Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, 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: 9139585
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 37885 characters in sequence are not A, C, G, or T
File 2 of 19
Found at i:168532 original size:7 final size:7
Alignment explanation
Indices: 168520--168551 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
168510 CTAATTGCAA
168520 CAACTTG
1 CAACTTG
168527 CAACTTG
1 CAACTTG
168534 CAACTTG
1 CAACTTG
168541 CAACTTG
1 CAACTTG
168548 CAAC
1 CAAC
168552 CAAACCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (7 bp):
CAACTTG
Found at i:175838 original size:9 final size:8
Alignment explanation
Indices: 175824--175848 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
175814 AAATTTCCTC
175824 AAAAAAAG
1 AAAAAAAG
175832 AAAAAAAG
1 AAAAAAAG
175840 AAAAAAAG
1 AAAAAAAG
175848 A
1 A
175849 TGTCTTGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:179609 original size:22 final size:22
Alignment explanation
Indices: 179572--179617 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 22
179562 ATTAATGAAG
*
179572 TAAAACTAAAAATATTTAAGAGTT
1 TAAAACT-AAAATA-TTAAAAGTT
179596 TAAAACT-AAATATTAAAAGTT
1 TAAAACTAAAATATTAAAAGTT
179617 T
1 T
179618 CCTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
24 7 0.33
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (22 bp):
TAAAACTAAAATATTAAAAGTT
Found at i:183838 original size:217 final size:217
Alignment explanation
Indices: 183455--184280 Score: 1124
Period size: 217 Copynumber: 3.8 Consensus size: 217
183445 TCTAGGCAAA
* *
183455 ATGTATCAATACATTAACAAATGTATTGATACATTCTTAGTAGGATAAACATCTATCGATACATT
1 ATGTATCGATACATTAACAAATGTATTGATACATTCTTGGTAGGATAAACATCTATCGATACATT
* *
183520 GTCTAAATGTATCAATAAATTTGAAACAAGGGACATTATGTGGGAAAAATTATTGATAGATTCCA
66 GTCTAAATGTATCAATAAATTTGAAGCAAGGGACATTATGTGGGAAAAAGTATTGATAGATTCCA
* * **
183585 AAATCTATCAATTCATTTTAGGCAGAGAGCAATATGAATAAAATGTATTGATACATGGCTTCATG
131 AAATCTATCAATACATTTTAGGCAGAGAGTAATATGAATAAAATGTATCAATACATGGCTTCATG
*
183650 TATCGATAAATTTGAGGAAAAG
196 TATCGATAAATTTGAGGGAAAG
* *
183672 ATGTATTGATACATTAACAAATGTATTGATACATTCTTGGTAGGATAAACATCTATCAATACATT
1 ATGTATCGATACATTAACAAATGTATTGATACATTCTTGGTAGGATAAACATCTATCGATACATT
* *
183737 GTCTAAATGTATCAATAAATTTGAAGCAAGGGACATTATGTGGGAAAAATTATAGATAGATTCCA
66 GTCTAAATGTATCAATAAATTTGAAGCAAGGGACATTATGTGGGAAAAAGTATTGATAGATTCCA
** * *
183802 AAATCTATTGATACATTTTAGGCAGAGAGTAATATGAATAGAATGTATCAATACATAGCTTCATG
131 AAATCTATCAATACATTTTAGGCAGAGAGTAATATGAATAAAATGTATCAATACATGGCTTCATG
183867 TATCGATAAATTTGAGGGAAAG
196 TATCGATAAATTTGAGGGAAAG
* *
183889 ATGTATCGGTACATTAACAAATGTATTGATACATTCTT-GTAGGATGAACATCTATCGATACATT
1 ATGTATCGATACATTAACAAATGTATTGATACATTCTTGGTAGGATAAACATCTATCGATACATT
** * * * *
183953 -TGGACAACGTATCGATAGATTTGAAGC-AGAGGACATTATGTGGGAAAAAGTATTGACAGATTC
66 GTCTA-AATGTATCAATAAATTTGAAGCAAG-GGACATTATGTGGGAAAAAGTATTGATAGATTC
* ** * *
184016 CCAAATCTATCAATACATTTTA-G-TTAGAGTAATTTGAATAAAATGTATCAATACATGGCCTCA
129 CAAAATCTATCAATACATTTTAGGCAGAGAGTAATATGAATAAAATGTATCAATACATGGCTTCA
*
184079 TGTATCGATAGATTTGAGGGAAAG
194 TGTATCGATAAATTTGAGGGAAAG
* * *
184103 ATGTATCGATACATTAATAAATGTATTGATACATTCTTGGTAGGATGAACATCTAGT-GATATAT
1 ATGTATCGATACATTAACAAATGTATTGATACATTCTTGGTAGGATAAACATCTA-TCGATACAT
* * * * * * * * * *
184167 TATCTAAATGTATCGATATAGTAGAAGTAGGGGACATTATGTGGGAAAAAGTATCGCTAGACTCC
65 TGTCTAAATGTATCAATAAATTTGAAGCAAGGGACATTATGTGGGAAAAAGTATTGATAGATTCC
* * ** * * *
184232 CAAATCCATTGATACATTTTAGGCAGAAAGTAATTTGAATAGAATGTAT
130 AAAATCTATCAATACATTTTAGGCAGAGAGTAATATGAATAAAATGTAT
184281 TGATACATTA
Statistics
Matches: 542, Mismatches: 59, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
214 93 0.17
215 93 0.17
216 97 0.18
217 259 0.48
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (217 bp):
ATGTATCGATACATTAACAAATGTATTGATACATTCTTGGTAGGATAAACATCTATCGATACATT
GTCTAAATGTATCAATAAATTTGAAGCAAGGGACATTATGTGGGAAAAAGTATTGATAGATTCCA
AAATCTATCAATACATTTTAGGCAGAGAGTAATATGAATAAAATGTATCAATACATGGCTTCATG
TATCGATAAATTTGAGGGAAAG
Found at i:184591 original size:388 final size:386
Alignment explanation
Indices: 183889--184604 Score: 981
Period size: 388 Copynumber: 1.8 Consensus size: 386
183879 TGAGGGAAAG
*
183889 ATGTATCGGTACATTAACAAATGTATTGATACATTCTTGTAGGATGAACATCTATCGATACATTT
1 ATGTATCGATACATTAACAAATGTATTGATACATTCTTGTAGGATGAACATCTATCGATACATTT
* * * * * *
183954 GGACAACGTATCGATAGATTTGAAGCAGAGGACATTATGTGGGAAAAAGTATTGACAGATTCCCA
66 CGACAACATATAGATAGATTAGAAGCAGAGGACATTATGTGGGAAAAAGTATAGACAGACTCCCA
* * *
184019 AATCTATCAATACATTTTAGTTAGAGTAATTTGAATAAAATGTATCAATACATGGCCTCATGTAT
131 AATCTATCAATACATTTTAGTGAGAGCAATCTGAATAAAATGTATCAATACATGGCCTCATGTAT
* * *
184084 CGATAGATTTGAGGGAAAGATGTATCGATACATTAATAAATGTATTGATACATTCTTGGTAGGAT
196 CAATAGATTTGAGGGAAAGATGTATCGATACATTAACAAATATATTGATACATTCTTGGTAGGAT
* * * *
184149 GAACATCTAGTGATATATTATCTAAATGTATCGATATAGTAGAAGTAGGGGACATTATGTGGGAA
261 GAACATCTAGTGATACATTATCTAAATGTATCGATAGAGTAGAAGCAGGGGACATTATGTGAGAA
184214 AAAGTATCGCTAGACTCCCAAATCCATTGATACATTTTAGGCAGAAAGTAATTTGAATAGA
326 AAAGTATCGCTAGACTCCCAAATCCATTGATACATTTTAGGCAGAAAGTAATTTGAATAGA
* * *
184275 ATGTATTGATACATTAACAAATGTATTGATACATTCTTAGTAGGATGCACATCTATTGATACATT
1 ATGTATCGATACATTAACAAATGTATTGATACATTCTT-GTAGGATGAACATCTATCGATACATT
* * * * **
184340 GTCTA-AATATATAGATAGATTAGATGTAGAGGACATTATGTGGGAAAAA-TATCAG-TGGACTC
65 -TCGACAACATATAGATAGATTAGAAGCAGAGGACATTATGTGGGAAAAAGTAT-AGACAGACTC
** * * * * *
184402 CCAAATCTATTGATTCATTTTAAGTAGAGAGCAATCTGAGTACAATGTATCGATACATGGCTTCA
128 CCAAATCTATCAATACATTTT-AGT-GAGAGCAATCTGAATAAAATGTATCAATACATGGCCTCA
* *
184467 TGTATCAATAGATTTGAGGGAAAGATG-ACTTGATACATTAACAACTATATTGATACATTCTTGG
191 TGTATCAATAGATTTGAGGGAAAGATGTA-TCGATACATTAACAAATATATTGATACATTCTTGG
* * * * * *
184531 TAGGATGAACATCTATTGATACATTGTCTAACTGTATTGATAGATTTGAAGCAGGGGACATTATG
255 TAGGATGAACATCTAGTGATACATTATCTAAATGTATCGATAGAGTAGAAGCAGGGGACATTATG
184596 TGAGAAAAA
320 TGAGAAAAA
184605 ATTGGTAAAT
Statistics
Matches: 283, Mismatches: 41, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
386 61 0.22
387 67 0.24
388 155 0.55
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (386 bp):
ATGTATCGATACATTAACAAATGTATTGATACATTCTTGTAGGATGAACATCTATCGATACATTT
CGACAACATATAGATAGATTAGAAGCAGAGGACATTATGTGGGAAAAAGTATAGACAGACTCCCA
AATCTATCAATACATTTTAGTGAGAGCAATCTGAATAAAATGTATCAATACATGGCCTCATGTAT
CAATAGATTTGAGGGAAAGATGTATCGATACATTAACAAATATATTGATACATTCTTGGTAGGAT
GAACATCTAGTGATACATTATCTAAATGTATCGATAGAGTAGAAGCAGGGGACATTATGTGAGAA
AAAGTATCGCTAGACTCCCAAATCCATTGATACATTTTAGGCAGAAAGTAATTTGAATAGA
Found at i:186341 original size:29 final size:28
Alignment explanation
Indices: 186218--186442 Score: 229
Period size: 29 Copynumber: 7.8 Consensus size: 28
186208 TTAAGACAAC
* *
186218 TCTTGTCTTTAATTAAGACAAAAATATATT
1 TCTTGTC-TAAATTAAGACAAACATAT-TT
* * *
186248 ATCTTATCTAAATTGAGACAAATATATTT
1 -TCTTGTCTAAATTAAGACAAACATATTT
*
186277 TCTTGTCTAGAA-TAAGACAAAAAATATTTT
1 TCTTGTCTA-AATTAAGAC-AAACATA-TTT
*
186307 TCTTGTCTTAAATTAAGACAAACATCTTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
* *
186336 TCTTGTCTAAGTTAAGACCAAACATAATT
1 TCTTGTCTAAATTAAGA-CAAACATATTT
*
186365 TCTTGTCTAAATTAAGACAAACATGTTAT
1 TCTTGTCTAAATTAAGACAAACATATT-T
* *
186394 T-TTGTCTAAATTAAGACATAATATGTTT
1 TCTTGTCTAAATTAAGACA-AACATATTT
*
186422 TCTTATCTAAATTAAGACAAA
1 TCTTGTCTAAATTAAGACAAA
186443 ACTTTAAAGC
Statistics
Matches: 168, Mismatches: 17, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
28 51 0.30
29 70 0.42
30 33 0.20
31 14 0.08
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:186399 original size:57 final size:57
Alignment explanation
Indices: 186230--186442 Score: 227
Period size: 57 Copynumber: 3.7 Consensus size: 57
186220 TTGTCTTTAA
* *
186230 TTAAGACAAAAATATATTATCTTATCTAAATTGAGACAAATATATTTTCTTGTCT-AG
1 TTAAGACAAAAATATATT-TCTTATCTAAATTAAGACAAACATATTTTCTTGTCTAAG
* * * *
186287 AATAAGACAAAAAATATTTTTCTTGTCTTAAATTAAGACAAACATCTTTTCTTGTCTAAG
1 -TTAAGAC-AAAAATATATTTCTTATC-TAAATTAAGACAAACATATTTTCTTGTCTAAG
* * * *
186347 TTAAGACCAAACATA-ATTTCTTGTCTAAATTAAGACAAACATGTTATT-TTGTCTAAA
1 TTAAGA-CAAAAATATATTTCTTATCTAAATTAAGACAAACATATT-TTCTTGTCTAAG
* *
186404 TTAAGAC-ATAATATGTTTTCTTATCTAAATTAAGACAAA
1 TTAAGACAAAAATAT-ATTTCTTATCTAAATTAAGACAAA
186443 ACTTTAAAGC
Statistics
Matches: 133, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
55 4 0.03
56 1 0.01
57 55 0.41
58 23 0.17
59 47 0.35
60 3 0.02
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.38
Consensus pattern (57 bp):
TTAAGACAAAAATATATTTCTTATCTAAATTAAGACAAACATATTTTCTTGTCTAAG
Found at i:190883 original size:20 final size:20
Alignment explanation
Indices: 190830--190896 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
190820 ATTGAGCAAT
*
190830 TTAAATATTAATATTTAAAG
1 TTAAATATTAATATTTTAAG
190850 TTAAA-A--AA-ATTTTAAG
1 TTAAATATTAATATTTTAAG
190866 TTAAATATTAATATTTTAAG
1 TTAAATATTAATATTTTAAG
*
190886 TTAAACATTAA
1 TTAAATATTAA
190897 ATAAGGGCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 12 0.29
17 3 0.07
19 3 0.07
20 23 0.56
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (20 bp):
TTAAATATTAATATTTTAAG
Found at i:191515 original size:30 final size:30
Alignment explanation
Indices: 191479--191543 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
191469 AATGAAATCA
* **
191479 TTATATTTTTATTTTGAATTGAATAAACTC
1 TTATATTTTTATTTTAAATCAAATAAACTC
191509 TTATATTTTTATTTTAAATCAAATAAACTC
1 TTATATTTTTATTTTAAATCAAATAAACTC
191539 TTATA
1 TTATA
191544 ACTAACGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (30 bp):
TTATATTTTTATTTTAAATCAAATAAACTC
Found at i:200365 original size:15 final size:15
Alignment explanation
Indices: 200345--200378 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
200335 GAGTAGTATT
*
200345 TAAGATATTCGGATA
1 TAAGATATTCAGATA
*
200360 TAAGATATTTAGATA
1 TAAGATATTCAGATA
200375 TAAG
1 TAAG
200379 TTTGAGTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (15 bp):
TAAGATATTCAGATA
Found at i:202066 original size:18 final size:18
Alignment explanation
Indices: 202045--202079 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
202035 GGGGAGAGGC
* *
202045 AAAAAAGAAGAAAGAAAA
1 AAAAAACAAAAAAGAAAA
202063 AAAAAACAAAAAAGAAA
1 AAAAAACAAAAAAGAAA
202080 GCTTTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAAAAGAAAA
Found at i:204942 original size:332 final size:334
Alignment explanation
Indices: 204296--204965 Score: 1017
Period size: 332 Copynumber: 2.0 Consensus size: 334
204286 CTTAAACATG
* *
204296 AAAATAATTAAAATAATATAACACAATAAAAAATAAATTAACATTTAATAAGAGAAACAGTTGAA
1 AAAATAATTAAAATAATATAACACAAGAAAAAATAAATTAACATTTAATAAGAGAAACAGTCGAA
* * *
204361 TCCTACAGGATCAATAATTGTGTTTTTCATATAACTTTCAAATTAATTATAAACACTCATAAGTT
66 TCCTACAAGATCAATAATTGTGTTTTTCATATAACTTTCAAATTAAGTATAAACACTCATAAATT
* * *
204426 TAATAGTTACATATCTTGTTCTAGATATCGTATTCAAGAGCCAATTAAATCAAAATCTTTGCTTC
131 TAATAGTTACATACCTTGTTCTAGATATCGTAATCAAGAGCCAATTAAATAAAAATCTTTGCTTC
* * * *
204491 TTCATCTTTAGGATTTGTCAAATCTTTAGCCACCTAAGTATTTGACCTTTAATAGTAATCCACAT
196 TTCATCTTTAGGATTTGTCAAATCTTTAGCCACCTAAGTATTTGACCTCTAACAGTAACCCACAC
* * *
204556 AGTGATTGAATAAAACCTTCTCAAAGATACGATTTTACTTGTACTAGCAAGTTTTGTTTCTAAAA
261 AGTGACTAAATAAAACCTTCTCAAAGATAAGATTTTACTTGTACTAGCAAGTTTTGTTTCTAAAA
*
204621 CAAAAGATC
326 CAAAAGACC
** *
204630 AAAATAATTAAAATAATATAATGC-AGCAAAAATAAATTAACATTTAATCAA-AGAAACAGTCGA
1 AAAATAATTAAAATAATATAACACAAGAAAAAATAAATTAACATTTAAT-AAGAGAAACAGTCGA
** * * *
204693 ATCCTACAAGATCAATGTTTGTGTTTTTTATGTAACTTTCAAA-TAAGTATAAAGACTCATAAAT
65 ATCCTACAAGATCAATAATTGTGTTTTTCATATAACTTTCAAATTAAGTATAAACACTCATAAAT
*
204757 TTAATAGTTACATACCTTGCTT-TAGATATCGTAATCAAGAGCCAATTAAATAAAAATCTTTGTT
130 TTAATAGTTACATACCTTG-TTCTAGATATCGTAATCAAGAGCCAATTAAATAAAAATCTTTGCT
*
204821 TCTTCATCTTTAGGATTTGTCAAATCTTTAGCCACCTAAGTGTTT-AGCCTCTAACAGTAACCCA
194 TCTTCATCTTTAGGATTTGTCAAATCTTTAGCCACCTAAGTATTTGA-CCTCTAACAGTAACCCA
* *
204885 CACAGTGACTAAATAAAACCTTCTCAAAGATAAGATTTTACTTGTGCTAGTAAGTTTTGTTTCTA
258 CACAGTGACTAAATAAAACCTTCTCAAAGATAAGATTTTACTTGTACTAGCAAGTTTTGTTTCTA
*
204950 AAATAAAAGACC
323 AAACAAAAGACC
204962 AAAA
1 AAAA
204966 GTTCTTGCCA
Statistics
Matches: 304, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
331 1 0.00
332 206 0.68
333 73 0.24
334 24 0.08
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (334 bp):
AAAATAATTAAAATAATATAACACAAGAAAAAATAAATTAACATTTAATAAGAGAAACAGTCGAA
TCCTACAAGATCAATAATTGTGTTTTTCATATAACTTTCAAATTAAGTATAAACACTCATAAATT
TAATAGTTACATACCTTGTTCTAGATATCGTAATCAAGAGCCAATTAAATAAAAATCTTTGCTTC
TTCATCTTTAGGATTTGTCAAATCTTTAGCCACCTAAGTATTTGACCTCTAACAGTAACCCACAC
AGTGACTAAATAAAACCTTCTCAAAGATAAGATTTTACTTGTACTAGCAAGTTTTGTTTCTAAAA
CAAAAGACC
Found at i:205160 original size:20 final size:20
Alignment explanation
Indices: 205132--205169 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
205122 CAGTTGTATT
*
205132 TTAATTTAATTAAGTTTTTG
1 TTAACTTAATTAAGTTTTTG
205152 TTAACTTAATTAAGTTTT
1 TTAACTTAATTAAGTTTT
205170 CACTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (20 bp):
TTAACTTAATTAAGTTTTTG
Found at i:211535 original size:40 final size:40
Alignment explanation
Indices: 211491--211567 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
211481 CTTAAACAAA
* *
211491 CATTGTCT-TTTCGAGAGAAGCAAGCAAAACCTCACAACAT
1 CATTG-CTATTTCAAGAAAAGCAAGCAAAACCTCACAACAT
* *
211531 CATTGCTATTTCAAGAAAAGCATGCACAACCTCACAA
1 CATTGCTATTTCAAGAAAAGCAAGCAAAACCTCACAA
211568 TGTCACTACC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (40 bp):
CATTGCTATTTCAAGAAAAGCAAGCAAAACCTCACAACAT
Found at i:211605 original size:39 final size:40
Alignment explanation
Indices: 211562--211637 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
211552 ATGCACAACC
*
211562 TCACAATGTCACTACC-TTTCA-AGGTTAAAGCACAACTTG
1 TCACAAAGTCACTACCTTTTCACA-GTTAAAGCACAACTTG
* *
211601 TCACAAAGTCTCTACCTTTTTACAGTTAAAGCACAAC
1 TCACAAAGTCACTACCTTTTCACAGTTAAAGCACAAC
211638 CTTTTGCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 14 0.44
40 17 0.53
41 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (40 bp):
TCACAAAGTCACTACCTTTTCACAGTTAAAGCACAACTTG
Found at i:218435 original size:19 final size:19
Alignment explanation
Indices: 218411--218451 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
218401 GGTTGTCTTT
* *
218411 TGATAAAAAATAATAATAA
1 TGATAAAAAACAAAAATAA
*
218430 TGATAAAAGACAAAAATAA
1 TGATAAAAAACAAAAATAA
218449 TGA
1 TGA
218452 AATTACAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (19 bp):
TGATAAAAAACAAAAATAA
Found at i:223778 original size:2 final size:2
Alignment explanation
Indices: 223773--223805 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
223763 TATGTAAACA
223773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
223806 AATGAGTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:223888 original size:19 final size:19
Alignment explanation
Indices: 223864--223904 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
223854 GATTGTCTTT
* *
223864 TGATAAAAAATAATAATAA
1 TGATAAAAAACAAAAATAA
*
223883 TGATAAAAGACAAAAATAA
1 TGATAAAAAACAAAAATAA
223902 TGA
1 TGA
223905 AATTAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (19 bp):
TGATAAAAAACAAAAATAA
Found at i:224466 original size:20 final size:20
Alignment explanation
Indices: 224431--224468 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
224421 TAAAAAAGAG
**
224431 AATAATAAAAGCATAAAATA
1 AATAATAAAAAAATAAAATA
224451 AATAATAAAAAAATAAAA
1 AATAATAAAAAAATAAAA
224469 AATTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
AATAATAAAAAAATAAAATA
Found at i:236957 original size:17 final size:17
Alignment explanation
Indices: 236935--236980 Score: 57
Period size: 12 Copynumber: 3.0 Consensus size: 17
236925 GAACTATACA
236935 ATTGTAGAAAAATTCAC
1 ATTGTAGAAAAATTCAC
236952 ATTGTAG--AAA--C-C
1 ATTGTAGAAAAATTCAC
236964 ATTGTAGAAAAATTCAC
1 ATTGTAGAAAAATTCAC
236981 TCTGGCGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
12 8 0.33
13 1 0.04
14 3 0.12
15 3 0.12
16 1 0.04
17 8 0.33
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (17 bp):
ATTGTAGAAAAATTCAC
Found at i:248209 original size:35 final size:34
Alignment explanation
Indices: 248111--248210 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 34
248101 ATACAATTCT
* *
248111 ATATTGGAAAATAGAATA-AAAGTCATGTATGTTGG
1 ATATTGGAAAATA-AA-AGAAAGTCATGTCTATTGG
* *
248146 AAATTGAAAAATAAAAGAAATGTCATGTCTATTGG
1 ATATTGGAAAATAAAAGAAA-GTCATGTCTATTGG
*
248181 ATATTGGAAGATAAAAGAAGAGTCATGTCT
1 ATATTGGAAAATAAAAGAA-AGTCATGTCT
248211 TTTGAAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
33 1 0.02
34 5 0.09
35 48 0.87
36 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (34 bp):
ATATTGGAAAATAAAAGAAAGTCATGTCTATTGG
Found at i:249160 original size:28 final size:29
Alignment explanation
Indices: 249129--249191 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
249119 TAATGGCCCG
*
249129 AAATGATGT-GTGCATACATTTGGCACCT
1 AAATGATGTAGTGCATACATTTGGCACAT
* ***
249157 AAATAATGTAGTGCATTTGTTTGGCACAT
1 AAATGATGTAGTGCATACATTTGGCACAT
249186 AAATGA
1 AAATGA
249192 ATATGATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (29 bp):
AAATGATGTAGTGCATACATTTGGCACAT
Found at i:259623 original size:44 final size:44
Alignment explanation
Indices: 259573--259754 Score: 206
Period size: 44 Copynumber: 4.1 Consensus size: 44
259563 AATGTTTGTG
* * *
259573 ATACCACCCATCGGGTGATTACTTCGAGTGATGATTATGCTTTA
1 ATACCACCCATCGAGAGATTACTTCGAGTGATGACTATGCTTTA
* * * *
259617 ATACCACCTATCGAGAGATTACTCTTG-GTGACGACAATGCTTTA
1 ATACCACCCATCGAGAGATTACT-TCGAGTGATGACTATGCTTTA
* *
259661 ATACCACCCATCGAGAGATTAC-TCCAGGTGATGACTATGCTTTG
1 ATACCACCCATCGAGAGATTACTTCGA-GTGATGACTATGCTTTA
* * * * *
259705 ATGCCACCCATCAAGAGATTACTTCAAGTGATGACTATGCTATG
1 ATACCACCCATCGAGAGATTACTTCGAGTGATGACTATGCTTTA
259749 ATACCA
1 ATACCA
259755 TTCGTCGGAA
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
44 110 0.95
45 5 0.04
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
ATACCACCCATCGAGAGATTACTTCGAGTGATGACTATGCTTTA
Found at i:259816 original size:45 final size:45
Alignment explanation
Indices: 259764--259860 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
259754 ATTCGTCGGA
* * *
259764 AGATTACTCTATGTGATGA-CATTCATTGTAACACTA-CCTGTTGGG
1 AGATTACTCTAGGTGATGACCATT-ATTGTAACACCATCC-ATTGGG
* * *
259809 AGATTACTTTGGGTGATGACCATTATTGTCACACCATCCATTGGG
1 AGATTACTCTAGGTGATGACCATTATTGTAACACCATCCATTGGG
259854 AGATTAC
1 AGATTAC
259861 CTCGAATGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
45 38 0.86
46 6 0.14
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (45 bp):
AGATTACTCTAGGTGATGACCATTATTGTAACACCATCCATTGGG
Found at i:260766 original size:16 final size:16
Alignment explanation
Indices: 260742--260773 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
260732 TTATGTTGCT
260742 AGTAAGGATGGTGGTA
1 AGTAAGGATGGTGGTA
*
260758 AGTAGGGATGGTGGTA
1 AGTAAGGATGGTGGTA
260774 CATCTTGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.47, T:0.25
Consensus pattern (16 bp):
AGTAAGGATGGTGGTA
Found at i:267087 original size:27 final size:25
Alignment explanation
Indices: 267031--267087 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
267021 ATTTTATTTT
*
267031 ATTT-TTTAAATATTAATAATTGAT
1 ATTTATTTAAATATTAATAATTGAC
267055 AGTTTATTTAAAATATTAATAATTGACC
1 A-TTTATTT-AAATATTAATAATTGA-C
267083 ATTTA
1 ATTTA
267088 AATATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 1 0.04
25 3 0.11
26 3 0.11
27 20 0.71
28 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (25 bp):
ATTTATTTAAATATTAATAATTGAC
Found at i:267197 original size:65 final size:64
Alignment explanation
Indices: 267126--267314 Score: 178
Period size: 65 Copynumber: 2.9 Consensus size: 64
267116 ATTAATATAC
267126 TAAAATATTAAT-ATTCTATTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTTATT
1 TAAAATATTAATAATT-TATTTAATTTAAATATTATTATGAT-AATTATTTTATTTTATTTTATT
267190 T
64 T
* * **
267191 TTAAATATTAATAATTGATAGTTT-ATTTAAA-A-TATTA--ATAATTGACCATTTA-AATATTA
1 TAAAATATTAATAATT--TA-TTTAATTTAAATATTATTATGATAATT-A--TTTTATTTTATT-
*
267250 ATATTT
59 TTATTT
*
267256 TAAAATATTAATAATTTATTTAATTTAAATATTATAATGATTAATT-TTTTATTTTATTT
1 TAAAATATTAATAATTTATTTAATTTAAATATTATTATGA-TAATTATTTTATTTTATTT
267315 GTTTTTATTT
Statistics
Matches: 98, Mismatches: 12, Indels: 29
0.71 0.09 0.21
Matches are distributed among these distances:
62 7 0.07
63 12 0.12
64 9 0.09
65 48 0.49
66 4 0.04
67 10 0.10
68 8 0.08
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (64 bp):
TAAAATATTAATAATTTATTTAATTTAAATATTATTATGATAATTATTTTATTTTATTTTATTT
Found at i:267217 original size:155 final size:148
Alignment explanation
Indices: 266941--267408 Score: 514
Period size: 155 Copynumber: 3.2 Consensus size: 148
266931 NNNNNNNNNN
**
266941 TATTAATATTTTATTTATAATTTAATCACTAATATTTTAAAATATTAATATTTTTAATTTAAATA
1 TATTAATA-TTTATTTATAATTTAATCACTAATATACTAAAATATTAATATTTTTAATTTAAATA
* *
267006 TTATTTTGATTAATTATTTTATTTTATTTTTTAAATATTAATAATTGATAGTTTATTTAAAATAT
65 TTATTATGATAAATTATTTTATTTTATTTTTTAAATATTAATAATTGATAGTTTATTTAAAATAT
267071 TAATAATTGACCATTTAAA
130 TAATAATTGACCATTTAAA
* *
267090 TATTAATATTTATTTATAATTTAGTCATTAATATACTAAAATATTAATATTCTATTTAATTTAAA
1 TATTAATATTTATTTATAATTTAATCACTAATATACTAAAATATTAATA-T-T-TTTAATTTAAA
267155 TATTATTATGATAAATTATTTTATTTTATTTTATTTTTAAATATTAATAATTGATAGTTTATTTA
63 TATTATTATGATAAATTATTTTATTTTA---T-TTTTTAAATATTAATAATTGATAGTTTATTTA
267220 AAATATTAATAATTGACCATTTAAA
124 AAATATTAATAATTGACCATTTAAA
* * * * * * * **
267245 TATTAATA--T-TTTAAAATATTAATAATTTATTTAATTTAAATATT-ATAATGATTAATTT---
1 TATTAATATTTATTTATAAT-TTAATCACTAATAT-ACTAAAATATTAAT-ATTTTTAATTTAAA
* * *
267303 T-TTATT-T--T-ATTTGTTTTTATTTTA-TTTTTAAATATTAATAATTGGA-AATTTATTTAAA
63 TATTATTATGATAAATT-ATTTTATTTTATTTTTTAAATATTAATAATT-GATAGTTTATTTAAA
** *
267361 ATATTAATAATTGATTATTTAAT
126 ATATTAATAATTGACCATTTAAA
*
267384 TATTAATATTTTATATATAATTTAA
1 TATTAATA-TTTATTTATAATTTAA
267409 ATGATATTAT
Statistics
Matches: 280, Mismatches: 23, Indels: 39
0.82 0.07 0.11
Matches are distributed among these distances:
139 58 0.21
140 2 0.01
142 5 0.02
143 9 0.03
144 11 0.04
146 1 0.00
147 5 0.02
148 38 0.14
149 9 0.03
150 1 0.00
151 44 0.16
152 7 0.03
153 14 0.05
154 11 0.04
155 65 0.23
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (148 bp):
TATTAATATTTATTTATAATTTAATCACTAATATACTAAAATATTAATATTTTTAATTTAAATAT
TATTATGATAAATTATTTTATTTTATTTTTTAAATATTAATAATTGATAGTTTATTTAAAATATT
AATAATTGACCATTTAAA
Found at i:267242 original size:27 final size:28
Alignment explanation
Indices: 267184--267236 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
267174 TTTATTTTAT
* *
267184 TTTATTTTTAAATATTAATAATTGATAG
1 TTTATTTTAAAATATTAATAATTGACAG
267212 TTTA-TTTAAAATATTAATAATTGAC
1 TTTATTTTAAAATATTAATAATTGAC
267237 CATTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.51
Consensus pattern (28 bp):
TTTATTTTAAAATATTAATAATTGACAG
Found at i:267260 original size:130 final size:133
Alignment explanation
Indices: 267116--267396 Score: 383
Period size: 139 Copynumber: 2.1 Consensus size: 133
267106 TAATTTAGTC
** *
267116 ATTAATATACTAAAATATTAAT-ATTCTATTTAATTTAAATATTATTATGA-TAA-ATTATTTTA
1 ATTAATATTTTAAAATATTAATAATT-TATTTAATTTAAATATTATAATGATTAATATTATTTTA
*
267178 -TTTTATTTTATTTTTAAATATTAATAATT-GATAGTTTATTTAAAATATTAATAATTGACCATT
65 TTTTTATTTTATTTTTAAATATTAATAATTGGA-AATTTATTTAAAATATTAATAATTGACCATT
267241 TAAAT
129 TAAAT
*
267246 ATTAATATTTTAAAATATTAATAATTTATTTAATTTAAATATTATAATGATTAATTTTTTATTTT
1 ATTAATATTTTAAAATATTAATAATTTATTTAATTTAAATATTATAATGATTAA--TATTATTTT
*
267311 ATTTGTTTTTATTTTATTTTTAAATATTAATAATTGGAAATTTATTTAAAATATTAATAATTGAT
64 A----TTTTTATTTTATTTTTAAATATTAATAATTGGAAATTTATTTAAAATATTAATAATTGAC
* *
267376 TATTTAATT
125 CATTTAAAT
267385 ATTAATATTTTA
1 ATTAATATTTTA
267397 TATATAATTT
Statistics
Matches: 132, Mismatches: 8, Indels: 13
0.86 0.05 0.08
Matches are distributed among these distances:
130 43 0.33
131 6 0.05
134 8 0.06
139 73 0.55
140 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (133 bp):
ATTAATATTTTAAAATATTAATAATTTATTTAATTTAAATATTATAATGATTAATATTATTTTAT
TTTTATTTTATTTTTAAATATTAATAATTGGAAATTTATTTAAAATATTAATAATTGACCATTTA
AAT
Found at i:267261 original size:16 final size:16
Alignment explanation
Indices: 267238--267273 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
267228 ATAATTGACC
267238 ATTT-AAATATTAATA
1 ATTTAAAATATTAATA
*
267253 TTTTAAAATATTAATA
1 ATTTAAAATATTAATA
267269 ATTTA
1 ATTTA
267274 TTTAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTAAAATATTAATA
Found at i:267321 original size:15 final size:15
Alignment explanation
Indices: 267301--267329 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
267291 AATGATTAAT
267301 TTTTTATTTTATTTG
1 TTTTTATTTTATTTG
267316 TTTTTATTTTATTT
1 TTTTTATTTTATTT
267330 TTAAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTATTTTATTTG
Found at i:267397 original size:19 final size:21
Alignment explanation
Indices: 267351--267397 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
267341 TAATTGGAAA
267351 TTTATTTAAAATATTAATAAT
1 TTTATTTAAAATATTAATAAT
*
267372 TGATTATTT-AATTATTAAT-AT
1 T--TTATTTAAAATATTAATAAT
267393 TTTAT
1 TTTAT
267398 ATATAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 4 0.17
21 4 0.17
22 9 0.39
23 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTATTTAAAATATTAATAAT
Found at i:267468 original size:112 final size:105
Alignment explanation
Indices: 267317--267514 Score: 229
Period size: 106 Copynumber: 1.8 Consensus size: 105
267307 TTTTATTTGT
* ** * *
267317 TTTTATTTTATTTTTAAATATTAATAATTGGAAATTTATTTAAAATATTAATAATTGATTATTTA
1 TTTTAATTTATTTTTAAATAGGAATAATTGGAAAGTTA-TT----TATTAATAATT-ATAATTTA
*
267382 ATTATTAATA-TTTTATATATAATTTAAATGATATTATGCTTATTTA
60 AATATTAATATTTTTATATAT-ATTTAAATGATATTATGCTTATTTA
*
267428 TTTTAATTTATTTTTTAAATAGGAATAATT-TATAAGTTATTTATTAATAATTATAATTTAAATA
1 TTTTAATTTA-TTTTTAAATAGGAATAATTGGA-AAGTTATTTATTAATAATTATAATTTAAATA
*
267492 TTAATATTTTTATTTATATTTAA
64 TTAATATTTTTATATATATTTAA
267515 TATTAATATG
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
106 22 0.29
107 20 0.26
111 12 0.16
112 22 0.29
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.56
Consensus pattern (105 bp):
TTTTAATTTATTTTTAAATAGGAATAATTGGAAAGTTATTTATTAATAATTATAATTTAAATATT
AATATTTTTATATATATTTAAATGATATTATGCTTATTTA
Found at i:267483 original size:21 final size:22
Alignment explanation
Indices: 267442--267544 Score: 63
Period size: 21 Copynumber: 4.9 Consensus size: 22
267432 AATTTATTTT
**
267442 TTAAATAGGAATAATTTATAAG
1 TTAAATATTAATAATTTATAAG
** *
267464 TTATTTATTAATAA-TTATAAT
1 TTAAATATTAATAATTTATAAG
* *
267485 TTAAATATTAAT-ATTT-TTAT
1 TTAAATATTAATAATTTATAAG
* * *
267505 TTATAT-TTAAT-ATTAATATG
1 TTAAATATTAATAATTTATAAG
*
267525 TTAAAATATTAATATTTTAT
1 TT-AAATATTAATAATTTAT
267545 TAAAAGTTGG
Statistics
Matches: 60, Mismatches: 16, Indels: 9
0.71 0.19 0.11
Matches are distributed among these distances:
19 8 0.13
20 12 0.20
21 21 0.35
22 15 0.25
23 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
TTAAATATTAATAATTTATAAG
Found at i:267549 original size:19 final size:19
Alignment explanation
Indices: 267487--267549 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
267477 ATTATAATTT
*
267487 AAATATTAATATTTTTATTT
1 AAATATTAATA-TTTTATTA
* *
267507 ATAT-TTAATATTAATATGTTA
1 AAATATTAATATT--T-TATTA
267528 AAATATTAATATTTTATTA
1 AAATATTAATATTTTATTA
267547 AAA
1 AAA
267550 GTTGGAATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
18 2 0.06
19 13 0.38
20 5 0.15
21 6 0.18
22 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
AAATATTAATATTTTATTA
Found at i:270484 original size:253 final size:251
Alignment explanation
Indices: 269805--271008 Score: 1453
Period size: 253 Copynumber: 4.8 Consensus size: 251
269795 GAATAAGTGC
* * * * *
269805 TGTCAAAATATTAACGTAAACGTATAAAATTTAACATAACAAGTCAATGATATC-AATAAATATA
1 TGTCAAAATATTAACGTAAACATGTGAGATTTAACATAACAAGTCAATTATATCAAATAAATATA
* * * **
269869 ATTTTTTTAAGAAACTAAACATTTAAATTTATATTTTTGAA-TTTAAAGTATTTAATAGTTTATA
66 A-TTTTTTAAAAAATTAAACATTTAAATTTATA-TTTTCAAGTTTAAAGTATTTAACGGTTTATA
* *
269933 AATTTTAATCTATAAAGGAATAATAGTAACGATAAAAATAATTATAGTGAAAATTAATAATTGAA
129 AATTTTAATCTATAAAAGAATAATAGTAACGATAAAAATAATTATAGTGAAAATTAATAGTTGAA
* * * * * * *
269998 AAGTTTTAACGTAAACTTCTATGAATTAATGGAAAAAATTATAAAGCTAG-AACAAGTAT
194 AAATCTTAACGTAAACTTGTA-AAAATAATGTAAAAAATTATAAAGAT-GTAACAAGTAT
* * *
270057 TGTTAAAATATTTACATAAACATGTGAGATTTAA-AGTAACAAGTCAATTATA-CAAATAAATAT
1 TGTCAAAATATTAACGTAAACATGTGAGATTTAACA-TAACAAGTCAATTATATCAAATAAATAT
* *
270120 AATTTTTTAAAAAATTATACATTTAAATTTATATTTTCAAGTTTAAAGTATTTAACAGTTTATAA
65 AATTTTTTAAAAAATTAAACATTTAAATTTATATTTTCAAGTTTAAAGTATTTAACGGTTTATAA
270185 ATTTTAATCTATAAAAGAATAATAGTAACGATAAAAATAATTATAGT-AAAACTTAATAGTTGAA
130 ATTTTAATCTATAAAAGAATAATAGTAACGATAAAAATAATTATAGTGAAAA-TTAATAGTTGAA
270249 AAATCTTAACGTAAACTTGTGAAAAATAATGTAAAAAATTATAAAGATGTAACAAGTAT
194 AAATCTTAACGTAAACTTGT-AAAAATAATGTAAAAAATTATAAAGATGTAACAAGTAT
* * * *
270308 TGTCAAAATATTGACGTAAACATGTGAGATTTAACTTAACAAG-CTAATTATCTCGAATAAATAT
1 TGTCAAAATATTAACGTAAACATGTGAGATTTAACATAACAAGTC-AATTATATCAAATAAATAT
* * *
270372 AATTTTTAAAAAAAATTAAACATTTCAATTTATATTTTCAAGTTTAAAGTATTCAACGGTTTATA
65 AATTTTT-TAAAAAATTAAACATTTAAATTTATATTTTCAAGTTTAAAGTATTTAACGGTTTATA
* *
270437 AATTTTAATCTATAAAAGAATAATAGTAACAATAAAAATAATTATAGTAAAAATTAATAGTTGAA
129 AATTTTAATCTATAAAAGAATAATAGTAACGATAAAAATAATTATAGTGAAAATTAATAGTTGAA
270502 AAATCTTAACGTAAACTTGTGAAAAATAATGTAAAAAATTATAAAGATGTAACAAGTAT
194 AAATCTTAACGTAAACTTGT-AAAAATAATGTAAAAAATTATAAAGATGTAACAAGTAT
* * * *
270561 TGTCAAAATATTGACGTAAACATGTGAGATTTAACTTAACAAGTTAATTATCTCAAATAAATATA
1 TGTCAAAATATTAACGTAAACATGTGAGATTTAACATAACAAGTCAATTATATCAAATAAATATA
* * * * * * *
270626 ATTTTTTTTAAAAATTAAACATTTTAATTTATATTCTCGAGTTTAAAATGTTTAATGGTTTATAA
66 A-TTTTTTAAAAAATTAAACATTTAAATTTATATTTTCAAGTTTAAAGTATTTAACGGTTTATAA
* * * * * *
270691 ATTTTAATCTATAAATGAATAATAGTAAGGATAAAAAAAATTATTGTGAAAATTAGTAGTAGAAA
130 ATTTTAATCTATAAAAGAATAATAGTAACGATAAAAATAATTATAGTGAAAATTAATAGTTGAAA
* * * * * * * *
270756 ATTCTTGATGTAAA-TCTGTAAGAATTAACGT-AAAAAGTATAAA-A-GTAGAAATAGCAT
195 AATCTTAACGTAAACT-TGTAA-AAATAATGTAAAAAATTATAAAGATGTA-ACA-AGTAT
* ** ** * * * *
270813 TGTTAAAATATTAATATAAATGTATGAGATTTAACATAACAAGTCATTTATATCAAATAGACATA
1 TGTCAAAATATTAACGTAAACATGTGAGATTTAACATAACAAGTCAATTATATCAAATAAATATA
* * * * *
270878 ATTTTTTTAAAAATTAAATATTTAATTTTATATTCTCAAGTTTAAACG-ATTGAACGGTTTATAA
66 ATTTTTTAAAAAATTAAACATTTAAATTTATATTTTCAAGTTTAAA-GTATTTAACGGTTTATAA
* ** * * * *
270942 ATTTTAATTTATAAGGGAATAATAGTAA-GACTAAAAATAATTATTGCGAAAATTAGTAATTGAA
130 ATTTTAATCTATAAAAGAATAATAGTAACGA-TAAAAATAATTATAGTGAAAATTAATAGTTGAA
271006 AAA
194 AAA
271009 CCTTGATGTA
Statistics
Matches: 843, Mismatches: 90, Indels: 39
0.87 0.09 0.04
Matches are distributed among these distances:
250 17 0.02
251 315 0.37
252 142 0.17
253 360 0.43
254 9 0.01
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (251 bp):
TGTCAAAATATTAACGTAAACATGTGAGATTTAACATAACAAGTCAATTATATCAAATAAATATA
ATTTTTTAAAAAATTAAACATTTAAATTTATATTTTCAAGTTTAAAGTATTTAACGGTTTATAAA
TTTTAATCTATAAAAGAATAATAGTAACGATAAAAATAATTATAGTGAAAATTAATAGTTGAAAA
ATCTTAACGTAAACTTGTAAAAATAATGTAAAAAATTATAAAGATGTAACAAGTAT
Found at i:270696 original size:17 final size:17
Alignment explanation
Indices: 270666--270698 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
270656 ATATTCTCGA
270666 GTTTAAAATGTTTAATG
1 GTTTAAAATGTTTAATG
270683 GTTTATAAAT-TTTAAT
1 GTTTA-AAATGTTTAAT
270699 CTATAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (17 bp):
GTTTAAAATGTTTAATG
Found at i:270892 original size:504 final size:501
Alignment explanation
Indices: 269805--271008 Score: 1503
Period size: 504 Copynumber: 2.4 Consensus size: 501
269795 GAATAAGTGC
* * *
269805 TGTCAAAATATTAACGTAAACGTATAAAATTTAACATAACAAGTCAATGATATCAATAAATATAA
1 TGTCAAAATATTAACGTAAACGTATGAGATTTAACATAACAAGTCAATTATATCAATAAATATAA
* * * **
269870 TTTTTTTAAGAAACTAAACATTTAAATTTATATTTTTGAA-TTTAAAGTATTTAATAGTTTATAA
66 TTTTTTTAA-AAATTAAACATTT-AATTTATA-TTTTCAAGTTTAAAGTATTCAACGGTTTATAA
*
269934 ATTTTAATCTATAAAGGAATAATAGTAACGATAAAAATAATTATAGTGAAAATTAATAATTGAAA
128 ATTTTAATCTATAAAGGAATAATAGTAACAATAAAAATAATTATAGTGAAAATTAATAATTGAAA
* * * * * *
269999 AGTTTTAACGTAAACTTCTATGAATTAATGGAAAAAATTATAAAGCTAGAACAAGTATTGTTAAA
193 AATCTTAACGTAAACTTCTATAAAATAATGGAAAAAATTATAAAGATAGAACAAGTATTGTCAAA
*
270064 ATATTTACATAAACATGTGAGATTTAAAGTAACAAGTCAATTATACAAATAAATATAATTTTTTA
258 ATATTGACATAAACATGTGAGATTTAAAGTAACAAGTCAATTATACAAATAAATATAATTTTTTA
* * *
270129 AAAAATTATACATTTAAATTTATATTTTCAAGTTTAAAGTATTTAACAGTTTATAAATTTTAATC
323 AAAAATTAAACATTTAAATTTATATTCTCAAGTTTAAAATATTTAACAGTTTATAAATTTTAATC
* *
270194 TATAAAAGAATAATAGTAACGATAAAAATAATTATAGTAAAACTTAATAGTTGAAAAATCTTAAC
388 TATAAAAGAATAATAGTAACGATAAAAAAAATTATAGTAAAACTTAATAGTAGAAAAATCTTAAC
* * * *
270259 GTAAACTTGTGAAAAATAATGTAAAAAATTATAAAGATGTAACAAGTAT
453 GTAAACTTGTGAAAAATAACGTAAAAAAGTATAAAGATGTAAAAAGCAT
* * * * *
270308 TGTCAAAATATTGACGTAAACATGTGAGATTTAACTTAACAAG-CTAATTATCTCGAATAAATAT
1 TGTCAAAATATTAACGTAAACGTATGAGATTTAACATAACAAGTC-AATTATATC-AATAAATAT
**
270372 AATTTTTAAAAAAAATTAAACATTTCAATTTATATTTTCAAGTTTAAAGTATTCAACGGTTTATA
64 AATTTTT-TTAAAAATTAAACATTT-AATTTATATTTTCAAGTTTAAAGTATTCAACGGTTTATA
* * *
270437 AATTTTAATCTATAAAAGAATAATAGTAACAATAAAAATAATTATAGTAAAAATTAATAGTTGAA
127 AATTTTAATCTATAAAGGAATAATAGTAACAATAAAAATAATTATAGTGAAAATTAATAATTGAA
* *
270502 AAATCTTAACGTAAACTTGTGA-AAAATAATGTAAAAAATTATAAAGAT-GTAACAAGTATTGTC
192 AAATCTTAACGTAAACTTCT-ATAAAATAATGGAAAAAATTATAAAGATAG-AACAAGTATTGTC
* ** * *
270565 AAAATATTGACGTAAACATGTGAGATTTAACTTAACAAGTTAATTATCTCAAATAAATATAATTT
255 AAAATATTGACATAAACATGTGAGATTTAAAGTAACAAGTCAATTAT-ACAAATAAATATAA-TT
* * * * **
270630 TTTTTAAAAATTAAACATTTTAATTTATATTCTCGAGTTTAAAATGTTTAATGGTTTATAAATTT
318 TTTTAAAAAATTAAACATTTAAATTTATATTCTCAAGTTTAAAATATTTAACAGTTTATAAATTT
* * * * *
270695 TAATCTATAAATGAATAATAGTAAGGATAAAAAAAATTATTGTGAAAA-TTAGTAGTAGAAAATT
383 TAATCTATAAAAGAATAATAGTAACGATAAAAAAAATTATAGT-AAAACTTAATAGTAGAAAAAT
* * *
270759 CTTGATGTAAA-TCTGT-AAGAATTAACGT-AAAAAGTATAAA-A-GTAGAAATAGCAT
447 CTTAACGTAAACT-TGTGAA-AAATAACGTAAAAAAGTATAAAGATGTA-AAA-AGCAT
* ** * * * *
270813 TGTTAAAATATTAATATAAATGTATGAGATTTAACATAACAAGTCATTTATATCAAATAGACATA
1 TGTCAAAATATTAACGTAAACGTATGAGATTTAACATAACAAGTCAATTATATC-AATAAATATA
* * *
270878 ATTTTTTTAAAAATTAAATATTTAATTTTATATTCTCAAGTTTAAACG-ATTGAACGGTTTATAA
65 ATTTTTTTAAAAATTAAACATTTAA-TTTATATTTTCAAGTTTAAA-GTATTCAACGGTTTATAA
* * * * * * *
270942 ATTTTAATTTATAAGGGAATAATAGTAAGACTAAAAATAATTATTGCGAAAATTAGTAATTGAAA
128 ATTTTAATCTATAAAGGAATAATAGTAACAATAAAAATAATTATAGTGAAAATTAATAATTGAAA
271007 AA
193 AA
271009 CCTTGATGTA
Statistics
Matches: 600, Mismatches: 85, Indels: 31
0.84 0.12 0.04
Matches are distributed among these distances:
502 1 0.00
503 56 0.09
504 318 0.53
505 91 0.15
506 130 0.22
507 4 0.01
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (501 bp):
TGTCAAAATATTAACGTAAACGTATGAGATTTAACATAACAAGTCAATTATATCAATAAATATAA
TTTTTTTAAAAATTAAACATTTAATTTATATTTTCAAGTTTAAAGTATTCAACGGTTTATAAATT
TTAATCTATAAAGGAATAATAGTAACAATAAAAATAATTATAGTGAAAATTAATAATTGAAAAAT
CTTAACGTAAACTTCTATAAAATAATGGAAAAAATTATAAAGATAGAACAAGTATTGTCAAAATA
TTGACATAAACATGTGAGATTTAAAGTAACAAGTCAATTATACAAATAAATATAATTTTTTAAAA
AATTAAACATTTAAATTTATATTCTCAAGTTTAAAATATTTAACAGTTTATAAATTTTAATCTAT
AAAAGAATAATAGTAACGATAAAAAAAATTATAGTAAAACTTAATAGTAGAAAAATCTTAACGTA
AACTTGTGAAAAATAACGTAAAAAAGTATAAAGATGTAAAAAGCAT
Found at i:271293 original size:322 final size:322
Alignment explanation
Indices: 270696--271307 Score: 759
Period size: 322 Copynumber: 1.9 Consensus size: 322
270686 TATAAATTTT
* * *** * **
270696 AATCTATAAATGAATAATAGTAAGGATAAAAAAAATTATTGTGAAAATTAGTAGTAGAAAATTCT
1 AATCTATAAATGAATAATAATAAGAATAAAAAAAATTACAATAAAAATTAGTAGTAGAAAAACCT
** * * * *
270761 TGATGTAAATCTGTAAGAATTAACGTAAAAAGTATAAAAGTAGAAATAGCATTGTTAAAATATTA
66 TGACATAAACCTGTAAGAATTAACATAAAAAGTATAAAAGTAGAAATAGCATTATCAAAATATTA
* ** * *
270826 ATATAAATGTATGAGATTTAACATAACAAGTCATTTATATCAAATAGACATAATTTTTTTAAAAA
131 ACATAAACATATGAGATTTAACATAACAAGTCAATTATATCAAATAAACAT-ATTTTTTTAAAAA
* * *
270891 TTAAATATTTAATTTTATATTCTCAAGTTTAAACGATTGAACGGTTTATAAATTTTAATTTATAA
195 TTAAACATTTAAATTTACATTCTCAAGTTTAAACGATTGAACGGTTTATAAATTTTAATTTATAA
* * * *
270956 GGGAATAATAGTAAGACTAAAAATAATTATTGCGAAAATTAGTAATTGAAAAACCTTGATGTA
260 AGAAATAACAGTAAGAATAAAAATAATTATTGCGAAAATTAGTAATTGAAAAACCTTGATGTA
* *
271019 AATCTTATAAATGAATAATAATAAGAAT-AAAATAATTACAATAAAAATTAGTAGTTGAAAAACC
1 AATC-TATAAATGAATAATAATAAGAATAAAAAAAATTACAATAAAAATTAGTAGTAGAAAAACC
* * * *
271083 TTGGCATAAACCTGTAAGAATTAACATAAAAAATTATAAAGGTGGAACA-AGCATTATCAAAATA
65 TTGACATAAACCTGTAAGAATTAACAT-AAAAAGTATAAAAGTAGAA-ATAGCATTATCAAAATA
* * * * *
271147 TTGACATAAACATGTGAGATTTAACGTAATC-AGTTAATTATGTCAAATAAACAT-TTTTTTTAA
128 TTAACATAAACATATGAGATTTAACATAA-CAAGTCAATTATATCAAATAAACATATTTTTTTAA
* *
271210 AAATTAAACATTTAAATTTACATTCTCTAGTTTAAA-GTATTTAATC-GTTTATAAATTTTAATT
192 AAATTAAACATTTAAATTTACATTCTCAAGTTTAAACG-ATTGAA-CGGTTTATAAATTTTAATT
*
271273 TATAAATAAATAACAGTAAGAATAAAAATAATTAT
255 TATAAAGAAATAACAGTAAGAATAAAAATAATTAT
271308 AATAAAATAA
Statistics
Matches: 243, Mismatches: 40, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
321 1 0.00
322 93 0.38
323 55 0.23
324 92 0.38
325 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (322 bp):
AATCTATAAATGAATAATAATAAGAATAAAAAAAATTACAATAAAAATTAGTAGTAGAAAAACCT
TGACATAAACCTGTAAGAATTAACATAAAAAGTATAAAAGTAGAAATAGCATTATCAAAATATTA
ACATAAACATATGAGATTTAACATAACAAGTCAATTATATCAAATAAACATATTTTTTTAAAAAT
TAAACATTTAAATTTACATTCTCAAGTTTAAACGATTGAACGGTTTATAAATTTTAATTTATAAA
GAAATAACAGTAAGAATAAAAATAATTATTGCGAAAATTAGTAATTGAAAAACCTTGATGTA
Found at i:271370 original size:35 final size:35
Alignment explanation
Indices: 271324--271402 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
271314 ATAATAATTA
*
271324 AAAAATT-TTGACGTAAACCTGTAAGAATTAACAT
1 AAAAATTATTGACGTAAACATGTAAGAATTAACAT
* * *
271358 AAAAATTATTGACGTAAATATGTAAGATTTAACGT
1 AAAAATTATTGACGTAAACATGTAAGAATTAACAT
271393 AACAAATTAT
1 AA-AAATTAT
271403 AATAATAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 7 0.18
35 25 0.64
36 7 0.18
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (35 bp):
AAAAATTATTGACGTAAACATGTAAGAATTAACAT
Found at i:272065 original size:17 final size:17
Alignment explanation
Indices: 272043--272110 Score: 75
Period size: 17 Copynumber: 3.8 Consensus size: 17
272033 TTACTCAAAA
272043 TAAAATTAAATAATATT
1 TAAAATTAAATAATATT
*
272060 TAAAATAAAATAGATAAATT
1 TAAAATTAAATA-AT--ATT
272080 TATAAATT-AATAATATT
1 TA-AAATTAAATAATATT
272097 TAAAATTAACATAA
1 TAAAATTAA-ATAA
272111 AATGAAGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
16 5 0.12
17 17 0.40
18 6 0.14
19 2 0.05
20 9 0.21
21 4 0.09
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (17 bp):
TAAAATTAAATAATATT
Found at i:272086 original size:21 final size:22
Alignment explanation
Indices: 272039--272102 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
272029 TATTTTACTC
272039 AAAATAAAATTAAATAATATTT
1 AAAATAAAATTAAATAATATTT
*
272061 AAAATAAAA-TAGATAA-ATTT
1 AAAATAAAATTAAATAATATTT
272081 ---AT-AAATT-AATAATATTT
1 AAAATAAAATTAAATAATATTT
272098 AAAAT
1 AAAAT
272103 TAACATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
16 7 0.20
17 7 0.20
20 6 0.17
21 6 0.17
22 9 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATAAAATTAAATAATATTT
Found at i:272112 original size:43 final size:43
Alignment explanation
Indices: 272059--272140 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
272049 TAAATAATAT
272059 TTAAAATAAAATAGATA-AA-TTTATAAATTAATAATATTTAAAA
1 TTAAAATAAAAT-GA-AGAAGTTTATAAATTAATAATATTTAAAA
* *
272102 TTAACATAAAATGAAGAAGTTTATAAATTAGTAATATTT
1 TTAAAATAAAATGAAGAAGTTTATAAATTAATAATATTT
272141 TTTACTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 1 0.03
42 4 0.11
43 30 0.86
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (43 bp):
TTAAAATAAAATGAAGAAGTTTATAAATTAATAATATTTAAAA
Found at i:273271 original size:29 final size:29
Alignment explanation
Indices: 273226--273320 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
273216 GAGCTAATAA
* *
273226 AGAAAA-GTTGTATATGAACAGGTACAAG
1 AGAAAAGGCTGTACATGAACAGGTACAAG
* * *
273254 AGAGGAA-GCTGTACATGAATAAGTACAAG
1 AGA-AAAGGCTGTACATGAACAGGTACAAG
* * *
273283 AGAAAAGGTTGTACGTGAACAGGTATAAG
1 AGAAAAGGCTGTACATGAACAGGTACAAG
273312 AGAATAAGG
1 AGAA-AAGG
273321 AAAAAATAGA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
28 5 0.09
29 44 0.83
30 4 0.08
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.19
Consensus pattern (29 bp):
AGAAAAGGCTGTACATGAACAGGTACAAG
Found at i:275216 original size:122 final size:122
Alignment explanation
Indices: 275058--275303 Score: 431
Period size: 122 Copynumber: 2.0 Consensus size: 122
275048 TTGACTCACC
* *
275058 CTCAACTTCAGCATTATTAACATCAACTGATTCATCATCAAATTCATCACTACGTTCAGAGTCAC
1 CTCAACTTCAGCATTATTAACATCAACTGATTCATCACCAAATTCATCACTACATTCAGAGTCAC
*
275123 ATGATTCTTCCTCAGTCT-TAACTTCACAAGTTTCTTCCTCTTCAATTGAATTAGGTT
66 ATGATTCTTCCTCAGTCTCT-ACTTCACAAGTTTCTTCCTCTTCAACTGAATTAGGTT
*
275180 CTCAACTTCAGCATTATTAACATCAACTGATTCATCACCAGATTCATCACTACATTCAGAGTCAC
1 CTCAACTTCAGCATTATTAACATCAACTGATTCATCACCAAATTCATCACTACATTCAGAGTCAC
*
275245 ATGATTCTTCCTTAGTCTCTACTTCACAAGTTTCTTCCTCTTCAACTGAATTAGGTT
66 ATGATTCTTCCTCAGTCTCTACTTCACAAGTTTCTTCCTCTTCAACTGAATTAGGTT
275302 CT
1 CT
275304 ACTCATGTAA
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
122 117 0.99
123 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (122 bp):
CTCAACTTCAGCATTATTAACATCAACTGATTCATCACCAAATTCATCACTACATTCAGAGTCAC
ATGATTCTTCCTCAGTCTCTACTTCACAAGTTTCTTCCTCTTCAACTGAATTAGGTT
Found at i:275382 original size:31 final size:32
Alignment explanation
Indices: 275325--275396 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
275315 TGATTCTCCC
* *
275325 TAAAACAATGAGAAAATATAAAAATATATATA
1 TAAAAAAATAAGAAAATATAAAAATATATATA
275357 -AAACAAAATAAGAAAATA-AAAAATATATATA
1 TAAA-AAAATAAGAAAATATAAAAATATATATA
275388 TAAAAAAAT
1 TAAAAAAAT
275397 GAATGAACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 21 0.58
32 15 0.42
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (32 bp):
TAAAAAAATAAGAAAATATAAAAATATATATA
Found at i:276737 original size:60 final size:59
Alignment explanation
Indices: 276621--276756 Score: 186
Period size: 60 Copynumber: 2.3 Consensus size: 59
276611 TTTAAAATAC
* * *
276621 ATATAATAGTAATAA-AACAACAACAAAATAAAATAACAATATGATATATTTATTATTA
1 ATATAATAATAATAATAACAACAACAAAATAAAATAACAAAATAATATATTTATTATTA
* * *
276679 ATATAATAATAATAATAACCATAACAAAATAAAATAGCAAAAATAATATATTTATTATTA
1 ATATAATAATAATAATAACAACAACAAAATAAAATAAC-AAAATAATATATTTATTATTA
276739 ATATATATAATAA-AATAA
1 ATATA-ATAATAATAATAA
276757 TTATAATATA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
58 14 0.20
59 19 0.28
60 29 0.42
61 7 0.10
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (59 bp):
ATATAATAATAATAATAACAACAACAAAATAAAATAACAAAATAATATATTTATTATTA
Found at i:276774 original size:21 final size:24
Alignment explanation
Indices: 276732--276776 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
276722 TAATATATTT
276732 ATTATTAATATATATAATAAAATA
1 ATTATTAATATATATAATAAAATA
*
276756 ATTA-TAATATATATAAAAAAA
1 ATTATTAATATATATAATAAAA
276777 GGGCTTGCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTATTAATATATATAATAAAATA
Found at i:278360 original size:29 final size:30
Alignment explanation
Indices: 278312--278387 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 30
278302 TTTATTTTTT
* * *
278312 CCTTGTTCTCTTATATCTGTTCACGTATAG
1 CCTTCTTCTCTTATACCTGTTCACGTACAG
* *
278342 CCTT-TTCTCTTGTACCTGTTCATGTACAG
1 CCTTCTTCTCTTATACCTGTTCACGTACAG
278371 -CTTCTTCTCTTATACCT
1 CCTTCTTCTCTTATACCT
278388 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
28 3 0.08
29 33 0.82
30 4 0.10
ACGTcount: A:0.14, C:0.28, G:0.11, T:0.47
Consensus pattern (30 bp):
CCTTCTTCTCTTATACCTGTTCACGTACAG
Found at i:281271 original size:29 final size:29
Alignment explanation
Indices: 281210--281295 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 29
281200 TTTTTCCTTG
* * * *
281210 TTCTCTTATACTTATTTACGTATAGCCTT-
1 TTCTCTTATACCTATTCATGTACAG-CTTC
* *
281239 TTCTCTTGTACCTGTTCATGTACAGCTTC
1 TTCTCTTATACCTATTCATGTACAGCTTC
281268 TTCTCTTATACCTATTCATGTACAGCTT
1 TTCTCTTATACCTATTCATGTACAGCTT
281296 TTTTTTATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 3 0.06
29 45 0.94
ACGTcount: A:0.19, C:0.24, G:0.09, T:0.48
Consensus pattern (29 bp):
TTCTCTTATACCTATTCATGTACAGCTTC
Found at i:284298 original size:8 final size:8
Alignment explanation
Indices: 284253--284312 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
284243 ACTATTGATA
284253 ATTAAATT
1 ATTAAATT
284261 ATT-AATT
1 ATTAAATT
* *
284268 -TTACATA
1 ATTAAATT
284275 ATTAAATAT
1 ATTAAAT-T
*
284284 ATAAAATT
1 ATTAAATT
284292 ATTAAATT
1 ATTAAATT
284300 AATTAAAATT
1 -ATT-AAATT
284310 ATT
1 ATT
284313 TCTTTTTAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
6 2 0.05
7 6 0.15
8 16 0.39
9 12 0.29
10 5 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTAAATT
Found at i:284599 original size:2 final size:2
Alignment explanation
Indices: 284592--284637 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
284582 TAAAAATGAG
284592 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
284634 TA TA
1 TA TA
284638 AATTTGTAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:290363 original size:19 final size:19
Alignment explanation
Indices: 290339--290391 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
290329 CTAGAATAAA
290339 AACATAAAGAATTGTTAAC
1 AACATAAAGAATTGTTAAC
290358 AACATAAAGAATTGTTAAC
1 AACATAAAGAATTGTTAAC
290377 AACATAAAGAATTGT
1 AACATAAAGAATTGT
290392 ATTACTAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.26
Consensus pattern (19 bp):
AACATAAAGAATTGTTAAC
Found at i:295690 original size:16 final size:17
Alignment explanation
Indices: 295665--295697 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
295655 TTTATTGTGA
*
295665 TTTAGTTTTATTTAATT
1 TTTAGTTTTAATTAATT
295682 TTTAG-TTTAATTAATT
1 TTTAGTTTTAATTAATT
295698 GATTTTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTAGTTTTAATTAATT
Found at i:304384 original size:15 final size:15
Alignment explanation
Indices: 304358--304390 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
304348 AACACAACAC
304358 TTTTCTTGCTCTTGAT
1 TTTTCTTGCTCTTG-T
304374 TTTTCTT-CTCTTGT
1 TTTTCTTGCTCTTGT
304388 TTT
1 TTT
304391 GTTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.03, C:0.18, G:0.09, T:0.70
Consensus pattern (15 bp):
TTTTCTTGCTCTTGT
Found at i:305181 original size:49 final size:50
Alignment explanation
Indices: 305100--305200 Score: 141
Period size: 49 Copynumber: 2.0 Consensus size: 50
305090 ATGCTATTAA
* *
305100 AGTCAAGCCTTTTAACTCCTAAAAGCAGCCACATTTCCACTCACATAGGT
1 AGTCAAGCCTTTTAACTCCTAAAAGCAGCCACACTTCCACTAACATAGGT
* * **
305150 AGTCAAGCC-TTTAGCTCCTAGAAGGGGCCACACTTCCACTAACATAGGT
1 AGTCAAGCCTTTTAACTCCTAAAAGCAGCCACACTTCCACTAACATAGGT
305199 AG
1 AG
305201 CTCCCATTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
49 36 0.80
50 9 0.20
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
AGTCAAGCCTTTTAACTCCTAAAAGCAGCCACACTTCCACTAACATAGGT
Found at i:309674 original size:28 final size:29
Alignment explanation
Indices: 309632--309701 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
309622 GTAGTTTTGA
309632 GTAAGAGGGAAAATGCATGA-GAAAGCAAG
1 GTAAGAGGGAAAATGCATGATGAAA-CAAG
* **
309661 GTAAGA-GGAAAATGTATGATTTAACAAG
1 GTAAGAGGGAAAATGCATGATGAAACAAG
309689 GTAAGAGGGAAAA
1 GTAAGAGGGAAAA
309702 GGTAAGAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 22 0.61
29 14 0.39
ACGTcount: A:0.49, C:0.04, G:0.31, T:0.16
Consensus pattern (29 bp):
GTAAGAGGGAAAATGCATGATGAAACAAG
Found at i:309705 original size:14 final size:14
Alignment explanation
Indices: 309686--309715 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
309676 ATGATTTAAC
*
309686 AAGGTAAGAGGGAA
1 AAGGTAAGAGAGAA
309700 AAGGTAAGAGAGAA
1 AAGGTAAGAGAGAA
309714 AA
1 AA
309716 ATACTTATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.37, T:0.07
Consensus pattern (14 bp):
AAGGTAAGAGAGAA
Found at i:310231 original size:2 final size:2
Alignment explanation
Indices: 310224--310248 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
310214 ACTTAAAATT
310224 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
310249 CTTATATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:311614 original size:28 final size:28
Alignment explanation
Indices: 311583--311674 Score: 81
Period size: 25 Copynumber: 3.4 Consensus size: 28
311573 TTTAAAATTT
311583 TTTTATTATTTTATTATATTTAATTAAA
1 TTTTATTATTTTATTATATTTAATTAAA
311611 TTTTA-TA-TTT-TTAT-TTTAAATTAAA
1 TTTTATTATTTTATTATATTT-AATTAAA
**
311636 -TAAATT-TTTTAATTAATATTTAATT-AA
1 TTTTATTATTTT-ATT-ATATTTAATTAAA
311663 TTATTATTATTT
1 TT-TTATTATTT
311675 AAAATAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
24 5 0.10
25 15 0.30
26 3 0.06
27 6 0.12
28 12 0.24
29 6 0.12
30 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTATTATTTTATTATATTTAATTAAA
Found at i:321609 original size:61 final size:61
Alignment explanation
Indices: 321460--321598 Score: 172
Period size: 61 Copynumber: 2.3 Consensus size: 61
321450 TGCATTTGCT
* * * * * * *
321460 AATGTATCAATACTTTTCAAGCAATAAGTATTTTGTTAAAAATATATCGATACATTTGAGA
1 AATGTATCGATATTTTTAAAACAGTAAGTATTATGTTAAAAATATATCGATACATTTAAGA
* *
321521 AATGTATCGATATTTTTAAAACAGTAAGTATTATGTTGAAAATGTA-CTGATACATTTAAGA
1 AATGTATCGATATTTTTAAAACAGTAAGTATTATGTTAAAAATATATC-GATACATTTAAGA
*
321582 AATGTATCGATCTTTTT
1 AATGTATCGATATTTTT
321599 GAGATAGTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
60 1 0.01
61 66 0.99
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.40
Consensus pattern (61 bp):
AATGTATCGATATTTTTAAAACAGTAAGTATTATGTTAAAAATATATCGATACATTTAAGA
Found at i:327628 original size:30 final size:30
Alignment explanation
Indices: 327589--327645 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
327579 TTAATAGTTG
*
327589 AATGATC-AAACATTAATTTTTCTAAATATT
1 AATGATCAAAACA-TAATTTTTCAAAATATT
* *
327619 AATGTTCAAAACATGATTTTTCAAAAT
1 AATGATCAAAACATAATTTTTCAAAAT
327646 CAGGTAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (30 bp):
AATGATCAAAACATAATTTTTCAAAATATT
Found at i:330634 original size:5 final size:5
Alignment explanation
Indices: 330624--330649 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
330614 TACAGACGTG
330624 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
330650 TTTCTGAAAG
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:330898 original size:57 final size:57
Alignment explanation
Indices: 330810--330925 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
330800 CATATTCCCT
330810 CCCCATCCCTTCAATAAGAGTACAGTTGACTTACGAATTCAATCCCTAAACTTCAAA
1 CCCCATCCCTTCAATAAGAGTACAGTTGACTTACGAATTCAATCCCTAAACTTCAAA
* **
330867 CCCCATCCCTTCAATAAGAGTACTGTTGACTTATTAATTCAATCCCTAAACTTCAAA
1 CCCCATCCCTTCAATAAGAGTACAGTTGACTTACGAATTCAATCCCTAAACTTCAAA
330924 CC
1 CC
330926 ACTTAGAGCA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.28
Consensus pattern (57 bp):
CCCCATCCCTTCAATAAGAGTACAGTTGACTTACGAATTCAATCCCTAAACTTCAAA
Found at i:333664 original size:29 final size:27
Alignment explanation
Indices: 333602--333665 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
333592 ATTTTGAATA
* *
333602 AATTTTTATTTTTTATCATATATAATT
1 AATTTTTATTTTTTATCATAAATAAAT
**
333629 AAGTTTTTATATTTTTATTTTAAATTAAAT
1 AA-TTTTTAT-TTTTTATCATAAA-TAAAT
333659 AATTTTT
1 AATTTTT
333666 TGTTATTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 2 0.07
28 7 0.23
29 15 0.50
30 6 0.20
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
AATTTTTATTTTTTATCATAAATAAAT
Found at i:333666 original size:30 final size:28
Alignment explanation
Indices: 333598--333666 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
333588 AAAAATTTTG
*
333598 AATAAATTTTTATTTTTTATCATATATA
1 AATAAATTTTTATTTTTTATCATAAATA
* * **
333626 ATTAAGTTTTTATATTTTTATTTTAAATTA
1 AATAAATTTTTAT-TTTTTATCATAAA-TA
*
333656 AATAATTTTTT
1 AATAAATTTTT
333667 GTTATTAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
28 11 0.34
29 10 0.31
30 11 0.34
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (28 bp):
AATAAATTTTTATTTTTTATCATAAATA
Found at i:339580 original size:16 final size:17
Alignment explanation
Indices: 339559--339591 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
339549 CCTTTTTTCC
*
339559 ATTTTTTTTC-CCTTTG
1 ATTTTTCTTCACCTTTG
339575 ATTTTTCTTCACCTTTG
1 ATTTTTCTTCACCTTTG
339592 TTGCTTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.09, C:0.21, G:0.06, T:0.64
Consensus pattern (17 bp):
ATTTTTCTTCACCTTTG
Found at i:340717 original size:24 final size:24
Alignment explanation
Indices: 340689--340735 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
340679 CGACAAATCT
340689 TTGACAATTATGCAAAGATCATTC
1 TTGACAATTATGCAAAGATCATTC
**
340713 TTGACAATTATGTGAAGATCATT
1 TTGACAATTATGCAAAGATCATT
340736 TTTAAGGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (24 bp):
TTGACAATTATGCAAAGATCATTC
Found at i:345984 original size:27 final size:28
Alignment explanation
Indices: 345954--346010 Score: 98
Period size: 27 Copynumber: 2.0 Consensus size: 28
345944 TATTTTTAAG
345954 TATTAATAATTGATAATTT-ATTTAAAA
1 TATTAATAATTGATAATTTAATTTAAAA
345981 TATTAATAATTGATAATTTAAATTTAAAA
1 TATTAATAATTGATAATTT-AATTTAAAA
346010 T
1 T
346011 TTTATTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 19 0.68
29 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (28 bp):
TATTAATAATTGATAATTTAATTTAAAA
Found at i:346027 original size:40 final size:43
Alignment explanation
Indices: 345970--346061 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 43
345960 TAATTGATAA
* *
345970 TTTATTTAAAATATTAATAATTGATAATTT-AAAT-TTAAAAT
1 TTTATTTAAAATATTAATAATTAATAATTTAAAATACTAAAAT
* * * *
346011 TTTATTTAGAAT-TTAATCATTAATATTTTAAAATACTAATAT
1 TTTATTTAAAATATTAATAATTAATAATTTAAAATACTAAAAT
346053 TTTATTTAA
1 TTTATTTAA
346062 TTTAAATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 14 0.33
41 15 0.36
42 13 0.31
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTATTTAAAATATTAATAATTAATAATTTAAAATACTAAAAT
Found at i:346217 original size:86 final size:84
Alignment explanation
Indices: 346037--346220 Score: 212
Period size: 86 Copynumber: 2.1 Consensus size: 84
346027 TCATTAATAT
* *
346037 TTTAAAATACTAATATTTTATTTAATTTAAATATTATTATGATCAATTTTTTATTTTATTTTATT
1 TTTAAAATATTAATATTTTATTTAATTTAAATATTAATATGATCAA---TTTATTTTATTTTATT
* *
346102 TTTACATATTAATAATAGTTAA
63 TTTAAATACTAATAATAGTTAA
*
346124 TTT-AAATATTAATATTTTATTT-ATTTCAAATATTAATATGATTAA-TTATTTTATTTTACTTT
1 TTTAAAATATTAATATTTTATTTAATTT-AAATATTAATATGATCAATTTATTTTATTTTA-TTT
* * *
346186 TTAAATACTAATTTATGATTTTA
64 TTAAATACTAA-TAAT-AGTTAA
346209 TTTAAAATATTA
1 TTTAAAATATTA
346221 CTAATTGATA
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
82 13 0.15
83 12 0.14
84 3 0.04
85 11 0.13
86 42 0.50
87 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (84 bp):
TTTAAAATATTAATATTTTATTTAATTTAAATATTAATATGATCAATTTATTTTATTTTATTTTT
AAATACTAATAATAGTTAA
Found at i:346379 original size:117 final size:116
Alignment explanation
Indices: 346169--346379 Score: 275
Period size: 117 Copynumber: 1.8 Consensus size: 116
346159 ATATGATTAA
* * * *
346169 TTATTTTATTTTACTTTTTAAATACTAATTTATGATTTTATTTAAAATATTACTAATTGATAATT
1 TTATTTTATTTTACTTTTTAAATAATAATTTATGAATTAATTTAAAATATTAATAATTGATAATT
* *
346234 TAATTATTGACATTTTATTTATAATTTAAATGTTATTAGGCTTATTTATTT
66 TAATTATTAACATTTAATTTATAATTTAAATGTTATTAGGCTTATTTATTT
* *
346285 TTATTTTATTTTA-TTTTTAAATATTAATAATTTAT-AATTAATTTTAAATATTAATAATTGATC
1 TTATTTTATTTTACTTTTT-AA-A-TAATAATTTATGAATTAATTTAAAATATTAATAATTGATA
* *
346348 ATTTGAA-TATTAATATTTAATTTTTAATTTAA
63 ATTT-AATTATTAACATTTAATTTATAATTTAA
346380 TATTAATATT
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
115 5 0.06
116 15 0.19
117 49 0.60
118 12 0.15
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (116 bp):
TTATTTTATTTTACTTTTTAAATAATAATTTATGAATTAATTTAAAATATTAATAATTGATAATT
TAATTATTAACATTTAATTTATAATTTAAATGTTATTAGGCTTATTTATTT
Found at i:346390 original size:110 final size:109
Alignment explanation
Indices: 346101--346396 Score: 257
Period size: 117 Copynumber: 2.6 Consensus size: 109
346091 TTTATTTTAT
* * * *
346101 TTTTACATATTAATAATAGTTAATTTAAATATTAATATTT-TATTT-ATTTCAAATATTAATA-T
1 TTTTAAATATTAATAATTGATAATTT-AATATTAATATTTATTTTTAATTT-AAATATTAATATT
* * * *
346163 GATTAATTATTTTATTTTACTTTTTAAATACTAATTTATGATTTTA
64 TATTAATTATTTTATTTTACTTTTTAAATAATAATTTATGAATTAA
* * *
346209 TTTAAAATATTACTAATTGATAATTTAATTATTGACAT-TTTATTTATAATTTAAATGTTATTAG
1 TTTTAAATATTAATAATTGATAATTTAA-TATT-A-ATATTTATTTTTAATTTAAA---TATTA-
* *
346273 GCTTATTTATT-TTTATTTTATTTTA-TTTTTAAATATTAATAATTTAT-AATTAA
59 --ATATTTATTAATTATTTTATTTTACTTTTT-AA-A-TAATAATTTATGAATTAA
*
346326 TTTTAAATATTAATAATTGATCATTTGAATATTAATATTTAATTTTTAATTT-AATATTAATATT
1 TTTTAAATATTAATAATTGATAATTT-AATATTAATATTT-ATTTTTAATTTAAATATTAATATT
346390 TAATTAA
64 T-ATTAA
346397 AAGTTGGAAT
Statistics
Matches: 149, Mismatches: 19, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
107 2 0.01
108 25 0.17
109 4 0.03
110 13 0.09
111 7 0.05
113 10 0.07
115 7 0.05
116 23 0.15
117 46 0.31
118 12 0.08
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (109 bp):
TTTTAAATATTAATAATTGATAATTTAATATTAATATTTATTTTTAATTTAAATATTAATATTTA
TTAATTATTTTATTTTACTTTTTAAATAATAATTTATGAATTAA
Found at i:346392 original size:7 final size:7
Alignment explanation
Indices: 346304--346393 Score: 52
Period size: 6 Copynumber: 13.4 Consensus size: 7
346294 TTTATTTTTA
346304 AATA-TT
1 AATATTT
346310 AATAATTT
1 AAT-ATTT
*
346318 -ATAATT
1 AATATTT
346324 AAT-TTT
1 AATATTT
346330 AA-ATATT
1 AATAT-TT
*
346337 AATAATT
1 AATATTT
*
346344 GATCATTT
1 AAT-ATTT
346352 GAATA-TT
1 -AATATTT
346359 AATATTT
1 AATATTT
346366 AAT-TTT
1 AATATTT
*
346372 TA-ATTT
1 AATATTT
346378 AATA-TT
1 AATATTT
346384 AATATTT
1 AATATTT
346391 AAT
1 AAT
346394 TAAAAGTTGG
Statistics
Matches: 64, Mismatches: 8, Indels: 23
0.67 0.08 0.24
Matches are distributed among these distances:
6 29 0.45
7 26 0.41
8 7 0.11
9 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (7 bp):
AATATTT
Found at i:355711 original size:4 final size:4
Alignment explanation
Indices: 355692--355734 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
355682 ATCATGGAAT
* *
355692 ATAC ATGC AAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
355735 TAACTAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:359452 original size:20 final size:20
Alignment explanation
Indices: 359408--359454 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
359398 TCTTGATATC
*
359408 CTTG-TGTTCACATAATGAT
1 CTTGATGTTCAAATAATGAT
*
359427 CCTGATGTTCAAATAATGGA-
1 CTTGATGTTCAAATAAT-GAT
359447 CTTGATGT
1 CTTGATGT
359455 ATTACATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.13
20 18 0.78
21 2 0.09
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (20 bp):
CTTGATGTTCAAATAATGAT
Found at i:370636 original size:35 final size:35
Alignment explanation
Indices: 370590--370659 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
370580 GATAATTTAT
*
370590 TTATTTTAGTATTTTCTTTATTAGTTGACAGCTAC
1 TTATTCTAGTATTTTCTTTATTAGTTGACAGCTAC
370625 TTATTCTAGTATTTTCTTTATTAGTTGACAGCTAC
1 TTATTCTAGTATTTTCTTTATTAGTTGACAGCTAC
370660 ACGATGTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.53
Consensus pattern (35 bp):
TTATTCTAGTATTTTCTTTATTAGTTGACAGCTAC
Found at i:377975 original size:2 final size:2
Alignment explanation
Indices: 377968--377997 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
377958 GAGGGGGCGC
377968 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
377998 CGTTGATAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:379180 original size:2 final size:2
Alignment explanation
Indices: 379173--379205 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
379163 GATTTTATCA
379173 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
379206 ATGAATCCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:395166 original size:27 final size:28
Alignment explanation
Indices: 395097--395182 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 28
395087 CACTTTAAAC
* *
395097 ATGGCAT-CTAACAAT-CTTTTTTTCAAT
1 ATGGCATGC-AACAATAATTTTTTTGAAT
*
395124 ATGGTATGCAACAAT-ATTTTTTTGAAT
1 ATGGCATGCAACAATAATTTTTTTGAAT
* * * * *
395151 ATGGCGTGTAATAATAATATTTTTGAAC
1 ATGGCATGCAACAATAATTTTTTTGAAT
395179 ATGG
1 ATGG
395183 TATGTAATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 33 0.69
28 15 0.31
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (28 bp):
ATGGCATGCAACAATAATTTTTTTGAAT
Found at i:395188 original size:28 final size:27
Alignment explanation
Indices: 395115--395190 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 27
395105 TAACAATCTT
* * * *
395115 TTTTTCAATATGGTATGCAACAATATT
1 TTTTTGAATATGGTATGTAATAATATA
**
395142 TTTTTGAATATGGCGTGTAATAATAATA
1 TTTTTGAATATGGTATGTAATAAT-ATA
*
395170 TTTTTGAACATGGTATGTAAT
1 TTTTTGAATATGGTATGTAAT
395191 TTGGTTTCTG
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 19 0.49
28 20 0.51
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.45
Consensus pattern (27 bp):
TTTTTGAATATGGTATGTAATAATATA
Found at i:400847 original size:15 final size:15
Alignment explanation
Indices: 400807--400848 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
400797 ACGATGAAGG
*
400807 AAAAGATGAAGAGAC
1 AAAAGATGATGAGAC
*
400822 AAAAGAAGATGCAGA-
1 AAAAGATGATG-AGAC
400837 AAAAGATGATGA
1 AAAAGATGATGA
400849 TAATGAAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 1 0.04
15 19 0.83
16 3 0.13
ACGTcount: A:0.60, C:0.05, G:0.26, T:0.10
Consensus pattern (15 bp):
AAAAGATGATGAGAC
Found at i:407608 original size:36 final size:36
Alignment explanation
Indices: 407568--407661 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
407558 NNNNNNNNNG
*
407568 TTGATTAAAATTGTTTAATTAAGCCATTGGGCTTAA
1 TTGATTAAAATTGTTTAATTAAGCCATTGGACTTAA
* ****
407604 TTGATTAAAATTATTTAATTAAATTGTTGGACTTAA
1 TTGATTAAAATTGTTTAATTAAGCCATTGGACTTAA
*
407640 TTAATT-AAATTGTTTAATTAAG
1 TTGATTAAAATTGTTTAATTAAG
407662 TTATTACGTC
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 14 0.29
36 35 0.71
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (36 bp):
TTGATTAAAATTGTTTAATTAAGCCATTGGACTTAA
Found at i:414154 original size:35 final size:35
Alignment explanation
Indices: 414086--414241 Score: 151
Period size: 35 Copynumber: 4.5 Consensus size: 35
414076 CACTTGATTA
* *
414086 AAATTGTTTAATTAAATTA-T-G-CCTAATTAATT
1 AAATTATTTAATTAAGTTATTGGACCTAATTAATT
* *
414118 AAATTATTTAATTAAGTCATTGGACCTAATTGATT
1 AAATTATTTAATTAAGTTATTGGACCTAATTAATT
* * * *
414153 AAAATTGTTTAATTAAATTGTT-GAGCTTAATTAATT
1 -AAATTATTTAATTAAGTTATTGGA-CCTAATTAATT
* * *
414189 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTATTTAATTAAGTTATTGGACCTAATTAATT
*
414224 AAATTA-ATAATTAAGTTA
1 AAATTATTTAATTAAGTTA
414242 ATTGAGCTAC
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
32 16 0.16
33 1 0.01
34 12 0.12
35 45 0.45
36 27 0.27
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (35 bp):
AAATTATTTAATTAAGTTATTGGACCTAATTAATT
Found at i:414205 original size:71 final size:68
Alignment explanation
Indices: 414079--414226 Score: 224
Period size: 71 Copynumber: 2.1 Consensus size: 68
414069 TTTTAAGCAC
414079 TTGATTAAAATTGTTTAATTAAATTATGCCTAATTAATTAAATTATTTAATTAAGTCATTGGACC
1 TTGATTAAAATTGTTTAATTAAATTATGCCTAATTAATTAAATTATTTAATTAAGTCATTGGACC
414144 TAA
66 TAA
* * * *
414147 TTGATTAAAATTGTTTAATTAAATTGTTGAGCTTAATTAATTAAATTGTTTAATTAAGTTATTGG
1 TTGATTAAAATTGTTTAATTAAATT-AT--GCCTAATTAATTAAATTATTTAATTAAGTCATTGG
*
414212 GCCTAA
63 ACCTAA
414218 TTGATTAAA
1 TTGATTAAA
414227 TTAATAATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
68 25 0.35
69 1 0.01
71 46 0.64
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.45
Consensus pattern (68 bp):
TTGATTAAAATTGTTTAATTAAATTATGCCTAATTAATTAAATTATTTAATTAAGTCATTGGACC
TAA
Found at i:427039 original size:21 final size:21
Alignment explanation
Indices: 427009--427081 Score: 101
Period size: 21 Copynumber: 3.4 Consensus size: 21
426999 GGATATGTTC
*
427009 ATGCAATTCATAACAAAGACCG
1 ATGC-ATTCATAACAAAGACTG
427031 ATGCATTCATAACAAAGACTG
1 ATGCATTCATAACAAAGACTG
* *
427052 ATGCATTTATGACAAAGACTG
1 ATGCATTCATAACAAAGACTG
*
427073 ATGCGTTCA
1 ATGCATTCA
427082 GTCAAAATCA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 42 0.91
22 4 0.09
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (21 bp):
ATGCATTCATAACAAAGACTG
Found at i:439548 original size:28 final size:27
Alignment explanation
Indices: 439516--439606 Score: 92
Period size: 29 Copynumber: 3.3 Consensus size: 27
439506 AAAGTTAACA
*
439516 AAGACAAATATATTTTCTTATCTAAATT
1 AAGACAAACATATTTTCTTATCT-AATT
* *
439544 AAGACAAACATGTTTTTCTTGTCTTAATT
1 AAGACAAACAT-ATTTTCTTATC-TAATT
* * *
439573 AAAACAAACATGTTTTCTTCTCTAATT
1 AAGACAAACATATTTTCTTATCTAATT
*
439600 GAGACAA
1 AAGACAA
439607 GCATGTTAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 10 0.19
28 19 0.36
29 23 0.43
30 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (27 bp):
AAGACAAACATATTTTCTTATCTAATT
Found at i:439572 original size:29 final size:29
Alignment explanation
Indices: 439528--439613 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
439518 GACAAATATA
*
439528 TTTTCTTATCTAAATTAAGACAAACATGT
1 TTTTCTTATCTTAATTAAGACAAACATGT
* *
439557 TTTTCTTGTCTTAATTAAAACAAACATG-
1 TTTTCTTATCTTAATTAAGACAAACATGT
* * *
439585 TTTTCTTCTC-TAATTGAGACAAGCATGT
1 TTTTCTTATCTTAATTAAGACAAACATGT
439613 T
1 T
439614 AAGTTAGCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 14 0.29
28 10 0.20
29 25 0.51
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (29 bp):
TTTTCTTATCTTAATTAAGACAAACATGT
Found at i:447724 original size:43 final size:43
Alignment explanation
Indices: 447676--447762 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
447666 CCTATAATCA
* *
447676 ATCTAAGCTTTTAAGACAGATTATTTTCTCTAGAGTTTTAAAC
1 ATCTAAGCTTTTAAGACAGATTATTTTCTCTAGAGCTCTAAAC
* * * * *
447719 ATCTAAGGTTTTGAGACGGATTCTTTTGTCTAGAGCTCTAAAC
1 ATCTAAGCTTTTAAGACAGATTATTTTCTCTAGAGCTCTAAAC
447762 A
1 A
447763 ATAAAATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (43 bp):
ATCTAAGCTTTTAAGACAGATTATTTTCTCTAGAGCTCTAAAC
Found at i:451362 original size:13 final size:13
Alignment explanation
Indices: 451333--451372 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
451323 TTTATTTTTT
*
451333 AATTTCTAAATTAA
1 AATTT-TAAAATAA
*
451347 AATTTTAGAATAA
1 AATTTTAAAATAA
451360 AATTTTAAAATAA
1 AATTTTAAAATAA
451373 CATGATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (13 bp):
AATTTTAAAATAA
Found at i:468040 original size:3 final size:3
Alignment explanation
Indices: 468032--468057 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
468022 TGGAACCGCG
468032 GGA GGA GGA GGA GGA GGA GGA GGA GG
1 GGA GGA GGA GGA GGA GGA GGA GGA GG
468058 CGTAGGTGGT
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:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:469561 original size:20 final size:19
Alignment explanation
Indices: 469519--469563 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
469509 TAGGAGTGTA
* *
469519 ATTTGATTTGAATTTTTAT
1 ATTTGATTTGAATATTTAG
*
469538 ATTTGATTATGTATATTTAG
1 ATTTGATT-TGAATATTTAG
469558 ATTTGA
1 ATTTGA
469564 ATGTAGATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (19 bp):
ATTTGATTTGAATATTTAG
Found at i:470271 original size:16 final size:16
Alignment explanation
Indices: 470231--470272 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
470221 GTTTTGGAAT
* * *
470231 ATGATTTTCTCAATAT
1 ATGATTTTTTCAAGAC
470247 ATGATTTTTTCAAGAC
1 ATGATTTTTTCAAGAC
470263 ATGATTTTTT
1 ATGATTTTTT
470273 TTTTGTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (16 bp):
ATGATTTTTTCAAGAC
Found at i:470749 original size:27 final size:27
Alignment explanation
Indices: 470704--470775 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
470694 TAGCCACCAA
* ** **
470704 ATTAAAAGTAGATGGATATATTTATTC
1 ATTAGAAGTAGATAAATATATTTACCC
*
470731 ATTAGAAGTAGATAAATATGTTTACCC
1 ATTAGAAGTAGATAAATATATTTACCC
* *
470758 ACTAGAAGTGGATAAATA
1 ATTAGAAGTAGATAAATA
470776 CTTTTATCTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (27 bp):
ATTAGAAGTAGATAAATATATTTACCC
Found at i:470781 original size:27 final size:27
Alignment explanation
Indices: 470733--470856 Score: 83
Period size: 27 Copynumber: 4.6 Consensus size: 27
470723 ATTTATTCAT
*
470733 TAGAAGTAGATAAATA-TGTTTACCCAC
1 TAGAAGTGGATAAATACT-TTTACCCAC
* **
470760 TAGAAGTGGATAAATACTTTTA-TCTG
1 TAGAAGTGGATAAATACTTTTACCCAC
* * * * *
470786 TCAGTAGTGAATGAATACTTTTACTCAT
1 T-AGAAGTGGATAAATACTTTTACCCAC
*
470814 TAGAAGTGGATGAAA-ATTTTTACCCAC
1 TAGAAGTGGAT-AAATACTTTTACCCAC
* * *
470841 CAAAAGTGGATGAATA
1 TAGAAGTGGATAAATA
470857 GTGAAAAAAT
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
26 4 0.05
27 64 0.86
28 6 0.08
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (27 bp):
TAGAAGTGGATAAATACTTTTACCCAC
Found at i:476915 original size:22 final size:23
Alignment explanation
Indices: 476872--476919 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
476862 CTTTTTTCTC
476872 TTTAATTATTCTTTCAAGTTATT
1 TTTAATTATTCTTTCAAGTTATT
* *
476895 TTTACTTATT-TTTTAAGTTATT
1 TTTAATTATTCTTTCAAGTTATT
476917 TTT
1 TTT
476920 CATAACAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTAATTATTCTTTCAAGTTATT
Found at i:477070 original size:26 final size:26
Alignment explanation
Indices: 477041--477102 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
477031 ACTACAGCAT
*
477041 TTTGGAATTTTAGTTACATTTCTTTA
1 TTTGGAATTTTAGCTACATTTCTTTA
*
477067 TTTGGAATTTTAGCTGCATTTCTTTA
1 TTTGGAATTTTAGCTACATTTCTTTA
*
477093 TTTGCAATTT
1 TTTGGAATTT
477103 GATTAATGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (26 bp):
TTTGGAATTTTAGCTACATTTCTTTA
Found at i:480830 original size:23 final size:23
Alignment explanation
Indices: 480803--480849 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
480793 TTCTTACTTC
*
480803 TCTTTAATTATTCTTTCAAGTTA
1 TCTTTAATTACTCTTTCAAGTTA
* * *
480826 TCTTTATTTGCTCTTTTAAGTTA
1 TCTTTAATTACTCTTTCAAGTTA
480849 T
1 T
480850 TTTTCATAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (23 bp):
TCTTTAATTACTCTTTCAAGTTA
Found at i:482125 original size:13 final size:13
Alignment explanation
Indices: 482091--482128 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
482081 AATACTCATC
*
482091 CCTCTCTCCCTAT
1 CCTCTCTCCCTTT
*
482104 CC-ATCTCCCTTT
1 CCTCTCTCCCTTT
482116 CCTCTCTCCCTTT
1 CCTCTCTCCCTTT
482129 ATGCAAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.05, C:0.53, G:0.00, T:0.42
Consensus pattern (13 bp):
CCTCTCTCCCTTT
Found at i:489106 original size:47 final size:46
Alignment explanation
Indices: 489024--489161 Score: 195
Period size: 47 Copynumber: 2.9 Consensus size: 46
489014 AATAAATTGA
* *
489024 AATGTACAAATAATAAATCAAAGAAAAGATGTTTTCCTAAGTCAAAT
1 AATGAACAAATAATAAATCAAAGAAAA-ATATTTTCCTAAGTCAAAT
* *
489071 AATGAACAAATAACAAATCAAAGTAAAAATATTTTCCTATGTCAAAT
1 AATGAACAAATAATAAATCAAAG-AAAAATATTTTCCTAAGTCAAAT
* *
489118 AATGAACAAATAATAAATCAAAGCAAGAATATTTTGCTAAGTCA
1 AATGAACAAATAATAAATCAAAG-AAAAATATTTTCCTAAGTCA
489162 TGTGCTAACA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 77 0.95
48 4 0.05
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (46 bp):
AATGAACAAATAATAAATCAAAGAAAAATATTTTCCTAAGTCAAAT
Found at i:493427 original size:299 final size:299
Alignment explanation
Indices: 492889--493474 Score: 938
Period size: 299 Copynumber: 2.0 Consensus size: 299
492879 AATTTTTATA
* * * *
492889 AAGTTAAATGTCTTCATCATAACCAATTCCATATGCATAATCAGGAAACCAATTTTAACACAATT
1 AAGTTAAATGTCTTCATCATAACCAATTCCATATGCATAATCAAGAAACCAATTTAAAAAAAATT
* * * *
492954 AATGAAGCACAATCATAAAGCATATTCTAAGAATTGATTCTAGACCAAGCATTTTAACATTTCAA
66 AATGAAGCAAAATCATAAAGCATATTCTAAGAATTAATTATAAACCAAGCATTTTAACATTTCAA
* *
493019 TTGCTCAAGAAATGATCTAATTAATATGACCATATGAACATTTCATTCTCAAGACATGATATCAC
131 TTGCTCAAGAAATGATCTAATCAATATGACCATATGAACATTTCATTCCCAAGACATGATATCAC
**
493084 TTATACAAGCACATGAGTAATAATAGGATCAATAAATTCAAGCATTTACTCATGCATTCATTATC
196 CGATACAAGCACATGAGTAATAATAGGATCAATAAATTCAAGCATTTACTCATGCATTCATTATC
493149 ATCAAGACCAAGTAATAATAGCATTTTTATCATGTCATG
261 ATCAAGACCAAGTAATAATAGCATTTTTATCATGTCATG
* *
493188 AAGTTAAATGTGTTCATCATAACCAATTCCATATGCATAATTAAGAAACCAATTTAAAAAAAATT
1 AAGTTAAATGTCTTCATCATAACCAATTCCATATGCATAATCAAGAAACCAATTTAAAAAAAATT
* * *
493253 AATTAAGCAAAATCATAAAGCATATTCTAAGAATTAATTATAAACTAAGCATTTTAGCATTTCAA
66 AATGAAGCAAAATCATAAAGCATATTCTAAGAATTAATTATAAACCAAGCATTTTAACATTTCAA
* * *
493318 TTGCTCAAGAAATGATCTAATCAATATGACCATATGAACATTTCATTCCCTAGACATGATGTTAC
131 TTGCTCAAGAAATGATCTAATCAATATGACCATATGAACATTTCATTCCCAAGACATGATATCAC
* * * *
493383 CGATACAAGCACATGAGTAGTAATAGTATTAATAAATTCAAGCATTTACTCATGCATTCATTTTC
196 CGATACAAGCACATGAGTAATAATAGGATCAATAAATTCAAGCATTTACTCATGCATTCATTATC
* *
493448 ATCAAGACGAAGTCATAATAGCATTTT
261 ATCAAGACCAAGTAATAATAGCATTTT
493475 CAACATGTGA
Statistics
Matches: 261, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
299 261 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (299 bp):
AAGTTAAATGTCTTCATCATAACCAATTCCATATGCATAATCAAGAAACCAATTTAAAAAAAATT
AATGAAGCAAAATCATAAAGCATATTCTAAGAATTAATTATAAACCAAGCATTTTAACATTTCAA
TTGCTCAAGAAATGATCTAATCAATATGACCATATGAACATTTCATTCCCAAGACATGATATCAC
CGATACAAGCACATGAGTAATAATAGGATCAATAAATTCAAGCATTTACTCATGCATTCATTATC
ATCAAGACCAAGTAATAATAGCATTTTTATCATGTCATG
Found at i:496076 original size:47 final size:47
Alignment explanation
Indices: 495940--496077 Score: 190
Period size: 47 Copynumber: 2.9 Consensus size: 47
495930 AAATTGAAAT
* *
495940 GAACAAATAATAAATCAAAGTAACG-ATATTTTCCTAAGTCAAATAAT
1 GAACAAATAATAAATCAAAGTAA-GAATATTTTCCTAAGTCAAGTAAG
* *
495987 GAACAAATAATAAATCTAAGTAAAAATATTTTCCTAAGTCAAGTAAG
1 GAACAAATAATAAATCAAAGTAAGAATATTTTCCTAAGTCAAGTAAG
* *
496034 GAACAAATAATAAATCAAAG-AATGAATATTTTTCTAACTCAAGT
1 GAACAAATAATAAATCAAAGTAA-GAATATTTTCCTAAGTCAAGT
496078 GCAAACAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
46 2 0.02
47 79 0.98
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (47 bp):
GAACAAATAATAAATCAAAGTAAGAATATTTTCCTAAGTCAAGTAAG
Found at i:496109 original size:94 final size:94
Alignment explanation
Indices: 495940--496118 Score: 213
Period size: 94 Copynumber: 1.9 Consensus size: 94
495930 AAATTGAAAT
* **
495940 GAACAAATAATAAATCAAAGTAACGATATTTTCCTAAGTCAAATAATGAACAAATAATAAATCTA
1 GAACAAATAATAAATCAAAGTAACGATATTTTCCTAACTCAAATAAACAACAAATAATAAATCTA
496005 AGTAAAAATATTTTCCTAAGTCAAGTAAG
66 AGTAAAAATATTTTCCTAAGTCAAGTAAG
* * * *
496034 GAACAAATAATAAATCAAAG-AATGAATATTTTTCTAACTCAAGTGCAAACAA-AAATAATGAAT
1 GAACAAATAATAAATCAAAGTAACG-ATATTTTCCTAACTCAAAT--AAACAACAAATAATAAAT
* *
496097 C-AAG-ATATAATATTTTCTTAAG
63 CTAAGTA-AAAATATTTTCCTAAG
496119 CAAAAATTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
93 4 0.06
94 53 0.74
95 11 0.15
96 4 0.06
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.28
Consensus pattern (94 bp):
GAACAAATAATAAATCAAAGTAACGATATTTTCCTAACTCAAATAAACAACAAATAATAAATCTA
AGTAAAAATATTTTCCTAAGTCAAGTAAG
Found at i:496350 original size:32 final size:32
Alignment explanation
Indices: 496279--496366 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 32
496269 GAGCTTCTTC
496279 CAAGATCAAGCAAAACCCTCACAATACTTTTA
1 CAAGATCAAGCAAAACCCTCACAATACTTTTA
*** * *
496311 TGGGATCAAGCAAAACCCTCACATTGCTTTTA
1 CAAGATCAAGCAAAACCCTCACAATACTTTTA
* * *
496343 CAAGATCAATCGAAACCCTTACAA
1 CAAGATCAAGCAAAACCCTCACAA
496367 GTTTTCTCAT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (32 bp):
CAAGATCAAGCAAAACCCTCACAATACTTTTA
Found at i:517916 original size:2 final size:2
Alignment explanation
Indices: 517909--517934 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
517899 ATATCTTATG
517909 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
517935 GAGTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:519710 original size:22 final size:20
Alignment explanation
Indices: 519685--519736 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 20
519675 TTGCAACAAA
519685 ATGTTTGTACTGACAGATAATT
1 ATGTTTGTAC--ACAGATAATT
*
519707 ATGTCTATGCACACAGATAATT
1 ATGT-T-TGTACACAGATAATT
519729 ATGTTTGT
1 ATGTTTGT
519737 TAAAAATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 1 0.04
22 18 0.69
23 1 0.04
24 4 0.15
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (20 bp):
ATGTTTGTACACAGATAATT
Found at i:522043 original size:2 final size:2
Alignment explanation
Indices: 522038--522066 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
522028 AATGAAAGAC
522038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
522067 CATGTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:534027 original size:6 final size:6
Alignment explanation
Indices: 534016--534071 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
534006 TAAAGCAAGA
*
534016 TTTTTC TTTTTC TCTTTAAC TTTTTTC TTTTT- TTTTTC TTTTT- TTTTTC
1 TTTTTC TTTTTC T-TTT-TC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
534065 TTCTTTC
1 TT-TTTC
534072 ATTTCAAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
5 10 0.24
6 19 0.45
7 8 0.19
8 4 0.10
9 1 0.02
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:534058 original size:12 final size:11
Alignment explanation
Indices: 534036--534066 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
534026 TCTCTTTAAC
534036 TTTTTTCTTTT
1 TTTTTTCTTTT
534047 TTTTTTCTTTT
1 TTTTTTCTTTT
534058 TTTTTTCTT
1 TTTTTTCTT
534067 CTTTCATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:537893 original size:2 final size:2
Alignment explanation
Indices: 537888--537941 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
537878 CAGGTGTGTG
* * *
537888 TA TA TA TG TA TA TA TA TA TA TA GA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
537930 TA TA GA TA TA TA
1 TA TA TA TA TA TA
537942 GATGTATTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (2 bp):
TA
Found at i:537919 original size:24 final size:24
Alignment explanation
Indices: 537888--537941 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
537878 CAGGTGTGTG
537888 TATATATGTATATATATATATAGA
1 TATATATGTATATATATATATAGA
537912 TATATATGTATATATATATATAGA
1 TATATATGTATATATATATATAGA
537936 TATATA
1 TATATA
537942 GATGTATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (24 bp):
TATATATGTATATATATATATAGA
Found at i:538386 original size:2 final size:2
Alignment explanation
Indices: 538374--538404 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
538364 TCAAAGGTTG
*
538374 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
538405 CACATGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:539745 original size:17 final size:17
Alignment explanation
Indices: 539723--539756 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
539713 AAAATTCAAT
539723 GATTTAACAACTTATAA
1 GATTTAACAACTTATAA
* *
539740 GATTTAATAGCTTATAA
1 GATTTAACAACTTATAA
539757 TATAGAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (17 bp):
GATTTAACAACTTATAA
Found at i:552469 original size:35 final size:35
Alignment explanation
Indices: 552441--552612 Score: 173
Period size: 36 Copynumber: 4.9 Consensus size: 35
552431 CTTAATTGCT
552441 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
* ** * *
552476 TAATTTAATAAATTAAACCCAACAATTTAATTAAA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
** * *
552511 TAATTTTAATCAATTAGGCTGAATGATTTAATTAAA
1 TAA-TTTAATCAATTAGGCCCAATAACTTAATTAAA
* * * * *
552547 CAACTTTAATCAACTAAGCACAATGACTTAATTAAA
1 TAA-TTTAATCAATTAGGCCCAATAACTTAATTAAA
* * *
552583 TAATTTAATTAATTAGGTCCAATGACTTAA
1 TAATTTAATCAATTAGGCCCAATAACTTAA
552613 ACAATTTAAT
Statistics
Matches: 111, Mismatches: 25, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
35 55 0.50
36 56 0.50
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (35 bp):
TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
Found at i:552542 original size:71 final size:71
Alignment explanation
Indices: 552441--552612 Score: 193
Period size: 71 Copynumber: 2.4 Consensus size: 71
552431 CTTAATTGCT
* * * *
552441 TAATTTAATCAATTAGGCCCAATAACTTAATTAAATAA-TTTAATAAATTAAACCCAACAATTTA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAACAACTTTAATAAACTAAACACAACAACTTA
552505 ATTAAA
66 ATTAAA
** * * * * **
552511 TAATTTTAATCAATTAGGCTGAATGATTTAATTAAACAACTTTAATCAACTAAGCACAATGACTT
1 TAA-TTTAATCAATTAGGCCCAATAACTTAATTAAACAACTTTAATAAACTAAACACAACAACTT
552576 AATTAAA
65 AATTAAA
* * *
552583 TAATTTAATTAATTAGGTCCAATGACTTAA
1 TAATTTAATCAATTAGGCCCAATAACTTAA
552613 ACAATTTAAT
Statistics
Matches: 83, Mismatches: 17, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
70 3 0.04
71 52 0.63
72 28 0.34
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (71 bp):
TAATTTAATCAATTAGGCCCAATAACTTAATTAAACAACTTTAATAAACTAAACACAACAACTTA
ATTAAA
Found at i:554880 original size:34 final size:35
Alignment explanation
Indices: 554814--554881 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
554804 AGTTTTACTT
*
554814 ATTTTTATGAAATTTTAATTACTTAAATAAGATTA
1 ATTTTTATGAAATTTTAAGTACTTAAATAAGATTA
554849 ATTTGTTAT-AAATTTT-AGTACTT-AATAAAGATT
1 ATTT-TTATGAAATTTTAAGTACTTAAAT-AAGATT
554882 TAGAAACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 3 0.10
34 12 0.40
35 11 0.37
36 4 0.13
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (35 bp):
ATTTTTATGAAATTTTAAGTACTTAAATAAGATTA
Found at i:567258 original size:80 final size:80
Alignment explanation
Indices: 567151--567342 Score: 267
Period size: 80 Copynumber: 2.4 Consensus size: 80
567141 TGGATGTGAA
* * * * *** * *
567151 ATTCTCAACACATACATTTTATAGCATACATTTCACAATCTTTTAAATCATTTCCATGCTTAGCC
1 ATTCTCAACACATACATCTCATGGCATACATGTCACAATCTCACAAATCATTTACATGCTGAGCC
*
567216 CATAGTGTGCATGAT
66 CATAGTGTACATGAT
*
567231 ATTCTCAACACATACATCTCATGGCATACATGTCATAATCTCACAAATCATTTACATGCTGAGCC
1 ATTCTCAACACATACATCTCATGGCATACATGTCACAATCTCACAAATCATTTACATGCTGAGCC
567296 CATAGTGTACATGAT
66 CATAGTGTACATGAT
* *
567311 ATTCTTAACACATACATCTCATGACATACATG
1 ATTCTCAACACATACATCTCATGGCATACATG
567343 CCATACTCTC
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 99 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (80 bp):
ATTCTCAACACATACATCTCATGGCATACATGTCACAATCTCACAAATCATTTACATGCTGAGCC
CATAGTGTACATGAT
Found at i:568923 original size:19 final size:19
Alignment explanation
Indices: 568899--568940 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
568889 GTGGAGGGTA
568899 GTAATTAGGGTGCGTAATG
1 GTAATTAGGGTGCGTAATG
* * *
568918 GTAATTAGGTTGTGTAGTG
1 GTAATTAGGGTGCGTAATG
568937 GTAA
1 GTAA
568941 CACTCATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.36, T:0.36
Consensus pattern (19 bp):
GTAATTAGGGTGCGTAATG
Found at i:573512 original size:24 final size:24
Alignment explanation
Indices: 573485--573534 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
573475 TCTTTTGCAA
*
573485 CTCCTTTGGTGGAATTTTCATTGT
1 CTCCTTTGGTGGAATTGTCATTGT
573509 CTCCTTTGGTGGAATTGTCATTGT
1 CTCCTTTGGTGGAATTGTCATTGT
573533 CT
1 CT
573535 TCTTGAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (24 bp):
CTCCTTTGGTGGAATTGTCATTGT
Done.