Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 190 of 433
Found at i:59698836 original size:21 final size:21
Alignment explanation
Indices: 59698790--59698836 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
59698780 CTGAGAGCGG
* *
59698790 AGGCAGCAGAGAGGGAGGCAG
1 AGGCAGCAGAGAGAGAGGCAA
* *
59698811 CGGCAGCAGCGAGAGAGGCAA
1 AGGCAGCAGAGAGAGAGGCAA
59698832 AGGCA
1 AGGCA
59698837 CGAGCGATGG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.47, T:0.00
Consensus pattern (21 bp):
AGGCAGCAGAGAGAGAGGCAA
Found at i:59699283 original size:43 final size:43
Alignment explanation
Indices: 59699232--59699397 Score: 208
Period size: 43 Copynumber: 3.9 Consensus size: 43
59699222 GTAGGAAAAG
* *
59699232 CGCCGCTAAAAGCCATG-ACTTTTAGCGTCGCTTTTTTAGCAAA
1 CGCCGCTAAAAGGCA-GCACTTTTAGCGGCGCTTTTTTAGCAAA
* * *
59699275 CGCTGCTAAAAGGCAGCACTTTTAGTGGCGCTTCTTTAGCAAA
1 CGCCGCTAAAAGGCAGCACTTTTAGCGGCGCTTTTTTAGCAAA
* * * * *
59699318 CGCCACTGAACGGCAGCACTTTTAGTGGCACTTTTTTAGCAAA
1 CGCCGCTAAAAGGCAGCACTTTTAGCGGCGCTTTTTTAGCAAA
* *
59699361 CGCCGCTAAAAGGCAGCACTTTTAGCAGCGTTTTTTT
1 CGCCGCTAAAAGGCAGCACTTTTAGCGGCGCTTTTTT
59699398 TCAATAAACG
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 103 0.99
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (43 bp):
CGCCGCTAAAAGGCAGCACTTTTAGCGGCGCTTTTTTAGCAAA
Found at i:59701503 original size:20 final size:20
Alignment explanation
Indices: 59701457--59701503 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
59701447 TGATGATCTA
*
59701457 TTCGATCAGTTTTGTGGAGC
1 TTCGATTAGTTTTGTGGAGC
59701477 TTCGATTAGTTTTGTGGAGC
1 TTCGATTAGTTTTGTGGAGC
59701497 TTCGATT
1 TTCGATT
59701504 TTCTCTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.13, G:0.28, T:0.45
Consensus pattern (20 bp):
TTCGATTAGTTTTGTGGAGC
Found at i:59706208 original size:33 final size:32
Alignment explanation
Indices: 59706155--59706218 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
59706145 CTGATTTCAT
*
59706155 ACTGTACTGATACTATAATGGGCTGAGGCCCC
1 ACTGTACTGATACTATAATGGGCTAAGGCCCC
*
59706187 ACTGATACTGTTACTGA-AATGGGCTAAGGCCC
1 ACTG-TACTGATACT-ATAATGGGCTAAGGCCC
59706219 TAACTGAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (32 bp):
ACTGTACTGATACTATAATGGGCTAAGGCCCC
Found at i:59710969 original size:40 final size:40
Alignment explanation
Indices: 59710905--59711116 Score: 347
Period size: 40 Copynumber: 5.3 Consensus size: 40
59710895 ACCTTTGGAT
* *
59710905 TTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCAA-TAGCACAAATGCCTTCGGGAC
*
59710944 TTAGCCCGGATATAGTCAATAGCACAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
* *
59710984 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTTGGGAC
1 TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
59711024 TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
*
59711064 TTAGCCCGGATATAGTCAACAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
59711104 TTAGCCCGGATAT
1 TTAGCCCGGATAT
59711117 CATTCGAATA
Statistics
Matches: 162, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 4 0.02
40 155 0.96
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
Found at i:59725736 original size:40 final size:40
Alignment explanation
Indices: 59725691--59725858 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
59725681 CGGAATATAA
59725691 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59725731 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59725771 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
59725811 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59725851 CCGGATAT
1 CCGGATAT
59725859 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59732961 original size:46 final size:46
Alignment explanation
Indices: 59732911--59733086 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
59732901 TGGTTGAGCA
59732911 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59732957 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
59733002 CATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59733050 -CCTGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59733087 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59733067 original size:93 final size:93
Alignment explanation
Indices: 59732908--59733079 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
59732898 GGATGGTTGA
* *
59732908 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
59732973 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
59733001 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
59733065 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
59733080 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59734880 original size:15 final size:16
Alignment explanation
Indices: 59734851--59734881 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59734841 AATGGGTTTA
59734851 CAAAAACAAAGATTTT
1 CAAAAACAAAGATTTT
59734867 CAAAAACAAA-ATTTT
1 CAAAAACAAAGATTTT
59734882 ATAAAGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (16 bp):
CAAAAACAAAGATTTT
Found at i:59741681 original size:27 final size:26
Alignment explanation
Indices: 59741580--59741691 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
59741570 AGGAAGCGTC
* * *
59741580 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCAC-ATTATCTGTT
* * * *
59741607 CTAGTGGCTCCGCCACATATATCTATT
1 CTGGTGACTCTGCCACAT-TATCTGTT
*
59741634 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCAC-ATTATCTGT-T
* *
59741662 CTGGTGACTTTGTCACATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGTT
59741688 CTGG
1 CTGG
59741692 CAGCCATGCC
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.68
28 16 0.23
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGTT
Found at i:59743995 original size:18 final size:16
Alignment explanation
Indices: 59743963--59744001 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
59743953 TTAGTAAATA
59743963 AATAATAAAATGTTAT
1 AATAATAAAATGTTAT
*
59743979 TATAATAATATATGTTAT
1 AATAATAA-A-ATGTTAT
59743997 AATAA
1 AATAA
59744002 AATTAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATAATAAAATGTTAT
Found at i:59744889 original size:43 final size:43
Alignment explanation
Indices: 59744842--59744988 Score: 144
Period size: 43 Copynumber: 3.4 Consensus size: 43
59744832 TTCTTGTGTT
* *
59744842 AGACCACGTCTGGGATGTTGGCATCGATATGTGATTTCGAGTA
1 AGACCACGTCTGGGACGTCGGCATCGATATGTGATTTCGAGTA
* *
59744885 AGACCATGTCTGGGACATCGGCATCG-TAATTGTGATTTCTGA--A
1 AGACCACGTCTGGGACGTCGGCATCGAT-A-TGTGATTTC-GAGTA
*
59744928 AGACC-CTGTCTGGGACAG-CGGCATCGACATGTGATTTC-ATGTA
1 AGACCAC-GTCTGGGAC-GTCGGCATCGATATGTGATTTCGA-GTA
*
59744971 AGACCATGTCTGGGACGT
1 AGACCACGTCTGGGACGT
59744989 TGTCATTGTA
Statistics
Matches: 85, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
40 1 0.01
42 11 0.13
43 62 0.73
44 9 0.11
45 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (43 bp):
AGACCACGTCTGGGACGTCGGCATCGATATGTGATTTCGAGTA
Found at i:59750718 original size:40 final size:40
Alignment explanation
Indices: 59750659--59750866 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
59750649 CAATTGAATG
* * * * *
59750659 ATATCTGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
59750699 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
59750739 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
59750779 AAATCCGGGCTAATATCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
59750819 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
59750859 ATATCCGG
1 ATATCCGG
59750867 TTGTATTCCG
Statistics
Matches: 137, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.01
40 133 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:59750801 original size:80 final size:80
Alignment explanation
Indices: 59750665--59750866 Score: 219
Period size: 80 Copynumber: 2.5 Consensus size: 80
59750655 AATGATATCT
* * ** * * *
59750665 GGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-TTGT
1 GGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CATTTGT
*
59750729 GCTAGT-GACCACATCC
65 GCAAGTCGACC-CATCC
* * * *
59750745 GGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATATCCGAAGGCATTTGTG
1 GGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTGTG
** *
59750810 CAAGTCGTTCTATCC
66 CAAGTCGACCCATCC
* *
59750825 GGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 GGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
59750867 TTGTATTCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 98 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
GGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTGTG
CAAGTCGACCCATCC
Found at i:59758748 original size:40 final size:40
Alignment explanation
Indices: 59758689--59758896 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
59758679 CAATTGAATG
* * * *
59758689 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
59758729 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
59758769 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
59758809 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
59758849 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
59758889 ATATCCGG
1 ATATCCGG
59758897 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:59758827 original size:80 final size:80
Alignment explanation
Indices: 59758691--59758896 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
59758681 ATTGAATGAT
* * ** * * *
59758691 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
59758755 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
59758771 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
59758836 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
59758851 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
59758897 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:59762258 original size:18 final size:19
Alignment explanation
Indices: 59762225--59762263 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
59762215 TTACTAAATA
*
59762225 AATAATAAAATATTATTAT
1 AATAATAAAATATTATAAT
*
59762244 AATAAT-AAATGTTATAAT
1 AATAATAAAATATTATAAT
59762262 AA
1 AA
59762264 AATTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AATAATAAAATATTATAAT
Found at i:59763243 original size:43 final size:42
Alignment explanation
Indices: 59763154--59763298 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 42
59763144 TTCTCGTGTC
* * * *
59763154 AGACCACGTTTGGGACATTGGCATCGATTTGTGA-TTTTGAGTA
1 AGACCATGTCTGGGACATCGGCATCGAATTGTGATTTTTG-G-A
59763197 AGACCATGTCTGGGACATCGGCATCGTAATTGTGATTTTTGGA
1 AGACCATGTCTGGGACATCGGCATCG-AATTGTGATTTTTGGA
* * * * *
59763240 AGACCCTGTCTGGGATAGCGGCATCGACA-TGTGATTTCATGTA
1 AGACCATGTCTGGGACATCGGCATCGA-ATTGTGATTT-TTGGA
59763283 AGACCATGTCTGGGAC
1 AGACCATGTCTGGGAC
59763299 GTTGGCATTG
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
42 9 0.10
43 65 0.75
44 8 0.09
45 5 0.06
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
AGACCATGTCTGGGACATCGGCATCGAATTGTGATTTTTGGA
Found at i:59767123 original size:44 final size:46
Alignment explanation
Indices: 59767055--59767181 Score: 195
Period size: 44 Copynumber: 2.8 Consensus size: 46
59767045 TGTAACCCGC
* * *
59767055 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59767101 CCAT-AGTGAACTC-GACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
59767145 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59767182 TGCCCAAATA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 30 0.41
45 18 0.25
46 25 0.34
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59769601 original size:30 final size:30
Alignment explanation
Indices: 59769557--59769645 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
59769547 CAAAGATAAC
59769557 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
59769586 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
59769616 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
59769646 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:59769605 original size:15 final size:15
Alignment explanation
Indices: 59769557--59769636 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
59769547 CAAAGATAAC
*
59769557 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
59769571 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
59769586 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
59769601 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
59769616 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
59769631 AAGAAA
1 AAGAAA
59769637 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:59769645 original size:15 final size:15
Alignment explanation
Indices: 59769568--59769645 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
59769558 AGAAAACCGA
59769568 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
59769583 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
59769597 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
59769612 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59769628 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59769643 ATA
1 ATA
59769646 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59772725 original size:93 final size:93
Alignment explanation
Indices: 59772566--59772737 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
59772556 GCCCATAAGT
* * *
59772566 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59772631 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
59772659 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59772724 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59772738 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59772733 original size:46 final size:46
Alignment explanation
Indices: 59772558--59772733 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
59772548 TGTATCCCGC
* * * * *
59772558 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
59772604 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
59772654 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
59772697 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59772734 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:59772752 original size:46 final size:46
Alignment explanation
Indices: 59772609--59772752 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 46
59772599 CGCATCCATG
* * *
59772609 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * *
59772657 A-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
59772702 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
59772748 AGTGA
1 AGTGA
59772753 CATGTCACTC
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 34 0.44
47 29 0.38
48 5 0.06
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:59774921 original size:40 final size:40
Alignment explanation
Indices: 59774872--59774999 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
59774862 TCTTCGGAAT
* * *
59774872 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
59774911 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
59774951 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
59774991 TTAGCCCGG
1 TTAGCCCGG
59775000 GTATCATTCA
Statistics
Matches: 71, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
39 3 0.04
40 68 0.96
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:59777934 original size:25 final size:25
Alignment explanation
Indices: 59777905--59777952 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59777895 TTATAATATG
* * *
59777905 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59777930 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59777953 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59778003 original size:9 final size:9
Alignment explanation
Indices: 59777991--59778047 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
59777981 TTTGATAAAC
59777991 ATGATATGT
1 ATGATATGT
*
59778000 ATGATATGCAC
1 ATGATATG--T
*
59778011 ATGACATGT
1 ATGATATGT
*
59778020 ATGATATGCAC
1 ATGATATG--T
59778031 ATGATATGT
1 ATGATATGT
59778040 ATGATATG
1 ATGATATG
59778048 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:59778014 original size:20 final size:20
Alignment explanation
Indices: 59777989--59778059 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
59777979 ATTTTGATAA
59777989 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
59778009 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
59778029 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
59778049 ACATGAGATGT
1 ACATGATATGT
59778060 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59778036 original size:11 final size:11
Alignment explanation
Indices: 59778000--59778054 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
59777990 CATGATATGT
59778000 ATGATATGCAC
1 ATGATATGCAC
* *
59778011 ATGACATG--T
1 ATGATATGCAC
59778020 ATGATATGCAC
1 ATGATATGCAC
*
59778031 ATGATATG--T
1 ATGATATGCAC
59778040 ATGATATGCAC
1 ATGATATGCAC
59778051 ATGA
1 ATGA
59778055 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59778139 original size:23 final size:23
Alignment explanation
Indices: 59778109--59778202 Score: 152
Period size: 24 Copynumber: 4.0 Consensus size: 23
59778099 AAGTGCAAAT
59778109 GGGCTTATGCCCCAGTTATTAAA
1 GGGCTTATGCCCCAGTTATTAAA
*
59778132 GGGCTTATGCCCCAGTTATCAAAA
1 GGGCTTATGCCCCAGTTAT-TAAA
59778156 GGGCTTATGCCCCAGTTATTAAAA
1 GGGCTTATGCCCCAGTTATT-AAA
*
59778180 GGGCTTTTGCCCCAGTTATTAAA
1 GGGCTTATGCCCCAGTTATTAAA
59778203 AGAGGCTAGG
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
23 22 0.33
24 44 0.67
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (23 bp):
GGGCTTATGCCCCAGTTATTAAA
Found at i:59778161 original size:24 final size:24
Alignment explanation
Indices: 59778104--59778209 Score: 151
Period size: 24 Copynumber: 4.4 Consensus size: 24
59778094 GGAGGAAGTG
*
59778104 CAAATGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
59778128 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
59778151 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
59778175 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
59778199 TAAAAGAGGCT
1 CAAAAG-GGCT
59778210 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
23 21 0.28
24 50 0.67
25 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:59778178 original size:47 final size:48
Alignment explanation
Indices: 59778104--59778209 Score: 169
Period size: 48 Copynumber: 2.2 Consensus size: 48
59778094 GGAGGAAGTG
*
59778104 CAAATGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTAT
*
59778151 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTAT
*
59778199 TAAAAGAGGCT
1 CAAAAG-GGCT
59778210 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 24 0.44
48 26 0.48
49 4 0.07
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTAT
Found at i:59778478 original size:30 final size:30
Alignment explanation
Indices: 59778416--59778478 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
59778406 CGTTTACAGT
*
59778416 AAAGGCTTCGGCCCAGTAATATGAAATGTG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
** *
59778446 AAAGGCTTCGGCCCAGTGTTATGAATTATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
59778476 AAA
1 AAA
59778479 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATG
Found at i:59785985 original size:25 final size:25
Alignment explanation
Indices: 59785956--59786003 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59785946 TTATAATATG
* * *
59785956 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59785981 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59786004 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59786065 original size:20 final size:20
Alignment explanation
Indices: 59786040--59786090 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
59786030 ATTTTGATAA
*
59786040 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
59786060 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
59786080 ACATGAGATGT
1 ACATGACATGT
59786091 TCATAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:59786167 original size:23 final size:23
Alignment explanation
Indices: 59786137--59786256 Score: 204
Period size: 23 Copynumber: 5.1 Consensus size: 23
59786127 AGGAAGTGCA
59786137 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
59786160 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
59786184 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
59786207 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
59786230 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
59786254 AAA
1 AAA
59786257 AGAGGCTAGG
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
23 48 0.52
24 44 0.48
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:59786192 original size:24 final size:23
Alignment explanation
Indices: 59786136--59786263 Score: 193
Period size: 24 Copynumber: 5.4 Consensus size: 23
59786126 GAGGAAGTGC
59786136 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
59786159 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
59786182 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
59786206 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
59786230 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
59786254 AAAAGAGGCT
1 AAAAG-GGCT
59786264 AGGCCTCCAG
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
23 43 0.44
24 50 0.52
25 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:59786204 original size:47 final size:47
Alignment explanation
Indices: 59786135--59786256 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
59786125 GGAGGAAGTG
59786135 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
59786182 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
59786229 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
59786257 AGAGGCTAGG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:59791548 original size:37 final size:34
Alignment explanation
Indices: 59791499--59791594 Score: 131
Period size: 37 Copynumber: 2.7 Consensus size: 34
59791489 TAAACTCATT
59791499 TTAGTTAATTGAGTTGCTAGAATAAATACTTAT-
1 TTAGTTAATTGAGTTGCTAGAATAAATACTTATC
*
59791532 TTGAGTTATTAATTGAGTTGCTAGAATAAATGCTTATC
1 TT-AG---TTAATTGAGTTGCTAGAATAAATACTTATC
*
59791570 TTAGTTAATTTAGTTGCTAGAATAA
1 TTAGTTAATTGAGTTGCTAGAATAA
59791595 TTTATTGTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
33 2 0.04
34 22 0.39
37 30 0.54
38 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (34 bp):
TTAGTTAATTGAGTTGCTAGAATAAATACTTATC
Found at i:59791651 original size:9 final size:9
Alignment explanation
Indices: 59791639--59791697 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
59791629 AGTTAATTAA
59791639 GTTTAATGT
1 GTTTAATGT
59791648 GTTTAATGT
1 GTTTAATGT
*
59791657 GTTTAACGT
1 GTTTAATGT
* *
59791666 GCTTAAAGT
1 GTTTAATGT
* *
59791675 GCTTAATTT
1 GTTTAATGT
59791684 GTTTTAATGT
1 G-TTTAATGT
59791694 GTTT
1 GTTT
59791698 GTTAATGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
9 35 0.83
10 7 0.17
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.53
Consensus pattern (9 bp):
GTTTAATGT
Found at i:59798384 original size:19 final size:20
Alignment explanation
Indices: 59798342--59798385 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
59798332 CCATATCAGC
** *
59798342 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
59798362 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
59798381 ACAGT
1 ACAGT
59798386 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:59803074 original size:19 final size:19
Alignment explanation
Indices: 59803032--59803075 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
59803022 CTATATCAGC
** *
59803032 ACAGATTGGCCCATTTCAAT
1 ACAG-TTGGCCCATAACAAA
59803052 ACAGTTGGCCCATAACAAA
1 ACAGTTGGCCCATAACAAA
59803071 ACAGT
1 ACAGT
59803076 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (19 bp):
ACAGTTGGCCCATAACAAA
Found at i:59804575 original size:25 final size:23
Alignment explanation
Indices: 59804520--59804575 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
59804510 TTTCAGCTAG
59804520 AGAAGAAAAGAAGGAGAAAAAGA
1 AGAAGAAAAGAAGGAGAAAAAGA
*
59804543 AAATAGAAGAAGAGAGGAG-AAAAGA
1 AGA-AGAA-AAGA-AGGAGAAAAAGA
59804568 AGGAAGAA
1 A-GAAGAA
59804576 TTCGGCACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.07
24 4 0.15
25 15 0.56
26 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (23 bp):
AGAAGAAAAGAAGGAGAAAAAGA
Found at i:59809010 original size:17 final size:18
Alignment explanation
Indices: 59808985--59809019 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
59808975 AATATACAAA
*
59808985 GTAAGAATTA-CAAAAAC
1 GTAAAAATTATCAAAAAC
59809002 GTAAAAATTATCAAAAAC
1 GTAAAAATTATCAAAAAC
59809020 CAAATCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (18 bp):
GTAAAAATTATCAAAAAC
Found at i:59811763 original size:50 final size:49
Alignment explanation
Indices: 59811642--59811828 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
59811632 TGAGGTCGCA
* * * *
59811642 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
59811693 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
59811743 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
59811792 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
59811829 TAGCTTCGGC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 43 0.36
51 31 0.26
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:59814842 original size:14 final size:14
Alignment explanation
Indices: 59814823--59814872 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
59814813 CTTGGGTTTC
59814823 TTTATTCTGGATTT
1 TTTATTCTGGATTT
59814837 TTTATTCTGG-TTT
1 TTTATTCTGGATTT
59814850 TTCTA-TCTTGGATTT
1 TT-TATTC-TGGATTT
59814865 CTTTATTC
1 -TTTATTC
59814873 AGTTTTCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 7 0.23
14 15 0.48
15 5 0.16
16 4 0.13
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.64
Consensus pattern (14 bp):
TTTATTCTGGATTT
Found at i:59817124 original size:49 final size:47
Alignment explanation
Indices: 59817002--59817187 Score: 178
Period size: 49 Copynumber: 3.8 Consensus size: 47
59816992 TGAGGTCGCA
* * * *
59817002 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGT--CG
**
59817053 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTC-G
* *
59817102 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACTGTTGGTCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCG
* *
59817149 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
59817188 TAGCTTCGCT
Statistics
Matches: 115, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
47 2 0.02
48 9 0.08
49 71 0.62
50 3 0.03
51 30 0.26
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (47 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCG
Found at i:59823789 original size:16 final size:17
Alignment explanation
Indices: 59823755--59823787 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
59823745 AATGTTGAAC
59823755 ATGTGTTAATTGTATAA
1 ATGTGTTAATTGTATAA
59823772 ATGT-TTAA-TGTATAA
1 ATGTGTTAATTGTATAA
59823787 A
1 A
59823788 ATTAATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (17 bp):
ATGTGTTAATTGTATAA
Found at i:59824102 original size:25 final size:24
Alignment explanation
Indices: 59824074--59824126 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
59824064 CACAAACACA
59824074 GCTCTT-TATAAGCGTCCTGATATAG
1 GCTCTTCT-TAAGCGTCCTGATAT-G
* *
59824099 GCTCTTCTTGAGCTTCCTGATATG
1 GCTCTTCTTAAGCGTCCTGATATG
59824123 GCTC
1 GCTC
59824127 ACTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 19 0.76
26 1 0.04
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (24 bp):
GCTCTTCTTAAGCGTCCTGATATG
Found at i:59824137 original size:23 final size:25
Alignment explanation
Indices: 59824088--59824137 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
59824078 TTTATAAGCG
* *
59824088 TCCTGATATAGGCTCTTCTTGAGCT
1 TCCTGATATAGGCTCTACTTGAACT
59824113 TCCTGATAT-GGCTC-ACTTGAACT
1 TCCTGATATAGGCTCTACTTGAACT
59824136 TC
1 TC
59824138 TTGTTAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 5 0.22
25 9 0.39
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (25 bp):
TCCTGATATAGGCTCTACTTGAACT
Found at i:59827234 original size:42 final size:42
Alignment explanation
Indices: 59827187--59827293 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
59827177 TATTGGTCTC
59827187 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
59827229 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
59827271 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
59827294 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:59827358 original size:27 final size:28
Alignment explanation
Indices: 59827301--59827370 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
59827291 AAAATTGTAC
**
59827301 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
59827329 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
59827356 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59827371 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:59840185 original size:46 final size:44
Alignment explanation
Indices: 59840046--59840185 Score: 115
Period size: 46 Copynumber: 3.0 Consensus size: 44
59840036 TCAATAAGTA
*
59840046 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGTG
* * * *
59840093 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-AAGTG
1 AACTCGGACTCAACTCAACGAGTTC-G-GATGC-CAACCATCTAGTG
*
59840139 AACTCGGCCTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGTG
59840185 A
1 A
59840186 CATTTCACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
44 9 0.12
45 2 0.03
46 30 0.40
47 28 0.37
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (44 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGTG
Found at i:59841536 original size:27 final size:26
Alignment explanation
Indices: 59841501--59841609 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 26
59841491 AGCATGGCTG
* *
59841501 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
59841527 TCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
59841555 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
59841582 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
59841609 C
1 C
59841610 TAGGACGCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.07
27 51 0.72
28 15 0.21
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:59841565 original size:54 final size:54
Alignment explanation
Indices: 59841501--59841609 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
59841491 AGCATGGCTG
* * *
59841501 CCAGAACAGATA-ATGTGACAGAGTCATCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
59841555 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
59841609 C
1 C
59841610 TAGGACGCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 31 0.65
55 17 0.35
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:59841731 original size:28 final size:28
Alignment explanation
Indices: 59841689--59841743 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
59841679 TACCCCTAGG
**
59841689 GGTATAACAGTAATTTTCCATACATAGT
1 GGTATAACAACAATTTTCCATACATAGT
*
59841717 GGTATAACAACAATTTTCTATACATAG
1 GGTATAACAACAATTTTCCATACATAG
59841744 GCGTATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (28 bp):
GGTATAACAACAATTTTCCATACATAGT
Found at i:59841759 original size:28 final size:29
Alignment explanation
Indices: 59841689--59841760 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
59841679 TACCCCTAGG
59841689 GGTATAAC-AGTAATTTTCCATACATAGT
1 GGTATAACAAGTAATTTTCCATACATAGT
* *
59841717 GGTATAACAA-CAATTTTCTATACATAG-
1 GGTATAACAAGTAATTTTCCATACATAGT
*
59841744 GCGTAT-TCAAGTAATTT
1 G-GTATAACAAGTAATTT
59841761 AACTATTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
27 4 0.11
28 32 0.86
29 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (29 bp):
GGTATAACAAGTAATTTTCCATACATAGT
Found at i:59846491 original size:16 final size:16
Alignment explanation
Indices: 59846466--59846496 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59846456 CTAAAAGAAA
59846466 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
59846482 AAGAAGAGATGAGCA
1 AAGAAAAGATGAGCA
59846497 TAGAATTCGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.32, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:59848778 original size:20 final size:20
Alignment explanation
Indices: 59848753--59848790 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
59848743 AAAGTTAAAA
59848753 TTTAAAATTTTACCCATGAG
1 TTTAAAATTTTACCCATGAG
59848773 TTTAAAATTTTACCCATG
1 TTTAAAATTTTACCCATG
59848791 TTGGATGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (20 bp):
TTTAAAATTTTACCCATGAG
Found at i:59850978 original size:27 final size:26
Alignment explanation
Indices: 59850934--59850992 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
59850924 GAGTAAGTCA
** *
59850934 TTTACACTCAAGGGTATTTTTG-TAAT
1 TTTACACTCAAGAATA-TTTCGATAAT
59850960 TTTACACTACAAGAATATTTCGATAAT
1 TTTACACT-CAAGAATATTTCGATAAT
59850987 TTTACA
1 TTTACA
59850993 AATCGGGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (26 bp):
TTTACACTCAAGAATATTTCGATAAT
Found at i:59851196 original size:27 final size:27
Alignment explanation
Indices: 59850977--59851188 Score: 291
Period size: 27 Copynumber: 7.8 Consensus size: 27
59850967 TACAAGAATA
*
59850977 TTTCGATAATTTTACAAATCGGGGGTG
1 TTTCGATAATTTTACAAATCGAGGGTG
* *
59851004 TTTCGGTAATTTTACAAATCGAGGGGTA
1 TTTCGATAATTTTACAAATCGA-GGGTG
*
59851032 TTTCGATAATTTTACAAATTGAGGGTG
1 TTTCGATAATTTTACAAATCGAGGGTG
*
59851059 TTTCGATAATTTTAAAAATCGAGGGTG
1 TTTCGATAATTTTACAAATCGAGGGTG
*
59851086 TTTCGATAATTTTACAAATTGAGGGTG
1 TTTCGATAATTTTACAAATCGAGGGTG
* *
59851113 TTTCAATAATTTCACAAATCGAGGGTG
1 TTTCGATAATTTTACAAATCGAGGGTG
* * *
59851140 TTTCAATAATTTCACAAATCG-GGAGTA
1 TTTCGATAATTTTACAAATCGAGG-GTG
*
59851167 TTTCGGTAATTTTACAAATCGA
1 TTTCGATAATTTTACAAATCGA
59851189 AGGTATTTTA
Statistics
Matches: 165, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.01
27 139 0.84
28 24 0.15
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (27 bp):
TTTCGATAATTTTACAAATCGAGGGTG
Found at i:59853986 original size:46 final size:46
Alignment explanation
Indices: 59853809--59854017 Score: 121
Period size: 46 Copynumber: 4.5 Consensus size: 46
59853799 TGCGTGAGCT
* **
59853809 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGACAT-A-AGCC
* * * * *
59853855 AGTGTAAGACCATGTTTGGGATATGGCATCGGC-ATTGAGACGAGT--GCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-CGAGAC-A-TAAGCC
* **
59853903 AGTGTAAGACATGTC-CGTGACATGCATCAACCT-CGAGACATAAGCC
1 AGTGTAAGACATGTCTAG-GACATGCATC-GGCTACGAGACATAAGCC
* ** *
59853949 AGTGTAAGACATGTCTAGGAAATGCATCGGCTACGAG--ATGTGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGACATAAGCC
*
59853993 AGTGTAAGACCATGTTTAGGACATG
1 AGTGTAAGA-CATGTCTAGGACATG
59854018 GTATCGGCAC
Statistics
Matches: 125, Mismatches: 23, Indels: 31
0.70 0.13 0.17
Matches are distributed among these distances:
44 14 0.11
45 16 0.13
46 50 0.40
47 23 0.18
48 19 0.15
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGACATAAGCC
Found at i:59856551 original size:14 final size:15
Alignment explanation
Indices: 59856532--59856563 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
59856522 ATTTTAAAGA
59856532 TTAAAATT-GGTTTT
1 TTAAAATTAGGTTTT
59856546 TTAAAATTAGGTTTT
1 TTAAAATTAGGTTTT
59856561 TTA
1 TTA
59856564 GAATGTGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (15 bp):
TTAAAATTAGGTTTT
Found at i:59857613 original size:17 final size:18
Alignment explanation
Indices: 59857591--59857624 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59857581 TAAAGCATAT
*
59857591 AGAAAGA-CAGAATCGTG
1 AGAAAGATCAAAATCGTG
59857608 AGAAAGATCAAAATCGT
1 AGAAAGATCAAAATCGT
59857625 TTTAGGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.12, G:0.24, T:0.15
Consensus pattern (18 bp):
AGAAAGATCAAAATCGTG
Found at i:59861548 original size:127 final size:127
Alignment explanation
Indices: 59861322--59861576 Score: 483
Period size: 127 Copynumber: 2.0 Consensus size: 127
59861312 AATCATGGCA
59861322 GAGAGGAAGCTACTTGGGAGCCAGAAGTGGCGATGCGTCAACAATATCCTCATTTGTTTGATTCA
1 GAGAGGAAGCTACTTGGGAGCCAGAAGTGGCGATGCGTCAACAATATCCTCATTTGTTTGATTCA
59861387 GGTAAAATTTCGAGGACGAACTTTCTTTAAGGAGGGTAGAGTTGTAACGCCCCAATTTTCGG
66 GGTAAAATTTCGAGGACGAACTTTCTTTAAGGAGGGTAGAGTTGTAACGCCCCAATTTTCGG
* *
59861449 GAGAGGAAGCTACTTGGGAGCTAGAAGTTGCGATGCGTCAACAATATCCTCATTTGTTTGATTCA
1 GAGAGGAAGCTACTTGGGAGCCAGAAGTGGCGATGCGTCAACAATATCCTCATTTGTTTGATTCA
*
59861514 GGTAAAATTTTGAGGACGAACTTTCTTTAAGGAGGGTAGAGTTGTAACGCCCCAATTTTCGG
66 GGTAAAATTTCGAGGACGAACTTTCTTTAAGGAGGGTAGAGTTGTAACGCCCCAATTTTCGG
59861576 G
1 G
59861577 TTTTCTATGT
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (127 bp):
GAGAGGAAGCTACTTGGGAGCCAGAAGTGGCGATGCGTCAACAATATCCTCATTTGTTTGATTCA
GGTAAAATTTCGAGGACGAACTTTCTTTAAGGAGGGTAGAGTTGTAACGCCCCAATTTTCGG
Found at i:59865054 original size:20 final size:20
Alignment explanation
Indices: 59865017--59865054 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59865007 AATTAATGGT
*
59865017 TACACGGCGTGTTTCCCTTC
1 TACACGGCGTGTTACCCTTC
59865037 TACACGGGCGTG-TACCCT
1 TACAC-GGCGTGTTACCCT
59865055 GTTCTAAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.13, C:0.34, G:0.24, T:0.29
Consensus pattern (20 bp):
TACACGGCGTGTTACCCTTC
Found at i:59867176 original size:22 final size:22
Alignment explanation
Indices: 59867151--59867205 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
59867141 ATTTGTAGAA
59867151 AGCCATAATCAATATAACACAG
1 AGCCATAATCAATATAACACAG
* * * **
59867173 AGCCATATTTAATTTGGCACAG
1 AGCCATAATCAATATAACACAG
59867195 AGCCATAATCA
1 AGCCATAATCA
59867206 GAGTAAGCAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.24
Consensus pattern (22 bp):
AGCCATAATCAATATAACACAG
Found at i:59867593 original size:27 final size:27
Alignment explanation
Indices: 59867555--59867641 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
59867545 CAAACCAGTC
* *
59867555 ATTTTACCCTACAGGGGTATTTCGGTA
1 ATTTTACACTACAGGGGTATTTCGATA
*
59867582 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAGGGGTATTTCGATA
* *
59867609 ATTTTACA-AATCGGGGGTATTTCGATA
1 ATTTTACACTA-CAGGGGTATTTCGATA
59867636 ATTTTA
1 ATTTTA
59867642 TAAATCGGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.02
27 52 0.98
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAGGGGTATTTCGATA
Found at i:59867646 original size:27 final size:28
Alignment explanation
Indices: 59867568--59867700 Score: 125
Period size: 27 Copynumber: 4.9 Consensus size: 28
59867558 TTACCCTACA
* *
59867568 GGGGTATTTCG-GTAATTTTAC-ACTACA
1 GGGGTATTTCGAGTAATTTTACAAAT-CG
*
59867595 AGGGTATTTCGA-TAATTTTACAAATCG
1 GGGGTATTTCGAGTAATTTTACAAATCG
*
59867622 GGGGTATTTCGA-TAATTTTATAAATCG
1 GGGGTATTTCGAGTAATTTTACAAATCG
* * *
59867649 GGGGTGTTT-TAGTAATTTTACAAACCG
1 GGGGTATTTCGAGTAATTTTACAAATCG
** *
59867676 GGTATATTTC-AGTAATTTTATAAAT
1 GGGGTATTTCGAGTAATTTTACAAAT
59867701 TAGAGTTTTA
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 85 0.97
28 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (28 bp):
GGGGTATTTCGAGTAATTTTACAAATCG
Found at i:59871950 original size:39 final size:39
Alignment explanation
Indices: 59871896--59872011 Score: 171
Period size: 39 Copynumber: 3.0 Consensus size: 39
59871886 AGTGATGAAG
*
59871896 TATATCCGGACTTAAGGTCCAG-AGGCTATGTGTTGGAAT
1 TATATCCGGACTTAAGGTCC-GCAGGCTATGTGCTGGAAT
*
59871935 TATATCCGGATTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
59871974 TATAACCGGACTTATGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
59872012 ATATGTCAGG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 69 0.99
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:59880735 original size:29 final size:29
Alignment explanation
Indices: 59880703--59880758 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
59880693 ATTTAATACG
59880703 AACTTTGGAAAAATTACACTTTTGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCTA
* * *
59880732 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
59880759 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTGCCCTA
Found at i:59888454 original size:39 final size:39
Alignment explanation
Indices: 59888400--59888505 Score: 176
Period size: 39 Copynumber: 2.7 Consensus size: 39
59888390 AGTGATGGAG
59888400 TATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAAT
* *
59888439 TATATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAAT
* *
59888478 TATATCCAGACTTAAGGTCCGTAGGCTA
1 TATATCCGGACTTAAGGTCCGCAGGCTA
59888506 CGTGCCGGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAAT
Found at i:59888552 original size:78 final size:78
Alignment explanation
Indices: 59888400--59888559 Score: 180
Period size: 78 Copynumber: 2.1 Consensus size: 78
59888390 AGTGATGGAG
* * * * *
59888400 TATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAATTATATCCGGACTTAAGGTCCACAGGC
1 TATATCCAGACTTAAGGTCCGCAGGCTACATGCCGGAAATATATCCGGACTTAAAGTCCACAGGC
*
59888465 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * * *
59888478 TATATCCAGACTTAAGGTCCGTAGGCTACGTGCCGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCAGACTTAAGGTCCGCAGGCTACATGCCGGAAATATATCCGGACTTAAAGT-CCACAGG
*
59888542 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
59888556 TATA
1 TATA
59888560 CCGGGTTTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 6 0.09
78 62 0.91
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (78 bp):
TATATCCAGACTTAAGGTCCGCAGGCTACATGCCGGAAATATATCCGGACTTAAAGTCCACAGGC
TATGAGCTGGAAT
Found at i:59889652 original size:27 final size:27
Alignment explanation
Indices: 59889616--59889684 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
59889606 CAACAGCGGT
* * *
59889616 AATATAATTGGCACACAGCCATGAGTA
1 AATATGATTGGCACACAGCCATCAATA
* * *
59889643 AATATGATTGACACAGAGTCATCAATA
1 AATATGATTGGCACACAGCCATCAATA
*
59889670 AATATGATAGGCACA
1 AATATGATTGGCACA
59889685 TAACCACTGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (27 bp):
AATATGATTGGCACACAGCCATCAATA
Found at i:59890146 original size:27 final size:27
Alignment explanation
Indices: 59890108--59890196 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
59890098 CAAAACAGTC
*
59890108 ATTTTACCCTACAGGGGTATTTCAATA
1 ATTTTACACTACAGGGGTATTTCAATA
* *
59890135 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAGGGGTATTTCAATA
*
59890162 ATTTTACA-AATCAGGGGTATTTCAATA
1 ATTTTACACTA-CAGGGGTATTTCAATA
59890189 ATTTTACA
1 ATTTTACA
59890197 AATCGAGGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAGGGGTATTTCAATA
Found at i:59890151 original size:54 final size:54
Alignment explanation
Indices: 59890093--59890196 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
59890083 ATTTACCCAA
* **
59890093 AAGGGCAAAACAGTCATTTTAC-CCTACAGGGGTATTTCAATAATTTTACACTAC
1 AAGGGCAAAACAGTAATTTTACAAAT-CAGGGGTATTTCAATAATTTTACACTAC
* ***
59890147 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACA
1 AAGGGCAAAACAGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACA
59890197 AATCGAGGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 41 0.98
55 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (54 bp):
AAGGGCAAAACAGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACACTAC
Found at i:59890197 original size:27 final size:27
Alignment explanation
Indices: 59890119--59890302 Score: 167
Period size: 27 Copynumber: 6.8 Consensus size: 27
59890109 TTTTACCCTA
*
59890119 CAGGGGTATTTCAATAATTTTAC-ACT
1 CAGGGGTATTTCAATAATTTTACAAAT
* *
59890145 ACAAGGGTATTTCAGTAATTTTACAAAT
1 -CAGGGGTATTTCAATAATTTTACAAAT
59890173 CAGGGGTATTTCAATAATTTTACAAAT
1 CAGGGGTATTTCAATAATTTTACAAAT
**
59890200 C-GAGGGTATTTCGGTAATTTTACAAAT
1 CAG-GGGTATTTCAATAATTTTACAAAT
** * *
59890227 TGGGGGCATTT-AGTTAATTTTACAAAT
1 CAGGGGTATTTCA-ATAATTTTACAAAT
** ***
59890254 TGGGGGTATTTTGGTAATTTTACAAAT
1 CAGGGGTATTTCAATAATTTTACAAAT
* * *
59890281 TAGGGGTATATCGATAATTTTA
1 CAGGGGTATTTCAATAATTTTA
59890303 AAAAACGAGG
Statistics
Matches: 134, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 130 0.97
28 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTCAATAATTTTACAAAT
Found at i:59890206 original size:54 final size:54
Alignment explanation
Indices: 59890119--59890312 Score: 221
Period size: 54 Copynumber: 3.6 Consensus size: 54
59890109 TTTTACCCTA
* * *
59890119 CAGGGGTATTTCAATAATTTTAC-ACTACAAGGGTATTTCAGTAATTTTACAAAT
1 CAGGGGTATTTCAATAATTTTACAAAT-CGAGGGTATTTCGGTAATTTTACAAAT
59890173 CAGGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
1 CAGGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
** * * * * *
59890227 TGGGGGCATTT-AGTTAATTTTACAAATTGGGGGTATTTTGGTAATTTTACAAAT
1 CAGGGGTATTTCA-ATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
* * * * *
59890281 TAGGGGTATATCGATAATTTTAAAAAACGAGG
1 CAGGGGTATTTCAATAATTTTACAAATCGAGG
59890313 TCTTAACGAC
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 115 0.97
55 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (54 bp):
CAGGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
Found at i:59900836 original size:27 final size:27
Alignment explanation
Indices: 59900800--59900963 Score: 195
Period size: 27 Copynumber: 6.0 Consensus size: 27
59900790 ACATGCCAGA
*
59900800 AAATAGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * * * *
59900827 AAATGGAAG-CTTTCATGACGTACCTATA
1 AAATGGAAGCCTTT-GTGGC-AATCTATG
59900855 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
59900882 AAATGGAAGCCTTCGTGGCATATCTATA
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
* **
59900910 AAATGAAAGCCTTTGTGAAAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
59900937 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
59900964 GAAAAGAACA
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.04
27 65 0.58
28 39 0.35
29 4 0.04
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:59900955 original size:55 final size:55
Alignment explanation
Indices: 59900806--59900984 Score: 222
Period size: 55 Copynumber: 3.3 Consensus size: 55
59900796 CAGAAAATAG
* * * * *
59900806 AAGCCTTTGTGGCAATCTATGAAATGGAAG-CTTTCATGACGTACCTATAAAATGG
1 AAGCCTTTGTGGCAATCTATGAAATGGAAGCCTTT-GTGGCATATCTATAAAATGA
*
59900861 AAGCCTTTGTGGCAATCTATGAAATGGAAGCCTTCGTGGCATATCTATAAAATGA
1 AAGCCTTTGTGGCAATCTATGAAATGGAAGCCTTTGTGGCATATCTATAAAATGA
**
59900916 AAGCCTTTGTGAAAATCTATGAAATGGAAGCCTTTGTGGCA-ATCTATGGAAAA-GA
1 AAGCCTTTGTGGCAATCTATGAAATGGAAGCCTTTGTGGCATATCTAT--AAAATGA
59900971 ACA-CCTTTGTGGCA
1 A-AGCCTTTGTGGCA
59900985 CATTCTAAAG
Statistics
Matches: 109, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
54 6 0.06
55 95 0.87
56 8 0.07
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (55 bp):
AAGCCTTTGTGGCAATCTATGAAATGGAAGCCTTTGTGGCATATCTATAAAATGA
Found at i:59903125 original size:21 final size:21
Alignment explanation
Indices: 59903100--59903141 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59903090 TTTTATTTTA
* *
59903100 ATTTAATTGTAACTAAATAAT
1 ATTTAATTCTAAATAAATAAT
*
59903121 ATTTATTTCTAAATAAATAAT
1 ATTTAATTCTAAATAAATAAT
59903142 TACTATATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTTAATTCTAAATAAATAAT
Found at i:59907870 original size:15 final size:15
Alignment explanation
Indices: 59907850--59907880 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
59907840 ATAAAAGTTA
59907850 AATTTCATTTGTAAG
1 AATTTCATTTGTAAG
59907865 AATTTCATTTGTAAG
1 AATTTCATTTGTAAG
59907880 A
1 A
59907881 TGTATCGAAA
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:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (15 bp):
AATTTCATTTGTAAG
Found at i:59908528 original size:21 final size:21
Alignment explanation
Indices: 59908514--59908557 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
59908504 TAACTAATAT
*
59908514 TAAGTTAATTATAACACCTTA
1 TAAGTTAATTATAACACATTA
*
59908535 TAAGTTAATTATAACACCTTA
1 TAAGTTAATTATAACACATTA
59908556 TA
1 TA
59908558 CTTGGCCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAGTTAATTATAACACATTA
Found at i:59911033 original size:40 final size:40
Alignment explanation
Indices: 59910970--59911163 Score: 318
Period size: 40 Copynumber: 4.9 Consensus size: 40
59910960 ATTCGGATTG
59910970 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59911009 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
59911049 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
59911089 ATAACCGAGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59911129 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
59911164 AAGCTAAATC
Statistics
Matches: 143, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.09
40 130 0.91
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:59911640 original size:195 final size:195
Alignment explanation
Indices: 59911308--59911701 Score: 779
Period size: 195 Copynumber: 2.0 Consensus size: 195
59911298 AGTGGTTTCG
59911308 GGACCGCTAAACCGAGTCACCGAAATGTTTGAACATAATATTTATTGTCTAGAATATGTATTTAT
1 GGACCGCTAAACCGAGTCACCGAAATGTTTGAACATAATATTTATTGTCTAGAATATGTATTTAT
59911373 GAATGTGTGAAAATTTCAAGCTTCGATTTAGTCGATTGCATGTGAATTCAGTTATTAGGACTTGT
66 GAATGTGTGAAAATTTCAAGCTTCGATTTAGTCGATTGCATGTGAATTCAGTTATTAGGACTTGT
59911438 GTGACACTTTTGAAATGTGATAGGCTAATCTATAAGGACCTAATAGTGCATGTAATCAAAAGGGA
131 GTGACACTTTTGAAATGTGATAGGCTAATCTATAAGGACCTAATAGTGCATGTAATCAAAAGGGA
*
59911503 GGACCGCTAAACCGAGTCACCGAAATGTTTGAACGTAATATTTATTGTCTAGAATATGTATTTAT
1 GGACCGCTAAACCGAGTCACCGAAATGTTTGAACATAATATTTATTGTCTAGAATATGTATTTAT
59911568 GAATGTGTGAAAATTTCAAGCTTCGATTTAGTCGATTGCATGTGAATTCAGTTATTAGGACTTGT
66 GAATGTGTGAAAATTTCAAGCTTCGATTTAGTCGATTGCATGTGAATTCAGTTATTAGGACTTGT
59911633 GTGACACTTTTGAAATGTGATAGGCTAATCTATAAGGACCTAATAGTGCATGTAATCAAAAGGGA
131 GTGACACTTTTGAAATGTGATAGGCTAATCTATAAGGACCTAATAGTGCATGTAATCAAAAGGGA
59911698 GGAC
1 GGAC
59911702 TTGCATGTCA
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 198 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (195 bp):
GGACCGCTAAACCGAGTCACCGAAATGTTTGAACATAATATTTATTGTCTAGAATATGTATTTAT
GAATGTGTGAAAATTTCAAGCTTCGATTTAGTCGATTGCATGTGAATTCAGTTATTAGGACTTGT
GTGACACTTTTGAAATGTGATAGGCTAATCTATAAGGACCTAATAGTGCATGTAATCAAAAGGGA
Found at i:59913155 original size:40 final size:40
Alignment explanation
Indices: 59913110--59913289 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
59913100 TTCGAATGAT
*
59913110 ATCCGGGTTAATTCCCGAAGGCATTTTTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
59913150 ATCCGGGTTAATTCCCAAAGGAATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
59913190 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
59913230 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
59913271 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGTTAAT-TCCCGAAG
59913290 ACAATCGAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 121 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:59914621 original size:23 final size:23
Alignment explanation
Indices: 59914591--59914637 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
59914581 GCAGTAACCA
59914591 GCTTGTCTGGAAATTTTTAAATG
1 GCTTGTCTGGAAATTTTTAAATG
59914614 GCTTGTCTGGAAATTTTTAAATG
1 GCTTGTCTGGAAATTTTTAAATG
59914637 G
1 G
59914638 ACTGTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (23 bp):
GCTTGTCTGGAAATTTTTAAATG
Found at i:59918391 original size:40 final size:40
Alignment explanation
Indices: 59918336--59918503 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
59918326 TGAATGATAC
* *
59918336 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
59918376 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
59918416 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
59918456 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
59918496 CC-GGCTAA
1 CCGGGCTAA
59918504 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:59920817 original size:39 final size:40
Alignment explanation
Indices: 59920738--59920913 Score: 230
Period size: 40 Copynumber: 4.4 Consensus size: 40
59920728 TTCGCTAAGA
59920738 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTG
1 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTG
59920778 CGAGTTGATATATCCGGGCTAAGA-CCGAAGGCATTCGTG
1 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTG
* *
59920817 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCCTTTGTG
1 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTG
* * * * * * *
59920857 CAAG-TCACCAAATCCGGGTTATGACCCGAAGGCAATCGTG
1 CGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCATTCGTG
* *
59920897 CGAGTCGCTATATCCGG
1 CGAGTTGATATATCCGG
59920914 TTAAATCCCG
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
39 41 0.35
40 75 0.65
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTG
Found at i:59920830 original size:79 final size:80
Alignment explanation
Indices: 59920738--59920913 Score: 230
Period size: 79 Copynumber: 2.2 Consensus size: 80
59920728 TTCGCTAAGA
* * * *
59920738 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA-TATATCCGGGCTAAGA
1 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TCACCAAATCCGGGCTAAGA
*
59920802 -CCGAAGGCATTCGTG
65 CCCGAAGGCAATCGTG
* * * *
59920817 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAGTCACCAAATCCGGGTTATGAC
1 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCACCAAATCCGGGCTAAGAC
59920882 CCGAAGGCAATCGTG
66 CCGAAGGCAATCGTG
* *
59920897 CGAGTCGCTATATCCGG
1 CGAGTTGATATATCCGG
59920914 TTAAATCCCG
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 2 0.02
79 53 0.63
80 29 0.35
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (80 bp):
CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCACCAAATCCGGGCTAAGAC
CCGAAGGCAATCGTG
Found at i:59928893 original size:40 final size:40
Alignment explanation
Indices: 59928838--59929087 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
59928828 AACATTGGAA
59928838 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59928878 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59928918 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59928958 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
59928998 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
59929037 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
59929078 CTATATCCGG
1 ATATATCCGG
59929088 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:59934560 original size:40 final size:40
Alignment explanation
Indices: 59934515--59934682 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
59934505 CGGAATATAA
*
59934515 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
59934555 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
59934595 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
59934635 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
59934675 CCGGATAT
1 CCGGATAT
59934683 CATTCAATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 102 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59934665 original size:80 final size:80
Alignment explanation
Indices: 59934531--59934682 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
59934521 ATAAGCATGT
* *
59934531 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
59934596 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
59934611 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
59934674 CCCGGATAT
64 CCCGGATAT
59934683 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:59937349 original size:12 final size:12
Alignment explanation
Indices: 59937330--59937363 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
59937320 AGAAAGAAAA
59937330 GAGTGAAAAGGT
1 GAGTGAAAAGGT
* *
59937342 GTGTGAAAAAGT
1 GAGTGAAAAGGT
59937354 GAGTGAAAAG
1 GAGTGAAAAG
59937364 AAACGAGGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.38, T:0.18
Consensus pattern (12 bp):
GAGTGAAAAGGT
Found at i:59947842 original size:40 final size:39
Alignment explanation
Indices: 59947749--59947929 Score: 152
Period size: 40 Copynumber: 4.6 Consensus size: 39
59947739 GAATGGTATG
* * *
59947749 GGCTAAGT-CCGAAGGCTTTTGTGCTAAGTGACTAAATCC
1 GGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATCC
* *
59947788 GGGTCAATTCCCGAAGGCATTTGTGTGAGTTACTAAATCC
1 GGCT-AAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCC
* * *
59947828 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGTGAGTTACTAAATCC
* * * * *
59947868 GGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA-CG
1 -GGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTA-AATCC
* *
59947908 GGCTATGTCCCGAAGGCTTTTG
1 GGCTAAGTCCCGAAGGCATTTG
59947930 AGCGAGTCGC
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 23 0.20
40 73 0.63
41 20 0.17
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCC
Found at i:59955906 original size:40 final size:39
Alignment explanation
Indices: 59955807--59956026 Score: 167
Period size: 40 Copynumber: 5.5 Consensus size: 39
59955797 TTCGAATGGT
* * * *
59955807 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAA
* *
59955848 ATCCGG-GTCAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACT-AAGT-CCGAAGGCATTTGTGCGAGTTACTAA
* *
59955888 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
** * *
59955928 ATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGCTATTATA
1 ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTA-A
* * * * ** *
59955968 A-CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGTCGCTAT
1 ATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTAA
*
59956007 ATCCGGA-TAAAATCCGAAGG
1 ATCCGGACT-AAGTCCGAAGG
59956027 TACGTGATTC
Statistics
Matches: 145, Mismatches: 27, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
39 40 0.28
40 78 0.54
41 27 0.19
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:59955973 original size:39 final size:39
Alignment explanation
Indices: 59955807--59956000 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 39
59955797 TTCGAATGGT
* * *
59955807 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAA
*
59955848 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCT-AAGT-CCGAAGGCATTTGTGCGAGTTACTAA
* * *
59955888 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAA
1 ATCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
* * *
59955928 ATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGCTATTATA
1 ATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-A
* * *
59955968 A-CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 ATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGT
59956001 CGCTATATCC
Statistics
Matches: 129, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 31 0.24
40 70 0.54
41 28 0.22
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:59956011 original size:79 final size:79
Alignment explanation
Indices: 59955807--59956026 Score: 232
Period size: 79 Copynumber: 2.8 Consensus size: 79
59955797 TTCGAATGGT
* * *
59955807 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTAAATCCGGGTCAATTCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGC-GAGTCG-CTAAATCCGGGTAAAAT-CCGAAGGCA
*
59955871 TTTGTGCGAGTTACTAA
63 TTTGTGCGAGCTACTAA
* * * * *
59955888 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTC-CCAAATCCGGGTTAAGTCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCGAG-TCGCTAAATCCGGGTAAAATCCGAAGGCAT
*
59955951 TTGTGCGAGCTATTATA
64 TTGTGCGAGCTACTA-A
* * * *
59955968 A-CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGTCGCTATATCCGGATAAAATCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTCGCTAAATCCGGGTAAAATCCGAAGG
59956027 TACGTGATTC
Statistics
Matches: 116, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
78 3 0.03
79 67 0.58
80 18 0.16
81 27 0.23
82 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTCGCTAAATCCGGGTAAAATCCGAAGGCATTT
GTGCGAGCTACTAA
Found at i:59963045 original size:18 final size:18
Alignment explanation
Indices: 59963010--59963043 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59963000 AACTCATTAC
*
59963010 TGAATCAAGAATATAAAT
1 TGAATCAAGAATAAAAAT
59963028 TGAATCAAG-ATAAAAA
1 TGAATCAAGAATAAAAA
59963044 ATATAATTTT
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:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (18 bp):
TGAATCAAGAATAAAAAT
Found at i:59965989 original size:93 final size:92
Alignment explanation
Indices: 59965875--59966044 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
59965865 CCCCCTAAGT
* *
59965875 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
59965940 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
*
59965967 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59966032 CGAGTTCGGATGC
65 CGAGTTCGGATGC
59966045 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 6 0.08
93 68 0.92
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:59966041 original size:46 final size:46
Alignment explanation
Indices: 59965870--59966041 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
59965860 GTAACCCCCC
* * *
59965870 TAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
59965915 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
59965963 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
59966008 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59966042 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 13 0.12
46 49 0.46
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:59966500 original size:14 final size:14
Alignment explanation
Indices: 59966481--59966507 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59966471 GAAAAATTAC
59966481 ACTTTTGCCCCTAA
1 ACTTTTGCCCCTAA
59966495 ACTTTTGCCCCTA
1 ACTTTTGCCCCTA
59966508 GGATCGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.37, G:0.07, T:0.37
Consensus pattern (14 bp):
ACTTTTGCCCCTAA
Found at i:59971756 original size:93 final size:93
Alignment explanation
Indices: 59971649--59971819 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59971639 CCCCATAAGT
* *
59971649 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59971714 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
59971742 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59971807 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59971820 TCAACCATCC
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:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:59971816 original size:46 final size:46
Alignment explanation
Indices: 59971641--59971816 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
59971631 ATGTAACCCC
* * * *
59971641 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
59971687 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * *
59971737 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
59971780 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59971817 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 64 0.59
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:59972275 original size:30 final size:30
Alignment explanation
Indices: 59972241--59972301 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
59972231 CATTTAATAC
59972241 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
59972271 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
59972301 A
1 A
59972302 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:59974580 original size:24 final size:25
Alignment explanation
Indices: 59974548--59974595 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
59974538 GCTTTCTTCT
59974548 TCTTTTTTAT-TTTTATTT-ATTTTA
1 TCTTTTTTATATTTT-TTTAATTTTA
59974572 TCTTTTTTATATTTTTTTAATTTT
1 TCTTTTTTATATTTTTTTAATTTT
59974596 TTAATTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (25 bp):
TCTTTTTTATATTTTTTTAATTTTA
Found at i:59974643 original size:17 final size:19
Alignment explanation
Indices: 59974621--59974663 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
59974611 TATAGAACTA
*
59974621 AAATTAG-TAA-AAATAAT
1 AAATTAGATAATAAATAAG
59974638 AAATTAGAATAATAAATAAG
1 AAATTAG-ATAATAAATAAG
59974658 AAATTA
1 AAATTA
59974664 AATTAACTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
19 3 0.14
20 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (19 bp):
AAATTAGATAATAAATAAG
Found at i:59982289 original size:40 final size:40
Alignment explanation
Indices: 59982244--59982451 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
59982234 CGGAATACAA
* *
59982244 CCGGATATAACCACATCCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
59982284 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
59982324 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
59982364 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
59982404 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
59982444 CCGGATAT
1 CCGGATAT
59982452 CATTCAATTG
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.01
40 138 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:59990286 original size:40 final size:39
Alignment explanation
Indices: 59990191--59990396 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
59990181 CGGAATACAA
* *
59990191 CCGGATATAACCACATGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
* *
59990230 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* *
59990270 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59990310 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTA-A
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59990349 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
59990389 CCGGATAT
1 CCGGATAT
59990397 CATTCAATTG
Statistics
Matches: 139, Mismatches: 23, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 55 0.40
40 82 0.59
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:59990353 original size:79 final size:79
Alignment explanation
Indices: 59990189--59990395 Score: 229
Period size: 79 Copynumber: 2.6 Consensus size: 79
59990179 TTCGGAATAC
* * *
59990189 AACCGGATATAACCACATGCACGAATGCCTTC-GGTCTTAGCCCGGATACAACGACTTGCACAAA
1 AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAA
59990253 TGCCTTCGGGTATT
66 TGCCTTCGGGTATT
* * ** *
59990267 AGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACA
1 A-ACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACA-ACGACTAGCACA
* *
59990331 ATTGCCTTCGGGTCTT
64 AATGCCTTCGGGTATT
** * ** * *
59990347 AACCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
59990396 TCATTCAATT
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
78 1 0.01
79 65 0.61
80 39 0.37
81 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (79 bp):
AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAA
TGCCTTCGGGTATT
Found at i:59992491 original size:44 final size:40
Alignment explanation
Indices: 59992442--59992554 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 40
59992432 AATTGATGAT
*
59992442 ATCCGGGCTAAGCCCCGAAGGCAATTGTGCGAATTGTGAGCTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCG-A--GTGA-CTAC
* * *
59992486 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTAT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACTAC
59992526 AT-CGGGCTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
59992555 ATCGTGATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
39 23 0.37
40 7 0.11
41 3 0.05
43 4 0.06
44 26 0.41
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTAC
Found at i:59995058 original size:40 final size:39
Alignment explanation
Indices: 59994893--59995076 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
59994883 AAATTGAATG
* * *
59994893 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
59994933 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
59994973 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
59995013 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
59995052 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
59995077 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:59995101 original size:80 final size:81
Alignment explanation
Indices: 59994933--59995121 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
59994923 GCTGGAAATT
* * * *
59994933 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
59994998 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
59995014 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
59995077 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
59995093 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
59995122 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:60003113 original size:40 final size:39
Alignment explanation
Indices: 60002948--60003131 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
60002938 GAAATTGATG
* * *
60002948 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
60002988 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
60003028 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
60003068 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
60003107 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
60003132 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:60003156 original size:80 final size:81
Alignment explanation
Indices: 60002988--60003176 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
60002978 GCTGGAAATT
* * * *
60002988 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
60003053 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
60003069 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
60003132 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
60003148 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
60003177 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:60006412 original size:27 final size:27
Alignment explanation
Indices: 60006364--60006522 Score: 164
Period size: 27 Copynumber: 5.9 Consensus size: 27
60006354 GCAAGGCTGC
** * *
60006364 CAGATATTGTGATAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
60006391 CAGATATTGTGGCAGAACCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
60006417 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
60006444 CAGATAATTGTGGCATAACCACCA-AGA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
60006471 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
60006498 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
60006523 GACGCTTCCT
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
26 11 0.10
27 94 0.85
28 5 0.05
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:60006454 original size:54 final size:55
Alignment explanation
Indices: 60006382--60006522 Score: 225
Period size: 54 Copynumber: 2.6 Consensus size: 55
60006372 GTGATAAAGT
*
60006382 CACCAGATACAGAT-ATTGTGGCAGAACCACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAACCACCAGAGACAGATATATGTGGCAGAGC
60006436 CACCAGATCAGATAATTGTGGCATAACCACCA-AGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAACCACCAGAGACAGATATATGTGGCAGAGC
* *
60006490 CACTAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAACCACCAG
60006523 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (55 bp):
CACCAGATCAGATAATTGTGGCATAACCACCAGAGACAGATATATGTGGCAGAGC
Found at i:60008126 original size:23 final size:23
Alignment explanation
Indices: 60008100--60008153 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 23
60008090 ACATGAAATT
*
60008100 CCCATCATGGAACATTTACCTAA
1 CCCATAATGGAACATTTACCTAA
60008123 CCCATTATAATGGAACATTTACCTAA
1 CCC---ATAATGGAACATTTACCTAA
60008149 CCCAT
1 CCCAT
60008154 TATCAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 5 0.19
26 22 0.81
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (23 bp):
CCCATAATGGAACATTTACCTAA
Found at i:60008136 original size:26 final size:26
Alignment explanation
Indices: 60008106--60008156 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
60008096 AATTCCCATC
60008106 ATGGAACATTTACCTAACCCATTATA
1 ATGGAACATTTACCTAACCCATTATA
60008132 ATGGAACATTTACCTAACCCATTAT
1 ATGGAACATTTACCTAACCCATTAT
60008157 CAATTTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATA
Done.