Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001075.1 Hibiscus syriacus cultivar Beakdansim tig00002130_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: 163807
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2677 original size:69 final size:69
Alignment explanation
Indices: 2522--2747 Score: 202
Period size: 69 Copynumber: 3.3 Consensus size: 69
2512 TGTTCCCTTG
* * * * *
2522 TGAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTGAACCGAAGTAATTATGATTAGGTGCTCC
1 TGAGTCACTCTAATCCTTCGGGGATCCCGTGCAAGTCAACCAAAATAATTATGATTAGGTGCTCC
*
2587 CGTG
66 CGTA
** * * * *
2591 CAAGTTACTCTAATCCTTCGGGGATCCTGTGCAAGTCACCCAAAATAATTATGATTAGGTTCTCC
1 TGAGTCACTCTAATCCTTCGGGGATCCCGTGCAAGTCAACCAAAATAATTATGATTAGGTGCTCC
2656 CGTA
66 CGTA
* * * * ** * * * * *
2660 TGAGTCACTCCATTCCTTAGGGGCTTTCATGCGAGT-AACCAAGAATACTCACGATTAGGTGCTC
1 TGAGTCACTCTAATCCTTCGGGGATCCCGTGCAAGTCAACCAA-AATAATTATGATTAGGTGCTC
* *
2724 CCTTG
65 CCGTA
*
2729 CGAGTCACTCTAATCCTTC
1 TGAGTCACTCTAATCCTTC
2748 AAGGCTCATG
Statistics
Matches: 121, Mismatches: 35, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
68 5 0.04
69 116 0.96
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (69 bp):
TGAGTCACTCTAATCCTTCGGGGATCCCGTGCAAGTCAACCAAAATAATTATGATTAGGTGCTCC
CGTA
Found at i:14600 original size:13 final size:13
Alignment explanation
Indices: 14584--14608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14574 CCGTTGACGT
14584 TTGACTTTGACCG
1 TTGACTTTGACCG
14597 TTGACTTTGACC
1 TTGACTTTGACC
14609 AAAAAGTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGACTTTGACCG
Found at i:16297 original size:24 final size:24
Alignment explanation
Indices: 16215--16311 Score: 70
Period size: 24 Copynumber: 4.0 Consensus size: 24
16205 ATTTCCGATT
* **
16215 TGAATTCTGTTCTGGTA-CTTGACC
1 TGAATTCTGTTCTGATATC-TGATA
* * * * *
16239 TGAATTCTATTTTGATTTCTAATC
1 TGAATTCTGTTCTGATATCTGATA
* *
16263 TGGATTATGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATATCTGATA
* *
16287 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATATCTGATA
16311 T
1 T
16312 CTACGTTTAC
Statistics
Matches: 55, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
24 54 0.98
25 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATA
Found at i:20577 original size:24 final size:24
Alignment explanation
Indices: 20548--20640 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 24
20538 TTTCCTATTA
* *
20548 AATTCTGTTCTGATACCTGACCTG
1 AATTCTGTTCTGATATCTGATCTG
* *
20572 AATTCTATTCTGATTTCTGATCTG
1 AATTCTGTTCTGATATCTGATCTG
* * * *
20596 GATTCTGATATGATATCTGATATG
1 AATTCTGTTCTGATATCTGATCTG
* *
20620 AATTCTGTTTTGATTTCTGAT
1 AATTCTGTTCTGATATCTGAT
20641 ATCTCTATTT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (24 bp):
AATTCTGTTCTGATATCTGATCTG
Found at i:20595 original size:12 final size:12
Alignment explanation
Indices: 20582--20642 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
20572 AATTCTATTC
*
20582 TGATTTCTGATC
1 TGATTTCTGATA
20594 TGGA-TTCTGATA
1 T-GATTTCTGATA
*
20606 TGATATCTGATA
1 TGATTTCTGATA
* * *
20618 TGAATTCTGTTT
1 TGATTTCTGATA
20630 TGATTTCTGATA
1 TGATTTCTGATA
20642 T
1 T
20643 CTCTATTTAC
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
11 2 0.05
12 34 0.89
13 2 0.05
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (12 bp):
TGATTTCTGATA
Found at i:20610 original size:48 final size:48
Alignment explanation
Indices: 20549--20640 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
20539 TTCCTATTAA
* * *
20549 ATTCTGTTCTGATACCTGACCTGAATTCTATTCTGATTTCTGATCTGG
1 ATTCTGATATGATACCTGACATGAATTCTATTCTGATTTCTGATCTGG
* * * *
20597 ATTCTGATATGATATCTGATATGAATTCTGTTTTGATTTCTGAT
1 ATTCTGATATGATACCTGACATGAATTCTATTCTGATTTCTGAT
20641 ATCTCTATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.47
Consensus pattern (48 bp):
ATTCTGATATGATACCTGACATGAATTCTATTCTGATTTCTGATCTGG
Found at i:26650 original size:7 final size:7
Alignment explanation
Indices: 26602--26661 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
26592 TCTGTAACAA
26602 TAATAAT
1 TAATAAT
*
26609 TATTAAT
1 TAATAAT
**
26616 TAATGTT
1 TAATAAT
* *
26623 TATTAAA
1 TAATAAT
26630 TAA-AAT
1 TAATAAT
26636 TCAATAAT
1 T-AATAAT
26644 TAATAAT
1 TAATAAT
26651 TAATAAT
1 TAATAAT
26658 TAAT
1 TAAT
26662 TCATTTCTCC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
6 3 0.07
7 34 0.83
8 4 0.10
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (7 bp):
TAATAAT
Found at i:27265 original size:69 final size:69
Alignment explanation
Indices: 27111--27276 Score: 181
Period size: 69 Copynumber: 2.4 Consensus size: 69
27101 TACAATAATA
* * * * *
27111 TGCTCCCTTGTGAGTCACTCTAATCTTTCAGAACTCCCGTGCGAGTCAATCGAAATAATTTCGAT
1 TGCTCCCATGTGAGTCACTCTAATCCTTCAGAACTCCCATGCAAGTCAACCGAAATAATTTCGAT
27176 TAGG
66 TAGG
* ** * * * *
27180 TGGTCCCATGCAAGTCACTCTAATCCTTCGGAGCTCCTATGCAAGTCACCCGAAAT-ATTTACGA
1 TGCTCCCATGTGAGTCACTCTAATCCTTCAGAACTCCCATGCAAGTCAACCGAAATAATTT-CGA
27244 TTAGG
65 TTAGG
* * *
27249 TGCTTCCGTGTGAGTCACTCTATTCCTT
1 TGCTCCCATGTGAGTCACTCTAATCCTT
27277 TGGGACTTTC
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
68 4 0.05
69 74 0.95
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (69 bp):
TGCTCCCATGTGAGTCACTCTAATCCTTCAGAACTCCCATGCAAGTCAACCGAAATAATTTCGAT
TAGG
Found at i:27656 original size:76 final size:76
Alignment explanation
Indices: 27476--27890 Score: 520
Period size: 76 Copynumber: 5.5 Consensus size: 76
27466 TCTAGCAGAA
* * * * *
27476 AAACTTAACATCGACTTATACCAGTGAAATGAATACATAATTCTAGCACTAAACTTAT--GAT--
1 AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAA
**
27537 TT-CAGGAGTG
66 TTCCAACAGTG
* * *
27547 AAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCAAGAACTAAACTTATCACATCA
1 AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAA
* *
27612 TTTCAACAATG
66 TTCCAACAGTG
* * * **
27623 -AACTTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAGCGCTAAACTTAAAACATA
1 AAAC-TTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATA
27687 ATTCCAACAGTG
65 ATTCCAACAGTG
* *
27699 AAACTTAACATTGACTTACACCAGTGAAATTAATACGTAATTCCAGCACTAAACTTATCACATAA
1 AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAA
* *
27764 TTCCATCAATG
66 TTCCAACAGTG
* * *
27775 AAATTTAACATTGACTTAAACCAGTAAAATGAATACGTAATTCCAA-CACTAAACTTATCACATA
1 AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATT-CAAGCACTAAACTTATCACATA
27839 ATTCCAACAGTG
65 ATTCCAACAGTG
* * *
27851 AAACTTATCATTGGCTTACATCAGTGAAATGAATACGTAA
1 AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAA
27891 CTCGAGTTAC
Statistics
Matches: 298, Mismatches: 38, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
71 54 0.18
73 2 0.01
75 5 0.02
76 232 0.78
77 5 0.02
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (76 bp):
AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAA
TTCCAACAGTG
Found at i:27840 original size:25 final size:26
Alignment explanation
Indices: 27812--27860 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
27802 AATGAATACG
27812 TAATTCCAACACT-AAACTTATCACA
1 TAATTCCAACACTGAAACTTATCACA
*
27837 TAATTCCAACAGTGAAACTTATCA
1 TAATTCCAACACTGAAACTTATCA
27861 TTGGCTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.29
Consensus pattern (26 bp):
TAATTCCAACACTGAAACTTATCACA
Found at i:27922 original size:107 final size:107
Alignment explanation
Indices: 27796--27997 Score: 291
Period size: 107 Copynumber: 1.9 Consensus size: 107
27786 TGACTTAAAC
* *
27796 CAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACATAATTC-CAACAGTG-AAACTTAT
1 CAGTAAAATGAATACGTAATTACAACACTAAACTTATCACATAATTCTC-ACAGTGTAAA-TTAA
* * *
27859 CATTGGCTTACATCAGTGAAATGAATACGTAACTCGAGTTACAT
64 CATTGACTTACACCAGTGAAACGAATACGTAACTCGAGTTACAT
* * * *
27903 CAGTGAAATGAATACGTAATTATAGCACTAAACTTATCACATAATTCTCGCAGTGTAAATTAACA
1 CAGTAAAATGAATACGTAATTACAACACTAAACTTATCACATAATTCTCACAGTGTAAATTAACA
27968 TTGACTTACACCAGTGAAACGAATACGTAA
66 TTGACTTACACCAGTGAAACGAATACGTAA
27998 TTCCAGCACT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 80 0.95
108 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (107 bp):
CAGTAAAATGAATACGTAATTACAACACTAAACTTATCACATAATTCTCACAGTGTAAATTAACA
TTGACTTACACCAGTGAAACGAATACGTAACTCGAGTTACAT
Found at i:27922 original size:183 final size:183
Alignment explanation
Indices: 27714--28069 Score: 536
Period size: 183 Copynumber: 1.9 Consensus size: 183
27704 TAACATTGAC
* * *
27714 TTACACCAGTGAAATTAATACGTAATTCCAGCACTAAACTTATCACATAATTC-CATCAATG-AA
1 TTACACCAGTGAAATGAATACGTAATTACAGCACTAAACTTATCACATAATTCTC-GCAATGTAA
*
27777 ATTTAACATTGACTTAAACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACATAATT
65 A-TTAACATTGACTTAAACCAGTAAAACGAATACGTAATTCCAACACTAAACTTATCACATAATT
* * *
27842 CCAACAGTGAAACTTATCATTGGCTTACATCAGTGAAATGAATACGTAACTCGAG
129 CCAACAGTGAAACTTAACATTGACTTACATCAGCGAAATGAATACGTAACTCGAG
* * *
27897 TTACATCAGTGAAATGAATACGTAATTATAGCACTAAACTTATCACATAATTCTCGCAGTGTAAA
1 TTACACCAGTGAAATGAATACGTAATTACAGCACTAAACTTATCACATAATTCTCGCAATGTAAA
* * * *
27962 TTAACATTGACTTACACCAGTGAAACGAATACGTAATTCCAGCACTAAAGTTATCACATAATTCC
66 TTAACATTGACTTAAACCAGTAAAACGAATACGTAATTCCAACACTAAACTTATCACATAATTCC
**
28027 TGCAGTGAAACTTAACATTGACTTACATCAGCGAAATGAATAC
131 AACAGTGAAACTTAACATTGACTTACATCAGCGAAATGAATAC
28070 ATAATTCCAG
Statistics
Matches: 155, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
183 151 0.97
184 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (183 bp):
TTACACCAGTGAAATGAATACGTAATTACAGCACTAAACTTATCACATAATTCTCGCAATGTAAA
TTAACATTGACTTAAACCAGTAAAACGAATACGTAATTCCAACACTAAACTTATCACATAATTCC
AACAGTGAAACTTAACATTGACTTACATCAGCGAAATGAATACGTAACTCGAG
Found at i:27992 original size:76 final size:76
Alignment explanation
Indices: 27897--28240 Score: 408
Period size: 76 Copynumber: 4.5 Consensus size: 76
27887 GTAACTCGAG
* **
27897 TTACATCAGTGAAATGAATACGTAATTATAGCACTAAACTTATCACATAATTCTC-GCAGTGTAA
1 TTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTC-CAGCAGTG-AA
27961 A-TTAACATTGAC
64 ACTTAACATTGAC
* * *
27973 TTACACCAGTGAAACGAATACGTAATTCCAGCACTAAAGTTATCACATAATTCCTGCAGTGAAAC
1 TTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAAC
28038 TTAACATTGAC
66 TTAACATTGAC
* * * * *
28049 TTACATCAGCGAAATGAATACATAATTCCAGCATTAAAAC-TAT-ATCATAATTCCAGTAGTGAA
1 TTACACCAGTGAAATGAATACGTAATTCCAGCACT-AAACTTATCA-CATAATTCCAGCAGTGAA
*
28112 ACTTAACATCGAC
64 ACTTAACATTGAC
* * * * * *
28125 TTAAACCAGTGAAATGAATACGTAATTCCAGCACTACACTTTTCACATAAGTCAAGGAGTGAAAC
1 TTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAAC
* *
28190 TGAACATTAAAC
66 TTAACATT-GAC
* * *
28202 TTAGACTAGTGAAATGAATACGTAATTCCAGCATTAAAC
1 TTACACCAGTGAAATGAATACGTAATTCCAGCACTAAAC
28241 ATATGATTTC
Statistics
Matches: 230, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
75 8 0.03
76 181 0.79
77 41 0.18
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (76 bp):
TTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAAC
TTAACATTGAC
Found at i:28112 original size:259 final size:258
Alignment explanation
Indices: 27638--28149 Score: 699
Period size: 259 Copynumber: 2.0 Consensus size: 258
27628 TAACATTGAC
* *
27638 TTACACCAGTAAAATGAATACGTAATTCCAGCGCTAAACTTAAAACATAATTCCAACAGTGAAAC
1 TTACACCAGTAAAATGAATACGTAATTACAGCACTAAACTTAAAACATAATTCCAACAGTGAAAC
**
27703 TTAACATTGACTTACACCAGTGAAATTAATACGTAATTCCAGCACTAAACTTATCACATAATTCC
66 TTAACATTGACTTACACCAGTGAAACGAATACGTAATTCCAGCACTAAACTTATCACATAATTCC
* * *
27768 ATCAATGAAATTTAACATTGACTTAAACCAGTAAAATGAATACGTAATTCCAACACTAAACTTAT
131 ATCAATGAAACTTAACATTGACTTAAACCAGCAAAATGAATACATAATTCCAACACTAAACTTAT
* * * * *
27833 CACATAATTCCAACAGTGAAACTTATCATTGGCTTACATCAGTGAAATGAATACGTAACTCGAG
196 -ACATAATTCCAACAGTGAAACTTAACATCGACTTAAACCAGTGAAATGAATACGTAACTCGAG
* * * ** *
27897 TTACATCAGTGAAATGAATACGTAATTATAGCACTAAACTTATCACATAATTCTC-GCAGTGTAA
1 TTACACCAGTAAAATGAATACGTAATTACAGCACTAAACTTAAAACATAATTC-CAACAGTG-AA
*
27961 A-TTAACATTGACTTACACCAGTGAAACGAATACGTAATTCCAGCACTAAAGTTATCACATAATT
64 ACTTAACATTGACTTACACCAGTGAAACGAATACGTAATTCCAGCACTAAACTTATCACATAATT
* * * * * *
28025 CC-TGCAGTGAAACTTAACATTGACTTACATCAGCGAAATGAATACATAATTCCAGCATTAAAAC
129 CCAT-CAATGAAACTTAACATTGACTTAAACCAGCAAAATGAATACATAATTCCAACACT-AAAC
**
28089 -TATATCATAATTCCAGTAGTGAAACTTAACATCGACTTAAACCAGTGAAATGAATACGTAA
192 TTATA-CATAATTCCAACAGTGAAACTTAACATCGACTTAAACCAGTGAAATGAATACGTAA
28150 TTCCAGCACT
Statistics
Matches: 221, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
258 2 0.01
259 211 0.95
260 8 0.04
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (258 bp):
TTACACCAGTAAAATGAATACGTAATTACAGCACTAAACTTAAAACATAATTCCAACAGTGAAAC
TTAACATTGACTTACACCAGTGAAACGAATACGTAATTCCAGCACTAAACTTATCACATAATTCC
ATCAATGAAACTTAACATTGACTTAAACCAGCAAAATGAATACATAATTCCAACACTAAACTTAT
ACATAATTCCAACAGTGAAACTTAACATCGACTTAAACCAGTGAAATGAATACGTAACTCGAG
Found at i:28188 original size:335 final size:335
Alignment explanation
Indices: 27562--28226 Score: 887
Period size: 335 Copynumber: 2.0 Consensus size: 335
27552 TAACATTGAC
* *
27562 TTACACCAGTGAAATGAATACATAATTCAAGAACTAAACTTATCACATCATTTCAACAATGAACT
1 TTACACCAGTGAAATGAATACATAATTCAAGAACTAAACTTATCACATAATTTCAACAATGAACA
* *
27627 TTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAGCGCTAAACTTAAAACATAATTCC
66 TTAACATTGACTTACACCAGTAAAACGAATACGTAATTCCAGCACTAAACTTAAAACATAATTCC
* * *
27692 AACAGTGAAACTTAACATTGACTTACACCAGTGAAATTAATACGTAATTCCAGCACTAAACTTAT
131 AACAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAATTCCAGCACTAAACTTAT
* *
27757 CACATAATTCCATCAATGAAATTTAACATTGACTTAAACCAGTAAAATGAATACGTAATTCCAAC
196 -ACATAATTCCATCAATGAAACTTAACATCGACTTAAACCAGTAAAATGAATACGTAATTCCAAC
* * * **
27822 ACTAAACTTATCACATAATTCCAACAGTGAAACTTATCATT-GGCTTACA-TCAGTGAAATGAAT
260 ACTAAACTTATCACATAAGTCCAACAGTGAAACTGAACATTAAACTTACACT-AGTGAAATGAAT
27885 ACGTAACTCGAG
324 ACGTAACTCGAG
* * * * *
27897 TTACATCAGTGAAATGAATACGTAATT-ATAGCACTAAACTTATCACATAATTCTC-GCAGTGTA
1 TTACACCAGTGAAATGAATACATAATTCA-AGAACTAAACTTATCACATAATT-TCAACAATG-A
* * **
27960 A-ATTAACATTGACTTACACCAGTGAAACGAATACGTAATTCCAGCACTAAAGTTATCACATAAT
63 ACATTAACATTGACTTACACCAGTAAAACGAATACGTAATTCCAGCACTAAACTTAAAACATAAT
** * *
28024 TCCTGCAGTGAAACTTAACATTGACTTACATCAGCGAAATGAATACATAATTCCAGCATTAAAAC
128 TCCAACAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAATTCCAGCACT-AAAC
* *
28089 -TATATCATAATTCCAGT-AGTGAAACTTAACATCGACTTAAACCAGTGAAATGAATACGTAATT
192 TTATA-CATAATTCCA-TCAATGAAACTTAACATCGACTTAAACCAGTAAAATGAATACGTAATT
* * * * *
28152 CCAGCACTACACTTTTCACATAAGT-CAAGGAGTGAAACTGAACATTAAACTTAGACTAGTGAAA
255 CCAACACTAAACTTATCACATAAGTCCAA-CAGTGAAACTGAACATTAAACTTACACTAGTGAAA
28216 TGAATACGTAA
319 TGAATACGTAA
28227 TTCCAGCATT
Statistics
Matches: 287, Mismatches: 34, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
334 5 0.02
335 249 0.87
336 32 0.11
337 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (335 bp):
TTACACCAGTGAAATGAATACATAATTCAAGAACTAAACTTATCACATAATTTCAACAATGAACA
TTAACATTGACTTACACCAGTAAAACGAATACGTAATTCCAGCACTAAACTTAAAACATAATTCC
AACAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAATTCCAGCACTAAACTTAT
ACATAATTCCATCAATGAAACTTAACATCGACTTAAACCAGTAAAATGAATACGTAATTCCAACA
CTAAACTTATCACATAAGTCCAACAGTGAAACTGAACATTAAACTTACACTAGTGAAATGAATAC
GTAACTCGAG
Found at i:31285 original size:28 final size:28
Alignment explanation
Indices: 31245--31307 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
31235 AGTTTACAAA
*
31245 ATTTGAAGTTTATGATATAATTCATAGG
1 ATTTGGAGTTTATGATATAATTCATAGG
* *
31273 ATTTGGAGTTTATGATGTAATTTATAGG
1 ATTTGGAGTTTATGATATAATTCATAGG
*
31301 GTTTGGA
1 ATTTGGA
31308 TTAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (28 bp):
ATTTGGAGTTTATGATATAATTCATAGG
Found at i:31900 original size:18 final size:18
Alignment explanation
Indices: 31877--31914 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
31867 CAAATCTCAG
31877 ATCGTTTTAATTGGGGTT
1 ATCGTTTTAATTGGGGTT
31895 ATCGTTTTAATTGGGGTT
1 ATCGTTTTAATTGGGGTT
31913 AT
1 AT
31915 ATCGATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.05, G:0.26, T:0.50
Consensus pattern (18 bp):
ATCGTTTTAATTGGGGTT
Found at i:40262 original size:20 final size:20
Alignment explanation
Indices: 40233--40271 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
40223 TGAGCTCATA
*
40233 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
40253 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
40272 ATTGTGGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:50315 original size:27 final size:26
Alignment explanation
Indices: 50246--50319 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
50236 TTTTTGTGTT
50246 CTTTTTTTTTTCTTTTCTTTCGAACAGTC
1 CTTTTTTTTTTC--TT-TTTCGAACAGTC
* * * *
50275 CTTTTTTCTCTCTTTTTCGAATAGCTG
1 CTTTTTTTTTTCTTTTTCGAACAG-TC
50302 CTTTTTTTTTTCTTTTTC
1 CTTTTTTTTTTCTTTTTC
50320 ATTCAACATT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
26 9 0.24
27 19 0.50
29 10 0.26
ACGTcount: A:0.08, C:0.20, G:0.07, T:0.65
Consensus pattern (26 bp):
CTTTTTTTTTTCTTTTTCGAACAGTC
Found at i:51186 original size:13 final size:12
Alignment explanation
Indices: 51167--51200 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51157 GCTTAATCGG
51167 AAAAAAAATAAA
1 AAAAAAAATAAA
*
51179 AGAAAAAATAAA
1 AAAAAAAATAAA
*
51191 AATAAAAATA
1 AAAAAAAATA
51201 TAACGGAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAAAAAATAAA
Found at i:53428 original size:27 final size:27
Alignment explanation
Indices: 53384--53441 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
53374 TGTTCTTTTC
53384 TTTCGAACAGTCCTTTTTTCTCTCTTT
1 TTTCGAACAGTCCTTTTTTCTCTCTTT
* *
53411 TTTCGAACAGCTGCTTTTTT-TTTCTTT
1 TTTCGAACAG-TCCTTTTTTCTCTCTTT
53438 TTTC
1 TTTC
53442 ATTCAACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.10, C:0.22, G:0.09, T:0.59
Consensus pattern (27 bp):
TTTCGAACAGTCCTTTTTTCTCTCTTT
Found at i:57756 original size:23 final size:23
Alignment explanation
Indices: 57708--57756 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
57698 AAAGACCAGG
* * *
57708 AAAATAATAAGTAAAACTATATA
1 AAAATAAGAAGTAAAACTAAAAA
57731 AAAATGAAGAAGTAAAA-TAAAAA
1 AAAAT-AAGAAGTAAAACTAAAAA
57754 AAA
1 AAA
57757 GCTATGACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.18
Consensus pattern (23 bp):
AAAATAAGAAGTAAAACTAAAAA
Found at i:68145 original size:43 final size:43
Alignment explanation
Indices: 68095--68176 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
68085 ATTTTCTAAC
** *
68095 AAAAAATGTTGCAATAGGTT-TTGTTATTTAGCGGCGTTTGTCA
1 AAAAAATGCCGCAATA-GTTGTTGATATTTAGCGGCGTTTGTCA
*
68138 AAAAAATGCCGCAATAGTTGTTGATGTTTAGCGGCGTTT
1 AAAAAATGCCGCAATAGTTGTTGATATTTAGCGGCGTTT
68177 TCCCTACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 3 0.09
43 31 0.91
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (43 bp):
AAAAAATGCCGCAATAGTTGTTGATATTTAGCGGCGTTTGTCA
Found at i:68192 original size:43 final size:42
Alignment explanation
Indices: 68145--68261 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 42
68135 TCAAAAAAAT
*
68145 GCCGCAATAGTTGTTGATG-TTTAGCGGCGTTTTCCCTACAAAC
1 GCCGCAATAGATGTTGA-GATTTAGCGGCG-TTTCCCTACAAAC
** *
68188 GCCGCTGTAGATGTTGAGATTTAGTGGCGTTTCCCTACAAAC
1 GCCGCAATAGATGTTGAGATTTAGCGGCGTTTCCCTACAAAC
* * * * * *
68230 GACGTAGTAGGTATTGAGATTTAGCGGTGTTT
1 GCCGCAATAGATGTTGAGATTTAGCGGCGTTT
68262 TACTTACAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 39 0.63
43 23 0.37
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (42 bp):
GCCGCAATAGATGTTGAGATTTAGCGGCGTTTCCCTACAAAC
Found at i:68247 original size:42 final size:43
Alignment explanation
Indices: 68164--68272 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 43
68154 GTTGTTGATG
* *
68164 TTTAGCGGCGTTTTCCCTACAAACGCCGCTGTAGATGTTGAGA
1 TTTAGCGGCGTTTTCCCTACAAACGACGCTGTAGATATTGAGA
* *
68207 TTTAGTGGCG-TTTCCCTACAAACGACG-TAGTAGGTATTGAGA
1 TTTAGCGGCGTTTTCCCTACAAACGACGCT-GTAGATATTGAGA
* * *
68249 TTTAGCGGTGTTTTACTTACAAAC
1 TTTAGCGGCGTTTTCCCTACAAAC
68273 ACCGCAGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 35 0.62
43 20 0.36
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTTCCCTACAAACGACGCTGTAGATATTGAGA
Found at i:75552 original size:32 final size:34
Alignment explanation
Indices: 75489--75552 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 34
75479 CATCTCATCT
*
75489 TCAACCAAATCATAGAGAAAAGCTTATAAACAAC
1 TCAACCAAAACATAGAGAAAAGCTTATAAACAAC
75523 TCAACCAAAACA-AGA-AAGAAG-TTATAAACA
1 TCAACCAAAACATAGAGAA-AAGCTTATAAACA
75553 CTATTAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.39
33 6 0.21
34 11 0.39
ACGTcount: A:0.56, C:0.19, G:0.09, T:0.16
Consensus pattern (34 bp):
TCAACCAAAACATAGAGAAAAGCTTATAAACAAC
Found at i:76074 original size:83 final size:82
Alignment explanation
Indices: 75987--76148 Score: 177
Period size: 82 Copynumber: 2.0 Consensus size: 82
75977 CAAAACACCA
* * *
75987 CTAAAGTACGCATCATTTGCGGCGTTTGTTA-GCAAAACGCCGCTATATGTGAAAC-CTATT-GC
1 CTAAAGTACGAATCATTTGCGGCGTTT-TTATG-AAAACGCCACTA-ATGTCAAACTCT-TTAGC
*
76049 GGCGTTTTTATAAAAACGTCG
62 GGCGTTTGTATAAAAACGTCG
* * * * *
76070 CTAAATTACTAATCTTTTGCGGTGTTTTTATGAAAACGCCACTAATGTCCAACTCTTTAGCGGCG
1 CTAAAGTACGAATCATTTGCGGCGTTTTTATGAAAACGCCACTAATGTCAAACTCTTTAGCGGCG
*
76135 TTTGTATTAAAACG
66 TTTGTATAAAAACG
76149 CCTATACATT
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
81 9 0.14
82 34 0.52
83 23 0.35
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (82 bp):
CTAAAGTACGAATCATTTGCGGCGTTTTTATGAAAACGCCACTAATGTCAAACTCTTTAGCGGCG
TTTGTATAAAAACGTCG
Found at i:76174 original size:41 final size:40
Alignment explanation
Indices: 76042--76180 Score: 106
Period size: 41 Copynumber: 3.4 Consensus size: 40
76032 TATGTGAAAC
* *
76042 CTATTGCGGCGTTTTTATAAAAACGTCGCTA-AATTACTAAT
1 CTATTGCGGCGTTTGTATAAAAACG-C-CTATAATTGCTAAT
* * * * *
76083 CTTTTGCGGTGTTTTTATGAAAACGCC-ACTAA-TGTCCAACT
1 CTATTGCGGCGTTTGTATAAAAACGCCTA-TAATTG-CTAA-T
*
76124 CT-TTAGCGGCGTTTGTATTAAAACGCCTATACATTGCTAAT
1 CTATT-GCGGCGTTTGTATAAAAACGCCTATA-ATTGCTAAT
*
76165 CTATTGCGGCATTTGT
1 CTATTGCGGCGTTTGT
76181 GGATACAAAC
Statistics
Matches: 79, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
38 1 0.01
39 2 0.03
40 8 0.10
41 59 0.75
42 7 0.09
43 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (40 bp):
CTATTGCGGCGTTTGTATAAAAACGCCTATAATTGCTAAT
Found at i:77540 original size:17 final size:18
Alignment explanation
Indices: 77498--77540 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
77488 TTCAAATGAG
*
77498 AATGTAAAGGTAAAACAA
1 AATGTAAAGGCAAAACAA
77516 AATGTAAAGGCAAAA-AA
1 AATGTAAAGGCAAAACAA
*
77533 AGTGTAAA
1 AATGTAAA
77541 CACTGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.16
Consensus pattern (18 bp):
AATGTAAAGGCAAAACAA
Found at i:80147 original size:49 final size:49
Alignment explanation
Indices: 80090--80188 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
80080 ACTCCTGATT
80090 TCCCTCAATCAAGTGTTTTCTTAGGACGTAACCAACTTTTCTTGTGAAA
1 TCCCTCAATCAAGTGTTTTCTTAGGACGTAACCAACTTTTCTTGTGAAA
80139 TCCCTCAATCAAGTGTTTTCTTAGGACGTAACCAACTTTTCTTGTGAAA
1 TCCCTCAATCAAGTGTTTTCTTAGGACGTAACCAACTTTTCTTGTGAAA
80188 T
1 T
80189 TGCTAACTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.37
Consensus pattern (49 bp):
TCCCTCAATCAAGTGTTTTCTTAGGACGTAACCAACTTTTCTTGTGAAA
Found at i:81698 original size:26 final size:26
Alignment explanation
Indices: 81667--81736 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
81657 ATTATTATTT
81667 AAAGAAATAAAAAAGATAAAGATTAA
1 AAAGAAATAAAAAAGATAAAGATTAA
81693 AAAGAAATAAAAAAGATAAAGATTAA
1 AAAGAAATAAAAAAGATAAAGATTAA
* *
81719 AAATAAATAAAAGAGATA
1 AAAGAAATAAAAAAGATA
81737 GGGAAAATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (26 bp):
AAAGAAATAAAAAAGATAAAGATTAA
Found at i:83801 original size:7 final size:7
Alignment explanation
Indices: 83789--83848 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
83779 TCTGTAACAA
83789 TAATAAT
1 TAATAAT
83796 TAATAAT
1 TAATAAT
83803 TAATAAT
1 TAATAAT
*
83810 TAATATT
1 TAATAAT
** *
83817 TCTTAAA
1 TAATAAT
83824 TAA-AAT
1 TAATAAT
83830 TCAATAAT
1 T-AATAAT
83838 TAATAAT
1 TAATAAT
83845 TAAT
1 TAAT
83849 TGATTTCTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 3 0.07
7 36 0.84
8 4 0.09
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (7 bp):
TAATAAT
Found at i:83836 original size:35 final size:37
Alignment explanation
Indices: 83787--83857 Score: 112
Period size: 35 Copynumber: 2.0 Consensus size: 37
83777 GATCTGTAAC
83787 AATAATAATTAATAATTAATAATTAA-T-ATTTCTTA
1 AATAATAATTAATAATTAATAATTAATTGATTTCTTA
83822 AATAA-AATTCAATAATTAATAATTAATTGATTTCTT
1 AATAATAATT-AATAATTAATAATTAATTGATTTCTT
83858 CACTAAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 4 0.12
35 21 0.64
36 1 0.03
37 7 0.21
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
AATAATAATTAATAATTAATAATTAATTGATTTCTTA
Found at i:84493 original size:69 final size:69
Alignment explanation
Indices: 84331--84493 Score: 200
Period size: 69 Copynumber: 2.4 Consensus size: 69
84321 GATAATATGT
* *
84331 TCCCTTGTGAGTCACTTTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATTACGATTAG
1 TCCCATGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATTACGATTAG
84396 GTGC
66 GTGC
* * ** * * * * * *
84400 TTCCAAGCAAGTTAATGTAATCCTTCGGGGCTCCTGTGCAAGTCACCCGAAATAATTACGATTAG
1 TCCCATGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATTACGATTAG
84465 GTGC
66 GTGC
* *
84469 TCCCGTGTGAGTCACTCTATTCCTT
1 TCCCATGTGAGTCACTCTAATCCTT
84494 AATGGCTTTC
Statistics
Matches: 74, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
69 74 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (69 bp):
TCCCATGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATTACGATTAG
GTGC
Found at i:86070 original size:16 final size:16
Alignment explanation
Indices: 86037--86084 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
86027 GTTATGGTTA
*
86037 AAATAAAAAATAAGAATT
1 AAAT-AAAAA-AATAATT
86055 AAATAAAAAAATAATT
1 AAATAAAAAAATAATT
*
86071 AAATAAACAAATAA
1 AAATAAAAAAATAA
86085 AAGAGATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 19 0.68
17 5 0.18
18 4 0.14
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
AAATAAAAAAATAATT
Found at i:86638 original size:19 final size:19
Alignment explanation
Indices: 86582--86644 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
86572 CTATTTAAAC
**
86582 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
86602 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
86622 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
86641 TAAA
1 TAAA
86645 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:86698 original size:76 final size:77
Alignment explanation
Indices: 86602--86767 Score: 244
Period size: 77 Copynumber: 2.2 Consensus size: 77
86592 AAAAAATAAT
* * *
86602 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAAAT
86666 AAAATATAAAAA
66 AAAATATAAAAA
*
86678 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAAAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAAAT
* * **
86743 ATAATGTTTAAA
66 AAAATATAAAAA
*
86755 ATATTATCCTAAA
1 ATAATATCCTAAA
86768 TTTTAGTTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
76 26 0.32
77 54 0.68
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (77 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAAAT
AAAATATAAAAA
Found at i:92513 original size:15 final size:15
Alignment explanation
Indices: 92493--92526 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
92483 TTTCTCTTGT
92493 TCTTCCTGATGTGCG
1 TCTTCCTGATGTGCG
92508 TCTTCCTGATGTGCG
1 TCTTCCTGATGTGCG
92523 TCTT
1 TCTT
92527 TTTCTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.26, G:0.24, T:0.44
Consensus pattern (15 bp):
TCTTCCTGATGTGCG
Found at i:94109 original size:7 final size:7
Alignment explanation
Indices: 94090--94121 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
94080 TTGAGATTGG
94090 ATTTTGA
1 ATTTTGA
94097 ATTTTTGA
1 A-TTTTGA
94105 ATTTTGA
1 ATTTTGA
94112 ATTTTGA
1 ATTTTGA
94119 ATT
1 ATT
94122 AAGTGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
ATTTTGA
Found at i:96057 original size:40 final size:40
Alignment explanation
Indices: 96002--96083 Score: 148
Period size: 40 Copynumber: 2.0 Consensus size: 40
95992 TGCAGGTTTA
96002 TAATACCTTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACCTTTCGGTGTATATGGTGGGCACGACCTTATGTG
96042 TAATACAC-TTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATAC-CTTTCGGTGTATATGGTGGGCACGACCTTATGTG
96082 TA
1 TA
96084 GCACTACGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACCTTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:96236 original size:44 final size:46
Alignment explanation
Indices: 96188--96299 Score: 147
Period size: 47 Copynumber: 2.5 Consensus size: 46
96178 GTAACCATGC
*
96188 AAATAAGCTTATGAGCTTATGGAA-T-AATGGCAAGTATATAGGAA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGCAAGTATATAGGAA
* * * * *
96232 AAATAAGCTTACGAGGTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA-TTAAATGGCAAGTATATAGGAA
96279 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
96300 CGATAAATGG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
44 22 0.38
46 1 0.02
47 35 0.60
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAATTAAATGGCAAGTATATAGGAA
Found at i:99179 original size:22 final size:22
Alignment explanation
Indices: 99140--99202 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
99130 AAACAAAAAC
99140 AGAAG-AAAAAAATAGAAAA-AA
1 AGAAGAAAAAAAAT-GAAAACAA
* * *
99161 ATAGGAAAAGAAAATGAAAACGA
1 AGAAGAAAA-AAAATGAAAACAA
99184 AGAAGAAAAAAAATGAAAA
1 AGAAGAAAAAAAATGAAAA
99203 TGAGAACGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 3 0.09
22 18 0.53
23 13 0.38
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (22 bp):
AGAAGAAAAAAAATGAAAACAA
Found at i:99201 original size:28 final size:26
Alignment explanation
Indices: 99166--99220 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 26
99156 AAAAAATAGG
99166 AAAAGAAAATGAAAACGAAGAAGAAAA
1 AAAAGAAAATGAAAACGAA-AAGAAAA
*
99193 AAAATGAAAATGAGAACGAAAAGAAAA
1 AAAA-GAAAATGAAAACGAAAAGAAAA
99220 A
1 A
99221 GAGAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.05
Consensus pattern (26 bp):
AAAAGAAAATGAAAACGAAAAGAAAA
Found at i:99213 original size:22 final size:23
Alignment explanation
Indices: 99165--99219 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
99155 AAAAAAATAG
99165 GAAAAGAAAATGAAAACGAAGAA
1 GAAAAGAAAATGAAAACGAAGAA
*
99188 GAAAA-AAAATGAAAATG-AGAA
1 GAAAAGAAAATGAAAACGAAGAA
99209 CGAAAAGAAAA
1 -GAAAAGAAAA
99220 AGAGAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 4 0.14
22 16 0.55
23 9 0.31
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.05
Consensus pattern (23 bp):
GAAAAGAAAATGAAAACGAAGAA
Found at i:99230 original size:28 final size:27
Alignment explanation
Indices: 99171--99248 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 27
99161 ATAGGAAAAG
* *
99171 AAAATGAAAACGAAGAAGAAAAAAAATG
1 AAAATGAGAACGAA-AAGAAAAAAAATA
99199 AAAATGAGAACGAAAAGAAAAAGAGAA-A
1 AAAATGAGAACGAAAAGAAAAA-A-AATA
*
99227 AAAATGAGAGATGAAAA-AAAAA
1 AAAATGAGA-ACGAAAAGAAAAA
99249 TATTTCACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.18
28 28 0.64
29 8 0.18
ACGTcount: A:0.72, C:0.03, G:0.19, T:0.06
Consensus pattern (27 bp):
AAAATGAGAACGAAAAGAAAAAAAATA
Found at i:99231 original size:34 final size:34
Alignment explanation
Indices: 99147--99233 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 34
99137 AACAGAAGAA
* *
99147 AAAAATAGAAAAAAATAGGAAAAGAAAATGAAAACG
1 AAAAAGAGAAAAAAAT--GAAAAGAAAACGAAAACG
* *
99183 AAGAAGA-AAAAAAATGAAAATGAGAACGAAAA-G
1 AAAAAGAGAAAAAAATGAAAA-GAAAACGAAAACG
99216 AAAAAGAGAAAAAAATGA
1 AAAAAGAGAAAAAAATGA
99234 GAGATGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 12 0.27
34 19 0.43
35 8 0.18
36 5 0.11
ACGTcount: A:0.72, C:0.02, G:0.18, T:0.07
Consensus pattern (34 bp):
AAAAAGAGAAAAAAATGAAAAGAAAACGAAAACG
Found at i:102991 original size:40 final size:40
Alignment explanation
Indices: 102936--103097 Score: 324
Period size: 40 Copynumber: 4.0 Consensus size: 40
102926 TGCAGGTTTA
102936 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
102976 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
103016 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
103056 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
103096 TA
1 TA
103098 GCACTACGGT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:104496 original size:15 final size:16
Alignment explanation
Indices: 104462--104506 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 16
104452 GTTGTGGTTA
104462 AAATAAAAAATATGAATT
1 AAAT-AAAAA-ATGAATT
104480 AAATAAAAAAT-AATT
1 AAATAAAAAATGAATT
104495 AAATAAACAAAT
1 AAATAAA-AAAT
104507 TAAAGAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.42
16 6 0.23
17 5 0.19
18 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (16 bp):
AAATAAAAAATGAATT
Found at i:105062 original size:19 final size:19
Alignment explanation
Indices: 105006--105068 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
104996 CTATTTAAAC
**
105006 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
105026 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
105046 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
105065 TAAA
1 TAAA
105069 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:105096 original size:64 final size:64
Alignment explanation
Indices: 104957--105162 Score: 170
Period size: 64 Copynumber: 3.0 Consensus size: 64
104947 TCCTAAAAAC
* * *
104957 AAGATAAAACA-TCTTAATTCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAA-
1 AAGATAAAATATTC-TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATA-C-AAAG
105019 A-A
62 ATA
*
105021 ATA-ATATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATA
1 A-AGATAAAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATA
* *
105085 AAGATAAAATATGAAAATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAA
1 AAG-------AT-AAAAT-AT-T-CTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAA
105150 ATACAAAGATA
54 ATACAAAGATA
105161 AA
1 AA
105163 ATATAATGTT
Statistics
Matches: 117, Mismatches: 7, Indels: 24
0.79 0.05 0.16
Matches are distributed among these distances:
62 3 0.03
63 8 0.07
64 43 0.37
65 3 0.03
71 2 0.02
72 4 0.03
73 2 0.02
74 1 0.01
75 19 0.16
76 32 0.27
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (64 bp):
AAGATAAAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATA
Found at i:105113 original size:75 final size:76
Alignment explanation
Indices: 105026--105190 Score: 244
Period size: 76 Copynumber: 2.2 Consensus size: 76
105016 AAAAAATAAT
*
105026 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
105090 AAAAT-ATGAAA
65 AAAATGATGAAA
* *
105101 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
* * *
105166 TAATGTTTAAA
66 AAATGATGAAA
*
105177 ATATTATCCTAAAT
1 ATAATATCCTAAAT
105191 TTGAGTTTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 32 0.40
76 48 0.60
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
AAATGATGAAA
Found at i:107954 original size:24 final size:24
Alignment explanation
Indices: 107927--107990 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
107917 TATATCAAAA
* *
107927 ATCAAAACATAATTCAGGTCAGAT
1 ATCAAAACAGAATCCAGGTCAGAT
* *
107951 ATCATAACAGAATCCAGGTCAGGT
1 ATCAAAACAGAATCCAGGTCAGAT
* *
107975 ATTAGAACAGAATCCA
1 ATCAAAACAGAATCCA
107991 TGTTAGGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAATCCAGGTCAGAT
Found at i:109489 original size:22 final size:22
Alignment explanation
Indices: 109461--109505 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
109451 ATCTATGAAC
109461 TAGAAATGATTCCTTTATCACT
1 TAGAAATGATTCCTTTATCACT
109483 TAGAAATGATTCCTTTATCACT
1 TAGAAATGATTCCTTTATCACT
109505 T
1 T
109506 CACAGAACTT
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:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (22 bp):
TAGAAATGATTCCTTTATCACT
Found at i:110488 original size:17 final size:17
Alignment explanation
Indices: 110466--110499 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
110456 TTAAATGGTC
*
110466 GACTGTTGACCTGCGTT
1 GACTGTTGACCGGCGTT
110483 GACTGTTGACCGGCGTT
1 GACTGTTGACCGGCGTT
110500 AACCACTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (17 bp):
GACTGTTGACCGGCGTT
Found at i:119062 original size:69 final size:69
Alignment explanation
Indices: 118987--119222 Score: 258
Period size: 69 Copynumber: 3.4 Consensus size: 69
118977 TACGATAATA
* * *
118987 TGCTCCCTTGTGAGTCATTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACTGAAATAATTACGAT
1 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
119052 TAGG
66 TAGG
** ** * * * * *
119056 TGCTCCCAAGCAAGTCACTCTAATCCTTCGGGGCTCCTGTGCAAGTCACCCGAAATAATTATGAC
1 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
*
119121 TAGA
66 TAGG
* * * ** * *
119125 TGCTCCCGTGTGAGTCACTCTATTCCTTAGGGGCTTTCGTGCGAGT-AACCAAGAATAATCACGA
1 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGA-AATAATTACGA
119189 TTAGG
65 TTAGG
* *
119194 TGCTCTCTTATGAGTCACTCTAATCCTTC
1 TGCTCCCTTGTGAGTCACTCTAATCCTTC
119223 AAAGCTCATG
Statistics
Matches: 132, Mismatches: 34, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
68 4 0.03
69 128 0.97
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (69 bp):
TGCTCCCTTGTGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
TAGG
Found at i:119235 original size:138 final size:137
Alignment explanation
Indices: 118986--119235 Score: 306
Period size: 138 Copynumber: 1.8 Consensus size: 137
118976 ATACGATAAT
* * * ** *
118986 ATGCTCCCTTGTGAGTCATTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACTGAAATAATTACGA
1 ATGCTCCCGTGTGAGTCACTCTAATCCTTAGGAGCTCCCGTGCGAGTCAACCAAAATAATCACGA
*** *
119051 TTAGGTGCTCCCAAGCAAGTCACTCTAATCCTTCGGGGCTCCTGTGCAAGTCACCCGAAATAATT
66 TTAGGTGCTCCCAAG-AAGTCACTCTAATCCTTCAAAGCTCATGTGCAAGTCACCCGAAATAATT
119116 ATGACTAG
130 ATGACTAG
* * **
119124 ATGCTCCCGTGTGAGTCACTCTATTCCTTAGGGGCTTTCGTGCGAGT-AACCAAGAATAATCACG
1 ATGCTCCCGTGTGAGTCACTCTAATCCTTAGGAGCTCCCGTGCGAGTCAACCAA-AATAATCACG
* *
119188 ATTAGGTGCTCTCTTATG-AGTCACTCTAATCCTTCAAAGCTCATGTGC
65 ATTAGGTGCTC-C-CAAGAAGTCACTCTAATCCTTCAAAGCTCATGTGC
119236 GACTTGTAAC
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
137 4 0.04
138 86 0.92
139 1 0.01
140 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (137 bp):
ATGCTCCCGTGTGAGTCACTCTAATCCTTAGGAGCTCCCGTGCGAGTCAACCAAAATAATCACGA
TTAGGTGCTCCCAAGAAGTCACTCTAATCCTTCAAAGCTCATGTGCAAGTCACCCGAAATAATTA
TGACTAG
Found at i:120026 original size:13 final size:13
Alignment explanation
Indices: 120010--120040 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
120000 ACTTTAATTG
*
120010 TTGACTATTGACT
1 TTGACCATTGACT
120023 TTGACCATTGACT
1 TTGACCATTGACT
120036 TTGAC
1 TTGAC
120041 AAAAAAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (13 bp):
TTGACCATTGACT
Found at i:120033 original size:20 final size:20
Alignment explanation
Indices: 119987--120040 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
119977 TCATTGACCG
*
119987 CCATTGACCATTGACTTTAA
1 CCATTGACTATTGACTTTAA
*** *
120007 TTGTTGACTATTGACTTTGA
1 CCATTGACTATTGACTTTAA
120027 CCATTGACT-TTGAC
1 CCATTGACTATTGAC
120041 AAAAAAGTCA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (20 bp):
CCATTGACTATTGACTTTAA
Found at i:121448 original size:17 final size:17
Alignment explanation
Indices: 121426--121458 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
121416 TAGCAACATC
121426 AATGA-TTGGATTAAGTA
1 AATGATTTGGA-TAAGTA
121443 AATGATTTGGATAAGT
1 AATGATTTGGATAAGT
121459 CCGAAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (17 bp):
AATGATTTGGATAAGTA
Found at i:122472 original size:43 final size:43
Alignment explanation
Indices: 122391--122905 Score: 557
Period size: 43 Copynumber: 11.9 Consensus size: 43
122381 CTATGACTTG
* * * * * *
122391 TAAGTCCTTACCGTTACCAGAGGCTCCTCTGTTATGTGCAAGGG
1 TAAGACCTTACCGTTTCC-CAGGCTCCTTTGCTATGTGCAAGGA
* * * *
122435 TAAGTCCTTACCATTACCCAGGCTCCTTTGCTATGTGCAAGGG
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * * * * *
122478 TAAGTCATAACCGTTTCCTAGGCTCCTCTACTATGTGCAATGG-
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAA-GGA
* *
122521 TAAGTCCTGACCGTTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
1 TAAGACCTTACCG-TTTCCCAGGCTCCTTTGCTATGTGCAAGGA
*
122565 TAAGACCTTACCGTTTCTCAGGCTCCTTTGCTATGTGCAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
** * * * *
122608 TAAGACCTTACTATTTCTCAAGCTCCTTTCCTATGTACAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
*
122651 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTAAGTGCAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * * *
122694 TAAGACATTACCGTTTCTCAGGCTCATTTGCTATGTGCAATGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* **
122737 TAAGACCTTACCGTTTCTCAGGCTCCTTTATTATGTGCAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * *
122780 TAAGACCTTACCATTTCCAAGGCTCCTTTGCTATGTGTAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * * *
122823 TAAGACCTTATCGTTTCCCAAGCTCTTTTTCTATGTGCAAAGG-
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGC-AAGGA
* ** * * *
122866 TAAGTCCTTACCGATTTTGCATGCTCCTCTGCTCTGTGCA
1 TAAGACCTTACCG-TTTCCCAGGCTCCTTTGCTATGTGCA
122906 CAGGGTAAAT
Statistics
Matches: 403, Mismatches: 63, Indels: 11
0.84 0.13 0.02
Matches are distributed among these distances:
43 327 0.81
44 76 0.19
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.33
Consensus pattern (43 bp):
TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
Found at i:123354 original size:27 final size:26
Alignment explanation
Indices: 123306--123361 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
123296 TAGGTTGTAT
*
123306 TTTGTTTTATATATGAGTCTGAAAAA
1 TTTGTTTTATATATGAATCTGAAAAA
* * *
123332 TTTGTTTTATTTCTGAATACTGATAAA
1 TTTGTTTTATATATGAAT-CTGAAAAA
123359 TTT
1 TTT
123362 TATTTTGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.52
Consensus pattern (26 bp):
TTTGTTTTATATATGAATCTGAAAAA
Found at i:123876 original size:16 final size:16
Alignment explanation
Indices: 123855--123911 Score: 82
Period size: 16 Copynumber: 3.6 Consensus size: 16
123845 ACAGAGCCTC
*
123855 TGAATCATTCAGCATT
1 TGAATCATTCAGCAGT
123871 TGAATCATTCAGCAGT
1 TGAATCATTCAGCAGT
123887 TGAATCATTCAGC-GCT
1 TGAATCATTCAGCAG-T
123903 T-AATCATTC
1 TGAATCATTC
123912 TGAAGTAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
15 9 0.23
16 30 0.77
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (16 bp):
TGAATCATTCAGCAGT
Found at i:124086 original size:76 final size:76
Alignment explanation
Indices: 123957--124473 Score: 660
Period size: 76 Copynumber: 6.8 Consensus size: 76
123947 ACAATTCTAT
* * * * * *
123957 CAGTGAAACTTAACATTGACTTACACTAGTGAAATGAATACGTATTTCTAGCACTAAACCTATGA
1 CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCA
* *
124022 CATGATTTCAG
66 CATAATTCCAG
*
124033 TAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATT-CAAGCACTAAACTTATC
1 CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAA-CACTAAACTTATC
* *
124097 ACATCATTTCAG
65 ACATAATTCCAG
* * * * * * *
124109 TAGTGAAATTTAACATTGACTTACACCAATAAAATGAATACGGAATTCTAGCACTAAACTTATCA
1 CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCA
*
124174 AATAATTCCA-
66 CATAATTCCAG
* * ** *
124184 CTAATGAAACTTAACATTAACTTACACCAACGAAATAAATACGTAATTCCAACACTAAACTTATC
1 C-AGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATC
*
124249 ACATAATTCCAA
65 ACATAATTCCAG
* *
124261 CAGTGAAACTTAACATTGACTTACACCAGTTAAATGAATATGTAATTCCAACACTAAACTTATCA
1 CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCA
124326 CATAATTCCAG
66 CATAATTCCAG
* * *
124337 CAATGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCA
1 CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCA
*
124402 CATAATTCCAA
66 CATAATTCCAG
* ** ** * *
124413 CAATGAAACTTAACATTGACTTACAGTAGTGAAATGAATAAATGACTCCAACACTAAACTT
1 CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTT
124474 TGAAGCTTAA
Statistics
Matches: 388, Mismatches: 49, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
75 1 0.00
76 385 0.99
77 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (76 bp):
CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCA
CATAATTCCAG
Found at i:124256 original size:25 final size:24
Alignment explanation
Indices: 124222--124428 Score: 89
Period size: 25 Copynumber: 8.2 Consensus size: 24
124212 AACGAAATAA
*
124222 ATACGTAATTCCAACACTAAACTT
1 ATACATAATTCCAACACTAAACTT
*
124246 ATCACATAATTCCAACAGTGAAACTT
1 AT-ACATAATTCCAACACT-AAACTT
* * * * *
124272 A-ACATTGACTTACACCAGTTAAA-TGA
1 ATACA-T-AATTCCAACA-CTAAACT-T
**
124298 ATATGTAATTCCAACACTAAACTT
1 ATACATAATTCCAACACTAAACTT
* * *
124322 ATCACATAATTCCAGCAATGAAATTT
1 AT-ACATAATTCCAACACT-AAACTT
* * * * * *
124348 A-ACATTGACTTACACCAGTAAAATGA
1 ATACA-T-AATTCCAACACTAAACT-T
*
124374 ATACGTAATTCCAACACTAAACTT
1 ATACATAATTCCAACACTAAACTT
*
124398 ATCACATAATTCCAACAATGAAACTT
1 AT-ACATAATTCCAACACT-AAACTT
124424 A-ACAT
1 ATACAT
124429 TGACTTACAG
Statistics
Matches: 133, Mismatches: 34, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
24 20 0.15
25 67 0.50
26 42 0.32
27 4 0.03
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (24 bp):
ATACATAATTCCAACACTAAACTT
Found at i:124602 original size:134 final size:134
Alignment explanation
Indices: 124346--124607 Score: 353
Period size: 134 Copynumber: 2.0 Consensus size: 134
124336 GCAATGAAAT
* *
124346 TTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACATAATTCC
1 TTAACATTGACTTACACCAGTAAAATGAATACATAATTACAACACTAAACTTATCACATAATTCC
** *
124411 AACAATGAAACTTAACATTGACTTACAGTAGTGAAATGAATAAATGACTCCAACACTAAACTTTG
66 AACAATGAAACTTAACATTGACTTACACCAGTGAAATGAATAAATAACTCCAACACTAAACTTTG
124476 AAGC
131 AAGC
* * * * * *
124480 TTAATATTGACTTGCATCAGTGAAATGAATACATAATTATAGCACTAAACTTATCACATAATTCC
1 TTAACATTGACTTACACCAGTAAAATGAATACATAATTACAACACTAAACTTATCACATAATTCC
*** * * * * *
124545 CGTAGTGAAATTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTT
66 AACAATGAAACTTAACATTGACTTACACCAGTGAAATGAATAAATAACTCCAACACTAAACTT
124608 ATCACATAAT
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
134 109 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (134 bp):
TTAACATTGACTTACACCAGTAAAATGAATACATAATTACAACACTAAACTTATCACATAATTCC
AACAATGAAACTTAACATTGACTTACACCAGTGAAATGAATAAATAACTCCAACACTAAACTTTG
AAGC
Found at i:124611 original size:76 final size:76
Alignment explanation
Indices: 124474--124711 Score: 242
Period size: 76 Copynumber: 3.1 Consensus size: 76
124464 CACTAAACTT
* * * * **
124474 TGAAGCTTAATATTGACTTGCATCAGTGAAATGAATACATAATTATAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACAACAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
*
124539 AATTCCCGTAG
66 AATTCCAGTAG
* *
124550 TGAAATTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACAACAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
** **
124615 AATTTCTTGCCG
66 AA-TTCCAGTAG
* *** * * * * *
124627 TGAAACTTAACATTAACTTACAACAACAAAATGAATTCAGAATTCCATCATTTTTAACTTATCAC
1 TGAAACTTAACATTGACTTACAACAGTGAAATGAATACATAATTCCAGCA--CTAAACTTATCAC
*
124692 CTAATTCCAGTAG
64 ATAATTCCAGTAG
124705 TGAAACT
1 TGAAACT
124712 AATGTACGCG
Statistics
Matches: 132, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
76 60 0.45
77 46 0.35
78 12 0.09
79 14 0.11
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACAACAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
AATTCCAGTAG
Found at i:124671 original size:77 final size:76
Alignment explanation
Indices: 124502--124711 Score: 213
Period size: 77 Copynumber: 2.7 Consensus size: 76
124492 TGCATCAGTG
** * * *
124502 AAATGAATACATAATTATAGCACTAAACTTATCACATAATTCCCGTAGTGAAATTTAACATTGAC
1 AAATGAATACATAATTCCAGCACTAAACTTATCACATAATTCCCGCAGTGAAACTTAACATTAAC
* ***
124567 TTACACCAGTG
66 TTACAACAACA
** *
124578 AAATGAATACATAATTCCAGCACTAAACTTATCACATAATTTCTTGCCGTGAAACTTAACATTAA
1 AAATGAATACATAATTCCAGCACTAAACTTATCACATAA-TTCCCGCAGTGAAACTTAACATTAA
124643 CTTACAACAACA
65 CTTACAACAACA
* * * * * * * *
124655 AAATGAATTCAGAATTCCATCATTTTTAACTTATCACCTAATTCCAGTAGTGAAACT
1 AAATGAATACATAATTCCAGCA--CTAAACTTATCACATAATTCCCGCAGTGAAACT
124712 AATGTACGCG
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
76 37 0.34
77 46 0.42
78 12 0.11
79 14 0.13
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (76 bp):
AAATGAATACATAATTCCAGCACTAAACTTATCACATAATTCCCGCAGTGAAACTTAACATTAAC
TTACAACAACA
Found at i:125878 original size:83 final size:82
Alignment explanation
Indices: 125722--126063 Score: 276
Period size: 83 Copynumber: 4.1 Consensus size: 82
125712 AATAAAAGCA
* *** * *
125722 CCGCTAAAGTACTATTTTGTTGCGGTGTTTGTTGAAAAAATGCCACTATAGATCAACCTTATTAC
1 CCGCTAAAGTACTA-CTTGTTGCGACATTTGTTGAAAAAATGCCACTATAGATGAACCCTATTAC
***
125787 AATGTTTGTATAAAAATG
65 AGCATTTGTATAAAAATG
* * * * *
125805 CTGCTAAAGTACTCCATTGTTGCGACGTTTGTTGAAAAAATGTCAGTATAGATGAACCCT-TTAA
1 CCGCTAAAGTACTAC-TTGTTGCGACATTTGTTGAAAAAATGCCACTATAGATGAACCCTATT-A
* *
125869 CGGCATTTGTATAAAAGTG
64 CAGCATTTGTATAAAAATG
* * * * * * *
125888 CCACTAACA-TAATACTCTGTTTCGACATTTGTTGAAAAAAATACCACTATATAAGAACCCTGTT
1 CCGCTAA-AGTACTACT-TGTTGCGACATTTGTTG-AAAAAATGCCACTATAGATGAACCCTATT
* *
125952 ATAGCATTTATATAAAAATG
63 ACAGCATTTGTATAAAAATG
* * * * * *
125972 CCGCTAAAGTACTACTTTTTG-TAGCATTTGTTGAAAAAACGGCACTATAGATGAACCTTATTGC
1 CCGCTAAAGTACTACTTGTTGCGA-CATTTGTTGAAAAAATGCCACTATAGATGAACCCTATTAC
* * * **
126036 GGTATTTTTATAAAAACA
65 AGCATTTGTATAAAAATG
126054 CCGCTAAAGT
1 CCGCTAAAGT
126064 TACCATTTTG
Statistics
Matches: 203, Mismatches: 48, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
82 49 0.24
83 102 0.50
84 50 0.25
85 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (82 bp):
CCGCTAAAGTACTACTTGTTGCGACATTTGTTGAAAAAATGCCACTATAGATGAACCCTATTACA
GCATTTGTATAAAAATG
Found at i:126955 original size:44 final size:44
Alignment explanation
Indices: 126888--126976 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
126878 ATAACGTCTA
126888 TTTTAGTGGCATCTTCATATTTCTAGACAG-CAGGGGAGTTGATG
1 TTTTAGTGGCATCTTCATATTTCTAGACAGTCA-GGGAGTTGATG
* * * * *
126932 TTTTAGTTGCATCTTCGTGTTTCTGGACAGTCATGGAGTTGATG
1 TTTTAGTGGCATCTTCATATTTCTAGACAGTCAGGGAGTTGATG
126976 T
1 T
126977 AAAGAGATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 37 0.95
45 2 0.05
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.40
Consensus pattern (44 bp):
TTTTAGTGGCATCTTCATATTTCTAGACAGTCAGGGAGTTGATG
Found at i:138464 original size:27 final size:27
Alignment explanation
Indices: 138411--138491 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
138401 TCAGAGCTCG
* **
138411 GGGGTATTTTGATCA-GGTTGAAGTTCA
1 GGGGTATTTTGATAATTTTTGAA-TTCA
*
138438 TGGGTATTTTGATAATTTTTGAATTCA
1 GGGGTATTTTGATAATTTTTGAATTCA
* * *
138465 GGGGTGTTTTGGTAATTTTGGAATTCA
1 GGGGTATTTTGATAATTTTTGAATTCA
138492 AATTATTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
27 40 0.89
28 5 0.11
ACGTcount: A:0.22, C:0.05, G:0.28, T:0.44
Consensus pattern (27 bp):
GGGGTATTTTGATAATTTTTGAATTCA
Found at i:139728 original size:85 final size:85
Alignment explanation
Indices: 139627--139830 Score: 220
Period size: 85 Copynumber: 2.4 Consensus size: 85
139617 TGGGGATGCG
*
139627 AAGTCAGT-ATCAATGGTTGATCTGCTCCTTTCT-TTGAA-GAACGCAAAATCAAAGAACA-ATC
1 AAGTC-GTAATCAATGGTTGATCTGCTCCTTTCTCCTGAATG-ACGCAAAATCAAAGAA-AGATC
* *
139688 TT-ATTATTTTCTCTAAAGGACGCC
63 TTCA--AATTTCTCTAAAGGAAGCC
* * ** *
139712 AAGTCGTAATCAATGGTTGATCTGCTTCTTTCTCCTGAATGATGCCTAATCAGAGAAAGATCTTC
1 AAGTCGTAATCAATGGTTGATCTGCTCCTTTCTCCTGAATGACGCAAAATCAAAGAAAGATCTTC
139777 AAATTTCTCTAAAGGAAGCC
66 AAATTTCTCTAAAGGAAGCC
** * *
139797 AAGTAATAATCAAAGGTTGATATGCTCCTTTCTC
1 AAGTCGTAATCAATGGTTGATCTGCTCCTTTCTC
139831 AAAAGGACGC
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
84 2 0.02
85 76 0.75
86 21 0.21
87 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (85 bp):
AAGTCGTAATCAATGGTTGATCTGCTCCTTTCTCCTGAATGACGCAAAATCAAAGAAAGATCTTC
AAATTTCTCTAAAGGAAGCC
Found at i:142367 original size:20 final size:20
Alignment explanation
Indices: 142342--142381 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
142332 TTAGGAGATT
*
142342 GCTTAGTGTTCGAGAGAATA
1 GCTTAGTGTTCAAGAGAATA
142362 GCTTAGTGTTCAAGAGAATA
1 GCTTAGTGTTCAAGAGAATA
142382 ACTAAGTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (20 bp):
GCTTAGTGTTCAAGAGAATA
Found at i:145617 original size:75 final size:75
Alignment explanation
Indices: 145467--145673 Score: 252
Period size: 75 Copynumber: 2.7 Consensus size: 75
145457 CAAAGCCAAA
* * **
145467 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGAATGCTCAGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCCTGAACAG
145532 TTTGGCTCCGAG
64 TTTGGCTCCGAG
* * * * *
145544 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCTATAGGAGGAACCGATTCCCCCCTTAACATTT
1 AATTCCAGAATGCTCAGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTGAACAGTT
* *
145609 TTGTTCCGAG
66 TGGCTCCGAG
* ** * *
145619 AATTCCAGTATGCTCAGAGGGAACCGATTCCCCCCCAGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCAGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCC
145674 TGTTCAACGG
Statistics
Matches: 111, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
75 86 0.77
77 25 0.23
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (75 bp):
AATTCCAGAATGCTCAGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTGAACAGTT
TGGCTCCGAG
Found at i:151470 original size:20 final size:20
Alignment explanation
Indices: 151445--151504 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
151435 TTTGGTGCAG
* *
151445 AGGGAATCGATCCCCCCCTT
1 AGGGAATCGATACCCCCCTA
* * *
151465 AGGGAACCGATTCCCCCCAA
1 AGGGAATCGATACCCCCCTA
151485 AGGGGAATCGATACCCCCCT
1 A-GGGAATCGATACCCCCCT
151505 GGGGTTCTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.25, C:0.38, G:0.22, T:0.15
Consensus pattern (20 bp):
AGGGAATCGATACCCCCCTA
Found at i:153770 original size:13 final size:13
Alignment explanation
Indices: 153752--153778 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
153742 GAATAGGTGT
153752 TAAATGTTTTACA
1 TAAATGTTTTACA
153765 TAAATGTTTTACA
1 TAAATGTTTTACA
153778 T
1 T
153779 GATAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TAAATGTTTTACA
Found at i:154218 original size:75 final size:75
Alignment explanation
Indices: 154128--154292 Score: 222
Period size: 75 Copynumber: 2.2 Consensus size: 75
154118 TTGCTCAGAG
* ** *
154128 GGAACCGATTCCCCCCTGAATGGTTTGGCTCCGAGATTTCCAGAATGCTCGGAGGGAACCGATTC
1 GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAGGGAACCGATTC
*
154193 CCCCATAGGA
66 CCCCACAGGA
* * * *
154203 GGAACCGATTCCCCCCTAAACATTTTTGTTCCGAGAATTCCAGTATGCTCGGAGGGAACCGATTC
1 GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAGGGAACCGATTC
* *
154268 CCCCCCAGGG
66 CCCCACAGGA
*
154278 GGTACCGATTCCCCC
1 GGAACCGATTCCCCC
154293 TGTTCAACGG
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.22
Consensus pattern (75 bp):
GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAGGGAACCGATTC
CCCCACAGGA
Found at i:156665 original size:5 final size:5
Alignment explanation
Indices: 156655--156680 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
156645 TGTTCAGGGA
156655 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
156681 CATATAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:160532 original size:20 final size:19
Alignment explanation
Indices: 160498--160536 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
160488 TTAGGAGATT
*
160498 GCTTATGTTCGAGAGAATA
1 GCTTATGTTCAAGAGAATA
160517 GCTTAGTGTTCAAGAGAATA
1 GCTTA-TGTTCAAGAGAATA
160537 ACTAAGTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (19 bp):
GCTTATGTTCAAGAGAATA
Done.