Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004641.1 Hibiscus syriacus cultivar Beakdansim tig00010395_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: 114373
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:7936 original size:23 final size:24
Alignment explanation
Indices: 7884--7939 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
7874 TGTTATAAGA
*
7884 TATATGATATGAACATAAGATATGT
1 TATATGA-ATGAACATAAAATATGT
7909 T-TATGAATGAA-A-AAAATATGTT
1 TATATGAATGAACATAAAATATG-T
7931 TATATGAAT
1 TATATGAAT
7940 ATGAGAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 7 0.25
22 3 0.11
23 12 0.43
24 5 0.18
25 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (24 bp):
TATATGAATGAACATAAAATATGT
Found at i:8165 original size:18 final size:18
Alignment explanation
Indices: 8142--8176 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8132 AAGGTTCTAC
*
8142 GTGGTCCTTCGGGACATA
1 GTGGTCATTCGGGACATA
8160 GTGGTCATTCGGGACAT
1 GTGGTCATTCGGGACAT
8177 TTCTATGCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (18 bp):
GTGGTCATTCGGGACATA
Found at i:8209 original size:25 final size:23
Alignment explanation
Indices: 8162--8209 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8152 GGGACATAGT
*
8162 GGTCATTCGGGACATTTCTATGC
1 GGTCATTCGGGACATTTATATGC
*
8185 GGTCATTTGGGACAAATTTATATGC
1 GGTCATTCGGGAC--ATTTATATGC
8210 CCCTAGTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
25 9 0.43
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (23 bp):
GGTCATTCGGGACATTTATATGC
Found at i:13500 original size:19 final size:19
Alignment explanation
Indices: 13478--13530 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
13468 GCTATGAACT
13478 TGAAAATAAGGTATGAATA
1 TGAAAATAAGGTATGAATA
* *
13497 TGAAATTAA-GTAATGAATC
1 TGAAAATAAGGT-ATGAATA
*
13516 TG-AAATAAGTTATGA
1 TGAAAATAAGGTATGA
13531 GTCCGGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.49, C:0.02, G:0.19, T:0.30
Consensus pattern (19 bp):
TGAAAATAAGGTATGAATA
Found at i:13530 original size:37 final size:37
Alignment explanation
Indices: 13481--13567 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
13471 ATGAACTTGA
* * *
13481 AAATAAGGTATGAAT-ATGAAATTAAGTAATGAATCTG
1 AAATAAGTTATGAATCAGGAAA-CAAGTAATGAATCTG
* * **
13518 AAATAAGTTATGAGTCCGGAAACAAGTTTTGAATCTG
1 AAATAAGTTATGAATCAGGAAACAAGTAATGAATCTG
13555 AAATAAGTTATGA
1 AAATAAGTTATGA
13568 GTCCAGAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 38 0.90
38 4 0.10
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.30
Consensus pattern (37 bp):
AAATAAGTTATGAATCAGGAAACAAGTAATGAATCTG
Found at i:13539 original size:19 final size:19
Alignment explanation
Indices: 13517--13582 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
13507 TAATGAATCT
*
13517 GAAATAAGTTATGAGTCCG
1 GAAATAAGTTATGAGTCCA
* * * *
13536 GAAACAAGTTTTGAAT-CT
1 GAAATAAGTTATGAGTCCA
13554 GAAATAAGTTATGAGTCCA
1 GAAATAAGTTATGAGTCCA
*
13573 GAAAAAAGTT
1 GAAATAAGTT
13583 TTGAATCTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 14 0.38
19 23 0.62
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.27
Consensus pattern (19 bp):
GAAATAAGTTATGAGTCCA
Found at i:13568 original size:37 final size:37
Alignment explanation
Indices: 13510--13590 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
13500 AATTAAGTAA
* *
13510 TGAATCTGAAATAAGTTATGAGTCCGGAAACAAGTTT
1 TGAATCTGAAATAAGTTATGAGTCCAGAAAAAAGTTT
13547 TGAATCTGAAATAAGTTATGAGTCCAGAAAAAAGTTT
1 TGAATCTGAAATAAGTTATGAGTCCAGAAAAAAGTTT
13584 TGAATCT
1 TGAATCT
13591 AAGAAAGAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (37 bp):
TGAATCTGAAATAAGTTATGAGTCCAGAAAAAAGTTT
Found at i:13667 original size:13 final size:12
Alignment explanation
Indices: 13638--13682 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
13628 AAAAGAAATG
*
13638 TGAAAGTGAATA
1 TGAAAGTGAAAA
13650 TGAAAGTGAAAGA
1 TGAAAGTGAAA-A
*
13663 TGAAAATGAGAAA
1 TGAAAGTGA-AAA
13676 TGAAAGT
1 TGAAAGT
13683 TTTGTATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 10 0.36
13 16 0.57
14 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (12 bp):
TGAAAGTGAAAA
Found at i:13728 original size:14 final size:14
Alignment explanation
Indices: 13709--13746 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
13699 ATGAAAAAAA
13709 TATGATATGACTAG
1 TATGATATGACTAG
13723 TATGATATGACTAG
1 TATGATATGACTAG
*
13737 TATGAGATGA
1 TATGATATGA
13747 AAATGAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (14 bp):
TATGATATGACTAG
Found at i:15359 original size:126 final size:126
Alignment explanation
Indices: 14994--15430 Score: 502
Period size: 127 Copynumber: 3.5 Consensus size: 126
14984 TTCAATTGCA
* * * * * * * ** *
14994 AAGTAGTTGCACAGTATCGATACAGTGAACTTATCGATACTGTTATTTTGTACTGGATTATCACT
1 AAGTAGTTACACCGTATCGATACCGAGCACGTATTGATACCCTTATTTTATACTGGATTATCACT
* *
15059 AGAATTATAGGGTATCGATACCCCATGCGTATCAGTACTATATATTGTTTCTAGAATTTTCC
66 AGAATTATAGGGTATCGATACCCCATGCGTATCAGTACTATA-ATTGTTTCTTGAATTTTCT
* * * * * * *
15121 AAGTAGTTGCACTGTATCTATACCAAGCACGTATCGGTACCCTTATTTTATATTGGATTATCACT
1 AAGTAGTTACACCGTATCGATACCGAGCACGTATTGATACCCTTATTTTATACTGGATTATCACT
* * * * * *
15186 AGAATTGTAGGGTATTGATACCCCATGCATATCGGTATTAATGATTGTTTCTTGAATTTTCT
66 AGAATTATAGGGTATCGATACCCCATGCGTATCAGTACT-ATAATTGTTTCTTGAATTTTCT
** * *
15248 AAGTAGTTACACCGTATCGATACCGAGGGCGTATTGATA-CCTCATTTTATACTGGATTCTCACT
1 AAGTAGTTACACCGTATCGATACCGAGCACGTATTGATACCCTTATTTTATACTGGATTATCACT
* * * *
15312 AGAATTATAGGGTATCGATAGCCCATGCGTATAAGTACTGTTAATTGTTTGTTGAA-TTT-T
66 AGAATTATAGGGTATCGATACCCCATGCGTATCAGTACT-ATAATTGTTTCTTGAATTTTCT
* *
15372 AATGTAGTTACACCGTATCGATACAGATCACGTATTGATACCCTTATTTTATACTGGAT
1 AA-GTAGTTACACCGTATCGATACCGAGCACGTATTGATACCCTTATTTTATACTGGAT
15431 ATTTGTGAAA
Statistics
Matches: 260, Mismatches: 47, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
124 3 0.01
125 36 0.14
126 84 0.32
127 135 0.52
128 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
AAGTAGTTACACCGTATCGATACCGAGCACGTATTGATACCCTTATTTTATACTGGATTATCACT
AGAATTATAGGGTATCGATACCCCATGCGTATCAGTACTATAATTGTTTCTTGAATTTTCT
Found at i:20683 original size:17 final size:15
Alignment explanation
Indices: 20661--20696 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
20651 CACCAATATA
20661 ATTATTTAAATTATTTT
1 ATTATTTAAA-TA-TTT
20678 ATTATTTAAATATTT
1 ATTATTTAAATATTT
20693 ATTA
1 ATTA
20697 AACTCATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATTTAAATATTT
Found at i:20785 original size:17 final size:16
Alignment explanation
Indices: 20739--20787 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 16
20729 TAAACTTATT
20739 TTTTATTTTTATATAA
1 TTTTATTTTTATATAA
*
20755 TTTT-TTTCT-T-TAA
1 TTTTATTTTTATATAA
20768 TTTTATTTTTAATATAA
1 TTTTATTTTT-ATATAA
20785 TTT
1 TTT
20788 ATATATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
15 4 0.15
16 5 0.19
17 6 0.22
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTTTTATATAA
Found at i:20800 original size:29 final size:29
Alignment explanation
Indices: 20738--20800 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
20728 TTAAACTTAT
* * *
20738 TTTTTATTTTTATATAATTTTTTTCTTTA
1 TTTTTATTTTTATATAATTTATATCATTA
*
20767 ATTTTATTTTTAATATAATTTATAT-ATTA
1 TTTTTATTTTT-ATATAATTTATATCATTA
20796 TTTTT
1 TTTTT
20801 TAAAAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (29 bp):
TTTTTATTTTTATATAATTTATATCATTA
Found at i:20802 original size:30 final size:29
Alignment explanation
Indices: 20734--20802 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
20724 AATATTAAAC
* * *
20734 TTATTTTTTATTTTTATATAATTTTTTTC
1 TTATTTTTTATTTTTATATAATTTATATA
*
20763 TT-TAATTTTATTTTTAATATAATTTATATA
1 TTAT-TTTTTATTTTT-ATATAATTTATATA
20793 TTATTTTTTA
1 TTATTTTTTA
20803 AAAAAATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 1 0.03
29 12 0.38
30 18 0.56
31 1 0.03
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (29 bp):
TTATTTTTTATTTTTATATAATTTATATA
Found at i:20818 original size:14 final size:13
Alignment explanation
Indices: 20799--20844 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
20789 TATATTATTT
20799 TTTAAAAAAATAA
1 TTTAAAAAAATAA
20812 -TTATAAAAAATAA
1 TTTA-AAAAAATAA
*
20825 TTTAAATAAA-AA
1 TTTAAAAAAATAA
20837 TATTAAAA
1 T-TTAAAA
20845 TCATTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 6 0.21
13 19 0.68
14 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTAAAAAAATAA
Found at i:22441 original size:29 final size:29
Alignment explanation
Indices: 22406--22487 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
22396 AAACTAAATT
*
22406 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
22435 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
22464 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
22488 GATAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:23792 original size:15 final size:15
Alignment explanation
Indices: 23769--23798 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23759 ACGAGGCTGG
23769 AATTACAACAATAAC
1 AATTACAACAATAAC
*
23784 AATTCCAACAATAAC
1 AATTACAACAATAAC
23799 TATGAGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (15 bp):
AATTACAACAATAAC
Found at i:27928 original size:19 final size:20
Alignment explanation
Indices: 27904--27942 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
27894 GAACGCTGGA
27904 AACCGGTTTTG-ACCGGTTT
1 AACCGGTTTTGAACCGGTTT
27923 AACCGGTTTTGAACCGGTTT
1 AACCGGTTTTGAACCGGTTT
27943 TGACCGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (20 bp):
AACCGGTTTTGAACCGGTTT
Found at i:27939 original size:11 final size:11
Alignment explanation
Indices: 27904--27945 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
27894 GAACGCTGGA
27904 AACCGGTTTTG
1 AACCGGTTTTG
27915 -ACCGG-TTT-
1 AACCGGTTTTG
27923 AACCGGTTTTG
1 AACCGGTTTTG
27934 AACCGGTTTTG
1 AACCGGTTTTG
27945 A
1 A
27946 CCGATTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.29
10 8 0.29
11 12 0.43
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:27981 original size:13 final size:13
Alignment explanation
Indices: 27963--28044 Score: 59
Period size: 13 Copynumber: 6.3 Consensus size: 13
27953 GACCGGTCAC
27963 GACCCGACCCGTT
1 GACCCGACCCGTT
27976 GACCCGAACCGACTGTT
1 GACCCG-ACC--C-GTT
27993 GACCCGACCC---
1 GACCCGACCCGTT
*
28003 GACCGTTGACCCG--
1 GACC--CGACCCGTT
28016 -ACCCGACCCGTT
1 GACCCGACCCGTT
28028 GACCCGACCCGTT
1 GACCCGACCCGTT
28041 GACC
1 GACC
28045 GGTGCTATTC
Statistics
Matches: 57, Mismatches: 2, Indels: 20
0.72 0.03 0.25
Matches are distributed among these distances:
10 10 0.18
12 8 0.14
13 22 0.39
14 4 0.07
16 4 0.07
17 9 0.16
ACGTcount: A:0.18, C:0.45, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:27995 original size:17 final size:17
Alignment explanation
Indices: 27962--28038 Score: 118
Period size: 17 Copynumber: 4.4 Consensus size: 17
27952 TGACCGGTCA
27962 CGACCCGACCCGTTGACC
1 CGACCCGA-CCGTTGACC
* *
27980 CGAACCGACTGTTGACC
1 CGACCCGACCGTTGACC
27997 CGACCCGACCGTTGACC
1 CGACCCGACCGTTGACC
28014 CGACCCGACCCGTTGACC
1 CGACCCGA-CCGTTGACC
28032 CGACCCG
1 CGACCCG
28039 TTGACCGGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 31 0.57
18 23 0.43
ACGTcount: A:0.18, C:0.47, G:0.23, T:0.12
Consensus pattern (17 bp):
CGACCCGACCGTTGACC
Found at i:28106 original size:29 final size:29
Alignment explanation
Indices: 28074--28141 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
28064 ATTCAGTTTT
28074 GGTGCTATTTTGGGAATTAATTCT-AAAAG
1 GGTGCTATTTTGGGAATT-ATTCTAAAAAG
* * *
28103 GGTGCTATATTGGTAATTATTTTAAAAAG
1 GGTGCTATTTTGGGAATTATTCTAAAAAG
28132 GGTGCTATTT
1 GGTGCTATTT
28142 GTGTAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTATTCTAAAAAG
Found at i:28866 original size:24 final size:24
Alignment explanation
Indices: 28834--28902 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 24
28824 ATAGTTTATC
*
28834 TGATTTTTGACCTGGATTCTGATA
1 TGATATTTGACCTGGATTCTGATA
* * * *
28858 TGATATTTGATCTGAATTTTTATA
1 TGATATTTGACCTGGATTCTGATA
* * *
28882 TGATACTTGACATGGACTCTG
1 TGATATTTGACCTGGATTCTG
28903 TTTTGTACTT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.45
Consensus pattern (24 bp):
TGATATTTGACCTGGATTCTGATA
Found at i:35159 original size:19 final size:20
Alignment explanation
Indices: 35135--35173 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
35125 GAACGCTGGA
35135 AACCGGTTTTG-ACCGGTTT
1 AACCGGTTTTGAACCGGTTT
35154 AACCGGTTTTGAACCGGTTT
1 AACCGGTTTTGAACCGGTTT
35174 TGACCGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (20 bp):
AACCGGTTTTGAACCGGTTT
Found at i:35170 original size:11 final size:11
Alignment explanation
Indices: 35135--35176 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
35125 GAACGCTGGA
35135 AACCGGTTTTG
1 AACCGGTTTTG
35146 -ACCGG-TTT-
1 AACCGGTTTTG
35154 AACCGGTTTTG
1 AACCGGTTTTG
35165 AACCGGTTTTG
1 AACCGGTTTTG
35176 A
1 A
35177 CCGATTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.29
10 8 0.29
11 12 0.43
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:35226 original size:17 final size:18
Alignment explanation
Indices: 35193--35269 Score: 122
Period size: 17 Copynumber: 4.4 Consensus size: 18
35183 TGACCGGTCA
35193 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
35211 CGACCCGA-CTGTTGACC
1 CGACCCGACCCGTTGACC
*
35228 CGACCCGA-CCGTTAACC
1 CGACCCGACCCGTTGACC
35245 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
35263 CGACCCG
1 CGACCCG
35270 TTGACCGGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 31 0.57
18 23 0.43
ACGTcount: A:0.18, C:0.48, G:0.22, T:0.12
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:35264 original size:13 final size:13
Alignment explanation
Indices: 35246--35275 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
35236 CCGTTAACCC
35246 GACCCGACCCGTT
1 GACCCGACCCGTT
35259 GACCCGACCCGTT
1 GACCCGACCCGTT
35272 GACC
1 GACC
35276 GGTGCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:35337 original size:29 final size:30
Alignment explanation
Indices: 35305--35373 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
35295 ATTCGGTTTT
35305 GGTGCTATTTTGGGAATTAATTCT-AAAA-G
1 GGTGCTATTTTGGGAATT-ATTCTAAAAAGG
* * * *
35334 GGTGCAATATTGGTAATTATTTTAAAAAGG
1 GGTGCTATTTTGGGAATTATTCTAAAAAGG
35364 GGTGCTATTT
1 GGTGCTATTT
35374 GTGTAAAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 4 0.12
29 19 0.59
30 9 0.28
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (30 bp):
GGTGCTATTTTGGGAATTATTCTAAAAAGG
Found at i:36108 original size:24 final size:24
Alignment explanation
Indices: 36076--36144 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 24
36066 ATAGTTTATC
*
36076 TGATTTTTGACCTGGATTCTGATA
1 TGATATTTGACCTGGATTCTGATA
* * * *
36100 TGATATTTGATCTGAATTTTTATA
1 TGATATTTGACCTGGATTCTGATA
* * *
36124 TGATACTTGACATGGACTCTG
1 TGATATTTGACCTGGATTCTG
36145 TTTTGTACTT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.45
Consensus pattern (24 bp):
TGATATTTGACCTGGATTCTGATA
Found at i:42407 original size:2 final size:2
Alignment explanation
Indices: 42400--42431 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
42390 AAGTTGCATG
42400 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
42432 TATTTTTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44338 original size:17 final size:17
Alignment explanation
Indices: 44316--44359 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
44306 ATAAATTAAT
*
44316 ATAAAATAA-TAATGATA
1 ATAAAATAAGTAA-CATA
44333 ATAAAATAAGTAACATA
1 ATAAAATAAGTAACATA
44350 ATAATAATAA
1 ATAA-AATAA
44360 AATAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (17 bp):
ATAAAATAAGTAACATA
Found at i:44614 original size:203 final size:206
Alignment explanation
Indices: 44370--44745 Score: 632
Period size: 203 Copynumber: 1.8 Consensus size: 206
44360 AATAAATAAA
*
44370 TTAAAAGCTACAAAATAAAAAAATATGAATTAAGGTACCAATTTAAAATAAGATTAAAAAATAAT
1 TTAAAAGATACAAAATAAAAAAATATGAATTAAGGTACCAATTTAAAATAAGATTAAAAAATAAT
* * * *
44435 AAAAAGGACTATATTGAATTGTATTGAAATTTGGGAGTTTAATTTATAGTAGGTGACCAAAATGA
66 AAAAAGGACTAAATTAAATTGTATTGAAATTTGGGAGTTCAATTTATAGTAGATGACCAAAATGA
*
44500 ACTACGCTTCGAAACTCCAGGGACTGCATAAAGGATTTAAAAATTCTCTCTATATATAAATGCCC
131 ACTACGCTTCGAAACTCCAGGGACTGCAGAAAGGATTTAAAAATTCTCTCTATATATAAATGCCC
44565 CTTTCGCCAAT
196 CTTTCGCCAAT
* * *
44576 TTAAAAGATGCAAAA-AAAAAAAT-T-AATTAGGGTACCAATTTACAATAAGATTAAAAAATAAT
1 TTAAAAGATACAAAATAAAAAAATATGAATTAAGGTACCAATTTAAAATAAGATTAAAAAATAAT
* *
44638 GAAAATGACTAAATTAAATTGTATTGAAATTTGGGAGTTCAATTTATAGTAGATGACCAAAATGA
66 AAAAAGGACTAAATTAAATTGTATTGAAATTTGGGAGTTCAATTTATAGTAGATGACCAAAATGA
44703 ACTACGCTTCGAAACTCCAGGGACTGCAGAAAGGATTTAAAAA
131 ACTACGCTTCGAAACTCCAGGGACTGCAGAAAGGATTTAAAAA
44746 CACTCTAATT
Statistics
Matches: 159, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
203 137 0.86
204 1 0.01
205 8 0.05
206 13 0.08
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.28
Consensus pattern (206 bp):
TTAAAAGATACAAAATAAAAAAATATGAATTAAGGTACCAATTTAAAATAAGATTAAAAAATAAT
AAAAAGGACTAAATTAAATTGTATTGAAATTTGGGAGTTCAATTTATAGTAGATGACCAAAATGA
ACTACGCTTCGAAACTCCAGGGACTGCAGAAAGGATTTAAAAATTCTCTCTATATATAAATGCCC
CTTTCGCCAAT
Found at i:46614 original size:19 final size:19
Alignment explanation
Indices: 46568--46616 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
46558 AAAATAATAT
*
46568 AATATATTATATTTTTAAAA
1 AATATA-TATATCTTTAAAA
46588 AATA-ATATATCTTTAAAA
1 AATATATATATCTTTAAAA
*
46606 ATTATATATAT
1 AATATATATAT
46617 TATACATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 15 0.58
19 7 0.27
20 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATATATATCTTTAAAA
Found at i:46687 original size:2 final size:2
Alignment explanation
Indices: 46682--46721 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
46672 TTTTCAACTA
*
46682 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A
46722 AAAGCACTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:51260 original size:23 final size:23
Alignment explanation
Indices: 51211--51264 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
51201 ATGTGGCATC
* *
51211 CAGTCAACAGCTTCTAAAAGGCC
1 CAGTCAACAGCTTCTAAAAGACA
* * *
51234 CAGTCAGCAGCTTCTAGAAGATA
1 CAGTCAACAGCTTCTAAAAGACA
51257 CAGTCAAC
1 CAGTCAAC
51265 CAATTTTTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (23 bp):
CAGTCAACAGCTTCTAAAAGACA
Found at i:56764 original size:20 final size:20
Alignment explanation
Indices: 56739--56779 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
56729 CCGTTAGACA
56739 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
*
56759 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
56779 G
1 G
56780 ACATTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.29, G:0.39, T:0.17
Consensus pattern (20 bp):
GGGGGAATCGGTACCCCCTG
Found at i:58816 original size:15 final size:15
Alignment explanation
Indices: 58786--58825 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
58776 AAGGTAACTC
58786 ATTTCATTTTCGTTTA
1 ATTT-ATTTTCGTTTA
* *
58802 ATTTGTTTTCTTTTA
1 ATTTATTTTCGTTTA
58817 ATTTATTTT
1 ATTTATTTT
58826 TAATTTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.70
Consensus pattern (15 bp):
ATTTATTTTCGTTTA
Found at i:64090 original size:35 final size:35
Alignment explanation
Indices: 64047--64114 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
64037 TTATTATATT
*
64047 TTAATAAACTAAATTAAAAACAGGGCCCATAAATA
1 TTAATAAACTAAATTAAAAACAGGACCCATAAATA
*
64082 TTAATAAACTAAATTAAAAACATGACCCATAAA
1 TTAATAAACTAAATTAAAAACAGGACCCATAAA
64115 CTTATTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.24
Consensus pattern (35 bp):
TTAATAAACTAAATTAAAAACAGGACCCATAAATA
Found at i:64209 original size:35 final size:35
Alignment explanation
Indices: 64160--64230 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
64150 GTTAAAAACT
* *
64160 ATATTAATATACTAAATTAAAAGCAGGGCCCATAA
1 ATATTAATAAACTAAATTAAAAGCAGGACCCATAA
*
64195 ATATTAATAAACTAAATTAAAAGCATGACCCATAA
1 ATATTAATAAACTAAATTAAAAGCAGGACCCATAA
64230 A
1 A
64231 CTTATTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.25
Consensus pattern (35 bp):
ATATTAATAAACTAAATTAAAAGCAGGACCCATAA
Found at i:64251 original size:116 final size:116
Alignment explanation
Indices: 64047--64283 Score: 429
Period size: 116 Copynumber: 2.0 Consensus size: 116
64037 TTATTATATT
64047 TTAATAAACTAAATTAAAAACAGGGCCCATAAATATTAATAAACTAAATTAAAAACATGACCCAT
1 TTAATAAACTAAATTAAAAACAGGGCCCATAAATATTAATAAACTAAATTAAAAACATGACCCAT
*
64112 AAACTTATTTCTTATTGACTTATTGTTCTCATCATAACGTTAAAAACTATA
66 AAACTTATTTCTTATTGACTTATTGTTCTCATCATAACGTTAAAAACTAAA
* * *
64163 TTAATATACTAAATTAAAAGCAGGGCCCATAAATATTAATAAACTAAATTAAAAGCATGACCCAT
1 TTAATAAACTAAATTAAAAACAGGGCCCATAAATATTAATAAACTAAATTAAAAACATGACCCAT
*
64228 AAACTTATTTCTTATTGATTTATTGTTCTCATCATAACGTTAAAAACTAAA
66 AAACTTATTTCTTATTGACTTATTGTTCTCATCATAACGTTAAAAACTAAA
64279 TTAAT
1 TTAAT
64284 CATAATGTTT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.34
Consensus pattern (116 bp):
TTAATAAACTAAATTAAAAACAGGGCCCATAAATATTAATAAACTAAATTAAAAACATGACCCAT
AAACTTATTTCTTATTGACTTATTGTTCTCATCATAACGTTAAAAACTAAA
Found at i:70737 original size:2 final size:2
Alignment explanation
Indices: 70730--70763 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
70720 ATTATAAGTA
70730 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
70764 TTAAATTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71438 original size:17 final size:18
Alignment explanation
Indices: 71411--71448 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
71401 AAATAAAATG
71411 ATTTAATTTTTATT-TTAA
1 ATTTAATTTTT-TTATTAA
71429 ATTT-ATTTTTTTATTAA
1 ATTTAATTTTTTTATTAA
71446 ATT
1 ATT
71449 ACATACCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 13 0.68
18 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTAATTTTTTTATTAA
Found at i:72954 original size:27 final size:27
Alignment explanation
Indices: 72916--72969 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
72906 TTAAACATAA
72916 TTCTCTTTGGTTGGTTGTTTGTTTTAG
1 TTCTCTTTGGTTGGTTGTTTGTTTTAG
72943 TTCTCTTTGGTTGGTTGTTTGTTTTAG
1 TTCTCTTTGGTTGGTTGTTTGTTTTAG
72970 GATGTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.04, C:0.07, G:0.26, T:0.63
Consensus pattern (27 bp):
TTCTCTTTGGTTGGTTGTTTGTTTTAG
Found at i:73108 original size:31 final size:31
Alignment explanation
Indices: 73009--73100 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
72999 CAATTTAAGG
73009 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
1 CAAAATGG-TTTTTGGACTTGAATTGAATTTA
73041 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
*
73072 CAAAAT-GTTTTTAGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
73101 TTCAAAATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
29 11 0.19
30 11 0.19
31 29 0.49
32 8 0.14
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:73189 original size:19 final size:19
Alignment explanation
Indices: 73165--73231 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
73155 AATGTTTTTA
*
73165 TGAATAGTAATTTACTATT
1 TGAACAGTAATTTACTATT
*
73184 TGAATAGT-ATATTACTATT
1 TGAACAGTAAT-TTACTATT
* * *
73203 TGAACAGTAAATCACTGTT
1 TGAACAGTAATTTACTATT
73222 TGAACAGTAA
1 TGAACAGTAA
73232 CCCGAGGCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.05
19 39 0.93
20 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (19 bp):
TGAACAGTAATTTACTATT
Found at i:73363 original size:21 final size:21
Alignment explanation
Indices: 73337--73378 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
73327 ATTTGAATAT
*
73337 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
73358 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
73379 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:73440 original size:21 final size:21
Alignment explanation
Indices: 73407--73446 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
73397 TTTGAGTAGA
*
73407 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
73429 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
73447 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:73701 original size:34 final size:32
Alignment explanation
Indices: 73662--73731 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
73652 TTTGTAAAGG
*
73662 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
73696 GGGAAAGGTTCTAGTTTAGCTCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
73728 GGGA
1 GGGA
73732 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:74615 original size:19 final size:20
Alignment explanation
Indices: 74591--74638 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
74581 AATGATTTTC
*
74591 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
74610 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
74630 TTTTGAAAA
1 TTTTGAAAA
74639 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:75161 original size:16 final size:16
Alignment explanation
Indices: 75136--75174 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
75126 AATGTGTCTG
75136 GATCTGGCTCTAACTA
1 GATCTGGCTCTAACTA
*
75152 GATCTTGCTCTAACTA
1 GATCTGGCTCTAACTA
75168 GATCTGG
1 GATCTGG
75175 TCCAGATCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (16 bp):
GATCTGGCTCTAACTA
Found at i:77401 original size:20 final size:19
Alignment explanation
Indices: 77372--77413 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
77362 AAAATGAAAA
* *
77372 TAAATTTAATATTTTTACAT
1 TAAATCTAATATTCTTA-AT
77392 TAAATCTAATATTCTTAAT
1 TAAATCTAATATTCTTAAT
77411 TAA
1 TAA
77414 TTAATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAATCTAATATTCTTAAT
Found at i:82368 original size:23 final size:21
Alignment explanation
Indices: 82328--82369 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
82318 ATGAAATGGA
*
82328 TTATAAAAAAAAAGTTAAAAT
1 TTATAAAAAAAAACTTAAAAT
82349 TTATCAAAAAAAAATCTTAAA
1 TTAT-AAAAAAAAA-CTTAAA
82370 TAAGACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
TTATAAAAAAAAACTTAAAAT
Found at i:90418 original size:31 final size:32
Alignment explanation
Indices: 90354--90438 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 32
90344 CATATTATAT
* * *
90354 ATTATCTAAATGC-GACACTGATATTCCTGTGC
1 ATTATCTAAATGCAAAC-CTGACATTACTGTGC
90386 ATTATCTAAATGCAAACCTGACA-TACTGTGC
1 ATTATCTAAATGCAAACCTGACATTACTGTGC
* *
90417 ATTATCTGAATGCAAATCTGAC
1 ATTATCTAAATGCAAACCTGAC
90439 TAGCATCTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
31 27 0.57
32 18 0.38
33 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (32 bp):
ATTATCTAAATGCAAACCTGACATTACTGTGC
Found at i:100795 original size:14 final size:14
Alignment explanation
Indices: 100776--100809 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
100766 AAAAGAACAT
100776 GAAAGATGGTCCAA
1 GAAAGATGGTCCAA
100790 GAAAGATGGTCCAA
1 GAAAGATGGTCCAA
100804 GAAAGA
1 GAAAGA
100810 GGACGCCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.29, T:0.12
Consensus pattern (14 bp):
GAAAGATGGTCCAA
Found at i:103289 original size:60 final size:60
Alignment explanation
Indices: 103162--103319 Score: 158
Period size: 60 Copynumber: 2.6 Consensus size: 60
103152 GAATTTGGGT
* * * *
103162 ATAAAATTGGAATATTCAAAAGTTTAGGGACCAATTTAGAAAGAGGGTCATAGTTTAGGG
1 ATAAAATTCGAATATTCAAAAGCTTAAGGACCAATTTAGAAAGAGAGTCATAGTTTAGGG
* * * * * *
103222 CTGAAATTCGATTGTTCAAAAGCTTAAGTACTAATTTAGAATA-AGAGTCATAGTTT-GTGG
1 ATAAAATTCGAATATTCAAAAGCTTAAGGACCAATTTAGAA-AGAGAGTCATAGTTTAG-GG
** * *
103282 ATAAAATTAAAATATTCAAAAGTTTAAGGATCAATTTA
1 ATAAAATTCGAATATTCAAAAGCTTAAGGACCAATTTA
103320 AATGAGGATT
Statistics
Matches: 76, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
59 1 0.01
60 74 0.97
61 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (60 bp):
ATAAAATTCGAATATTCAAAAGCTTAAGGACCAATTTAGAAAGAGAGTCATAGTTTAGGG
Found at i:109635 original size:58 final size:57
Alignment explanation
Indices: 109481--109653 Score: 145
Period size: 58 Copynumber: 2.9 Consensus size: 57
109471 GAATTTGGGT
* *
109481 ATAAAATTGGAATATTCAAAAGTTTAGGGACCAATTTAGAAAGAGGGTCATAGTTTAGGG
1 ATAAAATTAGAATATTCAAAAGTTTAAGGA-CAATTTAGAAAGA-GGTCATAGTTTA-GG
* * * * * * *
109541 CTGAAATTCGATTGTTCAAAAGCTTAAGTACTAATTTAGATAAGA-GTCATAGTTGT-GG
1 ATAAAATTAGAATATTCAAAAGTTTAAGGAC-AATTTAGA-AAGAGGTCATAGTT-TAGG
* * *
109599 ATAAAATTAAAATATTCAAAAGTTTAAGGATCAATTTA-AATGAGGATTATAGTTT
1 ATAAAATTAGAATATTCAAAAGTTTAAGGA-CAATTTAGAAAGAGG-TCATAGTTT
109654 GGAGACATGA
Statistics
Matches: 89, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
56 3 0.03
57 3 0.03
58 37 0.42
59 11 0.12
60 31 0.35
61 4 0.04
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (57 bp):
ATAAAATTAGAATATTCAAAAGTTTAAGGACAATTTAGAAAGAGGTCATAGTTTAGG
Done.