Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005164.1 Hibiscus syriacus cultivar Beakdansim tig00011649_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: 39162
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:3208 original size:84 final size:84
Alignment explanation
Indices: 3067--3235 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
3057 AGTAACTTGT
3067 TTGCGCTACTTCTAGCCTTCCTTTCTGTTTTCTCCATTGCCTCTGTGCCATTGTTCACTACATGA
1 TTGCGCTACTTCTAGCCTTCCTTTCTGTTTTCTCCATTGCCTCTGTGCCATTGTTCACTACATGA
3132 CTCCGTAAAGCCTCAGCCG
66 CTCCGTAAAGCCTCAGCCG
3151 TTGCGCTACTTCTAGCCTTCCTTTCTGTTTTCTCCATTGCCTCTGTGCCATTGTTCACTACATGA
1 TTGCGCTACTTCTAGCCTTCCTTTCTGTTTTCTCCATTGCCTCTGTGCCATTGTTCACTACATGA
3216 CTCCGTAAAGCCTCAGCCG
66 CTCCGTAAAGCCTCAGCCG
3235 T
1 T
3236 GTCTTTCGCC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.14, C:0.33, G:0.15, T:0.37
Consensus pattern (84 bp):
TTGCGCTACTTCTAGCCTTCCTTTCTGTTTTCTCCATTGCCTCTGTGCCATTGTTCACTACATGA
CTCCGTAAAGCCTCAGCCG
Found at i:4094 original size:27 final size:26
Alignment explanation
Indices: 4034--4111 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
4024 TATTTTGTAT
* * *
4034 TAAT-AATTTATTTTATTTTTTAAATG
1 TAATAAATTTA-TTTATTATTAAAATA
*
4060 TAATAAATTTATTTATTCTTAAAATA
1 TAATAAATTTATTTATTATTAAAATA
* *
4086 TTATAAAATCATATTTATTATTAAAA
1 TAAT-AAAT-TTATTTATTATTAAAA
4112 ATTCATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 19 0.44
27 10 0.23
28 14 0.33
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.53
Consensus pattern (26 bp):
TAATAAATTTATTTATTATTAAAATA
Found at i:4168 original size:15 final size:15
Alignment explanation
Indices: 4148--4195 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
4138 TTGTCGTGAT
*
4148 TAATTTTCTATAAAA
1 TAATTTTATATAAAA
*
4163 TAA-TTTATTTAAAAA
1 TAATTTTATAT-AAAA
*
4178 TTATTTTATATAAAA
1 TAATTTTATATAAAA
4193 TAA
1 TAA
4196 GTAAAATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 5 0.19
15 15 0.58
16 6 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATTTTATATAAAA
Found at i:4215 original size:39 final size:39
Alignment explanation
Indices: 4158--4234 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
4148 TAATTTTCTA
* *
4158 TAAAATAATTTATTTAAAAA-TTATTTTATATAAAATAAG
1 TAAAATAAATTATATAAAAACTT-TTTTATATAAAATAAG
*
4197 TAAAATAAATTATATAAAAACTTTTTTATGTAAAATAA
1 TAAAATAAATTATATAAAAACTTTTTTATATAAAATAA
4235 ATTATCTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.42
Consensus pattern (39 bp):
TAAAATAAATTATATAAAAACTTTTTTATATAAAATAAG
Found at i:4261 original size:30 final size:30
Alignment explanation
Indices: 4197--4262 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
4187 ATAAAATAAG
* **
4197 TAAAATAAATTATATAAAAACTTTTTTATG
1 TAAAATAAATTATATAAAAACTTATTTACA
*
4227 TAAAATAAATTATCTAAAAA-TTAATTTACA
1 TAAAATAAATTATATAAAAACTT-ATTTACA
4257 TAAAAT
1 TAAAAT
4263 GGATTATGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (30 bp):
TAAAATAAATTATATAAAAACTTATTTACA
Found at i:9215 original size:36 final size:38
Alignment explanation
Indices: 9155--9231 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 38
9145 TTTTTATATT
9155 TTTAATTTTGTAAAAAAAATTATATAAATATTATA-AA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATACAA
* *
9192 TTTAATTTTTTAAAAAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATACAA
9229 TTT
1 TTT
9232 GTAATATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 14 0.38
37 23 0.62
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (38 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATACAA
Found at i:9915 original size:6 final size:6
Alignment explanation
Indices: 9904--9948 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
9894 GACACGTATT
9904 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
9949 CGAGACGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:10740 original size:21 final size:21
Alignment explanation
Indices: 10678--10825 Score: 96
Period size: 19 Copynumber: 7.1 Consensus size: 21
10668 ACCACTCGTT
10678 ACGAATTTGGAATAAATCGCA
1 ACGAATTTGGAATAAATCGCA
* * * *
10699 ACGCGAACTTAGACT--ACCGCA
1 A--CGAATTTGGAATAAATCGCA
*
10720 ACGAATTTGTAATAAATCGCA
1 ACGAATTTGGAATAAATCGCA
* *
10741 ACGCGAACTTGGACT--ATCGCA
1 A--CGAATTTGGAATAAATCGCA
*
10762 ACAAATTTGGAATAAATCGCA
1 ACGAATTTGGAATAAATCGCA
* *
10783 ACGCGAACTTGGACT--ATCGCA
1 A--CGAATTTGGAATAAATCGCA
10804 ACGAATTTGG-A-AAATCGCA
1 ACGAATTTGGAATAAATCGCA
10823 ACG
1 ACG
10826 CGTACTTCGA
Statistics
Matches: 95, Mismatches: 20, Indels: 26
0.67 0.14 0.18
Matches are distributed among these distances:
19 34 0.36
21 34 0.36
23 27 0.28
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (21 bp):
ACGAATTTGGAATAAATCGCA
Found at i:10843 original size:21 final size:21
Alignment explanation
Indices: 10693--10850 Score: 112
Period size: 21 Copynumber: 7.6 Consensus size: 21
10683 TTTGGAATAA
*
10693 ATCGCAACGCGAACTTAGACT
1 ATCGCAACGCGAACTTGGACT
* * * *
10714 ACCGCAA--CGAATTTGTAAT
1 ATCGCAACGCGAACTTGGACT
10733 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
* * *
10756 ATCGCAA--CAAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
10775 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
* **
10798 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
* *
10817 ATCGCAACGCGTACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
10838 ATCGCAATGCGAA
1 ATCGCAACGCGAA
10851 TCACAACGCG
Statistics
Matches: 102, Mismatches: 25, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
19 33 0.32
21 51 0.50
23 18 0.18
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:10851 original size:42 final size:42
Alignment explanation
Indices: 10678--10844 Score: 266
Period size: 42 Copynumber: 4.0 Consensus size: 42
10668 ACCACTCGTT
* *
10678 ACGAATTTGGAATAAATCGCAACGCGAACTTAGACTACCGCA
1 ACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCA
*
10720 ACGAATTTGTAATAAATCGCAACGCGAACTTGGACTATCGCA
1 ACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCA
*
10762 ACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCA
1 ACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCA
* *
10804 ACGAATTTGG-A-AAATCGCAACGCGTACTTCGACTATCGCA
1 ACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCA
10844 A
1 A
10845 TGCGAATCAC
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 28 0.24
41 1 0.01
42 88 0.75
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (42 bp):
ACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCA
Found at i:10866 original size:33 final size:33
Alignment explanation
Indices: 10816--10883 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
10806 GAATTTGGAA
* * *
10816 AATCGCAACGCGTACTTCGACTATCGCAATGCG
1 AATCACAACGCGAACTTCGACTATCGCAACGCG
10849 AATCACAACGCGAACTTCGACTATCGCAACGCG
1 AATCACAACGCGAACTTCGACTATCGCAACGCG
10882 AA
1 AA
10884 CTTAGACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (33 bp):
AATCACAACGCGAACTTCGACTATCGCAACGCG
Found at i:10880 original size:21 final size:21
Alignment explanation
Indices: 10854--10896 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10844 ATGCGAATCA
*
10854 CAACGCGAACTTCGACTATCG
1 CAACGCGAACTTAGACTATCG
10875 CAACGCGAACTTAGACTATCG
1 CAACGCGAACTTAGACTATCG
10896 C
1 C
10897 GATAGTCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (21 bp):
CAACGCGAACTTAGACTATCG
Found at i:11991 original size:20 final size:19
Alignment explanation
Indices: 11968--12013 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
11958 CGATATACCA
11968 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
11988 GGTAACAAAATGATAAAACT
1 GGTAA-AAAATGATAAAACC
12008 GGTAAA
1 GGTAAA
12014 TTTAAAAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:14452 original size:21 final size:21
Alignment explanation
Indices: 14405--14469 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
14395 AAGACAATCA
* *
14405 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
14427 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
14447 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
14468 AG
1 AG
14470 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:16401 original size:18 final size:19
Alignment explanation
Indices: 16358--16405 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
16348 AATGTCGAGT
16358 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
16377 TAATTTTGTATACGA-TTA
1 TAATTTTGTATAAGATTTA
*
16395 TATTTTTGTAT
1 TAATTTTGTAT
16406 GTGAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:16942 original size:200 final size:199
Alignment explanation
Indices: 16524--17892 Score: 2507
Period size: 200 Copynumber: 6.9 Consensus size: 199
16514 CAATATGGCC
* * *
16524 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* *
16589 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
*
16654 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGA
16719 ATGGAA
194 ATGGAA
*
16725 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
16790 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
16855 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCCAGAATGAA
**
16920 TTAAA
195 TGGAA
16925 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
16990 AAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
17055 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCCAGAATGAA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCCAGAATGAA
17120 TGGAA
195 TGGAA
17125 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
17190 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
17255 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCAATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
17320 GGAA
196 GGAA
17324 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
17388 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
17452 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCCAGAATGAA
**
17517 TTAAA
195 TGGAA
17522 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
17587 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
17652 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
17717 GG-A
196 GGAA
17720 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
17784 C-AAAGTA-AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
17847 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
17893 CTAATTTAAA
Statistics
Matches: 1142, Mismatches: 22, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
195 102 0.09
196 6 0.01
197 121 0.11
198 137 0.12
199 219 0.19
200 522 0.46
201 35 0.03
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
GGAA
Found at i:17569 original size:397 final size:398
Alignment explanation
Indices: 16524--17892 Score: 2523
Period size: 397 Copynumber: 3.4 Consensus size: 398
16514 CAATATGGCC
* * *
16524 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG--A
*
16589 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAGTTTTATGAG
63 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
16654 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATG
128 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATG
*
16718 AATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
193 AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
16783 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
258 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
*
16848 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCA
323 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCCA
**
16913 GAATGAATTAAA
387 GAATGAATGGAA
16925 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
16990 AAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 -AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
17055 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCCAGAATGAA
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAA
17120 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
17185 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
260 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
*
17250 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCAATATTTTTTTCCCAGAA
325 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAA
17315 TGAATGGAA
390 TGAATGGAA
17324 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
17388 CAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAAA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
17453 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAAT
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAAT
**
17518 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
17583 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
17648 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
17713 GAATGG-A
391 GAATGGAA
17720 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
17784 CAAAGTA-AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
17848 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
17893 CTAATTTAAA
Statistics
Matches: 948, Mismatches: 17, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
395 101 0.11
396 56 0.06
397 340 0.36
398 33 0.03
399 164 0.17
400 220 0.23
401 34 0.04
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (398 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAAT
GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
GAATGGAA
Found at i:19368 original size:6 final size:6
Alignment explanation
Indices: 19344--19441 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
19334 AGCGGTCGCA
* * * * * *
19344 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GAGGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
19392 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
19440 GA
1 GA
19442 TGATCCAAAC
Statistics
Matches: 73, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.37, C:0.07, G:0.36, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:19394 original size:42 final size:42
Alignment explanation
Indices: 19347--19437 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
19337 GGTCGCAGAA
*
19347 GATGAAGCTGACGATGAAGATGACGATGATGATGAGGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAGGATGAC
* * * *
19389 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAGGATGAC
19431 GATGAAG
1 GATGAAG
19438 ATGATGATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.08, G:0.36, T:0.21
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAGGATGAC
Found at i:19445 original size:18 final size:18
Alignment explanation
Indices: 19344--19441 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
19334 AGCGGTCGCA
* *
19344 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
19362 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
19380 GAGGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
19398 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
19416 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
19434 GAAGATGA
1 GAAGATGA
19442 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.36, T:0.20
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:21214 original size:184 final size:184
Alignment explanation
Indices: 20905--21248 Score: 589
Period size: 184 Copynumber: 1.9 Consensus size: 184
20895 CTTTCAACAT
* *
20905 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
* *
20970 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
*
21035 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
** * * *
21089 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
21154 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
21219 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACCATTTAAAAAAGTGTCG
21249 GTAATTTGAA
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 149 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (184 bp):
ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:23744 original size:25 final size:25
Alignment explanation
Indices: 23710--23774 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
23700 TTATCATTAA
23710 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
* ****
23735 ATTTATGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
23760 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
23775 TCTTTTGAGT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:24091 original size:23 final size:23
Alignment explanation
Indices: 24060--24123 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
24050 ATAGGTAAAC
*
24060 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
24083 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
24106 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
24124 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:24130 original size:23 final size:23
Alignment explanation
Indices: 24060--24132 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
24050 ATAGGTAAAC
* **
24060 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
24083 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
24106 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
24129 ATAT
1 ATAT
24133 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:24433 original size:25 final size:25
Alignment explanation
Indices: 24399--24449 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
24389 ACAACAAATC
*
24399 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
24424 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
24449 A
1 A
24450 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:24764 original size:18 final size:18
Alignment explanation
Indices: 24743--24779 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24733 GTAATTGGAG
24743 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
24761 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
24779 T
1 T
24780 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:24787 original size:24 final size:24
Alignment explanation
Indices: 24735--24781 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24725 TTTCATATGT
* *
24735 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
24759 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
24782 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:25119 original size:38 final size:39
Alignment explanation
Indices: 25036--25121 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
25026 TCCGATGCTC
*
25036 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
25075 ATCAAAATCCAAATCTCATATGATGCCAAGC-AAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
25113 ATCAAAATC
1 ATCAAAATC
25122 TACAACTTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 16 0.36
39 29 0.64
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:25556 original size:23 final size:23
Alignment explanation
Indices: 25525--25588 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
25515 ATAGGTAAAC
*
25525 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* * **
25548 ATATAATGTAAAAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
25571 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
25589 TGGTTATATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:25595 original size:23 final size:23
Alignment explanation
Indices: 25525--25597 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
25515 ATAGGTAAAC
* **
25525 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
25548 ATATAATGTAAAAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
25571 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
25594 ATAT
1 ATAT
25598 TGTAAAGTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
23 40 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:28110 original size:21 final size:21
Alignment explanation
Indices: 28084--28124 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
28074 TTCACAAATA
28084 CTCCTTCAACTCTACCTTTTT
1 CTCCTTCAACTCTACCTTTTT
28105 CTCCTTCAACTCTACCTTTT
1 CTCCTTCAACTCTACCTTTT
28125 ATTTAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.39, G:0.00, T:0.46
Consensus pattern (21 bp):
CTCCTTCAACTCTACCTTTTT
Found at i:31826 original size:22 final size:23
Alignment explanation
Indices: 31774--31828 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
31764 TTTATTTATA
*
31774 TATATTATATTTAATATTTTAACT
1 TATATTAT-TTTAATATTATAACT
* *
31798 T-TTTTATTTTCATATTATAA-T
1 TATATTATTTTAATATTATAACT
31819 TATATTATTT
1 TATATTATTT
31829 AATTGTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 18 0.69
23 5 0.19
24 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TATATTATTTTAATATTATAACT
Found at i:31828 original size:36 final size:35
Alignment explanation
Indices: 31757--31824 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
31747 CCCAACCCGG
*
31757 TTAATTTTTTATTTATATATATTATATTTAATATT
1 TTAATTTTTTATTTATACATATTATATTTAATATT
*
31792 TTAACTTTTTTATTT-T-CATATTATAATT-ATATT
1 TTAA-TTTTTTATTTATACATATTATATTTAATATT
31825 ATTTAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.17
34 10 0.33
35 5 0.17
36 10 0.33
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (35 bp):
TTAATTTTTTATTTATACATATTATATTTAATATT
Found at i:31858 original size:12 final size:12
Alignment explanation
Indices: 31841--31866 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31831 TTGTTAAAAA
31841 TATAAAAAATAT
1 TATAAAAAATAT
31853 TATAAAAAATAT
1 TATAAAAAATAT
31865 TA
1 TA
31867 ATTTAATCAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATAAAAAATAT
Found at i:31905 original size:42 final size:41
Alignment explanation
Indices: 31820--31905 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 41
31810 TATTATAATT
** *
31820 ATATTATTTAATTGTTAAAAATATAAAAAATATTATAAAAA
1 ATATTATTTAATCATTAAAAATATAAAAAATATAATAAAAA
* *
31861 ATATTAATTTAATCATTTAAAATATAATAAATA-AATAAATAA
1 ATATT-ATTTAATCATTAAAAATATAAAAAATATAATAAA-AA
31903 ATA
1 ATA
31906 CAAAACATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 10 0.26
42 28 0.74
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (41 bp):
ATATTATTTAATCATTAAAAATATAAAAAATATAATAAAAA
Found at i:33980 original size:28 final size:28
Alignment explanation
Indices: 33948--34023 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
33938 CATATTTTTT
*
33948 TAATTAATTTGAATAATAGCATAATAAA
1 TAATTAATTTGAATAATAGCAGAATAAA
33976 TAATTAATTTGAATAATAGCAGAATAAA
1 TAATTAATTTGAATAATAGCAGAATAAA
*
34004 TAATTAATTTGAATTATAGC
1 TAATTAATTTGAATAATAGC
34024 TCATATATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (28 bp):
TAATTAATTTGAATAATAGCAGAATAAA
Found at i:34190 original size:26 final size:26
Alignment explanation
Indices: 34161--34210 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
34151 GTCAATAATT
34161 TTTTTTAAAATATATAAA-ATTTATAA
1 TTTTTTAAAATATA-AAATATTTATAA
*
34187 TTTTTTAAATTATAAAATATTTAT
1 TTTTTTAAAATATAAAATATTTAT
34211 TATTATCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTTTTAAAATATAAAATATTTATAA
Found at i:38417 original size:13 final size:13
Alignment explanation
Indices: 38401--38430 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
38391 GTTCATAGTG
38401 CTGTTTCACGGTA
1 CTGTTTCACGGTA
38414 CTG-TTCACGGTA
1 CTGTTTCACGGTA
38426 CTGTT
1 CTGTT
38431 CATACCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.40
Consensus pattern (13 bp):
CTGTTTCACGGTA
Found at i:38420 original size:12 final size:12
Alignment explanation
Indices: 38405--38432 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38395 ATAGTGCTGT
38405 TTCACGGTACTG
1 TTCACGGTACTG
38417 TTCACGGTACTG
1 TTCACGGTACTG
38429 TTCA
1 TTCA
38433 TACCATATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (12 bp):
TTCACGGTACTG
Done.