Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002774.1 Hibiscus syriacus cultivar Beakdansim tig00005716_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: 95423
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Found at i:4535 original size:13 final size:13
Alignment explanation
Indices: 4517--4541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4507 TTTAATGGAC
4517 TGTTGTTTATGTT
1 TGTTGTTTATGTT
4530 TGTTGTTTATGT
1 TGTTGTTTATGT
4542 ATAACTTAAT
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TGTTGTTTATGTT
Found at i:9403 original size:182 final size:182
Alignment explanation
Indices: 9098--10273 Score: 1506
Period size: 182 Copynumber: 6.6 Consensus size: 182
9088 TGTCGATACA
* * *
9098 ATGAAAATATATCGATCTATAACAATATAACATGTAAAAATATGAC--AATCGGTCTC-AAATGA
1 ATGAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
* * *
9160 CAAAACCGGTAAA-ACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACAC
66 CAAAACAGGTAAATA-ACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACAC
*
9224 TTTCT-GAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAATGTCGACACTTT
130 TTT-TGGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTT
* ** *
9277 ATGAAAATGTATCGATCCATAACAATATAACAACTAAAAATATAACAAAACCGGTCTCAAAATGA
1 ATGAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
*
9342 CAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAATTATCGACACT
66 CAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* * * *
9407 TTTGGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTT
131 TTTGGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTT
** * *
9459 AAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAAAAAACCGG--T-AAAAT--
1 ATGAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
* *
9519 --------G----T---TACCGGATATGTTGAAAGTGTCGATAATTTAATACAAGTATCGACACT
66 CAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* * *
9569 TTTTGAATTTAAAAGAGAATAAGTTATAATGCCTAAAAAGTGTCGACACTTT
131 TTTGGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTT
* **
9621 ATGAAAATGTATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGA
1 ATGAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
* *
9686 CAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTAGATACTTTAATATAAGTATCGACACT
66 CAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* * *
9751 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT
131 TTTGGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTT
* * **
9803 A-AAAAATGTATTGATCTATAACAATATAACAGGTAAAAATATGACAAAAGAGGTCT-ACAAATG
1 ATGAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCA-AAATG
* * * * * * *
9866 ACAAAACCGATAAA-AAGATACCAGATATCTTGAAAGTGTCGATAATTTAATATAAGTATTGACA
65 ACAAAACAGGTAAATAA-CTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACA
*
9930 CTTTTGGAATTTAAAAGAG-AGAAGTTAT-ACGCCTAAAAATTGTCGACACTTT
129 CTTTTGGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTT
* *
9982 ATG-AAATGTATCGATCTATAACAATATAACAGCTAAAAATATGACAAAACCGGTTTC-AAATGA
1 ATGAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
* *
10045 CAAAACAGGTAAACAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
66 CAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* * * *
10110 TTTGAAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT
131 TTTGGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTT
* *
10162 A-AAAAATGTATCGATCTATAAC-ATATAACAGGT-AAAATATGAC-AAACCAGTCTCAAAATGA
1 ATGAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
* *** * * *
10223 CAAAACCGGTAAAGCGCTACTGAATATGTTGAAAGTGTTGATACTTTAATA
66 CAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATA
10274 AGTACGCGTA
Statistics
Matches: 870, Mismatches: 93, Indels: 69
0.84 0.09 0.07
Matches are distributed among these distances:
162 139 0.16
164 1 0.00
165 6 0.01
169 1 0.00
175 1 0.00
177 9 0.01
178 137 0.16
179 137 0.16
180 53 0.06
181 136 0.16
182 249 0.29
183 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (182 bp):
ATGAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
CAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
TTTGGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTT
Found at i:9630 original size:162 final size:163
Alignment explanation
Indices: 9359--10203 Score: 752
Period size: 162 Copynumber: 4.9 Consensus size: 163
9349 GGTAAATAAC
* * *
9359 TACCGGATATGTTGAAAGTGTCGATACTTTAATATAATTATCGACACTTTTGGAATTTAAAAGAG
1 TACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAG
* * * * *
9424 AAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAAAAAAATGTATCGATCCATAACAATATAA
66 AAGAAGTTATAACGCCTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAA
*
9489 CAGGTAAAAATATGAAAAAACCGG-TAAAATGT
131 CAGCTAAAAATATGAAAAAACCGGATAAAATGT
* * *
9521 TACCGGATATGTTGAAAGTGTCGATAATTTAATACAAGTATCGACACTTTTTGAATTTAAAAGAG
1 TACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAG
* * *
9586 AATAAGTTATAATGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAA
66 AAGAAGTTATAACGCCTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAA
* * *
9651 CAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAT
131 CAGCTAAAAATATGAAAAAACCGG-------AT----AAA-A--T--GT
* *
9700 AACTACCAGATATGTTGAAAGTGTAGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAA
1 ---TACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGGAATTTAAAA
* * * * *
9765 GAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA-AAAAATGTATTGATCTATAACAATA
63 GAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATA
* * *
9829 TAACAGGTAAAAATATGACAAAAGAGGTCTACAAATGACAAAACCGATAAAAAGA
128 TAACAGCTAAAAATATGA-AAAA-A---C--C----G--------GATAAAATGT
* *
9884 TACCAGATATCTTGAAAGTGTCGATAATTTAATATAAGTATTGACACTTTTGGAATTTAAAAGAG
1 TACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAG
* * *
9949 -AGAAGTTAT-ACGCCTAAAAATTGTCGACACTTTAT-GAAATGTATCGATCTATAACAATATAA
66 AAGAAGTTATAACGCCTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAA
* *
10011 CAGCTAAAAATATGACAAAACCGGTTTCAAATGACAAAACAGGT
131 CAGCTAAAAATATGAAAAAACCGG------AT----AAA-ATGT
* *
10055 AAACAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGAAATTT
1 -------TACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGGAATTT
* * * *
10120 AAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA-AAAAATGTATCGATCTATAAC
59 AAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAAC
*
10184 -ATATAACAGGT-AAAATATGA
124 AATATAACAGCTAAAAATATGA
10204 CAAACCAGTC
Statistics
Matches: 563, Mismatches: 59, Indels: 106
0.77 0.08 0.15
Matches are distributed among these distances:
160 1 0.00
162 139 0.25
166 2 0.00
168 1 0.00
170 4 0.01
171 2 0.00
172 1 0.00
174 4 0.01
175 1 0.00
177 2 0.00
178 73 0.13
179 80 0.14
180 49 0.09
181 99 0.18
182 94 0.17
183 1 0.00
186 1 0.00
188 2 0.00
189 3 0.01
192 1 0.00
193 2 0.00
200 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (163 bp):
TACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAG
AAGAAGTTATAACGCCTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAA
CAGCTAAAAATATGAAAAAACCGGATAAAATGT
Found at i:9788 original size:344 final size:343
Alignment explanation
Indices: 9156--10203 Score: 1622
Period size: 344 Copynumber: 3.0 Consensus size: 343
9146 TCGGTCTCAA
* * *
9156 ATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
1 ATGAAAAAACCGGTAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
*
9221 CACTTTCTGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAATGTCGACACTTTATGAAAATG
66 CACTTTTTGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAATGTCGACACTTTATGAAAATG
*
9286 TATCGATCCATAACAATATAACAACTAAAAATATAACAAAACCGGTCTCAAAATGACAAAACAGG
131 TATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGG
* *
9351 TAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAATTATCGACACTTTTGGAATT
196 TAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATT
* *
9416 TAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAAAAAAATGTATCGATCCATAA
261 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-AAAAAATGTATCGATCTATAA
9481 CAATATAACAGGTAAAAAT
325 CAATATAACAGGTAAAAAT
* * *
9500 ATGAAAAAACCGGTAAAATGTTACCGGATATGTTGAAAGTGTCGATAATTTAATACAAGTATCGA
1 ATGAAAAAACCGGTAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
* * *
9565 CACTTTTTGAATTTAAAAGAGAATAAGTTATAATGCCTAAAAAGTGTCGACACTTTATGAAAATG
66 CACTTTTTGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAATGTCGACACTTTATGAAAATG
9630 TATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGG
131 TATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGG
*
9695 TAAATAACTACCAGATATGTTGAAAGTGTAGATACTTTAATATAAGTATCGACACTTTTGGAATT
196 TAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATT
*
9760 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATTGATCTATAAC
261 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATCGATCTATAAC
9825 AATATAACAGGTAAAAAT
326 AATATAACAGGTAAAAAT
* *
9843 ATGACAAAAGAGGTCTACAAATGACAAAACCGATAAAAAGATACCAGATATCTTGAAAGTGTCGA
1 ATGA-AAAA-A---C--C----G--------G-TAAAAAGATACCGGATATGTTGAAAGTGTCGA
* * *
9908 TAATTTAATATAAGTATTGACACTTTTGGAATTTAAAAGAG-AGAAGTTAT-ACGCCTAAAAATT
46 TAATTTAATATAAGTATCGACACTTTTTGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAAT
* *
9971 GTCGACACTTTATG-AAATGTATCGATCTATAACAATATAACAGCTAAAAATATGACAAAACCGG
111 GTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGG
* *
10035 TTTC-AAATGACAAAACAGGTAAACAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAA
176 TCTCAAAATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAA
*
10099 GTATCGACACTTTTGAAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
241 GTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
10164 AAAATGTATCGATCTATAAC-ATATAACAGGT-AAAAT
306 AAAATGTATCGATCTATAACAATATAACAGGTAAAAAT
10200 ATGA
1 ATGA
10204 CAAACCAGTC
Statistics
Matches: 652, Mismatches: 32, Indels: 27
0.92 0.05 0.04
Matches are distributed among these distances:
343 42 0.06
344 294 0.45
345 1 0.00
348 1 0.00
350 1 0.00
354 1 0.00
357 9 0.01
358 11 0.02
359 141 0.22
360 51 0.08
361 25 0.04
362 9 0.01
363 66 0.10
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (343 bp):
ATGAAAAAACCGGTAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
CACTTTTTGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAATGTCGACACTTTATGAAAATG
TATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGG
TAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATT
TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATCGATCTATAAC
AATATAACAGGTAAAAAT
Found at i:10087 original size:178 final size:181
Alignment explanation
Indices: 9521--10273 Score: 1058
Period size: 178 Copynumber: 4.2 Consensus size: 181
9511 GGTAAAATGT
* * * *
9521 TACCGGATATGTTGAAAGTGTCGATAATTTAATACAAGTATCGACACTTTTTGAATTTAAAAGAG
1 TACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAG
* ** * *
9586 AATAAGTTATAATGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAA
66 AAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTA-AAAAATGTATCGATCTATAACAATATAA
* *
9651 CAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATAAC
130 CAGCTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAACAAC
*
9703 TACCAGATATGTTGAAAGTGTAGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAG
1 TACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAG
* * *
9768 AAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATTGATCTATAACAATATAAC
66 AAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAATGTATCGATCTATAACAATATAAC
* ** * * *
9833 AGGTAAAAATATGACAAAAGAGGTCT-ACAAATGACAAAACCGATAAA-AAGA
131 AGCTAAAAATATGACAAAACCGGTCTCA-AAATGACAAAACAGGTAAACAA-C
* * *
9884 TACCAGATATCTTGAAAGTGTCGATAATTTAATATAAGTATTGACACTTTTGGAATTTAAAAGAG
1 TACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAG
* **
9949 -AGAAGTTATA-CGCCTAAAAATTGTCGACACTTTATGAAATGTATCGATCTATAACAATATAAC
66 AAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAATGTATCGATCTATAACAATATAAC
*
10012 AGCTAAAAATATGACAAAACCGGTTTC-AAATGACAAAACAGGTAAACAAC
131 AGCTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAACAAC
*
10062 TACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGAAATTTAAAAGAG
1 TACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAG
* *
10127 AAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATCGATCTATAAC-ATATAAC
66 AAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAATGTATCGATCTATAACAATATAAC
* * * *
10191 AGGT-AAAATATGAC-AAACCAGTCTCAAAATGACAAAACCGGTAAAGC-GC
131 AGCTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAA-CAAC
* *
10240 TA-CTGAATATGTTGAAAGTGTTGATACTTTAATA
1 TACCAG-ATATGTTGAAAGTGTCGATACTTTAATA
10274 AGTACGCGTA
Statistics
Matches: 509, Mismatches: 53, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
177 11 0.02
178 136 0.27
179 92 0.18
180 53 0.10
181 126 0.25
182 91 0.18
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (181 bp):
TACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAG
AAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAATGTATCGATCTATAACAATATAAC
AGCTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAACAAC
Found at i:10168 original size:359 final size:360
Alignment explanation
Indices: 9500--10235 Score: 1212
Period size: 359 Copynumber: 2.0 Consensus size: 360
9490 AGGTAAAAAT
* * * * *
9500 ATGAAAAAACCGGTAAAATGTTACCGGATATGTTGAAAGTGTCGATAATTTAATACAAGTATCGA
1 ATGACAAAACCGGTAAAAAGATACCAGATATCTTGAAAGTGTCGATAATTTAATACAAGTATCGA
* * *
9565 CACTTTTTGAATTTAAAAGAGAATAAGTTATAATGCCTAAAAAGTGTCGACACTTTATGAAAATG
66 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTTATGAAAATG
9630 TATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGG
131 TATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGG
* *
9695 TAAATAACTACCAGATATGTTGAAAGTGTAGATACTTTAATATAAGTATCGACACTTTTGGAATT
196 TAAACAACTACCAGATATGTTGAAAGTGTAGATACTTTAATATAAGTATCGACACTTTTGAAATT
*
9760 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATTGATCTATAAC
261 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATCGATCTATAAC
*
9825 AATATAACAGGTAAAAATATGACAAAAGAGGTCT-ACAA
326 -ATATAACAGGT-AAAATATGACAAAACA-GTCTCA-AA
* * *
9863 ATGACAAAACCGATAAAAAGATACCAGATATCTTGAAAGTGTCGATAATTTAATATAAGTATTGA
1 ATGACAAAACCGGTAAAAAGATACCAGATATCTTGAAAGTGTCGATAATTTAATACAAGTATCGA
*
9928 CACTTTTGGAATTTAAAAGAG-AGAAGTTAT-ACGCCTAAAAATTGTCGACACTTTATG-AAATG
66 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTTATGAAAATG
* * *
9990 TATCGATCTATAACAATATAACAGCTAAAAATATGACAAAACCGGTTTC-AAATGACAAAACAGG
131 TATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGG
*
10054 TAAACAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGAAATT
196 TAAACAACTACCAGATATGTTGAAAGTGTAGATACTTTAATATAAGTATCGACACTTTTGAAATT
10119 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATCGATCTATAAC
261 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATCGATCTATAAC
*
10184 ATATAACAGGTAAAATATGACAAACCAGTCTCAAA
326 ATATAACAGGTAAAATATGACAAAACAGTCTCAAA
10219 ATGACAAAACCGGTAAA
1 ATGACAAAACCGGTAAA
10236 GCGCTACTGA
Statistics
Matches: 350, Mismatches: 22, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
356 22 0.06
357 15 0.04
358 11 0.03
359 141 0.40
360 51 0.15
361 25 0.07
362 8 0.02
363 77 0.22
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (360 bp):
ATGACAAAACCGGTAAAAAGATACCAGATATCTTGAAAGTGTCGATAATTTAATACAAGTATCGA
CACTTTTGGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGACACTTTATGAAAATG
TATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGG
TAAACAACTACCAGATATGTTGAAAGTGTAGATACTTTAATATAAGTATCGACACTTTTGAAATT
TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATCGATCTATAAC
ATATAACAGGTAAAATATGACAAAACAGTCTCAAA
Found at i:10698 original size:18 final size:18
Alignment explanation
Indices: 10663--10729 Score: 89
Period size: 19 Copynumber: 3.6 Consensus size: 18
10653 CTTTTATTTA
*
10663 ATATTATATGTAAAAAATG
1 ATATTATAGGT-AAAAATG
10682 ATATTATAGGTAAAAATG
1 ATATTATAGGTAAAAATG
*
10700 ATATTATAGATAGAAAATG
1 ATATTATAGGTA-AAAATG
*
10719 ATATTTTAGGT
1 ATATTATAGGT
10730 TGTATAAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.42
19 25 0.58
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (18 bp):
ATATTATAGGTAAAAATG
Found at i:12030 original size:24 final size:24
Alignment explanation
Indices: 11977--12034 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
11967 TTGAAGAATG
11977 TTTTTTA--ATATAAAATGATAGT
1 TTTTTTATTATATAAAATGATAGT
* ** *
11999 ATAGTTATTATATAAAATGATATT
1 TTTTTTATTATATAAAATGATAGT
12023 TTTTTTATTATA
1 TTTTTTATTATA
12035 AATGCAAGTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 4 0.15
24 23 0.85
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (24 bp):
TTTTTTATTATATAAAATGATAGT
Found at i:12287 original size:18 final size:18
Alignment explanation
Indices: 12264--12298 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
12254 GTTATTGTCA
12264 AGGAGGTAGAGGAGGCAT
1 AGGAGGTAGAGGAGGCAT
12282 AGGAGGTAGAGGAGGCA
1 AGGAGGTAGAGGAGGCA
12299 AATGAAGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.51, T:0.09
Consensus pattern (18 bp):
AGGAGGTAGAGGAGGCAT
Found at i:17850 original size:12 final size:13
Alignment explanation
Indices: 17821--17852 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17811 ATGCAAATAG
17821 AAGATGAATCCAC
1 AAGATGAATCCAC
17834 AAGATGAATCC-C
1 AAGATGAATCCAC
17846 AAGATGA
1 AAGATGA
17853 TGATGAGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (13 bp):
AAGATGAATCCAC
Found at i:23860 original size:15 final size:15
Alignment explanation
Indices: 23840--23875 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
23830 CCAATTCTAT
23840 TGATGGTCCCACTTC
1 TGATGGTCCCACTTC
23855 TGATGGTCCCACTTC
1 TGATGGTCCCACTTC
23870 TGATGG
1 TGATGG
23876 AGGAACGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.28, G:0.25, T:0.33
Consensus pattern (15 bp):
TGATGGTCCCACTTC
Found at i:25109 original size:523 final size:523
Alignment explanation
Indices: 24125--25180 Score: 2040
Period size: 523 Copynumber: 2.0 Consensus size: 523
24115 AAACTCCTAA
*
24125 CAACCCTAATGTTCCTTTTCTTTCAGAATGGATCAAAGAGAATACTATGAACTCAGAGAATTTGG
1 CAACCCTAATATTCCTTTTCTTTCAGAATGGATCAAAGAGAATACTATGAACTCAGAGAATTTGG
24190 CCCCGCCTTACAACAACACATCTACAACCGATCAAATTCGAATGTTAGATCATAATGATCAGAGC
66 CCCCGCCTTACAACAACACATCTACAACCGATCAAATTCGAATGTTAGATCATAATGATCAGAGC
* *
24255 CAGATATAAGAATCTGTTCATAAGGAAAATGATTCATCTCATAGTAACCAATCCTAGCTTCATTT
131 CAGATATAAGAATATGTTCAGAAGGAAAATGATTCATCTCATAGTAACCAATCCTAGCTTCATTT
24320 CTATGAATTTCTTATTTTGGAACACACAAGGGGTTGTGAAACCTTCTTTTAAAAGATATTTTAAG
196 CTATGAATTTCTTATTTTGGAACACACAAGGGGTTGTGAAACCTTCTTTTAAAAGATATTTTAAG
24385 GAATATGTTATTATGCACAAGCCTAAGATTATTGTTTTGATGGAAACTCACATGAGTGGTAAAAG
261 GAATATGTTATTATGCACAAGCCTAAGATTATTGTTTTGATGGAAACTCACATGAGTGGTAAAAG
24450 AGCTGATAGTATTGTCAACATGTGTTACAATAACTCTTTCAGAATTGAAGCGCAGGGGCATAGCG
326 AGCTGATAGTATTGTCAACATGTGTTACAATAACTCTTTCAGAATTGAAGCGCAGGGGCATAGCG
24515 GTGGTATATGGGTGCTTTGGGATAACTCAGTAGAAGTGAAGATTTTAAGCGTCTCTAATCAGTAT
391 GTGGTATATGGGTGCTTTGGGATAACTCAGTAGAAGTGAAGATTTTAAGCGTCTCTAATCAGTAT
*
24580 GTTCATACTCATTTCAGAGGGCTCAATAGTAATGATTGGAACTATTTTACAGCTGTTTATGCTAG
456 GTTCATACTCATTTCAGAGGACTCAATAGTAATGATTGGAACTATTTTACAGCTGTTTATGCTAG
24645 CCC
521 CCC
24648 CAACCCTAATATTCCTTTTCTTTCAGAATGGATCAAAGAGAATACTATGAACTCAGAGAATTTGG
1 CAACCCTAATATTCCTTTTCTTTCAGAATGGATCAAAGAGAATACTATGAACTCAGAGAATTTGG
24713 CCCCGCCTTACAACAACACATCTACAACCGATCAAATTCGAATGTTAGATCATAATGATCAGAGC
66 CCCCGCCTTACAACAACACATCTACAACCGATCAAATTCGAATGTTAGATCATAATGATCAGAGC
* *
24778 CAGATATAAGAATATGTTCAGAAGGAAAATGATTCGTCTCATAGTAACCAATTCTAGCTTCATTT
131 CAGATATAAGAATATGTTCAGAAGGAAAATGATTCATCTCATAGTAACCAATCCTAGCTTCATTT
24843 CTATGAATTTCTTATTTTGGAACACACAAGGGGTTGTGAAACCTTCTTTTAAAAGATATTTTAAG
196 CTATGAATTTCTTATTTTGGAACACACAAGGGGTTGTGAAACCTTCTTTTAAAAGATATTTTAAG
*
24908 GAATGTGTTATTATGCACAAGCCTAAGATTATTGTTTTGATGGAAACTCACATGAGTGGTAAAAG
261 GAATATGTTATTATGCACAAGCCTAAGATTATTGTTTTGATGGAAACTCACATGAGTGGTAAAAG
*
24973 AGCTGATAGTATTGTCAACATGTGTTACAATAATTCTTTCAGAATTGAAGCGCAGGGGCATAGCG
326 AGCTGATAGTATTGTCAACATGTGTTACAATAACTCTTTCAGAATTGAAGCGCAGGGGCATAGCG
25038 GTGGTATATGGGTGCTTTGGGATAACTCAGTAGAAGTGAAGATTTTAAGCGTCTCTAATCAGTAT
391 GTGGTATATGGGTGCTTTGGGATAACTCAGTAGAAGTGAAGATTTTAAGCGTCTCTAATCAGTAT
25103 GTTCATACTCATTTCAGAGGACTCAATAGTAATGATTGGAACTATTTTACAGCTGTTTATGCTAG
456 GTTCATACTCATTTCAGAGGACTCAATAGTAATGATTGGAACTATTTTACAGCTGTTTATGCTAG
25168 CCC
521 CCC
25171 CAACCCTAAT
1 CAACCCTAAT
25181 GTTCGATGTA
Statistics
Matches: 525, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
523 525 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (523 bp):
CAACCCTAATATTCCTTTTCTTTCAGAATGGATCAAAGAGAATACTATGAACTCAGAGAATTTGG
CCCCGCCTTACAACAACACATCTACAACCGATCAAATTCGAATGTTAGATCATAATGATCAGAGC
CAGATATAAGAATATGTTCAGAAGGAAAATGATTCATCTCATAGTAACCAATCCTAGCTTCATTT
CTATGAATTTCTTATTTTGGAACACACAAGGGGTTGTGAAACCTTCTTTTAAAAGATATTTTAAG
GAATATGTTATTATGCACAAGCCTAAGATTATTGTTTTGATGGAAACTCACATGAGTGGTAAAAG
AGCTGATAGTATTGTCAACATGTGTTACAATAACTCTTTCAGAATTGAAGCGCAGGGGCATAGCG
GTGGTATATGGGTGCTTTGGGATAACTCAGTAGAAGTGAAGATTTTAAGCGTCTCTAATCAGTAT
GTTCATACTCATTTCAGAGGACTCAATAGTAATGATTGGAACTATTTTACAGCTGTTTATGCTAG
CCC
Found at i:29257 original size:23 final size:23
Alignment explanation
Indices: 29231--29286 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
29221 AAGAGAAAGA
*
29231 AAGAAGAAGATGATGGGTTGGGG
1 AAGAAGAAGAGGATGGGTTGGGG
* * * *
29254 AAGAATATGGGGTTGGGTTGGGG
1 AAGAAGAAGAGGATGGGTTGGGG
29277 AAGAAGAAGA
1 AAGAAGAAGA
29287 ACCGGTCAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.46, T:0.18
Consensus pattern (23 bp):
AAGAAGAAGAGGATGGGTTGGGG
Found at i:40254 original size:3 final size:3
Alignment explanation
Indices: 40246--40271 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
40236 ATGAAGCACA
40246 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
40272 AGATACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:44878 original size:16 final size:17
Alignment explanation
Indices: 44857--44892 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
44847 ATTAATTTAA
44857 AAATA-TTCATAATTAT
1 AAATATTTCATAATTAT
*
44873 AAATATTTTATAATTAT
1 AAATATTTCATAATTAT
44890 AAA
1 AAA
44893 ATAAACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATATTTCATAATTAT
Found at i:49256 original size:31 final size:32
Alignment explanation
Indices: 49198--49257 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
49188 TTTAAAATAT
* *
49198 AAAATTTTAATAGAGATGAACTTAAATTTCTA
1 AAAATTTTAATAGAGATGAAATAAAATTTCTA
49230 AAAATTTTAA-AG-GATGAAAATAAAATTT
1 AAAATTTTAATAGAGATG-AAATAAAATTT
49258 TAATAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 11 0.44
32 10 0.40
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (32 bp):
AAAATTTTAATAGAGATGAAATAAAATTTCTA
Found at i:50076 original size:20 final size:20
Alignment explanation
Indices: 50051--50089 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50041 ATATTTTTAA
50051 CAAAAA-AAATCTTTAAGTAC
1 CAAAAATAAAT-TTTAAGTAC
*
50071 CAAAAATTAATTTTAAGTA
1 CAAAAATAAATTTTAAGTA
50090 TAATTTAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (20 bp):
CAAAAATAAATTTTAAGTAC
Found at i:53174 original size:34 final size:34
Alignment explanation
Indices: 53131--53215 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
53121 CCCGATTATA
53131 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
53165 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
*
53199 TATATATAAAATATTTT
1 TATATATATAATATTTT
53216 CAGGTTCGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTTTATATTAAT
Found at i:56319 original size:5 final size:5
Alignment explanation
Indices: 56241--56309 Score: 138
Period size: 5 Copynumber: 13.8 Consensus size: 5
56231 ATAGTTCACA
56241 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
56291 ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATAT
56310 ATAATATAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:64315 original size:24 final size:24
Alignment explanation
Indices: 64288--64335 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
64278 GTCTTGAGGG
*
64288 AGCTGGTAGAAACGTGGACTGTTC
1 AGCTAGTAGAAACGTGGACTGTTC
*
64312 AGCTAGTAGAAACGTGGATTGTTC
1 AGCTAGTAGAAACGTGGACTGTTC
64336 GGTGGAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (24 bp):
AGCTAGTAGAAACGTGGACTGTTC
Found at i:67736 original size:20 final size:21
Alignment explanation
Indices: 67691--67736 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
67681 TAATTAAACT
*
67691 TTTAAATTTATTAATTGTATA
1 TTTAAATTTATTAATTGTACA
* *
67712 ATTAAATTT-TTAATTTTACA
1 TTTAAATTTATTAATTGTACA
67732 TTTAA
1 TTTAA
67737 TTATATCACT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAAATTTATTAATTGTACA
Found at i:68196 original size:15 final size:15
Alignment explanation
Indices: 68176--68226 Score: 93
Period size: 15 Copynumber: 3.4 Consensus size: 15
68166 TTCCGGAAAA
68176 TGAATTACTGAAATT
1 TGAATTACTGAAATT
68191 TGAATTACTGAAATT
1 TGAATTACTGAAATT
*
68206 TGAATTACTGGAATT
1 TGAATTACTGAAATT
68221 TGAATT
1 TGAATT
68227 CTGGAAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (15 bp):
TGAATTACTGAAATT
Found at i:68212 original size:30 final size:29
Alignment explanation
Indices: 68170--68242 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 29
68160 TTGGTTTTCC
68170 GGAAAATGAATTACTGAAATTTGAATTACT
1 GGAAAATGAATTACTGAAATTTGAATT-CT
* *
68200 -GAAATTTGAATTACTGGAATTTGAATTCT
1 GGAAA-ATGAATTACTGAAATTTGAATTCT
68229 GGAAAATGAATTAC
1 GGAAAATGAATTAC
68243 ATTTCTGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 14 0.37
30 24 0.63
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (29 bp):
GGAAAATGAATTACTGAAATTTGAATTCT
Found at i:68238 original size:14 final size:15
Alignment explanation
Indices: 68170--68242 Score: 80
Period size: 15 Copynumber: 4.9 Consensus size: 15
68160 TTGGTTTTCC
*
68170 GGAAAATGAATTACT
1 GGAAATTGAATTACT
68185 -GAAATTTGAATTACT
1 GGAAA-TTGAATTACT
68200 -GAAATTTGAATTACT
1 GGAAA-TTGAATTACT
*
68215 GGAATTTGAATT-CT
1 GGAAATTGAATTACT
*
68229 GGAAAATGAATTAC
1 GGAAATTGAATTAC
68243 ATTTCTGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
14 16 0.31
15 32 0.63
16 3 0.06
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (15 bp):
GGAAATTGAATTACT
Found at i:68498 original size:49 final size:50
Alignment explanation
Indices: 68401--68499 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
68391 TACAAATATT
*
68401 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
68451 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
68500 TTAATAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:68605 original size:90 final size:86
Alignment explanation
Indices: 68449--68618 Score: 200
Period size: 88 Copynumber: 1.9 Consensus size: 86
68439 ATTATTATTT
* * * * *
68449 TAAAATATTAAAATAATTTATTTATTATTAAATATTATTTTTATAATTTTATTAATAAAAATATT
1 TAAAATATTAAAATAATTTAATTATTATTAAATAATAGTGTTATAATTATATTAATAAAAATATT
*
68514 AATATTGGTATATTTTAGTGAAA
66 -A-ATTAGTATATTTTAGTGAAA
* *
68537 TAAAATATTATAAATTATATTAATTATTTATTAAAGTAATAGTGTTAT-ATTATATT-TTAAAAA
1 TAAAATATTA-AAATAAT-TTAATTA-TTATTAAA-TAATAGTGTTATAATTATATTAATAAAAA
68600 TATTAATTAGTATATTTTA
62 TATTAATTAGTATATTTTA
68619 AATATCTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
88 23 0.33
89 7 0.10
90 16 0.23
91 15 0.21
92 9 0.13
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (86 bp):
TAAAATATTAAAATAATTTAATTATTATTAAATAATAGTGTTATAATTATATTAATAAAAATATT
AATTAGTATATTTTAGTGAAA
Found at i:68641 original size:11 final size:11
Alignment explanation
Indices: 68596--68647 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
68586 TTATATTTTA
68596 AAAATATTAATT
1 AAAATATT-ATT
**
68608 AGTATATT-TT
1 AAAATATTATT
*
68618 AAATATCTTATT
1 AAA-ATATTATT
68630 AAAATATTATT
1 AAAATATTATT
68641 AAAATAT
1 AAAATAT
68648 AAATAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
10 3 0.09
11 18 0.56
12 11 0.34
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (11 bp):
AAAATATTATT
Found at i:68682 original size:17 final size:18
Alignment explanation
Indices: 68647--68692 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
68637 TATTAAAATA
68647 TAAATA-ATATTATTCAT
1 TAAATATATATTATTCAT
*
68664 TAAATATATATT-TTTAT
1 TAAATATATATTATTCAT
*
68681 TATATAT-TATTA
1 TAAATATATATTA
68693 AAATAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 5 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TAAATATATATTATTCAT
Found at i:68738 original size:57 final size:53
Alignment explanation
Indices: 68633--68780 Score: 148
Period size: 51 Copynumber: 2.8 Consensus size: 53
68623 TCTTATTAAA
* * *
68633 ATATTATTAAAAT-ATAA-ATAATATTAT-TCATTAAATATATATTTTTATTAT
1 ATATTATTAAAATAAAAATATAATATTATATTATTAAATATATATTATTATT-T
68684 ATATTATTAAAATAAAAATATAATATCTTATATTATTATAATATA-ATTGATTATTT
1 ATATTATTAAAATAAAAATATAATA--TTATATTATTA-AATATATATT-ATTATTT
* *
68740 -TA-TA-TAATATTAAAAATATAATATTATATTATTAAAAATAT
1 ATATTATTAA-AATAAAAATATAATATTATATTATTAAATATAT
68781 TAAAAATATA
Statistics
Matches: 83, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
51 18 0.22
52 14 0.17
53 9 0.11
54 16 0.19
55 6 0.07
56 9 0.11
57 11 0.13
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (53 bp):
ATATTATTAAAATAAAAATATAATATTATATTATTAAATATATATTATTATTT
Found at i:68751 original size:15 final size:16
Alignment explanation
Indices: 68713--68766 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 16
68703 ATAATATCTT
68713 ATATTATTATAATATA
1 ATATTATTATAATATA
*
68729 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
68746 ATATTA--AAAATATA
1 ATATTATTATAATATA
68760 ATATTAT
1 ATATTAT
68767 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
14 11 0.35
15 4 0.13
16 2 0.06
17 8 0.26
18 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:68796 original size:22 final size:22
Alignment explanation
Indices: 68741--68797 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
68731 TGATTATTTT
* *
68741 ATATAATATTAAAAATATAATA
1 ATATATTATTAAAAATATAAAA
*
68763 TTATATTATTAAAAATATTAAAA
1 ATATATTATTAAAAATA-TAAAA
68786 ATATATT-TTAAA
1 ATATATTATTAAA
68798 TGTTTTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 20 0.67
23 10 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATATTATTAAAAATATAAAA
Found at i:69045 original size:42 final size:42
Alignment explanation
Indices: 68990--69108 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
68980 ATGAATTACA
68990 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* * *
69032 TTCTGGAAAACGAATTACGTGAAACAAACACGGAAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
69074 TTCCGAAAAACGAATTACATGAAACAAACACGGGA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGA
69109 TTTCGGGAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:71134 original size:27 final size:27
Alignment explanation
Indices: 71084--71139 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
71074 GATTTAGAGG
*
71084 TGCACAAAAAATCCGAATATCCGATTT
1 TGCACAAAAAATCCGAATATCCGAATT
71111 TGCACAAAAAATATCCGAA-A-CCGAATT
1 TGCAC-AAAAA-ATCCGAATATCCGAATT
71138 TG
1 TG
71140 GGAAAAACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 13 0.50
28 6 0.23
29 7 0.27
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.23
Consensus pattern (27 bp):
TGCACAAAAAATCCGAATATCCGAATT
Found at i:72558 original size:21 final size:21
Alignment explanation
Indices: 72532--72666 Score: 82
Period size: 21 Copynumber: 6.4 Consensus size: 21
72522 AATTTGGAAA
*
72532 ATCGCAACGCAAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* **
72553 ATCGCAA--CGAA-TTTGAAAA
1 ATCGCAACGCGAACTTCG-ACT
72572 ATCGCAACGCGAACTTCGACTAACT
1 ATCGCAACGCGAACTTCG----ACT
* *
72597 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
* * **
72618 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
72637 ATCGCAACACGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
72658 ATCTCAACG
1 ATCGCAACG
72667 AATTTGGACT
Statistics
Matches: 86, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
18 3 0.03
19 26 0.30
21 36 0.42
22 3 0.03
25 18 0.21
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:72638 original size:65 final size:65
Alignment explanation
Indices: 72532--72658 Score: 209
Period size: 65 Copynumber: 2.0 Consensus size: 65
72522 AATTTGGAAA
*
72532 ATCGCAACGCAAACTTCGACTATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGACTAACT
1 ATCGCAACGCAAACTTCGACTATCGCAACGAATTTGAAAAATCGCAACACGAACTTCGACTAACT
** * *
72597 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACACGAACTTCGACTA
1 ATCGCAACGCAAACTTCGACTATCGCAACGAATTTGAAAAATCGCAACACGAACTTCGACTA
72659 TCTCAACGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.20
Consensus pattern (65 bp):
ATCGCAACGCAAACTTCGACTATCGCAACGAATTTGAAAAATCGCAACACGAACTTCGACTAACT
Found at i:72640 original size:19 final size:19
Alignment explanation
Indices: 72520--72644 Score: 70
Period size: 19 Copynumber: 6.1 Consensus size: 19
72510 CCAGTCGTTG
*
72520 CGAATTTGGAAAATCGCAA
1 CGAACTTGGAAAATCGCAA
* **
72539 CGCAAACTTCGACTATCGCAA
1 CG--AACTTGGAAAATCGCAA
* *
72560 CGAATTTGAAAAATCGCAA
1 CGAACTTGGAAAATCGCAA
*
72579 CGCGAACTTCGACTAACTATCGCAA
1 --CGAACTTGGA--AA--ATCGCAA
**
72604 CGTGAACTTGGACTATCGCAA
1 C--GAACTTGGAAAATCGCAA
*
72625 CGAATTTGGAAAATCGCAA
1 CGAACTTGGAAAATCGCAA
72644 C
1 C
72645 ACGAACTTCG
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
19 30 0.38
21 30 0.38
23 3 0.04
25 15 0.19
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (19 bp):
CGAACTTGGAAAATCGCAA
Found at i:72652 original size:40 final size:40
Alignment explanation
Indices: 72597--72674 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
72587 TCGACTAACT
** *
72597 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAA
1 ATCGCAACACGAACTTCGACTATCGCAACGAATTTGGAAA
*
72637 ATCGCAACACGAACTTCGACTATCTCAACGAATTTGGA
1 ATCGCAACACGAACTTCGACTATCGCAACGAATTTGGA
72675 CTAACGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (40 bp):
ATCGCAACACGAACTTCGACTATCGCAACGAATTTGGAAA
Found at i:72676 original size:19 final size:19
Alignment explanation
Indices: 72594--72677 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 19
72584 ACTTCGACTA
*
72594 ACTATCGCAACGTGAACTTGG
1 ACTATCGCAAC--GAATTTGG
72615 ACTATCGCAACGAATTTGG
1 ACTATCGCAACGAATTTGG
** * *
72634 AAAATCGCAACACGAACTTCG
1 ACTATCGC-A-ACGAATTTGG
*
72655 ACTATCTCAACGAATTTGG
1 ACTATCGCAACGAATTTGG
72674 ACTA
1 ACTA
72678 ACGTAAATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 25 0.49
20 2 0.04
21 24 0.47
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (19 bp):
ACTATCGCAACGAATTTGG
Found at i:73082 original size:25 final size:26
Alignment explanation
Indices: 73021--73088 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
73011 TATATAGAGA
* * *
73021 TTAAAGGTAT-TTAAAAAAATATTATT
1 TTAAATGTATATT-AAAAAATATAAAT
73047 TTAAATGTATATTAAAAAATATAAAT
1 TTAAATGTATATTAAAAAATATAAAT
*
73073 TTATAT-TATATTAAAA
1 TTAAATGTATATTAAAA
73089 TATAGAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 10 0.27
26 25 0.68
27 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (26 bp):
TTAAATGTATATTAAAAAATATAAAT
Found at i:73218 original size:30 final size:27
Alignment explanation
Indices: 73184--73242 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
73174 ACACTGTAGT
73184 TTTTAAAGGGATTAAAATATAAATGTATTA
1 TTTTAAA--GATTAAAATAT-AATGTATTA
* *
73214 TTTTAAATATTAAAATATAATTTATTA
1 TTTTAAAGATTAAAATATAATGTATTA
73241 TT
1 TT
73243 ATATTAATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 10 0.37
28 10 0.37
30 7 0.26
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (27 bp):
TTTTAAAGATTAAAATATAATGTATTA
Found at i:74219 original size:15 final size:15
Alignment explanation
Indices: 74184--74219 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
74174 CTTAATTCTT
74184 TTTTTAATATTTAAA
1 TTTTTAATATTTAAA
* *
74199 TCTTTAATATTTTAA
1 TTTTTAATATTTAAA
74214 TTTTTA
1 TTTTTA
74220 GTTAAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTTAATATTTAAA
Found at i:76717 original size:14 final size:14
Alignment explanation
Indices: 76698--76728 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
76688 AGGGTTCAAA
76698 ATGGCTTGGCATGG
1 ATGGCTTGGCATGG
76712 ATGGCTTGGCATGG
1 ATGGCTTGGCATGG
76726 ATG
1 ATG
76729 AACAACGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.13, G:0.42, T:0.29
Consensus pattern (14 bp):
ATGGCTTGGCATGG
Found at i:77539 original size:19 final size:19
Alignment explanation
Indices: 77515--77553 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
77505 TATTATTTGT
77515 TCGTTCAGATACAAATACA
1 TCGTTCAGATACAAATACA
*
77534 TCGTTCAGATATAAATACA
1 TCGTTCAGATACAAATACA
77553 T
1 T
77554 ATATGATTAC
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:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (19 bp):
TCGTTCAGATACAAATACA
Found at i:80352 original size:21 final size:21
Alignment explanation
Indices: 80326--80376 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
80316 TAGTCTGAAT
80326 CCTTGCTCGGCTAATCTGCTC
1 CCTTGCTCGGCTAATCTGCTC
*
80347 CGTTGCTCGGCTAATCTGCTC
1 CCTTGCTCGGCTAATCTGCTC
80368 CCTTGCTCG
1 CCTTGCTCG
80377 TTCAAGTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.08, C:0.37, G:0.22, T:0.33
Consensus pattern (21 bp):
CCTTGCTCGGCTAATCTGCTC
Found at i:86541 original size:4 final size:4
Alignment explanation
Indices: 86532--86787 Score: 161
Period size: 4 Copynumber: 60.8 Consensus size: 4
86522 GTAAACGGCC
*
86532 TTTA TTTA TTTA TTTA -TTA TCATTC TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA T--TTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
86581 -TTA TCATTC TTTA TTTA TTTA -TTA TCATTC TTTA TTTA TTTA TTTA
1 TTTA T--TTA TTTA TTTA TTTA TTTA T--TTA TTTA TTTA TTTA TTTA
* *
86627 -TTA TCATTC TTTA TTTA TTTA -TTA TCATTC TTTA TTTA TTTA TTATCA
1 TTTA T--TTA TTTA TTTA TTTA TTTA T--TTA TTTA TTTA TTTA TT-T-A
*
86675 TTCTTA TTTA TTTA TTTA -TTA TCATTC TTTA TTTA TTTA TTTA TTATCA
1 -T-TTA TTTA TTTA TTTA TTTA T--TTA TTTA TTTA TTTA TTTA TT-T-A
* * * *
86724 TTCA -TTC TTTA TTTA TTTA -TTA TCATTC TTTA TTTA TTTA -TTA TCATTC
1 TTTA TTTA TTTA TTTA TTTA TTTA T--TTA TTTA TTTA TTTA TTTA T--TTA
86773 TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTT
86788 GTTTGTTTTT
Statistics
Matches: 201, Mismatches: 20, Indels: 62
0.71 0.07 0.22
Matches are distributed among these distances:
3 25 0.12
4 141 0.70
5 3 0.01
6 29 0.14
7 2 0.01
8 1 0.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:86559 original size:25 final size:25
Alignment explanation
Indices: 86531--86787 Score: 342
Period size: 25 Copynumber: 10.6 Consensus size: 25
86521 GGTAAACGGC
86531 CTTTATTTATTTATTTATTATCATT
1 CTTTATTTATTTATTTATTATCATT
*
86556 CTTTATTTATTTATTTATTTATTTATTAT
1 CTTTATTTATTTATTTA-TTA-TCA-T-T
* *
86585 CATTCTTTATTTATTTATTATCATT
1 CTTTATTTATTTATTTATTATCATT
86610 CTTTATTTATTTATTTATTATCATT
1 CTTTATTTATTTATTTATTATCATT
86635 C----TTTATTTATTTATTATCATT
1 CTTTATTTATTTATTTATTATCATT
86656 C----TTTATTTATTTATTATCATT
1 CTTTATTTATTTATTTATTATCATT
86677 C-TTATTTATTTATTTATTATCATT
1 CTTTATTTATTTATTTATTATCATT
86701 CTTTATTTATTTATTTATTATCATT
1 CTTTATTTATTTATTTATTATCATT
* *
86726 CATTCTTTATTTATTTATTATCATT
1 CTTTATTTATTTATTTATTATCATT
86751 C----TTTATTTATTTATTATCATT
1 CTTTATTTATTTATTTATTATCATT
86772 CTTTATTTATTTATTT
1 CTTTATTTATTTATTT
86788 GTTTGTTTTT
Statistics
Matches: 212, Mismatches: 8, Indels: 24
0.87 0.03 0.10
Matches are distributed among these distances:
21 63 0.30
24 21 0.10
25 100 0.47
26 4 0.02
27 4 0.02
28 4 0.02
29 16 0.08
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (25 bp):
CTTTATTTATTTATTTATTATCATT
Found at i:86562 original size:21 final size:21
Alignment explanation
Indices: 86536--86786 Score: 273
Period size: 21 Copynumber: 11.7 Consensus size: 21
86526 ACGGCCTTTA
86536 TTTATTTATTTATTATCATTC
1 TTTATTTATTTATTATCATTC
86557 TTTATTTATTTATT-T-A---
1 TTTATTTATTTATTATCATTC
* * *
86573 TTTATTTA-TTATCATTCTTTA
1 TTTATTTATTTATTA-TCATTC
* * *
86594 TTTATTTA-TTATCATTCTTTA
1 TTTATTTATTTATTA-TCATTC
86615 TTTATTTATTTATTATCATTC
1 TTTATTTATTTATTATCATTC
86636 TTTATTTATTTATTATCATTC
1 TTTATTTATTTATTATCATTC
86657 TTTATTTATTTATTATCATTC
1 TTTATTTATTTATTATCATTC
86678 TTATTTATTTATTTATTATCATTC
1 ---TTTATTTATTTATTATCATTC
86702 TTTATTTATTTATTTATTATCATTC
1 ----TTTATTTATTTATTATCATTC
*
86727 ATTCTTTATTTATTTATTATCATTC
1 -TT-TAT-T-TATTTATTATCATTC
86752 TTTATTTATTTATTATCATTC
1 TTTATTTATTTATTATCATTC
86773 TTTATTTATTTATT
1 TTTATTTATTTATT
86787 TGTTTGTTTT
Statistics
Matches: 209, Mismatches: 7, Indels: 28
0.86 0.03 0.11
Matches are distributed among these distances:
15 4 0.02
16 8 0.04
17 1 0.00
19 1 0.00
20 1 0.00
21 118 0.56
22 9 0.04
23 4 0.02
24 24 0.11
25 39 0.19
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATTTATTTATTATCATTC
Found at i:90410 original size:20 final size:22
Alignment explanation
Indices: 90372--90411 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
90362 GTTTTAAAGA
90372 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
90394 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
90412 TTATATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:92744 original size:21 final size:18
Alignment explanation
Indices: 92695--92731 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
92685 CAACAATTGA
*
92695 TAACAATTGATATCATTT
1 TAACAATTGGTATCATTT
92713 TAACAATTGGTATCATTT
1 TAACAATTGGTATCATTT
92731 T
1 T
92732 GTAAACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (18 bp):
TAACAATTGGTATCATTT
Found at i:93026 original size:22 final size:22
Alignment explanation
Indices: 92998--93074 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
92988 GGTATCAATA
92998 TATCAATACCCCTATGAATGGG
1 TATCAATACCCCTATGAATGGG
93020 TATCAATA-CCC--T--A--GG
1 TATCAATACCCCTATGAATGGG
* * *
93035 TACCTATACCCCTATGACTGGG
1 TATCAATACCCCTATGAATGGG
93057 TATCAATACCCCTATGAA
1 TATCAATACCCCTATGAA
93075 GTCTCAAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
15 8 0.19
16 3 0.07
17 1 0.02
18 1 0.02
19 1 0.02
21 3 0.07
22 25 0.60
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (22 bp):
TATCAATACCCCTATGAATGGG
Found at i:94791 original size:18 final size:19
Alignment explanation
Indices: 94761--94817 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
94751 TATATTTTCT
94761 AACAATTGGTATCTTTTTA
1 AACAATTGGTATCTTTTTA
* *
94780 GA-AATTGATATCCTTTTGTA
1 AACAATTGGTAT-CTTTT-TA
94800 AACAATTGGTATCTTTTT
1 AACAATTGGTATCTTTTT
94818 CATTTAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 8 0.26
19 7 0.23
20 8 0.26
21 8 0.26
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (19 bp):
AACAATTGGTATCTTTTTA
Done.