Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 176 of 290
Found at i:60301855 original size:14 final size:15
Alignment explanation
Indices: 60301836--60301865 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60301826 CGGAAAGAAG
60301836 AAAT-AAAAATAAAA
1 AAATAAAAAATAAAA
60301850 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
60301865 A
1 A
60301866 CTACACTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATAAAAAATAAAA
Found at i:60306351 original size:146 final size:146
Alignment explanation
Indices: 60306087--60306376 Score: 435
Period size: 146 Copynumber: 2.0 Consensus size: 146
60306077 CTTCTAGTGA
60306087 GATTACTGTACTAAGCCTATTGGGGCAGTCTGTTTGGGTTAGTAAACTCTATAGGAATGTCCTAT
1 GATTACTGTACTAAGCCTATTGGGGCAGTCTGTTTGGGTTAGTAAACTCTATAGGAATGTCCTAT
* *
60306152 TAGTGGTACAAAGGGTTGTCTTTCTGGAAAATCTGATAGAGCTTCCATTTGGGGAGTTCAATTTA
66 TAGTGGTACAAAGGGCTATCTTTCTGGAAAATCTGATAGAGCTTCCATTTGGGGAGTTCAATTTA
*
60306217 ATTTTGGGAATAGACT
131 ATTCTGGGAATAGACT
* * *
60306233 GATTATTGTACTAAGTCC-ATTGGGGCAGTTTGTTTGGGTTAGTAAACAT-TATAGGGATGT-CT
1 GATTACTGTACTAAG-CCTATTGGGGCAGTCTGTTTGGGTTAGTAAAC-TCTATAGGAATGTCCT
* * *
60306295 AGTTAGTGGTAC-AAGAGGCTATCTTTCTGGAAAATCTGATGGAGCTTCCGTTTGGGGAGTTCGA
64 A-TTAGTGGTACAAAG-GGCTATCTTTCTGGAAAATCTGATAGAGCTTCCATTTGGGGAGTTCAA
60306359 TTTAATTCTGGGAATAGA
127 TTTAATTCTGGGAATAGA
60306377 TTGGTTGGTT
Statistics
Matches: 131, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
145 6 0.05
146 122 0.93
147 3 0.02
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.36
Consensus pattern (146 bp):
GATTACTGTACTAAGCCTATTGGGGCAGTCTGTTTGGGTTAGTAAACTCTATAGGAATGTCCTAT
TAGTGGTACAAAGGGCTATCTTTCTGGAAAATCTGATAGAGCTTCCATTTGGGGAGTTCAATTTA
ATTCTGGGAATAGACT
Found at i:60312983 original size:12 final size:12
Alignment explanation
Indices: 60312968--60313036 Score: 77
Period size: 12 Copynumber: 5.6 Consensus size: 12
60312958 AGGAAAATAC
*
60312968 AAATAAACAGAA
1 AAATAAAAAGAA
60312980 AAATAAAAAGAA
1 AAATAAAAAGAA
*
60312992 AAATAAAAACTAA
1 AAATAAAAA-GAA
*
60313005 AAAGAAAAAAGAA
1 AAA-TAAAAAGAA
60313018 AAA-AGAAAAGAA
1 AAATA-AAAAGAA
60313030 AAATAAA
1 AAATAAA
60313037 TGGACTCAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
11 1 0.02
12 32 0.65
13 11 0.22
14 5 0.10
ACGTcount: A:0.81, C:0.03, G:0.09, T:0.07
Consensus pattern (12 bp):
AAATAAAAAGAA
Found at i:60313005 original size:19 final size:18
Alignment explanation
Indices: 60312978--60313036 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 18
60312968 AAATAAACAG
60312978 AAAAATAAAAAGAAAAAT
1 AAAAATAAAAAGAAAAAT
60312996 AAAAACTAAAAAGAAAAA-
1 AAAAA-TAAAAAGAAAAAT
*
60313014 AGAAAAAAGAAAAGAAAAAT
1 A-AAAATA-AAAAGAAAAAT
60313034 AAA
1 AAA
60313037 TGGACTCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 7 0.19
19 28 0.78
20 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.08, T:0.07
Consensus pattern (18 bp):
AAAAATAAAAAGAAAAAT
Found at i:60314633 original size:3 final size:3
Alignment explanation
Indices: 60314625--60314658 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
60314615 TAAATAAAGA
60314625 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
60314659 GAGTAAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:60317667 original size:40 final size:40
Alignment explanation
Indices: 60317630--60317814 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
60317620 GCTACTCGTT
*
60317630 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
60317670 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * ** *
60317710 CCAATGCCTTCGGG-CTTAGCCTAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** * * *
60317749 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
60317790 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
60317815 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.63
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:60317741 original size:79 final size:80
Alignment explanation
Indices: 60317658--60317810 Score: 213
Period size: 79 Copynumber: 1.9 Consensus size: 80
60317648 AGCCCGGTTA
* * *
60317658 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTC
60317721 GGG-CTTAGCCTAGAAT
64 GGGACTTAGCCTAGAAT
** *
60317737 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
60317802 GACTTAGCC
66 GACTTAGCC
60317811 CGGACATCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
78 3 0.05
79 51 0.78
80 11 0.17
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCTAGAAT
Found at i:60325876 original size:79 final size:80
Alignment explanation
Indices: 60325777--60325959 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
60325767 TACTCGTTCA
* * *
60325777 AATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
60325840 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
60325857 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
60325921 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
* *
60325936 AAAGCCTCCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
60325960 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 59 0.66
80 27 0.30
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:60325959 original size:40 final size:40
Alignment explanation
Indices: 60325756--60325959 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
60325746 CGGAATTTAA
** * *
60325756 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60325796 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60325836 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
60325875 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60325915 CCGGATATAGTCACTTAGCACAAA-GCCTCCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60325955 CCGGA
1 CCGGA
60325960 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60334715 original size:12 final size:13
Alignment explanation
Indices: 60334696--60334757 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
60334686 TTTTTCTTGC
60334696 TAAGTTTTAAATT
1 TAAGTTTTAAATT
*
60334709 T-AGTTTTGAATT
1 TAAGTTTTAAATT
*
60334721 TAAGTTTTCTTTAATT
1 TAAG--TT-TTAAATT
*
60334737 TTAGTTTTAAATT
1 TAAGTTTTAAATT
60334750 TAAGTTTT
1 TAAGTTTT
60334758 TTAAAAATCC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
12 11 0.28
13 16 0.40
14 2 0.05
15 2 0.05
16 9 0.22
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (13 bp):
TAAGTTTTAAATT
Found at i:60334734 original size:29 final size:29
Alignment explanation
Indices: 60334701--60334757 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
60334691 CTTGCTAAGT
*
60334701 TTTAAATTTAGTTTTGAATTTAAGTTTTC
1 TTTAAATTTAGTTTTAAATTTAAGTTTTC
*
60334730 TTTAATTTTAGTTTTAAATTTAAGTTTT
1 TTTAAATTTAGTTTTAAATTTAAGTTTT
60334758 TTAAAAATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.61
Consensus pattern (29 bp):
TTTAAATTTAGTTTTAAATTTAAGTTTTC
Found at i:60345458 original size:146 final size:146
Alignment explanation
Indices: 60345194--60345483 Score: 435
Period size: 146 Copynumber: 2.0 Consensus size: 146
60345184 CTTCTAGTGA
60345194 GATTACTGTACTAAGCCTATTGGGGCAGTCTGTTTGGGTTAGTAAACTCTATAGGAATGTCCTAT
1 GATTACTGTACTAAGCCTATTGGGGCAGTCTGTTTGGGTTAGTAAACTCTATAGGAATGTCCTAT
* *
60345259 TAGTGGTACAAAGGGTTGTCTTTCTGGAAAATCTGATAGAGCTTCCATTTGGGGAGTTCAATTTA
66 TAGTGGTACAAAGGGCTATCTTTCTGGAAAATCTGATAGAGCTTCCATTTGGGGAGTTCAATTTA
*
60345324 ATTTTGGGAATAGACT
131 ATTCTGGGAATAGACT
* * *
60345340 GATTATTGTACTAAGTCC-ATTGGGGCAGTTTGTTTGGGTTAGTAAACAT-TATAGGGATGT-CT
1 GATTACTGTACTAAG-CCTATTGGGGCAGTCTGTTTGGGTTAGTAAAC-TCTATAGGAATGTCCT
* * *
60345402 AGTTAGTGGTAC-AAGAGGCTATCTTTCTGGAAAATCTGATGGAGCTTCCGTTTGGGGAGTTCGA
64 A-TTAGTGGTACAAAG-GGCTATCTTTCTGGAAAATCTGATAGAGCTTCCATTTGGGGAGTTCAA
60345466 TTTAATTCTGGGAATAGA
127 TTTAATTCTGGGAATAGA
60345484 TTGGTTGGTT
Statistics
Matches: 131, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
145 6 0.05
146 122 0.93
147 3 0.02
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.36
Consensus pattern (146 bp):
GATTACTGTACTAAGCCTATTGGGGCAGTCTGTTTGGGTTAGTAAACTCTATAGGAATGTCCTAT
TAGTGGTACAAAGGGCTATCTTTCTGGAAAATCTGATAGAGCTTCCATTTGGGGAGTTCAATTTA
ATTCTGGGAATAGACT
Found at i:60352090 original size:12 final size:12
Alignment explanation
Indices: 60352075--60352143 Score: 77
Period size: 12 Copynumber: 5.6 Consensus size: 12
60352065 AGGAAAATAC
*
60352075 AAATAAACAGAA
1 AAATAAAAAGAA
60352087 AAATAAAAAGAA
1 AAATAAAAAGAA
*
60352099 AAATAAAAACTAA
1 AAATAAAAA-GAA
*
60352112 AAAGAAAAAAGAA
1 AAA-TAAAAAGAA
60352125 AAA-AGAAAAGAA
1 AAATA-AAAAGAA
60352137 AAATAAA
1 AAATAAA
60352144 TGGACTCAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
11 1 0.02
12 32 0.65
13 11 0.22
14 5 0.10
ACGTcount: A:0.81, C:0.03, G:0.09, T:0.07
Consensus pattern (12 bp):
AAATAAAAAGAA
Found at i:60352112 original size:19 final size:18
Alignment explanation
Indices: 60352085--60352143 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 18
60352075 AAATAAACAG
60352085 AAAAATAAAAAGAAAAAT
1 AAAAATAAAAAGAAAAAT
60352103 AAAAACTAAAAAGAAAAA-
1 AAAAA-TAAAAAGAAAAAT
*
60352121 AGAAAAAAGAAAAGAAAAAT
1 A-AAAATA-AAAAGAAAAAT
60352141 AAA
1 AAA
60352144 TGGACTCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 7 0.19
19 28 0.78
20 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.08, T:0.07
Consensus pattern (18 bp):
AAAAATAAAAAGAAAAAT
Found at i:60353740 original size:3 final size:3
Alignment explanation
Indices: 60353732--60353765 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
60353722 TAAATAAAGA
60353732 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
60353766 GAGTAAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:60356774 original size:40 final size:40
Alignment explanation
Indices: 60356737--60356921 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
60356727 GCTACTCGTT
*
60356737 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
60356777 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * ** *
60356817 CCAATGCCTTCGGG-CTTAGCCTAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** * * *
60356856 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
60356897 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
60356922 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.63
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:60356848 original size:79 final size:80
Alignment explanation
Indices: 60356765--60356917 Score: 213
Period size: 79 Copynumber: 1.9 Consensus size: 80
60356755 AGCCCGGTTA
* * *
60356765 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTC
60356828 GGG-CTTAGCCTAGAAT
64 GGGACTTAGCCTAGAAT
** *
60356844 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
60356909 GACTTAGCC
66 GACTTAGCC
60356918 CGGACATCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
78 3 0.05
79 51 0.78
80 11 0.17
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCTAGAAT
Found at i:60357911 original size:116 final size:116
Alignment explanation
Indices: 60357707--60357939 Score: 430
Period size: 116 Copynumber: 2.0 Consensus size: 116
60357697 TTTTGGAAAT
*
60357707 TGATTACAAATGAACCAGAGATAATTAGGAGTCATACCATATATGTATAGATTCCTCTCTTAGTC
1 TGATTACAAATGAACCAGAGATAATTAGGAGTCATACCATATATGTATAGATTCCTCTCTGAGTC
60357772 TAGTTTCTATAGAAATAAACGGCATCAGTATTGGAGCCCTGTACAAGGAGA
66 TAGTTTCTATAGAAATAAACGGCATCAGTATTGGAGCCCTGTACAAGGAGA
* * *
60357823 TGATTATAAATTAACCAGAGATAATTAGGAGTTATACCATATATGTATAGATTCCTCTCTGAGTC
1 TGATTACAAATGAACCAGAGATAATTAGGAGTCATACCATATATGTATAGATTCCTCTCTGAGTC
60357888 TAGTTTCTATAGAAATAAACGGCATCAGTATTGGAGCCCTGTACAAGGAGA
66 TAGTTTCTATAGAAATAAACGGCATCAGTATTGGAGCCCTGTACAAGGAGA
60357939 T
1 T
60357940 ATCCAAGTCG
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 113 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (116 bp):
TGATTACAAATGAACCAGAGATAATTAGGAGTCATACCATATATGTATAGATTCCTCTCTGAGTC
TAGTTTCTATAGAAATAAACGGCATCAGTATTGGAGCCCTGTACAAGGAGA
Found at i:60360301 original size:149 final size:149
Alignment explanation
Indices: 60360031--60360317 Score: 493
Period size: 149 Copynumber: 1.9 Consensus size: 149
60360021 AAGCAAGCGC
*
60360031 TTAAGTATCGGGATATTTGATAAGTGCTAAAAGTAACATGTTTTAATCTAACTCTTAATGCATTT
1 TTAAGTATCGGGATATTTGATAAATGCTAAAAGTAACATGTTTTAATCTAACTCTTAATGCATTT
* *
60360096 TTGGCTGATTATTCAATGTTAATGATAAATTTGATGCTTTTAATCCTTTAAATTCATGTTTTTAT
66 TTGGCTGATTATTCAATGTTAATGATAAATTCGATGCTTCTAATCCTTTAAATTCATGTTTTTAT
60360161 ACTTAGGAGAAACAAACGT
131 ACTTAGGAGAAACAAACGT
* * * *
60360180 TTAAGTGTGGGGATATTTGATAAATGCTAAAAGTAACATGTTTTAATCTAATTCTTAATGCGTTT
1 TTAAGTATCGGGATATTTGATAAATGCTAAAAGTAACATGTTTTAATCTAACTCTTAATGCATTT
* *
60360245 TTGGGTGATTATTCAATGTTAATGATAAATTCGATGCTTCTAATCCTTTAGATTCATGTTTTTAT
66 TTGGCTGATTATTCAATGTTAATGATAAATTCGATGCTTCTAATCCTTTAAATTCATGTTTTTAT
60360310 ACTTAGGA
131 ACTTAGGA
60360318 AAGCATTTGG
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
149 129 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (149 bp):
TTAAGTATCGGGATATTTGATAAATGCTAAAAGTAACATGTTTTAATCTAACTCTTAATGCATTT
TTGGCTGATTATTCAATGTTAATGATAAATTCGATGCTTCTAATCCTTTAAATTCATGTTTTTAT
ACTTAGGAGAAACAAACGT
Found at i:60371244 original size:30 final size:29
Alignment explanation
Indices: 60371208--60371265 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
60371198 TGGTGGGACC
60371208 AAAATTAGGACTTGGGAAAGAGGGCCAANT
1 AAAATTAGGACTTGGGAAAGAGGGCCAA-T
*
60371238 AAAATTAGGACTTGGGAAAGAGTGCCAA
1 AAAATTAGGACTTGGGAAAGAGGGCCAA
60371266 AGTGAGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.29, T:0.17
Consensus pattern (29 bp):
AAAATTAGGACTTGGGAAAGAGGGCCAAT
Found at i:60377754 original size:59 final size:59
Alignment explanation
Indices: 60377685--60378023 Score: 438
Period size: 59 Copynumber: 5.8 Consensus size: 59
60377675 TGAAGAAACT
* * * * *
60377685 TTAAATAAATATTCTTATTTCATAATAATTATACGAATAATTAATTAATTTTTAATTAA
1 TTAAATAAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTTAATTAA
*
60377744 TTAAATAAATAACCATATTTCATAATAATTCTATGAATAATTAATTTA-TTTTAGATTAA
1 TTAAATAAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTTA-ATTAA
* * * * * * *
60377803 TTAAAT-AATATTCTTATATCATAATAATTATACGAATAATTAATTAATTTTTGATTAA
1 TTAAATAAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTTAATTAA
**
60377861 TTAAATAAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTCGATTAA
1 TTAAATAAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTTAATTAA
* * * * *
60377920 TTAAATAAATAATCATATTTTATGATAATTGTAGGAATAATTAATTTA-TTTT-A--GA
1 TTAAATAAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTTAATTAA
*
60377975 TTAAATAAATAATCATGTTTCATAATAATTCTATGAATAATTAATTTAT
1 TTAAATAAATAATCATATTTCATAATAATTCTATGAATAATTAATTTAT
60378024 CTTCGGTTAA
Statistics
Matches: 244, Mismatches: 32, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
55 44 0.18
57 1 0.00
58 53 0.22
59 146 0.60
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (59 bp):
TTAAATAAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTTAATTAA
Found at i:60377827 original size:117 final size:117
Alignment explanation
Indices: 60377685--60378023 Score: 524
Period size: 117 Copynumber: 2.9 Consensus size: 117
60377675 TGAAGAAACT
60377685 TTAAATAAATATTCTTATTTCATAATAATTATACGAATAATTAATTAATTTTTAATTAATTAAAT
1 TTAAATAAATATTCTTATTTCATAATAATTATACGAATAATTAATTAATTTTT-ATTAATTAAAT
*
60377750 AAATAACCATATTTCATAATAATTCTATGAATAATTAATTTATTTTAGATTAA
65 AAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTAGATTAA
*
60377803 TTAAAT-AATATTCTTATATCATAATAATTATACGAATAATTAATTAATTTTTGATTAATTAAAT
1 TTAAATAAATATTCTTATTTCATAATAATTATACGAATAATTAATTAATTTTT-ATTAATTAAAT
*
60377867 AAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTCGATTAA
65 AAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTAGATTAA
* * * * * * * *
60377920 TTAAATAAATAATCATATTTTATGATAATTGTAGGAATAATTAATTTA-TTTTA--GATTAAATA
1 TTAAATAAATATTCTTATTTCATAATAATTATACGAATAATTAATTAATTTTTATTAATTAAATA
*
60377982 AATAATCATGTTTCATAATAATTCTATGAATAATTAATTTAT
66 AATAATCATATTTCATAATAATTCTATGAATAATTAATTTAT
60378024 CTTCGGTTAA
Statistics
Matches: 206, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
114 49 0.24
116 1 0.00
117 117 0.57
118 39 0.19
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (117 bp):
TTAAATAAATATTCTTATTTCATAATAATTATACGAATAATTAATTAATTTTTATTAATTAAATA
AATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTAGATTAA
Found at i:60377986 original size:176 final size:173
Alignment explanation
Indices: 60377685--60378061 Score: 485
Period size: 176 Copynumber: 2.2 Consensus size: 173
60377675 TGAAGAAACT
* * *
60377685 TTAAATAAATATTCTTATTTCATAATAATTATACGAATAATTAATTAATTTTTAATTAATTAAAT
1 TTAAATAAATAATCATATTTCATAATAATTATACGAATAATTAATTAATTTTCAATTAATTAAAT
* *
60377750 AAATAACCATATTTCATAATAATTCTATGAATAATTAATTTATTTTAGATTAATTAAATAAT-AT
66 AAATAACCATATTTCATAATAATTCTAGGAATAATTAATTTATTTTAGATTAAATAAATAATCA-
*
60377814 TCTTATATCATAATAATTATACGAATAATTAATTAATTTTTGATTAA
130 T-GT-T-TCATAATAATTATACGAATAATTAATTAATTTTTGATTAA
* * * *
60377861 TTAAATAAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTCGATTAATTAAAT
1 TTAAATAAATAATCATATTTCATAATAATTATACGAATAATTAATTAATTTTCAATTAATTAAAT
* * * *
60377926 AAATAATCATATTTTATGATAATTGTAGGAATAATTAATTTATTTTAGATTAAATAAATAATCAT
66 AAATAACCATATTTCATAATAATTCTAGGAATAATTAATTTATTTTAGATTAAATAAATAATCAT
* * * * * *
60377991 GTTTCATAATAATTCTATGAATAATTAATTTATCTTCG----G
131 GTTTCATAATAATTATACGAATAATTAATTAATTTTTGATTAA
* *
60378030 TTAAATAAATGATCATATTTCATAATGATTAT
1 TTAAATAAATAATCATATTTCATAATAATTAT
60378062 CATAACTTAC
Statistics
Matches: 177, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
169 29 0.16
173 30 0.17
174 1 0.01
175 1 0.01
176 115 0.65
177 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (173 bp):
TTAAATAAATAATCATATTTCATAATAATTATACGAATAATTAATTAATTTTCAATTAATTAAAT
AAATAACCATATTTCATAATAATTCTAGGAATAATTAATTTATTTTAGATTAAATAAATAATCAT
GTTTCATAATAATTATACGAATAATTAATTAATTTTTGATTAA
Found at i:60383939 original size:66 final size:65
Alignment explanation
Indices: 60383827--60383960 Score: 180
Period size: 66 Copynumber: 2.0 Consensus size: 65
60383817 GCAAATTGCT
* * * * *
60383827 CAACTTAAAGCGGAGGCAGCATCGAGAGAAGCAGAGGCTCAAAGAAAATATGATGAACTCCAGCT
1 CAACTCAAAGCAGAGGCAGCAGCGAGAGAAACAGAGGC-CAAAGAAAATATGACGAACTCCAGCT
60383892 A
65 A
*
60383893 CAACTCAAAGCAGAGGTAGCAGCGAGAGAAACAGAGG-CAAGCAGAAAATATGACGAACTCCAGC
1 CAACTCAAAGCAGAGGCAGCAGCGAGAGAAACAGAGGCCAA--AGAAAATATGACGAACTCCAGC
60383957 TA
64 TA
60383959 CA
1 CA
60383961 GCTTCAAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 3 0.05
66 57 0.95
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (65 bp):
CAACTCAAAGCAGAGGCAGCAGCGAGAGAAACAGAGGCCAAAGAAAATATGACGAACTCCAGCTA
Found at i:60384314 original size:43 final size:43
Alignment explanation
Indices: 60384235--60384341 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
60384225 ACAAATGCCG
* * * * * ** *
60384235 CTAAAGAACATGACCTTTCGCGACATTTTTAGTAAAAGTGTCA
1 CTAAAGAACATGACATTTAGCGACACTGTTACTAAAAACGCCA
* * *
60384278 CTAAAGAACATGACATTTAGCGGCGCTGTTACTAAAAACGCCG
1 CTAAAGAACATGACATTTAGCGACACTGTTACTAAAAACGCCA
60384321 CTAAAGAACATGACATTTAGC
1 CTAAAGAACATGACATTTAGC
60384342 AGCGTTTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (43 bp):
CTAAAGAACATGACATTTAGCGACACTGTTACTAAAAACGCCA
Found at i:60384830 original size:24 final size:25
Alignment explanation
Indices: 60384758--60384831 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
60384748 AATAATTTAC
* * **
60384758 AATGTTTTAATAAATTAAA-ATTAA
1 AATGTTGTAAGAAATTAAATATTTT
* *
60384782 AATGTTGTAAGAGATTTAATAATTTT
1 AATGTTGTAAGAAATTAAAT-ATTTT
60384808 AAT-TTGTAAGAAATTAAATATTTT
1 AATGTTGTAAGAAATTAAATATTTT
60384832 GGATAATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 20 0.50
25 14 0.35
26 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (25 bp):
AATGTTGTAAGAAATTAAATATTTT
Found at i:60384933 original size:20 final size:20
Alignment explanation
Indices: 60384910--60384957 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
60384900 ATAATACTAC
* *
60384910 AAGAGATTCACTAATTTTGT
1 AAGAGATTCACTAAATTTGG
* * *
60384930 AAGAAATCCAGTAAATTTGG
1 AAGAGATTCACTAAATTTGG
60384950 AAGAGATT
1 AAGAGATT
60384958 GAGTTAATCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (20 bp):
AAGAGATTCACTAAATTTGG
Found at i:60385170 original size:21 final size:21
Alignment explanation
Indices: 60385127--60385184 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 21
60385117 GTTATAAAAG
*
60385127 ATTTTGGTAATTTTATTATTAAGGA
1 ATTTTAGTAA-TTT-TT-TTAA-GA
*
60385152 A-TTTAGTCATTTTTTTAAGA
1 ATTTTAGTAATTTTTTTAAGA
60385172 ATTTTAGTAATTT
1 ATTTTAGTAATTT
60385185 CGTACAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 3 0.10
21 14 0.48
22 2 0.07
23 3 0.10
24 6 0.21
25 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (21 bp):
ATTTTAGTAATTTTTTTAAGA
Found at i:60390105 original size:45 final size:45
Alignment explanation
Indices: 60389991--60390108 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
60389981 GTTGAAATAT
* *
60389991 GAGTAAGACCATAGCTGAAAGACAATATGACAGCACGAATCAAAC
1 GAGTAAGACAATAGCTGAAAGACACTATGACAGCACGAATCAAAC
* * * * *
60390036 GAGTAAGACTATAGCTAAAAGACACTATGGCATCACGACTCAAAC
1 GAGTAAGACAATAGCTGAAAGACACTATGACAGCACGAATCAAAC
* *
60390081 GTGTAAGACAATAGTTGAAAGACACTAT
1 GAGTAAGACAATAGCTGAAAGACACTAT
60390109 AACATTATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (45 bp):
GAGTAAGACAATAGCTGAAAGACACTATGACAGCACGAATCAAAC
Found at i:60391582 original size:39 final size:40
Alignment explanation
Indices: 60391537--60391708 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
60391527 GCTCCTCGTT
* * * *
60391537 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
60391577 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
* * *
60391616 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
* * * * * *
60391656 CAAAGGCCTTCGGGGCTTAACCTGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAATAACTCGCA
60391696 CAAATGCCTTCGG
1 CAAATGCCTTCGG
60391709 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
Found at i:60391637 original size:40 final size:39
Alignment explanation
Indices: 60391539--60391761 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
60391529 TCCTCGTTCA
* * * * *
60391539 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
60391578 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
60391617 GAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * *
60391657 AAAGGCCTTCGGGGCTTAACCTGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCAC
** * * * *
60391697 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
60391738 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60391762 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:60391770 original size:41 final size:41
Alignment explanation
Indices: 60391693--60391770 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60391683 TTTGTATCTC
* * *
60391693 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60391734 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60391771 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60396845 original size:20 final size:20
Alignment explanation
Indices: 60396820--60396885 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
60396810 TTGATACGTG
60396820 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* *
60396840 CCCCTGTTTGTACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
* *
60396860 CCCCTATTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGGTA
60396880 CCCCTG
1 CCCCTG
60396886 AACACATTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.05
20 33 0.89
21 2 0.05
ACGTcount: A:0.14, C:0.33, G:0.17, T:0.36
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:60398599 original size:39 final size:40
Alignment explanation
Indices: 60398556--60398721 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
60398546 CTCGTTCAAG
* * * *
60398556 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
60398595 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
60398635 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
60398675 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
60398715 TGCCTTC
1 TGCCTTC
60398722 AGATCTTAGT
Statistics
Matches: 109, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.24
40 79 0.72
41 3 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:60398707 original size:80 final size:80
Alignment explanation
Indices: 60398591--60398776 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
60398581 AGTAACTCAT
* * * *
60398591 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-AGATCTTAACCCG
*
60398655 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
60398670 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCAGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCAGATCTTAACCC
60398734 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
60398751 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
60398777 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 10 0.11
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCAGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:60398736 original size:40 final size:40
Alignment explanation
Indices: 60398593--60398721 Score: 197
Period size: 40 Copynumber: 3.2 Consensus size: 40
60398583 TAACTCATAC
* *
60398593 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
60398633 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
60398673 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
60398713 AATGCCTTC
1 AATGCCTTC
60398722 AGATCTTAGT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:60398770 original size:40 final size:40
Alignment explanation
Indices: 60398596--60398776 Score: 154
Period size: 40 Copynumber: 4.5 Consensus size: 40
60398586 CTCATACAAT
* * * * *
60398596 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGA-ATTAATAACTAGCACAAAG
* * * *
60398636 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
* * *
60398676 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
* * * *
60398716 GCCTTC-AGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGAAT-TAATAAC-TAGCACAAAG
60398756 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
60398777 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 16, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
39 7 0.06
40 102 0.86
41 10 0.08
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
Found at i:60406655 original size:40 final size:40
Alignment explanation
Indices: 60406557--60406899 Score: 451
Period size: 40 Copynumber: 8.6 Consensus size: 40
60406547 TCCTCGTTCA
* * * ** *
60406557 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
60406596 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
60406636 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
60406676 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
60406716 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
60406756 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
60406796 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
60406836 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
60406876 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60406900 CAGCATTCAA
Statistics
Matches: 279, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
39 37 0.13
40 234 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:60428037 original size:26 final size:26
Alignment explanation
Indices: 60428008--60428843 Score: 1672
Period size: 26 Copynumber: 32.2 Consensus size: 26
60427998 TGATACAAAT
60428008 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428034 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428060 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428086 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428112 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428138 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428164 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428190 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428216 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428242 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428268 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428294 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428320 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428346 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428372 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428398 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428424 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428450 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428476 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428502 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428528 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428554 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428580 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428606 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428632 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428658 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428684 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428710 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428736 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428762 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428788 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428814 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60428840 TGAT
1 TGAT
60428844 GGGAATTTCA
Statistics
Matches: 810, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 810 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60433686 original size:21 final size:23
Alignment explanation
Indices: 60433641--60433686 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 23
60433631 CTAAATCGAG
60433641 AAATAAGAAAGGTGAGAGAAGGAA
1 AAATAAGAAAGGT-AGAGAAGGAA
*
60433665 AAATAA-AAAGGT-GAGCAGGAA
1 AAATAAGAAAGGTAGAGAAGGAA
60433686 A
1 A
60433687 GGGTTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
23 6 0.29
24 6 0.29
ACGTcount: A:0.59, C:0.02, G:0.30, T:0.09
Consensus pattern (23 bp):
AAATAAGAAAGGTAGAGAAGGAA
Found at i:60436418 original size:43 final size:43
Alignment explanation
Indices: 60436330--60436486 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
60436320 TGTGATTATA
* *
60436330 TGTAAGACCATGTCTGGGACGTTGGCATTATATTGAGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTATAATGAGATTACG
* * *
60436373 TGTAAGACCATGTCTGGGACATTGGCATTGTTAAT-CGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATT-ATAATGAGATTACG
* * * * * *
60436416 TGTAAGACCCTATCTGGGACAGTGGCATCTAT-ATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCAT-TATAATGAGATTACG
* * *
60436459 TGTAATACCATATCTGGGATA-TGGCATT
1 TGTAAGACCATGTCTGGGACATTGGCATT
60436487 GTATGAGCTT
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 82 0.86
44 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTATAATGAGATTACG
Found at i:60436434 original size:86 final size:85
Alignment explanation
Indices: 60436330--60436488 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 85
60436320 TGTGATTATA
* * * *
60436330 TGTAAGACCATGTCTGGGAC-GTTGGCAT-TATATTGAGATTACGTGTAAGACCATGTCTGGGAC
1 TGTAAGACCATATCTGGGACAG-TGGCATCTATA-TGAGATAACATGTAAGACCATATCTGGGAC
60436393 ATTGGCATTGTTAATCGATTTCG
64 A-TGGCATTGTTAATCGATTTCG
* * * *
60436416 TGTAAGACCCTATCTGGGACAGTGGCATCTATATGTGATAACATGTAATACCATATCTGGGATAT
1 TGTAAGACCATATCTGGGACAGTGGCATCTATATGAGATAACATGTAAGACCATATCTGGGACAT
60436481 GGCATTGT
66 GGCATTGT
60436489 ATGAGCTTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 9 0.14
86 49 0.78
87 5 0.08
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (85 bp):
TGTAAGACCATATCTGGGACAGTGGCATCTATATGAGATAACATGTAAGACCATATCTGGGACAT
GGCATTGTTAATCGATTTCG
Found at i:60437224 original size:13 final size:12
Alignment explanation
Indices: 60437197--60437230 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
60437187 TAGATATGTT
60437197 TTGGTTGTGGAA
1 TTGGTTGTGGAA
*
60437209 TTGGTTAGTTGAA
1 TTGGTT-GTGGAA
60437222 TTGGTTGTG
1 TTGGTTGTG
60437231 ATAGATGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (12 bp):
TTGGTTGTGGAA
Found at i:60451581 original size:29 final size:29
Alignment explanation
Indices: 60451547--60451620 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
60451537 TAATCAACCG
*
60451547 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
60451576 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
60451605 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
60451621 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:60453897 original size:7 final size:6
Alignment explanation
Indices: 60453878--60453914 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
60453868 AATCTGCTAA
60453878 AAAAAT AAAAAT AAACAAT AAAAAT AAACAAT AAAAA
1 AAAAAT AAAAAT AAA-AAT AAAAAT AAA-AAT AAAAA
60453915 GTAGTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:60453897 original size:13 final size:13
Alignment explanation
Indices: 60453881--60453914 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
60453871 CTGCTAAAAA
60453881 AATAAAAATAAAC
1 AATAAAAATAAAC
60453894 AATAAAAATAAAC
1 AATAAAAATAAAC
60453907 AATAAAAA
1 AATAAAAA
60453915 GTAGTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAAAATAAAC
Found at i:60472423 original size:40 final size:40
Alignment explanation
Indices: 60472379--60473369 Score: 1865
Period size: 40 Copynumber: 24.8 Consensus size: 40
60472369 CAAGCACAAT
* * * * **
60472379 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
* *
60472419 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472459 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472499 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472539 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472579 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472619 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472659 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472699 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472739 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472779 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472819 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472859 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472899 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472939 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60472979 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60473019 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60473059 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60473099 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60473139 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
* *
60473179 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAATA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAA-A
60473220 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
*
60473260 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
60473300 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
*
60473340 TGCCTTCGGGTCTTAGCCCGGATATATCAA
1 TGCCTTCGGGTCTTAGCCCGGATTTATCAA
60473370 ATGCTCATGC
Statistics
Matches: 937, Mismatches: 13, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
40 899 0.96
41 38 0.04
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATTTATCAACTCGCATAAA
Found at i:60478485 original size:257 final size:256
Alignment explanation
Indices: 60478029--60478545 Score: 1016
Period size: 257 Copynumber: 2.0 Consensus size: 256
60478019 TTCATTCCCC
60478029 TTAGGTATTTAGGGAATTTAGTTAATAACTAAATAAGAAAACATCTTAGAATAATAAAGAATACA
1 TTAGGTATTTAGGGAATTTAGTTAATAACTAAATAAGAAAACATCTTAGAATAATAAAGAATACA
60478094 AAACATAAAGAAAACCCAAAACTCCTGAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATG
66 AAACATAAAGAAAACCCAAAACTCCTGAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATG
60478159 AATCCGGCTTCTGAGATGGATCAATCGGCTTTCTTGGAGTAATTCCTTACCCCTATTCTCCGTCT
131 AATCCGGCTTCTGAGATGGATCAATCGGCTTTCTTGGAGTAATTCCTTACCCCTATTCTCCGTCT
60478224 CCTTTTTCTTCCCTCCTCTAGGGTGTATTTATAGGCTTTGGAATGCCTAAGAGCCCTCAAAA
196 CCTTTTTCTT-CCTCCTCTAGGGTGTATTTATAGGCTTTGGAATGCCTAAGAGCCCTCAAAA
60478286 TTAGGTATTTAGGGAATTTAGTTAATAACTAAATAAGAAAACATCTTAGAATAATAAAGAATACA
1 TTAGGTATTTAGGGAATTTAGTTAATAACTAAATAAGAAAACATCTTAGAATAATAAAGAATACA
60478351 AAACATAAAGAAAACCCAAAACTCCTGAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATG
66 AAACATAAAGAAAACCCAAAACTCCTGAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATG
60478416 AATCCGGCTTCTGAGATGGATCAATCGGCTTTCTTGGAGTAATTCCTTACCCCTATTCTCCGTCT
131 AATCCGGCTTCTGAGATGGATCAATCGGCTTTCTTGGAGTAATTCCTTACCCCTATTCTCCGTCT
*
60478481 CCTTTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGGAATGCCTAAGAGCCCTTAAAA
196 CCTTTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGGAATGCCTAAGAGCCCTCAAAA
60478542 TTAG
1 TTAG
60478546 CCTTTTTCGA
Statistics
Matches: 259, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
256 54 0.21
257 205 0.79
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (256 bp):
TTAGGTATTTAGGGAATTTAGTTAATAACTAAATAAGAAAACATCTTAGAATAATAAAGAATACA
AAACATAAAGAAAACCCAAAACTCCTGAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATG
AATCCGGCTTCTGAGATGGATCAATCGGCTTTCTTGGAGTAATTCCTTACCCCTATTCTCCGTCT
CCTTTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGGAATGCCTAAGAGCCCTCAAAA
Found at i:60480009 original size:46 final size:44
Alignment explanation
Indices: 60479956--60480070 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 44
60479946 GACGAATGCT
* *
60479956 AGTGTAAGATATGTTTGGGACATGCATTAGCCT-CGAGATGTATGTC
1 AGTGTAAGAAATGTCTGGGACATGCA-TAGCCTACGAGATG--TGTC
* * *
60480002 AGTGTAAGAAATGTCTGGGACATGCATCGGCTACTAGATGTGTC
1 AGTGTAAGAAATGTCTGGGACATGCATAGCCTACGAGATGTGTC
*
60480046 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-AATGTCTGGGACATG
60480071 GCATCGACAC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 13 0.21
45 18 0.30
46 30 0.49
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (44 bp):
AGTGTAAGAAATGTCTGGGACATGCATAGCCTACGAGATGTGTC
Found at i:60487354 original size:46 final size:45
Alignment explanation
Indices: 60487204--60487417 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 45
60487194 ATGAGTTAGC
* * *
60487204 GTAAGACATGTCTGGGACATGCATCGGCC-ACATTGTGA-GGGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTAC---GAGATGTGTCAGT
* * * * *
60487250 GTAAGACCATGTCTGGGACATGGAATTGG--TATTGAGACGAGTGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCTA-CGAGATGTGT-C-AGT
*
60487298 GTAAGACATGTCTAGGACATGCATCGGCCT-CGAGATGTAAGTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGT--GTCAGT
* *
60487344 GTAAGACATGTCTGGGACATGCATCAG-CTATGAGATGTGTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGTGTCAGT
*
60487388 ATAAGACCATGTCTGGGACATGGCATCGGC
1 GTAAGA-CATGTCTGGGACAT-GCATCGGC
60487418 ATAGATATGC
Statistics
Matches: 136, Mismatches: 17, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
44 11 0.08
45 19 0.14
46 59 0.43
47 30 0.22
48 17 0.12
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGTGTCAGT
Found at i:60488547 original size:21 final size:22
Alignment explanation
Indices: 60488508--60488548 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
60488498 TAAAATTGAT
60488508 CACACGGGCGTGTTGCCCCTTC
1 CACACGGGCGTGTTGCCCCTTC
60488530 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
60488549 GTGTCAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTTC
Found at i:60492271 original size:37 final size:37
Alignment explanation
Indices: 60492221--60492313 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
60492211 CAAAACATGC
*
60492221 CAAATGCTAATAAGAGTTAATGC-AACCGATAACACGA
1 CAAATGCTAATAAGAGCTAAT-CTAACCGATAACACGA
* * * *
60492258 CAAATGCTTATAAGAGCTAATCTAATCGATACCACGC
1 CAAATGCTAATAAGAGCTAATCTAACCGATAACACGA
* *
60492295 CAAATGCTCATAATAGCTA
1 CAAATGCTAATAAGAGCTA
60492314 TACATCCGCC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 1 0.02
37 47 0.98
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.23
Consensus pattern (37 bp):
CAAATGCTAATAAGAGCTAATCTAACCGATAACACGA
Found at i:60494153 original size:49 final size:49
Alignment explanation
Indices: 60494027--60494398 Score: 566
Period size: 49 Copynumber: 7.8 Consensus size: 49
60494017 CCCTTCGGGA
* * *
60494027 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
60494073 CTCTGTCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CT-TATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
60494121 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
60494170 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
60494219 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
60494266 CTTATCACATATATATACACTTTCACATTTATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
60494315 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGT
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
60494362 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
60494399 CGAATCCTAA
Statistics
Matches: 298, Mismatches: 16, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
46 4 0.01
47 128 0.43
48 2 0.01
49 163 0.55
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.35
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:60494231 original size:96 final size:96
Alignment explanation
Indices: 60494027--60494400 Score: 576
Period size: 96 Copynumber: 3.9 Consensus size: 96
60494017 CCCTTCGGGA
* * * * *
60494027 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCAC--ATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT-TATCACATATATATA
*
60494089 CACTTTCACATTCATCACATTGGCCATTCGGC
65 CACTTTCACATTCATCACATCGGCCATTCGGC
60494121 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
*
60494186 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTCGGC
60494219 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
* *
60494284 ACTTTCACATTTATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTCGGC
* * *
60494315 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGTCTTATCACATATATATA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
60494379 CACTTTCACATTCATCACATCG
65 CACTTTCACATTCATCACATCG
60494401 AATCCTAAAT
Statistics
Matches: 259, Mismatches: 15, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
94 8 0.03
95 1 0.00
96 203 0.78
97 2 0.01
98 45 0.17
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.35
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:60494288 original size:145 final size:144
Alignment explanation
Indices: 60494027--60494398 Score: 574
Period size: 145 Copynumber: 2.6 Consensus size: 144
60494017 CCCTTCGGGA
* * * *
60494027 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCTCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCT-TATCACATATATAC
60494090 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
60494155 CATTGGCCATTCGGC
130 CATTGGCCATTCGGC
* *
60494170 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGG-CTTATCACATATATAC
*
60494235 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTTATCA
65 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
60494300 CATTGGCCATTCGGC
130 CATTGGCCATTCGGC
* *
60494315 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGTCTTATCACATATATA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGG-CTTATCAC--ATATA
60494377 TACACTTTCACATTCATCACAT
62 TACACTTTCACATTCATCACAT
60494399 CGAATCCTAA
Statistics
Matches: 211, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
142 1 0.00
143 51 0.24
144 1 0.00
145 156 0.74
146 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.35
Consensus pattern (144 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCTTATCACATATATACA
CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCAC
ATTGGCCATTCGGC
Found at i:60498014 original size:40 final size:40
Alignment explanation
Indices: 60497954--60498082 Score: 181
Period size: 40 Copynumber: 3.2 Consensus size: 40
60497944 TTTTCGAGGT
* * *
60497954 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* *
60497994 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
60498034 TTAGCCCGGATATATCACTTAGCAC-AAAGC-CTTCGGGAC
1 TTAGCCCGGATATATCAC-TAGCACGAATGCTCTTCGGGAC
60498073 TTAGCCCGGA
1 TTAGCCCGGA
60498083 CATCATTCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 18 0.22
40 56 0.70
41 6 0.08
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
Found at i:60498242 original size:83 final size:83
Alignment explanation
Indices: 60498103--60498267 Score: 312
Period size: 83 Copynumber: 2.0 Consensus size: 83
60498093 ATAACCATGT
* *
60498103 ACATTTAACAATAAATCATGGCACATTCGTATTTCGTTTTCGTTAGCAAAACTCAAACACAAGAC
1 ACATTTAACAACAAATCATGGCACATTCGTATTTCATTTTCGTTAGCAAAACTCAAACACAAGAC
60498168 ACTTATCATTCTTGCAAC
66 ACTTATCATTCTTGCAAC
60498186 ACATTTAACAACAAATCATGGCACATTCGTATTTCATTTTCGTTAGCAAAACTCAAACACAAGAC
1 ACATTTAACAACAAATCATGGCACATTCGTATTTCATTTTCGTTAGCAAAACTCAAACACAAGAC
60498251 ACTTATCATTCTTGCAA
66 ACTTATCATTCTTGCAA
60498268 TTTCGGCTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (83 bp):
ACATTTAACAACAAATCATGGCACATTCGTATTTCATTTTCGTTAGCAAAACTCAAACACAAGAC
ACTTATCATTCTTGCAAC
Found at i:60502855 original size:83 final size:83
Alignment explanation
Indices: 60502712--60502875 Score: 265
Period size: 83 Copynumber: 2.0 Consensus size: 83
60502702 GCTTCGCACC
** *
60502712 CTTTTCTTACATATTTCTGGGCCAACATTGCTGATATTACAGCTGGCATCCCCTCCAAGTCCGTA
1 CTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGCTGGCAACCCCTCCAAGTCCGTA
60502777 GACTCAACTCGAATTACT
66 GACTCAACTCGAATTACT
* **
60502795 CTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGTTGGCAACCCCTTTAAGTCCGTA
1 CTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGCTGGCAACCCCTCCAAGTCCGTA
*
60502860 GACTCAACTCGGATTA
66 GACTCAACTCGAATTA
60502876 TCTCGTTATT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (83 bp):
CTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGCTGGCAACCCCTCCAAGTCCGTA
GACTCAACTCGAATTACT
Found at i:60512554 original size:20 final size:21
Alignment explanation
Indices: 60512521--60512561 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
60512511 ATTTTAGAAT
60512521 TCATACAAAATTATAA-AAAA
1 TCATACAAAATTATAAGAAAA
* *
60512541 TCATATAAATTTATAAGAAAA
1 TCATACAAAATTATAAGAAAA
60512562 ATAGAAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (21 bp):
TCATACAAAATTATAAGAAAA
Found at i:60513375 original size:20 final size:20
Alignment explanation
Indices: 60513338--60513377 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
60513328 TTCCCACTAT
*
60513338 ATTATTTATGATTCTTTTTA
1 ATTATTTATAATTCTTTTTA
60513358 ATTATTTAATAATT-TTTTTA
1 ATTATTT-ATAATTCTTTTTA
60513378 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTATTTATAATTCTTTTTA
Found at i:60518145 original size:18 final size:19
Alignment explanation
Indices: 60518087--60518147 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
60518077 TTCAGAAATG
*
60518087 AAAAA-TATATATAAGTTTC
1 AAAAATTATATAT-AGTTTT
*
60518106 AAAATTTATATATA-TATTT
1 AAAAATTATATATAGT-TTT
60518125 AAAAATTATA-ATAGTTTT
1 AAAAATTATATATAGTTTT
60518143 AAAAA
1 AAAAA
60518148 ATTCTAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 12 0.33
19 17 0.47
20 7 0.19
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (19 bp):
AAAAATTATATATAGTTTT
Found at i:60527899 original size:51 final size:50
Alignment explanation
Indices: 60527819--60527915 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 50
60527809 TTTTTCAATT
60527819 TCATTTACTGATATAATCAGTAACATTAATTGCCTGGGTAGGGAAANAATC
1 TCATTTACTGATATAATCAGTAACATTAATTGCCTGGGTAGGGAAA-AATC
* *
60527870 TCATTTACTGATATAATCAGTAACTTTAATTGCTTGGGTAGGGAAA
1 TCATTTACTGATATAATCAGTAACATTAATTGCCTGGGTAGGGAAA
60527916 GCAGTAAGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (50 bp):
TCATTTACTGATATAATCAGTAACATTAATTGCCTGGGTAGGGAAAAATC
Found at i:60558640 original size:25 final size:26
Alignment explanation
Indices: 60558612--60558661 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
60558602 TTACTTTTAA
60558612 TTATTGCATTCAT-TTATTTATTTGT
1 TTATTGCATTCATATTATTTATTTGT
*
60558637 TTATTTCATTCATAATTATTTATTT
1 TTATTGCATTCAT-ATTATTTATTT
60558662 TTATATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
27 10 0.45
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (26 bp):
TTATTGCATTCATATTATTTATTTGT
Found at i:60558660 original size:19 final size:18
Alignment explanation
Indices: 60558636--60558718 Score: 59
Period size: 19 Copynumber: 4.6 Consensus size: 18
60558626 TATTTATTTG
60558636 TTTATTTCATTCATAATTA
1 TTTATTT-ATTCATAATTA
60558655 TTTATTT-TT-AT-ATT-
1 TTTATTTATTCATAATTA
*
60558669 TTGATTTTATTCATAATTATA
1 TTTA-TTTATTCATAA-T-TA
*
60558690 TTTATTTATT-ATTCAACTA
1 TTTATTTATTCA-T-AATTA
60558709 TTTATTTATT
1 TTTATTTATT
60558719 TTTATTAAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
14 3 0.06
15 6 0.12
16 4 0.08
17 4 0.08
18 1 0.02
19 21 0.40
20 8 0.15
21 5 0.10
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATTTATTCATAATTA
Found at i:60558698 original size:33 final size:33
Alignment explanation
Indices: 60558623--60558699 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
60558613 TATTGCATTC
*
60558623 ATTTATTTATTTGTTTATTTCATTCATAATTAT
1 ATTTATTTATTTGTTGATTTCATTCATAATTAT
* *
60558656 -TTATTTTTATATT-TTGATTTTATTCATAATTAT
1 ATT-TATTTAT-TTGTTGATTTCATTCATAATTAT
60558689 ATTTATTTATT
1 ATTTATTTATT
60558700 ATTCAACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
32 3 0.08
33 30 0.81
34 4 0.11
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (33 bp):
ATTTATTTATTTGTTGATTTCATTCATAATTAT
Found at i:60558701 original size:23 final size:21
Alignment explanation
Indices: 60558673--60558724 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 21
60558663 TATATTTTGA
60558673 TTTTATTCATA-ATTATATTTAT
1 TTTTATTCA-ACATT-TATTTAT
60558695 TTATTATTCAACTATTTATTTAT
1 TT-TTATTCAAC-ATTTATTTAT
60558718 TTTTATT
1 TTTTATT
60558725 AAAGATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.30
23 16 0.59
24 3 0.11
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATTCAACATTTATTTAT
Found at i:60559118 original size:23 final size:22
Alignment explanation
Indices: 60559091--60559169 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 22
60559081 ATTGTAGGAG
60559091 TTTCACATATCATGTGTATGTA
1 TTTCACATATCATGTGTATGTA
* * *
60559113 TATTCACAAAGTTATAGATTGTA-GGA
1 T-TTCACATA-TCAT-G--TGTATGTA
60559139 GTTTCACATATCATGTGTATGTA
1 -TTTCACATATCATGTGTATGTA
60559162 TGTTCACA
1 T-TTCACA
60559170 AAGTTCAGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 15
0.67 0.09 0.23
Matches are distributed among these distances:
22 6 0.14
23 15 0.35
24 4 0.09
25 4 0.09
26 9 0.21
27 5 0.12
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (22 bp):
TTTCACATATCATGTGTATGTA
Found at i:60559149 original size:49 final size:49
Alignment explanation
Indices: 60559077--60559174 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
60559067 CTTTGACGAG
60559077 ATAGATTGTAGGAGTTTCACATATCATGTGTATGTATATTCACAAAGTT
1 ATAGATTGTAGGAGTTTCACATATCATGTGTATGTATATTCACAAAGTT
*
60559126 ATAGATTGTAGGAGTTTCACATATCATGTGTATGTATGTTCACAAAGTT
1 ATAGATTGTAGGAGTTTCACATATCATGTGTATGTATATTCACAAAGTT
60559175 CAGTGTCAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (49 bp):
ATAGATTGTAGGAGTTTCACATATCATGTGTATGTATATTCACAAAGTT
Found at i:60559161 original size:26 final size:26
Alignment explanation
Indices: 60559083--60559161 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
60559073 CGAGATAGAT
60559083 TGTAGGAGTTTCACATATCATGTGTA
1 TGTAGGAGTTTCACATATCATGTGTA
* * * *
60559109 TGTA-TA--TTCACAAAGTTAT-AG-A
1 TGTAGGAGTTTCACATA-TCATGTGTA
60559131 TTGTAGGAGTTTCACATATCATGTGTA
1 -TGTAGGAGTTTCACATATCATGTGTA
60559158 TGTA
1 TGTA
60559162 TGTTCACAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 1 0.03
23 12 0.32
24 4 0.11
25 4 0.11
26 16 0.42
27 1 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (26 bp):
TGTAGGAGTTTCACATATCATGTGTA
Found at i:60560303 original size:30 final size:32
Alignment explanation
Indices: 60560267--60560334 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
60560257 GGTTTCATTT
**
60560267 CAGTCACCTAAC-TT-TTGAAAAATAACAAAA
1 CAGTCACCTAACGTTATAAAAAAATAACAAAA
*
60560297 CAGTCA-CTAACGTTATAAAAAAATGACAAAA
1 CAGTCACCTAACGTTATAAAAAAATAACAAAA
60560328 CAGTCAC
1 CAGTCAC
60560335 TGACTAACAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.16
30 8 0.25
31 19 0.59
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.21
Consensus pattern (32 bp):
CAGTCACCTAACGTTATAAAAAAATAACAAAA
Found at i:60560394 original size:21 final size:21
Alignment explanation
Indices: 60560369--60560409 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60560359 TTAACAGTCT
*
60560369 GCTGATGTGGCAAGTTAACTA
1 GCTGACGTGGCAAGTTAACTA
*
60560390 GCTGACGTGGCCAGTTAACT
1 GCTGACGTGGCAAGTTAACT
60560410 TGCCACGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACTA
Found at i:60560586 original size:92 final size:95
Alignment explanation
Indices: 60560490--60560661 Score: 224
Period size: 92 Copynumber: 1.8 Consensus size: 95
60560480 GCAGCAGCAA
* * *
60560490 TAGCAGTAAAATAAGAAAAGACTCTAAAAAAAA-GTATTATTTGCCTAAGTTGGTG-CA-CTAGA
1 TAGCAATAAAAGAAGAAAAGACTCTAAAAAAAATGTATTATTTGCCTAAGTTGGTGAAACCTAGA
60560552 ATTTTCATAGAGACTGTAAAAAAGAAGTAG
66 ATTTTCATAGAGACTGTAAAAAAGAAGTAG
* * * * * * *
60560582 TAGCAATAGAAGAAGAAGAGACTGTAAAAAAAATGTCTTATTTGTCTAATTTGTTGAAATCCTAG
1 TAGCAATAAAAGAAGAAAAGACTCTAAAAAAAATGTATTATTTGCCTAAGTTGGTGAAA-CCTAG
60560647 AATTTTCATAGAGAC
65 AATTTTCATAGAGAC
60560662 GGGTAGAGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
92 28 0.42
93 18 0.27
94 1 0.02
96 19 0.29
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (95 bp):
TAGCAATAAAAGAAGAAAAGACTCTAAAAAAAATGTATTATTTGCCTAAGTTGGTGAAACCTAGA
ATTTTCATAGAGACTGTAAAAAAGAAGTAG
Found at i:60562178 original size:23 final size:23
Alignment explanation
Indices: 60562148--60562195 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
60562138 TTTTTTTTTT
60562148 TAACTAAATGCCAAGAGTATGTA
1 TAACTAAATGCCAAGAGTATGTA
60562171 TAACTAAATGCCAAGAGTATGTA
1 TAACTAAATGCCAAGAGTATGTA
60562194 TA
1 TA
60562196 GAATTGGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (23 bp):
TAACTAAATGCCAAGAGTATGTA
Found at i:60563700 original size:23 final size:21
Alignment explanation
Indices: 60563674--60563722 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
60563664 TCATTCATGA
**
60563674 TTATTTATTTTTATATTTTGATT
1 TTATTTATAATTATA-TTT-ATT
60563697 TTATTTATAATTATATTTATT
1 TTATTTATAATTATATTTATT
60563718 TTATT
1 TTATT
60563723 ATCTAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 13 0.54
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TTATTTATAATTATATTTATT
Found at i:60568746 original size:106 final size:106
Alignment explanation
Indices: 60568610--60568985 Score: 734
Period size: 106 Copynumber: 3.5 Consensus size: 106
60568600 GTTTCCAGAC
* *
60568610 ACTTGGATATTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCT
1 ACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCT
60568675 AAATTTCTCAATAAGGACTTCCAGTTTCCAGACCCTTCGAT
66 AAATTTCTCAATAAGGACTTCCAGTTTCCAGACCCTTCGAT
60568716 ACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCT
1 ACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCT
60568781 AAATTTCTCAATAAGGACTTCCAGTTTCCAGACCCTTCGAT
66 AAATTTCTCAATAAGGACTTCCAGTTTCCAGACCCTTCGAT
60568822 ACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCT
1 ACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCT
60568887 AAATTTCTCAATAAGGACTTCCAGTTTCCAGACCCTTCGAT
66 AAATTTCTCAATAAGGACTTCCAGTTTCCAGACCCTTCGAT
60568928 ACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGA
1 ACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGA
60568986 CTGTTGATTC
Statistics
Matches: 268, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 268 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (106 bp):
ACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCT
AAATTTCTCAATAAGGACTTCCAGTTTCCAGACCCTTCGAT
Found at i:60568928 original size:212 final size:205
Alignment explanation
Indices: 60568568--60568985 Score: 723
Period size: 212 Copynumber: 2.0 Consensus size: 205
60568558 TGTTTCACCA
* *
60568568 ATCATCCTAAATTTCTCAATAAGAGCTTTCCAGTTTCCAGACACTTGGATATTGATATCAAGTGT
1 ATCATCCTAAATTTCTCAATAAGAGCTTTCCAGTTTCCAGACACTTGGACACTGATATCAAGTGT
60568633 TGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCTAAATTTCTCAATAAGGACTTCCA
66 TGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCTAAATTTCTCAATAAGGACTTCCA
60568698 GTTTCCAGACCCTTCGATACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTT
131 GTTTCCAGACCCTTCGATACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTT
60568763 TCAAAAACAG
196 TCAAAAACAG
60568773 ATCATCCTAAATTTCTCAATAAG-GAC-TTCCAGTTTCCAGACCCTTCGATACTTGGACACTGAT
1 ATCATCCTAAATTTCTCAATAAGAG-CTTTCCAGTTTCCAGA-----C---ACTTGGACACTGAT
60568836 ATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCTAAATTTCTCAATAA
57 ATCAAGTGTTGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCTAAATTTCTCAATAA
60568901 GGACTTCCAGTTTCCAGACCCTTCGATACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAG
122 GGACTTCCAGTTTCCAGACCCTTCGATACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAG
60568966 GTGTTAGTTTCAAAAACAG
187 GTGTTAGTTTCAAAAACAG
60568985 A
1 A
60568986 CTGTTGATTC
Statistics
Matches: 202, Mismatches: 2, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
204 15 0.07
205 24 0.12
209 1 0.00
212 162 0.80
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (205 bp):
ATCATCCTAAATTTCTCAATAAGAGCTTTCCAGTTTCCAGACACTTGGACACTGATATCAAGTGT
TGTAAATTAATGCAGGTGTTAGTTTCAAAAACAGATCATCCTAAATTTCTCAATAAGGACTTCCA
GTTTCCAGACCCTTCGATACTTGGACACTGATATCAAGTGTTGTAAATTAATGCAGGTGTTAGTT
TCAAAAACAG
Found at i:60572002 original size:21 final size:21
Alignment explanation
Indices: 60571976--60572021 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
60571966 TTATGTCTTA
60571976 TAATATA-ACAAGATTTTAATT
1 TAATATATACAA-ATTTTAATT
* *
60571997 TAATATATATAATTTTTAATT
1 TAATATATACAAATTTTAATT
60572018 TAAT
1 TAAT
60572022 TCAAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATATATACAAATTTTAATT
Found at i:60572029 original size:21 final size:21
Alignment explanation
Indices: 60571989--60572033 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
60571979 TATAACAAGA
*
60571989 TTTTAATTTAATATATATAAT
1 TTTTAATTTAATATAAATAAT
60572010 TTTTAATTTAAT-TCAAATAAT
1 TTTTAATTTAATAT-AAATAAT
60572031 TTT
1 TTT
60572034 ATGACTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTAATTTAATATAAATAAT
Found at i:60573635 original size:39 final size:39
Alignment explanation
Indices: 60573582--60573658 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
60573572 AAACACTTAA
*
60573582 ATTTTTCTAAAGCACTTCTCAAAAGTACTTCTT-AAAAGT
1 ATTTTTCTAAAGCACTTCTCAAAAGCACTT-TTCAAAAGT
* * *
60573621 ATTTTTTTACAGCACTTTTCAAAAGCACTTTTCAAAAG
1 ATTTTTCTAAAGCACTTCTCAAAAGCACTTTTCAAAAG
60573659 CAATGAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (39 bp):
ATTTTTCTAAAGCACTTCTCAAAAGCACTTTTCAAAAGT
Found at i:60573647 original size:13 final size:13
Alignment explanation
Indices: 60573584--60573660 Score: 66
Period size: 13 Copynumber: 5.9 Consensus size: 13
60573574 ACACTTAAAT
*
60573584 TTTTCTAAAGCAC
1 TTTTCAAAAGCAC
* *
60573597 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
* *
60573610 TTCTT-AAAAGTAT
1 TT-TTCAAAAGCAC
** *
60573623 TTTTTTACAGCAC
1 TTTTCAAAAGCAC
60573636 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
60573649 TTTTCAAAAGCA
1 TTTTCAAAAGCA
60573661 ATGAAGAACT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
12 2 0.04
13 47 0.94
14 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:60576433 original size:23 final size:23
Alignment explanation
Indices: 60576400--60576445 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
60576390 AGAAGCCTAG
60576400 TAAGTTCATTGACTTAAAATGTA
1 TAAGTTCATTGACTTAAAATGTA
*
60576423 TAAGTTTATTGACTTAAAATGTA
1 TAAGTTCATTGACTTAAAATGTA
60576446 AATCTTATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (23 bp):
TAAGTTCATTGACTTAAAATGTA
Found at i:60577039 original size:30 final size:30
Alignment explanation
Indices: 60577005--60577067 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
60576995 ATACCATAGC
* *
60577005 ATACATATGCAATAATTCATTATGACATTT
1 ATACATATGAAATAATTCATTATGAAATTT
60577035 ATACATATGAAATAATTCATTATGAAATTT
1 ATACATATGAAATAATTCATTATGAAATTT
60577065 ATA
1 ATA
60577068 AATTAACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (30 bp):
ATACATATGAAATAATTCATTATGAAATTT
Found at i:60577058 original size:15 final size:15
Alignment explanation
Indices: 60577010--60577062 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
60577000 ATAGCATACA
*
60577010 TATGCAATAATTCAT
1 TATGAAATAATTCAT
* * *
60577025 TATGACATTTATACA-
1 TATGA-AATAATTCAT
60577040 TATGAAATAATTCAT
1 TATGAAATAATTCAT
60577055 TATGAAAT
1 TATGAAAT
60577063 TTATAAATTA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 6 0.21
15 17 0.59
16 6 0.21
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (15 bp):
TATGAAATAATTCAT
Found at i:60577285 original size:28 final size:28
Alignment explanation
Indices: 60577254--60577311 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
60577244 TCACACTTTA
* *
60577254 TACCCTTAAATTTTCAA-ATTTACACATT
1 TACCCTAAAATTTACAATATTTACA-ATT
*
60577282 TACCCTAAAATTTACAATTTTTACAATT
1 TACCCTAAAATTTACAATATTTACAATT
60577310 TA
1 TA
60577312 ATCCCTGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (28 bp):
TACCCTAAAATTTACAATATTTACAATT
Found at i:60579638 original size:43 final size:42
Alignment explanation
Indices: 60579547--60579644 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
60579537 GAGATTTATG
* *
60579547 TGTAAGACCATGTTTGAGACATCGACATCGTATTTGATTTCG
1 TGTAAGACCATGTTTGAGACATCGACATCGTATTTGATTACA
* * *
60579589 TATAAGACCCTGTTTGAGACAAT-GGCATCGATATTTGATTACA
1 TGTAAGACCATGTTTGAGAC-ATCGACATCG-TATTTGATTACA
60579632 TGTAAGACCATGT
1 TGTAAGACCATGT
60579645 CTGGGACGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 24 0.51
43 23 0.49
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTTTGAGACATCGACATCGTATTTGATTACA
Found at i:60579658 original size:43 final size:42
Alignment explanation
Indices: 60579547--60579664 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
60579537 GAGATTTATG
* * * *
60579547 TGTAAGACCATGTTTGAGACATCGACATCGTATTTGATTTCG
1 TGTAAGACCATGTTTGAGACATTGGCATCGTATTTGATTACA
* * *
60579589 TATAAGACCCTGTTTGAGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCATGTTTGAGACATTGGCATCG-TATTTGATTACA
* * * *
60579632 TGTAAGACCATGTCTGGGACGTTGGCATTGTAT
1 TGTAAGACCATGTTTGAGACATTGGCATCGTAT
60579665 GAGCTCTTTG
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTTTGAGACATTGGCATCGTATTTGATTACA
Found at i:60586160 original size:43 final size:43
Alignment explanation
Indices: 60586022--60586175 Score: 124
Period size: 43 Copynumber: 3.6 Consensus size: 43
60586012 ACATAGGATT
* * *
60586022 TCGATATGTGATTTCGTGTAAGACCAC-ATTTGGGAC-GTTAGCA
1 TCGATATTTGATTTCGTGTAAGACC-CTATCTGGGACAG-TGGCA
* * *
60586065 TCGAT-TTGAGATTTACGTGTAAGACCATGA-CTAGGG-CA-TCGACA
1 TCGATATT-TGATTT-CGTGTAAGACCCT-ATCT-GGGACAGT-GGCA
60586109 TCG-TATTTGATTTCGTGTAAGACCCTATCTGGGACAGTGGCA
1 TCGATATTTGATTTCGTGTAAGACCCTATCTGGGACAGTGGCA
* *
60586151 TCGATATTTGATTACATGTAAGACC
1 TCGATATTTGATTTCGTGTAAGACC
60586176 ACGTCTGGGA
Statistics
Matches: 88, Mismatches: 11, Indels: 24
0.72 0.09 0.20
Matches are distributed among these distances:
41 4 0.05
42 23 0.26
43 37 0.42
44 20 0.23
45 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCCTATCTGGGACAGTGGCA
Found at i:60588521 original size:48 final size:45
Alignment explanation
Indices: 60588409--60588538 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 45
60588399 ATTTCTGATG
60588409 TATTTTATAATTTTTCATGACTTTTTATGATTTTT-ATAAAATTAAAA
1 TATTTTATAATTTTT-ATGA-TTTTTAT-ATTTTTAATAAAATTAAAA
* *
60588456 TATTTTATACATTTTTTACGATTTTTATATTTTTTAATTAAAATTTAATA
1 TATTTTATA-A-TTTTTATGATTTTTATA-TTTTTAA-TAAAA-TTAAAA
* *
60588506 TTTTTTATAATTTTTATTATTTTT-TAATTTTTA
1 TATTTTATAATTTTTATGATTTTTAT-ATTTTTA
60588539 TATTTTTACC
Statistics
Matches: 71, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
46 1 0.01
47 28 0.39
48 18 0.25
49 11 0.15
50 13 0.18
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (45 bp):
TATTTTATAATTTTTATGATTTTTATATTTTTAATAAAATTAAAA
Found at i:60588528 original size:17 final size:17
Alignment explanation
Indices: 60588504--60588544 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
60588494 TAAAATTTAA
60588504 TATT-TTTTATAATTTT
1 TATTATTTTATAATTTT
*
60588520 TATTATTTTTTAATTTT
1 TATTATTTTATAATTTT
60588537 TA-TATTTT
1 TATTATTTT
60588545 TACCATATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTATTTTATAATTTT
Found at i:60588543 original size:8 final size:9
Alignment explanation
Indices: 60588411--60588546 Score: 73
Period size: 9 Copynumber: 14.6 Consensus size: 9
60588401 TTCTGATGTA
60588411 TTTTATAAT
1 TTTTATAAT
*
60588420 TTTTCATGACT
1 TTTT-AT-AAT
*
60588431 TTTTATGAT
1 TTTTATAAT
60588440 TTTTATAA-
1 TTTTATAAT
** *
60588448 AATTAAAAT
1 TTTTATAAT
60588457 ATTTTATACAT
1 -TTTTATA-AT
60588468 TTTT-TACGAT
1 TTTTATA--AT
*
60588478 TTTTATATT
1 TTTTATAAT
*
60588487 TTTTAATTAAAA
1 TTTT-A-T-AAT
* *
60588499 TTTAATATT
1 TTTTATAAT
60588508 TTTTATAAT
1 TTTTATAAT
*
60588517 TTTTATTAT
1 TTTTATAAT
60588526 TTTT-TAAT
1 TTTTATAAT
60588534 TTTTAT-AT
1 TTTTATAAT
60588542 TTTTA
1 TTTTA
60588547 CCATATGTCA
Statistics
Matches: 95, Mismatches: 21, Indels: 23
0.68 0.15 0.17
Matches are distributed among these distances:
8 19 0.20
9 40 0.42
10 20 0.21
11 12 0.13
12 4 0.04
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:60594580 original size:19 final size:19
Alignment explanation
Indices: 60594556--60594595 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
60594546 TATTTCTTAA
60594556 AAGTTGTTTTCAATGAAAC
1 AAGTTGTTTTCAATGAAAC
60594575 AAGTTGTTTTCAATGAAAC
1 AAGTTGTTTTCAATGAAAC
60594594 AA
1 AA
60594596 ACATACATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
AAGTTGTTTTCAATGAAAC
Found at i:60597119 original size:8 final size:8
Alignment explanation
Indices: 60597106--60597134 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
60597096 TTATGTTTAG
60597106 TATATTAT
1 TATATTAT
60597114 TATATTAT
1 TATATTAT
60597122 TATATTAT
1 TATATTAT
60597130 TATAT
1 TATAT
60597135 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:60597167 original size:5 final size:5
Alignment explanation
Indices: 60597157--60597193 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
60597147 TTATGTTTTA
60597157 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
60597194 AAACTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:60597988 original size:15 final size:15
Alignment explanation
Indices: 60597968--60598024 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
60597958 CGATGAATTT
*
60597968 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
60597983 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
60597998 ATTGAAATTATATTG
1 ATTGAAATTATATTG
60598013 ATT-AAATTATAT
1 ATTGAAATTATAT
60598025 AATATATCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 9 0.23
15 30 0.77
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:60598438 original size:21 final size:21
Alignment explanation
Indices: 60598402--60598461 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
60598392 GGCACTTTAT
60598402 GTGTCGTATTTCAGGCACCTCGC
1 GTGTCGTA--TCAGGCACCTCGC
*
60598425 GTGTCGTATCAGGCACCTCGT
1 GTGTCGTATCAGGCACCTCGC
* *
60598446 GTGTCGTTTTAGGCAC
1 GTGTCGTATCAGGCAC
60598462 TTTATGTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 26 0.76
23 8 0.24
ACGTcount: A:0.13, C:0.27, G:0.28, T:0.32
Consensus pattern (21 bp):
GTGTCGTATCAGGCACCTCGC
Found at i:60598469 original size:21 final size:21
Alignment explanation
Indices: 60598391--60598473 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
60598381 TTTACCGATC
* *
60598391 AGGCACTTTATGTGTCGTATTT
1 AGGCACCTCATGTGTCGT-TTT
** * *
60598413 CAGGCACCTCGCGTGTCGTATC
1 -AGGCACCTCATGTGTCGTTTT
*
60598435 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCATGTGTCGTTTT
* *
60598456 AGGCACTTTATGTGTCGT
1 AGGCACCTCATGTGTCGT
60598474 ATACTGATCA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
AGGCACCTCATGTGTCGTTTT
Found at i:60603690 original size:13 final size:13
Alignment explanation
Indices: 60603672--60603699 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
60603662 TGTATGATTG
60603672 ATTCTATGAGCAT
1 ATTCTATGAGCAT
60603685 ATTCTATGAGCAT
1 ATTCTATGAGCAT
60603698 AT
1 AT
60603700 CAGGAAATTC
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:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTCTATGAGCAT
Found at i:60609364 original size:27 final size:27
Alignment explanation
Indices: 60609334--60609387 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
60609324 ATGACCAAAA
*
60609334 TACCCCTATAGGGTAAAATGACT-ATTT
1 TACCCCTAGAGGGT-AAATGACTGATTT
* *
60609361 TACCCTTCGAGGGTAAATGACTGATTT
1 TACCCCTAGAGGGTAAATGACTGATTT
60609388 GTGCTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAATGACTGATTT
Found at i:60609504 original size:27 final size:27
Alignment explanation
Indices: 60609460--60609541 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
60609450 GGAGGAAGTG
*
60609460 TACTG-TACTGGTGGCTTTGCCACATA
1 TACTGATACTAGTGGCTTTGCCACATA
* *
60609486 TACT-ATTACTAGTGCCTTTGCCATATA
1 TACTGA-TACTAGTGGCTTTGCCACATA
*
60609513 TACTGATA-TCGATGGCTTTGCCACATA
1 TACTGATACTAG-TGGCTTTGCCACATA
60609540 TA
1 TA
60609542 ATGTTACTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
26 6 0.13
27 39 0.85
28 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (27 bp):
TACTGATACTAGTGGCTTTGCCACATA
Found at i:60609584 original size:26 final size:26
Alignment explanation
Indices: 60609555--60609613 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
60609545 TTACTTGTAA
* *
60609555 CTTTGTTCTGTTACTGTTAATGGCAG
1 CTTTGCTCTCTTACTGTTAATGGCAG
* *
60609581 CTTTGCTGTCTTACTGTTACTGGCAG
1 CTTTGCTCTCTTACTGTTAATGGCAG
60609607 CTTTGCT
1 CTTTGCT
60609614 GCGACATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (26 bp):
CTTTGCTCTCTTACTGTTAATGGCAG
Found at i:60609614 original size:26 final size:26
Alignment explanation
Indices: 60609565--60609614 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
60609555 CTTTGTTCTG
60609565 TTACTGTTAATGGCAGCTTTGCTGTC
1 TTACTGTTAATGGCAGCTTTGCTGTC
*
60609591 TTACTGTTACTGGCAGCTTTGCTG
1 TTACTGTTAATGGCAGCTTTGCTG
60609615 CGACATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.42
Consensus pattern (26 bp):
TTACTGTTAATGGCAGCTTTGCTGTC
Found at i:60613266 original size:43 final size:43
Alignment explanation
Indices: 60613218--60613324 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 43
60613208 CGATATTTCA
60613218 CCTGCTAGGCTCGAAGCCCGATATTATTTCACCT-GCATTATAG
1 CCTGCTAGGCTCGAAGCCCGATATTATTTCA-CTGGCATTATAG
* * *
60613261 CCTGCTAGGCTTGAGGCCTGATATTATTTCACTGGCATTATAG
1 CCTGCTAGGCTCGAAGCCCGATATTATTTCACTGGCATTATAG
60613304 CCTGCTAGGCTCGAAGCCCGA
1 CCTGCTAGGCTCGAAGCCCGA
60613325 ATTGTACCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 2 0.04
43 55 0.96
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.29
Consensus pattern (43 bp):
CCTGCTAGGCTCGAAGCCCGATATTATTTCACTGGCATTATAG
Found at i:60618886 original size:56 final size:56
Alignment explanation
Indices: 60618797--60619034 Score: 352
Period size: 56 Copynumber: 4.2 Consensus size: 56
60618787 TAGATAGGAT
*
60618797 ATCGATATGTGATTCTGATATATATGTGCGAGTAAGACCACATTTAATACGTTGGC
1 ATCGATATGTGATTCTGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGC
* * *
60618853 ATGGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGC
1 ATCGATATGTGATTCTGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGC
* * * **
60618909 ATTGATACGTGATTCTGATATATGTGTGTAAGTAAGACCACGTTTAATACGTTGGC
1 ATCGATATGTGATTCTGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGC
* * *
60618965 ATCGATATGTGATTCTGATATATATGTGTGAGTAAAATCC-CGTTTAGTACGTTGGC
1 ATCGATATGTGATTCTGATATATATGTGCGAGTAAGA-CCACGTTTAATACGTTGGC
60619021 ATCGATATGTGATT
1 ATCGATATGTGATT
60619035 ACATGTAAGA
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
56 164 0.99
57 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (56 bp):
ATCGATATGTGATTCTGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGC
Found at i:60620109 original size:13 final size:14
Alignment explanation
Indices: 60620081--60620113 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
60620071 CATTTCGACC
*
60620081 ATGTTTATATTTAT
1 ATGTTTATATTGAT
60620095 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
60620108 ATGTTT
1 ATGTTT
60620114 GTTTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:60626587 original size:33 final size:30
Alignment explanation
Indices: 60626512--60626593 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 30
60626502 GAGACTATAA
60626512 TTGATTGATTATTCGGTGACTAAAGTACAC
1 TTGATTGATTATTCGGTGACTAAAGTACAC
*** *
60626542 AAAATTGATTATTCGGTGACTAAGGTACGCCAC
1 TTGATTGATTATTCGGTGACTAAAGTA---CAC
*
60626575 TTGATTGATTATTAGGTGA
1 TTGATTGATTATTCGGTGA
60626594 TTTGTGATGC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 23 0.56
33 18 0.44
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (30 bp):
TTGATTGATTATTCGGTGACTAAAGTACAC
Found at i:60628310 original size:43 final size:41
Alignment explanation
Indices: 60628212--60628379 Score: 160
Period size: 43 Copynumber: 4.0 Consensus size: 41
60628202 TATCGAGATG
* *
60628212 TGATTACATGTAAGATCATGTCTAGGACATTGGCATTGTAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
60628253 TGAGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAAT
1 T--GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T-AT
* * * * *
60628298 TGATTTCATGTAAGACCTTGTCTGGGACAGTGTCATCGATAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
* * *
60628340 ATG-TTAACATGTAAGACCATATCTAGGATA-TGGCATTGTA
1 -TGATT-ACATGTAAGACCATGTCTGGGACATTGGCATTGTA
60628380 CGAGCTTATG
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 3 0.03
42 10 0.10
43 87 0.84
44 1 0.01
45 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (41 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:60635795 original size:96 final size:96
Alignment explanation
Indices: 60635628--60635821 Score: 352
Period size: 96 Copynumber: 2.0 Consensus size: 96
60635618 AGAGAGATAG
**
60635628 AATTTGGCATTGAACTGGTGCCAGGAACAGCTCCTGTTTCGATTGCTCCTTATAGAATGACACCA
1 AATTTGGCATTGAACTGGTGCCAGGAACAGCTCCTACTTCGATTGCTCCTTATAGAATGACACCA
*
60635693 ATTGAGCTGAAAGAGTTAAAAGCACAGTTGC
66 ACTGAGCTGAAAGAGTTAAAAGCACAGTTGC
*
60635724 AATTTGGCATTGAACTGGTGCCAGGAATAGCTCCTACTTCGATTGCTCCTTATAGAATGACACCA
1 AATTTGGCATTGAACTGGTGCCAGGAACAGCTCCTACTTCGATTGCTCCTTATAGAATGACACCA
60635789 ACTGAGCTGAAAGAGTTAAAAGCACAGTTGC
66 ACTGAGCTGAAAGAGTTAAAAGCACAGTTGC
60635820 AA
1 AA
60635822 AAGCTAACGG
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (96 bp):
AATTTGGCATTGAACTGGTGCCAGGAACAGCTCCTACTTCGATTGCTCCTTATAGAATGACACCA
ACTGAGCTGAAAGAGTTAAAAGCACAGTTGC
Found at i:60643608 original size:40 final size:40
Alignment explanation
Indices: 60643553--60643665 Score: 190
Period size: 40 Copynumber: 2.8 Consensus size: 40
60643543 TATTATTCGG
60643553 GCTTAAAGACCCGCAGGCTTCGTGTTGGAATGTTATCCGA
1 GCTTAAAGACCCGCAGGCTTCGTGTTGGAATGTTATCCGA
* * *
60643593 GCTTAAAGACCCGCAGGCTTTGTGCTGGAATGTTATCCGG
1 GCTTAAAGACCCGCAGGCTTCGTGTTGGAATGTTATCCGA
*
60643633 GCTTAAAAACCCGCAGGCTTCGTGTTGGAATGT
1 GCTTAAAGACCCGCAGGCTTCGTGTTGGAATGT
60643666 ATTATACCGG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GCTTAAAGACCCGCAGGCTTCGTGTTGGAATGTTATCCGA
Found at i:60645905 original size:23 final size:23
Alignment explanation
Indices: 60645875--60645921 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
60645865 TCAGGTAGGA
60645875 ACTTAGTTGAGAAAACTTGCATT
1 ACTTAGTTGAGAAAACTTGCATT
*
60645898 ACTTAGTTGAGAAAACTTGTATT
1 ACTTAGTTGAGAAAACTTGCATT
60645921 A
1 A
60645922 ACGAAATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (23 bp):
ACTTAGTTGAGAAAACTTGCATT
Found at i:60647113 original size:18 final size:18
Alignment explanation
Indices: 60647070--60647107 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
60647060 ATTTCTTAAG
60647070 AAAATTTACTTCCCTTCC
1 AAAATTTACTTCCCTTCC
60647088 AAAATTTACTTCCC-TCC
1 AAAATTTACTTCCCTTCC
60647105 AAA
1 AAA
60647108 CCTTTAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTTACTTCCCTTCC
Found at i:60648125 original size:44 final size:44
Alignment explanation
Indices: 60648062--60648145 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
60648052 ATGCTGAACT
* *
60648062 GAGACTCTGCATACCTATTAACCTGTGCACGGAAACAACCAACC
1 GAGACTCTGAATACCTATTAACCTGCGCACGGAAACAACCAACC
*
60648106 GAGACTCTGAATACCTATTAACCTGCGCAGGGAAACAACC
1 GAGACTCTGAATACCTATTAACCTGCGCACGGAAACAACC
60648146 GTACGCTGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.35, C:0.30, G:0.18, T:0.18
Consensus pattern (44 bp):
GAGACTCTGAATACCTATTAACCTGCGCACGGAAACAACCAACC
Found at i:60660657 original size:51 final size:51
Alignment explanation
Indices: 60660596--60660748 Score: 261
Period size: 51 Copynumber: 3.0 Consensus size: 51
60660586 CTACGTGCAA
* * *
60660596 CAGCAACATTATCCAGTTCATCTGATGTTGCAAAATCACTAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
*
60660647 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
*
60660698 CAGCAACATTATCCACTCCATCTGATGTTGTAAAATCACCAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
60660749 TACCAGTAAC
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
Found at i:60662008 original size:16 final size:16
Alignment explanation
Indices: 60661987--60662022 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
60661977 GAATGCTAAC
60661987 GATTT-AGGTATTTGAA
1 GATTTAAGG-ATTTGAA
60662003 GATTTAAGGATTTGAA
1 GATTTAAGGATTTGAA
60662019 GATT
1 GATT
60662023 GTTAGGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (16 bp):
GATTTAAGGATTTGAA
Found at i:60667891 original size:21 final size:21
Alignment explanation
Indices: 60667866--60667918 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
60667856 AGCAGTGGCG
*
60667866 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* * * *
60667887 GTGAGGTTGGATATTGTAGCG
1 GTGAGATTAGATACTGTAGCA
60667908 GTGAGATTAGA
1 GTGAGATTAGA
60667919 AACAATGGTG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.06, G:0.36, T:0.32
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:60678947 original size:24 final size:24
Alignment explanation
Indices: 60678899--60678949 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
60678889 GGAAGTTGCG
* *
60678899 ATGTTACATGAATGTGGAGTTGCA
1 ATGTTACATGAATATGGAGTCGCA
60678923 ATGTTACATGAATAT-GAGGTCGCA
1 ATGTTACATGAATATGGA-GTCGCA
60678947 ATG
1 ATG
60678950 CTTAAGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (24 bp):
ATGTTACATGAATATGGAGTCGCA
Found at i:60687183 original size:24 final size:24
Alignment explanation
Indices: 60687135--60687185 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
60687125 GGAAGTTGCG
* *
60687135 ATGTTACATGAATGTGGAGTTGCA
1 ATGTTACATGAATATGGAGTCGCA
60687159 ATGTTACATGAATAT-GAGGTCGCA
1 ATGTTACATGAATATGGA-GTCGCA
60687183 ATG
1 ATG
60687186 CTTAAGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (24 bp):
ATGTTACATGAATATGGAGTCGCA
Found at i:60690742 original size:62 final size:62
Alignment explanation
Indices: 60690669--60690792 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
60690659 GCTCTTATTC
* *
60690669 AGAGGAGGAACATACCCTATCTAAGAGTACAATTGTCGTAATTAAGCAGAGTTGATTGCGCG
1 AGAGGAGGAACAGACCCTATCTAAGAGTACAATTGTCATAATTAAGCAGAGTTGATTGCGCG
*
60690731 AGAGGAGGAACAGACCCTATCTAAGAGTACAATTGTCATAATTAAGCGGAGTTGATTGCGCG
1 AGAGGAGGAACAGACCCTATCTAAGAGTACAATTGTCATAATTAAGCAGAGTTGATTGCGCG
60690793 CCTAGAGATA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (62 bp):
AGAGGAGGAACAGACCCTATCTAAGAGTACAATTGTCATAATTAAGCAGAGTTGATTGCGCG
Found at i:60692206 original size:20 final size:20
Alignment explanation
Indices: 60692169--60692207 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60692159 GGAAAATTAG
*
60692169 ATAATTAATTAATGTTTTCA
1 ATAATTAATAAATGTTTTCA
* *
60692189 ATAATTTATAAATTTTTTC
1 ATAATTAATAAATGTTTTC
60692208 GAATCATGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (20 bp):
ATAATTAATAAATGTTTTCA
Found at i:60698419 original size:7 final size:7
Alignment explanation
Indices: 60698407--60698431 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
60698397 AAATGGGTTA
60698407 TTCTTCT
1 TTCTTCT
60698414 TTCTTCT
1 TTCTTCT
60698421 TTCTTCT
1 TTCTTCT
60698428 TTCT
1 TTCT
60698432 CTTCCTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTCT
Found at i:60699296 original size:27 final size:27
Alignment explanation
Indices: 60699258--60699354 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
60699248 CATGATAGCT
* *
60699258 AAGAATAGCCTTTGTAGCGAACTCCAA
1 AAGAATAACCTTTGTGGCGAACTCCAA
* * *
60699285 AAGAATAACCTTTATGGAGAGC-CCTAA
1 AAGAATAACCTTTGTGGCGAACTCC-AA
* *
60699312 AAGAATAACCTTAGTGGCGAACTCTAAA
1 AAGAATAACCTTTGTGGCGAACTC-CAA
*
60699340 AAGAAT-GCCTTTGTG
1 AAGAATAACCTTTGTG
60699355 ACAAATTCTG
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
26 2 0.04
27 44 0.80
28 9 0.16
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAGAATAACCTTTGTGGCGAACTCCAA
Done.