 GAAAAAAAAGAAAA
1 GAAAGAAAAG-AAA
77092 GAAAGAAAA
1 GAAAGAAAA
77101 AAATTTATCG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAGAAA
Found at i:77092 original size:18 final size:18
Alignment explanation
Indices: 77069--77103 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77059 AAGAAAGAAG
*
77069 GAAAAGAAGGAAAAAAAA
1 GAAAAGAAAGAAAAAAAA
77087 GAAAAGAAAGAAAAAAA
1 GAAAAGAAAGAAAAAAA
77104 TTTATCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
GAAAAGAAAGAAAAAAAA
Found at i:77180 original size:20 final size:20
Alignment explanation
Indices: 77141--77180 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
77131 TTTATATTTT
* *
77141 AAAATATTATATTTTTATAA
1 AAAATATTATATATTAATAA
*
77161 AAAATTTTATATATTAATAA
1 AAAATATTATATATTAATAA
77181 TTTATTTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAATATTATATATTAATAA
Found at i:77517 original size:15 final size:16
Alignment explanation
Indices: 77481--77520 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
77471 TTTAATATTT
*
77481 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
77498 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
77513 ATAAAATT
1 ATAAAATT
77521 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:77523 original size:16 final size:17
Alignment explanation
Indices: 77481--77523 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
77471 TTTAATATTT
*
77481 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
77498 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
77513 ATAAAATTTAT
1 ATAAAATTTAT
77524 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:77757 original size:32 final size:32
Alignment explanation
Indices: 77689--77757 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
77679 ACGAATATAT
* *
77689 AAATATTTATATAAAATAAATTATTAATGTAT
1 AAATATTTATATAAAATAAAATATTAATGTAC
* *
77721 AAATATTTATATAAATTTAAAATATT-TTGTAC
1 AAATATTTATATAAA-ATAAAATATTAATGTAC
77753 AAATA
1 AAATA
77758 AAAATAACAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 24 0.75
33 8 0.25
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (32 bp):
AAATATTTATATAAAATAAAATATTAATGTAC
Found at i:77982 original size:11 final size:12
Alignment explanation
Indices: 77953--77989 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
77943 TAATTTTCAC
77953 AATTTTTATTTT
1 AATTTTTATTTT
77965 AATTTTTATTTT
1 AATTTTTATTTT
77977 AA-TTTTATTTT
1 AATTTTTATTTT
77988 AA
1 AA
77990 AATAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
AATTTTTATTTT
Found at i:78338 original size:30 final size:30
Alignment explanation
Indices: 78284--78340 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
78274 AGGTTTTTAT
* *
78284 TTTTAAGTTTTGTATTTTTTTTAAATTTTC
1 TTTTAAGTTTTGAATTTTTCTTAAATTTTC
78314 TTTTAAGTTTT-AATTTATTCTTAAATT
1 TTTTAAGTTTTGAATTT-TTCTTAAATT
78341 ATATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.67
Consensus pattern (30 bp):
TTTTAAGTTTTGAATTTTTCTTAAATTTTC
Found at i:78461 original size:19 final size:19
Alignment explanation
Indices: 78418--78461 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
78408 TAAAATAATT
*
78418 TTTTTATTTTTTATTTTAA
1 TTTTAATTTTTTATTTTAA
*
78437 TGTTAATTTTTTAATTTT-A
1 TTTTAATTTTTT-ATTTTAA
78456 TTTTAA
1 TTTTAA
78462 AATAATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTAATTTTTTATTTTAA
Found at i:78474 original size:27 final size:27
Alignment explanation
Indices: 78407--78475 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 27
78397 CATTAAAATA
*
78407 TTAAAATAAT-TTTTTTATTTTTTATT
1 TTAAAATAATATTTTTTATATTTTATT
** *
78433 TTAATGTTA-ATTTTTTA-ATTTTATT
1 TTAAAATAATATTTTTTATATTTTATT
*
78458 TTAAAATAATATATTTTA
1 TTAAAATAATATTTTTTA
78476 AATGATTAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
25 13 0.39
26 20 0.61
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (27 bp):
TTAAAATAATATTTTTTATATTTTATT
Found at i:79300 original size:28 final size:27
Alignment explanation
Indices: 79226--79318 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 27
79216 TTGAATTAAT
*
79226 TTAAATTTTATATCTTATTTTAAATAAAAAA
1 TTAAATTTTATA--TTATTTTTAAT--AAAA
*
79257 TTTAAA-TATATAATTATTATTTAATAAAA
1 -TTAAATTTTAT-ATTATT-TTTAATAAAA
*
79286 TTAAATTTTATATTATTTTTATTAATAA
1 TTAAATTTTATATTATTTTTAATAA-AA
79314 TTAAA
1 TTAAA
79319 AATTATAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
27 7 0.13
28 18 0.34
29 8 0.15
30 5 0.09
31 9 0.17
32 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAAATTTTATATTATTTTTAATAAAA
Found at i:79324 original size:28 final size:28
Alignment explanation
Indices: 79260--79325 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
79250 TAAAAAATTT
79260 AAATATATAATTATTATTTAATAAAATTAA
1 AAAT-TAT-ATTATTATTTAATAAAATTAA
** *
79290 ATTTTATATTATT-TTTATTAATAATTAA
1 AAATTATATTATTATTTAATAA-AATTAA
79318 AAATTATA
1 AAATTATA
79326 AAAAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
27 7 0.23
28 18 0.60
29 3 0.10
30 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
AAATTATATTATTATTTAATAAAATTAA
Found at i:87452 original size:2 final size:2
Alignment explanation
Indices: 87445--87480 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
87435 AGCTGTAATC
* *
87445 TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87481 CACACTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:88139 original size:2 final size:2
Alignment explanation
Indices: 88132--88164 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
88122 GGAAATTTCT
88132 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
88165 GCATTTCCAG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:92740 original size:2 final size:2
Alignment explanation
Indices: 92729--92759 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
92719 GATGAACTGA
92729 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
92760 GGGTGCCTAC
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:93477 original size:3 final size:3
Alignment explanation
Indices: 93469--93528 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
93459 TTCTGATTGC
93469 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
93517 GTT ATT ATT ATT
1 ATT ATT ATT ATT
93529 TTAGTTTATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:98131 original size:3 final size:3
Alignment explanation
Indices: 98123--98171 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
98113 TGTCTATTTT
* *
98123 ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
98171 A
1 A
98172 AACAAATGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:98691 original size:14 final size:14
Alignment explanation
Indices: 98672--98704 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
98662 TATAGTTTGA
98672 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
*
98686 TTTTCTTTTTTTTT
1 TTTTCTTTTCTTTT
98700 TTTTC
1 TTTTC
98705 CAATTACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTCTTTTCTTTT
Found at i:100758 original size:2 final size:2
Alignment explanation
Indices: 100751--100805 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
100741 AACCTCCATA
*
100751 AT AT AT AT -T AT AT -T AT AT -T AT AT -T AT AT -T TT 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
100788 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
100806 GAGAAATTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
1 5 0.11
2 42 0.89
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:106834 original size:2 final size:2
Alignment explanation
Indices: 106827--106875 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
106817 TCAACTTGCC
* * *
106827 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA AA T- TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106868 T- TA TA TA T
1 TA TA TA TA T
106876 GTAAACACTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:107328 original size:32 final size:33
Alignment explanation
Indices: 107280--107343 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
107270 TTTGAAATTT
* * *
107280 TAATTTATATATAAAATTTAAAT-AAATTTAAG
1 TAATTTAAATAAAAAATATAAATCAAATTTAAG
*
107312 TAATTTAAATAAAAAATATCAATCAAATTTAA
1 TAATTTAAATAAAAAATATAAATCAAATTTAA
107344 ACTCATGTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (33 bp):
TAATTTAAATAAAAAATATAAATCAAATTTAAG
Found at i:108263 original size:10 final size:10
Alignment explanation
Indices: 108249--108283 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
108239 GCATAGAGAG
*
108249 GGGGGGGGGG
1 GGGGGGGGGA
108259 GGGGGGGGGA
1 GGGGGGGGGA
*
108269 GGGAGGGGGA
1 GGGGGGGGGA
108279 GGGGG
1 GGGGG
108284 AATTGATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.00, G:0.91, T:0.00
Consensus pattern (10 bp):
GGGGGGGGGA
Found at i:114900 original size:2 final size:2
Alignment explanation
Indices: 114893--114917 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
114883 CTAAAATTGA
114893 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 A
114918 ATCCCATAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:117595 original size:3 final size:3
Alignment explanation
Indices: 117587--117617 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
117577 AAAAATAACA
*
117587 ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
117618 AATGTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:119269 original size:5 final size:5
Alignment explanation
Indices: 119249--119281 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
119239 AAGTTTAATA
119249 AATTT -ATTT AAATTT AATTT AATTT AATTT AAT
1 AATTT AATTT -AATTT AATTT AATTT AATTT AAT
119282 AAAAAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:119394 original size:15 final size:16
Alignment explanation
Indices: 119358--119395 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
119348 CAAATTAATC
*
119358 AATTTAAAATAACTTG
1 AATTTAAAATAACTTA
*
119374 AATTTAAAATGA-TTA
1 AATTTAAAATAACTTA
119389 AATTTAA
1 AATTTAA
119396 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (16 bp):
AATTTAAAATAACTTA
Found at i:119417 original size:22 final size:24
Alignment explanation
Indices: 119374--119441 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 24
119364 AAATAACTTG
*
119374 AATTTAAAATGATTAAATTTAATA
1 AATTTAAAATGATTAAACTTAATA
*
119398 AATTTAAAA-G-TTAAACTTAATT
1 AATTTAAAATGATTAAACTTAATA
* *
119420 GACTTAAAATCGATT-AACTTAA
1 AATTTAAAAT-GATTAAACTTAA
119442 ATATTAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 17 0.46
23 1 0.03
24 17 0.46
25 2 0.05
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (24 bp):
AATTTAAAATGATTAAACTTAATA
Found at i:119567 original size:16 final size:16
Alignment explanation
Indices: 119539--119593 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
119529 TCGATCATTC
119539 AAATATAAAATAACTTA
1 AAAT-TAAAATAACTTA
* *
119556 AAATTGAAATAATTTA
1 AAATTAAAATAACTTA
* *
119572 AACTAAATAATAACTTA
1 AAATTAA-AATAACTTA
119589 AAATT
1 AAATT
119594 TTAAAATTCA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (16 bp):
AAATTAAAATAACTTA
Found at i:129131 original size:2 final size:2
Alignment explanation
Indices: 129115--129151 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
129105 GGAGTGTGCA
*
129115 AT AT A- AT AA 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
129152 GGGTGTGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:143338 original size:2 final size:2
Alignment explanation
Indices: 143303--143327 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
143293 TAAATAAATA
143303 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 A
143328 CACGTATATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:145895 original size:3 final size:3
Alignment explanation
Indices: 145881--145928 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
145871 AATGTCTATA
*
145881 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
145929 GGTTAAAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:150430 original size:3 final size:3
Alignment explanation
Indices: 150422--150463 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
150412 CCAGTTTTGC
*
150422 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
150464 TATAATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:151056 original size:2 final size:2
Alignment explanation
Indices: 151049--151080 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
151039 AATAATTCTT
151049 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
151081 AGTATAATAA
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:158404 original size:2 final size:2
Alignment explanation
Indices: 158358--158387 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
158348 AATGCTTGCT
158358 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
158388 GATGAAGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:158771 original size:2 final size:2
Alignment explanation
Indices: 158764--158797 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
158754 TATTAATTAT
158764 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
158798 TAGCGTACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:159284 original size:14 final size:16
Alignment explanation
Indices: 159259--159290 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
159249 TGTTGTTAAT
159259 TAATTGCCATCAT-CA
1 TAATTGCCATCATGCA
159274 TAATT-CCATCATGCA
1 TAATTGCCATCATGCA
159289 TA
1 TA
159291 CATTTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TAATTGCCATCATGCA
Found at i:163067 original size:25 final size:25
Alignment explanation
Indices: 163039--163088 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
163029 GAAAACTTAA
*
163039 TTTTATCTCAAATTAGAAAGGGAAG
1 TTTTATCTCAAATTAGAAAGAGAAG
163064 TTTTATCTCAAATTAGAAAGAGAAG
1 TTTTATCTCAAATTAGAAAGAGAAG
163089 CATGCATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (25 bp):
TTTTATCTCAAATTAGAAAGAGAAG
Found at i:164173 original size:3 final size:3
Alignment explanation
Indices: 164165--164217 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
164155 TTTATAACAG
164165 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
164213 TAA TA
1 TAA TA
164218 GATTTGAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:167047 original size:15 final size:14
Alignment explanation
Indices: 167023--167064 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
167013 AAATTTGAGA
*
167023 TTTATAATTTTAAT
1 TTTATAATTTTAAC
167037 TTTATTAATTTTAAC
1 TTTA-TAATTTTAAC
167052 TTTA-AATTATTAA
1 TTTATAATT-TTAA
167065 AATTATCACG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATAATTTTAAC
Found at i:168441 original size:22 final size:21
Alignment explanation
Indices: 168413--168454 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
168403 ATATTAAAAA
168413 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
168433 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
168454 A
1 A
168455 AATACTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:168745 original size:19 final size:19
Alignment explanation
Indices: 168713--168751 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
168703 ATTTGATATC
*
168713 TGATTCATTAAAAGTAATT
1 TGATTCACTAAAAGTAATT
* *
168732 TGATTCACTGAAAGTCATT
1 TGATTCACTAAAAGTAATT
168751 T
1 T
168752 TACTTTTTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (19 bp):
TGATTCACTAAAAGTAATT
Found at i:168987 original size:17 final size:16
Alignment explanation
Indices: 168930--168986 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 16
168920 AATCTGATCT
168930 ATTTTATTATTATATA
1 ATTTTATTATTATATA
*
168946 ATATTTATTAATTTTAT-
1 AT-TTTATT-ATTATATA
168963 ATTTTATATATTATATA
1 ATTTTAT-TATTATATA
168980 ATTTTAT
1 ATTTTAT
168987 AATATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 13 0.37
17 16 0.46
18 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTATTATTATATA
Found at i:169081 original size:21 final size:22
Alignment explanation
Indices: 169040--169083 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
169030 AAATTAATTT
*
169040 AAAATATTTTTAAACTTAATAAA
1 AAAATATTTTTAAAC-AAATAAA
169063 AAAATATTTTTAAA-AAATAAA
1 AAAATATTTTTAAACAAATAAA
169084 TAATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATATTTTTAAACAAATAAA
Found at i:169090 original size:14 final size:15
Alignment explanation
Indices: 169073--169101 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
169063 AAAATATTTT
169073 TAAAAAATAA-ATAA
1 TAAAAAATAATATAA
169087 TAAAAAATAATATAA
1 TAAAAAATAATATAA
169102 ACAGACTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAATAATATAA
Found at i:169091 original size:25 final size:23
Alignment explanation
Indices: 169039--169091 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
169029 TAAATTAATT
* *
169039 TAAAATATTTTTAAACTTAATAA
1 TAAAATATTTTTAAAATAAATAA
*
169062 AAAAATATTTTTAAAAAATAAATAA
1 TAAAATATTTTT--AAAATAAATAA
169087 TAAAA
1 TAAAA
169092 AATAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 11 0.46
25 13 0.54
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAAATATTTTTAAAATAAATAA
Found at i:169643 original size:17 final size:19
Alignment explanation
Indices: 169606--169646 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
169596 AATATCATCT
169606 TAAAT-AATAATTTTATAA
1 TAAATAAATAATTTTATAA
169624 TAAATAAAT-ATTTT-TAA
1 TAAATAAATAATTTTATAA
169641 TAAATA
1 TAAATA
169647 CTTATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 10 0.45
19 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATAAATAATTTTATAA
Found at i:170236 original size:17 final size:18
Alignment explanation
Indices: 170216--170258 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
170206 ATTAATATTT
170216 TTTTAAAAAT-TTGATAA
1 TTTTAAAAATATTGATAA
* *
170233 TTTT-TAAATATTGATTA
1 TTTTAAAAATATTGATAA
170250 TTTTAAAAA
1 TTTTAAAAA
170259 AATTTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 4 0.19
17 14 0.67
18 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATATTGATAA
Found at i:170236 original size:18 final size:17
Alignment explanation
Indices: 170215--170258 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
170205 AATTAATATT
170215 TTTTTAAAAATTTGATAA
1 TTTTTAAAAA-TTGATAA
* *
170233 TTTTTAAATATTGATTA
1 TTTTTAAAAATTGATAA
170250 -TTTTAAAAA
1 TTTTTAAAAA
170259 AATTTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
TTTTTAAAAATTGATAA
Found at i:170509 original size:27 final size:28
Alignment explanation
Indices: 170478--170537 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
170468 AATGGTATAA
170478 TTTATAATGTAAATTAAATATAA-ATTT
1 TTTATAATGTAAATTAAATATAATATTT
* * * *
170505 TTTATAATTTTATTTAAATGTAATATTT
1 TTTATAATGTAAATTAAATATAATATTT
170533 TTTAT
1 TTTAT
170538 TAAACCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTATAATGTAAATTAAATATAATATTT
Found at i:173148 original size:13 final size:13
Alignment explanation
Indices: 173130--173155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
173120 ACCATACCAG
173130 CCTATCCCATCTA
1 CCTATCCCATCTA
173143 CCTATCCCATCTA
1 CCTATCCCATCTA
173156 ACTTTTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (13 bp):
CCTATCCCATCTA
Found at i:177656 original size:15 final size:16
Alignment explanation
Indices: 177620--177659 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
177610 TTTAATATTT
*
177620 ATAAAATTTGTAATTAA
1 ATAAAA-TTATAATTAA
177637 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
177652 ATAAAATT
1 ATAAAATT
177660 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:177662 original size:16 final size:17
Alignment explanation
Indices: 177620--177662 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
177610 TTTAATATTT
*
177620 ATAAAATTTGTAATTAA
1 ATAAAATTTATAATTAA
177637 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
177652 ATAAAATTTAT
1 ATAAAATTTAT
177663 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:178601 original size:16 final size:18
Alignment explanation
Indices: 178582--178616 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
178572 ATATTACTTT
178582 AAATAT-ACA-AAAAATA
1 AAATATGACATAAAAATA
178598 AAATATGACATAAAAATA
1 AAATATGACATAAAAATA
178616 A
1 A
178617 TTAAAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (18 bp):
AAATATGACATAAAAATA
Found at i:178689 original size:12 final size:13
Alignment explanation
Indices: 178660--178692 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
178650 CTATAAGGAC
178660 ATATAAATATATT
1 ATATAAATATATT
*
178673 GTATAAA-ATATT
1 ATATAAATATATT
178685 ATATAAAT
1 ATATAAAT
178693 TTATAATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
ATATAAATATATT
Found at i:178880 original size:17 final size:17
Alignment explanation
Indices: 178850--178894 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
178840 AAAAATATTT
178850 AAAATATA-ATATGA-A
1 AAAATATATATATGATA
178865 AATAATATATATATGATA
1 AA-AATATATATATGATA
*
178883 CAAATATATATA
1 AAAATATATATA
178895 AATACATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 6 0.23
17 16 0.62
18 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATATATATATGATA
Found at i:178998 original size:4 final size:4
Alignment explanation
Indices: 178989--179042 Score: 64
Period size: 4 Copynumber: 14.8 Consensus size: 4
178979 TAAATATTTT
*
178989 TTTC TTTC TTT- TTT- TTCC TTT- TTT- TTT- TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
179032 TTTC TTTC TTT
1 TTTC TTTC TTT
179043 TTCGGCTGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 14 0.30
4 32 0.70
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (4 bp):
TTTC
Found at i:179128 original size:3 final size:3
Alignment explanation
Indices: 179120--179152 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
179110 ATATGTATAG
179120 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
179153 TATCCTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:181853 original size:7 final size:7
Alignment explanation
Indices: 181834--181920 Score: 133
Period size: 7 Copynumber: 12.7 Consensus size: 7
181824 TGTTTTTACC
181834 ATGGC-T
1 ATGGCAT
181840 ATGGCAT
1 ATGGCAT
*
181847 GTGGCAT
1 ATGGCAT
181854 ATGGCAT
1 ATGGCAT
181861 ATGGCAT
1 ATGGCAT
*
181868 GTGGCAT
1 ATGGCAT
181875 ATGGCAT
1 ATGGCAT
181882 ATGGCAT
1 ATGGCAT
*
181889 GTGGCAT
1 ATGGCAT
181896 ATGGCAT
1 ATGGCAT
181903 ATGGCAT
1 ATGGCAT
181910 ATGGCA-
1 ATGGCAT
181916 ATGGC
1 ATGGC
181921 GAACCCCTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
6 10 0.14
7 64 0.86
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (7 bp):
ATGGCAT
Found at i:181864 original size:21 final size:21
Alignment explanation
Indices: 181834--181920 Score: 151
Period size: 21 Copynumber: 4.2 Consensus size: 21
181824 TGTTTTTACC
181834 ATGGC-TATGGCATGTGGCAT
1 ATGGCATATGGCATGTGGCAT
181854 ATGGCATATGGCATGTGGCAT
1 ATGGCATATGGCATGTGGCAT
181875 ATGGCATATGGCATGTGGCAT
1 ATGGCATATGGCATGTGGCAT
*
181896 ATGGCATATGGCATATGGCA-
1 ATGGCATATGGCATGTGGCAT
181916 ATGGC
1 ATGGC
181921 GAACCCCTCA
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
20 10 0.15
21 55 0.85
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (21 bp):
ATGGCATATGGCATGTGGCAT
Found at i:185639 original size:2 final size:2
Alignment explanation
Indices: 185632--185674 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
185622 TACTTGCTGT
* *
185632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TT 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
185674 T
1 T
185675 TTAGCATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:187046 original size:18 final size:16
Alignment explanation
Indices: 187023--187056 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
187013 TTGGTGTTTC
187023 CTCTGGTAGGACATATAG
1 CTCTGGT-GGACA-ATAG
187041 CTCTGGTGGACAATAG
1 CTCTGGTGGACAATAG
187057 TCAGGATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 5 0.31
18 7 0.44
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (16 bp):
CTCTGGTGGACAATAG
Found at i:190095 original size:14 final size:14
Alignment explanation
Indices: 190076--190106 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
190066 TTCCACTCCG
*
190076 TGTTTCATATCTGA
1 TGTTTCACATCTGA
190090 TGTTTCACATCTGA
1 TGTTTCACATCTGA
190104 TGT
1 TGT
190107 CTCTATAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.48
Consensus pattern (14 bp):
TGTTTCACATCTGA
Found at i:192667 original size:6 final size:6
Alignment explanation
Indices: 192656--192682 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
192646 AGTCTCTCTC
192656 TTGCCA TTGCCA TTGCCA TTGCCA TTG
1 TTGCCA TTGCCA TTGCCA TTGCCA TTG
192683 AATATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.37
Consensus pattern (6 bp):
TTGCCA
Found at i:197675 original size:12 final size:12
Alignment explanation
Indices: 197658--197693 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
197648 TAATTGAAAT
197658 AATTTTATTTAA
1 AATTTTATTTAA
197670 AATTTTATTTAA
1 AATTTTATTTAA
197682 AATTTTATTTAA
1 AATTTTATTTAA
197694 GTTTTCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
AATTTTATTTAA
Found at i:201955 original size:53 final size:53
Alignment explanation
Indices: 201897--202003 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 53
201887 TAAACTAAGG
* *
201897 TATATACATCTTAGTAGTTTGTTCTTTCCTTCGTCCTGTCTCCATGCAGTCTA
1 TATATACATCTTAGTAGTTAGTTCTTTCCTTCGTCCTGCCTCCATGCAGTCTA
* * *
201950 TATATACATTTTAGTAGTTAGTTCTTTCCTTTGTCCTGCCTCTATGCAGTCTA
1 TATATACATCTTAGTAGTTAGTTCTTTCCTTCGTCCTGCCTCCATGCAGTCTA
202003 T
1 T
202004 TAGATCATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.47
Consensus pattern (53 bp):
TATATACATCTTAGTAGTTAGTTCTTTCCTTCGTCCTGCCTCCATGCAGTCTA
Found at i:204501 original size:29 final size:29
Alignment explanation
Indices: 204446--204501 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
204436 GGCTGAAAAA
* *
204446 AAAAAAAAAGAAAAATGAGAAGGAAAGGG
1 AAAAAAAAAGAAAAATAAGAAGAAAAGGG
*
204475 AAAAGAAAAGAAAATATAAGAA-AAAAG
1 AAAAAAAAAGAAAA-ATAAGAAGAAAAG
204502 TGGGTTTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.05
Consensus pattern (29 bp):
AAAAAAAAAGAAAAATAAGAAGAAAAGGG
Found at i:207585 original size:19 final size:21
Alignment explanation
Indices: 207561--207619 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
207551 TCCGAAGTTT
207561 TATTTAAA-ATAATTA-AAAA
1 TATTTAAATATAATTATAAAA
*
207580 TATTTAAATTTAATTATAAAA
1 TATTTAAATATAATTATAAAA
207601 TA--TAAATATTAA-TATAAAA
1 TATTTAAATA-TAATTATAAAA
207620 ATAATATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 20 0.57
20 9 0.26
21 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATTTAAATATAATTATAAAA
Found at i:207595 original size:20 final size:20
Alignment explanation
Indices: 207561--207622 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
207551 TCCGAAGTTT
*
207561 TATTTAAA-ATAATTAAAAA
1 TATTTAAATTTAATTAAAAA
207580 TATTTAAATTTAATTATAAAA
1 TATTTAAATTTAATTA-AAAA
207601 TA--TAAATATTAATATAAAAA
1 TATTTAAAT-TTAAT-TAAAAA
207621 TA
1 TA
207623 ATATTTTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 13 0.34
20 17 0.45
21 8 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TATTTAAATTTAATTAAAAA
Found at i:207631 original size:19 final size:19
Alignment explanation
Indices: 207584--207636 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
207574 TAAAAATATT
207584 TAAA-TTTAATTATAAAATA
1 TAAATTTTAA-TATAAAATA
*
207603 TAAATATTAATATAAAA-A
1 TAAATTTTAATATAAAATA
207621 TAATATTTTAATATAA
1 TAA-ATTTTAATATAA
207637 TGGTTTAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 4 0.13
19 22 0.73
20 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTTTAATATAAAATA
Found at i:208907 original size:3 final size:3
Alignment explanation
Indices: 208899--208937 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
208889 ATGCAAAAGA
208899 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
208938 TTTTATTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:209595 original size:28 final size:27
Alignment explanation
Indices: 209564--209629 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
209554 AATTAATTTA
*
209564 TTATACTTATATTTAAAATATT-ATACAT
1 TTATA-TTATATTTAAAACATTAATA-AT
*
209592 TTATA-TATATTTTAATACATTAATAAT
1 TTATATTATA-TTTAAAACATTAATAAT
209619 TTATATTATAT
1 TTATATTATAT
209630 AAATTTTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 4 0.12
27 17 0.52
28 12 0.36
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (27 bp):
TTATATTATATTTAAAACATTAATAAT
Found at i:209667 original size:17 final size:17
Alignment explanation
Indices: 209642--209680 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
209632 ATTTTAACAT
209642 ATTTATATATTTATTTTTA
1 ATTTATAT-TTTA-TTTTA
209661 ATTTATATTTTATTTTA
1 ATTTATATTTTATTTTA
209678 ATT
1 ATT
209681 ATTACTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTATATTTTATTTTA
Found at i:210442 original size:2 final size:2
Alignment explanation
Indices: 210437--210464 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
210427 AAAAAGAGAA
210437 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
210465 GCGCTTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:211128 original size:2 final size:2
Alignment explanation
Indices: 211121--211156 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
211111 ACAACTAAAG
211121 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
211157 AATAAAACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:211693 original size:2 final size:2
Alignment explanation
Indices: 211686--211714 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
211676 TAATTCTAAG
211686 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 A
211715 CATGTATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:214066 original size:2 final size:2
Alignment explanation
Indices: 214059--214084 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
214049 TTAATTTAAG
214059 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
214085 GATTTATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:214963 original size:2 final size:2
Alignment explanation
Indices: 214922--214946 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
214912 TGTGTGTGTG
214922 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 T
214947 TGCTAGGTGC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:215432 original size:26 final size:25
Alignment explanation
Indices: 215377--215432 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
215367 TTAAAATTTT
* **
215377 AAATAACAATTTTGAAATTTAAATT
1 AAATAACAATTTTGAAATTCAAACA
* *
215402 GAATAACTAATTTTTAAATTCAAACA
1 AAATAAC-AATTTTGAAATTCAAACA
215428 AAATA
1 AAATA
215433 TCTTATAGAC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.36
Consensus pattern (25 bp):
AAATAACAATTTTGAAATTCAAACA
Done.