Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 162 of 318
Found at i:49988249 original size:40 final size:40
Alignment explanation
Indices: 49988186--49988369 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
49988176 TATTCGAATG
*
49988186 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
49988226 ATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * ** *
49988266 ATATCCGGGCTAAGACCCGAAGGCATTTGTTCTAGCAATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
49988306 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
49988346 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
49988370 CTTGTACAAG
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
40 115 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:49988319 original size:80 final size:80
Alignment explanation
Indices: 49988186--49988369 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 80
49988176 TATTCGAATG
* * **
49988186 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAG-TCCCAAAGGC
* *
49988250 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * * * *
49988266 ATATCCGGGCTAAGACCCGAAGGCATTTGTTCTAGCAATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGTCCCAAAGGCA
*
49988331 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
49988346 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
49988370 CTTGTACAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 3 0.03
80 87 0.97
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGTCCCAAAGGCA
TTTATGCGAGTGACC
Found at i:49989794 original size:6 final size:6
Alignment explanation
Indices: 49989785--49990019 Score: 211
Period size: 6 Copynumber: 38.8 Consensus size: 6
49989775 CTGTCACGTC
* *
49989785 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
49989833 ATTCTG -TTACTG ATTCTG --TCATG TAATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTC-TG --ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
49989882 -TTACTA ATACTG ATTCTG ATTCTA ATTTTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
49989930 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
49989979 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
49990020 CATTTTGGTT
Statistics
Matches: 189, Mismatches: 18, Indels: 44
0.75 0.07 0.18
Matches are distributed among these distances:
4 2 0.01
5 16 0.08
6 154 0.81
7 11 0.06
8 4 0.02
9 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:49989877 original size:73 final size:73
Alignment explanation
Indices: 49989769--49990008 Score: 302
Period size: 73 Copynumber: 3.1 Consensus size: 73
49989759 CATTATGATT
* *
49989769 CTGATTCTGTCACGTCATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGA
1 CTGATTCTGTCATGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGA
49989834 TTCTGTTA
66 TTCTGTTA
*
49989842 CTGATTCTGTCATGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTAA
1 CTGATTCTGTCATGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGA
*
49989907 TTTTGTTA
66 TTCTGTTA
* *
49989915 CTGATTCTGATTCTGATTCTGTCACCTAAT-TCTGATTCTGATTCTGATTCTGTTACTAATATTG
1 CTGATTCTG--TC--A---TGT-A---ATTCT--GATTCTGATTCTGATTCTGTTACTAATACTG
49989979 ATTCTGATTCTGATTCTGTTA
53 ATTCTGATTCTGATTCTGTTA
49990000 CTGATTCTG
1 CTGATTCTG
49990009 ATTCTGATTC
Statistics
Matches: 146, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
73 78 0.53
75 2 0.01
77 1 0.01
80 3 0.02
81 1 0.01
83 1 0.01
84 2 0.01
85 58 0.40
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (73 bp):
CTGATTCTGTCATGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGA
TTCTGTTA
Found at i:49992039 original size:27 final size:27
Alignment explanation
Indices: 49992009--49992499 Score: 623
Period size: 27 Copynumber: 18.2 Consensus size: 27
49991999 AAAGTACTCC
49992009 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49992036 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
49992063 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49992090 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49992117 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
49992144 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
49992171 C-AGTTTACAGAATTACTGTTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
49992198 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
49992225 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
49992252 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
49992279 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49992306 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
49992333 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
49992360 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
49992387 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
49992414 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
49992441 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
49992468 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49992495 TGATT
1 CGATT
49992500 GTGAAATTAC
Statistics
Matches: 405, Mismatches: 51, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.01
27 397 0.98
28 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:49992534 original size:27 final size:27
Alignment explanation
Indices: 49992504--49992699 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
49992494 TTGATTGTGA
*
49992504 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49992531 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * **
49992558 AATTACTGAAATACCGTTATAGAATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49992585 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49992612 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49992639 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
49992666 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
49992693 AATTACC
1 AATTACC
49992700 ATTTTGCCCC
Statistics
Matches: 142, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:49994171 original size:40 final size:40
Alignment explanation
Indices: 49994037--49994177 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 40
49994027 TCGAATGATG
* * *
49994037 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTAAA
* * *
49994077 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAA
* * *
49994117 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AA
*
49994158 -CCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
49994178 TTTCGAGCGA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 70 0.85
41 11 0.13
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAA
Found at i:49994372 original size:40 final size:40
Alignment explanation
Indices: 49994309--49994492 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
49994299 TATTCGAATG
*
49994309 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * * *
49994349 ATATCCGGACTAAGATTCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * ** *
49994389 ATTTCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
49994429 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
49994469 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
49994493 CTTGTGCGAG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
40 113 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:49994439 original size:275 final size:276
Alignment explanation
Indices: 49993943--49994452 Score: 783
Period size: 275 Copynumber: 1.9 Consensus size: 276
49993933 ATTTGCAAGT
*
49993943 GTGATAAGTGTCTTGTGTTTGAGTTTTGCTAATGAAAATGAAATACGAATGTGTCATGATTTAGT
1 GTGATAAGTGTCTTGTGTTTGAGCTTTGCTAATGAAAATGAAATACGAATGTGTCATGATTTAGT
* * *
49994008 GTTGAATGTGCATGGATATTCGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAC
66 GATGAATGTGCATGGATATTCGAATGATATCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGAC
* * * *
49994073 CATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCTAAATCTGGGTTAAGTCCCGAAGGC
131 CATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTCCTAAATCCGGGCTAAGACCCGAAGGC
* *
49994138 ATTTGTGCGAGCTATTATAACCGGGCTATGTCCCGAAGGCTTTCGAGCGAGTCGCTATATCCGGT
196 ATTTGTGCGAGCAATTATAACCGGGCTAAGTCCCGAAGGCTTTCGAGCGAGTCGCTATATCCGGT
49994203 TAAATTCCGAAGGTAC
261 TAAATTCCGAAGGTAC
* * * *
49994219 GTGATAAGTGTCTTGTGTTTGAGCTTTGGTAATGAAAATGAAATATGGATGTGTCATGA-TTATT
1 GTGATAAGTGTCTTGTGTTTGAGCTTTGCTAATGAAAATGAAATACGAATGTGTCATGATTTAGT
*
49994283 GAT-ATATGTGCATGGTTATTCGAATGATATCCGGGCTAAGTCCCGAAGGCTTTTATGCT-AGTG
66 GATGA-ATGTGCATGGATATTCGAATGATATCCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTG
* * * **
49994346 ACTATATCCGGACTAAGATTCAAAGGCATTTGTGCGAGTTGCTATTTCCGGGCTAAGACCCGAAG
129 ACCATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTCCTAAATCCGGGCTAAGACCCGAAG
* *
49994411 GCATTTGTGCTAGCAATTATATCCGGGCTAAGTCCCGAAGGC
194 GCATTTGTGCGAGCAATTATAACCGGGCTAAGTCCCGAAGGC
49994453 ATTTATGCTA
Statistics
Matches: 210, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
274 1 0.00
275 147 0.70
276 62 0.30
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (276 bp):
GTGATAAGTGTCTTGTGTTTGAGCTTTGCTAATGAAAATGAAATACGAATGTGTCATGATTTAGT
GATGAATGTGCATGGATATTCGAATGATATCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGAC
CATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTCCTAAATCCGGGCTAAGACCCGAAGGC
ATTTGTGCGAGCAATTATAACCGGGCTAAGTCCCGAAGGCTTTCGAGCGAGTCGCTATATCCGGT
TAAATTCCGAAGGTAC
Found at i:49994452 original size:80 final size:80
Alignment explanation
Indices: 49994309--49994492 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
49994299 TATTCGAATG
* * ** *
49994309 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATTCAAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGATCCAAAGGCA
* *
49994374 TTTGTGCGAGTTG-CT
66 TTTATGCGAG-TGACC
* * * * *
49994389 ATTTCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGAT-CCAAAGGC
*
49994453 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
49994469 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
49994493 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 3 0.03
80 85 0.97
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGATCCAAAGGCA
TTTATGCGAGTGACC
Found at i:49998810 original size:47 final size:47
Alignment explanation
Indices: 49998693--49998895 Score: 291
Period size: 47 Copynumber: 4.3 Consensus size: 47
49998683 TACATGATAG
* *
49998693 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
* *
49998742 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
49998789 TATATGTGGTAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
49998836 TATATGTGATAGGGCCGAGTGGCCAACGTGATCG-ATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTA
*
49998883 TAAATGTGATAAG
1 TATATGTGATAAG
49998896 TCCCGAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
47 98 0.68
48 1 0.01
49 45 0.31
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:50006915 original size:40 final size:40
Alignment explanation
Indices: 50006852--50007035 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
50006842 TATTTGAATG
*
50006852 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
50006892 ATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * ** *
50006932 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
50006972 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
50007012 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
50007036 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
40 117 0.98
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:50006985 original size:80 final size:80
Alignment explanation
Indices: 50006852--50007035 Score: 237
Period size: 80 Copynumber: 2.3 Consensus size: 80
50006842 TATTTGAATG
* * **
50006852 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAG-TCCCAAAGGC
* *
50006916 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * * *
50006932 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGTCCCAAAGGCA
*
50006997 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
50007012 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
50007036 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 3 0.03
80 88 0.97
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGTCCCAAAGGCA
TTTATGCGAGTGACC
Found at i:50008460 original size:6 final size:6
Alignment explanation
Indices: 50008451--50008685 Score: 211
Period size: 6 Copynumber: 38.8 Consensus size: 6
50008441 CTGTCACGTC
* *
50008451 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
50008499 ATTCTG -TTACTG ATTCTG --TCATG TAATTCTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATT-CTG ATTCTG ATTC-TG --ATTCTG ATTCTG ATTCTG ATTCTG
* * *
50008547 ATTACTA ATACTG ATTCTG ATTCTA ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
50008596 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTTTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
50008645 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
50008686 CATTTTGGTT
Statistics
Matches: 190, Mismatches: 17, Indels: 44
0.76 0.07 0.18
Matches are distributed among these distances:
4 2 0.01
5 17 0.09
6 153 0.81
7 12 0.06
8 4 0.02
9 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:50008543 original size:73 final size:73
Alignment explanation
Indices: 50008435--50008674 Score: 293
Period size: 73 Copynumber: 3.1 Consensus size: 73
50008425 CATTATGATT
* *
50008435 CTGATTCTGTCACGTCATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGA
1 CTGATTCTGTCATGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGA
50008500 TTCTGTTA
66 TTCTGTTA
* *
50008508 CTGATTCTGTCATGTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTCTGATTCTAA
1 CTGATTCTGTCATGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGA
50008573 TTCTGTTA
66 TTCTGTTA
* * *
50008581 CTGATTCTGATTCTGATTCTGTCACCTAAT-TCTGATTCTGATTCTGATTTTGTTACTAATATTG
1 CTGATTCTG--TC--A---TGT-A---ATTCT--GATTCTGATTCTGATTCTGTTACTAATACTG
50008645 ATTCTGATTCTGATTCTGTTA
53 ATTCTGATTCTGATTCTGTTA
50008666 CTGATTCTG
1 CTGATTCTG
50008675 ATTCTGATTC
Statistics
Matches: 145, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
73 78 0.54
75 2 0.01
77 1 0.01
80 3 0.02
81 1 0.01
83 1 0.01
84 2 0.01
85 57 0.39
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (73 bp):
CTGATTCTGTCATGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGA
TTCTGTTA
Found at i:50010709 original size:27 final size:27
Alignment explanation
Indices: 50010679--50011196 Score: 641
Period size: 27 Copynumber: 19.2 Consensus size: 27
50010669 AAAGTACTCC
50010679 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
50010706 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
50010733 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
50010760 TGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
50010787 C-AGTTTACAAAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
50010814 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
50010841 C-AGTTTACAGAATTACTGTTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
50010868 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
50010895 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
50010922 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
50010949 CGATTTACAAAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
50010976 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
50011003 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
50011030 CGATTTACAGAACTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
50011057 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
50011084 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
50011111 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
50011138 C-AGTTTACAAAATTATCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
50011165 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
50011192 TGATT
1 CGATT
50011197 GTGAAATTAC
Statistics
Matches: 434, Mismatches: 49, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.01
27 426 0.98
28 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:50011231 original size:27 final size:27
Alignment explanation
Indices: 50011201--50011396 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
50011191 TTGATTGTGA
*
50011201 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50011228 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *** * **
50011255 AATTACTGAAATACTGTTATAGAATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50011282 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50011309 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50011336 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
50011363 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
50011390 AATTACC
1 AATTACC
50011397 ATTTTGCCCC
Statistics
Matches: 140, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:50011633 original size:27 final size:26
Alignment explanation
Indices: 50011595--50011677 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
50011585 CGGAGGAAGC
*
50011595 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
50011622 GTTCTGGTGGCTCTGCCATAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
50011648 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
50011675 GTT
1 GTT
50011678 GACCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:50011796 original size:22 final size:22
Alignment explanation
Indices: 50011764--50011822 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
50011754 CCCGTTATTA
*
50011764 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
50011786 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
50011808 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
50011823 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:50012865 original size:40 final size:40
Alignment explanation
Indices: 50012740--50012880 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 40
50012730 TCGAATGATG
* * *
50012740 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTAAA
* * * *
50012780 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTCCTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAA
* *
50012820 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AA
*
50012861 -CCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
50012881 TTTCGAGCGA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 70 0.85
41 11 0.13
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAA
Found at i:50016418 original size:29 final size:29
Alignment explanation
Indices: 50016385--50016486 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
50016375 TGACGAGATC
50016385 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
50016414 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
50016443 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
50016472 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
50016487 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:50021980 original size:40 final size:40
Alignment explanation
Indices: 50021900--50022117 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
50021890 TTCGGATGAC
*
50021900 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
50021939 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
50021979 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
50022019 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
50022059 ATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
50022098 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
50022118 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
38 7 0.04
39 56 0.33
40 107 0.63
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:50030472 original size:40 final size:40
Alignment explanation
Indices: 50030392--50030600 Score: 334
Period size: 40 Copynumber: 5.3 Consensus size: 40
50030382 TTCGGATGAC
*
50030392 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
50030431 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* * *
50030471 ATCTGGGCTAAGTCCCGACGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
50030511 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
50030551 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
50030591 ATCC-GGCTAA
1 ATCCGGGCTAA
50030601 ATCCGAACGT
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 29 0.18
40 128 0.81
41 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:50032555 original size:45 final size:44
Alignment explanation
Indices: 50032455--50032579 Score: 166
Period size: 45 Copynumber: 2.9 Consensus size: 44
50032445 AGACTTTTAT
* *
50032455 TCAT-TCACCGGCATT-TCGCCTGCTAGGCTC-AAGGCTCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATA
* *
50032496 TCATGTCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCG-ATA
* *
50032541 TTATCTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCC
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCC
50032580 TGGATATAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 4 0.05
42 11 0.15
43 13 0.18
44 7 0.10
45 38 0.52
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (44 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATA
Found at i:50032621 original size:38 final size:38
Alignment explanation
Indices: 50032581--50032855 Score: 370
Period size: 38 Copynumber: 7.1 Consensus size: 38
50032571 TCAAAGGCCT
* * * * * *
50032581 GGATATAATACCAGTACTAGGCCTGCGGGATTCAACCT
1 GGATATATTACCAGCACGAAGCCTGCGGGATTTAACCC
* * *
50032619 GGATATAATACCAGTACGAAGCCTGCGGAATTTAACCC
1 GGATATATTACCAGCACGAAGCCTGCGGGATTTAACCC
50032657 GGATATATTACCAGCACGAAGCCTGCGGGATTTAACCC
1 GGATATATTACCAGCACGAAGCCTGCGGGATTTAACCC
* * *
50032695 GGATATAATACCAGCACAAAGCCTGCGGGTTTTTAATCCC
1 GGATATATTACCAGCACGAAGCCTGCGGG-ATTTAA-CCC
* *
50032735 GAATATATTACCAGCACGAAGCCTGCGGGATTTAACCT
1 GGATATATTACCAGCACGAAGCCTGCGGGATTTAACCC
*
50032773 GGATATATTACCAACACGAAGCCTGCGGGATTTAACCC
1 GGATATATTACCAGCACGAAGCCTGCGGGATTTAACCC
*
50032811 GGATATATTACCAGCACGAAGCCTGCGGGTCTTTAAGCCC
1 GGATATATTACCAGCACGAAGCCTGCGGG-ATTTAA-CCC
50032851 GGATA
1 GGATA
50032856 CACATCAAAT
Statistics
Matches: 212, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
38 160 0.75
39 15 0.07
40 37 0.17
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (38 bp):
GGATATATTACCAGCACGAAGCCTGCGGGATTTAACCC
Found at i:50032783 original size:116 final size:115
Alignment explanation
Indices: 50032581--50032851 Score: 382
Period size: 116 Copynumber: 2.3 Consensus size: 115
50032571 TCAAAGGCCT
* * * * * * *
50032581 GGATATAATACCAGTACTAGGCCTGCGGG-ATTCAACCTGGATATAATACCAGTACGAAGCCTGC
1 GGATATAATACCAGCACAAAGCCTGCGGGTATTTAACCCGAATATAATACCAGCACGAAGCCTGC
*
50032645 GGAATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCC
66 GGAATTTAACCCGGATATATTACCAACACGAAGCCTGCGGGATTTAACCC
* *
50032695 GGATATAATACCAGCACAAAGCCTGCGGGTTTTTAATCCCGAATATATTACCAGCACGAAGCCTG
1 GGATATAATACCAGCACAAAGCCTGCGGGTATTTAA-CCCGAATATAATACCAGCACGAAGCCTG
* *
50032760 CGGGATTTAACCTGGATATATTACCAACACGAAGCCTGCGGGATTTAACCC
65 CGGAATTTAACCCGGATATATTACCAACACGAAGCCTGCGGGATTTAACCC
* * *
50032811 GGATATATTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCG
1 GGATATAATACCAGCACAAAGCCTGCGGGTATTTAA-CCCG
50032852 GATACACATC
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
114 26 0.19
115 4 0.03
116 109 0.78
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (115 bp):
GGATATAATACCAGCACAAAGCCTGCGGGTATTTAACCCGAATATAATACCAGCACGAAGCCTGC
GGAATTTAACCCGGATATATTACCAACACGAAGCCTGCGGGATTTAACCC
Found at i:50033201 original size:43 final size:44
Alignment explanation
Indices: 50033135--50033218 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
50033125 ACATTTCATT
* *
50033135 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCG-ATATCGTC
1 TCACCGGCATTATAGCCTACTAGGCCCAAAGCCCGAATATCGTC
* *
50033178 TCACTGGCATTATAGCCTACTAGGCCCGAAGCCCGAATATC
1 TCACCGGCATTATAGCCTACTAGGCCCAAAGCCCGAATATC
50033219 ATATTTCGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 31 0.86
44 5 0.14
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTACTAGGCCCAAAGCCCGAATATCGTC
Found at i:50037550 original size:40 final size:40
Alignment explanation
Indices: 50037495--50037643 Score: 210
Period size: 40 Copynumber: 3.7 Consensus size: 40
50037485 TCGGGGTTTA
50037495 AATCCGAGCTTGGTCTCGAAGGGCTTTTGGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGGCCAGTGTCAT
50037535 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTG-GCCAGTGTCAT
* * * * ** *
50037576 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGG-CTTTTGGCCAGTGTCAT
50037616 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
50037644 TGAGTCAGCG
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 60 0.65
41 33 0.35
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (40 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGGCCAGTGTCAT
Found at i:50045641 original size:41 final size:41
Alignment explanation
Indices: 50045584--50045733 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
50045574 TCGGGGTTTA
50045584 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
50045625 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
50045666 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
50045706 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
50045734 TGAGTCAGCG
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.34
41 62 0.66
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:50047590 original size:40 final size:40
Alignment explanation
Indices: 50047482--50047648 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
50047472 TCTTCGGAAT
* * *
50047482 TTAG-CCGGATATAACCACAAGCACAATTGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
50047520 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
50047560 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
50047600 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
50047640 TTAGCCCGG
1 TTAGCCCGG
50047649 GTATCATTCA
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
38 3 0.03
39 22 0.21
40 80 0.75
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:50055668 original size:40 final size:40
Alignment explanation
Indices: 50055559--50055726 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
50055549 TCTTTGGAAT
* * *
50055559 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * * *** *
50055598 TTAACCCGAATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
50055638 TTAGCCCGGATATAACAACTCGCACGAATGCCTTGGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
50055678 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
50055718 TTAGCCCGG
1 TTAGCCCGG
50055727 GTATCATTCA
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
39 3 0.03
40 99 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:50058184 original size:40 final size:40
Alignment explanation
Indices: 50058083--50058305 Score: 360
Period size: 40 Copynumber: 5.6 Consensus size: 40
50058073 CGGATGATAA
* *
50058083 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50058122 TCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50058161 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50058201 CCGGGCTAAGTCCCAAAAGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50058241 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50058281 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
50058306 AGCAAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 23 0.14
39 20 0.12
40 126 0.75
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50063849 original size:44 final size:43
Alignment explanation
Indices: 50063793--50063902 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 43
50063783 TTGATATGTA
*
50063793 ATTTTGTGTAAGACCACGTCT-AGGAAGTTGGCATCGATTTGAG
1 ATTTTGTGTAAGACCACGTCTGA-GAAGTTGGCATCAATTTGAG
*
50063836 ATTTTCGTGTAAGACCACGTCTGAGACGTTGGCATCAATTTGAG
1 ATTTT-GTGTAAGACCACGTCTGAGAAGTTGGCATCAATTTGAG
*
50063880 ATTTATGTGTAAGACCATGTCTG
1 ATTT-TGTGTAAGACCACGTCTG
50063903 GGACATCTGC
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
43 5 0.08
44 54 0.89
45 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
ATTTTGTGTAAGACCACGTCTGAGAAGTTGGCATCAATTTGAG
Found at i:50063915 original size:44 final size:43
Alignment explanation
Indices: 50063793--50063937 Score: 154
Period size: 44 Copynumber: 3.3 Consensus size: 43
50063783 TTGATATGTA
* *
50063793 ATTTTGTGTAAGACCACGTCTAGGA-AGTTGGCATCGATTTGAG
1 ATTTTGTGTAAGACCACGTCTGGGACA-TTGGCATCAATTTGAG
* *
50063836 ATTTTCGTGTAAGACCACGTCTGAGACGTTGGCATCAATTTGAG
1 ATTTT-GTGTAAGACCACGTCTGGGACATTGGCATCAATTTGAG
* *
50063880 ATTTATGTGTAAGACCATGTCTGGGACATCT-GCATCATAATT--G
1 ATTT-TGTGTAAGACCACGTCTGGGACAT-TGGCATCA-ATTTGAG
*
50063923 ATTTCGTGTAAGACC
1 ATTTTGTGTAAGACC
50063938 TTTTCTGGGA
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
42 10 0.11
43 10 0.11
44 63 0.72
45 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
ATTTTGTGTAAGACCACGTCTGGGACATTGGCATCAATTTGAG
Found at i:50065103 original size:53 final size:53
Alignment explanation
Indices: 50065038--50065143 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
50065028 AATTAAAAGT
50065038 TAGTCTTAAGCAATGCCTAGACACACGGGTGTGTCTACTGGCCGTGTGAGTGG
1 TAGTCTTAAGCAATGCCTAGACACACGGGTGTGTCTACTGGCCGTGTGAGTGG
*
50065091 TAGTCTTGAGCAATGCCTAGACACACGGGTGTGTCTACTGGCCGTGTGAGTGG
1 TAGTCTTAAGCAATGCCTAGACACACGGGTGTGTCTACTGGCCGTGTGAGTGG
50065144 CACACGGGCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.20, C:0.21, G:0.33, T:0.26
Consensus pattern (53 bp):
TAGTCTTAAGCAATGCCTAGACACACGGGTGTGTCTACTGGCCGTGTGAGTGG
Found at i:50071715 original size:43 final size:42
Alignment explanation
Indices: 50071626--50071738 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 42
50071616 ACCAATTTGA
*
50071626 GATTTACGTGTAAGACCATGTCTGCGACATCGGCATCGTAATT
1 GATTT-CGTGTAAGACCATGTCTGGGACATCGGCATCGTAATT
* * *
50071669 GATTTCGTGTAAGACCTTGTCTGGGATAGT-GGCATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACA-TCGGCATCG-TAATT
* * *
50071712 GATTACATGTAAGACCACGTCTGGGAC
1 GATTTCGTGTAAGACCATGTCTGGGAC
50071739 GTTGGCATTG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTAATT
Found at i:50071745 original size:43 final size:44
Alignment explanation
Indices: 50071546--50071746 Score: 141
Period size: 44 Copynumber: 4.6 Consensus size: 44
50071536 TGTAATTTTG
* * *
50071546 TGTAAGACCACGTCTGAGG-CGTTTGCATCGAT-TTGAGATTTTCA
1 TGTAAGACCACGTCTG-GGACGTTGGCATCGATATT-TGATTTACA
* * * *
50071590 TGTCTA-ACCACATCTGGGACGTTGGCA-CCA-ATTTGAGATTTACG
1 TGT-AAGACCACGTCTGGGACGTTGGCATCGATATTT--GATTTACA
* * * * * *
50071634 TGTAAGACCATGTCTGCGACATCGGCATCG-TAATTGATTT-CG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTACA
** *
50071676 TGTAAGACCTTGTCTGGGATAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATCGATATTTGATTTACA
50071719 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
50071747 TGTACAGGCT
Statistics
Matches: 120, Mismatches: 25, Indels: 25
0.71 0.15 0.15
Matches are distributed among these distances:
42 29 0.24
43 42 0.35
44 44 0.37
45 5 0.04
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTACA
Found at i:50072608 original size:21 final size:21
Alignment explanation
Indices: 50072584--50072626 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
50072574 GTTTTGTGAT
50072584 TGAAATTGGTTCAAATTATGG
1 TGAAATTGGTTCAAATTATGG
50072605 TGAAATTGGTTCAAATTATGG
1 TGAAATTGGTTCAAATTATGG
50072626 T
1 T
50072627 TCAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.40
Consensus pattern (21 bp):
TGAAATTGGTTCAAATTATGG
Found at i:50072628 original size:12 final size:12
Alignment explanation
Indices: 50072590--50072634 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
50072580 TGATTGAAAT
50072590 TGGTTCAAATTA
1 TGGTTCAAATTA
*
50072602 TGG-TGAAA-T-
1 TGGTTCAAATTA
50072611 TGGTTCAAATTA
1 TGGTTCAAATTA
50072623 TGGTTCAAATTA
1 TGGTTCAAATTA
50072635 AAGGTGGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
9 3 0.11
10 5 0.18
11 5 0.18
12 15 0.54
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (12 bp):
TGGTTCAAATTA
Found at i:50073757 original size:39 final size:39
Alignment explanation
Indices: 50073714--50073792 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
50073704 ATTCACTTTT
* * *
50073714 AAGCATATATCATATTACACATATAATCACATGACATTC
1 AAGCATATATCACAGTACACATATAATCACATAACATTC
*
50073753 AAGCATATATCACAGTACTCATATAATCACATAACATTC
1 AAGCATATATCACAGTACACATATAATCACATAACATTC
50073792 A
1 A
50073793 GATACTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAGTACACATATAATCACATAACATTC
Found at i:50076405 original size:29 final size:29
Alignment explanation
Indices: 50076363--50076434 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
50076353 ACATGGCTTG
* *
50076363 GAAT-TGATTCGGGCCGGATGGGCCATAT
1 GAATGTGATTTGGGCCGAATGGGCCATAT
*
50076391 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCGAATGGGCCATAT
*
50076420 GAATGAGA-TTGGGCC
1 GAATGTGATTTGGGCC
50076435 TAGTGGGACA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 11 0.28
29 28 0.72
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (29 bp):
GAATGTGATTTGGGCCGAATGGGCCATAT
Found at i:50076441 original size:28 final size:29
Alignment explanation
Indices: 50076380--50076441 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
50076370 TTCGGGCCGG
*
50076380 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
50076409 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
*
50076437 GTGGG
1 ATGGG
50076442 ACAATCCCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.24, C:0.13, G:0.35, T:0.27
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCTA
Found at i:50082614 original size:16 final size:17
Alignment explanation
Indices: 50082582--50082614 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50082572 TTTAAAGAAG
50082582 GGTTTTCAATGAAAATAA
1 GGTTTTCAA-GAAAATAA
50082600 GGTTTTCAA-AAAATA
1 GGTTTTCAAGAAAATA
50082615 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (17 bp):
GGTTTTCAAGAAAATAA
Found at i:50084814 original size:16 final size:16
Alignment explanation
Indices: 50084791--50084828 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
50084781 TCGGCAAATC
50084791 CCGAAATGCCGAAAAG
1 CCGAAATGCCGAAAAG
* *
50084807 CTGAAATGCTGAAAAG
1 CCGAAATGCCGAAAAG
50084823 CCGAAA
1 CCGAAA
50084829 GTTTGGCTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.11
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:50094023 original size:44 final size:46
Alignment explanation
Indices: 50093942--50094029 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 46
50093932 AAGTTCTAGC
*
50093942 ATATCTGTACCGATGCCATGTCCCAGACATGGTCTTACACTGGCAT
1 ATATCTGTACCGATGCCATGTCCCAGACATGATCTTACACTGGCAT
* *
50093988 ATATC-GTAGCCGATG-CATGTCCCCGAC-TTATCTTACACTGGC
1 ATATCTGTA-CCGATGCCATGTCCCAGACATGATCTTACACTGGC
50094030 TTATGTCTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 13 0.34
45 14 0.37
46 11 0.29
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
ATATCTGTACCGATGCCATGTCCCAGACATGATCTTACACTGGCAT
Found at i:50096202 original size:36 final size:34
Alignment explanation
Indices: 50096162--50096251 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
50096152 TTTCGGTTAG
* *
50096162 GGCCTTAGCCTATTTTTCAGTAACAGTA-TCAGTCTT
1 GGCCTTAGCCCA--TTTCAGTAACAG-AGGCAGTCTT
*
50096198 GGCCTGAGCCCATTTCAGTAACAGAGGCAGTCTT
1 GGCCTTAGCCCATTTCAGTAACAGAGGCAGTCTT
*
50096232 GGCCTTAGTCCATTTCAGTA
1 GGCCTTAGCCCATTTCAGTA
50096252 CAACATACAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 1 0.02
34 37 0.77
36 10 0.21
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (34 bp):
GGCCTTAGCCCATTTCAGTAACAGAGGCAGTCTT
Found at i:50098326 original size:23 final size:23
Alignment explanation
Indices: 50098300--50098347 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
50098290 CCTACTAGCT
*
50098300 GATGATAAAGGTTTATTCAAATA
1 GATGACAAAGGTTTATTCAAATA
50098323 GATGACAAAGGTTTATTCAAATA
1 GATGACAAAGGTTTATTCAAATA
50098346 GA
1 GA
50098348 AGAAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (23 bp):
GATGACAAAGGTTTATTCAAATA
Found at i:50105418 original size:15 final size:15
Alignment explanation
Indices: 50105398--50105429 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
50105388 TTGCCTTCAG
50105398 AGAAAAAG-AGAAGA
1 AGAAAAAGAAGAAGA
50105412 AGAAAAAGAAGAAGA
1 AGAAAAAGAAGAAGA
50105427 AGA
1 AGA
50105430 TGCTCAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAGAAGA
Found at i:50107075 original size:43 final size:43
Alignment explanation
Indices: 50106926--50107080 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
50106916 ATATTGTACA
* * * *
50106926 ATGCCAACGTCCCAAATGTGGTCTTACATGCT-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATAACATATCG
** * *
50106969 ATGCC-ACTGTCTGAGACAG-GGTCTTACAC-AAATCAA-ATA-CC
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAT-AACATATCG
* * * *
50107010 ATGTCGATGTCCCAGACATGGTCTTACACGTAATAACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATAACATATCG
50107053 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
50107081 TGAGAACACA
Statistics
Matches: 84, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
41 24 0.29
42 14 0.17
43 45 0.54
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATAACATATCG
Found at i:50107602 original size:34 final size:34
Alignment explanation
Indices: 50107561--50107636 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 34
50107551 TAAGGGCATT
*
50107561 TTTCAGTAACAGTA-TCAGTCTTGGCCTGAGCCCA
1 TTTCAGTAACAG-AGGCAGTCTTGGCCTGAGCCCA
* *
50107595 TTTCAGTAACAGAGGCAGTCTTGGCCTTAGTCCA
1 TTTCAGTAACAGAGGCAGTCTTGGCCTGAGCCCA
50107629 TTTCAGTA
1 TTTCAGTA
50107637 CAACATACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 1 0.03
34 37 0.97
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (34 bp):
TTTCAGTAACAGAGGCAGTCTTGGCCTGAGCCCA
Found at i:50109711 original size:23 final size:23
Alignment explanation
Indices: 50109685--50109732 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
50109675 CCTACTAGCT
*
50109685 GATGATAAAGGTTTATTCAAATA
1 GATGACAAAGGTTTATTCAAATA
50109708 GATGACAAAGGTTTATTCAAATA
1 GATGACAAAGGTTTATTCAAATA
50109731 GA
1 GA
50109733 AGAAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (23 bp):
GATGACAAAGGTTTATTCAAATA
Found at i:50116803 original size:15 final size:15
Alignment explanation
Indices: 50116783--50116814 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
50116773 TTGCCTTCAG
50116783 AGAAAAAG-AGAAGA
1 AGAAAAAGAAGAAGA
50116797 AGAAAAAGAAGAAGA
1 AGAAAAAGAAGAAGA
50116812 AGA
1 AGA
50116815 TGCTCAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAGAAGA
Found at i:50118460 original size:43 final size:43
Alignment explanation
Indices: 50118311--50118465 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
50118301 ATATTGTACA
* * * *
50118311 ATGCCAACGTCCCAAATGTGGTCTTACATGCT-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATAACATATCG
** * *
50118354 ATGCC-ACTGTCTGAGACAG-GGTCTTACAC-AAATCAA-ATA-CC
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAT-AACATATCG
* * * *
50118395 ATGTCGATGTCCCAGACATGGTCTTACACGTAATAACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATAACATATCG
50118438 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
50118466 TGAGAACACA
Statistics
Matches: 84, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
41 24 0.29
42 14 0.17
43 45 0.54
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATAACATATCG
Found at i:50120300 original size:47 final size:47
Alignment explanation
Indices: 50120243--50120364 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
50120233 GCATTGGCAC
*
50120243 TAAGATAAGGATACCATATAAGACCATGTTTGGAACATAGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
* *
50120290 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
*
50120337 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGATAAGGATACCATGTAAGACCATG
50120365 CCAAGTCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
Found at i:50120407 original size:54 final size:54
Alignment explanation
Indices: 50120343--50120593 Score: 326
Period size: 54 Copynumber: 4.6 Consensus size: 54
50120333 TTGGTAAGAT
* *
50120343 AAGGATATCATGTAAGACCATGCCAAGTCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGC
* * *
50120397 AAGGAAATCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTCTATAAAGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
50120451 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGACTTACTATAAGGAA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAGG-C
** * * * * *
50120507 AAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGC
50120559 AAGGATATCATGTAAGACCATGTCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCA
50120594 ATGGTAACTT
Statistics
Matches: 171, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
52 4 0.02
53 31 0.18
54 93 0.54
55 39 0.23
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:50120726 original size:16 final size:17
Alignment explanation
Indices: 50120707--50120739 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
50120697 CTTATTTAAT
50120707 ATTGAGATTAT-AAGTA
1 ATTGAGATTATCAAGTA
50120723 ATTGAGATTATCAAGTA
1 ATTGAGATTATCAAGTA
50120740 TTAAGTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.36
Consensus pattern (17 bp):
ATTGAGATTATCAAGTA
Found at i:50123614 original size:21 final size:20
Alignment explanation
Indices: 50123582--50123622 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
50123572 ATACATGAGT
50123582 ATTTTGATGTTTGATGATAG
1 ATTTTGATGTTTGATGATAG
50123602 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTGATGATAG
50123623 TCACACATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTGATGATAG
Found at i:50126656 original size:21 final size:20
Alignment explanation
Indices: 50126624--50126664 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
50126614 ATACACGATT
50126624 ATTTTGATGTTTGATGATAG
1 ATTTTGATGTTTGATGATAG
50126644 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTGATGATAG
50126665 TTATACAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTGATGATAG
Found at i:50130902 original size:49 final size:49
Alignment explanation
Indices: 50130847--50131180 Score: 559
Period size: 49 Copynumber: 6.9 Consensus size: 49
50130837 GTATGAGATG
*
50130847 TATATATGTGATATGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
50130896 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50130945 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
50130992 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50131041 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50131088 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
50131137 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
50131181 TATATGTGTG
Statistics
Matches: 267, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 87 0.33
49 180 0.67
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:50131020 original size:96 final size:96
Alignment explanation
Indices: 50130847--50131180 Score: 578
Period size: 96 Copynumber: 3.5 Consensus size: 96
50130837 GTATGAGATG
* * *
50130847 TATATATGTGATATGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--TATATATGTGATAAGG
50130912 CCTAATGGCCAATGTGATGAATGTGAAAGTGTA
64 CCTAATGGCCAATGTGATGAATGTGAAAGTGTA
50130945 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
*
50131010 TAATGGCCAATGTGATGAATGTGAAAGTATA
66 TAATGGCCAATGTGATGAATGTGAAAGTGTA
50131041 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
* *
50131106 TAATGGCCGATGTGATGAATGTGAAGGTGTA
66 TAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50131137 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
50131181 TATATGTGTG
Statistics
Matches: 227, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
96 183 0.81
98 44 0.19
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (96 bp):
TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
TAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:50131141 original size:145 final size:144
Alignment explanation
Indices: 50130846--50131185 Score: 567
Period size: 145 Copynumber: 2.4 Consensus size: 144
50130836 TGTATGAGAT
* * *
50130846 GTATATATGTGATATGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGATAAG
*
50130911 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGT
66 GCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATA-ATGTGATAAGGCCTAATGGCCAATGT
50130976 GATGAATGTGAAAGA
130 GATGAATGTGAAAGA
50130991 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGATAAG
*
50131056 GCCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT-ATGTGATAAGGCCTAATGGCCGATGTG
66 GCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATAATGTGATAAGGCCTAATGGCCAATGTG
* *
50131120 ATGAATGTGAAGGT
131 ATGAATGTGAAAGA
*
50131134 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-TATAT
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTATAT
50131186 GTGTGATATG
Statistics
Matches: 185, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
143 39 0.21
144 5 0.03
145 141 0.76
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (144 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATAATGTGATAAGGCCTAATGGCCAATGTG
ATGAATGTGAAAGA
Found at i:50131229 original size:48 final size:48
Alignment explanation
Indices: 50131172--50131275 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
50131162 CGATGTGATG
50131172 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
50131220 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
50131268 AATGTGAA
1 AATGTGAA
50131276 TGTTGTAACA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:50131369 original size:37 final size:37
Alignment explanation
Indices: 50131315--50131405 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
50131305 AACTTGGAAA
*
50131315 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
50131353 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
50131390 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
50131406 TTGTAATAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:50133351 original size:40 final size:40
Alignment explanation
Indices: 50133305--50133605 Score: 308
Period size: 40 Copynumber: 7.5 Consensus size: 40
50133295 TGAATGATAC
**
50133305 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG-ATATAT
* * * *
50133345 CCGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AG-TGATATAT
* * * *
50133385 CCGGGTTAAGACCCGAAG-GCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGT-GATATAT
* * *
50133425 CC-GGCTAAATTCCGAAGAGCATTCGTGCTAATGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
50133464 CCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
50133504 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
50133544 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
*
50133584 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
50133606 ATCATGCTGG
Statistics
Matches: 232, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
39 24 0.10
40 202 0.87
41 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:50137439 original size:49 final size:49
Alignment explanation
Indices: 50137381--50137763 Score: 657
Period size: 49 Copynumber: 7.9 Consensus size: 49
50137371 GTATGAGATG
*
50137381 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
50137430 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
50137479 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50137528 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
50137575 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50137624 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50137671 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
50137720 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
50137764 TATATGTGTG
Statistics
Matches: 316, Mismatches: 14, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
47 87 0.28
49 229 0.72
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:50137605 original size:96 final size:96
Alignment explanation
Indices: 50137380--50137763 Score: 678
Period size: 96 Copynumber: 4.0 Consensus size: 96
50137370 TGTATGAGAT
* *
50137380 GTATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
*
50137445 GCCTAATGGCCAATGTGATGAATGTGAAAGT
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
50137476 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATA
50137541 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
64 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
*
50137574 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
50137639 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
* * *
50137670 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
*
50137735 GCCTAATGGCCGATGTGATGAATGTGAAA
66 GCCTAATGGCCAATGTGATGAATGTGAAA
50137764 TATATGTGTG
Statistics
Matches: 277, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
96 184 0.66
98 93 0.34
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (96 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:50137642 original size:145 final size:145
Alignment explanation
Indices: 50137380--50137768 Score: 651
Period size: 145 Copynumber: 2.7 Consensus size: 145
50137370 TGTATGAGAT
*
50137380 GTATAT-ATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GTATATAATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
* *
50137444 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATG
65 GGCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGATAAGGCCTAATGGCCAATG
*
50137509 TGATGAATGTGAAAGT
130 TGATGAATGTGAAAGA
*
50137525 GTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG-TATATATGTGATAA
1 GTATATA-ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAA
50137589 GGCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGATAAGGCCTAATGGCCAATG
65 GGCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGATAAGGCCTAATGGCCAATG
50137654 TGATGAATGTGAAAGA
130 TGATGAATGTGAAAGA
* *
50137670 GTATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAA
1 GTATATAATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
50137734 GGCCTAATGGCCGATGTGATGAATGTGAAA-TATAT
65 GGCCTAATGGCCAATGTGATGAATGTGAAAGTATAT
50137769 GTGTGATATG
Statistics
Matches: 231, Mismatches: 9, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
143 39 0.17
144 5 0.02
145 147 0.64
147 40 0.17
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (145 bp):
GTATATAATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGATAAGGCCTAATGGCCAATGT
GATGAATGTGAAAGA
Found at i:50137654 original size:40 final size:44
Alignment explanation
Indices: 50137624--50137759 Score: 146
Period size: 47 Copynumber: 2.9 Consensus size: 44
50137614 TGAAAGTATA
50137624 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG
1 TATACATGTGATAAGGCCTAATGGCCAATGTGA-GAATGT--AAGAG
* * *
50137671 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATACATGTGATAAGGCCTAATGGCCAATGTGA-GAATGT-AA-GAG
* *
50137718 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 --TATACATGTGATAAGGCCTAATGGCCAATGTGA-GAATGT
50137760 GAAATATATG
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
46 2 0.02
47 40 0.49
49 40 0.49
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (44 bp):
TATACATGTGATAAGGCCTAATGGCCAATGTGAGAATGTAAGAG
Found at i:50137812 original size:48 final size:48
Alignment explanation
Indices: 50137755--50137858 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
50137745 CGATGTGATG
50137755 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
50137803 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
50137851 AATGTGAA
1 AATGTGAA
50137859 TGTTGTAACA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:50137952 original size:37 final size:37
Alignment explanation
Indices: 50137906--50137988 Score: 157
Period size: 37 Copynumber: 2.2 Consensus size: 37
50137896 AATATGTTCT
*
50137906 GGGTGAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
50137943 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
50137980 GGGTAAGAC
1 GGGTAAGAC
50137989 TTTGTAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:50145303 original size:16 final size:16
Alignment explanation
Indices: 50145284--50145314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50145274 AGAACTAACG
*
50145284 AGCTCACTGACTAATT
1 AGCTCACAGACTAATT
50145300 AGCTCACAGACTAAT
1 AGCTCACAGACTAAT
50145315 GAACTCGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (16 bp):
AGCTCACAGACTAATT
Found at i:50147902 original size:27 final size:27
Alignment explanation
Indices: 50147862--50147973 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
50147852 AGGAAGCGTC
*
50147862 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
50147889 CTGGTGGCTCTGCCACATATT-TCT-ATT
1 CTGGTGGCTCTGCCACA-ATTATCTGA-T
*
50147916 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
50147944 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
50147970 CTGG
1 CTGG
50147974 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
26 9 0.12
27 47 0.63
28 18 0.24
29 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:50147972 original size:54 final size:54
Alignment explanation
Indices: 50147862--50147973 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
50147852 AGGAAGCGTC
* *
50147862 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
50147916 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
50147970 CTGG
1 CTGG
50147974 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:50161293 original size:43 final size:43
Alignment explanation
Indices: 50161218--50161341 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
50161208 TCTGAACTCA
* * **
50161218 TTCACCGGCATT-TCGCCCGCTAGGCTTGAAGCCTGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATCAT
* ** *
50161260 TTCACCGGCATTATAGCCTACTAGGCCCGAAGCCCAATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATCAT
* *
50161303 CTCACCGGCATTATAGCCTGCTACGCCCGAAGCCTGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATA
50161342 ATATTATTCA
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 12 0.18
43 56 0.82
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATCAT
Found at i:50163752 original size:28 final size:29
Alignment explanation
Indices: 50163691--50163759 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
50163681 TTCAGGACGG
* *
50163691 ATGGGGCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
* *
50163720 ATGGGTCATATGGATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
*
50163748 GTGGGCCATATG
1 ATGGGCCATATG
50163760 CATGTATGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.23, C:0.12, G:0.36, T:0.29
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCTA
Found at i:50166147 original size:29 final size:28
Alignment explanation
Indices: 50166115--50166170 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
50166105 CTAGATAAAC
* *
50166115 TGATTTGGCTTCAGGCCATGCATATCAGT
1 TGATTTGGCTTAAAGCCATG-ATATCAGT
50166144 TGATTTGGCTTAAAGCCATGATATCAG
1 TGATTTGGCTTAAAGCCATGATATCAG
50166171 AATTTCAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (28 bp):
TGATTTGGCTTAAAGCCATGATATCAGT
Found at i:50171259 original size:40 final size:40
Alignment explanation
Indices: 50171131--50171261 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
50171121 TATGCTGGAA
* * * *
50171131 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
50171171 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
50171211 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
50171251 ATTATATCCGG
1 ATTATATCCGG
50171262 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:50181906 original size:30 final size:30
Alignment explanation
Indices: 50181851--50182010 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
50181841 ATAGTGAATC
50181851 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50181880 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50181910 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
50181939 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
50181967 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50181997 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50182011 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:50181943 original size:59 final size:57
Alignment explanation
Indices: 50181851--50182010 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
50181841 ATAGTGAATC
*
50181851 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
50181910 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
50181967 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
50182011 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:50189876 original size:30 final size:30
Alignment explanation
Indices: 50189821--50189980 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
50189811 ATAGTGAATC
50189821 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50189850 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50189880 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
50189909 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
50189937 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50189967 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50189981 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:50189913 original size:59 final size:57
Alignment explanation
Indices: 50189821--50189980 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
50189811 ATAGTGAATC
*
50189821 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
50189880 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
50189937 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
50189981 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:50194822 original size:71 final size:71
Alignment explanation
Indices: 50194734--50194897 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
50194724 CGATTTGTCT
50194734 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50194799 CTTTCA
66 CTTTCA
*
50194805 CGTAGCTCTCTTATCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50194870 CTTTCA
66 CTTTCA
50194876 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
50194898 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:50194935 original size:71 final size:70
Alignment explanation
Indices: 50194734--50194931 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
50194724 CGATTTGTCT
* * * * *
50194734 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTATCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50194799 CTTTCA
65 CTTTCA
* * * *
50194805 CGTAGCTCTCTTATCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTATCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50194870 CTTTCA
65 CTTTCA
* * *
50194876 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTATCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
50194932 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTATCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:50196833 original size:38 final size:39
Alignment explanation
Indices: 50196731--50196838 Score: 96
Period size: 38 Copynumber: 2.8 Consensus size: 39
50196721 GACCTCGAGT
* **
50196731 CGATGAGACAC-AGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTA-GGTGTCA--ACTTTACTTCGGATAGAGC
* * * *
50196772 CGATGAGATACTGGGTG-CCACTTTACTTCGGCTAG-GC
1 CGATGAGACACTAGGTGTCAACTTTACTTCGGATAGAGC
*
50196809 CGATGAGACACTAGGTGTCAACTTTGCTTC
1 CGATGAGACACTAGGTGTCAACTTTACTTC
50196839 AAACTATCCG
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
37 15 0.28
38 24 0.44
40 1 0.02
41 14 0.26
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (39 bp):
CGATGAGACACTAGGTGTCAACTTTACTTCGGATAGAGC
Found at i:50199019 original size:29 final size:29
Alignment explanation
Indices: 50198976--50199412 Score: 321
Period size: 29 Copynumber: 15.1 Consensus size: 29
50198966 TGTGCTAAAT
*
50198976 GATGGTTGAAACCAT-CCTTTTCCATATTC
1 GATGGTCGAAACCATCCCTTTT-CATATTC
*
50199005 AATGGTCGAAACCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
*
50199034 GATGGTC---ACCATCCCTTTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATATTC
* *
50199060 GATGGTCGAAACCATTCCTTTTCATTAATC
1 GATGGTCGAAACCATCCCTTTTCA-TATTC
*
50199090 -ATTGGTC-ATCACCATCCCTTTTCATAGTT-
1 GA-TGGTCGA-AACCATCCCTTTTCATA-TTC
*
50199119 GATGGTC-ATCAA-AATCCCTTTTCATATTC
1 GATGGTCGA--AACCATCCCTTTTCATATTC
* ** ** *
50199148 AATAATTAAAACTATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* **
50199177 GATAGTCGTCACCATCCCTTTTCATAGTT-
1 GATGGTCGAAACCATCCCTTTTCATA-TTC
**
50199206 GATGGTTGTCGTCACCATCCCTTTTCATATTC
1 GAT-G--GTCGAAACCATCCCTTTTCATATTC
* *
50199238 AATGGTC-ATCACCATCCCTTTTCATAGTT-
1 GATGGTCGA-AACCATCCCTTTTCATA-TTC
* **
50199267 GATGGTTGCCACCATCCCTTTTCATAATT-
1 GATGGTCGAAACCATCCCTTTTCAT-ATTC
* **
50199296 GATGGTCAAAATTATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
*
50199325 GATGGTC-ATACCATCCCTTTTCATAGTT-
1 GATGGTCGAAACCATCCCTTTTCATA-TTC
** * *
50199353 GATGGTCGTCACTATCCCTTTTCATAGTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** *
50199382 GACAGTCGAAA-CATCCCTTCTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
50199410 GAT
1 GAT
50199413 CATATTTGAT
Statistics
Matches: 330, Mismatches: 52, Indels: 53
0.76 0.12 0.12
Matches are distributed among these distances:
26 25 0.08
28 46 0.14
29 196 0.59
30 36 0.11
31 3 0.01
32 24 0.07
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATATTC
Found at i:50199255 original size:119 final size:114
Alignment explanation
Indices: 50198986--50199412 Score: 316
Period size: 119 Copynumber: 3.7 Consensus size: 114
50198976 GATGGTTGAA
* * * *
50198986 ACCAT-CCTTTTCCATATTCAATGGTCGA-AACCATCCCTTTTCATATTCGATGGTCACCATCCC
1 ACCATCCCTTTT-CATATTCAATGGTC-ATCACCATCCCTTTTCATATTCAATAGTAACCATCCC
* * *
50199049 TTTTCATATTTGATGGTCGAAACCATTCCTTTTCATTAATCATTGGTCATC
64 TTTTCATATTCGATAGTCGAAACCATCCCTTTTCATTAATCATTGGTCATC
* ** * *
50199100 ACCATCCCTTTTCATAGTT-GATGGTCATCAAAATCCCTTTTCATATTCAATAATTAAAACTATC
1 ACCATCCCTTTTCATA-TTCAATGGTCATCACCATCCCTTTTCATATTCAAT-AGT--AACCATC
** * * * *
50199164 CCTTTTCATATTCGATAGTCGTCACCATCCCTTTTCA-TAGTTGATGGTTGTCGTC
62 CCTTTTCATATTCGATAGTCGAAACCATCCCTTTTCATTA-ATCAT--TGGTCATC
* * *
50199219 ACCATCCCTTTTCATATTCAATGGTCATCACCATCCCTTTTCATAGTT-GATGGTTGCCACCATC
1 ACCATCCCTTTTCATATTCAATGGTCATCACCATCCCTTTTCATA-TTCAATAG-T--AACCATC
* * ** *
50199283 CCTTTTCATAATT-GATGGTCAAAATTATCCCTTTTCA-TATTCGA-TGGTCAT-
62 CCTTTTCAT-ATTCGATAGTCGAAACCATCCCTTTTCATTAATC-ATTGGTCATC
* * * * * * *
50199334 ACCATCCCTTTTCATAGTT-GATGGTCGTCACTATCCCTTTTCATAGTCGACAGTCGAAACATCC
1 ACCATCCCTTTTCATA-TTCAATGGTCATCACCATCCCTTTTCATATTCAATAGT--AACCATCC
*
50199398 CTTCTCATATTCGAT
63 CTTTTCATATTCGAT
50199413 CATATTTGAT
Statistics
Matches: 248, Mismatches: 48, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
113 4 0.02
114 52 0.21
115 51 0.21
116 9 0.04
117 40 0.16
118 4 0.02
119 83 0.33
120 5 0.02
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.38
Consensus pattern (114 bp):
ACCATCCCTTTTCATATTCAATGGTCATCACCATCCCTTTTCATATTCAATAGTAACCATCCCTT
TTCATATTCGATAGTCGAAACCATCCCTTTTCATTAATCATTGGTCATC
Found at i:50199268 original size:148 final size:144
Alignment explanation
Indices: 50199013--50199378 Score: 470
Period size: 148 Copynumber: 2.5 Consensus size: 144
50199003 TCAATGGTCG
* * ** *
50199013 AAACCATCCCTTTTCATATTCGATG--GTCACCATCCCTTTTCATATTTGATGGTCGAAACCATT
1 AAACTATCCCTTTTCATATTCGATGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATC
* *
50199076 CCTTTTCATTAATCATTGGTCATCACCATCCCTTTTCATAGTTGATGGTCATCAAAATCCCTTTT
66 CCTTTTCA-TAATCAATGGTCATCACCATCCCTTTTCATAGTTGATGGTCACCAAAATCCCTTTT
*
50199141 CAT-ATTCAATAATTA
130 CATAATT-AATAATCA
50199156 AAACTATCCCTTTTCATATTCGATAGTCGTCACCATCCCTTTTCATAGTTGATGGTTGTCGTCAC
1 AAACTATCCCTTTTCATATTCGAT-GTCGTCACCATCCCTTTTCATAGTTGAT-G--GTCGTCAC
* ** **
50199221 CATCCCTTTTCATATTCAATGGTCATCACCATCCCTTTTCATAGTTGATGGTTGCCACCATCCCT
62 CATCCCTTTTCATAATCAATGGTCATCACCATCCCTTTTCATAGTTGATGGTCACCAAAATCCCT
* **
50199286 TTTCATAATTGATGGTCA
127 TTTCATAATTAATAATCA
* * *
50199304 AAATTATCCCTTTTCATATTCGATGGTCAT-ACCATCCCTTTTCATAGTTGATGGTCGTCACTAT
1 AAACTATCCCTTTTCATATTCGAT-GTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCAT
50199368 CCCTTTTCATA
65 CCCTTTTCATA
50199379 GTCGACAGTC
Statistics
Matches: 196, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
143 23 0.12
144 22 0.11
146 25 0.13
147 23 0.12
148 83 0.42
149 20 0.10
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (144 bp):
AAACTATCCCTTTTCATATTCGATGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATC
CCTTTTCATAATCAATGGTCATCACCATCCCTTTTCATAGTTGATGGTCACCAAAATCCCTTTTC
ATAATTAATAATCA
Found at i:50203210 original size:26 final size:26
Alignment explanation
Indices: 50203174--50203242 Score: 138
Period size: 26 Copynumber: 2.7 Consensus size: 26
50203164 TTTACATCAA
50203174 TGCTCACACGAGTTGTGAAATGGGCC
1 TGCTCACACGAGTTGTGAAATGGGCC
50203200 TGCTCACACGAGTTGTGAAATGGGCC
1 TGCTCACACGAGTTGTGAAATGGGCC
50203226 TGCTCACACGAGTTGTG
1 TGCTCACACGAGTTGTG
50203243 GGTCAGAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (26 bp):
TGCTCACACGAGTTGTGAAATGGGCC
Found at i:50208957 original size:40 final size:42
Alignment explanation
Indices: 50208894--50208989 Score: 164
Period size: 40 Copynumber: 2.4 Consensus size: 42
50208884 GGGTTATTTG
50208894 TGGCACTTA--GTGTGCGATACGACATAGCTTCGGCTATATA
1 TGGCACTTACTGTGTGCGATACGACATAGCTTCGGCTATATA
50208934 TGGCACTTACTGTGTG-GAT-CGACATAGCTTCGGCTATATA
1 TGGCACTTACTGTGTGCGATACGACATAGCTTCGGCTATATA
50208974 TGGCACTTACTGTGTG
1 TGGCACTTACTGTGTG
50208990 ATTTGAGATA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
40 46 0.85
41 3 0.06
42 5 0.09
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (42 bp):
TGGCACTTACTGTGTGCGATACGACATAGCTTCGGCTATATA
Found at i:50216892 original size:54 final size:53
Alignment explanation
Indices: 50216795--50216900 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
50216785 GCATGGCTGC
* * *
50216795 CAGAACAGATATTGTGACAGAGTCACTAGACACAGATATTGTGG-AAGAGCCAT
1 CAGAACAGATATTGTGACAGAGCCACCAGACACAGATAATGTGGCAA-AGCCAT
* *
50216848 CAGAACAGATATTTGTGGCATAGCCACCAGA-ATCAGATAATGTGGCAAAGCCA
1 CAGAACAGATA-TTGTGACAGAGCCACCAGACA-CAGATAATGTGGCAAAGCCA
50216901 CTTAACAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 12 0.27
54 31 0.69
55 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.20
Consensus pattern (53 bp):
CAGAACAGATATTGTGACAGAGCCACCAGACACAGATAATGTGGCAAAGCCAT
Found at i:50216901 original size:27 final size:26
Alignment explanation
Indices: 50216794--50216901 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 26
50216784 AGCATGGCTG
* * *
50216794 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAAAGCCA
*
50216820 CTAGACACAGATATTGTGG-AAGAGCCA
1 CCAGA-ACAGATATTGTGGCAA-AGCCA
* *
50216847 TCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAAAGCCA
*
50216874 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAAAGCCA
50216901 C
1 C
50216902 TTAACAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
26 12 0.18
27 48 0.72
28 7 0.10
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:50217512 original size:27 final size:27
Alignment explanation
Indices: 50217482--50217856 Score: 424
Period size: 27 Copynumber: 14.0 Consensus size: 27
50217472 TACCCCACGA
*
50217482 GGGTATCTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
*
50217509 GGGTATTTC-AGTATTTCTACCCTACA-
1 GGGTATTTCGA-TAATTCTACCCTACAG
* *
50217535 AGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
50217562 GGGTATTTC-AGTAATTCTACCCTACAG
1 GGGTATTTCGA-TAATTCTACCCTACAG
* *
50217589 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
50217616 GGGTATTTC-AGTAATTCTACCCTACAG
1 GGGTATTTCGA-TAATTCTACCCTACAG
* *
50217643 AGGTATTT-TAGTAATTCTACCCTACAG
1 GGGTATTTCGA-TAATTCTACCCTACAG
* * * *
50217670 GGGTATTTCGGTAATTCTATCTTACAA
1 GGGTATTTCGATAATTCTACCCTACAG
* *
50217697 GGGTATTT-TAGTAATTCTACCTTACAG
1 GGGTATTTCGA-TAATTCTACCCTACAG
* *
50217724 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
* *
50217751 GGGTATTTCAATAATTCTACCTTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
* * *
50217778 GGGTATTTCGGTAATTTTACCCTATAG
1 GGGTATTTCGATAATTCTACCCTACAG
*
50217805 GGGTATTTCGGTAATTCTA-CCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
* *
50217831 GGGTATTTC-AGTAATGCTAGCCTACA
1 GGGTATTTCGA-TAATTCTACCCTACA
50217857 TATATTTCGG
Statistics
Matches: 301, Mismatches: 35, Indels: 24
0.84 0.10 0.07
Matches are distributed among these distances:
26 45 0.15
27 256 0.85
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGATAATTCTACCCTACAG
Found at i:50217530 original size:54 final size:53
Alignment explanation
Indices: 50217465--50217856 Score: 475
Period size: 54 Copynumber: 7.3 Consensus size: 53
50217455 AGGCAAAATG
* * *
50217465 GTAATTTTACCCCACGAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTAC-AGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * *
50217519 GTATTTCTACCCTACAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* *
50217572 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACA-GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* *
50217626 GTAATTCTACCCTACAGAGGTATTT-TAGTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAG-GGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCA
* * * * *
50217680 GTAATTCTATCTTACAAGGGTATTT-TAGTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTAC-AGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCA
* * * *
50217734 GTAATTCTACCTTACAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACA-GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * *
50217788 GTAATTTTACCCTATAGGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCA
1 GTAATTCTACCCTACA-GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* *
50217841 GTAATGCTAGCCTACA
1 GTAATTCTACCCTACA
50217857 TATATTTCGG
Statistics
Matches: 303, Mismatches: 29, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
53 79 0.26
54 221 0.73
55 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (53 bp):
GTAATTCTACCCTACAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
Found at i:50217650 original size:81 final size:81
Alignment explanation
Indices: 50217493--50217845 Score: 521
Period size: 81 Copynumber: 4.4 Consensus size: 81
50217483 GGTATCTCGA
* * * *
50217493 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACA-AGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCC
50217557 TACAGGGGTATTTCAG
66 TACAGGGGTATTTCAG
*
50217573 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCC
* *
50217638 TACAGAGGTATTTTAG
66 TACAGGGGTATTTCAG
* * * * *
50217654 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTATCTTACAAGGGTATTTTAGTAATTCTACCT
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCC
*
50217719 TACAGGGGTATTTCGG
66 TACAGGGGTATTTCAG
* * * *
50217735 TAATTCTACCTTACAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTCGGTAATTTTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCC
* *
50217800 TATAGGGGTATTTCGG
66 TACAGGGGTATTTCAG
50217816 TAATTCTA-CCTACAGGGGTATTTCAGTAAT
1 TAATTCTACCCTACAGGGGTATTTCAGTAAT
50217846 GCTAGCCTAC
Statistics
Matches: 246, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
80 59 0.24
81 187 0.76
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCC
TACAGGGGTATTTCAG
Found at i:50225123 original size:44 final size:44
Alignment explanation
Indices: 50225055--50225138 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
50225045 ATTACATGTA
** *
50225055 TCGCATCCATAAAGAACTTGGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAAAGAACTCAGACCAACTCAACGAGATCGGATGC
* *
50225099 TCGCATCCATAATA-AACTCAGACCAATTCAATGAGATCGG
1 TCGCATCCATAA-AGAACTCAGACCAACTCAACGAGATCGG
50225139 TTGCCCCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 33 0.97
45 1 0.03
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (44 bp):
TCGCATCCATAAAGAACTCAGACCAACTCAACGAGATCGGATGC
Found at i:50229541 original size:30 final size:30
Alignment explanation
Indices: 50229502--50229570 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
50229492 ATGGCCTAGC
* *
50229502 CACACGGGCATGTATCGCACACAGCCAACA
1 CACATGGGCATGTATCACACACAGCCAACA
** *
50229532 CACATGGGCATGTATCACACATGGGCAACA
1 CACATGGGCATGTATCACACACAGCCAACA
50229562 CACATGGGC
1 CACATGGGC
50229571 GTGTGACCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (30 bp):
CACATGGGCATGTATCACACACAGCCAACA
Found at i:50229565 original size:13 final size:13
Alignment explanation
Indices: 50229527--50229570 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 13
50229517 CGCACACAGC
50229527 CAACACACATGGG
1 CAACACACATGGG
50229540 CATGTATCACACATGGG
1 CA---A-CACACATGGG
50229557 CAACACACATGGG
1 CAACACACATGGG
50229570 C
1 C
50229571 GTGTGACCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 13 0.48
14 1 0.04
16 1 0.04
17 12 0.44
ACGTcount: A:0.34, C:0.30, G:0.23, T:0.14
Consensus pattern (13 bp):
CAACACACATGGG
Found at i:50231717 original size:18 final size:18
Alignment explanation
Indices: 50231691--50231725 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50231681 TCTTCTTTAA
*
50231691 TCTTTAACCTTCCATCTT
1 TCTTAAACCTTCCATCTT
*
50231709 TCTTAAACCTTTCATCT
1 TCTTAAACCTTCCATCT
50231726 CCTTGTAACC
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:0.20, C:0.31, G:0.00, T:0.49
Consensus pattern (18 bp):
TCTTAAACCTTCCATCTT
Found at i:50231788 original size:2 final size:2
Alignment explanation
Indices: 50231781--50231810 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50231771 CTAATCTCCC
50231781 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50231811 GTGGAGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50240477 original size:14 final size:14
Alignment explanation
Indices: 50240458--50240485 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50240448 TGGATTCGAA
50240458 GAAATCATTATTTT
1 GAAATCATTATTTT
50240472 GAAATCATTATTTT
1 GAAATCATTATTTT
50240486 TTTAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAAATCATTATTTT
Found at i:50240562 original size:18 final size:19
Alignment explanation
Indices: 50240527--50240562 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
50240517 TGATTTTTTT
*
50240527 TTTGAATCAACTCGAATAC
1 TTTGAATCAACTCAAATAC
50240546 TTTGAAT-AACTCAAATA
1 TTTGAATCAACTCAAATA
50240563 ATAAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (19 bp):
TTTGAATCAACTCAAATAC
Found at i:50242115 original size:12 final size:11
Alignment explanation
Indices: 50242084--50242116 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
50242074 GAAATTATAG
50242084 AAAAATATTTA
1 AAAAATATTTA
50242095 AAAAATATTTA
1 AAAAATATTTA
50242106 AAATAATATTT
1 AAA-AATATTT
50242117 CACAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAAATATTTA
Found at i:50249347 original size:18 final size:20
Alignment explanation
Indices: 50249305--50249347 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50249295 AACTGAAATA
*
50249305 TAAAATATAAAATATCTTTT
1 TAAAATATAAAATATCTTAT
*
50249325 TAAAATATAACAT-T-TTAT
1 TAAAATATAAAATATCTTAT
50249343 TAAAA
1 TAAAA
50249348 ATTATAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 1 0.05
20 12 0.57
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAATATAAAATATCTTAT
Found at i:50250856 original size:26 final size:29
Alignment explanation
Indices: 50250815--50250868 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
50250805 TATGCTATTT
*
50250815 TTTTTGAATTTATGAA-TT-TTTTATATC
1 TTTTTGAATATATGAATTTATTTTATATC
50250842 TTTTTGAATAT-TGAATTTATTTTATAT
1 TTTTTGAATATATGAATTTATTTTATAT
50250869 TTTAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 12 0.50
28 8 0.33
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (29 bp):
TTTTTGAATATATGAATTTATTTTATATC
Found at i:50250871 original size:26 final size:27
Alignment explanation
Indices: 50250815--50250871 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
50250805 TATGCTATTT
* *
50250815 TTTTTGAATTTATGAATTTTTTATATC
1 TTTTTGAATATATGAATTTTTTATATA
50250842 TTTTTGAATAT-TGAATTTATTT-TATA
1 TTTTTGAATATATGAATTT-TTTATATA
50250868 TTTT
1 TTTT
50250872 AATATTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (27 bp):
TTTTTGAATATATGAATTTTTTATATA
Found at i:50254933 original size:42 final size:41
Alignment explanation
Indices: 50254821--50254933 Score: 111
Period size: 44 Copynumber: 2.7 Consensus size: 41
50254811 TTCCAATGTG
* * **
50254821 TGATTTCATGTAAGACCATGTTTAGGACGTTGGCATCGATT
1 TGATTTCATGTAAGACCATGTTTGGGACATCAGCATCGATT
* *
50254862 TGAGATTT-ATGTGCAAGACTATGTCTGGGACATCAGCATCGCATT
1 T--GATTTCATGT--AAGACCATGTTTGGGACATCAGCATCG-ATT
*
50254907 TGATTTCATGTAAGACCCTGTTTGGGA
1 TGATTTCATGTAAGACCATGTTTGGGA
50254934 TAGTGGCATT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
41 1 0.02
42 17 0.30
43 10 0.18
44 25 0.44
45 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (41 bp):
TGATTTCATGTAAGACCATGTTTGGGACATCAGCATCGATT
Found at i:50260545 original size:40 final size:40
Alignment explanation
Indices: 50260467--50260653 Score: 183
Period size: 40 Copynumber: 4.8 Consensus size: 40
50260457 GGATATAACG
* **
50260467 ACTCGCTCGAATGCCTT-GGGACAAAGCCC-GGTTATAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGGTT-TAGTA
*
50260506 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGGTTTAGTA
* *
50260546 ACTCGCACAAATGCCTTCGGG-CTTAGCCC-GGATT--TA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGGTTTAGTA
* * * *
50260582 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAGCCCGGGTTTAGTA
* *
50260622 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
50260654 ACATCATTCA
Statistics
Matches: 123, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
35 2 0.02
36 19 0.15
37 7 0.06
38 6 0.05
39 23 0.19
40 54 0.44
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGGTTTAGTA
Found at i:50260600 original size:76 final size:77
Alignment explanation
Indices: 50260504--50260654 Score: 209
Period size: 76 Copynumber: 2.0 Consensus size: 77
50260494 CCGGTTATAG
* * *
50260504 TAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAAC-TCGCACAAATGCCTTCGGG
1 TAACTCGCACGAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAA-GCCTTCGGG
50260567 -CTTAGCCCGGATT
64 ACTTAGCCCGGATT
** *
50260580 TAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGAC
1 TAACTCGCACGAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGAC
50260645 TTAGCCCGGA
66 TTAGCCCGGA
50260655 CATCATTCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
75 3 0.05
76 44 0.67
77 19 0.29
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (77 bp):
TAACTCGCACGAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGAC
TTAGCCCGGATT
Found at i:50265859 original size:43 final size:43
Alignment explanation
Indices: 50265790--50265953 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 43
50265780 TTCCGATGTG
* * * *
50265790 TGATTT-CATGTAAGACCACGTTTGGGACGTTGGCATCG-ATT
1 TGATTTACGTGTAAGACCACGTCTAGGACATTGGCATCGTATT
* * * *
50265831 TGAGTTTACGTGTAAGACCATGTCTGGGACATTGACATCGTTTT
1 TGA-TTTACGTGTAAGACCACGTCTAGGACATTGGCATCGTATT
** * *
50265875 TGATTT-CGTGTAAGACCTTGGCTAGGACACTGGCATCGATATT
1 TGATTTACGTGTAAGACCACGTCTAGGACATTGGCATCG-TATT
* * * *
50265918 TGA-TTACATGTAAGACCACATCCAGGACGTTGGCAT
1 TGATTTACGTGTAAGACCACGTCTAGGACATTGGCAT
50265954 TAAATTAGCT
Statistics
Matches: 98, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 3 0.03
42 32 0.33
43 58 0.59
44 5 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCACGTCTAGGACATTGGCATCGTATT
Found at i:50265903 original size:42 final size:43
Alignment explanation
Indices: 50265828--50265935 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
50265818 GTTGGCATCG
* * *
50265828 ATTTGAGTTTACGTGTAAGACCATGTCTGGGACATTGACATCG-T
1 ATTTGA-TTT-CGTGTAAGACCATGGCTAGGACACTGACATCGAT
* * *
50265872 TTTTGATTTCGTGTAAGACCTTGGCTAGGACACTGGCATCGAT
1 ATTTGATTTCGTGTAAGACCATGGCTAGGACACTGACATCGAT
* *
50265915 ATTTGATTACATGTAAGACCA
1 ATTTGATTTCGTGTAAGACCA
50265936 CATCCAGGAC
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 27 0.51
43 21 0.40
44 5 0.09
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (43 bp):
ATTTGATTTCGTGTAAGACCATGGCTAGGACACTGACATCGAT
Found at i:50268158 original size:6 final size:6
Alignment explanation
Indices: 50268147--50268179 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
50268137 TAAATTGTAA
50268147 AATCCC AATCCC AATCCC AATCCC AATCCC AAT
1 AATCCC AATCCC AATCCC AATCCC AATCCC AAT
50268180 TGCAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.18
Consensus pattern (6 bp):
AATCCC
Found at i:50272954 original size:40 final size:41
Alignment explanation
Indices: 50272909--50273038 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 41
50272899 CGGAATATAA
50272909 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
50272949 CCGGATAGAATGACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGTGCACAAATGCCTTCGGGTCTTAGC
* * * *
50272989 CCGGATGTAGCCACTAGT--ACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GTGCACAAATGCCTTCGGGTCTTAGC
50273029 CCGGATATAA
1 CCGGATATAA
50273039 TTTCCAGCAT
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
40 70 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (41 bp):
CCGGATATAACCACTGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:50273059 original size:80 final size:80
Alignment explanation
Indices: 50272927--50273074 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
50272917 AACCATGTGC
* *
50272927 ACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCCCG
1 ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCCCG
50272992 GATGTAGCCACTAGT
66 GATGTAGCCACTAGT
* * ** * *
50273007 ACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAGCC
1 ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAGCC
50273070 CGGAT
64 CGGAT
50273075 ATCATTCAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 55 0.95
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (80 bp):
ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCCCG
GATGTAGCCACTAGT
Found at i:50282365 original size:30 final size:30
Alignment explanation
Indices: 50282331--50282403 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
50282321 AGGGTAACCG
50282331 ACACGCCCGTGTGAGACACACGGGCAGACC
1 ACACGCCCGTGTGAGACACACGGGCAGACC
50282361 ACACGCCCGTGTGAGACACACGGGCAGACC
1 ACACGCCCGTGTGAGACACACGGGCAGACC
*
50282391 ACACACCCGTGTG
1 ACACGCCCGTGTG
50282404 CCATGGTCGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.26, C:0.37, G:0.29, T:0.08
Consensus pattern (30 bp):
ACACGCCCGTGTGAGACACACGGGCAGACC
Found at i:50282382 original size:17 final size:17
Alignment explanation
Indices: 50282331--50282382 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
50282321 AGGGTAACCG
50282331 ACACGCCCGTGTGAGAC
1 ACACGCCCGTGTGAGAC
*
50282348 ACACG---G-G-CAGACC
1 ACACGCCCGTGTGAGA-C
50282361 ACACGCCCGTGTGAGAC
1 ACACGCCCGTGTGAGAC
50282378 ACACG
1 ACACG
50282383 GGCAGACCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 7 0.26
14 1 0.04
16 1 0.04
17 12 0.44
18 3 0.11
ACGTcount: A:0.27, C:0.37, G:0.29, T:0.08
Consensus pattern (17 bp):
ACACGCCCGTGTGAGAC
Found at i:50286427 original size:40 final size:40
Alignment explanation
Indices: 50286383--50286492 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 40
50286373 TTCACAATTT
* *
50286383 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * * *
50286423 GCACAATTGCCTTCAGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * * *
50286463 GTATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
50286493 ATCATTCAAT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:50292268 original size:6 final size:6
Alignment explanation
Indices: 50292253--50292290 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
50292243 ACTGAGTCCA
*
50292253 TTTATC TTTATT TTTATT TTTATT TTT-TT GTTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT TT
50292291 GTTTTCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 2 0.07
6 25 0.86
7 2 0.07
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:50297317 original size:24 final size:24
Alignment explanation
Indices: 50297285--50297369 Score: 152
Period size: 24 Copynumber: 3.5 Consensus size: 24
50297275 AATCTCAAAT
*
50297285 GCACTATGTGTGCTATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
50297309 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
50297333 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
50297357 GCACTATGTGTGC
1 GCACTATGTGTGC
50297370 CAACATAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.38
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:50297384 original size:48 final size:48
Alignment explanation
Indices: 50297285--50297393 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 48
50297275 AATCTCAAAT
* * ** *
50297285 GCACTATGTGTGCTATTTACTATGGCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCAACATAATATA
50297333 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCCAACATAATA-A
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTG-CAACATAATATA
50297381 GCACTATGTGTGC
1 GCACTATGTGTGC
50297394 AACGTTTGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 49 0.89
49 6 0.11
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCAACATAATATA
Found at i:50306624 original size:53 final size:54
Alignment explanation
Indices: 50306554--50306753 Score: 197
Period size: 53 Copynumber: 3.7 Consensus size: 54
50306544 TTTCCTTTTT
* * * *
50306554 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
50306607 GAACTCACCAATACCATGCCTTGGCATGGTCTCACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * * * * * *
50306661 GTAACTCATCAATGGCATGTCTTGACATGGTCTTACATGATTTACTTTCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * **
50306716 GAACTTATCAATGCCATGCCTTGGTATGGTCTTACATG
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
50306754 ATAACCTTAT
Statistics
Matches: 119, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
52 2 0.02
53 42 0.35
54 33 0.28
55 41 0.34
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Done.