Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008626.1 Hibiscus syriacus cultivar Beakdansim tig00111589_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: 62863
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:15750 original size:8 final size:8
Alignment explanation
Indices: 15737--15788 Score: 95
Period size: 8 Copynumber: 6.5 Consensus size: 8
15727 ACATATGGAT
15737 GAAGTTTA
1 GAAGTTTA
15745 GAAGTTTA
1 GAAGTTTA
15753 GAAGTTTA
1 GAAGTTTA
15761 GAAGTTTA
1 GAAGTTTA
15769 GAAGTTTA
1 GAAGTTTA
*
15777 GAAGTTAA
1 GAAGTTTA
15785 GAAG
1 GAAG
15789 GTACTAAAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 43 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (8 bp):
GAAGTTTA
Found at i:17918 original size:18 final size:17
Alignment explanation
Indices: 17895--17935 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
17885 GTTAATGACT
*
17895 ATTTTGAAAGGATTTAAA
1 ATTTTG-AACGATTTAAA
*
17913 ATTTTGGACGATTTAAA
1 ATTTTGAACGATTTAAA
17930 ATTTTG
1 ATTTTG
17936 GAGGATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (17 bp):
ATTTTGAACGATTTAAA
Found at i:17927 original size:17 final size:17
Alignment explanation
Indices: 17905--17942 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
17895 ATTTTGAAAG
17905 GATTTAAAATTTTGGAC
1 GATTTAAAATTTTGGAC
*
17922 GATTTAAAATTTTGGAG
1 GATTTAAAATTTTGGAC
17939 GATT
1 GATT
17943 AAATTGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (17 bp):
GATTTAAAATTTTGGAC
Found at i:18687 original size:21 final size:21
Alignment explanation
Indices: 18662--18717 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
18652 TGATGAACAA
*
18662 TATCGATATTGATGCAATTAG
1 TATCGATACTGATGCAATTAG
*
18683 TATCGATACTAATGCAATTAG
1 TATCGATACTGATGCAATTAG
18704 TATCGATACTGATG
1 TATCGATACTGATG
18718 TGGGTATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (21 bp):
TATCGATACTGATGCAATTAG
Found at i:19320 original size:44 final size:44
Alignment explanation
Indices: 19270--19358 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
19260 TGTTACCGAA
* *
19270 ATAAATGAAAATGCATAACGGTGCATTATTGGTATAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
*
19314 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
19358 A
1 A
19359 CTCTTGGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
Found at i:28392 original size:70 final size:71
Alignment explanation
Indices: 28262--28399 Score: 161
Period size: 70 Copynumber: 2.0 Consensus size: 71
28252 TTTTCAGCAA
* * * * *
28262 AAAAATGACGCTAGATATCATGACAATTAGTGGTGTTTGCATCTAAAACACCGCTGAAGAG-CTG
1 AAAAATGACGCTAGATATCATGACAACTAGCGGAGTTTACATCTAAAACACCGCTAAAGAGCCTG
28326 ACCATG
66 ACCATG
* * * * ***
28332 AAAAATGCCGCTATATATCATGAGAACTAGCGGAGTTTATATCTAAAACGTTGCTAAAGAGCCTG
1 AAAAATGACGCTAGATATCATGACAACTAGCGGAGTTTACATCTAAAACACCGCTAAAGAGCCTG
28397 ACC
66 ACC
28400 TTTTGTGATT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
70 49 0.89
71 6 0.11
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (71 bp):
AAAAATGACGCTAGATATCATGACAACTAGCGGAGTTTACATCTAAAACACCGCTAAAGAGCCTG
ACCATG
Found at i:33075 original size:17 final size:16
Alignment explanation
Indices: 33053--33086 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
33043 TAAAAATAGT
33053 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
33070 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
33086 A
1 A
33087 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:36131 original size:19 final size:20
Alignment explanation
Indices: 36104--36146 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
36094 GAGAAAATGT
*
36104 AAAAGTTAA-AATGAAAGAG
1 AAAAATTAATAATGAAAGAG
*
36123 AAAAATTAATAATGAAAGAT
1 AAAAATTAATAATGAAAGAG
36143 AAAA
1 AAAA
36147 GAAAAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (20 bp):
AAAAATTAATAATGAAAGAG
Found at i:42520 original size:17 final size:16
Alignment explanation
Indices: 42498--42531 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
42488 TAAAAACAGT
42498 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
42515 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
42531 A
1 A
42532 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:46722 original size:3 final size:3
Alignment explanation
Indices: 46714--46840 Score: 204
Period size: 3 Copynumber: 42.7 Consensus size: 3
46704 TTAATATATT
*
46714 TAA TAA TAA TAG 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
*
46762 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-G TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
46808 TAA TATA TAA TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
46841 TGGATAAAAA
Statistics
Matches: 115, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
2 3 0.03
3 109 0.95
4 3 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:47578 original size:113 final size:113
Alignment explanation
Indices: 47158--47902 Score: 1376
Period size: 113 Copynumber: 6.6 Consensus size: 113
47148 GAATTATGCC
* * *
47158 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
47222 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
47269 AAAAGGTTGAACAAATTC-T-TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
47332 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
47380 -AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
47444 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
47492 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
47557 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
47605 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
47670 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
47718 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
47783 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
47831 -AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
47895 TATGAACT
66 TATGAACT
47903 CTACCTGGCA
Statistics
Matches: 622, Mismatches: 7, Indels: 9
0.97 0.01 0.01
Matches are distributed among these distances:
110 66 0.11
111 43 0.07
112 175 0.28
113 338 0.54
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
Found at i:48703 original size:82 final size:82
Alignment explanation
Indices: 48493--49127 Score: 961
Period size: 82 Copynumber: 7.7 Consensus size: 82
48483 ACTTCCTCAA
* * *
48493 ATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGA
48558 TTGGTTCTGTTAAACCAG
66 TTGGTTCTG-TAAACCAG
* *
48576 GTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCTAAATTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGA
48641 TT-GTTCTGCTAAACCAG
66 TTGGTTCTG-TAAACCAG
* *
48658 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGA
48723 TTGGTTCTGTTAAACCAG
66 TTGGTTCTG-TAAACCAG
* * * * *
48741 GTCAGATAACTCCAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTTTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGA
*
48806 TT-GTTCTGTCCAACCAG
66 TTGGTTCTGT-AAACCAG
* *
48823 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGA
*
48888 TT-GTTCTGTCCAACCAG
66 TTGGTTCTGT-AAACCAG
* *
48905 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGA
48970 TTGGTTCTGTTAAACCAG
66 TTGGTTCTG-TAAACCAG
* *
48988 ATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAATTCAATG
*
49053 ATTGGTTCTGTCCAACCAG
65 ATTGGTTCTGT-AAACCAG
* *
49072 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCTATTTTCTA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTC-ATCTTCTA
49128 GTTAATGTTT
Statistics
Matches: 509, Mismatches: 36, Indels: 13
0.91 0.06 0.02
Matches are distributed among these distances:
81 1 0.00
82 231 0.45
83 193 0.38
84 84 0.17
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (82 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGA
TTGGTTCTGTAAACCAG
Found at i:48770 original size:165 final size:164
Alignment explanation
Indices: 48493--49127 Score: 984
Period size: 165 Copynumber: 3.8 Consensus size: 164
48483 ACTTCCTCAA
* *
48493 ATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGA
* * *
48558 TTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTC
66 TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTC
48623 ATCTTCTAAATTCAATGATTGTTCTGCTAAACCAG
131 ATCTTCTAAATTCAATGATTGTTCTG-TAAACCAG
*
48658 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGA
* * * *
48723 TTGGTTCTGTTAAACCAGGTCAGATAACTCCAAGAACACTTCCAGAAGATGCTATTGACAAATTC
66 TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTC
* * *
48788 ATCTTTTAAACTCAATGATTGTTCTGTCCAACCAG
131 ATCTTCTAAATTCAATGATTGTTCTGT-AAACCAG
* * *
48823 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGA
*
48888 TT-GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTC
66 TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTC
* *
48952 ATCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAG
131 ATCTTCTAAATTCAATGATT-GTTCTG-TAAACCAG
* * *
48988 ATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCCAAATTCAATG
* *
49053 ATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATT
65 ATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATT
*
49118 CTATTTTCTA
130 C-ATCTTCTA
49128 GTTAATGTTT
Statistics
Matches: 436, Mismatches: 28, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
164 74 0.17
165 269 0.62
166 26 0.06
167 61 0.14
168 6 0.01
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (164 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGA
TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTC
ATCTTCTAAATTCAATGATTGTTCTGTAAACCAG
Found at i:48935 original size:247 final size:248
Alignment explanation
Indices: 48493--49127 Score: 1067
Period size: 247 Copynumber: 2.6 Consensus size: 248
48483 ACTTCCTCAA
* * * *
48493 ATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAATTCAATGA
** * **
48558 TTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTC
66 TTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTC
*
48623 ATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
131 ATCTTCTAAACTCAATGATTGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
48688 ATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAG
196 ATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAG
* * * *
48741 GTCAGATAACTCCAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTTTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAATTCAATGA
48806 TT-GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTC
66 TTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTC
*
48870 ATCTTCTAAACTCAATGATTGTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
131 ATCTTCTAAACTCAATGATTGTTCTGCT-AAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
48934 GATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAG
195 GATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAG
* *
48988 ATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-CAAATTCATCTTCTAAATTCAATG
49053 ATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATT
65 ATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATT
*
49118 CTATTTTCTA
130 C-ATCTTCTA
49128 GTTAATGTTT
Statistics
Matches: 361, Mismatches: 22, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
246 1 0.00
247 208 0.58
248 83 0.23
249 62 0.17
250 7 0.02
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (248 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAATTCAATGA
TTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTC
ATCTTCTAAACTCAATGATTGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
ATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAG
Found at i:50285 original size:20 final size:20
Alignment explanation
Indices: 50242--50294 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
50232 CCTTGACCCC
50242 CTTTCT-TTTCTTTTTTTTT
1 CTTTCTATTTCTTTTTTTTT
50261 CTTTCTATTT-TTTTATTTTT
1 CTTTCTATTTCTTTT-TTTTT
*
50281 TTTTCTATTCTCTT
1 CTTTCTATT-TCTT
50295 CAAGCATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.34
20 16 0.55
21 1 0.03
22 2 0.07
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
CTTTCTATTTCTTTTTTTTT
Done.