Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 140 of 318
Found at i:42878155 original size:41 final size:41
Alignment explanation
Indices: 42878060--42878265 Score: 191
Period size: 41 Copynumber: 5.1 Consensus size: 41
42878050 TTTGGATCAA
* * * *
42878060 AAACGTCGCAAAAGGTAAAGCATTAACAGCGTTTTTAT-AT
1 AAACGCCGCAAAAGGTAAAGCAATAACGGCGTTTTTCTCAT
*
42878100 AAACGCCGCAAAAGGTAAAGCAATAATGGCGTTTTTCTCAT
1 AAACGCCGCAAAAGGTAAAGCAATAACGGCGTTTTTCTCAT
* * ** * *
42878141 AAAGGCTGCAAAAGGTAAAGCAATAGTGACGTTTGTCTCAT
1 AAACGCCGCAAAAGGTAAAGCAATAACGGCGTTTTTCTCAT
* * * * ** *
42878182 AAACGCCACAAAAGGTAAAGAAATAGCGGCGTTTAT-AAAA
1 AAACGCCGCAAAAGGTAAAGCAATAACGGCGTTTTTCTCAT
* * * * *
42878222 AAATGCCGCTAAAGGTAAAGCTATAGCGGCGTTTTTCCCAT
1 AAACGCCGCAAAAGGTAAAGCAATAACGGCGTTTTTCTCAT
42878263 AAA
1 AAA
42878266 TGCCTTAATT
Statistics
Matches: 135, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
40 64 0.47
41 71 0.53
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (41 bp):
AAACGCCGCAAAAGGTAAAGCAATAACGGCGTTTTTCTCAT
Found at i:42881243 original size:29 final size:28
Alignment explanation
Indices: 42881197--42881310 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
42881187 TACATGTATC
* *
42881197 TGGCCCATTAAG-CCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
42881224 TGACCCATTAGGCCCGAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
42881253 TGGCCCATTAGGCCTAAATCACATTTATA
1 TGGCCCATTAGGCC-CAATCACATTCATA
* * *
42881282 TGGCCCTTTAGGTCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
42881310 T
1 T
42881311 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
27 10 0.14
28 15 0.21
29 44 0.63
30 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:42883745 original size:19 final size:19
Alignment explanation
Indices: 42883721--42883758 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
42883711 AAAATTTTAA
42883721 TTTTGTTTCAATTGTACAT
1 TTTTGTTTCAATTGTACAT
42883740 TTTTGTTTCAATTGTACAT
1 TTTTGTTTCAATTGTACAT
42883759 ATTTAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (19 bp):
TTTTGTTTCAATTGTACAT
Found at i:42883907 original size:30 final size:30
Alignment explanation
Indices: 42883873--42883957 Score: 75
Period size: 29 Copynumber: 2.8 Consensus size: 30
42883863 AGTGATTTGC
*
42883873 GAAAATTGAATTAAATTTAAATTTGATGTA-
1 GAAAATT-AATTAAATTTAAATTTCATGTAT
* *
42883903 GAAAATT-ATAAAAAATTAAATTTCATGTAT
1 GAAAATTAAT-TAAATTTAAATTTCATGTAT
* *
42883933 GAAAATACACATTAAATTAAAATTT
1 GAAAAT-TA-ATTAAATTTAAATTT
42883958 ATATTTAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
28 2 0.05
29 16 0.37
30 13 0.30
32 10 0.23
33 2 0.05
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (30 bp):
GAAAATTAATTAAATTTAAATTTCATGTAT
Found at i:42884910 original size:13 final size:13
Alignment explanation
Indices: 42884892--42884919 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42884882 GGGGTCCCTG
42884892 GTCGCTACATAAT
1 GTCGCTACATAAT
42884905 GTCGCTACATAAT
1 GTCGCTACATAAT
42884918 GT
1 GT
42884920 GGTATCACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (13 bp):
GTCGCTACATAAT
Found at i:42886038 original size:42 final size:42
Alignment explanation
Indices: 42885974--42886152 Score: 162
Period size: 43 Copynumber: 4.2 Consensus size: 42
42885964 ATTTGATATG
*
42885974 GTCTTTAGTGGCATTCTTGGGGAAAGCGTCGCTAAAGATCAT
1 GTCTTTAGTGGCATTTTTGGGGAAAGCGTCGCTAAAGATCAT
* *
42886016 GTCTATAGTGGCATTTTTGGGGAAAGCGTCGCTAAAGGTCAT
1 GTCTTTAGTGGCATTTTTGGGGAAAGCGTCGCTAAAGATCAT
* * * * **
42886058 GTTCTTTAGCGGCGTTTCTAGGGAAAGCACCGCTAAAGGA-CAT
1 G-TCTTTAGTGGCATTTTTGGGGAAAGCGTCGCTAAA-GATCAT
** * * * * * *
42886101 GTTCTTTAGCAGCGTTTCTGGGAAAAGTGCCGCTAAAGGTCAT
1 G-TCTTTAGTGGCATTTTTGGGGAAAGCGTCGCTAAAGATCAT
42886144 GTTCTTTAG
1 G-TCTTTAG
42886153 CGATTGTATT
Statistics
Matches: 117, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
42 41 0.35
43 75 0.64
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
GTCTTTAGTGGCATTTTTGGGGAAAGCGTCGCTAAAGATCAT
Found at i:42886094 original size:43 final size:42
Alignment explanation
Indices: 42885993--42886154 Score: 191
Period size: 43 Copynumber: 3.8 Consensus size: 42
42885983 GGCATTCTTG
* * * * * *
42885993 GGGAAAGCGTCGCTAAAGATCATG-TCTATAGTGGCATTTTT
1 GGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCT
*
42886034 GGGGAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCT
1 -GGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCT
* * *
42886077 AGGGAAAGCACCGCTAAAGGACATGTTCTTTAGCAGCGTTTCT
1 -GGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCT
*
42886120 GGGAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCG
1 GGG-AAAGCGCCGCTAAAGGTCATGTTCTTTAGCG
42886155 ATTGTATTTG
Statistics
Matches: 104, Mismatches: 14, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 26 0.25
43 78 0.75
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (42 bp):
GGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCT
Found at i:42886297 original size:15 final size:15
Alignment explanation
Indices: 42886277--42886320 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
42886267 GTATTGTAAT
*
42886277 ATGGATTTCCTTATC
1 ATGGATTTCTTTATC
42886292 ATGGATTTCTTTATC
1 ATGGATTTCTTTATC
*
42886307 TTGGATTTCTTTAT
1 ATGGATTTCTTTAT
42886321 TCTAGGCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.55
Consensus pattern (15 bp):
ATGGATTTCTTTATC
Found at i:42892422 original size:54 final size:54
Alignment explanation
Indices: 42892359--42892466 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
42892349 ATACCTAAAC
*
42892359 TTTGGGGAAACAACTTAAGATTTTAAATTCTTAAAAATCAACTTATCATGCTTG
1 TTTGGGGAAACAACCTAAGATTTTAAATTCTTAAAAATCAACTTATCATGCTTG
42892413 TTTGGGGAAACAACCTAAGATTTTAAATTCTTAAAAATCAACTTATCATGCTTG
1 TTTGGGGAAACAACCTAAGATTTTAAATTCTTAAAAATCAACTTATCATGCTTG
42892467 ATTCTCTAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (54 bp):
TTTGGGGAAACAACCTAAGATTTTAAATTCTTAAAAATCAACTTATCATGCTTG
Found at i:42893851 original size:46 final size:46
Alignment explanation
Indices: 42893801--42893973 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
42893791 TGGTTGAGCA
*
42893801 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
42893847 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
42893894 TCCGAACTAGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
42893940 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
42893974 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:42893957 original size:93 final size:93
Alignment explanation
Indices: 42893798--42893968 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
42893788 GGATGGTTGA
* *
42893798 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
42893863 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
42893891 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAG
42893955 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
42893969 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42894235 original size:19 final size:20
Alignment explanation
Indices: 42894198--42894235 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
42894188 ATAAGGTGGT
42894198 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
42894218 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
42894236 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:42900808 original size:28 final size:28
Alignment explanation
Indices: 42900755--42900808 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
42900745 GCCCTATTCA
* *
42900755 ATATCAGTACAGTTTGGACCTTAGCCAT
1 ATATCAGTACAGTGTGGACCTAAGCCAT
*
42900783 ATAT-AGTAACAGTGTGGGCCTAAGCC
1 ATATCAGT-ACAGTGTGGACCTAAGCC
42900809 CAATTCAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.14
28 19 0.86
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (28 bp):
ATATCAGTACAGTGTGGACCTAAGCCAT
Found at i:42903382 original size:79 final size:79
Alignment explanation
Indices: 42903246--42903392 Score: 267
Period size: 79 Copynumber: 1.9 Consensus size: 79
42903236 TATTCGTGAT
* * *
42903246 TTGTAACACCCCGTACCTGATACCGTTGTCGGAGTCGAACGCGAGGTGCTAATAGACTTAATTAC
1 TTGTAACACCCCGTACCCGATACCGTTGCCGGAGTCGAACGCGAGGTGCTAACAGACTTAATTAC
42903311 TTTTTCCAATAAAA
66 TTTTTCCAATAAAA
42903325 TTGTAACACCCCGTACCCGATACCGTTGCCGGAGTCGAACGCGAGGTGCTAACAGACTTAATTAC
1 TTGTAACACCCCGTACCCGATACCGTTGCCGGAGTCGAACGCGAGGTGCTAACAGACTTAATTAC
42903390 TTT
66 TTT
42903393 GTTTTCACAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (79 bp):
TTGTAACACCCCGTACCCGATACCGTTGCCGGAGTCGAACGCGAGGTGCTAACAGACTTAATTAC
TTTTTCCAATAAAA
Found at i:42904815 original size:40 final size:40
Alignment explanation
Indices: 42904707--42904951 Score: 356
Period size: 40 Copynumber: 6.2 Consensus size: 40
42904697 TCTTCGGAAT
* ** *
42904707 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
42904746 TTAACCCGG-TATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
42904785 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
42904825 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
42904865 TTAGCCC-GATATAACAACTCGCAC-AATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
42904903 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
42904943 TTAGCCCGG
1 TTAGCCCGG
42904952 GTATCATTCA
Statistics
Matches: 189, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
38 21 0.11
39 66 0.35
40 102 0.54
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:42904914 original size:118 final size:119
Alignment explanation
Indices: 42904698--42904951 Score: 363
Period size: 118 Copynumber: 2.2 Consensus size: 119
42904688 AACCAAGTTT
* * * * *
42904698 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGTATAGCA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGATATAACA
*
42904762 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
66 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* ** *
42904816 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGATATAAC
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGATATAAC
*
42904880 AACTCGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
65 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
42904934 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
42904952 GTATCATTCA
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
118 68 0.56
119 51 0.42
120 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGATATAACA
ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:42913270 original size:81 final size:81
Alignment explanation
Indices: 42913171--42913333 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 81
42913161 TTTTGAGATA
*
42913171 GAATTTGTGTCCTAAGAAATCCAGAGTTAATTCAGATGATTTTGAGTGAAGCTCATAACAGTCGG
1 GAATTTGTGTCCTAAGAAATCCAGAGTTAATTCAGATAATTTTGAGTGAAGCTCATAACAGTCGG
42913236 TTATTTGTGCATCTGG
66 TTATTTGTGCATCTGG
* *
42913252 GAATTTGTGTCCTGAGAAATCCAGAGTTAATTCAGATAATTTTGAGTGAAGCTCATAACAGTTGG
1 GAATTTGTGTCCTAAGAAATCCAGAGTTAATTCAGATAATTTTGAGTGAAGCTCATAACAGTCGG
42913317 TTATTTGTGCATCTGG
66 TTATTTGTGCATCTGG
42913333 G
1 G
42913334 TAGTACGAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (81 bp):
GAATTTGTGTCCTAAGAAATCCAGAGTTAATTCAGATAATTTTGAGTGAAGCTCATAACAGTCGG
TTATTTGTGCATCTGG
Found at i:42914949 original size:39 final size:39
Alignment explanation
Indices: 42914860--42915022 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
42914850 TATGGTAACC
* *
42914860 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
42914900 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42914939 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
42914978 CGCACAATTTCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
42915017 CGCACA
1 CGCACA
42915023 TTCATACACA
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 95 0.86
40 16 0.14
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:42918708 original size:22 final size:22
Alignment explanation
Indices: 42918683--42918728 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
42918673 TCGGGGAAAG
42918683 TTAAAATTCGTAGAGTAATCGA
1 TTAAAATTCGTAGAGTAATCGA
42918705 TTAAAATTCGTAGAGTAATCGA
1 TTAAAATTCGTAGAGTAATCGA
42918727 TT
1 TT
42918729 CCATCTATCC
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:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (22 bp):
TTAAAATTCGTAGAGTAATCGA
Found at i:42919005 original size:44 final size:44
Alignment explanation
Indices: 42918956--42919113 Score: 134
Period size: 43 Copynumber: 3.7 Consensus size: 44
42918946 ATGTGTTCTC
* *
42918956 GTGTAAGACTATGTCTGGGA-AGTTGGCATCGACT-TCTGTTTTA
1 GTGTAAGACCATGTCTGGGACAGTTGGCATCGA-TATCTGATTTA
* *
42918999 TGTGTAAGACCATGTCTGGGACA-TCGACATCG-TATCTGATTTA
1 -GTGTAAGACCATGTCTGGGACAGTTGGCATCGATATCTGATTTA
* * *
42919042 GTGTAAGACCCTGTCTGGGATAG-TGGCATCGATGT-TCGA-TTA
1 GTGTAAGACCATGTCTGGGACAGTTGGCATCGATATCT-GATTTA
* * *
42919084 CATGTAAGACCACGTCCGGGAC-GTTGGCAT
1 -GTGTAAGACCATGTCTGGGACAGTTGGCAT
42919114 TGTATATGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
42 32 0.34
43 34 0.37
44 26 0.28
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACAGTTGGCATCGATATCTGATTTA
Found at i:42919072 original size:42 final size:42
Alignment explanation
Indices: 42918956--42919073 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 42
42918946 ATGTGTTCTC
* *
42918956 GTGTAAGACTATGTCTGGGAAGTTGGCATCGACTTCTGTTTTAT
1 GTGTAAGACCATGTCTGGGAAG-TGGCATCGAC-TCTGATTTAT
*
42919000 GTGTAAGACCATGTCTGGGACA-TCGACATCGTA-TCTGATTTA-
1 GTGTAAGACCATGTCTGGGA-AGT-GGCATCG-ACTCTGATTTAT
*
42919042 GTGTAAGACCCTGTCTGGGATAGTGGCATCGA
1 GTGTAAGACCATGTCTGGGA-AGTGGCATCGA
42919074 TGTTCGATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
41 1 0.02
42 26 0.41
43 10 0.16
44 25 0.39
45 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGAAGTGGCATCGACTCTGATTTAT
Found at i:42922863 original size:17 final size:18
Alignment explanation
Indices: 42922841--42922874 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42922831 CACATTGAAC
42922841 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
42922858 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
42922875 CTTATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:42922939 original size:9 final size:9
Alignment explanation
Indices: 42922925--42922956 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
42922915 TTTTTCAATC
42922925 GCCCACTAG
1 GCCCACTAG
42922934 GCCCACTAG
1 GCCCACTAG
*
42922943 GTCCACTAG
1 GCCCACTAG
42922952 GCCCA
1 GCCCA
42922957 ATCTCATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.22, C:0.44, G:0.22, T:0.12
Consensus pattern (9 bp):
GCCCACTAG
Found at i:42922999 original size:29 final size:29
Alignment explanation
Indices: 42922945--42923056 Score: 163
Period size: 29 Copynumber: 3.9 Consensus size: 29
42922935 CCCACTAGGT
*
42922945 CCACTAGGCCC-AATCTCATTCATATGGC
1 CCACTAGGCCCAAATCACATTCATATGGC
*
42922973 CCACTAGGCCCAAATCACATTCTTATGGC
1 CCACTAGGCCCAAATCACATTCATATGGC
* * *
42923002 CCATTAGGCCCAAATCACTTTCCTATGGC
1 CCACTAGGCCCAAATCACATTCATATGGC
*
42923031 CCATTAGGCCCAAATCACATTCATAT
1 CCACTAGGCCCAAATCACATTCATAT
42923057 ACATGCTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 11 0.14
29 65 0.86
ACGTcount: A:0.28, C:0.34, G:0.12, T:0.26
Consensus pattern (29 bp):
CCACTAGGCCCAAATCACATTCATATGGC
Found at i:42925692 original size:43 final size:42
Alignment explanation
Indices: 42925615--42925767 Score: 175
Period size: 42 Copynumber: 3.6 Consensus size: 42
42925605 TACCATACCA
* * *
42925615 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCATATCG
1 ATGCGATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * *
42925657 ATGCTA-ATGGCCTAGTTATGGTCTTACATGAAATCTCATATTG
1 ATGCGATAT--CCCAGATATGGTCTTACATGAAATCTCATATCG
** *
42925700 GCGCGATATCCCAGATATGGTCTTACACGAAATCTCATA-CG
1 ATGCGATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
42925741 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCGATATCCCAGATATGGTCTTACA
42925768 CGTAGTCTTA
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 27 0.29
42 32 0.35
43 31 0.34
44 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCGATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:42929936 original size:28 final size:29
Alignment explanation
Indices: 42929879--42929940 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
42929869 GAAAGCATGT
* *
42929879 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGAGCCTAATGGGCC
*
42929908 ATATGAATGAGA-TTGAGCCTAGTGGGCC
1 ATATGAATGAGATTTGAGCCTAATGGGCC
42929936 ATATG
1 ATATG
42929941 CACATATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGAGCCTAATGGGCC
Found at i:42934586 original size:70 final size:70
Alignment explanation
Indices: 42934505--42934636 Score: 192
Period size: 70 Copynumber: 1.9 Consensus size: 70
42934495 TTTATTACTA
* * * * * * *
42934505 ATTAATTTGCTGCTGTGATATTGTAAATTAGTGGCTGTCCAAATTAGGACAAATTTATGGTGCTT
1 ATTAATATGCTGCTGTAACACTGTAAACTAGTGGCTGTCCAAATTAGGACAAAATCATGGTGCTT
42934570 AGCTG
66 AGCTG
*
42934575 ATTAATATGCTGCTGTAACACTGTAAACTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
1 ATTAATATGCTGCTGTAACACTGTAAACTAGTGGCTGTCCAAATTAGGACAAAATCATGGTG
42934637 TTATGTGCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (70 bp):
ATTAATATGCTGCTGTAACACTGTAAACTAGTGGCTGTCCAAATTAGGACAAAATCATGGTGCTT
AGCTG
Found at i:42935511 original size:43 final size:43
Alignment explanation
Indices: 42935453--42935581 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 43
42935443 GTTGGTGAAT
* * * * * *
42935453 AATATTATAGGGCTTCGGGCCTCGTAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
*
42935496 GATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
* * * * *
42935539 AATGATATCGGGCTTCAAGCCTAACAGGCGA-AATGCCGGTGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
42935581 A
1 A
42935582 TGAGTTCAGA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 11 0.15
43 62 0.85
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
Found at i:42940133 original size:42 final size:42
Alignment explanation
Indices: 42940026--42940177 Score: 200
Period size: 43 Copynumber: 3.6 Consensus size: 42
42940016 CATACCAATA
* * *
42940026 CCATATCCCAGATATGGTCATACATGTAATCTCATATCGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATG
* * * *
42940068 CCA-ATGGCCTAGTTATGGTCTTACACGAAATCTCATATCTACG
1 CCATAT--CCCAGATATGGTCTTACACGAAATCTCATATCGATG
42940111 CCATATCCCAGATATGGTCTTACACGAAATCTCATA-CGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATG
*
42940152 CCATATCCCAGATATTGTCTTACACG
1 CCATATCCCAGATATGGTCTTACACG
42940178 TAGTCTTAGT
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
41 30 0.32
42 31 0.33
43 32 0.34
44 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATG
Found at i:42943760 original size:39 final size:39
Alignment explanation
Indices: 42943679--42943841 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
42943669 TATGGTAACC
* *
42943679 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
42943719 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42943758 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42943797 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
42943836 CGCACA
1 CGCACA
42943842 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:42951413 original size:40 final size:39
Alignment explanation
Indices: 42951248--42951431 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
42951238 AAATTGAATG
* * *
42951248 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
42951288 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
42951328 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
42951368 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
42951407 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
42951432 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:42951456 original size:80 final size:81
Alignment explanation
Indices: 42951288--42951476 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
42951278 GCTGGAAATT
* * * *
42951288 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
42951353 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
42951369 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
42951432 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
42951448 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
42951477 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:42958063 original size:40 final size:38
Alignment explanation
Indices: 42957966--42958072 Score: 119
Period size: 39 Copynumber: 2.7 Consensus size: 38
42957956 GAAATTATAA
* *
42957966 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT-GCTACAT
*
42958006 CC-GGCTAAGACCCGAAGGCATTCGTGCGAGT-CATTCTAT
1 CCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGC-TAC-AT
42958045 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCA-TTGTGC
42958073 AAATCGTGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
37 1 0.02
38 5 0.08
39 27 0.46
40 24 0.41
41 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.21
Consensus pattern (38 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCGAGTGCTACAT
Found at i:42958086 original size:40 final size:39
Alignment explanation
Indices: 42957922--42958104 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
42957912 AAATTGAATG
* * *
42957922 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
42957962 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
42958002 ACATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
42958041 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
42958080 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
42958105 CTTGGTCGGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 33 0.30
40 72 0.65
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:42961726 original size:39 final size:39
Alignment explanation
Indices: 42961645--42961807 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
42961635 TATGGTAACC
* *
42961645 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
42961685 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42961724 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42961763 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
42961802 CGCACA
1 CGCACA
42961808 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:42968181 original size:40 final size:40
Alignment explanation
Indices: 42968107--42968317 Score: 266
Period size: 40 Copynumber: 5.3 Consensus size: 40
42968097 TCTTTGGGAT
** * *
42968107 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
42968145 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
42968185 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
42968225 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
42968265 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
42968305 TTAGCCCGGATAT
1 TTAGCCCGGATAT
42968318 CATTCGAATA
Statistics
Matches: 148, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 127 0.86
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:42982062 original size:30 final size:30
Alignment explanation
Indices: 42982028--42982090 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
42982018 TAATAACATA
42982028 ATTAAAACCATAGTTTATATTATTTTCACT
1 ATTAAAACCATAGTTTATATTATTTTCACT
42982058 ATTAAAACCATAGTTTATATTATTTTCACT
1 ATTAAAACCATAGTTTATATTATTTTCACT
42982088 ATT
1 ATT
42982091 TCCGAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.48
Consensus pattern (30 bp):
ATTAAAACCATAGTTTATATTATTTTCACT
Found at i:42985917 original size:40 final size:39
Alignment explanation
Indices: 42985834--42986025 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 39
42985824 TCGAATGATG
* * * * *
42985834 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
42985874 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
42985914 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
42985953 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** * *
42985994 T-CGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
42986026 CGTTATATCC
Statistics
Matches: 123, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 33 0.27
40 81 0.66
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:42985974 original size:79 final size:82
Alignment explanation
Indices: 42985834--42986018 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
42985824 TCGAATGATG
* * *
42985834 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
42985898 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
42985914 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
42985976 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
42985994 T-CGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42986019 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.60
80 35 0.38
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:42986049 original size:79 final size:79
Alignment explanation
Indices: 42985834--42986051 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
42985824 TCGAATGATG
* * * * ** *
42985834 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
42985897 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
42985914 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
42985979 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
42985994 T-CGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
42986052 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 68 0.60
80 45 0.40
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:42993862 original size:40 final size:39
Alignment explanation
Indices: 42993805--42993988 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
42993795 TCGAATGATG
* * *
42993805 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAGGT-CCGAAGGCATTTGTGC-AAGTTACTAAA
* * *
42993845 TCCGGGCTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAGG-TCCGAAGGCATTTGTGCAAGTTACTAAA
*
42993885 TCCGGGCTAGGCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAGGTCCGAAGGCATTTGTGCAAGTTACTAAA
* * * * ** *
42993924 CCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTCACTATAA
1 TCCGGGCTAGGT-CCGAAGGCATTTGTGCAAGTTACTA-AA
**
42993965 -CCGGGCTTCGTCCGAAGGCATTTG
1 TCCGGGCTAGGTCCGAAGGCATTTG
42993989 AGCGAGTCGT
Statistics
Matches: 118, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 44 0.37
40 65 0.55
41 9 0.08
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAGGTCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:42993941 original size:79 final size:81
Alignment explanation
Indices: 42993805--42993988 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 81
42993795 TCGAATGATG
* * * *
42993805 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGGCTAGGATCCGAAGGCATT
1 TCCGGGCT-AGGCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGGCTAAGATCCGAAGGCATT
*
42993869 CGTGCGAGTTAATA-AA
65 CGTGCGAGTCAATATAA
* *
42993885 TCCGGGCTAGGCCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAGGCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGGCTAAGAT-CCGAAGGCATT
* *
42993948 CGTGTGAGTCACTATAA
65 CGTGCGAGTCAATATAA
** *
42993965 -CCGGGCTTCGTCCGAAGGCATTTG
1 TCCGGGCTAGGCCCGAAGGCATTTG
42993989 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 71 0.80
80 17 0.19
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAGGCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGGCTAAGATCCGAAGGCATTC
GTGCGAGTCAATATAA
Found at i:42996949 original size:27 final size:27
Alignment explanation
Indices: 42996910--42997007 Score: 142
Period size: 27 Copynumber: 3.6 Consensus size: 27
42996900 TATTTACCTG
* * *
42996910 AAAATGACTGAAATATCCCCATAGGGA
1 AAAATGACCGAAATACCCCCATAGGGT
42996937 AAAATGACCGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
*
42996964 AAAATGACCTAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
**
42996991 AAAATGACTAAAATACC
1 AAAATGACCGAAATACC
42997008 TTCTATAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.17
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCATAGGGT
Found at i:42997086 original size:26 final size:26
Alignment explanation
Indices: 42997056--42997143 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
42997046 AAACTAACTA
* *
42997056 TTTTGCCCTCATGTGGTAAATGACGG
1 TTTTGCCCTTATGTGGTAAATGACTG
*
42997082 TTTTGCCCTTATGTGGTAAAATGACTA
1 TTTTGCCCTTATGTGGT-AAATGACTG
* * *
42997109 ATTTGCCCTTAGGAGGTAAGATGACTG
1 TTTTGCCCTTATGTGGTAA-ATGACTG
42997136 TTTTGCCC
1 TTTTGCCC
42997144 CTACGTGATG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
26 18 0.35
27 34 0.65
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (26 bp):
TTTTGCCCTTATGTGGTAAATGACTG
Found at i:42997520 original size:18 final size:18
Alignment explanation
Indices: 42997499--42997535 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
42997489 CTGCTACTAC
42997499 ACTGTTTACTGTTATTGT
1 ACTGTTTACTGTTATTGT
42997517 ACTGTTTACTGTTATTGT
1 ACTGTTTACTGTTATTGT
42997535 A
1 A
42997536 ATGGGCCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.54
Consensus pattern (18 bp):
ACTGTTTACTGTTATTGT
Found at i:42998059 original size:17 final size:17
Alignment explanation
Indices: 42998039--42998071 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42998029 ATAAACGAGA
*
42998039 TTTTGAAGTAAATAATG
1 TTTTAAAGTAAATAATG
42998056 TTTTAAAGTAAATAAT
1 TTTTAAAGTAAATAAT
42998072 TTTGATAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (17 bp):
TTTTAAAGTAAATAATG
Found at i:42999970 original size:19 final size:21
Alignment explanation
Indices: 42999930--42999970 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
42999920 TAGATTATAC
*
42999930 ATTTCATATGCTCATTATCAT
1 ATTTCATATGCTCATCATCAT
42999951 ATTTCATA-GCT-ATCATCAT
1 ATTTCATATGCTCATCATCAT
42999970 A
1 A
42999971 CAGTTCAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 8 0.42
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.44
Consensus pattern (21 bp):
ATTTCATATGCTCATCATCAT
Found at i:43001366 original size:23 final size:24
Alignment explanation
Indices: 43001315--43001368 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
43001305 TTTGTGGTCC
43001315 CGAAACTACCATTTCGACTAGGGT
1 CGAAACTACCATTTCGACTAGGGT
43001339 CGAAACTACCATTTCGACTA-GGT
1 CGAAACTACCATTTCGACTAGGGT
43001362 CGAAACT
1 CGAAACT
43001369 GGACTGTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 10 0.33
24 20 0.67
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (24 bp):
CGAAACTACCATTTCGACTAGGGT
Found at i:43007353 original size:18 final size:18
Alignment explanation
Indices: 43007330--43007364 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43007320 ACGATGCAGA
*
43007330 TGTCCCAAACATGGTCTG
1 TGTCCCAAACACGGTCTG
*
43007348 TGTCCCAGACACGGTCT
1 TGTCCCAAACACGGTCT
43007365 TAAGCGATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (18 bp):
TGTCCCAAACACGGTCTG
Found at i:43013815 original size:40 final size:40
Alignment explanation
Indices: 43013737--43013917 Score: 231
Period size: 40 Copynumber: 4.5 Consensus size: 40
43013727 ACCCAAGTAT
* * *
43013737 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCAGAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
43013776 CTTCGGGTCTTAGCCCGGTTATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
43013816 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* ** *
43013856 CTTCGGGACTTAGCCCGGGTATAGGAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
43013896 CTTCGGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
43013918 CATCCGAATA
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 11 0.09
40 112 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:43015284 original size:39 final size:40
Alignment explanation
Indices: 43015226--43015326 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
43015216 AAATTGAATG
* *
43015226 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
43015265 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
43015305 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
43015327 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:43015319 original size:40 final size:40
Alignment explanation
Indices: 43015226--43015402 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
43015216 AAATTGAATG
* * * * *
43015226 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
43015265 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
43015305 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
43015345 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
43015385 ATATCCGGG-TAAGTCCCG
1 ATATCCGGGCTAAGACCCG
43015403 TGGCCTTGGT
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 40 0.34
40 75 0.64
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:43022611 original size:40 final size:38
Alignment explanation
Indices: 43022440--43022612 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
43022430 TGAGAAATTG
* *
43022440 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * * *
43022479 AATTTATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
43022517 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
43022557 AGTTGTAAATTCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATGTATA-TCCGGGCTAAGACCCGAAGGCATTTGTGCA
43022597 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
43022613 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 9 0.08
40 91 0.83
41 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:43029833 original size:40 final size:39
Alignment explanation
Indices: 43029665--43029844 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
43029655 AGAAATTGAA
* *
43029665 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
43029705 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
43029745 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
43029785 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
43029825 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
43029845 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:43044986 original size:15 final size:15
Alignment explanation
Indices: 43044966--43045000 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
43044956 TTGGCCACGG
43044966 GTGTGTGCCTTGGCC
1 GTGTGTGCCTTGGCC
43044981 GTGTGTGCCTTGGCC
1 GTGTGTGCCTTGGCC
43044996 GTGTG
1 GTGTG
43045001 CCCTTAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.23, G:0.43, T:0.34
Consensus pattern (15 bp):
GTGTGTGCCTTGGCC
Found at i:43057921 original size:48 final size:48
Alignment explanation
Indices: 43057798--43057930 Score: 176
Period size: 48 Copynumber: 2.8 Consensus size: 48
43057788 TCTCATATCG
* **** * *
43057798 ATGCCATGTCCTAGACATGGTCTTACACAAAATCACATATTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATACCA
* *
43057846 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATACCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATACCA
*
43057894 ATTCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
43057931 CCTAATCCAA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATACCA
Found at i:43059523 original size:76 final size:76
Alignment explanation
Indices: 43059397--43059550 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
43059387 CAATTTGGTT
*
43059397 CCACCATCTAACTAATAGGCTAATTTGCCCATATCTTACCCATATTGGTCCGTAAGCCCATTGGG
1 CCACCATCTAACTAACAGGCTAATTTGCCCATATCTTACCCATATTGGTCCGTAAGCCCATTGGG
43059462 CCCAGTTTTGG
66 CCCAGTTTTGG
43059473 CCACCATCTAACTAACAGGCTAATTTGCCCATATCTTACCCATATTGGTCCGTAAGCCCATTGGG
1 CCACCATCTAACTAACAGGCTAATTTGCCCATATCTTACCCATATTGGTCCGTAAGCCCATTGGG
43059538 CCCAGTTTTGG
66 CCCAGTTTTGG
43059549 CC
1 CC
43059551 CATCTGACCC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (76 bp):
CCACCATCTAACTAACAGGCTAATTTGCCCATATCTTACCCATATTGGTCCGTAAGCCCATTGGG
CCCAGTTTTGG
Found at i:43070936 original size:46 final size:46
Alignment explanation
Indices: 43070869--43071042 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
43070859 TGTAACCCGC
*
43070869 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
43070915 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
43070965 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGCGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
43071007 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
43071043 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 3 0.03
45 26 0.24
46 37 0.34
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:43071035 original size:92 final size:93
Alignment explanation
Indices: 43070877--43071047 Score: 317
Period size: 92 Copynumber: 1.8 Consensus size: 93
43070867 GCCCATAAGT
*
43070877 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43070942 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43070970 GAACTCGGACTCAACTCAACGAGTTC-GGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43071034 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43071048 CAAATATCCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 51 0.67
93 25 0.33
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43073074 original size:15 final size:14
Alignment explanation
Indices: 43073054--43073101 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
43073044 TAGGGGTGTT
43073054 ATAAAGGAATCCAAG
1 ATAAA-GAATCCAAG
43073069 ATAAAGATATCCAAG
1 ATAAAGA-ATCCAAG
* *
43073084 GTAAAAAAATCCAAG
1 AT-AAAGAATCCAAG
43073099 ATA
1 ATA
43073102 CCATATCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 3 0.11
15 21 0.75
16 4 0.14
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (14 bp):
ATAAAGAATCCAAG
Found at i:43075350 original size:46 final size:46
Alignment explanation
Indices: 43075283--43075466 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
43075273 AACCCGCCCT
* * *
43075283 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* *
43075329 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCA--TC-C--A
** *
43075384 CTCTCATCTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 ---T-AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
43075434 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
43075467 ATGCTCAACC
Statistics
Matches: 113, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
46 61 0.54
47 1 0.01
48 1 0.01
49 1 0.01
50 5 0.04
52 3 0.03
53 3 0.03
55 6 0.05
56 1 0.01
58 1 0.01
59 30 0.27
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:43078429 original size:15 final size:15
Alignment explanation
Indices: 43078409--43078438 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43078399 CTAGCCCAGT
43078409 CCAACCAACACACCA
1 CCAACCAACACACCA
43078424 CCAACCAACACACCA
1 CCAACCAACACACCA
43078439 TGTGGGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (15 bp):
CCAACCAACACACCA
Found at i:43078792 original size:27 final size:27
Alignment explanation
Indices: 43078754--43078806 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
43078744 CGAAGGGCCA
* *
43078754 TACAGGGGTATTACAGTTATTTTACAC
1 TACAAGGGTATTACAGTGATTTTACAC
* *
43078781 TACAAGGGTATTTCGGTGATTTTACA
1 TACAAGGGTATTACAGTGATTTTACA
43078807 AATCGGGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (27 bp):
TACAAGGGTATTACAGTGATTTTACAC
Found at i:43082116 original size:33 final size:34
Alignment explanation
Indices: 43082039--43082119 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
43082029 TATGGGCCAT
* *
43082039 ACTGTTATTTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
43082073 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
43082106 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
43082120 GGGCTTAGGC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 13 0.35
33 14 0.38
34 10 0.27
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:43084405 original size:21 final size:20
Alignment explanation
Indices: 43084379--43084419 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
43084369 TAGAGAGGTC
*
43084379 ATGGCCAAGGTCGTGGTGGCA
1 ATGGCCAAGGGCGTGG-GGCA
*
43084400 ATGGCCATGGGCGTGGGGCA
1 ATGGCCAAGGGCGTGGGGCA
43084420 CCTGGTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.20, G:0.46, T:0.17
Consensus pattern (20 bp):
ATGGCCAAGGGCGTGGGGCA
Found at i:43087883 original size:33 final size:34
Alignment explanation
Indices: 43087810--43087886 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
43087800 GGCCATACTA
*
43087810 TTATCTGAATAAGGGGCTAAGGCCCAGTTTAATG
1 TTATCTGAATAAGGGGCTAAGGCCCAGTTCAATG
* ** *
43087844 TAATCTGAA-AA-GGGCTCTGGCCCAGTATCACTG
1 TTATCTGAATAAGGGGCTAAGGCCCAGT-TCAATG
43087877 TTATCTGAAT
1 TTATCTGAAT
43087887 GGGCTTGCGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
32 13 0.37
33 14 0.40
34 8 0.23
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (34 bp):
TTATCTGAATAAGGGGCTAAGGCCCAGTTCAATG
Found at i:43088608 original size:51 final size:50
Alignment explanation
Indices: 43088463--43088659 Score: 182
Period size: 50 Copynumber: 4.0 Consensus size: 50
43088453 TGCTACATGC
43088463 GACC-AATTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGT
1 GACCGAATTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGT
* ** * * * *
43088512 GACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGT
1 GACCGAATTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGT
* * * * * *
43088562 GATCGAAGTTATCGGGTACGCATAGTAGCCTGCATTTAGTACTACACATGC
1 GACCGAA-TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGT
* * * * * * * *
43088613 AACC-AATAATTCGATACACGTAGTAGCCAGCACATAATACTACACAC
1 GACCGAATTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACAC
43088660 ATGAGCTCAC
Statistics
Matches: 115, Mismatches: 31, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
49 34 0.30
50 46 0.40
51 35 0.30
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (50 bp):
GACCGAATTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGT
Found at i:43104744 original size:30 final size:30
Alignment explanation
Indices: 43104708--43104808 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
43104698 GACAAGATTG
* * *
43104708 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
43104738 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
43104766 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
43104795 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43104809 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:43104820 original size:29 final size:28
Alignment explanation
Indices: 43104737--43104812 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
43104727 AAAATTGTAC
* *
43104737 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
43104765 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
43104794 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
43104813 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:43109385 original size:40 final size:40
Alignment explanation
Indices: 43109340--43109507 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
43109330 CGGAATATAA
43109340 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
43109380 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
43109420 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43109460 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
43109500 CCGGATAT
1 CCGGATAT
43109508 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43117399 original size:40 final size:40
Alignment explanation
Indices: 43117354--43117520 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
43117344 CGGAATATAA
43117354 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * *
43117394 CCGGATA-AATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
43117433 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43117473 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
43117513 CCGGATAT
1 CCGGATAT
43117521 CATTCAATTT
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.33
40 66 0.65
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43123890 original size:28 final size:28
Alignment explanation
Indices: 43123855--43123923 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
43123845 ATTGTACAGT
* * *
43123855 ACTAAGTGTGCGAGTTTG-ATTCTATAGC
1 ACTAAGTGTGCGAG-CTGAAATATATAGC
43123883 ACTAAGTGTGCGAGCTGAAAATATATAGC
1 ACTAAGTGTGCGAGCTG-AAATATATAGC
43123912 ACTAAGTGTGCG
1 ACTAAGTGTGCG
43123924 GATTCACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.06
28 14 0.39
29 20 0.56
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
ACTAAGTGTGCGAGCTGAAATATATAGC
Found at i:43131234 original size:24 final size:24
Alignment explanation
Indices: 43131193--43131433 Score: 117
Period size: 24 Copynumber: 10.0 Consensus size: 24
43131183 AATTTAGTCT
* ** *
43131193 TATGAATTTGAACAGCACTACGTG
1 TATGAATTTGTATGGCACTATGTG
*
43131217 TATGAATTTGTATGGCACTATGTC
1 TATGAATTTGTATGGCACTATGTG
** * * * * *
43131241 TGCGGATTTGAATGTCAATATGTA
1 TATGAATTTGTATGGCACTATGTG
** *
43131265 TATGAATTACTAAGGCACTATGTG
1 TATGAATTTGTATGGCACTATGTG
** *
43131289 TGCGAATTTGTATGGCACTATATG
1 TATGAATTTGTATGGCACTATGTG
** * * * *
43131313 TGCGGATTTATATGGCAATAGGTG
1 TATGAATTTGTATGGCACTATGTG
* * *
43131337 TACGAATTTGAATGTCA--ATGTG
1 TATGAATTTGTATGGCACTATGTG
** *
43131359 TATGTGAATTACTAAGGCACTATGTG
1 TA--TGAATTTGTATGGCACTATGTG
** *
43131385 TGCGAATTTGTATGGCACTATATG
1 TATGAATTTGTATGGCACTATGTG
** * *
43131409 TGCGGATTTATATGGCACTATGTG
1 TATGAATTTGTATGGCACTATGTG
43131433 T
1 T
43131434 GCGGATTTGA
Statistics
Matches: 159, Mismatches: 54, Indels: 8
0.72 0.24 0.04
Matches are distributed among these distances:
22 6 0.04
24 147 0.92
26 6 0.04
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (24 bp):
TATGAATTTGTATGGCACTATGTG
Found at i:43131434 original size:24 final size:24
Alignment explanation
Indices: 43131278--43131513 Score: 158
Period size: 24 Copynumber: 9.8 Consensus size: 24
43131268 GAATTACTAA
* *
43131278 GGCACTATGTGTGCGAATTTGTAT
1 GGCACTATGTGTGCGGATTTATAT
*
43131302 GGCACTATATGTGCGGATTTATAT
1 GGCACTATGTGTGCGGATTTATAT
* * * *
43131326 GGCAATAGGTGTACGAATTTGA-AT
1 GGCACTATGTGTGCGGATTT-ATAT
* ** * *
43131350 GTCA--ATGTGTATGTGAATTACTAA
1 GGCACTATGTGTGCG-GATTTA-TAT
* *
43131374 GGCACTATGTGTGCGAATTTGTAT
1 GGCACTATGTGTGCGGATTTATAT
*
43131398 GGCACTATATGTGCGGATTTATAT
1 GGCACTATGTGTGCGGATTTATAT
43131422 GGCACTATGTGTGCGGATTTGA-AT
1 GGCACTATGTGTGCGGATTT-ATAT
* * * * * *
43131446 GTCAATATGTATG-TGAATTACTAA
1 GGCACTATGTGTGCGGATTTA-TAT
* * *
43131470 GGCACTATGTGTGCGGGTTAACAT
1 GGCACTATGTGTGCGGATTTATAT
* *
43131494 GGCACTATGGGTGCGAATTT
1 GGCACTATGTGTGCGGATTT
43131514 CCTTGCTTGA
Statistics
Matches: 158, Mismatches: 44, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
22 9 0.06
23 7 0.04
24 127 0.80
25 8 0.05
26 7 0.04
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.35
Consensus pattern (24 bp):
GGCACTATGTGTGCGGATTTATAT
Found at i:43131485 original size:48 final size:48
Alignment explanation
Indices: 43131230--43131484 Score: 266
Period size: 48 Copynumber: 5.3 Consensus size: 48
43131220 GAATTTGTAT
* * *
43131230 GGCACTATGTCTGCGGATTTGAATGTCAATATGTATATGAATTACTAA
1 GGCACTATGTGTGCGAATTTGAATGTCAATATGTATGTGAATTACTAA
* * ** * *
43131278 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCG-GATTTA-TAT
1 GGCACTATGTGTGCGAATTTGAATGTCA--ATATGTATGTGAATTACTAA
* * * *
43131326 GGCAATAGGTGTACGAATTTGAATGTCAATGTGTATGTGAATTACTAA
1 GGCACTATGTGTGCGAATTTGAATGTCAATATGTATGTGAATTACTAA
* * ** * *
43131374 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCG-GATTTA-TAT
1 GGCACTATGTGTGCGAATTTGAATGTCA--ATATGTATGTGAATTACTAA
*
43131422 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGAATTTGAATGTCAATATGTATGTGAATTACTAA
43131470 GGCACTATGTGTGCG
1 GGCACTATGTGTGCG
43131485 GGTTAACATG
Statistics
Matches: 163, Mismatches: 36, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
46 13 0.08
47 10 0.06
48 118 0.72
49 10 0.06
50 12 0.07
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (48 bp):
GGCACTATGTGTGCGAATTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:43131508 original size:96 final size:96
Alignment explanation
Indices: 43131222--43131484 Score: 454
Period size: 96 Copynumber: 2.7 Consensus size: 96
43131212 ACGTGTATGA
* * *
43131222 ATTTGTATGGCACTATGTCTGCGGATTTGAATGTCAATATGTATATGAATTACTAAGGCACTATG
1 ATTTATATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATG
43131287 TGTGCGAATTTGTATGGCACTATATGTGCGG
66 TGTGCGAATTTGTATGGCACTATATGTGCGG
* * * * *
43131318 ATTTATATGGCAATAGGTGTACGAATTTGAATGTCAATGTGTATGTGAATTACTAAGGCACTATG
1 ATTTATATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATG
43131383 TGTGCGAATTTGTATGGCACTATATGTGCGG
66 TGTGCGAATTTGTATGGCACTATATGTGCGG
43131414 ATTTATATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATG
1 ATTTATATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATG
43131479 TGTGCG
66 TGTGCG
43131485 GGTTAACATG
Statistics
Matches: 154, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 154 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.36
Consensus pattern (96 bp):
ATTTATATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATG
TGTGCGAATTTGTATGGCACTATATGTGCGG
Found at i:43138675 original size:16 final size:16
Alignment explanation
Indices: 43138656--43138687 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43138646 ATGTCCAAAA
43138656 ATATATATGTGTTTAT
1 ATATATATGTGTTTAT
*
43138672 ATATATGTGTGTTTAT
1 ATATATATGTGTTTAT
43138688 TTGAAGTAAT
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:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (16 bp):
ATATATATGTGTTTAT
Found at i:43139140 original size:24 final size:24
Alignment explanation
Indices: 43139113--43139396 Score: 222
Period size: 24 Copynumber: 11.8 Consensus size: 24
43139103 GAAATGACTT
*
43139113 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
43139137 TGGCACTATGTGTACTAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
43139161 TGGTACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
43139185 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
43139210 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * **
43139233 TGGCACTATATGTGCGGATTTTTA
1 TGGCACTATGTGTGCGAATTTGAA
*
43139257 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
43139281 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
43139306 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
43139329 TGGCACTATATGTGC-AGATTT-ATA
1 TGGCACTATGTGTGCGA-ATTTGA-A
43139353 TGGCACTATGTGTGC-AGATTTGAA
1 TGGCACTATGTGTGCGA-ATTTGAA
* * * *
43139377 TGTCAATATGTATGTGAATT
1 TGGCACTATGTGTGCGAATT
43139397 ACTAAGATAC
Statistics
Matches: 207, Mismatches: 41, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.01
23 3 0.01
24 194 0.94
25 6 0.03
26 2 0.01
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:43139409 original size:48 final size:47
Alignment explanation
Indices: 43139165--43139416 Score: 267
Period size: 48 Copynumber: 5.3 Consensus size: 47
43139155 TTTGTATGGT
43139165 ACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGC
1 ACTATGTGTGC-GATTTGAATGTCAATATGTATGTGAATTACTAAGGC
* * * * * * * ** *
43139213 ACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTTTATGGC
1 ACTATGTGTGCG-ATTTGAATGTCAATATGTATGTGAATTACTAAGGC
43139261 ACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGC
1 ACTATGTGTGC-GATTTGAATGTCAATATGTATGTGAATTACTAAGGC
* * * *
43139309 ACTATGTGTGCGAATTTGTATGGCACTA--TATGTGCAGATTTA-TATGGC
1 ACTATGTGTGCG-ATTTGAATGTCAATATGTATGTG-A-A-TTACTAAGGC
**
43139357 ACTATGTGTGCAGATTTGAATGTCAATATGTATGTGAATTACTAAGAT
1 ACTATGTGTGC-GATTTGAATGTCAATATGTATGTGAATTACTAAGGC
43139405 ACTATGTGTGCG
1 ACTATGTGTGCG
43139417 GGTTAACATG
Statistics
Matches: 164, Mismatches: 30, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
46 6 0.04
47 7 0.04
48 139 0.85
49 6 0.04
50 6 0.04
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (47 bp):
ACTATGTGTGCGATTTGAATGTCAATATGTATGTGAATTACTAAGGC
Found at i:43139433 original size:96 final size:96
Alignment explanation
Indices: 43139114--43139416 Score: 491
Period size: 96 Copynumber: 3.2 Consensus size: 96
43139104 AAATGACTTT
* * * * * *
43139114 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTACTA-ATTTGTATGGTACTATGTGTGCGG
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGC-AGATTTATATGGCACTATGTGTGCGG
43139178 ATTTGAATGTCAATATGTATGTGAATTACTAA
65 ATTTGAATGTCAATATGTATGTGAATTACTAA
* *
43139210 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTTTATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCAGATTTATATGGCACTATGTGTGCGGA
43139275 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
43139306 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCAGATTTATATGGCACTATGTGTGCAGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCAGATTTATATGGCACTATGTGTGCGGA
43139371 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
**
43139402 GATACTATGTGTGCG
1 GGCACTATGTGTGCG
43139417 GGTTAACATG
Statistics
Matches: 194, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 194 1.00
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.37
Consensus pattern (96 bp):
GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCAGATTTATATGGCACTATGTGTGCGGA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:43141852 original size:39 final size:40
Alignment explanation
Indices: 43141793--43141995 Score: 257
Period size: 40 Copynumber: 5.1 Consensus size: 40
43141783 TGAATGATAC
* * * * *
43141793 CCGGGCTAAGCCCCGGAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
43141833 CCGGGTTAAGA-CCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
43141872 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
43141912 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
43141952 CCGGGTTAAGACCCGAAGGAAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
43141992 CCGG
1 CCGG
43141996 CTAAATTCCA
Statistics
Matches: 143, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 32 0.22
40 111 0.78
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:43141924 original size:79 final size:80
Alignment explanation
Indices: 43141789--43141999 Score: 293
Period size: 80 Copynumber: 2.7 Consensus size: 80
43141779 CAATTGAATG
* * * * *
43141789 ATACCCGGGCTAAGCCCCGGAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGA-CCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
43141852 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
43141868 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
43141933 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * * *
43141948 ATACCCGGGTTAAGACCCGAAGGAAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
43142000 ATTCCAAAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 51 0.44
80 66 0.56
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:43148533 original size:40 final size:40
Alignment explanation
Indices: 43148448--43148533 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
43148438 TTAGTGCCTC
* * * *
43148448 ATATAGTCGAAGCTATTCTAATTCGCACACTTAGTGCTAT
1 ATATAGCCGAAGCTATTCTAATACGCACACTTAGTGCAAA
* * *
43148488 TTATAGCCGAAGCTATTTTGAA-ACGCACACTTAGTGGAAA
1 ATATAGCCGAAGCTATTCT-AATACGCACACTTAGTGCAAA
43148528 ATATAG
1 ATATAG
43148534 TCGATTTATC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
40 35 0.95
41 2 0.05
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (40 bp):
ATATAGCCGAAGCTATTCTAATACGCACACTTAGTGCAAA
Found at i:43153850 original size:11 final size:11
Alignment explanation
Indices: 43153834--43153858 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43153824 TGCCGTACCT
43153834 AGAAAAAAAAA
1 AGAAAAAAAAA
43153845 AGAAAAAAAAA
1 AGAAAAAAAAA
43153856 AGA
1 AGA
43153859 TTCATCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:43155101 original size:40 final size:40
Alignment explanation
Indices: 43155046--43155230 Score: 318
Period size: 40 Copynumber: 4.6 Consensus size: 40
43155036 CGGATGATAA
* *
43155046 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
43155086 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43155126 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
43155166 CCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43155206 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43155231 AGCAAGTAGT
Statistics
Matches: 140, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 139 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43155245 original size:80 final size:79
Alignment explanation
Indices: 43155042--43155262 Score: 302
Period size: 80 Copynumber: 2.8 Consensus size: 79
43155032 TATTCGGATG
* *
43155042 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
*
43155106 ATTTGTGCGAGTTACT
64 ATTTGTGCCAGTTACT
* * *
43155122 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGCA
43155187 TTTGTGCCAGTTACT
65 TTTGTGCCAGTTACT
* * * *
43155202 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATTC-GGCTAAATCCGGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
43155263 ATGCTTGGGT
Statistics
Matches: 128, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
79 15 0.12
80 111 0.87
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCCAGTTACT
Found at i:43155530 original size:22 final size:21
Alignment explanation
Indices: 43155489--43155532 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
43155479 GAATGTGCAT
43155489 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
43155511 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
43155533 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:43158841 original size:40 final size:40
Alignment explanation
Indices: 43158804--43158987 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
43158794 GCTACTCGTT
*
43158804 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
43158844 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
43158884 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
43158923 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
43158964 CAAA-GCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
43158988 ACATCATTCG
Statistics
Matches: 123, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 78 0.63
41 13 0.11
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43158919 original size:79 final size:80
Alignment explanation
Indices: 43158806--43158988 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
43158796 TACTCGTTCA
* * *
43158806 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
43158869 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
43158886 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
*
43158950 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
* *
43158965 AAAGCCTTCAGGACTTAGCCCGGA
1 AATGCCTTC-GGGCTTAGCCCGGA
43158989 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.63
80 30 0.34
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:43161003 original size:21 final size:21
Alignment explanation
Indices: 43160978--43161019 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
43160968 AACATACCTT
43160978 AGTCTAGCAAACCACCATAGC
1 AGTCTAGCAAACCACCATAGC
43160999 AGTCTAGCAAACCACCATAGC
1 AGTCTAGCAAACCACCATAGC
43161020 CGATTTTCTC
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:0.38, C:0.33, G:0.14, T:0.14
Consensus pattern (21 bp):
AGTCTAGCAAACCACCATAGC
Found at i:43161606 original size:40 final size:40
Alignment explanation
Indices: 43161504--43161606 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 40
43161494 ATCACGATAT
** * *
43161504 CGCACACTTAGTGCCTCATATAGCTGAAGCTATTCTAATT
1 CGCACACTTAGTGCCAAATATAGCTAAAGCTATTCTAATA
** * ** *
43161544 TTCACACTTAGTGCTATTTATAGCTAAAGCTATTTTGAA-A
1 CGCACACTTAGTGCCAAATATAGCTAAAGCTATTCT-AATA
43161584 CGCACACTTAGTGCCAAATATAG
1 CGCACACTTAGTGCCAAATATAG
43161607 TCGATTTATC
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (40 bp):
CGCACACTTAGTGCCAAATATAGCTAAAGCTATTCTAATA
Found at i:43169611 original size:14 final size:14
Alignment explanation
Indices: 43169592--43169621 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43169582 ATTTTTGTGA
43169592 TCGTTGCTTCGTAT
1 TCGTTGCTTCGTAT
43169606 TCGTTGCTTCGTAT
1 TCGTTGCTTCGTAT
43169620 TC
1 TC
43169622 TAGCTAGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (14 bp):
TCGTTGCTTCGTAT
Found at i:43170400 original size:24 final size:25
Alignment explanation
Indices: 43170364--43170434 Score: 87
Period size: 24 Copynumber: 2.9 Consensus size: 25
43170354 ACCAATATAT
43170364 CAGCTCGCA-AGAGCTTACTGTTCT-
1 CAGCTCG-ATAGAGCTTACTGTTCTC
*
43170388 CAGCTTG-TCAGAGCTTACTGTT-TC
1 CAGCTCGAT-AGAGCTTACTGTTCTC
43170412 CAGCTCGATAGAGCTTACTGTTC
1 CAGCTCGATAGAGCTTACTGTTC
43170435 ATCAACTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (25 bp):
CAGCTCGATAGAGCTTACTGTTCTC
Found at i:43172978 original size:28 final size:28
Alignment explanation
Indices: 43172932--43173031 Score: 76
Period size: 28 Copynumber: 3.4 Consensus size: 28
43172922 GACTGCACTG
*
43172932 TACTGATACTGAATTGGGCTTAA-GCCCA
1 TACTGATACTGAATAGGGC-TAAGGCCCA
* *
43172960 TACTGTTACTGTATAGGGCTAAGGCCCAGA
1 TACTGATACTGAATAGGGCTAAGGCCC--A
* *
43172990 TTGTACTGATACTGAGTAGGGCTCAGGCCCA
1 ---TACTGATACTGAATAGGGCTAAGGCCCA
* *
43173021 GACTGGTACTG
1 TACTGATACTG
43173032 CATGCACTGT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
27 3 0.05
28 29 0.51
30 1 0.02
31 1 0.02
33 23 0.40
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (28 bp):
TACTGATACTGAATAGGGCTAAGGCCCA
Found at i:43172997 original size:33 final size:34
Alignment explanation
Indices: 43172960--43173031 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 34
43172950 CTTAAGCCCA
* *
43172960 TACTGTTACTGTA-TAGGGCTAAGGCCCAGA-TTG
1 TACTGATACTG-AGTAGGGCTAAGGCCCAGACTGG
*
43172993 TACTGATACTGAGTAGGGCTCAGGCCCAGACTGG
1 TACTGATACTGAGTAGGGCTAAGGCCCAGACTGG
43173027 TACTG
1 TACTG
43173032 CATGCACTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 1 0.03
33 26 0.76
34 7 0.21
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (34 bp):
TACTGATACTGAGTAGGGCTAAGGCCCAGACTGG
Found at i:43174053 original size:42 final size:42
Alignment explanation
Indices: 43173976--43174109 Score: 110
Period size: 42 Copynumber: 3.1 Consensus size: 42
43173966 GTCTTACATT
* * * * * *
43173976 AATCAAATATCGATGCCACTATCCCTAACAGGGTCTTACATGA
1 AATCAAATA-CGATGCTAATGTCCATAACATGGTCTTACACGA
* *
43174019 AATCAAATACGATGCTGATGTCCATCACATGGTCTTACACGTA
1 AATCAAATACGATGCTAATGTCCATAACATGGTCTTACACG-A
* * *
43174062 AATCTCAAAT-CGATGTTAATGTCCCA-GACGTGGTCTTACACGA
1 AA--TCAAATACGATGCTAATGT-CCATAACATGGTCTTACACGA
43174105 AATCA
1 AATCA
43174110 CACATCGGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
41 3 0.04
42 24 0.32
43 15 0.20
44 24 0.32
45 9 0.12
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
AATCAAATACGATGCTAATGTCCATAACATGGTCTTACACGA
Found at i:43174084 original size:44 final size:44
Alignment explanation
Indices: 43174007--43174108 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
43173997 TCCCTAACAG
* *
43174007 GGTCTTACATGAAA--TCAAATACGATGCTGATGT-CCATCACAT
1 GGTCTTACACGAAATCTCAAATACGATGCTAATGTCCCA-CACAT
* * *
43174049 GGTCTTACACGTAAATCTCAAAT-CGATGTTAATGTCCCAGACGT
1 GGTCTTACACG-AAATCTCAAATACGATGCTAATGTCCCACACAT
43174093 GGTCTTACACGAAATC
1 GGTCTTACACGAAATC
43174109 ACACATCGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
42 10 0.20
43 8 0.16
44 24 0.47
45 9 0.18
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (44 bp):
GGTCTTACACGAAATCTCAAATACGATGCTAATGTCCCACACAT
Found at i:43177513 original size:29 final size:29
Alignment explanation
Indices: 43177452--43177541 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
43177442 CACATACCTG
* *
43177452 TATATTGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
43177480 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
43177509 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
43177538 TATA
1 TATA
43177542 GTCATGCTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 17 0.30
29 40 0.70
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:43180443 original size:13 final size:13
Alignment explanation
Indices: 43180425--43180452 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43180415 ATCCTAATTT
43180425 GAAATATTAGCCA
1 GAAATATTAGCCA
43180438 GAAATATTAGCCA
1 GAAATATTAGCCA
43180451 GA
1 GA
43180453 GGAAAGACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.21
Consensus pattern (13 bp):
GAAATATTAGCCA
Found at i:43181494 original size:29 final size:28
Alignment explanation
Indices: 43181435--43181524 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 28
43181425 CACATACCTG
* *
43181435 TATACGGCCCACTAGGCCCAATCACATT
1 TATATGGCCCATTAGGCCCAATCACATT
*
43181463 TATATGGCCCATTAAGCCCAGATCACATT
1 TATATGGCCCATTAGGCCCA-ATCACATT
*
43181492 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAA-TCACATT
43181521 TATA
1 TATA
43181525 GTCATGCTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 18 0.33
29 37 0.67
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (28 bp):
TATATGGCCCATTAGGCCCAATCACATT
Found at i:43191240 original size:43 final size:41
Alignment explanation
Indices: 43191128--43191284 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 41
43191118 CAATGCCAAC
* * *
43191128 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATGCCA-T
*
43191171 ATCCCAGACA-GGTTCTTACACGAAATCAAATACGATGCCGAT
1 GTCCCAGACATGG-TCTTACACGAAATCAAATACGATGCC-AT
*
43191213 GTCCCACACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACG-AAA--TCAAATACGATGCC-AT
* **
43191257 GTTCCAGATGTGGTCTTACACGAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
43191285 CACATCAGAA
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 3 0.03
42 27 0.28
43 34 0.35
44 27 0.28
45 6 0.06
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACGATGCCAT
Found at i:43195904 original size:46 final size:45
Alignment explanation
Indices: 43195850--43196022 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
43195840 TGGTTGAGCA
43195850 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
43195896 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
43195941 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
43195989 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43196023 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:43196006 original size:93 final size:93
Alignment explanation
Indices: 43195847--43196017 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
43195837 GGATGGTTGA
*
43195847 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAACTCGTTGAGT
43195912 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
43195940 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAACTCGTTGAGT
43196005 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43196018 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:43200338 original size:15 final size:15
Alignment explanation
Indices: 43200318--43200348 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43200308 CAAGATTAGT
43200318 TGTGAAATTCAAAAC
1 TGTGAAATTCAAAAC
43200333 TGTGAAATTCAAAAC
1 TGTGAAATTCAAAAC
43200348 T
1 T
43200349 TTCATCGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (15 bp):
TGTGAAATTCAAAAC
Found at i:43201958 original size:21 final size:22
Alignment explanation
Indices: 43201932--43201972 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
43201922 TGTATTTTTG
43201932 TGTTTAATGG-TAGA-AAATGCA
1 TGTTT-ATGGTTAGAGAAATGCA
43201953 TGTTTATGGTTAGAGAAATG
1 TGTTTATGGTTAGAGAAATG
43201973 ACTTTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (22 bp):
TGTTTATGGTTAGAGAAATGCA
Found at i:43202608 original size:48 final size:48
Alignment explanation
Indices: 43202543--43202718 Score: 156
Period size: 48 Copynumber: 3.7 Consensus size: 48
43202533 TTATATGAGG
* * *
43202543 TCCCATATAAGACCATGTTTAGGACATGGCATTGGTATCGATATGATA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGATA
* * * * * * *
43202591 TCCCATGTAAGATCATGTCTGGGACACGGTATTGGCATTGATATTAGA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGATA
* * * *
43202639 TCTCATGTAAGACCATATCTAGGATATGGCACTGGCATCGATATG-TAA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGAT-A
** * * * *
43202687 TTTCGTGTAAAACCATGTTTGGGACATGGCAT
1 TCCCATGTAAGACCATGTCTAGGACATGGCAT
43202719 CAATATAAGA
Statistics
Matches: 98, Mismatches: 29, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (48 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGATA
Found at i:43203553 original size:31 final size:31
Alignment explanation
Indices: 43203515--43203578 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
43203505 CCTTTTCATA
43203515 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
43203546 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
43203577 TT
1 TT
43203579 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:43203821 original size:24 final size:24
Alignment explanation
Indices: 43203770--43203912 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
43203760 GCTTTATCAT
*
43203770 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
43203795 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
43203819 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
43203842 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
43203866 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
43203890 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43203913 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43203849 original size:47 final size:48
Alignment explanation
Indices: 43203770--43203911 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
43203760 GCTTTATCAT
* *
43203770 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
43203819 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
43203866 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
43203912 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:43203870 original size:71 final size:72
Alignment explanation
Indices: 43203769--43203912 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
43203759 TGCTTTATCA
*
43203769 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
43203834 GCCCTTT
66 GCCCTTT
* * **
43203841 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
43203904 AGCCCTTT
65 AGCCCTTT
43203912 T
1 T
43203913 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:43203987 original size:20 final size:20
Alignment explanation
Indices: 43203962--43204022 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
43203952 TTATGATTAC
43203962 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43203982 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
43204002 TTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43204022 A
1 A
43204023 CCATATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:43203993 original size:11 final size:11
Alignment explanation
Indices: 43203962--43204017 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
43203952 TTATGATTAC
43203962 ATCATGTGCAT
1 ATCATGTGCAT
*
43203973 ATCA--TACAT
1 ATCATGTGCAT
43203982 ATCATGTGCAT
1 ATCATGTGCAT
*
43203993 ATCA--TACAT
1 ATCATGTGCAT
*
43204002 TTCATGTGCAT
1 ATCATGTGCAT
43204013 ATCAT
1 ATCAT
43204018 ACATACCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:43204106 original size:24 final size:24
Alignment explanation
Indices: 43204065--43204111 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
43204055 ATACATAAAC
* * *
43204065 CCTAGGGGTATAATGGTCATTTTA
1 CCTAGGGGCAAAACGGTCATTTTA
43204089 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43204112 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:43205291 original size:26 final size:26
Alignment explanation
Indices: 43205262--43205324 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
43205252 GGGCATATTC
*
43205262 GTCATTTTACATACAGGGG-TATTACG
1 GTCATTTTACATACAGGGGCT-TTACA
* *
43205288 GTCACTTTACCCTACAGGGGCTTTACA
1 GTCATTTTA-CATACAGGGGCTTTACA
*
43205315 GTCTTTTTAC
1 GTCATTTTAC
43205325 CTTTTAGGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 9 0.30
27 20 0.67
28 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (26 bp):
GTCATTTTACATACAGGGGCTTTACA
Found at i:43205683 original size:27 final size:27
Alignment explanation
Indices: 43205397--43205685 Score: 331
Period size: 27 Copynumber: 10.8 Consensus size: 27
43205387 GGTATTTTAG
*
43205397 TAATTTTGTAAATC-GAGGGTAAAAC-A
1 TAATTATGTAAATCAG-GGGTAAAACGA
* *
43205423 GTAATTCTGTAAATCA-AGGTAAAACGA
1 -TAATTATGTAAATCAGGGGTAAAACGA
*
43205450 TAATTATGTAAATCAGGGGTAAAACGG
1 TAATTATGTAAATCAGGGGTAAAACGA
* *
43205477 TAATTATGTAAATTA-GGGTAAAACGG
1 TAATTATGTAAATCAGGGGTAAAACGA
* * *
43205503 TAATTCTATAAGTC-GAGGGTAAAACGA
1 TAATTATGTAAATCAG-GGGTAAAACGA
* *
43205530 TAATTATGTAAATCAGGGGTAAAATGG
1 TAATTATGTAAATCAGGGGTAAAACGA
*
43205557 TAATTATGTAAATTAGGGGTAAAACGA
1 TAATTATGTAAATCAGGGGTAAAACGA
* *
43205584 TAATTCTGTAAGTC-GAGGGTAAAACGA
1 TAATTATGTAAATCAG-GGGTAAAACGA
43205611 TAATTATGTAAATCAGGGGTAAAAC-A
1 TAATTATGTAAATCAGGGGTAAAACGA
*
43205637 GTAATTATGTAAATTAGGGGTAAAACGA
1 -TAATTATGTAAATCAGGGGTAAAACGA
* *
43205665 TAATTCTGTAAATCGGGGGTA
1 TAATTATGTAAATCAGGGGTA
43205686 CTTTAGTAAT
Statistics
Matches: 224, Mismatches: 28, Indels: 20
0.82 0.10 0.07
Matches are distributed among these distances:
26 45 0.20
27 176 0.79
28 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.28
Consensus pattern (27 bp):
TAATTATGTAAATCAGGGGTAAAACGA
Found at i:43205696 original size:81 final size:81
Alignment explanation
Indices: 43205396--43205685 Score: 444
Period size: 81 Copynumber: 3.6 Consensus size: 81
43205386 GGGTATTTTA
* * * *
43205396 GTAATTTTGTAAA-TCGAGGGTAAAAC-AGTAATTCTGTAAATC-AAGGTAAAACGATAATTATG
1 GTAATTATGTAAATTAG-GGGTAAAACGA-TAATTCTGTAAGTCGAGGGTAAAACGATAATTATG
43205458 TAAATCAGGGGTAAAACG
64 TAAATCAGGGGTAAAACG
* *
43205476 GTAATTATGTAAATTA-GGGTAAAACGGTAATTCTATAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
*
43205540 AATCAGGGGTAAAATG
66 AATCAGGGGTAAAACG
43205556 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
*
43205621 AATCAGGGGTAAAACA
66 AATCAGGGGTAAAACG
* *
43205637 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAGTCGAGGGTA
43205686 CTTTAGTAAT
Statistics
Matches: 193, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
79 21 0.11
80 64 0.33
81 108 0.56
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
AATCAGGGGTAAAACG
Found at i:43205712 original size:27 final size:27
Alignment explanation
Indices: 43205681--43205780 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
43205671 TGTAAATCGG
*
43205681 GGGTACTTT-AGTAATTTTACAAGTCGAA
1 GGGTA-TTTCAGTAATTTTACAAATC-AA
* *
43205709 -GGTATTTCGGTAAATTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCAA
*
43205735 GGGTATTTCAGTATTTTTACAAA-CTAA
1 GGGTATTTCAGTAATTTTACAAATC-AA
*
43205762 GGGTATTTCGGTAATTTTA
1 GGGTATTTCAGTAATTTTA
43205781 GTAAACTAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.10
27 55 0.90
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCAA
Found at i:43205794 original size:27 final size:27
Alignment explanation
Indices: 43205690--43205795 Score: 83
Period size: 27 Copynumber: 3.9 Consensus size: 27
43205680 GGGGTACTTT
* *
43205690 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* * *
43205717 GGTAAATTTACAAA-TCAAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
43205744 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
43205771 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
43205796 CTAAACAGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.05
27 53 0.83
28 8 0.12
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:43208606 original size:38 final size:35
Alignment explanation
Indices: 43208546--43208663 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
43208536 TCAATCATGC
*
43208546 ACTGGGCCGTAGCACTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAGC-CTTTTCATATTTCATATTT-AT--T
43208585 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
*
43208616 ACTGGGCCAAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
43208647 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
43208664 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 47 0.62
33 2 0.03
34 1 0.01
36 1 0.01
38 13 0.17
39 12 0.16
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:43208607 original size:31 final size:31
Alignment explanation
Indices: 43208569--43208663 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
43208559 ACTTTTCATA
*
43208569 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
43208600 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43208631 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43208662 TT
1 TT
43208664 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Done.