Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 45 of 373
Found at i:13059739 original size:6 final size:6
Alignment explanation
Indices: 13059730--13059813 Score: 50
Period size: 6 Copynumber: 13.8 Consensus size: 6
13059720 ATTTTGTTAC
* * *
13059730 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
13059779 -TG-TCAC CTAATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGAT--T CTGATT CTGATT CTGATT CTGA-TT CTGAT
13059814 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
4 1 0.02
5 5 0.08
6 47 0.78
7 5 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:13059762 original size:31 final size:31
Alignment explanation
Indices: 13059707--13059779 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 31
13059697 TTGCATTCAA
* *
13059707 ATTCTGATTTTTTATTTTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
13059739 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
13059770 ATTCTGATTT
1 ATTCTGATTT
13059780 GTCACCTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 32 0.82
32 7 0.18
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:13059794 original size:24 final size:25
Alignment explanation
Indices: 13059739--13059804 Score: 89
Period size: 24 Copynumber: 2.7 Consensus size: 25
13059729 CCTGATACTG
* * *
13059739 ATTCTGATTTTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
*
13059764 ATACTGATTCTGATT-TGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
13059788 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
13059805 AGTTCTGATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 21 0.60
25 14 0.40
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:13062558 original size:78 final size:78
Alignment explanation
Indices: 13062425--13062576 Score: 252
Period size: 78 Copynumber: 1.9 Consensus size: 78
13062415 GAGTCACATC
*
13062425 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTT-AGATTACCA
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAG-TTACCA
13062489 TAATGAATCATATA
65 TAATGAATCATATA
**
13062503 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCTGCCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
13062568 AGTGAATCA
66 AATGAATCA
13062577 AGAATAAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 67 0.97
79 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:13062605 original size:40 final size:40
Alignment explanation
Indices: 13062541--13062678 Score: 168
Period size: 40 Copynumber: 3.5 Consensus size: 40
13062531 CTTTTCAGGT
** * *
13062541 CAAATCCTATCTGCCTTAAGTTACCATAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * *
13062581 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * **
13062621 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
*
13062661 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
13062679 TATTCTCGAG
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
Found at i:13064979 original size:23 final size:23
Alignment explanation
Indices: 13064957--13065001 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13064947 TGATTTGTTA
13064957 AGAGTTTTT-TAGGGTTAGGGTT
1 AGAGTTTTTATAGGGTTAGGGTT
* * *
13064979 AGGGTTTTTATTGGTTTAGGGTT
1 AGAGTTTTTATAGGGTTAGGGTT
13065002 TTTGAGAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.49
Consensus pattern (23 bp):
AGAGTTTTTATAGGGTTAGGGTT
Found at i:13069701 original size:24 final size:24
Alignment explanation
Indices: 13069673--13069724 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
13069663 CCTTCATACC
* *
13069673 CATATACACATGAA-CACATCCATA
1 CATATACACA-AAAGCACATACATA
13069697 CATATACACAAAAGCACATACATA
1 CATATACACAAAAGCACATACATA
13069721 CATA
1 CATA
13069725 CCTTCCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.50, C:0.27, G:0.04, T:0.19
Consensus pattern (24 bp):
CATATACACAAAAGCACATACATA
Found at i:13073642 original size:56 final size:56
Alignment explanation
Indices: 13073376--13073639 Score: 377
Period size: 56 Copynumber: 4.7 Consensus size: 56
13073366 GAAGTATATG
* * *
13073376 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACATTTCATATGT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* *
13073432 TGGCATCGATATGTGACTCTGATATAAGTGTGCTAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* * * *
13073488 TGGCGTCGATATGTGA-TACCGATATATGTGTACGAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGACT-CTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* * *
13073544 TGGCATCGATATGTGACTCTGATATATGTATGCGAGTAAGACCACGTTTAATACTT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* * *
13073600 TGGCATCGATATGTGATTCTGGTATATGTGTACGAGTAAG
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAG
13073640 ACCCTATATG
Statistics
Matches: 184, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
55 1 0.01
56 182 0.99
57 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
Found at i:13073660 original size:112 final size:111
Alignment explanation
Indices: 13073376--13073671 Score: 350
Period size: 112 Copynumber: 2.6 Consensus size: 111
13073366 GAAGTATATG
* * *
13073376 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCAC-ATTTCA-TATGTTGGCATC
1 TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACTATAT-AGTA-G-TGGCATC
* * *
13073439 GATATGTGACTCTGATATAAGTGTGCTAGTAAGTCCACGTTTAATACGT
63 GATATGTGACTCTGATATAAGTATGCGAGTAAGACCACGTTTAATACGT
* * * *
13073488 TGGCGTCGATATGTGATACCGATATATGTGTACGAGTAAGTCCACGTTTCATACGT--TGGCATC
1 TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGTCCAC-TAT-ATA-GTAGTGGCATC
* *
13073551 GATATGTGACTCTGATATATGTATGCGAGTAAGACCACGTTTAATACTT
63 GATATGTGACTCTGATATAAGTATGCGAGTAAGACCACGTTTAATACGT
* *
13073600 TGGCATCGATATGTGATTCTGGTATATGTGTACGAGTAAGACC-CTATATGAGGTAGTGGCATCG
1 TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACTATAT-A-GTAGTGGCATCG
*
13073664 TTATGTGA
64 ATATGTGA
13073672 TTACATGTAA
Statistics
Matches: 156, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
109 2 0.01
110 5 0.03
111 1 0.01
112 144 0.92
114 2 0.01
115 1 0.01
116 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (111 bp):
TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACTATATAGTAGTGGCATCGAT
ATGTGACTCTGATATAAGTATGCGAGTAAGACCACGTTTAATACGT
Found at i:13090707 original size:45 final size:45
Alignment explanation
Indices: 13090598--13090779 Score: 246
Period size: 45 Copynumber: 4.1 Consensus size: 45
13090588 TTTTATCAAA
* *
13090598 TCACCGGCAT-TTAGCCTGCTAGGCTCAAA-GCCCGAAT--CATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* * ** *
13090639 TCACTGGCATTATAGCCTGCTAGGCTTGAAGGCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* *
13090684 TCACCGGCATCATAGCCTACTAGGCTCAAAGACCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
*
13090729 TCACCGGCATCATAACCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
13090774 TCACCG
1 TCACCG
13090780 ATAGTTCATC
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 9 0.07
42 16 0.13
43 8 0.07
45 88 0.73
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
Found at i:13094650 original size:108 final size:108
Alignment explanation
Indices: 13094507--13094705 Score: 276
Period size: 108 Copynumber: 1.8 Consensus size: 108
13094497 TCCTTTTGAA
* ** *
13094507 ACTTACCATTGCCATGTCTCGACATGGTTTTACATGGTATCCTTGCCTTATG-AACTCACCAA-T
1 ACTTACCAATGCCATGTCTCGACATGGCCTTACATGATATCCTTG-CTTA-GAAACTCACCAATT
13094570 GCCATGCATTGACATGGTCTTACATGGGACCTTTGCCTTATAGAC
64 GCCATGCATTGACATGGTCTTACATGGGACCTTTGCCTTATAGAC
* * *
13094615 ACTTATCAATGCCATGTCTTGACATGGCCTTACATGATATCCTTGCTTAGAAAACTTACCAATTG
1 ACTTACCAATGCCATGTCTCGACATGGCCTTACATGATATCCTTGCTTAG-AAACTCACCAATTG
* *
13094680 CCATGCCTTGGCATGGTCTTACATGG
65 CCATGCATTGACATGGTCTTACATGG
13094706 TATCCTTAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
106 1 0.01
107 4 0.05
108 48 0.61
109 26 0.33
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (108 bp):
ACTTACCAATGCCATGTCTCGACATGGCCTTACATGATATCCTTGCTTAGAAACTCACCAATTGC
CATGCATTGACATGGTCTTACATGGGACCTTTGCCTTATAGAC
Found at i:13100310 original size:46 final size:46
Alignment explanation
Indices: 13100163--13100310 Score: 121
Period size: 46 Copynumber: 3.2 Consensus size: 46
13100153 CTAACCCGCC
**
13100163 CCTAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGC-CTAGTTACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTC-A---ACAT
* * * *
13100212 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGCACAT--TC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTT--CAGATGCTCAACAT
13100255 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAA-CAT
13100303 CCT-AGTGA
1 CCTAAGTGA
13100311 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 23
0.71 0.09 0.21
Matches are distributed among these distances:
43 3 0.04
44 5 0.06
45 2 0.03
46 32 0.41
47 26 0.33
48 9 0.11
49 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACAT
Found at i:13107648 original size:46 final size:45
Alignment explanation
Indices: 13107579--13107751 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
13107569 GTAACCCGCC
13107579 CCTAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCGCAT
*
13107624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * ** *
13107674 -CTCA-CGAACTCGGACTCAACTCAACAAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
13107717 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCG
13107752 AATGCTCAAC
Statistics
Matches: 106, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 6 0.06
46 56 0.53
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:13107698 original size:93 final size:93
Alignment explanation
Indices: 13107586--13107756 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
13107576 GCCCCTAAGT
* ** *
13107586 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACAAG-TTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
13107650 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGAATGCCTAGTTACATCTCAC
*
13107679 GAACTCGGACTCAACTCAACAAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13107744 CGAGTTCGAATGC
66 CGAGTTCGAATGC
13107757 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:13107772 original size:46 final size:46
Alignment explanation
Indices: 13107579--13107772 Score: 150
Period size: 46 Copynumber: 4.2 Consensus size: 46
13107569 GTAACCCGCC
*** * *
13107579 CCTAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAG-TTCGAATGCTCAACAT
*
13107624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTC-A---ACAT
* * * *** *
13107674 -CTCA-CGAACTCGGACTCAACTCAACAAGTTCGAACATTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACAT
13107717 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAA-CAT
13107765 CCT-AGTGA
1 CCTAAGTGA
13107773 CATGTCACTT
Statistics
Matches: 117, Mismatches: 19, Indels: 25
0.73 0.12 0.16
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 7 0.06
46 66 0.56
47 28 0.24
48 8 0.07
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACAT
Found at i:13113230 original size:28 final size:28
Alignment explanation
Indices: 13113190--13113271 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
13113180 GGAGGAAGCG
13113190 TTCTAGTGGCTATGCCACAAATATCTGT
1 TTCTAGTGGCTATGCCACAAATATCTGT
13113218 TTCTAGTGGCTATGCCACAAATATCTG-
1 TTCTAGTGGCTATGCCACAAATATCTGT
* *
13113245 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTAGTGGCTATGCCACAAATATCTGT
13113272 ATCTGGTGAC
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
26 8 0.16
27 16 0.31
28 27 0.53
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (28 bp):
TTCTAGTGGCTATGCCACAAATATCTGT
Found at i:13113260 original size:27 final size:26
Alignment explanation
Indices: 13113189--13113312 Score: 131
Period size: 27 Copynumber: 4.6 Consensus size: 26
13113179 TGGAGGAAGC
*
13113189 GTTCTAGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
13113216 GTTTCTAGTGGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
13113244 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
13113270 GTATCTGGTGACTCTGTCGCAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
* *
13113297 ATTCTGGTAGCTATGC
1 GTTCTGGTGGCTATGC
13113313 TGCAATTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 19 0.22
27 39 0.46
28 27 0.32
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:13117463 original size:255 final size:255
Alignment explanation
Indices: 13117012--13117519 Score: 838
Period size: 255 Copynumber: 2.0 Consensus size: 255
13117002 TACTCAGCCG
*
13117012 TGTGCAATTCTGACTTGGATTAATGTCGACATGGCAATGACACACGGGCGTGTGGCCTACCCGTG
1 TGTGCAATTCTGACTTGGATTAATGTCGACACGGCAATGACACACGGGCGTGTGGCCTACCCGTG
* * * *
13117077 TGTCACACACGGACGTGTGAATCACCCATGTAGAAGTGCTCAGGCCGTGTGAAACACTGATTTAG
66 TGTCACACACGGACATGTGAATCACCCATGTAGAAGTGCCCAGGCCATGTGAAACACTAATTTAG
13117142 GCCCAATTTGTCCTTTCTTGGCCCGTTTCTTGCTCATTTCGCCATCCTAAGCTCTCCTGAGTATA
131 GCCCAATTTGTCCTTTCTTGGCCCGTTTCTTGCTCATTTCGCCATCCTAAGCTCTCCTGAGTATA
* *
13117207 AAACATGAAATTAAAGGATTAGGACCATCAAATTCAATGAAACTAAGGAAATATCATCTA
196 AAACATGAAATTAAAGGATTAGGACCATCAAATTCAATGAAACCAAGGAAAAATCATCTA
* * *
13117267 TGTGCAATTCTGACTTGGATTAATGTCGACACGGCCATGACACACGGGCGTGTGGTCTACCTGTG
1 TGTGCAATTCTGACTTGGATTAATGTCGACACGGCAATGACACACGGGCGTGTGGCCTACCCGTG
* * * * *
13117332 TGTCACACACGGACATGTTAATCACCCGTGTGGAAGTGCCCAGGTCATGTGAAATACTAATTTAG
66 TGTCACACACGGACATGTGAATCACCCATGTAGAAGTGCCCAGGCCATGTGAAACACTAATTTAG
* *
13117397 GCCCAATTTGTCCGTTT-TTGGCCCGTTTCTTGCTCATTTCTCCATCCTAAGCTCTTCTGAGTAT
131 GCCCAATTTGTCC-TTTCTTGGCCCGTTTCTTGCTCATTTCGCCATCCTAAGCTCTCCTGAGTAT
*
13117461 AAAACATGAAATTAAAGGATTAGGAGCATCAAATTCAATGAAACCAAGGAAAAATCATC
195 AAAACATGAAATTAAAGGATTAGGACCATCAAATTCAATGAAACCAAGGAAAAATCATC
13117520 CATAAATATG
Statistics
Matches: 234, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
255 231 0.99
256 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (255 bp):
TGTGCAATTCTGACTTGGATTAATGTCGACACGGCAATGACACACGGGCGTGTGGCCTACCCGTG
TGTCACACACGGACATGTGAATCACCCATGTAGAAGTGCCCAGGCCATGTGAAACACTAATTTAG
GCCCAATTTGTCCTTTCTTGGCCCGTTTCTTGCTCATTTCGCCATCCTAAGCTCTCCTGAGTATA
AAACATGAAATTAAAGGATTAGGACCATCAAATTCAATGAAACCAAGGAAAAATCATCTA
Found at i:13135464 original size:27 final size:27
Alignment explanation
Indices: 13135434--13135669 Score: 355
Period size: 27 Copynumber: 8.7 Consensus size: 27
13135424 TATTGAAATG
* * * *
13135434 CCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
13135461 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
13135488 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
13135515 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
13135542 CCCTCGATTTATAGAATTACCATTTTG
1 CCCTCGATTTATAGAATTACCATTTTA
* *
13135569 CCCTCGATTTATAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
13135596 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
13135623 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
13135650 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
13135670 TAAAATACCC
Statistics
Matches: 193, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 193 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:13135678 original size:27 final size:27
Alignment explanation
Indices: 13135486--13135787 Score: 194
Period size: 27 Copynumber: 11.2 Consensus size: 27
13135476 ATTATCGTTT
* ***
13135486 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
13135513 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
13135540 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * * ****
13135567 TGCCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
13135594 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * ***
13135621 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* *
13135648 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
13135675 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
13135702 TATCCTCGATCGGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
13135729 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
13135756 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
13135783 TACCC
1 TACCC
13135788 CTGGCTTGTA
Statistics
Matches: 243, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 242 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:13135679 original size:81 final size:81
Alignment explanation
Indices: 13135414--13135698 Score: 304
Period size: 81 Copynumber: 3.5 Consensus size: 81
13135404 ACAAGAGCGT
* * * * * * *
13135414 TTTACCAAATTATTGAAATGCCCTCAATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATT
1 TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATT
* *
13135479 ATCGTTTTACCCTCGA
66 ACCATTTTACCCTCGA
* * * *** * *
13135495 TTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATT
1 TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATT
*
13135560 ACCATTTTGCCCTCGA
66 ACCATTTTACCCTCGA
* * ** *
13135576 TTTATAGAATTATCGT--TTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAA
1 TTTACAAAATTA-C-TAAAATACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAA
13135639 TTACCATTTTACCCTCGA
64 TTACCATTTTACCCTCGA
* * *
13135657 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCA
13135699 AAATATCCTC
Statistics
Matches: 171, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 168 0.98
82 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATT
ACCATTTTACCCTCGA
Found at i:13135788 original size:27 final size:27
Alignment explanation
Indices: 13135662--13135843 Score: 188
Period size: 27 Copynumber: 6.8 Consensus size: 27
13135652 CTCGATTTAC
* * **
13135662 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
13135689 AAAATTACCAAAATA-TCCTCGATCGGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
13135716 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
13135743 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
13135770 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
13135797 AAAATTTCTAAAATAACCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
13135824 AAAA-TATCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
13135844 TAGGGTAGAA
Statistics
Matches: 126, Mismatches: 27, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
26 13 0.10
27 110 0.87
28 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:13135799 original size:81 final size:81
Alignment explanation
Indices: 13135662--13135828 Score: 210
Period size: 81 Copynumber: 2.1 Consensus size: 81
13135652 CTCGATTTAC
* * *
13135662 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATATCCTCGATCGGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATCGGTAAAATTACCAA
* *
13135727 AATACCCCTGGTTTGT
66 AATAACCCTGATTTGT
** * * * * *
13135743 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGCT-TGTAAAATTTCTA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATA-CCCTCGATCGGTAAAATTACCA
13135807 AAATAACCCTGATTTGT
65 AAATAACCCTGATTTGT
13135824 AAAAT
1 AAAAT
13135829 ATCGAAATAC
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 68 0.93
82 5 0.07
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATCGGTAAAATTACCAA
AATAACCCTGATTTGT
Found at i:13135892 original size:27 final size:27
Alignment explanation
Indices: 13135831--13136073 Score: 335
Period size: 27 Copynumber: 9.0 Consensus size: 27
13135821 TGTAAAATAT
13135831 CGAAATACCCCTGTAGGGTAGAA-TAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
13135857 CGAAATACCCCTAAAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
13135884 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
13135911 TGAAATAACCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
13135938 CGAAATACCTCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
13135965 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
13135992 CGAAATACCCTTGTAGGGTAAAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
13136019 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
13136046 CGAGATACCCTTATGGGGTATAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
13136073 C
1 C
13136074 ATTTTGCCCC
Statistics
Matches: 189, Mismatches: 27, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
26 21 0.11
27 168 0.89
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:13136330 original size:24 final size:25
Alignment explanation
Indices: 13136275--13136368 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
13136265 AGGAAGTGCT
*
13136275 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
13136300 AAAAGGGTTTTGCCCCAGTTTA-CG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
13136324 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
13136348 AATAAGGGCTTTGCCCCAGTT
1 AA-AAGGGCTTTGCCCCAGTT
13136369 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
24 25 0.39
25 39 0.61
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:13136331 original size:49 final size:49
Alignment explanation
Indices: 13136275--13136368 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
13136265 AGGAAGTGCT
*
13136275 AAAAGGGCTATGCCCCAGTTTACCGAA-AAGGGTTTTGCCCCAGTTTACG
1 AAAAGGGCTATGCCCCAGTTTACC-AATAAGGGCTTTGCCCCAGTTTACG
* *
13136324 AAAAGGGCTTTGCCCCAGTTTATCAATAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCAATAAGGGCTTTGCCCCAGTT
13136369 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 2 0.05
49 39 0.95
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (49 bp):
AAAAGGGCTATGCCCCAGTTTACCAATAAGGGCTTTGCCCCAGTTTACG
Found at i:13136381 original size:24 final size:24
Alignment explanation
Indices: 13136275--13136404 Score: 127
Period size: 25 Copynumber: 5.2 Consensus size: 24
13136265 AGGAAGTGCT
* *
13136275 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
* *
13136300 AAAAGGGTTTTGCCCCAGTTTACG
1 AAAAGGGCTTTGCCCCAGTTTATG
*
13136324 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATG
*
13136348 AATAAGGGCTTTGCCCCAG-TTATT
1 AA-AAGGGCTTTGCCCCAGTTTATG
**
13136372 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTTTGCC-CCAGTT-TATG
13136399 ATAAAG
1 A-AAAG
13136405 CAGCTATGCT
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.03
24 38 0.42
25 40 0.44
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:13138782 original size:27 final size:27
Alignment explanation
Indices: 13138766--13138933 Score: 239
Period size: 27 Copynumber: 6.2 Consensus size: 27
13138756 CAATTTGTAA
* *
13138766 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
*
13138793 AATTACCGTTTTACCCTCGATTTAGAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
13138820 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
13138847 AATTACCGTTTTACCCTCAATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
13138874 AATTACCGTTTTACCCT-GAATTTATAG
1 AATTACCGTTTTACCCTCG-ATTTACAG
* *
13138901 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
13138928 AATTAC
1 AATTAC
13138934 TAAAATACCA
Statistics
Matches: 127, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 126 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:13138878 original size:81 final size:81
Alignment explanation
Indices: 13138764--13138933 Score: 270
Period size: 81 Copynumber: 2.1 Consensus size: 81
13138754 CTCAATTTGT
* *
13138764 AAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCG-ATTTAGAGAATTACCA
1 AAAATTACCGTTTTACCCTCAATTTACAAAATTACCGTTTTACCCT-GAATTTAGAGAATTACCA
13138828 TTTTACCCTCGATTTAC
65 TTTTACCCTCGATTTAC
* * * *
13138845 AGAATTACCGTTTTACCCTCAATTTATAGAATTACCGTTTTACCCTGAATTTATAGAATTACCAT
1 AAAATTACCGTTTTACCCTCAATTTACAAAATTACCGTTTTACCCTGAATTTAGAGAATTACCAT
13138910 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
13138926 AAAATTAC
1 AAAATTAC
13138934 TAAAATACCA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 80 0.99
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
AAAATTACCGTTTTACCCTCAATTTACAAAATTACCGTTTTACCCTGAATTTAGAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:13138975 original size:27 final size:27
Alignment explanation
Indices: 13138934--13139087 Score: 161
Period size: 27 Copynumber: 5.8 Consensus size: 27
13138924 ACAAAATTAC
*
13138934 TAAAA-TACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
*
13138960 TAAAATTACTAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* *
13138987 TAAAATTACCAAAACACCCCTAGCTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* *
13139014 TAAAATTACCAAAATACCCCTAATTTA
1 TAAAATTACCAAAATACCCCTAGTTTG
* * * * *
13139041 TGAACTTATCAAAATA-CTCTTGATTTG
1 TAAAATTACCAAAATACCCCTAG-TTTG
* *
13139068 TAAAA-TATCGAAATACCCCT
1 TAAAATTACCAAAATACCCCT
13139088 GTAGGGTAGA
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
26 17 0.16
27 88 0.84
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTAGTTTG
Found at i:13139117 original size:27 final size:27
Alignment explanation
Indices: 13139076--13139319 Score: 317
Period size: 27 Copynumber: 9.0 Consensus size: 27
13139066 TGTAAAATAT
13139076 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * **
13139103 TGAAATACCCATGTACAGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
13139130 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** * * *
13139157 TAAAATAACCTTGTAGGGTAGAACTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
13139184 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
13139211 TGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
13139238 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
13139265 CGAAATACCCCAGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
13139292 CGAGATACCCTTGTGGGGTATAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
13139319 C
1 C
13139320 ATTTTGCCCT
Statistics
Matches: 183, Mismatches: 34, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:13139550 original size:25 final size:25
Alignment explanation
Indices: 13139522--13139611 Score: 135
Period size: 25 Copynumber: 3.6 Consensus size: 25
13139512 GGGAAGTGCT
* *
13139522 AAAAGGGCTATACCCTAGTTTACCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
13139547 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
* *
13139572 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
13139597 AAAAGGGCTTTGCCC
1 AAAAGGGCTTTGCCC
13139612 CAATTATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:13139629 original size:24 final size:25
Alignment explanation
Indices: 13139547--13139629 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
13139537 TAGTTTACCA
* * *
13139547 AAAAG-GGCTTTGCCCTAGTTTACC
1 AAAAGAGGCTTTGCCCCAGATTATC
*
13139571 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGATTATC
*
13139596 AAAA-AGGGCTTTGCCCCA-ATTATT
1 AAAAGA-GGCTTTGCCCCAGATTATC
13139620 AAAAGAGGCT
1 AAAAGAGGCT
13139630 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
24 16 0.31
25 35 0.69
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGATTATC
Found at i:13139640 original size:50 final size:50
Alignment explanation
Indices: 13139522--13139641 Score: 118
Period size: 50 Copynumber: 2.4 Consensus size: 50
13139512 GGGAAGTGCT
** * * *
13139522 AAAAGGGCTATACCCTAGTTTACCAAAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGATTACCG
** * **
13139572 AAAAGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCA-ATTA-TT
1 AAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGATTACCG
13139620 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTAGGCC-CCAGTT
13139642 ATATGATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
48 5 0.09
49 10 0.17
50 43 0.74
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGATTACCG
Found at i:13156069 original size:15 final size:15
Alignment explanation
Indices: 13156051--13156092 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
13156041 TCCATAACGG
*
13156051 AGAAATCCAGAATAT
1 AGAAATCCAGAATAA
13156066 AGAAATCCA-ATATAA
1 AGAAATCCAGA-ATAA
13156081 AGAAATCCAGAA
1 AGAAATCCAGAA
13156093 GAAAATATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.17
Consensus pattern (15 bp):
AGAAATCCAGAATAA
Found at i:13164408 original size:41 final size:42
Alignment explanation
Indices: 13164350--13164508 Score: 159
Period size: 41 Copynumber: 3.9 Consensus size: 42
13164340 CGATTCTTAG
* *
13164350 CACTAGCTTAAAAGCCCTTCGAGACCAAGCTCGGATTA-GAC
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGAC
* * *
13164391 CACTGGCTCGAAGGCCCTTC-AGAACTAAG-TCCGG-TTATGA-
1 CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGATTATGAC
* * * * * *
13164431 CACTGGCTCTAAAGCCCTTCGAAACTAAGTTC-GATTATTAG
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGAC
13164472 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATT
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATT
13164509 TAGACCCCGA
Statistics
Matches: 97, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
39 1 0.01
40 36 0.37
41 56 0.58
42 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (42 bp):
CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGAC
Found at i:13169628 original size:27 final size:27
Alignment explanation
Indices: 13169598--13169774 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
13169588 ATATTGAGCC
* * *
13169598 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
13169625 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
13169652 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
13169680 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
13169707 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
13169734 CGCACACTTAGTGCAACATAGTCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
13169760 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13169775 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
26 15 0.12
27 90 0.70
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:13169690 original size:55 final size:54
Alignment explanation
Indices: 13169598--13169774 Score: 205
Period size: 55 Copynumber: 3.3 Consensus size: 54
13169588 ATATTGAGCC
* * * * *
13169598 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
13169652 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
13169707 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTC-AAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
13169760 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13169775 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 16 0.15
54 43 0.41
55 45 0.43
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:13169737 original size:82 final size:80
Alignment explanation
Indices: 13169619--13169773 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 80
13169609 TGCTATATAA
* *
13169619 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-AA-TCGCA
13169684 CACTTAGTGCCGCATGG
64 CACTTAGTGCCGCATGG
* * **
13169701 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAATCGCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCAC
13169765 ACTTAGTGC
65 ACTTAGTGC
13169774 TGTACAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 15 0.23
81 3 0.05
82 48 0.73
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCACA
CTTAGTGCCGCATGG
Found at i:13170337 original size:13 final size:13
Alignment explanation
Indices: 13170319--13170343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13170309 TACTAAATTT
13170319 TCATGGATTCAAG
1 TCATGGATTCAAG
13170332 TCATGGATTCAA
1 TCATGGATTCAA
13170344 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:13177516 original size:27 final size:27
Alignment explanation
Indices: 13177485--13177662 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13177475 TATATTGAGC
* * * *
13177485 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
13177512 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13177539 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
13177567 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
13177594 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
13177621 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13177648 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13177663 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:13177624 original size:82 final size:81
Alignment explanation
Indices: 13177506--13177661 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13177496 TGCTATATAA
* *
13177506 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
13177571 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
13177588 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
13177652 CACTTAGTGC
65 CACTTAGTGC
13177662 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:13178226 original size:13 final size:13
Alignment explanation
Indices: 13178208--13178232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13178198 TACTAAATTT
13178208 TCATGGATTCAAG
1 TCATGGATTCAAG
13178221 TCATGGATTCAA
1 TCATGGATTCAA
13178233 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:13185375 original size:27 final size:27
Alignment explanation
Indices: 13185345--13185522 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13185335 ATATTGAGCC
* * * *
13185345 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
13185372 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13185399 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
13185427 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
13185454 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
13185481 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13185508 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13185523 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:13185484 original size:82 final size:81
Alignment explanation
Indices: 13185366--13185521 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13185356 TGCTATATAA
* *
13185366 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
13185431 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
13185448 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
13185512 CACTTAGTGC
65 CACTTAGTGC
13185522 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:13188720 original size:43 final size:43
Alignment explanation
Indices: 13188672--13188758 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
13188662 TCATTATGTT
13188672 TATATGTGAAATATTTAAATACACATACAAATATATATATATA
1 TATATGTGAAATATTTAAATACACATACAAATATATATATATA
13188715 TATATGTGAAATATTTAAATACACATACAAATATATATATATA
1 TATATGTGAAATATTTAAATACACATACAAATATATATATATA
13188758 T
1 T
13188759 TGTAACAGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.38
Consensus pattern (43 bp):
TATATGTGAAATATTTAAATACACATACAAATATATATATATA
Found at i:13190162 original size:35 final size:35
Alignment explanation
Indices: 13190123--13190249 Score: 146
Period size: 35 Copynumber: 3.6 Consensus size: 35
13190113 ATGGCAAAGT
* *
13190123 TATGATACATAGGTATGGTATTTTCCATACTGATC
1 TATGATACATAGGTATGGTATTTTCCATACCGAGC
* *
13190158 TATGATATATACGTATGGTATTTTCCATACCGAGC
1 TATGATACATAGGTATGGTATTTTCCATACCGAGC
* * * *
13190193 TATAATACGTAGGTATGGTATTTCCCATACCGAGT
1 TATGATACATAGGTATGGTATTTTCCATACCGAGC
* * * *
13190228 TGTGAAACGTAGGTATGATATT
1 TATGATACATAGGTATGGTATT
13190250 AACCATACTG
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 78 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (35 bp):
TATGATACATAGGTATGGTATTTTCCATACCGAGC
Found at i:13190256 original size:35 final size:36
Alignment explanation
Indices: 13190182--13190269 Score: 108
Period size: 35 Copynumber: 2.5 Consensus size: 36
13190172 ATGGTATTTT
* * * **
13190182 CCATACCGAGCTAT-AATACGTAGGTATGGTATTTC
1 CCATACCGAGTTGTGAATACGTAGGTATGATATTAA
13190217 CCATACCGAGTTGTGAA-ACGTAGGTATGATATTAA
1 CCATACCGAGTTGTGAATACGTAGGTATGATATTAA
*
13190252 CCATACTGAGTTGTGAAT
1 CCATACCGAGTTGTGAAT
13190270 CGTGGCATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 43 0.96
36 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (36 bp):
CCATACCGAGTTGTGAATACGTAGGTATGATATTAA
Found at i:13193988 original size:27 final size:27
Alignment explanation
Indices: 13193958--13194011 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
13193948 GACGCAGAGT
13193958 AAGAAGCAAAGAATTACTCAAGGAAAG
1 AAGAAGCAAAGAATTACTCAAGGAAAG
13193985 AAGAAGCAAAGAATTACTCAAGGAAAG
1 AAGAAGCAAAGAATTACTCAAGGAAAG
13194012 CCGATTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (27 bp):
AAGAAGCAAAGAATTACTCAAGGAAAG
Found at i:13195004 original size:13 final size:13
Alignment explanation
Indices: 13194986--13195010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13194976 GCAATTCAAA
13194986 TTTTATTTTTTAT
1 TTTTATTTTTTAT
13194999 TTTTATTTTTTA
1 TTTTATTTTTTA
13195011 AATTTTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:13206039 original size:17 final size:17
Alignment explanation
Indices: 13206017--13206049 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13206007 GGAGGGATAT
*
13206017 GGCAAATAATTAATAAC
1 GGCAAAGAATTAATAAC
13206034 GGCAAAGAATTAATAA
1 GGCAAAGAATTAATAA
13206050 TGTCAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (17 bp):
GGCAAAGAATTAATAAC
Found at i:13206156 original size:15 final size:15
Alignment explanation
Indices: 13206136--13206165 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13206126 AAAATAACAC
13206136 TTTTCATAGTTCAAG
1 TTTTCATAGTTCAAG
13206151 TTTTCATAGTTCAAG
1 TTTTCATAGTTCAAG
13206166 ACAAGATTAA
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:0.13, T:0.47
Consensus pattern (15 bp):
TTTTCATAGTTCAAG
Found at i:13209531 original size:15 final size:15
Alignment explanation
Indices: 13209489--13209531 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 15
13209479 AAGGGGAAGT
13209489 AGGATCGAATCCTCA
1 AGGATCGAATCCTCA
13209504 AGGATTGTCGAATCCTCA
1 AGGA---TCGAATCCTCA
13209522 AGGATCGAAT
1 AGGATCGAAT
13209532 TGTACGAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.40
18 15 0.60
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (15 bp):
AGGATCGAATCCTCA
Found at i:13209675 original size:17 final size:18
Alignment explanation
Indices: 13209655--13209688 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13209645 AAGTGAATTG
13209655 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
13209672 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
13209689 AAGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:13210429 original size:10 final size:10
Alignment explanation
Indices: 13210410--13210459 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
13210400 TGAAATTCTA
13210410 AAAGATAAAT
1 AAAGATAAAT
13210420 ACAA-ATAAAT
1 A-AAGATAAAT
*
13210430 AAAGATAATT
1 AAAGATAAAT
13210440 AAAGATAAAT
1 AAAGATAAAT
13210450 GAAA-ATAAAT
1 -AAAGATAAAT
13210460 CCTAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:13212183 original size:35 final size:35
Alignment explanation
Indices: 13212144--13212270 Score: 155
Period size: 35 Copynumber: 3.6 Consensus size: 35
13212134 ATGGCAAAGT
*
13212144 TATGATACGTAGGTATGGTATTTTCCATACTGAGC
1 TATGATACGTAGGTATGGTATTTTCCATACCGAGC
* * *
13212179 TATGATATGTAGGTATGATAATTTCCATACCGAGC
1 TATGATACGTAGGTATGGTATTTTCCATACCGAGC
* * **
13212214 TATAATACGTAGGTATGGTATTTCCCATACCGAAT
1 TATGATACGTAGGTATGGTATTTTCCATACCGAGC
* * *
13212249 TGTGAAACGTAGGTTTGGTATT
1 TATGATACGTAGGTATGGTATT
13212271 AACCATACTG
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (35 bp):
TATGATACGTAGGTATGGTATTTTCCATACCGAGC
Found at i:13212277 original size:35 final size:35
Alignment explanation
Indices: 13212220--13212289 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
13212210 GAGCTATAAT
**
13212220 ACGTAGGTATGGTATTTCCCATACCGAATTGTGAA
1 ACGTAGGTATGGTATTAACCATACCGAATTGTGAA
* * *
13212255 ACGTAGGTTTGGTATTAACCATACTGAGTTGTGAA
1 ACGTAGGTATGGTATTAACCATACCGAATTGTGAA
13212290 TCGTGGCATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (35 bp):
ACGTAGGTATGGTATTAACCATACCGAATTGTGAA
Found at i:13222779 original size:18 final size:19
Alignment explanation
Indices: 13222741--13222780 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
13222731 ATAAACAAAT
13222741 AAAAAGTCCATAATTTAACC
1 AAAAAGTCCATAA-TTAACC
*
13222761 AAAATGTCCATAA-TAACC
1 AAAAAGTCCATAATTAACC
13222779 AA
1 AA
13222781 TATTCAGCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.53, C:0.20, G:0.05, T:0.23
Consensus pattern (19 bp):
AAAAAGTCCATAATTAACC
Found at i:13224395 original size:22 final size:21
Alignment explanation
Indices: 13224342--13224395 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
13224332 CCCCAAAACA
*
13224342 CATGCATAACATAATCATATAT
1 CATGCAT-ACATAATCATATAG
* * *
13224364 CATACTTACATATATCATATGG
1 CATGCATACATA-ATCATATAG
13224386 CATGCATACA
1 CATGCATACA
13224396 CACATACTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (21 bp):
CATGCATACATAATCATATAG
Found at i:13231213 original size:21 final size:21
Alignment explanation
Indices: 13231165--13231213 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
13231155 AAAAAAAAAG
*
13231165 ATTTCTGATGCAAATGAACAT
1 ATTTCTTATGCAAATGAACAT
13231186 ATTTCTTATGCAAATGAACAT
1 ATTTCTTATGCAAATGAACAT
13231207 ATTTCTT
1 ATTTCTT
13231214 CTACTTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (21 bp):
ATTTCTTATGCAAATGAACAT
Found at i:13235277 original size:26 final size:26
Alignment explanation
Indices: 13235242--13235349 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
13235232 TGAAATGCCC
* * *
13235242 ATCATAGAACATTTATCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
13235268 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
13235294 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
13235320 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13235346 ATCA
1 ATCA
13235350 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13249033 original size:206 final size:205
Alignment explanation
Indices: 13248671--13249226 Score: 817
Period size: 206 Copynumber: 2.7 Consensus size: 205
13248661 GCAAATCTGG
*
13248671 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATGGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
13248736 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTT-GCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * **
13248801 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTT
129 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAAATCTAACCTT
* * * *
13248866 TATATGTTTATA
194 CAGATGATTAGA
* ** * * *
13248878 TTGAAGCAGATCCAAGATAATTTGGCATCCTTGTGTTTAAAAGGAAAAAATCGAA-ATCATAGCT
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGCT
* *
13248942 GATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATAATTTGGCATCTCTGTATTGTCAG
65 GATTT-GCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
*
13249007 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAAATCTAACCTT
129 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAAATCTAACCTT
13249072 CAGATGATTAGA
194 CAGATGATTAGA
* * * *
13249084 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAATGAGCAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * *
13249149 ATTTGATTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATCTATATTGTCAGA
66 ATTTG-CTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
13249214 GAACAAATCGAAG
130 GAACAAATCGAAG
13249227 AAGTAGATTT
Statistics
Matches: 310, Mismatches: 36, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
205 2 0.01
206 301 0.97
207 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
AACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAAATCTAACCTTCA
GATGATTAGA
Found at i:13252756 original size:16 final size:16
Alignment explanation
Indices: 13252735--13252788 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
13252725 TAAATTACTG
13252735 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
**
13252751 ATTACAACTCTATTAA
1 ATTACAACTCTATTCC
*
13252767 ATTATAA-TACTATTCC
1 ATTACAACT-CTATTCC
13252783 ATTACA
1 ATTACA
13252789 GTGAATCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 1 0.03
16 30 0.97
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:13258917 original size:46 final size:44
Alignment explanation
Indices: 13258858--13258972 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
13258848 ACAGGACAGA
* *
13258858 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
13258904 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
13258948 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
13258973 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:13258953 original size:44 final size:45
Alignment explanation
Indices: 13258858--13258991 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
13258848 ACAGGACAGA
* *
13258858 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
13258904 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
13258948 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
13258992 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:13261114 original size:20 final size:20
Alignment explanation
Indices: 13261091--13261130 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13261081 GATATTATTT
13261091 TTTTATAAATATTTTTATAA
1 TTTTATAAATATTTTTATAA
* **
13261111 TTTTGTATGTATTTTTATAA
1 TTTTATAAATATTTTTATAA
13261131 AAAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTATAAATATTTTTATAA
Found at i:13261164 original size:18 final size:18
Alignment explanation
Indices: 13261141--13261183 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
13261131 AAAAAATATT
13261141 AAATTTATT-TGAAAGTAA
1 AAATTT-TTATGAAAGTAA
*
13261159 AAATTTTTATGAATGT-A
1 AAATTTTTATGAAAGTAA
13261176 AAATTTTT
1 AAATTTTT
13261184 TGTGTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (18 bp):
AAATTTTTATGAAAGTAA
Found at i:13261320 original size:111 final size:112
Alignment explanation
Indices: 13261162--13261428 Score: 401
Period size: 111 Copynumber: 2.4 Consensus size: 112
13261152 AAAGTAAAAA
* * * *
13261162 TTTTTATGAATGTAAAATTTTTTGTGTTGTTTTTAATTATTTGAAAGTTATTTTGTTAGTAATTT
1 TTTTTATGAATGTAAATTTTTTTTTGTT-TTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTT
*
13261227 ATGATTAAGTTATAAATTGTTTGTGTTTAGGTCAATGTTTATTGTGAT
65 ATGATTAAGTTATAAATTGTTTGTGTTTAGGTCAATGTTTATTGTGAC
*
13261275 TTTTTATGAATAT-AATTTTTTTTTGTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTA
1 TTTTTATGAATGTAAATTTTTTTTTGTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTA
* * * *
13261339 TGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGAC
66 TGATTAAGTTATAAATTGTTTGTGTTTAGGTCAATGTTTATTGTGAC
* *
13261386 TTGTTATAAATGTAAATTTTTTTTTGTTTTTTAAAGTTATTTT
1 TTTTTATGAATGTAAATTTTTTTTTGTTTTTTAAA-TTATTTT
13261429 GTTAGTACTT
Statistics
Matches: 139, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
111 87 0.63
112 33 0.24
113 19 0.14
ACGTcount: A:0.26, C:0.01, G:0.15, T:0.59
Consensus pattern (112 bp):
TTTTTATGAATGTAAATTTTTTTTTGTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTA
TGATTAAGTTATAAATTGTTTGTGTTTAGGTCAATGTTTATTGTGAC
Found at i:13261642 original size:43 final size:43
Alignment explanation
Indices: 13261577--13261762 Score: 191
Period size: 43 Copynumber: 4.3 Consensus size: 43
13261567 GTGAAAAATA
* * *
13261577 CCGCTACAGAACATGA-TCTTTAGC-GACGCTTTTCCTACAAACG
1 CCGCTAAAGAACATGACT-TTTAGCAG-CACTTTTCCCACAAACG
* *
13261620 CCGCTAAAGAAAATGACTTTTAGCAGCACTTTTCCCACAAACA
1 CCGCTAAAGAACATGACTTTTAGCAGCACTTTTCCCACAAACG
* * *
13261663 CCGCTAAAGAACATGACTTTTAGCAGCACTTTTTCAACAAATG
1 CCGCTAAAGAACATGACTTTTAGCAGCACTTTTCCCACAAACG
* * * * *
13261706 CCACTAAA-AGCATGACCTTTAG-TGACGCTTTTCCCACAAACG
1 CCGCTAAAGAACATGACTTTTAGCAG-CACTTTTCCCACAAACG
*
13261748 CCGCTAAAAAACATG
1 CCGCTAAAGAACATG
13261763 CCCTTTTAAA
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 32 0.27
43 84 0.71
44 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (43 bp):
CCGCTAAAGAACATGACTTTTAGCAGCACTTTTCCCACAAACG
Found at i:13262690 original size:33 final size:33
Alignment explanation
Indices: 13262643--13262715 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
13262633 ATCAGATGTT
*
13262643 AAATTAACACATACTAAAAGTTCAAAACAAATA
1 AAATGAACACATACTAAAAGTTCAAAACAAATA
13262676 AAATGAACACATACTAAAAGTTCAAAACAAATA
1 AAATGAACACATACTAAAAGTTCAAAACAAATA
13262709 AAATGAA
1 AAATGAA
13262716 GGTATAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.62, C:0.14, G:0.05, T:0.19
Consensus pattern (33 bp):
AAATGAACACATACTAAAAGTTCAAAACAAATA
Found at i:13263784 original size:18 final size:18
Alignment explanation
Indices: 13263757--13263802 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
13263747 TGTTTATATC
*
13263757 AAATTAAATACTTATATTT
1 AAATT-AATACTTACATTT
*
13263776 AACTTAATACTTACATTT
1 AAATTAATACTTACATTT
13263794 AAATTAATA
1 AAATTAATA
13263803 TTTCATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTAATACTTACATTT
Found at i:13268174 original size:10 final size:10
Alignment explanation
Indices: 13268155--13268214 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
13268145 CGAAATTCTA
13268155 AAAGATAAAT
1 AAAGATAAAT
13268165 ACAA-ATAAAT
1 A-AAGATAAAT
*
13268175 AAAGATAATT
1 AAAGATAAAT
13268185 AAAGATAAAT
1 AAAGATAAAT
13268195 AAAGATAAAT
1 AAAGATAAAT
13268205 GAAA-ATAAAT
1 -AAAGATAAAT
13268215 CATAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:13269537 original size:13 final size:12
Alignment explanation
Indices: 13269500--13269542 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
13269490 AACCAAATCA
13269500 ACAGTTAAAATG
1 ACAGTTAAAATG
13269512 ACAGATATAAAATCG
1 ACAG-T-TAAAAT-G
*
13269527 GCAGTTAAAATG
1 ACAGTTAAAATG
13269539 ACAG
1 ACAG
13269543 AAATAATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 8 0.31
13 7 0.27
14 7 0.27
15 4 0.15
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.21
Consensus pattern (12 bp):
ACAGTTAAAATG
Found at i:13269811 original size:15 final size:14
Alignment explanation
Indices: 13269791--13269846 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
13269781 TTAATATCTG
13269791 AAAATAAGAAATAAT
1 AAAATAA-AAATAAT
* *
13269806 AAAATAATAA-GAT
1 AAAATAAAAATAAT
*
13269819 AAAATAAAATAAAAT
1 AAAATAAAA-ATAAT
13269834 AAAATAAAAATAA
1 AAAATAAAAATAA
13269847 AATAATTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 10 0.29
14 6 0.18
15 18 0.53
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.20
Consensus pattern (14 bp):
AAAATAAAAATAAT
Found at i:13269816 original size:18 final size:18
Alignment explanation
Indices: 13269793--13269852 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
13269783 AATATCTGAA
13269793 AATAAGA-AATAATAAAAT
1 AATAAGATAA-AATAAAAT
13269811 AATAAGATAAAATAAAAT
1 AATAAGATAAAATAAAAT
*
13269829 AAAATAAAATAAAAATAAAAT
1 --AATAAGAT-AAAATAAAAT
13269850 AAT
1 AAT
13269853 TGGGTTGACT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 7 0.19
21 10 0.27
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AATAAGATAAAATAAAAT
Found at i:13269820 original size:5 final size:5
Alignment explanation
Indices: 13269803--13269851 Score: 66
Period size: 5 Copynumber: 10.0 Consensus size: 5
13269793 AATAAGAAAT
*
13269803 AATAA AAT-- AATAA GATAA AATAA AATAA AATAA AATAAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA
13269852 TTGGGTTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 3 0.08
5 31 0.79
6 5 0.13
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:13269825 original size:21 final size:20
Alignment explanation
Indices: 13269799--13269852 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
13269789 TGAAAATAAG
*
13269799 AAATAATAAAATAATAAGAT
1 AAATAATAAAATAATAAAAT
13269819 -AA-AATAAAATAAAATAAAAT
1 AAATAATAAAAT--AATAAAAT
13269839 AAA-AATAAAATAAT
1 AAATAATAAAATAAT
13269853 TGGGTTGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 7 0.23
21 10 0.33
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATAATAAAATAATAAAAT
Found at i:13273634 original size:14 final size:14
Alignment explanation
Indices: 13273595--13273631 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
13273585 CCTAAACTCT
13273595 TAACCCTTAACCCC
1 TAACCCTTAACCCC
*
13273609 TAACCCCTAACCCC
1 TAACCCTTAACCCC
13273623 -AACCCTTAA
1 TAACCCTTAA
13273632 ACCATAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:13273646 original size:14 final size:14
Alignment explanation
Indices: 13273629--13273674 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
13273619 CCCCAACCCT
*
13273629 TAAACCATAAACCA
1 TAAACCATAATCCA
13273643 TAAACCATAATCTC-
1 TAAACCATAATC-CA
13273657 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
13273672 TAA
1 TAA
13273675 CCTTATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:13274348 original size:155 final size:154
Alignment explanation
Indices: 13274052--13274377 Score: 404
Period size: 155 Copynumber: 2.1 Consensus size: 154
13274042 AAGCTCAATT
* * * * * * *
13274052 TATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGGTTGACTTATAGCGGCGTTTTTTAAAAGCGTC
1 TATAGCGGCGTTTTTTAAAAAGCGCAGCTAATGCTCGACTTATAGCAGAGTTTTTTAAAAGCGAC
* * * *
13274117 GCTAATACCACTAAAGCTCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGTGGCGTTTCAC
66 GCTAATACCACTAAAGCTCAACATAAAAAGACGACATTGTGCTTAATTTTTTTGCGGCATTTCAC
* ** *
13274182 GAAAAGTGTCGCTAAT-CATCTACC
131 AAAAAACGTCGCTAATGC-TCAACC
* *
13274206 TATAGCGGCGTTTTTTAAAAAGTGCAGCTAATGCTCGA-TCTATATCAGAGTTTTTTTAAAAGCG
1 TATAGCGGCGTTTTTTAAAAAGCGCAGCTAATGCTCGACT-TATAGCAGAG-TTTTTTAAAAGCG
* * *
13274270 ACGCTAATGCCACTAAAGCTCAACATAAAAAGATGACATTGTGCTTAATTTTTTTGCGGCATTTT
64 ACGCTAATACCACTAAAGCTCAACATAAAAAGACGACATTGTGCTTAATTTTTTTGCGGCATTTC
** *
13274335 TTAAAAAACGTCGCTAATGCTCAATC
129 ACAAAAAACGTCGCTAATGCTCAACC
13274361 TATAGCGGCGTTTTTTA
1 TATAGCGGCGTTTTTTA
13274378 TCCAAACGCC
Statistics
Matches: 146, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
153 1 0.01
154 40 0.27
155 104 0.71
156 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (154 bp):
TATAGCGGCGTTTTTTAAAAAGCGCAGCTAATGCTCGACTTATAGCAGAGTTTTTTAAAAGCGAC
GCTAATACCACTAAAGCTCAACATAAAAAGACGACATTGTGCTTAATTTTTTTGCGGCATTTCAC
AAAAAACGTCGCTAATGCTCAACC
Found at i:13274627 original size:21 final size:21
Alignment explanation
Indices: 13274569--13274630 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
13274559 TAAATAGGTA
*
13274569 TGTCTCTATTTTATTTTTTGT
1 TGTCTCTATGTTATTTTTTGT
*
13274590 TGTCTCTATTTTATTTTTTGT
1 TGTCTCTATGTTATTTTTTGT
*
13274611 TGATC-CGTATGTTTTTTTTT
1 TG-TCTC-TATGTTATTTTTT
13274631 ATGTTTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.10, C:0.10, G:0.11, T:0.69
Consensus pattern (21 bp):
TGTCTCTATGTTATTTTTTGT
Found at i:13274629 original size:22 final size:21
Alignment explanation
Indices: 13274569--13274612 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
13274559 TAAATAGGTA
13274569 TGTCTCTATTTTATTTTTTGT
1 TGTCTCTATTTTATTTTTTGT
13274590 TGTCTCTATTTTATTTTTTGT
1 TGTCTCTATTTTATTTTTTGT
13274611 TG
1 TG
13274613 ATCCGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.09, G:0.11, T:0.70
Consensus pattern (21 bp):
TGTCTCTATTTTATTTTTTGT
Found at i:13291984 original size:21 final size:21
Alignment explanation
Indices: 13291958--13291998 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13291948 ATCTGCTCAA
* *
13291958 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
13291979 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
13291999 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:13297504 original size:26 final size:26
Alignment explanation
Indices: 13297453--13297510 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
13297443 TAAGTTTAAA
13297453 TTTATTATATTTAATAATAAATAATT
1 TTTATTATATTTAATAATAAATAATT
*
13297479 TTTATTAATATATT-ATGATAAA-AATT
1 TTTATT-ATAT-TTAATAATAAATAATT
*
13297505 ATTATT
1 TTTATT
13297511 GTTTTTCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 15 0.54
27 11 0.39
28 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTATTATATTTAATAATAAATAATT
Found at i:13301024 original size:71 final size:70
Alignment explanation
Indices: 13300908--13301040 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 70
13300898 GAGTTTGGAC
* * *
13300908 AAGTAAAAGTTTTGGAGAGAAAGTAAAAAGACAAAAGTTTGGAGGGTTTGGGGGAAAGTAAAATT
1 AAGTAAAAGTTTTGGAGAGAAAATAAAAAGAAAAAAATTTGGAGGGTTTGGGGG-AAGTAAAATT
13300973 TTTTAG
65 TTTTAG
* *
13300979 AAGTAAAAGTTTTGGAGAGAAAATAATAGGAAAATAAATTT-GAGGGTTTGGGGGAAGTAAAA
1 AAGTAAAAGTTTTGGAGAGAAAATAAAAAGAAAA-AAATTTGGAGGGTTTGGGGGAAGTAAAA
13301041 AGGTTTGAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
70 8 0.14
71 43 0.77
72 5 0.09
ACGTcount: A:0.44, C:0.01, G:0.29, T:0.26
Consensus pattern (70 bp):
AAGTAAAAGTTTTGGAGAGAAAATAAAAAGAAAAAAATTTGGAGGGTTTGGGGGAAGTAAAATTT
TTTAG
Found at i:13302391 original size:43 final size:43
Alignment explanation
Indices: 13302324--13302406 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
13302314 GGGTGCACAG
* * *
13302324 CCATGTGCCAGGCCGTGTAAGCTACAAAGACGGGTGGTCACTA
1 CCATGTGCCAAGCCATGTAAGCTACAAAGACGAGTGGTCACTA
** **
13302367 CCATGTGCCAAGCCATGTGTGCTACAGGGACGAGTGGTCA
1 CCATGTGCCAAGCCATGTAAGCTACAAAGACGAGTGGTCA
13302407 GGCTATGTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.24, C:0.25, G:0.31, T:0.19
Consensus pattern (43 bp):
CCATGTGCCAAGCCATGTAAGCTACAAAGACGAGTGGTCACTA
Found at i:13303775 original size:33 final size:33
Alignment explanation
Indices: 13303738--13303807 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
13303728 TATTTATACA
* *
13303738 ATTATAATATT-TTATT-TAAATTCATAGATATTT
1 ATTAT-ATATTATTATTAT-AATTAAGAGATATTT
*
13303771 ATTATTTATTATTATTATAATTAAGAGATATTT
1 ATTATATATTATTATTATAATTAAGAGATATTT
13303804 ATTA
1 ATTA
13303808 ATTAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 4 0.12
33 27 0.84
34 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (33 bp):
ATTATATATTATTATTATAATTAAGAGATATTT
Found at i:13304070 original size:12 final size:12
Alignment explanation
Indices: 13304055--13304098 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
13304045 AAAACAGGGG
13304055 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
13304067 AGAAAAAGGGAA
1 AGAAAAAGAGAA
*
13304079 AGAAAAAGAAAA
1 AGAAAAAGAGAA
13304091 AGGAAAAA
1 A-GAAAAA
13304099 CTAGAGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 22 0.79
13 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:13304074 original size:6 final size:6
Alignment explanation
Indices: 13304055--13304098 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
13304045 AAAACAGGGG
* **
13304055 AGAAAA AGAGAA AGAAAA AGGGAA AGAAAA AGAAAA AGGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A-GAAAA A
13304099 CTAGAGATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:13304086 original size:18 final size:18
Alignment explanation
Indices: 13304059--13304093 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13304049 CAGGGGAGAA
*
13304059 AAAGAGAAAGAAAAAGGG
1 AAAGAAAAAGAAAAAGGG
13304077 AAAGAAAAAGAAAAAGG
1 AAAGAAAAAGAAAAAGG
13304094 AAAAACTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAAAAAGGG
Found at i:13304700 original size:45 final size:45
Alignment explanation
Indices: 13304650--13304756 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
13304640 CGACTACTGT
**
13304650 TACTGTTACCGTTACTGTTATTGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
*
13304695 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
*
13304740 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
13304757 CTACTGCTAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:13304771 original size:18 final size:18
Alignment explanation
Indices: 13304740--13304774 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13304730 GTGTGTTGAA
* *
13304740 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
13304758 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
13304775 ATTAGGTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:13305509 original size:3 final size:3
Alignment explanation
Indices: 13305497--13305532 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
13305487 GTCGAAATTT
13305497 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13305533 AATTGAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13307579 original size:49 final size:48
Alignment explanation
Indices: 13307516--13307610 Score: 154
Period size: 49 Copynumber: 2.0 Consensus size: 48
13307506 ACATCTTCAT
* * *
13307516 ATATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCAC
1 ATATCCATGCCATAGCCCAACTATGGTCTTACACG-AATCACATATCAC
13307565 ATATCCATGCCATAGCCCAACTATGGTCTTACACGAATCACATATC
1 ATATCCATGCCATAGCCCAACTATGGTCTTACACGAATCACATATC
13307611 TCACTAATGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
48 11 0.26
49 32 0.74
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (48 bp):
ATATCCATGCCATAGCCCAACTATGGTCTTACACGAATCACATATCAC
Found at i:13307745 original size:31 final size:31
Alignment explanation
Indices: 13307710--13307858 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
13307700 CTTGTCACTT
*
13307710 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
13307741 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
13307772 GTAGTCGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
13307803 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
13307834 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
13307859 TGTCATTTTT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:13307940 original size:50 final size:51
Alignment explanation
Indices: 13307834--13307962 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
13307824 CACTGATCAG
* * * * *
13307834 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCATGATCAGATAAGT
*
13307885 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCATGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCATGATCAGATAAGT
13307935 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
13307963 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCATGATCAGATAAGT
Found at i:13326856 original size:49 final size:49
Alignment explanation
Indices: 13326784--13326899 Score: 169
Period size: 49 Copynumber: 2.4 Consensus size: 49
13326774 AACCAATAAT
* * * *
13326784 ACACCTCAAAACTGAGTGCCTAGCCCGTAGGCCAACATCCCTCCAAAAC
1 ACACCTCGACACTAAGTGACTAGCCCGTAGGCCAACATCCCTCCAAAAC
*
13326833 ACACCTCGACACTAAGTGACTAGCCTGTAGGCCAACATCCCTCCAAAAC
1 ACACCTCGACACTAAGTGACTAGCCCGTAGGCCAACATCCCTCCAAAAC
* *
13326882 ACACCCCGGCACTAAGTG
1 ACACCTCGACACTAAGTG
13326900 CCAACCCGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.32, C:0.38, G:0.16, T:0.15
Consensus pattern (49 bp):
ACACCTCGACACTAAGTGACTAGCCCGTAGGCCAACATCCCTCCAAAAC
Found at i:13326921 original size:49 final size:49
Alignment explanation
Indices: 13326807--13326912 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 49
13326797 GAGTGCCTAG
* * * *
13326807 CCCGTAGGCCAACATCCCTCCAAAACACACCTCGACACTAAGTGACTAG
1 CCCGTAAGCCAACATCCCTCCAAAACACACCCCGACACTAAGTGACCAA
* * *
13326856 CCTGTAGGCCAACATCCCTCCAAAACACACCCCGGCACTAAGTG-CCAA
1 CCCGTAAGCCAACATCCCTCCAAAACACACCCCGACACTAAGTGACCAA
13326904 CCCG-AAGCC
1 CCCGTAAGCC
13326913 TTTACATCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 4 0.08
48 5 0.10
49 41 0.82
ACGTcount: A:0.31, C:0.42, G:0.15, T:0.12
Consensus pattern (49 bp):
CCCGTAAGCCAACATCCCTCCAAAACACACCCCGACACTAAGTGACCAA
Found at i:13329756 original size:47 final size:47
Alignment explanation
Indices: 13329666--13329773 Score: 132
Period size: 47 Copynumber: 2.3 Consensus size: 47
13329656 AATAAATTGG
* *
13329666 AAGCCAGTGTAAGA-CATGTCTTGGACATGCGTCGGCTACGAGATGAT
1 AAGCCAGTGTAAGACCATGTCTGGGACATGCGTCGACTACGAGAT-AT
* * *
13329713 -AGTCAGTGTAAGACCATGTCTGGGACATGGCTTCGACT-TGAGATAT
1 AAGCCAGTGTAAGACCATGTCTGGGACAT-GCGTCGACTACGAGATAT
13329759 AAGCCAGTGTAAGAC
1 AAGCCAGTGTAAGAC
13329774 TGTGCCTGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
46 14 0.27
47 31 0.60
48 7 0.13
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
AAGCCAGTGTAAGACCATGTCTGGGACATGCGTCGACTACGAGATAT
Found at i:13329783 original size:47 final size:47
Alignment explanation
Indices: 13329666--13329786 Score: 117
Period size: 47 Copynumber: 2.6 Consensus size: 47
13329656 AATAAATTGG
* *
13329666 AAGCCAGTGTAAGACATGT-CTTGGACATGCGTCGGCTACGAGATGAT
1 AAGCCAGTGTAAGAC-TGTGCTGGGACATGCGTCGACTACGAGATGAT
* * *
13329713 -AGTCAGTGTAAGACCATGT-CTGGGACATGGCTTCGACT-TGAGAT-AT
1 AAGCCAGTGTAAGA-C-TGTGCTGGGACAT-GCGTCGACTACGAGATGAT
13329759 AAGCCAGTGTAAGACTGTGCCTGGGACA
1 AAGCCAGTGTAAGACTGTG-CTGGGACA
13329787 CAATATCGGT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
45 3 0.05
46 15 0.24
47 38 0.60
48 7 0.11
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AAGCCAGTGTAAGACTGTGCTGGGACATGCGTCGACTACGAGATGAT
Found at i:13330696 original size:55 final size:55
Alignment explanation
Indices: 13330631--13330748 Score: 182
Period size: 55 Copynumber: 2.1 Consensus size: 55
13330621 CAGAGACACG
13330631 GCCGTGTGTCTCAGTCGTATAAAGGGCACGGTCTAGCACACAAGCATGTGCCTTA
1 GCCGTGTGTCTCAGTCGTATAAAGGGCACGGTCTAGCACACAAGCATGTGCCTTA
* * * * * *
13330686 GTCGTGTGTCTCAGTCGTGTGAAGGGCATGGTGTAGCACACAAGCATGTGTCTTA
1 GCCGTGTGTCTCAGTCGTATAAAGGGCACGGTCTAGCACACAAGCATGTGCCTTA
13330741 GCCGTGTG
1 GCCGTGTG
13330749 ACCCTTATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.26
Consensus pattern (55 bp):
GCCGTGTGTCTCAGTCGTATAAAGGGCACGGTCTAGCACACAAGCATGTGCCTTA
Found at i:13337286 original size:46 final size:46
Alignment explanation
Indices: 13337176--13337344 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 46
13337166 GGTCATTTGT
* * * *
13337176 GAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC
* * *
13337224 GAGAGCTAGTGTAAGACATATCTGGGACATGCATCGGCCTCGAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
* * *
13337270 GTA-AGCCAGTGTAAGACATGTCTAGGACATGCGTCGGC-TACGAGAT
1 G-AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGAC
* * * *
13337316 GATAGTCAGTGTACGACCATGTCAGGGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGAC
13337345 TTGGCTCTGA
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
45 2 0.02
46 62 0.60
47 23 0.22
48 16 0.16
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:13342599 original size:27 final size:27
Alignment explanation
Indices: 13342535--13342599 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
13342525 AGGAATTAAA
*
13342535 TAAAATAAAAAAATAGAATTTAAAAAT
1 TAAAATAAAAAAATAAAATTTAAAAAT
* *
13342562 TAAATTAAAAACA-AAAATATT-AAAAT
1 TAAAATAAAAAAATAAAAT-TTAAAAAT
13342588 TAAAATAAAAAA
1 TAAAATAAAAAA
13342600 GTAACAGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (27 bp):
TAAAATAAAAAAATAAAATTTAAAAAT
Found at i:13346163 original size:16 final size:15
Alignment explanation
Indices: 13346142--13346187 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
13346132 TTAATCACTT
13346142 TAATATTGAATTAATA
1 TAATATT-AATTAATA
*
13346158 TAATATTTATTAATA
1 TAATATTAATTAATA
13346173 TAAATATTAAATTAA
1 T-AATATT-AATTAA
13346188 ATTTAGCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 13 0.50
17 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TAATATTAATTAATA
Found at i:13346171 original size:15 final size:16
Alignment explanation
Indices: 13346151--13346180 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13346141 TTAATATTGA
13346151 ATTAATAT-AATATTT
1 ATTAATATAAATATTT
13346166 ATTAATATAAATATT
1 ATTAATATAAATATT
13346181 AAATTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATATAAATATTT
Found at i:13356787 original size:174 final size:178
Alignment explanation
Indices: 13356493--13356840 Score: 578
Period size: 174 Copynumber: 2.0 Consensus size: 178
13356483 TCTTCCCAAC
13356493 ACTAACAATCTCTGTCGAATAAGACTGCAAATGGAAAAAGCAAAAAGAAAAAGAAAAAGTGAGGA
1 ACTAACAATCTCTGTCGAATAAGACTGCAAATGGAAAAAGCAAAAAGAAAAAGAAAAAGTGAGGA
13356558 GTCTGTCAGACAACTGCGTGACCTTCCCAGCCGCACAAGGCAAGCTGAGAACGATCCTCTGCGGT
66 GTCTGTCAGACAACTGCGTGACCTTCCCAGCCGCACAAGGCAAGCTGAGAACGATCCTCTGCGGT
* * *
13356623 CGAAGTGAAACCAGCAACGGTATCTCCAGGCCAGTAATCACGCTAGGA
131 CGAAGTAAAACCAACAACGGTATCACCAGGCCAGTAATCACGCTAGGA
** * * * *
13356671 ACTAACAATCTCTGTCGAATAA-A-TGCAAAT-TCAAATGGAAAAAGCAAAA-AAAAATTGAGGA
1 ACTAACAATCTCTGTCGAATAAGACTGCAAATGGAAAAAGCAAAAAGAAAAAGAAAAAGTGAGGA
13356732 GTCTGTCAGACAACTGCGTGACCTTCCCAGCCGCACAAGGCAAGCTGAGAACGATCCTCTGCGGT
66 GTCTGTCAGACAACTGCGTGACCTTCCCAGCCGCACAAGGCAAGCTGAGAACGATCCTCTGCGGT
*
13356797 CGAAGTAAAACCAACAAGGGTATCACCAGGCCAGTAATCACGCT
131 CGAAGTAAAACCAACAACGGTATCACCAGGCCAGTAATCACGCT
13356841 CAGATCACAC
Statistics
Matches: 160, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
174 116 0.73
175 14 0.09
176 7 0.04
177 1 0.01
178 22 0.14
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (178 bp):
ACTAACAATCTCTGTCGAATAAGACTGCAAATGGAAAAAGCAAAAAGAAAAAGAAAAAGTGAGGA
GTCTGTCAGACAACTGCGTGACCTTCCCAGCCGCACAAGGCAAGCTGAGAACGATCCTCTGCGGT
CGAAGTAAAACCAACAACGGTATCACCAGGCCAGTAATCACGCTAGGA
Found at i:13358211 original size:25 final size:25
Alignment explanation
Indices: 13358183--13358243 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
13358173 AAAAAATTTA
*
13358183 AAAATTAAATAGAATAATCATTAAT
1 AAAATTAAATAGAATAATCAATAAT
* * * *
13358208 AAAAATAAATATAATATTTAATAAT
1 AAAATTAAATAGAATAATCAATAAT
*
13358233 AAATTTAAATA
1 AAAATTAAATA
13358244 TGTTTTAAAA
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:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
AAAATTAAATAGAATAATCAATAAT
Found at i:13358345 original size:34 final size:32
Alignment explanation
Indices: 13358298--13358361 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 32
13358288 ATGATAAAAA
*
13358298 ATATTCAATATTAATAT-TTGAATAATAAATCT
1 ATATTCAATATTAATATACT-AATAATAAATCT
13358330 ATATTACAATTATTAATATACTAATAATAAAT
1 ATATT-CAA-TATTAATATACTAATAATAAAT
13358362 ATTTTGTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 5 0.18
33 3 0.11
34 19 0.68
35 1 0.04
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (32 bp):
ATATTCAATATTAATATACTAATAATAAATCT
Found at i:13360037 original size:19 final size:19
Alignment explanation
Indices: 13360003--13360053 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
13359993 TTTTTTAAAC
13360003 ATTTTTAAATTTATTATAATT
1 ATTTTT-AA-TTATTATAATT
*
13360024 ATTTTTAATTATTATATTT
1 ATTTTTAATTATTATAATT
*
13360043 AATTTT-ATTAT
1 ATTTTTAATTAT
13360054 AAATTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 15 0.54
20 2 0.07
21 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTAATTATTATAATT
Found at i:13363216 original size:48 final size:48
Alignment explanation
Indices: 13363134--13363227 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
13363124 TTTCTTGGCT
* *
13363134 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
13363182 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
13363228 AGAATTCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:13368838 original size:17 final size:17
Alignment explanation
Indices: 13368790--13368838 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
13368780 TCGTATTTTA
* *
13368790 TTTTTTTT-AAATTACT
1 TTTTTTTTAAAAATAAT
* *
13368806 TTTTATTTAAAGATAAT
1 TTTTTTTTAAAAATAAT
13368823 TTTTTTTTAAAAATAA
1 TTTTTTTTAAAAATAA
13368839 AATATACTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTTTTTAAAAATAAT
Found at i:13368930 original size:17 final size:18
Alignment explanation
Indices: 13368905--13368945 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
13368895 CAGTAATAAA
* *
13368905 TATAATAAATAT-TTTTT
1 TATATTAAATATAATTTT
13368922 TATATTAAATATAATTTT
1 TATATTAAATATAATTTT
13368940 TATATT
1 TATATT
13368946 TTTATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTAAATATAATTTT
Found at i:13379747 original size:35 final size:35
Alignment explanation
Indices: 13379698--13379864 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
13379688 TCCTCATTGA
* ** *
13379698 AATACCATATCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13379733 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13379773 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13379808 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13379843 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13379865 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
35 86 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13379781 original size:75 final size:74
Alignment explanation
Indices: 13379694--13379864 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 74
13379684 GTTTTCCTCA
* ** * * **
13379694 TTGAAATACCATATCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACT
13379758 CAGTATGGAT
65 CAGTATGGAT
*
13379768 TTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
13379833 CAGTATGGA-
65 CAGTATGGAT
13379842 -TG--ATACCATACCTACATTTCACA
1 TTGAAATACCATACCTACATTTCACA
13379865 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 7 0.08
75 57 0.66
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGAT
Found at i:13384761 original size:23 final size:23
Alignment explanation
Indices: 13384735--13384832 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
13384725 ATAAGTGCCA
13384735 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
13384758 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
13384781 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
13384803 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
13384826 CACTGAT
1 CACTGAT
13384833 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:13384800 original size:45 final size:45
Alignment explanation
Indices: 13384742--13384830 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
13384732 CCACACTGAT
* *
13384742 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
13384787 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
13384831 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:13386777 original size:43 final size:44
Alignment explanation
Indices: 13386706--13386840 Score: 166
Period size: 43 Copynumber: 3.1 Consensus size: 44
13386696 TATCGAAATG
* *
13386706 TGATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
13386750 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
13386793 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCTGATGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
13386838 TGA
1 TGA
13386841 AATGTTATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.47
44 8 0.11
45 30 0.39
46 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:13387153 original size:38 final size:38
Alignment explanation
Indices: 13387110--13387269 Score: 198
Period size: 38 Copynumber: 4.2 Consensus size: 38
13387100 ATGATATTTG
* ** *
13387110 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGAATTA
13387148 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
* *
13387186 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * *
13387224 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
*
13387262 TATTCGGG
1 TATCCGGG
13387270 CCTTTGAGCC
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
37 2 0.02
38 105 0.96
39 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:13387404 original size:45 final size:45
Alignment explanation
Indices: 13387262--13387421 Score: 200
Period size: 45 Copynumber: 3.6 Consensus size: 45
13387252 GCTGGTATTA
* *
13387262 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCAGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
* *
13387307 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
* *
13387352 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCAATGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCAGTGAGAT-AC
* * *
13387397 TAATCGGGCC-TCGATCCTAGCAGGC
1 TATTCGGGCCTTTGAGCCTAGCAGGC
13387422 GAAATGCTGG
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
44 16 0.16
45 83 0.82
46 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
Found at i:13392573 original size:11 final size:11
Alignment explanation
Indices: 13392557--13392581 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13392547 AGTATAACAA
13392557 ATTTTTAATTT
1 ATTTTTAATTT
13392568 ATTTTTAATTT
1 ATTTTTAATTT
13392579 ATT
1 ATT
13392582 AAAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTTTAATTT
Done.