Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006900.1 Hibiscus syriacus cultivar Beakdansim tig00017620_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: 79151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:4148 original size:24 final size:25
Alignment explanation
Indices: 4117--4166 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
4107 TGTAGGGGTA
4117 TTTTGTTTTTTCTTCTT-TTTTTGT
1 TTTTGTTTTTTCTTCTTCTTTTTGT
*
4141 TTTTGTTTTTTCTTTTTCTTTTTGT
1 TTTTGTTTTTTCTTCTTCTTTTTGT
4166 T
1 T
4167 GCAGCACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (25 bp):
TTTTGTTTTTTCTTCTTCTTTTTGT
Found at i:4156 original size:18 final size:19
Alignment explanation
Indices: 4117--4166 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
4107 TGTAGGGGTA
4117 TTTTGTTTTT-TCTTC-TTT
1 TTTTGTTTTTGT-TTCTTTT
4135 TTTTGTTTTTGTTT-TTTCT
1 TTTTGTTTTTGTTTCTTT-T
*
4154 TTTTCTTTTTGTT
1 TTTTGTTTTTGTT
4167 GCAGCACTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (19 bp):
TTTTGTTTTTGTTTCTTTT
Found at i:10731 original size:24 final size:24
Alignment explanation
Indices: 10681--10731 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
10671 TCACTTCAAG
* * *
10681 TTGAAGATTCAAGAAACATGTCTT
1 TTGAAGAATCAAGAAACATGACCT
* *
10705 TTGAAGAATCAATAGACATGACCT
1 TTGAAGAATCAAGAAACATGACCT
10729 TTG
1 TTG
10732 GTGATCCACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (24 bp):
TTGAAGAATCAAGAAACATGACCT
Found at i:16512 original size:36 final size:36
Alignment explanation
Indices: 16472--16612 Score: 201
Period size: 36 Copynumber: 3.9 Consensus size: 36
16462 AACACCATCT
* *
16472 TCCATCTCCATTATCATGCCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
16508 TCCATCACCATTATCACGCCTTTATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
16544 TCCATCTCCATTATCACGCCTATATCGTCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
16580 TCCACCACCATTATCACGCCCATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
16613 ACTTATAAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 93 1.00
ACGTcount: A:0.28, C:0.37, G:0.05, T:0.30
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:20627 original size:36 final size:36
Alignment explanation
Indices: 20587--20727 Score: 192
Period size: 36 Copynumber: 3.9 Consensus size: 36
20577 AACACCATCT
* * *
20587 TCCATCTCCATTATCATGCCTATATTATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
20623 TCCATCACCATTATCACGCCTTTATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
20659 TCCATCTCCATTATCACGCCTATATCGTCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
20695 TCCACCACCATTATCACGCCCATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
20728 ACTTATAAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 92 1.00
ACGTcount: A:0.28, C:0.36, G:0.05, T:0.31
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:26896 original size:90 final size:90
Alignment explanation
Indices: 26721--26888 Score: 302
Period size: 90 Copynumber: 1.9 Consensus size: 90
26711 TTAATTTCAA
*
26721 TTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCTCAATATGATTAGGGTAAC
1 TTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTCAATATGATTAGGGTAAC
*
26786 TTGGATATAAGAGGATTATTAAATT
66 TTGGATATAAAAGGATTATTAAATT
26811 TTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCT-AATATGATTAGGGTAAC
1 TTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTCAATATGATTAGGGTAAC
*
26875 TTGGCTATAAAAGG
66 TTGGATATAAAAGG
26889 GTGTATTAGG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 29 0.39
90 46 0.61
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (90 bp):
TTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTCAATATGATTAGGGTAAC
TTGGATATAAAAGGATTATTAAATT
Found at i:37968 original size:17 final size:18
Alignment explanation
Indices: 37898--37968 Score: 58
Period size: 17 Copynumber: 4.1 Consensus size: 18
37888 TAATACCTCC
* *
37898 AGTTCATTTAA-TAAAGTT
1 AGTTCA-TTAATTAAACTG
37916 AGTTCATTAATTAAACT-
1 AGTTCATTAATTAAACTG
* * *
37933 AGTTCATTCATCAATCTG
1 AGTTCATTAATTAAACTG
*
37951 A-TTCATTTATTAAACTG
1 AGTTCATTAATTAAACTG
37968 A
1 A
37969 CTCTTGATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
17 32 0.73
18 12 0.27
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (18 bp):
AGTTCATTAATTAAACTG
Found at i:40069 original size:46 final size:46
Alignment explanation
Indices: 40019--40132 Score: 201
Period size: 46 Copynumber: 2.5 Consensus size: 46
40009 TAATATATTA
40019 TTATGCATTTTCATTTGTGGCATCCTTTCATGCCGATTATGCACCG
1 TTATGCATTTTCATTTGTGGCATCCTTTCATGCCGATTATGCACCG
*
40065 TTATGCATTTTCATTTGTGGCATCCTTTCATGTCGATTATGCACCG
1 TTATGCATTTTCATTTGTGGCATCCTTTCATGCCGATTATGCACCG
* *
40111 TTATGTATTTTCATTTATGGCA
1 TTATGCATTTTCATTTGTGGCA
40133 AGAAAGTATG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (46 bp):
TTATGCATTTTCATTTGTGGCATCCTTTCATGCCGATTATGCACCG
Found at i:40251 original size:46 final size:46
Alignment explanation
Indices: 40180--40379 Score: 256
Period size: 46 Copynumber: 4.3 Consensus size: 46
40170 TTTATGACTC
* * *
40180 ATGCATTTTTATTTATGGAACCCTTTCATACCGATAATGCACCGTT
1 ATGCATTTTCATTTATGGTATCCTTTCATACCGATAATGCACCGTT
* * *
40226 ATACATTTTCATTTATGGTATCCTTTTATACCGATAATGCACCTTT
1 ATGCATTTTCATTTATGGTATCCTTTCATACCGATAATGCACCGTT
* ** * *
40272 ATGCATTTTTATTTATGGTATCCTTTCATGTCGATAATTCACAGTT
1 ATGCATTTTCATTTATGGTATCCTTTCATACCGATAATGCACCGTT
* * ** *
40318 ATGCATTTTCATTTATGGCATCATTTCATGTCGATAATGCACTGTT
1 ATGCATTTTCATTTATGGTATCCTTTCATACCGATAATGCACCGTT
40364 ATGCATTTTCATTTAT
1 ATGCATTTTCATTTAT
40380 ACATTCATTT
Statistics
Matches: 135, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 135 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (46 bp):
ATGCATTTTCATTTATGGTATCCTTTCATACCGATAATGCACCGTT
Found at i:40319 original size:159 final size:159
Alignment explanation
Indices: 40021--40334 Score: 387
Period size: 159 Copynumber: 2.0 Consensus size: 159
40011 ATATATTATT
* * * * * * *
40021 ATGCATTTTCATTTGTGGCATCCTTTCATGCCGATTATGCACCGTTATGCATTTTCATTTGTGGC
1 ATGCATTTTCATTTATGGAACCCTTTCATACCGATAATGCACCGTTATACATTTTCATTTATGGC
** * *
40086 ATCCTTTCATGTCGATTATGCACCGTTATGTATTTTCATTTATGGCAAGAAAGTATGTAGATAAT
66 ATCCTTTCATACCGATAATGCACCGTTATGCATTTTCATTTATGGCAAGAAAGTATGTAGATAAT
*
40151 GCACCGTTATGCATTTTCATTTATGACTC
131 GCACAGTTATGCATTTTCATTTATGACTC
* *
40180 ATGCATTTTTATTTATGGAACCCTTTCATACCGATAATGCACCGTTATACATTTTCATTTATGGT
1 ATGCATTTTCATTTATGGAACCCTTTCATACCGATAATGCACCGTTATACATTTTCATTTATGGC
* * * * ***** *
40245 ATCCTTTTATACCGATAATGCACCTTTATGCATTTTTATTTATGG-TATCCTTTCATGTCGATAA
66 ATCCTTTCATACCGATAATGCACCGTTATGCATTTTCATTTATGGCAAGAAAGT-ATGTAGATAA
*
40309 TTCACAGTTATGCATTTTCATTTATG
130 TGCACAGTTATGCATTTTCATTTATG
40335 GCATCATTTC
Statistics
Matches: 129, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
158 2 0.02
159 127 0.98
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.43
Consensus pattern (159 bp):
ATGCATTTTCATTTATGGAACCCTTTCATACCGATAATGCACCGTTATACATTTTCATTTATGGC
ATCCTTTCATACCGATAATGCACCGTTATGCATTTTCATTTATGGCAAGAAAGTATGTAGATAAT
GCACAGTTATGCATTTTCATTTATGACTC
Found at i:40850 original size:18 final size:18
Alignment explanation
Indices: 40824--40870 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
40814 CCTTCCTTTT
*
40824 AGTACCGATACCCACATC
1 AGTATCGATACCCACATC
40842 AGTATCGATACCCACATC
1 AGTATCGATACCCACATC
40860 AGTATCGATAC
1 AGTATCGATAC
40871 TAATTGCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.21
Consensus pattern (18 bp):
AGTATCGATACCCACATC
Found at i:40882 original size:21 final size:21
Alignment explanation
Indices: 40856--40907 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
40846 TCGATACCCA
*
40856 CATCAGTATCGATACTAATTG
1 CATCAGTATCAATACTAATTG
40877 CATCAGTATCAATACTAATTG
1 CATCAGTATCAATACTAATTG
40898 CATCAGTATC
1 CATCAGTATC
40908 TATAGTATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (21 bp):
CATCAGTATCAATACTAATTG
Found at i:47566 original size:24 final size:21
Alignment explanation
Indices: 47531--47573 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
47521 GGCACAATCT
*
47531 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
47554 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
47574 GTCTTATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:48811 original size:21 final size:20
Alignment explanation
Indices: 48782--48821 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
48772 CTTTCAACTT
*
48782 TTCTTTCTTTCTTTCGTTTTC
1 TTCTCTCTTTCTTTC-TTTTC
*
48803 TTCTCTCTTTTTTTCTTTT
1 TTCTCTCTTTCTTTCTTTT
48822 GAGTGCTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.75
Consensus pattern (20 bp):
TTCTCTCTTTCTTTCTTTTC
Found at i:48841 original size:23 final size:25
Alignment explanation
Indices: 48810--48860 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
48800 TTCTTCTCTC
* *
48810 TTTTTTTC-TTTTG-AGTGCTTGAA
1 TTTTCTTCTTTTTGAAGTGCTTCAA
48833 TTTTCTTCTTTTTGAAGTGCTTCAA
1 TTTTCTTCTTTTTGAAGTGCTTCAA
48858 TTT
1 TTT
48861 CTTTTCTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.29
24 5 0.21
25 12 0.50
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.61
Consensus pattern (25 bp):
TTTTCTTCTTTTTGAAGTGCTTCAA
Found at i:54934 original size:2 final size:2
Alignment explanation
Indices: 54927--54959 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
54917 GATATCTTTG
*
54927 TA TA TA TA TA TA TA TA TA TA TA T- TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54960 GCTATGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:59612 original size:17 final size:16
Alignment explanation
Indices: 59583--59614 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
59573 GAAAAAACAC
59583 AAAAGAAAAGAAATTA
1 AAAAGAAAAGAAATTA
59599 AAAAGAAGAAGAAATT
1 AAAAGAA-AAGAAATT
59615 TCCAGCAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (16 bp):
AAAAGAAAAGAAATTA
Found at i:62875 original size:2 final size:2
Alignment explanation
Indices: 62868--62904 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
62858 TAATATCCTC
62868 AT AT AT AT AT AT A- ACT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A
62905 GTTATGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.94
3 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:65997 original size:15 final size:15
Alignment explanation
Indices: 65977--66019 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
65967 GCAATGGAAG
65977 AAGAAAGGAAATGAT
1 AAGAAAGGAAATGAT
65992 AAGAAAGGAAATGAT
1 AAGAAAGGAAATGAT
66007 AAGAAAGGAAATG
1 AAGAAAGGAAATG
66020 GAAAAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (15 bp):
AAGAAAGGAAATGAT
Found at i:66190 original size:15 final size:15
Alignment explanation
Indices: 66170--66205 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
66160 GAAATGGAAG
66170 AAGAAAGGAAAT-GA
1 AAGAAAGGAAATAGA
66184 TAAGAAAGGAAATAGA
1 -AAGAAAGGAAATAGA
66200 AAGAAA
1 AAGAAA
66206 TGATATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (15 bp):
AAGAAAGGAAATAGA
Found at i:66194 original size:26 final size:26
Alignment explanation
Indices: 66156--66210 Score: 78
Period size: 25 Copynumber: 2.1 Consensus size: 26
66146 GAAATATGAA
66156 ATAAGAAATGGAAGA-AGAAAGGAAATG
1 ATAAGAAATGGAA-ATAGAAA-GAAATG
66183 ATAAGAAA-GGAAATAGAAAGAAATG
1 ATAAGAAATGGAAATAGAAAGAAATG
66208 ATA
1 ATA
66211 TCAAAGTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 10 0.37
26 9 0.33
27 8 0.30
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.13
Consensus pattern (26 bp):
ATAAGAAATGGAAATAGAAAGAAATG
Found at i:66300 original size:178 final size:178
Alignment explanation
Indices: 65992--66324 Score: 549
Period size: 178 Copynumber: 1.9 Consensus size: 178
65982 AGGAAATGAT
* **
65992 AAGAAAGGAAATGATAAGAAAGGAAATGGAAAAAAATGATATCAAAGTAGGCTACGGAAGTGTTG
1 AAGAAAGGAAATGATAAGAAAGGAAATAGAAAAAAATGATATCAAAGTAGGCTACCCAAGTGTTG
* * **
66057 TATAATTATCCTTCAAGTGATGATGAATTCGGCCTCCAAATGATTTTACTGGATGTATACCTTGT
66 TATAATTATCCTTCAAGTGATGATGAATTCGGCCTCCAAATGATGTTACTAGACATATACCTTGT
* **
66122 TGATGAATGAAGGATGATTAAATGGAAATATGAAATAAGAAATGGAAG
131 TGATAAACAAAGGATGATTAAATGGAAATATGAAATAAGAAATGGAAG
*
66170 AAGAAAGGAAATGATAAGAAAGGAAATAGAAAGAAATGATATCAAAGTAGGCTACCCAAGTGTTG
1 AAGAAAGGAAATGATAAGAAAGGAAATAGAAAAAAATGATATCAAAGTAGGCTACCCAAGTGTTG
*
66235 TATAATTATCCTTCAAGTGATGATGAATTCGGCCTCCAAATGATGTTACTAGACATATGCCTTGT
66 TATAATTATCCTTCAAGTGATGATGAATTCGGCCTCCAAATGATGTTACTAGACATATACCTTGT
*
66300 TGATAAACAAAGGATGATTTAATGG
131 TGATAAACAAAGGATGATTAAATGG
66325 TGAAGAGATG
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
178 142 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (178 bp):
AAGAAAGGAAATGATAAGAAAGGAAATAGAAAAAAATGATATCAAAGTAGGCTACCCAAGTGTTG
TATAATTATCCTTCAAGTGATGATGAATTCGGCCTCCAAATGATGTTACTAGACATATACCTTGT
TGATAAACAAAGGATGATTAAATGGAAATATGAAATAAGAAATGGAAG
Found at i:71758 original size:13 final size:13
Alignment explanation
Indices: 71737--71784 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
71727 TGTAGGGGTA
71737 TTTTGTTTTTTCTTC
1 TTTT-TTTTTT-TTC
*
71752 TTTTTTTGTTTTTG
1 TTTTTTT-TTTTTC
71766 TTTTTTGTTTTTTC
1 TTTTTT-TTTTTTC
71780 TTTTT
1 TTTTT
71785 GTTGCAGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 21 0.72
15 8 0.28
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:71785 original size:13 final size:13
Alignment explanation
Indices: 71753--71787 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
71743 TTTTTCTTCT
71753 TTTTTTGTTTTTG
1 TTTTTTGTTTTTG
71766 TTTTTTGTTTTT-
1 TTTTTTGTTTTTG
71778 TCTTTTTGTT
1 T-TTTTTGTT
71788 GCAGCACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (13 bp):
TTTTTTGTTTTTG
Found at i:78345 original size:24 final size:24
Alignment explanation
Indices: 78295--78345 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
78285 TCACTTCAAG
* * *
78295 TTGAAGATTCAAGAAACATGTCTT
1 TTGAAGAATCAAGAAACATGACCT
* *
78319 TTGAAGAATCAATAGACATGACCT
1 TTGAAGAATCAAGAAACATGACCT
78343 TTG
1 TTG
78346 GATCCACAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (24 bp):
TTGAAGAATCAAGAAACATGACCT
Done.