Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008644.1 Hibiscus syriacus cultivar Beakdansim tig00111620_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: 139951
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:9431 original size:21 final size:21
Alignment explanation
Indices: 9405--9461 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
9395 AGGGTGTCAA
*
9405 AGTGCATCCATGCACCCCTGT
1 AGTGCATCCATGCACCCCTGC
*
9426 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCTGC
9447 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
9462 TTGCACTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:9529 original size:20 final size:20
Alignment explanation
Indices: 9504--9597 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
9494 AATGCAATTA
9504 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTTCT
9524 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTTCT
**
9544 GTGCATCGATGCATCAAGGT-T
1 GTGCATCGATGCATC--CTTCT
* *
9565 GTGCATCCATGCATCCTGCT
1 GTGCATCGATGCATCCTTCT
*
9585 GTGCATCCATGCA
1 GTGCATCGATGCA
9598 CGAAGGCTGC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
20 49 0.75
21 15 0.23
22 1 0.02
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (20 bp):
GTGCATCGATGCATCCTTCT
Found at i:10904 original size:19 final size:20
Alignment explanation
Indices: 10880--10927 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
10870 AATGATTTTC
*
10880 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
10899 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
10919 TTTTGAAAA
1 TTTTGAAAA
10928 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:11729 original size:26 final size:26
Alignment explanation
Indices: 11700--11771 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
11690 ATATGCACTT
*
11700 AATTTTAACAAATGATATTGATATCA
1 AATTTTAACAAATGGTATTGATATCA
11726 AATTTTAACAAATGGTATTGATATCA
1 AATTTTAACAAATGGTATTGATATCA
* *
11752 AATTTCAACAATTGGTATTG
1 AATTTTAACAAATGGTATTG
11772 CATAAAGTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (26 bp):
AATTTTAACAAATGGTATTGATATCA
Found at i:12123 original size:21 final size:21
Alignment explanation
Indices: 12097--12136 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12087 AAACAATTGG
*
12097 TAACAATTGATATCATTTTGT
1 TAACAATTGACATCATTTTGT
*
12118 TAACAATTGACATCTTTTT
1 TAACAATTGACATCATTTT
12137 CATTAAACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (21 bp):
TAACAATTGACATCATTTTGT
Found at i:12384 original size:21 final size:21
Alignment explanation
Indices: 12358--12436 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
12348 AGGGTATCAA
12358 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* *
12379 AGTGCATCCATGCATCCCTGT
1 AGTGCATCCATGCACCCCTGC
** *
12400 AGTGCATCCATGCACCTGTAC
1 AGTGCATCCATGCACCCCTGC
12421 TAGTGCATCCATGCAC
1 -AGTGCATCCATGCAC
12437 TCAAACACCG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 35 0.70
22 15 0.30
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:12483 original size:21 final size:21
Alignment explanation
Indices: 12457--12531 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
12447 AATGCAATTA
12457 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATCAAGGCT
12478 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATCAAGGCT
* * **
12499 TTGCATCAATGCATC-CTGCT
1 GTGCATCGATGCATCAAGGCT
*
12519 GTGCATCCATGCA
1 GTGCATCGATGCA
12532 CGAAGACTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 14 0.29
21 34 0.71
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (21 bp):
GTGCATCGATGCATCAAGGCT
Found at i:12640 original size:21 final size:21
Alignment explanation
Indices: 12585--12640 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
12575 ATGAAGAGCT
* *
12585 ATCGATACACCATAATAGTGC
1 ATCGATGCACCATGATAGTGC
*
12606 ACCGATGCACCATGATAGTGC
1 ATCGATGCACCATGATAGTGC
12627 ATCGATGCACCATG
1 ATCGATGCACCATG
12641 TTATGGGCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGATGCACCATGATAGTGC
Found at i:13727 original size:18 final size:19
Alignment explanation
Indices: 13691--13749 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
13681 TGATTTTTTA
13691 ATTTTATTAATAATTAATT
1 ATTTTATTAATAATTAATT
*
13710 ATTTTATTAAT-GTTAATT
1 ATTTTATTAATAATTAATT
** *
13728 AAGTCATTAATAATTAA-T
1 ATTTTATTAATAATTAATT
13746 ATTT
1 ATTT
13750 AAGACGGTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (19 bp):
ATTTTATTAATAATTAATT
Found at i:13850 original size:21 final size:20
Alignment explanation
Indices: 13812--13850 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13802 GTTACTTATA
**
13812 TATTTTATCAATTTAATTTT
1 TATTTTATCAATAAAATTTT
13832 TATTTTATTCAATAAAATT
1 TATTTTA-TCAATAAAATT
13851 AATCTTCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTTATCAATAAAATTTT
Found at i:13900 original size:16 final size:16
Alignment explanation
Indices: 13871--13910 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
13861 TCAAATTATG
13871 ACACGTGTCACTAGTA
1 ACACGTGTCACTAGTA
* *
13887 ACAGGTGTCGCTAGTA
1 ACACGTGTCACTAGTA
13903 ACACGTGT
1 ACACGTGT
13911 GAAGGAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (16 bp):
ACACGTGTCACTAGTA
Found at i:13990 original size:29 final size:29
Alignment explanation
Indices: 13956--14024 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
13946 AAACATACAC
13956 TCAATTATTGATCCAAAATCATTATATGA
1 TCAATTATTGATCCAAAATCATTATATGA
13985 TCAATTATTGATCCAAAATCATTATATGA
1 TCAATTATTGATCCAAAATCATTATATGA
*
14014 TCAATAATTGA
1 TCAATTATTGA
14025 CTCATATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (29 bp):
TCAATTATTGATCCAAAATCATTATATGA
Found at i:14294 original size:20 final size:18
Alignment explanation
Indices: 14251--14295 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14241 ATTTAAATTC
* *
14251 ATATTTTAACCTTAAAAT
1 ATATTTTAACCTAAAAAG
14269 ATATTTTAACTCTAAATAAG
1 ATATTTTAAC-CTAAA-AAG
14289 ATATTTT
1 ATATTTT
14296 GTTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 4 0.17
20 9 0.39
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATTTTAACCTAAAAAG
Found at i:17137 original size:2 final size:2
Alignment explanation
Indices: 17130--17157 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17120 GAGCACTTTA
17130 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
17158 TGGTTGTCCT
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:26953 original size:29 final size:29
Alignment explanation
Indices: 26915--27077 Score: 238
Period size: 29 Copynumber: 5.7 Consensus size: 29
26905 CACAGTCAAA
**
26915 AATTACCAAAATATCATTGTTTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAAT
**
26944 AATTACCAAAATATCATTGTTTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAAT
*
26973 AATTACCAAAATATCACCGATTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAAT
*
27002 AATTACCAAAATATCACCGATTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAAT
*
27031 AAATACCAAAATATCACCGTTTTAAAAA-
1 AATTACCAAAATATCACCGTTTTAAAAAT
* *
27059 AAATCCCAAAATATCACCG
1 AATTACCAAAATATCACCG
27078 GGTCGAGTCA
Statistics
Matches: 128, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
28 18 0.14
29 110 0.86
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (29 bp):
AATTACCAAAATATCACCGTTTTAAAAAT
Found at i:33284 original size:29 final size:29
Alignment explanation
Indices: 33245--33432 Score: 240
Period size: 29 Copynumber: 6.6 Consensus size: 29
33235 CACAGTCAAA
* *
33245 AATTACAAAAATATCACTTTTTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
* *
33274 AATTATCAAAATATCATTGTTTTAAAAA-
1 AATTACCAAAATATCACTGTTTTAAAAAT
33302 AATTACCAAAATATCACTGTTTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
* **
33331 AATTACAAAAATATCACTAATTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
* *
33360 AATTACCAAAATATCACCGATTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
* *
33389 ATTTACCAAAATATCACCGTTTTAAAAA-
1 AATTACCAAAATATCACTGTTTTAAAAAT
33417 AA-T-CTCAAAATATCAC
1 AATTAC-CAAAATATCAC
33433 CGGGTTGGAT
Statistics
Matches: 142, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 12 0.08
28 27 0.19
29 102 0.72
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (29 bp):
AATTACCAAAATATCACTGTTTTAAAAAT
Found at i:33400 original size:58 final size:57
Alignment explanation
Indices: 33242--33434 Score: 246
Period size: 57 Copynumber: 3.4 Consensus size: 57
33232 GTCCACAGTC
* ** * *
33242 AAAAATTACAAAAATATCACTTTTTTAAAAATAATTATCAAAATATCATTGTTTTAA
1 AAAAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACTGTTTTAA
* * **
33299 AAAAATTACCAAAATATCACTGTTTTAAAAATAATTACAAAAATATCACTAATTTAA
1 AAAAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACTGTTTTAA
* * *
33356 AAATAATTACCAAAATATCACCGATTTAAAAATATTTACCAAAATATCACCGTTTTAA
1 AAA-AATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACTGTTTTAA
33414 AAAAA-T-CTCAAAATATCACCG
1 AAAAATTAC-CAAAATATCACCG
33435 GGTTGGATCG
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
55 1 0.01
56 14 0.12
57 55 0.46
58 50 0.42
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (57 bp):
AAAAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACTGTTTTAA
Found at i:33426 original size:86 final size:85
Alignment explanation
Indices: 33242--33432 Score: 269
Period size: 86 Copynumber: 2.2 Consensus size: 85
33232 GTCCACAGTC
** * ** *
33242 AAAAATTACAAAAATATCACTTTTTTAAAAATAATTATCAAAATATCATTGTTTTAAAAAAATTA
1 AAAAATTACAAAAATATCACTAATTTAAAAATAATTACCAAAATATCACCGATTTAAAAAAATTA
*
33307 CCAAAATATCACTGTTTTAA
66 CCAAAATATCACCGTTTTAA
*
33327 AAATAATTACAAAAATATCACTAATTTAAAAATAATTACCAAAATATCACCGATTTAAAAATATT
1 AAA-AATTACAAAAATATCACTAATTTAAAAATAATTACCAAAATATCACCGATTTAAAAA-AAT
33392 TACCAAAATATCACCGTTTTAA
64 TACCAAAATATCACCGTTTTAA
33414 AAAAATCT-C-AAAATATCAC
1 AAAAAT-TACAAAAATATCAC
33433 CGGGTTGGAT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
85 13 0.14
86 55 0.58
87 27 0.28
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (85 bp):
AAAAATTACAAAAATATCACTAATTTAAAAATAATTACCAAAATATCACCGATTTAAAAAAATTA
CCAAAATATCACCGTTTTAA
Found at i:45162 original size:21 final size:21
Alignment explanation
Indices: 45138--45188 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
45128 ATAAATAAAT
45138 GAAACA-AACAAAAGGAGAATA
1 GAAACATAA-AAAAGGAGAATA
* *
45159 GAAAGATAAAAATGGAGAATA
1 GAAACATAAAAAAGGAGAATA
45180 -AAA-ATAAAA
1 GAAACATAAAA
45189 GAAATTAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 6 0.22
20 3 0.11
21 16 0.59
22 2 0.07
ACGTcount: A:0.69, C:0.04, G:0.18, T:0.10
Consensus pattern (21 bp):
GAAACATAAAAAAGGAGAATA
Found at i:45186 original size:19 final size:20
Alignment explanation
Indices: 45147--45188 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
45137 TGAAACAAAC
45147 AAAAGGAGAATAGAAAGATA
1 AAAAGGAGAATAGAAAGATA
45167 AAAATGGAGAATA-AAA-ATA
1 AAAA-GGAGAATAGAAAGATA
45186 AAA
1 AAA
45189 GAAATTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (20 bp):
AAAAGGAGAATAGAAAGATA
Found at i:46560 original size:21 final size:21
Alignment explanation
Indices: 46511--46560 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
46501 GTACCATTTA
* *
46511 AATAATAAAATTAGTAATTAT
1 AATAATATAATTAGTAAATAT
46532 -ATATATATAATT-GTATAATAT
1 AATA-ATATAATTAGTA-AATAT
46553 AATAATAT
1 AATAATAT
46561 TAATACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
AATAATATAATTAGTAAATAT
Found at i:47243 original size:107 final size:105
Alignment explanation
Indices: 47021--47243 Score: 302
Period size: 105 Copynumber: 2.1 Consensus size: 105
47011 CCAATGCAAG
* *
47021 TTGCGTTGTTTCGAGGCCAATATCCTTCGTTGTGAACTTGAAATTGACTCTGAAACTGGAAAGCG
1 TTGCGCTGTCTCGAGGCCAATATCCTTCGTTGTGAACTTGAAATTGACTCTGAAACTGGAAAGCG
*
47086 TTTGTTGACAACCAGTGGCCCCTTCGTTGTGAAGTTGAAC
66 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAAC
* * * * * *
47126 TTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGGAAGT
1 TTGCGCTGTCTCGAGGCCAATATCCTTCGTTGTGAACTTGAAATTGACTCTGAAACT-GGAAAG-
** **
47191 TTTTTGTTGACAGTCAGCGGCCCCTTCGTTGTGAAGTTGAAC
64 CGTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAAC
*
47233 TTGTGCTGTCT
1 TTGCGCTGTCT
47244 TAAACTGGGA
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
105 52 0.50
106 5 0.05
107 46 0.45
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (105 bp):
TTGCGCTGTCTCGAGGCCAATATCCTTCGTTGTGAACTTGAAATTGACTCTGAAACTGGAAAGCG
TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAAC
Found at i:47378 original size:64 final size:64
Alignment explanation
Indices: 47273--47560 Score: 486
Period size: 64 Copynumber: 4.4 Consensus size: 64
47263 TGACAACCAG
*
47273 TCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAATTTTGTTGACAACCAGCGGCTCCT
1 TCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAATTTTGTTGACAACCAGCGGCCCCT
* * * *
47337 TCGTTGTGAAGTTGAACTTGTGTTGTCTGATACTGGAAAATTTTTTTTGTCGACAACCAGTGGCC
1 TCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAA----TTTTGTTGACAACCAGCGGCC
47402 CCT
62 CCT
47405 TCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAATTTTGTTGACAACCAGCGGCCCCT
1 TCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAATTTTGTTGACAACCAGCGGCCCCT
*
47469 TCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAATTTTGTTGACAACCAGCGGCCCCT
1 TCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAATTTTGTTGACAACCAGCGGCCCCT
47533 TCGTTGTGAAGTTGAACTTGTGTTGTCT
1 TCGTTGTGAAGTTGAACTTGTGTTGTCT
47561 TGAGTGGCAC
Statistics
Matches: 210, Mismatches: 10, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
64 151 0.72
68 59 0.28
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (64 bp):
TCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAATTTTGTTGACAACCAGCGGCCCCT
Found at i:47436 original size:132 final size:128
Alignment explanation
Indices: 47192--47560 Score: 565
Period size: 132 Copynumber: 2.9 Consensus size: 128
47182 TGGGGAAGTT
** * *
47192 TTTTGTTGACAGTCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAAT
1 TTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAAT
47257 TTTTGTTGACAACCA--G-----TCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAA
66 TTTTGTTGACAACCAGGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAA
* * *
47313 TTTTGTTGACAACCAGCGGCTCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGATACTGGAAAAT
1 TTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAA-
*
47378 TTTTTTTGTCGACAACCAGTGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGA
65 --TTTTTGTTGACAACCAG-GGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGA
47443 AA
127 AA
47445 TTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAA-
1 TTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAAT
47509 TTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 TTTTGTTGACAACCAG-GGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
47561 TGAGTGGCAC
Statistics
Matches: 224, Mismatches: 13, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
121 57 0.25
124 15 0.07
127 1 0.00
128 50 0.22
132 101 0.45
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (128 bp):
TTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAAT
TTTTGTTGACAACCAGGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAA
Found at i:47519 original size:196 final size:189
Alignment explanation
Indices: 47190--47560 Score: 582
Period size: 196 Copynumber: 1.9 Consensus size: 189
47180 ATTGGGGAAG
* ** *
47190 TTTTTTGTTGACAGTCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAA
1 TTTTTTGTCGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTGAAACTGGGAA
*
47255 ATTTTTGTTGACAACCAGTCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAATTTTGTT
66 ATTTTTGTTGACAACCAGTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAATTTTGTT
*
47320 GACAACCAGCGGCTCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGATACTGGAAAATT
131 GACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGATACTGGAAAATT
* * *
47379 TTTTTTGTCGACAACCAGTGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAA
1 TTTTTTGTCGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTGAAACTGGGAA
47444 A-TTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAA
66 ATTTTTGTTGACAACCA---G-----TCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAA
47508 ATTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
123 ATTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
47561 TGAGTGGCAC
Statistics
Matches: 165, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
188 15 0.09
189 59 0.36
191 1 0.01
196 90 0.55
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (189 bp):
TTTTTTGTCGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTGAAACTGGGAA
ATTTTTGTTGACAACCAGTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAATTTTGTT
GACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGATACTGGAAAATT
Found at i:48622 original size:15 final size:15
Alignment explanation
Indices: 48595--48631 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
48585 ACCCACCTTG
48595 TTTTTTC-TTTTCT-
1 TTTTTTCTTTTTCTC
48608 TTTTGTTCTTTTTCTC
1 TTTT-TTCTTTTTCTC
48624 TTTTTTCT
1 TTTTTTCT
48632 ATTTAGGGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.19
14 3 0.14
15 10 0.48
16 4 0.19
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTTTCTTTTTCTC
Found at i:55833 original size:9 final size:9
Alignment explanation
Indices: 55821--55853 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
55811 AAATGCAAAA
55821 TATGCAATG
1 TATGCAATG
55830 TATGCAATG
1 TATGCAATG
55839 TATG--ATG
1 TATGCAATG
55846 TATGCAAT
1 TATGCAAT
55854 TTGGAGGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (9 bp):
TATGCAATG
Found at i:59177 original size:18 final size:19
Alignment explanation
Indices: 59137--59178 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
59127 TGAAACAAAC
59137 AAAAGGAGAATAGAAAGAT
1 AAAAGGAGAATAGAAAGAT
59156 AAAATGGAGAATA-AAA-AT
1 AAAA-GGAGAATAGAAAGAT
59174 AAAAG
1 AAAAG
59179 AAATTAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.05
18 6 0.27
19 7 0.32
20 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (19 bp):
AAAAGGAGAATAGAAAGAT
Found at i:60569 original size:21 final size:21
Alignment explanation
Indices: 60520--60569 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
60510 GTACCATTTA
* *
60520 AATAATAAAATTAGTAATTAT
1 AATAATATAATTAGTAAATAT
60541 -ATATATATAATT-GTATAATAT
1 AATA-ATATAATTAGTA-AATAT
60562 AATAATAT
1 AATAATAT
60570 TAATACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
AATAATATAATTAGTAAATAT
Found at i:65701 original size:32 final size:32
Alignment explanation
Indices: 65656--65725 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
65646 CATCTAACTA
65656 TTTT-TTAAAAAAAATCATTGCCAAACTTATT
1 TTTTGTTAAAAAAAATCATTGCCAAACTTATT
65687 TTTTGTTAAAAAAAATCATTGCCAAACTTATT
1 TTTTGTTAAAAAAAATCATTGCCAAACTTATT
65719 TTTTGTT
1 TTTTGTT
65726 TTGTTTTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 34 0.89
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (32 bp):
TTTTGTTAAAAAAAATCATTGCCAAACTTATT
Found at i:69161 original size:43 final size:41
Alignment explanation
Indices: 69109--69195 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
69099 AACAATACAT
69109 TACGAGATTTTAGCGGCGTTTACATGAAAAAACACCACTAATG
1 TACGAGATTTT-GCGGCGTTTACAT-AAAAAACACCACTAATG
* * ** * *
69152 TACGTGATTTTGTGGCGTTTTTATAACAAACACCACTATTG
1 TACGAGATTTTGCGGCGTTTACATAAAAAACACCACTAATG
69193 TAC
1 TAC
69196 AAGTCTATAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 18 0.47
42 10 0.26
43 10 0.26
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (41 bp):
TACGAGATTTTGCGGCGTTTACATAAAAAACACCACTAATG
Found at i:69207 original size:84 final size:84
Alignment explanation
Indices: 68959--69212 Score: 218
Period size: 84 Copynumber: 3.0 Consensus size: 84
68949 TCTTTTGCGA
* * * *
68959 CGTTTACATGAAAAAATGCCACTAATGTACGTGATTCTACGGCGTTTTTATAACAAACGCCGCTA
1 CGTTTACATGAAAAAACGCCACTAATGTACGTGATTTTACGGCGTTTTTATAACAAACACCACTA
*
69024 TCGTACAAGTCTATAGCGG
66 TTGTACAAGTCTATAGCGG
* ** * * * *
69043 CGTTT--TTCCAAAAGCGCCAGTAATG--CATGAGTTTATAACGGCGTTTTTA-ATA-AAACAAC
1 CGTTTACATGAAAAAACGCCACTAATGTACGTGA-TTT-T-ACGGCGTTTTTATA-ACAAACACC
* * * *
69102 AATACAT-TACGAGAT-TTTAGCGG
62 ACTA-TTGTACAAG-TCTATAGCGG
* **
69125 CGTTTACATGAAAAAACACCACTAATGTACGTGATTTTGTGGCGTTTTTATAACAAACACCACTA
1 CGTTTACATGAAAAAACGCCACTAATGTACGTGATTTTACGGCGTTTTTATAACAAACACCACTA
*
69190 TTGTACAAGTCTATAGCGA
66 TTGTACAAGTCTATAGCGG
69209 CGTT
1 CGTT
69213 CCTCCAAAAA
Statistics
Matches: 125, Mismatches: 31, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
80 4 0.03
81 2 0.02
82 40 0.32
83 27 0.22
84 45 0.36
85 3 0.02
86 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (84 bp):
CGTTTACATGAAAAAACGCCACTAATGTACGTGATTTTACGGCGTTTTTATAACAAACACCACTA
TTGTACAAGTCTATAGCGG
Found at i:69233 original size:166 final size:166
Alignment explanation
Indices: 68951--69295 Score: 487
Period size: 166 Copynumber: 2.1 Consensus size: 166
68941 ATAATTATTC
* **
68951 TTTT-GCGACGTTTACATGAAAAAATGCCACTAATGTACGTGATTCTACGGCGTTTTTATAACAA
1 TTTTAGCGGCGTTTACATGAAAAAACACCACTAATGTACGTGATTCTACGGCGTTTTTATAACAA
* * * ** *
69015 ACGCCGCTATCGTACAAGTCTATAGCGGCGTTTTTCCAAAAGCGCCAGTAATGCATGAGTTTATA
66 ACACCACTATCGTACAAGTCTATAGCGACGTTCCTCCAAAAACGCCAGTAATG-ATGAGTTTATA
* *
69080 ACGGCGTTTTTAAT-AAAACAACAATACATTACGAGA
130 ACGGCATTTTTAATAAAAACAACAATACAGTACGAGA
* **
69116 TTTTAGCGGCGTTTACATGAAAAAACACCACTAATGTACGTGATTTTGTGGCGTTTTTATAACAA
1 TTTTAGCGGCGTTTACATGAAAAAACACCACTAATGTACGTGATTCTACGGCGTTTTTATAACAA
* *
69181 ACACCACTATTGTACAAGTCTATAGCGACGTTCCTCCAAAAACGCCAGTAATGATGAGTTTATAG
66 ACACCACTATCGTACAAGTCTATAGCGACGTTCCTCCAAAAACGCCAGTAATGATGAGTTTATAA
** * *
69246 CGGCATTTTTAATAAAAACGCCAGTACAGTACGATA
131 CGGCATTTTTAATAAAAACAACAATACAGTACGAGA
69282 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
69296 TTACACAAAC
Statistics
Matches: 158, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
165 27 0.17
166 131 0.83
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (166 bp):
TTTTAGCGGCGTTTACATGAAAAAACACCACTAATGTACGTGATTCTACGGCGTTTTTATAACAA
ACACCACTATCGTACAAGTCTATAGCGACGTTCCTCCAAAAACGCCAGTAATGATGAGTTTATAA
CGGCATTTTTAATAAAAACAACAATACAGTACGAGA
Found at i:69255 original size:82 final size:82
Alignment explanation
Indices: 68998--69264 Score: 206
Period size: 82 Copynumber: 3.2 Consensus size: 82
68988 CGTGATTCTA
* * * ** *
68998 CGGCGTTTTTATAACAAACGCCGCTATCGTACAAGTCTATAGCGGCGTTTTTCCAAAAGCGCCAG
1 CGGCGTTTTTATAA-AAACACCACTATTGTACAAGTCTATAGCGGCGTTCATCCAAAAACGCCAG
*
69063 TAATGCATGAGTTTATAA
65 TAATGCATGAGTTTATAG
* * * * * ** *
69081 CGGCGTTTTTA-ATAAAACAACAATACAT-TACGAGAT-TTTAGCGGCGTTTACATGAAAAAACA
1 CGGCGTTTTTATA-AAAACACCACTA-TTGTACAAG-TCTATAGCGGCG-TT-CATCCAAAAACG
* *
69143 CCACTAATGTACGTGA-TTT-T-G
61 CCAGTAATG--CATGAGTTTATAG
* * *
69164 TGGCGTTTTTATAACAAACACCACTATTGTACAAGTCTATAGCGACGTTCCTCCAAAAACGCCAG
1 CGGCGTTTTTATAA-AAACACCACTATTGTACAAGTCTATAGCGGCGTTCATCCAAAAACGCCAG
69229 TAATG-ATGAGTTTATAG
65 TAATGCATGAGTTTATAG
*
69246 CGGCATTTTTAATAAAAAC
1 CGGCGTTTTT-ATAAAAAC
69265 GCCAGTACAG
Statistics
Matches: 137, Mismatches: 32, Indels: 31
0.69 0.16 0.16
Matches are distributed among these distances:
79 3 0.02
80 3 0.02
81 1 0.01
82 51 0.37
83 34 0.25
84 38 0.28
85 3 0.02
86 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (82 bp):
CGGCGTTTTTATAAAAACACCACTATTGTACAAGTCTATAGCGGCGTTCATCCAAAAACGCCAGT
AATGCATGAGTTTATAG
Found at i:69298 original size:42 final size:41
Alignment explanation
Indices: 69217--69353 Score: 127
Period size: 41 Copynumber: 3.3 Consensus size: 41
69207 GACGTTCCTC
* * * *
69217 CAAAAACGCCAGTAATG-ATGAGTTTATAGCGGCATTTTTAA
1 CAAAAACGCCACTAAAGTACGAGTTTTTAGCGGCATTTTT-A
* * * *
69258 TAAAAACGCCAGTACAGTACGA-TATTTTAGCGGCGTTTTTA
1 CAAAAACGCCACTAAAGTACGAGT-TTTTAGCGGCATTTTTA
* * *
69299 CACAAACGCCACTAAAGTACGAGTTTTTAGTGACATTTTT-
1 CAAAAACGCCACTAAAGTACGAGTTTTTAGCGGCATTTTTA
69339 CAATAAACGCCACTA
1 CAA-AAACGCCACTA
69354 TATATTTGGA
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.03
41 58 0.74
42 18 0.23
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (41 bp):
CAAAAACGCCACTAAAGTACGAGTTTTTAGCGGCATTTTTA
Found at i:70558 original size:2 final size:2
Alignment explanation
Indices: 70553--70582 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
70543 TGTGTGTATT
70553 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
70583 CAAGTGTGAA
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:71460 original size:17 final size:16
Alignment explanation
Indices: 71438--71471 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
71428 TATTATTATT
71438 AAAAAAAAATCAAACA
1 AAAAAAAAATCAAACA
*
71454 AAAAAAAAATCCAACA
1 AAAAAAAAATCAAACA
71470 AA
1 AA
71472 TAATTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.79, C:0.15, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAAAAAATCAAACA
Found at i:71874 original size:22 final size:21
Alignment explanation
Indices: 71849--71900 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
71839 GTGTAAAACA
*
71849 TAAAAAATTTAAACTTTTTATT
1 TAAAAAACTTAAA-TTTTTATT
71871 TAAAAACACTTAAATTTTTATT
1 TAAAAA-ACTTAAATTTTTATT
*
71893 TTAAAAAC
1 TAAAAAAC
71901 CTACTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 19 0.70
23 6 0.22
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAAAACTTAAATTTTTATT
Found at i:71883 original size:23 final size:23
Alignment explanation
Indices: 71849--71900 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
71839 GTGTAAAACA
*
71849 TAAAAA-ATTTAAACTTTTTA-TT
1 TAAAAACACTTAAA-TTTTTATTT
71871 TAAAAACACTTAAATTTTTATTT
1 TAAAAACACTTAAATTTTTATTT
71894 TAAAAAC
1 TAAAAAC
71901 CTACTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAAAACACTTAAATTTTTATTT
Found at i:74512 original size:2 final size:2
Alignment explanation
Indices: 74507--74535 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
74497 AAGGATAATT
74507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
74536 CTTTTTATCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77437 original size:24 final size:24
Alignment explanation
Indices: 77410--77459 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
77400 TCGTTTAAAA
**
77410 TTTTAATATTGTGTTCATGTTTAT
1 TTTTAATAAGGTGTTCATGTTTAT
**
77434 TTTTTTTAAGGTGTTCATGTTTAT
1 TTTTAATAAGGTGTTCATGTTTAT
77458 TT
1 TT
77460 ATTTATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.18, C:0.04, G:0.14, T:0.64
Consensus pattern (24 bp):
TTTTAATAAGGTGTTCATGTTTAT
Found at i:102609 original size:3 final size:3
Alignment explanation
Indices: 102562--102596 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
102552 CTGAATTTGG
*
102562 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
102597 AGCTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:113019 original size:21 final size:21
Alignment explanation
Indices: 112978--113019 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
112968 TTATGGGTTG
* *
112978 TGTGCATCGATGCATTTTCAA
1 TGTGCATCGATGCACTCTCAA
*
112999 TGTGTATCGATGCACTCTCAA
1 TGTGCATCGATGCACTCTCAA
113020 ATATTGAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (21 bp):
TGTGCATCGATGCACTCTCAA
Found at i:115818 original size:23 final size:25
Alignment explanation
Indices: 115786--115839 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
115776 GCAAAAAGTA
* *
115786 AAAATAAACAAAGAAAGGTG-C-ATG
1 AAAA-AAACAAACAAAAGTGACAATG
115810 AAAAAAACAAACAAAAGTGACAATG
1 AAAAAAACAAACAAAAGTGACAATG
115835 AAAAA
1 AAAAA
115840 GTACATATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 13 0.50
24 5 0.19
25 8 0.31
ACGTcount: A:0.67, C:0.09, G:0.15, T:0.09
Consensus pattern (25 bp):
AAAAAAACAAACAAAAGTGACAATG
Found at i:126655 original size:2 final size:2
Alignment explanation
Indices: 126650--126674 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
126640 CGTGTGTGTG
126650 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
126675 GATTAATCAA
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
Done.