Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000718.1 Hibiscus syriacus cultivar Beakdansim tig00001390_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: 81108
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:1878 original size:2 final size:2
Alignment explanation
Indices: 1871--1897 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1861 ACATGCTACA
1871 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 A
1898 CAGTTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8495 original size:21 final size:21
Alignment explanation
Indices: 8466--8510 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8456 TGGATAAAAA
* * *
8466 TTATTTAAAATATTATTATTT
1 TTATCTAAAACATTAATATTT
*
8487 TTATCTAAAACATTAATGTTT
1 TTATCTAAAACATTAATATTT
8508 TTA
1 TTA
8511 ATATTTTCGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (21 bp):
TTATCTAAAACATTAATATTT
Found at i:10252 original size:30 final size:30
Alignment explanation
Indices: 10216--10283 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
10206 TTAGTCTTTA
10216 AGCTTCAACTATAAATACCCTAGCTCATTT
1 AGCTTCAACTATAAATACCCTAGCTCATTT
10246 AGCTTCAACTATAAATACCCTAGCTCATTT
1 AGCTTCAACTATAAATACCCTAGCTCATTT
10276 AGCTTCAA
1 AGCTTCAA
10284 AATCATCCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.32
Consensus pattern (30 bp):
AGCTTCAACTATAAATACCCTAGCTCATTT
Found at i:10401 original size:12 final size:12
Alignment explanation
Indices: 10384--10409 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10374 AATTATCATT
10384 GTTTTCTCCTTG
1 GTTTTCTCCTTG
10396 GTTTTCTCCTTG
1 GTTTTCTCCTTG
10408 GT
1 GT
10410 AGATCGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.19, T:0.58
Consensus pattern (12 bp):
GTTTTCTCCTTG
Found at i:17753 original size:24 final size:25
Alignment explanation
Indices: 17709--17755 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
17699 AACCCAGTGG
17709 TATAATTGAAACAAAATAAAAGTAC
1 TATAATTGAAACAAAATAAAAGTAC
*
17734 TATAATTGATA-AAAATAAAAGT
1 TATAATTGAAACAAAATAAAAGT
17756 TCAGCGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.28
Consensus pattern (25 bp):
TATAATTGAAACAAAATAAAAGTAC
Found at i:22340 original size:24 final size:24
Alignment explanation
Indices: 22313--22395 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 24
22303 TTAAATTATT
*
22313 TTTTAATAATTTA-ATTTTATAGTA
1 TTTTAATAATTTACATATTATA-TA
* *
22337 TTTTTATATTTTACATATTATATA
1 TTTTAATAATTTACATATTATATA
* * **
22361 TCTTAATAGTTATTTATATTATATA
1 TTTTAATAATT-TACATATTATATA
*
22386 TTGTAA-AATT
1 TTTTAATAATT
22396 CAATAATTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 24 0.52
25 22 0.48
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTTAATAATTTACATATTATATA
Found at i:22450 original size:29 final size:30
Alignment explanation
Indices: 22404--22484 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
22394 TTCAATAATT
*
22404 TTTATTAAAAAAAT-AATTAAATCC-CTAAA
1 TTTAATAAAAAAATCAATTAAATCCTC-AAA
*
22433 CTTT-AT-AAAAAATCAATTAAATCTTCAAA
1 -TTTAATAAAAAAATCAATTAAATCCTCAAA
22462 TTTAATAAAAAAATCAATTAAAT
1 TTTAATAAAAAAATCAATTAAAT
22485 TTACTTATCA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
28 10 0.22
29 15 0.33
30 20 0.44
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.35
Consensus pattern (30 bp):
TTTAATAAAAAAATCAATTAAATCCTCAAA
Found at i:25386 original size:41 final size:38
Alignment explanation
Indices: 25319--25394 Score: 91
Period size: 41 Copynumber: 1.9 Consensus size: 38
25309 TACTTATAAA
25319 AATATAATTTTATATTATATGTTTAATGATAATTTTAAT
1 AATATAATTTTATATTATATGTTTAATGA-AATTTTAAT
* *
25358 AATATACATTTATATATTACT-TTTTTAATTAAATTTT
1 AATATA-ATTT-TATATTA-TATGTTTAATGAAATTTT
25395 TATTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
39 6 0.19
40 10 0.31
41 15 0.47
42 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (38 bp):
AATATAATTTTATATTATATGTTTAATGAAATTTTAAT
Found at i:25952 original size:24 final size:24
Alignment explanation
Indices: 25899--25955 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
25889 AAATAGTATA
* *
25899 AAATTAAATAAAAATTATATTATT
1 AAATTAAATAAAAATTAAATAATT
**
25923 TTATTAAATAAAAA-TAAACTAATT
1 AAATTAAATAAAAATTAAA-TAATT
25947 AAATTAAAT
1 AAATTAAAT
25956 TAAAGTTCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATTAAATAAAAATTAAATAATT
Found at i:26108 original size:18 final size:18
Alignment explanation
Indices: 26085--26120 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
26075 CTATCATCTA
26085 TTTTATTCTT-TGATTTTT
1 TTTTATT-TTCTGATTTTT
26103 TTTTATTTTCTGATTTTT
1 TTTTATTTTCTGATTTTT
26121 GATATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.78
Consensus pattern (18 bp):
TTTTATTTTCTGATTTTT
Found at i:27129 original size:21 final size:20
Alignment explanation
Indices: 27089--27130 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
27079 GCAACTTACA
*
27089 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
27109 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
27130 A
1 A
27131 GTTGCATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:27157 original size:20 final size:20
Alignment explanation
Indices: 27132--27170 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27122 CTATTATTAG
27132 TTGCATAACAACTAATAATT
1 TTGCATAACAACTAATAATT
*
27152 TTGCATGACAACTAATAAT
1 TTGCATAACAACTAATAAT
27171 CTCCCACTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (20 bp):
TTGCATAACAACTAATAATT
Found at i:34054 original size:22 final size:22
Alignment explanation
Indices: 34023--34094 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
34013 CTGAGTGGCA
34023 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATTTGTCCCGAAGGACC
*
34046 TGTGAATTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
*
34068 TATG-AGTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
34089 TATGAA
1 TATGAA
34095 ACCCTCGACT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 20 0.44
22 22 0.49
23 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (22 bp):
TATGAATTTGTCCCGAAGGACC
Found at i:34079 original size:21 final size:21
Alignment explanation
Indices: 34031--34093 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
34021 CATATGAAAT
* *
34031 TTGTCCCGAAGGACCTGTGAAT
1 TTGTCCCGAAGGACCTATG-AG
34053 TTGTCCCGAAGGACCTATGAG
1 TTGTCCCGAAGGACCTATGAG
34074 TTGTCCCGAAGGACCTATGA
1 TTGTCCCGAAGGACCTATGA
34094 AACCCTCGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 21 0.54
22 18 0.46
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAG
Found at i:35568 original size:64 final size:64
Alignment explanation
Indices: 35468--35628 Score: 209
Period size: 64 Copynumber: 2.5 Consensus size: 64
35458 TAATGAAGGT
* * *
35468 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACTACA-TATGCATCGATGCATAAATCATATTCGATGTTTTCTATTTAAAT--
*
35531 GG
63 GC
* *
35533 ATGCATCGATGCACTACTTATGCATCGATGCATAAATCATATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTACATATGCATCGATGCATAAATCATATTCGATGTTTTCTATTTAAATGC
* *
35597 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTACATATGCATCGATGCA
35629 CCTTAAACAA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 57 0.67
65 25 0.29
66 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACATATGCATCGATGCATAAATCATATTCGATGTTTTCTATTTAAATGC
Found at i:52803 original size:13 final size:13
Alignment explanation
Indices: 52785--52812 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
52775 AAAACATGTA
52785 AATATAAAAGGCG
1 AATATAAAAGGCG
52798 AATATAAAAGGCG
1 AATATAAAAGGCG
52811 AA
1 AA
52813 AAGATATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (13 bp):
AATATAAAAGGCG
Found at i:63614 original size:6 final size:6
Alignment explanation
Indices: 63603--63643 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
63593 TATTTTACGC
*
63603 ATTTTA ATTTTA ATTTTA ATTTGA ATTTTA GATTTT- ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA -ATTTTA ATTTT
63644 GTTATGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 5 0.16
6 22 0.69
7 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (6 bp):
ATTTTA
Found at i:74156 original size:137 final size:137
Alignment explanation
Indices: 73905--74679 Score: 904
Period size: 137 Copynumber: 5.8 Consensus size: 137
73895 TATTTTAGGA
* * *
73905 AACATCACCCTTAGATAACCATACGTCCTCATCACGAAGGAACCGTATTATCTCAAATATCTTTA
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* * *
73970 AAGATGGCTAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCTTCATCACG
66 AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCCTCATCACA
*
74035 AAGGAGG
131 AAGGAGC
* * *
74042 AACATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACTGTGCTATCTCAAATATCTTTA
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* * * *
74107 AAGATGGCCAAACATCCTCATCACGAAGGAACAATGTCATCCATTGATCAGAACTCCTCATCACA
66 AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCCTCATCACA
74172 AAGGAGC
131 AAGGAGC
* * * *
74179 AACATCATCCTTAGATAACCAAAAGTGCTCATCATGAAAGAACCGTGTTATCTCAAATATCTTTA
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* *
74244 AAGATGGCCAGACGTCTTCATCACGAAGGAATAATGTCATCCACCGATCAGAACT-C-C-T----
66 AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCCTCATCACA
74302 -------
131 AAGGAGC
** * * *
74302 --CATCATCCTTAGATAGGCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATATTTA
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* * * * *
74365 AAGATGGCCAGACGTCCTCATCACAAAGGAACAATGCCATCCACCGATCAGAACTCCTCATCACG
66 AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCCTCATCACA
74430 AAGGAGC
131 AAGGAGC
* * * * *
74437 AACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTTAAATATATTTA
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* ** * * * *
74502 AAGATGACCAGATATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTTCTCATCACG
66 AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCCTCATCACA
74567 AAGGAGTC
131 AAGGAG-C
* * * *
74575 -ACTTCATTCTTAGATAACCAGACGTCCTCATCACGAAGGAATCGTGTTA--TCAATATTTATCT
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAA-A--TATCT
* * * * * * *
74637 CTAAAAATGACCAAATGTCCTCAACACGAAGGAACAATGTCAT
63 TTAAAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCAT
74680 ACACCAGTTT
Statistics
Matches: 560, Mismatches: 58, Indels: 39
0.85 0.09 0.06
Matches are distributed among these distances:
121 106 0.19
122 1 0.00
123 1 0.00
124 1 0.00
134 1 0.00
135 4 0.01
136 2 0.00
137 401 0.72
138 43 0.08
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (137 bp):
AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCCTCATCACA
AAGGAGC
Found at i:74395 original size:121 final size:121
Alignment explanation
Indices: 74181--74564 Score: 471
Period size: 121 Copynumber: 3.0 Consensus size: 121
74171 AAAGGAGCAA
* * * * * * *
74181 CATCATCCTTAGATAACCAAAAGTGCTCATCATGAAAGAACCGTGTTATCTCAAATATCTTTAAA
1 CATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATATTTAAA
* *
74246 GATGGCCAGACGTCTTCATCACGAAGGAATAATGTCATCCACCGATCAGAACTCCT
66 GATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCT
*
74302 CATCATCCTTAGATAGGCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATATTTAAA
1 CATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATATTTAAA
* *
74367 GATGGCCAGACGTCCTCATCACAAAGGAACAATGCCATCCACCGATCAGAACTCCTCAT
66 GATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACT-C-C-T
*
74426 CACGAAGGAGCAACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTT
1 -------------CATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTC
* **
74491 AAATATATTTAAAGATGACCAGATATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAAC
53 AAATATATTTAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAAC
*
74556 TTCT
118 TCCT
74560 CATCA
1 CATCA
74565 CGAAGGAGTC
Statistics
Matches: 227, Mismatches: 20, Indels: 32
0.81 0.07 0.11
Matches are distributed among these distances:
121 111 0.49
122 1 0.00
123 1 0.00
124 1 0.00
134 1 0.00
135 1 0.00
137 111 0.49
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (121 bp):
CATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATATTTAAA
GATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCT
Found at i:74504 original size:258 final size:258
Alignment explanation
Indices: 74044--74564 Score: 799
Period size: 258 Copynumber: 2.0 Consensus size: 258
74034 GAAGGAGGAA
* *
74044 CATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACTGTGCTATCTCAAATATCTTTAAA
1 CATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGCTATCTCAAATATATTTAAA
* * **
74109 GATGGCCAAACATCCTCATCACGAAGGAACAATGTCATCCATTGATCAGAACTCCTCATCACAAA
66 GATGGCCAAACATCCTCATCACAAAGGAACAATGCCATCCACCGATCAGAACTCCTCATCACAAA
* *
74174 GGAGCAACATCATCCTTAGATAACCAAAAGTGCTCATCATGAAAGAACCGTGTTATCTCAAATAT
131 GGAGCAACATCATCCTTAGATAACCAAAAGTCCTCATCACGAAAGAACCGTGTTATCTCAAATAT
* * * * *
74239 CTTTAAAGATGGCCAGACGTCTTCATCACGAAGGAATAATGTCATCCACCGATCAGAACTCCT
196 ATTTAAAGATGACCAGACATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCT
** * *
74302 CATCATCCTTAGATAGGCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATATTTAAA
1 CATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGCTATCTCAAATATATTTAAA
* * *
74367 GATGGCCAGACGTCCTCATCACAAAGGAACAATGCCATCCACCGATCAGAACTCCTCATCACGAA
66 GATGGCCAAACATCCTCATCACAAAGGAACAATGCCATCCACCGATCAGAACTCCTCATCACAAA
* * * * *
74432 GGAGCAACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTTAAATAT
131 GGAGCAACATCATCCTTAGATAACCAAAAGTCCTCATCACGAAAGAACCGTGTTATCTCAAATAT
* *
74497 ATTTAAAGATGACCAGATATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTTCT
196 ATTTAAAGATGACCAGACATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCT
74560 CATCA
1 CATCA
74565 CGAAGGAGTC
Statistics
Matches: 236, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
258 236 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (258 bp):
CATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGCTATCTCAAATATATTTAAA
GATGGCCAAACATCCTCATCACAAAGGAACAATGCCATCCACCGATCAGAACTCCTCATCACAAA
GGAGCAACATCATCCTTAGATAACCAAAAGTCCTCATCACGAAAGAACCGTGTTATCTCAAATAT
ATTTAAAGATGACCAGACATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCT
Found at i:74844 original size:3 final size:3
Alignment explanation
Indices: 74836--74860 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
74826 TGTCACATAC
74836 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
74861 AATAATTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:76505 original size:23 final size:22
Alignment explanation
Indices: 76474--76516 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
76464 TTTTTTAGTC
76474 ATAAAATATATATTTATTAAAGG
1 ATAAAATATATATTT-TTAAAGG
* *
76497 ATAATATATTTATTTTTAAA
1 ATAAAATATATATTTTTAAA
76517 TATTAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
ATAAAATATATATTTTTAAAGG
Done.