Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000704.1 Hibiscus syriacus cultivar Beakdansim tig00001369_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: 68090
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:4522 original size:137 final size:139
Alignment explanation
Indices: 4350--4625 Score: 529
Period size: 137 Copynumber: 2.0 Consensus size: 139
4340 AAATTTAAAA
4350 GCTTTTAAAATTTATTTTTATTTTTTAATATTTTTGATGAATAATATTTAAAAAATATTTGTTAT
1 GCTTTTAAAATTTATTTTTATTTTTTAATATTTTTGATGAATAATATTTAAAAAATATTTGTTAT
*
4415 AATCAGCAGTAATTAATTTATTAATAGATTAACTCTTGAATCAAATATT-AAAAAAATTAATTCT
66 AATCAGCAGTAATTAATTTATTAATAGATCAACTCTTGAATCAAATATTAAAAAAAATTAATTCT
4479 AATTTATTT
131 AATTTATTT
4488 GCTTTT-AAATTTATTTTTATTTTTTAATATTTTTGATGAATAATATTTAAAAAATATTTGTTAT
1 GCTTTTAAAATTTATTTTTATTTTTTAATATTTTTGATGAATAATATTTAAAAAATATTTGTTAT
4552 AATCAGCAGTAATTAATTTATTAATAGATCAACTCTTGAATCAAATATTAAAAAAAATTAATTCT
66 AATCAGCAGTAATTAATTTATTAATAGATCAACTCTTGAATCAAATATTAAAAAAAATTAATTCT
4617 AATTTATTT
131 AATTTATTT
4626 TTACTTTTAT
Statistics
Matches: 136, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
137 106 0.78
138 30 0.22
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (139 bp):
GCTTTTAAAATTTATTTTTATTTTTTAATATTTTTGATGAATAATATTTAAAAAATATTTGTTAT
AATCAGCAGTAATTAATTTATTAATAGATCAACTCTTGAATCAAATATTAAAAAAAATTAATTCT
AATTTATTT
Found at i:6116 original size:59 final size:60
Alignment explanation
Indices: 6035--6150 Score: 164
Period size: 59 Copynumber: 1.9 Consensus size: 60
6025 AAATAGCCCC
* * *
6035 TTGACTATAGGGTGTTATTTTGTTGAGTCTT-CAACCATTAAAAGTTATAAAATGGTTCA
1 TTGACTATAGAGTATTATTTTGTTGAGTCTTCCAACCATTAAAAGTTACAAAATGGTTCA
**
6094 TTGACTATAGAGTATTGA-TTTGTTGAGTCTTCCAACTGTTAAAAGTTACAAAATGGT
1 TTGACTATAGAGTATT-ATTTTGTTGAGTCTTCCAACCATTAAAAGTTACAAAATGGT
6151 CACATGACTA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 27 0.54
60 23 0.46
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (60 bp):
TTGACTATAGAGTATTATTTTGTTGAGTCTTCCAACCATTAAAAGTTACAAAATGGTTCA
Found at i:9167 original size:22 final size:22
Alignment explanation
Indices: 9141--9182 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
9131 TTTCAAAAGG
9141 TATTA-TTTTCCTATTCGAAAAC
1 TATTACTTTT-CTATTCGAAAAC
9163 TATTACTTTTCTATTCGAAA
1 TATTACTTTTCTATTCGAAA
9183 GCAGAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.48
Consensus pattern (22 bp):
TATTACTTTTCTATTCGAAAAC
Found at i:12376 original size:162 final size:162
Alignment explanation
Indices: 12130--12468 Score: 509
Period size: 162 Copynumber: 2.1 Consensus size: 162
12120 CGGTATAGAA
* ** * * *
12130 ATGATAAAACCGATAAAGTGCTACCGGATACATTTAAAGTGTTGGTACTTTATTATAAGGATCGA
1 ATGATAAAACCGGTAAAACGTTACCGGATACATTGAAAGTGTTGATACTTTATTATAAGGATCGA
* * *
12195 TACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAATCATATAAAGTGTCGATACTTTAAAAAAATG
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCATATAAAGTGTCGATACTTTAAAAAAATA
*
12260 TATCGATCCAAAAACGATATACCAGGTAAAAAT
131 TATCGATCC-AAAACGATATAACAGGTAAAAAT
* *
12293 ATGATTAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTTGATACTTTA-TATAAGGATCGA
1 ATGATAAAACCGGTAAAACGTTACCGGATACATTGAAAGTGTTGATACTTTATTATAAGGATCGA
* ** * *
12357 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAAAAAAATA
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCATATAAAGTGTCGATACTTTAAAAAAATA
12422 TATCGATCCAAAACGATATAACAGGTAAAAAT
131 TATCGATCCAAAACGATATAACAGGTAAAAAT
12454 ATGATAAAACCGGTA
1 ATGATAAAACCGGTA
12469 TCAAAATGAT
Statistics
Matches: 158, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
161 36 0.23
162 78 0.49
163 44 0.28
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (162 bp):
ATGATAAAACCGGTAAAACGTTACCGGATACATTGAAAGTGTTGATACTTTATTATAAGGATCGA
CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCATATAAAGTGTCGATACTTTAAAAAAATA
TATCGATCCAAAACGATATAACAGGTAAAAAT
Found at i:12468 original size:20 final size:19
Alignment explanation
Indices: 12431--12491 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
12421 ATATCGATCC
* *
12431 AAAACGATATAACAGGTAA
1 AAAATGATAAAACAGGTAA
* *
12450 AAATATGATAAAACCGGTATC
1 AAA-ATGATAAAACAGGTA-A
12471 AAAATGATAAAACAGGTAA
1 AAAATGATAAAACAGGTAA
12490 AA
1 AA
12492 TGATACCGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.15
20 26 0.76
21 3 0.09
ACGTcount: A:0.57, C:0.10, G:0.15, T:0.18
Consensus pattern (19 bp):
AAAATGATAAAACAGGTAA
Found at i:12663 original size:24 final size:24
Alignment explanation
Indices: 12636--12690 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
12626 TGTATCGATT
12636 AAATATAA-ATAACATATCCGATGA
1 AAATATAAGATAA-ATATCCGATGA
* **
12660 AAATATAAGCTAAATATCCTCTGA
1 AAATATAAGATAAATATCCGATGA
12684 AAATATA
1 AAATATA
12691 TATAGAACGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (24 bp):
AAATATAAGATAAATATCCGATGA
Found at i:14721 original size:21 final size:21
Alignment explanation
Indices: 14695--14759 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
14685 AATACAATCA
*
14695 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
14716 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
14737 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
14758 AG
1 AG
14760 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:14835 original size:33 final size:33
Alignment explanation
Indices: 14793--14858 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
14783 AAATAGATGG
*
14793 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
14826 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
14859 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:16673 original size:19 final size:19
Alignment explanation
Indices: 16649--16697 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
16639 AATGTAGGGT
16649 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
16668 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
16687 TATTTTTGTAT
1 TAATTTTGTAT
16698 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:17159 original size:200 final size:200
Alignment explanation
Indices: 16816--18794 Score: 3681
Period size: 200 Copynumber: 9.9 Consensus size: 200
16806 CAATATGGCC
* *
16816 AACAGGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
16881 CTAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
16946 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTATCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
17011 TGGAA
196 TGGAA
17016 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
* *
17081 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAATATATCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
17146 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
17211 TGGAA
196 TGGAA
17216 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
17281 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCAGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
17346 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGCGTCGATATTTTTTGTCCAGAATAAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
17411 TGGAA
196 TGGAA
17416 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
17481 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
17546 GAATATGTCTAAATAATGTGTCGACACGTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
17611 TGGAA
196 TGGAA
*
17616 AACAGGGTACAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
** *
17681 CCAAAAGTATAATGTAATATGTAATTTTTAAATCTAACTGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
17746 GAATATGTCTAAATAATGTGTCGACACTTTTTTAATTTCTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
*
17811 TAGAA
196 TGGAA
*
17816 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
17881 CTAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
17946 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATACTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
18011 TGGAA
196 TGGAA
18016 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
18081 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
18146 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
18211 TGGAA
196 TGGAA
18216 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
18280 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
18345 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTTGTTCAGAATGA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTTTGTCCAGAATGA
18410 ATGGAA
195 ATGGAA
*
18416 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
18481 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGATA
66 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
18546 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
18611 TGGAA
196 TGGAA
* *
18616 AACAGGGTGCAACCATAAAGTGTTGATCCATATATAAAAAGTATCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
18681 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
18746 GCATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
18795 AATTTAAATA
Statistics
Matches: 1729, Mismatches: 48, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
199 141 0.08
200 1450 0.84
201 138 0.08
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
TGGAA
Found at i:20267 original size:6 final size:6
Alignment explanation
Indices: 20256--20319 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
20246 CAAGCGGTCA
* * * * *
20256 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
20304 CTGACG ATGAAG ATGA
1 ATGAAG ATGAAG ATGA
20320 TGACGACGAC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.39, C:0.09, G:0.33, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:20293 original size:3 final size:3
Alignment explanation
Indices: 20273--20371 Score: 63
Period size: 3 Copynumber: 33.0 Consensus size: 3
20263 TGAAGCTGAC
* * * * * * *
20273 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * * * * * * *
20321 GAC GAC GAC GAC GAC GAC GAC GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
20369 GAT
1 GAT
20372 CCAAACAAGT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.19
Consensus pattern (3 bp):
GAT
Found at i:20371 original size:12 final size:12
Alignment explanation
Indices: 20256--20367 Score: 98
Period size: 12 Copynumber: 9.3 Consensus size: 12
20246 CAAGCGGTCA
*
20256 ATGAAGATGAAG
1 ATGACGATGAAG
*
20268 CTGACGATGAAG
1 ATGACGATGAAG
*
20280 ATGACGATGATG
1 ATGACGATGAAG
20292 ATGACGATGAAG
1 ATGACGATGAAG
*
20304 CTGACGATGAAG
1 ATGACGATGAAG
* * *
20316 ATGATGACGACG
1 ATGACGATGAAG
* * *
20328 ACGACGACGACG
1 ATGACGATGAAG
* *
20340 ACGACGATGATG
1 ATGACGATGAAG
* *
20352 ATGATGATGATG
1 ATGACGATGAAG
20364 ATGA
1 ATGA
20368 TGATCCAAAC
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 84 1.00
ACGTcount: A:0.37, C:0.12, G:0.33, T:0.18
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:22494 original size:183 final size:184
Alignment explanation
Indices: 22219--22711 Score: 884
Period size: 183 Copynumber: 2.7 Consensus size: 184
22209 GCAATGCTAT
* *
22219 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACTTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
* *
22284 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTCAAAACGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC
22348 AGTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
131 AGTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
22402 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
22467 GTGTCGGTACTTAATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC
* * * *
22531 ATTTTCACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
131 AGTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
22585 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
22650 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTG-AAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCG
22712 GTAATTTTAA
Statistics
Matches: 298, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
183 294 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (184 bp):
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC
AGTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:25175 original size:42 final size:42
Alignment explanation
Indices: 25128--25235 Score: 216
Period size: 42 Copynumber: 2.6 Consensus size: 42
25118 CGCAGTACAT
25128 ATTTAGGTATGTACAATAACTACAAGTATATATTATCATTAA
1 ATTTAGGTATGTACAATAACTACAAGTATATATTATCATTAA
25170 ATTTAGGTATGTACAATAACTACAAGTATATATTATCATTAA
1 ATTTAGGTATGTACAATAACTACAAGTATATATTATCATTAA
25212 ATTTAGGTATGTACAATAACTACA
1 ATTTAGGTATGTACAATAACTACA
25236 TATTTAGGTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (42 bp):
ATTTAGGTATGTACAATAACTACAAGTATATATTATCATTAA
Found at i:25629 original size:23 final size:23
Alignment explanation
Indices: 25598--25670 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
25588 ATAGGTAAAA
*
25598 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
25621 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
25644 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
25667 ATAT
1 ATAT
25671 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:26058 original size:23 final size:23
Alignment explanation
Indices: 26027--26099 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
26017 ATAGGTAAAA
*
26027 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
26050 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
26073 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
26096 ATAT
1 ATAT
26100 TGTAAAGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:27019 original size:24 final size:24
Alignment explanation
Indices: 26961--27019 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
26951 CTTTAGTTGC
* *
26961 TAAAAGTTAATTTTAATTATAATT
1 TAAAACTTATTTTTAATTATAATT
26985 TAAATACTTATTTTTATATTA-AATCT
1 TAAA-ACTTATTTTTA-ATTATAAT-T
27011 TAAAA-TTAT
1 TAAAACTTAT
27020 GAATGCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 8 0.27
25 13 0.43
26 9 0.30
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (24 bp):
TAAAACTTATTTTTAATTATAATT
Found at i:27842 original size:20 final size:20
Alignment explanation
Indices: 27782--27843 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
27772 TGTGATCCTA
*
27782 TTTCAAAGAAAGAATAATA-T
1 TTTCAAA-AAAAAATAATATT
* * *
27802 TTT-AAAAGAATATAAACATT
1 TTTCAAAAAAAAAT-AATATT
27822 TTTCAAAAAAAAATAATATT
1 TTTCAAAAAAAAATAATATT
27842 TT
1 TT
27844 GATATGTTCC
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
18 4 0.12
19 6 0.19
20 14 0.44
21 8 0.25
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (20 bp):
TTTCAAAAAAAAATAATATT
Found at i:30382 original size:19 final size:19
Alignment explanation
Indices: 30347--30399 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
30337 TGACCTCATT
* *
30347 GATCGCCATGTGTTCCATA
1 GATCGCCAAGTGCTCCATA
*
30366 GATCGTCAAGTGCTCCATA
1 GATCGCCAAGTGCTCCATA
*
30385 GGTCGCCAAGTGCTC
1 GATCGCCAAGTGCTC
30400 ATTGCGACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (19 bp):
GATCGCCAAGTGCTCCATA
Found at i:33130 original size:13 final size:13
Alignment explanation
Indices: 33109--33168 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
33099 ATTTTGTTAG
33109 TATTTTATTTAAT
1 TATTTTATTTAAT
* *
33122 TATTGTA-TTATT
1 TATTTTATTTAAT
33134 TAATTTT-TTT-AT
1 T-ATTTTATTTAAT
33146 TATTTTATTTAAT
1 TATTTTATTTAAT
33159 TATTTTATTT
1 TATTTTATTT
33169 TTTTACAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 5 0.13
12 10 0.26
13 24 0.62
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TATTTTATTTAAT
Found at i:33134 original size:21 final size:20
Alignment explanation
Indices: 33109--33173 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
33099 ATTTTGTTAG
33109 TATTTTATTTAATTATTGTAT
1 TATTTTATTTAATTATT-TAT
*
33130 TA-TTTAATT--TT-TTTAT
1 TATTTTATTTAATTATTTAT
33146 TATTTTATTTAATTATTTTAT
1 TATTTTATTTAATTA-TTTAT
*
33167 TTTTTTA
1 TATTTTA
33174 CAGTTATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
16 5 0.14
17 8 0.22
18 2 0.06
19 2 0.06
20 6 0.17
21 13 0.36
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TATTTTATTTAATTATTTAT
Found at i:33144 original size:29 final size:29
Alignment explanation
Indices: 33111--33173 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
33101 TTTGTTAGTA
33111 TTTTATT-TAATTATTGT-ATTATTTAATTT
1 TTTTATTAT-ATTATT-TAATTATTTAATTT
* *
33140 TTTTATTATTTTATTTAATTATTTTATTT
1 TTTTATTATATTATTTAATTATTTAATTT
33169 TTTTA
1 TTTTA
33174 CAGTTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 1 0.03
29 28 0.93
30 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTTATTATATTATTTAATTATTTAATTT
Found at i:33155 original size:16 final size:16
Alignment explanation
Indices: 33113--33155 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
33103 TGTTAGTATT
* *
33113 TTATTTAATTATTGTA
1 TTATTTAATTTTTTTA
33129 TTATTTAATTTTTTTA
1 TTATTTAATTTTTTTA
*
33145 TTATTTTATTT
1 TTATTTAATTT
33156 AATTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTATTTAATTTTTTTA
Found at i:33443 original size:13 final size:13
Alignment explanation
Indices: 33425--33484 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
33415 AACTGTAAAA
33425 AAATAAAATAATT
1 AAATAAAATAATT
33438 AAATAAAATAA-T
1 AAATAAAATAATT
*
33450 AAA-AAAATTAAAT
1 AAATAAAA-TAATT
*
33463 -AATACAATAATT
1 AAATAAAATAATT
33475 AAATAAAATA
1 AAATAAAATA
33485 CTAACAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 4 0.10
12 13 0.32
13 23 0.57
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:33444 original size:21 final size:21
Alignment explanation
Indices: 33420--33464 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
33410 TTTATAACTG
*
33420 TAAAAAAATAAAATAATTAAA
1 TAAAAAAATAAAAAAATTAAA
*
33441 TAAAATAATAAAAAAATTAAA
1 TAAAAAAATAAAAAAATTAAA
33462 TAA
1 TAA
33465 TACAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAAAAATAAAAAAATTAAA
Found at i:33457 original size:16 final size:16
Alignment explanation
Indices: 33420--33480 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 16
33410 TTTATAACTG
33420 TAAAAAAATAAAATAA
1 TAAAAAAATAAAATAA
*
33436 T---TAAATAAAATAA
1 TAAAAAAATAAAATAA
*
33449 TAAAAAAATTAAATAA
1 TAAAAAAATAAAATAA
* * *
33465 TACAATAATTAAATAA
1 TAAAAAAATAAAATAA
33481 AATACTAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 12 0.32
16 25 0.68
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAAATAAAATAA
Found at i:33478 original size:21 final size:21
Alignment explanation
Indices: 33420--33472 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
33410 TTTATAACTG
* *
33420 TAAAAAAATAAAATAATTAAA
1 TAAAACAATAAAAAAATTAAA
*
33441 TAAAATAATAAAAAAATTAAA
1 TAAAACAATAAAAAAATTAAA
*
33462 TAATACAATAA
1 TAAAACAATAA
33473 TTAAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAACAATAAAAAAATTAAA
Found at i:33483 original size:21 final size:20
Alignment explanation
Indices: 33420--33484 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
33410 TTTATAACTG
*
33420 TAAAAAAATAAAATAATTAAA
1 TAAAATAAT-AAATAATTAAA
33441 TAAAATAAT-AA-AA--AAA
1 TAAAATAATAAATAATTAAA
*
33457 TTAAATAATACAATAATTAAA
1 TAAAATAATA-AATAATTAAA
33478 TAAAATA
1 TAAAATA
33485 CTAACAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
16 11 0.31
18 4 0.11
19 4 0.11
21 17 0.47
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAATAAATAATTAAA
Found at i:38367 original size:17 final size:17
Alignment explanation
Indices: 38347--38379 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38337 AAGTCAACGG
38347 TCAACGGTCGGGTCGGA
1 TCAACGGTCGGGTCGGA
38364 TCAACGGTCGGGTCGG
1 TCAACGGTCGGGTCGG
38380 GTCGGTCGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.18
Consensus pattern (17 bp):
TCAACGGTCGGGTCGGA
Found at i:38387 original size:14 final size:14
Alignment explanation
Indices: 38368--38396 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38358 GTCGGATCAA
38368 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
38382 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
38396 C
1 C
38397 AGACTGGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.55, T:0.21
Consensus pattern (14 bp):
CGGTCGGGTCGGGT
Found at i:38449 original size:20 final size:20
Alignment explanation
Indices: 38406--38462 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
38396 CAGACTGGTT
38406 AAACCAGTCAAAACGGTTCG
1 AAACCAGTCAAAACGGTTCG
38426 -AACCAGTCAAAATCGG-TCG
1 AAACCAGTCAAAA-CGGTTCG
* *
38445 AAACCGGTCAAACCGGTT
1 AAACCAGTCAAAACGGTT
38463 TCCAGCAGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (20 bp):
AAACCAGTCAAAACGGTTCG
Found at i:45685 original size:14 final size:14
Alignment explanation
Indices: 45668--45696 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45658 CAACGGTCAA
45668 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
45682 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
45696 C
1 C
45697 AGACCGGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.55, T:0.21
Consensus pattern (14 bp):
CGGTCGGGTCGGGT
Found at i:45759 original size:20 final size:18
Alignment explanation
Indices: 45693--45764 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 18
45683 GGTCGGGTCG
*
45693 GGTCAGACCGGTTAAAAC
1 GGTCAAACCGGTTAAAAC
* *
45711 GGTTCGAACCGGTCAAAACC
1 GG-TCAAACCGGTTAAAA-C
*
45731 AGTCGAAACCGGTTGAAAAC
1 GGTC-AAACCGGTT-AAAAC
45751 TGGTCAAACCGGTT
1 -GGTCAAACCGGTT
45765 TCCAGCAGCG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.05
19 14 0.33
20 19 0.45
21 7 0.17
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (18 bp):
GGTCAAACCGGTTAAAAC
Found at i:47136 original size:64 final size:65
Alignment explanation
Indices: 46959--47121 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
46949 GAATTAATTG
* * ** *
46959 AACATCGAATGCATTCCATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
47024 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
47087 A
65 A
47088 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
47122 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:53676 original size:21 final size:21
Alignment explanation
Indices: 53652--53712 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
53642 ACCGTCCTCT
53652 CGTTCCTCAACATCCTAATCC
1 CGTTCCTCAACATCCTAATCC
** *
53673 CGTTCCTCCTCAACCTAATCC
1 CGTTCCTCAACATCCTAATCC
* *
53694 TGATCCTCAAGC-TCCTAAT
1 CGTTCCTCAA-CATCCTAAT
53713 GGCTTATTGA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.41, G:0.07, T:0.30
Consensus pattern (21 bp):
CGTTCCTCAACATCCTAATCC
Found at i:54538 original size:21 final size:21
Alignment explanation
Indices: 54512--54555 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
54502 ACTCCGGGAG
*
54512 CTAGTTCTTCTCGAGCTGCTC
1 CTAGTTCTTCTCGAGCTCCTC
*
54533 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCTCGAGCTCCTC
54554 CT
1 CT
54556 CCTCCTTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.36, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCTCGAGCTCCTC
Found at i:55616 original size:19 final size:19
Alignment explanation
Indices: 55592--55630 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
55582 TCGAATGCAT
55592 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
55611 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
55630 T
1 T
55631 GAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:55755 original size:64 final size:65
Alignment explanation
Indices: 55578--55740 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 65
55568 GAATTAATTG
* * * *
55578 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTTAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTTAA
* ** * ** *
55643 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCAATGCAC-CAGGCTATTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTTAA
55707 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
55741 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
64 41 0.49
65 43 0.51
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTTAA
Found at i:66991 original size:25 final size:25
Alignment explanation
Indices: 66957--67004 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
66947 TGCATGGTCT
*
66957 GTGCATCGATGCATCAATGCATTAA
1 GTGCATCGATGCATAAATGCATTAA
66982 GTGCATCGATGCATAAATGCATT
1 GTGCATCGATGCATAAATGCATT
67005 CGATGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (25 bp):
GTGCATCGATGCATAAATGCATTAA
Found at i:67007 original size:17 final size:17
Alignment explanation
Indices: 66965--67009 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
66955 CTGTGCATCG
*
66965 ATGCATCAATGCATTAA
1 ATGCATCGATGCATTAA
*
66982 GTGCATCGATGCA-TAA
1 ATGCATCGATGCATTAA
66998 ATGCATTCGATG
1 ATGCA-TCGATG
67010 TTAAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (17 bp):
ATGCATCGATGCATTAA
Done.