Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008818.1 Hibiscus syriacus cultivar Beakdansim tig00111984_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: 79115
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:4303 original size:3 final size:3
Alignment explanation
Indices: 4295--4376 Score: 150
Period size: 3 Copynumber: 28.0 Consensus size: 3
4285 CTGTTGAATT
4295 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4341 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4377 CAGTGTATGA
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.05
3 73 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4339 original size:35 final size:35
Alignment explanation
Indices: 4295--4374 Score: 160
Period size: 35 Copynumber: 2.3 Consensus size: 35
4285 CTGTTGAATT
4295 TTATTATTATATTATTATTATTATTATTATTATTA
1 TTATTATTATATTATTATTATTATTATTATTATTA
4330 TTATTATTATATTATTATTATTATTATTATTATTA
1 TTATTATTATATTATTATTATTATTATTATTATTA
4365 TTATTATTAT
1 TTATTATTAT
4375 TACAGTGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (35 bp):
TTATTATTATATTATTATTATTATTATTATTATTA
Found at i:9279 original size:26 final size:26
Alignment explanation
Indices: 9244--9293 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
9234 GGAATAAAGT
*
9244 TTTTCAAAG-TTTGGGTTTTTTAAGA
1 TTTTCAAAGTTTTGGATTTTTTAAGA
9269 TTTTCAAAAGTTTTGGATTTTTTAA
1 TTTTC-AAAGTTTTGGATTTTTTAA
9294 AATAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 4 0.18
27 13 0.59
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.54
Consensus pattern (26 bp):
TTTTCAAAGTTTTGGATTTTTTAAGA
Found at i:9859 original size:41 final size:41
Alignment explanation
Indices: 9797--9890 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
9787 AAATAACGTT
*
9797 GTTACACCTATACTTTGATGTAATGTTTTGTTCATATTGAA
1 GTTATACCTATACTTTGATGTAATGTTTTGTTCATATTGAA
* * *
9838 GTTATACCTATACTTTGATGTATTTTTTTTTTCATATTGAA
1 GTTATACCTATACTTTGATGTAATGTTTTGTTCATATTGAA
9879 GTTATACCTATA
1 GTTATACCTATA
9891 TTTATACATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.50
Consensus pattern (41 bp):
GTTATACCTATACTTTGATGTAATGTTTTGTTCATATTGAA
Found at i:10103 original size:29 final size:31
Alignment explanation
Indices: 10046--10104 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
10036 AACCCAAACC
* * *
10046 AAAATAATATAAGATATATATTTTTGCATAG
1 AAAATAACATAAGATATATATATATGCATAG
10077 AAAATAACATAAGATAT-TA-ATATGCATA
1 AAAATAACATAAGATATATATATATGCATA
10105 CATATTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 2 0.08
31 16 0.64
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (31 bp):
AAAATAACATAAGATATATATATATGCATAG
Found at i:10152 original size:25 final size:26
Alignment explanation
Indices: 10124--10176 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
10114 TCGAATATAT
* * *
10124 AAAAAAATATTTTAAATTTAT-AATA
1 AAAAAAATATATAAAAATTATGAATA
*
10149 AAAATAATATATAAAAATTATGAATA
1 AAAAAAATATATAAAAATTATGAATA
10175 AA
1 AA
10177 GTATTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
AAAAAAATATATAAAAATTATGAATA
Found at i:23226 original size:15 final size:16
Alignment explanation
Indices: 23188--23228 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23178 TCAAAGTCTA
*
23188 TGAATTATTCAGTATT
1 TGAATTATTCAGCATT
*
23204 TGAATTATTCAGCGTT
1 TGAATTATTCAGCATT
23220 T-AATTATTC
1 TGAATTATTC
23229 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (16 bp):
TGAATTATTCAGCATT
Found at i:24028 original size:21 final size:21
Alignment explanation
Indices: 23979--24036 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
23969 GGGATATTTC
* *
23979 AAAATTTTTAAAAATATATAT
1 AAAATTTTTAAAATTATAAAT
* * *
24000 ATATTTTTTAAAATTTTAAAT
1 AAAATTTTTAAAATTATAAAT
24021 AAAATTTTTAAAATTA
1 AAAATTTTTAAAATTA
24037 CCAAAATATG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAATTTTTAAAATTATAAAT
Found at i:24216 original size:24 final size:22
Alignment explanation
Indices: 24181--24228 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
24171 GTTTGAACAC
24181 TTATTTTATAATTAAGATTGAATT
1 TTATTTTATAA-TAA-ATTGAATT
*
24205 TTATTATT-TAATAAATTTAATT
1 TTATT-TTATAATAAATTGAATT
24227 TT
1 TT
24229 TTAAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 9 0.41
23 3 0.14
24 8 0.36
25 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TTATTTTATAATAAATTGAATT
Found at i:30929 original size:6 final size:6
Alignment explanation
Indices: 30918--30942 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30908 GACACGTATT
30918 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
30943 GACGGACGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:31663 original size:21 final size:21
Alignment explanation
Indices: 31637--31690 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
31627 ACCGGTCGTT
31637 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
31658 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCGACTA
*
31679 TCGCAATGCGAA
1 TCGCAACGCGAA
31691 TATGTAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:43112 original size:16 final size:15
Alignment explanation
Indices: 43087--43116 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43077 CTAACAAAAA
43087 CAAAACCCAAAATTT
1 CAAAACCCAAAATTT
43102 CAAATACCCAAAATT
1 CAAA-ACCCAAAATT
43117 CCATAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
CAAAACCCAAAATTT
Found at i:48139 original size:19 final size:19
Alignment explanation
Indices: 48117--48204 Score: 158
Period size: 19 Copynumber: 4.6 Consensus size: 19
48107 CTAGGCGGCT
48117 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
48136 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
*
48155 CGGCTCGGCTCAGCTCAAG
1 CGGCTCGGCTCAGCTCAAA
*
48174 CGGCTCGGCTCAGCTCAAG
1 CGGCTCGGCTCAGCTCAAA
48193 CGGCTCGGCTCA
1 CGGCTCGGCTCA
48205 AACGGCTCCT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.17, C:0.38, G:0.30, T:0.16
Consensus pattern (19 bp):
CGGCTCGGCTCAGCTCAAA
Found at i:52887 original size:19 final size:19
Alignment explanation
Indices: 52865--52914 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
52855 CTAGGCGGCT
52865 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
*
52884 CGGCTCGGCTCAGCTCAAG
1 CGGCTCGGCTCAGCTCAAA
52903 CGGCTCGGCTCA
1 CGGCTCGGCTCA
52915 AACGGCTCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.16, C:0.38, G:0.30, T:0.16
Consensus pattern (19 bp):
CGGCTCGGCTCAGCTCAAA
Found at i:52889 original size:14 final size:14
Alignment explanation
Indices: 52889--52922 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
52879 TCAAACGGCT
*
52889 CGGCTCAGCTCAAG
1 CGGCTCAGCTCAAA
*
52903 CGGCTCGGCTCAAA
1 CGGCTCAGCTCAAA
52917 CGGCTC
1 CGGCTC
52923 CTCTGGCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.38, G:0.29, T:0.15
Consensus pattern (14 bp):
CGGCTCAGCTCAAA
Found at i:52911 original size:24 final size:24
Alignment explanation
Indices: 52859--52913 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 24
52849 CTCGGTCTAG
52859 GCGGCTCGGCTCGGCTCAGCTCAA
1 GCGGCTCGGCTCGGCTCAGCTCAA
*
52883 -----ACGGCTCGGCTCAGCTCAA
1 GCGGCTCGGCTCGGCTCAGCTCAA
52902 GCGGCTCGGCTC
1 GCGGCTCGGCTC
52914 AAACGGCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
19 18 0.75
24 6 0.25
ACGTcount: A:0.13, C:0.38, G:0.33, T:0.16
Consensus pattern (24 bp):
GCGGCTCGGCTCGGCTCAGCTCAA
Found at i:58738 original size:31 final size:31
Alignment explanation
Indices: 58681--58754 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
58671 AGTTAGGCAG
* *
58681 TGTTAGACTCGTGCTTGTTAAAAAAATTTAT
1 TGTTCGACTCGTGCTTATTAAAAAAATTTAT
* *
58712 TGTTCGACTCGTG-TTCATTAAGAAAATTTGT
1 TGTTCGACTCGTGCTT-ATTAAAAAAATTTAT
* *
58743 TGCTCGATTCGT
1 TGTTCGACTCGT
58755 TACTCATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 2 0.06
31 34 0.94
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (31 bp):
TGTTCGACTCGTGCTTATTAAAAAAATTTAT
Found at i:63011 original size:20 final size:22
Alignment explanation
Indices: 62988--63029 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
62978 TATTATAAGT
*
62988 ATATTTAT-GAATAT-ATAAAA
1 ATATTTATACAATATAATAAAA
63008 ATATTTATACAATATAATAAAA
1 ATATTTATACAATATAATAAAA
63030 TAAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATTTATACAATATAATAAAA
Found at i:64360 original size:3 final size:3
Alignment explanation
Indices: 64352--64435 Score: 141
Period size: 3 Copynumber: 28.0 Consensus size: 3
64342 TTAATATATT
*
64352 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
64400 TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64436 AAAAAATATT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:65182 original size:114 final size:114
Alignment explanation
Indices: 64750--65163 Score: 740
Period size: 114 Copynumber: 3.6 Consensus size: 114
64740 AGAATTATGC
* *
64750 AAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
64815 TATGAACTTTCTCTGGAAAAGCTGATCCATCAA-ATGATGGATTCAAGT
66 TATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
64863 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
64928 TATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
64977 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
65042 TATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
65091 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
65156 TATGAACT
66 TATGAACT
65164 CTACCTGGCA
Statistics
Matches: 290, Mismatches: 10, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
113 94 0.32
114 196 0.68
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (114 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
Found at i:65986 original size:83 final size:83
Alignment explanation
Indices: 65847--66315 Score: 798
Period size: 83 Copynumber: 5.7 Consensus size: 83
65837 CTTACCAAAA
* *
65847 CAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAATTCAA
* *
65912 TGATTGATTCTATCCAAC
66 TGATTGGTTCTGTCCAAC
* *
65930 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAATTCAA
65995 TGATT-GTTCTGTCCAAC
66 TGATTGGTTCTGTCCAAC
* *
66012 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAATTCAA
66077 TGATTGGTTCTGTCCAAC
66 TGATTGGTTCTGTCCAAC
* *
66095 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAATTCAA
*
66160 TGATTGGTTCTG-CTAAAC
66 TGATTGGTTCTGTC-CAAC
* *
66178 CAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAATTCAA
66243 TGATTGGTTCTGTCCAAC
66 TGATTGGTTCTGTCCAAC
66261 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTT
66316 TCAGTTAATG
Statistics
Matches: 367, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
82 77 0.21
83 289 0.79
84 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAATTCAA
TGATTGGTTCTGTCCAAC
Found at i:66255 original size:166 final size:165
Alignment explanation
Indices: 65842--66315 Score: 815
Period size: 165 Copynumber: 2.9 Consensus size: 165
65832 TAGTTCTTAC
* * * *
65842 CAAAACAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
* *
65907 TTCAATGATTGATTCTATCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
66 TTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
*
65972 ACAAATTCATCTTCCAAATTCAATGATTGTTCTGT
131 GCAAATTCATCTTCCAAATTCAATGATTGTTCTGT
* *
66007 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
66072 TTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
66 TTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
*
66137 GCACATTCATCTTCCAAATTCAATGATTGGTTCTG-
131 GCAAATTCATCTTCCAAATTCAATGATT-GTTCTGT
*
66172 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 C-AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
*
66237 ATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
65 ATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
66302 AGCAAATTCATCTT
130 AGCAAATTCATCTT
66316 TCAGTTAATG
Statistics
Matches: 292, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
165 149 0.51
166 143 0.49
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (165 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
TTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
GCAAATTCATCTTCCAAATTCAATGATTGTTCTGT
Found at i:66915 original size:10 final size:11
Alignment explanation
Indices: 66896--66920 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
66886 TTACTTTGTC
66896 TTTTGTTTTTT
1 TTTTGTTTTTT
66907 TTTTGTTTTTT
1 TTTTGTTTTTT
66918 TTT
1 TTT
66921 AAGTATTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:67353 original size:7 final size:7
Alignment explanation
Indices: 67343--67412 Score: 81
Period size: 7 Copynumber: 9.7 Consensus size: 7
67333 CACCTTAATC
67343 CTTTTTT
1 CTTTTTT
67350 CTTTTTT
1 CTTTTTT
67357 CTTTTTT
1 CTTTTTT
67364 CTTTTTT
1 CTTTTTT
67371 -TTCTTTT
1 CTT-TTTT
*
67378 CTTTTCTCC
1 CTTTT-T-T
67387 CTTTTTT
1 CTTTTTT
67394 CTTTTCTT
1 CTTTT-TT
67402 CTTTTTT
1 CTTTTTT
67409 -TTTT
1 CTTTT
67413 CAAGCATAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
6 6 0.11
7 34 0.61
8 11 0.20
9 5 0.09
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
CTTTTTT
Done.