Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003476.1 Hibiscus syriacus cultivar Beakdansim tig00007349_pilon, whole genome shotgun sequence
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: 95856
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:3894 original size:17 final size:16
Alignment explanation
Indices: 3872--3919 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
3862 ATTTATGATA
3872 TATTTTAAATATTTTAG
1 TATTTTAAAT-TTTTAG
*
3889 TATTTTTTAAATTTTTAT
1 TA--TTTTAAATTTTTAG
3907 TATTTTGAAATTT
1 TATTTT-AAATTT
3920 AAAATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 7 0.26
19 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
TATTTTAAATTTTTAG
Found at i:3895 original size:18 final size:18
Alignment explanation
Indices: 3874--3912 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
3864 TTATGATATA
3874 TTTTAAATATTTTAGTATT
1 TTTTAAAT-TTTTAGTATT
*
3893 TTTTAAATTTTTATTATT
1 TTTTAAATTTTTAGTATT
3911 TT
1 TT
3913 GAAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTAAATTTTTAGTATT
Found at i:4211 original size:2 final size:2
Alignment explanation
Indices: 4204--4241 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4194 TTTGTATAAA
4204 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
4242 GAAAAAGATA
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:4369 original size:2 final size:2
Alignment explanation
Indices: 4364--4397 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4354 ATTATGTACA
4364 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
4398 TTTAAGTTTT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4862 original size:31 final size:32
Alignment explanation
Indices: 4808--4869 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
4798 TATTAGAGTA
*
4808 AATTACGTATTTAGTACTCAAATTATTAATTT
1 AATTACGTATTTAATACTCAAATTATTAATTT
* * *
4840 AATT-CGTTTTTAATACTTAAATTTTTAATT
1 AATTACGTATTTAATACTCAAATTATTAATT
4870 ATTTCAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (32 bp):
AATTACGTATTTAATACTCAAATTATTAATTT
Found at i:5414 original size:30 final size:29
Alignment explanation
Indices: 5374--5433 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
5364 AGTTCGTCTT
* *
5374 TAAAAT-TTTAAAAGTTTGAGTTTACTCC
1 TAAAATATTTTAAAGTTCGAGTTTACTCC
5402 TAAAATATTTTAAAGTTCGAGTTTACTCC
1 TAAAATATTTTAAAGTTCGAGTTTACTCC
5431 TAA
1 TAA
5434 CATAAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (29 bp):
TAAAATATTTTAAAGTTCGAGTTTACTCC
Found at i:8213 original size:14 final size:16
Alignment explanation
Indices: 8184--8217 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
8174 TATCAGATGC
8184 TATTATTGATTTTTCT
1 TATTATTGATTTTTCT
8200 TATTATT-A-TTTTCT
1 TATTATTGATTTTTCT
8214 TATT
1 TATT
8218 CTTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 1 0.06
16 7 0.39
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (16 bp):
TATTATTGATTTTTCT
Found at i:10806 original size:27 final size:29
Alignment explanation
Indices: 10758--10812 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
10748 AAAATATTAA
*
10758 TTTTTTTAATATTTTTTAGTTGA-AATTC
1 TTTTTATAATATTTTTTAGTTGAGAATTC
*
10786 TTTTTATAATA-TTTTTGGTTGAGAATT
1 TTTTTATAATATTTTTTAGTTGAGAATT
10813 GAAAATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (29 bp):
TTTTTATAATATTTTTTAGTTGAGAATTC
Found at i:12428 original size:14 final size:14
Alignment explanation
Indices: 12392--12431 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
12382 TTCAATTAAT
*
12392 TTTATGTTCGTTCG
1 TTTATGTTCGTTCA
*
12406 TTTACGTTCGTTCA
1 TTTATGTTCGTTCA
*
12420 TTTGTGTTCGTT
1 TTTATGTTCGTT
12432 TATCATTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.07, C:0.15, G:0.20, T:0.57
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:27867 original size:31 final size:31
Alignment explanation
Indices: 27825--27902 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
27815 AACTTAACAC
* *
27825 ATTT-AGTACCTAAAGTATCAGTTTTGGTCT
1 ATTTAAGTACCTAAACTATCAGTTTTAGTCT
* *
27855 GTTTAAGTACCTAAACTATCAGTTTTAGTTT
1 ATTTAAGTACCTAAACTATCAGTTTTAGTCT
27886 ATTTAAGTACCTAAACT
1 ATTTAAGTACCTAAACT
27903 TTCAAATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 3 0.07
31 39 0.93
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (31 bp):
ATTTAAGTACCTAAACTATCAGTTTTAGTCT
Found at i:29028 original size:37 final size:37
Alignment explanation
Indices: 28952--29028 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
28942 TTTTTATATT
*
28952 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
28989 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
29026 TTT
1 TTT
29029 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:30118 original size:4 final size:4
Alignment explanation
Indices: 30109--30144 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
30099 ACGCAAGGAA
*
30109 TAAT TAAT TAGT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
30145 CACTACATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:33434 original size:38 final size:37
Alignment explanation
Indices: 33381--33468 Score: 108
Period size: 38 Copynumber: 2.4 Consensus size: 37
33371 TATATTTTAT
*
33381 TATTTTAAATA-ATTATTTTAATT-TTTATTAATAAA
1 TATTTTAAATACATTATTTTAATTGTTTATTAAAAAA
* *
33416 TTTGTTTCAAATACATTATTTTTATTGGTTTATTAAAAAA
1 TAT-TTT-AAATACATTATTTTAATT-GTTTATTAAAAAA
33456 TATTTTAAATACA
1 TATTTTAAATACA
33469 ACTAAGACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
35 2 0.05
36 3 0.07
37 5 0.11
38 18 0.41
39 3 0.07
40 13 0.30
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (37 bp):
TATTTTAAATACATTATTTTAATTGTTTATTAAAAAA
Found at i:38583 original size:4 final size:4
Alignment explanation
Indices: 38576--39064 Score: 978
Period size: 4 Copynumber: 122.2 Consensus size: 4
38566 TATATATATA
38576 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38624 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38672 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38720 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38768 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38816 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38864 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38912 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38960 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
39008 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
39056 TATG TATG T
1 TATG TATG T
39065 GTTGCTCCCA
Statistics
Matches: 485, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 485 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:41967 original size:29 final size:29
Alignment explanation
Indices: 41932--42045 Score: 228
Period size: 29 Copynumber: 3.9 Consensus size: 29
41922 GTATTGACCG
41932 TAGGTCGCCATGCACTCCGGGCGACCTTA
1 TAGGTCGCCATGCACTCCGGGCGACCTTA
41961 TAGGTCGCCATGCACTCCGGGCGACCTTA
1 TAGGTCGCCATGCACTCCGGGCGACCTTA
41990 TAGGTCGCCATGCACTCCGGGCGACCTTA
1 TAGGTCGCCATGCACTCCGGGCGACCTTA
42019 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
42046 ACCCTTGCTC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTA
Found at i:42120 original size:29 final size:29
Alignment explanation
Indices: 42085--42140 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
42075 TCCCAACACA
42085 TAGGTCGCCATGC-CTTCCGGGCGACCTTG
1 TAGGTCGCCATGCAC-TCCGGGCGACCTTG
42114 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
42141 ACCCTCGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.12, C:0.36, G:0.30, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:43957 original size:35 final size:35
Alignment explanation
Indices: 43911--43986 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
43901 AAAACAGTCC
* *
43911 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
43946 TCAATTTCATTCTCAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
43981 TCAATT
1 TCAATT
43987 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:44529 original size:130 final size:130
Alignment explanation
Indices: 44383--44630 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
44373 TATTTATATA
* ** *
44383 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
* *
44448 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
44513 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
* * *
44578 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
44631 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:44603 original size:23 final size:21
Alignment explanation
Indices: 44557--44603 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
44547 AATTAATCAT
44557 TTAACCAGGATCTGACATATG
1 TTAACCAGGATCTGACATATG
* *
44578 TTAACACATGATCATGATATATG
1 TTAAC-CAGGATC-TGACATATG
44601 TTA
1 TTA
44604 TTGGTGACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (21 bp):
TTAACCAGGATCTGACATATG
Found at i:44661 original size:130 final size:129
Alignment explanation
Indices: 44397--44661 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
44387 ATTTGGTCCT
* ** * *
44397 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
* *** * * **** *
44462 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
44527 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
* * * *
44592 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
44656 -A
128 CA
44657 AAATT
1 AAATT
44662 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:44989 original size:28 final size:27
Alignment explanation
Indices: 44958--45020 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
44948 AGTTGATACA
44958 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGATTT
** * *
44986 ATATATTTTTAAACTAAATTTAATATTT
1 ATAT-TTTAAAAAATAAATTTAAGATTT
45014 ATATTTT
1 ATATTTT
45021 TCATATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 22 0.73
29 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGATTT
Found at i:45121 original size:16 final size:18
Alignment explanation
Indices: 45100--45133 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
45090 ATTTCTTATT
45100 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
45116 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
45134 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:45881 original size:87 final size:86
Alignment explanation
Indices: 45717--45916 Score: 251
Period size: 87 Copynumber: 2.3 Consensus size: 86
45707 TAATAAGTCG
* * * *
45717 TAAACATTTAATTAAACCAAAAAT-AACGTTTTGATTCTATCAATACTTGAAATAACCCTATCCG
1 TAAACATTTAGTTATACAAAAAATAAACGTTTTGATTCTATCAATACTTGAAATAAACCTATCCG
45781 AAGTACACTACTAACAGATCA
66 AAGTACACTACTAACAGATCA
* * * * *
45802 TAAATATTTAGTTATACAAAAAATAAACGTTTTGGTTCTATCAATGCTTCGAAATAAATCTATCT
1 TAAACATTTAGTTATACAAAAAATAAACGTTTTGATTCTATCAATACTT-GAAATAAACCTATCC
* * *
45867 GAATTACTCTACTAATAGATCA
65 GAAGTACACTACTAACAGATCA
*
45889 TAAACA-TTAGGTTATCCAAAAAATAAAC
1 TAAACATTTA-GTTATACAAAAAATAAAC
45917 AATTCAGTAC
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
85 20 0.20
86 25 0.26
87 53 0.54
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (86 bp):
TAAACATTTAGTTATACAAAAAATAAACGTTTTGATTCTATCAATACTTGAAATAAACCTATCCG
AAGTACACTACTAACAGATCA
Found at i:56308 original size:2 final size:2
Alignment explanation
Indices: 56301--56337 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
56291 TGTCTAAAGA
* *
56301 AT AT AT AT GT GT 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
56338 GGGTTAGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:71870 original size:14 final size:14
Alignment explanation
Indices: 71833--71870 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
71823 AATAATGTAA
71833 AAATATTTTATTTT
1 AAATATTTTATTTT
*
71847 AAATAATTTATATTT
1 AAATATTTTAT-TTT
71862 AAA-ATTTTA
1 AAATATTTTA
71871 ATTAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATATTTTATTTT
Found at i:71893 original size:23 final size:23
Alignment explanation
Indices: 71844--71911 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
71834 AATATTTTAT
* * *
71844 TTTAAATAATTTATATTTAAAAT
1 TTTAATTAATTTATAATTAAAAG
* *
71867 TTTAATTAATTTATAATTATACG
1 TTTAATTAATTTATAATTAAAAG
*
71890 TTTAATT-ATTTAAAATTTAAAA
1 TTTAATTAATTTATAA-TTAAAA
71912 TTTTTATGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
22 7 0.19
23 29 0.81
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
TTTAATTAATTTATAATTAAAAG
Found at i:75002 original size:15 final size:15
Alignment explanation
Indices: 74982--75010 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
74972 TCGAGTATTC
74982 AAATAAAATATGAAA
1 AAATAAAATATGAAA
74997 AAATAAAATATGAA
1 AAATAAAATATGAA
75011 TGTTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (15 bp):
AAATAAAATATGAAA
Found at i:79610 original size:2 final size:2
Alignment explanation
Indices: 79603--79692 Score: 180
Period size: 2 Copynumber: 45.0 Consensus size: 2
79593 TAATAAAACA
79603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79687 AT AT AT
1 AT AT AT
79693 GTTTATGTTA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 88 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80281 original size:33 final size:33
Alignment explanation
Indices: 80244--80311 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
80234 AGATTTTGTG
80244 TTTCAAGAGAAACTGTCTCAATG-GAGACAAAAT
1 TTTCAAGAGAAACTGTCTCAA-GAGAGACAAAAT
* *
80277 TTTCAAGAGAAATTGTCTCGAGAGAGACAAAAT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
80310 TT
1 TT
80312 GTTTAAAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (33 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
Found at i:80390 original size:36 final size:36
Alignment explanation
Indices: 80338--80521 Score: 179
Period size: 36 Copynumber: 5.3 Consensus size: 36
80328 ATTAAAAGAT
* *
80338 TTTGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
80374 TTTGTTTTAAGGGAAACTGTTTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
** * * * *
80410 TTCATTTCAAGTGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
80438 TTATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
80475 ATTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
80511 ATTGTTTCAAG
1 TTTGTTTCAAG
80522 TTGGGTCAAT
Statistics
Matches: 120, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
28 2 0.02
29 14 0.12
30 3 0.03
31 1 0.01
32 1 0.01
33 1 0.01
34 1 0.01
35 3 0.03
36 93 0.77
37 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.30
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:80519 original size:101 final size:102
Alignment explanation
Indices: 80221--80522 Score: 332
Period size: 101 Copynumber: 3.0 Consensus size: 102
80211 TTTCATGAGA
* *
80221 AAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAATG-GAGAC-AAAA-T-TTTCA
1 AAAACAAATTAAAAGA-TTT-TGTTTCAAGAGAAACTGTCTCAA-GAGAGACAAAAATTGTTTCA
* * * * *
80282 AGAGAAATTGTCTCGAGAGAGACAAAATTTGTTTAAAG-G
63 AGGGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGTG
* * *
80321 AAAACAAATTAAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAATTTGTTTTAAGG
1 AAAACAAATTAAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGG
* *
80386 GAAACTGTTTCAAGAGAGAC-AAAATTCATTTCAAGTG
66 GAAACTGTCTCAAGAGAGACAAAAATT-GTTTCAAGTG
**** * * *
80423 -AAATGTTTTCAATG-TTTATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAG
1 AAAACAAATTAAAAGATTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAG
80486 GGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGT
65 GGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGT
80523 TGGGTCAATC
Statistics
Matches: 170, Mismatches: 24, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
97 1 0.01
98 27 0.16
99 6 0.04
100 23 0.14
101 106 0.62
102 7 0.04
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (102 bp):
AAAACAAATTAAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGG
GAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGTG
Found at i:81269 original size:217 final size:217
Alignment explanation
Indices: 80893--81474 Score: 864
Period size: 217 Copynumber: 2.7 Consensus size: 217
80883 GTATTGCTCC
* * * * *
80893 GAGTCCAATATACTCCG-TCGTGAAGTTGAAATTGGTTCTGGAACTGAGAAA-TTGCTTGTTGAT
1 GAGTCCAATATTCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAACTG-GAAAGTTGTTTGTTGAT
* * *
80956 AGTCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCTAATATCCTTCGCTGTG
64 AATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTG
*
81021 AAGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTATTGACAGTCAGCCGCCCCTCTGCT
129 AAGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTATTGACAGTCAGCCGCCCCTCCGCT
*
81086 GTGAAGTTGAGCTTGTGTTATCTT
194 GTGAAGTTGAGCTTGTGCTATCTT
*
81110 TAGTCCAATA-TCATTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTGTTTGTTGATA
1 GAGTCCAATATTC-TTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTGTTTGTTGATA
* *
81174 ATCAGCCGCCACTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCTAATATCCTTCGCTGTGA
65 ATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTGA
* *
81239 AGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTGTTGTCAGTCAGCCGCCCCTCCGCTG
130 AGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTATTGACAGTCAGCCGCCCCTCCGCTG
*
81304 TGAAGTTGAGCTTGTGCTGTCTT
195 TGAAGTTGAGCTTGTGCTATCTT
* * * *
81327 GAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTTAAACTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTGTTTGTTGATAA
* * * * * * *
81392 CCAGTCGCCCCTTCGTTGTGAAGATGAGCTTGTGTTGTATTGAGTCCAGTATCCTTCGCTGTGAA
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTGAA
*
81457 GTTGAAATTGGCTCTGAA
131 GTTGAAATTGACTCTGAA
81475 ACTGGGAAGC
Statistics
Matches: 330, Mismatches: 31, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
216 5 0.02
217 322 0.98
218 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (217 bp):
GAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTGTTTGTTGATAA
TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTGAA
GTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTATTGACAGTCAGCCGCCCCTCCGCTGT
GAAGTTGAGCTTGTGCTATCTT
Found at i:81480 original size:106 final size:106
Alignment explanation
Indices: 80893--81483 Score: 720
Period size: 106 Copynumber: 5.5 Consensus size: 106
80883 GTATTGCTCC
* * * * * * *
80893 GAGTCCAATATACTCCG-TCGTGAAGTTGAAATTGGTTCTGGAACTGAGAAATTGCTTGTTGATA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAACTGAGAAGTTGTTTGTTGACA
* *
80957 GTCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
65 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* * *
80999 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTATT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTG-AGAAGTTGTTTGTT
*
81064 GACAGTCAGCCGCCCC-TCTGCTGTGAAGTTGAGCTTGTGTTATCTT
61 GACAGTCAGCCGCCCCTTC-GCTGTGAAGTTGAGCTTGTGTTGTCTT
* * *
81110 TAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAACTG-GAAAGTTGTTTGTTGATA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAG-AAGTTGTTTGTTGACA
* * *
81174 ATCAGCCGCCACTTCGCTGTGAAGTTGAGCTTGTGTTGTCTC
65 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* *
81216 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTG-AGAAGTTGTTTGTT
* * *
81281 GTCAGTCAGCCGCCCCTCCGCTGTGAAGTTGAGCTTGTGCTGTCTT
61 GACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* * * * *
81327 GAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTTAAACTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAGTTGTTTGTTGACAG
* * * * *
81392 CCAGTCGCCCCTTCGTTGTGAAGATGAGCTTGTGTTGTATT
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* *
81433 GAGTCCAGTATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAG
81484 CCCCTTCGTC
Statistics
Matches: 417, Mismatches: 53, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
105 1 0.00
106 211 0.51
107 18 0.04
110 17 0.04
111 169 0.41
112 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAGTTGTTTGTTGACAG
TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
Found at i:82972 original size:96 final size:95
Alignment explanation
Indices: 82798--82977 Score: 288
Period size: 96 Copynumber: 1.9 Consensus size: 95
82788 ATATGTAAAT
* * *
82798 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTGCTTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCTCTAGAGGG
*
82863 ACAGCTCAAGCTTTATTGTGTAGTATATTC
66 ACAACTCAAGCTTTATTGTGTAGTATATTC
* * *
82893 ACCTTTATCAGGCTAGCTGAATATTATCTATAAAGCCGGGGCATTTTAACCAATTGCTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGC-GTTTAACCAATTGCTCTAGAGG
82958 GACAACTCAAGCTTTATTGT
65 GACAACTCAAGCTTTATTGT
82978 ATATAAATAA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 38 0.49
96 39 0.51
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (95 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCTCTAGAGGG
ACAACTCAAGCTTTATTGTGTAGTATATTC
Found at i:87492 original size:45 final size:43
Alignment explanation
Indices: 87428--87511 Score: 132
Period size: 45 Copynumber: 1.9 Consensus size: 43
87418 TCTCCGGGGC
*
87428 TCTTCACTTTCCAAACTGTAGCTTCGAAAAAAATAGTGACCGTCG
1 TCTTCACTTTCCAAACTGTACCTTC--AAAAAATAGTGACCGTCG
*
87473 TCTTCACTTTCCAAACTGTACCTTCAAAAAATGGTGACC
1 TCTTCACTTTCCAAACTGTACCTTCAAAAAATAGTGACC
87512 AACGGGCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 13 0.35
45 24 0.65
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (43 bp):
TCTTCACTTTCCAAACTGTACCTTCAAAAAATAGTGACCGTCG
Found at i:88088 original size:2 final size:2
Alignment explanation
Indices: 88081--88124 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
88071 AAATAAATAA
*
88081 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88121 AT AT
1 AT AT
88125 GTTATGTTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89006 original size:33 final size:33
Alignment explanation
Indices: 88964--89030 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
88954 AGTTTACAAT
* *
88964 AATTGAAATACTTAAATACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
*
88997 AATTCAAATACTTAAAAACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
89030 A
1 A
89031 TTGAAACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:89052 original size:21 final size:21
Alignment explanation
Indices: 89026--89066 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
89016 TTCCAAGTTT
89026 GATAATTGAAACAAAGTTTAC
1 GATAATTGAAACAAAGTTTAC
89047 GATAATTGAAACAAAGTTTA
1 GATAATTGAAACAAAGTTTA
89067 AAATTAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (21 bp):
GATAATTGAAACAAAGTTTAC
Found at i:91285 original size:141 final size:137
Alignment explanation
Indices: 91108--91382 Score: 473
Period size: 141 Copynumber: 2.0 Consensus size: 137
91098 AATCCCCCTA
91108 ATTAACGGCTAGTTTTTAAAACCCAAGACGGATTTTTTTCGGGTGAAAACCATTTTTTTATCCGA
1 ATTAACGGCTAGTTTTTAAAACCCAAGACGGATTTTTTTCGGGTGAAAACCATTTTTTTATCCGA
*
91173 TTTTTTCAAACCTGTTTTTAATCCGGTAAAAAAAAACCGATTGTTCATTTTTTTCCCAAACCGGT
66 TTTTTTCAAACC--TTTTTAATCCGGT---AAAAAACCGATTGTTCATTTTTTCCCCAAACCGGT
91238 TACACTATCTAT
126 TACACTATCTAT
91250 ATTAACGGCTAG-TTTTAAAACCCAA-ACTGGATTTTTTTCGGGTGAAAACCATTTTTTTATCCG
1 ATTAACGGCTAGTTTTTAAAACCCAAGAC-GGATTTTTTTCGGGTGAAAACCATTTTTTTATCCG
91313 ATTTTTTCAAACCTTTTTAATCCGGTAAAAAACCGATTGTTCATTTTTTCCCCAAACCGGTTACA
65 ATTTTTTCAAACCTTTTTAATCCGGTAAAAAACCGATTGTTCATTTTTTCCCCAAACCGGTTACA
91378 CTATC
130 CTATC
91383 GGTTTTTTAA
Statistics
Matches: 131, Mismatches: 1, Indels: 8
0.94 0.01 0.06
Matches are distributed among these distances:
136 43 0.33
139 13 0.10
140 2 0.02
141 61 0.47
142 12 0.09
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (137 bp):
ATTAACGGCTAGTTTTTAAAACCCAAGACGGATTTTTTTCGGGTGAAAACCATTTTTTTATCCGA
TTTTTTCAAACCTTTTTAATCCGGTAAAAAACCGATTGTTCATTTTTTCCCCAAACCGGTTACAC
TATCTAT
Found at i:92123 original size:37 final size:36
Alignment explanation
Indices: 92081--92189 Score: 166
Period size: 35 Copynumber: 3.0 Consensus size: 36
92071 ATATTTCAAC
* *
92081 AAACATCTACCAAACTTTGAAAAACCATTTTTCAAAT
1 AAACATTTACCAAACTTTG-AAAACCATTTTTCAAAG
92118 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
*
92153 AAACATTTACCAAACTTTGAAAGCCATTTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTTCAAAG
92190 TTGGTTGCCA
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
35 33 0.49
36 7 0.10
37 27 0.40
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (36 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
Found at i:92145 original size:21 final size:21
Alignment explanation
Indices: 92121--92181 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
92111 TTCAAATAAA
92121 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
92142 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
*
92156 CATTTACCAAACTTTGAAAGC
1 CATTTACCAAACTTTGAAAAC
92177 CATTT
1 CATTT
92182 TTTCAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 1 0.03
19 1 0.03
20 6 0.20
21 10 0.33
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:95448 original size:15 final size:15
Alignment explanation
Indices: 95428--95459 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
95418 AAAATCTTTC
*
95428 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTAGAT
95443 TTTCCCGTTCTAGAT
1 TTTCCCGTTCTAGAT
95458 TT
1 TT
95460 CGATCTGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.25, G:0.12, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTAGAT
Done.