Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004396.1 Hibiscus syriacus cultivar Beakdansim tig00009640_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: 127284
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Found at i:2161 original size:55 final size:55
Alignment explanation
Indices: 1911--2228 Score: 506
Period size: 55 Copynumber: 5.9 Consensus size: 55
1901 CCCACTACCA
*
1911 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACAC-AAGTGTCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
1965 ATACGGAAATTCATAAACTTATTATGAA-TT-TTAGTTTTGCACAAAAAGTGCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
*
2018 ATAC-AGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGTACACAAAGTGCCC
1 ATACGA-AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
*
2073 AAAC-AAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
2127 ATACGAAAATTCCTAAATTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
*
2182 ATACGAAAATTCATAAACTTATTA-AAATTTCTTAG-TTTGCACACAAA
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAA
2229 TGTCATTTGG
Statistics
Matches: 245, Mismatches: 14, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
52 13 0.05
53 47 0.19
54 90 0.37
55 95 0.39
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (55 bp):
ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:2165 original size:109 final size:110
Alignment explanation
Indices: 1911--2228 Score: 506
Period size: 109 Copynumber: 2.9 Consensus size: 110
1901 CCCACTACCA
* *
1911 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACAC-AAGTGTCCATACGGAAAT
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAAT
*
1975 TCATAAACTTATTATGAA-TT-TTAGTTTTGCACAAAAAGTGCCC
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
2018 ATAC-AGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGTACACAAAGTGCCCAAAC-AAAA
1 ATACGA-AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAA
2081 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
65 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
2127 ATACGAAAATTCCTAAATTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAAT
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAAT
*
2192 TCATAAACTTATTA-AAATTTCTTAG-TTTGCACACAAA
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAA
2229 TGTCATTTGG
Statistics
Matches: 195, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
106 1 0.01
107 65 0.33
108 24 0.12
109 85 0.44
110 20 0.10
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (110 bp):
ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAAT
TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:2588 original size:22 final size:22
Alignment explanation
Indices: 2570--2639 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
2560 CCATGGTATT
2570 GATACTTCTATACTATGGTACC
1 GATACTTCTATACTATGGTACC
*
2592 GATATCTTTCTAT-C-A--GTATC
1 GATA-C-TTCTATACTATGGTACC
* * *
2612 GATACTACTACACTATGGTACT
1 GATACTTCTATACTATGGTACC
2634 GATACT
1 GATACT
2640 CCCTTTTGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
18 4 0.11
19 2 0.05
20 9 0.24
22 14 0.38
23 2 0.05
24 6 0.16
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (22 bp):
GATACTTCTATACTATGGTACC
Found at i:9085 original size:18 final size:18
Alignment explanation
Indices: 9051--9086 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
9041 CGTAGTAAAA
9051 TAATAATTTTTAATATTT
1 TAATAATTTTTAATATTT
9069 TAAT-ATTTTTAATTATTT
1 TAATAATTTTTAA-TATTT
9087 ATTAGAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATAATTTTTAATATTT
Found at i:15920 original size:2 final size:2
Alignment explanation
Indices: 15915--15940 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15905 ACACACACAC
15915 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
15941 GTAATAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16392 original size:21 final size:22
Alignment explanation
Indices: 16359--16399 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
16349 TTAGAATTTT
* *
16359 AAAATTTTAATTTTAAAAAATA
1 AAAATATTAATTTAAAAAAATA
16381 AAAATATT-ATTTAAAAAAA
1 AAAATATTAATTTAAAAAAA
16400 CGATCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATATTAATTTAAAAAAATA
Found at i:20221 original size:23 final size:23
Alignment explanation
Indices: 20195--20239 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
20185 CACCACAGCT
*
20195 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
20218 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
20240 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:20382 original size:25 final size:25
Alignment explanation
Indices: 20347--20422 Score: 134
Period size: 25 Copynumber: 3.0 Consensus size: 25
20337 CAAAGAATAT
20347 ATATATATCCCGAAGGACCGCGTAGA
1 ATAT-TATCCCGAAGGACCGCGTAGA
20373 ATATTATCCCGAAGGACCGCGTAGA
1 ATATTATCCCGAAGGACCGCGTAGA
*
20398 ATATTGTCCCGAAGGACCGCGTAGA
1 ATATTATCCCGAAGGACCGCGTAGA
20423 CCCTCTACCC
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 45 0.92
26 4 0.08
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.20
Consensus pattern (25 bp):
ATATTATCCCGAAGGACCGCGTAGA
Found at i:20985 original size:21 final size:21
Alignment explanation
Indices: 20961--21003 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20951 TTCATATTCG
* *
20961 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
20982 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
21003 T
1 T
21004 AGCCCAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:27053 original size:23 final size:23
Alignment explanation
Indices: 27027--27071 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
27017 CACCACAGCT
* *
27027 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATACACCGAAGTGCCG
* *
27050 CGTAGAATTACACCGTAGTGCC
1 CGTAGAAATACACCGAAGTGCC
27072 ATATAATAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCG
Found at i:27216 original size:25 final size:25
Alignment explanation
Indices: 27181--27256 Score: 134
Period size: 25 Copynumber: 3.0 Consensus size: 25
27171 AAGAATATAT
27181 ATATATATCCCGAAGGACCGCGTAGA
1 ATAT-TATCCCGAAGGACCGCGTAGA
*
27207 ATATTGTCCCGAAGGACCGCGTAGA
1 ATATTATCCCGAAGGACCGCGTAGA
27232 ATATTATCCCGAAGGACCGCGTAGA
1 ATATTATCCCGAAGGACCGCGTAGA
27257 CCCTTTACCC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 44 0.92
26 4 0.08
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.20
Consensus pattern (25 bp):
ATATTATCCCGAAGGACCGCGTAGA
Found at i:27817 original size:21 final size:21
Alignment explanation
Indices: 27793--27835 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27783 TTCATATTCG
* *
27793 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
27814 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
27835 T
1 T
27836 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:28141 original size:17 final size:17
Alignment explanation
Indices: 28095--28134 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
28085 TATTCAAACT
28095 TCAAAAACTCATCCATA
1 TCAAAAACTCATCCATA
28112 TCAAAAACTCATCCATA
1 TCAAAAACTCATCCATA
28129 TCAAAA
1 TCAAAA
28135 TTTCATCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (17 bp):
TCAAAAACTCATCCATA
Found at i:28679 original size:21 final size:22
Alignment explanation
Indices: 28646--28687 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
28636 TTAAAATTTT
* *
28646 AAAATTTTAATTTTAAAAAATA
1 AAAATATTAATTTAAAAAAATA
28668 AAAATATT-ATTTAAAAAAAT
1 AAAATATTAATTTAAAAAAAT
28688 GGTCAAGTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATATTAATTTAAAAAAATA
Found at i:32007 original size:21 final size:22
Alignment explanation
Indices: 31974--32014 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
31964 TTAGAATTTT
* *
31974 AAAATTTTAATTTTAAAAAATA
1 AAAATATTAATTTAAAAAAATA
31996 AAAATATT-ATTTAAAAAAA
1 AAAATATTAATTTAAAAAAA
32015 CGGTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATATTAATTTAAAAAAATA
Found at i:35338 original size:21 final size:22
Alignment explanation
Indices: 35305--35345 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
35295 TTATAATTTT
* *
35305 AAAATTTTAATTTTAAAAAATA
1 AAAATATTAATTTAAAAAAATA
35327 AAAATATT-ATTTAAAAAAA
1 AAAATATTAATTTAAAAAAA
35346 ACGGTCAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATATTAATTTAAAAAAATA
Found at i:38643 original size:21 final size:22
Alignment explanation
Indices: 38610--38650 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38600 TTAGAATTTT
* *
38610 AAAATTTTAATTTTAAAAAATA
1 AAAATATTAATTTAAAAAAATA
38632 AAAATATT-ATTTAAAAAAA
1 AAAATATTAATTTAAAAAAA
38651 CGGTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATATTAATTTAAAAAAATA
Found at i:39222 original size:29 final size:29
Alignment explanation
Indices: 39189--39251 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
39179 ATAACGTTTG
* *
39189 TAATTTTAAACA-CCGTATAAGTCAAAAAA
1 TAATTTTAAACATCAG-ATAAATCAAAAAA
*
39218 TAA-TTTAGACATCAGATAAATCAAAAAA
1 TAATTTTAAACATCAGATAAATCAAAAAA
39246 TAATTT
1 TAATTT
39252 AAGTACTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.30
Consensus pattern (29 bp):
TAATTTTAAACATCAGATAAATCAAAAAA
Found at i:42706 original size:22 final size:22
Alignment explanation
Indices: 42659--42715 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
42649 TGAAATTTGT
* *
42659 CCCGAAGGACC--TGTGTATGT
1 CCCGAAGGACCTATGTCTATGC
*
42679 CTCGAAGGACCTATGTCTATGC
1 CCCGAAGGACCTATGTCTATGC
* *
42701 CCCGAATGAGCTATG
1 CCCGAAGGACCTATG
42716 AAACCCTCGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 10 0.34
22 19 0.66
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (22 bp):
CCCGAAGGACCTATGTCTATGC
Found at i:45521 original size:22 final size:22
Alignment explanation
Indices: 45493--45543 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
45483 GAGTATCAAG
*
45493 TAGCTCGTTAAGAATTTGAGTC
1 TAGCTCGTTAAGAATTCGAGTC
45515 TAGCTCGTTAAGAATTCGAGTC
1 TAGCTCGTTAAGAATTCGAGTC
45537 TAGCTCG
1 TAGCTCG
45544 AGTTCGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (22 bp):
TAGCTCGTTAAGAATTCGAGTC
Found at i:46794 original size:14 final size:14
Alignment explanation
Indices: 46775--46813 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
46765 TTCCTGATTT
46775 TAAAAATATATTAA
1 TAAAAATATATTAA
46789 TAAAAATA-A-TAA
1 TAAAAATATATTAA
46801 TATAAAATATATT
1 TA-AAAATATATT
46814 TTTATTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.23
13 7 0.32
14 9 0.41
15 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAAATATATTAA
Found at i:48140 original size:45 final size:45
Alignment explanation
Indices: 48076--48167 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
48066 TCGTGCGAAA
48076 TGGACATATCTCGATGGAATAAAATTCCGAGAGAACCTTCAGATC
1 TGGACATATCTCGATGGAATAAAATTCCGAGAGAACCTTCAGATC
48121 TGGACATATCTCGATGGAATAAAATTCCGAGAGAACCTTCAGATC
1 TGGACATATCTCGATGGAATAAAATTCCGAGAGAACCTTCAGATC
48166 TG
1 TG
48168 AAGTTTTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (45 bp):
TGGACATATCTCGATGGAATAAAATTCCGAGAGAACCTTCAGATC
Found at i:49060 original size:17 final size:17
Alignment explanation
Indices: 49034--49066 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
49024 TTTTGTTTTT
49034 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
49052 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
49067 TTTTGCAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:61930 original size:21 final size:21
Alignment explanation
Indices: 61904--61946 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
61894 TTTCTGGGTT
* *
61904 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
61925 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
61946 A
1 A
61947 CGAAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:62059 original size:68 final size:68
Alignment explanation
Indices: 61926--62078 Score: 211
Period size: 68 Copynumber: 2.2 Consensus size: 68
61916 ACCCATTCAA
* * *
61926 GGGGAACCGATACCCCTTCAACGAAATGAATTTCCAGAATGCAAGAGGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAACCGATACCCCCAG
61991 GGG
66 GGG
* * *
61994 GGGGAACCGATACCCCCTCATCGTATAA-GAAATTCCAGAATGCCATAGGGGAACCGATA-CCCC
1 GGGGAACCGATACCCCCTCAACG-A-AATGAAATTCCAGAATGCAAGAGGGGAACCGATACCCCC
62057 AGGGG
64 AGGGG
*
62062 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
62079 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
68 46 0.61
69 28 0.37
70 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.14
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAACCGATACCCCCAG
GGG
Found at i:62415 original size:29 final size:29
Alignment explanation
Indices: 62381--62452 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
62371 CATATTATGA
** *
62381 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAACGTAT
*
62410 TACATGACATGAATTCATATTATACGTAT
1 TACATGACATGAATTCATATTAAACGTAT
62439 TACATGACATGAAT
1 TACATGACATGAAT
62453 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAACGTAT
Found at i:62820 original size:22 final size:22
Alignment explanation
Indices: 62746--62812 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
62736 TTATGGACAT
62746 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
*
62768 AATTCTACGGGCACTTCTGTGC
1 AATTCTACGGGCACTTCGGTGC
62790 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
62812 A
1 A
62813 TTTATACGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.28
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:68873 original size:21 final size:21
Alignment explanation
Indices: 68847--68889 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
68837 TTTCTGGGTT
* *
68847 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
68868 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
68889 A
1 A
68890 CGAAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:68971 original size:67 final size:66
Alignment explanation
Indices: 68869--69017 Score: 203
Period size: 67 Copynumber: 2.2 Consensus size: 66
68859 ACCCATTCAA
* *
68869 GGGGAACCGATACCCCTTCAACGAAATGAATTTCCAGAATGCAAGAGGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCTTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAACCGATA-CCCCAG
68934 GG
65 GG
* * *
68936 GGGGAACCGATACCCC-TCATCGTATAA-GAAATTCCAGAATGCCATAGGGGAACCGATACCCCA
1 GGGGAACCGATACCCCTTCAACG-A-AATGAAATTCCAGAATGCAAGAGGGGAACCGATACCCCA
68999 GGG
64 GGG
*
69002 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
69018 CATGAGAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
66 28 0.38
67 44 0.59
68 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.27, T:0.15
Consensus pattern (66 bp):
GGGGAACCGATACCCCTTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAACCGATACCCCAGG
G
Found at i:69353 original size:28 final size:29
Alignment explanation
Indices: 69321--69391 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
69311 CATATTATGA
** *
69321 TACATGACATGAATTTGTATTA-ATGTAT
1 TACATGACATGAATTCATATTATACGTAT
69349 TACATGACATGAATTCATATTATACGTAT
1 TACATGACATGAATTCATATTATACGTAT
69378 TACATGACATGAAT
1 TACATGACATGAAT
69392 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 20 0.51
29 19 0.49
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (29 bp):
TACATGACATGAATTCATATTATACGTAT
Found at i:69448 original size:30 final size:29
Alignment explanation
Indices: 69405--69482 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
69395 CAGAAAAAGT
*
69405 TATATGCACTATGTGATAAAGGTATGTAAA
1 TATATGC-CTATGTGATAAAGGTATGGAAA
* *
69435 TGATATGCCTATGTGTTAAAGTTATGGAAA
1 T-ATATGCCTATGTGATAAAGGTATGGAAA
* *
69465 TACTATGTCTACGTGATA
1 TA-TATGCCTATGTGATA
69483 TGAACTACGG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 1 0.03
30 33 0.82
31 6 0.15
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.36
Consensus pattern (29 bp):
TATATGCCTATGTGATAAAGGTATGGAAA
Found at i:69712 original size:22 final size:22
Alignment explanation
Indices: 69684--69728 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
69674 TTATGGACAT
69684 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
69706 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
69728 A
1 A
69729 TTTATACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:69736 original size:22 final size:22
Alignment explanation
Indices: 69684--69736 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
69674 TTATGGACAT
*
69684 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
69706 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
69728 ATTTATACG
1 AATTATACG
69737 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (22 bp):
AATTATACGGGCACTTCGGTGC
Found at i:75804 original size:27 final size:27
Alignment explanation
Indices: 75769--75820 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
75759 TGTCACTATT
* *
75769 GTCACATAGTATTGAATTGCGGTTGTC
1 GTCACATAGTACTAAATTGCGGTTGTC
* *
75796 GTCATATAGTACTAAATTGCTGTTG
1 GTCACATAGTACTAAATTGCGGTTG
75821 CTGATGTCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (27 bp):
GTCACATAGTACTAAATTGCGGTTGTC
Found at i:84685 original size:2 final size:2
Alignment explanation
Indices: 84678--84719 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
84668 ACCATTAATA
84678 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
84720 TGGTCACTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88242 original size:6 final size:6
Alignment explanation
Indices: 88231--88256 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
88221 TCTCTCCGGT
88231 TCTGTC TCTGTC TCTGTC TCTGTC TC
1 TCTGTC TCTGTC TCTGTC TCTGTC TC
88257 CTTTTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (6 bp):
TCTGTC
Found at i:88731 original size:3 final size:3
Alignment explanation
Indices: 88723--88798 Score: 127
Period size: 3 Copynumber: 25.7 Consensus size: 3
88713 TTAATATATT
*
88723 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
88770 TAA TAA TAA TAA TAA TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
88799 TGGATAAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 66 0.97
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:89436 original size:119 final size:118
Alignment explanation
Indices: 88953--89600 Score: 1096
Period size: 118 Copynumber: 5.5 Consensus size: 118
88943 TTCTCCAGAT
* ** * * *
88953 GAGTTCTTCTCATTACGAACT-TT-CTGCTGGGGATGATGTTCCATCAAATGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCT-CTGGAAAAGATGATCCATCAAGTGATGAATTCAAGCA
89016 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* *
89070 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAAGCAA
89135 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
89188 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAAGCAA
89253 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
89306 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGATTGATCCATCAAGTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGA-TGATCCATCAAGTGATGAATTCAAGCA
89371 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
89425 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGATTTATCCATCAAGTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGA-TGATCCATCAAGTGATGAATTCAAGCA
89490 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTT-TTCCTTCTTCAGAT---
65 AAAGGTTGAACAAGTTCTTCTCATTATGAACTT-CTTCTTCCTTCTTCAGATGAC
*
89541 GAGTTCTTCTCATTATGAACT-TT-CTCTGGAAAAGAATGATCCATCAAGTGATGGATTCAA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAG-ATGATCCATCAAGTGATGAATTCAA
89601 ATCTTTGCTA
Statistics
Matches: 516, Mismatches: 10, Indels: 13
0.96 0.02 0.02
Matches are distributed among these distances:
114 33 0.06
115 3 0.01
116 21 0.04
117 20 0.04
118 242 0.47
119 194 0.38
120 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (118 bp):
GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAAGCAA
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
Found at i:90376 original size:50 final size:50
Alignment explanation
Indices: 90316--90517 Score: 368
Period size: 50 Copynumber: 4.0 Consensus size: 50
90306 CAATGATTGG
* *
90316 TTCTGCCAAACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
1 TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
90366 TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
1 TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
*
90416 TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
1 TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
*
90466 TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
1 TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
90516 TT
1 TT
90518 AGTCTCTTTC
Statistics
Matches: 149, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 149 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (50 bp):
TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
Found at i:91684 original size:14 final size:12
Alignment explanation
Indices: 91650--91722 Score: 73
Period size: 12 Copynumber: 6.1 Consensus size: 12
91640 CTTGACCCCC
91650 TTTC-TTTTTCT
1 TTTCTTTTTTCT
*
91661 TCTCTTTTTTTCAT
1 TTTC-TTTTTTC-T
91675 TTTCTATTTTTTCT
1 TTTC--TTTTTTCT
91689 TTTCTTTTTTCT
1 TTTCTTTTTTCT
91701 TTTC---TTTCT
1 TTTCTTTTTTCT
91710 TTTCTTTTTTCT
1 TTTCTTTTTTCT
91722 T
1 T
91723 CAAGCATAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
9 9 0.17
11 3 0.06
12 18 0.35
13 6 0.12
14 9 0.17
15 7 0.13
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTTCT
Found at i:91693 original size:5 final size:5
Alignment explanation
Indices: 91650--91717 Score: 54
Period size: 5 Copynumber: 13.6 Consensus size: 5
91640 CTTGACCCCC
* *
91650 TTTCT TTT-T CTTCT CTTT-T TTTCAT TTTCT ATT-T TTTCT TTTCTTT
1 TTTCT TTTCT TTTCT -TTTCT TTTC-T TTTCT TTTCT TTTCT TTTC--T
91696 TTTCT TTTC- TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTT
91718 TTCTTCAAGC
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
4 13 0.25
5 26 0.51
6 7 0.14
7 5 0.10
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:91698 original size:21 final size:21
Alignment explanation
Indices: 91650--91722 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
91640 CTTGACCCCC
*
91650 TTTC-TTTTTCTTCTCTTT-T
1 TTTCTTTTTTCTTTTCTTTCT
*
91669 TTTC-ATTTTCTATTT-TTTCT
1 TTTCTTTTTTCT-TTTCTTTCT
91689 TTTCTTTTTTCTTTTCTTTCT
1 TTTCTTTTTTCTTTTCTTTCT
91710 TTTCTTTTTTCTT
1 TTTCTTTTTTCTT
91723 CAAGCATAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 13 0.28
20 10 0.21
21 24 0.51
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTCTTTTTTCTTTTCTTTCT
Found at i:91722 original size:28 final size:28
Alignment explanation
Indices: 91649--91718 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 28
91639 CCTTGACCCC
*
91649 CTTTCTTTT-TCTTCTCTTTTTTTCATTTT
1 CTTTCTTTTCT-TTTTC-TTTTTTCATTTT
91678 CTATT-TTTTC-TTTTCTTTTTTC-TTTT
1 CT-TTCTTTTCTTTTTCTTTTTTCATTTT
91704 CTTTCTTTTCTTTTT
1 CTTTCTTTTCTTTTT
91719 TCTTCAAGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
25 2 0.06
26 11 0.31
27 11 0.31
28 4 0.11
29 6 0.17
30 2 0.06
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.79
Consensus pattern (28 bp):
CTTTCTTTTCTTTTTCTTTTTTCATTTT
Found at i:104011 original size:6 final size:6
Alignment explanation
Indices: 104000--104025 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
103990 TCTCTCCGGT
104000 TCTGTC TCTGTC TCTGTC TCTGTC TC
1 TCTGTC TCTGTC TCTGTC TCTGTC TC
104026 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (6 bp):
TCTGTC
Found at i:104498 original size:3 final size:3
Alignment explanation
Indices: 104490--104568 Score: 133
Period size: 3 Copynumber: 26.7 Consensus size: 3
104480 TTAATATATT
*
104490 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
104537 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
104569 TGGATAAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 69 0.97
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:105583 original size:14 final size:14
Alignment explanation
Indices: 105564--105594 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
105554 AGAGATAGGA
*
105564 AGAAGAAGAAGAGG
1 AGAAGAAGAAGAAG
105578 AGAAGAAGAAGAAG
1 AGAAGAAGAAGAAG
105592 AGA
1 AGA
105595 CATGCATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAAGAAG
Found at i:111407 original size:13 final size:13
Alignment explanation
Indices: 111389--111423 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
111379 CACCATCTTA
111389 TACACATCAGCTT
1 TACACATCAGCTT
*
111402 TACACATAAGCTT
1 TACACATCAGCTT
111415 TACACATCA
1 TACACATCA
111424 ACTACATTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.29
Consensus pattern (13 bp):
TACACATCAGCTT
Found at i:116391 original size:14 final size:14
Alignment explanation
Indices: 116374--116409 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
116364 CTGCCTACAT
116374 ACATCAGCCTATAC
1 ACATCAGCCTATAC
116388 ACATCAGCCTATAC
1 ACATCAGCCTATAC
116402 ACATCAGC
1 ACATCAGC
116410 TACATTGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.36, G:0.08, T:0.19
Consensus pattern (14 bp):
ACATCAGCCTATAC
Found at i:123933 original size:30 final size:30
Alignment explanation
Indices: 123872--124149 Score: 440
Period size: 30 Copynumber: 9.4 Consensus size: 30
123862 TTCGAAGGAC
* * *
123872 CTATCCAGATGTCACAAAGATCATC-GTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
123901 CTATCCAGAGGTCATGAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
123931 CTATCCAGAGGTCATAAAGATCCTC---AA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
123958 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
123988 CTATCCAGAGGTCAT-AAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* * *
124017 CTATCCACAGGTTATAAAGATCATCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
124047 CTATCCACAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
124077 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
124107 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
124137 CTATCCATAGGTC
1 CTATCCAGAGGTC
124150 CCGAGGAACC
Statistics
Matches: 232, Mismatches: 12, Indels: 9
0.92 0.05 0.04
Matches are distributed among these distances:
27 27 0.12
29 48 0.21
30 157 0.68
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:125362 original size:64 final size:63
Alignment explanation
Indices: 125294--125415 Score: 149
Period size: 64 Copynumber: 1.9 Consensus size: 63
125284 GCAGTACACG
* * *
125294 TGCATCAATGTACAAA-T-CATCTTCGATGTTTTCATTTTAAGGGGATGCATCGATGCACTCCTT
1 TGCATCAATGCACAAATTGCA--TTCGATGTTTCCATTTTAAGAGG-TGCATCGATGCACTCCTT
125357 A
63 A
* * *
125358 TGCATCGATGCACCAATTGCATTCGATGTTTCCATTTTAATAGGTGCATCGATGCACT
1 TGCATCAATGCACAAATTGCATTCGATGTTTCCATTTTAAGAGGTGCATCGATGCACT
125416 TCCTGTGCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
63 14 0.28
64 33 0.66
65 1 0.02
66 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (63 bp):
TGCATCAATGCACAAATTGCATTCGATGTTTCCATTTTAAGAGGTGCATCGATGCACTCCTTA
Done.