Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008646.1 Hibiscus syriacus cultivar Beakdansim tig00111633_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1024377
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 2 of 5
Found at i:313524 original size:23 final size:23
Alignment explanation
Indices: 313477--313526 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
313467 AATAACATAT
* **
313477 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGATTATATAATAAAA
313500 TAGGTAGCGATTATATAATAAAA
1 TAGGTAGCGATTATATAATAAAA
313523 TAGG
1 TAGG
313527 CATTTAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGATTATATAATAAAA
Found at i:313586 original size:87 final size:87
Alignment explanation
Indices: 313440--313602 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
313430 TATGTTATAT
*
313440 CATTTAACCGGAAATATTATAAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATAAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
313505 AGCGATTATATAATAAAATAGG
66 AGCGATTATATAATAAAATAGG
* * *
313527 CATTTAACCGGAAATATTATCAAA-TACAATAACAAATTAGGTAGTGTTTATATAATGTAATAGG
1 CATTTAACCGGAAATATTAT-AAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGG
*
313591 TAGCGTTTATAT
65 TAGCGATTATAT
313603 TGACATATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
87 67 0.96
88 3 0.04
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATAAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGATTATATAATAAAATAGG
Found at i:313986 original size:197 final size:198
Alignment explanation
Indices: 313625--314072 Score: 516
Period size: 197 Copynumber: 2.3 Consensus size: 198
313615 TCATAAAACT
* * * * * *
313625 GATAAATTTAAACTGGTTACATTATAAATTGACCTATTACATTATAAATATCGGTTTCGATGTTT
1 GATATATTTTAACCGGTTACATTATAAATTTACCTATTACATTATAATTATCGATTTCGATGTTT
* * * * * * * *
313690 TCGGGATCGATACAATTTTAAATGTATCGATACTTTATGCTTGCAACTCGTTTGTGCTTTATTTT
66 TCGGGATCAATACAATTTTAAAAGTATCGACACTTTAAGCGTACAACTCGTTTGTCCTTCATTTT
* * * *
313755 GGAAAAAAGTATCGACACATATTTAAAGAGTGTCGATACATAATGTAGACCTATT-TACTAATTA
131 GGAAAAAAGTATCGACACATAATTAAAAAGTGTCGATACATAATGTAGACATATTCT-CTAATGA
313819 A-CC
195 ACCC
* * *
313822 GGTATATTTTAACCGGTTACATTATAAATTTACCTGTTACATAATAATTATCGATTTCGATG-TT
1 GATATATTTTAACCGGTTACATTATAAATTTACCTATTACATTATAATTATCGATTTCGATGTTT
* *
313886 TCGAGGATCAATAC-TTTTTACAAAAGTATCGACACTTTAAGCGTACACCTCGTTTG-CCATTCA
66 TCG-GGATCAATACAATTTT--AAAAGTATCGACACTTTAAGCGTACAACTCGTTTGTCC-TTCA
* * * *
313949 TTTT-GAAAAAATGTATCGACACA-AATTAAAAAGTGTCGATACTTTATGTTGACATATTCTCTC
127 TTTTGGAAAAAA-GTATCGACACATAATTAAAAAGTGTCGATACATAATGTAGACATATTCTCTA
314012 ATGAACCC
191 ATGAACCC
**
314020 GATATATTTCT-ACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCG
1 GATATATTT-TAACCGGTTACATTATAAATTTACCTATTACATTATAATTATCG
314073 GTCTCTTTGA
Statistics
Matches: 211, Mismatches: 32, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
196 9 0.04
197 105 0.50
198 96 0.45
199 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (198 bp):
GATATATTTTAACCGGTTACATTATAAATTTACCTATTACATTATAATTATCGATTTCGATGTTT
TCGGGATCAATACAATTTTAAAAGTATCGACACTTTAAGCGTACAACTCGTTTGTCCTTCATTTT
GGAAAAAAGTATCGACACATAATTAAAAAGTGTCGATACATAATGTAGACATATTCTCTAATGAA
CCC
Found at i:314115 original size:198 final size:194
Alignment explanation
Indices: 313596--314118 Score: 541
Period size: 198 Copynumber: 2.6 Consensus size: 194
313586 ATAGGTAGCG
* * * * * *
313596 TTTATATTGACATATTTTCTCATAAAACTGATAAATTTAAACTGGTTACATTATAAATTGACCTA
1 TTTATGTTGACATA-TTTCTCAT-AAACCGATATATTT-TACCGGTTACATTATAAATTTACCTA
* * *
313661 TTACATTATAAATATCGGTTTCGATGTTTTCGGGATCGATACAATTT-TAAATGTATCGATACTT
63 TTACATTATAATTATCGGTTTCGATGTTTT-GGGATCGATAC-TTTTATAAATGTATCGACACTT
* * * * * * *
313725 TATGCTTGCAACTCGTTTGTGCTTTATTTTGGAAAAAAGTATCGACACATATTTAAAGAGTGTCG
126 TAAGCGTACAACTCGTTTGTCCTTCATTTTGGAAAAAAGTATCGACACATAATTAAAAAGTGTCG
313790 ATAC
191 ATAC
* * * * * * * *
313794 ATAATGTAGACCTATTTACTAATTAACCGGTATATTTTAACCGGTTACATTATAAATTTACCTGT
1 TTTATGTTGACATATTT-CTCATAAACCGATATATTTT-ACCGGTTACATTATAAATTTACCTAT
* * * * * *
313859 TACATAATAATTATCGATTTCGATGTTTCGAGGATCAATACTTTTTACAAAAGTATCGACACTTT
64 TACATTATAATTATCGGTTTCGATGTTTTG-GGATCGATAC-TTTTATAAATGTATCGACACTTT
*
313924 AAGCGTACACCTCGTTTG-CCATTCATTTT-GAAAAAATGTATCGACACA-AATTAAAAAGTGTC
127 AAGCGTACAACTCGTTTGTCC-TTCATTTTGGAAAAAA-GTATCGACACATAATTAAAAAGTGTC
313986 GATAC
190 GATAC
* **
313991 TTTATGTTGACATATTCTCTCATGAACCCGATATATTTCTACCGGTTACATTGGAAATTTACCTA
1 TTTATGTTGACATATT-TCTCAT-AAACCGATATATTT-TACCGGTTACATTATAAATTTACCTA
* **
314056 TTACATTATAATTATCGGTCTCTTTGATTTTGGGATCGATACTTGTTATAAATGTATCGACAC
63 TTACATTATAATTATCGGTTTCGATG-TTTTGGGATCGATACTT-TTATAAATGTATCGACAC
314119 AAAATCTAAC
Statistics
Matches: 262, Mismatches: 52, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
196 1 0.00
197 116 0.44
198 140 0.53
199 5 0.02
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (194 bp):
TTTATGTTGACATATTTCTCATAAACCGATATATTTTACCGGTTACATTATAAATTTACCTATTA
CATTATAATTATCGGTTTCGATGTTTTGGGATCGATACTTTTATAAATGTATCGACACTTTAAGC
GTACAACTCGTTTGTCCTTCATTTTGGAAAAAAGTATCGACACATAATTAAAAAGTGTCGATAC
Found at i:317790 original size:198 final size:198
Alignment explanation
Indices: 317251--318083 Score: 1212
Period size: 198 Copynumber: 4.2 Consensus size: 198
317241 GCAATTTTAA
* * * * * * * *
317251 AAAGTATCGACACTAATTTA-AATAGTGTCGATACATTATGTAGACATATTTTCTCATAA-AATC
1 AAAGTGTCGACACAAATGTATAA-AGTATCGATACATTATGTATACCT-TTTT-T-TTAATAACC
* * * * * *
317314 GGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTATGGGTTTCGATGTTT
62 GGTATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTT
* *
317379 TTAGGATCGACACTT-TTTCTAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATT
127 TTGGGATCGACACTTGTTAC-AAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATT
317443 ATGGACAT
191 ATGGACAT
317451 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACC-TTTTTTTAATAACCGGTA
1 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGGTA
* *
317515 TATTTAGACTGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTCGG
66 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
* *
317580 GATCGACACTTGTTACAAATTTATCAACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
131 GATCGACACTTGTTACAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
317645 CAT
196 CAT
*
317648 AAAGTGTCGACAAAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGGTA
1 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGGTA
317713 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
66 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
*
317778 GATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
131 GATCGACACTTGTTACAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
317843 CAT
196 CAT
*
317846 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTCTTTTTTAATAACTG
1 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACC--TT-TTTTTTAATAACCG
* *
317911 GTATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTT
63 GTATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTT
* **
317976 TGGGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGT-ACACTTGGTTTGG-AAATACAT
128 TGGGATCGACACTTGTTACAAATGTATCGACAC-TTTTTCGTGA-ACTT-GTTTGGAAAATTTAT
*
318039 TCTGGACA-
190 TATGGACAT
* * * *
318047 ACATGTATCGACACAAATGAATAAAGTGTCGATACAT
1 A-AAGTGTCGACACAAATGTATAAAGTATCGATACAT
318084 ATTGTACGCA
Statistics
Matches: 585, Mismatches: 37, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
196 3 0.01
197 170 0.29
198 198 0.34
200 39 0.07
201 113 0.19
202 56 0.10
203 6 0.01
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (198 bp):
AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGGTA
TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
GATCGACACTTGTTACAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
CAT
Found at i:319132 original size:182 final size:183
Alignment explanation
Indices: 318470--319120 Score: 814
Period size: 182 Copynumber: 3.6 Consensus size: 183
318460 ATTAAAGTAC
* * * * * * **
318470 CGACACTTTCAACATAACCAGTAGCGCTTTATCGGTTTTGTCATTTTGATACCAATTTTGTCATA
1 CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
* *
318535 TTTTTACCTATTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTT-TAGGCGCT
66 TTTTTACCTGTTATATTGCTATGGATCGATACATTTTCATAAAGTATCGACACTTTATAGGCGCT
* * *
318599 ATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAAT-TTAT
131 ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATCTAAT
* ** ** **
318651 TGACACTTTCAATATATCTGGTAGCTTTTTACCGGTTTTATCATTTCGAGACATGTTTTGTCATA
1 CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
* * *
318716 TTCTTACCTGTTATATTGCTATGGATCGATACATTTGT-ATAAAGTATCGACACTTTATAGACGT
66 TTTTTACCTGTTATATTGCTATGGATCGATACATTT-TCATAAAGTATCGACACTTTATAGGCGC
*
318780 TATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAA-CGTAA-
130 TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATC-TAAT
* * * * *
318833 CAACACTTTCAATATATCCGGTAGCTCTTTATCGGTTTTATCATTTCGTGACCGGTTTTGTCATA
1 CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
* ** * *
318898 CTTATT-CCTGTTATATTTTTATGGATCGATACGTTTTTATAAAGTATCGACACTTTATAGGCGC
66 -TTTTTACCTGTTATATTGCTATGGATCGATACATTTTCATAAAGTATCGACACTTTATAGGCGC
* *
318962 TATTACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTAT-TTAAATCTAAT
130 TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATT-AATCTAAT
* * * * * *
319016 CGATACTTTCGATATATCCAGTAGCGGTTTACCGGTTTTATCATAAT-GAAACCGGTTTTATCAT
1 CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCAT-TTCGAGACCGGTTTTGTCAT
*
319080 ATTTTTACCTGTTATATTGCTATGGAGCGATACATTTTCAT
65 ATTTTTACCTGTTATATTGCTATGGATCGATACATTTTCAT
319121 TCGTATCGAC
Statistics
Matches: 402, Mismatches: 57, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
181 105 0.26
182 208 0.52
183 88 0.22
184 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (183 bp):
CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
TTTTTACCTGTTATATTGCTATGGATCGATACATTTTCATAAAGTATCGACACTTTATAGGCGCT
ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATCTAAT
Found at i:321327 original size:21 final size:21
Alignment explanation
Indices: 321298--321339 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
321288 GGAATTATTA
*
321298 TAATATTTTAAAATTAATAAT
1 TAATATTTTAAAATAAATAAT
* *
321319 TAATTTTTTATAATAAATAAT
1 TAATATTTTAAAATAAATAAT
321340 ATTAATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATATTTTAAAATAAATAAT
Found at i:324751 original size:138 final size:138
Alignment explanation
Indices: 324508--325140 Score: 994
Period size: 138 Copynumber: 4.6 Consensus size: 138
324498 ACGTGAAGGG
* * *
324508 GCGTTCTCGGGGGTGCGTCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
1 GCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
* * *
324573 ACTCATGTCCCCCGGTGAACTATTCATGTCAGTACCTATTATTTCTGAGGGAAGTTGGCAAAGTG
66 ACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTG
*
324638 GTGAAAGT
131 GTGAAAGC
*
324646 GCGTTCCCGGGGACGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
1 GCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
* * *
324711 ACTCATGTCCCCTGGGGAACTATTTATGTCAGTACGTATTATTTCTGAGGGGACTTGGCAAAGTG
66 ACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTG
324776 GTGAAAGC
131 GTGAAAGC
* *
324784 GCATTCCCGGGGGCGCGCCTTCGATTATTTTGT-------TATGTTTTCATTGCCCTATTATGTC
1 GCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
*
324842 ACTCATGTCCCCTGGGGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTG
66 ACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTG
*
324907 GTGAATGC
131 GTGAAAGC
* * * * * *
324915 GCGTTCCAAGGGGG-GCACCTTCGATTATTTTGTTAGAGAGTATGTTATCATTTCCCTATTATAT
1 GCGTTCC-CGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
324979 CACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGT
65 CACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGT
325044 GGTGAAAGC
130 GGTGAAAGC
* *
325053 GCGTTCCCGGGGGGGCGCCTTCGATTATTTTGTTAGAGAATATGTTATCATTGCCCTATTATGTC
1 GCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
325118 ACTCATGTCCCCCGGGGAACTAT
66 ACTCATGTCCCCCGGGGAACTAT
325141 AGATGGATGG
Statistics
Matches: 456, Mismatches: 30, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
131 118 0.26
132 5 0.01
137 5 0.01
138 328 0.72
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (138 bp):
GCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
ACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTG
GTGAAAGC
Found at i:325034 original size:269 final size:271
Alignment explanation
Indices: 324547--325140 Score: 942
Period size: 269 Copynumber: 2.2 Consensus size: 271
324537 TTGTCAGAGA
*
324547 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCCGGTGAACTATTCATGTCAGTACCTAT
1 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTAT
* * * *
324612 TATTTCTGAGGGAAGTTGGCAAAGTGGTGAAAGTGCGTTCCCGGGGACGCGCCTTCGATTATTTT
66 TATTTCTGAGGGAACTTGGCAAAGTGGTGAAAGCGCGTTCCAGGGGACGCACCTTCGATTATTTT
* * *
324677 GTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCTGGGGAACTATTTATGTCA
131 GTCAGAGAATATGTTATCATTGCCCTATTATATCACTCATGTCCCCCGGGGAACTATTCATGTCA
*
324742 GTACGTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGCGCATTCCCGGGGGCGCGCCTTCG
196 GTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGCGCATTCCCGGGGGCGCGCCTTCG
324807 ATTATTTTG-T
261 ATTATTTTGTT
* *
324817 -TATGTTTTCATTGCCCTATTATGTCACTCATGTCCCCTGGGGAACTATTCATGTCAGTACCTAT
1 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTAT
* * *
324881 TATTTCTGAGGGGACTTGGCAAAGTGGTGAATGCGCGTTCCAAGGGG-GGCACCTTCGATTATTT
66 TATTTCTGAGGGAACTTGGCAAAGTGGTGAAAGCGCGTTCC-AGGGGACGCACCTTCGATTATTT
* * *
324945 TGTTAGAGAGTATGTTATCATTTCCCTATTATATCACTCATGTCCCCCGGGGAACTATTCATGTC
130 TGTCAGAGAATATGTTATCATTGCCCTATTATATCACTCATGTCCCCCGGGGAACTATTCATGTC
* *
325010 AGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGCGCGTTCCCGGGGGGGCGCCTTC
195 AGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGCGCATTCCCGGGGGCGCGCCTTC
325075 GATTATTTTGTT
260 GATTATTTTGTT
325087 AGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCCGGGGAACTAT
1 -----ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCCGGGGAACTAT
325141 AGATGGATGG
Statistics
Matches: 295, Mismatches: 21, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
269 244 0.83
270 5 0.02
276 46 0.16
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (271 bp):
ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTAT
TATTTCTGAGGGAACTTGGCAAAGTGGTGAAAGCGCGTTCCAGGGGACGCACCTTCGATTATTTT
GTCAGAGAATATGTTATCATTGCCCTATTATATCACTCATGTCCCCCGGGGAACTATTCATGTCA
GTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGCGCATTCCCGGGGGCGCGCCTTCG
ATTATTTTGTT
Found at i:325300 original size:23 final size:23
Alignment explanation
Indices: 325274--325376 Score: 94
Period size: 23 Copynumber: 4.7 Consensus size: 23
325264 ATGTGAAGTT
325274 TGAATAAATTGGATAAAATGTTA
1 TGAATAAATTGGATAAAATGTTA
*
325297 TGAATAAATTGAAT-AAATGTTA
1 TGAATAAATTGGATAAAATGTTA
* *
325319 AGTAATCAATTGG-T----TGTT-
1 TG-AATAAATTGGATAAAATGTTA
*
325337 TGAATATATTGGATAAAATGTTA
1 TGAATAAATTGGATAAAATGTTA
* *
325360 TGGATAAATTGAATAAA
1 TGAATAAATTGGATAAA
325377 TGTGAAGTGA
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
17 8 0.13
18 2 0.03
19 4 0.06
22 14 0.22
23 35 0.56
ACGTcount: A:0.45, C:0.01, G:0.17, T:0.37
Consensus pattern (23 bp):
TGAATAAATTGGATAAAATGTTA
Found at i:326166 original size:21 final size:20
Alignment explanation
Indices: 326137--326206 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
326127 GTCATAAAAT
*
326137 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
326157 CCTAGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
326178 CCCTGAGGGCTAGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
326199 CCCTGCGG
1 -CCTGCGG
326207 AGATGGCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
20 3 0.07
21 39 0.87
22 3 0.07
ACGTcount: A:0.23, C:0.24, G:0.34, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:326230 original size:42 final size:42
Alignment explanation
Indices: 326182--326272 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 42
326172 ATGTAACCCT
* *
326182 GAGGGCTAGGAATGTAACCCTGCGGAGATGGCATATAAACTG
1 GAGGGCTAGGAATATAACCCTGAGGAGATGGCATATAAACTG
* * * * * * *
326224 GTGGGCTTGGCATATACCCCTGAGGAGATGTCATCTGAACTG
1 GAGGGCTAGGAATATAACCCTGAGGAGATGGCATATAAACTG
326266 GAGGGCT
1 GAGGGCT
326273 GGGCATCATC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (42 bp):
GAGGGCTAGGAATATAACCCTGAGGAGATGGCATATAAACTG
Found at i:326278 original size:42 final size:42
Alignment explanation
Indices: 326199--326278 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
326189 AGGAATGTAA
* * *
326199 CCCTGCGGAGATGGCATATAAACTGGTGGGCTTGGCATATAC
1 CCCTGAGGAGATGGCATATAAACTGGAGGGCTGGGCATATAC
* * *
326241 CCCTGAGGAGATGTCATCTGAACTGGAGGGCTGGGCAT
1 CCCTGAGGAGATGGCATATAAACTGGAGGGCTGGGCAT
326279 CATCATCGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.23
Consensus pattern (42 bp):
CCCTGAGGAGATGGCATATAAACTGGAGGGCTGGGCATATAC
Found at i:327873 original size:25 final size:24
Alignment explanation
Indices: 327828--327885 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
327818 TAAATTCATT
*
327828 ATAAAT-TTAAATTAAAAATAATA
1 ATAAATATTAAATTAAAAATAAAA
**
327851 ATAAATATTAACATTAATTATAAAA
1 ATAAATATTAA-ATTAAAAATAAAA
*
327876 AAAAATATTA
1 ATAAATATTA
327886 TCATATCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 6 0.21
24 4 0.14
25 19 0.66
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
ATAAATATTAAATTAAAAATAAAA
Found at i:328063 original size:30 final size:30
Alignment explanation
Indices: 327982--328077 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 30
327972 TAATTAGTAC
* *
327982 AAAAAATAATTAATTA-ATAA--ATTTAAAT
1 AAAAAATAA-TATTTATATAATTATTTTAAT
* * *
328010 AAATAATAAT-TATATAAATATTATTTTAAT
1 AAAAAATAATATTTATATA-ATTATTTTAAT
* *
328040 AAAAAATAATATTTATATAATTATATTACT
1 AAAAAATAATATTTATATAATTATTTTAAT
*
328070 ATAAAATA
1 AAAAAATA
328078 TAAAAACTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 9 0.17
30 32 0.62
31 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAAAATAATATTTATATAATTATTTTAAT
Found at i:330473 original size:30 final size:27
Alignment explanation
Indices: 330421--330480 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 27
330411 GTGAAGCCAA
330421 AAATAAAAATAAAATATTTTAAAAAAT
1 AAATAAAAATAAAATATTTTAAAAAAT
*
330448 AAATAAAATATATAATATTTTTTAAAAAAT
1 AAATAAAA-ATA-AA-ATATTTTAAAAAAT
330478 AAA
1 AAA
330481 AAATACTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 8 0.28
28 3 0.10
29 2 0.07
30 16 0.55
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATAAAAATAAAATATTTTAAAAAAT
Found at i:330483 original size:28 final size:26
Alignment explanation
Indices: 330419--330485 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 26
330409 TAGTGAAGCC
330419 AAAAAT-AAAAATAAAATATTTTAAAA
1 AAAAATAAAAAATAAAATATTTT-AAA
* * **
330445 AATAAATAAAATATATAATATTTTTTA
1 AA-AAATAAAAAATAAAATATTTTAAA
330472 AAAAATAAAAAATA
1 AAAAATAAAAAATA
330486 CTATCAGCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 13 0.38
27 7 0.21
28 14 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAAATAAAAAATAAAATATTTTAAA
Found at i:330896 original size:76 final size:77
Alignment explanation
Indices: 330747--330946 Score: 271
Period size: 76 Copynumber: 2.6 Consensus size: 77
330737 AATTACAGAT
* **
330747 TGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGA-TCCCCCCTAAATGGTTTTGGCCCC
1 TGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCC
*
330811 GAGATTTCCAAAA
65 GAGAATTCCAAAA
*
330824 TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTT-GCTCCG
1 TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCCG
**
330888 AGAATTCCAGTA
66 AGAATTCCAAAA
* * * *
330900 TGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCTCCCCT
1 TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
330947 TGTACAACGG
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
75 18 0.16
76 59 0.53
77 34 0.31
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (77 bp):
TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCCG
AGAATTCCAAAA
Found at i:339025 original size:30 final size:30
Alignment explanation
Indices: 338991--339062 Score: 126
Period size: 30 Copynumber: 2.3 Consensus size: 30
338981 GGAGAAGAAT
338991 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAATAAATTGA
339021 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAATAAATTGA
339051 AGAAGTGTTAAA
1 AG--GTGTTAAA
339063 GTAAGGGGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 32 0.80
32 8 0.20
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.38
Consensus pattern (30 bp):
AGGTGTTAAATGTTTTACATAATAAATTGA
Found at i:339531 original size:76 final size:77
Alignment explanation
Indices: 339370--339581 Score: 277
Period size: 76 Copynumber: 2.8 Consensus size: 77
339360 TTCAAAGCCA
* * * *
339370 AAAATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGA-TCCCCCCTAAAT
1 AAAATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAAC
*
339434 GGTTTTGGCCCCG
65 AGTTTTGGCCCCG
* *
339447 AGATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACA
1 AAAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACA
*
339512 GTTTT-GCTCCG
66 GTTTTGGCCCCG
* * * * *
339523 AAAATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCTCCCCT
1 AAAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
339582 TGTACAACGG
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
75 18 0.15
76 59 0.50
77 42 0.35
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (77 bp):
AAAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACA
GTTTTGGCCCCG
Found at i:340985 original size:13 final size:13
Alignment explanation
Indices: 340964--340996 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
340954 TGTCATGGAA
*
340964 GGAGAGAGCAAGG
1 GGAGGGAGCAAGG
340977 GGAGGGAGCAAGG
1 GGAGGGAGCAAGG
340990 GGAGGGA
1 GGAGGGA
340997 AAGGCGGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.06, G:0.61, T:0.00
Consensus pattern (13 bp):
GGAGGGAGCAAGG
Found at i:342547 original size:21 final size:21
Alignment explanation
Indices: 342521--342563 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
342511 TCTGTCATTA
*
342521 AATTTTTAACGAAAAATGACG
1 AATTTTGAACGAAAAATGACG
342542 AATTTTGAACGAAAAATGACG
1 AATTTTGAACGAAAAATGACG
342563 A
1 A
342564 GTTTGAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (21 bp):
AATTTTGAACGAAAAATGACG
Found at i:342568 original size:20 final size:21
Alignment explanation
Indices: 342528--342570 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
342518 TTAAATTTTT
*
342528 AACGAAAAATGACGAATTTTG
1 AACGAAAAATGACGAAGTTTG
342549 AACGAAAAATGACG-AGTTTG
1 AACGAAAAATGACGAAGTTTG
342569 AA
1 AA
342571 ACATAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (21 bp):
AACGAAAAATGACGAAGTTTG
Found at i:352629 original size:21 final size:21
Alignment explanation
Indices: 352605--352644 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
352595 TCATTTCCCC
*
352605 TTCCCGATCTTCAATCCCTAA
1 TTCCCCATCTTCAATCCCTAA
* *
352626 TTCCCCTTTTTCAATCCCT
1 TTCCCCATCTTCAATCCCT
352645 TCTCATGTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.40, G:0.03, T:0.40
Consensus pattern (21 bp):
TTCCCCATCTTCAATCCCTAA
Found at i:357175 original size:23 final size:26
Alignment explanation
Indices: 357117--357176 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
357107 TAATTATTGT
* *
357117 TAATATTTATTTATTTAATTTTTTAG
1 TAATATTTATATATTTAATTTTCTAG
*
357143 TATTAGTTTATATA-TTAA-TTTCTA-
1 TAATA-TTTATATATTTAATTTTCTAG
357167 TAATATTTAT
1 TAATATTTAT
357177 TAAATTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 5 0.17
24 4 0.14
25 5 0.17
26 8 0.28
27 7 0.24
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (26 bp):
TAATATTTATATATTTAATTTTCTAG
Found at i:359972 original size:19 final size:19
Alignment explanation
Indices: 359935--359986 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
359925 TAAAGATAAT
*
359935 TTGATTTTGAAAGTAAAAA
1 TTGATTTTGAAAATAAAAA
*
359954 TTGATTTTGAAAATCAAAA
1 TTGATTTTGAAAATAAAAA
359973 -TGAAATTTTGAAAA
1 TTG--ATTTTGAAAA
359987 ATAATTTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 2 0.07
19 17 0.59
20 10 0.34
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.37
Consensus pattern (19 bp):
TTGATTTTGAAAATAAAAA
Found at i:360795 original size:20 final size:20
Alignment explanation
Indices: 360772--360809 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
360762 ATATGTACTT
*
360772 AATTTTAACAATTGGTATCA
1 AATTTCAACAATTGGTATCA
360792 AATTTCAACAATTGGTAT
1 AATTTCAACAATTGGTAT
360810 TGCATAAAGT
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:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
AATTTCAACAATTGGTATCA
Found at i:363357 original size:3 final size:3
Alignment explanation
Indices: 363349--363388 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
363339 TATGCTCCTA
*
363349 ATG ATG ATG ATT ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
363389 GAGTAAGGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:363621 original size:38 final size:38
Alignment explanation
Indices: 363570--363644 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
363560 ACTTAATTAA
* *
363570 TTTTGTTTATTACTTAATTCAAGCGAATGATTTTATTG
1 TTTTGTTTATTACTTAATTCAAGCAAATGAGTTTATTG
363608 TTTTGTTTATTACTTAATTCAAGCAAATGAGTTTATT
1 TTTTGTTTATTACTTAATTCAAGCAAATGAGTTTATT
363645 ATTTAGTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (38 bp):
TTTTGTTTATTACTTAATTCAAGCAAATGAGTTTATTG
Found at i:374470 original size:3 final size:3
Alignment explanation
Indices: 374462--374506 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
374452 TCAAATTAAA
*
374462 ATT ATT ATT ACT ATT AATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
374507 AATATTTACA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:375332 original size:20 final size:20
Alignment explanation
Indices: 375307--375344 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
375297 ATCCTATTCT
*
375307 CTGGTAATATTTTATTCCCA
1 CTGGTAATATTATATTCCCA
*
375327 CTGGTAATGTTATATTCC
1 CTGGTAATATTATATTCC
375345 ATGAACCAAA
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:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (20 bp):
CTGGTAATATTATATTCCCA
Found at i:378402 original size:18 final size:18
Alignment explanation
Indices: 378360--378402 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
378350 TGAACAAAAG
*
378360 CATGCGAACTAGAAATTA
1 CATGCGGACTAGAAATTA
378378 CATGCGGACTAGAAATTA
1 CATGCGGACTAGAAATTA
378396 CATGCGG
1 CATGCGG
378403 TTAGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (18 bp):
CATGCGGACTAGAAATTA
Found at i:379128 original size:8 final size:8
Alignment explanation
Indices: 379115--379144 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
379105 TGCATCTGCA
379115 TTTGCATC
1 TTTGCATC
379123 TTTGCATC
1 TTTGCATC
379131 TTTGCAT-
1 TTTGCATC
379138 TTTGCAT
1 TTTGCAT
379145 ATGCATTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (8 bp):
TTTGCATC
Found at i:379136 original size:16 final size:15
Alignment explanation
Indices: 379115--379144 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
379105 TGCATCTGCA
379115 TTTGCATCTTTGCATC
1 TTTGCAT-TTTGCATC
379131 TTTGCATTTTGCAT
1 TTTGCATTTTGCAT
379145 ATGCATTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (15 bp):
TTTGCATTTTGCATC
Found at i:380583 original size:13 final size:13
Alignment explanation
Indices: 380567--380641 Score: 60
Period size: 13 Copynumber: 5.2 Consensus size: 13
380557 AAGATCAAAT
380567 AAAAGCAAAGAAA
1 AAAAGCAAAGAAA
380580 AAAAGCAAATAGAGAA
1 AAAAGC-AA-AGA-AA
*
380596 AATAAGAAAAGAGAGA
1 AA-AAGCAAAGA-A-A
*
380612 AAAAACAAAAGAAA
1 AAAAGC-AAAGAAA
*
380626 AAAAACAAAGAAA
1 AAAAGCAAAGAAA
380639 AAA
1 AAA
380642 TAAAGAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 16 0.30
14 9 0.17
15 11 0.21
16 14 0.26
17 3 0.06
ACGTcount: A:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAAGCAAAGAAA
Found at i:380595 original size:17 final size:15
Alignment explanation
Indices: 380575--380634 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
380565 ATAAAAGCAA
380575 AGAAAAAAAGCAAATAG
1 AGAAAAAAA-CAAA-AG
* *
380592 AGAAAATAAGAAAAG
1 AGAAAAAAACAAAAG
380607 AGAGAAAAAACAAAAG
1 AGA-AAAAAACAAAAG
380623 A-AAAAAAACAAA
1 AGAAAAAAACAAA
380635 GAAAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
14 10 0.26
15 6 0.16
16 14 0.37
17 8 0.21
ACGTcount: A:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (15 bp):
AGAAAAAAACAAAAG
Found at i:380626 original size:11 final size:11
Alignment explanation
Indices: 380609--380651 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
380599 AAGAAAAGAG
380609 AGAAAAAACAAA
1 AGAAAAAAC-AA
380621 AGAAAAAAAACAA
1 AG--AAAAAACAA
*
380634 AGAAAAAATAA
1 AGAAAAAACAA
380645 AGAAAAA
1 AGAAAAA
380652 TGACAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 15 0.54
12 2 0.07
13 4 0.14
14 7 0.25
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (11 bp):
AGAAAAAACAA
Found at i:380663 original size:45 final size:46
Alignment explanation
Indices: 380573--380663 Score: 107
Period size: 45 Copynumber: 2.0 Consensus size: 46
380563 AAATAAAAGC
* * *
380573 AAAGAAAAAAAGCAAATAGAGAAAATAAGAAAAGAGAGAAAAAACA
1 AAAGAAAAAAAACAAATAGAAAAAATAAGAAAAGAGACAAAAAACA
*
380619 AAAGAAAAAAAAC-AA-AGAAAAAATAAAGAAAA-ATGACAATAAACA
1 AAAGAAAAAAAACAAATAGAAAAAAT-AAGAAAAGA-GACAAAAAACA
380664 CATGCAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
44 9 0.23
45 18 0.46
46 12 0.31
ACGTcount: A:0.76, C:0.05, G:0.13, T:0.05
Consensus pattern (46 bp):
AAAGAAAAAAAACAAATAGAAAAAATAAGAAAAGAGACAAAAAACA
Found at i:383212 original size:37 final size:36
Alignment explanation
Indices: 383105--383212 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 36
383095 TGTTTCTCTG
* * *
383105 AAAACAAAGTATCGTCTCCCTAGAGACAATTTTTCTTA
1 AAAACAAATTAT-GTCTCGCTTGAGAC-ATTTTTCTTA
* * *
383143 AAAACAAATTATGTCTTGCTTGAGATAGTTTTCTCTA
1 AAAACAAATTATGTCTCGCTTGAGACATTTTTCT-TA
* *
383180 AAAATAAATTTTGTCTCGCTTGAGACATTTTTC
1 AAAACAAATTATGTCTCGCTTGAGACATTTTTC
383213 CCTTGAGATG
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
36 7 0.12
37 40 0.69
38 11 0.19
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (36 bp):
AAAACAAATTATGTCTCGCTTGAGACATTTTTCTTA
Found at i:383348 original size:102 final size:102
Alignment explanation
Indices: 383172--383368 Score: 315
Period size: 102 Copynumber: 1.9 Consensus size: 102
383162 TTGAGATAGT
* ** *
383172 TTTCTCTAAAAATAAATTTTGTCTCGCTTGAGACATTTTTCCCTTGAGATGCAAATTTTCAATTT
1 TTTCTCTAAAAACAAATTTCATCTCGCTTGAGACAATTTTCCCTTGAGATGCAAATTTTCAATTT
383237 GTTTCACTTGAAACAAAGTTGATCTCACTTGCGATTG
66 GTTTCACTTGAAACAAAGTTGATCTCACTTGCGATTG
*
383274 TTTCTCTCAAAACAAATTTCATCTCGCTTGAGACAATTTTCCCTTGAGATGCAAA-TTTCAAATT
1 TTTCTCTAAAAACAAATTTCATCTCGCTTGAGACAATTTTCCCTTGAGATGCAAATTTTC-AATT
* *
383338 TGTTTCACTTGAAACAAAGTTTATCTTACTT
65 TGTTTCACTTGAAACAAAGTTGATCTCACTT
383369 AAGATTATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
101 4 0.05
102 83 0.95
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.41
Consensus pattern (102 bp):
TTTCTCTAAAAACAAATTTCATCTCGCTTGAGACAATTTTCCCTTGAGATGCAAATTTTCAATTT
GTTTCACTTGAAACAAAGTTGATCTCACTTGCGATTG
Found at i:383706 original size:270 final size:273
Alignment explanation
Indices: 383185--383716 Score: 602
Period size: 270 Copynumber: 2.0 Consensus size: 273
383175 CTCTAAAAAT
* * * *
383185 AAATTTTGTCTCGCTTGAGACATTTTTCCCTTGAGATGCAAATTTTCAATTTGTTTCACTTGAAA
1 AAATTTTGTCTCACTTGAGACATGTTTCCCTTGAGATACAAATTTTCAAGTTGTTTCACTTGAAA
* * * *
383250 CAAAGTTGATCTCACTTGCGATTGTTTCTCTCAAAACAAATTTCATCTCGCTTGAGACAATTTTC
66 CAAAATTAATCTCACTTGCGATTGTTTCTCTCAAAACAAATTTCATCTCACTTGAGACAATTTCC
* * ** * * * * *** *
383315 CCTTGAGATGCAAATTTCAAATTTGTTTCACTTGAAACAAAGTTTATCTTACTTAAGATTATTTT
131 CCTTAAAACACAAATTTCAAATTTGCTTCACTGGAAACAAAATTGATAAAACTTAAGATTAGTTT
* *
383380 TTCCTTAAAACAAACTTTGTCTCACTTGAGACAGTCTTCCTTAAGACAAGAACATTTGATATTGT
196 ATCCTTAAAACAAACTTTGTCTCACTTGAGACAGTCTTCCTTAAGACAAGAACATTTGAGATTGT
383445 TTTTACATAAAGC
261 TTTTACATAAAGC
*
383458 AAATTTTGTCTCACTTGAGACA-GTTTCCCTTCGA-ATACAAA-TTTCAAAGTTGTTTTACTTGA
1 AAATTTTGTCTCACTTGAGACATGTTTCCCTT-GAGATACAAATTTTC-AAGTTGTTTCACTTGA
* * * *
383520 AACAAAATTAATCTCACTTGACG-TTGTTT-TTTCAAAACATA-TTCGTCTCACTTGAGACAGTT
64 AACAAAATTAATCTCACTTG-CGATTGTTTCTCTCAAAACAAATTTCATCTCACTTGAGACAATT
* *
383582 TCCCCTTAAAACACAAATTCTGAAA-TTGCTTCACTGGAAACAAAATTGATAAAACCTTTGAGAT
128 TCCCCTTAAAACACAAATT-TCAAATTTGCTTCACTGGAAACAAAATTGATAAAA-C-TTAAGAT
* ** *
383646 T-GTTTAT-CTTGAAACAAGTTTTGTCTCTCTTGAGACAGT-TTCTCTTGAA-ACATA-AACATT
190 TAGTTTATCCTTAAAACAAACTTTGTCTCACTTGAGACAGTCTTC-CTT-AAGACA-AGAACATT
383706 TGAGATTGTTT
252 TGAGATTGTTT
383717 CCCTTGAAAC
Statistics
Matches: 217, Mismatches: 33, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
269 3 0.01
270 104 0.48
271 26 0.12
272 59 0.27
273 25 0.12
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (273 bp):
AAATTTTGTCTCACTTGAGACATGTTTCCCTTGAGATACAAATTTTCAAGTTGTTTCACTTGAAA
CAAAATTAATCTCACTTGCGATTGTTTCTCTCAAAACAAATTTCATCTCACTTGAGACAATTTCC
CCTTAAAACACAAATTTCAAATTTGCTTCACTGGAAACAAAATTGATAAAACTTAAGATTAGTTT
ATCCTTAAAACAAACTTTGTCTCACTTGAGACAGTCTTCCTTAAGACAAGAACATTTGAGATTGT
TTTTACATAAAGC
Found at i:383715 original size:66 final size:66
Alignment explanation
Indices: 383633--383763 Score: 199
Period size: 66 Copynumber: 2.0 Consensus size: 66
383623 AAAATTGATA
* * * * * *
383633 AAACCTTTGAGATTGTTTATCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 AAACATTTGAGATTGTTTACCTTGAAACAAATTTTATCCCTCTTGAGACAATTTCTCTTGAAACA
383698 T
66 T
*
383699 AAACATTTGAGATTGTTTCCCTTGAAACAAATTTTATCCCTCTTGAGACAATTTCTCTTGAAACA
1 AAACATTTGAGATTGTTTACCTTGAAACAAATTTTATCCCTCTTGAGACAATTTCTCTTGAAACA
383764 AATGATCCCT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (66 bp):
AAACATTTGAGATTGTTTACCTTGAAACAAATTTTATCCCTCTTGAGACAATTTCTCTTGAAACA
T
Found at i:384286 original size:274 final size:274
Alignment explanation
Indices: 383768--384311 Score: 716
Period size: 274 Copynumber: 2.0 Consensus size: 274
383758 GAAACAAATG
* *
383768 ATCCCTAAAGATGGTCAACCATCCTCATCACGTAGGAATTGTGTCATCCACCGACCAAACATCCT
1 ATCCCTAAAGATGGCCAACCATCCTCATCACGTAGGAATCGTGTCATCCACCGACCAAACATCCT
* * * *
383833 CATCACGTAGGAGCTGCATCACCCCTAGATAGCCAGATTTTCTCATCGTGTAGAAACTGTGTTAT
66 CATCACGTAGGAGCCGCACCACCCCTAGATAGCCAGACTTCCTCATCGTGTAGAAACTGTGTTAT
** * * * *
383898 CTCCATTATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGCGTCATCTACCGACCAT
131 CTCCATTATCCCTAAAGATGGAAAGCCGCCCTCATCACGTAGGAACCACGTCATCCACCGACCAG
* ** ** **
383963 ATATCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAGTCAAACTTCCTCATCACGTATTAACC
196 ATATCCTCATCACGTAGGAGCAGCATCACCCCTAGATAACCAAACTTCCTCATCACGTAAGAACC
384028 ATGTTATCTCCATT
261 ATGTTATCTCCATT
* * * *
384042 ATCCCTAAAGATGGCCAACCATCCTTATCACGTAGGAATCGTGTCATCCATCGACTAGATC-TCC
1 ATCCCTAAAGATGGCCAACCATCCTCATCACGTAGGAATCGTGTCATCCACCGACCA-AACATCC
* * *
384106 TCATCACGTAGGAGCCGCACCACCCTTAGATAGCCATG-CTTCCTCATCAG-GTAGGAACTTTGT
65 TCATCACGTAGGAGCCGCACCACCCCTAGATAGCCA-GACTTCCTCATC-GTGTAGAAACTGTGT
* * * *
384169 TATCTCCATTATCCCTTAAGATGGAAAGCTGCCCTCATCACGTAGGAACTATGTCATCCACCGAC
128 TATCTCCATTATCCCTAAAGATGGAAAGCCGCCCTCATCACGTAGGAACCACGTCATCCACCGAC
* * * * *
384234 CAGATTTCCTCATCATGTAGGAGTAGCATCACCCTTAGATAACCAGACTTCCTCATCACGTAAGA
193 CAGATATCCTCATCACGTAGGAGCAGCATCACCCCTAGATAACCAAACTTCCTCATCACGTAAGA
*
384299 ACCGTGTTATCTC
258 ACCATGTTATCTC
384312 TAAATTTACC
Statistics
Matches: 231, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
274 227 0.98
275 4 0.02
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (274 bp):
ATCCCTAAAGATGGCCAACCATCCTCATCACGTAGGAATCGTGTCATCCACCGACCAAACATCCT
CATCACGTAGGAGCCGCACCACCCCTAGATAGCCAGACTTCCTCATCGTGTAGAAACTGTGTTAT
CTCCATTATCCCTAAAGATGGAAAGCCGCCCTCATCACGTAGGAACCACGTCATCCACCGACCAG
ATATCCTCATCACGTAGGAGCAGCATCACCCCTAGATAACCAAACTTCCTCATCACGTAAGAACC
ATGTTATCTCCATT
Found at i:384291 original size:137 final size:136
Alignment explanation
Indices: 383768--384311 Score: 592
Period size: 137 Copynumber: 4.0 Consensus size: 136
383758 GAAACAAATG
* * * *
383768 ATCCCTAAAGATGGTCAACCAT-CCTCATCACGTAGGAATTGTGTCATCCACCGACCAAACATCC
1 ATCCCTAAAGATGG-CAAGC-TGCCTCATCACGTAGGAACTGTGTCATCCACCGACCAGATATCC
* * * ** * *
383832 TCATCACGTAGGAGCTGCATCACCCCTAGATAGCCAGATTTTCTCATCGTGTAGAAACTGTGTTA
64 TCATCACGTAGGAGCCGCATCACCCCTAGATAGCCAGACTTCCTCATCACGTAGGAACCGTGTTA
383897 TCTCCATT
129 TCTCCATT
* * * * * *
383905 ATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGCGTCATCTACCGACCATATATCCT
1 ATCCCTAAAGATGGCAAGCTG-CCTCATCACGTAGGAACTGTGTCATCCACCGACCAGATATCCT
** * * ** *
383970 CATCACGTAGGAGCCGTGTCACCCCTAGATAGTCAAACTTCCTCATCACGTATTAACCATGTTAT
65 CATCACGTAGGAGCCGCATCACCCCTAGATAGCCAGACTTCCTCATCACGTAGGAACCGTGTTAT
384035 CTCCATT
130 CTCCATT
* * * * *
384042 ATCCCTAAAGATGGCCAACCAT-CCTTATCACGTAGGAA-TCGTGTCATCCATCGACTAGATCTC
1 ATCCCTAAAGATGG-CAAGC-TGCCTCATCACGTAGGAACT-GTGTCATCCACCGACCAGATATC
* * * **
384105 CTCATCACGTAGGAGCCGCACCACCCTTAGATAGCCATG-CTTCCTCATCAGGTAGGAACTTTGT
63 CTCATCACGTAGGAGCCGCATCACCCCTAGATAGCCA-GACTTCCTCATCACGTAGGAACCGTGT
384169 TATCTCCATT
127 TATCTCCATT
* * * *
384179 ATCCCTTAAGATGGAAAGCTGCCCTCATCACGTAGGAACTATGTCATCCACCGACCAGATTTCCT
1 ATCCCTAAAGATGGCAAGCTG-CCTCATCACGTAGGAACTGTGTCATCCACCGACCAGATATCCT
* ** * * *
384244 CATCATGTAGGAGTAGCATCACCCTTAGATAACCAGACTTCCTCATCACGTAAGAACCGTGTTAT
65 CATCACGTAGGAGCCGCATCACCCCTAGATAGCCAGACTTCCTCATCACGTAGGAACCGTGTTAT
384309 CTC
130 CTC
384312 TAAATTTACC
Statistics
Matches: 336, Mismatches: 61, Indels: 20
0.81 0.15 0.05
Matches are distributed among these distances:
135 1 0.00
136 7 0.02
137 324 0.96
138 4 0.01
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (136 bp):
ATCCCTAAAGATGGCAAGCTGCCTCATCACGTAGGAACTGTGTCATCCACCGACCAGATATCCTC
ATCACGTAGGAGCCGCATCACCCCTAGATAGCCAGACTTCCTCATCACGTAGGAACCGTGTTATC
TCCATT
Found at i:384509 original size:3 final size:3
Alignment explanation
Indices: 384501--384537 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
384491 TTAAATTAAA
*
384501 ATT ATT ATT ACT ATT AATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
384538 GATACAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:384520 original size:22 final size:22
Alignment explanation
Indices: 384494--384537 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
384484 CTGGGTTTTA
384494 AATTAAAATTATTATTACTATT
1 AATTAAAATTATTATTACTATT
** *
384516 AATTATTATTATTATTATTATT
1 AATTAAAATTATTATTACTATT
384538 GATACAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTAAAATTATTATTACTATT
Found at i:384521 original size:16 final size:16
Alignment explanation
Indices: 384500--384537 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
384490 TTTAAATTAA
384500 AATTATTATTACTATT
1 AATTATTATTACTATT
*
384516 AATTATTATTATTATT
1 AATTATTATTACTATT
384532 -ATTATT
1 AATTATT
384538 GATACAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTATTATTACTATT
Found at i:390056 original size:51 final size:50
Alignment explanation
Indices: 389996--390150 Score: 149
Period size: 51 Copynumber: 3.1 Consensus size: 50
389986 AAATCCGATC
*
389996 CACTACTCTTCCGTGGAGACAGATCTGAAATGACTTGAACATAATATGTTT
1 CACTACTCTTCCGTGGAGACAGATCTGAAATGACTTGAACA-AATCTGTTT
* * * * *** * *
390047 CACTACTCTTTCGT---GA-AGTTCTCATACTTTGTTGAA-AAATCCGTTC
1 CACTACTCTTCCGTGGAGACAGATCTGA-AATGACTTGAACAAATCTGTTT
*
390093 CACTACTCTTCCGTGGAGACTGATCTGAAATGACTTGAACAGAATCTGTTT
1 CACTACTCTTCCGTGGAGACAGATCTGAAATGACTTGAACA-AATCTGTTT
390144 CACTACT
1 CACTACT
390151 ATTTCATGAA
Statistics
Matches: 77, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
46 19 0.25
47 7 0.09
48 9 0.12
49 9 0.12
50 6 0.08
51 27 0.35
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (50 bp):
CACTACTCTTCCGTGGAGACAGATCTGAAATGACTTGAACAAATCTGTTT
Found at i:390100 original size:46 final size:46
Alignment explanation
Indices: 389947--390107 Score: 117
Period size: 51 Copynumber: 3.4 Consensus size: 46
389937 CTTGGATTAC
* * ** *
389947 TCCACTACTCTTTCATGAAGTTCTCATACTTTGCTAAAAAAATCCGA
1 TCCACTACTCTTCCGTGAAGTTCTCATACTTTG-TTGAAAAATCCGT
* * * *** **
389994 TCCACTACTCTTCCGTGGAGACAGATCTGA-AATGACTTGAACATAATATGT
1 TCCACTACTCTTCCGT---GA-AGTTCTCATACTTTGTTGAA-A-AATCCGT
* *
390045 TTCACTACTCTTTCGTGAAGTTCTCATACTTTGTTGAAAAATCCGT
1 TCCACTACTCTTCCGTGAAGTTCTCATACTTTGTTGAAAAATCCGT
390091 TCCACTACTCTTCCGTG
1 TCCACTACTCTTCCGTG
390108 GAGACTGATC
Statistics
Matches: 82, Mismatches: 25, Indels: 15
0.67 0.20 0.12
Matches are distributed among these distances:
46 20 0.24
47 21 0.26
48 9 0.11
49 3 0.04
50 5 0.06
51 24 0.29
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (46 bp):
TCCACTACTCTTCCGTGAAGTTCTCATACTTTGTTGAAAAATCCGT
Found at i:390118 original size:97 final size:98
Alignment explanation
Indices: 389949--390164 Score: 353
Period size: 97 Copynumber: 2.2 Consensus size: 98
389939 TGGATTACTC
389949 CACTACTCTTTCATGAAGTTCTCATACTTTGCTAAAAAAATCCGATCCACTACTCTTCCGTGGAG
1 CACTACTCTTTCATGAAGTTCTCATACTTTGCTAAAAAAATCCGATCCACTACTCTTCCGTGGAG
*
390014 ACAGATCTGAAATGACTTGAACATAATATGTTT
66 ACAGATCTGAAATGACTTGAACAGAATATGTTT
* ** *
390047 CACTACTCTTTCGTGAAGTTCTCATACTTTG-TTGAAAAATCCGTTCCACTACTCTTCCGTGGAG
1 CACTACTCTTTCATGAAGTTCTCATACTTTGCTAAAAAAATCCGATCCACTACTCTTCCGTGGAG
* *
390111 ACTGATCTGAAATGACTTGAACAGAATCTGTTT
66 ACAGATCTGAAATGACTTGAACAGAATATGTTT
*
390144 CACTACTATTTCATGAAGTTC
1 CACTACTCTTTCATGAAGTTC
390165 AGATTTAAAC
Statistics
Matches: 109, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
97 79 0.72
98 30 0.28
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (98 bp):
CACTACTCTTTCATGAAGTTCTCATACTTTGCTAAAAAAATCCGATCCACTACTCTTCCGTGGAG
ACAGATCTGAAATGACTTGAACAGAATATGTTT
Found at i:390263 original size:236 final size:236
Alignment explanation
Indices: 389837--390303 Score: 729
Period size: 236 Copynumber: 2.0 Consensus size: 236
389827 AGGTTTTATG
*
389837 CTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGAAGACTGATCTGAAATGACTTGAATAGAAT
1 CTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGAAGACTGATCTGAAATGACTTGAACAGAAT
* * * *
389902 ATGTTTCACTACTCTTCCGTGAAGTTAGATTCAATCTTGGATTACTCCACTACTCTTTCATGAAG
66 ATGTTTCACTACTATTCCATGAAGTTAGATTCAAACTTAGATTACTCCACTACTCTTTCATGAAG
*
389967 TTCTCATACTTTGCTAAAAAAATCCGATCCACTACTCTTCCGTGGAGACAGATCTGAAATGACTT
131 TTCTCATACTTTGCTAAAAAAATACGATCCACTACTCTTCCGTGGAGACAGATCTGAAATGACTT
* *
390032 GAACATAATATGTTTCACTACTCTTTCGTGAAGTTCTCATA
196 GAACAGAATATGTTTCACTACTCTTTCATGAAGTTCTCATA
* *
390073 CTTTGTTGAAAAATCCGTTCCACTACTCTTCCGTGGAGACTGATCTGAAATGACTTGAACAGAAT
1 CTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGAAGACTGATCTGAAATGACTTGAACAGAAT
* * * **
390138 CTGTTTCACTACTATTTCATGAAGTTCAGATTTAAACTTAGATTACTCCACTACTCTTTTGTGAA
66 ATGTTTCACTACTATTCCATGAAGTT-AGATTCAAACTTAGATTACTCCACTACTCTTTCATGAA
* * * * *
390203 GTTCTTATACTTTGCT-GAAAAATACGTTCCACTACTCTTCCGTGGAGACTGATTTGAAATGACT
130 GTTCTCATACTTTGCTAAAAAAATACGATCCACTACTCTTCCGTGGAGACAGATCTGAAATGACT
*
390267 TGAACAGAATCTGTTTCACTACTCTTTCATGAAGTTC
195 TGAACAGAATATGTTTCACTACTCTTTCATGAAGTTC
390304 AGATTCAAAC
Statistics
Matches: 209, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
236 161 0.77
237 48 0.23
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (236 bp):
CTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGAAGACTGATCTGAAATGACTTGAACAGAAT
ATGTTTCACTACTATTCCATGAAGTTAGATTCAAACTTAGATTACTCCACTACTCTTTCATGAAG
TTCTCATACTTTGCTAAAAAAATACGATCCACTACTCTTCCGTGGAGACAGATCTGAAATGACTT
GAACAGAATATGTTTCACTACTCTTTCATGAAGTTCTCATA
Found at i:390297 original size:139 final size:139
Alignment explanation
Indices: 390047--390397 Score: 621
Period size: 139 Copynumber: 2.5 Consensus size: 139
390037 TAATATGTTT
*
390047 CACTACTCTTTCGTGAAGTTCTCATACTTTGTTGAAAAATCCGTTCCACTACTCTTCCGTGGAGA
1 CACTACTCTTTCGTGAAGTTCTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGA
*
390112 CTGATCTGAAATGACTTGAACAGAATCTGTTTCACTACTATTTCATGAAGTTCAGATTTAAACTT
66 CTGATCTGAAATGACTTGAACAGAATCTGTTTCACTACTATTTCATGAAGTTCAGATTCAAACTT
390177 AGATTACTC
131 AGATTACTC
* * *
390186 CACTACTCTTTTGTGAAGTTCTTATACTTTGCTGAAAAATACGTTCCACTACTCTTCCGTGGAGA
1 CACTACTCTTTCGTGAAGTTCTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGA
* *
390251 CTGATTTGAAATGACTTGAACAGAATCTGTTTCACTACTCTTTCATGAAGTTCAGATTCAAACTT
66 CTGATCTGAAATGACTTGAACAGAATCTGTTTCACTACTATTTCATGAAGTTCAGATTCAAACTT
*
390316 GGATTACTC
131 AGATTACTC
*
390325 CACTACTCTTTCGTGAAGTTCTCATACTTTGCTGAAAAACCCGTTCCACTACTCTTCCGTGGAGA
1 CACTACTCTTTCGTGAAGTTCTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGA
390390 CTGATCTG
66 CTGATCTG
390398 CTTTTACTTC
Statistics
Matches: 199, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
139 199 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (139 bp):
CACTACTCTTTCGTGAAGTTCTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGA
CTGATCTGAAATGACTTGAACAGAATCTGTTTCACTACTATTTCATGAAGTTCAGATTCAAACTT
AGATTACTC
Found at i:396082 original size:2 final size:2
Alignment explanation
Indices: 396075--396113 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
396065 AAACATAACA
396075 AT AT AT 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 AT AT AT A
396114 CAAAAACTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:396234 original size:46 final size:46
Alignment explanation
Indices: 396129--396231 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
396119 ACTAGTTAGT
* * * * *
396129 AAGAAAAATCATATCCTAACCTCATGCTTTTTAGTTTCATGCTTTGTTC
1 AAGAAAAAT-A-A-CCTAACCACATGATTTCTAGTTGCATGCTTTATTC
396178 AAGAAAAATAACCTAACCACATGATTTCTAGTTCGCATGCATTTATTC
1 AAGAAAAATAACCTAACCACATGATTTCTAGTT-GCATGC-TTTATTC
396226 -AGAAAA
1 AAGAAAA
396232 TAAATAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
46 19 0.40
47 12 0.26
48 7 0.15
49 9 0.19
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (46 bp):
AAGAAAAATAACCTAACCACATGATTTCTAGTTGCATGCTTTATTC
Found at i:396747 original size:9 final size:9
Alignment explanation
Indices: 396733--396758 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
396723 CAAAAGTTAG
396733 TAAAATAAT
1 TAAAATAAT
396742 TAAAATAAT
1 TAAAATAAT
396751 TAAAATAA
1 TAAAATAA
396759 AATTAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAAATAAT
Found at i:398267 original size:12 final size:12
Alignment explanation
Indices: 398244--398302 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
398234 GGCCTTCGGG
398244 ATATATA-AATA
1 ATATATATAATA
*
398255 ATA-ATATTTATA
1 ATATATA-TAATA
*
398267 ATATAT-T-ATT
1 ATATATATAATA
398277 ATATATATAATA
1 ATATATATAATA
*
398289 ATGTATATAATA
1 ATATATATAATA
398301 AT
1 AT
398303 CGTCACTCGG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
10 11 0.28
11 5 0.13
12 21 0.54
13 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (12 bp):
ATATATATAATA
Found at i:400477 original size:27 final size:27
Alignment explanation
Indices: 400440--400499 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
400430 TTTGCATGAC
*
400440 ATTC-AAATTATGTTTATCTCTGGTTG
1 ATTCGAAATTATGATTATCTCTGGTTG
*
400466 ATTCGAAATTATGATTATCTTTGGTTG
1 ATTCGAAATTATGATTATCTCTGGTTG
400493 ATTCGAA
1 ATTCGAA
400500 CTTTATTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (27 bp):
ATTCGAAATTATGATTATCTCTGGTTG
Found at i:400908 original size:60 final size:60
Alignment explanation
Indices: 400840--400962 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 60
400830 TACTTAAAGT
400840 TTTTGAAATCAATAAATGCAAGGGATAACTATAATATATTTTCAATAACATTTGGGTAAA
1 TTTTGAAATCAATAAATGCAAGGGATAACTATAATATATTTTCAATAACATTTGGGTAAA
*
400900 TTTTGAAATCAATAAATGCAAGGGATAATTATAATATATTTTCAATAACATTTGGGTAAA
1 TTTTGAAATCAATAAATGCAAGGGATAACTATAATATATTTTCAATAACATTTGGGTAAA
400960 TTT
1 TTT
400963 ATGAGATAAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.37
Consensus pattern (60 bp):
TTTTGAAATCAATAAATGCAAGGGATAACTATAATATATTTTCAATAACATTTGGGTAAA
Found at i:405041 original size:184 final size:184
Alignment explanation
Indices: 404831--405195 Score: 714
Period size: 184 Copynumber: 2.0 Consensus size: 184
404821 CATGACTTGA
404831 GAGAAAATTTCATTATAGTCAATACCTTCTTTTTGCTGAAAACCTTTGACAACCAATCTCACTTT
1 GAGAAAATTTCATTATAGTCAATACCTTCTTTTTGCTGAAAACCTTTGACAACCAATCTCACTTT
404896 CTAGTGTTTTCTCCCATCGTACTCTCCTTTGATCCTGTAAAT-CACTTGTTATGAAGCGCGATTT
66 CTAGTGTTTTCTCCCATCGTACTCTCCTTTGATCCTGTAAATCCACTTGTTATGAAGCGCGATTT
404960 CTTGTCTGATGGTAATTCAAACTAATTCCCACGTCTGATTTGACTTAAGCGACTT
131 CTTGTCTGATGGTAATTC-AACTAATTCCCACGTCTGATTTGACTTAAGCGACTT
405015 GAGAAAATTTCATTATAGTCAATACCTTCTTTTTGCTGAAAACCTTTGACAACCAATCTCACTTT
1 GAGAAAATTTCATTATAGTCAATACCTTCTTTTTGCTGAAAACCTTTGACAACCAATCTCACTTT
405080 CTAGTGTTTTCTCCCATCGTACTCTCCTTTGATCCTGTAAATCCACTTGTTATGAAGCGCGATTT
66 CTAGTGTTTTCTCCCATCGTACTCTCCTTTGATCCTGTAAATCCACTTGTTATGAAGCGCGATTT
405145 CTTGTCTGATGGTAATTCAACTAATTCCCACGTCTGATTTGACTTAAGCGA
131 CTTGTCTGATGGTAATTCAACTAATTCCCACGTCTGATTTGACTTAAGCGA
405196 GTCCATCGCA
Statistics
Matches: 180, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
184 140 0.78
185 40 0.22
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (184 bp):
GAGAAAATTTCATTATAGTCAATACCTTCTTTTTGCTGAAAACCTTTGACAACCAATCTCACTTT
CTAGTGTTTTCTCCCATCGTACTCTCCTTTGATCCTGTAAATCCACTTGTTATGAAGCGCGATTT
CTTGTCTGATGGTAATTCAACTAATTCCCACGTCTGATTTGACTTAAGCGACTT
Found at i:410289 original size:25 final size:26
Alignment explanation
Indices: 410239--410289 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
410229 TGTATAAATA
* *
410239 TTTTGGGACTTTGGCTATTAATTTTG
1 TTTTGGGACTTTGGCTATGAAATTTG
410265 TTTT-GGACTTTGGACT-TGAAATTTG
1 TTTTGGGACTTTGG-CTATGAAATTTG
410290 GATTTGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.51
Consensus pattern (26 bp):
TTTTGGGACTTTGGCTATGAAATTTG
Found at i:434300 original size:43 final size:43
Alignment explanation
Indices: 434253--434471 Score: 244
Period size: 43 Copynumber: 5.1 Consensus size: 43
434243 AATGCCGTAA
* *
434253 TAGGTTTTGATGTTTAGCGGCGTTTTTCCTACAAACGTCGCAG
1 TAGGTGTTGATGTTTAGCGGCGTTTTTCCTACAAACGCCGCAG
* * * *
434296 TAGGTGTTGATGTTTAACGGTGTTTTCCCTACAAATGCCGCAG
1 TAGGTGTTGATGTTTAGCGGCGTTTTTCCTACAAACGCCGCAG
* * *
434339 TAGGTGTTGATATTTAGTGGCGTTTTCCCTACAAACGCCGCAG
1 TAGGTGTTGATGTTTAGCGGCGTTTTTCCTACAAACGCCGCAG
* * * * * *
434382 TAGGTGTTGATATTTTGTGGCATTTTT-CAACAAACGCCGCAA
1 TAGGTGTTGATGTTTAGCGGCGTTTTTCCTACAAACGCCGCAG
* * * *
434424 TAGGT-TATGATGTTTAGCGACGTTTCTCCCACAAACGTCGCAG
1 TAGGTGT-TGATGTTTAGCGGCGTTTTTCCTACAAACGCCGCAG
434467 TAGGT
1 TAGGT
434472 TTTCAGATTA
Statistics
Matches: 149, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
41 1 0.01
42 32 0.21
43 116 0.78
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (43 bp):
TAGGTGTTGATGTTTAGCGGCGTTTTTCCTACAAACGCCGCAG
Found at i:434355 original size:86 final size:84
Alignment explanation
Indices: 434205--434471 Score: 275
Period size: 86 Copynumber: 3.1 Consensus size: 84
434195 CAAAAAATGC
* * * * *
434205 CGCAATAGGTATTGTTATTTAGCGGCATTTGTCACAA-AAATGCCGTAATAGGTTTTGATGTTTA
1 CGCAGTAGGTGTTGATATTTAACGGCATTT-TC-CAACAAATGCCGCAATAGG-TTTGATGTTTA
434269 GCGGCGTTTTTCCTACAAACGT
63 GCGGCGTTTTTCCTACAAACGT
* ** * * *
434291 CGCAGTAGGTGTTGATGTTTAACGGTGTTTTCCCTACAAATGCCGCAGTAGGTGTTGATATTTAG
1 CGCAGTAGGTGTTGATATTTAACGGCATTTT-CCAACAAATGCCGCAATAGGT-TTGATGTTTAG
* * *
434356 TGGCGTTTTCCCTACAAACGC
64 CGGCGTTTTTCCTACAAACGT
*** * *
434377 CGCAGTAGGTGTTGATATTTTGTGGCATTTTTCAACAAACGCCGCAATAGGTTATGATGTTTAGC
1 CGCAGTAGGTGTTGATATTTAACGGCATTTTCCAACAAATGCCGCAATAGGTT-TGATGTTTAGC
* * *
434442 GACGTTTCTCCCACAAACGT
65 GGCGTTTTTCCTACAAACGT
434462 CGCAGTAGGT
1 CGCAGTAGGT
434472 TTTCAGATTA
Statistics
Matches: 146, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
84 1 0.01
85 55 0.38
86 90 0.62
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (84 bp):
CGCAGTAGGTGTTGATATTTAACGGCATTTTCCAACAAATGCCGCAATAGGTTTGATGTTTAGCG
GCGTTTTTCCTACAAACGT
Found at i:434472 original size:43 final size:42
Alignment explanation
Indices: 434203--434471 Score: 234
Period size: 43 Copynumber: 6.3 Consensus size: 42
434193 AACAAAAAAT
* * * * * * * *
434203 GCCGCAATAGGTATTGTTATTTAGCGGCATTTGTCACAAAAAT
1 GCCGCAGTAGGTGTTGATGTTTAGCGGCGTTT-TCCCACAAAC
* * * *
434246 GCCGTAATAGGTTTTGATGTTTAGCGGCGTTTTTCCTACAAAC
1 GCCGCAGTAGGTGTTGATGTTTAGCGGCG-TTTTCCCACAAAC
* * * *
434289 GTCGCAGTAGGTGTTGATGTTTAACGGTGTTTTCCCTACAAAT
1 GCCGCAGTAGGTGTTGATGTTTAGCGGCGTTTTCCC-ACAAAC
* *
434332 GCCGCAGTAGGTGTTGATATTTAGTGGCGTTTTCCCTACAAAC
1 GCCGCAGTAGGTGTTGATGTTTAGCGGCGTTTTCCC-ACAAAC
* * * * * *
434375 GCCGCAGTAGGTGTTGATATTTTGTGGCATTTTTCAACAAAC
1 GCCGCAGTAGGTGTTGATGTTTAGCGGCGTTTTCCCACAAAC
* *
434417 GCCGCAATAGGT-TATGATGTTTAGCGACGTTTCTCCCACAAAC
1 GCCGCAGTAGGTGT-TGATGTTTAGCGGCGTTT-TCCCACAAAC
*
434460 GTCGCAGTAGGT
1 GCCGCAGTAGGT
434472 TTTCAGATTA
Statistics
Matches: 185, Mismatches: 37, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
41 1 0.01
42 36 0.19
43 145 0.78
44 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
GCCGCAGTAGGTGTTGATGTTTAGCGGCGTTTTCCCACAAAC
Found at i:434559 original size:171 final size:172
Alignment explanation
Indices: 434204--434593 Score: 387
Period size: 171 Copynumber: 2.3 Consensus size: 172
434194 ACAAAAAATG
* * * * *
434204 CCGCAATAGGTATTGTTATTTAGCGGCATTTGTCACAAAAATGCCGTAATAGGTTTTGATGTTTA
1 CCGCAATAGGTGTTGATATTTAGCGGCATTTGTCACAAAAACGCCGCAATAGGTTATGATGTTTA
* * * * * * * * *
434269 GCGGCGTTTTTCCTACAAACGTCGCAGTAGGTGTTGATGTTTAACGGTGTTTTCCCTACAAATGC
66 GCGACGTTTCTCCCACAAACGTCGCAGTAGGTGTTCATGATTAACGGCGTTTTACCGACAAATGA
* * * * * *
434334 CGCAGTAGGTGTTGATATTTAGTGGCGTTTTCCCTACAAACG
131 CGCAATAGGTGTTGAGAATTAGCGGCGTTTTCACTACAAACA
* * * * *
434376 CCGCAGTAGGTGTTGATATTTTGTGGCATTTTTCA-ACAAACGCCGCAATAGGTTATGATGTTTA
1 CCGCAATAGGTGTTGATATTTAGCGGCATTTGTCACAAAAACGCCGCAATAGGTTATGATGTTTA
* *
434440 GCGACGTTTCTCCCACAAACGTCGCAGTAGGTTTTCA-GATTAAGCGGCGTTTGTATCGA-AAAT
66 GCGACGTTTCTCCCACAAACGTCGCAGTAGGTGTTCATGATTAA-CGGCGTTT-TACCGACAAAT
*
434503 GACGCAATAAGG-GTTGAGAATTAGCGGCG-TTTCTATTGA-AAACA
129 GACGCAAT-AGGTGTTGAGAATTAGCGGCGTTTTC-ACT-ACAAACA
** * * * *
434547 CCGCAATAGGTGTTGAGCTTTAGCGGCGTTTTTCATAAAAACACCGC
1 CCGCAATAGGTGTTGATATTTAGCGGCATTTGTCACAAAAACGCCGC
434594 TAAAGTTCGG
Statistics
Matches: 176, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
170 9 0.05
171 122 0.69
172 45 0.26
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (172 bp):
CCGCAATAGGTGTTGATATTTAGCGGCATTTGTCACAAAAACGCCGCAATAGGTTATGATGTTTA
GCGACGTTTCTCCCACAAACGTCGCAGTAGGTGTTCATGATTAACGGCGTTTTACCGACAAATGA
CGCAATAGGTGTTGAGAATTAGCGGCGTTTTCACTACAAACA
Found at i:434588 original size:43 final size:43
Alignment explanation
Indices: 434203--434593 Score: 217
Period size: 43 Copynumber: 9.1 Consensus size: 43
434193 AACAAAAAAT
* ** * * * * *
434203 GCCGCAATAGGTATTGTTATTTAGCGGCATTTGTCACAAAAAT
1 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCATACAAAC
* * *
434246 GCCGTAATAGGTTTTGATG-TTTAGCGGCGTTTTTCCTACAAAC
1 GCCGCAATAGGTGTTGA-GATTTAGCGGCGTTTTTCATACAAAC
* * * * * * *
434289 GTCGCAGTAGGTGTTGATG-TTTAACGGTGTTTTCCCTACAAAT
1 GCCGCAATAGGTGTTGA-GATTTAGCGGCGTTTTTCATACAAAC
* * * * *
434332 GCCGCAGTAGGTGTTGATATTTAGTGGCGTTTTCCCTACAAAC
1 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCATACAAAC
* * * * *
434375 GCCGCAGTAGGTGTTGATATTTTGTGGCATTTTTCA-ACAAAC
1 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCATACAAAC
* * **
434417 GCCGCAATAGGT-TATGATG-TTTAGCGACGTTTCTCCCACAAAC
1 GCCGCAATAGGTGT-TGA-GATTTAGCGGCGTTTTTCATACAAAC
* * * * * * *
434460 GTCGCAGTAGGTTTTCAGATTAAGCGGCGTTTGT-AT-CGAAAAT
1 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCATAC--AAAC
* * *
434503 GACGCAATAAGG-GTTGAGAATTAGCGGCGTTTCT-ATTGA-AAAC
1 GCCGCAAT-AGGTGTTGAGATTTAGCGGCGTTTTTCA-T-ACAAAC
* * *
434546 ACCGCAATAGGTGTTGAGCTTTAGCGGCGTTTTTCATAAAAAC
1 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCATACAAAC
*
434589 ACCGC
1 GCCGC
434594 TAAAGTTCGG
Statistics
Matches: 274, Mismatches: 58, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.01
42 36 0.13
43 230 0.84
44 6 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCATACAAAC
Found at i:434658 original size:44 final size:42
Alignment explanation
Indices: 434585--434683 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 42
434575 TTTTTCATAA
* *
434585 AAACACCGCTAAA-GTTCGGTATATAGCGGCGTTTATAGTATAC
1 AAACGCCGCTAAATGTTCGGTATATAGCGGCCTTT-TAGTA-AC
* **
434628 AAACGCCGCTAAATGTAT-GGTATATTGCGGCCTTTTTTTAAC
1 AAACGCCGCTAAATGT-TCGGTATATAGCGGCCTTTTAGTAAC
434670 AAACGCCGCTAAAT
1 AAACGCCGCTAAAT
434684 AACACAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
42 16 0.33
43 15 0.31
44 17 0.35
45 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (42 bp):
AAACGCCGCTAAATGTTCGGTATATAGCGGCCTTTTAGTAAC
Found at i:435104 original size:21 final size:21
Alignment explanation
Indices: 435003--435113 Score: 91
Period size: 21 Copynumber: 5.3 Consensus size: 21
434993 GCTGATATGT
* * *
435003 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTCTACTTCCGC
* *
435024 TGCTTCTCTCTGTACTACCGC
1 TGCTTCTCTCTCTACTTCCGC
* *
435045 TGCTTCTTTCTCTTCTTCCGC
1 TGCTTCTCTCTCTACTTCCGC
* **
435066 TGCTGCTCTGGCTACTTCCGC
1 TGCTTCTCTCTCTACTTCCGC
*
435087 TG-TTGCTCTCTCTGCTTCC-C
1 TGCTT-CTCTCTCTACTTCCGC
435107 TTGCTTC
1 -TGCTTC
435114 ATTTTCCTCT
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
20 2 0.03
21 68 0.94
22 2 0.03
ACGTcount: A:0.03, C:0.38, G:0.17, T:0.42
Consensus pattern (21 bp):
TGCTTCTCTCTCTACTTCCGC
Found at i:438563 original size:25 final size:25
Alignment explanation
Indices: 438532--438600 Score: 138
Period size: 25 Copynumber: 2.8 Consensus size: 25
438522 AATATATATA
438532 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
438557 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
438582 TCCCGAAGGACCGCGTAGA
1 TCCCGAAGGACCGCGTAGA
438601 CCCTCTACCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.17
Consensus pattern (25 bp):
TCCCGAAGGACCGCGTAGAATATTG
Found at i:439101 original size:19 final size:20
Alignment explanation
Indices: 439064--439101 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
439054 TTTTTTTATA
*
439064 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
439084 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
439102 TCTAGCATTC
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:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:445612 original size:41 final size:40
Alignment explanation
Indices: 445482--445620 Score: 100
Period size: 41 Copynumber: 3.4 Consensus size: 40
445472 TATGTGGAAC
* * *
445482 CTATTGCGGCGTTTTTGTAAAAACG-CTGCTAAATTACTAAT
1 CTATTGCGGCGTTTATATAAAAACGCCT-CTAAAGT-CTAAT
* * * * * * * *
445523 ATTTTGCGGCGTTTCTATGAAAACACCACTATAGTCCAACT
1 CTATTGCGGCGTTTATATAAAAACGCCTCTAAAGTCTAA-T
* * *
445564 CTTTTGCGGCGTTTATATTAAAACGCCTCTACAGTGCTAAT
1 CTATTGCGGCGTTTATATAAAAACGCCTCTAAAGT-CTAAT
*
445605 CTATTGCGGTGTTTAT
1 CTATTGCGGCGTTTAT
445621 GGATACAAAC
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
40 3 0.04
41 69 0.91
42 4 0.05
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (40 bp):
CTATTGCGGCGTTTATATAAAAACGCCTCTAAAGTCTAAT
Found at i:448922 original size:23 final size:24
Alignment explanation
Indices: 448896--448946 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
448886 ATTTTCTAGG
* *
448896 AAAACAATTAAAATATT-ATTTTA
1 AAAACAATTAAAACATTAATTTGA
* *
448919 AAAACGATTATAACATTAATTTGA
1 AAAACAATTAAAACATTAATTTGA
448943 AAAA
1 AAAA
448947 ATTGATGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAACAATTAAAACATTAATTTGA
Found at i:452104 original size:133 final size:133
Alignment explanation
Indices: 451780--452199 Score: 563
Period size: 133 Copynumber: 3.2 Consensus size: 133
451770 GGGTGATACA
* * * *
451780 GCTCTTACGTGATGAGGAGATCTGGTCAGGGGATGACACTG-TTCATACGTGATGAAGAGTTATG
1 GCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACAC-GACTCATACGTGATGAAGAGTTATG
* * * * * *
451844 GCCATCTTTAGGAATGGTGATAACTCGGTTCCTACGTGATAAGGACGACTAGTTATCTAGTGGTG
65 GCCATCTTTAGGAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGT-GTG
*
451909 ACATG
129 ACACG
* * * * *
451914 GCTCTTACGTGATGAGGAGGTCTGGTCGGTGGATGACACAACTCATACGTGATGAAGAGTTCTGA
1 GCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGTGATGAAGAGTTATGG
* * *
451979 CCATCTTTAGGGAGGGTGATAACACGGTTCCTACGTGATGAGCACGGCTGGTTATCTGGTGTGAC
66 CCATCTTTAGGAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGTGTGAC
452044 ACG
131 ACG
*
452047 GCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACATGATGAAGAGTTATGG
1 GCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGTGATGAAGAGTTATGG
* * * *
452112 CCATCTTTAGGAAAGGCGATAACACGGTTTCTACGTGATGAGGATGGCTGGTTATCTGGGGTGAC
66 CCATCTTTAGGAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGTGTGAC
*
452177 ACA
131 ACG
* **
452180 ACTCCTATATGATGAGGAGG
1 GCTCCTACGTGATGAGGAGG
452200 GCAGACCATC
Statistics
Matches: 252, Mismatches: 33, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
133 143 0.57
134 109 0.43
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.27
Consensus pattern (133 bp):
GCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGTGATGAAGAGTTATGG
CCATCTTTAGGAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGTGTGAC
ACG
Found at i:452320 original size:30 final size:32
Alignment explanation
Indices: 452284--452342 Score: 104
Period size: 30 Copynumber: 1.9 Consensus size: 32
452274 TGAGAAAAAA
452284 TTTGTTTCAATG-AAAT-GACTCAAAGATGGT
1 TTTGTTTCAATGTAAATAGACTCAAAGATGGT
452314 TTTGTTTCAATGTAAATAGACTCAAAGAT
1 TTTGTTTCAATGTAAATAGACTCAAAGAT
452343 TTTGTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 12 0.44
31 4 0.15
32 11 0.41
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (32 bp):
TTTGTTTCAATGTAAATAGACTCAAAGATGGT
Found at i:452354 original size:32 final size:29
Alignment explanation
Indices: 452284--452351 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 29
452274 TGAGAAAAAA
452284 TTTGTTTCAATGAAATGACTCAAAGATGGT
1 TTTGTTTCAATGAAATGACTCAAAGAT-GT
452314 TTTGTTTCAATGTAAATAGACTCAAAGAT-T
1 TTTGTTTCAATG-AAAT-GACTCAAAGATGT
452344 TTGTGTTT
1 TT-TGTTT
452352 TCAGAAAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
30 15 0.43
31 9 0.26
32 11 0.31
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.43
Consensus pattern (29 bp):
TTTGTTTCAATGAAATGACTCAAAGATGT
Found at i:452470 original size:65 final size:67
Alignment explanation
Indices: 452313--452483 Score: 167
Period size: 65 Copynumber: 2.6 Consensus size: 67
452303 TCAAAGATGG
* * *
452313 TTTTGTTTC-AATGTAAATAGACTCAAAGATTTTGTGTTTTCAGAAAACCTGCCTCAATGGAGAC
1 TTTTGTTTCAAAAG-AAATAGACTCAAAGATTTTGTGTTTACAGAAAAACTGCCTCAATGGAGAC
452377 AAA
65 AAA
* ** * * *
452380 ATTTGTTTCAATGGAAA-CGATCTCAAAGGTTTT-T-TTTACA-AAAAACTGTCTCAA-GAGAGA
1 TTTTGTTTCAAAAGAAATAGA-CTCAAAGATTTTGTGTTTACAGAAAAACTGCCTCAATG-GAGA
452440 CAAA
64 CAAA
452444 TTTTTGTTTCAAAAGAAATAGACTCAAAGATCTTT-TGTTT
1 -TTTTGTTTCAAAAGAAATAGACTCAAAGAT-TTTGTGTTT
452484 CAAAAGAAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 14
0.76 0.12 0.13
Matches are distributed among these distances:
63 1 0.01
64 20 0.24
65 27 0.32
66 9 0.11
67 25 0.30
68 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (67 bp):
TTTTGTTTCAAAAGAAATAGACTCAAAGATTTTGTGTTTACAGAAAAACTGCCTCAATGGAGACA
AA
Found at i:452500 original size:30 final size:31
Alignment explanation
Indices: 452445--452504 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
452435 AGAGACAAAT
452445 TTTTGTTTCAAAAGAAATAGACTCAAAGATC
1 TTTTGTTTCAAAAGAAATAGACTCAAAGATC
452476 TTTTGTTTCAAAAGAAAT-GACTCAAAGAT
1 TTTTGTTTCAAAAGAAATAGACTCAAAGAT
452505 GATGGTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (31 bp):
TTTTGTTTCAAAAGAAATAGACTCAAAGATC
Found at i:452642 original size:36 final size:35
Alignment explanation
Indices: 452543--452645 Score: 134
Period size: 36 Copynumber: 2.9 Consensus size: 35
452533 ATAATTTGGA
* * *
452543 AAATTATCTCAAGTGAGAAAACATTCGTTTTTAGAG
1 AAATTGTCTCAAGCGAGAAAA-ATTTGTTTTTAGAG
*
452579 AAATTGTCTCAAGCGAGATAAAATTTGTTTTTAGAT
1 AAATTGTCTCAAGCGAGA-AAAATTTGTTTTTAGAG
*
452615 AAATTGTCTCAAGCGAGACAAAGTTTGTTTT
1 AAATTGTCTCAAGCGAGA-AAAATTTGTTTT
452646 AAAAAAACGA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 57 0.95
37 3 0.05
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (35 bp):
AAATTGTCTCAAGCGAGAAAAATTTGTTTTTAGAG
Found at i:452660 original size:35 final size:35
Alignment explanation
Indices: 452549--452679 Score: 104
Period size: 36 Copynumber: 3.7 Consensus size: 35
452539 TGGAAAATTA
* * * **
452549 TCTCAAGTGAGA-AAACATTCGTTTTTAGAGAAATTG
1 TCTCAAGCGAGATAAA-ATTTG-TTTTAGAAAAAACG
* **
452585 TCTCAAGCGAGATAAAATTTGTTTTTAGATAAATTG
1 TCTCAAGCGAGATAAAATTTG-TTTTAGAAAAAACG
* *
452621 TCTCAAGCGAGACAAAGTTTGTTTTA-AAAAAACG
1 TCTCAAGCGAGATAAAATTTGTTTTAGAAAAAACG
* *
452655 ATCTCAAGTGAGATAAACTTTGTTT
1 -TCTCAAGCGAGATAAAATTTGTTT
452680 AATGTGAAAC
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
34 5 0.06
35 26 0.32
36 48 0.59
37 3 0.04
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (35 bp):
TCTCAAGCGAGATAAAATTTGTTTTAGAAAAAACG
Found at i:452738 original size:39 final size:37
Alignment explanation
Indices: 452695--452781 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 37
452685 GAAACAAATT
*
452695 CAAAATTTGTATCTC-AAAGGAAAAATGTCTCAAGCGAGA
1 CAAAATTTGT-TCTCTAAA-G-AAAATGTCTCAAGCAAGA
* *
452734 CAAAATTTGTTTTCTAAAGAAATTGTCTCAAGCAAGA
1 CAAAATTTGTTCTCTAAAGAAAATGTCTCAAGCAAGA
452771 CAAAATTTGTT
1 CAAAATTTGTT
452782 TTTGAATGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 27 0.61
38 4 0.09
39 13 0.30
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
CAAAATTTGTTCTCTAAAGAAAATGTCTCAAGCAAGA
Found at i:452766 original size:37 final size:36
Alignment explanation
Indices: 452720--452827 Score: 137
Period size: 37 Copynumber: 3.0 Consensus size: 36
452710 AAAGGAAAAA
*
452720 TGTCTCAAGCGAGACAAAATTTGTTTTCTAAAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTT-TAAAGAAAC
* *
452757 TGTCTCAAGCAAGACAAAATTTGTTTTTGAATGAAAC
1 TGTCTCAAGCGAGACAAAATTTGTTTTT-AAAGAAAC
* **
452794 TATCTCAAATGAGACAAAATTTGTTTTT-AAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAAAGAAA
452828 ATAATCTCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
35 5 0.08
36 1 0.02
37 56 0.90
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAAAGAAAC
Found at i:453149 original size:14 final size:14
Alignment explanation
Indices: 453120--453160 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
453110 TTATGTATCA
*
453120 TGTATGTATGTGTG
1 TGTATGTATGTATG
*
453134 TGTATGTATTTATG
1 TGTATGTATGTATG
453148 TGT-TG-ATGTATG
1 TGTATGTATGTATG
453160 T
1 T
453161 TTTTCTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 7 0.29
13 2 0.08
14 15 0.62
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (14 bp):
TGTATGTATGTATG
Found at i:454175 original size:2 final size:2
Alignment explanation
Indices: 454168--454239 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
454158 TTTTATTATG
454168 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
454210 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
454240 TTTGGGTATA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:459200 original size:17 final size:20
Alignment explanation
Indices: 459177--459222 Score: 71
Period size: 17 Copynumber: 2.5 Consensus size: 20
459167 ATAAAATATT
459177 TAATAATAATA-ATA-ATAC
1 TAATAATAATATATATATAC
459195 -AATAATAATATATATATAC
1 TAATAATAATATATATATAC
459214 TAATAATAA
1 TAATAATAA
459223 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.40
18 3 0.12
19 4 0.16
20 8 0.32
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
TAATAATAATATATATATAC
Found at i:459696 original size:20 final size:20
Alignment explanation
Indices: 459665--459717 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
459655 TGATTTAAAC
*
459665 TTTGATTAAAAAACTTATCAT
1 TTTGA-TAAAAAACTTAACAT
* *
459686 TTTGATAAAAAAGTTAACCT
1 TTTGATAAAAAACTTAACAT
*
459706 TTTCATAAAAAA
1 TTTGATAAAAAA
459718 ATTTAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (20 bp):
TTTGATAAAAAACTTAACAT
Found at i:464640 original size:35 final size:35
Alignment explanation
Indices: 464575--464642 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
464565 CCTTAGGTCC
**
464575 ATAAGGAATTATCATCTCGACCAATTTGAACCTAT
1 ATAAGGAATTATCATCTCGACCAAGCTGAACCTAT
* *
464610 ATAAGGAATTATCAGT-TTGACCGAGCTGAACCT
1 ATAAGGAATTATCA-TCTCGACCAAGCTGAACCT
464643 GCATACTCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (35 bp):
ATAAGGAATTATCATCTCGACCAAGCTGAACCTAT
Found at i:466526 original size:54 final size:54
Alignment explanation
Indices: 466467--466810 Score: 427
Period size: 54 Copynumber: 6.4 Consensus size: 54
466457 TTCGTTGAGA
* * ** * * * * *
466467 TGCACACGTAGTGCCAATATGGTCATTCATAAACATATTATGAATACCATGGGT
1 TGCACACATAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
* * ** * *
466521 TGCACACATAGTGCCTAAATGGTTGTTCATCAACATATGATGAATTATGCGGTT
1 TGCACACATAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
* * *
466575 TGCACACATAGTGCCAAAACGGTTGTTCATAAACTTATGATGAATTCCGCGGGT
1 TGCACACATAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
* * *
466629 TGTACACATAGTGCCAAAATGGTTGTTTATCAACTTATGATGAATTCTGTGGGT
1 TGCACACATAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
* * *
466683 TGCACATATAGTGCCAAAATGGTTGTTCGTCAACTTATGATGAATTTCGTGGGT
1 TGCACACATAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
** * *
466737 TGCACACATAGTGCCAAAACAGTTGTTCATTAACTTATGATGAATTCTGTGGGT
1 TGCACACATAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
*
466791 TGCACATATAGTGCCAAAAT
1 TGCACACATAGTGCCAAAAT
466811 ACACATAGTA
Statistics
Matches: 249, Mismatches: 41, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 249 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (54 bp):
TGCACACATAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
Found at i:473477 original size:54 final size:54
Alignment explanation
Indices: 473395--473728 Score: 420
Period size: 54 Copynumber: 6.2 Consensus size: 54
473385 GATACGAATG
* ** * * * *
473395 TAGTGCCAATATGGTCATTCAT-ACACATATTATGAATACTGTGGGTTGCAAAAA
1 TAGTGCCAAAATGGTTGTTCATCA-ACTTATGATGAATTCTGTGGGTTGCACAAA
* * * * * * *
473449 TAATGCCTAAATGGTTGTTCATCAACATATAATGAATTCTATGGTTTGCACACA
1 TAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCTGTGGGTTGCACAAA
*
473503 TAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGTTGCACAAA
1 TAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCTGTGGGTTGCACAAA
* *
473557 TAATGCCAAAATGGTTGTTCATCAACTTATGATGAATTCTGTGGGTTGCACATA
1 TAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCTGTGGGTTGCACAAA
* * *
473611 TAGTGCCAAAATGGTTATTCATCAACTTATGATGAATTCCGTGGGTTGCACACA
1 TAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCTGTGGGTTGCACAAA
* * *
473665 TAGTGCTAAAACGGTTGTTCATCAACTTATGATGAATT-TCGTGGGTTGCACATA
1 TAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCT-GTGGGTTGCACAAA
*
473719 TAGTGTCAAA
1 TAGTGCCAAA
473729 TTACACATAG
Statistics
Matches: 245, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
54 244 1.00
55 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (54 bp):
TAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCTGTGGGTTGCACAAA
Found at i:480370 original size:15 final size:15
Alignment explanation
Indices: 480350--480384 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
480340 TATATACTTT
480350 AAGCAAAAATTGTCG
1 AAGCAAAAATTGTCG
*
480365 AAGCAAAACTTGTCG
1 AAGCAAAAATTGTCG
480380 AAGCA
1 AAGCA
480385 GTTTGCTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (15 bp):
AAGCAAAAATTGTCG
Found at i:483961 original size:29 final size:30
Alignment explanation
Indices: 483862--483968 Score: 146
Period size: 30 Copynumber: 3.6 Consensus size: 30
483852 CTAAAAATAA
*
483862 TTTACGTAAAAT-AGATTATTTGAAAACTGT
1 TTTACGTAAAATGA-ATTATATGAAAACTGT
* * *
483892 TTTACGTAAAATAAATTACATGAAAAATGT
1 TTTACGTAAAATGAATTATATGAAAACTGT
*
483922 TTTACGTAAAATGAATTATAT-AAAGCTGT
1 TTTACGTAAAATGAATTATATGAAAACTGT
483951 TTTACGTAAAATGAATTA
1 TTTACGTAAAATGAATTA
483969 CATTTTTTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.35
30 44 0.64
31 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (30 bp):
TTTACGTAAAATGAATTATATGAAAACTGT
Found at i:484467 original size:19 final size:18
Alignment explanation
Indices: 484444--484494 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
484434 TTAATATTTT
*
484444 AATTAAAATGATATTAAA
1 AATTAAAATAATATTAAA
*
484462 ATATTAAATTAATATTAAA
1 A-ATTAAAATAATATTAAA
484481 AA-TAAAATAATATT
1 AATTAAAATAATATT
484495 TTTTTTGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 11 0.38
18 2 0.07
19 16 0.55
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AATTAAAATAATATTAAA
Found at i:487389 original size:30 final size:31
Alignment explanation
Indices: 487322--487412 Score: 123
Period size: 30 Copynumber: 2.9 Consensus size: 31
487312 AATCAAATAC
487322 TGATTATT-AAGATACATATTCATTGTATACCGA
1 TGATTATTAAAGATACATATTCA-T-TATA-CGA
**
487355 TGATTATTAAAGATTTATATTCATTATA-GA
1 TGATTATTAAAGATACATATTCATTATACGA
487385 TGATTATTAAAGATACATATTCATTATA
1 TGATTATTAAAGATACATATTCATTATA
487413 TTTATATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
30 28 0.53
32 4 0.08
33 9 0.17
34 12 0.23
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (31 bp):
TGATTATTAAAGATACATATTCATTATACGA
Found at i:497912 original size:16 final size:16
Alignment explanation
Indices: 497888--497921 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
497878 TATCGCCGAC
*
497888 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
497904 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
497920 CG
1 CG
497922 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:520986 original size:14 final size:14
Alignment explanation
Indices: 520969--521008 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
520959 TCCTCTTTTT
520969 TTATTTATATTATA
1 TTATTTATATTATA
*
520983 TTATTTTTATTATA
1 TTATTTATATTATA
520997 TATATCTTATAT
1 T-TAT-TTATAT
521009 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:520990 original size:23 final size:24
Alignment explanation
Indices: 520931--521001 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 24
520921 TATATTTTTA
*
520931 ATTATATTTTTTTATTTATTTACTAT
1 ATTATATTTTTTTATTTA--TATTAT
* *
520957 ATTCCTCTTTTTTTATTTATATTAT
1 ATT-ATATTTTTTTATTTATATTAT
* *
520982 ATTAT-TTTTATTATATATAT
1 ATTATATTTTTTTATTTATAT
521002 CTTATATCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 13 0.34
24 1 0.03
25 8 0.21
26 3 0.08
27 13 0.34
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTATATTTTTTTATTTATATTAT
Found at i:521000 original size:2 final size:2
Alignment explanation
Indices: 520993--521035 Score: 54
Period size: 2 Copynumber: 22.0 Consensus size: 2
520983 TTATTTTTAT
*
520993 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
521034 TA
1 TA
521036 GATGTATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
1 2 0.05
2 33 0.89
3 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:521106 original size:37 final size:34
Alignment explanation
Indices: 521065--521161 Score: 110
Period size: 37 Copynumber: 2.9 Consensus size: 34
521055 ATTTACTATG
521065 TATATATATTTTTTTAATATTATATTTTATACGTTTT
1 TATATATATTTTTTTAATATTATATTTT-T--GTTTT
* *
521102 TATATATATTTTCTTAATATTCTATTTTTGTTTT
1 TATATATATTTTTTTAATATTATATTTTTGTTTT
* *
521136 TAT-T-TATTTATAT-ATATTATATTTTT
1 TATATATATTTTTTTAATATTATATTTTT
521162 ACTTTATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
31 12 0.22
32 6 0.11
33 1 0.02
34 8 0.15
36 1 0.02
37 26 0.48
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (34 bp):
TATATATATTTTTTTAATATTATATTTTTGTTTT
Found at i:521348 original size:9 final size:8
Alignment explanation
Indices: 521329--521373 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
521319 TGTCTTTGTT
*
521329 TTTTAATA
1 TTTTATTA
521337 TTTTATTCA
1 TTTTATT-A
521346 TTTTATTTA
1 TTTTA-TTA
521355 TTTTTATTA
1 -TTTTATTA
521364 TTTTATTA
1 TTTTATTA
521372 TT
1 TT
521374 ATTTTTTACG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 16 0.48
9 10 0.30
10 7 0.21
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTATTA
Found at i:524560 original size:14 final size:14
Alignment explanation
Indices: 524521--524566 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
524511 AATCAGAACA
*
524521 AAAAGAAAAAAGAG
1 AAAATAAAAAAGAG
*
524535 AAAA-AAGTAAAGAG
1 AAAATAA-AAAAGAG
524549 AAAATAAAAAAG-G
1 AAAATAAAAAAGAG
524562 AAAAT
1 AAAAT
524567 TGAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 8 0.29
14 18 0.64
15 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATAAAAAAGAG
Found at i:526831 original size:32 final size:32
Alignment explanation
Indices: 526752--526864 Score: 122
Period size: 32 Copynumber: 3.5 Consensus size: 32
526742 TGAAGGCATC
*
526752 TTTGAAGATTCAACATCAAATGTTGGGACATTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCATTT
* *
526785 TTT-AAATTTTAACATCAAATGTTGGGGCATTT
1 TTTGAGA-TTCAACATCAAATGTTGGGGCATTT
* * *
526817 TTTGAGATTCAACATCGAATATTGGGGCA-TC
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
*
526848 TTTGGGAATTCAACATC
1 TTTGAG-ATTCAACATC
526865 CTGATGCAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
31 8 0.12
32 55 0.81
33 5 0.07
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:527630 original size:106 final size:105
Alignment explanation
Indices: 527481--527791 Score: 461
Period size: 106 Copynumber: 3.0 Consensus size: 105
527471 TGCCACCTGT
* *
527481 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGCTTGTCAACAAATAATTTTCCAATTTC
1 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAAAAATTTTCC-ATTTC
*
527546 AGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCAA
65 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAA
* *
527587 GACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAAAAATTTCCCAGTTTC
1 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAAAAATTTTCCA-TTTC
* * *
527652 AAAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCGA
65 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAA
* *
527693 GACAACACAAGTTCAACTTCACAGCGAAGGGACGGCTGGTTGTCAACAAACAA-TTTCC----CA
1 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAAAAATTTTCCATTTCA
* *
527753 GAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTCA
66 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
527792 GAACAATACA
Statistics
Matches: 187, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
100 36 0.19
105 5 0.03
106 146 0.78
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (105 bp):
GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAAAAATTTTCCATTTCA
GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAA
Found at i:528205 original size:65 final size:65
Alignment explanation
Indices: 528125--528300 Score: 212
Period size: 65 Copynumber: 2.7 Consensus size: 65
528115 GAATCAGTTC
*
528125 CCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAAC-AT
1 CCCTTGAAATAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAATCATTG-AAACTAT
528188 TT
64 TT
* * * * * * *
528190 CCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTATCTTGAAACAAAATCTTTGAATCTGTTT
1 CCCTTGAAATAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCATTGAAACTATTT
* * * *
528255 CCCTTGAAATAAACTTCGTCTCCCTTGAGACATTTTCTGTTGAAAC
1 CCCTTGAAATAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
528301 TAAGTTTTGT
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 6 0.06
65 87 0.94
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (65 bp):
CCCTTGAAATAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCATTGAAACTATTT
Found at i:528438 original size:93 final size:93
Alignment explanation
Indices: 528289--528467 Score: 295
Period size: 93 Copynumber: 1.9 Consensus size: 93
528279 TTGAGACATT
* * * * * *
528289 TTCTGTTGAAACTAAGTTTTGTTTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTAAAAACA
1 TTCTCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACA
528354 TTTCCCTTGAAATGAATTTTGAGATAGG
66 TTTCCCTTGAAATGAATTTTGAGATAGG
*
528382 TTCTCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
1 TTCTCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACA
528447 TTTCCCTTGAAATGAATTTTG
66 TTTCCCTTGAAATGAATTTTG
528468 GTCTCTCTTG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 79 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (93 bp):
TTCTCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACA
TTTCCCTTGAAATGAATTTTGAGATAGG
Found at i:528491 original size:15 final size:15
Alignment explanation
Indices: 528471--528508 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
528461 AATTTTGGTC
528471 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
528486 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
*
528501 TCCCTTGA
1 TCTCTTGA
528509 AACTTCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (15 bp):
TCTCTTGAGACAGTT
Found at i:528569 original size:33 final size:34
Alignment explanation
Indices: 528529--528611 Score: 123
Period size: 34 Copynumber: 2.5 Consensus size: 34
528519 TTTGAATACA
*
528529 GTTTCTCTTGAAACAC-AAAAAACATTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAACATTTGAAAAT
* *
528562 GTTTCTCTTGAAGCACAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAACATTTGAAAAT
*
528596 GTTTCTCTTAAAACAC
1 GTTTCTCTTGAAACAC
528612 CAAACCCTCG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 15 0.34
34 29 0.66
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (34 bp):
GTTTCTCTTGAAACACAAAAAAACATTTGAAAAT
Found at i:529889 original size:14 final size:15
Alignment explanation
Indices: 529873--529945 Score: 73
Period size: 14 Copynumber: 5.1 Consensus size: 15
529863 CCTCTTTTTT
529873 TATTTATATTATAT-
1 TATTTATATTATATA
*
529887 TATTTTTATTATATA
1 TATTTATATTATATA
*
529902 TATCTTATATCAT-TA
1 TAT-TTATATTATATA
*
529917 TATATATA-TATATA
1 TATTTATATTATATA
*
529931 TATATATA-TATATA
1 TATTTATATTATATA
529945 T
1 T
529946 GTATAGATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
13 2 0.04
14 34 0.67
15 8 0.16
16 7 0.14
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTATATTATATA
Found at i:529903 original size:2 final size:2
Alignment explanation
Indices: 529896--529950 Score: 69
Period size: 2 Copynumber: 28.0 Consensus size: 2
529886 TTATTTTTAT
*
529896 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
*
529937 TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA
529951 GATGTATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.04
2 43 0.91
3 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:530059 original size:32 final size:36
Alignment explanation
Indices: 529981--530076 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 36
529971 TTTACTATGA
*
529981 ATATATTTTTTCTTAATATTATATTTTATACGTTTTT
1 ATATATATTTTCTTAATATTATATTTTATA-GTTTTT
*
530018 ATATATATTTTCTTAATATTCTATTTT-T-GTTTTT
1 ATATATATTTTCTTAATATTATATTTTATAGTTTTT
*
530052 AT-T-TA-TTT-ATATATATTATATTTTA
1 ATATATATTTTCTTA-ATATTATATTTTA
530077 CTTTATTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
30 2 0.04
31 14 0.26
32 2 0.04
33 1 0.02
34 8 0.15
36 1 0.02
37 25 0.47
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (36 bp):
ATATATATTTTCTTAATATTATATTTTATAGTTTTT
Found at i:530200 original size:18 final size:17
Alignment explanation
Indices: 530173--530226 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
530163 TTTTTATTCA
530173 TTTTTAATTTCTTTTACC
1 TTTTTAATTT-TTTTACC
*
530191 TTTTTTATTTTTTTA-C
1 TTTTTAATTTTTTTACC
*
530207 TCTATTAATTTTTTT-CC
1 T-TTTTAATTTTTTTACC
530224 TTT
1 TTT
530227 ATCTGTGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 3 0.10
17 18 0.60
18 9 0.30
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTAATTTTTTTACC
Found at i:530902 original size:17 final size:17
Alignment explanation
Indices: 530880--530913 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
530870 AAAAAAATTA
530880 TATTTTTATTTAATTTT
1 TATTTTTATTTAATTTT
*
530897 TATTTTTATTTGATTTT
1 TATTTTTATTTAATTTT
530914 ATAAATTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TATTTTTATTTAATTTT
Found at i:531511 original size:19 final size:18
Alignment explanation
Indices: 531483--531518 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
531473 ATATTTAATT
531483 TCTTATTATAACTATAAA
1 TCTTATTATAACTATAAA
*
531501 TCTTCATTATAATTATAA
1 TCTT-ATTATAACTATAA
531519 TATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (18 bp):
TCTTATTATAACTATAAA
Found at i:533768 original size:30 final size:30
Alignment explanation
Indices: 533722--533913 Score: 201
Period size: 30 Copynumber: 6.5 Consensus size: 30
533712 TAAAAAAAAC
* * *
533722 ATAATAATAACATATATTTTTTAATTTAAG
1 ATAAGAATAAAATATATTTTTTAAGTTAAG
* ** *
533752 ATAAGATTAAAATATATTTAATAATTTAAG
1 ATAAGAATAAAATATATTTTTTAAGTTAAG
* * *
533782 ATAAAAATAAAACATATTATTTAAGTTAAG
1 ATAAGAATAAAATATATTTTTTAAGTTAAG
* * * *
533812 TTAAGACTGAAATATATTTTTTAAGTTAAA
1 ATAAGAATAAAATATATTTTTTAAGTTAAG
* *
533842 ATAAGAATAATATATA-TTTTTAAGTTAAA
1 ATAAGAATAAAATATATTTTTTAAGTTAAG
*
533871 ATAA-AATAAAATATA-TTTTTAAATTAAG
1 ATAAGAATAAAATATATTTTTTAAGTTAAG
*
533899 ATAAAAATAAAATAT
1 ATAAGAATAAAATAT
533914 TTAAAAAAAA
Statistics
Matches: 135, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
28 25 0.19
29 27 0.20
30 83 0.61
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (30 bp):
ATAAGAATAAAATATATTTTTTAAGTTAAG
Found at i:536257 original size:30 final size:30
Alignment explanation
Indices: 536223--536292 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
536213 GTTATATGAG
*
536223 CTATGTGATAAAGGTATAGAAATGATATGT
1 CTATGTGATAAAGGTATAGAAATAATATGT
* *
536253 CTATGTGATAAAGGTATGGAAATAATCTGT
1 CTATGTGATAAAGGTATAGAAATAATATGT
*
536283 CTATGAGATA
1 CTATGTGATA
536293 CATTATGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.33
Consensus pattern (30 bp):
CTATGTGATAAAGGTATAGAAATAATATGT
Found at i:543324 original size:30 final size:30
Alignment explanation
Indices: 543290--543358 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
543280 TTATATGAGT
*
543290 TATGTGATAAAGGTATGGAAATGATATGTC
1 TATGTGATAAAGGTATGGAAATAATATGTC
543320 TATGTGATAAAGGTATGGAAATAATATGTC
1 TATGTGATAAAGGTATGGAAATAATATGTC
*
543350 TATGAGATA
1 TATGTGATA
543359 CGCTATGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (30 bp):
TATGTGATAAAGGTATGGAAATAATATGTC
Found at i:544306 original size:22 final size:22
Alignment explanation
Indices: 544259--544311 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
544249 AGCATTCGGT
* *
544259 ATTGTTCATCATTGTTCACGAT
1 ATTGTTCATCATTGTTCACAAC
* *
544281 ATTGTTCATTATTGTTCATAAC
1 ATTGTTCATCATTGTTCACAAC
544303 ATTGTTCAT
1 ATTGTTCAT
544312 ACCATATAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (22 bp):
ATTGTTCATCATTGTTCACAAC
Found at i:547989 original size:16 final size:16
Alignment explanation
Indices: 547965--547995 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
547955 AGGATCATGT
547965 TGTTATTTGGAGCTGC
1 TGTTATTTGGAGCTGC
*
547981 TGTTGTTTGGAGCTG
1 TGTTATTTGGAGCTG
547996 TTTTTGGATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.35, T:0.45
Consensus pattern (16 bp):
TGTTATTTGGAGCTGC
Found at i:550389 original size:20 final size:20
Alignment explanation
Indices: 550364--550403 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
550354 AAAATAGAAA
550364 ACTAAATATGTGCATTTTTT
1 ACTAAATATGTGCATTTTTT
*
550384 ACTAAATATTTGCATTTTTT
1 ACTAAATATGTGCATTTTTT
550404 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (20 bp):
ACTAAATATGTGCATTTTTT
Found at i:555964 original size:26 final size:26
Alignment explanation
Indices: 555917--555966 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
555907 GTTAATAATT
*
555917 TTTTTTAAAATATATTAAATTTATAA
1 TTTTTTAAAATATATAAAATTTATAA
*
555943 TTTTTTAAATTATA-AAATATTTAT
1 TTTTTTAAAATATATAAA-ATTTAT
555967 TATCATCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTTTAAAATATATAAAATTTATAA
Found at i:567089 original size:35 final size:36
Alignment explanation
Indices: 567050--567146 Score: 119
Period size: 36 Copynumber: 2.7 Consensus size: 36
567040 AACATAGTAA
* *
567050 TCAATTACATTCAAAACCCCATATTCC-AAAATATT
1 TCAATTACATTCAAAACCCCAAATTCCAAAAATACT
* *
567085 TCAATTACATTCTAAACCTCAAATTCCAAAAATACT
1 TCAATTACATTCAAAACCCCAAATTCCAAAAATACT
567121 TCAATTACATGGTC--AACCCCAAATTC
1 TCAATTACAT--TCAAAACCCCAAATTC
567147 ATAACCCATT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
35 24 0.44
36 28 0.52
38 2 0.04
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.30
Consensus pattern (36 bp):
TCAATTACATTCAAAACCCCAAATTCCAAAAATACT
Found at i:567892 original size:143 final size:144
Alignment explanation
Indices: 567631--567893 Score: 420
Period size: 143 Copynumber: 1.8 Consensus size: 144
567621 AAAACTATTT
* * * * *
567631 AAATTAGAATCAAATAATATTATAGTATTATAAATATTTATAATTAAATTTAAATAGAAACTCAA
1 AAATTAGAATCAAATAATATTAAAATATGAAAAATATTTATAATTAAATTTAAACAGAAACTCAA
* * *
567696 AAATTCAATTCAATTCGACTTGGTTTAAATTTTATAAACTAAAATCGAAAAAATTTTGAGTCAAC
66 AAATTCAATTCAATACGACTTGATTTAAATTTTATAAACTAAAATCAAAAAAATTTTGAGTCAAC
567761 TATTTAATAAACTG
131 TATTTAATAAACTG
*
567775 AAATTAGAATCAAATAATA-TAAAATATGAAAAATATTTATAATTAAATTTAAACAGAAACTCGA
1 AAATTAGAATCAAATAATATTAAAATATGAAAAATATTTATAATTAAATTTAAACAGAAACTCAA
* *
567839 AAATTCAATTCAATACGACTTGATTTAAATTTTATAAATTAAAATTAAAAAAATT
66 AAATTCAATTCAATACGACTTGATTTAAATTTTATAAACTAAAATCAAAAAAATT
567894 GCGTTAACTA
Statistics
Matches: 108, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
143 89 0.82
144 19 0.18
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (144 bp):
AAATTAGAATCAAATAATATTAAAATATGAAAAATATTTATAATTAAATTTAAACAGAAACTCAA
AAATTCAATTCAATACGACTTGATTTAAATTTTATAAACTAAAATCAAAAAAATTTTGAGTCAAC
TATTTAATAAACTG
Found at i:568117 original size:35 final size:35
Alignment explanation
Indices: 568063--568157 Score: 127
Period size: 35 Copynumber: 2.7 Consensus size: 35
568053 ATGGATTATG
** * *
568063 AATTTGAGGTTGGGTATGTAATTGAAGTATTTTGA
1 AATTTGAGGTTTAGAATGTAATTGAAATATTTTGA
*
568098 AATTTGAGGTTTAGAATGTAATTGAAATATTTTGG
1 AATTTGAGGTTTAGAATGTAATTGAAATATTTTGA
* *
568133 ATTTTGGGGTTTAGAATGTAATTGA
1 AATTTGAGGTTTAGAATGTAATTGA
568158 TGACTTTGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (35 bp):
AATTTGAGGTTTAGAATGTAATTGAAATATTTTGA
Done.