Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 84 of 349
Found at i:24951460 original size:46 final size:46
Alignment explanation
Indices: 24951420--24951533 Score: 185
Period size: 46 Copynumber: 2.5 Consensus size: 46
24951410 TTTCATGTCA
*
24951420 AGTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
1 AGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
*
24951466 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
1 AGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
*
24951512 GGTCTTACACATTTTC-TATCAG
1 AGTCTTACACA-TTTCATATCAG
24951534 AGAGCACACT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
46 61 0.94
47 4 0.06
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
AGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
Found at i:24953691 original size:11 final size:11
Alignment explanation
Indices: 24953675--24953726 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
24953665 TATACTAAAT
24953675 AAATAATAATA
1 AAATAATAATA
*
24953686 AAATAAT-ATT
1 AAATAATAATA
* *
24953696 AAATATCTCATA
1 AAATA-ATAATA
*
24953708 AAATATTAATA
1 AAATAATAATA
24953719 AAATAATA
1 AAATAATA
24953727 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:24954737 original size:21 final size:21
Alignment explanation
Indices: 24954711--24954751 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24954701 GCCTGTTGAG
24954711 TTGGGGTACCCTCTTGCTGAT
1 TTGGGGTACCCTCTTGCTGAT
* *
24954732 TTGGGGTAGCCTGTTGCTGA
1 TTGGGGTACCCTCTTGCTGA
24954752 GTTAGGACAC
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:0.10, C:0.20, G:0.34, T:0.37
Consensus pattern (21 bp):
TTGGGGTACCCTCTTGCTGAT
Found at i:24955479 original size:40 final size:40
Alignment explanation
Indices: 24955435--24955535 Score: 184
Period size: 40 Copynumber: 2.5 Consensus size: 40
24955425 AAAAAAATAC
24955435 TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
1 TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
*
24955475 TCACTGTATGCATATTAAAAAATATTCAACACACCAACAA
1 TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
*
24955515 TCAGTGCATGCATATTAAAAA
1 TCACTGCATGCATATTAAAAA
24955536 CATTCACTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.25
Consensus pattern (40 bp):
TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
Found at i:24957593 original size:64 final size:64
Alignment explanation
Indices: 24957522--24957663 Score: 212
Period size: 64 Copynumber: 2.2 Consensus size: 64
24957512 TAGGATCTTG
* *
24957522 GATACAAACAATAATAGATATACACAATAAACATTAGTTTGATAATGGCATTCATACAATGGCA
1 GATACAAACAATAACAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* ** *
24957586 GATACAAATAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATTGCA
1 GATACAAACAATAACAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* *
24957650 GATATACACAATAA
1 GATACAAACAATAA
24957664 ACATCAGTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (64 bp):
GATACAAACAATAACAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
Found at i:24957653 original size:48 final size:48
Alignment explanation
Indices: 24957595--24957701 Score: 196
Period size: 48 Copynumber: 2.2 Consensus size: 48
24957585 AGATACAAAT
24957595 AATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATAC
1 AATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATAC
* *
24957643 AATTGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCGTAC
1 AATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATAC
24957691 AATGGCAGATA
1 AATGGCAGATA
24957702 CGCATACAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (48 bp):
AATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATAC
Found at i:24957816 original size:12 final size:12
Alignment explanation
Indices: 24957799--24957952 Score: 73
Period size: 12 Copynumber: 12.8 Consensus size: 12
24957789 AAGTAACCCT
24957799 AAATCAAAATCG
1 AAATCAAAATCG
* *
24957811 AAATCAAATTCT
1 AAATCAAAATCG
* *
24957823 AATTCTAAATCG
1 AAATCAAAATCG
* *
24957835 AGATCAAAATTG
1 AAATCAAAATCG
**
24957847 AAATTGAAATCG
1 AAATCAAAATCG
*
24957859 AAATCTAAATC-
1 AAATCAAAATCG
* *
24957870 AGAATCAGTGAGT-G
1 A-AATCA--AAATCG
** *
24957884 -TTTCAAAATTG
1 AAATCAAAATCG
*
24957895 TAATCAAAATCG
1 AAATCAAAATCG
*
24957907 AAAT-AGAAATCA
1 AAATCA-AAATCG
24957919 AAATCAAAATCG
1 AAATCAAAATCG
* *
24957931 AAATTAAAATTG
1 AAATCAAAATCG
*
24957943 AAATCGAAAT
1 AAATCAAAAT
24957953 AACCCTAATT
Statistics
Matches: 101, Mismatches: 33, Indels: 16
0.67 0.22 0.11
Matches are distributed among these distances:
10 2 0.02
11 3 0.03
12 93 0.92
13 1 0.01
14 2 0.02
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.26
Consensus pattern (12 bp):
AAATCAAAATCG
Found at i:24957910 original size:6 final size:6
Alignment explanation
Indices: 24957896--24957952 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
24957886 TCAAAATTGT
* * * * ** *
24957896 AATCAA AATCGA AATAGA AATCAA AATCAA AATCGA AATTAA AATTGA
1 AATCGA AATCGA AATCGA AATCGA AATCGA AATCGA AATCGA AATCGA
24957944 AATCGA AAT
1 AATCGA AAT
24957953 AACCCTAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.21
Consensus pattern (6 bp):
AATCGA
Found at i:24957917 original size:18 final size:18
Alignment explanation
Indices: 24957896--24957952 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
24957886 TCAAAATTGT
*
24957896 AATCAAAATCGAAATAGA
1 AATCAAAATCGAAATCGA
*
24957914 AATCAAAATCAAAATCGA
1 AATCAAAATCGAAATCGA
* *
24957932 AATTAAAATTGAAATCGA
1 AATCAAAATCGAAATCGA
24957950 AAT
1 AAT
24957953 AACCCTAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.21
Consensus pattern (18 bp):
AATCAAAATCGAAATCGA
Found at i:24958528 original size:30 final size:32
Alignment explanation
Indices: 24958462--24958530 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
24958452 ATCGTTAATC
* *
24958462 AGTGACTATTTTGTCACTTTTTTATAACGTTG
1 AGTGACTATTTTGTAACTTTTTGATAACGTTG
*
24958494 -GTGACTGTTTTGTAACTTTTTGA-AA-GTTG
1 AGTGACTATTTTGTAACTTTTTGATAACGTTG
24958523 AGTGACTA
1 AGTGACTA
24958531 AAATGAAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 4 0.12
30 8 0.25
31 20 0.62
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.46
Consensus pattern (32 bp):
AGTGACTATTTTGTAACTTTTTGATAACGTTG
Found at i:24973089 original size:11 final size:12
Alignment explanation
Indices: 24973072--24973105 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
24973062 ATTTAAGTAA
24973072 ATATTATAATAT
1 ATATTATAATAT
24973084 -TATTATAATAT
1 ATATTATAATAT
24973095 ATCATTATAAT
1 AT-ATTATAAT
24973106 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 1 0.05
13 8 0.40
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTATAATAT
Found at i:24973190 original size:15 final size:15
Alignment explanation
Indices: 24973162--24973195 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24973152 ACATAAAGTT
24973162 GAAACGAAAAAGAAA
1 GAAACGAAAAAGAAA
24973177 GAAA-GAAAATAGAAA
1 GAAACGAAAA-AGAAA
24973192 GAAA
1 GAAA
24973196 AAGAAAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (15 bp):
GAAACGAAAAAGAAA
Found at i:24973844 original size:5 final size:5
Alignment explanation
Indices: 24973810--24973843 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
24973800 TAAGGTAAGT
*
24973810 ATTGA TATTGA ATTGA ATTGA ATTGA ATTAA ATT
1 ATTGA -ATTGA ATTGA ATTGA ATTGA ATTGA ATT
24973844 ATGAGTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (5 bp):
ATTGA
Found at i:24974734 original size:21 final size:22
Alignment explanation
Indices: 24974705--24974746 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
24974695 TGAACATATG
*
24974705 TATGTTATGTTCAAG-TAATAA
1 TATGGTATGTTCAAGTTAATAA
24974726 TATGGTATGTTCAAGTTAATA
1 TATGGTATGTTCAAGTTAATA
24974747 CTCAAATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.43
Consensus pattern (22 bp):
TATGGTATGTTCAAGTTAATAA
Found at i:24975449 original size:19 final size:20
Alignment explanation
Indices: 24975420--24975458 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
24975410 AAAGGAACAT
24975420 TATGATTAAATTATGATGTG
1 TATGATTAAATTATGATGTG
*
24975440 TATG-TTAAATTATTATGTG
1 TATGATTAAATTATGATGTG
24975459 ATTATTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
TATGATTAAATTATGATGTG
Found at i:24976458 original size:19 final size:19
Alignment explanation
Indices: 24976406--24976456 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
24976396 ATGGGATTTC
*
24976406 TTATTTTT-TTATTATAATT
1 TTATTTTTCTT-TTCTAATT
24976425 TTATTTTTCTTTTCTAATT
1 TTATTTTTCTTTTCTAATT
24976444 TTAATTTTTCTTT
1 TT-ATTTTTCTTT
24976457 CTCTTCCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (19 bp):
TTATTTTTCTTTTCTAATT
Found at i:24983305 original size:29 final size:30
Alignment explanation
Indices: 24983272--24983335 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
24983262 TATACATAGT
*
24983272 CATCCAACAATAAAAAATTT-CACTTTAAG
1 CATCCAACAATAAAAAATTTACAATTTAAG
* *
24983301 CATCC-ATAATAAAAAGTTTACAATTTAAG
1 CATCCAACAATAAAAAATTTACAATTTAAG
24983330 CATCCA
1 CATCCA
24983336 CATTATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (30 bp):
CATCCAACAATAAAAAATTTACAATTTAAG
Found at i:24983626 original size:18 final size:18
Alignment explanation
Indices: 24983612--24983652 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
24983602 AAATATATTT
24983612 AAATATATAATTATATAA
1 AAATATATAATTATATAA
24983630 AAATATATAATTATATAA
1 AAATATATAATTATATAA
24983648 AAATA
1 AAATA
24983653 AATTAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATATATAATTATATAA
Found at i:24988886 original size:7 final size:7
Alignment explanation
Indices: 24988876--24988915 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
24988866 GGAGTGGGGG
24988876 CTTTTGC
1 CTTTTGC
24988883 CTTTTGC
1 CTTTTGC
24988890 CTTTTGC
1 CTTTTGC
24988897 CTTTTGC
1 CTTTTGC
*
24988904 CTTTTGG
1 CTTTTGC
24988911 CTTTT
1 CTTTT
24988916 CATTAAAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.00, C:0.25, G:0.15, T:0.60
Consensus pattern (7 bp):
CTTTTGC
Found at i:24996463 original size:15 final size:16
Alignment explanation
Indices: 24996443--24996477 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
24996433 GCTTTTAAAA
24996443 TAATATGAA-TTGTTT
1 TAATATGAACTTGTTT
*
24996458 TAATATGAACTTTTTT
1 TAATATGAACTTGTTT
24996474 TAAT
1 TAAT
24996478 TTATTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (16 bp):
TAATATGAACTTGTTT
Found at i:24999114 original size:17 final size:17
Alignment explanation
Indices: 24999092--24999129 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
24999082 GTTCGAAAAA
24999092 GGACTAAATCGCATAAG
1 GGACTAAATCGCATAAG
24999109 GGACTAAATCGCATAAG
1 GGACTAAATCGCATAAG
24999126 GGAC
1 GGAC
24999130 AAAAGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.16
Consensus pattern (17 bp):
GGACTAAATCGCATAAG
Found at i:25001262 original size:48 final size:48
Alignment explanation
Indices: 25001191--25001340 Score: 126
Period size: 48 Copynumber: 3.1 Consensus size: 48
25001181 TAGGGGTGTT
**
25001191 ACATGGCATCAGCAATGTTACGAGAGCTAGAT-TAAGACCAAGT-TTGGG
1 ACATGGCATCAGCAATGAGACGAGAGCTAG-TGTAAGACCAAGTCTT-GG
* * *
25001239 ACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTTGG
1 ACATGGCATCAGCAATGAGACGAGAGCTAGTGTAAGACCAAGTCTTGG
** * * * * * * *
25001287 ACATGATATCAGC-CTCGACATGTGAGCCAGTGTAAGACCATGTCTGGG
1 ACATGGCATCAGCAAT-GAGACGAGAGCTAGTGTAAGACCAAGTCTTGG
25001335 ACATGG
1 ACATGG
25001341 TATCGGTAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
47 2 0.02
48 80 0.95
49 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
ACATGGCATCAGCAATGAGACGAGAGCTAGTGTAAGACCAAGTCTTGG
Found at i:25008874 original size:48 final size:48
Alignment explanation
Indices: 25008788--25009056 Score: 247
Period size: 48 Copynumber: 5.6 Consensus size: 48
25008778 TGTGTGCTAC
* * * * * *
25008788 TGTAAGACCATGTTTGGGACATGGAATCGACCACATTATGAAAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACAATATTATGAGAGCCAG
* * *
25008836 TGCAAGACCATGTTTGGAACATGGCATTGGCAATATTATGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACAATATTATGAGAGCCAG
* * * *
25008884 TGTAAGACCATGTTTGGAACATGGGATCGACAATGTTATGAGACCCAA
1 TGTAAGACCATGTTTGGAACATGGCATCGACAATATTATGAGAGCCAG
* * *
25008932 TGTAAGACCATTTTTGGAACATGGCATC-AGCAATGTTACGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGA-CAATATTATGAGAGCCAG
* * * ** * * * *
25008980 AGTAAGAGCATGTCT-GAGACATGGCATCGGTATTGA-GACGAGAGCTAG
1 TGTAAGACCATGTTTGGA-ACATGGCATCGACAAT-ATTATGAGAGCCAG
* *
25009028 TGTAAGACCATGTCTGGGACATGGCATCG
1 TGTAAGACCATGTTTGGAACATGGCATCG
25009057 GCCTCGACAT
Statistics
Matches: 182, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
47 3 0.02
48 178 0.98
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGAACATGGCATCGACAATATTATGAGAGCCAG
Found at i:25009073 original size:48 final size:48
Alignment explanation
Indices: 25008969--25009078 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 48
25008959 CAGCAATGTT
* * * * * *
25008969 ACGAGAGCCAGAGTAAGAGCATGTCTGAGACATGGCATCGGTATTGAG
1 ACGAGAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATCGAC
* *
25009017 ACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAC
1 ACGAGAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATCGAC
*
25009065 A-TATGAGCTAGTGT
1 ACGA-GAGCTAGTGT
25009079 GGCCTCGACA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.02
48 51 0.98
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (48 bp):
ACGAGAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATCGAC
Found at i:25009086 original size:23 final size:23
Alignment explanation
Indices: 25009056--25009101 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
25009046 ACATGGCATC
25009056 GGCCTCGACATATGAGCTAGTGT
1 GGCCTCGACATATGAGCTAGTGT
*
25009079 GGCCTCGACATGTGAGCTAGTGT
1 GGCCTCGACATATGAGCTAGTGT
25009102 AAAACTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.26
Consensus pattern (23 bp):
GGCCTCGACATATGAGCTAGTGT
Found at i:25011059 original size:242 final size:229
Alignment explanation
Indices: 25010614--25011084 Score: 629
Period size: 242 Copynumber: 2.0 Consensus size: 229
25010604 TCGTCCAACT
* * *
25010614 AACACACCAAACTGGCATCGGAGTGCATCTTGACATACAAGACGCATACCTGGCACACAAGGTGC
1 AACACACCAAACTAGCATCGAAGTGCATCCTGACATACAAGACGCATACCTGGCACACAAGGTGC
* *
25010679 ATCTTGGCGCCTAATGTATATCTAGCACATGAAATGCATCTTGGCGTATCTCATACTCAATCCAA
66 ATCTTGGCGCATAATGTATATCTAGCACATGAAATGCATCTTGGCGTATCCCATACTCAATCCAA
*
25010744 TCCTATGGCATGCCAACTATATCCAAATCAACCCCACTAGTTAGTAGGGTATCAAATTTCAATTC
131 TCCTATGGCATGCCAACTATATCCAAATCAACCCCACTAGTTAATAGGGTATCAAATTTCAATTC
*
25010809 CATTTAGAATATAATACACATATCAATTTTTCAATC
196 CATTTAGAATATAATACACATA--AAATTTTCAATC
* * * *
25010845 AACACACCAAACTAGCATCGAAGTGCATCCTGACGTACAAGATGCATACTTGGCGCACAAGGTG-
1 AACACACCAAACTAGCATCGAAGTGCATCCTGACATACAAGACGCATACCTGGCACACAAGGTGC
*
25010909 ATCTTGGCGCATAAGTGTATATCTAGCACATGAAATGCATCCTGGTGTATAAGCGCATAATCCCG
66 ATCTTGGCGCATAA-TGTATATCTAGCACATGAAATGCAT-CT--TG-----GCG--T-ATCCCA
* * ** *
25010974 TACTCAATCCAATCCTATGGCATGCCAACTATATCCAACTGAACCTGACTAGTTAATATGGTATC
119 TACTCAATCCAATCCTATGGCATGCCAACTATATCCAAATCAACCCCACTAGTTAATAGGGTATC
* **
25011039 AAATTTTAATTCTGTTTAGAATATAATACACATAAAATTTTCAATC
184 AAATTTCAATTCCATTTAGAATATAATACACATAAAATTTTCAATC
25011085 CTATACACTA
Statistics
Matches: 208, Mismatches: 20, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
230 13 0.06
231 82 0.39
232 2 0.01
234 2 0.01
239 3 0.01
240 11 0.05
241 1 0.00
242 94 0.45
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (229 bp):
AACACACCAAACTAGCATCGAAGTGCATCCTGACATACAAGACGCATACCTGGCACACAAGGTGC
ATCTTGGCGCATAATGTATATCTAGCACATGAAATGCATCTTGGCGTATCCCATACTCAATCCAA
TCCTATGGCATGCCAACTATATCCAAATCAACCCCACTAGTTAATAGGGTATCAAATTTCAATTC
CATTTAGAATATAATACACATAAAATTTTCAATC
Found at i:25012045 original size:20 final size:20
Alignment explanation
Indices: 25012022--25012060 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25012012 TTAATTAAAA
*
25012022 TAATTAACCTTACTTTAATT
1 TAATAAACCTTACTTTAATT
*
25012042 TAATAAACCTTATTTTAAT
1 TAATAAACCTTACTTTAAT
25012061 GAAGCTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAAACCTTACTTTAATT
Found at i:25021257 original size:18 final size:19
Alignment explanation
Indices: 25021221--25021259 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
25021211 AAAAAAATTT
*
25021221 TAAAAAAATTATTCATTGAA
1 TAAAAAAAATATT-ATTGAA
25021241 TAAAAAAAATATT-TTGAA
1 TAAAAAAAATATTATTGAA
25021259 T
1 T
25021260 TGATAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (19 bp):
TAAAAAAAATATTATTGAA
Found at i:25021647 original size:23 final size:22
Alignment explanation
Indices: 25021621--25021679 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
25021611 ATTATCAAAA
25021621 CAAA-AATATTATTAGCAATTACG
1 CAAATAATATTATTAG-AATT-CG
*
25021644 CAAATACTTATT-TTAGAATTCG
1 CAAATA-ATATTATTAGAATTCG
25021666 -AAATAATATTATTA
1 CAAATAATATTATTA
25021680 TTTATTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 4 0.13
21 8 0.26
22 2 0.06
23 8 0.26
24 5 0.16
25 4 0.13
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (22 bp):
CAAATAATATTATTAGAATTCG
Found at i:25021800 original size:19 final size:18
Alignment explanation
Indices: 25021776--25021819 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
25021766 TAATGATTAC
25021776 TTAAATTAATTATATAAAA
1 TTAAATTAATTAT-TAAAA
**
25021795 TTAAATTTTTTATTAAAA
1 TTAAATTAATTATTAAAA
25021813 -TAAATTA
1 TTAAATTA
25021820 TATAAATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAATTAATTATTAAAA
Found at i:25042857 original size:30 final size:30
Alignment explanation
Indices: 25042823--25042883 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25042813 TCCTTAACTC
25042823 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
25042853 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
25042883 A
1 A
25042884 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25045029 original size:24 final size:24
Alignment explanation
Indices: 25044996--25045076 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 24
25044986 TAAACTTAAT
*
25044996 TATTTTAATATTAAATTAATATAA
1 TATTTAAATATTAAATTAATATAA
*
25045020 TATTTAAATATTAAATTAAATTTAA
1 TATTTAAATATTAAATT-AATATAA
* * *
25045045 TATTAAATATTATTAAAATAATAGAA
1 TATTTAA-A-TATTAAATTAATATAA
25045071 TATTTA
1 TATTTA
25045077 TCTACAAGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 16 0.34
25 12 0.26
26 11 0.23
27 8 0.17
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (24 bp):
TATTTAAATATTAAATTAATATAA
Found at i:25045139 original size:20 final size:18
Alignment explanation
Indices: 25045089--25045140 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
25045079 TACAAGATAA
25045089 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
25045106 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
25045126 AATATTAAATTAATA
1 AATATTAAATTAATA
25045141 AAATCTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:25054288 original size:35 final size:35
Alignment explanation
Indices: 25054245--25054400 Score: 150
Period size: 35 Copynumber: 4.5 Consensus size: 35
25054235 CAAGGTTTAT
*
25054245 TATATCATCACATATGGCCAAATATACAAGTACAA
1 TATATCATCACATATGGCCAAATATACAAGTTCAA
* * * * * *
25054280 TTTATCATCATATATGACCGAATATTCAAGCTCAA
1 TATATCATCACATATGGCCAAATATACAAGTTCAA
* * ** * * ** *
25054315 TAAAACATCACAGGTAGTCAAATATTTAAGTTTAA
1 TATATCATCACATATGGCCAAATATACAAGTTCAA
* *
25054350 TATAACATCACATGTGGCCAAATATACAAGTTCAA
1 TATATCATCACATATGGCCAAATATACAAGTTCAA
25054385 TATATCATCACATATG
1 TATATCATCACATATG
25054401 TACATACCTA
Statistics
Matches: 92, Mismatches: 29, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 92 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (35 bp):
TATATCATCACATATGGCCAAATATACAAGTTCAA
Found at i:25058650 original size:5 final size:5
Alignment explanation
Indices: 25058640--25058686 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
25058630 TTATGTTTTA
25058640 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
25058687 AAACTAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:25059973 original size:15 final size:15
Alignment explanation
Indices: 25059950--25060004 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
25059940 TAGTATGCGA
*
25059950 TGAATTTATATTGAT
1 TGAAATTATATTGAT
*
25059965 TGAAATTATTTTGAT
1 TGAAATTATATTGAT
25059980 TGAAATTATATTGAT
1 TGAAATTATATTGAT
25059995 TG-AATTATAT
1 TGAAATTATAT
25060005 AATATATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
14 8 0.22
15 29 0.78
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (15 bp):
TGAAATTATATTGAT
Found at i:25060403 original size:23 final size:21
Alignment explanation
Indices: 25060376--25060463 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
25060366 GGCTTTATCG
* *
25060376 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
25060397 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
*
25060420 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* *
25060441 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
25060462 AT
1 AT
25060464 ACTGATCAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
21 41 0.69
23 18 0.31
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:25060424 original size:21 final size:21
Alignment explanation
Indices: 25060389--25060463 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
25060379 AGGCACTTTA
25060389 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
25060412 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* **
25060433 TGTGTCGTATCAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
25060454 TGTGTCGTAT
1 TGTGTCGTAT
25060464 ACTGATCAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
21 40 0.82
23 9 0.18
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:25068667 original size:16 final size:17
Alignment explanation
Indices: 25068650--25068725 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 17
25068640 TATTTATTAT
25068650 ATAAATATCTTATAAT-
1 ATAAATATCTTATAATA
* *
25068666 ATAATTA-CTTA-ATTA
1 ATAAATATCTTATAATA
25068681 ATAAATATCTTTTATAAATA
1 ATAAATATC--TTAT-AATA
25068701 ATAAATATC-TATTAATA
1 ATAAATATCTTA-TAATA
25068718 ATTAAATA
1 A-TAAATA
25068726 CATGCATTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
14 2 0.04
15 10 0.21
16 7 0.15
17 7 0.15
18 10 0.21
20 12 0.25
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAAATATCTTATAATA
Found at i:25071263 original size:28 final size:28
Alignment explanation
Indices: 25071223--25071279 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
25071213 CCATTGGAAG
25071223 TAAAGTTAATAATTTTTAGTTTTGTATT
1 TAAAGTTAATAATTTTTAGTTTTGTATT
25071251 TAAAGTTAATAATTTTTAGTTTTGTATT
1 TAAAGTTAATAATTTTTAGTTTTGTATT
25071279 T
1 T
25071280 GATTCGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (28 bp):
TAAAGTTAATAATTTTTAGTTTTGTATT
Found at i:25076862 original size:34 final size:34
Alignment explanation
Indices: 25076788--25076862 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
25076778 AATATTGTTT
* * *
25076788 AATATAAATTAATTTTAATATTTTTTATTAATCA
1 AATATAAATAAATTTAAATATTATTTATTAATCA
*
25076822 ATTATAAA-AAATTTAAATAATTATTT-TTAATACA
1 AATATAAATAAATTTAAAT-ATTATTTATTAAT-CA
25076856 AATATAA
1 AATATAA
25076863 TTTTATTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
33 13 0.38
34 21 0.62
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (34 bp):
AATATAAATAAATTTAAATATTATTTATTAATCA
Found at i:25077855 original size:18 final size:18
Alignment explanation
Indices: 25077834--25077870 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
25077824 TAAATTTTCG
*
25077834 AATTCGAATAACTTGAAT
1 AATTCGAATAAATTGAAT
25077852 AATTCGAATAAATTGAAT
1 AATTCGAATAAATTGAAT
25077870 A
1 A
25077871 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTCGAATAAATTGAAT
Found at i:25078535 original size:37 final size:37
Alignment explanation
Indices: 25078485--25078561 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
25078475 TCAAAATACA
25078485 TAATCAGAAGATAATTGAAGAACCTAAGCAAAGAAGC
1 TAATCAGAAGATAATTGAAGAACCTAAGCAAAGAAGC
25078522 TAATCAGAAGATAATTGAAGAACCTAAGCAAAGAAGC
1 TAATCAGAAGATAATTGAAGAACCTAAGCAAAGAAGC
25078559 TAA
1 TAA
25078562 CCCGTATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.52, C:0.13, G:0.18, T:0.17
Consensus pattern (37 bp):
TAATCAGAAGATAATTGAAGAACCTAAGCAAAGAAGC
Found at i:25080055 original size:38 final size:38
Alignment explanation
Indices: 25080004--25080080 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
25079994 CCACGCGGCT
25080004 AGGTCACACGCCCATGTGAAACATACTGACTTGGTTTC
1 AGGTCACACGCCCATGTGAAACATACTGACTTGGTTTC
25080042 AGGTCACACGCCCATGTGAAACATACTGACTTGGTTTC
1 AGGTCACACGCCCATGTGAAACATACTGACTTGGTTTC
25080080 A
1 A
25080081 AATTTAACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (38 bp):
AGGTCACACGCCCATGTGAAACATACTGACTTGGTTTC
Found at i:25081896 original size:20 final size:21
Alignment explanation
Indices: 25081858--25081897 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25081848 CTTGTATGAC
25081858 TATCATCAAACATTCAAAATG
1 TATCATCAAACATTCAAAATG
*
25081879 TATCATTAAACA-TCAAAAT
1 TATCATCAAACATTCAAAAT
25081898 ACTCATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (21 bp):
TATCATCAAACATTCAAAATG
Found at i:25087019 original size:488 final size:488
Alignment explanation
Indices: 25086103--25087557 Score: 2671
Period size: 488 Copynumber: 3.0 Consensus size: 488
25086093 GTTAACATTT
25086103 AGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGAAA
1 AGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGAAA
*
25086168 ATTATTTTCCACGATCTCTGCTCGAATACCCGATTGAAACATTTGGATGAGTGAACAAATCTTTG
66 ATTATTTTCCACGATCTCTGCTCGAATGCCCGATTGAAACATTTGGATGAGTGAACAAATCTTTG
* * *
25086233 AATTTATTTAATGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCTGA
131 AATTTCTTTGACGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCTGA
25086298 ATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAACAA
196 ATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAACAA
25086363 ATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAAAAAATTGT
261 ATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAAAAAATTGT
* *
25086428 TTGCACATGATTTCTTCGGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCTTT
326 TTGCACATGATTTCTTTGGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCTCT
*
25086493 TTCATACTCGGTCACCGTCATACGGCCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATCAA
391 TTCATACTCGGTCACCGTCATACGACCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATCAA
*
25086558 GAAACTGCTGACTTATATATTTCTCACACTGTC
456 GAAACTGCTGACTTATATATTTCTCACACTATC
25086591 AGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGAAA
1 AGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGAAA
*
25086656 ATTATTTTCCACGATCTCTACTCGAATGCCCGATTGAAACATTTGGATGAGTGAACAAATCTTTG
66 ATTATTTTCCACGATCTCTGCTCGAATGCCCGATTGAAACATTTGGATGAGTGAACAAATCTTTG
25086721 AATTTCTTTGACGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCTGA
131 AATTTCTTTGACGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCTGA
25086786 ATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAACAA
196 ATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAACAA
25086851 ATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAAAAAATTGT
261 ATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAAAAAATTGT
25086916 TTGCACATGATTTCTTTGGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCTCT
326 TTGCACATGATTTCTTTGGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCTCT
25086981 TTCATACTCGGTCACCGTCATACGACCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATCAA
391 TTCATACTCGGTCACCGTCATACGACCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATCAA
25087046 GAAACTGCTGACTTATATATTTCTCACACTATC
456 GAAACTGCTGACTTATATATTTCTCACACTATC
*
25087079 AGGTCTATAGTTTCTCACACTATCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGAAA
1 AGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGAAA
*
25087144 ATTATTTTCCACGATCTCTGCTCGAATGCCGGATTGAAACATTTGGATGAGTGAACAAATCTTTG
66 ATTATTTTCCACGATCTCTGCTCGAATGCCCGATTGAAACATTTGGATGAGTGAACAAATCTTTG
* * **
25087209 AATTTCTTTGACGGAGATTGATATGGCTTATTCATTGGTATTTTTCTCGAGTCTATAGCCTCTGA
131 AATTTCTTTGACGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCTGA
25087274 ATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAACAA
196 ATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAACAA
* * * *
25087339 ATTCTTTCAATTTTAGAATTTTGACTAGAAGTTTAATATCCTCATTGAACCCATCAACAAATTGT
261 ATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAAAAAATTGT
* *
25087404 TTGCACATGATTT-TTTCGGTAGAAATATATTCCCGAGCATACTTAATCAATCGTACAAATTCTC
326 TTGCACATGATTTCTTT-GGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCTC
*
25087468 TTTCATACTCGGTCACCGTCATACGACCCTGTTTCAATTCTAGAAACTTTTTGTGCTTTTGATCA
390 TTTCATACTCGGTCACCGTCATACGACCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATCA
*
25087533 ATG-AACTACTGACTTATATATTTCT
455 A-GAAACTGCTGACTTATATATTTCT
25087558 TCTGGAACTC
Statistics
Matches: 941, Mismatches: 24, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
487 3 0.00
488 937 1.00
489 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (488 bp):
AGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGAAA
ATTATTTTCCACGATCTCTGCTCGAATGCCCGATTGAAACATTTGGATGAGTGAACAAATCTTTG
AATTTCTTTGACGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCTGA
ATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAACAA
ATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAAAAAATTGT
TTGCACATGATTTCTTTGGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCTCT
TTCATACTCGGTCACCGTCATACGACCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATCAA
GAAACTGCTGACTTATATATTTCTCACACTATC
Found at i:25093532 original size:20 final size:21
Alignment explanation
Indices: 25093494--25093533 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25093484 CTTGTATGAC
25093494 TATCATCAAACATTCAAAATG
1 TATCATCAAACATTCAAAATG
*
25093515 TATCATTAAACA-TCAAAAT
1 TATCATCAAACATTCAAAAT
25093534 ACTCATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (21 bp):
TATCATCAAACATTCAAAATG
Found at i:25094727 original size:28 final size:28
Alignment explanation
Indices: 25094702--25094758 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
25094692 CCTAAAACTC
25094702 TAAACCCAT-ATTTATTTTTTAAAAACCA
1 TAAA-CCATAATTTATTTTTTAAAAACCA
*
25094730 TAAACCTTAATTTATTTTTTTCAAAAACC
1 TAAACCATAATTTA-TTTTTT-AAAAACC
25094759 CTAACCCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 9 0.36
29 6 0.24
30 7 0.28
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAACCATAATTTATTTTTTAAAAACCA
Found at i:25094798 original size:79 final size:78
Alignment explanation
Indices: 25094689--25094837 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 78
25094679 CCTATTAAAA
* * * *
25094689 AACCCTAAAACTCTAAACCCATATTTATTTTTTAAAAACCATAAACCTTAATTTATTTTTTT-CA
1 AACCCTAAAACTCTAAACCCAAATTCATTTTTCAAAAACCATAAACCCTAATTT-TTTTTTTCCA
25094753 AAAACCCTAACCCT
65 AAAACCCTAACCCT
* * *
25094767 AACCCTTAAAAC-CTTAAACCTAAATTCATTTTTCAAAAATCTTAAACCCTAATTTTTTTTTTCC
1 AACCC-TAAAACTC-TAAACCCAAATTCATTTTTCAAAAACCATAAACCCTAATTTTTTTTTTCC
25094831 AAAAACC
64 AAAAACC
25094838 TTACCCATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
78 13 0.21
79 48 0.79
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (78 bp):
AACCCTAAAACTCTAAACCCAAATTCATTTTTCAAAAACCATAAACCCTAATTTTTTTTTTCCAA
AAACCCTAACCCT
Found at i:25094805 original size:28 final size:30
Alignment explanation
Indices: 25094774--25094840 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
25094764 CCTAACCCTT
25094774 AAAACCTTAAA-CCTAAATTCATTTTT-CA
1 AAAACCTTAAACCCTAAATTCATTTTTCCA
* * **
25094802 AAAATCTTAAACCCTAATTTTTTTTTTCCA
1 AAAACCTTAAACCCTAAATTCATTTTTCCA
25094832 AAAACCTTA
1 AAAACCTTA
25094841 CCCATAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.31
29 12 0.38
30 10 0.31
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAACCTTAAACCCTAAATTCATTTTTCCA
Found at i:25095887 original size:19 final size:20
Alignment explanation
Indices: 25095838--25095895 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
25095828 TTTTCTTACA
25095838 TAAA-ATTTTCAAAATTTATC
1 TAAAGATTTT-AAAATTTATC
*
25095858 TAAATATTTTAAAATTTA-C
1 TAAAGATTTTAAAATTTATC
* *
25095877 TTAAGATTTTAAATTTTAT
1 TAAAGATTTTAAAATTTAT
25095896 TTATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.48
20 12 0.36
21 5 0.15
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
TAAAGATTTTAAAATTTATC
Found at i:25099479 original size:20 final size:20
Alignment explanation
Indices: 25099456--25099493 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
25099446 TTTTAAGGTC
*
25099456 TTTTAAGTTTTATA-TATAT
1 TTTTTAGTTTTATACTATAT
*
25099475 TTTTTATTTTTATACTATA
1 TTTTTAGTTTTATACTATA
25099494 ATTAGTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTTAGTTTTATACTATAT
Found at i:25103093 original size:35 final size:35
Alignment explanation
Indices: 25103041--25103135 Score: 104
Period size: 34 Copynumber: 2.7 Consensus size: 35
25103031 AAATAGTCCT
* * *
25103041 GGGCCTAAGCCCTTCTCAGTATCAATTA-ACAGTTT
1 GGGCCTTAGCCCATCTCAGTATCAATTATACA-TTA
* * *
25103076 TGGCCTTAGCCCATCTCAGTATC-AGTATGCATTA
1 GGGCCTTAGCCCATCTCAGTATCAATTATACATTA
*
25103110 GGGCCTTAGCCCATCACAGTATCAAT
1 GGGCCTTAGCCCATCTCAGTATCAAT
25103136 AGCAATCATG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
34 26 0.53
35 23 0.47
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (35 bp):
GGGCCTTAGCCCATCTCAGTATCAATTATACATTA
Found at i:25110389 original size:25 final size:25
Alignment explanation
Indices: 25110372--25110418 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
25110362 TTTGATATAT
25110372 AATGAA-TTTATTGAATTTATATTG
1 AATGAATTTTATTGAATTTATATTG
*
25110396 ATTGAATTTTATTGAATTTATAT
1 AATGAATTTTATTGAATTTATAT
25110419 GATATATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (25 bp):
AATGAATTTTATTGAATTTATATTG
Found at i:25110410 original size:14 final size:15
Alignment explanation
Indices: 25110381--25110410 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25110371 TAATGAATTT
25110381 ATTGAATTTATATTG
1 ATTGAATTTATATTG
25110396 ATTGAATTT-TATTG
1 ATTGAATTTATATTG
25110410 A
1 A
25110411 ATTTATATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:25117221 original size:13 final size:13
Alignment explanation
Indices: 25117203--25117250 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
25117193 TTCTTCCTTC
25117203 TCTTCTCTTTTCT
1 TCTTCTCTTTTCT
*
25117216 TCTTCTATTTTCT
1 TCTTCTCTTTTCT
* *
25117229 TTTTCTCCTTTTTT
1 TCTTCT-CTTTTCT
25117243 TCTTCTCT
1 TCTTCTCT
25117251 AGCCAAAACG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (13 bp):
TCTTCTCTTTTCT
Found at i:25117229 original size:18 final size:19
Alignment explanation
Indices: 25117193--25117231 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
25117183 AAGTGCCGAA
*
25117193 TTCTTCCTTCTCTTCTCTT
1 TTCTTCCTTCTATTCTCTT
*
25117212 TTCTT-CTTCTATTTTCTT
1 TTCTTCCTTCTATTCTCTT
25117230 TT
1 TT
25117232 TCTCCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTTCCTTCTATTCTCTT
Found at i:25123252 original size:29 final size:28
Alignment explanation
Indices: 25123208--25123262 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
25123198 CTGAAGTACT
25123208 GATATCATGGCCCGAAGCCAAATTAGCA
1 GATATCATGGCCCGAAGCCAAATTAGCA
* *
25123236 GATATTCATGGCTCGAAGCTAAATTAG
1 GATA-TCATGGCCCGAAGCCAAATTAG
25123263 TATAACTCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (28 bp):
GATATCATGGCCCGAAGCCAAATTAGCA
Found at i:25127942 original size:29 final size:29
Alignment explanation
Indices: 25127909--25127968 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
25127899 TGATGTGTCG
* *
25127909 TGATATA-AGTTTAGCTAGGATGGGTAACT
1 TGATATATA-TTTAGCTAGGATGAGCAACT
*
25127938 TGATATATATTTAGCTCGGATGAGCAACT
1 TGATATATATTTAGCTAGGATGAGCAACT
25127967 TG
1 TG
25127969 GTGTGGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (29 bp):
TGATATATATTTAGCTAGGATGAGCAACT
Found at i:25132353 original size:13 final size:13
Alignment explanation
Indices: 25132335--25132360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25132325 CTTATATTAT
25132335 TAGTTCGCAATTG
1 TAGTTCGCAATTG
25132348 TAGTTCGCAATTG
1 TAGTTCGCAATTG
25132361 CAACAATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TAGTTCGCAATTG
Found at i:25134881 original size:46 final size:46
Alignment explanation
Indices: 25134700--25134918 Score: 193
Period size: 46 Copynumber: 4.7 Consensus size: 46
25134690 GGTTATTGTG
* **
25134700 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACAT-A
* *
25134745 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGC-ATTGAGACGAGT-
1 -AGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCTA-CGAGAC-A-TA
*
25134795 -GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGAGACATA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACATA
* *
25134840 AGCTAGTATAAGACATGTCTGGGACATGCATCGGCTACGAG--ATG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACATA
* * *
25134884 TGTTAGTGTAAGACCATGTCTGGGGCATGGCATCG
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
25134919 ATATAGATAT
Statistics
Matches: 145, Mismatches: 14, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
44 13 0.09
45 16 0.11
46 64 0.44
47 31 0.21
48 18 0.12
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACATA
Found at i:25136079 original size:21 final size:21
Alignment explanation
Indices: 25136054--25136103 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
25136044 TAGTGGCCAT
25136054 ACGGGCGTGTTGCCCCTCTAC
1 ACGGGCGTGTTGCCCCTCTAC
25136075 ACGGGCGTGTTGCCCCTCTAC
1 ACGGGCGTGTTGCCCCTCTAC
25136096 ACGGGCGT
1 ACGGGCGT
25136104 ATACCCTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.10, C:0.36, G:0.32, T:0.22
Consensus pattern (21 bp):
ACGGGCGTGTTGCCCCTCTAC
Found at i:25146395 original size:43 final size:41
Alignment explanation
Indices: 25146236--25146439 Score: 209
Period size: 41 Copynumber: 5.0 Consensus size: 41
25146226 GTTCATTGCT
*
25146236 GAAGCTATCTTAAATC--GCACACTAAGTGCCATATATAGCC
1 GAAGCTATC-TCAATCTTGCACACTAAGTGCCATATATAGCC
* * * * * *
25146276 GAAGTTATATCAATCTTGAACACTAAGTTCCATATATGGTC
1 GAAGCTATCTCAATCTTGCACACTAAGTGCCATATATAGCC
**
25146317 GAAGCTATCTCAATCTCACACACTAAGTGCCATATATAGCC
1 GAAGCTATCTCAATCTTGCACACTAAGTGCCATATATAGCC
* *
25146358 GAAGCTATCTCTATCTTGCACACTAAATGCCATATATATAGCC
1 GAAGCTATCTCAATCTTGCACACTAAGTGCC--ATATATAGCC
* * * *
25146401 AAAGCTATGTTGAATC--GCACACTAAGTGCCACATATAGC
1 GAAGCTAT-CTCAATCTTGCACACTAAGTGCCATATATAGC
25146440 TAATTTGTTG
Statistics
Matches: 134, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
39 5 0.04
40 15 0.11
41 80 0.60
42 13 0.10
43 17 0.13
44 4 0.03
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (41 bp):
GAAGCTATCTCAATCTTGCACACTAAGTGCCATATATAGCC
Found at i:25148229 original size:37 final size:37
Alignment explanation
Indices: 25148176--25148278 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
25148166 CGAATAGTCC
* *
25148176 CCACACGTAGTTATCGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
25148213 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
25148250 CCGCATGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
25148279 ATATATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:25148477 original size:48 final size:48
Alignment explanation
Indices: 25148419--25148874 Score: 840
Period size: 48 Copynumber: 9.5 Consensus size: 48
25148409 ATATACACAC
* *
25148419 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
25148467 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
25148515 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
25148563 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAAACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
25148611 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
25148659 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
25148707 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
25148755 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
25148803 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
25148851 ATCTCATACATATTTCACATTAGC
1 ATCTCATACATATTTCACACTAGC
25148875 TCATATATAT
Statistics
Matches: 400, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 400 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
Found at i:25148877 original size:21 final size:21
Alignment explanation
Indices: 25148853--25148895 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
25148843 ATATACATAT
25148853 CTCATACATATTTCACATTAG
1 CTCATACATATTTCACATTAG
*
25148874 CTCATATATATTTCACATTAG
1 CTCATACATATTTCACATTAG
25148895 C
1 C
25148896 CATTCGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (21 bp):
CTCATACATATTTCACATTAG
Found at i:25148900 original size:69 final size:69
Alignment explanation
Indices: 25148805--25148943 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
25148795 ATATACATAT
25148805 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
25148870 TTAG
66 TTAG
* * *
25148874 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
25148939 TTAG
66 TTAG
25148943 C
1 C
25148944 CATTCGGCTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (69 bp):
CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
TTAG
Found at i:25148905 original size:117 final size:117
Alignment explanation
Indices: 25148757--25148991 Score: 434
Period size: 117 Copynumber: 2.0 Consensus size: 117
25148747 ATATACATAT
25148757 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
25148822 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* * *
25148874 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
*
25148939 TTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
25148991 C
1 C
25148992 CATTCACCTT
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 114 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (117 bp):
CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
Found at i:25148927 original size:48 final size:48
Alignment explanation
Indices: 25148874--25149200 Score: 564
Period size: 48 Copynumber: 6.8 Consensus size: 48
25148864 TTCACATTAG
*
25148874 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
*
25148922 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
**
25148970 CTCATACATATTTCACATTAGCCATTCACCTTTACCACATATACATAT
1 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
* *
25149018 CTCATACATATTTCACATTAGCCATTCGCCTTTACCATATATACATAT
1 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
*
25149066 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
1 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
*
25149114 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
1 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
* *
25149162 CTCATATATATTCCACATTAGCCATTCGGCTTTACCACA
1 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
25149201 CACATATATA
Statistics
Matches: 268, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 268 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
Found at i:25148994 original size:165 final size:165
Alignment explanation
Indices: 25148709--25149039 Score: 599
Period size: 165 Copynumber: 2.0 Consensus size: 165
25148699 ATATACGTAT
25148709 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
**
25148774 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCACCTTTA
25148839 CCACATATACATATCTCATACATATTTCACATTAG
131 CCACATATACATATCTCATACATATTTCACATTAG
* * *
25148874 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
* *
25148939 TTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCACCTTTA
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCACCTTTA
25149004 CCACATATACATATCTCATACATATTTCACATTAG
131 CCACATATACATATCTCATACATATTTCACATTAG
25149039 C
1 C
25149040 CATTCGCCTT
Statistics
Matches: 159, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 159 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (165 bp):
CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCACCTTTA
CCACATATACATATCTCATACATATTTCACATTAG
Found at i:25149042 original size:213 final size:213
Alignment explanation
Indices: 25148661--25149087 Score: 746
Period size: 213 Copynumber: 2.0 Consensus size: 213
25148651 ATATACGTAT
*
25148661 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
**
25148726 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCACCTTTA
*
25148791 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
131 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTC
*
25148856 ATACATATTTCACATTAG
196 ATACATATTTCACACTAG
* * *
25148874 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
* *
25148939 TTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCACCTTTA
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCACCTTTA
* *
25149004 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGCCTTTACCATATATACATATCTC
131 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTC
25149069 ATACATATTTCACACTAG
196 ATACATATTTCACACTAG
25149087 C
1 C
25149088 CATTCGGCTT
Statistics
Matches: 202, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
213 202 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (213 bp):
CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCACCTTTA
CCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTC
ATACATATTTCACACTAG
Found at i:25155077 original size:35 final size:35
Alignment explanation
Indices: 25155038--25155107 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
25155028 TTAAACTGCA
25155038 AAACTCAATGAAAACTGGGTTTAATTAAAAATAAC
1 AAACTCAATGAAAACTGGGTTTAATTAAAAATAAC
25155073 AAACTCAATGAAAACTGGGTTTAATTAAAAATAAC
1 AAACTCAATGAAAACTGGGTTTAATTAAAAATAAC
25155108 GTTTTCACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (35 bp):
AAACTCAATGAAAACTGGGTTTAATTAAAAATAAC
Found at i:25165848 original size:21 final size:21
Alignment explanation
Indices: 25165824--25165867 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
25165814 GAAAGTGACT
* *
25165824 AAGTTACATATACTAGCTGTG
1 AAGTCACATATACCAGCTGTG
25165845 AAGTCACATATACCAGCTGTG
1 AAGTCACATATACCAGCTGTG
25165866 AA
1 AA
25165868 TGCTCCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (21 bp):
AAGTCACATATACCAGCTGTG
Found at i:25168118 original size:28 final size:28
Alignment explanation
Indices: 25168078--25168140 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
25168068 GTCATTATCA
25168078 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
25168106 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
25168134 ACCCCAT
1 ACCCCAT
25168141 TAATATGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:25171077 original size:7 final size:8
Alignment explanation
Indices: 25171062--25171086 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25171052 TTGTGTATTC
25171062 TTTATTTT
1 TTTATTTT
25171070 TTTATTTT
1 TTTATTTT
25171078 TTTATTTT
1 TTTATTTT
25171086 T
1 T
25171087 AACAAATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:25177289 original size:35 final size:35
Alignment explanation
Indices: 25177235--25177360 Score: 164
Period size: 35 Copynumber: 3.6 Consensus size: 35
25177225 GTACATCGTC
* *
25177235 AATCCAACCATAACATGCCAATGCTTATAAGAGCT
1 AATCCAACCATAACATGCCAATGCTCATAAAAGCT
* ** *
25177270 AATCCAACCGTAATGTGCCAATGCTCATAATAGCT
1 AATCCAACCATAACATGCCAATGCTCATAAAAGCT
* *
25177305 AATCTAACCAAAACATGCCAATGCTCATAAAAGCT
1 AATCCAACCATAACATGCCAATGCTCATAAAAGCT
25177340 AATCCAACCGA-AACATGCCAA
1 AATCCAACC-ATAACATGCCAA
25177361 ACAGAGAGTA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
35 77 0.99
36 1 0.01
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.21
Consensus pattern (35 bp):
AATCCAACCATAACATGCCAATGCTCATAAAAGCT
Found at i:25186009 original size:15 final size:15
Alignment explanation
Indices: 25185969--25186012 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
25185959 CACGTAATCA
*
25185969 TATTGATAAAAAATA
1 TATTGATAAAAAATT
*
25185984 TATT-ATTAAAAATT
1 TATTGATAAAAAATT
*
25185998 TCTTGATAAAAAATT
1 TATTGATAAAAAATT
25186013 CCTTTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (15 bp):
TATTGATAAAAAATT
Found at i:25190444 original size:24 final size:21
Alignment explanation
Indices: 25190389--25190456 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
25190379 CTCTGCTCAA
25190389 ACTCCACCTGCTGCGGAGTAC
1 ACTCCACCTGCTGCGGAGTAC
25190410 ACTCCACCTGCTGCGGAGTAC
1 ACTCCACCTGCTGCGGAGTAC
*
25190431 ACTCCACCTGCTGCGAAGTAC
1 ACTCCACCTGCTGCGGAGTAC
25190452 TACTC
1 -ACTC
25190457 ACTCCTTCTG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
21 41 0.91
22 4 0.09
ACGTcount: A:0.21, C:0.38, G:0.21, T:0.21
Consensus pattern (21 bp):
ACTCCACCTGCTGCGGAGTAC
Found at i:25193638 original size:3 final size:3
Alignment explanation
Indices: 25193630--25193668 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
25193620 AAATGTTAAC
25193630 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25193669 GAGTACAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25194377 original size:21 final size:21
Alignment explanation
Indices: 25194351--25194406 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
25194341 TACTTCAATT
25194351 TTTTTTATATTTC-ATCATAA
1 TTTTTTATATTTCTATCATAA
*
25194371 TATTTTT-TGTATTCTATCATAA
1 T-TTTTTATAT-TTCTATCATAA
25194393 TTTTTTATATTTCT
1 TTTTTTATATTTCT
25194407 TAGGATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 3 0.10
21 17 0.57
22 10 0.33
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTTATATTTCTATCATAA
Found at i:25199263 original size:43 final size:43
Alignment explanation
Indices: 25199192--25199360 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 43
25199182 AAAGCTCGTA
* * *
25199192 CAATGCC-ATATCCCAGACATGGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
* * * * * *
25199234 CGATGGCACTGTCCCAGACAGGGTCTTACACGAAATCGA-ATAG
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATC-ACATAT
25199277 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-AT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
* * * *
25199319 ACAATGCCAATTTCCTAGACATGGTCCTACATGTAATCACAT
1 -CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
25199361 CTCGGTAACC
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 7 0.07
43 95 0.92
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
Found at i:25206294 original size:55 final size:52
Alignment explanation
Indices: 25206186--25206381 Score: 180
Period size: 55 Copynumber: 3.6 Consensus size: 52
25206176 ATTAGGGTTT
* * * *
25206186 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATA-CATGTAAGACCATGTCAAGACATGG-CATTGATAA-G-TTCATAAGGC
* *
25206241 AAGGAAATCATGTAAGACCATGTCAAGAAATGGCATTGATAAGTTACTATAAGGC
1 AAGGATA-CATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ATAAGGC
* * * * *
25206296 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGAT-ACATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGC
*
25206349 AATGATACTATGTAAGACCATGTCAAGACATGG
1 AAGGATAC-ATGTAAGACCATGTCAAGACATGG
25206382 AAATCGTAAG
Statistics
Matches: 116, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
52 6 0.05
53 32 0.28
54 8 0.07
55 66 0.57
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (52 bp):
AAGGATACATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:25206392 original size:108 final size:110
Alignment explanation
Indices: 25206193--25206393 Score: 277
Period size: 108 Copynumber: 1.8 Consensus size: 110
25206183 TTTAAGGATA
25206193 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
* *
25206258 CCATGTCAAGAAATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGAAATGGAATCGATAAGTTACTATAAGGCAAAGGTC
* * * *
25206303 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAATGATA-CTATGTAA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAATC-ATGTAA
*
25206364 GACCATGTCAAGACATGGAAATCG-TAAGTT
64 GACCATGTCAAGAAATGG-AATCGATAAGTT
25206394 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
107 4 0.05
108 41 0.51
109 10 0.12
110 26 0.32
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
CCATGTCAAGAAATGGAATCGATAAGTTACTATAAGGCAAAGGTC
Found at i:25206535 original size:23 final size:24
Alignment explanation
Indices: 25206509--25206553 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
25206499 AAGGTAAGGT
*
25206509 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
25206532 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
25206554 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:25206653 original size:16 final size:16
Alignment explanation
Indices: 25206632--25206662 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25206622 ATAAATTTGA
25206632 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
25206648 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
25206663 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:25210854 original size:55 final size:53
Alignment explanation
Indices: 25210746--25210936 Score: 159
Period size: 55 Copynumber: 3.5 Consensus size: 53
25210736 ATTAGGGTTT
* ** * * *
25210746 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGAAATGAC-ATCGATAA-G-TTCATAAGGC
* * * *
25210801 AAGGAAATCATGTAAGACCATGTCAAGAAATTACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGAAATGACATCGATAAGTT-C-ATAAGGC
* * * * ** * * *
25210856 AAAGCTCCCATGTAAGACCATGCCAAGGCATGGCATCGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGAAATGACATCGATAAGTTCATAAGGC
25210909 AAGGATACCATGTAAGACCATGTCAAGA
1 AAGGATACCATGTAAGACCATGTCAAGA
25210937 CATGGCAATG
Statistics
Matches: 107, Mismatches: 26, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
52 2 0.02
53 32 0.30
54 8 0.07
55 65 0.61
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGAAATGACATCGATAAGTTCATAAGGC
Found at i:25210952 original size:108 final size:110
Alignment explanation
Indices: 25210753--25210953 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
25210743 TTTAAGGATA
* *
25210753 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATCGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
25210818 CCATGTCAAGAAATTACATTGATAAGTTACTATAAGGCAAAGCTC
66 CCATGTCAAGAAATGACAATGATAAGTTACTATAAGGCAAAGCTC
* *
25210863 CCATGTAAGACCATGCCAAGGCATGGC-ATCGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATCGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* * *
25210925 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGAAATGACAATGATAAGTT
25210954 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 6 0.07
110 27 0.33
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATCGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGAAATGACAATGATAAGTTACTATAAGGCAAAGCTC
Found at i:25212676 original size:177 final size:173
Alignment explanation
Indices: 25212314--25212847 Score: 598
Period size: 177 Copynumber: 3.1 Consensus size: 173
25212304 AGCGTTACAA
* * * *
25212314 CTACCTTGGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTTGGGAGATAAG---
1 CTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGATC
* * * * * *
25212376 --ATC-T-AGTCTGCTCCCTTGCTACCTTAGGAAGATAAGACTATAATCT-TCAACCTGCTCTCT
66 TAATCTTCAGCCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAAT-TATTAGCCTGCTCCCT
* * * *
25212436 TGCTACCTCAAAGAAATAAGGCTGGTGACTACAATCTGCTCCCATA
130 TGCTACCTCAGAGAGATAAGGCT-GTGGCTA-AATCTGCTCCCATG
* * * * * *
25212482 CTACCTTGGGCAGATAAGATTCGCTATCTTCGATCTACTCCACTACTGCTTTGGGATATAAGATC
1 CTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGATC
* * *
25212547 TATACTCTTCAGCCTGCTCCCTTGCTACCTCAGAAAGATAAGACTACACTTATTAGCCTACTCCC
66 TA-A-TCTTCAGCCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGCCTGCTCCC
* * *
25212612 TTGCTACCTCAGATAGATAAGGCTAGTGGCTAAACTTTGCTCCCCTG
129 TTGCTACCTCAGAGAGATAAGGCT-GTGGCTAAA-TCTGCTCCCATG
* *
25212659 CTACCTCGAGAAGATAAGATTCGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 CTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGATC
* * * *
25212724 TACAATCTTCAGCCTGTTTCCTTGCTATCTCAGGAAGATAAGACTACAATTATTAGTCTGCTCCC
66 T--AATCTTCAGCCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGCCTGCTCCC
*
25212789 TTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCCTTG
129 TTGCTACCTCAGAGAGATAAGGCTG-TGGCT-AAATCTGCTCCCATG
*
25212836 CTATCTCAGAGA
1 CTACCTC-GAGA
25212848 GACAAAATCT
Statistics
Matches: 308, Mismatches: 42, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
168 56 0.18
174 1 0.00
175 2 0.01
176 5 0.02
177 235 0.76
178 8 0.03
179 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (173 bp):
CTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGATC
TAATCTTCAGCCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGCCTGCTCCCTT
GCTACCTCAGAGAGATAAGGCTGTGGCTAAATCTGCTCCCATG
Found at i:25212840 original size:88 final size:87
Alignment explanation
Indices: 25212560--25212844 Score: 209
Period size: 88 Copynumber: 3.2 Consensus size: 87
25212550 ACTCTTCAGC
* * * *
25212560 CTGCTCCCTTGCTACCTCAGAAAGATAAGACTACACTTATTAGCCTACTCCCTTGCTACCTCAGA
1 CTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGTCTGCTCCCTTGCTACCTCAGA
* *
25212625 TAGATAAGGCTAGTGGCTAAACT
66 GAGATAAGGCTA-TGGCTAAAAT
* * * * * * * * *
25212648 TTGCTCCCCTGCTACCTC-GAGAAGATAAGATTCGCCATCT-TCAATCTGCTCCAC-TACT-GCT
1 CTGCTCCCTTGCTACCTCAG-GAAGATAAGACT-ACAAT-TATTAGTCTGCTCC-CTTGCTACCT
* * * *** ** **
25212709 TAGGGAGATAAGATCTACAATCTTCAGC
62 CAGAGAGATAAG-GCTA-TGGCTAAAAT
* * *
25212737 CTGTTTCCTTGCTATCTCAGGAAGATAAGACTACAATTATTAGTCTGCTCCCTTGCTACCTCAGA
1 CTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGTCTGCTCCCTTGCTACCTCAGA
25212802 GAGATAAGGCTGATGGCTAAAAT
66 GAGATAAGGCT-ATGGCTAAAAT
*
25212825 CTGCTCCCTTGCTATCTCAG
1 CTGCTCCCTTGCTACCTCAG
25212845 AGAGACAAAA
Statistics
Matches: 138, Mismatches: 49, Indels: 20
0.67 0.24 0.10
Matches are distributed among these distances:
87 3 0.02
88 76 0.55
89 56 0.41
90 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (87 bp):
CTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGTCTGCTCCCTTGCTACCTCAGA
GAGATAAGGCTATGGCTAAAAT
Found at i:25222999 original size:33 final size:33
Alignment explanation
Indices: 25222962--25223027 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
25222952 TAAATACTCA
* *
25222962 AGGCAAAGACGTCAACTTTCTCCTTTACATCTG
1 AGGCAAAGACATCAACTTTCTCATTTACATCTG
25222995 AGGCAAAGACATCAACTTTCTCATTTACATCTG
1 AGGCAAAGACATCAACTTTCTCATTTACATCTG
25223028 GATGTGCTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (33 bp):
AGGCAAAGACATCAACTTTCTCATTTACATCTG
Found at i:25226810 original size:125 final size:125
Alignment explanation
Indices: 25226658--25226886 Score: 343
Period size: 125 Copynumber: 1.8 Consensus size: 125
25226648 TGAAAATTTT
25226658 AAAAGGATATTCGATTATTTGGCCAAAC-GAAAAACAGAAACCCAACACGTTAGGGCACGATTTC
1 AAAAGGATATTCGATTATTTGGCCAAACGGAAAAAC-GAAACCCAACACGTTAGGGCACGATTTC
* *
25226722 TCGAATTTCCAAATAAAAAATATTGCCTTGTTTTTTAAAATTGAAGAAAACACAGAATGTA
65 TCGAATTTCAAAATAAAAAATATTGCCTTGTTTTTAAAAATTGAAGAAAACACAGAATGTA
* * * * * *
25226783 AAAAGGGTATTTGGTTATTTGGTCAAACGGAAAATCGAAACCCAGCACGTTAGGGCACGATTTCT
1 AAAAGGATATTCGATTATTTGGCCAAACGGAAAAACGAAACCCAACACGTTAGGGCACGATTTCT
* **
25226848 CGAATTTTAAAATACGAAATATTGCCTTGTTTTTAAAAA
66 CGAATTTCAAAATAAAAAATATTGCCTTGTTTTTAAAAA
25226887 CTTTTAACTA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
125 86 0.93
126 6 0.07
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (125 bp):
AAAAGGATATTCGATTATTTGGCCAAACGGAAAAACGAAACCCAACACGTTAGGGCACGATTTCT
CGAATTTCAAAATAAAAAATATTGCCTTGTTTTTAAAAATTGAAGAAAACACAGAATGTA
Found at i:25227639 original size:26 final size:25
Alignment explanation
Indices: 25227599--25227654 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
25227589 GTTTTTAAGA
**
25227599 ATATATAATAGATTTGCAAGGAAAT
1 ATATATAATAGATTTAAAAGGAAAT
25227624 ATATATATATAGATTTAAAAGGAAAT
1 ATATATA-ATAGATTTAAAAGGAAAT
*
25227650 GTATA
1 ATATA
25227655 CAAAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (25 bp):
ATATATAATAGATTTAAAAGGAAAT
Found at i:25231237 original size:22 final size:22
Alignment explanation
Indices: 25231211--25231256 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
25231201 TTCGATTTTC
25231211 GAGTGTTGATCTAACAACAATT
1 GAGTGTTGATCTAACAACAATT
*
25231233 GAGTGTTGATCTAACAACAGTT
1 GAGTGTTGATCTAACAACAATT
25231255 GA
1 GA
25231257 ATATCATCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (22 bp):
GAGTGTTGATCTAACAACAATT
Found at i:25232715 original size:20 final size:20
Alignment explanation
Indices: 25232678--25232716 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25232668 CTCAATACTT
*
25232678 CCTCAGATTTCTTTGTATTC
1 CCTCAGATTTCTTGGTATTC
25232698 CCTCAGAATTT-TTGGTATT
1 CCTCAG-ATTTCTTGGTATT
25232717 TTCTCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.49
Consensus pattern (20 bp):
CCTCAGATTTCTTGGTATTC
Found at i:25232767 original size:20 final size:19
Alignment explanation
Indices: 25232679--25232770 Score: 51
Period size: 20 Copynumber: 4.6 Consensus size: 19
25232669 TCAATACTTC
* *
25232679 CTCAGATTTCTTTGTATTCC
1 CTCAGATTT-TTTGTACTCT
* * *
25232699 CTCAGAATTTTTGGTATTTT
1 CTCAG-ATTTTTTGTACTCT
* *
25232719 CTCATATTTTTTGTGCT-T
1 CTCAGATTTTTTGTACTCT
* *
25232737 CCTTAATATTTTTTGGTACTCT
1 -C-TCAGATTTTTT-GTACTCT
25232759 CTCAGATTTTTT
1 CTCAGATTTTTT
25232771 TTGTACTTCC
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
18 1 0.02
19 10 0.18
20 35 0.62
21 9 0.16
22 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.11, T:0.55
Consensus pattern (19 bp):
CTCAGATTTTTTGTACTCT
Found at i:25232783 original size:21 final size:21
Alignment explanation
Indices: 25232673--25232783 Score: 65
Period size: 21 Copynumber: 5.5 Consensus size: 21
25232663 ACATACTCAA
*
25232673 TACTTCCTCAGA-TTTCTTTG
1 TACTTCCTCAGATTTTTTTTG
* *
25232693 TA-TTCCCTCAGA-ATTTTTGG
1 TACTT-CCTCAGATTTTTTTTG
* * *
25232713 TATTTTCTC--ATATTTTTTG
1 TACTTCCTCAGATTTTTTTTG
* * *
25232732 TGCTTCCTTA-ATATTTTTTGG
1 TACTTCCTCAGAT-TTTTTTTG
25232753 TAC-TCTCTCAGATTTTTTTTG
1 TACTTC-CTCAGATTTTTTTTG
25232774 TACTTCCTCA
1 TACTTCCTCA
25232784 TAACTTTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
18 1 0.01
19 14 0.20
20 23 0.33
21 27 0.39
22 4 0.06
ACGTcount: A:0.16, C:0.20, G:0.10, T:0.54
Consensus pattern (21 bp):
TACTTCCTCAGATTTTTTTTG
Found at i:25240851 original size:54 final size:55
Alignment explanation
Indices: 25240790--25240920 Score: 176
Period size: 56 Copynumber: 2.4 Consensus size: 55
25240780 TCTCAGATAG
* * * *
25240790 GGTCTTACTCACACACATATAAC-AGTCACATATCGACT-CCAATATATTAAACGT
1 GGTCTTACTCGCACACATATAACGAATCACATATCGA-TGCCAACATATTAAACAT
* *
25240844 GGTCTTACTCGCACACATATAACGGAATCACATATCGATGCCAACGTATTAAATAT
1 GGTCTTACTCGCACACATATAAC-GAATCACATATCGATGCCAACATATTAAACAT
25240900 GGTCTTACTCGCACACATATA
1 GGTCTTACTCGCACACATATA
25240921 TCGATGCCAT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
54 22 0.32
55 1 0.01
56 45 0.66
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (55 bp):
GGTCTTACTCGCACACATATAACGAATCACATATCGATGCCAACATATTAAACAT
Found at i:25244579 original size:27 final size:27
Alignment explanation
Indices: 25244549--25244609 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
25244539 TTTATTAAAC
* *
25244549 TACCCCTAAGTATG-AAAATTACCGTTT
1 TACCCCTAAG-ATGCAAAATGACCGTTA
*
25244576 TACCCCT-AGGTGCAAAATGACCGTTA
1 TACCCCTAAGATGCAAAATGACCGTTA
25244602 TACCCCTA
1 TACCCCTA
25244610 GGGTTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
TACCCCTAAGATGCAAAATGACCGTTA
Found at i:25247984 original size:68 final size:69
Alignment explanation
Indices: 25247838--25248082 Score: 266
Period size: 69 Copynumber: 3.6 Consensus size: 69
25247828 ATCATAACCC
* ** * *
25247838 AACTATGGTCTTACACGGTATG-AACCCATGTTTAATGTCTTGG-CGACTCCATATGTTGCCATA
1 AACTATGGTCTTACACAGTATGAAACCCATGTTTAATGTCCCGGAAGACTCCATATGTTTCCATA
25247901 GCCT
66 GCCT
* * * *
25247905 AATTATGGTCTTACACAGTAT-AAACCCTTGTTTAATGTCCCGGAGGACCCCATATGTTTCCATA
1 AACTATGGTCTTACACAGTATGAAACCCATGTTTAATGTCCCGGAAGACTCCATATGTTTCCATA
25247969 GCCT
66 GCCT
* * * ** * *
25247973 AACTATGGTCTTACACATTGTGAATCCCATGTTTAATAG--CCTAACAAACTTCATATGTTTCCA
1 AACTATGGTCTTACACAGTATGAAACCCATGTTTAAT-GTCCCGGA-AGACTCCATATGTTTCCA
25248036 TAGCCT
64 TAGCCT
* * *
25248042 AACTATGGTCTTACACAATATGAATCTCATGTTTAATGTCC
1 AACTATGGTCTTACACAGTATGAAACCCATGTTTAATGTCC
25248083 TAGCTGACTC
Statistics
Matches: 149, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
67 37 0.25
68 43 0.29
69 67 0.45
70 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (69 bp):
AACTATGGTCTTACACAGTATGAAACCCATGTTTAATGTCCCGGAAGACTCCATATGTTTCCATA
GCCT
Found at i:25248325 original size:73 final size:73
Alignment explanation
Indices: 25248202--25248396 Score: 230
Period size: 73 Copynumber: 2.7 Consensus size: 73
25248192 CGTCGCAGTG
* * * * * * * *
25248202 TCACTCTATAGAGTCTATAGTTCATCATCACATTGTCACTCTAGCGAGCCAGTCAAAAACTACTG
1 TCACTCCATAAAGTCGATAGGTCATCATCACATTGTCGCTCTAGCAAGCCAGTCAAAAACCACTA
25248267 TTGTAGTA
66 TTGTAGTA
*
25248275 TCACTCCATAAAGTCGATAGGTCATCGTCACATTGTCGCTCTAGCAAGCCAGTCAAAAACCACTA
1 TCACTCCATAAAGTCGATAGGTCATCATCACATTGTCGCTCTAGCAAGCCAGTCAAAAACCACTA
*
25248340 TTGTAGTG
66 TTGTAGTA
* * * * **
25248348 TCACT-CATTAAAATTGATAGGCCGTCATCACGGTGTCGCTCTAGCAAGC
1 TCACTCCA-TAAAGTCGATAGGTCATCATCACATTGTCGCTCTAGCAAGC
25248397 TAGTTGATAA
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
72 2 0.02
73 102 0.98
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (73 bp):
TCACTCCATAAAGTCGATAGGTCATCATCACATTGTCGCTCTAGCAAGCCAGTCAAAAACCACTA
TTGTAGTA
Found at i:25250624 original size:24 final size:24
Alignment explanation
Indices: 25250592--25250640 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25250582 ATTGAGTAGA
25250592 AACCCGAAATAGGAATTAGTTATG
1 AACCCGAAATAGGAATTAGTTATG
25250616 AACCCGAAATAGGAATTAGTTATG
1 AACCCGAAATAGGAATTAGTTATG
25250640 A
1 A
25250641 CCACCAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.24
Consensus pattern (24 bp):
AACCCGAAATAGGAATTAGTTATG
Found at i:25251364 original size:35 final size:33
Alignment explanation
Indices: 25251320--25251397 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
25251310 GATTTTAGAG
* *
25251320 TTTAGAGTTTAAAGATTTGTAGTTCTTTTTATATT
1 TTTAAAGTTTAAAGATTAG-AGTT-TTTTTATATT
* *
25251355 TTTAAAGTTTAAAGGTTAGGGTTTTTTTATATT
1 TTTAAAGTTTAAAGATTAGAGTTTTTTTATATT
*
25251388 TTTTAAGTTT
1 TTTAAAGTTT
25251398 TTATATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 19 0.50
34 3 0.08
35 16 0.42
ACGTcount: A:0.26, C:0.01, G:0.15, T:0.58
Consensus pattern (33 bp):
TTTAAAGTTTAAAGATTAGAGTTTTTTTATATT
Found at i:25274063 original size:19 final size:18
Alignment explanation
Indices: 25274037--25274079 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
25274027 AATGAAGAGG
*
25274037 GAATTGAGAGAAATTTGA
1 GAATTGAGAGAAAGTTGA
25274055 GAATGTGAGAGAAAGTTGA
1 GAAT-TGAGAGAAAGTTGA
25274074 G-ATTGA
1 GAATTGA
25274080 ATTGGATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 6 0.26
19 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (18 bp):
GAATTGAGAGAAAGTTGA
Found at i:25277738 original size:96 final size:96
Alignment explanation
Indices: 25277623--25277813 Score: 301
Period size: 96 Copynumber: 2.0 Consensus size: 96
25277613 CCCCTTAAGC
* * **
25277623 CAAAACCACCGAAAGAAGAGGAATCACCTGTAACAAGGGAACGACCTCCACCACTTAAATTGCCA
1 CAAAACCACCGAAACAAGAGGAATCACCTGAAACAAGGGAACGACCTCCACCACCAAAATTGCCA
*
25277688 CCGCCAGTTGTTAAGCCCCCGAAACCAGTGT
66 CCGCCAGTTATTAAGCCCCCGAAACCAGTGT
* **
25277719 CAAAACCATCGAAACAAGAGGAATCACCTGAAACAAGGGAACGGTCTCCACCACCAAAATTGCCA
1 CAAAACCACCGAAACAAGAGGAATCACCTGAAACAAGGGAACGACCTCCACCACCAAAATTGCCA
*
25277784 CCGCCAGTTATTAAGCCCCCGACACCAGTG
66 CCGCCAGTTATTAAGCCCCCGAAACCAGTG
25277814 CCGAAACAAG
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.36, C:0.32, G:0.18, T:0.14
Consensus pattern (96 bp):
CAAAACCACCGAAACAAGAGGAATCACCTGAAACAAGGGAACGACCTCCACCACCAAAATTGCCA
CCGCCAGTTATTAAGCCCCCGAAACCAGTGT
Found at i:25277868 original size:69 final size:71
Alignment explanation
Indices: 25277784--25277932 Score: 203
Period size: 78 Copynumber: 2.0 Consensus size: 71
25277774 AAAATTGCCA
25277784 CCGCCAGTTATTAAGCCCCCGACACCAGT-G-CCGAAACAAGAGGAATCACCTATAACAAGGGAA
1 CCGCCAGTTATTAAGCCCCCGACACCAGTGGACCGAAACAAGAGGAATCACCTATAACAAGGGAA
25277847 CGGTCT
66 CGGTCT
* *
25277853 CCGCCAGTTATTAAGCCCCCGCCACCAGTGGAAAAACCACCGAAACAAGAGGAATCACCTGTAAC
1 CCGCCAGTTATTAAGCCCCCGACACCAGTGG-------ACCGAAACAAGAGGAATCACCTATAAC
25277918 AAGGGAACGGTCT
59 AAGGGAACGGTCT
25277931 CC
1 CC
25277933 ACCACCAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
69 28 0.41
70 1 0.01
78 40 0.58
ACGTcount: A:0.34, C:0.32, G:0.21, T:0.13
Consensus pattern (71 bp):
CCGCCAGTTATTAAGCCCCCGACACCAGTGGACCGAAACAAGAGGAATCACCTATAACAAGGGAA
CGGTCT
Found at i:25277997 original size:21 final size:21
Alignment explanation
Indices: 25277971--25278061 Score: 92
Period size: 21 Copynumber: 4.2 Consensus size: 21
25277961 AAGCCCCCGA
25277971 CACCACCAGTCCACTCTCCAC
1 CACCACCAGTCCACTCTCCAC
25277992 CACCACCTCCAGTCCACTCTCCAC
1 CACCA---CCAGTCCACTCTCCAC
* * * *
25278016 CTCCACCTGTTCACTCTCCTC
1 CACCACCAGTCCACTCTCCAC
* * *
25278037 CACCACCAGTGCATTCTCCTC
1 CACCACCAGTCCACTCTCCAC
25278058 CACC
1 CACC
25278062 TCTTTCTCCT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
21 39 0.66
24 20 0.34
ACGTcount: A:0.19, C:0.55, G:0.05, T:0.21
Consensus pattern (21 bp):
CACCACCAGTCCACTCTCCAC
Found at i:25278023 original size:24 final size:24
Alignment explanation
Indices: 25277971--25278043 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
25277961 AAGCCCCCGA
*
25277971 CACCACCAGTCCACTCTCCACCAC
1 CACCTCCAGTCCACTCTCCACCAC
*
25277995 CACCTCCAGTCCACTCTCCACCTC
1 CACCTCCAGTCCACTCTCCACCAC
* *
25278019 CACCT---GTTCACTCTCCTCCAC
1 CACCTCCAGTCCACTCTCCACCAC
25278040 CACC
1 CACC
25278044 AGTGCATTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
21 17 0.39
24 27 0.61
ACGTcount: A:0.19, C:0.58, G:0.04, T:0.19
Consensus pattern (24 bp):
CACCTCCAGTCCACTCTCCACCAC
Found at i:25285317 original size:21 final size:21
Alignment explanation
Indices: 25285293--25285332 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25285283 CTTTTGTGCC
*
25285293 TACTCTACATACCCGTATGAT
1 TACTCCACATACCCGTATGAT
*
25285314 TACTCCACATGCCCGTATG
1 TACTCCACATACCCGTATG
25285333 TGCAGGCCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (21 bp):
TACTCCACATACCCGTATGAT
Found at i:25290036 original size:79 final size:81
Alignment explanation
Indices: 25289896--25290080 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
25289886 TTGAATGATG
* *
25289896 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
25289960 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
25289975 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
25290037 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
25290055 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25290081 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:25290094 original size:40 final size:40
Alignment explanation
Indices: 25289897--25290080 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
25289887 TGAATGATGT
* * * *
25289897 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
25289937 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
25289977 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
25290015 TCTGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25290056 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
25290081 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:25290102 original size:79 final size:79
Alignment explanation
Indices: 25289949--25290112 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 79
25289939 GGACTAAGAT
* * **
25289949 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
25290014 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* *
25290028 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
25290091 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
25290107 CCGAAG
1 CCGAAG
25290113 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:25292532 original size:11 final size:11
Alignment explanation
Indices: 25292516--25292541 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25292506 ATAAGTCAAA
25292516 AGGTATTAACT
1 AGGTATTAACT
25292527 AGGTATTAACT
1 AGGTATTAACT
25292538 AGGT
1 AGGT
25292542 TAACCGTTAG
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:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (11 bp):
AGGTATTAACT
Found at i:25299034 original size:43 final size:43
Alignment explanation
Indices: 25298965--25299046 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
25298955 ATTGTATCTA
** *
25298965 CATTTTAAAGCTGATTTCTTATTACCTATAGGAAAGACCCAGT
1 CATTTTAAAGCTGACATCTTACTACCTATAGGAAAGACCCAGT
*
25299008 CATTTTAAAGCTGACATCTTGCTACCTATAGGAAAGACC
1 CATTTTAAAGCTGACATCTTACTACCTATAGGAAAGACC
25299047 AGGAATTTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (43 bp):
CATTTTAAAGCTGACATCTTACTACCTATAGGAAAGACCCAGT
Found at i:25300900 original size:2 final size:2
Alignment explanation
Indices: 25300893--25300929 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
25300883 AAAAGGCTTT
25300893 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25300930 CCATCAAGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25303605 original size:31 final size:31
Alignment explanation
Indices: 25303540--25303606 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
25303530 ACGAGTGATC
** * *
25303540 AAAATAAAAATAATTTTTAACTGTAGTGCCT
1 AAAATAAAAATAATTTTTAACAATACTACCT
*
25303571 AAAATAAAAATAATTTTTAACAATACTACTT
1 AAAATAAAAATAATTTTTAACAATACTACCT
25303602 AAAAT
1 AAAAT
25303607 GAATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.34
Consensus pattern (31 bp):
AAAATAAAAATAATTTTTAACAATACTACCT
Found at i:25306957 original size:174 final size:175
Alignment explanation
Indices: 25306750--25307096 Score: 606
Period size: 175 Copynumber: 2.0 Consensus size: 175
25306740 ACTATTATAA
* *
25306750 TGTGATATAATATTATATAATGAAATAGATTATAATACATGATATAGCATCAATAGTTATGTGTA
1 TGTGATATAATATTATATAATGAAATAGATTATAATACAAGATATAGCATCAATAGTTACGTGTA
* *
25306815 ATTTAGCATATTAAAATATA-TTTTTAATTATAATTAGCAATACATAAAATATTATTAAAAATTT
66 ATTTAGCATATTAAAATATATTTTTTAATTAGAATTAGCAATACATAAAATATTATTAAAAAATT
*
25306879 AATATCTTAATAAAATATTGTTTTTATTAAATTAGATTTTAAACG
131 AATATCTTAATAAAATATTATTTTTATTAAATTAGATTTTAAACG
*
25306924 TGTGATATAATATTATATAATGAAATAGATTATAATACAAGATATAGCATCAATAGTTACGTGTC
1 TGTGATATAATATTATATAATGAAATAGATTATAATACAAGATATAGCATCAATAGTTACGTGTA
* * *
25306989 ATTTAGTATATTAAAATATATTTTTTAATTAGATTTAGCAATATATAAAATATTATTAAAAAATT
66 ATTTAGCATATTAAAATATATTTTTTAATTAGAATTAGCAATACATAAAATATTATTAAAAAATT
25307054 AATATCTTAATAAAATATTATTTTTATTAAATTAGATTTTAAA
131 AATATCTTAATAAAATATTATTTTTATTAAATTAGATTTTAAA
25307097 TTTTACAAAT
Statistics
Matches: 163, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
174 81 0.50
175 82 0.50
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (175 bp):
TGTGATATAATATTATATAATGAAATAGATTATAATACAAGATATAGCATCAATAGTTACGTGTA
ATTTAGCATATTAAAATATATTTTTTAATTAGAATTAGCAATACATAAAATATTATTAAAAAATT
AATATCTTAATAAAATATTATTTTTATTAAATTAGATTTTAAACG
Found at i:25319941 original size:30 final size:30
Alignment explanation
Indices: 25319906--25319967 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
25319896 CAAGAAACTA
25319906 AACAAATATAAGTAAGATATAGTCCAAAAT
1 AACAAATATAAGTAAGATATAGTCCAAAAT
25319936 AACAAATATAAGTAAGATATAGTCCAAAAT
1 AACAAATATAAGTAAGATATAGTCCAAAAT
25319966 AA
1 AA
25319968 TAATATGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (30 bp):
AACAAATATAAGTAAGATATAGTCCAAAAT
Found at i:25320396 original size:9 final size:9
Alignment explanation
Indices: 25320382--25320414 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
25320372 GTTCTTATAT
25320382 TTTTTTTAC
1 TTTTTTTAC
25320391 TTTTTTTAC
1 TTTTTTTAC
25320400 -TTTTTTAC
1 TTTTTTTAC
25320408 TTTTTTT
1 TTTTTTT
25320415 CTTATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:25320403 original size:7 final size:8
Alignment explanation
Indices: 25320383--25320413 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
25320373 TTCTTATATT
25320383 TTTTTTAC
1 TTTTTTAC
25320391 TTTTTTTAC
1 -TTTTTTAC
25320400 TTTTTTAC
1 TTTTTTAC
25320408 TTTTTT
1 TTTTTT
25320414 TCTTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTAC
Found at i:25320499 original size:36 final size:36
Alignment explanation
Indices: 25320430--25320503 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
25320420 ATTTTGTCTC
*
25320430 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
25320467 TTTCTTA-ATTTATTTTGCTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
25320503 T
1 T
25320504 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Done.