Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 148 of 310
Found at i:48349166 original size:18 final size:19
Alignment explanation
Indices: 48349130--48349167 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
48349120 TTTAAAAAAT
*
48349130 ATAATCTAACTTTTCCTAA
1 ATAATCTAACTTTTACTAA
*
48349149 ATAAT-TAATTTTTACTAA
1 ATAATCTAACTTTTACTAA
48349167 A
1 A
48349168 GAAGTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATCTAACTTTTACTAA
Found at i:48358330 original size:23 final size:23
Alignment explanation
Indices: 48358304--48358352 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
48358294 TGTTTTATAG
*
48358304 TTTTTAATTATTATTTGATAAA-A
1 TTTTGAATTATTATTT-ATAAATA
* *
48358327 TTTTGAGTTCTTATTTATAAATA
1 TTTTGAATTATTATTTATAAATA
48358350 TTT
1 TTT
48358353 AAAAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (23 bp):
TTTTGAATTATTATTTATAAATA
Found at i:48362935 original size:26 final size:25
Alignment explanation
Indices: 48362872--48362936 Score: 62
Period size: 28 Copynumber: 2.5 Consensus size: 25
48362862 CTTAACCCGA
*
48362872 ATATA-TTATATTATAAATATAATT
1 ATATATTTATATTATAAATATAAAT
48362896 ATATTAATTATATATGT-TAAATAATAAAT
1 ATA-T-ATT-TATAT-TATAAAT-ATAAAT
48362925 ATATATTTATAT
1 ATATATTTATAT
48362937 CAAATCACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
24 3 0.09
25 1 0.03
26 6 0.18
27 4 0.12
28 11 0.32
29 9 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATATATTTATATTATAAATATAAAT
Found at i:48365989 original size:23 final size:21
Alignment explanation
Indices: 48365948--48365991 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
48365938 ATATAAGTAT
48365948 AAATAATTATATAAACAAATA
1 AAATAATTATATAAACAAATA
*
48365969 AAATAACTTAATATAAGCAAATA
1 AAATAA-TT-ATATAAACAAATA
48365992 TTTATATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 12 0.60
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAATTATATAAACAAATA
Found at i:48366000 original size:16 final size:16
Alignment explanation
Indices: 48365979--48366012 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48365969 AAATAACTTA
*
48365979 ATATAAGCAAATATTT
1 ATATAACCAAATATTT
48365995 ATATAACCAAATATTT
1 ATATAACCAAATATTT
48366011 AT
1 AT
48366013 TTTATGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (16 bp):
ATATAACCAAATATTT
Found at i:48370988 original size:19 final size:19
Alignment explanation
Indices: 48370964--48371005 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
48370954 CATTCGGCTA
* *
48370964 TGTGGAACGCCCCAGACCG
1 TGTGGAACACCCCAAACCG
48370983 TGTGGAACACCCCAAACCG
1 TGTGGAACACCCCAAACCG
48371002 TGTG
1 TGTG
48371006 ACTTTCGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (19 bp):
TGTGGAACACCCCAAACCG
Found at i:48371185 original size:19 final size:19
Alignment explanation
Indices: 48371161--48371202 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
48371151 CATTCGGCTA
* *
48371161 TGTGGAACGCCCCAGACCG
1 TGTGGAACACCCCAAACCG
48371180 TGTGGAACACCCCAAACCG
1 TGTGGAACACCCCAAACCG
48371199 TGTG
1 TGTG
48371203 ACTTTTGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (19 bp):
TGTGGAACACCCCAAACCG
Found at i:48371215 original size:197 final size:197
Alignment explanation
Indices: 48370878--48371271 Score: 761
Period size: 197 Copynumber: 2.0 Consensus size: 197
48370868 AGAAATAATC
48370878 TTAAAACTCTCAAGGACTAATTTGAAAACAAGTCAGGAAATTTTAAGAAAATATGAAAATTTTCA
1 TTAAAACTCTCAAGGACTAATTTGAAAACAAGTCAGGAAATTTTAAGAAAATATGAAAATTTTCA
48370943 AAAACAAGGGACATTCGGCTATGTGGAACGCCCCAGACCGTGTGGAACACCCCAAACCGTGTGAC
66 AAAACAAGGGACATTCGGCTATGTGGAACGCCCCAGACCGTGTGGAACACCCCAAACCGTGTGAC
48371008 TTTCGAAGTTGAGACACACGACCGTGTCCCAGCCCCTGTCTCTACCATTGCAACTCACTAACTTG
131 TTTCGAAGTTGAGACACACGACCGTGTCCCAGCCCCTGTCTCTACCATTGCAACTCACTAACTTG
48371073 AT
196 AT
*
48371075 TTAAAACTCTCAAGGACTAATTTGAAAACAAGTTAGGAAATTTTAAGAAAATATGAAAATTTTCA
1 TTAAAACTCTCAAGGACTAATTTGAAAACAAGTCAGGAAATTTTAAGAAAATATGAAAATTTTCA
48371140 AAAACAAGGGACATTCGGCTATGTGGAACGCCCCAGACCGTGTGGAACACCCCAAACCGTGTGAC
66 AAAACAAGGGACATTCGGCTATGTGGAACGCCCCAGACCGTGTGGAACACCCCAAACCGTGTGAC
* *
48371205 TTTTGAAGTTGAGACACACGACCGTGTCCCAGCCCCTGTCTCTACCCTTGCAACTCACTAACTTG
131 TTTCGAAGTTGAGACACACGACCGTGTCCCAGCCCCTGTCTCTACCATTGCAACTCACTAACTTG
48371270 AT
196 AT
48371272 ACACACACCC
Statistics
Matches: 194, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 194 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (197 bp):
TTAAAACTCTCAAGGACTAATTTGAAAACAAGTCAGGAAATTTTAAGAAAATATGAAAATTTTCA
AAAACAAGGGACATTCGGCTATGTGGAACGCCCCAGACCGTGTGGAACACCCCAAACCGTGTGAC
TTTCGAAGTTGAGACACACGACCGTGTCCCAGCCCCTGTCTCTACCATTGCAACTCACTAACTTG
AT
Found at i:48372466 original size:19 final size:19
Alignment explanation
Indices: 48372442--48372482 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
48372432 AATTCCAACG
* *
48372442 GTGGAACGCCCCAGACCGT
1 GTGGAACACCCCAAACCGT
48372461 GTGGAACACCCCAAACCGT
1 GTGGAACACCCCAAACCGT
48372480 GTG
1 GTG
48372483 ACTTTCGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.34, G:0.29, T:0.12
Consensus pattern (19 bp):
GTGGAACACCCCAAACCGT
Found at i:48372662 original size:19 final size:19
Alignment explanation
Indices: 48372638--48372679 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
48372628 CATTCGGCTA
* *
48372638 TGTGGAACGCCCCAGACCG
1 TGTGGAACACCCCAAACCG
48372657 TGTGGAACACCCCAAACCG
1 TGTGGAACACCCCAAACCG
48372676 TGTG
1 TGTG
48372680 ACTTTTGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (19 bp):
TGTGGAACACCCCAAACCG
Found at i:48376615 original size:43 final size:44
Alignment explanation
Indices: 48376464--48376615 Score: 161
Period size: 43 Copynumber: 3.5 Consensus size: 44
48376454 GATTAACAAG
** * *
48376464 ATGTGATTATGTGTAAGACTAT-GTCTGAGACATTGGCATC-ATT
1 ATGTGATTACATGTAAGACCATAGTCTGGGACATTGGCATCGA-T
* *
48376507 ATGTGATTACGTGTAAGACCAT-GTCTGGGACATTGGCATCGTT
1 ATGTGATTACATGTAAGACCATAGTCTGGGACATTGGCATCGAT
* * *
48376550 ATTTGATTTCATGCAAGACCATAGT-TGGG-CTATTGGCATCGAT
1 ATGTGATTACATGTAAGACCATAGTCTGGGAC-ATTGGCATCGAT
*
48376593 ATGTGATAACATGTAAGACCATA
1 ATGTGATTACATGTAAGACCATA
48376616 TCTAAGATAT
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.01
43 90 0.97
44 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATAGTCTGGGACATTGGCATCGAT
Found at i:48378993 original size:58 final size:58
Alignment explanation
Indices: 48378903--48379022 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
48378893 AAGGATACTC
48378903 GGGAACTCTCATACACATGGTAGGATGCCAATGCCATATCCTGGATATGGTCTTACAT
1 GGGAACTCTCATACACATGGTAGGATGCCAATGCCATATCCTGGATATGGTCTTACAT
48378961 GGGAACTCTCATACACATGGTAGGATGCCAATGCCATATCCTGGATATGGTCTTACAT
1 GGGAACTCTCATACACATGGTAGGATGCCAATGCCATATCCTGGATATGGTCTTACAT
48379019 GGGA
1 GGGA
48379023 TCACATATCG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (58 bp):
GGGAACTCTCATACACATGGTAGGATGCCAATGCCATATCCTGGATATGGTCTTACAT
Found at i:48379037 original size:48 final size:48
Alignment explanation
Indices: 48378984--48379164 Score: 169
Period size: 48 Copynumber: 3.9 Consensus size: 48
48378974 CACATGGTAG
*
48378984 GATGCCAATGCCATATCCTGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCTGGACATGGTCTTACATGGGATCACATATC
* **
48379032 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCTGGACATGGTCTTACATGGGATCACATATC
* * * * ** *
48379080 GATGCC---G--ATAGCCTAG-CTATAGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATATCCTGGAC-ATGGTCTTACATGGGATCACATATC
* * *
48379123 GATGCCAAAGCCATGTCCCAGG-CATGGTCTTACATGGGATCA
1 GATGCCAATGCCATAT-CCTGGACATGGTCTTACATGGGATCA
48379165 TACATAACCC
Statistics
Matches: 105, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.01
43 32 0.30
45 1 0.01
46 1 0.01
48 66 0.63
49 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCTGGACATGGTCTTACATGGGATCACATATC
Found at i:48385787 original size:40 final size:40
Alignment explanation
Indices: 48385706--48385886 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
48385696 AAACCAAGTA
** * *
48385706 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
48385745 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
48385785 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
48385825 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
48385865 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
48385887 CAATCCGAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 26 0.20
40 102 0.80
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:48388460 original size:29 final size:27
Alignment explanation
Indices: 48388442--48388511 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
48388432 ATATTAAGTC
48388442 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
48388469 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
48388497 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
48388512 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:48388505 original size:28 final size:28
Alignment explanation
Indices: 48388442--48388539 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
48388432 ATATTAAGTC
*
48388442 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48388469 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48388497 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48388526 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48388540 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48396624 original size:28 final size:28
Alignment explanation
Indices: 48396561--48396686 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
48396551 ATATTAAGTC
*
48396561 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
48396588 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
48396616 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48396644 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48396673 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48396687 CAATCTCATG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.23
28 50 0.56
29 19 0.21
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48396631 original size:55 final size:57
Alignment explanation
Indices: 48396560--48396686 Score: 186
Period size: 55 Copynumber: 2.3 Consensus size: 57
48396550 TATATTAAGT
* *
48396560 CCGCACACTCAGTGCTATATAATC-AACTCACACACTTAGTGCTATATAA-TCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCACACACTTAGTGCTATACAATTCAAAC
* * * *
48396615 TCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCACACACTTAGTGCTATACAATTCAAAC
48396672 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
48396687 CAATCTCATG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
55 22 0.35
56 22 0.35
57 19 0.30
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCACACACTTAGTGCTATACAATTCAAAC
Found at i:48408053 original size:40 final size:40
Alignment explanation
Indices: 48407972--48408152 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
48407962 AAACCAAGTA
** * *
48407972 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
48408011 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
48408051 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
48408091 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
48408131 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
48408153 CAATCCGAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
39 26 0.20
40 106 0.80
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:48424565 original size:52 final size:51
Alignment explanation
Indices: 48424445--48424622 Score: 247
Period size: 52 Copynumber: 3.5 Consensus size: 51
48424435 ACTAGTGACT
*
48424445 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
* *
48424494 CAAGTTTGGTACTATGTGAAGGCCACTTTGTGAAGAAATATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* *
48424546 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
*
48424597 CAAG-GATGGTACTATGTGCAGGCCAC
1 CAAGTG-TGGTACTATGTGAAGGCCAC
48424623 CGGGTATCCG
Statistics
Matches: 116, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
49 33 0.28
50 3 0.03
51 39 0.34
52 41 0.35
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:48431493 original size:47 final size:47
Alignment explanation
Indices: 48431441--48432552 Score: 2019
Period size: 47 Copynumber: 23.6 Consensus size: 47
48431431 GATAATTGTG
* * *
48431441 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
*
48431488 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT--ATGTGATAAGTCCTAATGGCCGATGTGATGA
48431537 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48431584 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48431631 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48431678 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48431725 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48431772 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48431819 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48431866 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48431913 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48431960 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48432007 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48432054 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48432101 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48432148 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48432195 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48432242 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
48432289 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
* *
48432336 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
* * *
48432383 ATGTGAAAGTGTATATATGTGATGAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
* * *
48432430 ATGTGAAAGTGTATATATGTGATGAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
* * * * * *
48432477 ATGTGAAAGTGTATATATGTGACAGAG-CCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATA-AGTCCTAATGGCCGATGTGATGA
*
48432524 ATGTGAAAGTGTATAAATGTGATAAGTCC
1 ATGTGAAAGTGTATATATGTGATAAGTCC
48432553 CGAAGGGCAA
Statistics
Matches: 1045, Mismatches: 16, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
46 2 0.00
47 994 0.95
48 2 0.00
49 47 0.04
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGA
Found at i:48438954 original size:26 final size:26
Alignment explanation
Indices: 48438925--48438999 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
48438915 CACCAATATT
* * *
48438925 GCAGCAAGGCTGCCAGTAATAGTATC
1 GCAGCAAAGCTACCAGTAACAGTATC
* *
48438951 GCAGCAAAACTACTAGTAACAGTATC
1 GCAGCAAAGCTACCAGTAACAGTATC
48438977 GCAGCAAAGCTACCAGTAACAGT
1 GCAGCAAAGCTACCAGTAACAGT
48439000 TTGTGGCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (26 bp):
GCAGCAAAGCTACCAGTAACAGTATC
Found at i:48439016 original size:25 final size:27
Alignment explanation
Indices: 48438980--48439041 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
48438970 CAGTATCGCA
* *
48438980 GCAAAGCTACCAGTAACAGT-T-TGTG
1 GCAAAGCCACCAGAAACAGTATATGTG
*
48439005 GCAAAGCCACCAGAAATAGTATATGTG
1 GCAAAGCCACCAGAAACAGTATATGTG
*
48439032 GCGAAGCCAC
1 GCAAAGCCAC
48439042 AGGTATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 17 0.55
26 1 0.03
27 13 0.42
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
GCAAAGCCACCAGAAACAGTATATGTG
Found at i:48439202 original size:27 final size:27
Alignment explanation
Indices: 48439152--48439203 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
48439142 ATCATAGCCC
*
48439152 AAATCAGTCATTTACCCTCGAGGGGTA
1 AAATCAGTCATTTACCCTAGAGGGGTA
*
48439179 AAAT-AGTCATTTTACCCTATAGGGG
1 AAATCAGTCA-TTTACCCTAGAGGGG
48439204 AATTTTGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTAGAGGGGTA
Found at i:48450941 original size:49 final size:49
Alignment explanation
Indices: 48450885--48451066 Score: 220
Period size: 49 Copynumber: 3.7 Consensus size: 49
48450875 CTAGTACGCA
* *
48450885 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTGCACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * * ** * *
48450934 TAGTAGCCTGCACTTACTACTACACACGTGATCGAAGCTATTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
* *
48450985 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* *
48451034 TAGTAGACTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
48451067 TCACAATAGA
Statistics
Matches: 110, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 67 0.61
50 6 0.05
51 37 0.34
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:48451012 original size:100 final size:100
Alignment explanation
Indices: 48450878--48451064 Score: 320
Period size: 100 Copynumber: 1.9 Consensus size: 100
48450868 AAGCTATCTA
* * *
48450878 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTGCACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGACT
48450943 GCACTTACTACTACACACGTGATCGAAGCTATTGG
66 GCACTTACTACTACACACGTGATCGAAGCTATTGG
* *
48450978 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCTGGTACACGTAGTAGACT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGACT
*
48451043 GCACTTAGTACTACACACGTGA
66 GCACTTACTACTACACACGTGA
48451065 CCTCACAATA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGACT
GCACTTACTACTACACACGTGATCGAAGCTATTGG
Found at i:48451342 original size:27 final size:27
Alignment explanation
Indices: 48451312--48451365 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
48451302 TCATACAACC
* *
48451312 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
48451339 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
48451366 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:48453850 original size:28 final size:29
Alignment explanation
Indices: 48453814--48453878 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
48453804 AAAGTGATTT
* * *
48453814 TTGACAAAAATGTCAATT-AGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
48453842 TTGAGAAAAGTGTAAATTGAGGGATTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
48453871 TTGAGAAA
1 TTGAGAAA
48453879 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.28
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:48457211 original size:44 final size:43
Alignment explanation
Indices: 48457158--48457320 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 43
48457148 TCGCATCTGT
* * *
48457158 TATGAACTCGGACCAACTCAATGAGCTCGGATGCTCGCATCCA
1 TATGAACTCGGACCAACTCAACGAGCTCGGATGCTCACATACA
* *
48457201 TAATGAACTCGGACCAACTCAATGAGCTAGGATGCTTCACATACA
1 T-ATGAACTCGGACCAACTCAACGAGCTCGGATGC-TCACATACA
* * * * *
48457246 CTATGAACTTGGACCAACTCAACAAGTTCAGAT--TCACATATA
1 -TATGAACTCGGACCAACTCAACGAGCTCGGATGCTCACATACA
*
48457288 TCACGAACTCGGACCAACTCAACGAGCTCGGAT
1 T-ATGAACTCGGACCAACTCAACGAGCTCGGAT
48457321 TTCTTAATTC
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 34 0.34
43 1 0.01
44 32 0.32
45 32 0.32
46 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (43 bp):
TATGAACTCGGACCAACTCAACGAGCTCGGATGCTCACATACA
Found at i:48462858 original size:18 final size:18
Alignment explanation
Indices: 48462832--48462871 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48462822 TGATACCATA
*
48462832 ATAAACATAATCATAAAC
1 ATAAACATAAGCATAAAC
* *
48462850 ATAATCATAGGCATAAAC
1 ATAAACATAAGCATAAAC
48462868 ATAA
1 ATAA
48462872 GTTTATTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (18 bp):
ATAAACATAAGCATAAAC
Found at i:48462865 original size:12 final size:12
Alignment explanation
Indices: 48462832--48462858 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48462822 TGATACCATA
48462832 ATAAACATAATC
1 ATAAACATAATC
48462844 ATAAACATAATC
1 ATAAACATAATC
48462856 ATA
1 ATA
48462859 GGCATAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAAACATAATC
Found at i:48465872 original size:24 final size:24
Alignment explanation
Indices: 48465845--48465893 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
48465835 AAGAAATCTT
*
48465845 ATTTTCCAATCGATAGAACGGTTC
1 ATTTTCCAATCGATAGAACAGTTC
*
48465869 ATTTTCCAGTCGATAGAACAGTTC
1 ATTTTCCAATCGATAGAACAGTTC
48465893 A
1 A
48465894 GCATGTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (24 bp):
ATTTTCCAATCGATAGAACAGTTC
Found at i:48467276 original size:21 final size:20
Alignment explanation
Indices: 48467233--48467284 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
48467223 ATTGTGAGCT
48467233 TTATGAAGTTTGATGATGAA
1 TTATGAAGTTTGATGATGAA
*
48467253 TTATGAAAGTTTGTTGAT-AGA
1 TTATG-AAGTTTGATGATGA-A
*
48467274 TTATCAAGTTT
1 TTATGAAGTTT
48467285 TGTAAAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (20 bp):
TTATGAAGTTTGATGATGAA
Found at i:48473579 original size:43 final size:41
Alignment explanation
Indices: 48473500--48473607 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 41
48473490 TAGTCAATTA
* *
48473500 GGATTACCCATCCGGCTAAATCCTTTTTATTCTGAAATCAAT
1 GGATTACCCATCGGGCTAAAT-CTTTCTATTCTGAAATCAAT
48473542 GGATTACCCATCTGGGCTAAATCTGTTCTATAT-TGAAATCAAT
1 GGATTACCCATC-GGGCTAAATCT-TTCTAT-TCTGAAATCAAT
* *
48473585 GGATTACTCATCCGGGATAAATC
1 GGATTACCCAT-CGGGCTAAATC
48473608 CTTTACATCA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
42 14 0.24
43 42 0.72
44 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (41 bp):
GGATTACCCATCGGGCTAAATCTTTCTATTCTGAAATCAAT
Found at i:48478511 original size:20 final size:20
Alignment explanation
Indices: 48478486--48478533 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
48478476 AACGAGAAAC
48478486 GGGCCAAAAATGGAGAAAAT
1 GGGCCAAAAATGGAGAAAAT
48478506 GGGCCAAAAATGGAGAAAAT
1 GGGCCAAAAATGGAGAAAAT
48478526 GGGCCAAA
1 GGGCCAAA
48478534 GTACGAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.31, T:0.08
Consensus pattern (20 bp):
GGGCCAAAAATGGAGAAAAT
Found at i:48488361 original size:18 final size:18
Alignment explanation
Indices: 48488338--48488373 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
48488328 AACTTTCTTT
48488338 TTATTATCTAGCCTAAAA
1 TTATTATCTAGCCTAAAA
48488356 TTATTATCTAGCCTAAAA
1 TTATTATCTAGCCTAAAA
48488374 AATAAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
TTATTATCTAGCCTAAAA
Found at i:48508214 original size:26 final size:27
Alignment explanation
Indices: 48508185--48508243 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
48508175 CATAACAATC
* *
48508185 ATTTTACCCTAGAGGGGTA-TTCGGTA
1 ATTTTACCCTACAAGGGTATTTCGGTA
*
48508211 ATTTTA-CTTACAAGGGTATTTCGGTA
1 ATTTTACCCTACAAGGGTATTTCGGTA
48508237 ATTTTAC
1 ATTTTAC
48508244 AAATCGAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGTATTTCGGTA
Found at i:48508954 original size:24 final size:24
Alignment explanation
Indices: 48508922--48508967 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
48508912 CGTTATACGC
48508922 CCACACGCGCGATCGCACGGTTCA
1 CCACACGCGCGATCGCACGGTTCA
48508946 CCACACGCGCGATCGCACGGTT
1 CCACACGCGCGATCGCACGGTT
48508968 GTGTGGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.41, G:0.26, T:0.13
Consensus pattern (24 bp):
CCACACGCGCGATCGCACGGTTCA
Found at i:48515536 original size:22 final size:22
Alignment explanation
Indices: 48515511--48515556 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
48515501 GAGTTAGAAA
48515511 ATATCCATAATTTGTTTCATGT
1 ATATCCATAATTTGTTTCATGT
48515533 ATATCCATAATTTGTTTCATGT
1 ATATCCATAATTTGTTTCATGT
48515555 AT
1 AT
48515557 CGATGTTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (22 bp):
ATATCCATAATTTGTTTCATGT
Found at i:48521488 original size:117 final size:117
Alignment explanation
Indices: 48521282--48521514 Score: 414
Period size: 117 Copynumber: 2.0 Consensus size: 117
48521272 GAAATGGGAT
*
48521282 CGAGTCACAATAGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAGAAGGATGCGATTTGGGT
1 CGAGTCACAATAGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAGAAGGACGCGATTTGGGT
48521347 TGTTGTCGATGGACTGACTAAGTCGGCTCACTTTATCCCCGTGCGTACGGAC
66 TGTTGTCGATGGACTGACTAAGTCGGCTCACTTTATCCCCGTGCGTACGGAC
* *
48521399 CGAGTCACAATGGACTTTGTGTCCGGACTGCCATTGTCCGCAAGTAAGAAGGACGCGATTTGGGT
1 CGAGTCACAATAGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAGAAGGACGCGATTTGGGT
*
48521464 TGTTGTTGATAGG-CTGACTAAGTCGGCTCACTTTATCCCCGTGCGTACGGA
66 TGTTGTCGAT-GGACTGACTAAGTCGGCTCACTTTATCCCCGTGCGTACGGA
48521515 TTTTTCATTG
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
117 109 0.98
118 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (117 bp):
CGAGTCACAATAGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAGAAGGACGCGATTTGGGT
TGTTGTCGATGGACTGACTAAGTCGGCTCACTTTATCCCCGTGCGTACGGAC
Found at i:48524326 original size:27 final size:27
Alignment explanation
Indices: 48524295--48524472 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48524285 TAAATTGTAC
48524295 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48524322 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48524348 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48524376 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
48524404 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48524431 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48524458 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48524473 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48524409 original size:82 final size:81
Alignment explanation
Indices: 48524296--48524451 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48524286 AAATTGTACA
* *
48524296 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48524360 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48524377 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48524442 TGCGAGTTGA
65 TGCGAATTGA
48524452 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48524463 original size:82 final size:81
Alignment explanation
Indices: 48524292--48524472 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
48524282 GATTAAATTG
* *
48524292 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48524357 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48524373 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48524437 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48524455 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48524473 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48526985 original size:30 final size:30
Alignment explanation
Indices: 48526949--48527011 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
48526939 TGAGACGGAA
*
48526949 CGGAATGTCGATATTGCGGTAAATGGCATT
1 CGGAATGCCGATATTGCGGTAAATGGCATT
48526979 CGGAATGCCGATATTGCGGTAAATGGCATT
1 CGGAATGCCGATATTGCGGTAAATGGCATT
48527009 CGG
1 CGG
48527012 GGAGTTGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (30 bp):
CGGAATGCCGATATTGCGGTAAATGGCATT
Found at i:48531523 original size:40 final size:40
Alignment explanation
Indices: 48531468--48531621 Score: 245
Period size: 40 Copynumber: 3.9 Consensus size: 40
48531458 GAGCATTTGA
48531468 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
48531508 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
48531548 ATATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* ** * *
48531588 CTATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
48531622 TTGTGGTAAT
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:48533703 original size:47 final size:47
Alignment explanation
Indices: 48533631--48533957 Score: 268
Period size: 47 Copynumber: 6.8 Consensus size: 47
48533621 GGGTATAATT
* *
48533631 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTGTCTCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCTCAAG
* * ** * *
48533678 TCAATGCCATGTCCCAGACATGGTCTTACACTAACTATCGTCATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTC-TC-AAG
* * * * *
48533727 CCAACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAT-ATCCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCTCA--AG
* * * ** *
48533775 TACCGATGCCATGTCCCAGACATTGTCTTACACTGACAACTC-TAGACATG
1 --CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCGT-CTCAAG
* ** *
48533825 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACTTAACGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CGTCTC-AAG
* *
48533873 TCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAACG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCTCAA-G
* * *
48533919 CCGATGTCATGTCCCAGACATTGTCTTCCACTGGCTCTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
48533958 ATAATGTGGA
Statistics
Matches: 227, Mismatches: 37, Indels: 31
0.77 0.13 0.11
Matches are distributed among these distances:
45 1 0.00
46 24 0.11
47 67 0.30
48 60 0.26
49 39 0.17
50 32 0.14
51 3 0.01
52 1 0.00
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCTCAAG
Found at i:48533851 original size:48 final size:49
Alignment explanation
Indices: 48533631--48533996 Score: 255
Period size: 47 Copynumber: 7.7 Consensus size: 49
48533621 GGGTATAATT
* * * ** *
48533631 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-CTTGTCTC-AAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTACTCGTAACGAGG
* * * *
48533678 TCAATGCCATGTCCCAGACATGGTCTTACACTAACTA-TCGTCATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTACTCGT-AACGAGG
* *
48533727 CCAACGCCATGTCCCAGACATGGTCTTACACT-AGCT-CTCGTATATCCGTA--
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTACTCGTA-A--CG-AGG
* * *
48533777 CCGATGCCATGTCCCAGACATTGTCTTACACTGACAACTC-TAGAC-ATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTACTCGTA-ACGAGG
*
48533825 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACT--TAACGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-TACTCGTAACGAGG
* ** * *
48533873 TCGATG-CATGTCCCAGACAT-GTCTTACACT-AGCT-CTCGTCTCAACG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTACTCGTAACGAGG
* * * * * * *
48533919 CCGATGTCATGTCCCAGACATTGTCTTCCACTGGCT-CTCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTACTCGTAACGAGG
* *
48533967 ACGATG-CATGTCCTAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
48533997 AGCTCACAAT
Statistics
Matches: 259, Mismatches: 39, Indels: 43
0.76 0.11 0.13
Matches are distributed among these distances:
44 2 0.01
45 1 0.00
46 30 0.12
47 77 0.30
48 68 0.26
49 41 0.16
50 33 0.13
51 6 0.02
52 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTACTCGTAACGAGG
Found at i:48533934 original size:94 final size:95
Alignment explanation
Indices: 48533631--48534000 Score: 339
Period size: 94 Copynumber: 3.9 Consensus size: 95
48533621 GGGTATAATT
* ** * *
48533631 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-TGTCTC-AAGTCAATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCT-TAACGAGGTCGATGCCATGTCCCA
* * *
48533694 GACATGGTCTTACACTAACTATCGTCATCGAGG
65 GACAT-GTCTTACACTAGCTATCGTC-TCAACG
* * * * *
48533727 CCAACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATCCGTA--CCGATGCCATGTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-T-TA-ACG-AGGTCGATGCCATGTC
*
48533790 CCAGACATTGTCTTACACT-GAC-AAC-TCT-AGACATG
62 CCAGACA-TGTCTTACACTAG-CTATCGTCTCA-AC--G
48533825 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACTTAACGAGGTCGATG-CATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CTTAACGAGGTCGATGCCATGTCCCA
*
48533888 GACATGTCTTACACTAGCTCTCGTCTCAACG
65 GACATGTCTTACACTAGCTATCGTCTCAACG
* * * * * * * *
48533919 CCGATGTCATGTCCCAGACATTGTCTTCCACTGGCTCTCATAATGTGGACGATG-CATGTCCTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTAACGAGGTCGATGCCATGTCCCAG
48533983 ACATGTCTTACACTAGCT
66 ACATGTCTTACACTAGCT
48534001 CACAATAACC
Statistics
Matches: 228, Mismatches: 28, Indels: 38
0.78 0.10 0.13
Matches are distributed among these distances:
94 86 0.38
95 18 0.08
96 48 0.21
97 5 0.02
98 39 0.17
99 30 0.13
100 1 0.00
101 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (95 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTAACGAGGTCGATGCCATGTCCCAG
ACATGTCTTACACTAGCTATCGTCTCAACG
Found at i:48533972 original size:142 final size:146
Alignment explanation
Indices: 48533681--48533997 Score: 366
Period size: 142 Copynumber: 2.2 Consensus size: 146
48533671 TCTCAAGTCA
*
48533681 ATGCCATGTCCCAGACATGGTCTTACACTAACTATCGTCATCGAGGCCAACGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTATCGTCAACGAGGCCAACGCCATGTCCCAGAC
*
48533746 ATGGTCTTACACTAGCTCTCGTATATCCGTACCGATGCCATGTCCCAGACATTGTCTTACACTGA
66 ATGGTCTTACACTAGCTCTCGTATATACG-ACCGATGCCATGTCCCAGACATTGTCTTACACTGA
*
48533811 CAACTCTAGACATGCCG
130 CAACTCTAGACATGACG
** * * * *
48533828 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-TAC-TTAACGAGGTCGATG-CATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTAT-CGTCAACGAGGCCAACGCCATGTCCCAGA
* * *
48533890 CAT-GTCTTACACTAGCTCTCGTCTCA-ACG-CCGATGTCATGTCCCAGACATTGTCTTCCACTG
65 CATGGTCTTACACTAGCTCTCGTAT-ATACGACCGATGCCATGTCCCAGACATTGTCTTACACTG
* * **
48533952 GC-TCTCATA-ATGTGGACG
129 ACAACTC-TAGACAT-GACG
*
48533970 ATG-CATGTCCTAGACAT-GTCTTACACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
48533998 GCTCACAATA
Statistics
Matches: 148, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
140 10 0.07
141 18 0.12
142 40 0.27
144 22 0.15
145 15 0.10
146 11 0.07
147 32 0.22
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (146 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACTATCGTCAACGAGGCCAACGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCGTATATACGACCGATGCCATGTCCCAGACATTGTCTTACACTGAC
AACTCTAGACATGACG
Found at i:48534686 original size:13 final size:13
Alignment explanation
Indices: 48534668--48534692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48534658 CTAAAAGTAA
48534668 AAAAATCATCAAG
1 AAAAATCATCAAG
48534681 AAAAATCATCAA
1 AAAAATCATCAA
48534693 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:48540193 original size:21 final size:22
Alignment explanation
Indices: 48540169--48540212 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
48540159 CGTGACACAG
48540169 GGGC-ACACGCCCATGTGAGAA
1 GGGCAACACGCCCATGTGAGAA
*
48540190 GGGCAACACGCCCGTGTGAGAA
1 GGGCAACACGCCCATGTGAGAA
48540212 G
1 G
48540213 CACAACACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.27, C:0.27, G:0.36, T:0.09
Consensus pattern (22 bp):
GGGCAACACGCCCATGTGAGAA
Found at i:48540218 original size:22 final size:22
Alignment explanation
Indices: 48540173--48540230 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
48540163 ACACAGGGGC
* **
48540173 ACACGCCCATGTGAGAAGGGCA
1 ACACGCCCGTGTGAGAAGCACA
48540195 ACACGCCCGTGTGAGAAGCACA
1 ACACGCCCGTGTGAGAAGCACA
* *
48540217 ACACACCTGTGTGA
1 ACACGCCCGTGTGA
48540231 CGATATCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.29, G:0.28, T:0.12
Consensus pattern (22 bp):
ACACGCCCGTGTGAGAAGCACA
Found at i:48541524 original size:48 final size:49
Alignment explanation
Indices: 48541325--48541652 Score: 186
Period size: 47 Copynumber: 6.9 Consensus size: 49
48541315 ATAGGGTACA
* * * * *
48541325 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-TGTCTC-
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACTATCACG
* * * * * *
48541372 AAGTCGATGTCATGACCCAAACATGGTCTTACACTAGCTCTCGCATATC-CG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-T-AC-TATCACG
* * * *
48541423 -TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACCT-CTAT-ACG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTG--GCTTACTATCACG
*
48541471 -TGCCGATGCCATGTCCCAAACATGATCTTACACTGGCTTACT-TCACG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACTATCACG
* * * * * *
48541518 AGGCCGATTCCATGTCCCAGACAT-GTCTTACACTAGCTTTCGTCTCAACG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTAC-TATC-ACG
* * * **
48541568 -T--CGATGCCAAGTCCCAAACATTGTCTTACATTGGC-T-CTCAT-AAT
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACT-ATCACG
* * *
48541612 ATGGCCGATG-CATGTCCCAGACAT-GTCTCACACTAGCTTAC
1 AT-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTAC
48541653 AATAACCCAT
Statistics
Matches: 215, Mismatches: 44, Indels: 43
0.71 0.15 0.14
Matches are distributed among these distances:
44 1 0.00
45 2 0.01
46 15 0.07
47 82 0.38
48 75 0.35
49 3 0.01
50 32 0.15
51 4 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (49 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACTATCACG
Found at i:48542335 original size:13 final size:13
Alignment explanation
Indices: 48542317--48542341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48542307 TTCTAAAAGT
48542317 AGAAAAATCATCG
1 AGAAAAATCATCG
48542330 AGAAAAATCATC
1 AGAAAAATCATC
48542342 AAAATAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (13 bp):
AGAAAAATCATCG
Found at i:48543632 original size:20 final size:20
Alignment explanation
Indices: 48543609--48543666 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
48543599 AAATGTCAAT
48543609 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
** *
48543629 AGAGGCACTGAAGTGCAAAT
1 AGAGGCACCAAAGTGCAAAC
*
48543649 AGAGGCATCAAAGTGCAA
1 AGAGGCACCAAAGTGCAA
48543667 TCCTGTACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.19, G:0.28, T:0.10
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:48544004 original size:14 final size:14
Alignment explanation
Indices: 48543981--48544018 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
48543971 ATAAAGAAAC
*
48543981 ACACAAACACACAT
1 ACACACACACACAT
48543995 ACACACACACACAT
1 ACACACACACACAT
*
48544009 ACATACACAC
1 ACACACACAC
48544019 TACGAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.53, C:0.39, G:0.00, T:0.08
Consensus pattern (14 bp):
ACACACACACACAT
Found at i:48544654 original size:5 final size:5
Alignment explanation
Indices: 48544644--48544671 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
48544634 ACCTTTTGTG
48544644 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
48544672 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:48549385 original size:13 final size:13
Alignment explanation
Indices: 48549367--48549391 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48549357 ATTTTACTTT
48549367 TATTTTATTTTAC
1 TATTTTATTTTAC
48549380 TATTTTATTTTA
1 TATTTTATTTTA
48549392 TTTAAATGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTATTTTAC
Found at i:48553251 original size:19 final size:20
Alignment explanation
Indices: 48553216--48553257 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
48553206 ATTTAAGCAT
48553216 TCAATTCACATAAAATT-AA
1 TCAATTCACATAAAATTCAA
*
48553235 TCAATTCATA-AACAATTCAA
1 TCAATTCACATAA-AATTCAA
48553255 TCA
1 TCA
48553258 CAATTAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 13 0.65
20 5 0.25
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (20 bp):
TCAATTCACATAAAATTCAA
Found at i:48554389 original size:16 final size:17
Alignment explanation
Indices: 48554342--48554389 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
48554332 GATCTAGCTT
*
48554342 AAGAATAATATAAAACAC
1 AAGAAAAATAT-AAACAC
48554360 AAGAAAAATATAAACA-
1 AAGAAAAATATAAACAC
* *
48554376 AAGTAAACTATAAA
1 AAGAAAAATATAAA
48554390 GCTTAGTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 12 0.44
17 5 0.19
18 10 0.37
ACGTcount: A:0.69, C:0.08, G:0.06, T:0.17
Consensus pattern (17 bp):
AAGAAAAATATAAACAC
Found at i:48559361 original size:40 final size:40
Alignment explanation
Indices: 48559256--48559462 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
48559246 CGGATGATAA
* *
48559256 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
48559296 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48559335 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48559375 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48559415 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
48559455 CC-GGCTAA
1 CCGGGCTAA
48559463 ATTCTGAAGG
Statistics
Matches: 156, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 43 0.28
40 113 0.72
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48566240 original size:15 final size:13
Alignment explanation
Indices: 48566213--48566237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48566203 TATGTGCGAC
48566213 ACACGGTCATGTT
1 ACACGGTCATGTT
48566226 ACACGGTCATGT
1 ACACGGTCATGT
48566238 GTTCGCTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGTCATGTT
Found at i:48568536 original size:18 final size:19
Alignment explanation
Indices: 48568509--48568544 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
48568499 TAATATAAGG
*
48568509 TCATTGATTTC-ACTTAAA
1 TCATTCATTTCAACTTAAA
48568527 TCATTCATTTCAACTTAA
1 TCATTCATTTCAACTTAA
48568545 GCATACAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.44
Consensus pattern (19 bp):
TCATTCATTTCAACTTAAA
Found at i:48570478 original size:46 final size:47
Alignment explanation
Indices: 48570391--48570561 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 47
48570381 TATATTTGTT
48570391 CCGATGCCATGTCCCAGACATGGTCTTACACTGACA--CATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-ACACTCATCTCGAGG
* * **
48570437 CCGATG-CATGTCCCAAACAT-GTCTTACACTATCACTCATCTCAATA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA-CACTCATCTCGAGG
* * *
48570483 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA-CACTCAT-CTCGAGG
* *
48570531 CCGATG-CATGTTCTAGACAT-GTCTTACACTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA
48570562 GCTCACACAA
Statistics
Matches: 105, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 13 0.12
46 30 0.29
47 25 0.24
48 23 0.22
49 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTACACTCATCTCGAGG
Found at i:48570556 original size:94 final size:92
Alignment explanation
Indices: 48570391--48570561 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 92
48570381 TATATTTGTT
*
48570391 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGAGGCCGATGCATGTCCCAAACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGAGGCCGATGCATGTCCCAAACA
48570456 TGTCTTACACTATCACTCATCTCAATA
66 TGTCTTACACTATCACTCATCTCAATA
* * * * * *
48570483 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGCCGATGCATGTTCTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-ATCGAGGCCGATGCATGTCCCAA
48570547 ACATGTCTTACACTA
63 ACATGTCTTACACTA
48570562 GCTCACACAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 32 0.46
93 1 0.01
94 35 0.51
95 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (92 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGAGGCCGATGCATGTCCCAAACA
TGTCTTACACTATCACTCATCTCAATA
Found at i:48571882 original size:40 final size:40
Alignment explanation
Indices: 48571827--48571969 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 40
48571817 CATTCTTTTT
*
48571827 AGTAGATTCAGTAGGTATGGCTTGAAAGCGCTTACATTTC
1 AGTAGATTCAGTAGGTATGGCTCGAAAGCGCTTACATTTC
* * * **
48571867 AGTAGATTTAGTAGGTGTGGCTCAAAAGCG-TATAGGTTTC
1 AGTAGATTCAGTAGGTATGGCTCGAAAGCGCT-TACATTTC
* * * **
48571907 AGTAGATTCAGTAAGTATGGCTCGAAAGCACATACACGTC
1 AGTAGATTCAGTAGGTATGGCTCGAAAGCGCTTACATTTC
* *
48571947 AATAGATTTAGTAGGTATGGCTC
1 AGTAGATTCAGTAGGTATGGCTC
48571970 TTCTGAGCAC
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 1 0.01
40 81 0.99
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (40 bp):
AGTAGATTCAGTAGGTATGGCTCGAAAGCGCTTACATTTC
Found at i:48592619 original size:50 final size:50
Alignment explanation
Indices: 48592542--48592641 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
48592532 GAGTTCCCCT
*
48592542 CACTGGCTGCAGAAATATTCTAAGATTTAGGACCCACATTTTGCTTCCTA
1 CACTGGCTGCAGAAATAGTCTAAGATTTAGGACCCACATTTTGCTTCCTA
* * ** *
48592592 CACTGGCTGCCGAAGTAGTCTGGGATTTAGGACCCACATTTTTCTTCCTA
1 CACTGGCTGCAGAAATAGTCTAAGATTTAGGACCCACATTTTGCTTCCTA
48592642 TAATTCCATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (50 bp):
CACTGGCTGCAGAAATAGTCTAAGATTTAGGACCCACATTTTGCTTCCTA
Found at i:48592836 original size:69 final size:69
Alignment explanation
Indices: 48592725--48592857 Score: 187
Period size: 69 Copynumber: 1.9 Consensus size: 69
48592715 GGGTGCATTA
* * * *
48592725 CTCATTGGTCTTTTCTTCCAATTTTGTGTCTCAAATTCTACCTTTTTCTTTTCCTTAAGTAGTTA
1 CTCATCGGTCCTTTCTTCCAATTTTGAGTCTCAAACTCTACCTTTTTCTTTTCCTTAAGTAGTTA
48592790 ACCG
66 ACCG
** *
48592794 CTCATCGGTCCTTTCTTCCAATTTCT-AGTCTCAGCCTCTACCTTTTTCTTTTCTTTAAGTAGTT
1 CTCATCGGTCCTTTCTTCCAATTT-TGAGTCTCAAACTCTACCTTTTTCTTTTCCTTAAGTAGTT
48592858 CTTCAGCCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 55 0.98
70 1 0.02
ACGTcount: A:0.16, C:0.26, G:0.10, T:0.49
Consensus pattern (69 bp):
CTCATCGGTCCTTTCTTCCAATTTTGAGTCTCAAACTCTACCTTTTTCTTTTCCTTAAGTAGTTA
ACCG
Found at i:48597521 original size:25 final size:25
Alignment explanation
Indices: 48597492--48597550 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
48597482 AGCAATTAAC
* *
48597492 TTTTACCTCTTTTACAATTTAATCA
1 TTTTACCTCTTCTACAACTTAATCA
*
48597517 TTTTACCTCTTCTACAACTTAATTA
1 TTTTACCTCTTCTACAACTTAATCA
*
48597542 TCTTACCTC
1 TTTTACCTC
48597551 AGTTAAGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.49
Consensus pattern (25 bp):
TTTTACCTCTTCTACAACTTAATCA
Found at i:48598127 original size:46 final size:45
Alignment explanation
Indices: 48598023--48598176 Score: 130
Period size: 46 Copynumber: 3.4 Consensus size: 45
48598013 AAGCTATTCG
* * * *
48598023 TTGTGTAGGTTTAACCCTAATAGGCGACC-AGACACTGTTATTCGA
1 TTGTGTAGGTTTAACCCTAACAGGAGACCAAG-CACTATTATTAGA
* * * * * *
48598068 TTCATGTATGTTTAGCCCTAACGGGTGACCAAGCACTATTATTTGA
1 TT-GTGTAGGTTTAACCCTAACAGGAGACCAAGCACTATTATTAGA
* * * * *
48598114 TATGTGTAGGTTTAAACTTATCAGGAGACCAGGTACTATTATTAGA
1 T-TGTGTAGGTTTAACCCTAACAGGAGACCAAGCACTATTATTAGA
48598160 TTTGTGTAGGTTTAACC
1 -TTGTGTAGGTTTAACC
48598177 AAATGTGTAA
Statistics
Matches: 85, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
45 2 0.02
46 79 0.93
47 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (45 bp):
TTGTGTAGGTTTAACCCTAACAGGAGACCAAGCACTATTATTAGA
Found at i:48599919 original size:25 final size:25
Alignment explanation
Indices: 48599890--48599937 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48599880 TTATAATATG
* * *
48599890 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
48599915 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
48599938 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:48599999 original size:20 final size:20
Alignment explanation
Indices: 48599974--48600016 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
48599964 ATTTTGATAA
48599974 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48599994 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48600014 ACA
1 ACA
48600017 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48600024 original size:20 final size:20
Alignment explanation
Indices: 48599981--48600024 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
48599971 TAAACATGAT
* *
48599981 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
48600001 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
48600021 ATGT
1 ATGT
48600025 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:48600212 original size:25 final size:24
Alignment explanation
Indices: 48600069--48600198 Score: 183
Period size: 24 Copynumber: 5.4 Consensus size: 24
48600059 GAAGAAGTGC
48600069 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* **
48600093 AAAAGGACTTATGCCTTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48600117 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48600141 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48600164 AAAAAAGGGCTT-TGCCCCAATTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
48600189 AAAAGAGGCT
1 AAAAG-GGCT
48600199 AGACCTCCAG
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
23 28 0.29
24 46 0.48
25 12 0.13
26 9 0.09
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:48600443 original size:31 final size:31
Alignment explanation
Indices: 48600405--48600468 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
48600395 CGTTTACCGT
48600405 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* ** *
48600436 AAAGGCTTCGGCCTAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
48600467 AA
1 AA
48600469 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:48602628 original size:46 final size:46
Alignment explanation
Indices: 48602524--48602647 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 46
48602514 GTTGAGCATC
* ***
48602524 CGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGAAGCGAATGTT
1 CGAACTCCTTGAGTTGAGTCCGAGTTCACTTACGGAAGCGAAACCT
* * * *
48602570 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACACCT
1 CGAACTCCTTGAGTTGAGTCCGAGTTCACTTACGGAAGCGAA-ACCT
* *
48602617 -GAGCTCCTTGAGTTGAGTCCTAGTTCACTTA
1 CGAACTCCTTGAGTTGAGTCCGAGTTCACTTA
48602648 GGGGCGGGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 66 0.99
47 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (46 bp):
CGAACTCCTTGAGTTGAGTCCGAGTTCACTTACGGAAGCGAAACCT
Found at i:48610246 original size:28 final size:27
Alignment explanation
Indices: 48610192--48610340 Score: 226
Period size: 27 Copynumber: 5.4 Consensus size: 27
48610182 ATTGTGCAGT
* *
48610192 ACTAAGTGTGCGAATTGAATATGTAGC
1 ACTAAGTGTGCGAGTTGACTATGTAGC
48610219 ACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGAG-TTGACTATGTAGC
48610247 ACTAAGTGTGCGAGTTGACTATGTAGC
1 ACTAAGTGTGCGAGTTGACTATGTAGC
*
48610274 ACTAAGTGTGCGAGTATGATTATGTAGC
1 ACTAAGTGTGCGAGT-TGACTATGTAGC
* *
48610302 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGAGTTGACTATGTAGC
*
48610329 ACTGAGTGTGCG
1 ACTAAGTGTGCG
48610341 GACTTAATAT
Statistics
Matches: 115, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 63 0.55
28 52 0.45
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
ACTAAGTGTGCGAGTTGACTATGTAGC
Found at i:48610257 original size:55 final size:55
Alignment explanation
Indices: 48610192--48610340 Score: 235
Period size: 55 Copynumber: 2.7 Consensus size: 55
48610182 ATTGTGCAGT
* *
48610192 ACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGC
* *
48610247 ACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGC
1 ACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGC
* * *
48610302 ACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 ACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
48610341 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 87 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
ACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGC
Found at i:48613441 original size:46 final size:46
Alignment explanation
Indices: 48613391--48614297 Score: 1628
Period size: 46 Copynumber: 19.7 Consensus size: 46
48613381 GTTGAGCATC
48613391 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613437 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613483 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613529 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613575 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613621 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613667 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613713 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613759 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613805 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613851 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613897 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613943 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48613989 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48614035 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48614081 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
48614127 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
* * * *
48614173 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TT
* * * *
48614220 CGAACTCGCTGAGTTGAGCCCGAGTTCACTTATGGAT-CTGAACG-C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-GAATGTT
*
48614265 CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
48614298 GGGGCGGGTT
Statistics
Matches: 837, Mismatches: 13, Indels: 22
0.96 0.01 0.03
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
45 5 0.01
46 791 0.95
47 26 0.03
48 3 0.00
50 3 0.00
51 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
Found at i:48615617 original size:41 final size:41
Alignment explanation
Indices: 48615560--48615642 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
48615550 CAAGAGTTCT
* *
48615560 TGGGTTTTCTTTATGTTTTGTTATCATATTCTTTTGATATG
1 TGGGTTTTCTTTATGTTTTGTTATCATAATCTTTTGAGATG
48615601 TGGGTTTTCTTTATGTTTTGTTATCATAATCTTTTGAGATG
1 TGGGTTTTCTTTATGTTTTGTTATCATAATCTTTTGAGATG
48615642 T
1 T
48615643 TTTCTTTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.16, C:0.07, G:0.18, T:0.59
Consensus pattern (41 bp):
TGGGTTTTCTTTATGTTTTGTTATCATAATCTTTTGAGATG
Found at i:48623925 original size:71 final size:71
Alignment explanation
Indices: 48623839--48623979 Score: 246
Period size: 71 Copynumber: 2.0 Consensus size: 71
48623829 TTCCGAGGTG
*
48623839 TTGAAAGTATATAAGTTGGTATGATAATAATACAACAATAATGCTGTAATTTATATTTGAAAGTT
1 TTGAAAGTATATAAGTTGGTATGATAATAATACAACAATAATGCTGCAATTTATATTTGAAAGTT
48623904 AAATTC
66 AAATTC
* * *
48623910 TTGAAAGTATGTAAGTTGGTATGATAATAATACAGCAATAATGTTGCAATTTATATTTGAAAGTT
1 TTGAAAGTATATAAGTTGGTATGATAATAATACAACAATAATGCTGCAATTTATATTTGAAAGTT
48623975 AAATT
66 AAATT
48623980 TAGTGAATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (71 bp):
TTGAAAGTATATAAGTTGGTATGATAATAATACAACAATAATGCTGCAATTTATATTTGAAAGTT
AAATTC
Found at i:48636295 original size:80 final size:78
Alignment explanation
Indices: 48636201--48636354 Score: 263
Period size: 80 Copynumber: 1.9 Consensus size: 78
48636191 ACTATATGAT
*
48636201 GGGTGGAGCTATGTGCTGAAACCACCAAGTATCGAGGATTGATCCGAAGTGTTCAATGGGAGACT
1 GGGTGGAGCTATGTGCTGAAACCACCAAGTATCGAGGATTGATCCGAAGTGTTCAACGGGAGAC-
48636266 TTCTATGTATTTCTA
65 -TCTATGTATTTCTA
* *
48636281 GGGTGGAGCTATGTGCTGAAACCACCAAGTATCGAGGATTGATTCGAATTGTTCAACGGGAGACT
1 GGGTGGAGCTATGTGCTGAAACCACCAAGTATCGAGGATTGATCCGAAGTGTTCAACGGGAGACT
48636346 CTATGTATT
66 CTATGTATT
48636355 GCTTTGTGAG
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 10 0.14
80 61 0.86
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (78 bp):
GGGTGGAGCTATGTGCTGAAACCACCAAGTATCGAGGATTGATCCGAAGTGTTCAACGGGAGACT
CTATGTATTTCTA
Found at i:48639780 original size:30 final size:30
Alignment explanation
Indices: 48639734--48639794 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48639724 TTCCTGAGCC
* *
48639734 TAGGGGTAAAAGTGTAAATATGCAAACGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
48639764 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
48639794 T
1 T
48639795 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:48643160 original size:56 final size:56
Alignment explanation
Indices: 48643089--48643199 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
48643079 AGTATGCAAG
48643089 TTGGTATGATAATAATACAACAATAATGCTGTAATTTATATTTGAAAGATAAATTT
1 TTGGTATGATAATAATACAACAATAATGCTGTAATTTATATTTGAAAGATAAATTT
*
48643145 TTGGTATGATAATAATACAACAATAATGCTGTAATTTATATTTGAAAGTTAAATT
1 TTGGTATGATAATAATACAACAATAATGCTGTAATTTATATTTGAAAGATAAATT
48643200 CAGTGAATTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (56 bp):
TTGGTATGATAATAATACAACAATAATGCTGTAATTTATATTTGAAAGATAAATTT
Found at i:48645817 original size:29 final size:28
Alignment explanation
Indices: 48645748--48645872 Score: 144
Period size: 29 Copynumber: 4.4 Consensus size: 28
48645738 AAGTCTATAT
* *
48645748 ACATACATATGGCCAACTAGGCCC-AATC
1 ACATTCATATGGCC-ATTAGGCCCAAATC
* * *
48645776 TCATTCATATGGCCTATTAGGCCAAAATT
1 ACATTCATATGGCC-ATTAGGCCCAAATC
*
48645805 ACATTCGTATGGCACATTAGGCCCAAATC
1 ACATTCATATGGC-CATTAGGCCCAAATC
*
48645834 AGATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGG-CCATTAGGCCCAAATC
48645863 ACATTCATAT
1 ACATTCATAT
48645873 TCATGCTTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
28 19 0.23
29 60 0.74
30 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCATTAGGCCCAAATC
Found at i:48646088 original size:16 final size:15
Alignment explanation
Indices: 48646067--48646116 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
48646057 CCAAACATTC
48646067 GGCTTTCCGGCATTTT
1 GGCTTT-CGGCATTTT
* *
48646083 GGCTTTTTGGCATTTC
1 GGC-TTTCGGCATTTT
48646099 GGCATTTCGGCATTTT
1 GGC-TTTCGGCATTTT
48646115 GG
1 GG
48646117 GATTTGCCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 25 0.89
17 3 0.11
ACGTcount: A:0.08, C:0.20, G:0.28, T:0.44
Consensus pattern (15 bp):
GGCTTTCGGCATTTT
Found at i:48646090 original size:8 final size:8
Alignment explanation
Indices: 48646075--48646121 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
48646065 TCGGCTTTCC
48646075 GGCATTTT
1 GGCATTTT
*
48646083 GGCTTTTT
1 GGCATTTT
*
48646091 GGCATTTC
1 GGCATTTT
*
48646099 GGCATTTC
1 GGCATTTT
48646107 GGCATTTT
1 GGCATTTT
*
48646115 GGGATTT
1 GGCATTT
48646122 GCCGATCTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.11, C:0.15, G:0.28, T:0.47
Consensus pattern (8 bp):
GGCATTTT
Found at i:48646103 original size:24 final size:24
Alignment explanation
Indices: 48646074--48646121 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
48646064 TTCGGCTTTC
* *
48646074 CGGCATTTTGGCTTTTTGGCATTT
1 CGGCATTTCGGCATTTTGGCATTT
*
48646098 CGGCATTTCGGCATTTTGGGATTT
1 CGGCATTTCGGCATTTTGGCATTT
48646122 GCCGATCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.46
Consensus pattern (24 bp):
CGGCATTTCGGCATTTTGGCATTT
Found at i:48647362 original size:16 final size:16
Alignment explanation
Indices: 48647338--48647369 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48647328 AAATTTGAGA
*
48647338 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
48647354 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
48647370 GCGTTACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:48658966 original size:16 final size:16
Alignment explanation
Indices: 48658942--48658972 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48658932 ATTTCAAGGT
*
48658942 TAAATAAGTAAATTAG
1 TAAACAAGTAAATTAG
48658958 TAAACAAGTAAATTA
1 TAAACAAGTAAATTA
48658973 AAACAAAAGA
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:0.58, C:0.03, G:0.10, T:0.29
Consensus pattern (16 bp):
TAAACAAGTAAATTAG
Found at i:48668749 original size:21 final size:21
Alignment explanation
Indices: 48668723--48668764 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48668713 TTTTCCTATT
48668723 TTAATTTAAAAGCTCATTAAC
1 TTAATTTAAAAGCTCATTAAC
48668744 TTAATTTAAAAGCTCATTAAC
1 TTAATTTAAAAGCTCATTAAC
48668765 AACTTGCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (21 bp):
TTAATTTAAAAGCTCATTAAC
Found at i:48672280 original size:30 final size:30
Alignment explanation
Indices: 48672245--48672301 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48672235 TTTACGAGCC
48672245 TAGGGGCAAAAAT-GTAATTTTGACAAAGTT
1 TAGGGG-AAAAATAGTAATTTTGACAAAGTT
* *
48672275 TAGGGGGAAAATAGTAATTTTGCCAAA
1 TAGGGGAAAAATAGTAATTTTGACAAA
48672302 ATATGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAATAGTAATTTTGACAAAGTT
Found at i:48672562 original size:21 final size:20
Alignment explanation
Indices: 48672538--48672576 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48672528 GTGTAAATGT
48672538 AGTAACATAATTGTTATTTTA
1 AGTAACATAA-TGTTATTTTA
**
48672559 AGTAATTTAATGTTATTT
1 AGTAACATAATGTTATTT
48672577 ATATGATAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (20 bp):
AGTAACATAATGTTATTTTA
Found at i:48672866 original size:47 final size:47
Alignment explanation
Indices: 48672797--48672914 Score: 218
Period size: 47 Copynumber: 2.5 Consensus size: 47
48672787 TTGAGTTCCG
*
48672797 AACTCGTGGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCATCCA
48672844 AACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCATCCA
*
48672891 AACTCGTTGAGTTGAGTCCAAGTT
1 AACTCGTTGAGTTGAGTCCGAGTT
48672915 CACTTATAGA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCATCCA
Found at i:48676578 original size:13 final size:13
Alignment explanation
Indices: 48676560--48676585 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48676550 CTCGGCAGGA
48676560 ACACGCCCGTGTG
1 ACACGCCCGTGTG
48676573 ACACGCCCGTGTG
1 ACACGCCCGTGTG
48676586 CGATTGCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:48681698 original size:49 final size:49
Alignment explanation
Indices: 48681622--48681717 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
48681612 AGTCCCTTTT
* * * *
48681622 CATTAACAATATTAGTCTGGGCTTGAGCCCATTTCAGTAGCAGAGGCGG
1 CATTAACAATATCAGTCCGGGCCTGAGCCCATTTCAGTAACAGAGGCGG
48681671 CATTAACAATATCAGTCCGGGCCTGAGCCCATTTCAGTAACAGAGGC
1 CATTAACAATATCAGTCCGGGCCTGAGCCCATTTCAGTAACAGAGGC
48681718 AGTCTGGGCG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (49 bp):
CATTAACAATATCAGTCCGGGCCTGAGCCCATTTCAGTAACAGAGGCGG
Found at i:48682465 original size:16 final size:16
Alignment explanation
Indices: 48682444--48682486 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
48682434 ACAACCCATA
48682444 TTTTGGCTTTTC-ACCT
1 TTTTGGCTTTTCGA-CT
48682460 TTTTGGCTTTTCGACT
1 TTTTGGCTTTTCGACT
*
48682476 TTTTAGCTTTT
1 TTTTGGCTTTT
48682487 GTCATTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 24 0.96
17 1 0.04
ACGTcount: A:0.07, C:0.19, G:0.14, T:0.60
Consensus pattern (16 bp):
TTTTGGCTTTTCGACT
Found at i:48699496 original size:85 final size:85
Alignment explanation
Indices: 48699265--48699485 Score: 424
Period size: 85 Copynumber: 2.6 Consensus size: 85
48699255 GGCCGGCCAT
*
48699265 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48699330 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
48699350 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48699415 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
48699435 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAGACATGTTG
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTG
48699486 TGTTGGTGCA
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 134 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:48701913 original size:49 final size:47
Alignment explanation
Indices: 48701770--48701947 Score: 257
Period size: 47 Copynumber: 3.7 Consensus size: 47
48701760 TTAGGATTCT
*
48701770 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
*
48701817 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
* * * *
48701864 ATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCA
* * *
48701913 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
48701948 TCCCGAAGGG
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 77 0.66
49 40 0.34
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
Found at i:48701919 original size:96 final size:94
Alignment explanation
Indices: 48701770--48701947 Score: 266
Period size: 96 Copynumber: 1.9 Consensus size: 94
48701760 TTAGGATTCT
* * * *
48701770 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
*
48701835 TGTATATATGTGATAAGGCCTAATAGCCA
66 TGTATAAATGTGATAAGGCCTAATAGCCA
* * *
48701864 ATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAA
48701929 AGTGTATAAATGTGATAAG
64 AGTGTATAAATGTGATAAG
48701948 TCCCGAAGGG
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 20 0.27
96 54 0.73
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
TGTATAAATGTGATAAGGCCTAATAGCCA
Found at i:48717520 original size:162 final size:162
Alignment explanation
Indices: 48717253--48717740 Score: 976
Period size: 162 Copynumber: 3.0 Consensus size: 162
48717243 CAGTTTATTA
48717253 GGAAAATTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCT
1 GGAAAATTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCT
48717318 CCCTGTACAGGGCCTCAATACTGATTCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCT
66 CCCTGTACAGGGCCTCAATACTGATTCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCT
48717383 ATACATATATGGATTGACTCCTAATTGTCTCT
131 ATACATATATGGATTGACTCCTAATTGTCTCT
48717415 GGAAAATTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCT
1 GGAAAATTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCT
48717480 CCCTGTACAGGGCCTCAATACTGATTCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCT
66 CCCTGTACAGGGCCTCAATACTGATTCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCT
48717545 ATACATATATGGATTGACTCCTAATTGTCTCT
131 ATACATATATGGATTGACTCCTAATTGTCTCT
48717577 GGAAAATTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCT
1 GGAAAATTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCT
48717642 CCCTGTACAGGGCCTCAATACTGATTCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCT
66 CCCTGTACAGGGCCTCAATACTGATTCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCT
48717707 ATACATATATGGATTGACTCCTAATTGTCTCT
131 ATACATATATGGATTGACTCCTAATTGTCTCT
48717739 GG
1 GG
48717741 TTAATTTANN
Statistics
Matches: 326, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 326 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (162 bp):
GGAAAATTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCT
CCCTGTACAGGGCCTCAATACTGATTCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCT
ATACATATATGGATTGACTCCTAATTGTCTCT
Found at i:48722708 original size:16 final size:16
Alignment explanation
Indices: 48722687--48722718 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48722677 GTGATGCATC
48722687 CTTAAATGGATTGGGT
1 CTTAAATGGATTGGGT
48722703 CTTAAATGGATTGGGT
1 CTTAAATGGATTGGGT
48722719 TGTGTACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
CTTAAATGGATTGGGT
Found at i:48724653 original size:46 final size:46
Alignment explanation
Indices: 48724600--48724722 Score: 210
Period size: 46 Copynumber: 2.7 Consensus size: 46
48724590 TTGAGCATCT
* *
48724600 GAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
48724646 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
* *
48724692 GAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
48724723 GGGGCGAGTT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
Found at i:48725760 original size:40 final size:40
Alignment explanation
Indices: 48725666--48725890 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
48725656 TATTCGAATG
* * * *
48725666 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACT
* * * * * *
48725707 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CGACT
* *
48725747 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
48725787 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
48725827 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
48725867 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
48725891 CTTGCGCAAG
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 28 0.18
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:48725837 original size:80 final size:80
Alignment explanation
Indices: 48725666--48725926 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 80
48725656 TATTCGAATG
* * * * *
48725666 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
48725731 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * * *
48725747 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
48725812 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
48725827 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * * *
48725892 TT-GCGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
48725906 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
48725927 ATTTCTTGAG
Statistics
Matches: 151, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.09
79 13 0.09
80 94 0.62
81 30 0.20
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:48725880 original size:120 final size:121
Alignment explanation
Indices: 48725666--48725890 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 121
48725656 TATTCGAATG
** * *
48725666 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCAAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * *
48725731 ATTCGTGCGAGTTGCTATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* * *
48725787 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCAAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
48725850 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGC
48725891 CTTGCGCAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 56 0.63
121 30 0.34
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCAAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:48734623 original size:46 final size:46
Alignment explanation
Indices: 48734556--48734727 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
48734546 AACCCGCCCC
*
48734556 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
* *
48734602 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTCGCATCCA
* * ***
48734650 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
*
48734695 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
48734728 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 1 0.01
46 59 0.57
47 27 0.26
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
Found at i:48734720 original size:93 final size:93
Alignment explanation
Indices: 48734561--48734731 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
48734551 GCCCCTAAGT
***
48734561 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
48734626 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
48734654 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
48734719 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48734732 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48735185 original size:30 final size:30
Alignment explanation
Indices: 48735151--48735210 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48735141 ATTTAATACG
48735151 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
48735181 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48735211 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48747230 original size:27 final size:27
Alignment explanation
Indices: 48747199--48747375 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48747189 TGAATTGTAC
48747199 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48747226 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48747252 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48747280 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
48747308 AGCACTAAGTGTGCGATTTGA-TACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48747334 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48747361 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48747376 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 24 0.19
27 81 0.63
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48747348 original size:81 final size:81
Alignment explanation
Indices: 48747200--48747354 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
48747190 GAATTGTACA
* *
48747200 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
48747265 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
48747281 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-ATACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
48747344 GTGCGAGTTGA
64 GTGCGAATTGA
48747355 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 38 0.57
82 28 0.42
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48747366 original size:81 final size:81
Alignment explanation
Indices: 48747196--48747375 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 81
48747186 GATTGAATTG
* *
48747196 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48747261 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
48747277 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-ATACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48747340 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48747358 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48747376 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 55 0.65
82 28 0.33
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48748488 original size:47 final size:46
Alignment explanation
Indices: 48748432--48748525 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 46
48748422 ATCCAAGTCG
*
48748432 TAATGGCAAAGGTCAGTGTAGTCGACCCCTGCAATATGGGAGACTT
1 TAATGGCAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTT
48748478 TAATGGGCAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTT
1 TAAT-GGCAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTT
48748525 T
1 T
48748526 GACTAATAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 4 0.09
47 42 0.91
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
TAATGGCAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTT
Found at i:48749377 original size:49 final size:49
Alignment explanation
Indices: 48749305--48749401 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
48749295 TGCACACCCG
* * *
48749305 ACGAATGTCTAAAATATGCTGTATCTTTGTTGTGAGACTCAGCGTACTA
1 ACGAATGTCTAAAATATGCTGTATCTCTGTTGCGAGACTCAGCCTACTA
*
48749354 ACGAATGTCTAAAATGTGCTGTATCTCTGTTGCGAGACTCAGCCTACT
1 ACGAATGTCTAAAATATGCTGTATCTCTGTTGCGAGACTCAGCCTACT
48749402 TTTGGTGGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (49 bp):
ACGAATGTCTAAAATATGCTGTATCTCTGTTGCGAGACTCAGCCTACTA
Found at i:48750239 original size:54 final size:54
Alignment explanation
Indices: 48750157--48750264 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
48750147 TCAGAGAGGG
* * *
48750157 GCCTCTGATATGGCTGTTCGAGCCGAGAACCGCACTCCTGCTAGAGCATATGCC
1 GCCTCTGATACGGCCGATCGAGCCGAGAACCGCACTCCTGCTAGAGCATATGCC
*
48750211 GCCTCTGATACGGCCGATCGAGCCGAGAACCGTACTCCTGCTAGAGCATATGCC
1 GCCTCTGATACGGCCGATCGAGCCGAGAACCGCACTCCTGCTAGAGCATATGCC
48750265 ATTCGCGCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.20
Consensus pattern (54 bp):
GCCTCTGATACGGCCGATCGAGCCGAGAACCGCACTCCTGCTAGAGCATATGCC
Found at i:48750633 original size:61 final size:61
Alignment explanation
Indices: 48750559--48750677 Score: 220
Period size: 61 Copynumber: 2.0 Consensus size: 61
48750549 TTTGACGTTA
*
48750559 TTCTTGGTTTGGATTGGTTGACCGCACATGATGCGGTTGTGAATTGCAAAAGCAAGACCAT
1 TTCTTGGTTTGGATTGGTTAACCGCACATGATGCGGTTGTGAATTGCAAAAGCAAGACCAT
*
48750620 TTCTTGGTTTGGATTGGTTAACCGCGCATGATGCGGTTGTGAATTGCAAAAGCAAGAC
1 TTCTTGGTTTGGATTGGTTAACCGCACATGATGCGGTTGTGAATTGCAAAAGCAAGAC
48750678 TATCGATTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (61 bp):
TTCTTGGTTTGGATTGGTTAACCGCACATGATGCGGTTGTGAATTGCAAAAGCAAGACCAT
Found at i:48752191 original size:40 final size:40
Alignment explanation
Indices: 48752091--48752356 Score: 270
Period size: 40 Copynumber: 6.7 Consensus size: 40
48752081 GCTCCTCGTT
* * * *
48752091 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
48752131 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
48752170 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
48752210 CGAATGCCTTCGGGACTTAAACTCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTT-AACCCGGATTTAGTAACTCGCA
* * *
48752251 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
48752291 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
48752332 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
48752357 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
39 39 0.20
40 107 0.55
41 49 0.25
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48752264 original size:81 final size:79
Alignment explanation
Indices: 48752091--48752303 Score: 257
Period size: 81 Copynumber: 2.7 Consensus size: 79
48752081 GCTCCTCGTT
* * * *
48752091 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACATAACCCGGA
48752156 TTTAACAACTCGCA
66 TTTAACAACTCGCA
* * * *
48752170 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAAACTCG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACAT-AACCCG
** *
48752235 GATTTAGTATCTCGCA
64 GATTTAACAACTCGCA
* * *
48752251 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC-AATGCCTTCGG
48752304 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 35 0.31
80 15 0.13
81 60 0.53
82 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACATAACCCGGA
TTTAACAACTCGCA
Found at i:48752316 original size:121 final size:120
Alignment explanation
Indices: 48752093--48752349 Score: 270
Period size: 121 Copynumber: 2.1 Consensus size: 120
48752083 TCCTCGTTCA
* * * *
48752093 AATGCCTTCGGGACAT-AGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGAT
* * *
48752157 TTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TTAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
48752211 GAATGCCTTCGGGACTTAAACTCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 -AATGCCTTCGGGACTTAAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG
** * ** * *
48752276 AATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
64 -ATTTAACAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
48752333 AAAGCCTTCGGGACTTA
1 AATGCCTTCGGGACTTA
48752350 GCCCGGACAG
Statistics
Matches: 113, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
119 15 0.13
120 21 0.19
121 68 0.60
122 9 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACTTAAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:48752333 original size:81 final size:81
Alignment explanation
Indices: 48752091--48752356 Score: 215
Period size: 81 Copynumber: 3.3 Consensus size: 81
48752081 GCTCCTCGTT
* * * * * * *
48752091 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACAC-AATGCCTTCGGGACAT-AACCC
1 CAAA-GCCTTCGGGACTTAACCCGGAATTTAATAACTCGCACAAATGCCTTCGGGACTTAAACTC
* ** * *
48752153 GGATTTAACAACTCGCA
65 GGATATAGTATCTAGCA
* *
48752170 CGAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACGAATGCCTTCGGGACTTAAACTC
1 C-AAAGCCTTCGGGACTTAACCCGGAATTTAATAACTCGCACAAATGCCTTCGGGACTTAAACTC
* *
48752234 GGATTTAGTATCTCGCA
65 GGATATAGTATCTAGCA
* * * **
48752251 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTC-
1 CAAA-GCCTTCGGGACTTAACCCGGAATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAAACT
*
48752313 CGGATATATTCA-CTTAGCA
64 CGGATATAGT-ATC-TAGCA
*
48752332 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAACCCGGA
48752357 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
79 32 0.21
80 50 0.32
81 70 0.45
82 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAACCCGGAATTTAATAACTCGCACAAATGCCTTCGGGACTTAAACTCG
GATATAGTATCTAGCA
Done.