Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 214 of 332
Found at i:71125702 original size:94 final size:91
Alignment explanation
Indices: 71125560--71125729 Score: 232
Period size: 94 Copynumber: 1.8 Consensus size: 91
71125550 ACATCTCGTA
* * **
71125560 GCCGATGCATGTCCCAGATTGTCTTACACTGGCTTACATCTTGAGGCCGATGCATGTCCCAGACA
1 GCCGATGCATGTCCCAGATGGTCTTACACTAGCTTACATAATGAGGCCGATGCATGTCCCAGACA
*
71125625 TGTGTTACACTAGCTTTCGTCTCAAT
66 TGTCTTACACTAGCTTTCGTCTCAAT
* * * *
71125651 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAATGTGGCCGATGCTTGTCCCAG
1 GCCGATG-CATGTCCCAG--ATGGTCTTACACTAGCTTACATAATGAGGCCGATGCATGTCCCAG
71125716 ACATGTCTTACACT
63 ACATGTCTTACACT
71125730 GGCACACAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
91 7 0.10
92 9 0.13
94 51 0.76
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGATGGTCTTACACTAGCTTACATAATGAGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCTTTCGTCTCAAT
Found at i:71125703 original size:48 final size:46
Alignment explanation
Indices: 71125560--71125729 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
71125550 ACATCTCGTA
* * * ** *
71125560 GCCGATGCATGTCCCAGA-TTGTCTTACACTGGCTTACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATAATGTG
* *
71125605 GCCGATGCATGTCCCAGACATGTGTTACACTAGCTTTCGTCTCAA--T-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTC--AT-AATGTG
*
71125651 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTTCATAATGTG
*
71125699 GCCGATGCTTGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
71125730 GGCACACAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
45 20 0.19
46 33 0.32
47 26 0.25
48 24 0.23
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATAATGTG
Found at i:71128310 original size:24 final size:24
Alignment explanation
Indices: 71128283--71128331 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
71128273 TCAATCCGGC
71128283 AAGTTAGTCATAAATTTTTTAAAT
1 AAGTTAGTCATAAATTTTTTAAAT
*
71128307 AAGTTATTCATAAATTTTTTAAAT
1 AAGTTAGTCATAAATTTTTTAAAT
71128331 A
1 A
71128332 CTTTTCCAAT
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:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
AAGTTAGTCATAAATTTTTTAAAT
Found at i:71131872 original size:45 final size:45
Alignment explanation
Indices: 71131819--71131982 Score: 224
Period size: 45 Copynumber: 3.6 Consensus size: 45
71131809 CATGTAAGCT
*
71131819 AGTGTAAGACCATGTTGGACATGGCATCGGCGTGGATTGTGAGTC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCGTAGATTGTGAGTC
* * *
71131864 AATGTAAGACCATGTTGGACATGGCATTGGCATAGATTGTGA-TCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCGTAGATTGTGAGT-C
* *
71131909 AGTGTAAGACCATGTTGGACATGGCATCGGCGTTGATTGTAAG-C
1 AGTGTAAGACCATGTTGGACATGGCATCGGCGTAGATTGTGAGTC
71131953 TAGTGTAAGACCATGTCTGGGACATGGCAT
1 -AGTGTAAGACCATGT-T-GGACATGGCAT
71131983 TGACCTCGGC
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
44 2 0.02
45 91 0.87
46 1 0.01
47 11 0.10
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (45 bp):
AGTGTAAGACCATGTTGGACATGGCATCGGCGTAGATTGTGAGTC
Found at i:71133717 original size:22 final size:23
Alignment explanation
Indices: 71133689--71133733 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
71133679 CGGCCTGAGG
*
71133689 ACACGGGC-GTGTCCTTGTGTCC
1 ACACGGGCAGTGACCTTGTGTCC
71133711 ACACGGGCATGTGACCTTGTGTC
1 ACACGGGCA-GTGACCTTGTGTC
71133734 ATGGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.27
Consensus pattern (23 bp):
ACACGGGCAGTGACCTTGTGTCC
Found at i:71141097 original size:42 final size:41
Alignment explanation
Indices: 71141038--71141155 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 41
71141028 TAGGGTTATT
71141038 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
71141080 TGAGACTTCGTGTAAGACCAAAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * * *
71141123 TGAGATCCCATATAAGACCATATCTAGGATATG
1 TGAGAT-TCGTGTAAGACCATATCTGGGATATG
71141156 ACATTGGTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:71147926 original size:43 final size:43
Alignment explanation
Indices: 71147788--71147929 Score: 137
Period size: 42 Copynumber: 3.3 Consensus size: 43
71147778 CATAGGATTT
* * * * * *
71147788 TCGATATGTGATTTCGTGTAAGATCACGTCTAGGA-TGTTTGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACAG-TAGCA
* * *
71147831 TCGAT-TTGAGATTTACGTGTAAGACCATGTTTGGGACATTAGCA
1 TCGATATT-TGATTT-CGTGTAAGACCATGTCTGGGACAGTAGCA
* *
71147875 TCG-TATTTGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTAGCA
71147917 TCGATATTTGATT
1 TCGATATTTGATT
71147930 ACATTTAAGA
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
42 29 0.36
43 25 0.31
44 26 0.32
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.37
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTAGCA
Found at i:71147939 original size:43 final size:42
Alignment explanation
Indices: 71147843--71147951 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 42
71147833 GATTTGAGAT
* * *
71147843 TTACGTGTAAGACCATGTTTGGGACATTAGCATCGTATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTAGCATCGTATTTGA
* * * *
71147885 TTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTAGCATCG-TATTTGA
* * *
71147928 TTACATTTAAGAACACGTCTGGGA
1 TTACATGTAAGACCATGTCTGGGA
71147952 TGTTGGCATT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 30 0.55
43 25 0.45
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAGTAGCATCGTATTTGA
Found at i:71154947 original size:29 final size:29
Alignment explanation
Indices: 71154905--71154962 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
71154895 CTAGCATGTG
71154905 TAAATTTATTTTATGAAATTATTCAAAGA
1 TAAATTTATTTTATGAAATTATTCAAAGA
71154934 TAAATTTATTTTATGAAATTATTCAAAGA
1 TAAATTTATTTTATGAAATTATTCAAAGA
71154963 AGACTCAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (29 bp):
TAAATTTATTTTATGAAATTATTCAAAGA
Found at i:71155144 original size:55 final size:53
Alignment explanation
Indices: 71155056--71155301 Score: 218
Period size: 55 Copynumber: 4.6 Consensus size: 53
71155046 CATTAGGGTT
* * * **
71155056 CAAGGAGACCATGTAAGACCATG-CTAAGGCATGGTAATTGGCAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGTC-AAGACATGG-CATTGATAA-GTTTCTAAGG
* * *
71155111 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT--TCTAAGG
* * * * *
71155166 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGTTGAG-TTCATAAGG
1 C-AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTC-TAAGG
* *
71155219 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA--
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTAAGG
* * *
71155269 -AAGGATACCACGTAAGACCATGACAAGTCATGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGG
71155302 AAATGGTAAG
Statistics
Matches: 160, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
49 30 0.19
52 7 0.04
53 41 0.26
54 10 0.06
55 67 0.42
56 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTAAGG
Found at i:71155263 original size:108 final size:110
Alignment explanation
Indices: 71155064--71155264 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
71155054 TTCAAGGAGA
* *
71155064 CCATGTAAGACCATGCTAAGGCATGGTAATTGGCAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGTAATTGGCAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
71155129 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *** *
71155174 CCATGTAAGACCATGCCAAGGCATGG-CATTGTTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGTAATTGGCAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
71155236 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
71155265 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 5 0.06
110 25 0.31
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGTAATTGGCAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:71157193 original size:28 final size:28
Alignment explanation
Indices: 71157161--71157214 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
71157151 GTAACAGCAC
* *
71157161 AGTGTGGGCCTTAGCCCAATATAGTAAT
1 AGTGTGGGCCTAAGCCCAATACAGTAAT
71157189 AGTGTGGGCCTAAGCCCAATACAGTA
1 AGTGTGGGCCTAAGCCCAATACAGTA
71157215 TCAAAATCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTAAGCCCAATACAGTAAT
Found at i:71157492 original size:32 final size:32
Alignment explanation
Indices: 71157449--71157518 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
71157439 CATGGATTAT
* *
71157449 AGCCATCAGTAGCGGTAGTTTGATCGGCACAA
1 AGCCATCAGTAGCGGTAATATGATCGGCACAA
* * * *
71157481 AGCCATTAGTAGCTGTAATATGATCGGCATAC
1 AGCCATCAGTAGCGGTAATATGATCGGCACAA
71157513 AGCCAT
1 AGCCAT
71157519 GGGTAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (32 bp):
AGCCATCAGTAGCGGTAATATGATCGGCACAA
Found at i:71158080 original size:54 final size:54
Alignment explanation
Indices: 71158016--71158202 Score: 200
Period size: 54 Copynumber: 3.4 Consensus size: 54
71158006 TTTCACCCTA
* * * *
71158016 CAGGGTTATTTCGATAATTTTACACTACAAGGGTATTTTGGTAATTTTACAAA-T
1 CAGGG-TATTTTGGTAATTTTACAATACAAGGGTATTTCGGTAATTTTACAAACT
***
71158070 CGAGGGTATTTTGGTAATTTTACAATTTGAGGGTATTTCGGTAATTTTACAAACT
1 C-AGGGTATTTTGGTAATTTTACAATACAAGGGTATTTCGGTAATTTTACAAACT
** * *
71158125 CAGGGTATTTTGGTAATTTTACAA-ACTGGGGGTATTTCGATTATTTTACAAAC-
1 CAGGGTATTTTGGTAATTTTACAATAC-AAGGGTATTTCGGTAATTTTACAAACT
* *
71158178 CAGGGGCATTTCGGTAATTTTACAA
1 CA-GGGTATTTTGGTAATTTTACAA
71158203 ACTATGGTCT
Statistics
Matches: 115, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
53 2 0.02
54 107 0.93
55 6 0.05
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
CAGGGTATTTTGGTAATTTTACAATACAAGGGTATTTCGGTAATTTTACAAACT
Found at i:71158158 original size:81 final size:82
Alignment explanation
Indices: 71158016--71158206 Score: 230
Period size: 81 Copynumber: 2.3 Consensus size: 82
71158006 TTTCACCCTA
*
71158016 CAGGGTTATTTCGATAATTTTAC--ACTACAAGGGTATTTTGGTAATTTTACAAATCGAGGGTAT
1 CAGGG-TATTTCGGTAATTTTACAAACTACAAGGGTATTTTGGTAATTTTACAAATCGAGGGTAT
* * **
71158079 TTTGGTAATTTTACAATTT
65 TTCGATAATTTTACAA-AC
* *
71158098 GAGGGTATTTCGGTAATTTTACAAACT-C-AGGGTATTTTGGTAATTTTACAAA-CTGGGGGTAT
1 CAGGGTATTTCGGTAATTTTACAAACTACAAGGGTATTTTGGTAATTTTACAAATC-GAGGGTAT
*
71158160 TTCGATTATTTTACAAAC
65 TTCGATAATTTTACAAAC
*
71158178 CAGGGGCATTTCGGTAATTTTACAAACTA
1 CA-GGGTATTTCGGTAATTTTACAAACTA
71158207 TGGTCTGAAC
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
80 2 0.02
81 84 0.89
82 5 0.05
83 3 0.03
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (82 bp):
CAGGGTATTTCGGTAATTTTACAAACTACAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATT
TCGATAATTTTACAAAC
Found at i:71158202 original size:27 final size:27
Alignment explanation
Indices: 71158016--71158204 Score: 170
Period size: 27 Copynumber: 7.0 Consensus size: 27
71158006 TTTCACCCTA
* * *
71158016 CAGGGTTATTTCGATAATTTTACACTA-
1 CAGGGGTATTTCGGTAATTTTACA-AAC
* * *
71158043 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAC
* *
71158070 C-GAGGGTATTTTGGTAATTTTAC-AAT
1 CAG-GGGTATTTCGGTAATTTTACAAAC
**
71158096 TTGAGGGTATTTCGGTAATTTTACAAAC
1 CAG-GGGTATTTCGGTAATTTTACAAAC
*
71158124 TCA-GGGTATTTTGGTAATTTTACAAAC
1 -CAGGGGTATTTCGGTAATTTTACAAAC
** * *
71158151 TGGGGGTATTTCGATTATTTTACAAAC
1 CAGGGGTATTTCGGTAATTTTACAAAC
*
71158178 CAGGGGCATTTCGGTAATTTTACAAAC
1 CAGGGGTATTTCGGTAATTTTACAAAC
71158205 TATGGTCTGA
Statistics
Matches: 134, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.03
27 128 0.96
28 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAC
Found at i:71164020 original size:41 final size:42
Alignment explanation
Indices: 71163963--71164069 Score: 112
Period size: 41 Copynumber: 2.5 Consensus size: 42
71163953 TTTTGATATG
* * *
71163963 TGATTTCGTGTAAGACCACGTCTAAGA-TGTTTGCATC-CATT
1 TGATTTCATGTAAGACCACGTCTAAGACAG-TGGCATCACATT
* *
71164004 TGATTTCATGTAAGACC-CTGTCTGAGACAGTGGCATCAATATT
1 TGATTTCATGTAAGACCAC-GTCTAAGACAGTGGCATC-ACATT
*
71164047 TGATTACATGTAAGACCACGTCT
1 TGATTTCATGTAAGACCACGTCT
71164070 GGGACATTGG
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
40 1 0.02
41 29 0.53
42 1 0.02
43 23 0.42
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (42 bp):
TGATTTCATGTAAGACCACGTCTAAGACAGTGGCATCACATT
Found at i:71164058 original size:43 final size:43
Alignment explanation
Indices: 71164001--71164082 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
71163991 GTTTGCATCC
*
71164001 ATTTGATTTCATGTAAGACC-CTGTCTGAGACAGTGGCATCAAT
1 ATTTGATTACATGTAAGACCAC-GTCTGAGACAGTGGCATCAAT
* *
71164044 ATTTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 ATTTGATTACATGTAAGACCACGTCTGAGACAGTGGCAT
71164083 TGTACGAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (43 bp):
ATTTGATTACATGTAAGACCACGTCTGAGACAGTGGCATCAAT
Found at i:71164367 original size:19 final size:22
Alignment explanation
Indices: 71164327--71164368 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
71164317 CCTAAATTTA
71164327 AAACCCAAGATATTACAAACCC
1 AAACCCAAGATATTACAAACCC
71164349 AAACCCAA-AT-TTA-AAACCC
1 AAACCCAAGATATTACAAACCC
71164368 A
1 A
71164369 TTACAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 2 0.10
22 8 0.40
ACGTcount: A:0.52, C:0.31, G:0.02, T:0.14
Consensus pattern (22 bp):
AAACCCAAGATATTACAAACCC
Found at i:71172187 original size:25 final size:22
Alignment explanation
Indices: 71172143--71172194 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 22
71172133 TTACTTTTCC
*
71172143 ATATTATTCCAATTTAATTTTA
1 ATATTATTACAATTTAATTTTA
71172165 ATATTATTTACAATGTTATATTTTA
1 ATATTA-TTACAAT-TTA-ATTTTA
*
71172190 TTATT
1 ATATT
71172195 GTTGTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.24
23 6 0.24
24 3 0.12
25 10 0.40
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATTATTACAATTTAATTTTA
Found at i:71172283 original size:15 final size:15
Alignment explanation
Indices: 71172263--71172297 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
71172253 TGTTATAAAA
71172263 TATTATTAATAGTT-T
1 TATTATTAATA-TTCT
71172278 TATTATTAATATTCT
1 TATTATTAATATTCT
71172293 TATTA
1 TATTA
71172298 ATACACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTATTAATATTCT
Found at i:71177161 original size:40 final size:40
Alignment explanation
Indices: 71177112--71177296 Score: 259
Period size: 40 Copynumber: 4.6 Consensus size: 40
71177102 GCTACTCGTT
*
71177112 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
71177152 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
*
71177192 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * *
71177232 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
71177273 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGA
71177297 CATCATTCAA
Statistics
Matches: 132, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:71182272 original size:79 final size:82
Alignment explanation
Indices: 71182161--71182345 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
71182151 GCTACTCGTT
* * *
71182161 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
71182224 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
71182241 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
71182304 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
71182321 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71182346 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:71182345 original size:40 final size:40
Alignment explanation
Indices: 71182142--71182345 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
71182132 CGGAATTTAA
** *
71182142 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
71182182 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71182222 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71182261 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
71182301 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
71182341 CCGGA
1 CCGGA
71182346 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:71186391 original size:40 final size:39
Alignment explanation
Indices: 71186201--71186384 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 39
71186191 CGAATGATGT
* * * *
71186201 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
71186241 CCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
71186281 CCGGGCTAAG-CCCGAAGGTATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
71186319 TCTGGGTTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71186360 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
71186385 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
39 32 0.27
40 78 0.66
41 9 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71186407 original size:79 final size:79
Alignment explanation
Indices: 71186253--71186417 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
71186243 GGACTAAGAT
* * * * **
71186253 CCGAAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAGCCCGAAGGTATTGGTGCGAGTTACTAA
1 CCGAAGGAATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
71186318 ATCTGGGTTAAGTC
66 ATCTGAGTTAAATC
* *
71186332 CCGAAGGAATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGAATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
71186395 TATATCT-AGTTAAATT
63 TAAATCTGAGTTAAATC
71186411 CCGAAGG
1 CCGAAGG
71186418 TACGTGATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (79 bp):
CCGAAGGAATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTGAGTTAAATC
Found at i:71198216 original size:44 final size:43
Alignment explanation
Indices: 71198160--71198368 Score: 163
Period size: 44 Copynumber: 4.7 Consensus size: 43
71198150 CCACCAAGCT
*
71198160 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATA
1 TTAA-CCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATC
* * * *** * *
71198204 TTATCGCCCTAAGCAGTAGGGAAAC-AGATCGAAGGCGA-CGAGC
1 TTAAC-CCCTAAGCAGTAGGGTAACAAGCT-GAAGTTTATAGATC
* *
71198247 TTTAACTCCCTAAGCAGTAGGGTAACAAGCTGACGTTCATAAGATC
1 -TTAAC-CCCTAAGCAGTAGGGTAACAAGCTGAAGTTTAT-AGATC
* * * * *
71198293 TTATCACCCTAAGCAGTAGGGTAGCAAGCCGAA-TTTACAGACC
1 TTAAC-CCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATC
* *
71198336 TTGAACCCCTAAGCAGTAGGGTAATAGGCTGAA
1 TT-AACCCCTAAGCAGTAGGGTAACAAGCTGAA
71198369 AATCAGATGC
Statistics
Matches: 126, Mismatches: 32, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
43 35 0.28
44 57 0.45
45 31 0.25
46 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (43 bp):
TTAACCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATC
Found at i:71198346 original size:88 final size:87
Alignment explanation
Indices: 71198165--71198368 Score: 232
Period size: 88 Copynumber: 2.3 Consensus size: 87
71198155 AAGCTTTAAC
* *
71198165 CCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATATTATCGCCCTAAGCAGTAGGGAAACA
1 CCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGATATTATCACCCTAAGCAGTAGGGAAACA
* * *
71198230 GATCGAAGGCGACGAGCTTTAA
66 GACCGAAGGCGACGACCTTGAA
* * * *
71198252 CTCCCTAAGCAGTAGGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGCAGTAGGGTAG
1 C-CCCTAAGCAGTAGGGTAACAAGCTGAAGTTCAT-AGATATTATCACCCTAAGCAGTAGGGAAA
***
71198317 CA-AGCCGAA-TTTACAGACCTTGAA
64 CAGA-CCGAAGGCGAC-GACCTTGAA
* *
71198341 CCCCTAAGCAGTAGGGTAATAGGCTGAA
1 CCCCTAAGCAGTAGGGTAACAAGCTGAA
71198369 AATCAGATGC
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
87 1 0.01
88 58 0.59
89 39 0.40
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (87 bp):
CCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGATATTATCACCCTAAGCAGTAGGGAAACA
GACCGAAGGCGACGACCTTGAA
Found at i:71198525 original size:44 final size:44
Alignment explanation
Indices: 71198468--71198611 Score: 161
Period size: 44 Copynumber: 3.3 Consensus size: 44
71198458 CATGTCTTAT
* *
71198468 CCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAA
1 CCCCTAAGCAGTAGTGGAGCAGATCGAAGAAGAAGGGTCTTAAA
* * * * *
71198512 CCCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTGCA-GATCTTAAA
1 CCCCTAAGCAGTAGTGG-AGCAGATCGAAGA-AGAAGGGTCTTAAA
* *
71198554 CCCCTAAGTAGTAGTGGAGCAAATCGAAGAAGAAGGGTCTTAAA
1 CCCCTAAGCAGTAGTGGAGCAGATCGAAGAAGAAGGGTCTTAAA
71198598 CCCCTAAGCAGTAG
1 CCCCTAAGCAGTAG
71198612 GGTAACAAAC
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
42 26 0.32
43 14 0.17
44 40 0.50
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (44 bp):
CCCCTAAGCAGTAGTGGAGCAGATCGAAGAAGAAGGGTCTTAAA
Found at i:71198559 original size:42 final size:42
Alignment explanation
Indices: 71198505--71198637 Score: 144
Period size: 42 Copynumber: 3.1 Consensus size: 42
71198495 AGACGAAGGG
* *
71198505 TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAAACCAAATTGAAGA
* * * * *
71198547 TCTTAAACCCCTAAGTAGTAGTGG-AGCAAATCGAAGA-AGAAGGG
1 TCTTAAACCCCTAAGCAGTAG-GGTAACAAA-CCAA-ATTGAA-GA
*
71198591 TCTTAAACCCCTAAGCAGTAGGGTAACAAACCAAATTGTAGA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAAACCAAATTGAAGA
71198633 TCTTA
1 TCTTA
71198638 TTTCCCTAAG
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
42 31 0.43
43 14 0.19
44 27 0.38
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (42 bp):
TCTTAAACCCCTAAGCAGTAGGGTAACAAACCAAATTGAAGA
Found at i:71198564 original size:86 final size:86
Alignment explanation
Indices: 71198468--71198669 Score: 314
Period size: 86 Copynumber: 2.3 Consensus size: 86
71198458 CATGTCTTAT
* *
71198468 CCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAGTAGTAGTGGAGCAAATCGAAGAAGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
*
71198533 GACCAAATTGCAGATCTTAAA
66 AACCAAATTGCAGATCTTAAA
71198554 CCCCTAAGTAGTAGTGGAGCAAATCGAAGAAGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAGTAGTAGTGGAGCAAATCGAAGAAGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
* **
71198619 AACCAAATTGTAGATCTTATT
66 AACCAAATTGCAGATCTTAAA
* ** *
71198640 TCCCTAAGCCGTAGTGGAGCACATCGAAGA
1 CCCCTAAGTAGTAGTGGAGCAAATCGAAGA
71198670 TTGACAAACC
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 106 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (86 bp):
CCCCTAAGTAGTAGTGGAGCAAATCGAAGAAGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
AACCAAATTGCAGATCTTAAA
Found at i:71198686 original size:86 final size:86
Alignment explanation
Indices: 71198468--71198704 Score: 260
Period size: 86 Copynumber: 2.7 Consensus size: 86
71198458 CATGTCTTAT
* * * ***
71198468 CCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAGCAGTAGTGGAGCAAATCGAAGAAGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACA
*
71198533 GACCAAATTGCAGATCTTAAA
66 AACCAAATTGCAGATCTTAAA
* ***
71198554 CCCCTAAGTAGTAGTGGAGCAAATCGAAGAAGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAGCAGTAGTGGAGCAAATCGAAGAAGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACA
* **
71198619 AACCAAATTGTAGATCTTATT
66 AACCAAATTGCAGATCTTAAA
* * * * * * *
71198640 TCCCTAAGCCGTAGTGGAGCACATCGAAGATTGACA-AACCTTAACCCCCTAAACAATAGGGTAA
1 CCCCTAAGCAGTAGTGGAGCAAATCGAAGA-AGA-AGAACCTTAAACCCCTAAGCAGTAGGGTAA
71198704 C
64 C
71198705 TGGTTGAATT
Statistics
Matches: 132, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
86 106 0.80
87 25 0.19
88 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (86 bp):
CCCCTAAGCAGTAGTGGAGCAAATCGAAGAAGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACA
AACCAAATTGCAGATCTTAAA
Found at i:71200147 original size:25 final size:22
Alignment explanation
Indices: 71200103--71200154 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 22
71200093 TTACTTTTCC
*
71200103 ATATTATTCCAATTTAATTTTA
1 ATATTATTACAATTTAATTTTA
71200125 ATATTATTTACAATATTATATTTTA
1 ATATTA-TTACAAT-TTA-ATTTTA
*
71200150 TTATT
1 ATATT
71200155 GTTGTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.24
23 6 0.24
24 3 0.12
25 10 0.40
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTATTACAATTTAATTTTA
Found at i:71200243 original size:15 final size:15
Alignment explanation
Indices: 71200223--71200257 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
71200213 TGTTATAAAA
71200223 TATTATTAATAGTT-T
1 TATTATTAATA-TTCT
71200238 TATTATTAATATTCT
1 TATTATTAATATTCT
71200253 TATTA
1 TATTA
71200258 ATACACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTATTAATATTCT
Found at i:71204119 original size:46 final size:46
Alignment explanation
Indices: 71204066--71204238 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
71204056 TGGTTGAGCA
71204066 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
71204112 TCTGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71204157 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71204205 CCCGAGCTAGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71204239 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71204222 original size:93 final size:93
Alignment explanation
Indices: 71204063--71204233 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
71204053 GGATGGTTGA
* * * *
71204063 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTAGTTGAGT
*
71204128 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
71204156 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTAGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTAGTTGAGT
71204221 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71204234 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTAGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:71211660 original size:16 final size:16
Alignment explanation
Indices: 71211636--71211678 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
71211626 CTTTTAAAAG
71211636 TTTTAAAATAACATAA
1 TTTTAAAATAACATAA
* **
71211652 TTTTTAAATTTCATAA
1 TTTTAAAATAACATAA
71211668 -TTTAAAATAAC
1 TTTTAAAATAAC
71211679 TGTTAAAAGT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTTAAAATAACATAA
Found at i:71211976 original size:24 final size:25
Alignment explanation
Indices: 71211941--71211987 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
71211931 CCACAAGTAA
71211941 AAAAAACTAATATA-TATGATGTGT
1 AAAAAACTAATATAGTATGATGTGT
*
71211965 AAAAAA-TAAATATAGTTTGATGT
1 AAAAAACT-AATATAGTATGATGT
71211988 TCGTAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 12 0.60
25 7 0.35
ACGTcount: A:0.51, C:0.02, G:0.13, T:0.34
Consensus pattern (25 bp):
AAAAAACTAATATAGTATGATGTGT
Found at i:71213849 original size:24 final size:24
Alignment explanation
Indices: 71213802--71213849 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
71213792 TTGGTTTCAA
*
71213802 TTATTATTTTAATATGTTTAATTT
1 TTATTATTTTAATATGTTAAATTT
*
71213826 TTATTATTTTATTAT-TTAATATTT
1 TTATTATTTTAATATGTTAA-ATTT
71213850 GATATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTATTATTTTAATATGTTAAATTT
Found at i:71215870 original size:13 final size:12
Alignment explanation
Indices: 71215849--71215883 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
71215839 TTGGCTAGTG
71215849 AGAAAAAAAAATA
1 AGAAAAAAAAA-A
71215862 AGAACAAAAAAAA
1 AGAA-AAAAAAAA
71215875 AGAAAAAAA
1 AGAAAAAAA
71215884 TAGGAGAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 9 0.43
14 7 0.33
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (12 bp):
AGAAAAAAAAAA
Found at i:71223345 original size:29 final size:27
Alignment explanation
Indices: 71223309--71223376 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 27
71223299 TTGAATACAT
71223309 AAATTATTTATTTTAGAAA-AATTTTAA
1 AAATTATTTATTTTA-AAATAATTTTAA
71223336 GAAATCTA-TTATTTTAAAACTTAATTTTAA
1 -AAAT-TATTTATTTTAAAA--TAATTTTAA
71223366 AAATATATTTA
1 AAAT-TATTTA
71223377 CCAACAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 3 0.09
28 12 0.35
29 8 0.24
30 11 0.32
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (27 bp):
AAATTATTTATTTTAAAATAATTTTAA
Found at i:71226062 original size:12 final size:12
Alignment explanation
Indices: 71226045--71226126 Score: 52
Period size: 12 Copynumber: 7.3 Consensus size: 12
71226035 CTTGTAACAT
71226045 TATTTATTATTA
1 TATTTATTATTA
*
71226057 TATTTACTA-T-
1 TATTTATTATTA
71226067 TA-TTATTA--A
1 TATTTATTATTA
*
71226076 TA-TTACTATTA
1 TATTTATTATTA
**
71226087 TATTTATTAACA
1 TATTTATTATTA
*
71226099 TA-TTATCATTA
1 TATTTATTATTA
*
71226110 TTTTTATTATTCA
1 TATTTATTATT-A
71226123 TATT
1 TATT
71226127 AATATATATA
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
9 12 0.23
10 2 0.04
11 11 0.21
12 23 0.44
13 4 0.08
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTATTATTA
Found at i:71238905 original size:45 final size:47
Alignment explanation
Indices: 71238841--71239068 Score: 362
Period size: 45 Copynumber: 4.9 Consensus size: 47
71238831 ACTCGCCCCG
71238841 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
71238888 TCACA-ATATACAC-TTCACATTCATCACATCGGCCATTA-GCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
71238932 -CTACATATATACAC-TTCACATTCATCACATCGGCCATTAGG-CTTA
1 TC-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
71238977 TCACATATATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ATATATA-CACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
71239027 TCACATATATACACTTTAACATTCATCACATCGGCC-TTAGGC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71239069 TACTATCATT
Statistics
Matches: 171, Mismatches: 1, Indels: 19
0.90 0.01 0.10
Matches are distributed among these distances:
43 1 0.01
44 9 0.05
45 64 0.37
46 16 0.09
47 36 0.21
48 10 0.06
49 27 0.16
50 8 0.05
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:71243022 original size:37 final size:37
Alignment explanation
Indices: 71242972--71243050 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
71242962 TTATTACGAA
* *
71242972 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
71243009 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
71243046 GTCTT
1 GTCTT
71243051 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:71243247 original size:47 final size:47
Alignment explanation
Indices: 71243169--71243454 Score: 439
Period size: 47 Copynumber: 6.1 Consensus size: 47
71243159 CCCTTCGGGA
* * * * * *
71243169 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
***
71243216 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71243263 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGTC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71243310 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71243357 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71243404 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71243451 CTTA
1 CTTA
71243455 CTATCATTTC
Statistics
Matches: 218, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 2 0.01
47 216 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71247185 original size:40 final size:40
Alignment explanation
Indices: 71247128--71247310 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
71247118 CCAGCATGAT
* *
71247128 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
71247168 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
71247208 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
71247249 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
71247289 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
71247311 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:71247655 original size:29 final size:29
Alignment explanation
Indices: 71247616--71247694 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
71247606 CTTAATAATC
*
71247616 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
71247646 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
71247675 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
71247695 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:71247737 original size:43 final size:43
Alignment explanation
Indices: 71247676--71247778 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
71247666 TGCATTTCAA
71247676 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
71247719 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
71247762 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
71247779 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:71249905 original size:47 final size:47
Alignment explanation
Indices: 71249788--71250118 Score: 567
Period size: 47 Copynumber: 7.1 Consensus size: 47
71249778 CCCTTCGGGA
* * * * * * *
71249788 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
71249835 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71249881 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71249928 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71249974 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71250021 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71250068 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71250115 CTTA
1 CTTA
71250119 CTATCATTTC
Statistics
Matches: 271, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 83 0.31
47 188 0.69
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71249947 original size:93 final size:93
Alignment explanation
Indices: 71249788--71250118 Score: 556
Period size: 93 Copynumber: 3.5 Consensus size: 93
71249778 CCCTTCGGGA
* * * * * * * * *
71249788 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCGT-CACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTTATACATATATACAC
71249852 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
71249881 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATACATATATACACT
71249946 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
71249974 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACATATATACAC
71250039 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
71250068 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
71250119 CTATCATTTC
Statistics
Matches: 227, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
92 3 0.01
93 132 0.58
94 92 0.41
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (93 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATACATATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:71250040 original size:140 final size:141
Alignment explanation
Indices: 71249788--71250118 Score: 567
Period size: 140 Copynumber: 2.4 Consensus size: 141
71249778 CCCTTCGGGA
* * * * * * * **
71249788 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC-CGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
71249852 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
71249917 GGCCATTAGGC
131 GGCCATTAGGC
71249928 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
71249992 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
71250057 GGCCATTAGGC
131 GGCCATTAGGC
71250068 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
71250119 CTATCATTTC
Statistics
Matches: 180, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
139 35 0.19
140 100 0.56
141 45 0.25
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:71254303 original size:44 final size:45
Alignment explanation
Indices: 71254247--71254365 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 45
71254237 AGGCAACGAA
* * *
71254247 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCT-GAAGTTCAT-AG
1 CTTTAACACCCTAAGCAGTAGGGTAACAAGCTCGAAGATAATGAG
* * * * *
71254290 ATCTTATCACCCTAAGCAGTAGGGAAAC-GGATCGAAGATAATGAG
1 CT-TTAACACCCTAAGCAGTAGGGTAACAAGCTCGAAGATAATGAG
*
71254335 CTTTAACCCCCTAAGCAGTAGGGTAACAAGC
1 CTTTAACACCCTAAGCAGTAGGGTAACAAGC
71254366 CAAATTTACA
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
43 3 0.05
44 51 0.88
45 4 0.07
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (45 bp):
CTTTAACACCCTAAGCAGTAGGGTAACAAGCTCGAAGATAATGAG
Found at i:71254525 original size:43 final size:42
Alignment explanation
Indices: 71254465--71254589 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 42
71254455 GAATCCAGCG
*
71254465 AATTT-CAGATCTTAAACCCCTAAGCAGTAGGGTAACGGACTA
1 AATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGA-TA
* *
71254507 AATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATC
1 AATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGATA
* * *
71254549 AATGATGACA-AGCCTTAACCCCCTAAGCAGTAGGGTAACAG
1 AAT--TTACAGA-TCTTAAACCCCTAAGCAGTAGGGTAACAG
71254590 GTTGAAAATC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
42 9 0.12
43 33 0.46
44 30 0.42
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (42 bp):
AATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGATA
Found at i:71254687 original size:41 final size:42
Alignment explanation
Indices: 71254637--71254716 Score: 135
Period size: 41 Copynumber: 1.9 Consensus size: 42
71254627 GAGCAGCTAA
71254637 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG-ATTAAGCG
1 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTAAGCG
* *
71254678 AAGCTACAGCAGGTCTCCTTGAAGTTTCAGTGGAATTAA
1 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTAA
71254717 TGGAAGTCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 31 0.86
42 5 0.14
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (42 bp):
AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTAAGCG
Found at i:71255389 original size:15 final size:13
Alignment explanation
Indices: 71255351--71255392 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 13
71255341 TTCGAATCGG
71255351 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
71255364 TTTTC--TTTTTC
1 TTTTCTTTTTTTC
71255375 TTTACTCTTTTTTTC
1 TTT--TCTTTTTTTC
71255390 TTT
1 TTT
71255393 GTTTACATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.36
13 7 0.28
15 9 0.36
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:71256050 original size:12 final size:12
Alignment explanation
Indices: 71256033--71256114 Score: 52
Period size: 12 Copynumber: 7.3 Consensus size: 12
71256023 CTTGTAACAT
71256033 TATTTATTATTA
1 TATTTATTATTA
*
71256045 TATTTACTA-T-
1 TATTTATTATTA
71256055 TA-TTATTA--A
1 TATTTATTATTA
*
71256064 TA-TTACTATTA
1 TATTTATTATTA
**
71256075 TATTTATTAACA
1 TATTTATTATTA
*
71256087 TA-TTATCATTA
1 TATTTATTATTA
*
71256098 TTTTTATTATTCA
1 TATTTATTATT-A
71256111 TATT
1 TATT
71256115 AATATATATT
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
9 12 0.23
10 2 0.04
11 11 0.21
12 23 0.44
13 4 0.08
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTATTATTA
Found at i:71256089 original size:23 final size:23
Alignment explanation
Indices: 71256040--71256124 Score: 70
Period size: 23 Copynumber: 3.6 Consensus size: 23
71256030 CATTATTTAT
71256040 TATTATATT-TACTATTATTATTA-A
1 TATTATATTATA-T-TTATTA-TACA
71256064 TATTACTATTATATTTATTA-ACA
1 TATTA-TATTATATTTATTATACA
* *
71256087 TATTATCATTATTTTTATTATTCA
1 TATTAT-ATTATATTTATTATACA
71256111 TATTA-ATATATATT
1 TATTATAT-TATATT
71256125 AATGTATGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
22 4 0.08
23 23 0.44
24 18 0.35
25 5 0.10
26 2 0.04
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTATATTATATTTATTATACA
Found at i:71258711 original size:25 final size:26
Alignment explanation
Indices: 71258663--71258716 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
71258653 TATTATTTAA
*
71258663 TATTTGATATTTAATAATACTTTTCT
1 TATTTGATATTTAAAAATACTTTTCT
*
71258689 TATTTGATA-TTAAAAATATTTTTCT
1 TATTTGATATTTAAAAATACTTTTCT
71258714 TAT
1 TAT
71258717 CAAGGATCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (26 bp):
TATTTGATATTTAAAAATACTTTTCT
Found at i:71263131 original size:16 final size:17
Alignment explanation
Indices: 71263092--71263133 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
71263082 AGAAAGAAAG
*
71263092 AAGAAAAAAAAATAAGA
1 AAGAAAAGAAAATAAGA
*
71263109 AAGGAAAAGAAAA-AGGA
1 AA-GAAAAGAAAATAAGA
71263126 AAGAAAAG
1 AAGAAAAG
71263134 GAGGGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (17 bp):
AAGAAAAGAAAATAAGA
Found at i:71264020 original size:18 final size:18
Alignment explanation
Indices: 71263999--71264033 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71263989 TTTATAATTA
71263999 TTAAGAATTTTAAGTTAT
1 TTAAGAATTTTAAGTTAT
* *
71264017 TTAAGAGTTTTATGTTA
1 TTAAGAATTTTAAGTTA
71264034 ACAAAAATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (18 bp):
TTAAGAATTTTAAGTTAT
Found at i:71267203 original size:29 final size:28
Alignment explanation
Indices: 71267140--71267212 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
71267130 GTATAATAAG
*
71267140 CCCGCACATTTAGTGCTTAATAGTCGAA
1 CCCGCACACTTAGTGCTTAATAGTCGAA
* * *
71267168 CTCGCACACTTAGTGC-TATATAATTTGAA
1 CCCGCACACTTAGTGCTTA-AT-AGTCGAA
71267197 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
71267213 CAATCTCATG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 2 0.05
28 16 0.42
29 20 0.53
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (28 bp):
CCCGCACACTTAGTGCTTAATAGTCGAA
Found at i:71269155 original size:19 final size:20
Alignment explanation
Indices: 71269118--71269155 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
71269108 AAGGCCTCTC
*
71269118 GGGATTTTATTTTTATTTTG
1 GGGATTTTATATTTATTTTG
*
71269138 GGGA-TTTATATTTGTTTT
1 GGGATTTTATATTTATTTT
71269156 ACTTAAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.16, C:0.00, G:0.21, T:0.63
Consensus pattern (20 bp):
GGGATTTTATATTTATTTTG
Found at i:71269726 original size:40 final size:40
Alignment explanation
Indices: 71269672--71269808 Score: 157
Period size: 40 Copynumber: 3.4 Consensus size: 40
71269662 GGGCGTTACA
*
71269672 CATACCTAATGAATCTACCAAAAAGTATGCACTTTCGAGC
1 CATACCTACTGAATCTACCAAAAAGTATGCACTTTCGAGC
* * * * **
71269712 CATAACTACTGAATCTATCGAAAAGTATGCATTTTTTAGC
1 CATACCTACTGAATCTACCAAAAAGTATGCACTTTCGAGC
* * * * *
71269752 CATAGCTACTGAATCTACTAAAATGTATGCGCTTTCGAAC
1 CATACCTACTGAATCTACCAAAAAGTATGCACTTTCGAGC
*
71269792 CATACCTACTGATTCTA
1 CATACCTACTGAATCTA
71269809 TTGAAAGTAT
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (40 bp):
CATACCTACTGAATCTACCAAAAAGTATGCACTTTCGAGC
Found at i:71269855 original size:39 final size:39
Alignment explanation
Indices: 71269672--71269855 Score: 120
Period size: 40 Copynumber: 4.6 Consensus size: 39
71269662 GGGCGTTACA
* * * * * *
71269672 CATACCTAATGAATCTACCAAAAAGTATGCACTTTCGAGC
1 CATACCTACTGATTCTA-CTAAAAGTATGCGCTTACGAAC
* * * ** *** *
71269712 CATAACTACTGAATCTATCGAAAAGTATGCATTTTTTAGC
1 CATACCTACTGATTCTA-CTAAAAGTATGCGCTTACGAAC
* * *
71269752 CATAGCTACTGAATCTACTAAAATGTATGCGCTTTCGAAC
1 CATACCTACTGATTCTACTAAAA-GTATGCGCTTACGAAC
* *
71269792 CATACCTACTGATTCTATTGAAAGTATGC-CTTAAC-AAGC
1 CATACCTACTGATTCTACTAAAAGTATGCGCTT-ACGAA-C
*
71269831 GATACCTACTGATTCTACTAAAAGT
1 CATACCTACTGATTCTACTAAAAGT
71269856 TGCTCAAACG
Statistics
Matches: 119, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
38 5 0.04
39 35 0.29
40 79 0.66
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (39 bp):
CATACCTACTGATTCTACTAAAAGTATGCGCTTACGAAC
Found at i:71290843 original size:15 final size:15
Alignment explanation
Indices: 71290823--71290853 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
71290813 AAATATGAAA
71290823 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
71290838 GATATGTTTTGTATT
1 GATATGTTTTGGATT
71290853 G
1 G
71290854 GAATTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:71298250 original size:39 final size:40
Alignment explanation
Indices: 71298173--71298319 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
71298163 TAGCTCCTCG
* * *
71298173 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
71298213 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
71298252 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
71298292 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
71298320 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:71298330 original size:80 final size:80
Alignment explanation
Indices: 71298219--71298399 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
71298209 CTCATTCAAT
* * *
71298219 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
71298282 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
71298298 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
71298362 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
71298379 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
71298400 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:71298359 original size:40 final size:40
Alignment explanation
Indices: 71298216--71298399 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
71298206 TAACTCATTC
* *
71298216 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
71298256 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
71298296 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
71298336 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
71298377 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71298400 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:71306233 original size:79 final size:80
Alignment explanation
Indices: 71306134--71306301 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
71306124 CTCGTTCAAG
* * ** * *
71306134 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATTC-AATGCCTTCAGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCAGGACTTAACCCGGA-A
*
71306197 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * * *
71306213 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCAGGACTTAACCCGGAATT
71306278 AATAACTCGCACAAA
66 AATAACTCGCACAAA
*
71306293 TACCTTCGG
1 TGCCTTCGG
71306302 ATCTTAGTCC
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
79 32 0.43
80 42 0.57
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCAGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:71306285 original size:80 final size:80
Alignment explanation
Indices: 71306174--71306354 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
71306164 CTCATTCAAT
* * * *
71306174 GCCTTCAGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
71306237 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
71306253 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
71306317 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
71306334 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
71306355 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 7 0.08
80 70 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:71306314 original size:40 final size:40
Alignment explanation
Indices: 71306171--71306354 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
71306161 TAACTCATTC
* * *
71306171 AATGCCTTCAGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
71306211 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
71306251 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
71306291 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
71306332 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71306355 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 102 0.84
41 11 0.09
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:71309492 original size:48 final size:48
Alignment explanation
Indices: 71309434--71309530 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
71309424 AAACTATGAT
* *
71309434 AGTGTGATGACTCTTGATGTTTTCAAATGTGTTTTTATATAGTAATGG
1 AGTGTGATGACTCATGATGTTTTCAAATATGTTTTTATATAGTAATGG
71309482 AGTGTGATGACTCATGATGTTTTCAAATATGTTTTTATATAGTAATGG
1 AGTGTGATGACTCATGATGTTTTCAAATATGTTTTTATATAGTAATGG
71309530 A
1 A
71309531 TCCCAAATGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (48 bp):
AGTGTGATGACTCATGATGTTTTCAAATATGTTTTTATATAGTAATGG
Found at i:71311242 original size:39 final size:39
Alignment explanation
Indices: 71311175--71311431 Score: 363
Period size: 39 Copynumber: 6.5 Consensus size: 39
71311165 ACAAAGCATG
* * * **
71311175 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCCA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
71311215 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
71311255 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
71311294 CGGGGCTTAGTCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
71311333 CGAGACTTAGCCCGAATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
71311372 CGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
71311411 CGAGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
71311432 TTCTCCATTA
Statistics
Matches: 202, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 183 0.91
40 19 0.09
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:71319951 original size:27 final size:28
Alignment explanation
Indices: 71319920--71319977 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
71319910 CGTCACATAG
71319920 GGGCAAAATAGTCATCTTACCATATA-A
1 GGGCAAAATAGTCATCTTACCATATATA
* *
71319947 GGGCAAAATAGTCATTTTATCATATATA
1 GGGCAAAATAGTCATCTTACCATATATA
71319975 GGG
1 GGG
71319978 GGTCTAGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (28 bp):
GGGCAAAATAGTCATCTTACCATATATA
Found at i:71322253 original size:22 final size:23
Alignment explanation
Indices: 71322228--71322283 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
71322218 AGCTCATAAT
71322228 AGCTTACTATT-CAACTC-ATCAG
1 AGCTTACTATTCCAACTCAAT-AG
* *
71322250 AGCTTACTGTTCCAGCTCAATAG
1 AGCTTACTATTCCAACTCAATAG
71322273 AGCTTACTATT
1 AGCTTACTATT
71322284 TATCAGCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.34
23 17 0.59
24 2 0.07
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (23 bp):
AGCTTACTATTCCAACTCAATAG
Found at i:71332113 original size:27 final size:27
Alignment explanation
Indices: 71332066--71332158 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 27
71332056 TAGCAAGCTA
* *
71332066 GGGTTCGCCAGT-TTTTCTGGTGAGATG
1 GGGTTCGCCAATCTGTT-TGGTGAGATG
* *
71332093 GGGTTTGCCAATCTGTTTGGTGA-ACTA
1 GGGTTCGCCAATCTGTTTGGTGAGA-TG
* * *
71332120 GGGTTCGCCAGTCTGTTGGGTGAGCTG
1 GGGTTCGCCAATCTGTTTGGTGAGATG
*
71332147 GGCTTCGCCAAT
1 GGGTTCGCCAAT
71332159 TGAGTTGCGA
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.02
27 48 0.92
28 3 0.06
ACGTcount: A:0.13, C:0.18, G:0.35, T:0.33
Consensus pattern (27 bp):
GGGTTCGCCAATCTGTTTGGTGAGATG
Found at i:71335084 original size:108 final size:108
Alignment explanation
Indices: 71334860--71335111 Score: 263
Period size: 108 Copynumber: 2.3 Consensus size: 108
71334850 TGTCCCTACA
* * ** * *
71334860 TATGTAACTCACTGAGTTGGGCCACACGGCCGTGTCGTAGGCTTTGTGCTAGACCGTGTAACTCT
1 TATGTAACTCACTGAGTTGGGCCACACGACCATGTCACAGGCTATGTGCCAGACCGTGTAACTCT
** * * * *
71334925 CTAACTTGTGACAGGTGACCATGTCTCAGCCCGTGTCTCAGCC
66 CTAACTTGTGACACATAACCATGTCGCAGCCCATGTCTAAGCC
* * *
71334968 TATATAACTCACTGAGTTGGGCCACATGACCATGTCACGGGCTATGTGCCAGACCGTGTAACTCT
1 TATGTAACTCACTGAGTTGGGCCACACGACCATGTCACAGGCTATGTGCCAGACCGTGTAACTCT
* * * * *
71335033 CTCATTTTTGACACATAACCATGTCGCAGGCTATGTGCTAAGCC
66 CTAACTTGTGACACATAACCATGTCGCAGCCCATGT-CTAAGCC
** * * *
71335077 -ATGTAACTCTTTGACTTGTGACACACGACCATGTC
1 TATGTAACTCACTGAGTTGGGCCACACGACCATGTC
71335112 GTAGGCCATG
Statistics
Matches: 116, Mismatches: 27, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
108 110 0.95
109 6 0.05
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (108 bp):
TATGTAACTCACTGAGTTGGGCCACACGACCATGTCACAGGCTATGTGCCAGACCGTGTAACTCT
CTAACTTGTGACACATAACCATGTCGCAGCCCATGTCTAAGCC
Found at i:71335112 original size:54 final size:55
Alignment explanation
Indices: 71334892--71335126 Score: 165
Period size: 54 Copynumber: 4.3 Consensus size: 55
71334882 CACACGGCCG
* * * * **
71334892 TGTCGTAGGCTTTGTGCT-AGACCGTGTAACTCTCTAACTTGTGACAGGTGACCA
1 TGTCGCAGGCTATGTGCTAAGACCATGTAACTCTCTCACTTGTGACACATGACCA
* * ** * * * * * * *
71334946 TGTCTCAGCCCGTGT-CTCAG-CCTATATAACTCACTGAGTTGGGCCACATGACCA
1 TGTCGCAGGCTATGTGCTAAGACC-ATGTAACTCTCTCACTTGTGACACATGACCA
* * * * * * *
71335000 TGTCACGGGCTATGTGC-CAGACCGTGTAACTCTCTCATTTTTGACACATAACCA
1 TGTCGCAGGCTATGTGCTAAGACCATGTAACTCTCTCACTTGTGACACATGACCA
* * *
71335054 TGTCGCAGGCTATGTGCTAAG-CCATGTAACTCTTTGACTTGTGACACACGACCA
1 TGTCGCAGGCTATGTGCTAAGACCATGTAACTCTCTCACTTGTGACACATGACCA
* *
71335108 TGTCGTAGGCCATGTGCTA
1 TGTCGCAGGCTATGTGCTA
71335127 GGCTGTGTAA
Statistics
Matches: 136, Mismatches: 40, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
53 4 0.03
54 127 0.93
55 5 0.04
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (55 bp):
TGTCGCAGGCTATGTGCTAAGACCATGTAACTCTCTCACTTGTGACACATGACCA
Found at i:71335146 original size:54 final size:54
Alignment explanation
Indices: 71335041--71335147 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 54
71335031 CTCTCATTTT
* * * **
71335041 TGACACATAACCATGTCGCAGGCTATGTGCTAAGCCATGTAACTCTTTGACTTG
1 TGACACACAACCATGTCGCAGGCCATGTGCTAAGCCATGTAACACACTGACTTG
* * * **
71335095 TGACACACGACCATGTCGTAGGCCATGTGCTAGGCTGTGTAACACACTGACTT
1 TGACACACAACCATGTCGCAGGCCATGTGCTAAGCCATGTAACACACTGACTT
71335148 AATACACCCA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (54 bp):
TGACACACAACCATGTCGCAGGCCATGTGCTAAGCCATGTAACACACTGACTTG
Found at i:71336081 original size:37 final size:37
Alignment explanation
Indices: 71336040--71336137 Score: 178
Period size: 37 Copynumber: 2.6 Consensus size: 37
71336030 CAATTGCTTG
*
71336040 TAAGAGCTAATCCACCTGATAACATGCCAAATGCTCA
1 TAAGAGCTAATCCACCCGATAACATGCCAAATGCTCA
71336077 TAAGAGCTAATCCACCCGATAACATGCCAAATGCTCA
1 TAAGAGCTAATCCACCCGATAACATGCCAAATGCTCA
*
71336114 TAAAAGCTAATCCACCCGATAACA
1 TAAGAGCTAATCCACCCGATAACA
71336138 CCCCAAATCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (37 bp):
TAAGAGCTAATCCACCCGATAACATGCCAAATGCTCA
Found at i:71337081 original size:11 final size:11
Alignment explanation
Indices: 71337067--71337096 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
71337057 AAATTAAGAA
71337067 TTAATTTTGTT
1 TTAATTTTGTT
71337078 TTAATTTTGTT
1 TTAATTTTGTT
71337089 TTAATTTT
1 TTAATTTT
71337097 TTAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (11 bp):
TTAATTTTGTT
Found at i:71342947 original size:48 final size:48
Alignment explanation
Indices: 71342810--71343229 Score: 180
Period size: 48 Copynumber: 8.6 Consensus size: 48
71342800 ATGTAAGTGT
* * *
71342810 CGATGCCATGTCACAGACATGGTCTTACACTAC-CA-CACATATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACAC--CGGATCACATATCAACGC
* ** * *
71342858 CGATGCCATGTCCCAGTCATCATCTTACACTGGTTCACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACCGGATCACATATCAACGC
* * * * * *
71342906 CGATGCCATGTGCGAGACATGGTCTTACGCCGGATCTCATATTTCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACCGGATCACATA--TCAACGC
* * ** * ** *
71342956 CAATGCCATGTCCCAGACATGGTATTACATGGGATCTCATTTATTGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACCGGATCACA--TATCAACGC
* * * * * ** * *
71343006 CAATGTCTTGTCCCAAATATGGTCTTACATGGGATCTCATAT-ATTGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACCGGATCACATATCA---ACGC
* * ** * ****
71343056 CGATGCCATGTCCCAAACATGGTTTTACATGGGATCTCATATCGGTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACCGGATCACATATCAACGC
* * * * * * * * *
71343104 CAATGCCATGTCCCAAACATGGTCTTATACAGGACCTCATCTCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACCGGATCACATATCAACGC
* * * * * * ** * * * *
71343152 TGATACCATATCTCAGATATGGTCTTATATGGGGTCTCATATCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACCGGATCACATATCAACGC
*
71343200 CGATACCATGTCCCAGACATGGTCTTACAC
1 CGATGCCATGTCCCAGACATGGTCTTACAC
71343230 GGGACCTTAT
Statistics
Matches: 294, Mismatches: 68, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
48 174 0.59
50 118 0.40
52 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACCGGATCACATATCAACGC
Found at i:71342974 original size:50 final size:50
Alignment explanation
Indices: 71342908--71343233 Score: 281
Period size: 50 Copynumber: 6.6 Consensus size: 50
71342898 ATCAACGCCG
* * ***
71342908 ATGCCATGTGCGAGACATGGTCTTACGCCGGATCTCATATTTCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATTTCGATGCCA
* *
71342958 ATGCCATGTCCCAGACATGGTATTACATGGGATCTCAT-TTATTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATT-TCGATGCCA
* * * * *
71343008 ATGTCTTGTCCCAAATATGGTCTTACATGGGATCTCATATATT-GATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATAT-TTCGATGCCA
* * * *
71343058 ATGCCATGTCCCAAACATGGTTTTACATGGGATCTCATA--TCGGTACCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATTTCGATGCCA
* * ** * * **
71343106 ATGCCATGTCCCAAACATGGTCTTATACAGGACCTC--ATCTCGATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATTTCGATGCCA
* * * * * * *
71343154 ATACCATATCTCAGATATGGTCTTATATGGGGTCTCATA--TCGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATTTCGATGCCA
* *
71343202 ATACCATGTCCCAGACATGGTCTTACACGGGA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGA
71343234 CCTTATCTCG
Statistics
Matches: 223, Mismatches: 45, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
46 1 0.00
47 1 0.00
48 101 0.45
49 2 0.01
50 115 0.52
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATTTCGATGCCA
Found at i:71343045 original size:100 final size:98
Alignment explanation
Indices: 71342908--71343233 Score: 280
Period size: 96 Copynumber: 3.3 Consensus size: 98
71342898 ATCAACGCCG
* * * *** *
71342908 ATGCCATGTGCGAGACATGGTCTTACGCCGGATCTCATAT-TTCGATGCCAATGCCATGTCCCAG
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCTCATATATT-GATGCCAATGCCATGTCCCAA
* *
71342972 ACATGGTATTACATGGGATCTCATTTATTGATGCCA
65 ACATGGTATTACATGGGATCTCA--TATCGATACCA
* * * *
71343008 ATGTCTTGTCCCAAATATGGTCTTACATGGGATCTCATATATTGATGCCGATGCCATGTCCCAAA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCTCATATATTGATGCCAATGCCATGTCCCAAA
* *
71343073 CATGGTTTTACATGGGATCTCATATCGGTACCA
66 CATGGTATTACATGGGATCTCATATCGATACCA
* ** * * * ** * * * *
71343106 ATGCCATGTCCCAAACATGGTCTTATACAGGACCTC--ATCTCGATGCTGATACCATATCTCAGA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCTCATATATTGATGCCAATGCCATGTCCCAAA
* * * * * *
71343169 TATGGTCTTATATGGGGTCTCATATCGATGCCG
66 CATGGTATTACATGGGATCTCATATCGATACCA
* * *
71343202 ATACCATGTCCCAGACATGGTCTTACACGGGA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGA
71343234 CCTTATCTCG
Statistics
Matches: 185, Mismatches: 40, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
96 74 0.40
98 37 0.20
100 72 0.39
101 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (98 bp):
ATGCCATGTCCCAAACATGGTCTTACATGGGATCTCATATATTGATGCCAATGCCATGTCCCAAA
CATGGTATTACATGGGATCTCATATCGATACCA
Found at i:71345566 original size:18 final size:18
Alignment explanation
Indices: 71345539--71345573 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
71345529 AGCCCATTGT
71345539 AGTAACAGTAAACAGTAC
1 AGTAACAGTAAACAGTAC
*
71345557 AGTAATAGTAAACAGTA
1 AGTAACAGTAAACAGTA
71345574 ACCAGTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.20
Consensus pattern (18 bp):
AGTAACAGTAAACAGTAC
Found at i:71345961 original size:27 final size:27
Alignment explanation
Indices: 71345929--71346021 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
71345919 TACATCACAT
*
71345929 AGGGCAAAACAGTCATCTTACCATATA
1 AGGGCAAAACAGTCATCTTACCAAATA
* * * *
71345956 ATGGCAAAATAGTCATCGTACCACATA
1 AGGGCAAAACAGTCATCTTACCAAATA
* * *
71345983 AGGGCAAAACAATTATTTTACCAAATA
1 AGGGCAAAACAGTCATCTTACCAAATA
71346010 AGGGCAAAACAG
1 AGGGCAAAACAG
71346022 ACATTTATAA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.20
Consensus pattern (27 bp):
AGGGCAAAACAGTCATCTTACCAAATA
Found at i:71347736 original size:93 final size:93
Alignment explanation
Indices: 71347624--71347794 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
71347614 GCCCCTAAGT
*
71347624 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
71347688 GCGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
71347717 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71347782 CGAGTTCGGATGC
66 CGAGTTCGGATGC
71347795 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:71347789 original size:46 final size:46
Alignment explanation
Indices: 71347619--71347791 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
71347609 AACCCGCCCC
* *
71347619 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* * *
71347665 TAAGTGAACTCGGACTCAACTCAGCGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
71347713 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
71347758 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71347792 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 58 0.55
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:71351360 original size:20 final size:20
Alignment explanation
Indices: 71351335--71351373 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
71351325 ATTTACCGTC
71351335 AAAACATGAACTATCGCTTA
1 AAAACATGAACTATCGCTTA
71351355 AAAACATGAACTATCGCTT
1 AAAACATGAACTATCGCTT
71351374 TACATTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (20 bp):
AAAACATGAACTATCGCTTA
Found at i:71358785 original size:50 final size:50
Alignment explanation
Indices: 71358714--71358896 Score: 296
Period size: 50 Copynumber: 3.7 Consensus size: 50
71358704 AACGTCTTTT
*
71358714 CCATGTCCAAGACATGGTCTTACAGGGGATCTCATATATTGATGCCAATG
1 CCATGTCCAAGACATGGTCTTACATGGGATCTCATATATTGATGCCAATG
* *
71358764 CCATGTTCCAAG-CATGGTCTTACATGGGATCTCATATATCGATGCCAATT
1 CCATG-TCCAAGACATGGTCTTACATGGGATCTCATATATTGATGCCAATG
* *
71358814 CCATGTCCCAGGCATGGTCTTACATGGGATCTCATATATTGATGCCAATG
1 CCATGTCCAAGACATGGTCTTACATGGGATCTCATATATTGATGCCAATG
*
71358864 CCATGTCCCAGACATGGTCTTACATGGGATCTC
1 CCATGTCCAAGACATGGTCTTACATGGGATCTC
71358897 GTATCGGTGT
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
49 5 0.04
50 113 0.91
51 6 0.05
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (50 bp):
CCATGTCCAAGACATGGTCTTACATGGGATCTCATATATTGATGCCAATG
Found at i:71358836 original size:100 final size:100
Alignment explanation
Indices: 71358663--71358896 Score: 323
Period size: 100 Copynumber: 2.4 Consensus size: 100
71358653 ATCAATGTCG
* * * * * **
71358663 ATGCCATGTCCCAGACATGGTCTTACACT-GG--CTCACATATCAACGTCTTTTCCATGTCCAAG
1 ATGCCATGTCCAAGACATGGTCTTACA-TGGGATCTCATATATCGATGCCAATTCCATGTCCAAG
71358725 ACATGGTCTTACAGGGGATCTCATATATTGATGCCA
65 ACATGGTCTTACAGGGGATCTCATATATTGATGCCA
*
71358761 ATGCCATGTTCCAAG-CATGGTCTTACATGGGATCTCATATATCGATGCCAATTCCATGTCCCAG
1 ATGCCATG-TCCAAGACATGGTCTTACATGGGATCTCATATATCGATGCCAATTCCATGTCCAAG
* *
71358825 GCATGGTCTTACATGGGATCTCATATATTGATGCCA
65 ACATGGTCTTACAGGGGATCTCATATATTGATGCCA
*
71358861 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTC
1 ATGCCATGTCCAAGACATGGTCTTACATGGGATCTC
71358897 GTATCGGTGT
Statistics
Matches: 120, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
97 1 0.01
98 22 0.18
99 10 0.08
100 87 0.73
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (100 bp):
ATGCCATGTCCAAGACATGGTCTTACATGGGATCTCATATATCGATGCCAATTCCATGTCCAAGA
CATGGTCTTACAGGGGATCTCATATATTGATGCCA
Found at i:71359035 original size:48 final size:48
Alignment explanation
Indices: 71358650--71359029 Score: 314
Period size: 48 Copynumber: 7.8 Consensus size: 48
71358640 CACTGGCTCA
* * * *
71358650 CATATCAATGTCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTCA
1 CATATCGATGCCGATGCCATGTCCCAGACATGGTCTTACA-TGGGATCT
* * * ** * * *
71358698 CATATCAACGTCTTTTCCATGTCCAAGACATGGTCTTACAGGGGATCT
1 CATATCGATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCT
* * *
71358746 CATATATTGATGCCAATGCCATGTTCCA-AGCATGGTCTTACATGGGATCT
1 C--ATATCGATGCCGATGCCATGTCCCAGA-CATGGTCTTACATGGGATCT
* * *
71358796 CATATATCGATGCCAATTCCATGTCCCAGGCATGGTCTTACATGGGATCT
1 C--ATATCGATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCT
* *
71358846 CATATATTGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCT
1 C--ATATCGATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCT
* * ** * * *
71358896 CGTATCGGTGTTGATGCCATGTCCCAGACATGGTCTTATATGAGACCT
1 CATATCGATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCT
* ** ** * * * * * *
71358944 CATCTTAATGTAGATTCCATATCCCAGATATGGTCTTATACGGGGTCT
1 CATATCGATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCT
* *
71358992 CATATCCATGCCGATGCCATGTCCCAAACATGGTCTTA
1 CATATCGATGCCGATGCCATGTCCCAGACATGGTCTTA
71359030 TACGGGACCT
Statistics
Matches: 271, Mismatches: 56, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
48 142 0.52
49 1 0.00
50 128 0.47
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (48 bp):
CATATCGATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCT
Found at i:71383033 original size:40 final size:40
Alignment explanation
Indices: 71382978--71383057 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
71382968 TCTTTGGAGA
*
71382978 GAAAACTGCTCTCCAAATTCCCCCTCCAAAATCCTTGTGT
1 GAAAACTGCTCTCCAAATTACCCCTCCAAAATCCTTGTGT
71383018 GAAAACTGCTCTCCAAATTACCCCTCCAAAATCCTTGTGT
1 GAAAACTGCTCTCCAAATTACCCCTCCAAAATCCTTGTGT
71383058 CCTTTTTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.28
Consensus pattern (40 bp):
GAAAACTGCTCTCCAAATTACCCCTCCAAAATCCTTGTGT
Found at i:71386055 original size:13 final size:13
Alignment explanation
Indices: 71386037--71386061 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71386027 CCTTTCCCTC
71386037 CACACGGTTGAGA
1 CACACGGTTGAGA
71386050 CACACGGTTGAG
1 CACACGGTTGAG
71386062 TATCTGACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.32, T:0.16
Consensus pattern (13 bp):
CACACGGTTGAGA
Found at i:71392649 original size:46 final size:46
Alignment explanation
Indices: 71392599--71392774 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
71392589 TGGTTGAGCA
*
71392599 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
71392645 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGTA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--TG
* **
71392692 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAATG
* * *
71392739 T-CGAGCTCGTTGAGTTGAGTACGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
71392775 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.55
47 31 0.29
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:71392757 original size:93 final size:93
Alignment explanation
Indices: 71392598--71392766 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
71392588 ATGGTTGAGC
* * *
71392598 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGTTG
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAAGGTCCGAACTCATTGAGTTG
*
71392663 AGTCCGAGTTCGTGAGATGTAACTAGGT
66 AGTACGAGTTCGTGAGATGTAACTAGGT
* * *
71392691 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGGT-CGAGCTCGTTGAGTT
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGC-AAAGGTCCGAACTCATTGAGTT
71392755 GAGTACGAGTTC
65 GAGTACGAGTTC
71392767 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
93 64 0.94
94 4 0.06
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAAGGTCCGAACTCATTGAGTTG
AGTACGAGTTCGTGAGATGTAACTAGGT
Found at i:71395792 original size:40 final size:40
Alignment explanation
Indices: 71395730--71395980 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
71395720 CAGCCAAGTA
* * * *
71395730 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
71395769 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71395809 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71395849 CCTTCGGGACTTAGCCCGGATATAGTAACTCG--C--A--
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71395883 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
71395922 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
71395962 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
71395981 TTATCATCCA
Statistics
Matches: 192, Mismatches: 10, Indels: 19
0.87 0.05 0.09
Matches are distributed among these distances:
33 14 0.07
34 17 0.09
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 30 0.16
40 127 0.66
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:71395960 original size:113 final size:114
Alignment explanation
Indices: 71395769--71395980 Score: 356
Period size: 113 Copynumber: 1.9 Consensus size: 114
71395759 CGCTCGAATG
*
71395769 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
71395834 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
66 TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
71395883 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
* *
71395946 GTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
65 GTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
71395981 TTATCATCCA
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
112 1 0.01
113 75 0.82
114 16 0.17
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (114 bp):
CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:71403842 original size:40 final size:40
Alignment explanation
Indices: 71403783--71404040 Score: 324
Period size: 40 Copynumber: 6.5 Consensus size: 40
71403773 CAGCCAAGTA
* * * *
71403783 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
71403822 CCTTCGAGACATAGCCCGGATATAGTAACTCACACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
71403862 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71403902 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** *
71403942 CCTTTGGGACTTAGCCCGGATATAGTAACAAGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
71403982 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
71404022 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
71404041 TTATCATCCA
Statistics
Matches: 192, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
39 12 0.06
40 180 0.94
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:71405319 original size:11 final size:10
Alignment explanation
Indices: 71405289--71405329 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
71405279 ACATGAGAGC
71405289 CTTTCTTTTT
1 CTTTCTTTTT
*
71405299 TTTTCTTTTT
1 CTTTCTTTTT
71405309 CTTTCTCTTTT
1 CTTTCT-TTTT
71405320 CTTT-TTTTT
1 CTTTCTTTTT
71405329 C
1 C
71405330 ATCATCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 5 0.18
10 15 0.54
11 8 0.29
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:71405893 original size:45 final size:44
Alignment explanation
Indices: 71405829--71405998 Score: 166
Period size: 45 Copynumber: 3.8 Consensus size: 44
71405819 TATCGTACGG
* * *
71405829 TACTATTCGAGCTTTTGAGCCTAGCAGGCTATGATGCCAGTGAGA
1 TACTATTCG-GCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGA
* * * * *
71405874 TACTATTCTGGCCTTTGAGCCTAGTAGGCTATAATTCCGGTGGGA
1 TACTATTC-GGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGA
* * *
71405919 TACTATTCGGGCCTTCGAGCCTAGAAGGCTATAATGTCAGTGAAA
1 TACTATTC-GGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGA
* *
71405964 TGA-TA-TCGGGCTTCGAGCCTAGCAGGCGA-AATGCC
1 T-ACTATTCGGCCTTCGAGCCTAGCAGGCTATAATGCC
71405999 GGTGGATGAA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
42 5 0.05
43 19 0.18
44 2 0.02
45 77 0.73
46 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (44 bp):
TACTATTCGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGA
Found at i:71413698 original size:45 final size:45
Alignment explanation
Indices: 71413573--71413743 Score: 197
Period size: 45 Copynumber: 3.9 Consensus size: 45
71413563 TATCGTATGG
* * * *
71413573 TACTATTCGGGCTTTTGAGCCTAGTAGGCTATGATACCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
71413618 TACTATTAGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * ** *
71413663 TACTACTCGGGCCTTTGAGCCTAGCAGGCTCTAATGCTAGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
71413708 TGA-TATT-GGG-CTTCGAGCCTAGCAGGCGA-AATGCCG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCG
71413744 ATAGATGAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 5 0.05
43 16 0.15
44 3 0.03
45 83 0.77
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:71428928 original size:50 final size:50
Alignment explanation
Indices: 71428869--71428973 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
71428859 TTACATGACT
71428869 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
71428919 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
71428969 -ATACT
1 AATACT
71428974 CACATTAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 5 0.09
50 50 0.91
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (50 bp):
AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
Found at i:71430784 original size:20 final size:18
Alignment explanation
Indices: 71430750--71430786 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
71430740 GCAACTCATA
71430750 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
71430768 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
71430787 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:71438081 original size:42 final size:42
Alignment explanation
Indices: 71438006--71438257 Score: 369
Period size: 42 Copynumber: 6.0 Consensus size: 42
71437996 GAGAACATTT
* *
71438006 ATTGCATTTAGAGGCCTAGGTGTGTAGGTCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * *
71438048 ATTGTATTTAGAGGCCCAGATGTGGAGGCCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* *
71438090 ATTGCTTTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* *
71438132 ATTGCATTTAGAGGCCCAGGTGTTGAGGCCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * *
71438174 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTGACTTTTT
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * *
71438216 ATTGCATTTAGAGACCTAAGTGTGGAGGTCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
71438258 TAGTTTACTT
Statistics
Matches: 187, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 187 1.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (42 bp):
ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
Found at i:71440608 original size:3 final size:3
Alignment explanation
Indices: 71440600--71440626 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
71440590 TTAAATCTTT
71440600 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
71440627 AAGATCGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:71446219 original size:56 final size:55
Alignment explanation
Indices: 71446160--71446356 Score: 234
Period size: 56 Copynumber: 3.7 Consensus size: 55
71446150 CAGATAGGGT
* * *
71446160 CTTACTCGTACACATATATCGGAGTCATATATCGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAA-GTGGA
71446216 CTTACTCGCACACATATATCGGAGTCACATATCGATG--AACG---T--A---GA
1 CTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAAGTGGA
* * *
71446261 CTTACTTGTACATATATATCGGAGTCACATATCGATGCCAACGTATTAAAGGTGGA
1 CTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAA-GTGGA
* *
71446317 CTTACTCGCACATATATACCGGAGTCACATATCGATGCCA
1 CTTACTCGCACACATATATCGGAGTCACATATCGATGCCA
71446357 CATATACTTC
Statistics
Matches: 121, Mismatches: 9, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
45 35 0.29
47 4 0.03
49 1 0.01
50 1 0.01
51 1 0.01
52 1 0.01
54 4 0.03
56 74 0.61
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (55 bp):
CTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAAGTGGA
Found at i:71446302 original size:101 final size:101
Alignment explanation
Indices: 71446160--71446353 Score: 325
Period size: 101 Copynumber: 1.9 Consensus size: 101
71446150 CAGATAGGGT
* *
71446160 CTTACTCGTACACATATATCGGAGTCATATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
1 CTTACTCGTACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGC
*
71446225 ACACATATATCGGAGTCACATATCGATGAACGTAGA
66 ACACATATACCGGAGTCACATATCGATGAACGTAGA
* * *
71446261 CTTACTTGTACATATATATCGGAGTCACATATCGATGCCAACGTATTAAAGGTGGACTTACTCGC
1 CTTACTCGTACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGC
*
71446326 ACATATATACCGGAGTCACATATCGATG
66 ACACATATACCGGAGTCACATATCGATG
71446354 CCACATATAC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 86 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (101 bp):
CTTACTCGTACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGC
ACACATATACCGGAGTCACATATCGATGAACGTAGA
Found at i:71448325 original size:23 final size:23
Alignment explanation
Indices: 71448295--71448341 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
71448285 AGTTTTCCAA
*
71448295 TTCATCACAGCAAAAACTTTACT
1 TTCATCACAACAAAAACTTTACT
*
71448318 TTCATCACAACAGAAACTTTACT
1 TTCATCACAACAAAAACTTTACT
71448341 T
1 T
71448342 GGAACAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (23 bp):
TTCATCACAACAAAAACTTTACT
Found at i:71449661 original size:28 final size:29
Alignment explanation
Indices: 71449582--71449731 Score: 118
Period size: 28 Copynumber: 5.3 Consensus size: 29
71449572 ACCCCTACAT
*
71449582 ACATGCATATGG-CC-TTCAGGCCCAA-TC
1 ACATTCATATGGCCCATT-AGGCCCAATTC
* ** *
71449609 TA-ATTTATATGGCCCATCCGACCCAATTC
1 -ACATTCATATGGCCCATTAGGCCCAATTC
* *
71449638 ACGTTCATATGGCCTATT-GGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
71449666 ACATTCATATGGCCCATTAGGCCCAA-TC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * * *
71449694 CCATTTATATGGCCCATCCA-GCCCAAATC
1 ACATTCATATGGCCCAT-TAGGCCCAATTC
71449723 ACATT-ATAT
1 ACATTCATAT
71449732 TCATGCTCAC
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
27 8 0.08
28 62 0.63
29 29 0.29
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:71453757 original size:27 final size:27
Alignment explanation
Indices: 71453715--71453860 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 27
71453705 TGAATAAGTT
*
71453715 GTAGAATTACCGAAATACCCCTGAAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
71453742 GTAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
71453769 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
71453796 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * * *
71453823 GTAAAATTACAGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
71453850 GTAAAATTACC
1 GTAGAATTACC
71453861 ATTTTGCCCT
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:71454543 original size:27 final size:26
Alignment explanation
Indices: 71454499--71454549 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
71454489 CTCGCTGCAA
*
71454499 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
71454526 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
71454550 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:71454645 original size:27 final size:26
Alignment explanation
Indices: 71454593--71454652 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
71454583 ATATATATAT
*
71454593 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
71454619 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
71454646 ATATCTG
1 ATATCTG
71454653 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:71457717 original size:35 final size:35
Alignment explanation
Indices: 71457658--71457814 Score: 183
Period size: 35 Copynumber: 4.5 Consensus size: 35
71457648 GTACATCGAC
* * * * *
71457658 AATCCAACC-AAACACCCCAGATGCTCCTAAAATCC
1 AATCCATCCGAAACACACCA-ATGCTCATAAAAGCT
*
71457693 AATCCATCCGAAACACACCAATGCTC-TAAGAGCT
1 AATCCATCCGAAACACACCAATGCTCATAAAAGCT
* * *
71457727 AATCCCTCTGAAACACACCAATGCTCATAAGAGCT
1 AATCCATCCGAAACACACCAATGCTCATAAAAGCT
*
71457762 AATCCCTCCGAAACACACCAATGCTCATAAAAGCT
1 AATCCATCCGAAACACACCAATGCTCATAAAAGCT
* *
71457797 AATCCAACCAAAACACAC
1 AATCCATCCGAAACACAC
71457815 AAAAACAGAG
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
34 29 0.27
35 70 0.65
36 9 0.08
ACGTcount: A:0.41, C:0.35, G:0.08, T:0.16
Consensus pattern (35 bp):
AATCCATCCGAAACACACCAATGCTCATAAAAGCT
Found at i:71457740 original size:34 final size:35
Alignment explanation
Indices: 71457693--71457801 Score: 184
Period size: 35 Copynumber: 3.1 Consensus size: 35
71457683 CCTAAAATCC
*
71457693 AATCCATCCGAAACACACCAATGCTC-TAAGAGCT
1 AATCCCTCCGAAACACACCAATGCTCATAAGAGCT
*
71457727 AATCCCTCTGAAACACACCAATGCTCATAAGAGCT
1 AATCCCTCCGAAACACACCAATGCTCATAAGAGCT
*
71457762 AATCCCTCCGAAACACACCAATGCTCATAAAAGCT
1 AATCCCTCCGAAACACACCAATGCTCATAAGAGCT
71457797 AATCC
1 AATCC
71457802 AACCAAAACA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
34 24 0.34
35 46 0.66
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (35 bp):
AATCCCTCCGAAACACACCAATGCTCATAAGAGCT
Found at i:71459700 original size:25 final size:24
Alignment explanation
Indices: 71459625--71459707 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
71459615 CTGAAGGCCT
*
71459625 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
* *
71459649 AACCCTTCTTGATAAATTGGGGCAA
1 AGCCCTT-TTGATAAACTGGGGCAA
*
71459674 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
*
71459699 AGCTCTTTT
1 AGCCCTTTT
71459708 AGCACTTCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
23 3 0.06
24 9 0.18
25 37 0.76
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:71459767 original size:10 final size:10
Alignment explanation
Indices: 71459754--71459792 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
71459744 ATATGTGAAT
71459754 ATATCATGGC
1 ATATCATGGC
71459764 ATATCATGTGC
1 ATATCATG-GC
71459775 ATATCATGGC
1 ATATCATGGC
71459785 ATATCATG
1 ATATCATG
71459793 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:71459780 original size:21 final size:21
Alignment explanation
Indices: 71459754--71459793 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
71459744 ATATGTGAAT
71459754 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
71459775 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
71459794 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:71473028 original size:40 final size:40
Alignment explanation
Indices: 71472980--71473124 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
71472970 CTCGCACAAG
* * * * *
71472980 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
71473020 CCCTTCGGGACTTAGCCCAGATTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
71473060 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
71473101 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
71473125 CATTCGAGTA
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 54 0.62
41 27 0.31
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:71478267 original size:29 final size:29
Alignment explanation
Indices: 71478220--71478320 Score: 114
Period size: 29 Copynumber: 3.4 Consensus size: 29
71478210 ACCGGTACAT
*
71478220 AGTACCTGATAAATATAACACTAGCACAA
1 AGTACCTGATAAATGTAACACTAGCACAA
* * *
71478249 AGTGCCTGATAATTGTAACACTAGTACAA
1 AGTACCTGATAAATGTAACACTAGCACAA
* *
71478278 AGTACCTGATAACTGTAATCACCAGCA-AA
1 AGTACCTGATAAATGTAA-CACTAGCACAA
*
71478307 TAGTATCTGATAAA
1 -AGTACCTGATAAA
71478321 CCCTAATGAC
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 43 0.72
30 17 0.28
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTACCTGATAAATGTAACACTAGCACAA
Done.