Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_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: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 25
Found at i:4258155 original size:57 final size:57
Alignment explanation
Indices: 4258091--4258204 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
4258081 AACCTGCAAA
4258091 GGAAGTGTATGGTTAACAAAAAAACTGGATTGGATGGTTGATGTATGGTGATAAAGG
1 GGAAGTGTATGGTTAACAAAAAAACTGGATTGGATGGTTGATGTATGGTGATAAAGG
4258148 GGAAGTGTATGGTTAACAAAAAAACTGGATTGGATGGTTGATGTATGGTGATAAAGG
1 GGAAGTGTATGGTTAACAAAAAAACTGGATTGGATGGTTGATGTATGGTGATAAAGG
4258205 TGCACTGAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.35, C:0.04, G:0.33, T:0.28
Consensus pattern (57 bp):
GGAAGTGTATGGTTAACAAAAAAACTGGATTGGATGGTTGATGTATGGTGATAAAGG
Found at i:4282645 original size:104 final size:104
Alignment explanation
Indices: 4282461--4282670 Score: 330
Period size: 104 Copynumber: 2.0 Consensus size: 104
4282451 AAGGCTAGCA
* ** *
4282461 ATTCTTTGGTTGCCCAAATTGGTTTGAGGTTAGTTCATGTACATGTTAATTCTTTTCAGTTTATG
1 ATTCTTCGGTTGCCCAAATTGGTTCAAGGTTAGTTCAAGTACATGTTAATTCTTTTCAGTTTATG
* *
4282526 AAATGTGATGTATATTGGTTAGTTATGAAATGCTTCACC
66 AAATGTGATGCATATTGGTTACTTATGAAATGCTTCACC
* * **
4282565 ATTCTTCGGTTGTCCAAATTGGTTCAAGGTTAGTTTAAGTACATGTTAATTCTTTTGTGTTTATG
1 ATTCTTCGGTTGCCCAAATTGGTTCAAGGTTAGTTCAAGTACATGTTAATTCTTTTCAGTTTATG
4282630 AAATGTGATGCATATTGGTTACTTATGAAATGCTTCACC
66 AAATGTGATGCATATTGGTTACTTATGAAATGCTTCACC
4282669 AT
1 AT
4282671 GATTTGTTCT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.44
Consensus pattern (104 bp):
ATTCTTCGGTTGCCCAAATTGGTTCAAGGTTAGTTCAAGTACATGTTAATTCTTTTCAGTTTATG
AAATGTGATGCATATTGGTTACTTATGAAATGCTTCACC
Found at i:4283253 original size:41 final size:40
Alignment explanation
Indices: 4283202--4283293 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
4283192 AATGTACAGT
*
4283202 TATATAAAGTTGACCAAAATTTTCATTCAA-AATTAACAAAA
1 TATATAAAGTT-ACC-AAATTTCCATTCAATAATTAACAAAA
* *
4283243 TATATAAAGTTACCATATTTCCATTCAATAATTGACAAAA
1 TATATAAAGTTACCAAATTTCCATTCAATAATTAACAAAA
*
4283283 TACATAAAGTT
1 TATATAAAGTT
4283294 TAACTAAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 12 0.26
40 23 0.50
41 11 0.24
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (40 bp):
TATATAAAGTTACCAAATTTCCATTCAATAATTAACAAAA
Found at i:4291821 original size:216 final size:215
Alignment explanation
Indices: 4291572--4292698 Score: 1710
Period size: 216 Copynumber: 5.3 Consensus size: 215
4291562 AAATTTAAGA
*
4291572 ATTAAATTGAACAAATATGAAATTACGAATAAAAATTTAAATAAATTAAACAACACACATTGATG
1 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
*
4291637 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAAGTAT
66 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTAT
* *
4291702 ACCCATTTAAAAATTTAGGGGCAAATTAAAAACTAAAATTAAGTAAAAAGTATGGATCAATTTCA
131 ACCCATTTAAAAAGTTATGGGCAAATTAAAAA-TAAAATTAAGTAAAAAGTATGGATCAATTTCA
* **
4291767 GATGAAAATAAAATTTAAAGG
195 GATGCAAATAAAATTTGGAGG
* *
4291788 ACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAACCAACACACATTGATG
1 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
* * *
4291853 AGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATATAAAAAAGTACTAAAGTAT
66 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTAT
* * *
4291918 ACCCATTTAAAAATTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAAGTATGGATCAATTTC
131 ACCCATTTAAAAAGTTATGGGCAAATT-AAAAATAAAATTAAGT-AAAAAGTATGGATCAATTTC
*
4291983 AAATGCAAATAAAATTTGGAGG
194 AGATGCAAATAAAATTTGGAGG
4292005 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA-A---A--
1 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
*
4292064 AGGGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAAGTACTAAATTA
66 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-AAAAAAGTACTAAATTA
* *
4292129 TACCCATTTAAAAAGTTATGGGCTAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTC
130 TACCCATTTAAAAAGTTATGGGCAAATT-AAAAATAAAATTAAGTAAAAAGTATGGATCAATTTC
* *
4292194 AAATGAAAATAAAATTTGGAGG
194 AGATGCAAATAAAATTTGGAGG
* * *
4292216 AGTAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATTAATTAAACAACACACATTGATG
1 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
* *
4292281 AGGGATCAAATCGAAATAAATTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTAT
66 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTAT
* *
4292346 ACCCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAA-TAAGTAATAAGTATAGG-TCAATTT
131 ACCCATTTAAAAAGTTATGGG-CAAATTAAAAATA-AAATTAAGTAAAAAGTAT-GGATCAATTT
4292409 CAGATGCAAATAAAATTTGGAGG
193 CAGATGCAAATAAAATTTGGAGG
* *
4292432 ATTAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAACTAAACAACACA-A---A--
1 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
*
4292491 AGGGATCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATA-TACTAAATTA
66 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAA-AGTACTAAATTA
* * * *
4292555 TACTCATTTAAAAAGTTATGGGCCAATTAATAAATAGAAA-TAAGTAATAAGTATGGGTCAATTT
130 TACCCATTTAAAAAGTTATGGGCAAATTAA-AAATA-AAATTAAGTAAAAAGTATGGATCAATTT
*
4292619 CAGATGCAAATAAAATGTGGAGG
193 CAGATGCAAATAAAATTTGGAGG
*
4292642 ACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA
1 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA
4292699 AAAGGGATCA
Statistics
Matches: 849, Mismatches: 47, Indels: 36
0.91 0.05 0.04
Matches are distributed among these distances:
209 8 0.01
210 185 0.22
211 140 0.16
212 61 0.07
213 1 0.00
215 2 0.00
216 300 0.35
217 152 0.18
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (215 bp):
ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTAT
ACCCATTTAAAAAGTTATGGGCAAATTAAAAATAAAATTAAGTAAAAAGTATGGATCAATTTCAG
ATGCAAATAAAATTTGGAGG
Found at i:4292349 original size:428 final size:427
Alignment explanation
Indices: 4291572--4292698 Score: 1819
Period size: 428 Copynumber: 2.6 Consensus size: 427
4291562 AAATTTAAGA
*
4291572 ATTAAATTGAACAAATATGAAATTACGAATAAAAATTTAAATAAATTAAACAACACACATTGATG
1 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA-A---A--
*
4291637 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-AAAAAAGTACTAAAGTA
60 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAAGTACTAAATTA
* * * *
4291701 TACCCATTTAAAAATTTAGGGGCAAATTAAAAACTAAAATTAAGTAAAAAGTATGGATCAATTTC
125 TACCCATTTAAAAAGTTATGGGCAAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTC
**
4291766 AGATGAAAATAAAATTTAAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATA
190 AGATGAAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATA
* *
4291831 AATTAACCAACACACATTGATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTA
255 AATTAAACAACACACATTGATGAGGGATCAAATCAAAATAAATTTAAATTGTGAGGTTGAAATTA
* * *
4291896 ATATAAAAAAGTACTAAAGTATACCCATTTAAAAATTTATGGGCCAATTAAAAAATAGAATTAAG
320 ATACAAAAAAGTACTAAAGTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAG
4291961 TAAAAAAGTAT-GGATCAATTTCAAATGCAAATAAAATTTGGAGG
385 T-AAAAAGTATAGG-TCAATTTCAAATGCAAATAAAATTTGGAGG
4292005 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGAT
1 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGAT
*
4292070 CAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAAGTACTAAATTATACCCA
66 CAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAAGTACTAAATTATACCCA
* *
4292135 TTTAAAAAGTTATGGGCTAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAAATGA
131 TTTAAAAAGTTATGGGCAAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGATGA
* * *
4292200 AAATAAAATTTGGAGGAGTAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATTAATTAA
196 AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
* *
4292265 ACAACACACATTGATGAGGGATCAAATCGAAATAAATTTAAATTGTGATGTTGAAATTAATACAA
261 ACAACACACATTGATGAGGGATCAAATCAAAATAAATTTAAATTGTGAGGTTGAAATTAATACAA
* * * *
4292330 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAA
326 AAAAGTACTAAAGTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAAAAA
*
4292395 GTATAGGTCAATTTCAGATGCAAATAAAATTTGGAGG
391 GTATAGGTCAATTTCAAATGCAAATAAAATTTGGAGG
* *
4292432 ATTAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAACTAAACAACACAAAAGGGAT
1 ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGAT
* * *
4292497 CAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATA-TACTAAATTATACTCA
66 CAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAAGTACTAAATTATACCCA
* * * * * *
4292561 TTTAAAAAGTTATGGGCCAATTAATAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGC
131 TTTAAAAAGTTATGGGCAAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGATGA
*
4292626 AAATAAAATGTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
196 AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
4292691 ACAACACA
261 ACAACACA
4292699 AAAGGGATCA
Statistics
Matches: 649, Mismatches: 43, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
426 142 0.22
427 191 0.29
428 258 0.40
429 1 0.00
432 1 0.00
433 56 0.09
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (427 bp):
ATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGAT
CAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAAGTACTAAATTATACCCA
TTTAAAAAGTTATGGGCAAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGATGA
AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
ACAACACACATTGATGAGGGATCAAATCAAAATAAATTTAAATTGTGAGGTTGAAATTAATACAA
AAAAGTACTAAAGTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAAAAA
GTATAGGTCAATTTCAAATGCAAATAAAATTTGGAGG
Found at i:4292787 original size:2 final size:2
Alignment explanation
Indices: 4292780--4292863 Score: 52
Period size: 2 Copynumber: 43.5 Consensus size: 2
4292770 AAAACAACTA
* * *
4292780 AT AT AT AT AT AT AT GT A- AT AT AA AGT AT AT GT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* * * *
4292821 AT AA AT -T AT AT AT -T TT AT AT AT AT -T AT GT AT AA ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
4292861 AT A
1 AT A
4292864 CCATGTATAA
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
1 5 0.08
2 55 0.89
3 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4292822 original size:22 final size:22
Alignment explanation
Indices: 4292781--4292844 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
4292771 AAACAACTAA
*
4292781 TATATATATATATGTAATATAAAG
1 TATATATAT-TATAT-ATATAAAG
* *
4292805 TATATGTATTATATATATAAAT
1 TATATATATTATATATATAAAG
*
4292827 TATATATTTTATATATAT
1 TATATATATTATATATAT
4292845 TATGTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 23 0.66
23 4 0.11
24 8 0.23
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TATATATATTATATATATAAAG
Found at i:4292859 original size:20 final size:20
Alignment explanation
Indices: 4292836--4292883 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4292826 TTATATATTT
**
4292836 TATATATATTATGTATAAAC
1 TATATATACCATGTATAAAC
4292856 TATATATACCATGTATAAAC
1 TATATATACCATGTATAAAC
4292876 TATA-ATAC
1 TATATATAC
4292884 TATATAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (20 bp):
TATATATACCATGTATAAAC
Found at i:4293182 original size:112 final size:112
Alignment explanation
Indices: 4292964--4293286 Score: 418
Period size: 112 Copynumber: 2.9 Consensus size: 112
4292954 ATACAATTTT
* * * *
4292964 TTCTTTATTTGTTCATCCAGTTCATCCCCAAAAGCC-TCATTTGAACTTCAAAAACACCTAAACA
1 TTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTTC-TTTGATCTTCAAAAACACCTAAACA
* *
4293028 AAAACATTTTCGTGTTTTTTTCTATCAAACACCCAAATTTCTTCTATG
65 CAAACATTTTCGTGTTTTTTTCTATCAAACACCCAAATTTCTTCCATG
* * *
4293076 TTCTTCATTTATTCTTCCAGTTCTTCCCCAAAACCCTTCTTTGATCTTCACAAACACCTAAACAC
1 TTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTTCTTTGATCTTCAAAAACACCTAAACAC
* * *
4293141 AAACATTTTTGTGTTTTTTT-TATCAAACACCCGAATATTCTTCCGTG
66 AAACATTTTCGTGTTTTTTTCTATCAAACACCCAAAT-TTCTTCCATG
* * * * *
4293188 TTCTTCATTTGCTCATCCAGTTCTTCCCTAAAACCATCCTTTGATATTCAAAAACACCTAAACAC
1 TTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTTCTTTGATCTTCAAAAACACCTAAACAC
* * *
4293253 AAACCA-TTTCATGTTTATTTCAATCAAACACCCA
66 AAA-CATTTTCGTGTTTTTTTCTATCAAACACCCA
4293287 CAAAACCATC
Statistics
Matches: 182, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
111 15 0.08
112 152 0.84
113 15 0.08
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (112 bp):
TTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTTCTTTGATCTTCAAAAACACCTAAACAC
AAACATTTTCGTGTTTTTTTCTATCAAACACCCAAATTTCTTCCATG
Found at i:4293421 original size:29 final size:30
Alignment explanation
Indices: 4293375--4293431 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
4293365 CAAAACACAA
*
4293375 ACTGTTCATCTTCTCTAA-CCCTAACCACT
1 ACTGTTCATCTTCCCTAACCCCTAACCACT
4293404 ACTGTTCATCTTCCCTAACCCCTAACCA
1 ACTGTTCATCTTCCCTAACCCCTAACCA
4293432 TACCCTAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.25, C:0.40, G:0.04, T:0.32
Consensus pattern (30 bp):
ACTGTTCATCTTCCCTAACCCCTAACCACT
Found at i:4293475 original size:22 final size:23
Alignment explanation
Indices: 4293423--4293475 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
4293413 CTTCCCTAAC
4293423 CCCTAACCATACCCTAAACCAAG
1 CCCTAACCATACCCTAAACCAAG
* *
4293446 CCCAAACCA-ACCCTAATCCAAG
1 CCCTAACCATACCCTAAACCAAG
*
4293468 GCCTAACC
1 CCCTAACC
4293476 CTCCTAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.38, C:0.45, G:0.06, T:0.11
Consensus pattern (23 bp):
CCCTAACCATACCCTAAACCAAG
Found at i:4293885 original size:36 final size:37
Alignment explanation
Indices: 4293808--4293886 Score: 99
Period size: 36 Copynumber: 2.1 Consensus size: 37
4293798 TTGTATATGT
* * *
4293808 TTGATATACATATATATATATATATTGTTTTATTGTGG
1 TTGATATA-ATATATATATATATAATGGTTTATTCTGG
4293846 TTGATAT-ATATATATATATATAATGGTTTATTACT-G
1 TTGATATAATATATATATATATAATGGTTTATT-CTGG
4293882 TTGAT
1 TTGAT
4293887 GTAAATGATG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 29 0.78
37 1 0.03
38 7 0.19
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.52
Consensus pattern (37 bp):
TTGATATAATATATATATATATAATGGTTTATTCTGG
Found at i:4293907 original size:31 final size:31
Alignment explanation
Indices: 4293869--4294228 Score: 431
Period size: 31 Copynumber: 11.6 Consensus size: 31
4293859 ATATATATAA
* *
4293869 TGGTTTATTACTGTTGATGTAAATGATGTAC
1 TGGTTTATTGCTGTTGATGTAAATTATGTAC
* *
4293900 TGGTTTATTGATGTTGATGTAAATTATATAC
1 TGGTTTATTGCTGTTGATGTAAATTATGTAC
* **
4293931 TGGTTTATTGCTGTTGATGTGAACAATGTAC
1 TGGTTTATTGCTGTTGATGTAAATTATGTAC
4293962 TGGTTTATTGCTGTTGATGCT-AATTATGTAC
1 TGGTTTATTGCTGTTGATG-TAAATTATGTAC
* * *
4293993 TAGTTTATTGTTGTTAATGCT-AATTATGTAC
1 TGGTTTATTGCTGTTGATG-TAAATTATGTAC
* * *
4294024 TGGTTTATTACTGTTTATGTAAATTATGTAT
1 TGGTTTATTGCTGTTGATGTAAATTATGTAC
*
4294055 TGGTTAATTGCTGTTGATGTAAATGT-TGTAC
1 TGGTTTATTGCTGTTGATGTAAAT-TATGTAC
* *
4294086 TGGTTTATTGTTGTTGATGTTAATTATGTGA-
1 TGGTTTATTGCTGTTGATGTAAATTATGT-AC
** * *
4294117 TGGTTTATTATTGTTGATGTAAATGATGTAT
1 TGGTTTATTGCTGTTGATGTAAATTATGTAC
* * *
4294148 TGGTTTATTGGTGTTGATGTAAATGATGTAT
1 TGGTTTATTGCTGTTGATGTAAATTATGTAC
*
4294179 TGGTTTATTGCTGTTGATGTTAATTATGTAC
1 TGGTTTATTGCTGTTGATGTAAATTATGTAC
*
4294210 TGGTTTATTGATGTTGATG
1 TGGTTTATTGCTGTTGATG
4294229 AAAACTAACC
Statistics
Matches: 287, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
30 3 0.01
31 281 0.98
32 3 0.01
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.49
Consensus pattern (31 bp):
TGGTTTATTGCTGTTGATGTAAATTATGTAC
Found at i:4293991 original size:93 final size:93
Alignment explanation
Indices: 4293869--4294228 Score: 483
Period size: 93 Copynumber: 3.9 Consensus size: 93
4293859 ATATATATAA
* * * *
4293869 TGGTTTATTACTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATTATATACTGG
1 TGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTTAATTATGTACTGG
* * * *
4293934 TTTATTGCTGTTGATGTGAACAATGTAC
66 TTTATTACTGTTGATGTAAATAATGTAT
* * * *
4293962 TGGTTTATTGCTGTTGATGCT-AATTATGTACTAGTTTATTGTTGTTAATGCTAATTATGTACTG
1 TGGTTTATTGCTGTTGATG-TAAATGATGTACTGGTTTATTGTTGTTGATGTTAATTATGTACTG
* *
4294026 GTTTATTACTGTTTATGTAAATTATGTAT
65 GTTTATTACTGTTGATGTAAATAATGTAT
* *
4294055 TGGTTAATTGCTGTTGATGTAAATGTTGTACTGGTTTATTGTTGTTGATGTTAATTATGTGA-TG
1 TGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTTAATTATGT-ACTG
* *
4294119 GTTTATTATTGTTGATGTAAATGATGTAT
65 GTTTATTACTGTTGATGTAAATAATGTAT
* * *
4294148 TGGTTTATTGGTGTTGATGTAAATGATGTATTGGTTTATTGCTGTTGATGTTAATTATGTACTGG
1 TGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTTAATTATGTACTGG
4294213 TTTATTGA-TGTTGATG
66 TTTATT-ACTGTTGATG
4294229 AAAACTAACC
Statistics
Matches: 234, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
92 2 0.01
93 229 0.98
94 3 0.01
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.49
Consensus pattern (93 bp):
TGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTTAATTATGTACTGG
TTTATTACTGTTGATGTAAATAATGTAT
Found at i:4296609 original size:20 final size:20
Alignment explanation
Indices: 4296579--4296637 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
4296569 CTTGATTCTG
* *
4296579 CTTGATTCTGTTTTATATTA
1 CTTGCTTCTGTTTGATATTA
* *
4296599 TTTGCTTCTGTTTGATATTG
1 CTTGCTTCTGTTTGATATTA
**
4296619 CTTGCTTCTACTTGATATT
1 CTTGCTTCTGTTTGATATT
4296638 TGTACGGGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.15, C:0.14, G:0.14, T:0.58
Consensus pattern (20 bp):
CTTGCTTCTGTTTGATATTA
Found at i:4297457 original size:51 final size:52
Alignment explanation
Indices: 4297383--4297480 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 52
4297373 ATATAAAATT
* * *
4297383 AAATTTCAAAAAAGTAATTATATTAATTTGATTATCATAGTAATTTATAATA
1 AAATTTCAAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATAATA
*
4297435 AAATTTC-AAAGAGTAATCATATTAATTTAATTATCATAATAATTTA
1 AAATTTCAAAAAAGTAATCATATTAATTTAATTATCATAATAATTTA
4297481 ATTATCATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 35 0.83
52 7 0.17
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (52 bp):
AAATTTCAAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATAATA
Found at i:4297472 original size:17 final size:17
Alignment explanation
Indices: 4297450--4297490 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
4297440 TCAAAGAGTA
*
4297450 ATCATATTAATTTAATT
1 ATCATAATAATTTAATT
4297467 ATCATAATAATTTAATT
1 ATCATAATAATTTAATT
4297484 ATCATAA
1 ATCATAA
4297491 GTTTATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (17 bp):
ATCATAATAATTTAATT
Found at i:4297630 original size:16 final size:16
Alignment explanation
Indices: 4297609--4297643 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4297599 TCAATTATAT
*
4297609 GTCAGGTTCATAACAG
1 GTCAGGTTCAAAACAG
*
4297625 GTCAGGTTGAAAACAG
1 GTCAGGTTCAAAACAG
4297641 GTC
1 GTC
4297644 GGGTAATACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (16 bp):
GTCAGGTTCAAAACAG
Found at i:4305407 original size:24 final size:24
Alignment explanation
Indices: 4305320--4305407 Score: 86
Period size: 24 Copynumber: 3.7 Consensus size: 24
4305310 ATTTCTTATT
4305320 TGAATTATGTTATGATACCTGACC
1 TGAATTATGTTATGATACCTGACC
* * * * * *
4305344 TGGATTCTTTTCTAATACCTGACA
1 TGAATTATGTTATGATACCTGACC
* * *
4305368 TGGATTCTGTTATGATATCTGACC
1 TGAATTATGTTATGATACCTGACC
*
4305392 TGAATTATGTTTTGAT
1 TGAATTATGTTATGAT
4305408 TTTTGATATA
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (24 bp):
TGAATTATGTTATGATACCTGACC
Found at i:4311857 original size:27 final size:27
Alignment explanation
Indices: 4311815--4311875 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
4311805 TGTGTAAGAT
* *
4311815 AATGAATGAAGCTTAAGATCTAATATG
1 AATGCATGAAGATTAAGATCTAATATG
4311842 AATGCATGAAGATTAAGATCTAATATG
1 AATGCATGAAGATTAAGATCTAATATG
4311869 AATGCAT
1 AATGCAT
4311876 ATGAACTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (27 bp):
AATGCATGAAGATTAAGATCTAATATG
Found at i:4315498 original size:24 final size:24
Alignment explanation
Indices: 4315471--4315551 Score: 99
Period size: 24 Copynumber: 3.4 Consensus size: 24
4315461 ATTTGAATTC
*
4315471 TGTTATGATACCTGACATGGATTA
1 TGTTATGATACCTGACCTGGATTA
* * *
4315495 TGTTCTAATACCTGACCTGGATTC
1 TGTTATGATACCTGACCTGGATTA
* *
4315519 TGTTATGATATCTGACCTGAATTA
1 TGTTATGATACCTGACCTGGATTA
*
4315543 TGTTTTGAT
1 TGTTATGAT
4315552 TTTTTATATA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (24 bp):
TGTTATGATACCTGACCTGGATTA
Found at i:4317713 original size:60 final size:60
Alignment explanation
Indices: 4317618--4317802 Score: 253
Period size: 60 Copynumber: 3.1 Consensus size: 60
4317608 GCTCTAAAAT
* * *
4317618 AAAAGTTAAATGCCCAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGAAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTTGAAGAAAGGTGCCACTAATGAAAGTTAGATG
* * *
4317678 AAAAGTTAAATGCCTAACGGTGCATTTTTGTAGAAAGGTGACACTAATTAAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTTGAAGAAAGGTGCCACTAATGAAAGTTAGATG
* * * * * *
4317738 AAAAGTTAAATGTCTAATGGTCCATTTTTGGAATAAAGGTGCCAATAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTT-GAAGAAAGGTGCCACTAATGAAAGTTAGATG
4317799 AAAA
1 AAAA
4317803 ACAGTGCATT
Statistics
Matches: 110, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 81 0.74
61 29 0.26
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (60 bp):
AAAAGTTAAATGCCTAACGGTGCATTTTTGAAGAAAGGTGCCACTAATGAAAGTTAGATG
Found at i:4328178 original size:45 final size:45
Alignment explanation
Indices: 4328128--4328451 Score: 481
Period size: 45 Copynumber: 7.2 Consensus size: 45
4328118 TATTCATTAT
* *
4328128 TTTCATTTATGGCATCCTTTCATGACTTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
4328173 TTTCATTTATGGTATCATTTCATGCCTTTAAAG-ATCCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCA-CCGTTATGCA
* *
4328218 TTTCATTTGTGGCATCCTTTCATGCCTTTAATGTACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
4328263 TTTTATTTATGTCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
4328308 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACTGTTGTGTA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
4328353 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCGCCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
4328398 TTTCATTTATGGCATCCTTTCATGCCTTTCATGCACCGTT-TTCTA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC-A
4328443 TTTCATTTA
1 TTTCATTTA
4328452 GGTAATGGAA
Statistics
Matches: 251, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
44 3 0.01
45 247 0.98
46 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:4334650 original size:45 final size:45
Alignment explanation
Indices: 4334599--4334787 Score: 288
Period size: 45 Copynumber: 4.2 Consensus size: 45
4334589 TATTCATTAT
* * *
4334599 TTTCATTTATGGTATCCTTTCATGCCTTTAGTGCACCGTTATGCG
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
4334644 TTTCATTTATGGCATCCTTTCATGCATTTAATGCACCATTATGTA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
4334689 TTTCATTTGTGGCATCTTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
4334734 TTTCATTTATGGCATCCTTTCATTCCTTTAATGCGCCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
4334779 TTTCATTTA
1 TTTCATTTA
4334788 GGTGATGAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 129 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.46
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:4334787 original size:24 final size:24
Alignment explanation
Indices: 4334715--4334787 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
4334705 TTTTCATGCC
*
4334715 TTTAATGCACCGTTATGCATTTCA
1 TTTAATGCGCCGTTATGCATTTCA
* *
4334739 TTT-ATG-GCATCCTT-T-CA-TTCC
1 TTTAATGCGC--CGTTATGCATTTCA
4334760 TTTAATGCGCCGTTATGCATTTCA
1 TTTAATGCGCCGTTATGCATTTCA
4334784 TTTA
1 TTTA
4334788 GGTGATGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
21 9 0.24
22 7 0.19
23 8 0.22
24 13 0.35
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (24 bp):
TTTAATGCGCCGTTATGCATTTCA
Found at i:4337411 original size:210 final size:209
Alignment explanation
Indices: 4337050--4337470 Score: 743
Period size: 210 Copynumber: 2.0 Consensus size: 209
4337040 GTAAAGTTAC
*
4337050 AGAGTAGTTGGACGCCATTTCAGCATATTACGGAGGTATATAAGGATGAGTGAATCTATTGTAAT
1 AGAGTAGTTGGACGCCATTTCAGCATATTACGGAGGTATATAAAGATGAGTGAATCTATTGTAAT
4337115 TATATGAGATGAGGGAGACTCACAATAAGTCAACCTATAATGTTTTGATTTAATGTATGTTTTAC
66 TATATGAGATGAGGGAGACTCACAATAAGTCAACCTATAATGTTTTGATTTAATGTATGTTTTAC
*
4337180 TATATTTGATATATGTTTATAGTGTGTATGGAATTGATATTGTGAATAATTTTTAGAGTAGGAAA
131 CATATTTGATATATGTTTATAGTGTGTATGGAATTGATATTGTGAATAATTTTTAGAGTAGGAAA
4337245 TGCTCTAAAATAAA
196 TGCTCTAAAATAAA
** * *
4337259 AGAGTAGTTGGACGTTATTTCAGCATATTAGGGAGGTATATATAAGATGAGTGCATCTATTGTAA
1 AGAGTAGTTGGACGCCATTTCAGCATATTACGGAGGTATATA-AAGATGAGTGAATCTATTGTAA
* *
4337324 TTATATGGGATGAGGGAGACTCACAATAAGTCAACCTCTAATGTTTTGATTTAATGTATGTTTTA
65 TTATATGAGATGAGGGAGACTCACAATAAGTCAACCTATAATGTTTTGATTTAATGTATGTTTTA
*
4337389 CCATATTTGATATATGTTTATAGTGTGTATGGAATTGATATTGTGAATAATTTTTAGTGTAGGAA
130 CCATATTTGATATATGTTTATAGTGTGTATGGAATTGATATTGTGAATAATTTTTAGAGTAGGAA
*
4337454 CTGCTCTAAAATAAA
195 ATGCTCTAAAATAAA
4337469 AG
1 AG
4337471 TTAAATGCCT
Statistics
Matches: 201, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
209 39 0.19
210 162 0.81
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.37
Consensus pattern (209 bp):
AGAGTAGTTGGACGCCATTTCAGCATATTACGGAGGTATATAAAGATGAGTGAATCTATTGTAAT
TATATGAGATGAGGGAGACTCACAATAAGTCAACCTATAATGTTTTGATTTAATGTATGTTTTAC
CATATTTGATATATGTTTATAGTGTGTATGGAATTGATATTGTGAATAATTTTTAGAGTAGGAAA
TGCTCTAAAATAAA
Found at i:4337632 original size:61 final size:59
Alignment explanation
Indices: 4337466--4337649 Score: 289
Period size: 59 Copynumber: 3.1 Consensus size: 59
4337456 GCTCTAAAAT
* * * *
4337466 AAAAGTTAAATGCCTAACGGTGCAATTTGGCAGAAAGGTGTCACTAATGTAAGGTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTG-CACTAATGCAAGTTAGATG
4337526 AAAAG-TAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTG-CACTAATGCAAGTTAGATG
4337585 AAAAGTTAAATGCCTAACGGTGCATTTTTGGTAGAAAGGTGCAACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCA-TTTTGGTAGAAAGGTGC-ACTAATGCAAGTTAGATG
4337646 AAAA
1 AAAA
4337650 ACAATGCATT
Statistics
Matches: 116, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
59 54 0.47
60 24 0.21
61 38 0.33
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.26
Consensus pattern (59 bp):
AAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGCACTAATGCAAGTTAGATG
Found at i:4339906 original size:55 final size:55
Alignment explanation
Indices: 4339868--4340401 Score: 800
Period size: 55 Copynumber: 9.7 Consensus size: 55
4339858 ACCAATATGA
* * * * **
4339868 AAATTCATTAACTTAATATGAATTTCTTAGTTTTGCACACAATGTGCCCATACAAA
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC-GG
* * * *
4339924 AAATT-ATAAACTTATTATGAATTTCTTAGTTTTGTACACAAAGTGCTCATACGA
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
* * *
4339978 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACATAAAGTGCCCATATGG
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
* * * * *
4340033 AAATTCATAAAATTATTATGAATTTATTAGTTTTGCACACAATGTGCCCATATGG
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
* * *
4340088 AAATTCATAAACTCATTATGAATTTCTTAGTTTTTCACACAAAGTGTCCATATGG
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
*
4340143 AAATTCATAAACTCACTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
*
4340198 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACCG
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
*
4340253 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTACCCATACGG
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
* *
4340308 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
*
4340363 AAATTCATAAACTCGTTATGAATTTCTTAGCTTTTGCAC
1 AAATTCATAAACTCATTATGAATTTCTTAG-TTTTGCAC
4340402 GCATAATGCC
Statistics
Matches: 442, Mismatches: 34, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
54 6 0.01
55 423 0.96
56 13 0.03
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (55 bp):
AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
Found at i:4345361 original size:43 final size:46
Alignment explanation
Indices: 4345241--4345366 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 46
4345231 TATAAAATCT
**
4345241 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAATTTCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
4345286 TTTACCATTTAAATTTCATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCATTT-AATTTCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
4345333 CTTGCCA-TT-A-TTCATAAGCTCATAAGCTTATTTT
1 CTTACCATTTAATTTCATAAGCTCGTAAGCTTATTTT
4345367 CATACTTACC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
43 23 0.32
44 1 0.01
45 9 0.13
46 2 0.03
47 36 0.51
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (46 bp):
CTTACCATTTAATTTCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:4349089 original size:55 final size:55
Alignment explanation
Indices: 4349005--4349700 Score: 1126
Period size: 55 Copynumber: 12.7 Consensus size: 55
4348995 ACGTAGTGCC
* * *
4349005 AATTCATACACTTATTATGAATCTCTTAGTTTTGCACACAAAGTGCCCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
*
4349060 AATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTG-CCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
* * *
4349114 ATTTCACAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
* ** *
4349169 ATTTTGTAAACTCATTATTAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
* * * *
4349224 AATTCGTAAAATCATTATGAATTTCTTAGTTTTACACACAAAGTGCTCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
* *
4349279 AATTCGTAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
* * *
4349334 AATTCGTAAACTCATTATGAATTTATTAGTTTTGCACACAAAGTGTCCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
*
4349389 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGTCCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
*
4349444 AATTCATAAACTCATTATGAATTTCTTAGTTTTGAACACAAAGTGCCCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
* *
4349499 AATTCATAAACGCATTATGAATTTCTTAGTTTTGCACATAAAGTGCCCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
4349554 AATTCAT-AACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
* *
4349608 ATTTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAA
1 AATTCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACGGA
*
4349664 AATTCATAAACTTATTATGAATTTCTTAGTTTTGCAC
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCAC
4349701 GTATAGTGCC
Statistics
Matches: 603, Mismatches: 35, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
54 103 0.17
55 448 0.74
56 52 0.09
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.35
Consensus pattern (55 bp):
AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGA
Found at i:4351359 original size:7 final size:7
Alignment explanation
Indices: 4351347--4351376 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4351337 TAAAATGCTC
4351347 TAAAAAA
1 TAAAAAA
4351354 TAAAAAA
1 TAAAAAA
*
4351361 TAAAAAC
1 TAAAAAA
4351368 TAAAAAA
1 TAAAAAA
4351375 TA
1 TA
4351377 CATTATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:4356216 original size:21 final size:21
Alignment explanation
Indices: 4356183--4356223 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4356173 TTGGTACCGA
** *
4356183 TACTTAAGGGAGTATTAATAC
1 TACTTAAAAGAGTATCAATAC
4356204 TACTTAAAAGAGTATCAATA
1 TACTTAAAAGAGTATCAATA
4356224 GTACATGCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (21 bp):
TACTTAAAAGAGTATCAATAC
Found at i:4357636 original size:37 final size:37
Alignment explanation
Indices: 4357568--4357638 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
4357558 CTTGTGTGTT
*
4357568 GATGAGTGTTTAAGCTTCATTACCCGAGCCTCATTAG
1 GATGAGTGTTTAAGCTTCATAACCCGAGCCTCATTAG
* * * *
4357605 GATGAGTGTTTGAGCTTTATAACCTGCGCCTCAT
1 GATGAGTGTTTAAGCTTCATAACCCGAGCCTCAT
4357639 CCTTATTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (37 bp):
GATGAGTGTTTAAGCTTCATAACCCGAGCCTCATTAG
Found at i:4364223 original size:2 final size:2
Alignment explanation
Indices: 4364212--4364246 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4364202 TTTTTCAATC
4364212 TA TA -A 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
4364247 ATTTACGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4364429 original size:13 final size:13
Alignment explanation
Indices: 4364411--4364467 Score: 62
Period size: 13 Copynumber: 4.4 Consensus size: 13
4364401 GCAATGGGCA
*
4364411 TCATAAAAGCACG
1 TCATAAATGCACG
4364424 TCATAAATG-AGCG
1 TCATAAATGCA-CG
**
4364437 TCATAAATGCGTG
1 TCATAAATGCACG
*
4364450 TCATAAATGCATG
1 TCATAAATGCACG
4364463 TCATA
1 TCATA
4364468 GATTTATGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
12 1 0.03
13 37 0.97
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (13 bp):
TCATAAATGCACG
Found at i:4364429 original size:85 final size:85
Alignment explanation
Indices: 4364269--4364431 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 85
4364259 CAATCACGAT
* * * * *
4364269 ACACGAATGTGTGTCATCTTCATTTATGAAGGGGGCTTCAATGACATGCAATGTAAGTCATAAAT
1 ACACAAATGTGTGTCATCTTCATTTATGAAGAGGGCTTCAATGACACGCAATGGAAGTCATAAAA
**
4364334 GCGTGCCATAAATTTATGAC
66 GCACGCCATAAATTTATGAC
* *
4364354 ACACAAATGTGTGTCATCTTCATTTATGACGAGGGCTTCAATGACACGCAATGGGCA-TCATAAA
1 ACACAAATGTGTGTCATCTTCATTTATGAAGAGGGCTTCAATGACACGCAAT-GGAAGTCATAAA
*
4364418 AGCACGTCATAAAT
65 AGCACGCCATAAAT
4364432 GAGCGTCATA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
85 65 0.97
86 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (85 bp):
ACACAAATGTGTGTCATCTTCATTTATGAAGAGGGCTTCAATGACACGCAATGGAAGTCATAAAA
GCACGCCATAAATTTATGAC
Found at i:4365028 original size:20 final size:19
Alignment explanation
Indices: 4364983--4365037 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
4364973 CCGATTCAAG
* *
4364983 TGGTATCGATACCAAGAGG
1 TGGTATCGATACCATGAGA
*
4365002 GGAGTATCGATACCATGATGA
1 TG-GTATCGATACCATGA-GA
*
4365023 TGGTATCCATACCAT
1 TGGTATCGATACCAT
4365038 TTGATCACAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.03
20 26 0.90
21 2 0.07
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (19 bp):
TGGTATCGATACCATGAGA
Found at i:4365106 original size:32 final size:32
Alignment explanation
Indices: 4365065--4365127 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
4365055 AAATGGTATC
4365065 GGGTATTGTAATAGAGTATCGATACCATAGTG
1 GGGTATTGTAATAGAGTATCGATACCATAGTG
4365097 GGGTATTGTAATAGAGTATCGATACCATAGT
1 GGGTATTGTAATAGAGTATCGATACCATAGT
4365128 ATAGTAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.32
Consensus pattern (32 bp):
GGGTATTGTAATAGAGTATCGATACCATAGTG
Found at i:4370172 original size:8 final size:7
Alignment explanation
Indices: 4370158--4370237 Score: 54
Period size: 8 Copynumber: 10.1 Consensus size: 7
4370148 TTGATAACAC
4370158 AAAGAAA
1 AAAGAAA
4370165 ATAAGAAA
1 A-AAGAAA
4370173 AGAA-AAA
1 A-AAGAAA
4370180 AAAGGAAA
1 AAA-GAAA
4370188 AAAGATAAA
1 AAAG--AAA
4370197 AAAGGAAA
1 AAA-GAAA
4370205 AAAGATAAA
1 AAAG--AAA
4370214 AAAGGAAA
1 AAA-GAAA
4370222 AAAGGAAA
1 AAA-GAAA
*
4370230 AAACAAA
1 AAAGAAA
4370237 A
1 A
4370238 TAAAAAATAG
Statistics
Matches: 62, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
6 2 0.03
7 11 0.18
8 35 0.56
9 12 0.19
10 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (7 bp):
AAAGAAA
Found at i:4370188 original size:9 final size:9
Alignment explanation
Indices: 4370170--4370232 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
4370160 AGAAAATAAG
*
4370170 AAAAGAAAA
1 AAAAGGAAA
4370179 AAAAGG-AA
1 AAAAGGAAA
4370187 AAAA-GATAA
1 AAAAGGA-AA
4370196 AAAAGG-AA
1 AAAAGGAAA
4370204 AAAA-GATAA
1 AAAAGGA-AA
4370213 AAAAGG-AA
1 AAAAGGAAA
4370221 AAAAGGAAA
1 AAAAGGAAA
4370230 AAA
1 AAA
4370233 CAAAATAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
7 2 0.04
8 20 0.43
9 22 0.48
10 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (9 bp):
AAAAGGAAA
Found at i:4370190 original size:17 final size:17
Alignment explanation
Indices: 4370170--4370232 Score: 99
Period size: 17 Copynumber: 3.6 Consensus size: 17
4370160 AGAAAATAAG
4370170 AAAAGAAAAAAAAGGAA
1 AAAAGAAAAAAAAGGAA
*
4370187 AAAAGATAAAAAAGGAA
1 AAAAGAAAAAAAAGGAA
*
4370204 AAAAGATAAAAAAGGAA
1 AAAAGAAAAAAAAGGAA
4370221 AAAAGGAAAAAA
1 AAAA-GAAAAAA
4370233 CAAAATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
17 37 0.86
18 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAAAAGGAA
Found at i:4372288 original size:90 final size:90
Alignment explanation
Indices: 4372118--4372332 Score: 335
Period size: 90 Copynumber: 2.4 Consensus size: 90
4372108 TTACCCAAAC
* * *
4372118 TACATGATATTTTCAAA--AGATTTTAAAAACTAAGCCTTCAGGGGATTCTTGATTTGTAAGTCC
1 TACATGATGTTTTAAAATGAGATTTTAGAAACTAAGCCTTCAGGGGATTCTTGATTTGTAAGTCC
4372181 TTCGGGCCATCCATAAGACCTTCAG
66 TTCGGGCCATCCATAAGACCTTCAG
* ** *
4372206 TGCATGATGTTTTAAAATGAGATTTTAGAAACTAAGCCTTTGGGGGTTTCTTGATTTGTAAGTCC
1 TACATGATGTTTTAAAATGAGATTTTAGAAACTAAGCCTTCAGGGGATTCTTGATTTGTAAGTCC
4372271 TTCGGGCCATCCATAAGACCTTCAG
66 TTCGGGCCATCCATAAGACCTTCAG
* *
4372296 TACATGATGTTTTCAAATGAGTTTTTAGAAACTAAGC
1 TACATGATGTTTTAAAATGAGATTTTAGAAACTAAGC
4372333 ATGCTTTTCA
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
88 14 0.12
90 101 0.88
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (90 bp):
TACATGATGTTTTAAAATGAGATTTTAGAAACTAAGCCTTCAGGGGATTCTTGATTTGTAAGTCC
TTCGGGCCATCCATAAGACCTTCAG
Found at i:4372491 original size:66 final size:67
Alignment explanation
Indices: 4372406--4372557 Score: 157
Period size: 66 Copynumber: 2.3 Consensus size: 67
4372396 TTTTTACTCA
* * * *
4372406 AAACAAGTTTTTTTTCTCTTTTGAGACAATTTCACTCAAAACAAAAGTC-TGAGACAGTTTCCCT
1 AAACAAATTTTGTCTCTCTTTTGAGACAATTTCACTCAAAACAAAAATCGTGAGACAGTTTCCCT
4372470 TG
66 TG
* * * ** * *
4372472 AAACAAATTTTGTCTCTC--TTGAGATAGTTTCCCTTGAAACAAAAATCGTTTAGATAGTTTCCC
1 AAACAAATTTTGTCTCTCTTTTGAGACAATTTCACTCAAAACAAAAATCG-TGAGACAGTTTCCC
4372535 TTG
65 TTG
* *
4372538 AAACGAATTTTGCCTCTCTT
1 AAACAAATTTTGTCTCTCTT
4372558 GAGATAGTTT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
64 23 0.33
66 46 0.67
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (67 bp):
AAACAAATTTTGTCTCTCTTTTGAGACAATTTCACTCAAAACAAAAATCGTGAGACAGTTTCCCT
TG
Found at i:4372502 original size:36 final size:36
Alignment explanation
Indices: 4372455--4372578 Score: 152
Period size: 36 Copynumber: 3.6 Consensus size: 36
4372445 AACAAAAGTC
*
4372455 TGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
1 TGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCT
** *
4372491 TGAGATAGTTTCCCTTGAAACAAA---AATC-GT-T
1 TGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCT
* *
4372522 T-AGATAGTTTCCCTTGAAACGAATTTTGCCTCTCT
1 TGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCT
4372557 TGAGATAGTTTCCCTTGAAACA
1 TGAGATAGTTTCCCTTGAAACA
4372579 TCAATCTTTG
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
30 21 0.29
31 2 0.03
32 1 0.01
33 3 0.04
34 1 0.01
35 2 0.03
36 42 0.58
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (36 bp):
TGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCT
Found at i:4372558 original size:66 final size:66
Alignment explanation
Indices: 4372455--4372654 Score: 235
Period size: 66 Copynumber: 3.0 Consensus size: 66
4372445 AACAAAAGTC
* *
4372455 TGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAAATCG
1 TGAGATAGTTTCCCTTGAAACAAATTTTGCCTCTCTTGAGATAGTTTCCCTTGAAACAAAAATC-
4372520 TT
65 TT
* **
4372522 T-AGATAGTTTCCCTTGAAACGAATTTTGCCTCTCTTGAGATAGTTTCCCTTGAAACATCAATCT
1 TGAGATAGTTTCCCTTGAAACAAATTTTGCCTCTCTTGAGATAGTTTCCCTTGAAACAAAAATCT
4372586 T
66 T
* * * * * * * * *
4372587 TGAGATCGTTTCACTTG-AACTAAATTTTGGCTCCCTAGAGACATTTTCTCTTGAAACACAAA-C
1 TGAGATAGTTTCCCTTGAAAC-AAATTTTGCCTCTCTTGAGATAGTTTCCCTTGAAACAAAAATC
4372650 TT
65 TT
4372652 TGA
1 TGA
4372655 TTGTGTTTTC
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
65 12 0.10
66 102 0.89
67 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.36
Consensus pattern (66 bp):
TGAGATAGTTTCCCTTGAAACAAATTTTGCCTCTCTTGAGATAGTTTCCCTTGAAACAAAAATCT
T
Found at i:4372590 original size:30 final size:30
Alignment explanation
Indices: 4372490--4372605 Score: 101
Period size: 30 Copynumber: 3.7 Consensus size: 30
4372480 TTTGTCTCTC
**
4372490 TTGAGATAGTTTCCCTTGAAACAAAAATCGT
1 TTGAGATAGTTTCCCTTGAAACATCAATC-T
*
4372521 TT-AGATAGTTTCCCTTGAAACGAATTTTGC-CTCT
1 TTGAGATAGTTTCCCTTGAAAC--A---T-CAATCT
4372555 CTTGAGATAGTTTCCCTTGAAACATCAATCT
1 -TTGAGATAGTTTCCCTTGAAACATCAATCT
* *
4372586 TTGAGATCGTTTCACTTGAA
1 TTGAGATAGTTTCCCTTGAA
4372606 CTAAATTTTG
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
30 38 0.54
31 6 0.09
32 1 0.01
34 2 0.03
35 4 0.06
36 19 0.27
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (30 bp):
TTGAGATAGTTTCCCTTGAAACATCAATCT
Found at i:4373209 original size:91 final size:91
Alignment explanation
Indices: 4373049--4373488 Score: 596
Period size: 91 Copynumber: 4.8 Consensus size: 91
4373039 AACCGATCAA
* * * *
4373049 TATTGCCAGTAGAGAGTTCATAATGAGAATAACTCATCCAATGAGGGAGAAGAAGTTCATAATAA
1 TATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
* * *
4373114 GAAGAGCTTGTTCAAACTTGGCTCAG
66 GAAGAACTTGTTCAACCTTAGCTCAG
* *
4373140 TATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAAAAGTTCGTAATGA
1 TATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
*
4373205 GAAGAACTTGTTCAACCTTAGCTTAG
66 GAAGAACTTGTTCAACCTTAGCTCAG
* ** * * * * * *
4373231 CATTTCCAACGCATAGTTCATAATGAGAATAAATCGTCCAACGAGGGAGAAGAAGTTCATAATGA
1 TATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
* *
4373296 GAAGAACTTGTTCAACCTTGGTTCAAG
66 GAAGAACTTGTTCAACCTTAGCTC-AG
*
4373323 -ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGA
1 TATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
* *
4373387 GAAGAACTTGTTTAACCTTAGCTCAA
66 GAAGAACTTGTTCAACCTTAGCTCAG
*** * *
4373413 TATTTCCAACAGAGAGTTCATAATGAGAAGAACTCATCC-GTGAAGGAGAAGAAGTTCATAATGA
1 TATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
4373477 GAAGAACTTGTT
66 GAAGAACTTGTT
4373489 TCTTCTTGCT
Statistics
Matches: 306, Mismatches: 41, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
90 35 0.11
91 269 0.88
92 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (91 bp):
TATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACCTTAGCTCAG
Found at i:4373370 original size:182 final size:182
Alignment explanation
Indices: 4373059--4373488 Score: 659
Period size: 182 Copynumber: 2.4 Consensus size: 182
4373049 TATTGCCAGT
* *
4373059 AGAGAGTTCATAATGAGAATAACTCATCCAATGAGGGAGAAGAAGTTCATAATAAGAAGAGCTTG
1 AGAGAGTTCATAATGAGAATAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
*
4373124 TTCAAACTTGGCTCAGTATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAG
66 TTCAAACTTGGCTCAGTATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAG
* * *
4373189 AAAAAGTTCGTAATGAGAAGAACTTGTTCAACCTTAGCTTAGCATTTCCAAC
131 AAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCAACATTTCCAAC
* * * *
4373241 -GCATAGTTCATAATGAGAATAAATCGTCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
1 AG-AGAGTTCATAATGAGAATAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
* *
4373305 GTTCAACCTTGGTTCAAG-ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGG
65 GTTCAAACTTGGCTC-AGTATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGG
* * *
4373369 AGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTAGCTCAATATTTCCAAC
129 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCAACATTTCCAAC
* * *
4373423 AGAGAGTTCATAATGAGAAGAACTCATCC-GTGAAGGAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGAGAGTTCATAATGAGAATAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
4373487 TT
66 TT
4373489 TCTTCTTGCT
Statistics
Matches: 223, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
181 35 0.16
182 185 0.83
183 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (182 bp):
AGAGAGTTCATAATGAGAATAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAAACTTGGCTCAGTATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAG
AAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCAACATTTCCAAC
Found at i:4373733 original size:96 final size:96
Alignment explanation
Indices: 4373491--4373905 Score: 636
Period size: 96 Copynumber: 4.3 Consensus size: 96
4373481 AACTTGTTTC
*
4373491 TTCTTGCTCGATTCCATCACATACGGTGTTGGAACAACACCAATGA-TTGGCTCATCCATCACAT
1 TTCTTGCTCGATTCCATCACATACGGAGTTGGAACAACACCAAT-ACTTGGCTCATCCATCACAT
*
4373555 ACAGAGTTGGATCAGCATCATCAAACATTGTCA
65 ACGGAGTTGGATCAGCATCATC-AACATTGTCA
* *
4373588 TTCTTGCTCGATTCCATCACAAACGAAGTTGGAACAACACCAATACTTGGCTCATCCATCACATA
1 TTCTTGCTCGATTCCATCACATACGGAGTTGGAACAACACCAATACTTGGCTCATCCATCACATA
* *
4373653 TGGAGTTGGATCATCATCATCAACATTGTCA
66 CGGAGTTGGATCAGCATCATCAACATTGTCA
* * * *
4373684 TTCTTGCTCGATTCCATCACATACGGAGTTAGAACAGCACCAATGCTTGGCTCATCCATCGCATA
1 TTCTTGCTCGATTCCATCACATACGGAGTTGGAACAACACCAATACTTGGCTCATCCATCACATA
**
4373749 CGTTGTTGGATCAGCATCATCAACATTGTCA
66 CGGAGTTGGATCAGCATCATCAACATTGTCA
* *
4373780 TTCTTGCTCGATTCTATCACATACGGAGTTGGAACAACACCGATACTTGGCTCATCCATCACATA
1 TTCTTGCTCGATTCCATCACATACGGAGTTGGAACAACACCAATACTTGGCTCATCCATCACATA
*
4373845 TGGAGTTGGATCAGCATCATCAACATTGTCA
66 CGGAGTTGGATCAGCATCATCAACATTGTCA
* * *
4373876 TTCTCGCTCGATT-CATCATATATGGAGTTG
1 TTCTTGCTCGATTCCATCACATACGGAGTTG
4373906 AATCAGCAAC
Statistics
Matches: 288, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
95 14 0.05
96 196 0.68
97 78 0.27
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (96 bp):
TTCTTGCTCGATTCCATCACATACGGAGTTGGAACAACACCAATACTTGGCTCATCCATCACATA
CGGAGTTGGATCAGCATCATCAACATTGTCA
Found at i:4376689 original size:55 final size:54
Alignment explanation
Indices: 4376624--4376770 Score: 150
Period size: 55 Copynumber: 2.7 Consensus size: 54
4376614 TGAAAAAGGT
* * ** *
4376624 TGAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAA
1 TGAGAAATTCATACTAAGTGTATGAATTTACGTATGGACACTACGTGTAC-AAAA
** * * *
4376679 TGAGAAATTCATACTACCTGTATGAATTTATGTATGGACACTACGTGTACGAAC
1 TGAGAAATTCATACTAAGTGTATGAATTTACGTATGGACACTACGTGTACAAAA
* * * * *
4376733 TAATAAATCCATAATAAGTGTATGAATTTTCGTATGGA
1 TGAGAAATTCATACTAAGTGTATGAATTTACGTATGGA
4376771 AAATATATTA
Statistics
Matches: 74, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
54 32 0.43
55 42 0.57
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (54 bp):
TGAGAAATTCATACTAAGTGTATGAATTTACGTATGGACACTACGTGTACAAAA
Found at i:4377456 original size:243 final size:242
Alignment explanation
Indices: 4376975--4377457 Score: 593
Period size: 243 Copynumber: 2.0 Consensus size: 242
4376965 AAAGATTTGA
* * *
4376975 GGCCTAACTGTGCATTGACAGAAAGTTGTCAATTATGCCAGTTAGATGAAATTTAAAGACCGTTG
1 GGCCTAACTGTGCATTGACAGAAAGTTATCAATTATGCCAGTTAGATGAAATATAAAGACCATTG
* * * *
4377040 AGTAAAAGATAAATGGCCTAGCTATGCATTTGGCAAAAAGGTGTCAATTATACTAATTGGATGAA
66 AGTAAAAGATAAAAGGCCTAGCTATGCATTTGGAAAAAAGGTGTCAATTATACCAATTAGATGAA
* * *
4377105 CAGTTAAAGACCGTTGAGTAAAAGATAAATGTCCTAGCTATGCATTTGGCAGAAATGTGTCAATT
131 CAGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGCTATGCATTTGGAAGAAAGGTGTCAATT
4377170 AGTCAAGTTAGATGAACAGTTAAAGACCACTGAGTAAAAGATAAAAG
196 AGTCAAGTTAGATGAACAGTTAAAGACCACTGAGTAAAAGATAAAAG
* * *
4377217 GGCCT-ACTTGTGCATTGACATAAA-TATATCAATTGTGCTAGTTAGATG-AATGGATAAAGACC
1 GGCCTAAC-TGTGCATTGACAGAAAGT-TATCAATTATGCCAGTTAGATGAAAT--ATAAAGACC
* * * * *
4377279 ATTGAGTAAAAGATAAAAGGACCTAGTTGTGCA-TT-GAAAGAAATGTGTCAATTATGCCAGTTA
62 ATTGAGTAAAAGATAAAAGG-CCTAGCTATGCATTTGGAAA-AAAGGTGTCAATTATACCAATTA
* * ** * *
4377342 GATGATCGGTTAAAGATTGTTGAGTAAAAGATAAATGGCCTAGTTGTGCATTTGGAAGAAAGGTG
125 GATGAACAGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGCTATGCATTTGGAAGAAAGGTG
* * **
4377407 TCAATTA-TGCCAGTTAGATGAAC-GATTAAAGATCGTTGAGTAAAAGATAAA
190 TCAATTAGT-CAAGTTAGATGAACAG-TTAAAGACCACTGAGTAAAAGATAAA
4377458 TGGAATTATA
Statistics
Matches: 205, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
241 6 0.03
242 44 0.21
243 145 0.71
244 10 0.05
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (242 bp):
GGCCTAACTGTGCATTGACAGAAAGTTATCAATTATGCCAGTTAGATGAAATATAAAGACCATTG
AGTAAAAGATAAAAGGCCTAGCTATGCATTTGGAAAAAAGGTGTCAATTATACCAATTAGATGAA
CAGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGCTATGCATTTGGAAGAAAGGTGTCAATT
AGTCAAGTTAGATGAACAGTTAAAGACCACTGAGTAAAAGATAAAAG
Found at i:4377478 original size:81 final size:81
Alignment explanation
Indices: 4376994--4377460 Score: 498
Period size: 81 Copynumber: 5.8 Consensus size: 81
4376984 GTGCATTGAC
* *
4376994 AGAAAGTTGTCAATTATGCCAGTTAGATGAA-ATTTAAAGACCGTTGAGTAAAAGATAAATGGCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAAGACCGTTGAGTAAAAGATAAATGGCC
*
4377058 TAGCTATGCATTTGGCA
66 TAGTTATGCATTTGG-A
* * * * *
4377075 A-AAAGGTGTCAATTATACTAATTGGATGAACAGTTAAAGACCGTTGAGTAAAAGATAAATGTCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAAGACCGTTGAGTAAAAGATAAATGGCC
* *
4377139 TAGCTATGCATTTGGC
66 TAGTTATGCATTTGGA
* * ** *
4377155 AGAAATGTGTCAATTA-GTCAAGTTAGATGAACAGTTAAAGACCACTGAGTAAAAGATAAAAGGG
1 AGAAAGGTGTCAATTATG-CCAGTTAGATGAACAGTTAAAGACCGTTGAGTAAAAGAT-AAATGG
* *
4377219 CCTACTTGTGCA-TT-GA
64 CCTAGTTATGCATTTGGA
* ** * * * ** * * *
4377235 CATAAATATATCAATTGTGCTAGTTAGATGAATGGATAAAGACCATTGAGTAAAAGATAAAAGGA
1 -AGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAAGACCGTTGAGTAAAAGATAAATGG-
* *
4377300 CCTAGTTGTGCA-TTGAA
64 CCTAGTTATGCATTTGGA
* * * **
4377317 AGAAATGTGTCAATTATGCCAGTTAGATGATCGGTTAAAGATTGTTGAGTAAAAGATAAATGGCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAAGACCGTTGAGTAAAAGATAAATGGCC
*
4377382 TAGTTGTGCATTTGGA
66 TAGTTATGCATTTGGA
*
4377398 AGAAAGGTGTCAATTATGCCAGTTAGATGAAC-GATTAAAGATCGTTGAGTAAAAGATAAATGG
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACAG-TTAAAGACCGTTGAGTAAAAGATAAATGG
4377461 AATTATAATG
Statistics
Matches: 327, Mismatches: 49, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
80 44 0.13
81 268 0.82
82 15 0.05
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (81 bp):
AGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAAGACCGTTGAGTAAAAGATAAATGGCC
TAGTTATGCATTTGGA
Found at i:4382159 original size:20 final size:19
Alignment explanation
Indices: 4382113--4382165 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
4382103 ACCGATTCAA
4382113 GTGGTATCGATACCAAGAG
1 GTGGTATCGATACCAAGAG
* *
4382132 GGGAGTATCGATACCATGAG
1 GTG-GTATCGATACCAAGAG
*
4382152 GATGGTATCCATAC
1 G-TGGTATCGATAC
4382166 AATTTGATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.07
20 25 0.89
21 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (19 bp):
GTGGTATCGATACCAAGAG
Found at i:4383047 original size:81 final size:81
Alignment explanation
Indices: 4382962--4383682 Score: 716
Period size: 81 Copynumber: 9.0 Consensus size: 81
4382952 AAAGATTTGA
* * * * *
4382962 GGCCTAGCTATGCATTTGGCAGAAAGGTGTCGATTATGCTAGTTAAATAAACGGTTAAAGACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
*
4383027 TAAGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
** *
4383043 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGTTAGTTAGATGAACGGTTAAAGACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
*
4383108 TGAGTAAAAGATAAAAG
66 TGAGTAAAAGAT-AAAT
* * * * *
4383125 GGCCTAGCTGTGCA-TTGACAGAAATGTGTCAATTATGCCAGTTAGATGAATGGCTAAAGACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
4383189 TGAGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
* * * * *
4383205 GGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAATTATACCAGTTATATGAATGGTTAAAGATCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
4383270 TGAGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
* * * * * * *
4383286 GACCTAGCTCTGAATTTGGCAGAATGGTATCAATTATGCCAGTTAGATGAACGATTAAAGA---A
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
*
4383348 AGA-TAAAAG------
66 TGAGTAAAAGATAAAT
* * ** * * * *
4383357 GGCCTAGTTGTGCA-TTGACAGAAAAAATATAAATTATGTCAGTTAGATGAACTGTTAAAGACCG
1 GGCCTAGCTGTGCATTTGGCAG-AAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCG
*
4383421 TTGAGTAAAAGATAAAAG
65 TTGAGTAAAAGAT-AAAT
* * * ** * * * * *
4383439 GGCCTGGATGTG-AATTGATAGAAATGTGTCAAATATGCCTGTTAGATGAACAGTTAAAGACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
* *
4383503 TGAGTAAAATATAAAAG
66 TGAGTAAAAGAT-AAAT
* * ** ***
4383520 GGTCTAGCTGTGCA-TTGACAGAAATATGTCAATTATGCCAGTTAGATGAAATATTAAAGACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
* *
4383584 TAAGTAAAAGATAAGT
66 TGAGTAAAAGATAAAT
** * * * *
4383600 GGCCTAGCTAAGTATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAATGATTAAAGACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
4383665 TGAGTATAAA-ATAAAT
66 TGAGTA-AAAGATAAAT
4383681 GG
1 GG
4383683 AATTATAATG
Statistics
Matches: 533, Mismatches: 89, Indels: 36
0.81 0.14 0.05
Matches are distributed among these distances:
70 6 0.01
71 42 0.08
74 2 0.00
75 6 0.01
77 6 0.01
78 2 0.00
80 29 0.05
81 403 0.76
82 37 0.07
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
TGAGTAAAAGATAAAT
Found at i:4383508 original size:233 final size:232
Alignment explanation
Indices: 4383114--4383579 Score: 544
Period size: 233 Copynumber: 2.0 Consensus size: 232
4383104 CCATTGAGTA
** * *
4383114 AAAGATAAAAGGGCCTAGCTGTGCATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAATGGC
1 AAAGATAAAAGGGCCTAGCTGTGCATTGACAGAAAAATATAAATTATGCCAGTTAGATGAATGGC
* * * * *
4383179 TAAAGACCATTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAATTATAC
66 TAAAGACCATTGAGTAAAAGATAAAGGGCCTAGATGTGCAATTGACAAAAAGGTGTCAAATATAC
* ** * * * *
4383244 CAGTTATATGAATGGTTAAAGATCGTTGAGTAAAAGAT-AAATGACCTAGCTCTGAATTTGGCAG
131 CAGTTAGATGAACAGTTAAAGACCATTGAGTAAAAGATAAAAGGACCTAGCTCTGAA-TTGACAG
* *
4383308 -AATGGTATCAATTATGCCAGTTAGATGAACGATTAAAG
195 AAAT-ATATCAATTATGCCAGTTAGATGAAAGATTAAAG
* *
4383346 AAAGATAAAAGGGCCTAGTTGTGCATTGACAGAAAAAATATAAATTATGTCAGTTAGATGAACT-
1 AAAGATAAAAGGGCCTAGCTGTGCATTGACAG-AAAAATATAAATTATGCCAGTTAGATGAA-TG
* * * * * *
4383410 GTTAAAGACCGTTGAGTAAAAGATAAAAGGGCCTGGATGTG-AATTGATAGAAATGTGTCAAATA
64 GCTAAAGACCATTGAGTAAAAGAT-AAAGGGCCTAGATGTGCAATTGACAAAAAGGTGTCAAATA
* * * ** * *
4383474 TGCCTGTTAGATGAACAGTTAAAGACCATTGAGTAAAATATAAAAGGGTCTAGCTGTGCATTGAC
128 TACCAGTTAGATGAACAGTTAAAGACCATTGAGTAAAAGATAAAAGGACCTAGCTCTGAATTGAC
* *
4383539 AGAAATATGTCAATTATGCCAGTTAGATGAAATATTAAAG
193 AGAAATATATCAATTATGCCAGTTAGATGAAAGATTAAAG
4383579 A
1 A
4383580 CCGTTAAGTA
Statistics
Matches: 194, Mismatches: 35, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
232 31 0.16
233 133 0.69
234 30 0.15
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (232 bp):
AAAGATAAAAGGGCCTAGCTGTGCATTGACAGAAAAATATAAATTATGCCAGTTAGATGAATGGC
TAAAGACCATTGAGTAAAAGATAAAGGGCCTAGATGTGCAATTGACAAAAAGGTGTCAAATATAC
CAGTTAGATGAACAGTTAAAGACCATTGAGTAAAAGATAAAAGGACCTAGCTCTGAATTGACAGA
AATATATCAATTATGCCAGTTAGATGAAAGATTAAAG
Found at i:4383552 original size:314 final size:314
Alignment explanation
Indices: 4383074--4383660 Score: 845
Period size: 314 Copynumber: 1.9 Consensus size: 314
4383064 GAAAGGTGTC
* * *
4383074 AATTATGTTAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAAAGGGCCTAGCTGTGCA
1 AATTATGTCAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAAAGGGCCTAGATGTGAA
* **
4383139 TTGACAGAAATGTGTCAATTATGCCAGTTAGATGAATGGCTAAAGACCATTGAGTAAAAGATAAA
66 TTGACAGAAATGTGTCAAATATGCCAGTTAGATGAACAGCTAAAGACCATTGAGTAAAAGATAAA
* * * * * *
4383204 TGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAATTATACCAGTTATATG-AATGGTTAAAGATC
131 GGGCCTAGCTGTGCATTTGACAAAAAGATGTCAATTATACCAGTTAGATGAAAT-ATTAAAGACC
* ** * *
4383268 GTTGAGTAAAAGATAAATGACCTAGCTCTGAATTTGGCAGAATGGTATCAATTATGCCAGTTAGA
195 GTTAAGTAAAAGATAAATGACCTAGCTAAGAATTTGGAAGAAAGGTATCAATTATGCCAGTTAGA
4383333 TGAACGATTAAAGAAAGATAAAAGGGCCTAGTTGTGCATTGACAGAAAAAATATA
260 TGAACGATTAAAGAAAGATAAAAGGGCCTAGTTGTGCATTGACAGAAAAAATATA
* * *
4383388 AATTATGTCAGTTAGATGAACTGTTAAAGACCGTTGAGTAAAAGATAAAAGGGCCTGGATGTGAA
1 AATTATGTCAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAAAGGGCCTAGATGTGAA
* * * *
4383453 TTGATAGAAATGTGTCAAATATGCCTGTTAGATGAACAGTTAAAGACCATTGAGTAAAATATAAA
66 TTGACAGAAATGTGTCAAATATGCCAGTTAGATGAACAGCTAAAGACCATTGAGTAAAAGAT-AA
* * * *
4383518 AGGGTCTAGCTGTGCA-TTGACAGAAATATGTCAATTATGCCAGTTAGATGAAATATTAAAGACC
130 AGGGCCTAGCTGTGCATTTGACAAAAAGATGTCAATTATACCAGTTAGATGAAATATTAAAGACC
* * * *
4383582 GTTAAGTAAAAGATAAGTGGCCTAGCTAAGTATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGA
195 GTTAAGTAAAAGATAAATGACCTAGCTAAGAATTTGGAAGAAAGGTATCAATTATGCCAGTTAGA
*
4383647 TGAATGATTAAAGA
260 TGAACGATTAAAGA
4383661 CCGTTGAGTA
Statistics
Matches: 238, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
314 219 0.92
315 19 0.08
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (314 bp):
AATTATGTCAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAAAGGGCCTAGATGTGAA
TTGACAGAAATGTGTCAAATATGCCAGTTAGATGAACAGCTAAAGACCATTGAGTAAAAGATAAA
GGGCCTAGCTGTGCATTTGACAAAAAGATGTCAATTATACCAGTTAGATGAAATATTAAAGACCG
TTAAGTAAAAGATAAATGACCTAGCTAAGAATTTGGAAGAAAGGTATCAATTATGCCAGTTAGAT
GAACGATTAAAGAAAGATAAAAGGGCCTAGTTGTGCATTGACAGAAAAAATATA
Found at i:4387277 original size:118 final size:118
Alignment explanation
Indices: 4386914--4387436 Score: 687
Period size: 118 Copynumber: 4.5 Consensus size: 118
4386904 AGGAAGAATG
* * * * * *
4386914 AGTTCATAATGAGAAGAACTTCTTCAA---AAGCTCAATTCCATCACAGAAGGAAGTGGATAAAT
1 AGTTCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAAC
* * * * *
4386976 GTTTCTAATGAAAGGGTTCGTAATAAGAAAAACTCGTCTGATGAA-TGAGAAGA
66 ATTTCCAATGAAAGGGTTCGTAATAAGAAAAACTCATCCGAT-AAGGGAGAAGA
* *
4387029 AGTTCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCCATCATAGAAGGAGGTGTAT-AAC
1 AGTTCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAAC
**
4387093 ATTTCCAATGAAAGGGTTCGTAATAAGAAAAACTCATCCGATAAACGAGAAGA
66 ATTTCCAATGAAAGGGTTCGTAATAAGAAAAACTCATCCGATAAGGGAGAAGA
* *
4387146 AGTTCATAATGAGAATAACTTATTCAACCTTAGCTCGATTCCATCATAGAAGGAGGTGGATCAAC
1 AGTTCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAAC
* * *
4387211 ATTTCCAATGAAAGGTTTCGTAATAAGAAGAACTCATTCGATAAGGGAGAAGA
66 ATTTCCAATGAAAGGGTTCGTAATAAGAAAAACTCATCCGATAAGGGAGAAGA
* * ** *
4387264 TGTTCATAATGAGAAGAACGTATTCAACCTTATATCGATTCCATCACAGAAGGAGGTGTATCAAC
1 AGTTCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAAC
* * * * * *
4387329 ATTTCCAATGAAAGAGTTTGTAATGAGAAGAACCCATCCGATAAGGGAAAAGA
66 ATTTCCAATGAAAGGGTTCGTAATAAGAAAAACTCATCCGATAAGGGAGAAGA
* * * *
4387382 AGTTTATAATGAGAAGAACTTATTCAACCATAGCTCAATTCCATCACATAAGGAG
1 AGTTCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCCATCACAGAAGGAG
4387437 TTGAAACAAC
Statistics
Matches: 362, Mismatches: 41, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
115 26 0.07
116 2 0.01
117 106 0.29
118 228 0.63
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (118 bp):
AGTTCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAAC
ATTTCCAATGAAAGGGTTCGTAATAAGAAAAACTCATCCGATAAGGGAGAAGA
Found at i:4387758 original size:3 final size:3
Alignment explanation
Indices: 4387750--4387777 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4387740 CAACCAATAC
4387750 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4387778 AAAATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:4393919 original size:43 final size:43
Alignment explanation
Indices: 4393853--4393939 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
4393843 GAGTGTTGTT
4393853 CTCTCTTGAGGTTTTGAGATCGAACAACTACGTCAGTAGGGTG
1 CTCTCTTGAGGTTTTGAGATCGAACAACTACGTCAGTAGGGTG
* *
4393896 CTCTCTTGAGGTTTTGAGTTCGAACAACTACGTTAGTAGGGTG
1 CTCTCTTGAGGTTTTGAGATCGAACAACTACGTCAGTAGGGTG
4393939 C
1 C
4393940 GTGTACGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
CTCTCTTGAGGTTTTGAGATCGAACAACTACGTCAGTAGGGTG
Found at i:4394206 original size:14 final size:14
Alignment explanation
Indices: 4394187--4394216 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4394177 ACAATTTATT
4394187 GTACCAATGTGACA
1 GTACCAATGTGACA
4394201 GTACCAATGTGACA
1 GTACCAATGTGACA
4394215 GT
1 GT
4394217 CCATGAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (14 bp):
GTACCAATGTGACA
Found at i:4407800 original size:20 final size:21
Alignment explanation
Indices: 4407763--4407806 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
4407753 AAATGATGTA
4407763 AAATATGCTACAATAAAT-CT
1 AAATATGCTACAATAAATACT
*
4407783 AAATATGCTTATAA-AAATACT
1 AAATATGC-TACAATAAATACT
4407804 AAA
1 AAA
4407807 GTACAAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (21 bp):
AAATATGCTACAATAAATACT
Found at i:4408593 original size:22 final size:22
Alignment explanation
Indices: 4408565--4408606 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4408555 TTAAAGAAAG
*
4408565 ATAAAAATAAATAA-AAGAGATA
1 ATAAAAAGAAA-AATAAGAGATA
4408587 ATAAAAAGAAAAATAAGAGA
1 ATAAAAAGAAAAATAAGAGA
4408607 ACGATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (22 bp):
ATAAAAAGAAAAATAAGAGATA
Found at i:4409832 original size:24 final size:23
Alignment explanation
Indices: 4409785--4409837 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
4409775 TATTTGGACC
*
4409785 AAAATAAAAAAAAGAAAATTAAT
1 AAAATAAAAAAAAGAAAATGAAT
4409808 AAAATGAAAAGAAAAGAAAA-GAAT
1 AAAAT-AAAA-AAAAGAAAATGAAT
4409832 AAAATA
1 AAAATA
4409838 TAATACATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 6 0.22
24 12 0.44
25 9 0.33
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.13
Consensus pattern (23 bp):
AAAATAAAAAAAAGAAAATGAAT
Found at i:4409880 original size:11 final size:11
Alignment explanation
Indices: 4409864--4409961 Score: 52
Period size: 11 Copynumber: 8.1 Consensus size: 11
4409854 TATATAACAT
4409864 ATATTTTAAAA
1 ATATTTTAAAA
4409875 ATATTTTCAAAA
1 ATATTTT-AAAA
* *
4409887 ATTATATATTATAT
1 A-TAT-T-TTAAAA
*
4409901 ATATTTTCAAA
1 ATATTTTAAAA
*
4409912 ATGTTTTCAAAA
1 ATATTTT-AAAA
* *
4409924 ACTATATATTATAT
1 A-TAT-T-TTAAAA
*
4409938 ATATTTTCAAA
1 ATATTTTAAAA
4409949 ATATTTTTAAAA
1 ATA-TTTTAAAA
4409961 A
1 A
4409962 ACTATATATT
Statistics
Matches: 64, Mismatches: 14, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
11 22 0.34
12 19 0.30
13 11 0.17
14 8 0.12
15 4 0.06
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (11 bp):
ATATTTTAAAA
Found at i:4409971 original size:38 final size:37
Alignment explanation
Indices: 4409862--4410169 Score: 395
Period size: 38 Copynumber: 8.1 Consensus size: 37
4409852 TTTATATAAC
* * *
4409862 ATATATTTTAAAAATATTTTCAAAAATTATATATTAT
1 ATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
4409899 ATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
* * *
4409936 ATATATTTTCAAAATATTTTTAAAAAACTATATATTTT
1 ATATATTTTCAAAAT-GTTTTCAAAAACTATATATTAT
*
4409974 ATATATGGTTTCAAAATGTTTTCAAAAACTATATACTAT
1 ATATAT--TTTCAAAATGTTTTCAAAAACTATATATTAT
* *
4410013 ATCTATTTTCAAAAATATTTTCAAAAACTATATATTATAT
1 ATATATTTTC-AAAATGTTTTCAAAAACTATATA-T-TAT
*
4410053 ATATATTTTTCAAAATGTTTTAAAAAACTATATATTAT
1 ATATA-TTTTCAAAATGTTTTCAAAAACTATATATTAT
*
4410091 ATATATTTTC-AAATATTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
* *
4410127 ATATTTATTTTCAAAAT-TTTATAAAAAATTATATATTAT
1 ATA--TATTTTCAAAATGTTT-TCAAAAACTATATATTAT
4410166 ATAT
1 ATAT
4410170 TACATAGGTA
Statistics
Matches: 240, Mismatches: 20, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
36 27 0.11
37 59 0.25
38 65 0.27
39 47 0.20
40 37 0.15
41 5 0.02
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (37 bp):
ATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
Found at i:4409997 original size:77 final size:75
Alignment explanation
Indices: 4409862--4410169 Score: 433
Period size: 75 Copynumber: 4.1 Consensus size: 75
4409852 TTTATATAAC
* * *
4409862 ATATATTTTAAAAATATTTTCAAAAATTATATATTATATATA-TTTTCAAAATGTTTTCAAAAAC
1 ATATATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTTCAAAATGTTTTAAAAAAC
4409926 TATATATTAT
66 TATATATTAT
* * * *
4409936 ATATATTTTCAAAATATTTTTAAAAAACTATATATTTTATATATGGTTTCAAAATGTTTTCAAAA
1 ATATATTTTCAAAATA-TTTTCAAAAACTATATATTATATATAT-TTTTCAAAATGTTTTAAAAA
*
4410001 ACTATATACTAT
64 ACTATATATTAT
*
4410013 ATCTATTTTCAAAAATATTTTCAAAAACTATATATTATATATATATTTTTCAAAATGTTTTAAAA
1 ATATATTTTC-AAAATATTTTCAAAAACTATATA-T-TATATATATTTTTCAAAATGTTTTAAAA
4410078 AACTATATATTAT
63 AACTATATATTAT
*
4410091 ATATATTTTC-AAATATTTTCAAAAACTATATATTATATATTTATTTTCAAAAT-TTTATAAAAA
1 ATATATTTTCAAAATATTTTCAAAAACTATATATTATATATAT-TTTTCAAAATGTTT-TAAAAA
*
4410154 ATTATATATTAT
64 ACTATATATTAT
4410166 ATAT
1 ATAT
4410170 TACATAGGTA
Statistics
Matches: 211, Mismatches: 15, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
74 26 0.12
75 55 0.26
76 22 0.10
77 55 0.26
78 45 0.21
79 8 0.04
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (75 bp):
ATATATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTTCAAAATGTTTTAAAAAAC
TATATATTAT
Found at i:4413469 original size:10 final size:11
Alignment explanation
Indices: 4413454--4413482 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4413444 ATGATAAAAT
4413454 AAAAAAAT-AA
1 AAAAAAATGAA
4413464 AAAAAAATGAA
1 AAAAAAATGAA
4413475 AAAAAAAT
1 AAAAAAAT
4413483 TCAGTTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.10
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:4415584 original size:45 final size:46
Alignment explanation
Indices: 4415496--4415586 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
4415486 TTTGAAAAGC
* *
4415496 CTGAGTGCATCGATGCATGGTCTTGTGCATCAATGCATCAAATGCA
1 CTGAGTGCATCAATGCATGGTCTTGTGCATCAATGCATAAAATGCA
*
4415542 CTGAGTGCATCAATGCATGGT-TTGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCAATGCATGGTCTTGTGCATCAATGCATAAAATGCA
4415587 TTCGATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 22 0.52
46 20 0.48
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (46 bp):
CTGAGTGCATCAATGCATGGTCTTGTGCATCAATGCATAAAATGCA
Found at i:4415631 original size:20 final size:20
Alignment explanation
Indices: 4415606--4415643 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4415596 TGAAAAATTA
4415606 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
4415626 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
4415644 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:4417832 original size:13 final size:13
Alignment explanation
Indices: 4417804--4417842 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
4417794 TGGGCAAGGT
*
4417804 TTTGAAAA-ACTA
1 TTTGAAAATAATA
4417816 TTTGAAAATAATA
1 TTTGAAAATAATA
*
4417829 TTTGTAAATAATA
1 TTTGAAAATAATA
4417842 T
1 T
4417843 GTATAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAATA
Found at i:4418256 original size:17 final size:17
Alignment explanation
Indices: 4418216--4418248 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4418206 TTTGACCAAT
4418216 AGGAGAGTTTAGGGAAA
1 AGGAGAGTTTAGGGAAA
4418233 AGGAGAGTTTAGGGAA
1 AGGAGAGTTTAGGGAA
4418249 GAAGAGAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.18
Consensus pattern (17 bp):
AGGAGAGTTTAGGGAAA
Found at i:4422302 original size:22 final size:21
Alignment explanation
Indices: 4422260--4422299 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4422250 GAGTTTATTT
*
4422260 TCATTTTTCAATTTTTAAACA
1 TCATTTTTCAATTTTAAAACA
4422281 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4422300 ACAAATTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4423994 original size:11 final size:11
Alignment explanation
Indices: 4423972--4424004 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
4423962 GTTTGATGCT
4423972 TTCTCT-TTGA
1 TTCTCTGTTGA
4423982 TTCTCTGTTGA
1 TTCTCTGTTGA
4423993 TTCT-TGTTGA
1 TTCTCTGTTGA
4424003 TT
1 TT
4424005 GTTATTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.09, C:0.15, G:0.15, T:0.61
Consensus pattern (11 bp):
TTCTCTGTTGA
Found at i:4424365 original size:45 final size:46
Alignment explanation
Indices: 4424277--4424367 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 46
4424267 TTTGAAAAAC
* *
4424277 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
4424323 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
4424368 TTCGATGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 22 0.51
46 21 0.49
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:4424412 original size:20 final size:20
Alignment explanation
Indices: 4424387--4424424 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4424377 TGAAAATTTA
4424387 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
4424407 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
4424425 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:4426033 original size:39 final size:37
Alignment explanation
Indices: 4425876--4426152 Score: 378
Period size: 39 Copynumber: 7.3 Consensus size: 37
4425866 ATAAATATTT
* *
4425876 TATATAATATATATTTTCAAAA-ATTTTCAAAAATTA
1 TATATTATATATATTTTCAAAATATTTTCAAAAACTA
*
4425912 TATATTATATATATTTTCAAAATGTTTTCAAAAACTA
1 TATATTATATATATTTTCAAAATATTTTCAAAAACTA
*
4425949 TATATTATATATATTTTCAAAATATTTTTTAAAAACTA
1 TATATTATATATATTTTCAAAATA-TTTTCAAAAACTA
4425987 TATATTATATATATGCTTTCAAAATATTTTCAAAAACTA
1 TATATTATATATAT--TTTCAAAATATTTTCAAAAACTA
* *
4426026 TATATTATATAAATTTTCAAAATATTTTCAAAAATTA
1 TATATTATATATATTTTCAAAATATTTTCAAAAACTA
*
4426063 TATATTATATATATTTTTTCAAAATGTTTTCAAAAACTA
1 TATATTATATATA--TTTTCAAAATATTTTCAAAAACTA
*
4426102 TATATTATATATATGTTTTCAAAAT-TTTATAAAAAAACTA
1 TATATTATATATA--TTTTCAAAATATTT-T-CAAAAACTA
*
4426142 TATATTTTATA
1 TATATTATATA
4426153 ATATATATGT
Statistics
Matches: 219, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
36 21 0.10
37 69 0.32
38 29 0.13
39 72 0.33
40 28 0.13
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.47
Consensus pattern (37 bp):
TATATTATATATATTTTCAAAATATTTTCAAAAACTA
Found at i:4426743 original size:18 final size:18
Alignment explanation
Indices: 4426720--4426761 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
4426710 TTCTGAACCA
4426720 GGGTATCGATACTATCTT
1 GGGTATCGATACTATCTT
4426738 GGGTATCGATACTATCTT
1 GGGTATCGATACTATCTT
4426756 GGGTAT
1 GGGTAT
4426762 TGTAACACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.38
Consensus pattern (18 bp):
GGGTATCGATACTATCTT
Found at i:4427651 original size:58 final size:59
Alignment explanation
Indices: 4427558--4427698 Score: 151
Period size: 61 Copynumber: 2.4 Consensus size: 59
4427548 GTGGTGCTTG
* * * * *
4427558 CACATAAGGTCGTGCCCACCACCTACACTAGGTGTATT-TACACACCCTTGGGCTATGA
1 CACATAAGGTCATGCCCACCTCCTACACTAAGTGTATTGTAAACACCCTAGGGCTATGA
* * * * *
4427616 TACATAAGGTCATGCCCACCTTCTTCACTAAGTGTATTAGGTAAACACTCTAGTGCTATGA
1 CACATAAGGTCATGCCCACCTCCTACACTAAGTGTATT--GTAAACACCCTAGGGCTATGA
4427677 CACATAAGGT-AGTGCCCACCTC
1 CACATAAGGTCA-TGCCCACCTC
4427699 TGGCACTAGT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
58 32 0.48
60 1 0.01
61 34 0.51
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (59 bp):
CACATAAGGTCATGCCCACCTCCTACACTAAGTGTATTGTAAACACCCTAGGGCTATGA
Found at i:4431580 original size:16 final size:17
Alignment explanation
Indices: 4431554--4431585 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4431544 AATATTTGTA
4431554 CATACTAAACTATATTT
1 CATACTAAACTATATTT
4431571 CATA-TAAACTATATT
1 CATACTAAACTATATT
4431586 AATACTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.41
Consensus pattern (17 bp):
CATACTAAACTATATTT
Found at i:4432744 original size:61 final size:57
Alignment explanation
Indices: 4432597--4432750 Score: 166
Period size: 61 Copynumber: 2.6 Consensus size: 57
4432587 TAGTGCTTGA
* *
4432597 ACATAAGGTTGTGCCCACCTCCTGCACTAGGTGTCCTTATATACGCTTCAGCTATGAC
1 ACATAAGGTCGTGCCCACCTCCTGCACTAGGTGT-CTTATATACACTTCAGCTATGAC
* * * * * * *
4432655 ACATAAGGTCGTTCCCAACACTTACACTAAGTGTCTTGGGTATACAC-TCTAGTTCTATGAC
1 ACATAAGGTCGTGCCCACCTCCTGCACTAGGTGTCTT--ATATACACTTC-AG--CTATGAC
4432716 ACATAAGGTCGTGCCCACCTCCTGCACTAGGTGTC
1 ACATAAGGTCGTGCCCACCTCCTGCACTAGGTGTC
4432751 CTTACACACC
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
57 3 0.04
58 29 0.38
59 8 0.11
61 36 0.47
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (57 bp):
ACATAAGGTCGTGCCCACCTCCTGCACTAGGTGTCTTATATACACTTCAGCTATGAC
Found at i:4440672 original size:23 final size:23
Alignment explanation
Indices: 4440646--4440698 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
4440636 TTGAAATCAG
4440646 ATTATTTATTTATTTGAAACAAT
1 ATTATTTATTTATTTGAAACAAT
* *
4440669 ATTAATTATTTATTTGAAATAAT
1 ATTATTTATTTATTTGAAACAAT
4440692 ATTATTT
1 ATTATTT
4440699 TAAAACTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (23 bp):
ATTATTTATTTATTTGAAACAAT
Found at i:4440804 original size:23 final size:24
Alignment explanation
Indices: 4440773--4440818 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
4440763 AATTTAAAAA
*
4440773 TAATAGTATTT-TAAATAAATAAT
1 TAATAGTATTTAAAAATAAATAAT
*
4440796 TAATTGTATTTAAAAATAAATAA
1 TAATAGTATTTAAAAATAAATAA
4440819 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
TAATAGTATTTAAAAATAAATAAT
Found at i:4441509 original size:40 final size:40
Alignment explanation
Indices: 4441431--4441515 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
4441421 CACCCATTAG
* *
4441431 AAAAAGGCGCGGCCTATGCACCGCATCTTACGTCACGTGT
1 AAAAAGGCGCGGCCCATGCACCGCACCTTACGTCACGTGT
* * * *
4441471 TAAAAGGCGCGGCCCATGCACCGCGCCTTATGTGACGTGT
1 AAAAAGGCGCGGCCCATGCACCGCACCTTACGTCACGTGT
4441511 AAAAA
1 AAAAA
4441516 TCGAAAGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.19
Consensus pattern (40 bp):
AAAAAGGCGCGGCCCATGCACCGCACCTTACGTCACGTGT
Found at i:4442027 original size:29 final size:29
Alignment explanation
Indices: 4441962--4442037 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 29
4441952 TTATTATTCA
*
4441962 TTAATTATTATTTTTAACAACAATTAATAT
1 TTAA-TATTATTTTTAATAACAATTAATAT
*
4441992 TT-TTATTCATTTTTAATAA-AATTAGA-AT
1 TTAATATT-ATTTTTAATAACAATTA-ATAT
*
4442020 TTAATATTTATTTATAAT
1 TTAATA-TTATTTTTAAT
4442038 TTTAAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
28 13 0.34
29 21 0.55
30 4 0.11
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (29 bp):
TTAATATTATTTTTAATAACAATTAATAT
Found at i:4442534 original size:8 final size:8
Alignment explanation
Indices: 4442521--4442546 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
4442511 TAATTAAAAA
4442521 TATATTTT
1 TATATTTT
4442529 TATATTTT
1 TATATTTT
4442537 TATATTTT
1 TATATTTT
4442545 TA
1 TA
4442547 AACAATTAAT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TATATTTT
Found at i:4447650 original size:2 final size:2
Alignment explanation
Indices: 4447643--4447691 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
4447633 ATTTTAACAT
4447643 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- 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
4447684 T- TA TA TA T
1 TA TA TA TA T
4447692 TGAATGTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4447964 original size:20 final size:20
Alignment explanation
Indices: 4447916--4447965 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
4447906 TACATGTCAT
*
4447916 TATGATGTCAAAGTTATTGA
1 TATGATGTCAAAGTGATTGA
* *
4447936 TATGGTGTCAATGTGATATGA
1 TATGATGTCAAAGTGAT-TGA
4447957 T-TGATGTCA
1 TATGATGTCA
4447966 CTCATCACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (20 bp):
TATGATGTCAAAGTGATTGA
Found at i:4449522 original size:19 final size:19
Alignment explanation
Indices: 4449498--4449537 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4449488 GAATAAAGTG
4449498 ACAATAAGAATAAGTATTC
1 ACAATAAGAATAAGTATTC
4449517 ACAATAAGAATAAGTATTC
1 ACAATAAGAATAAGTATTC
4449536 AC
1 AC
4449538 TTTTGAGGAT
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:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (19 bp):
ACAATAAGAATAAGTATTC
Found at i:4460221 original size:2 final size:2
Alignment explanation
Indices: 4460214--4460259 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
4460204 AGTATGTTAA
4460214 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
4460256 AT AT
1 AT AT
4460260 GAAAACACAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4462906 original size:37 final size:37
Alignment explanation
Indices: 4462853--4462957 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
4462843 CCTTTTCGTC
4462853 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
4462890 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
4462927 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
4462958 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:4463598 original size:25 final size:22
Alignment explanation
Indices: 4463570--4463616 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
4463560 TTATTGTACT
*
4463570 TATTTATATATATATGTATTTTTTA
1 TATTT-TAT-TATATAT-TTTTTTA
4463595 TATTTTATTATATATTTTTTTA
1 TATTTTATTATATATTTTTTTA
4463617 CTTTCTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 6 0.29
24 3 0.14
25 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TATTTTATTATATATTTTTTTA
Found at i:4463896 original size:20 final size:19
Alignment explanation
Indices: 4463873--4463925 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
4463863 TACATTTTAC
*
4463873 TATTATTTTATATATTATAT
1 TATTATATTATATA-TATAT
4463893 TATTATATTATATATATAT
1 TATTATATTATATATATAT
4463912 TA-TATA-TATATATA
1 TATTATATTATATATA
4463926 CACAAGTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 8 0.25
18 4 0.12
19 7 0.22
20 13 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTATATTATATATATAT
Found at i:4463901 original size:22 final size:22
Alignment explanation
Indices: 4463817--4463925 Score: 71
Period size: 24 Copynumber: 4.8 Consensus size: 22
4463807 TTATTATCAT
* *
4463817 TATATTATATTATTTTCTTTT-
1 TATATTATATTATTATATTTTA
* *
4463838 T-TATTGATATTATTGT-TGTTA
1 TATATT-ATATTATTATATTTTA
* * *
4463859 TATATACATTTTACTATTATTTTA
1 TATAT-TATATTATTA-TATTTTA
4463883 TATATTATATTATTATATTATATA
1 TATATTATATTATTATATT-T-TA
4463907 TATATTATATATATATATA
1 TATATTATAT-TAT-TATA
4463926 CACAAGTTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
20 7 0.10
21 11 0.16
22 13 0.19
23 9 0.13
24 21 0.31
25 3 0.04
26 4 0.06
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (22 bp):
TATATTATATTATTATATTTTA
Found at i:4463906 original size:2 final size:2
Alignment explanation
Indices: 4463881--4463925 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
4463871 ACTATTATTT
4463881 TA TA TA T- TA TA T- TA T- TA TA T- TA TA TA TA TA T- 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
4463918 TA TA TA TA
1 TA TA TA TA
4463926 CACAAGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
1 5 0.13
2 33 0.87
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:4463912 original size:11 final size:11
Alignment explanation
Indices: 4463856--4463922 Score: 68
Period size: 11 Copynumber: 6.1 Consensus size: 11
4463846 ATTATTGTTG
*
4463856 TTATATATACA
1 TTATATATATA
*
4463867 TTTTACTAT-TA
1 TTATA-TATATA
4463878 TT-T-TATATA
1 TTATATATATA
4463887 TTATATTATTATA
1 TTATA-TA-TATA
4463900 TTATATATATA
1 TTATATATATA
4463911 TTATATATATA
1 TTATATATATA
4463922 T
1 T
4463923 ATACACAAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 23 0.48
12 7 0.15
13 9 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATATATATA
Found at i:4463917 original size:13 final size:13
Alignment explanation
Indices: 4463881--4463924 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
4463871 ACTATTATTT
4463881 TATATATTATAT-
1 TATATATTATATA
4463893 TAT-TA-TATTATA
1 TATATATTA-TATA
4463905 TATATATTATATA
1 TATATATTATATA
4463918 TATATAT
1 TATATAT
4463925 ACACAAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.07
11 5 0.18
12 6 0.21
13 13 0.46
14 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATATATTATATA
Found at i:4464177 original size:18 final size:18
Alignment explanation
Indices: 4464141--4464178 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4464131 TCGTCATTTA
4464141 ATTTATTAATTTATATAT
1 ATTTATTAATTTATATAT
*
4464159 ATTTACTTATTTTAT-TAT
1 ATTTA-TTAATTTATATAT
4464177 AT
1 AT
4464179 AATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTATTAATTTATATAT
Found at i:4467067 original size:17 final size:17
Alignment explanation
Indices: 4467045--4467085 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
4467035 ATGCCTCGAA
4467045 CATTTCATGCATTCTTG
1 CATTTCATGCATTCTTG
*
4467062 CATTTC--GCATTTTTG
1 CATTTCATGCATTCTTG
4467077 CATATTCAT
1 CAT-TTCAT
4467086 TTACATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 11 0.55
16 3 0.15
17 6 0.30
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.49
Consensus pattern (17 bp):
CATTTCATGCATTCTTG
Found at i:4468264 original size:25 final size:26
Alignment explanation
Indices: 4468236--4468284 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
4468226 GAACAAAAAG
*
4468236 AAAAAAAATAA-AAAAGAAAAGAAGC
1 AAAAAAAATAAGAAAACAAAAGAAGC
4468261 AAAAAAAATAAGAAAACAAAAGAA
1 AAAAAAAATAAGAAAACAAAAGAA
4468285 AAAAGAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.82, C:0.04, G:0.10, T:0.04
Consensus pattern (26 bp):
AAAAAAAATAAGAAAACAAAAGAAGC
Found at i:4468268 original size:13 final size:11
Alignment explanation
Indices: 4468230--4468301 Score: 58
Period size: 11 Copynumber: 6.2 Consensus size: 11
4468220 CAATCAGAAC
4468230 AAAAAGAAAAA
1 AAAAAGAAAAA
4468241 AAATAA-AAAAGA
1 AAA-AAGAAAA-A
4468253 AAAGAAGCAAAAA
1 AAA-AAG-AAAAA
4468266 AAATAAG-AAAA
1 AAA-AAGAAAAA
*
4468277 CAAAAGAAAAA
1 AAAAAGAAAAA
*
4468288 AGAAAGAACAAA
1 AAAAAGAA-AAA
4468300 AA
1 AA
4468302 TCAAAAAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
10 3 0.06
11 23 0.47
12 12 0.24
13 7 0.14
14 4 0.08
ACGTcount: A:0.82, C:0.04, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:4468274 original size:37 final size:35
Alignment explanation
Indices: 4468227--4468314 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 35
4468217 ATTCAATCAG
*
4468227 AACAAAAAGAAAAAAAATAAAAAAGAAAAGAAGCAAA
1 AACAAAAAGAAAAAAAAGAAAAAAG-AAAGAA-CAAA
4468264 AA-AAATAAGAAAACAAAAGAAAAAAGAAAGAACAAA
1 AACAAA-AAGAAAA-AAAAGAAAAAAGAAAGAACAAA
4468300 AATCAAAAAGAAAAA
1 AA-CAAAAAGAAAAA
4468315 GGGACAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
36 10 0.22
37 22 0.48
38 14 0.30
ACGTcount: A:0.81, C:0.06, G:0.10, T:0.03
Consensus pattern (35 bp):
AACAAAAAGAAAAAAAAGAAAAAAGAAAGAACAAA
Found at i:4468301 original size:33 final size:33
Alignment explanation
Indices: 4468225--4468308 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 33
4468215 AGATTCAATC
*
4468225 AGAACAAAAAGAAAAAAAATAAAAAAGAAAAGA
1 AGAACAAAAATAAAAAAAATAAAAAAGAAAAGA
* * *
4468258 AGCAAAAAAAATAAGAAAACA-AAAGAA-AAAAGAA
1 AG-AACAAAAATAA-AAAAAATAAAAAAGAAAAG-A
*
4468292 AGAACAAAAATCAAAAA
1 AGAACAAAAATAAAAAA
4468309 GAAAAAGGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
32 4 0.10
33 16 0.38
34 17 0.40
35 5 0.12
ACGTcount: A:0.80, C:0.06, G:0.11, T:0.04
Consensus pattern (33 bp):
AGAACAAAAATAAAAAAAATAAAAAAGAAAAGA
Found at i:4468307 original size:21 final size:19
Alignment explanation
Indices: 4468232--4468312 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 19
4468222 ATCAGAACAA
*
4468232 AAAGAAAAAAAATAAAAAAG
1 AAAGAACAAAAA-AAAAAAG
*
4468252 AAAAGAAGCAAAAAAAATAAG
1 -AAAGAA-CAAAAAAAAAAAG
*
4468273 -AA-AACAAAAGAAAAAAG
1 AAAGAACAAAAAAAAAAAG
*
4468290 AAAGAACAAAAATCAAAAAG
1 AAAGAACAAAAA-AAAAAAG
4468310 AAA
1 AAA
4468313 AAGGGACAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 11 0.22
18 4 0.08
19 9 0.18
20 9 0.18
21 12 0.24
22 5 0.10
ACGTcount: A:0.80, C:0.05, G:0.11, T:0.04
Consensus pattern (19 bp):
AAAGAACAAAAAAAAAAAG
Found at i:4468931 original size:22 final size:22
Alignment explanation
Indices: 4468903--4468979 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
4468893 GCTACCCCAT
4468903 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
4468925 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
4468947 CAAATCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
4468969 CAAACCTTTGA
1 CAAACCTTTGA
4468980 CCAAACACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:4469841 original size:106 final size:106
Alignment explanation
Indices: 4469656--4471484 Score: 2710
Period size: 106 Copynumber: 17.3 Consensus size: 106
4469646 TCGAGAGTGG
* *
4469656 ATTTCAACTTCACATCGAATGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
4469721 ACCACTGGTTGTCAATAAACAATTTCCCAATTGCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* *
4469762 ATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGTAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
4469827 ACCGCTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* * *
4469868 ATTTCAACTTCACAGGGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
4469933 ACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
** * *
4469974 ATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGAG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
4470039 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTTAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* * *
4470080 ATTTTAACTTCACAACGTAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
4470145 ACCGCTGGTTGTCAATAAA-ATATTTCCCAATTTTAGAGCCA
66 ACCGCTGGTTGTCAATAAACA-ATTTCCCAATTTCAGAGCCA
* ** *
4470186 ATTTCAACTTCACAGCAAAATATATTGAACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
4470251 ACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* *
4470292 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
4470357 ACCGCTAGTTGTCAATAAACAACTTT-CCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAA-TTTCCCAATTTCAGAGCCA
* * * * *
4470398 ATTTCAACTTCATAGCGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTAATGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
4470463 ACCGCTGGTTTTCAATAAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* *
4470504 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
4470569 ACCGCTGGTTGTCAATAAACAATTTCCCAATTGT-AGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATT-TCAGAGCCA
* *
4470610 ATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGGCGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
4470675 ACCGCTGGTTGTCAATAAACAATTTCCCAATTACAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
*
4470716 ATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
4470781 ACCGCTGGTTGTCAATAAACAATTTCCCAATTGCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* *
4470822 ATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
4470887 ACCGTTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* *
4470928 ATTTCAACTTCACAGCGAAGGATATTGGACTCTAGATAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
4470993 ACCGCTGGTTTTCAACAAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* * ** *
4471034 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGTGAAGAG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
4471099 ACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCAA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
*
4471140 ATTTCAACTTCACAGC-ATAGGATATTGGACTCAAGACAACGAAAGTTCAACTTCACGACGAAGG
1 ATTTCAACTTCACAGCGA-AGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
4471204 GACCGCTGGTTTTCAATAAACAACTTCCCAATTTCAGAGCCA
65 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* * * * ** *
4471246 ATTTCAACTTCTCAGCGAAGGATCTTGGACCCAAGACAACACAAGCGCAACTTCACGACAAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAA-GG
* * * * *
4471311 GA-AGTTGATTGTCAA-CAA-AATTT--C-A-TTCAGAGTCA
65 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* * * *
4471346 ATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * ** *
4471411 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
*
4471452 ATTTCAACTTCAC-GACGGAGGATATTGGACTCA
1 ATTTCAACTTCACAG-CGAAGGATATTGGACTCA
4471485 GAACAATGCT
Statistics
Matches: 1569, Mismatches: 137, Indels: 34
0.90 0.08 0.02
Matches are distributed among these distances:
99 4 0.00
100 72 0.05
101 3 0.00
102 6 0.00
104 5 0.00
105 7 0.00
106 1463 0.93
107 9 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
Found at i:4472262 original size:37 final size:37
Alignment explanation
Indices: 4472209--4472313 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
4472199 CCTTTTCATC
4472209 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
4472246 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
4472283 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
4472314 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:4472933 original size:23 final size:23
Alignment explanation
Indices: 4472881--4472925 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4472871 TTCTTTGCAT
4472881 TTTTATTATTACTATTATATTTA
1 TTTTATTATTACTATTATATTTA
4472904 TTATTATT-TTACTATTATATTT
1 TT-TTATTATTACTATTATATTT
4472926 TCCTTTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTATTATTACTATTATATTTA
Found at i:4472979 original size:59 final size:58
Alignment explanation
Indices: 4472880--4473007 Score: 136
Period size: 59 Copynumber: 2.2 Consensus size: 58
4472870 TTTCTTTGCA
*
4472880 TTTTTATTATTACTATTATATTTATTATTATTTTACTATTATATTTTCCTTTATC-TAC
1 TTTTTATTA-TACTATTATATTTATTATTATTTTACTATTATATTTTACTTTATCTTAC
* * * * *
4472938 TTATTTATTATA-TATGTATATTTTTTA-TATTTATTATTATTATTTTTTACTTTCTCTTTC
1 TT-TTTATTATACTAT-TATATTTATTATTA-TT-TTACTATTATATTTTACTTTATCTTAC
4472998 TTTTTATTAT
1 TTTTTATTAT
4473008 TCTTGTATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
57 5 0.08
58 16 0.27
59 34 0.58
60 4 0.07
ACGTcount: A:0.24, C:0.08, G:0.01, T:0.67
Consensus pattern (58 bp):
TTTTTATTATACTATTATATTTATTATTATTTTACTATTATATTTTACTTTATCTTAC
Found at i:4473024 original size:12 final size:11
Alignment explanation
Indices: 4473002--4473031 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
4472992 TCTTTCTTTT
4473002 TATTATTCTTG
1 TATTATTCTTG
4473013 TATTATTACTTG
1 TATTATT-CTTG
4473025 TATTATT
1 TATTATT
4473032 TATTTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:4473245 original size:2 final size:2
Alignment explanation
Indices: 4473240--4473274 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4473230 ATTTTACTAT
4473240 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4473275 TCTACACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4490542 original size:20 final size:21
Alignment explanation
Indices: 4490519--4490565 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4490509 TCATAATTTG
4490519 ATATCGATA-TCA-AGATATTA
1 ATATCGATACTCATAGA-ATTA
*
4490539 ATATCGATACTCATTGAATTA
1 ATATCGATACTCATAGAATTA
4490560 ATATCG
1 ATATCG
4490566 GTACCCTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 13 0.54
22 2 0.08
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCGATACTCATAGAATTA
Found at i:4491332 original size:15 final size:16
Alignment explanation
Indices: 4491312--4491344 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4491302 GCAAACAAAA
*
4491312 ATAAA-TATTTTTTTT
1 ATAAATTATTTTATTT
4491327 ATAAATTATTTTATTT
1 ATAAATTATTTTATTT
4491343 AT
1 AT
4491345 TAAGTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAAATTATTTTATTT
Found at i:4501432 original size:24 final size:22
Alignment explanation
Indices: 4501405--4501448 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
4501395 GTAAGAATAT
4501405 GAAGGAATGATAGTGTGTTTGAGG
1 GAAGGAATGA-AGTGT-TTTGAGG
4501429 GAAGGAATGAAGTGTTTTGA
1 GAAGGAATGAAGTGTTTTGA
4501449 AGAAGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 5 0.25
24 10 0.50
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.30
Consensus pattern (22 bp):
GAAGGAATGAAGTGTTTTGAGG
Found at i:4501453 original size:21 final size:24
Alignment explanation
Indices: 4501405--4501453 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4501395 GTAAGAATAT
*
4501405 GAAGGAATGATAGTGTGTTTGAGG
1 GAAGGAATGATAGTGTGTTTGAGA
4501429 GAAGGAATGA-AGTGT-TTTGA-A
1 GAAGGAATGATAGTGTGTTTGAGA
4501450 GAAG
1 GAAG
4501454 ATTAAGAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 5 0.21
23 5 0.21
24 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.27
Consensus pattern (24 bp):
GAAGGAATGATAGTGTGTTTGAGA
Found at i:4507858 original size:24 final size:24
Alignment explanation
Indices: 4507831--4507879 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
4507821 TTCTCTTCTT
*
4507831 CTTTCCCGTGATAGTGCTCTCCTC
1 CTTTCCCGTGACAGTGCTCTCCTC
4507855 CTTTCCCGTGACAGTGCTCTCCTC
1 CTTTCCCGTGACAGTGCTCTCCTC
4507879 C
1 C
4507880 ATAGCCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.41, G:0.16, T:0.35
Consensus pattern (24 bp):
CTTTCCCGTGACAGTGCTCTCCTC
Found at i:4509012 original size:48 final size:45
Alignment explanation
Indices: 4508959--4509140 Score: 142
Period size: 48 Copynumber: 4.0 Consensus size: 45
4508949 AAAATGAATG
* * *
4508959 AATAAATGAAAATACATAACGGTGCATTATTGACTGAAAGGTGCCATA
1 AATAAAT-AAAATACATAACAGTGCATT-TTGGCAGAAAGGTGCCA-A
* * * *
4509007 AAT-AA-AAAATTCATAACAATGCATTATTGGTAGAAAAGTGCC--
1 AATAAATAAAATACATAACAGTGCATT-TTGGCAGAAAGGTGCCAA
*
4509049 -ATAAATGAAAATCCATAA-AGGTGCATTTTGGCAGAAAGGTGCCACA
1 AATAAAT-AAAATACATAACA-GTGCATTTTGGCAGAAAGGTGCCA-A
* * *
4509095 AATGAAACTTAAATGCATAACAGTGTATTTTGGCAGAAAGGTGCCA
1 AAT-AAA-TAAAATACATAACAGTGCATTTTGGCAGAAAGGTGCCA
4509141 CTCCTGGTTT
Statistics
Matches: 109, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 15 0.14
44 16 0.15
45 30 0.28
47 4 0.04
48 38 0.35
49 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (45 bp):
AATAAATAAAATACATAACAGTGCATTTTGGCAGAAAGGTGCCAA
Found at i:4509075 original size:44 final size:44
Alignment explanation
Indices: 4508960--4509101 Score: 155
Period size: 45 Copynumber: 3.2 Consensus size: 44
4508950 AAATGAATGA
* *
4508960 ATAAATGAAAATACATAACGGTGCATTATTGACT-GAAAGGTGCC
1 ATAAATGAAAATACATAAAGGTGCATTATTG-GTAGAAAGGTGCC
* * * *
4509004 ATAAATAAAAAATTCATAACA-ATGCATTATTGGTAGAAAAGTGCC
1 ATAAAT-GAAAATACATAA-AGGTGCATTATTGGTAGAAAGGTGCC
* *
4509049 ATAAATGAAAATCCATAAAGGTGCATT-TTGGCAGAAAGGTGCC
1 ATAAATGAAAATACATAAAGGTGCATTATTGGTAGAAAGGTGCC
*
4509092 ACAAATGAAA
1 ATAAATGAAA
4509102 CTTAAATGCA
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
43 24 0.29
44 23 0.28
45 35 0.43
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (44 bp):
ATAAATGAAAATACATAAAGGTGCATTATTGGTAGAAAGGTGCC
Found at i:4515337 original size:20 final size:22
Alignment explanation
Indices: 4515285--4515339 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
4515275 ATACTGAAAG
*
4515285 GGAGTACCGGTACCATAGTATA
1 GGAGTACCGATACCATAGTATA
* * *
4515307 GAAGTATCGATACCAT-G-GTA
1 GGAGTACCGATACCATAGTATA
4515327 GGAGTACCGATAC
1 GGAGTACCGATAC
4515340 TATTGAGTCT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 13 0.48
21 1 0.04
22 13 0.48
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (22 bp):
GGAGTACCGATACCATAGTATA
Found at i:4515795 original size:44 final size:44
Alignment explanation
Indices: 4515745--4515837 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
4515735 AAATGAAAGA
*
4515745 ATAAATGAAAATAAATAATGGTGCATTATTGACAGAAAGGTGTC
1 ATAAATGAAAATAAATAATGGTGCATTATTGACAGAAAGGTGCC
** ** *
4515789 ATAAATGAAAATTCATAATGGTGCATTATTGGTAGAAATGTGCC
1 ATAAATGAAAATAAATAATGGTGCATTATTGACAGAAAGGTGCC
4515833 ATAAA
1 ATAAA
4515838 ATGCACCATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (44 bp):
ATAAATGAAAATAAATAATGGTGCATTATTGACAGAAAGGTGCC
Found at i:4515852 original size:56 final size:56
Alignment explanation
Indices: 4515788--4515893 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 56
4515778 AGAAAGGTGT
* * *
4515788 CATAAATGAAAATTCATAATGGTGCATTATTGGTAGAAATGTGCCATAAAATGCAC
1 CATAAATGAAAATACATAATGGTGAATTATTGGCAGAAATGTGCCATAAAATGCAC
* * * *
4515844 CATAAATGAAACTACATAGTGGTGAATTATTGGCATAAATGTTCCATAAA
1 CATAAATGAAAATACATAATGGTGAATTATTGGCAGAAATGTGCCATAAA
4515894 TGAAAATGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (56 bp):
CATAAATGAAAATACATAATGGTGAATTATTGGCAGAAATGTGCCATAAAATGCAC
Done.