Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 66 of 78
Found at i:13378570 original size:18 final size:18
Alignment explanation
Indices: 13378547--13378582 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13378537 ATAGATGTTT
*
13378547 TTCAAGGGTGGAACATCA
1 TTCAAGGATGGAACATCA
13378565 TTCAAGGATGGAACATCA
1 TTCAAGGATGGAACATCA
13378583 ACAGACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (18 bp):
TTCAAGGATGGAACATCA
Found at i:13379967 original size:370 final size:371
Alignment explanation
Indices: 13378593--13380656 Score: 1145
Period size: 371 Copynumber: 5.6 Consensus size: 371
13378583 ACAGACTTTT
* * * *** * *
13378593 GATGACTTTTCGAATGGGATCCAAGCATTTCTCTATCAATATGTTTCTTTACAATAAGAT-CAAT
1 GATGACTTTTTGAATGGGATCCGAGCATTTATAGGTCAATATGTCTCTTTA-AATAAGATAAAAT
* * * * * * * * ** * * *
13378657 AGTCTCTTAGCTTTCCAACACATCTTAAAATGCCTCAATCTAATATCAGGAGTTCAAGA-TAAAT
65 -GTCTCTTAGCTTTCAAAAACATATTGAAACGCCTCAATATGATGTTGGGAGCTCAATAGT-AGT
* * * * * * * * * * * *
13378721 CCATTATAACAAAGACAATGCAAGAAAAAATTAATCTAGCAAT-ATACATGAAATCCTTTTATTC
128 CAATTATAACGAAGACAAAGCATGTAGAAATTAATCCAACAATGA-AAATAAAATCATTTAATTC
* ** * * * *
13378785 AT-TCAATGAAAATTTGATCCAATCCTATT-TCATAGGTTGACCAAATTTACTCAATCAAATAAG
192 ATGT-AATGAAAATTTGGTCCAATTATATTAT-ATAAGTTGTCCAAATTTACTC-ACCCAATAAG
* * * * ** * * * *
13378848 AGATATTTTATAGCTTTTATCTTAATTTATAACCTGATATAAGGAT--GA-GA--CAACTTGCCA
254 GGGTATTTTATAG-ATTTATTTTAATTTATAAGTTGATATGAGGATAAGAGGAGTAAACTAGACA
* * * * * *
13378908 TCTTGGACAATAAGTT-AGAGCTATTTTTCAAGG-TTGGACATCAATCG-ACTTAC
318 TCTTGAACAAGAAGTTGA-AGCTATTTTTCAAGGCTAGAACATCATTAGAAC-TAC
* ** * * * * *
13378961 AACAACTTTTTGAATAGGATCTGAGCATTTCTAGGTCACTATGTCTCTTTTCAATAAGA-AAAAC
1 GATGACTTTTTGAATGGGATCCGAGCATTTATAGGTCAATATGTCTC-TTTAAATAAGATAAAA-
* * ** * * ** * * **** * * *
13379025 TTTCTCTTATCTTTCAAACCCATCTTCAAATACCTCCAT-TCATTGTCAATAACTCAAGA-TAAA
64 TGTCTCTTAGCTTTCAAAAACATATTGAAACGCCTCAATATGA-TGTTGGGAGCTCAATAGT-AG
* * * * * * *
13379088 CCCATTATAATGAAGATAAAGCATGCAGAAATTAATCCAGA-AATGAACAA-GAAATCTTTTAAT
127 TCAATTATAACGAAGACAAAGCATGTAGAAATTAATCCA-ACAATGAA-AATAAAATCATTTAAT
* ** ** * * *
13379151 T-ATCGTAAAGAAAATTCAGTCCAATCCTATTTTATAAATTGACCAAATTTACT-ATTCCCAATA
190 TCAT-GTAATGAAAATTTGGTCCAATTATATTATATAAGTTGTCCAAATTTACTCA--CCCAATA
** * * * * **
13379214 AGGATTATTTTATAGCCTTTATCTTAATTTAAAAGTTGATACGAGGATAAGAACTA-TAAACTAG
252 AGGGGTATTTTATAG-ATTTATTTTAATTTATAAGTTGATATGAGGATAAG-AGGAGTAAACTAG
* * * ** * * * * * * *
13379278 CCATCTTTG-ACTAGAAGTTAAATTTGTTTTACAAGGATGGAACATCAGT-GAATTGC
315 ACATC-TTGAACAAGAAGTTGAAGCTATTTTTCAAGGCTAGAACATCATTAGAACTAC
* * * * * * * * * ** *
13379334 AACGACTTTTTGAATTGTATTCAATCATTTCTAGGTCAATATGTCTCTTTCAATAAGATTGAATA
1 GATGACTTTTTGAATGGGATCCGAGCATTTATAGGTCAATATGTCTCTTTAAATAAGATAAAATG
** * * * * * *
13379399 TCTCTTAGCTTTCCAAGGA-ATCTTGAAATGCCT-AATCTGATGTCGGGA-CTTAAT-GATAAAT
66 TCTCTTAGCTTT-CAAAAACATATTGAAACGCCTCAATATGATGTTGGGAGCTCAATAG-T-AGT
* ** ** * * * * * ** *
13379460 CTATTATAATAAAGACAACA-CATCCATAAATCAATCCAACAATGAACATGAAATCCTTCCATTG
128 CAATTATAACGAAGACAA-AGCATGTAGAAATTAATCCAACAATGAAAATAAAATCATTTAATTC
* * * * *
13379524 ATGTAATGAAAATTTGATTCAATTATATTATATAAGTTGACCGAACTTT-CACATCCCAATAAGG
192 ATGTAATGAAAATTTGGTCCAATTATATTATATAAGTTGTCC-AAATTTACTCA-CCCAATAAGG
** *
13379588 GGT-TTTTATATCTTATATTTTAATTTATAAGTTGATATGAGGATGAGAGGAGTAAACTAGACAT
255 GGTATTTTATAGATT-TATTTTAATTTATAAGTTGATATGAGGATAAGAGGAGTAAACTAGACAT
* * *
13379652 ATTGGACAAGAAGTTGAAGTTATTTTTCAAGGCTAGAACATCATTAGAACTAC
319 CTTGAACAAGAAGTTGAAGCTATTTTTCAAGGCTAGAACATCATTAGAACTAC
* * * * * *
13379705 AATGACTTTTTGAATAGGATCCGAGCATTTCTAGATCGATATGTCTCTTTTAATAAGATAAAATG
1 GATGACTTTTTGAATGGGATCCGAGCATTTATAGGTCAATATGTCTCTTTAAATAAGATAAAATG
* * * * *
13379770 TCTCTTAGCTTTCAAAAACATATT-AAACTCCTCAATCTCG-TGTTGGGAGTTCAA-GGTAGTCC
66 TCTCTTAGCTTTCAAAAACATATTGAAACGCCTCAATAT-GATGTTGGGAGCTCAATAGTAGTCA
* *
13379832 ATTATAACGAGGACAAAGCATGTAGAAATTAATCCAACAAT-AAAATAAAACTC-TTTAATTCTT
130 ATTATAACGAAGACAAAGCATGTAGAAATTAATCCAACAATGAAAATAAAA-TCATTTAATTCAT
* * *
13379895 GTAATTAAAATTTGGTCCAATTATATTCTATAAGTTGTTCAAATTTACTCAGCCCAATAAGGGGT
194 GTAATGAAAATTTGGTCCAATTATATTATATAAGTTGTCCAAATTTACTCA-CCCAATAAGGGGT
* * *
13379960 ATTTTATAGATTTTATTTTAATTTATAAGTTGATACT-AGGATTATAGGAGTAAACTAGCCATCT
258 ATTTTATAGA-TTTATTTTAATTTATAAGTTGATA-TGAGGATAAGAGGAGTAAACTAGACATCT
* *
13380024 TGAACAAGAAGTTGAAGCTATTTTTCAAGTCTAGAACATC-TATAG-ACTTCC
321 TGAACAAGAAGTTGAAGCTATTTTTCAAGGCTAGAACATCAT-TAGAAC-TAC
* * * * * * *
13380075 GATGACTTTTTGAAGGGGATCTGAGCATTTTTTTTTTGGTCAATAAGTCTC-TTACAATATGATT
1 GATGACTTTTTGAATGGGATCCGAGCA----TTTATAGGTCAATATGTCTCTTTA-AATAAGATA
* * * ** * * * *
13380139 GAATGTCTCTTCGCTTTCGAACGCATCTTGAAACGCTTTAATATGATGTTGGGAGCTCAATATTA
61 AAATGTCTCTTAGCTTTCAAAAACATATTGAAACGCCTCAATATGATGTTGGGAGCTCAATAGTA
* * * * * *
13380204 GTCAATTATAACTAAGACAATGCATGTAGAAATTAATCTAATAATGAATATGAAATCATTTAATT
126 GTCAATTATAACGAAGACAAAGCATGTAGAAATTAATCCAACAATGAAAATAAAATCATTTAATT
** ** * * *
13380269 CATGTAATGAAAATTAAGTCCAATCCTATTAAATAAGTT-TACCAAACTTAGTCA-CCAATAAGG
191 CATGTAATGAAAATTTGGTCCAATTATATTATATAAGTTGT-CCAAATTTACTCACCCAATAAGG
* *
13380332 GGTAATATATAGATTTGATTTTAATTTATAAGTTGATATGAGGATAAGAGGAGTAAACTA-ACCA
255 GGTATTTTATAGATTT-ATTTTAATTTATAAGTTGATATGAGGATAAGAGGAGTAAACTAGA-CA
* * * * ** **
13380396 TCTTGAACAAGAAGTTGAAGCTATTTCTCAAGGCTAAAATATCAGTAGAGTTGT
318 TCTTGAACAAGAAGTTGAAGCTATTTTTCAAGGCTAGAACATCATTAGAACTAC
* * * ** * *
13380450 GATGACTTTTTGAATGGGATTCGAGCATTTATAGGTCAATATATCTCATTAAATAAGATTGATTC
1 GATGACTTTTTGAATGGGATCCGAGCATTTATAGGTCAATATGTCTCTTTAAATAAGATAAAATG
* ******* * *** * * * * * *
13380515 TCTCTTGGCTTTCCGTCGTGTCTTGAAATATCTTAATATGATCTCGAGAGCTCAAGA-TAAATCA
66 TCTCTTAGCTTTCAAAAACATATTGAAACGCCTCAATATGATGTTGGGAGCTCAATAGT-AGTCA
* * * * ** *
13380579 ATTATAACGAAGACAATGCAAGGAAAAATTAATCCAGTAATGAACATGAAAATCATTTAATTCAT
130 ATTATAACGAAGACAAAGCATGTAGAAATTAATCCAACAATGAAAAT-AAAATCATTTAATTCAT
13380644 GTAATGAAAATTT
194 GTAATGAAAATTT
13380657 ACTCAGCCCA
Statistics
Matches: 1344, Mismatches: 284, Indels: 132
0.76 0.16 0.08
Matches are distributed among these distances:
366 1 0.00
367 4 0.00
368 224 0.17
369 83 0.06
370 250 0.19
371 307 0.23
372 83 0.06
373 78 0.06
374 64 0.05
375 151 0.11
376 44 0.03
377 55 0.04
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (371 bp):
GATGACTTTTTGAATGGGATCCGAGCATTTATAGGTCAATATGTCTCTTTAAATAAGATAAAATG
TCTCTTAGCTTTCAAAAACATATTGAAACGCCTCAATATGATGTTGGGAGCTCAATAGTAGTCAA
TTATAACGAAGACAAAGCATGTAGAAATTAATCCAACAATGAAAATAAAATCATTTAATTCATGT
AATGAAAATTTGGTCCAATTATATTATATAAGTTGTCCAAATTTACTCACCCAATAAGGGGTATT
TTATAGATTTATTTTAATTTATAAGTTGATATGAGGATAAGAGGAGTAAACTAGACATCTTGAAC
AAGAAGTTGAAGCTATTTTTCAAGGCTAGAACATCATTAGAACTAC
Found at i:13380387 original size:375 final size:370
Alignment explanation
Indices: 13379091--13380655 Score: 1152
Period size: 371 Copynumber: 4.2 Consensus size: 370
13379081 AGATAAACCC
* * * * *
13379091 ATTATAATGAAGATAAAGCATGCAGAAATTAATCCAGA-AATGAACAA-GAAATCTTTTAATT-A
1 ATTATAACGAAGACAATGCATGTAGAAATTAATCCA-ATAATGAA-AATGAAATCATTTAATTCA
* * * ** * * *
13379153 TCGTAAAGAAAATTCAGTCCAATCCTATTTTATAAATTGACCAAATTTACT-ATTCCCAATAAGG
64 T-GTAATGAAAATTAAGTCCAATCATATTAAATAAGTTGTCCAAACTTACTCA--CCCAATAAGG
** * * * * * * **
13379217 ATTATTTTATAGCCTTT-ATCTTAATTTAAAAGTTGATACGAGGATAAGAACTA-TAAACTAGCC
126 GGTAATATATAG-ATTTGATTTTAATTTATAAGTTGATATGAGGATAAG-AGGAGTAAACTAGCC
* * ** * * * * * * * *
13379280 ATCTTTG-ACTAGAAGTTAAATTTGTTTTACAAGGATGGAACATCAGT-GAATTGCAACGACTTT
189 ATC-TTGAACAAGAAGTTGAAGCTATTTTTCAAGGCTAGAACATCAGTAGACTTACGATGACTTT
* * * * * * * *
13379343 TTGAATTGTAT-TCAATCATTTCTAGGTCAATATGTCTCTTTCAATAAGATTGAATATCTCTTAG
253 TTGAATGGGATCT-GAGCATTTATAGGTCAATAAGTCTC-TTAAATAAGATTGAATGTCTCTTAG
* * * * * * * * * *
13379407 CTTTCCAAGGAATCTTGAAA-TGC-CTAATCTGATGTCGGGA-CTTAATGATAAATCT
316 CTTTCGAACGCATCTTGAAACT-CTTTAATATGATGTTGGGAGCTCAA--ATTAGTCA
** ** ** * * * * * ** *
13379462 ATTATAATAAAGACAACACATCCATAAATCAATCCAACAATGAACATGAAATCCTTCCATTGATG
1 ATTATAACGAAGACAATGCATGTAGAAATTAATCCAATAATGAAAATGAAATCATTTAATTCATG
* * * * * * * *
13379527 TAATGAAAATT-TGATTCAATTATATTATATAAGTTGACCGAACTTTCACATCCCAATAAGGGGT
66 TAATGAAAATTAAG-TCCAATCATATTAAATAAGTTGTCCAAACTTACTCA-CCCAATAAGGGGT
* * ** * * *
13379591 -TTTTATATCTTAT-ATTTTAATTTATAAGTTGATATGAGGATGAGAGGAGTAAACTAGACATAT
129 AATATATAGATT-TGATTTTAATTTATAAGTTGATATGAGGATAAGAGGAGTAAACTAGCCATCT
* * * *
13379654 TGGACAAGAAGTTGAAGTTATTTTTCAAGGCTAGAACATCATTAGAAC-TACAATGACTTTTTGA
193 TGAACAAGAAGTTGAAGCTATTTTTCAAGGCTAGAACATCAGTAG-ACTTACGATGACTTTTTGA
* * * * * * * **
13379718 ATAGGATCCGAGCATTTCTAGATCGATATGTCTCTTTTAATAAGATAAAATGTCTCTTAGCTTTC
257 ATGGGATCTGAGCATTTATAGGTCAATAAGTCTC-TTAAATAAGATTGAATGTCTCTTAGCTTTC
* ** * * * * * ** *
13379783 AAAAACATATT-AAACTCCTCAATCTCG-TGTTGGGAGTTCAAGGTAGTCC
321 GAACGCATCTTGAAACTCTTTAATAT-GATGTTGGGAGCTCAAATTAGTCA
* * * * *
13379832 ATTATAACGAGGACAAAGCATGTAGAAATTAATCCAACAAT-AAAATAAAACTC-TTTAATTCTT
1 ATTATAACGAAGACAATGCATGTAGAAATTAATCCAATAATGAAAATGAAA-TCATTTAATTCAT
* ** * ** * *
13379895 GTAATTAAAATTTGGTCCAATTATATTCTATAAGTTGTTCAAATTTACTCAGCCCAATAAGGGGT
65 GTAATGAAAATTAAGTCCAATCATATTAAATAAGTTGTCCAAACTTACTCA-CCCAATAAGGGGT
* * * * *
13379960 ATTTTATAGATTTTATTTTAATTTATAAGTTGATACT-AGGATTATAGGAGTAAACTAGCCATCT
129 AATATATAGATTTGATTTTAATTTATAAGTTGATA-TGAGGATAAGAGGAGTAAACTAGCCATCT
* *
13380024 TGAACAAGAAGTTGAAGCTATTTTTCAAGTCTAGAACATCTA-TAGACTTCCGATGACTTTTTGA
193 TGAACAAGAAGTTGAAGCTATTTTTCAAGGCTAGAACATC-AGTAGACTTACGATGACTTTTTGA
* * * * *
13380088 AGGGGATCTGAGCATTTTTTTTTTGGTCAATAAGTCTCTTACAATATGATTGAATGTCTCTTCGC
257 ATGGGATCTGAGCA----TTTATAGGTCAATAAGTCTCTTA-AATAAGATTGAATGTCTCTTAGC
*
13380153 TTTCGAACGCATCTTGAAACGCTTTAATATGATGTTGGGAGCTCAATATTAGTCA
317 TTTCGAACGCATCTTGAAACTCTTTAATATGATGTTGGGAGCTCAA-ATTAGTCA
* * *
13380208 ATTATAACTAAGACAATGCATGTAGAAATTAATCTAATAATGAATATGAAATCATTTAATTCATG
1 ATTATAACGAAGACAATGCATGTAGAAATTAATCCAATAATGAAAATGAAATCATTTAATTCATG
* *
13380273 TAATGAAAATTAAGTCCAATCCTATTAAATAAGTT-TACCAAACTTAGTCA-CCAATAAGGGGTA
66 TAATGAAAATTAAGTCCAATCATATTAAATAAGTTGT-CCAAACTTACTCACCCAATAAGGGGTA
*
13380336 ATATATAGATTTGATTTTAATTTATAAGTTGATATGAGGATAAGAGGAGTAAACTAACCATCTTG
130 ATATATAGATTTGATTTTAATTTATAAGTTGATATGAGGATAAGAGGAGTAAACTAGCCATCTTG
* * * * **
13380401 AACAAGAAGTTGAAGCTATTTCTCAAGGCTAAAATATCAGTAGAGTTGTGATGACTTTTTGAATG
195 AACAAGAAGTTGAAGCTATTTTTCAAGGCTAGAACATCAGTAGACTTACGATGACTTTTTGAATG
* * *
13380466 GGAT-TCGAGCATTTATAGGTCAATATA-TCTCATTAAATAAGATTGATTCTCTCTTGGCTTTCC
260 GGATCT-GAGCATTTATAGGTCAATA-AGTCTC-TTAAATAAGATTGAATGTCTCTTAGCTTT-C
* ** * * * * * *
13380529 G-TCGTGTCTTGAAA-TATCTTAATATGATCTCGAGAGCTCAAGATAAATCA
321 GAACGCATCTTGAAACTCT-TTAATATGATGTTGGGAGCTCAA-ATTAGTCA
* * * * *
13380579 ATTATAACGAAGACAATGCAAGGAAAAATTAATCCAGTAATGAACATGAAAATCATTTAATTCAT
1 ATTATAACGAAGACAATGCATGTAGAAATTAATCCAATAATGAAAATG-AAATCATTTAATTCAT
13380644 GTAATGAAAATT
65 GTAATGAAAATT
13380656 TACTCAGCCC
Statistics
Matches: 965, Mismatches: 188, Indels: 81
0.78 0.15 0.07
Matches are distributed among these distances:
369 76 0.08
370 242 0.25
371 298 0.31
372 42 0.04
373 2 0.00
374 49 0.05
375 157 0.16
376 44 0.05
377 55 0.06
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (370 bp):
ATTATAACGAAGACAATGCATGTAGAAATTAATCCAATAATGAAAATGAAATCATTTAATTCATG
TAATGAAAATTAAGTCCAATCATATTAAATAAGTTGTCCAAACTTACTCACCCAATAAGGGGTAA
TATATAGATTTGATTTTAATTTATAAGTTGATATGAGGATAAGAGGAGTAAACTAGCCATCTTGA
ACAAGAAGTTGAAGCTATTTTTCAAGGCTAGAACATCAGTAGACTTACGATGACTTTTTGAATGG
GATCTGAGCATTTATAGGTCAATAAGTCTCTTAAATAAGATTGAATGTCTCTTAGCTTTCGAACG
CATCTTGAAACTCTTTAATATGATGTTGGGAGCTCAAATTAGTCA
Found at i:13389944 original size:2 final size:2
Alignment explanation
Indices: 13389937--13389968 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13389927 CTTTGTTTGA
13389937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13389969 TTCTTTGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13394554 original size:22 final size:23
Alignment explanation
Indices: 13394522--13394564 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
13394512 ATCGGTTAAA
**
13394522 ATTTAAATCGGTTATATTATATT
1 ATTTAAATCGGAAATATTATATT
13394545 ATTT-AATCGGAAATATTATA
1 ATTTAAATCGGAAATATTATA
13394565 AAGTATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (23 bp):
ATTTAAATCGGAAATATTATATT
Found at i:13394741 original size:22 final size:21
Alignment explanation
Indices: 13394691--13394741 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
13394681 TATTATAATA
* * *
13394691 TTTTAAAAGTGACTATACTTT
1 TTTTAAAAATGACGATACTCT
13394712 TTTATAAAAATGATCGATACTCT
1 TTT-TAAAAATGA-CGATACTCT
13394735 TTTTAAA
1 TTTTAAA
13394742 GTTATGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 12 0.48
23 10 0.40
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (21 bp):
TTTTAAAAATGACGATACTCT
Found at i:13395123 original size:23 final size:23
Alignment explanation
Indices: 13395097--13395169 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
13395087 ATATTTTACA
*
13395097 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
13395120 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
13395143 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
13395166 ATAT
1 ATAT
13395170 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:13395622 original size:23 final size:23
Alignment explanation
Indices: 13395596--13395658 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
13395586 ATATAAGCAC
13395596 TACCTATTACATTATATAAACGT
1 TACCTATTACATTATATAAACGT
*
13395619 TACCTATTACATTATATAAGCGT
1 TACCTATTACATTATATAAACGT
*
13395642 TACCTATTACATCATAT
1 TACCTATTACATTATAT
13395659 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGT
Found at i:13396112 original size:23 final size:23
Alignment explanation
Indices: 13396077--13396149 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
13396067 ATACTTTACA
* *
13396077 ATATAAGCACTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
*
13396100 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
13396123 ATATAAGCGTTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
13396146 ATAT
1 ATAT
13396150 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:13396266 original size:491 final size:490
Alignment explanation
Indices: 13394696--13396356 Score: 2907
Period size: 489 Copynumber: 3.4 Consensus size: 490
13394686 TAATATTTTA
* * *
13394696 AAAGTGACTATACTTTTTTATAAAAATGATCGATACTCTTTTTAAAGTTATGTAATTTATGTTTC
1 AAAGTGTCTATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
* * *
13394761 AATTTTTTTTTAATAGTGTTTCATGTTTTTCACCTATAATATTAATTTAATAATTTTATTTGCAC
65 AA-TTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
13394826 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTTAAATTTAACAATATT
129 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATT
13394891 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
194 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
* * * *
13394956 TCGAAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
259 CCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTGATATCTTAAAACTCACTC
* *
13395021 -AAAGATAACCTTAAATTAATGTTTTCCATAGTGAAATAAGTATGGACACTTTTATAAAAAGGAT
324 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
13395085 AGATATTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
389 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
*
13395150 CGCTACCTATTACATCATATTTTTACCTATTATATTG
454 CGTTACCTATTACATCATATTTTTACCTATTATATTG
* *
13395187 AAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 AAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
13395252 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAACATTAATTTAATAATTTCATTTGCACAA
66 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAA
13395317 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAA
131 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAA
*
13395382 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACC
196 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
** *
13395447 GTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTT-AAACTCACTCAA
261 GTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTGATATCTTAAAACTCACTCAA
* *
13395511 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATAGACACTTTTATAAAAAGGATAG
326 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
*
13395576 ATACTTTACAATATAAGCACTACCTATTACATTATATAAACGTTACCTATTACATTATATAAGCG
391 ATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCG
13395641 TTACCTATTACATCATATTTTTACCTATTATATTG
456 TTACCTATTACATCATATTTTTACCTATTATATTG
*
13395676 AAAGTGT-TCATACTCTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
1 AAAGTGTCT-ATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
* *
13395740 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAGTAATTTCATTTACACA
65 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
**
13395805 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTA
130 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTA
*
13395870 ATCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAC
195 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAC
13395935 CGTAACATAAAAAAATAAATCATTAGACGCCTATAATTACTAAATTGATATCTTAAAACTCACTC
260 CGTAACAT-AAAAAATAAATCATTAGACGCCTATAATTACTAAATTGATATCTTAAAACTCACTC
* * * *
13396000 AAAAGATAACTTTAAATTAATGTTTTCCACATTGAAAAAAGTATGGACACTTTTATAAAAATGAA
324 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
* *
13396065 AAATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAAG
389 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
13396130 CGTTACCTATTACATCATATTTTTACCTATTATATTG
454 CGTTACCTATTACATCATATTTTTACCTATTATATTG
13396167 AAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGTTTC
1 AAAGTGTCTATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGTTTC
13396232 AA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
65 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
*
13396296 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAAT
130 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAAT
13396357 GTCAATTTCA
Statistics
Matches: 1115, Mismatches: 49, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
488 10 0.01
489 648 0.58
490 94 0.08
491 331 0.30
492 32 0.03
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (490 bp):
AAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAA
AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAA
CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
GTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTGATATCTTAAAACTCACTCAA
AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCG
TTACCTATTACATCATATTTTTACCTATTATATTG
Found at i:13397326 original size:20 final size:19
Alignment explanation
Indices: 13397271--13397317 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
13397261 TCTGGTATCG
13397271 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
13397290 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
13397311 TTTTACC
1 TTTTACC
13397318 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:13397498 original size:20 final size:19
Alignment explanation
Indices: 13397452--13397498 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
13397442 TCCGGTAACG
13397452 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
13397471 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
13397492 TTTTACC
1 TTTTACC
13397499 TGGTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:13397691 original size:183 final size:181
Alignment explanation
Indices: 13397238--13397711 Score: 705
Period size: 181 Copynumber: 2.6 Consensus size: 181
13397228 CGTACTTACG
* *
13397238 AAAGTATCGACACTTTCAATATATCTGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
13397303 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATAAATTTTTTTAAAGTATCAACACATTAT
* *
13397368 AGGCGCTAAAACTGCTTCTCTTTTAAATTCATAAAGTGTCGATCCTTATAT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
13397419 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
13397484 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTTAAAAGTATCAACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATAAATTTTTTT-AAAGTATCAACACATTA
** *
13397549 TAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * * * **
13397602 AAAGTACCAACACTTTAAATGTATCCGGTAGCGCTTTACCAGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
13397667 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACAAATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATAAATTTTT
13397712 AATTTGGATC
Statistics
Matches: 265, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 107 0.40
182 61 0.23
183 97 0.37
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATAAATTTTTTTAAAGTATCAACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:13399247 original size:19 final size:19
Alignment explanation
Indices: 13399223--13399262 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13399213 TGGGAAGGGA
13399223 TGGTATAACGCTATTGTTG
1 TGGTATAACGCTATTGTTG
13399242 TGGTATAACGCTATTGTTG
1 TGGTATAACGCTATTGTTG
13399261 TG
1 TG
13399263 CTTTATGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (19 bp):
TGGTATAACGCTATTGTTG
Found at i:13400241 original size:22 final size:23
Alignment explanation
Indices: 13400194--13400241 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
13400184 CATTTAGATT
*
13400194 TTTAACTAATTTATAATTATATG
1 TTTAACTAATTTATAATTATACG
*
13400217 TTTAA-TATTTTATAATT-TAACG
1 TTTAACTAATTTATAATTAT-ACG
13400239 TTT
1 TTT
13400242 TATAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.05
22 16 0.73
23 5 0.23
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTAACTAATTTATAATTATACG
Found at i:13401409 original size:101 final size:101
Alignment explanation
Indices: 13401292--13401493 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
13401282 TAAATGTGTA
*
13401292 ATACCCCAAAAATTTAGATAATGACCAAAATGTAAATTTTGAAAGTTTGATGGTCAAAGTAGAAA
1 ATACCCCAAAAATTTAGATAATGACCAAAATATAAATTTTGAAAGTTTGATGGTCAAAGTAGAAA
13401357 ATTTGGGAAAGGTTTAAAGAATTAAGTGTTAATTTT
66 ATTTGGGAAAGGTTTAAAGAATTAAGTGTTAATTTT
13401393 ATACCCCAAAAATTTAGATAATGACCAAAATATAAATTTTGAAAGTTTGATGGTCAAAGTAGAAA
1 ATACCCCAAAAATTTAGATAATGACCAAAATATAAATTTTGAAAGTTTGATGGTCAAAGTAGAAA
13401458 ATTTGGGAAAGGTTTAAAGAATTAAGTGTTAATTTT
66 ATTTGGGAAAGGTTTAAAGAATTAAGTGTTAATTTT
13401494 CCCAAAAAGA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (101 bp):
ATACCCCAAAAATTTAGATAATGACCAAAATATAAATTTTGAAAGTTTGATGGTCAAAGTAGAAA
ATTTGGGAAAGGTTTAAAGAATTAAGTGTTAATTTT
Found at i:13401588 original size:30 final size:29
Alignment explanation
Indices: 13401531--13401588 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
13401521 TATTTATTTA
* *
13401531 GTGACCAAATTATAATTTGGTAAAGTTTG
1 GTGACCAAAGTATAATTTGGAAAAGTTTG
13401560 GTGACCAAAGTATAAACTTT-GAAAAGTTT
1 GTGACCAAAGTAT-AA-TTTGGAAAAGTTT
13401589 AGGAACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.48
30 10 0.40
31 3 0.12
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (29 bp):
GTGACCAAAGTATAATTTGGAAAAGTTTG
Found at i:13403715 original size:14 final size:14
Alignment explanation
Indices: 13403696--13403725 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13403686 CCGATTTCCC
*
13403696 CACTATTCATTGTT
1 CACTATTCATTATT
13403710 CACTATTCATTATT
1 CACTATTCATTATT
13403724 CA
1 CA
13403726 TAAAAAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.23, G:0.03, T:0.47
Consensus pattern (14 bp):
CACTATTCATTATT
Found at i:13406414 original size:39 final size:38
Alignment explanation
Indices: 13406240--13406430 Score: 208
Period size: 38 Copynumber: 5.0 Consensus size: 38
13406230 TGGAACTACA
** * *
13406240 ATATT-ATATTTTAATCAAATATAAATTGATAAAAAAAT
1 ATATTCATATTTTAATTGAATATAAATTCAT-AAATAAT
*
13406278 ATATTCA-ATTTT-ATTCGAATATAAATTTATAAATAAT
1 ATATTCATATTTTAATT-GAATATAAATTCATAAATAAT
* *
13406315 ATATTCGTATTTTAATTGAATATAAACTCATAAATAAT
1 ATATTCATATTTTAATTGAATATAAATTCATAAATAAT
* * *
13406353 ATATTCATATTTCAATTGAATATAAATTCGTACATAAT
1 ATATTCATATTTTAATTGAATATAAATTCATAAATAAT
* ** *
13406391 ATTTTTTTTATTTTAATTGAATATAAATTCTTAAATAAT
1 A-TATTCATATTTTAATTGAATATAAATTCATAAATAAT
13406430 A
1 A
13406431 GAACATTATC
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
37 14 0.11
38 80 0.62
39 36 0.28
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (38 bp):
ATATTCATATTTTAATTGAATATAAATTCATAAATAAT
Found at i:13426538 original size:20 final size:20
Alignment explanation
Indices: 13426509--13426547 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13426499 ATTTCACCAC
*
13426509 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
13426529 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
13426548 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:13427207 original size:21 final size:21
Alignment explanation
Indices: 13427181--13427220 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13427171 AAAGAACAAG
*
13427181 AAGAAAATTTAATTCAAAGCC
1 AAGAAAATCTAATTCAAAGCC
13427202 AAGAAAATCTAATTCAAAG
1 AAGAAAATCTAATTCAAAG
13427221 TTCCCTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.23
Consensus pattern (21 bp):
AAGAAAATCTAATTCAAAGCC
Found at i:13433880 original size:21 final size:21
Alignment explanation
Indices: 13433854--13433902 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
13433844 GTTAAATTAA
13433854 CATGAAATTATTTAGAAATTT
1 CATGAAATTATTTAGAAATTT
13433875 CATGAAATTATTTAGAAATTT
1 CATGAAATTATTTAGAAATTT
13433896 CATGAAA
1 CATGAAA
13433903 ACTTAACCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (21 bp):
CATGAAATTATTTAGAAATTT
Found at i:13436122 original size:26 final size:26
Alignment explanation
Indices: 13436079--13436156 Score: 120
Period size: 26 Copynumber: 3.0 Consensus size: 26
13436069 ACTAAGTGCA
13436079 TATGGTGGGCACGACCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
* * *
13436105 TATTGTGGGCATGGCCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
*
13436131 TATGGTGGGAACGACCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
13436157 CAGCACTTCG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.19, C:0.13, G:0.31, T:0.37
Consensus pattern (26 bp):
TATGGTGGGCACGACCTTATGTGTAT
Found at i:13439410 original size:44 final size:44
Alignment explanation
Indices: 13439362--13439492 Score: 226
Period size: 44 Copynumber: 2.9 Consensus size: 44
13439352 ATGACAAATG
13439362 TATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTA
1 TATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTA
*
13439406 TATTGGTAAAATAAGCTTACGAGCTTATGGATAAACGGTAAGTA
1 TATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTA
*
13439450 TATTGGTAAAATAAGCTTACGAGCTTATAGTATTAAATGGTAA
1 TATTGGTAAAATAAGCTTACGAGCTTAT-GGA-TAAATGGTAA
13439493 ATATTGCACA
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
44 71 0.87
45 2 0.02
46 9 0.11
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (44 bp):
TATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTA
Found at i:13439440 original size:25 final size:25
Alignment explanation
Indices: 13439368--13439440 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
13439358 AATGTATTGG
13439368 TAAAATAAGCTTACGAGCTTATGGA
1 TAAAATAAGCTTACGAGCTTATGGA
* **
13439393 T-AAAT--G-GTA--AGTATATTGG-
1 TAAAATAAGCTTACGAGCTTA-TGGA
13439412 TAAAATAAGCTTACGAGCTTATGGA
1 TAAAATAAGCTTACGAGCTTATGGA
13439437 TAAA
1 TAAA
13439441 CGGTAAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 16
0.61 0.11 0.29
Matches are distributed among these distances:
19 5 0.15
20 7 0.21
21 2 0.06
22 2 0.06
23 2 0.06
24 7 0.21
25 9 0.26
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (25 bp):
TAAAATAAGCTTACGAGCTTATGGA
Found at i:13451209 original size:20 final size:21
Alignment explanation
Indices: 13451171--13451210 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13451161 TGCAGAGATT
13451171 TCATCCCCAAAAGGCTAGAAA
1 TCATCCCCAAAAGGCTAGAAA
*
13451192 TCATCCCCAACA-GCTAGAA
1 TCATCCCCAAAAGGCTAGAA
13451211 CGACCACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.15
Consensus pattern (21 bp):
TCATCCCCAAAAGGCTAGAAA
Found at i:13452920 original size:13 final size:13
Alignment explanation
Indices: 13452898--13452931 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
13452888 GTTTTGACCT
13452898 GACCCGACTGCCC
1 GACCCGACTGCCC
*
13452911 GACTCGACTGCCC
1 GACCCGACTGCCC
13452924 GACCCGAC
1 GACCCGAC
13452932 CGGTTGACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.50, G:0.24, T:0.09
Consensus pattern (13 bp):
GACCCGACTGCCC
Found at i:13452965 original size:16 final size:17
Alignment explanation
Indices: 13452941--13452978 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
13452931 CCGGTTGACC
*
13452941 GACCATTGACCG-CGTT
1 GACCATTGACAGCCGTT
*
13452957 GACCTTTGACAGCCGTT
1 GACCATTGACAGCCGTT
13452974 GACCA
1 GACCA
13452979 GAACTTTGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.24
Consensus pattern (17 bp):
GACCATTGACAGCCGTT
Found at i:13454306 original size:24 final size:24
Alignment explanation
Indices: 13454272--13454337 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
13454262 GCTTTATATG
*
13454272 ATTTTTGTTCTGATTTCTATTCTAA
1 ATTTTT-TTCTGATTTCTACTCTAA
* *
13454297 ATTTTTTTCTGATTTATACTCTGA
1 ATTTTTTTCTGATTTCTACTCTAA
* *
13454321 ATTATATTCTGATTTCT
1 ATTTTTTTCTGATTTCT
13454338 GATATCTACG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
24 29 0.83
25 6 0.17
ACGTcount: A:0.21, C:0.12, G:0.08, T:0.59
Consensus pattern (24 bp):
ATTTTTTTCTGATTTCTACTCTAA
Found at i:13456540 original size:10 final size:11
Alignment explanation
Indices: 13456510--13456576 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 11
13456500 ACTGCCTGAC
13456510 CCGACCAGTTGA
1 CCGACC-GTTGA
13456522 CCGACCGTTGA
1 CCGACCGTTGA
13456533 CC-ACCGTTGA
1 CCGACCGTTGA
* * *
13456543 CTAGAACTTTGA
1 C-CGACCGTTGA
13456555 CCGA-CGTTGA
1 CCGACCGTTGA
* *
13456565 CAGGCCGTTGA
1 CCGACCGTTGA
13456576 C
1 C
13456577 TTTTTCTGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
10 16 0.36
11 16 0.36
12 13 0.29
ACGTcount: A:0.22, C:0.31, G:0.25, T:0.21
Consensus pattern (11 bp):
CCGACCGTTGA
Found at i:13457858 original size:12 final size:12
Alignment explanation
Indices: 13457841--13457908 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 12
13457831 ATGCTTTATG
13457841 TGATTTCTGTTC
1 TGATTTCTGTTC
13457853 TGATTTCTGTTC
1 TGATTTCTGTTC
*
13457865 TAAATTT-TGTTC
1 T-GATTTCTGTTC
* *
13457877 TGATTTATGCTC
1 TGATTTCTGTTC
*
13457889 TAAATTT-TGTTC
1 T-GATTTCTGTTC
13457901 TGATTTCT
1 TGATTTCT
13457909 TATATCTACG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
11 8 0.17
12 30 0.65
13 8 0.17
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.57
Consensus pattern (12 bp):
TGATTTCTGTTC
Found at i:13457876 original size:24 final size:24
Alignment explanation
Indices: 13457843--13457908 Score: 105
Period size: 24 Copynumber: 2.7 Consensus size: 24
13457833 GCTTTATGTG
*
13457843 ATTTCTGTTCTGATTTCTGTTCTAA
1 ATTT-TGTTCTGATTTCTGCTCTAA
*
13457868 ATTTTGTTCTGATTTATGCTCTAA
1 ATTTTGTTCTGATTTCTGCTCTAA
13457892 ATTTTGTTCTGATTTCT
1 ATTTTGTTCTGATTTCT
13457909 TATATCTACG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
24 34 0.89
25 4 0.11
ACGTcount: A:0.17, C:0.14, G:0.12, T:0.58
Consensus pattern (24 bp):
ATTTTGTTCTGATTTCTGCTCTAA
Found at i:13458923 original size:2 final size:2
Alignment explanation
Indices: 13458916--13458979 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
13458906 ATTAGTTTCA
13458916 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13458958 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
13458980 TAGTTTTAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13459308 original size:14 final size:14
Alignment explanation
Indices: 13459289--13459316 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13459279 GTTCCTATAT
13459289 GATTTTAAAAAATA
1 GATTTTAAAAAATA
13459303 GATTTTAAAAAATA
1 GATTTTAAAAAATA
13459317 TGTTAACTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
GATTTTAAAAAATA
Found at i:13460958 original size:2 final size:2
Alignment explanation
Indices: 13460951--13460995 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
13460941 TTATTTAACA
13460951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13460993 AT A
1 AT A
13460996 ACTTTAATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13494781 original size:24 final size:24
Alignment explanation
Indices: 13494745--13494806 Score: 106
Period size: 24 Copynumber: 2.5 Consensus size: 24
13494735 ATAGATGTAA
13494745 TATATGTATATGAATATAACTATAT
1 TATA-GTATATGAATATAACTATAT
13494770 TATAGTATATGAATATAACTATAT
1 TATAGTATATGAATATAACTATAT
*
13494794 TATAGCATATGAA
1 TATAGTATATGAA
13494807 ATTAGCATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 32 0.89
25 4 0.11
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (24 bp):
TATAGTATATGAATATAACTATAT
Found at i:13495366 original size:21 final size:21
Alignment explanation
Indices: 13495341--13495390 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
13495331 TGGTGTTGTG
13495341 ATGTTCATCTTGGTGCCCAAA
1 ATGTTCATCTTGGTGCCCAAA
13495362 ATGTTCATCTTGGTGCCCAAA
1 ATGTTCATCTTGGTGCCCAAA
*
13495383 ATCTTCAT
1 ATGTTCAT
13495391 GTGCAAGGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (21 bp):
ATGTTCATCTTGGTGCCCAAA
Found at i:13505227 original size:23 final size:23
Alignment explanation
Indices: 13505183--13505227 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
13505173 GTTTGAGATA
** **
13505183 CAACATCGCCACCATCTTCCATT
1 CAACATCAACACCATCAACCATT
13505206 CAACATCAACACCATCAACCAT
1 CAACATCAACACCATCAACCAT
13505228 CTTACATCAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.42, G:0.02, T:0.20
Consensus pattern (23 bp):
CAACATCAACACCATCAACCATT
Found at i:13509146 original size:14 final size:13
Alignment explanation
Indices: 13509120--13509162 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 13
13509110 TTAATGGAAT
13509120 AAGAAATAAATGA
1 AAGAAATAAATGA
13509133 AAGAAATGAAATGAA
1 AAGAAAT-AAATG-A
*
13509148 AATTAAATAAATGA
1 AA-GAAATAAATGA
13509162 A
1 A
13509163 TAGAGATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 7 0.27
14 7 0.27
15 8 0.31
16 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (13 bp):
AAGAAATAAATGA
Found at i:13517608 original size:30 final size:30
Alignment explanation
Indices: 13517545--13517601 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13517535 TTGAGTGTAA
13517545 TTTGCAATTTTTCTTCACTTTTCTTTCGCT
1 TTTGCAATTTTTCTTCACTTTTCTTTCGCT
**
13517575 TTTG-AATTTCTTCTTTTCTTTTCTTTC
1 TTTGCAATTT-TTCTTCACTTTTCTTTC
13517602 TTTTTTGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.09, C:0.21, G:0.05, T:0.65
Consensus pattern (30 bp):
TTTGCAATTTTTCTTCACTTTTCTTTCGCT
Found at i:13525302 original size:26 final size:26
Alignment explanation
Indices: 13525266--13525319 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
13525256 ACCAAAGTGT
*
13525266 TAATACACATAAGGTCGTTCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
*
13525292 TAATACACATAGGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
13525318 TA
1 TA
13525320 TGTACCGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (26 bp):
TAATACACATAAGGTCGTGCCCACCA
Found at i:13525350 original size:40 final size:40
Alignment explanation
Indices: 13525295--13525416 Score: 156
Period size: 40 Copynumber: 3.0 Consensus size: 40
13525285 CCCACCATAA
* *
13525295 TACACATAGGGTCGTGCCCACCATATGTACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATGTACCGAAGTGCAT
* *
13525335 TACACACAAGGTCGTGCCCACTATAT-TCACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATGT-ACCGAAGTGCAT
* * * *
13525375 TACGCATAAGGTTGTGCCCACCATATGCACCAAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATGTACCGAAGTGCAT
13525415 TA
1 TA
13525417 ATTGATATGG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATGTACCGAAGTGCAT
Found at i:13528628 original size:23 final size:23
Alignment explanation
Indices: 13528602--13528648 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
13528592 ACAGTCTATC
13528602 TATTTTATTCAAACAATTGGAAA
1 TATTTTATTCAAACAATTGGAAA
* *
13528625 TATTTTATTCAAATAGTTGGAAA
1 TATTTTATTCAAACAATTGGAAA
13528648 T
1 T
13528649 CGATCACCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (23 bp):
TATTTTATTCAAACAATTGGAAA
Found at i:13532129 original size:22 final size:22
Alignment explanation
Indices: 13532104--13532150 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13532094 ACCCGAAATA
*
13532104 ATATTCAAAATATACATCATAT
1 ATATTCAAAATAAACATCATAT
**
13532126 ATATTCATGATAAACATCATAT
1 ATATTCAAAATAAACATCATAT
13532148 ATA
1 ATA
13532151 ATAACTAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATTCAAAATAAACATCATAT
Found at i:13534762 original size:38 final size:38
Alignment explanation
Indices: 13534720--13534876 Score: 135
Period size: 38 Copynumber: 4.1 Consensus size: 38
13534710 CTCAATTTAG
*
13534720 TCTTTCTTAAGATTGTTTCCTTAGAAACCTCACTTC-GA
1 TCTTTCTTAAGATTGTTTCCCTAGAAACCTCA-TTCTGA
* *
13534758 TCTTTC-TAATGATTGTTCCCCAAGAAACCTCATTCTTGA
1 TCTTTCTTAA-GATTGTTTCCCTAGAAACCTCATTC-TGA
* * * *
13534797 T-TTTCTTAGGACATGTATCCC-AGAAAACTCATTCTTG-
1 TCTTTCTTAAGA-TTGTTTCCCTAGAAACCTCATTC-TGA
* * * *
13534834 TCTTGCTTAAGATCGTTTCCCTAGAAACCTCAGTCTCA
1 TCTTTCTTAAGATTGTTTCCCTAGAAACCTCATTCTGA
13534872 TCTTT
1 TCTTT
13534877 GTCATCACCC
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
37 14 0.15
38 69 0.73
39 11 0.12
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.39
Consensus pattern (38 bp):
TCTTTCTTAAGATTGTTTCCCTAGAAACCTCATTCTGA
Found at i:13534985 original size:24 final size:24
Alignment explanation
Indices: 13534940--13534986 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13534930 ATATATAGTA
*
13534940 TATAATAAATAATGTGTGCATATG
1 TATAATAAATAATGTGTACATATG
* * *
13534964 TATAATATATAGTTTGTACATAT
1 TATAATAAATAATGTGTACATAT
13534987 AGTTTAGTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (24 bp):
TATAATAAATAATGTGTACATATG
Found at i:13535870 original size:27 final size:25
Alignment explanation
Indices: 13535795--13535866 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 25
13535785 ATATTACTCA
*
13535795 TTATTAATAATTTATAATATTATTT
1 TTATTAATAATTTATAATATTAATT
* **
13535820 TTATGAGATTAATAAATAATATTAATT
1 TTATTA-A-TAATTTATAATATTAATT
*
13535847 TTATTAATAATTTATTATAT
1 TTATTAATAATTTATAATAT
13535867 ATTATTAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 15 0.41
26 2 0.05
27 20 0.54
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (25 bp):
TTATTAATAATTTATAATATTAATT
Found at i:13535906 original size:13 final size:13
Alignment explanation
Indices: 13535888--13535922 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
13535878 AATAATATAA
13535888 TATCATATATTCT
1 TATCATATATTCT
13535901 TATCATATATTCT
1 TATCATATATTCT
13535914 TATCATATA
1 TATCATATA
13535923 ATTGAGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.51
Consensus pattern (13 bp):
TATCATATATTCT
Found at i:13548669 original size:105 final size:105
Alignment explanation
Indices: 13548529--13549486 Score: 1366
Period size: 105 Copynumber: 9.2 Consensus size: 105
13548519 AAGACAATAT
* * * * *
13548529 AAGTTCAACTTCACGACGAAGGGACGGTTGGTTGTCAACAACAATTTTCCAATTTCGGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
* * *
13548594 TTCAACTTCACAGCGAAGGATATTAGACTCCAGACGATGC
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
* *
13548634 AAGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAACAACAACTTCCCAATTTTAGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
13548699 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
* *
13548739 AAGTTTAACTTCATGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
*
13548804 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
* * *
13548844 AAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTCCAAAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
* * *
13548909 TGCAACTTCATAGCGAAGGATATTGGACTCTAGACAACGC
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
13548949 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
13549014 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
* *
13549054 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGGGCCAA
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAATTTCAGAGCCAA
*
13549119 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
65 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
*
13549160 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCTAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
13549225 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
* ** * *
13549265 AAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACGAACATTTTTCAAATTTCAGAGCCAA
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCAA
* ** * *
13549330 --T----TT--CA---AATGATATTGGACTTAAGACAGCAC
65 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
* * * ** * ** **
13549360 AAGTTCAACTTCACAACGAATGGACGGCTGACTGTCAA-TA-AACTTTTCGGTTTCAGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
* * *
13549423 TTCAACTTCACAAGCGAAGGATATTGGACTCAAGACAGCAC
66 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGC
* *
13549464 AAGCTCAACTTCACAACGAAGGG
1 AAGTTCAACTTCACGACGAAGGG
13549487 GCGGCTGACT
Statistics
Matches: 777, Mismatches: 62, Indels: 29
0.90 0.07 0.03
Matches are distributed among these distances:
92 16 0.02
93 1 0.00
94 1 0.00
95 54 0.07
98 4 0.01
100 3 0.00
101 1 0.00
104 45 0.06
105 530 0.68
106 122 0.16
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
Found at i:13549781 original size:63 final size:63
Alignment explanation
Indices: 13549682--13549807 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
13549672 TCTGAGTTCG
13549682 ATCTCAACTTCACAACGAAGGATTTGGTACTCAGAAGTTTCTAGTTCTGACTCAACCTCACAA
1 ATCTCAACTTCACAACGAAGGATTTGGTACTCAGAAGTTTCTAGTTCTGACTCAACCTCACAA
13549745 ATCTCAACTTCACAACGAAGGATTTGGTACTCAGAAGTTTCTAGTTCTGACTCAACCTCACAA
1 ATCTCAACTTCACAACGAAGGATTTGGTACTCAGAAGTTTCTAGTTCTGACTCAACCTCACAA
13549808 CGAGGGAATC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (63 bp):
ATCTCAACTTCACAACGAAGGATTTGGTACTCAGAAGTTTCTAGTTCTGACTCAACCTCACAA
Found at i:13554862 original size:262 final size:263
Alignment explanation
Indices: 13554446--13554958 Score: 669
Period size: 262 Copynumber: 2.0 Consensus size: 263
13554436 AAGAGTTCTG
* * ** *
13554446 GCCATCTTTAGGAATGGTGATAACATGGTTCCTACGCGAAGAGCACGACTAGTTATCTAGTGGTG
1 GCCATCTTTACGAAGGGTGATAACACAGTTCCTACACGAAGAGCACGACTAGTTATCTAGTGGTG
* * * *
13554511 ACACGGTTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACAATTCCTACGTGATGAGGATG
66 ACACGGCTCCTACGTGATGAGGAGGTCTAGTCAGGGGATAACACAATTCCTACGTGATGAGGACG
* *
13554576 TCAGGACATCTTTAGGAATGATAACACGGTTCCTACGA-GATGAGGATGACTGGTTATCAG-GGG
131 TCAGGACATCTTTAGGAATGATAACACGGTTCCTAC-ATGATAAGGACGACTGGTTATCAGAGGG
*
13554639 TGACATGGGTCCTATGTGATGAAGAGGTATGGTTGGGGGATGACACGATTCCTACGTGATGACGA
195 TGAC--GGCTCCTATGTGATGAAGAGGTATGGTTGGGGGATGACACGATTCCTACGTGATGACGA
13554704 CGGTAA
258 CGGTAA
* ** *
13554710 GCCATCTTTACGAAGGGTGATAACACAGTTCCTACAC-AATGAGGACGGTTGGTTATC-AG-GGT
1 GCCATCTTTACGAAGGGTGATAACACAGTTCCTACACGAA-GAGCACGACTAGTTATCTAGTGGT
* * *
13554772 GACACGGCTCCTACGTGATGAGGAGGTCTAGTCGGGGGATAACACAGTTCCTACGTGATGATGAC
65 GACACGGCTCCTACGTGATGAGGAGGTCTAGTCAGGGGATAACACAATTCCTACGTGATGAGGAC
*** * **
13554837 GTCATTCCATCTTTAGTG-ATGATAACACGGTTCCTACATGATAAGGACGATTGGTTATTTGAGG
130 GTCAGGACATCTTTAG-GAATGATAACACGGTTCCTACATGATAAGGACGACTGGTTATCAGAGG
* * * * *
13554901 TTGACGGCTCCTATGTGATGAGGAGGTCTGGTTGGGGGATGACATGGTTCCTACGTGA
194 GTGACGGCTCCTATGTGATGAAGAGGTATGGTTGGGGGATGACACGATTCCTACGTGA
13554959 AGAGGATGGC
Statistics
Matches: 215, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
261 49 0.23
262 110 0.51
263 11 0.05
264 45 0.21
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (263 bp):
GCCATCTTTACGAAGGGTGATAACACAGTTCCTACACGAAGAGCACGACTAGTTATCTAGTGGTG
ACACGGCTCCTACGTGATGAGGAGGTCTAGTCAGGGGATAACACAATTCCTACGTGATGAGGACG
TCAGGACATCTTTAGGAATGATAACACGGTTCCTACATGATAAGGACGACTGGTTATCAGAGGGT
GACGGCTCCTATGTGATGAAGAGGTATGGTTGGGGGATGACACGATTCCTACGTGATGACGACGG
TAA
Found at i:13554919 original size:129 final size:126
Alignment explanation
Indices: 13554379--13554958 Score: 434
Period size: 129 Copynumber: 4.4 Consensus size: 126
13554369 TAAAGGTGAC
* * * * * * * * * *
13554379 ACGGCTCCTACATAACGAGGAGATCTGGTTGGTGGATGACACGGCTCATACGTGATGAAGA-GTT
1 ACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGTGATGACGACG-T
** * * * * * *
13554443 CTGGCCATCTTTAGGAATGGTGATAACATGGTTCCTACGCGAAGAGCACGACTAGTTATCT-AGT
65 CAAGCCATCTTTAGG-A---TGATAACACGGTTCCTAC-AGATGAGGACGATTGGTTAT-TGAG-
13554507 GGTG
123 GGTG
* * * * *
13554511 ACACGGTTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACAATTCCTACGTGATGAGGATG
1 --ACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGTGATGACGACG
* * * * *
13554576 TCAGGACATCTTTAGGAATGATAACACGGTTCCTACGAGATGAGGATGACTGGTTA-TCAGGGGT
64 TCAAGCCATCTTTAGG-ATGATAACACGGTTCCTAC-AGATGAGGACGATTGGTTATTGA-GGGT
13554640 G
126 G
* * * * *
13554641 ACATGGGTCCTATGTGATGAAGAGGTATGGTTGGGGGATGACAC-GATTCCTACGTGATGACGAC
1 AC--GGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAG-TTCCTACGTGATGACGAC
* * * * *
13554705 GGT-AAGCCATCTTTACGAAGGGTGATAACACAGTTCCTACACAATGAGGACGGTTGGTTA-TCA
63 -GTCAAGCCATCTTT----AGGATGATAACACGGTTCCTACA-GATGAGGACGATTGGTTATTGA
13554768 GGGTG
122 GGGTG
* * *
13554773 ACACGGCTCCTACGTGATGAGGAGGTCTAGTCGGGGGATAACACAGTTCCTACGTGATGATGACG
1 --ACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGTGATGACGACG
** * *
13554838 TCATTCCATCTTTAGTGATGATAACACGGTTCCTACATGATAAGGACGATTGGTTATTTGAGGTT
64 TCAAGCCATCTTTAG-GATGATAACACGGTTCCTACA-GATGAGGACGATTGGTTA-TTGAGGGT
13554903 G
126 G
* * **
13554904 ACGGCTCCTATGTGATGAGGAGGTCTGGTTGGGGGATGACATGGTTCCTACGTGA
1 ACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGTGA
13554959 AGAGGATGGC
Statistics
Matches: 365, Mismatches: 62, Indels: 43
0.78 0.13 0.09
Matches are distributed among these distances:
128 4 0.01
129 84 0.23
130 64 0.18
131 43 0.12
132 65 0.18
133 35 0.10
134 69 0.19
135 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (126 bp):
ACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGTGATGACGACGTC
AAGCCATCTTTAGGATGATAACACGGTTCCTACAGATGAGGACGATTGGTTATTGAGGGTG
Found at i:13554976 original size:129 final size:126
Alignment explanation
Indices: 13554513--13554982 Score: 435
Period size: 129 Copynumber: 3.6 Consensus size: 126
13554503 TAGTGGTGAC
* * * *
13554513 ACGGTTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACAATTCCTACGTGATGAGGATGTC
1 ACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAATTCCTACGTGATGAGGACGGC
* * *
13554578 AGGA-CATCTTTAGGAATGATAACACGGTTCCTACGAGATGAGGATGACTGGTTA-TCAGGGGTG
66 A-GACCATCTTTAGG-ATGATAACACGGTTCCTAC-AGATGAGGACGATTGGTTATTGA-GGGTG
* * * * * * *
13554641 ACATGGGTCCTATGTGATGAAGAGGTATGGTTGGGGGATGACACGATTCCTACGTGATGACGACG
1 AC--GGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAATTCCTACGTGATGAGGACG
* * * * * *
13554706 GTA-AGCCATCTTTACGAAGGGTGATAACACAGTTCCTACACAATGAGGACGGTTGGTTA-TCAG
64 GCAGA-CCATCTTT----AGGATGATAACACGGTTCCTACA-GATGAGGACGATTGGTTATTGAG
13554769 GGTG
123 GGTG
* * * *
13554773 ACACGGCTCCTACGTGATGAGGAGGTCTAGTCGGGGGATAACACAGTTCCTACGTGATGATGACG
1 --ACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAATTCCTACGTGATGAGGACG
* ** * *
13554838 TCATTCCATCTTTAGTGATGATAACACGGTTCCTACATGATAAGGACGATTGGTTATTTGAGGTT
64 GCAGACCATCTTTAG-GATGATAACACGGTTCCTACA-GATGAGGACGATTGGTTA-TTGAGGGT
13554903 G
126 G
* * *** * *
13554904 ACGGCTCCTATGTGATGAGGAGGTCTGGTTGGGGGATGACATGGTTCCTACGTGAAGAGGATGGC
1 ACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAATTCCTACGTGATGAGGACGGC
13554969 AGACCATCTTTAGG
66 AGACCATCTTTAGG
13554983 GATAATGGTT
Statistics
Matches: 277, Mismatches: 50, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
128 6 0.02
129 100 0.36
130 60 0.22
131 6 0.02
132 66 0.24
133 34 0.12
134 5 0.02
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (126 bp):
ACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAATTCCTACGTGATGAGGACGGC
AGACCATCTTTAGGATGATAACACGGTTCCTACAGATGAGGACGATTGGTTATTGAGGGTG
Found at i:13555094 original size:35 final size:35
Alignment explanation
Indices: 13555027--13555095 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
13555017 ATGAAATTCA
* *
13555027 TTTCAAGGGAAATTAACTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAATCAACTCAAAGATGTGTGTTTTG
13555062 TTTCAAGGGAAA-CAATCTCAAAGATAG-GTGTTTT
1 TTTCAAGGGAAATCAA-CTCAAAGAT-GTGTGTTTT
13555096 CAAAAGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 2 0.07
35 27 0.90
36 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.36
Consensus pattern (35 bp):
TTTCAAGGGAAATCAACTCAAAGATGTGTGTTTTG
Found at i:13555185 original size:64 final size:62
Alignment explanation
Indices: 13555057--13555266 Score: 246
Period size: 64 Copynumber: 3.3 Consensus size: 62
13555047 AAGATGTTTG
* * * *
13555057 TTTTGTTTCAAGGGAAACAATCTCAAAGATAGGTGTTTTCAAAAGAAGTTGTCTCGAGAGACAAA
1 TTTTGTTTCAAGAGAAACAA-CTC-AA-ATA-TTTTTTTCAAAAGAAATTGTCTCGAGAGACAAA
13555122 A
62 A
*
13555123 TTTTGTTTCAA-AGGAAACAAGCTCAAATATTTTTTCTCAAAAGAAATTGTCTCAAGAGACAAAA
1 TTTTGTTTCAAGA-GAAACAA-CTCAAATATTTTTT-TCAAAAGAAATTGTCTCGAGAGACAAAA
* * * *
13555187 ATTTGTTTCTAGAGAAACATACTCAAAGATTTTTTT-AAAAGAAATTTTCTCGAGAGACAAAA
1 TTTTGTTTCAAGAGAAACA-ACTCAAATATTTTTTTCAAAAGAAATTGTCTCGAGAGACAAAA
13555249 -TTTGTTTCAAGAGAAACA
1 TTTTGTTTCAAGAGAAACA
13555267 TATCAAAGGA
Statistics
Matches: 128, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
61 17 0.13
62 24 0.19
63 5 0.04
64 57 0.45
65 4 0.03
66 21 0.16
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (62 bp):
TTTTGTTTCAAGAGAAACAACTCAAATATTTTTTTCAAAAGAAATTGTCTCGAGAGACAAAA
Found at i:13561149 original size:2 final size:2
Alignment explanation
Indices: 13561142--13561166 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13561132 TCAATCTACA
13561142 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 A
13561167 ATTTACGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13561946 original size:22 final size:22
Alignment explanation
Indices: 13561915--13561977 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 22
13561905 TTTCTGTTTG
*
13561915 CTTTTTTCTTTGATTTTTTCTT
1 CTTTTCTCTTTGATTTTTTCTT
13561937 CTTTTCTCTTTGA-TTTTT-TT
1 CTTTTCTCTTTGATTTTTTCTT
* *
13561957 CTTTGCTCTTTG-TTTTGTCTT
1 CTTTTCTCTTTGATTTTTTCTT
13561978 TGTTTTTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 17 0.47
21 7 0.19
22 12 0.33
ACGTcount: A:0.03, C:0.16, G:0.08, T:0.73
Consensus pattern (22 bp):
CTTTTCTCTTTGATTTTTTCTT
Found at i:13561973 original size:25 final size:25
Alignment explanation
Indices: 13561945--13562002 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
13561935 TTCTTTTCTC
*
13561945 TTTGATTTT-TTTCTTTGCTCTTTGT
1 TTTGATTTTGTTT-TTTGCTCGTTGT
*
13561970 TTTG-TCTTTGTTTTTTTCTCGTTGT
1 TTTGAT-TTTGTTTTTTGCTCGTTGT
13561995 TTTGATTT
1 TTTGATTT
13562003 GATCTTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 1 0.04
25 23 0.82
26 4 0.14
ACGTcount: A:0.03, C:0.10, G:0.14, T:0.72
Consensus pattern (25 bp):
TTTGATTTTGTTTTTTGCTCGTTGT
Found at i:13562009 original size:31 final size:31
Alignment explanation
Indices: 13561943--13562010 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
13561933 TCTTCTTTTC
*
13561943 TCTTTGATTTTTTTCTTTGCTCTTTGTTTTG
1 TCTTTGATTTTTTTCTTTGCTCTTTGATTTG
13561974 TCTTTG-TTTTTTTCTCGTTG-T-TTTGATTTG
1 TCTTTGATTTTTTTCT--TTGCTCTTTGATTTG
13562004 ATCTTTG
1 -TCTTTG
13562011 CACTTGGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
30 17 0.52
31 13 0.39
32 3 0.09
ACGTcount: A:0.04, C:0.12, G:0.15, T:0.69
Consensus pattern (31 bp):
TCTTTGATTTTTTTCTTTGCTCTTTGATTTG
Found at i:13567274 original size:3 final size:3
Alignment explanation
Indices: 13567260--13567291 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13567250 ATGTAAAATG
*
13567260 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13567292 TATTAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:13570448 original size:24 final size:24
Alignment explanation
Indices: 13570404--13570449 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
13570394 AAAAACCCTA
**
13570404 AAAATCAAATTAGGACTAAAATCC
1 AAAATCAAATTACAACTAAAATCC
13570428 AAAATC-AATTACAACTCAAAAT
1 AAAATCAAATTACAACT-AAAAT
13570450 ATTTTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAATCAAATTACAACTAAAATCC
Found at i:13571812 original size:16 final size:16
Alignment explanation
Indices: 13571788--13571818 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13571778 GCTTTTTTAA
13571788 AAAAAAAAAAGAAAAG
1 AAAAAAAAAAGAAAAG
*
13571804 AAAAGAAAAAGAAAA
1 AAAAAAAAAAGAAAA
13571819 ACATTGTCAA
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:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAG
Found at i:13574829 original size:21 final size:24
Alignment explanation
Indices: 13574803--13574862 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 24
13574793 CATAAAAGGT
13574803 TTTTATATTATATTTTT-A-ATA-
1 TTTTATATTATATTTTTCATATAG
13574824 TTTTATATTA-ATTTTTTCATATAG
1 TTTTATATTATA-TTTTTCATATAG
*
13574848 TTTTATATGATATTT
1 TTTTATATTATATTT
13574863 CGTTGCACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 1 0.03
21 15 0.45
22 1 0.03
23 3 0.09
24 12 0.36
25 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (24 bp):
TTTTATATTATATTTTTCATATAG
Found at i:13577961 original size:51 final size:51
Alignment explanation
Indices: 13577894--13578003 Score: 166
Period size: 51 Copynumber: 2.2 Consensus size: 51
13577884 TGAATAAAAT
*
13577894 AATAATAATAAACTAAAGATAATGTCTTGACTCAATCTGAATTCCTAATAA
1 AATAATAATAAACTAAAGATAATCTCTTGACTCAATCTGAATTCCTAATAA
* * * * *
13577945 AATAATACTAAGCTAAAGATAATCTTTTGACTCTATCTTAATTCCTAATAA
1 AATAATAATAAACTAAAGATAATCTCTTGACTCAATCTGAATTCCTAATAA
13577996 AATAATAA
1 AATAATAA
13578004 ATCCAATCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (51 bp):
AATAATAATAAACTAAAGATAATCTCTTGACTCAATCTGAATTCCTAATAA
Found at i:13592385 original size:19 final size:19
Alignment explanation
Indices: 13592361--13592404 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
13592351 GTGGCACATT
13592361 TTATGCCAAAAATGCACTG
1 TTATGCCAAAAATGCACTG
13592380 TTATGCCAAAAATGCACTG
1 TTATGCCAAAAATGCACTG
13592399 TTATGC
1 TTATGC
13592405 ATTAAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (19 bp):
TTATGCCAAAAATGCACTG
Found at i:13596457 original size:21 final size:21
Alignment explanation
Indices: 13596433--13596474 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13596423 AACACTTTTC
13596433 TTTTGCATT-TGTATTTGCATT
1 TTTTGCATTCTGTATTT-CATT
13596454 TTTTGCATTCTGTATTTCATT
1 TTTTGCATTCTGTATTTCATT
13596475 AATTTAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.62
Consensus pattern (21 bp):
TTTTGCATTCTGTATTTCATT
Found at i:13597403 original size:18 final size:18
Alignment explanation
Indices: 13597380--13597417 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
13597370 CTAAGAGTTT
13597380 TTCTGGCATCATCATATG
1 TTCTGGCATCATCATATG
13597398 TTCTGGCATCATCATATG
1 TTCTGGCATCATCATATG
13597416 TT
1 TT
13597418 GAGAAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (18 bp):
TTCTGGCATCATCATATG
Found at i:13600688 original size:3 final size:3
Alignment explanation
Indices: 13600680--13600718 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
13600670 TAGTATTAAT
* *
13600680 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA CTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13600719 ATTTTATAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:13600726 original size:12 final size:15
Alignment explanation
Indices: 13600680--13600725 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
13600670 TAGTATTAAT
*
13600680 TTATTATTATTATTA
1 TTATTATTACTATTA
13600695 TTATTATTACTATTA
1 TTATTATTACTATTA
*
13600710 CTA-TATTA-TATT-
1 TTATTATTACTATTA
13600722 TTAT
1 TTAT
13600726 AACGTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 2 0.07
13 4 0.15
14 5 0.19
15 16 0.59
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTATTACTATTA
Found at i:13605684 original size:20 final size:19
Alignment explanation
Indices: 13605659--13605710 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
13605649 TGAAATCCCT
*
13605659 TTGAAAATACATGATTTTTA
1 TTGAAAATACATGA-CTTTA
13605679 TTGAAAATACATGACTTTA
1 TTGAAAATACATGACTTTA
*
13605698 ATGAAAATACATG
1 TTGAAAATACATG
13605711 CTCTTTGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.37
Consensus pattern (19 bp):
TTGAAAATACATGACTTTA
Found at i:13605702 original size:19 final size:20
Alignment explanation
Indices: 13605660--13605716 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
13605650 GAAATCCCTT
* *
13605660 TGAAAATACATGATTTTTAT
1 TGAAAATACATGATCTTTAA
13605680 TGAAAATACATGA-CTTTAA
1 TGAAAATACATGATCTTTAA
*
13605699 TGAAAATACATGCTCTTT
1 TGAAAATACATGATCTTT
13605717 GTCAAATGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
TGAAAATACATGATCTTTAA
Found at i:13613378 original size:19 final size:21
Alignment explanation
Indices: 13613331--13613377 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
13613321 TTGAAATACC
*
13613331 ATTGAAAATACATGATTTTTA
1 ATTGAAAATACATGATCTTTA
13613352 A-TGAAAATACATGA-CTTTA
1 ATTGAAAATACATGATCTTTA
13613371 ATTGAAA
1 ATTGAAA
13613378 TGTATGCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 18 0.75
21 1 0.04
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (21 bp):
ATTGAAAATACATGATCTTTA
Found at i:13615474 original size:33 final size:33
Alignment explanation
Indices: 13615400--13615464 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
13615390 GGAAGTTGAG
*
13615400 TCATCCAAGGTGATGGATGAACCCAATATCGAA
1 TCATCCAAGGTGATGGATGAACCCAAGATCGAA
13615433 TCATCCAAGGTGATGGATGAACCCAAGATCGA
1 TCATCCAAGGTGATGGATGAACCCAAGATCGA
13615465 GTTGTCCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (33 bp):
TCATCCAAGGTGATGGATGAACCCAAGATCGAA
Found at i:13627317 original size:54 final size:54
Alignment explanation
Indices: 13627246--13627617 Score: 502
Period size: 54 Copynumber: 6.9 Consensus size: 54
13627236 CCGAAATGGA
* * * * *
13627246 AATTCATAAACTTATTATGAATTCCATGGATTGCACACATAGTGCCGATACGGT
1 AATTCACAAACTCATTATGAATTTCATGGGTTGCACACATAGTGTCGATACGGT
*
13627300 AATTCACAAACTCATTATGAATTTCTTGGGTTGCACACATAGTGTCGATACGGT
1 AATTCACAAACTCATTATGAATTTCATGGGTTGCACACATAGTGTCGATACGGT
* ** *
13627354 AATTCACAAACTCATTATGAA-TTCAGTGGGTTACACACATAGTACCAATACGGT
1 AATTCACAAACTCATTATGAATTTCA-TGGGTTGCACACATAGTGTCGATACGGT
* *
13627408 AATTCATAAACTC--TATGAATTTCGTGGGTTGCACACATAGTGTCGATACGGT
1 AATTCACAAACTCATTATGAATTTCATGGGTTGCACACATAGTGTCGATACGGT
* *
13627460 AATTCACAAACTCATTATGAATTTCGTGGGTTGCACACATAGTGTCGATACGTT
1 AATTCACAAACTCATTATGAATTTCATGGGTTGCACACATAGTGTCGATACGGT
* * * * *
13627514 AATTCATAAACTCATTATGAA-TTCAGTGGGTTGCACACATAATGTTGATAAGAT
1 AATTCACAAACTCATTATGAATTTCA-TGGGTTGCACACATAGTGTCGATACGGT
*
13627568 AATTCACAAACTCATTATGAATTTCGTGGGTTGCACACAATA-TGTCGATA
1 AATTCACAAACTCATTATGAATTTCATGGGTTGCACAC-ATAGTGTCGATA
13627618 GTACACAATA
Statistics
Matches: 283, Mismatches: 28, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
52 42 0.15
53 9 0.03
54 226 0.80
55 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (54 bp):
AATTCACAAACTCATTATGAATTTCATGGGTTGCACACATAGTGTCGATACGGT
Found at i:13627527 original size:160 final size:160
Alignment explanation
Indices: 13627246--13627617 Score: 539
Period size: 160 Copynumber: 2.3 Consensus size: 160
13627236 CCGAAATGGA
* * * * *
13627246 AATTCATAAACTTATTATGAATTCCATGGATTGCACACATAGTGCCGATACGGTAATTCACAAAC
1 AATTCATAAAC-T-CTATGAATTTCGTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAAC
*
13627311 TCATTATGAATTTCTTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAAT
64 TCATTATGAATTTCGTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAAT
* * *
13627376 TCAGTGGGTTACACACATAGTACCAATACGGT
129 TCAGTGGGTTACACACATAATACCAATAAGAT
13627408 AATTCATAAACTCTATGAATTTCGTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTC
1 AATTCATAAACTCTATGAATTTCGTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTC
* *
13627473 ATTATGAATTTCGTGGGTTGCACACATAGTGTCGATACGTTAATTCATAAACTCATTATGAATTC
66 ATTATGAATTTCGTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTC
* ****
13627538 AGTGGGTTGCACACATAATGTTGATAAGAT
131 AGTGGGTTACACACATAATACCAATAAGAT
*
13627568 AATTCACAAACTCATTATGAATTTCGTGGGTTGCACACAATA-TGTCGATA
1 AATTCATAAACTC--TATGAATTTCGTGGGTTGCACAC-ATAGTGTCGATA
13627618 GTACACAATA
Statistics
Matches: 190, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
160 144 0.76
161 1 0.01
162 42 0.22
163 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (160 bp):
AATTCATAAACTCTATGAATTTCGTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTC
ATTATGAATTTCGTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTC
AGTGGGTTACACACATAATACCAATAAGAT
Found at i:13628833 original size:8 final size:8
Alignment explanation
Indices: 13628820--13628845 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13628810 TTTCAGCTTA
13628820 TCCCTTTT
1 TCCCTTTT
13628828 TCCCTTTT
1 TCCCTTTT
13628836 TCCCTTTT
1 TCCCTTTT
13628844 TC
1 TC
13628846 AACCCTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (8 bp):
TCCCTTTT
Found at i:13630390 original size:42 final size:42
Alignment explanation
Indices: 13630344--13630434 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
13630334 GTTATAAAAT
*
13630344 ATAATATAATATTATTATTTTAACAAGTAA-TCAATATAATTA
1 ATAATATAATATTATTATTTTAACAAATAAGT-AATATAATTA
* * *
13630386 ATAATATAATATTTTTATTTTAATAAATAAGTAATATAATTT
1 ATAATATAATATTATTATTTTAACAAATAAGTAATATAATTA
13630428 ATAATAT
1 ATAATAT
13630435 TTACATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (42 bp):
ATAATATAATATTATTATTTTAACAAATAAGTAATATAATTA
Found at i:13630692 original size:13 final size:13
Alignment explanation
Indices: 13630674--13630699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13630664 CAAATATCGT
13630674 AAAAATTATTTTC
1 AAAAATTATTTTC
13630687 AAAAATTATTTTC
1 AAAAATTATTTTC
13630700 TAAGAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAAATTATTTTC
Found at i:13630764 original size:3 final size:3
Alignment explanation
Indices: 13630756--13630782 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13630746 TTGTCTGAAG
13630756 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
13630783 AACCCAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:13631016 original size:14 final size:15
Alignment explanation
Indices: 13630997--13631025 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13630987 TAATGGGGAG
13630997 TAATCCCTGC-AAAA
1 TAATCCCTGCGAAAA
13631011 TAATCCCTGCGAAAA
1 TAATCCCTGCGAAAA
13631026 AGTCTCTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (15 bp):
TAATCCCTGCGAAAA
Found at i:13633465 original size:14 final size:14
Alignment explanation
Indices: 13633446--13633473 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13633436 GAATTTTGGC
13633446 AATGGGAAAGGGAA
1 AATGGGAAAGGGAA
13633460 AATGGGAAAGGGAA
1 AATGGGAAAGGGAA
13633474 GAAAGGGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.43, T:0.07
Consensus pattern (14 bp):
AATGGGAAAGGGAA
Found at i:13633584 original size:12 final size:12
Alignment explanation
Indices: 13633557--13633588 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
13633547 TTTGATTTTT
13633557 TTTTTTTAAATA
1 TTTTTTTAAATA
13633569 --TTTTTAAATA
1 TTTTTTTAAATA
13633579 TTTTTTTAAA
1 TTTTTTTAAA
13633589 AGTCAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTTTTAAATA
Found at i:13634653 original size:39 final size:38
Alignment explanation
Indices: 13634589--13634706 Score: 164
Period size: 39 Copynumber: 3.0 Consensus size: 38
13634579 CATGTACACC
* * *
13634589 CAGTAAGGACTTACGCTGTGCACAAAGCAGAGGATCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGC-GAGGAGCCTG
* *
13634628 CAGTAAGGACTTACCCTGAGTACAAAGCCGAGGAGCATG
1 CAGTAAGGACTTACCCTGAGCACAAAG-CGAGGAGCCTG
13634667 CAGTAAGGACTTACCCTGAGCACAAAGTCGAGGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAG-CGAGGAGCCTG
13634706 C
1 C
13634707 GGAAAGCGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
39 69 0.99
40 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.28, T:0.16
Consensus pattern (38 bp):
CAGTAAGGACTTACCCTGAGCACAAAGCGAGGAGCCTG
Found at i:13634769 original size:44 final size:44
Alignment explanation
Indices: 13634669--13634826 Score: 183
Period size: 44 Copynumber: 3.5 Consensus size: 44
13634659 GGAGCATGCA
* * * *
13634669 GTAAGGACTTACCCTGAGCACAAAGTC-GAGGAGCCTGCGGAAAGCG
1 GTAAGGTCTTACCCT-AGCACATAG-CAGAAGAGCCTGCAGAAA-CG
*
13634715 GTAAGGTCTTACCCTAACACATAGCAGAAGAGCCTGCAGAAACG
1 GTAAGGTCTTACCCTAGCACATAGCAGAAGAGCCTGCAGAAACG
* * * * *
13634759 GTAAGATCTTACCCTGGCACATAGCAGAGGAGCCTTCAGAAATG
1 GTAAGGTCTTACCCTAGCACATAGCAGAAGAGCCTGCAGAAACG
*
13634803 GTAAGGTCTTACCCTTGCACATAG
1 GTAAGGTCTTACCCTAGCACATAG
13634827 AAAAGTAGCA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
44 63 0.64
45 21 0.21
46 14 0.14
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (44 bp):
GTAAGGTCTTACCCTAGCACATAGCAGAAGAGCCTGCAGAAACG
Found at i:13634841 original size:44 final size:43
Alignment explanation
Indices: 13634699--13634845 Score: 150
Period size: 44 Copynumber: 3.3 Consensus size: 43
13634689 CAAAGTCGAG
* * * *
13634699 GAGCCTGCGGAAAGCGGTAAGGTCTTACCCTAACACATAGCAGAA
1 GAGCCTTCAGAAA-CGGTAAGGTCTTACCCTAGCACATAG-AAAA
* * * * *
13634744 GAGCCTGCAGAAACGGTAAGATCTTACCCTGGCACATAGCAGAG
1 GAGCCTTCAGAAACGGTAAGGTCTTACCCTAGCACATAG-AAAA
* *
13634788 GAGCCTTCAGAAATGGTAAGGTCTTACCCTTGCACATAGAAAA
1 GAGCCTTCAGAAACGGTAAGGTCTTACCCTAGCACATAGAAAA
*
13634831 GTAGCATTCAGAAAC
1 G-AGCCTTCAGAAAC
13634846 TTCATCCAAC
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
43 3 0.03
44 73 0.83
45 12 0.14
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (43 bp):
GAGCCTTCAGAAACGGTAAGGTCTTACCCTAGCACATAGAAAA
Found at i:13634843 original size:88 final size:90
Alignment explanation
Indices: 13634676--13634845 Score: 213
Period size: 88 Copynumber: 1.9 Consensus size: 90
13634666 GCAGTAAGGA
*
13634676 CTTACCCTGAGCACAAAGTCGAGGAGCCTGCGGAAAGCGGTAAGGTCTTACCCTAACACATAGCA
1 CTTACCCTGAGCACAAAGTCGAGGAGCCTGCAGAAAGCGGTAAGGTCTTACCCTAACACATAGCA
* *
13634741 GAAGAGCCTGCAGAAACGGTAAGAT
66 AAAGAGCATGCAGAAACGGTAAGAT
* * * **
13634766 CTTACCCTG-GCACATAG-CAGAGGAGCCTTCAGAAA-TGGTAAGGTCTTACCCTTGCACATAG-
1 CTTACCCTGAGCACAAAGTC-GAGGAGCCTGCAGAAAGCGGTAAGGTCTTACCCTAACACATAGC
*
13634827 AAAAGTAGCATTCAGAAAC
65 AAAAG-AGCATGCAGAAAC
13634846 TTCATCCAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
87 4 0.06
88 35 0.51
89 21 0.30
90 9 0.13
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (90 bp):
CTTACCCTGAGCACAAAGTCGAGGAGCCTGCAGAAAGCGGTAAGGTCTTACCCTAACACATAGCA
AAAGAGCATGCAGAAACGGTAAGAT
Found at i:13641602 original size:39 final size:39
Alignment explanation
Indices: 13641559--13641715 Score: 217
Period size: 39 Copynumber: 4.0 Consensus size: 39
13641549 CCTGTACACC
* *
13641559 CAGTAAGGACTTACCCTGTA-CACAAAGCAGAGGAGCCTA
1 CAGTAAGGACTTACCCTG-AGCACAAAGCTGAGGAGCCTG
** *
13641598 CAGTAAGGACTTACTTTGAGCACAAAGTTGAGGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
* * *
13641637 CAGTAAGGACTTACCTTGAGCACAAAGTTGAGGAACCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
*
13641676 CAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
13641715 C
1 C
13641716 GAAAGGTGGT
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 105 0.99
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (39 bp):
CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
Found at i:13643285 original size:4 final size:4
Alignment explanation
Indices: 13643276--13643325 Score: 100
Period size: 4 Copynumber: 12.5 Consensus size: 4
13643266 AAGTGATGAG
13643276 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
13643324 AT
1 AT
13643326 ATACAAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:13643337 original size:4 final size:4
Alignment explanation
Indices: 13643330--13643372 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
13643320 ATTAATATAC
* **
13643330 AAAT AAAT AAAT AGAT AGGT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
13643373 GAGGATTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:13651111 original size:35 final size:34
Alignment explanation
Indices: 13651026--13651112 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
13651016 AAAATAATTT
*
13651026 TAAATACAACAAAGTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
13651060 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
13651098 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
13651113 ACTAAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:13652651 original size:14 final size:14
Alignment explanation
Indices: 13652628--13652663 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
13652618 CAGCAGGAGA
13652628 CATT-CGCCGATAG
1 CATTACGCCGATAG
13652641 CATTACGCCGATAG
1 CATTACGCCGATAG
13652655 CATTACGCC
1 CATTACGCC
13652664 TGTAGTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.22
Consensus pattern (14 bp):
CATTACGCCGATAG
Found at i:13653539 original size:20 final size:20
Alignment explanation
Indices: 13653514--13653553 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13653504 TACCTTAATA
* *
13653514 AGAGAATATAAGAGTATTTG
1 AGAGAAGATAAGAGGATTTG
*
13653534 AGAGAAGATGAGAGGATTTG
1 AGAGAAGATAAGAGGATTTG
13653554 GTGTGATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (20 bp):
AGAGAAGATAAGAGGATTTG
Found at i:13663584 original size:15 final size:15
Alignment explanation
Indices: 13663564--13663595 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13663554 TGATTGCGTT
13663564 TGTCTAGCTCTCGTC
1 TGTCTAGCTCTCGTC
*
13663579 TGTCTAGCTCTTGTC
1 TGTCTAGCTCTCGTC
13663594 TG
1 TG
13663596 ACTTGCTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.28, G:0.22, T:0.44
Consensus pattern (15 bp):
TGTCTAGCTCTCGTC
Found at i:13664580 original size:22 final size:22
Alignment explanation
Indices: 13664552--13664596 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
13664542 CATTCATATA
13664552 AGGACACTATGGACTCTGATTT
1 AGGACACTATGGACTCTGATTT
13664574 AGGACACTATGGACTCTGATTT
1 AGGACACTATGGACTCTGATTT
13664596 A
1 A
13664597 TGCCTAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (22 bp):
AGGACACTATGGACTCTGATTT
Found at i:13665238 original size:24 final size:24
Alignment explanation
Indices: 13665211--13665256 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13665201 TTCGTATAAA
*
13665211 TGCACTGAAGTGCCACGTAGAATT
1 TGCACCGAAGTGCCACGTAGAATT
*
13665235 TGCACCGAAGTGCCGCGTAGAA
1 TGCACCGAAGTGCCACGTAGAA
13665257 ATGCACCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (24 bp):
TGCACCGAAGTGCCACGTAGAATT
Found at i:13669170 original size:2 final size:2
Alignment explanation
Indices: 13669159--13669245 Score: 167
Period size: 2 Copynumber: 44.0 Consensus size: 2
13669149 TAAAGGTGAT
13669159 TA TA -A 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
13669200 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
13669242 TA TA
1 TA TA
13669246 CAATAAAGAT
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 83 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13671147 original size:45 final size:45
Alignment explanation
Indices: 13671098--13671203 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
13671088 AGAGTCAATC
* * *
13671098 TTTAGTGATGTCATTCTTGACTTTCTCGTGAAGAGAAGTTAACCT
1 TTTAGTGATGTCATTCTTGACTTTCTCGTGAACAGAAATCAACCT
* ** * * *
13671143 TTTAGTGGTGTTGTTC-TGACTTTCTTGTGGACAGAAATCAACTT
1 TTTAGTGATGTCATTCTTGACTTTCTCGTGAACAGAAATCAACCT
13671187 TTTAGTGATGTCATTCT
1 TTTAGTGATGTCATTCT
13671204 CAACTTGACT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
44 35 0.73
45 13 0.27
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (45 bp):
TTTAGTGATGTCATTCTTGACTTTCTCGTGAACAGAAATCAACCT
Found at i:13671217 original size:50 final size:50
Alignment explanation
Indices: 13671159--13671369 Score: 162
Period size: 50 Copynumber: 4.2 Consensus size: 50
13671149 GGTGTTGTTC
* * * * *
13671159 TGACTTTCTTGTGGACAGAAATCAACTTTTTAGTGATGTCATTCTCAACT
1 TGACTTTCTCGCGGAGAGAAATCAACTTTTCAGTGATATCATTCTCAACT
**** * * *
13671209 TGACTTTCTCATAAAGA-AAAGCCAA-TCTTT-AGTGATGTCATTCTCAATT
1 TGACTTTCTCGCGGAGAGAAA-TCAACT-TTTCAGTGATATCATTCTCAACT
* * * * *
13671258 TGACTTTCTCGCGGAGATG-AGTCAACTTTTCAGTAATATCTTTTTCAATT
1 TGACTTTCTCGCGGAGA-GAAATCAACTTTTCAGTGATATCATTCTCAACT
** *
13671308 TGACTTTCTATCGGAGAGAAGTCAACTTTTCAGT-AGTATCATTTCTCAACT
1 TGACTTTCTCGCGGAGAGAAATCAACTTTTCAGTGA-TATCA-TTCTCAACT
13671359 TGACTTTCTCG
1 TGACTTTCTCG
13671370 TGTAGAGGAG
Statistics
Matches: 128, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
49 43 0.34
50 69 0.54
51 16 0.12
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (50 bp):
TGACTTTCTCGCGGAGAGAAATCAACTTTTCAGTGATATCATTCTCAACT
Found at i:13671383 original size:51 final size:48
Alignment explanation
Indices: 13671249--13671384 Score: 164
Period size: 50 Copynumber: 2.7 Consensus size: 48
13671239 AGTGATGTCA
*
13671249 TTCTCAATTTGACTTTCTCGCGGAGATGAGTCAACTTTTCAGTAATATCT
1 TTCTCAATTTGACTTTCT--CGGAGAGGAGTCAACTTTTCAGTAATATCT
* * *
13671299 TTTTCAATTTGACTTTCTATCGGAGAGAAGTCAACTTTTCAGTAGTATCAT
1 TTCTCAATTTGACTTTC--TCGGAGAGGAGTCAACTTTTCAGTAATATC-T
*
13671350 TTCTCAACTTGACTTTCTCGTGTAGAGGAGTCAAC
1 TTCTCAATTTGACTTTCTCG-G-AGAGGAGTCAAC
13671385 ATGTCTGTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
49 3 0.04
50 43 0.58
51 27 0.36
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (48 bp):
TTCTCAATTTGACTTTCTCGGAGAGGAGTCAACTTTTCAGTAATATCT
Found at i:13672510 original size:136 final size:135
Alignment explanation
Indices: 13671992--13672551 Score: 676
Period size: 135 Copynumber: 4.1 Consensus size: 135
13671982 ATCTTTGAAA
* * * ** * * *
13671992 CAAATCACGTTTGATTCAATTTTCCCTGAAGAATAGCGAAGTGGATCAAAATTCTCTCAAGTCTG
1 CAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAAATTTTCTCGAGTCTG
* * * * *
13672057 ATCTCCCCTAAAGAGTAGCGAAGCAAATT-ATCTTTCTTTC-AGATTTGGTATTCCTGAAGAGCA
66 ACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTC-TTCTTTCAAGATTTGGTATTCCTAAAGAGCA
**
13672120 GTAAAG
130 GCGAAG
* * * *
13672126 CAATTCACATTCGATTCAATATTCCATGAAGAGCAGCGAAGTGAATCAAAATTTTCTCGAGTTTG
1 CAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAAATTTTCTCGAGTCTG
* * *
13672191 ACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTC-TCATTTCAAGATTTGGTCTTCCTAAAGAGTA
66 ACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTCTTC-TTTCAAGATTTGGTATTCCTAAAGAGCA
13672255 GCGAAG
130 GCGAAG
* * * *
13672261 TAAATCACATTCGATTCAATCTTCCCTTAAGAGCAGTGAAGTGAATCAAATTTTTCTCGAGTCTG
1 CAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAAATTTTCTCGAGTCTG
* * * *
13672326 ACCTCCCCTAAAGTGTAACGGAGCAGATTCTTCTCCTTTCAAGATTTGGTATTCCTGAAGAGCAG
66 ACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTCTTCTTTCAAGATTTGGTATTCCTAAAGAGCAG
*
13672391 TGAAG
131 CGAAG
** ** * * *
13672396 CAAATTGCATTCGATTCAATCTTCCCTGAAGAGCAGAAAAATGGATCAAAGTTTTTCTCGAGTCT
1 CAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAA-ATTTTCTCGAGTCT
* * * * * *
13672461 GACCTCCCCTAAAGAGTAGCGGAGCATATCCTTCTTCTTTTAAGATTTGGTCTTCTTAAAGAACA
65 GACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTCTTCTTTCAAGATTTGGTATTCCTAAAGAGCA
13672526 GCGAAG
130 GCGAAG
13672532 CAAATCACATTCGATTCAAT
1 CAAATCACATTCGATTCAAT
13672552 TTTCTCGAGT
Statistics
Matches: 363, Mismatches: 58, Indels: 8
0.85 0.14 0.02
Matches are distributed among these distances:
133 2 0.01
134 83 0.23
135 185 0.51
136 93 0.26
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (135 bp):
CAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAAATTTTCTCGAGTCTG
ACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTCTTCTTTCAAGATTTGGTATTCCTAAAGAGCAG
CGAAG
Found at i:13672531 original size:271 final size:269
Alignment explanation
Indices: 13671992--13672551 Score: 732
Period size: 271 Copynumber: 2.1 Consensus size: 269
13671982 ATCTTTGAAA
* * * * *
13671992 CAAATCACGTTTGATTCAATTTTCCCTGAAGAATAGCGAAGTGGATCAAAATTCTCTCAAGTCTG
1 CAAATCACATTCGATTCAATCTTCCCTGAAGAACAGCGAAGTGAATCAAAATTCTCTCAAGTCTG
* *
13672057 ATCTCCCCTAAAGAGTAGCGAAGCAAATTATCTTTCTTTCAGATTTGGTATTCCTGAAGAGCAGT
66 ACCTCCCCTAAAGAGTAACGAAGCAAATTATCTTTCTTTCAGATTTGGTATTCCTGAAGAGCAGT
** *
13672122 AAAGCAATTCACATTCGATTCAATATTCCATGAAGAGCAGCGAAGTGAATCAAAATTTTCTCGAG
131 AAAGCAATTCACATTCGATTCAATATTCCATGAAGAGCAGAAAAATGAATCAAAATTTTCTCGAG
* * *
13672187 TTTGACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTCATTTCAAGATTTGGTCTTCCTAAAGA
196 TCTGACCTCCCCTAAAGAGTAGCGGAGCAGATCCTTCTCATTTCAAGATTTGGTCTTCCTAAAGA
**
13672252 GTAGCGAAG
261 ACAGCGAAG
* * * * * * *
13672261 TAAATCACATTCGATTCAATCTTCCCTTAAGAGCAGTGAAGTGAATCAAATTTTTCTCGAGTCTG
1 CAAATCACATTCGATTCAATCTTCCCTGAAGAACAGCGAAGTGAATCAAAATTCTCTCAAGTCTG
* * *
13672326 ACCTCCCCTAAAGTGTAACGGAGCAGA-T-TCTTCTCCTTTCAAGATTTGGTATTCCTGAAGAGC
66 ACCTCCCCTAAAGAGTAACGAAGCAAATTATCTT-T-CTTTC-AGATTTGGTATTCCTGAAGAGC
* * * * * *
13672389 AGTGAAGCAAATT-GCATTCGATTCAATCTTCCCTGAAGAGCAGAAAAATGGATCAAAGTTTTTC
128 AGTAAAGC-AATTCACATTCGATTCAATATTCCATGAAGAGCAGAAAAATGAATCAAA-ATTTTC
* * *
13672453 TCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCATATCCTTCTTC-TTTTAAGATTTGGTCTTCT
191 TCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATCCTTC-TCATTTCAAGATTTGGTCTTCC
13672517 TAAAGAACAGCGAAG
255 TAAAGAACAGCGAAG
13672532 CAAATCACATTCGATTCAAT
1 CAAATCACATTCGATTCAAT
13672552 TTTCTCGAGT
Statistics
Matches: 250, Mismatches: 35, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
267 4 0.02
268 2 0.01
269 80 0.32
270 66 0.26
271 96 0.38
272 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (269 bp):
CAAATCACATTCGATTCAATCTTCCCTGAAGAACAGCGAAGTGAATCAAAATTCTCTCAAGTCTG
ACCTCCCCTAAAGAGTAACGAAGCAAATTATCTTTCTTTCAGATTTGGTATTCCTGAAGAGCAGT
AAAGCAATTCACATTCGATTCAATATTCCATGAAGAGCAGAAAAATGAATCAAAATTTTCTCGAG
TCTGACCTCCCCTAAAGAGTAGCGGAGCAGATCCTTCTCATTTCAAGATTTGGTCTTCCTAAAGA
ACAGCGAAG
Found at i:13672629 original size:103 final size:103
Alignment explanation
Indices: 13672448--13672653 Score: 304
Period size: 103 Copynumber: 2.0 Consensus size: 103
13672438 GGATCAAAGT
* * * *
13672448 TTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCATATCCTTCTTCTTTTAAGATTTGGTC
1 TTTTCTCGAGTCTGACCTCCCCTAAAGAGTAACGGAGCAGATCCATCTTCGTTTAAGATTTGGTC
13672513 TTCTTAAAGAACAGCGAAGCAAATCACATTCGATTCAA
66 TTCTTAAAGAACAGCGAAGCAAATCACATTCGATTCAA
* *
13672551 TTTTCTCGAGTCTGACCTCCCCTAAAGAGTAACGGAGTAGATTCATCTTCGTTTAAGATTTGGTC
1 TTTTCTCGAGTCTGACCTCCCCTAAAGAGTAACGGAGCAGATCCATCTTCGTTTAAGATTTGGTC
* * * ** *
13672616 TTCTTGAATAACAGTGAAGTGAATCACGTTCGATTCAA
66 TTCTTAAAGAACAGCGAAGCAAATCACATTCGATTCAA
13672654 CCTTCCCTGA
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 91 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (103 bp):
TTTTCTCGAGTCTGACCTCCCCTAAAGAGTAACGGAGCAGATCCATCTTCGTTTAAGATTTGGTC
TTCTTAAAGAACAGCGAAGCAAATCACATTCGATTCAA
Found at i:13684903 original size:36 final size:36
Alignment explanation
Indices: 13684862--13684964 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
13684852 AGTTGAGTAT
13684862 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
13684898 TATCAGCTTTGGTACATTCGTGTATCAATGATATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
13684934 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
13684965 CCAGCACCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:13686581 original size:59 final size:59
Alignment explanation
Indices: 13686489--13686617 Score: 186
Period size: 59 Copynumber: 2.2 Consensus size: 59
13686479 CGTAGTGTTA
* **
13686489 TCCCGAATATGACACATAAGGTCGTGCCCACCATCTGTACTAGGTATACTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATACTTAAGTACAG
* * ** *
13686548 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATACTTAAGTACAG
13686607 TCCCGAATATG
1 TCCCGAATATG
13686618 CAGCCTGCTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATACTTAAGTACAG
Found at i:13687352 original size:29 final size:28
Alignment explanation
Indices: 13687315--13687371 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
13687305 TCCATTTTCC
* * *
13687315 AAAATTTACGAATTGATCTCCAACTTTTT
1 AAAACTTACGAAATGATCCCCAA-TTTTT
13687344 AAAACTTACGAAATGATCCCCAATTTTT
1 AAAACTTACGAAATGATCCCCAATTTTT
13687372 CTAAGACTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (28 bp):
AAAACTTACGAAATGATCCCCAATTTTT
Found at i:13690817 original size:36 final size:36
Alignment explanation
Indices: 13690775--13691095 Score: 252
Period size: 36 Copynumber: 8.9 Consensus size: 36
13690765 TTAAAAACAT
* * *
13690775 CACAAATTATACTTAACTCACAATGGAGGAGTCACA
1 CACAAATCAGACTTAACTCACAATGGAGGAGTCACC
* * ** * **
13690811 CTCAAATCATACTTAACTTGCAATAGAGGAGTTTCC
1 CACAAATCAGACTTAACTCACAATGGAGGAGTCACC
* *
13690847 CACAAATCAAACTTAACTTACAATGGAGGAGTCACC
1 CACAAATCAGACTTAACTCACAATGGAGGAGTCACC
* * * * * **
13690883 CACAAATGAAACTTAACT-AGTAATAGAGGATTCGTC
1 CACAAATCAGACTTAACTCA-CAATGGAGGAGTCACC
* *
13690919 CACAAATTAGACTTAACAT-GCAATGGAGGAGTCACC
1 CACAAATCAGACTTAAC-TCACAATGGAGGAGTCACC
* * **
13690955 CACACATAAGACTTAACTCGTAATGGAGGAGTCACC
1 CACAAATCAGACTTAACTCACAATGGAGGAGTCACC
* * ** *
13690991 CGCAAACCAGACTTAACTCACAATAAATGAGTCACC
1 CACAAATCAGACTTAACTCACAATGGAGGAGTCACC
* ** * * *
13691027 AACAAATCAGACTTAACT-AGTGATGAAGAAGCCACC
1 CACAAATCAGACTTAACTCA-CAATGGAGGAGTCACC
* *
13691063 CACAAATCAGACTTAACTCGCAATGGAGAAGTC
1 CACAAATCAGACTTAACTCACAATGGAGGAGTC
13691096 GTTCATAATT
Statistics
Matches: 225, Mismatches: 55, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
35 3 0.01
36 221 0.98
37 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (36 bp):
CACAAATCAGACTTAACTCACAATGGAGGAGTCACC
Found at i:13690897 original size:72 final size:72
Alignment explanation
Indices: 13690775--13691095 Score: 283
Period size: 72 Copynumber: 4.5 Consensus size: 72
13690765 TTAAAAACAT
* * * * * * *
13690775 CACAAATTATACTTAACTCACAATGGAGGAGTCACACTCAAATCATACTTAACTTGCAATAGAGG
1 CACAAATCAGACTTAACTCACAATGGAGGAGTCACCCACAAATCAAACTTAACTAGTAATAGAGG
13690840 AGTTTCC
66 AGTTTCC
* * *
13690847 CACAAATCAAACTTAACTTACAATGGAGGAGTCACCCACAAATGAAACTTAACTAGTAATAGAGG
1 CACAAATCAGACTTAACTCACAATGGAGGAGTCACCCACAAATCAAACTTAACTAGTAATAGAGG
13690912 A--TTCGTC
66 AGTTTC--C
* * * * *
13690919 CACAAATTAGACTTAACAT-GCAATGGAGGAGTCACCCACACAT-AAGACTTAACTCGTAATGGA
1 CACAAATCAGACTTAAC-TCACAATGGAGGAGTCACCCACAAATCAA-ACTTAACTAGTAATAGA
**
13690982 GGAGTCACC
64 GGAGTTTCC
* * ** * * * *
13690991 CGCAAACCAGACTTAACTCACAATAAATGAGTCACCAACAAATCAGACTTAACTAGTGAT-GAAG
1 CACAAATCAGACTTAACTCACAATGGAGGAGTCACCCACAAATCAAACTTAACTAGTAATAG-AG
* ***
13691055 AAGCCACC
65 GAGTTTCC
* *
13691063 CACAAATCAGACTTAACTCGCAATGGAGAAGTC
1 CACAAATCAGACTTAACTCACAATGGAGGAGTC
13691096 GTTCATAATT
Statistics
Matches: 202, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
70 3 0.01
71 4 0.02
72 192 0.95
73 2 0.01
74 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (72 bp):
CACAAATCAGACTTAACTCACAATGGAGGAGTCACCCACAAATCAAACTTAACTAGTAATAGAGG
AGTTTCC
Found at i:13694935 original size:13 final size:13
Alignment explanation
Indices: 13694917--13694945 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
13694907 ACTTCATCAT
13694917 TTAAAGAAAAATC
1 TTAAAGAAAAATC
13694930 TTAAAGAAAAATC
1 TTAAAGAAAAATC
13694943 TTA
1 TTA
13694946 CTAATATACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (13 bp):
TTAAAGAAAAATC
Found at i:13695142 original size:21 final size:21
Alignment explanation
Indices: 13695117--13695159 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13695107 GAATTTGTTA
* *
13695117 AAAAATATTAATGTTTTAAAT
1 AAAAATAATAATCTTTTAAAT
13695138 AAAAATAATAATCTTTTAAAT
1 AAAAATAATAATCTTTTAAAT
13695159 A
1 A
13695160 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAATAATAATCTTTTAAAT
Found at i:13697036 original size:20 final size:20
Alignment explanation
Indices: 13697013--13697098 Score: 97
Period size: 20 Copynumber: 4.3 Consensus size: 20
13697003 AATTTATAAA
13697013 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
13697033 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
13697053 TCGCAACGC-GAATTTGT-AAA-
1 TCGCAACACAGAA---GTCAAAT
13697073 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
13697093 CCGCAA
1 TCGCAA
13697099 TGCGATAGCC
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
19 5 0.09
20 40 0.73
21 6 0.11
22 2 0.04
ACGTcount: A:0.43, C:0.26, G:0.15, T:0.16
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:13697253 original size:22 final size:22
Alignment explanation
Indices: 13697228--13697286 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
13697218 TCACTCTCTA
*
13697228 CGACGACATCCGTCTCCATCTC
1 CGACGAAATCCGTCTCCATCTC
*
13697250 CGACGAAATCCGTCCCCATCTC
1 CGACGAAATCCGTCTCCATCTC
* *
13697272 CAATGAAATCCGTCT
1 CGACGAAATCCGTCT
13697287 ATCTCCATCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.41, G:0.14, T:0.22
Consensus pattern (22 bp):
CGACGAAATCCGTCTCCATCTC
Found at i:13697656 original size:20 final size:20
Alignment explanation
Indices: 13697631--13697691 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
13697621 AAACTTAAAT
13697631 TCGCAACACGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
*
13697651 TCGCAACAC------CAAAA
1 TCGCAACACGAAAATGAAAA
*
13697665 TCGCAACGCGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
13697685 TCGCAAC
1 TCGCAAC
13697692 GCGATTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
14 12 0.38
20 20 0.62
ACGTcount: A:0.49, C:0.26, G:0.15, T:0.10
Consensus pattern (20 bp):
TCGCAACACGAAAATGAAAA
Found at i:13697678 original size:14 final size:14
Alignment explanation
Indices: 13697646--13697679 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13697636 ACACGAAAAT
13697646 GAAAATCGCAACAC
1 GAAAATCGCAACAC
* *
13697660 CAAAATCGCAACGC
1 GAAAATCGCAACAC
13697674 GAAAAT
1 GAAAAT
13697680 GAAAATCGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.26, G:0.15, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:13697719 original size:14 final size:14
Alignment explanation
Indices: 13697720--13697753 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13697710 TGCGATTTTC
13697720 ATTTTCGCATTGCG
1 ATTTTCGCATTGCG
* *
13697734 ATTTTCTCGTTGCG
1 ATTTTCGCATTGCG
13697748 ATTTTC
1 ATTTTC
13697754 ATTTTCGCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.50
Consensus pattern (14 bp):
ATTTTCGCATTGCG
Found at i:13697727 original size:20 final size:20
Alignment explanation
Indices: 13697692--13697768 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 20
13697682 AAATCGCAAC
*
13697692 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
13697711 GCGATTTTCATTTTCGCATT
1 GCGATTTTCATTTTCGCGTT
13697731 GCGATTTTC----T--CGTT
1 GCGATTTTCATTTTCGCGTT
13697745 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
13697765 GCGA
1 GCGA
13697769 ATTTAAGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.25
16 1 0.02
18 1 0.02
19 8 0.17
20 26 0.54
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:13697750 original size:34 final size:34
Alignment explanation
Indices: 13697702--13697768 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
13697692 GCGATTTTAG
13697702 TTTCGCGTTGCGATTTTCATTTTCGCATTGCGAT
1 TTTCGCGTTGCGATTTTCATTTTCGCATTGCGAT
* *
13697736 TTTCTCGTTGCGATTTTCATTTTCGCGTTGCGA
1 TTTCGCGTTGCGATTTTCATTTTCGCATTGCGA
13697769 ATTTAAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.48
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTCATTTTCGCATTGCGAT
Found at i:13699911 original size:21 final size:22
Alignment explanation
Indices: 13699870--13699968 Score: 73
Period size: 21 Copynumber: 4.7 Consensus size: 22
13699860 GATGCACCTA
* *
13699870 TCATCATTCAAGAGACGCCTCC
1 TCATCATTCAAGAGGCCCCTCC
13699892 T-ATCATTCAAGAGGCCCCT-C
1 TCATCATTCAAGAGGCCCCTCC
*
13699912 TCATCA-TCGAAGAAGCCCCTCC
1 TCATCATTC-AAGAGGCCCCTCC
* ** * *
13699934 -CACCGCTCAAGAGGCCACT-G
1 TCATCATTCAAGAGGCCCCTCC
*
13699954 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
13699969 TCCCGCCCGC
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
20 4 0.06
21 54 0.87
22 4 0.06
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.20
Consensus pattern (22 bp):
TCATCATTCAAGAGGCCCCTCC
Found at i:13701424 original size:64 final size:66
Alignment explanation
Indices: 13701311--13701470 Score: 225
Period size: 66 Copynumber: 2.4 Consensus size: 66
13701301 CTGGGTACAC
*
13701311 TTTTTTTGCTTGTTTAATTGAATTTTACATTGAAAGTTGATTTGTTTAA-TTGATGAGGAAATAA
1 TTTTTTTGCTTGTTTAATTG-A-TTT---GTGAAAGTTGATTTGTTTAATTTGATGAGGAAATAA
13701375 GAATTA
61 GAATTA
* *
13701381 -TTTTTTGCTTGTTTAATTGATTTGTGAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTTGCTTGTTTAATTGATTTGTGAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATT
13701445 A
66 A
*
13701446 TTTTTTTCCTTGTTTAATTGATTTG
1 TTTTTTTGCTTGTTTAATTGATTTG
13701471 AAAGGTTAAT
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
64 19 0.23
65 19 0.23
66 23 0.27
67 3 0.04
68 1 0.01
69 19 0.23
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (66 bp):
TTTTTTTGCTTGTTTAATTGATTTGTGAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATT
A
Found at i:13701473 original size:64 final size:63
Alignment explanation
Indices: 13701340--13701474 Score: 209
Period size: 64 Copynumber: 2.1 Consensus size: 63
13701330 GAATTTTACA
*
13701340 TTGAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATT
1 TTGAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTCCTTGTTTAATTGATT
* *
13701403 TGTGAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTCCTTGTTTAATTGA-
1 T-TGAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA-TTTTTTCCTTGTTTAATTGAT
13701467 T
63 T
13701468 TTGAAAG
1 TTGAAAG
13701475 GTTAATTCGC
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
63 1 0.02
64 25 0.38
65 21 0.32
66 19 0.29
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.50
Consensus pattern (63 bp):
TTGAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTCCTTGTTTAATTGATT
Found at i:13701544 original size:20 final size:20
Alignment explanation
Indices: 13701507--13701545 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13701497 GCGTTGTGAT
*
13701507 AGTCAAATTCGCAACGCGAA
1 AGTCAAATTCACAACGCGAA
* *
13701527 AGTCTAATTCACATCGCGA
1 AGTCAAATTCACAACGCGA
13701546 TTTTTGGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (20 bp):
AGTCAAATTCACAACGCGAA
Done.