Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 82 of 427
Found at i:20826074 original size:79 final size:82
Alignment explanation
Indices: 20825958--20826142 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
20825948 ACGACCCGCT
** *
20825958 CAAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTC-GGATCTTAACCC
* * **
20826021 GGGTTTAGTAAC-TCGCA
65 GGATATAGTAACTTAACA
* **
20826038 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAACGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTCGGATCTTAACCCG
*
20826101 GATATAGTCACTTAACA
66 GATATAGTAACTTAACA
20826118 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20826143 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTCGGATCTTAACCCG
GATATAGTAACTTAACA
Found at i:20828119 original size:34 final size:32
Alignment explanation
Indices: 20828078--20828146 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
20828068 GTTTAGTGAT
*
20828078 TTTTGTGTGTGTTAATTGGAACACTCTTTCAA
1 TTTTATGTGTGTTAATTGGAACACTCTTTCAA
* *
20828110 TTTTATGTGTGTTAATTGGAATACTTTTTCAA
1 TTTTATGTGTGTTAATTGGAACACTCTTTCAA
20828142 TTTTA
1 TTTTA
20828147 CTTAAAGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.52
Consensus pattern (32 bp):
TTTTATGTGTGTTAATTGGAACACTCTTTCAA
Found at i:20828601 original size:13 final size:13
Alignment explanation
Indices: 20828583--20828617 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
20828573 ATTTATTTGT
20828583 ATAATTATTGAGG
1 ATAATTATTGAGG
20828596 ATAATTATTGAGG
1 ATAATTATTGAGG
20828609 ATAATTATT
1 ATAATTATT
20828618 TAGATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (13 bp):
ATAATTATTGAGG
Found at i:20828650 original size:10 final size:10
Alignment explanation
Indices: 20828635--20828686 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
20828625 AAATTTTAGG
20828635 ATTTATTTTT
1 ATTTATTTTT
*
20828645 ATTTATCTTT
1 ATTTATTTTT
* *
20828655 AATTATCTTT
1 ATTTATTTTT
*
20828665 ATTTATTTGT
1 ATTTATTTTT
20828675 ATTTATCTTTT
1 ATTTAT-TTTT
20828686 A
1 A
20828687 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:20828680 original size:20 final size:20
Alignment explanation
Indices: 20828635--20828684 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
20828625 AAATTTTAGG
*
20828635 ATTTATTTTTATTTATCTTT
1 ATTTATCTTTATTTATCTTT
*
20828655 AATTATCTTTATTTAT-TTGT
1 ATTTATCTTTATTTATCTT-T
20828675 ATTTATCTTT
1 ATTTATCTTT
20828685 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTATCTTTATTTATCTTT
Found at i:20831302 original size:45 final size:45
Alignment explanation
Indices: 20831242--20831402 Score: 268
Period size: 45 Copynumber: 3.6 Consensus size: 45
20831232 GAAAAATGAT
20831242 TAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATAAA
* * *
20831287 TAAGACCATATTTGAATGACACTATGGCACTATACCAAAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATAAA
* *
20831332 TAAGACCATAGTTGAAAGACACTATGACACTATACCGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATAAA
*
20831377 TAAGACCATAGCTGAAAGACACTATG
1 TAAGACCATAGTTGAAAGACACTATG
20831403 ACATCTTGTC
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 107 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATAAA
Found at i:20831425 original size:45 final size:44
Alignment explanation
Indices: 20831242--20831427 Score: 221
Period size: 45 Copynumber: 4.1 Consensus size: 44
20831232 GAAAAATGAT
* *
20831242 TAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGACACTATACAG-AAATAAA
* * * *
20831287 TAAGACCATATTTGAATGACACTATGGCACTATACCAAAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGACACTATA-CAGAAATAAA
* *
20831332 TAAGACCATAGTTGAAAGACACTATGACACTATACCGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGACACTATACAG-AAATAAA
* * *
20831377 TAAGACCATAGCTGAAAGACACTATGACATCT-TGTCAGAAATAGA
1 TAAGACCATAGTTGAAAGACACTATGACA-CTAT-ACAGAAATAAA
20831422 TAAGAC
1 TAAGAC
20831428 TATGGCTAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
44 1 0.01
45 116 0.95
46 5 0.04
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.22
Consensus pattern (44 bp):
TAAGACCATAGTTGAAAGACACTATGACACTATACAGAAATAAA
Found at i:20831440 original size:90 final size:90
Alignment explanation
Indices: 20831233--20831440 Score: 238
Period size: 90 Copynumber: 2.3 Consensus size: 90
20831223 AATTGGCTTG
* * * * * *
20831233 AAAAATGATTAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATAAATAAGACCATAT
1 AAAAATAAATAAGACCATAGCTAAAAGACACTATGACACTATACCGAAAATAAATAAGACCATAG
* * *
20831298 TTGAATGACACTATGGCACTATACC
66 CTGAAAGACACTATGACACTATACC
* * *
20831323 AAAAATAAATAAGACCATAGTTGAAAGACACTATGACACTATACCGAAAATGAATAAGACCATAG
1 AAAAATAAATAAGACCATAGCTAAAAGACACTATGACACTATACCGAAAATAAATAAGACCATAG
**
20831388 CTGAAAGACACTATGACATCT-TGTC
66 CTGAAAGACACTATGACA-CTATACC
* * * *
20831413 AGAAATAGATAAGACTATGGCTAAAAGA
1 AAAAATAAATAAGACCATAGCTAAAAGA
20831441 AGTTATGGCA
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 99 0.98
91 2 0.02
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (90 bp):
AAAAATAAATAAGACCATAGCTAAAAGACACTATGACACTATACCGAAAATAAATAAGACCATAG
CTGAAAGACACTATGACACTATACC
Found at i:20833853 original size:39 final size:39
Alignment explanation
Indices: 20833768--20834036 Score: 448
Period size: 39 Copynumber: 6.9 Consensus size: 39
20833758 TATGGTAACC
* * * * *
20833768 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCATAGCT
* *
20833808 CCCACAATTGCCTTCGGGCTTAGCTCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
20833847 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
20833886 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
*
20833925 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
20833964 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
*
20834003 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCA
20834037 CTCGAACATT
Statistics
Matches: 217, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 201 0.93
40 16 0.07
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
Found at i:20836143 original size:27 final size:29
Alignment explanation
Indices: 20836067--20836167 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
20836057 GTGACGAGAT
20836067 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
20836096 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
20836125 TGGCACTAA-TGTGC-AGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
20836152 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
20836168 AGCTCGAGGG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 17 0.26
28 10 0.15
29 38 0.58
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:20843983 original size:26 final size:28
Alignment explanation
Indices: 20843921--20843990 Score: 101
Period size: 29 Copynumber: 2.6 Consensus size: 28
20843911 GTGACGAGAT
*
20843921 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGG-AATATA
20843950 TGGCACTAAGTGTGCATGCTGG-A-ATA
1 TGGCACTAAGTGTGCATGCTGGAATATA
20843976 TGGCACTAA-TGTGCA
1 TGGCACTAAGTGTGCA
20843991 CTAAATACGG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
25 6 0.15
26 12 0.30
27 1 0.03
29 21 0.52
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
TGGCACTAAGTGTGCATGCTGGAATATA
Found at i:20890737 original size:15 final size:15
Alignment explanation
Indices: 20890717--20890773 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
20890707 TTGGCCAAAA
20890717 ACCGCTGGTTCTGCT
1 ACCGCTGGTTCTGCT
*
20890732 ACCGCTGGTTTTGCT
1 ACCGCTGGTTCTGCT
*
20890747 ATCGCTGGTT-TAGCT
1 ACCGCTGGTTCT-GCT
20890762 ACCGCTGGTTCT
1 ACCGCTGGTTCT
20890774 TCTAATGACC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.09, C:0.28, G:0.26, T:0.37
Consensus pattern (15 bp):
ACCGCTGGTTCTGCT
Found at i:20951818 original size:42 final size:42
Alignment explanation
Indices: 20951759--20951847 Score: 178
Period size: 42 Copynumber: 2.1 Consensus size: 42
20951749 ACAGTCTTCA
20951759 CCAAGACAGCTGGAAGGCATAGAGTCAAGACAAAAAGGAAAG
1 CCAAGACAGCTGGAAGGCATAGAGTCAAGACAAAAAGGAAAG
20951801 CCAAGACAGCTGGAAGGCATAGAGTCAAGACAAAAAGGAAAG
1 CCAAGACAGCTGGAAGGCATAGAGTCAAGACAAAAAGGAAAG
20951843 CCAAG
1 CCAAG
20951848 CCAGGAATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.47, C:0.18, G:0.28, T:0.07
Consensus pattern (42 bp):
CCAAGACAGCTGGAAGGCATAGAGTCAAGACAAAAAGGAAAG
Found at i:20951829 original size:24 final size:24
Alignment explanation
Indices: 20951760--20951832 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 24
20951750 CAGTCTTCAC
20951760 CAAGACAGCTGGAAGGCATAGAGT
1 CAAGACAGCTGGAAGGCATAGAGT
** *
20951784 CAAGACA---AAAAGG-A-A-AGC
1 CAAGACAGCTGGAAGGCATAGAGT
20951802 CAAGACAGCTGGAAGGCATAGAGT
1 CAAGACAGCTGGAAGGCATAGAGT
20951826 CAAGACA
1 CAAGACA
20951833 AAAAGGAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
18 9 0.24
19 1 0.03
20 1 0.03
21 8 0.22
22 1 0.03
23 1 0.03
24 16 0.43
ACGTcount: A:0.45, C:0.18, G:0.29, T:0.08
Consensus pattern (24 bp):
CAAGACAGCTGGAAGGCATAGAGT
Found at i:21055762 original size:15 final size:15
Alignment explanation
Indices: 21055742--21055771 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21055732 CCAGTATATT
21055742 ATTTTATTTCACTTA
1 ATTTTATTTCACTTA
21055757 ATTTTATTTCACTTA
1 ATTTTATTTCACTTA
21055772 GCCTGCCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTATTTCACTTA
Found at i:21068607 original size:19 final size:19
Alignment explanation
Indices: 21068583--21068624 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
21068573 CTTCAGATAT
21068583 TTTTATTTCTTTTA-TTTTA
1 TTTTATTT-TTTTACTTTTA
*
21068602 TTTTATTTTTTTACTTTTC
1 TTTTATTTTTTTACTTTTA
21068621 TTTT
1 TTTT
21068625 GGTGCTGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTATTTTTTTACTTTTA
Found at i:21083620 original size:20 final size:20
Alignment explanation
Indices: 21083597--21083665 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
21083587 TTAAATTCTA
21083597 AAAGATAAATACAA-ATAATT
1 AAAGATAAATA-AAGATAATT
*
21083617 AAAGATAATTAAAGATAATT
1 AAAGATAAATAAAGATAATT
21083637 AAAGATAAATAAAGATGAA-T
1 AAAGATAAATAAAGAT-AATT
21083657 AAAGATAAA
1 AAAGATAAA
21083666 AGCTAAAACT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.04
20 41 0.91
21 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.10, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:21083624 original size:10 final size:10
Alignment explanation
Indices: 21083597--21083664 Score: 86
Period size: 10 Copynumber: 6.8 Consensus size: 10
21083587 TTAAATTCTA
*
21083597 AAAGATAAAT
1 AAAGATAATT
21083607 ACAA-ATAATT
1 A-AAGATAATT
21083617 AAAGATAATT
1 AAAGATAATT
21083627 AAAGATAATT
1 AAAGATAATT
*
21083637 AAAGATAAAT
1 AAAGATAATT
21083647 AAAGATGAA-T
1 AAAGAT-AATT
21083657 AAAGATAA
1 AAAGATAA
21083665 AAGCTAAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
9 4 0.08
10 45 0.85
11 4 0.08
ACGTcount: A:0.65, C:0.01, G:0.10, T:0.24
Consensus pattern (10 bp):
AAAGATAATT
Found at i:21093005 original size:32 final size:32
Alignment explanation
Indices: 21092969--21093029 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
21092959 GAGGTAAGTT
21092969 TGTATAATTAGAATCAAACTTTTAAATACCTA
1 TGTATAATTAGAATCAAACTTTTAAATACCTA
21093001 TGTATAATTAGAATCAAACTTTTAAATAC
1 TGTATAATTAGAATCAAACTTTTAAATAC
21093030 TTGTGTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (32 bp):
TGTATAATTAGAATCAAACTTTTAAATACCTA
Found at i:21093265 original size:23 final size:22
Alignment explanation
Indices: 21093235--21093306 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 22
21093225 AGCTTACCGA
21093235 TGTTTCAGCTCATCAGAGCTTAC
1 TGTTTCAGCTCAT-AGAGCTTAC
21093258 TGTTTCAGCTCAATAGAGCTTAC
1 TGTTTCAGCTC-ATAGAGCTTAC
*
21093281 TGTCCATCAGCTCATAAGGAGCTTAC
1 TGT--TTCAGCTCAT-A-GAGCTTAC
21093307 CGATCATGGC
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 23 0.53
24 4 0.09
25 8 0.19
26 8 0.19
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (22 bp):
TGTTTCAGCTCATAGAGCTTAC
Found at i:21096904 original size:24 final size:24
Alignment explanation
Indices: 21096839--21096904 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
21096829 CAAAAGAATG
* **
21096839 TCCCGTTAATAGCCCTTTTGAGCT
1 TCCCGTTAATAGCTCTTGCGAGCT
* * * *
21096863 TTCCATTATATGGTTCTTGCGAGCT
1 TCCCGTTA-ATAGCTCTTGCGAGCT
21096888 TCCCGTTAATAGCTCTT
1 TCCCGTTAATAGCTCTT
21096905 TGGAGCATCC
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.41
Consensus pattern (24 bp):
TCCCGTTAATAGCTCTTGCGAGCT
Found at i:21096910 original size:24 final size:24
Alignment explanation
Indices: 21096839--21096916 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
21096829 CAAAAGAATG
* *
21096839 TCCCGTTAATAGCCCTTTTGAGCT
1 TCCCGTTAATAGCTCTTTGGAGCT
* * * *
21096863 TTCCATTATATGGTTC-TTGCGAGCT
1 TCCCGTTA-ATAGCTCTTTG-GAGCT
*
21096888 TCCCGTTAATAGCTCTTTGGAGCA
1 TCCCGTTAATAGCTCTTTGGAGCT
21096912 TCCCG
1 TCCCG
21096917 ATTGGTTGTG
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
24 22 0.55
25 18 0.45
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (24 bp):
TCCCGTTAATAGCTCTTTGGAGCT
Found at i:21097697 original size:29 final size:29
Alignment explanation
Indices: 21097655--21097714 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
21097645 TTACTAAGCA
21097655 TTTGGTTATAATGACATGTATAGATTAAC
1 TTTGGTTATAATGACATGTATAGATTAAC
21097684 TTTGGTTATAATGACATGTATAGATTAAC
1 TTTGGTTATAATGACATGTATAGATTAAC
21097713 TT
1 TT
21097715 GGCCAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (29 bp):
TTTGGTTATAATGACATGTATAGATTAAC
Found at i:21100441 original size:39 final size:39
Alignment explanation
Indices: 21100387--21100524 Score: 186
Period size: 39 Copynumber: 3.5 Consensus size: 39
21100377 AACATGTTTT
21100387 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * * *
21100426 TGAGTGTTGTGATATATGCTTCAATGTTATATGGTTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * * *
21100465 TGTGTACTGTGGTATATGCTTGAATGTTATGCGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
21100504 TGTGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
21100525 AAAAATGAAT
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.25, C:0.05, G:0.24, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:21104052 original size:46 final size:46
Alignment explanation
Indices: 21103985--21104345 Score: 278
Period size: 46 Copynumber: 7.8 Consensus size: 46
21103975 TGTAACCTGC
*
21103985 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
21104031 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
21104081 --TTCA-CGAACTCGGATTCAACTCAACGAGTTCGGACTTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
21104124 CCATAAGTGAACTCGGACTCAAATCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
21104174 --TTCA-CGAACTCAGAATCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * * *
21104217 CCATAAGTGAACTCAGACTCAGCTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* **
21104267 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
21104310 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
21104346 ATGCCCAAAT
Statistics
Matches: 244, Mismatches: 44, Indels: 54
0.71 0.13 0.16
Matches are distributed among these distances:
42 8 0.03
43 9 0.04
44 4 0.02
45 6 0.02
46 112 0.46
47 77 0.32
48 7 0.03
49 4 0.02
50 9 0.04
51 8 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:21104102 original size:93 final size:93
Alignment explanation
Indices: 21103992--21104350 Score: 610
Period size: 93 Copynumber: 3.9 Consensus size: 93
21103982 TGCCCATAAG
* *
21103992 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
21104057 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
21104085 CGAACTCGGATTCAACTCAACGAGTTCGGACTTTCGCATCCATAAGTGAACTCGGACTCAAATCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
21104150 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * * *
21104178 CGAACTCAGAATCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAGCTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
21104243 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
21104271 CGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
21104336 ACGAGCTCGGATGCC
66 ACGAGTTCGGATGCC
21104351 CAAATATCCT
Statistics
Matches: 248, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 248 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:21104107 original size:47 final size:47
Alignment explanation
Indices: 21104039--21104298 Score: 248
Period size: 47 Copynumber: 5.6 Consensus size: 47
21104029 ATCCATAAGT
21104039 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
21104086 GAACTCGGATTCAACTCAACGAGTTCGGA---CT--TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
*
21104132 GAACTCGGACTCAAATCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * * * * * *
21104179 GAACTCAGAATCAACTCAACGAGTTCGGACG-TTCGCATCCA--TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCA-C
* * *
21104225 GAACTCAGACTCAGCTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
21104272 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
21104299 AACGTTCGCA
Statistics
Matches: 167, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 2 0.01
45 4 0.02
46 60 0.36
47 85 0.51
48 4 0.02
49 2 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:21110385 original size:42 final size:42
Alignment explanation
Indices: 21110287--21110823 Score: 709
Period size: 42 Copynumber: 12.7 Consensus size: 42
21110277 AACGGGTACA
* * * * * *
21110287 ATGCCGACGTCCCGGACGTAGTCTTACATGTAATTCAG-TATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACG-AAATCAGATA-CG
** * * *
21110330 ATGCCTCTGTCCCAGACAGGGCCTTACACAAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * * * *
21110372 ATACCGATGTCCCAGACATGGTCTTGCATGAAATCAAAAACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
*
21110414 ATGCCGATGTCCCAGACATGGTTTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
*
21110456 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACA
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
*
21110498 ATGCCGATGTCCCAAACATGGTCTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * *
21110540 ATGCCGATGTCCCAGACATTGTCTTACATGAAATTAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
*
21110582 ATGCCGATGTCCCAAACATGGTCTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* *
21110624 ATGCCGATGTCCCAGACATTGTCTTACACGAAATGAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* *
21110666 ATGCCGGTGTCCCAGACATGGTCTTACAGGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
*
21110708 ATGCTGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * *
21110750 ATGCCAATGTCCCAGACATGGTCTTGCACGAAATCTCAAAT-CG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAA--TCAGATACG
* ** *
21110793 AGGCCTCTGTCCCAGACAAGGTCTTACACGA
1 ATGCCGATGTCCCAGACATGGTCTTACACGA
21110824 CATCTCAAAT
Statistics
Matches: 433, Mismatches: 58, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
42 378 0.87
43 50 0.12
44 5 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
Found at i:21128262 original size:42 final size:42
Alignment explanation
Indices: 21128164--21128493 Score: 428
Period size: 42 Copynumber: 7.8 Consensus size: 42
21128154 AACGGGTACA
* * * * *
21128164 ATGCCGACGTCCCGGACGTGGTCTTACATGTAATTCAG-TATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACG-AAATCAGATA-CG
** * * *
21128207 ATGCCTCTGTCCCAGACAGGGCCTTACACAAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * * * * *
21128249 ATACCGATGTCCCAGACATGGTCTTGCATGAAATCAAAAAAG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
*
21128291 ATGCCGATGTCCCAGACATGGTTTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
21128333 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
*
21128375 ATGCCGATGTCCCAAACATGGTCTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * * *
21128417 ATACCGATGTCCCAGACATTGTCTTACATGAAATTAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
*
21128459 ATGCCGATGTCCCAAACATGGTCTTACACGAAATC
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATC
21128494 TCAAATCAAG
Statistics
Matches: 246, Mismatches: 40, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
42 223 0.91
43 23 0.09
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
Found at i:21134096 original size:17 final size:17
Alignment explanation
Indices: 21134074--21134109 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
21134064 CAAATCCAAA
*
21134074 ATAGAAGTAATTATTTT
1 ATAGAAATAATTATTTT
21134091 ATAGAAATAATTATTTT
1 ATAGAAATAATTATTTT
21134108 AT
1 AT
21134110 GATTTTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (17 bp):
ATAGAAATAATTATTTT
Found at i:21136133 original size:20 final size:19
Alignment explanation
Indices: 21136101--21136138 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
21136091 AGATGTGTGA
21136101 TGAATGACACATGTGCTAAG
1 TGAATGACACATG-GCTAAG
21136121 TGAATGA-ATCATGGCTAA
1 TGAATGACA-CATGGCTAA
21136139 TAAGGATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (19 bp):
TGAATGACACATGGCTAAG
Found at i:21140865 original size:21 final size:21
Alignment explanation
Indices: 21140836--21140876 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
21140826 AACTTCTCTC
*
21140836 CTAAGTATATTATTTACATAA
1 CTAAATATATTATTTACATAA
21140857 CTAAATATATTATTTACATA
1 CTAAATATATTATTTACATA
21140877 GTTAACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (21 bp):
CTAAATATATTATTTACATAA
Found at i:21141252 original size:25 final size:24
Alignment explanation
Indices: 21141203--21141252 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
21141193 TTTTAATGTT
*
21141203 TAATAATAAAGGTTAAAATGGTAAA
1 TAATAATAAAGCTTAAAAT-GTAAA
21141228 TAATAATTAATAGCTTAAAAT-TAAA
1 TAATAA-TAA-AGCTTAAAATGTAAA
21141253 AGATACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (24 bp):
TAATAATAAAGCTTAAAATGTAAA
Found at i:21141530 original size:21 final size:20
Alignment explanation
Indices: 21141491--21141530 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
21141481 TATGTATGGG
*
21141491 TTTTGAAGTTTGATGATAGA
1 TTTTGAAGGTTGATGATAGA
*
21141511 TTTTGAATGGTTGTTGATAG
1 TTTTGAA-GGTTGATGATAG
21141531 TCAAATAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (20 bp):
TTTTGAAGGTTGATGATAGA
Found at i:21142658 original size:40 final size:40
Alignment explanation
Indices: 21142531--21142660 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
21142521 ATGCTGGAAA
* *
21142531 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
21142571 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
21142611 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
21142651 TTATATCCGG
1 TTATATCCGG
21142661 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:21142659 original size:80 final size:80
Alignment explanation
Indices: 21142493--21142660 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
21142483 CAATTGAATG
* * *
21142493 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
21142558 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
21142573 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
21142637 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
21142653 ATATCCGG
1 ATATCCGG
21142661 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:21149280 original size:40 final size:40
Alignment explanation
Indices: 21149153--21149282 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
21149143 ATGCTGGAAA
* *
21149153 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
21149193 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
21149233 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
21149273 TTATATCCGG
1 TTATATCCGG
21149283 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:21149281 original size:80 final size:80
Alignment explanation
Indices: 21149115--21149282 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
21149105 CAATTGAATG
* * *
21149115 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
21149180 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
21149195 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
21149259 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
21149275 ATATCCGG
1 ATATCCGG
21149283 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:21155903 original size:40 final size:40
Alignment explanation
Indices: 21155738--21155905 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 40
21155728 CAATTGAATG
* * ** * *
21155738 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTAGTT
* * *
21155778 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTAGTT
*
21155818 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-AGTT
* *
21155858 CTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTAGTT
21155898 ATATCCGG
1 ATATCCGG
21155906 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
39 4 0.04
40 98 0.92
41 4 0.04
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTAGTT
Found at i:21168366 original size:40 final size:40
Alignment explanation
Indices: 21168321--21168488 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
21168311 CGGAATATAA
21168321 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
21168361 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
21168401 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
21168441 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
21168481 CCGGATAT
1 CCGGATAT
21168489 TATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21170604 original size:16 final size:16
Alignment explanation
Indices: 21170583--21170624 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
21170573 ACATCCTTGA
21170583 TAAACCTCATTGCATG
1 TAAACCTCATTGCATG
21170599 TAAACCTCATTGCATG
1 TAAACCTCATTGCATG
21170615 TAAACCTCAT
1 TAAACCTCAT
21170625 ATCATCGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (16 bp):
TAAACCTCATTGCATG
Found at i:21175914 original size:25 final size:25
Alignment explanation
Indices: 21175885--21175932 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21175875 TTATAATATG
* *
21175885 AAAATGACCATTTTGCCCCTAGGTC
1 AAAATGACCATTATACCCCTAGGTC
21175910 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
21175933 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTC
Found at i:21175983 original size:9 final size:9
Alignment explanation
Indices: 21175971--21176027 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
21175961 TTTGATAAAC
21175971 ATGATATGT
1 ATGATATGT
*
21175980 ATGATATGCAC
1 ATGATATG--T
*
21175991 ATGACATGT
1 ATGATATGT
*
21176000 ATGATATGCAC
1 ATGATATG--T
21176011 ATGATATGT
1 ATGATATGT
21176020 ATGATATG
1 ATGATATG
21176028 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:21175994 original size:20 final size:20
Alignment explanation
Indices: 21175969--21176039 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
21175959 ATTTTGATAA
21175969 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
21175989 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
21176009 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
21176029 ACATGAGATGT
1 ACATGATATGT
21176040 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:21176016 original size:11 final size:11
Alignment explanation
Indices: 21175980--21176034 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
21175970 CATGATATGT
21175980 ATGATATGCAC
1 ATGATATGCAC
* *
21175991 ATGACATG--T
1 ATGATATGCAC
21176000 ATGATATGCAC
1 ATGATATGCAC
*
21176011 ATGATATG--T
1 ATGATATGCAC
21176020 ATGATATGCAC
1 ATGATATGCAC
21176031 ATGA
1 ATGA
21176035 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:21176117 original size:23 final size:23
Alignment explanation
Indices: 21176090--21176205 Score: 196
Period size: 23 Copynumber: 5.0 Consensus size: 23
21176080 AGTGCAAAAA
21176090 GGCTTATGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAG
*
21176113 GGCTTATGCCCCAGTTATCAAAAG
1 GGCTTATGCCCCAGTTAT-TAAAG
21176137 GGCTTATGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAG
21176160 GGCTTATGCCCCAGTTATTAAAAG
1 GGCTTATGCCCCAGTTATT-AAAG
*
21176184 GGCTTTTGCCCCAGTTATTAAA
1 GGCTTATGCCCCAGTTATTAAA
21176206 AGAGGCTAGG
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
23 44 0.50
24 44 0.50
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (23 bp):
GGCTTATGCCCCAGTTATTAAAG
Found at i:21176141 original size:24 final size:23
Alignment explanation
Indices: 21176085--21176227 Score: 189
Period size: 24 Copynumber: 6.0 Consensus size: 23
21176075 GAGGAAGTGC
*
21176085 AAAAAGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
21176108 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
21176131 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
21176155 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
21176179 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
21176203 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
21176227 A
1 A
21176228 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
23 42 0.39
24 56 0.52
25 10 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:21176153 original size:47 final size:47
Alignment explanation
Indices: 21176084--21176205 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
21176074 GGAGGAAGTG
*
21176084 CAAAAAGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
21176131 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
21176178 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
21176206 AGAGGCTAGG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:21188921 original size:37 final size:36
Alignment explanation
Indices: 21188858--21188966 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 36
21188848 AGCTCAGACG
* *
21188858 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATC-GGTCTTACCCGGACA
21188895 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATC-GGTCTTACCCGGACA
* *
21188932 TAATCTCCACACGTAGTCATCGAGTCTTACTCGGA
1 AAATCTCCACACGTAGTCATCG-GTCTTACCCGGA
21188967 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 1 0.02
37 65 0.98
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (36 bp):
AAATCTCCACACGTAGTCATCGGTCTTACCCGGACA
Found at i:21189171 original size:52 final size:47
Alignment explanation
Indices: 21189112--21189250 Score: 179
Period size: 52 Copynumber: 2.8 Consensus size: 47
21189102 GCACATCGCC
*
21189112 TACATATTTCACACTAGCCATTCGGTTTTACCACATATACATATCTCATATA
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTC----A
* * *
21189164 TATATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATAG-CCATTCGGCTTTACCACATATACATATCTCA
21189212 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATA
21189251 TGCATGTTCA
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
48 34 0.44
49 2 0.03
51 2 0.03
52 40 0.51
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (47 bp):
TACATATTTCACATAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:21189238 original size:48 final size:48
Alignment explanation
Indices: 21189098--21189249 Score: 189
Period size: 48 Copynumber: 3.1 Consensus size: 48
21189088 CGGCCACAAT
* * * * *
21189098 ATATGCACATCGCCTACATATTTCACACTAGCCATTCGGTTTTACCAC
1 ATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
21189146 ATATACATATCTCATATATATATATTTCACATT-GACCATTCGGCTTTACCAC
1 ATATGCATATCTC----ATACATATTTCACATTAG-CCATTCGGCTTTACCAC
21189198 ATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
21189246 ATAT
1 ATAT
21189250 ATGCATGTTC
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
48 46 0.52
49 1 0.01
51 1 0.01
52 41 0.46
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
ATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:21189299 original size:47 final size:47
Alignment explanation
Indices: 21189220--21189392 Score: 265
Period size: 47 Copynumber: 3.7 Consensus size: 47
21189210 CATACATATT
* * * *
21189220 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
21189267 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
21189314 TCACATTGGCCATTCGGCCTTATCACATATATGGATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
21189361 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
21189393 ATGTTGTGAC
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 114 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:21189341 original size:94 final size:95
Alignment explanation
Indices: 21189173--21189384 Score: 279
Period size: 94 Copynumber: 2.2 Consensus size: 95
21189163 ATATATATTT
* * * *
21189173 CACATTGACCATTCGGCTTTA-CCACATATGCATATCTCATACATATTTCACATTAGCCATTCGG
1 CACATTGGCCATTCGGCCTTATCCACATATGCATAGCTCA-ACATATATCACATTAGCCATTCGG
* *
21189237 CTTTACCACATATATGCATGTTCATATTCAC
65 CCTTACCACATATATGCATGTTCACATTCAC
*
21189268 CACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC-ACAT-TCATCACATTGGCCATTCG
1 CACATTGGCCATTCGGCCTTATC-CACATATGCATAGCTCAACATAT-ATCACATTAGCCATTCG
* * *
21189330 GCCTTATCACATATATGGATGTTCACATTCAT
64 GCCTTACCACATATATGCATGTTCACATTCAC
21189362 CACATTGGCCATTCGGCCTTATC
1 CACATTGGCCATTCGGCCTTATC
21189385 TCATATATAT
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
93 1 0.01
94 69 0.66
95 19 0.18
96 4 0.04
97 11 0.11
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (95 bp):
CACATTGGCCATTCGGCCTTATCCACATATGCATAGCTCAACATATATCACATTAGCCATTCGGC
CTTACCACATATATGCATGTTCACATTCAC
Found at i:21202816 original size:11 final size:11
Alignment explanation
Indices: 21202800--21202832 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
21202790 CACACTAACA
21202800 CAACATGTTTC
1 CAACATGTTTC
21202811 CAACATGTTTC
1 CAACATGTTTC
21202822 CAACATGTTTC
1 CAACATGTTTC
21202833 ACCCCATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (11 bp):
CAACATGTTTC
Found at i:21204687 original size:24 final size:24
Alignment explanation
Indices: 21204650--21204804 Score: 247
Period size: 24 Copynumber: 6.4 Consensus size: 24
21204640 CTGGAGCCCT
*
21204650 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
21204675 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
21204699 AGCCCTTTTGATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
21204723 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
21204747 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
*
21204772 AGCCCTTTTAATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
21204796 AGCCCTTTT
1 AGCCCTTTT
21204805 GCACTTCCTC
Statistics
Matches: 121, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
24 94 0.78
25 27 0.22
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:21204779 original size:73 final size:72
Alignment explanation
Indices: 21204650--21204804 Score: 265
Period size: 73 Copynumber: 2.1 Consensus size: 72
21204640 CTGGAGCCCT
* *
21204650 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTGATAATT
1 AGCC-CTTTTAATAACTAGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAATT
21204715 GGGGCATA
65 GGGGCATA
*
21204723 AGCCCTTTTAATAACTAGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCCCTTTTAATAATT
1 AGCCCTTTTAATAACTAGGGCAAAAGCCC-TTTTAATAACTGGGGCATAAGCCCTTTTAATAATT
21204788 GGGGCATA
65 GGGGCATA
21204796 AGCCCTTTT
1 AGCCCTTTT
21204805 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
72 23 0.29
73 55 0.71
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (72 bp):
AGCCCTTTTAATAACTAGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAATTG
GGGCATA
Found at i:21204793 original size:49 final size:49
Alignment explanation
Indices: 21204656--21204804 Score: 246
Period size: 49 Copynumber: 3.1 Consensus size: 49
21204646 CCCTAGCCTC
*
21204656 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
* * *
21204704 TTTTGATAATTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
*
21204753 TTTTAATAACTGGGGCATAAGCCCTTTTAATAATTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
21204802 TTT
1 TTT
21204805 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
48 44 0.48
49 48 0.52
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (49 bp):
TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
Found at i:21204879 original size:20 final size:20
Alignment explanation
Indices: 21204854--21204920 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
21204844 TTATGAATAC
21204854 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21204874 ATCATGTGCATATCACACAT
1 ATCATGTGCATATCATACAT
* *
21204894 GTCGTGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
21204914 ATCATGT
1 ATCATGT
21204921 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21204989 original size:25 final size:25
Alignment explanation
Indices: 21204957--21205004 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21204947 ATATATAAAC
* *
21204957 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
21204982 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
21205005 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:21205284 original size:16 final size:16
Alignment explanation
Indices: 21205263--21205302 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
21205253 TTTTACCCAA
21205263 ATGGGCCCGAAAGCCC
1 ATGGGCCCGAAAGCCC
21205279 ATGGGCCCGAAAGCCC
1 ATGGGCCCGAAAGCCC
21205295 ATGGGCCC
1 ATGGGCCC
21205303 TACTTCAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.33, T:0.07
Consensus pattern (16 bp):
ATGGGCCCGAAAGCCC
Found at i:21207811 original size:30 final size:30
Alignment explanation
Indices: 21207756--21207813 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
21207746 TGAGAAAACC
**
21207756 GAATAAAGAAATCCAAGATTGAGAAACCTA
1 GAATAAAGAAATCCAAGATAAAGAAACCTA
21207786 GAATAAAGAAATCC-AGAGTAAAGAAACC
1 GAATAAAGAAATCCAAGA-TAAAGAAACC
21207814 CAGATAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCTA
Found at i:21207816 original size:15 final size:15
Alignment explanation
Indices: 21207777--21207817 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
21207767 TCCAAGATTG
*
21207777 AGAAACCTAGAATAA
1 AGAAACCCAGAATAA
* *
21207792 AGAAATCCAGAGTAA
1 AGAAACCCAGAATAA
21207807 AGAAACCCAGA
1 AGAAACCCAGA
21207818 TAAGATACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.56, C:0.17, G:0.17, T:0.10
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:21217760 original size:26 final size:26
Alignment explanation
Indices: 21217730--21217808 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
21217720 ATTATAAAAT
21217730 AAAAAGAGATTGAGAGAATAAAGAAC
1 AAAAAGAGATTGAGAGAATAAAGAAC
* *
21217756 AAAAA-A-ATT-ATGATG-TTATAA-AAT
1 AAAAAGAGATTGA-GA-GAATA-AAGAAC
*
21217780 AAAGAGAGATTGAGAGAATAAAGAAC
1 AAAAAGAGATTGAGAGAATAAAGAAC
21217806 AAA
1 AAA
21217809 GGAAATATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
23 1 0.03
24 13 0.32
25 8 0.20
26 17 0.43
27 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.19, T:0.18
Consensus pattern (26 bp):
AAAAAGAGATTGAGAGAATAAAGAAC
Found at i:21224179 original size:6 final size:7
Alignment explanation
Indices: 21224151--21224181 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
21224141 CTAAGAAAAT
21224151 AACATAA
1 AACATAA
21224158 AACATAA
1 AACATAA
21224165 AACATAA
1 AACATAA
21224172 AA-ATAA
1 AACATAA
21224178 AACA
1 AACA
21224182 AATAAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (7 bp):
AACATAA
Found at i:21236155 original size:13 final size:12
Alignment explanation
Indices: 21236131--21236178 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
21236121 GATGGATCAT
21236131 AATAATAACTAA
1 AATAATAACTAA
21236143 AATAATAAACTAA
1 AATAAT-AACTAA
*
21236156 AATAGTAACATAA
1 AATAATAAC-TAA
21236169 AA-AAT-ACTAA
1 AATAATAACTAA
21236179 TTTGATGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 3 0.09
11 2 0.06
12 11 0.34
13 16 0.50
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (12 bp):
AATAATAACTAA
Found at i:21236386 original size:13 final size:13
Alignment explanation
Indices: 21236368--21236462 Score: 79
Period size: 13 Copynumber: 7.2 Consensus size: 13
21236358 AAAATGGGAT
*
21236368 AAATAATTAAATA
1 AAATAAATAAATA
21236381 AAATAAACATAAATA
1 AAAT-AA-ATAAATA
*
21236396 GAAT-AATAAAATA
1 AAATAAAT-AAATA
*
21236409 ACATAAATAAATA
1 AAATAAATAAATA
21236422 AAAT-AATAGAAT-
1 AAATAAATA-AATA
*
21236434 AAATAAATAAAGA
1 AAATAAATAAATA
* *
21236447 AGATAAAAAAATA
1 AAATAAATAAATA
21236460 AAA
1 AAA
21236463 ATAATAATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
12 12 0.18
13 39 0.60
14 5 0.08
15 9 0.14
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:21236386 original size:17 final size:17
Alignment explanation
Indices: 21236368--21236461 Score: 88
Period size: 17 Copynumber: 5.4 Consensus size: 17
21236358 AAAATGGGAT
*
21236368 AAATAATTAAATAAAATA
1 AAATAAATAAAT-AAATA
21236386 AACATAAATAGAAT-AATA
1 AA-ATAAATA-AATAAATA
21236404 AAATAACATAAATAAATA
1 AAATAA-ATAAATAAATA
21236422 AAAT-AATAGAATAAAT-
1 AAATAAATA-AATAAATA
*
21236438 AAATAAAGAAGATAAA-A
1 AAATAAATAA-ATAAATA
21236455 AAATAAA
1 AAATAAA
21236462 AATAATAATA
Statistics
Matches: 66, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.12
17 30 0.45
18 19 0.29
19 6 0.09
20 3 0.05
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:21236458 original size:21 final size:21
Alignment explanation
Indices: 21236413--21236471 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
21236403 AAAATAACAT
*
21236413 AAATAAATAAAATAATAGAAT
1 AAATAAATAAAATAATAGAAA
21236434 AAATAAATAAAGA-AGATA-AAA
1 AAATAAATAAA-ATA-ATAGAAA
21236455 AAATAAA-AATAATAATA
1 AAATAAATAA-AATAATA
21236472 AGAAGAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 6 0.18
21 23 0.70
22 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAATAAATAAAATAATAGAAA
Found at i:21241915 original size:90 final size:90
Alignment explanation
Indices: 21241798--21241963 Score: 237
Period size: 90 Copynumber: 1.8 Consensus size: 90
21241788 CGGAGTGAAT
* *
21241798 AAGACTATAGTTGAAAGATACTATGGCACTAAACCAAAAATATATAAGATCATGGTT-GAAAGAT
1 AAGACCATAGTTGAAAGATACTATGGCACTAAACCAAAAATATATAAGACCATGGTTAG-AAGAT
21241862 A-CTATGGCATCAAATCCAATACAAAA
65 ATC-ATGGCATCAAATCCAATACAAAA
*** **
21241888 AAGACCATAGTTGAAAGATACTATGGCACTACTTCAGGAATATATAAGACCATGGTTAGAAGATA
1 AAGACCATAGTTGAAAGATACTATGGCACTAAACCAAAAATATATAAGACCATGGTTAGAAGATA
21241953 TCATGGCATCA
66 TCATGGCATCA
21241964 TTTGGAGCGA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 65 0.97
91 2 0.03
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (90 bp):
AAGACCATAGTTGAAAGATACTATGGCACTAAACCAAAAATATATAAGACCATGGTTAGAAGATA
TCATGGCATCAAATCCAATACAAAA
Found at i:21241937 original size:45 final size:45
Alignment explanation
Indices: 21241757--21241940 Score: 171
Period size: 45 Copynumber: 4.1 Consensus size: 45
21241747 AATGAGAAAT
* * *
21241757 ACCATAGTTGAAAGATATTATGGCATTAAACC-GGAGTGA-ATAAG
1 ACCATAGTTGAAAGATACTATGGCACTAAACCAGGAAT-ATATAAG
* **
21241801 ACTATAGTTGAAAGATACTATGGCACTAAACCAAAAATATATAAG
1 ACCATAGTTGAAAGATACTATGGCACTAAACCAGGAATATATAAG
* * * * *
21241846 ATCATGGTTGAAAGATACTATGGCA-TCAAATCCA--ATACAAAAAAG
1 ACCATAGTTGAAAGATACTATGGCACT-AAA-CCAGGA-ATATATAAG
***
21241891 ACCATAGTTGAAAGATACTATGGCACTACTTCAGGAATATATAAG
1 ACCATAGTTGAAAGATACTATGGCACTAAACCAGGAATATATAAG
21241936 ACCAT
1 ACCAT
21241941 GGTTAGAAGA
Statistics
Matches: 112, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
44 34 0.30
45 73 0.65
46 5 0.04
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (45 bp):
ACCATAGTTGAAAGATACTATGGCACTAAACCAGGAATATATAAG
Found at i:21245584 original size:68 final size:68
Alignment explanation
Indices: 21245489--21245646 Score: 289
Period size: 68 Copynumber: 2.3 Consensus size: 68
21245479 TTCACTTGGA
* * *
21245489 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCT
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATAGGATACATCT
21245554 CGT
66 CGT
21245557 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATAGGATACATCT
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATAGGATACATCT
21245622 CGT
66 CGT
21245625 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
21245647 TATATAGTAT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATAGGATACATCT
CGT
Found at i:21249921 original size:15 final size:15
Alignment explanation
Indices: 21249883--21249950 Score: 88
Period size: 15 Copynumber: 4.7 Consensus size: 15
21249873 GAACAAAGAT
*
21249883 AATAAGGAAA-CC-G
1 AATAAAGAAATCCAG
21249896 AATAAAGAAATCCA-
1 AATAAAGAAATCCAG
*
21249910 ATATAGAGAAATCCAG
1 A-ATAAAGAAATCCAG
21249926 AATAAAGAAATCCAG
1 AATAAAGAAATCCAG
21249941 AATAAAGAAA
1 AATAAAGAAA
21249951 CCCAAGATAC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
13 9 0.19
14 3 0.06
15 35 0.73
16 1 0.02
ACGTcount: A:0.60, C:0.12, G:0.15, T:0.13
Consensus pattern (15 bp):
AATAAAGAAATCCAG
Found at i:21252459 original size:46 final size:45
Alignment explanation
Indices: 21252392--21252563 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
21252382 AACTCGCCCC
*
21252392 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
* *
21252438 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
21252486 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
* *
21252531 TAAGTCAACTCGGACTCAACTCAACAAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
21252564 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 58 0.55
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:21252504 original size:93 final size:93
Alignment explanation
Indices: 21252397--21252567 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
21252387 GCCCCTAAGT
* * *
21252397 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTCAACTCGGACTCAACTCAA
*
21252462 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
* *
21252490 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTCAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTCAACTCGGACTCAACTCAA
21252555 CAAGTTCGGATGC
66 CAAGTTCGGATGC
21252568 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTCAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:21254810 original size:15 final size:17
Alignment explanation
Indices: 21254775--21254812 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
21254765 ATCAAGTAGA
*
21254775 CTTTTATCACTCAAGGT
1 CTTTTTTCACTCAAGGT
21254792 CTTTTTTCACTC-A-GT
1 CTTTTTTCACTCAAGGT
21254807 CTTTTT
1 CTTTTT
21254813 AATTTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.53
Consensus pattern (17 bp):
CTTTTTTCACTCAAGGT
Found at i:21256890 original size:22 final size:22
Alignment explanation
Indices: 21256865--21256965 Score: 123
Period size: 22 Copynumber: 4.6 Consensus size: 22
21256855 TGCAGGGCTC
*
21256865 ACACGCCTGTGTAGTCCAAGGG
1 ACACGCCTGTGTGGTCCAAGGG
* *
21256887 ACACGCCTGTGTGATCCATA-AG
1 ACACGCCTGTGTGGTCCA-AGGG
* *
21256909 ACACGCCCGTGTGGTCCATGGG
1 ACACGCCTGTGTGGTCCAAGGG
*
21256931 ACATGCCTGTGTGGTCCAAGGG
1 ACACGCCTGTGTGGTCCAAGGG
*
21256953 ACACGCCCGTGTG
1 ACACGCCTGTGTG
21256966 ACCCTAGAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
22 64 0.98
23 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.32, T:0.20
Consensus pattern (22 bp):
ACACGCCTGTGTGGTCCAAGGG
Found at i:21259954 original size:23 final size:23
Alignment explanation
Indices: 21259921--21260056 Score: 154
Period size: 23 Copynumber: 6.0 Consensus size: 23
21259911 GAGCTGATGG
21259921 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
* *
21259944 ACGGTAAGCTCTATCGAGCTG-A
1 ACAGTAAGCTCTATTGAGCTGAA
*
21259966 ACAGTAAGCTCTATTAAGCTG-A
1 ACAGTAAGCTCTATTGAGCTGAA
*
21259988 ACAGTAAGCTC-ATACGAGCTGAA
1 ACAGTAAGCTCTAT-TGAGCTGAA
* * *
21260011 ACGGTAAGCTCCAATGAGCTGAAA
1 ACAGTAAGCTCTATTGAGCTG-AA
21260035 ACAGTAAGCTCT-TATGAGCTGA
1 ACAGTAAGCTCTAT-TGAGCTGA
21260057 TATATTGGTA
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.02
22 36 0.38
23 37 0.39
24 20 0.21
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
ACAGTAAGCTCTATTGAGCTGAA
Found at i:21259975 original size:45 final size:45
Alignment explanation
Indices: 21259921--21260056 Score: 170
Period size: 45 Copynumber: 3.0 Consensus size: 45
21259911 GAGCTGATGG
*
21259921 ACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATCGAGCTGA
1 ACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTATCGAGCTGA
*
21259966 ACAGTAAGCTCTATTAAGCTG-AACAGTAAGCTC-ATACGAGCTGAA
1 ACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTAT-CGAGCTG-A
* * *
21260011 ACGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTAT-GAGCTGA
1 ACAGTAAGCTCTATTGAGCTG-AAACAGTAAGCTC-TATCGAGCTGA
21260057 TATATTGGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
43 2 0.03
44 18 0.23
45 38 0.48
46 1 0.01
47 18 0.23
49 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (45 bp):
ACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTATCGAGCTGA
Found at i:21265095 original size:16 final size:16
Alignment explanation
Indices: 21265070--21265102 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21265060 CTAAAAGAAA
21265070 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
21265086 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
21265102 A
1 A
21265103 GAATTCGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:21288900 original size:32 final size:32
Alignment explanation
Indices: 21288786--21288887 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
21288776 ACTTTAACAC
21288786 ATGCATATACTCATATTTTACGCCTCATAATA
1 ATGCATATACTCATATTTTACGCCTCATAATA
21288818 ATGCATATACTCATATTTTACGCCTCATAATA
1 ATGCATATACTCATATTTTACGCCTCATAATA
*
21288850 ATGCATATACTCATATTTTAAGCCTCATAATA
1 ATGCATATACTCATATTTTACGCCTCATAATA
21288882 AT-CATA
1 ATGCATA
21288888 AAATAAATAT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
31 4 0.06
32 65 0.94
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.37
Consensus pattern (32 bp):
ATGCATATACTCATATTTTACGCCTCATAATA
Found at i:21294475 original size:26 final size:26
Alignment explanation
Indices: 21294446--21294499 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
21294436 CTACAGGGAG
*
21294446 TACGTCAATAATCTGGTCAATACTCA
1 TACGTCAATAATATGGTCAATACTCA
21294472 TACGTCAATAATATGGTCAATACTCA
1 TACGTCAATAATATGGTCAATACTCA
21294498 TA
1 TA
21294500 AACACTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (26 bp):
TACGTCAATAATATGGTCAATACTCA
Found at i:21295276 original size:23 final size:22
Alignment explanation
Indices: 21295241--21295284 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
21295231 TAATTATAAT
*
21295241 TTCAATATGATTTAATAATTAA
1 TTCAATATGATTTAACAATTAA
*
21295263 TTCAATATTTATTTAACAATTA
1 TTCAATA-TGATTTAACAATTA
21295285 TATTGCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (22 bp):
TTCAATATGATTTAACAATTAA
Found at i:21298567 original size:23 final size:23
Alignment explanation
Indices: 21298534--21298669 Score: 154
Period size: 23 Copynumber: 6.0 Consensus size: 23
21298524 GAGCTGATGG
21298534 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
* *
21298557 ACGGTAAGCTCTATCGAGCTG-A
1 ACAGTAAGCTCTATTGAGCTGAA
*
21298579 ACAGTAAGCTCTATTAAGCTG-A
1 ACAGTAAGCTCTATTGAGCTGAA
*
21298601 ACAGTAAGCTC-ATACGAGCTGAA
1 ACAGTAAGCTCTAT-TGAGCTGAA
* * *
21298624 ACGGTAAGCTCCAATGAGCTGAAA
1 ACAGTAAGCTCTATTGAGCTG-AA
21298648 ACAGTAAGCTCT-TATGAGCTGA
1 ACAGTAAGCTCTAT-TGAGCTGA
21298670 TATATTGGTA
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.02
22 36 0.38
23 37 0.39
24 20 0.21
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
ACAGTAAGCTCTATTGAGCTGAA
Found at i:21298585 original size:45 final size:45
Alignment explanation
Indices: 21298534--21298669 Score: 170
Period size: 45 Copynumber: 3.0 Consensus size: 45
21298524 GAGCTGATGG
*
21298534 ACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATCGAGCTGA
1 ACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTATCGAGCTGA
*
21298579 ACAGTAAGCTCTATTAAGCTG-AACAGTAAGCTC-ATACGAGCTGAA
1 ACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTAT-CGAGCTG-A
* * *
21298624 ACGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTAT-GAGCTGA
1 ACAGTAAGCTCTATTGAGCTG-AAACAGTAAGCTC-TATCGAGCTGA
21298670 TATATTGGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
43 2 0.03
44 18 0.23
45 38 0.48
46 1 0.01
47 18 0.23
49 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (45 bp):
ACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTATCGAGCTGA
Found at i:21299199 original size:14 final size:14
Alignment explanation
Indices: 21299182--21299208 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21299172 TGTCCACTAG
21299182 TATTATCAATGGTA
1 TATTATCAATGGTA
21299196 TATTATCAATGGT
1 TATTATCAATGGT
21299209 GCAATTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (14 bp):
TATTATCAATGGTA
Found at i:21301300 original size:22 final size:22
Alignment explanation
Indices: 21301270--21301311 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21301260 GGTAAGACAC
*
21301270 AGAATAGATCAG-ATACAGATGT
1 AGAACAGATCAGTAT-CAGATGT
21301292 AGAACAGATCAGTATCAGAT
1 AGAACAGATCAGTATCAGAT
21301312 ACAATTTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (22 bp):
AGAACAGATCAGTATCAGATGT
Found at i:21303923 original size:11 final size:11
Alignment explanation
Indices: 21303909--21303934 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21303899 AAAAAATCAG
21303909 AATAAAATAAT
1 AATAAAATAAT
21303920 AATAAAATAAT
1 AATAAAATAAT
21303931 AATA
1 AATA
21303935 GTTGATAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:21311952 original size:8 final size:8
Alignment explanation
Indices: 21311939--21311968 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
21311929 TGACTTGGGG
21311939 AGAAGAGA
1 AGAAGAGA
21311947 AGAAGAGA
1 AGAAGAGA
*
21311955 GGAAGAGA
1 AGAAGAGA
21311963 AGAAGA
1 AGAAGA
21311969 AATAAATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (8 bp):
AGAAGAGA
Found at i:21318375 original size:19 final size:22
Alignment explanation
Indices: 21318336--21318375 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
21318326 AGAAACCCAA
21318336 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
21318358 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
21318376 GTGTAGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:21318473 original size:27 final size:28
Alignment explanation
Indices: 21318437--21318576 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
21318427 AGCATGGCTG
* *
21318437 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
21318463 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
21318491 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
21318518 CCAGAT-CATATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
21318545 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
21318572 CCAGA
1 CCAGA
21318577 ATGCTTTCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:21320231 original size:26 final size:26
Alignment explanation
Indices: 21320195--21320304 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
21320185 CATGAAATTC
21320195 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
21320221 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
21320247 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
21320273 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
21320299 TTATCA
1 TTATCA
21320305 ATTTTTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:21326046 original size:4 final size:4
Alignment explanation
Indices: 21326037--21326071 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
21326027 TCTAAGAAAA
21326037 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
21326072 TTAGTAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:21326970 original size:13 final size:13
Alignment explanation
Indices: 21326952--21326978 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21326942 TAAGCCACAC
21326952 CACACGGGCGTGT
1 CACACGGGCGTGT
21326965 CACACGGGCGTGT
1 CACACGGGCGTGT
21326978 C
1 C
21326979 CCTATCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:21328855 original size:57 final size:58
Alignment explanation
Indices: 21328756--21328896 Score: 135
Period size: 57 Copynumber: 2.4 Consensus size: 58
21328746 ATGTATACAA
** ** * * *
21328756 CAGGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCT-A-AGGAGCTT-GAT
1 CAGGATTACCAGTCTGGGCTAAATCCAATCTATAACAGATGCT-TGAGAGGA-CTTAGAT
* * *
21328813 CTGGATTACCTGTCTGGGCTAAATCCAATCTATAACAGATGCTTGAGAGGACTTATAT
1 CAGGATTACCAGTCTGGGCTAAATCCAATCTATAACAGATGCTTGAGAGGACTTAGAT
* *
21328871 CAGGATTACCCGTTTGGGCTAAATCC
1 CAGGATTACCAGTCTGGGCTAAATCC
21328897 TTTTTGTAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
56 1 0.01
57 38 0.56
58 29 0.43
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (58 bp):
CAGGATTACCAGTCTGGGCTAAATCCAATCTATAACAGATGCTTGAGAGGACTTAGAT
Found at i:21330489 original size:21 final size:21
Alignment explanation
Indices: 21330465--21330507 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
21330455 GCTAAATCTT
21330465 AATATCTATC-AGAGAAATAAC
1 AATATCTATCGA-AGAAATAAC
21330486 AATATCTATCGAAGAAATAAC
1 AATATCTATCGAAGAAATAAC
21330507 A
1 A
21330508 TGTGATGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.23
Consensus pattern (21 bp):
AATATCTATCGAAGAAATAAC
Found at i:21333237 original size:15 final size:15
Alignment explanation
Indices: 21333217--21333246 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21333207 TAGAGTATTT
21333217 TAGTACAGTCTACTA
1 TAGTACAGTCTACTA
21333232 TAGTACAGTCTACTA
1 TAGTACAGTCTACTA
21333247 CCTATAGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (15 bp):
TAGTACAGTCTACTA
Found at i:21346114 original size:37 final size:37
Alignment explanation
Indices: 21346073--21346147 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
21346063 ACTCTCTTTC
21346073 TTTTCTTTTCTCTTTATAATTAGTCCTCTCCTTTTTT
1 TTTTCTTTTCTCTTTATAATTAGTCCTCTCCTTTTTT
21346110 TTTTCTTTTCTCTTTATAATTAGTCCTCTCCTTTTTT
1 TTTTCTTTTCTCTTTATAATTAGTCCTCTCCTTTTTT
21346147 T
1 T
21346148 ATCTTCTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.11, C:0.21, G:0.03, T:0.65
Consensus pattern (37 bp):
TTTTCTTTTCTCTTTATAATTAGTCCTCTCCTTTTTT
Found at i:21348358 original size:18 final size:18
Alignment explanation
Indices: 21348335--21348371 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21348325 CACATCTGGA
21348335 AGGTAAAATTGAAGATCT
1 AGGTAAAATTGAAGATCT
21348353 AGGTAAAATTGAAGATCT
1 AGGTAAAATTGAAGATCT
21348371 A
1 A
21348372 CTAGTAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (18 bp):
AGGTAAAATTGAAGATCT
Found at i:21357497 original size:21 final size:21
Alignment explanation
Indices: 21357471--21357527 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
21357461 CTTGTCCCTA
*
21357471 CTTCACACGGGCGTGTGC-CT
1 CTTCACACGGGCGTGTGCACC
21357491 CTATCACAC-GGCTGTGTGCTACC
1 CT-TCACACGGGC-GTGTGC-ACC
21357514 CTTCACACGGGCGT
1 CTTCACACGGGCGT
21357528 TTGTACCCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 5 0.16
21 12 0.39
22 8 0.26
23 6 0.19
ACGTcount: A:0.14, C:0.35, G:0.26, T:0.25
Consensus pattern (21 bp):
CTTCACACGGGCGTGTGCACC
Found at i:21358577 original size:25 final size:25
Alignment explanation
Indices: 21358557--21358617 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
21358547 TGAAATTCCT
21358557 GATTGACTGTTCAAATAAAATGCCC
1 GATTGACTGTTCAAATAAAATGCCC
* * * * * *
21358582 GATTGAGTGTTCGATTGACATGTCC
1 GATTGACTGTTCAAATAAAATGCCC
21358607 GATTGACTGTT
1 GATTGACTGTT
21358618 TGACAATGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (25 bp):
GATTGACTGTTCAAATAAAATGCCC
Found at i:21360022 original size:24 final size:24
Alignment explanation
Indices: 21359995--21360201 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
21359985 CTTATTATGT
* * *
21359995 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
21360019 TCGCACACATAGTGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
21360043 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
21360067 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
21360091 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
21360115 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
21360139 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
21360163 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
21360187 TCGCACACATAGTGC
1 TCGCACACATAGTGC
21360202 ATTTGAGATA
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:21361713 original size:24 final size:24
Alignment explanation
Indices: 21361681--21361726 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
21361671 TTGATTGACC
21361681 CATATGACTGTAAAGTACATATAG
1 CATATGACTGTAAAGTACATATAG
21361705 CATATGACTGTAAAGTACATAT
1 CATATGACTGTAAAGTACATAT
21361727 GGTGTGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (24 bp):
CATATGACTGTAAAGTACATATAG
Found at i:21364273 original size:49 final size:49
Alignment explanation
Indices: 21364204--21364356 Score: 279
Period size: 49 Copynumber: 3.1 Consensus size: 49
21364194 GTACATAATA
21364204 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
21364253 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * *
21364302 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
21364351 ATATAT
1 ATATAT
21364357 ATATATGTGG
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 101 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.31
Consensus pattern (49 bp):
ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:21364484 original size:37 final size:36
Alignment explanation
Indices: 21364429--21364515 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
21364419 AACTTGGAAA
21364429 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
*
21364467 TATGTCCGGGTACGACCCGATGACTGCGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
21364504 TATGTCCGGGTA
1 TATGTCCGGGTA
21364516 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:21369518 original size:25 final size:25
Alignment explanation
Indices: 21369490--21369568 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
21369480 ACTCGGCCCT
21369490 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** *** *
21369515 ATCACAT-TGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
*
21369537 ATCACACATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
21369562 ATCACAT
1 ATCACAT
21369569 CGGCCATTAG
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 6 0.17
23 8 0.23
24 8 0.23
25 13 0.37
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:21369615 original size:49 final size:48
Alignment explanation
Indices: 21369440--21369760 Score: 459
Period size: 49 Copynumber: 6.7 Consensus size: 48
21369430 CCCTTCGGGA
* * * * * *
21369440 CTTATCACAT-TTATACATTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21369487 CCTATCACATA-TATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21369534 CTTATCACACA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21369581 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21369630 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21369679 CTTATCACATATATATACGCTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21369728 CTTATCACATATTTATACACATTCACATTCATC
1 CTTATCACATA-TTATACACTTTCACATTCATC
21369761 GCGTAGAATC
Statistics
Matches: 255, Mismatches: 15, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
47 94 0.37
49 160 0.63
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21390165 original size:43 final size:43
Alignment explanation
Indices: 21390117--21390212 Score: 192
Period size: 43 Copynumber: 2.2 Consensus size: 43
21390107 CAAATAGATT
21390117 ACTAGTCATTACATGTACCATCTAGTACTAATCTCTTTCTCTA
1 ACTAGTCATTACATGTACCATCTAGTACTAATCTCTTTCTCTA
21390160 ACTAGTCATTACATGTACCATCTAGTACTAATCTCTTTCTCTA
1 ACTAGTCATTACATGTACCATCTAGTACTAATCTCTTTCTCTA
21390203 ACTAGTCATT
1 ACTAGTCATT
21390213 CTTTTATCCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (43 bp):
ACTAGTCATTACATGTACCATCTAGTACTAATCTCTTTCTCTA
Found at i:21393263 original size:30 final size:29
Alignment explanation
Indices: 21393227--21393287 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
21393217 TTCCCGAGCC
21393227 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATG-AAAAGTT
* * *
21393257 TAGGGGCAAAATTGTAATTTTGAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAGTT
21393286 TA
1 TA
21393288 AGTTAAGGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAAATATGAAAAGTT
Found at i:21395193 original size:30 final size:31
Alignment explanation
Indices: 21395116--21395198 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
21395106 TCAACCTCAA
21395116 CATAT-ACTGGGCCGAAG-CTATTGCATTATT
1 CATATCACTGGGCCGAAGCCT-TTGCATTATT
* * *
21395146 CATGTCCCTGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
*
21395176 CATATCACTGGGTCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
21395199 ACTGTAACCG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 25 0.56
31 18 0.40
32 2 0.04
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:21395439 original size:24 final size:25
Alignment explanation
Indices: 21395412--21395489 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
21395402 GCCTAGCCTC
* *
21395412 TTTTAAT-AACTATGGCGAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
* *
21395436 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
* * *
21395461 TTTCAGTAAACTGGGGCAAAAGCCCT
1 TTTTAATAAACTAGGGC-AAAGCCCT
21395487 TTT
1 TTT
21395490 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.13
25 28 0.62
26 11 0.24
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:21395457 original size:25 final size:27
Alignment explanation
Indices: 21395429--21395489 Score: 92
Period size: 25 Copynumber: 2.4 Consensus size: 27
21395419 AACTATGGCG
*
21395429 AAGCCCTTTTTGA-TAAACTGGGGC-A
1 AAGCCCTTTTTCAGTAAACTGGGGCAA
21395454 AAGCCC-TTTTCAGTAAACTGGGGCAA
1 AAGCCCTTTTTCAGTAAACTGGGGCAA
21395480 AAGCCCTTTT
1 AAGCCCTTTT
21395490 GCACTTCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 5 0.16
25 17 0.53
26 7 0.22
27 3 0.09
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (27 bp):
AAGCCCTTTTTCAGTAAACTGGGGCAA
Found at i:21395568 original size:11 final size:11
Alignment explanation
Indices: 21395537--21395574 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
21395527 AAATGAATAC
21395537 ATCATGTGCAT
1 ATCATGTGCAT
21395548 ATCAT-T-CAT
1 ATCATGTGCAT
21395557 ATCATGTGCAT
1 ATCATGTGCAT
21395568 ATCATGT
1 ATCATGT
21395575 CCAATCGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.32
10 2 0.08
11 15 0.60
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:21397676 original size:39 final size:39
Alignment explanation
Indices: 21397622--21397772 Score: 230
Period size: 39 Copynumber: 3.8 Consensus size: 39
21397612 AATGTTCGAG
*
21397622 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGAGCTAAGCCCGAAGGCAATTGTGCGAGCTA
21397661 TGATATCCGAGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGAGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
21397700 TGATACCCGAGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGAGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
21397739 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 TGATATCCGAGCTAAG-CCCGAAGGCAATTGTGC
21397773 TGGTTACCAT
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 87 0.84
40 16 0.16
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGAGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:21404932 original size:39 final size:39
Alignment explanation
Indices: 21404878--21405029 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
21404868 AATGTTCGAG
*
21404878 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
21404917 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
21404956 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
21404995 TGATATCTGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
21405030 GGTTACCATA
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 87 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:21405054 original size:40 final size:39
Alignment explanation
Indices: 21404878--21405059 Score: 211
Period size: 39 Copynumber: 4.6 Consensus size: 39
21404868 AATGTTCGAG
* * *
21404878 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
21404917 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
21404956 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * * *
21404995 TGATATCTGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** *
21405035 CCATAACCGGGCTATGTCCCGAAGG
1 TGATAACCGGGCTAAG-CCCGAAGG
21405060 TGTTTTGAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 87 0.69
40 39 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:21410059 original size:30 final size:31
Alignment explanation
Indices: 21409989--21410071 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
21409979 TCAATCTCAA
*
21409989 CATAT-ACTGGGCCGAAGCATTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* *
21410019 CATGTCACTGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
21410049 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
21410072 ACTGTAACTG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 27 0.56
31 21 0.44
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:21414030 original size:30 final size:29
Alignment explanation
Indices: 21413996--21414056 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
21413986 ATTCCCGAGC
21413996 TTAGGGGCAAAAGTGTAAATATGCAAAAGT
1 TTAGGGGCAAAAGTGTAAATATG-AAAAGT
* * *
21414026 TTAGGGGCAAAATTGTAATTTTGAAAAGT
1 TTAGGGGCAAAAGTGTAAATATGAAAAGT
21414055 TT
1 TT
21414057 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (29 bp):
TTAGGGGCAAAAGTGTAAATATGAAAAGT
Found at i:21414835 original size:68 final size:66
Alignment explanation
Indices: 21414763--21414909 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 66
21414753 CATCATGTGT
* * * *
21414763 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
21414826 TGTAG
62 TGTAG
** * *
21414831 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
21414896 AG
65 AG
21414898 ACAAGAGAGCTA
1 ACAAGAGAGCTA
21414910 TGAGATAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.35
65 3 0.04
66 4 0.06
67 24 0.35
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:21414868 original size:64 final size:64
Alignment explanation
Indices: 21414787--21414970 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
21414777 AGACATTATG
* * *
21414787 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
21414851 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
21414916 AA
63 AA
* * *
21414918 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
21414971 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:21422340 original size:49 final size:49
Alignment explanation
Indices: 21422220--21422393 Score: 135
Period size: 49 Copynumber: 3.6 Consensus size: 49
21422210 AAATGCCAAT
* * * * * *
21422220 GCCATGTCCCAAACATGGTCTTACACTGGCTTATC-CATC-A-AGTCGAT
1 GCCATGTGCCAGACATGGTCTTACACTGGC-TATCAAATCTACTGCCGAC
* * *
21422267 GCCATGT-CTCGGACAAGGTATTACACTGGCTATCGAAAT-TGA-TGCCGAC
1 GCCATGTGC-CAGACATGGTCTTACACTGGCTATC-AAATCT-ACTGCCGAC
* * * *
21422316 GCCATGTTCCAGACATGGTCTTACACTGGCTCTCACATCTACGTGCCGAT
1 GCCATGTGCCAGACATGGTCTTACACTGGCTATCAAATCTAC-TGCCGAC
*
21422366 GTCATGTGCCAGACATGGTCTTACACTG
1 GCCATGTGCCAGACATGGTCTTACACTG
21422394 ACACATCTCA
Statistics
Matches: 102, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
46 5 0.05
47 24 0.24
48 6 0.06
49 34 0.33
50 33 0.32
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (49 bp):
GCCATGTGCCAGACATGGTCTTACACTGGCTATCAAATCTACTGCCGAC
Done.