Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 53 of 74
Found at i:10645924 original size:24 final size:24
Alignment explanation
Indices: 10645896--10645941 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
10645886 AGTATGATCC
*
10645896 CTAAAACCTCTTGGTACTTTTTCA
1 CTAAAACCTCTTGGTACCTTTTCA
10645920 CTAAAACCTCTTGGTACCTTTT
1 CTAAAACCTCTTGGTACCTTTT
10645942 GGTTATAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (24 bp):
CTAAAACCTCTTGGTACCTTTTCA
Found at i:10646247 original size:43 final size:41
Alignment explanation
Indices: 10646195--10646333 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 41
10646185 TTCTTTCATT
*
10646195 TTTTAAAAGTTTCATTATGTTTGGTTAAATAAGTCTTTTTAAAA
1 TTTT-AAAGTTTCA-TATGTTTGGTTAAATGAG-CTTTTTAAAA
** * * * *
10646239 TTTTAAAGTTTCAATACCTATGGTTAGAGGAGCTTTTTAAAT
1 TTTTAAAGTTTC-ATATGTTTGGTTAAATGAGCTTTTTAAAA
* *
10646281 TTTTAAAATTTCA-ATGTCATTGCTTAAATGAGCTTTTTAAAA
1 TTTTAAAGTTTCATATGT--TTGGTTAAATGAGCTTTTTAAAA
10646323 TTTTAAAGTTT
1 TTTTAAAGTTT
10646334 TATAACCTCT
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
40 2 0.03
41 1 0.01
42 48 0.63
43 20 0.26
44 5 0.07
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (41 bp):
TTTTAAAGTTTCATATGTTTGGTTAAATGAGCTTTTTAAAA
Found at i:10646286 original size:42 final size:42
Alignment explanation
Indices: 10646229--10646710 Score: 253
Period size: 42 Copynumber: 11.6 Consensus size: 42
10646219 TTAAATAAGT
* *
10646229 CTTTTTAAAATTTTAAAGTTTCAATACCTATGGTTAGAGGAG
1 CTTTTTAAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
* * * * * *
10646271 CTTTTTAAATTTTTAAAATTTCAATGTCAT-TGCTTAAATGAG
1 CTTTTTAAATTTTTAAAGTTTCAAT-ACCTCTGGTTAGAGGAG
* * * **
10646313 CTTTTTAAAATTTTAAAGTTT-TATAACCTCTGATTAGATAAG
1 CTTTTTAAATTTTTAAAGTTTCAAT-ACCTCTGGTTAGAGGAG
* * * * * * * * *
10646355 CTCTTTCATTTTTTAAAAGCTTT-ATTGCATTTGATTAGATGAG
1 CTTTTTAAATTTTT-AAAG-TTTCAATACCTCTGGTTAGAGGAG
* * * *
10646398 CCTTTTTAAAAATTTTAAAATTTTAATATCTCTGGTTAGAGGAG
1 -CTTTTT-AAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
* * *
10646442 -TATTTTAAATTTTTAAAATTTTAATGA-CTCTTGTTAGAGGAG
1 CT-TTTTAAATTTTTAAAGTTTCAAT-ACCTCTGGTTAGAGGAG
* *
10646484 TCTTTTGAAA-TTCTAAAGTTTCAATA-C-C---TTA-A-GAG
1 -CTTTTTAAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
* * * * * *
10646519 CCTTTTAATTTTTTAAAGTTTTAATACATTTGGTTA-AAGAG
1 CTTTTTAAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
* * * * *
10646560 -TCTTTTAAATTTTTAAAGTTTTAATGA-CTTTGATTAAAGAAG
1 CT-TTTTAAATTTTTAAAGTTTCAAT-ACCTCTGGTTAGAGGAG
* * *
10646602 CTTTTTAAAATTTTAATA-TTTCAATACTTCTAGTTAGAGGAG
1 CTTTTTAAATTTTTAA-AGTTTCAATACCTCTGGTTAGAGGAG
* * *
10646644 CCTTTTAAATTTTTAAAGTTTTAATACCTCT-GTTGAGGATGAG
1 CTTTTTAAATTTTTAAAGTTTCAATACCTCTGGTT-A-GAGGAG
* * *
10646687 CTTTTTGAACTTTTAAAATTTCAA
1 CTTTTTAAATTTTTAAAGTTTCAA
10646711 CTCCTTTATT
Statistics
Matches: 338, Mismatches: 75, Indels: 53
0.73 0.16 0.11
Matches are distributed among these distances:
34 6 0.02
35 17 0.05
36 1 0.00
37 3 0.01
40 5 0.01
41 43 0.13
42 173 0.51
43 59 0.17
44 26 0.08
45 5 0.01
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (42 bp):
CTTTTTAAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
Found at i:10646350 original size:84 final size:81
Alignment explanation
Indices: 10646194--10646710 Score: 292
Period size: 84 Copynumber: 6.2 Consensus size: 81
10646184 GTTCTTTCAT
* *
10646194 TTTTTAAAAGTTTCATTATGT-TTGGTTAAATAAGTCTTTTTAAAATTTTAAAGTTTCAATACCT
1 TTTTTAAAA-TTTCA--ATGTCTT-GTTAAATGAG-CTTTTTAAAATTTTAAAGTTTTAATACCT
*
10646258 ATGGTTAGAGGAGCTTTTTAAA
61 CT-GTTAGAGGAGCTTTTTAAA
10646280 TTTTTAAAATTTCAATGTCATTGCTTAAATGAGCTTTTTAAAATTTTAAAGTTTT-ATAACCTCT
1 TTTTTAAAATTTCAATGTC-TTG-TTAAATGAGCTTTTTAAAATTTTAAAGTTTTAAT-ACCTCT
** * * *
10646344 GATTAGATAAGCTCTTTCAT
63 G-TTAGAGGAGCTTTTTAAA
* * * *
10646364 TTTTTAAAAGCTTT-ATTG-CATTTGATTAGATGAGCCTTTTTAAAAATTTTAAAATTTTAATAT
1 TTTTTAAAA--TTTCAATGTC--TTG-TTAAATGAG-CTTTTT-AAAATTTTAAAGTTTTAATAC
10646427 CTCTGGTTAGAGGAG-TATTTTAAA
59 CTCT-GTTAGAGGAGCT-TTTTAAA
* * * * * *
10646451 TTTTTAAAATTTTAATGACTCTTGTTAGAGGAG-TCTTTTGAAATTCTAAAGTTTCAATA-C-C-
1 TTTTTAAAATTTCAATG--TCTTGTTAAATGAGCT-TTTTAAAATTTTAAAGTTTTAATACCTCT
* *
10646512 -TTA-A-GAGCCTTTTAAT
63 GTTAGAGGAGCTTTTTAAA
* * * *
10646528 TTTTTAAAGTTTTAAT-ACATTTGGTTAAA-GAG-TCTTTTAAATTTTTAAAGTTTTAATGA-CT
1 TTTTTAAAATTTCAATGTC--TT-GTTAAATGAGCT-TTTTAAAATTTTAAAGTTTTAAT-ACCT
* * *
10646589 TTGATTAAAGAAGCTTTTTAAA
61 CTG-TTAGAGGAGCTTTTTAAA
* * * * * * * *
10646611 ATTTTAATATTTCAATACTTCTAGTTAGAGGAGCCTTTTAAATTTTTAAAGTTTTAATACCTCTG
1 TTTTTAAAATTTCAAT--GTCTTGTTAAATGAGCTTTTTAAAATTTTAAAGTTTTAATACCTCTG
* *
10646676 TTGAGGATGAGCTTTTTGAA
64 TT-A-GAGGAGCTTTTTAAA
*
10646696 CTTTTAAAATTTCAA
1 TTTTTAAAATTTCAA
10646711 CTCCTTTATT
Statistics
Matches: 341, Mismatches: 53, Indels: 75
0.73 0.11 0.16
Matches are distributed among these distances:
74 1 0.00
76 26 0.08
77 31 0.09
78 1 0.00
79 3 0.01
81 3 0.01
82 2 0.01
83 37 0.11
84 99 0.29
85 60 0.18
86 31 0.09
87 43 0.13
88 3 0.01
89 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (81 bp):
TTTTTAAAATTTCAATGTCTTGTTAAATGAGCTTTTTAAAATTTTAAAGTTTTAATACCTCTGTT
AGAGGAGCTTTTTAAA
Found at i:10646405 original size:170 final size:170
Alignment explanation
Indices: 10646151--10646467 Score: 424
Period size: 170 Copynumber: 1.9 Consensus size: 170
10646141 TTTTAATTAC
* * * **
10646151 AAATTTTAAGTTCCATAGCCTCTGGTTAGAAAAGTTCTTTCATTTTTTAAAAGTTTCATTATGTT
1 AAATTTTAAGTTCCATAACCTCTGATTAGAAAAGCTCTTTCATTTTTTAAAAGTTTCATTACATT
* * *
10646216 TGGTTAAATAAGTCTTTTT-AAAATTTTAAAGTTTCAATACCTATGGTTAGAGGAGCT-TTTTAA
66 TGATTAAATAAGCCTTTTTAAAAATTTTAAAATTTCAATACCTATGGTTAGAGGAG-TATTTTAA
10646279 ATTTTTAAAATTTCAATGTCATTGCTTAAATGAGCTTTTTA
130 ATTTTTAAAATTTCAATGTCATTGCTTAAATGAGCTTTTTA
** * *
10646320 AAATTTTAAAGTTTTATAACCTCTGATTAGATAAGCTCTTTCATTTTTTAAAAGCTTT-ATTGCA
1 AAATTTT-AAGTTCCATAACCTCTGATTAGAAAAGCTCTTTCATTTTTTAAAAG-TTTCATTACA
* * * * *
10646384 TTTGATTAGATGAGCCTTTTTAAAAATTTTAAAATTTTAATATCTCTGGTTAGAGGAGTATTTTA
64 TTTGATTAAATAAGCCTTTTTAAAAATTTTAAAATTTCAATACCTATGGTTAGAGGAGTATTTTA
*
10646449 AATTTTTAAAATTTTAATG
129 AATTTTTAAAATTTCAATG
10646468 ACTCTTGTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
169 7 0.06
170 61 0.48
171 58 0.46
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (170 bp):
AAATTTTAAGTTCCATAACCTCTGATTAGAAAAGCTCTTTCATTTTTTAAAAGTTTCATTACATT
TGATTAAATAAGCCTTTTTAAAAATTTTAAAATTTCAATACCTATGGTTAGAGGAGTATTTTAAA
TTTTTAAAATTTCAATGTCATTGCTTAAATGAGCTTTTTA
Found at i:10646503 original size:171 final size:170
Alignment explanation
Indices: 10646169--10646504 Score: 412
Period size: 171 Copynumber: 2.0 Consensus size: 170
10646159 AGTTCCATAG
* * ** * *
10646169 CCTCTGGTTAGAAAAGTTCTTTCATTTTTTAAAAGTTTCATTATGTTTGGTTAAATAAGTCTTTT
1 CCTCTGATTAGAAAAGCTCTTTCATTTTTTAAAAGTTTCATTACATTTGATTAAATAAGCCTTTT
*
10646234 TAAAATTTTAAAGTTTCAATACCTATGGTTAGAGGAGCTTTTTAAATTTTTAAAATTTCAATGTC
66 TAAAATTTTAAAATTTCAATACCTATGGTTAGAGGAGCTTTTTAAATTTTTAAAATTTCAATGTC
* *
10646299 ATTGCTTAAATGAGCTTTTTAAAATTTTAAAGTTTTATAA
131 ATTGCTTAAAGGAGCTTTTTAAAATTCTAAAGTTTTATAA
* * * *
10646339 CCTCTGATTAGATAAGCTCTTTCATTTTTTAAAAGCTTT-ATTGCATTTGATTAGATGAGCCTTT
1 CCTCTGATTAGAAAAGCTCTTTCATTTTTTAAAAG-TTTCATTACATTTGATTAAATAAGCCTTT
* * * *
10646403 TTAAAAATTTTAAAATTTTAATATCTCTGGTTAGAGGAG-TATTTTAAATTTTTAAAATTTTAAT
65 TT-AAAATTTTAAAATTTCAATACCTATGGTTAGAGGAGCT-TTTTAAATTTTTAAAATTTCAAT
* *
10646467 GACTC-TTG-TTAGAGGAG-TCTTTTGAAATTCTAAAGTTT
128 G--TCATTGCTTAAAGGAGCT-TTTTAAAATTCTAAAGTTT
10646505 CAATACCTTA
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
170 54 0.38
171 82 0.58
172 3 0.02
173 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (170 bp):
CCTCTGATTAGAAAAGCTCTTTCATTTTTTAAAAGTTTCATTACATTTGATTAAATAAGCCTTTT
TAAAATTTTAAAATTTCAATACCTATGGTTAGAGGAGCTTTTTAAATTTTTAAAATTTCAATGTC
ATTGCTTAAAGGAGCTTTTTAAAATTCTAAAGTTTTATAA
Found at i:10646649 original size:43 final size:42
Alignment explanation
Indices: 10646602--10646728 Score: 100
Period size: 43 Copynumber: 3.0 Consensus size: 42
10646592 ATTAAAGAAG
*
10646602 CTTTTTAAAATTTTAATATTTCAATACTTCTAGTTAGAGGA-G-C
1 CTTTTTAAAATTTTAA-ATTTCAATACCTCT-GTT-GAGGATGAC
* * *
10646645 C-TTTTAAATTTTTAAAGTTTTAATACCTCTGTTGAGGATGAG
1 CTTTTTAAAATTTTAAA-TTTCAATACCTCTGTTGAGGATGAC
* * * *
10646687 CTTTTTGAACTTTTAAAATTTCAACT-CCTTTATTGAGGATGA
1 CTTTTTAAAATTTT-AAATTTCAA-TACCTCTGTTGAGGATGA
10646729 GTTTTTATTA
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
40 5 0.07
41 5 0.07
42 25 0.36
43 30 0.43
44 4 0.06
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (42 bp):
CTTTTTAAAATTTTAAATTTCAATACCTCTGTTGAGGATGAC
Found at i:10649649 original size:17 final size:17
Alignment explanation
Indices: 10649629--10649671 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
10649619 TTTAATTAAA
*
10649629 ATTTAATTTAAAAACAT
1 ATTTAATATAAAAACAT
*
10649646 ATTTAAATATAAAAATAT
1 ATTT-AATATAAAAACAT
10649664 -TTTAATAT
1 ATTTAATAT
10649672 TTGAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 7 0.30
18 11 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTAATATAAAAACAT
Found at i:10649665 original size:16 final size:17
Alignment explanation
Indices: 10649639--10649671 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10649629 ATTTAATTTA
10649639 AAAACATATTTAAATAT
1 AAAACATATTTAAATAT
*
10649656 AAAA-ATATTTTAATAT
1 AAAACATATTTAAATAT
10649672 TTGAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAACATATTTAAATAT
Found at i:10653015 original size:3 final size:3
Alignment explanation
Indices: 10653007--10653039 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10652997 TCTTTCAAAA
10653007 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10653040 TTCAATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10653754 original size:11 final size:11
Alignment explanation
Indices: 10653738--10653765 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
10653728 CATGTTAGTA
10653738 TTAAAAAAATT
1 TTAAAAAAATT
10653749 TTAAAAAAATT
1 TTAAAAAAATT
10653760 TTAAAA
1 TTAAAA
10653766 TTTTCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:10653767 original size:19 final size:19
Alignment explanation
Indices: 10653743--10653855 Score: 104
Period size: 19 Copynumber: 5.9 Consensus size: 19
10653733 TAGTATTAAA
*
10653743 AAAATTTTAAAAAAATTTT
1 AAAATTTTCAAAAAATTTT
* *
10653762 AAAATTTTCTAAAATTTTT
1 AAAATTTTCAAAAAATTTT
* **
10653781 TAAATTTTTTAAAAATTTT
1 AAAATTTTCAAAAAATTTT
10653800 AAAAATTTTC-AAAAATTTT
1 -AAAATTTTCAAAAAATTTT
**
10653819 AAAAACTTCAAAAAATTTTT
1 AAAATTTTCAAAAAA-TTTT
*
10653839 CAAAA-CTTCAAAAAATT
1 -AAAATTTTCAAAAAATT
10653856 CAAAACAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
18 7 0.09
19 48 0.60
20 21 0.26
21 4 0.05
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTTTCAAAAAATTTT
Found at i:10653843 original size:10 final size:9
Alignment explanation
Indices: 10653742--10653837 Score: 84
Period size: 9 Copynumber: 10.0 Consensus size: 9
10653732 TTAGTATTAA
10653742 AAAAATTTT
1 AAAAATTTT
10653751 AAAAAAATTTT
1 --AAAAATTTT
*
10653762 AAAATTTTCT
1 AAAAATTT-T
*
10653772 AAAATTTTTT
1 AAAA-ATTTT
**
10653782 AAATTTTTT
1 AAAAATTTT
10653791 AAAAATTTT
1 AAAAATTTT
10653800 AAAAATTTT
1 AAAAATTTT
10653809 CAAAAATTTT
1 -AAAAATTTT
**
10653819 AAAAACTTCA
1 AAAAA-TTTT
10653829 AAAAATTTT
1 AAAAATTTT
10653838 TCAAAACTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
9 35 0.48
10 25 0.34
11 13 0.18
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (9 bp):
AAAAATTTT
Found at i:10653923 original size:20 final size:18
Alignment explanation
Indices: 10653900--10653942 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10653890 AATTATTTTT
*
10653900 AAATTTTTATAATTTATAAA
1 AAATTTTT-TAATTT-CAAA
*
10653920 AAATATTTTAATTTCAAA
1 AAATTTTTTAATTTCAAA
10653938 AAATT
1 AAATT
10653943 AACAAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTTTTAATTTCAAA
Found at i:10653971 original size:18 final size:18
Alignment explanation
Indices: 10653917--10653971 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
10653907 TATAATTTAT
**
10653917 AAAAAATATTTTAATTTC
1 AAAAAATATTAAAATTTC
*
10653935 AAAAAAT-TAACAAATTTTC
1 AAAAAATATTA-AAA-TTTC
10653954 AAAAAATATTAAAATTTC
1 AAAAAATATTAAAATTTC
10653972 TTTACAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 1 0.03
18 13 0.43
19 14 0.47
20 2 0.07
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAAATATTAAAATTTC
Found at i:10654051 original size:22 final size:23
Alignment explanation
Indices: 10654026--10654071 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10654016 AACTTTGAAA
* *
10654026 AAAAATT-CTAAAAATTATTTTT
1 AAAAATTACAAAAAAATATTTTT
*
10654048 AAAATTTACAAAAAAATATTTTT
1 AAAAATTACAAAAAAATATTTTT
10654071 A
1 A
10654072 TTTCACAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAAATTACAAAAAAATATTTTT
Found at i:10654155 original size:24 final size:24
Alignment explanation
Indices: 10654127--10654177 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
10654117 CTAAATTTTT
10654127 TTAAAT-TTATAAAAAATTATAAAA
1 TTAAATATT-TAAAAAATTATAAAA
* *
10654151 TTAAATATTTTATAAATTATAAAA
1 TTAAATATTTAAAAAATTATAAAA
10654175 TTA
1 TTA
10654178 TCATAATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAAATATTTAAAAAATTATAAAA
Found at i:10654259 original size:16 final size:17
Alignment explanation
Indices: 10654238--10654273 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
10654228 AAATTCAAAC
10654238 AAAATTAAAATTTAT-A
1 AAAATTAAAATTTATCA
*
10654254 AAAATTAATATTTATCA
1 AAAATTAAAATTTATCA
10654271 AAA
1 AAA
10654274 GGTAAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTAAAATTTATCA
Found at i:10654372 original size:18 final size:18
Alignment explanation
Indices: 10654358--10654405 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
10654348 AATTTTTTTT
10654358 AAATTTTTAAATTTTTGA
1 AAATTTTTAAATTTTTGA
* *
10654376 AAATTTTTACGAGTTTTGA
1 AAATTTTTA-AATTTTTGA
*
10654395 AAGTTTTTAAA
1 AAATTTTTAAA
10654406 AAATTCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (18 bp):
AAATTTTTAAATTTTTGA
Found at i:10654475 original size:20 final size:18
Alignment explanation
Indices: 10654452--10654494 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10654442 AATTATTTTT
*
10654452 AAATTTTTATAATTTATAAA
1 AAATTTTT-TAATTT-CAAA
*
10654472 AAATATTTTAATTTCAAA
1 AAATTTTTTAATTTCAAA
10654490 AAATT
1 AAATT
10654495 AACAAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTTTTAATTTCAAA
Found at i:10654523 original size:18 final size:18
Alignment explanation
Indices: 10654469--10654523 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
10654459 TATAATTTAT
**
10654469 AAAAAATATTTTAATTTC
1 AAAAAATATTAAAATTTC
*
10654487 AAAAAAT-TAACAAATTTTC
1 AAAAAATATTA-AAA-TTTC
10654506 AAAAAATATTAAAATTTC
1 AAAAAATATTAAAATTTC
10654524 TTTACAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 1 0.03
18 13 0.43
19 14 0.47
20 2 0.07
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAAATATTAAAATTTC
Found at i:10654668 original size:21 final size:21
Alignment explanation
Indices: 10654642--10654687 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10654632 CAAAAAATTA
10654642 TAAAAA-ATACTAAAATTTTTT
1 TAAAAATATACT-AAATTTTTT
*
10654663 TAAAAATATTCTAAATTTTTT
1 TAAAAATATACTAAATTTTTT
10654684 TAAA
1 TAAA
10654688 TTTATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAAATATACTAAATTTTTT
Found at i:10654711 original size:24 final size:24
Alignment explanation
Indices: 10654683--10654733 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
10654673 CTAAATTTTT
10654683 TTAAAT-TTATAAAAAATTATAAAA
1 TTAAATATT-TAAAAAATTATAAAA
* *
10654707 TTAAATATTTTATAAATTATAAAA
1 TTAAATATTTAAAAAATTATAAAA
10654731 TTA
1 TTA
10654734 TCATAATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAAATATTTAAAAAATTATAAAA
Found at i:10654792 original size:556 final size:552
Alignment explanation
Indices: 10653848--10654957 Score: 2044
Period size: 556 Copynumber: 2.0 Consensus size: 552
10653838 TCAAAACTTC
**
10653848 AAAAAATTCAAAACAATTAAAAATTTTTTTTTTAAAATTCTAAATTATTTTTAAATTTTTATAAT
1 AAAAAATTCAAAACAATTAAAAA-TAATTTTTTAAAATTCTAAATTATTTTTAAATTTTTATAAT
10653913 TTATAAAAAATATTTTAATTTCAAAAAATTAACAAATTTTCAAAAAATATTAAAATTTCTTTACA
65 TTATAAAAAATATTTTAATTTCAAAAAATTAACAAATTTTCAAAAAATATTAAAATTTCTTTACA
**
10653978 AAATTCTAAATTTATTTAAATTCTAAAAAGTTTTAAAAAACTTTGAAAAAAAATTCTAAAAATTA
130 AAATTCTAAATTTATTTAAATTCTAAAAAACTTTAAAAAACTTTGAAAAAAAATTCTAAAAATTA
10654043 TTTTTAAAATTTACAAAAAAATATTTTTATTTCACAAAAATTATAAAAAATACTAAAAAGTTTTT
195 TTTTTAAAATTTACAAAAAAATATTTTTATTTCACAAAAATTATAAAAAATACTAAAAAGTTTTT
10654108 AAAAATATTCTAAATTTTTTTAAATTTATAAAAAATTATAAAATTAAATATTTTATAAATTATAA
260 AAAAATATTCTAAATTTTTTTAAATTTATAAAAAATTATAAAATTAAATATTTTATAAATTATAA
*
10654173 AATTATCATAATTTGAAAATTTTTAGAAATTCAGAAAATTTTTTACAAAGTAAAAAAATTCAAAC
325 AATTATCATAATTTGAAAATTTTTAGAAATTCAGAAAATTTTTTAAAAAGTAAAAAAATTCAAAC
10654238 AAAATTAAAATTTATAAAAATTAATATTTATCAAAAGGTAAAATTCTATTAATATATAAAAAAAA
390 AAAATTAAAATTTATAAAAATTAATATTTATCAAAAGGTAAAATTCTATTAATATAT-AAAAAAA
* *
10654303 TTATAAAATTTTTTGAAAGTTTTCAAGTTTCCATAATTATTTTTGAATTTTTTTTAAATTTTTAA
454 TTATAAAAGTTTTTGAAAGTTTTCAAGTTTCCATAATTATTTTTGAA-TTTTTTAAAATTTTTAA
10654368 ATTTTTGAAAATTTTTACGAGTTTTGAAAGTTTTT
518 ATTTTTGAAAATTTTTACGAGTTTTGAAAGTTTTT
10654403 AAAAAATTCAAAACAATTAAAAA-AATTTTTT-AAATTCTAAATTATTTTTAAATTTTTATAATT
1 AAAAAATTCAAAACAATTAAAAATAATTTTTTAAAATTCTAAATTATTTTTAAATTTTTATAATT
10654466 TATAAAAAATATTTTAATTTCAAAAAATTAACAAATTTTCAAAAAATATTAAAATTTCTTTACAA
66 TATAAAAAATATTTTAATTTCAAAAAATTAACAAATTTTCAAAAAATATTAAAATTTCTTTACAA
10654531 AATTCTAAATTTATTTAAATTCTAAAAAACTTTAAAAAACTTTGAAAAAAAAATTCTAAAAATTA
131 AATTCTAAATTTATTTAAATTCTAAAAAACTTTAAAAAACTTTG-AAAAAAAATTCTAAAAATTA
**
10654596 TTTTTAAAATTTTACAAAAAATATATTTTTATTTCACAAAAAATTATAAAAAATACTAAAATTTT
195 TTTTTAAAA-TTTACAAAAAA-ATATTTTTATTTCAC-AAAAATTATAAAAAATACTAAAAAGTT
10654661 TTTAAAAATATTCTAAATTTTTTTAAATTTATAAAAAATTATAAAATTAAATATTTTATAAATTA
257 TTTAAAAATATTCTAAATTTTTTTAAATTTATAAAAAATTATAAAATTAAATATTTTATAAATTA
10654726 TAAAATTATCATAATTTGAAAATTTTTAGAAATTCAGAAAATTTTTTAAAAAGTAAAAAAATTCA
322 TAAAATTATCATAATTTGAAAATTTTTAGAAATTCAGAAAATTTTTTAAAAAGTAAAAAAATTCA
*
10654791 AACAAAATTAAAATTTATAAAAATTATTATTTATCAAAAGGTAAAATTCTATTAATATATAAAAA
387 AACAAAATTAAAATTTATAAAAATTAATATTTATCAAAAGGTAAAATTCTATTAATATATAAAAA
10654856 AATTATAAAAGTTTTTGAAAGTTTTCAAGTTTCCATAATTATTTTTGAATTTTTTAAAATTTTTA
452 AATTATAAAAGTTTTTGAAAGTTTTCAAGTTTCCATAATTATTTTTGAATTTTTTAAAATTTTTA
*
10654921 AATTTTTTAAAATTTTTACGAGTTTTGAAAGTTTTT
517 AATTTTTGAAAATTTTTACGAGTTTTGAAAGTTTTT
10654957 A
1 A
10654958 GAATTTTTTA
Statistics
Matches: 540, Mismatches: 11, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
552 139 0.26
553 35 0.06
554 62 0.11
555 91 0.17
556 213 0.39
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (552 bp):
AAAAAATTCAAAACAATTAAAAATAATTTTTTAAAATTCTAAATTATTTTTAAATTTTTATAATT
TATAAAAAATATTTTAATTTCAAAAAATTAACAAATTTTCAAAAAATATTAAAATTTCTTTACAA
AATTCTAAATTTATTTAAATTCTAAAAAACTTTAAAAAACTTTGAAAAAAAATTCTAAAAATTAT
TTTTAAAATTTACAAAAAAATATTTTTATTTCACAAAAATTATAAAAAATACTAAAAAGTTTTTA
AAAATATTCTAAATTTTTTTAAATTTATAAAAAATTATAAAATTAAATATTTTATAAATTATAAA
ATTATCATAATTTGAAAATTTTTAGAAATTCAGAAAATTTTTTAAAAAGTAAAAAAATTCAAACA
AAATTAAAATTTATAAAAATTAATATTTATCAAAAGGTAAAATTCTATTAATATATAAAAAAATT
ATAAAAGTTTTTGAAAGTTTTCAAGTTTCCATAATTATTTTTGAATTTTTTAAAATTTTTAAATT
TTTGAAAATTTTTACGAGTTTTGAAAGTTTTT
Found at i:10654918 original size:9 final size:9
Alignment explanation
Indices: 10654896--10655013 Score: 78
Period size: 9 Copynumber: 12.8 Consensus size: 9
10654886 TTCCATAATT
*
10654896 ATTTTTGAA
1 ATTTTTAAA
*
10654905 TTTTTTAAA
1 ATTTTTAAA
10654914 ATTTTTAAA
1 ATTTTTAAA
*
10654923 TTTTTTAAA
1 ATTTTTAAA
*
10654932 ATTTTTACGA
1 ATTTTTA-AA
* *
10654942 GTTTTGAAA
1 ATTTTTAAA
*
10654951 GTTTTTAGAA
1 ATTTTTA-AA
*
10654961 TTTTTTAAA
1 ATTTTTAAA
*
10654970 TTTTTTCAGAA
1 ATTTTT-A-AA
*
10654981 GTTTTT-AA
1 ATTTTTAAA
*
10654989 ATTTTGCAAA
1 ATTTT-TAAA
10654999 ATTTTT-AA
1 ATTTTTAAA
10655007 ATTTTTA
1 ATTTTTA
10655014 TTTTGTTTTT
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
8 14 0.16
9 44 0.51
10 22 0.25
11 7 0.08
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.57
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:10654919 original size:18 final size:18
Alignment explanation
Indices: 10654896--10654993 Score: 83
Period size: 19 Copynumber: 5.3 Consensus size: 18
10654886 TTCCATAATT
10654896 ATTTTTGAATTTTTTAAA
1 ATTTTTGAATTTTTTAAA
*
10654914 ATTTTTAAATTTTTTAAA
1 ATTTTTGAATTTTTTAAA
* *
10654932 ATTTTT-ACGAGTTTTGAAA
1 ATTTTTGA--ATTTTTTAAA
*
10654951 GTTTTTAGAATTTTTTAAA
1 ATTTTT-GAATTTTTTAAA
* *
10654970 TTTTTTCAGAAGTTTTT-AA
1 ATTTTT--GAATTTTTTAAA
10654989 ATTTT
1 ATTTT
10654994 GCAAAATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.02
18 23 0.35
19 32 0.48
20 9 0.14
21 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (18 bp):
ATTTTTGAATTTTTTAAA
Found at i:10655012 original size:19 final size:20
Alignment explanation
Indices: 10654957--10655012 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
10654947 GAAAGTTTTT
* *
10654957 AGAATTTTTTAAATTTTTTC
1 AGAAATTTTTAAATTTTTGC
*
10654977 AGAAGTTTTTAAA-TTTTGC
1 AGAAATTTTTAAATTTTTGC
10654996 A-AAATTTTTAAATTTTT
1 AGAAATTTTTAAATTTTT
10655013 ATTTTGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.31
19 10 0.31
20 12 0.38
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (20 bp):
AGAAATTTTTAAATTTTTGC
Found at i:10655091 original size:20 final size:20
Alignment explanation
Indices: 10655048--10655095 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
10655038 TTTAAAAAAA
* **
10655048 TTTTAAAATTTTGTTAGGATT
1 TTTTAAAACTTTGTTA-GAAC
10655069 TTTTAAAACTTT-TTAGAAC
1 TTTTAAAACTTTGTTAGAAC
10655088 TTTTAAAA
1 TTTTAAAA
10655096 ATTTCTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 10 0.42
20 3 0.12
21 11 0.46
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (20 bp):
TTTTAAAACTTTGTTAGAAC
Found at i:10655137 original size:9 final size:9
Alignment explanation
Indices: 10655109--10655147 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
10655099 TCTCAAAAAG
10655109 TTTTTGAAT
1 TTTTTGAAT
*
10655118 TTTTT-ATT
1 TTTTTGAAT
10655126 TTTTTGAAT
1 TTTTTGAAT
*
10655135 TTTTTAAAT
1 TTTTTGAAT
10655144 TTTT
1 TTTT
10655148 ATGATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (9 bp):
TTTTTGAAT
Found at i:10655146 original size:17 final size:17
Alignment explanation
Indices: 10655109--10655147 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
10655099 TCTCAAAAAG
**
10655109 TTTTTGAATTTTTTATT
1 TTTTTGAATTTTTTAAA
10655126 TTTTTGAATTTTTTAAA
1 TTTTTGAATTTTTTAAA
10655143 TTTTT
1 TTTTT
10655148 ATGATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTTTGAATTTTTTAAA
Found at i:10662018 original size:111 final size:111
Alignment explanation
Indices: 10661820--10662046 Score: 384
Period size: 111 Copynumber: 2.1 Consensus size: 111
10661810 TAAAAAATAC
* *
10661820 AAAA-TCAGGGTGTCTCATAGTATATTCTTCTTTGTATGTTGATCATTTTCTCTTACACAGTATG
1 AAAAGTCAGGGTGTCTCATAGTATATTCTTCTTTGTATCTTGATCATTTTCTCTTACAAAGTATG
*
10661884 CAATGAAAAAACTGAAGTTACTACTAAATCTATATTCTTCAACAAT
66 CAATGAAAAAACTGAAGTTACTACTAAATCAATATTCTTCAACAAT
* *
10661930 AAAAGTCAGGGTGTCTCGTAGTATATTCTTCTTTTTATCTTGATCATTTTCTCTTACAAAGTATG
1 AAAAGTCAGGGTGTCTCATAGTATATTCTTCTTTGTATCTTGATCATTTTCTCTTACAAAGTATG
*
10661995 CAATGACAAAACTGAAGTTACTACTAAATCAATATTCTTCAACAAT
66 CAATGAAAAAACTGAAGTTACTACTAAATCAATATTCTTCAACAAT
*
10662041 GAAAGT
1 AAAAGT
10662047 AACTGCCAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 4 0.04
111 105 0.96
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (111 bp):
AAAAGTCAGGGTGTCTCATAGTATATTCTTCTTTGTATCTTGATCATTTTCTCTTACAAAGTATG
CAATGAAAAAACTGAAGTTACTACTAAATCAATATTCTTCAACAAT
Found at i:10671610 original size:21 final size:20
Alignment explanation
Indices: 10671552--10671613 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
10671542 AATCATGTTT
* *
10671552 AATT-TTTTTAAAACAAATG
1 AATTATTTTTAGATCAAATG
10671571 AATTATTTTTAGATCAAATG
1 AATTATTTTTAGATCAAATG
* *
10671591 ATTTATTTTTGGATCAAAATG
1 AATTATTTTTAGATC-AAATG
10671612 AA
1 AA
10671614 AAGTCATAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 4 0.11
20 26 0.72
21 6 0.17
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
AATTATTTTTAGATCAAATG
Found at i:10672060 original size:20 final size:20
Alignment explanation
Indices: 10672035--10672099 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
10672025 TATAGGTTAA
10672035 GGTTTAGGCTTTAAGGCTTT
1 GGTTTAGGCTTTAAGGCTTT
* * *
10672055 GGTTTAGGGTCT-AGG-TTAG
1 GGTTTAGGCTTTAAGGCTT-T
*
10672074 GGTTTAGGTTTTAAGGCTTT
1 GGTTTAGGCTTTAAGGCTTT
10672094 GGTTTA
1 GGTTTA
10672100 AGGTCTAAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 19 0.53
21 2 0.06
ACGTcount: A:0.15, C:0.06, G:0.34, T:0.45
Consensus pattern (20 bp):
GGTTTAGGCTTTAAGGCTTT
Found at i:10672061 original size:39 final size:39
Alignment explanation
Indices: 10672017--10672199 Score: 175
Period size: 39 Copynumber: 4.7 Consensus size: 39
10672007 TTTGGGGTTA
* * *
10672017 GTTTAGGGTATAGGTTAAGGTTTAGGCTTTAAGGCTTTG
1 GTTTAGGGTCTAGGTTAGGGTTTAGGTTTTAAGGCTTTG
10672056 GTTTAGGGTCTAGGTTAGGGTTTAGGTTTTAAGGCTTTG
1 GTTTAGGGTCTAGGTTAGGGTTTAGGTTTTAAGGCTTTG
*
10672095 GTTTAAGGTCTAAGGTTAGGGTTTAGGTTTT-A-G----G
1 GTTTAGGGTCT-AGGTTAGGGTTTAGGTTTTAAGGCTTTG
* * * *
10672129 ATTTAGGGTTTGAGTTTAGGATTTA-GTGTTTAAGG-TTTAG
1 GTTTAGGGTCT-AGGTTAGGGTTTAGGT-TTTAAGGCTTT-G
*
10672169 AGTTTAGGGTTTAGGTTTAGGGTTTAGGTTT
1 -GTTTAGGGTCTAGG-TTAGGGTTTAGGTTT
10672200 AAAGTTTGGG
Statistics
Matches: 120, Mismatches: 13, Indels: 20
0.78 0.08 0.13
Matches are distributed among these distances:
33 2 0.02
34 23 0.19
35 1 0.01
36 1 0.01
38 1 0.01
39 47 0.39
40 22 0.18
41 21 0.17
42 2 0.02
ACGTcount: A:0.19, C:0.03, G:0.34, T:0.44
Consensus pattern (39 bp):
GTTTAGGGTCTAGGTTAGGGTTTAGGTTTTAAGGCTTTG
Found at i:10672071 original size:13 final size:13
Alignment explanation
Indices: 10672000--10672322 Score: 150
Period size: 13 Copynumber: 25.2 Consensus size: 13
10671990 AAATGTTGGT
10672000 TTTAGGGTTT-GGG
1 TTTA-GGTTTAGGG
*
10672013 GTTA-GTTTAGGG
1 TTTAGGTTTAGGG
* *
10672025 TATAGG-TTAAGG
1 TTTAGGTTTAGGG
*
10672037 TTTAGGCTTTAAGGC
1 TTTAGG-TTT-AGGG
10672052 TTT-GGTTTAGGG
1 TTTAGGTTTAGGG
*
10672064 TCTAGG-TTAGGG
1 TTTAGGTTTAGGG
*
10672076 TTTAGGTTTTAAGGC
1 TTTAGG-TTT-AGGG
*
10672091 TTT-GGTTTAAGG
1 TTTAGGTTTAGGG
*
10672103 TCTAAGG-TTAGGG
1 T-TTAGGTTTAGGG
10672116 TTTAGG--T----
1 TTTAGGTTTAGGG
10672123 TTTAGGATTTAGGG
1 TTTAGG-TTTAGGG
*
10672137 TTT-GAGTTTAGGA
1 TTTAG-GTTTAGGG
*
10672150 TTTAGTGTTTAAGG
1 TTTAG-GTTTAGGG
10672164 TTTAGAGTTTAGGG
1 TTTAG-GTTTAGGG
10672178 TTTAGGTTTAGGG
1 TTTAGGTTTAGGG
**
10672191 TTTAGGTTTAAAG
1 TTTAGGTTTAGGG
* * *
10672204 TTTGGGTTTATGA
1 TTTAGGTTTAGGG
*
10672217 TTT-GGTTTAAGG
1 TTTAGGTTTAGGG
10672229 TTTAGGATTT--GG
1 TTTAGG-TTTAGGG
**
10672241 TTTAAGGTTTAAAG
1 TTT-AGGTTTAGGG
10672255 TTTAAGG-TTAGGGG
1 TTT-AGGTTTA-GGG
*
10672269 TTTAGGGCTT-GGG
1 TTTA-GGTTTAGGG
10672282 TTTA-G-TTA-GG
1 TTTAGGTTTAGGG
* *
10672292 TTTAGGATTTAAGA
1 TTTAGG-TTTAGGG
10672306 TTTAGGGTTTAGGG
1 TTTA-GGTTTAGGG
10672320 TTT
1 TTT
10672323 TAGAATGCAT
Statistics
Matches: 240, Mismatches: 36, Indels: 67
0.70 0.10 0.20
Matches are distributed among these distances:
7 6 0.03
10 9 0.04
11 7 0.03
12 56 0.23
13 79 0.33
14 68 0.28
15 15 0.06
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (13 bp):
TTTAGGTTTAGGG
Found at i:10672117 original size:20 final size:20
Alignment explanation
Indices: 10672055--10672119 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
10672045 TTAAGGCTTT
*
10672055 GGTTTAGGGTCT-AGGTTAG
1 GGTTTAAGGTCTAAGGTTAG
* *
10672074 GGTTT-AGGTTTTAAGGCTT-T
1 GGTTTAAGG-TCTAAGG-TTAG
10672094 GGTTTAAGGTCTAAGGTTAG
1 GGTTTAAGGTCTAAGGTTAG
10672114 GGTTTA
1 GGTTTA
10672120 GGTTTTAGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
18 2 0.06
19 9 0.25
20 20 0.56
21 5 0.14
ACGTcount: A:0.18, C:0.05, G:0.35, T:0.42
Consensus pattern (20 bp):
GGTTTAAGGTCTAAGGTTAG
Found at i:10672148 original size:20 final size:20
Alignment explanation
Indices: 10672110--10672318 Score: 120
Period size: 20 Copynumber: 10.6 Consensus size: 20
10672100 AGGTCTAAGG
10672110 TTAGGGTTTAGGTTTTAGGAT
1 TTAGGGTTTAGG-TTTAGGAT
10672131 TTAGGGTTT-GAGTTTAGGAT
1 TTAGGGTTTAG-GTTTAGGAT
*
10672151 TTAGTGTTTAAGGTTTA-GAGT
1 TTAGGGTTT-AGGTTTAGGA-T
*
10672172 TTAGGGTTTAGGTTTAGGGT
1 TTAGGGTTTAGGTTTAGGAT
* *
10672192 TTA-GGTTTAAAGTTT-GGGT
1 TTAGGGTTT-AGGTTTAGGAT
* *
10672211 TTATGATTT-GGTTTAAGG-T
1 TTAGGGTTTAGGTTT-AGGAT
*
10672230 TTAGGATTT-GGTTTAAGG-T
1 TTAGGGTTTAGGTTT-AGGAT
** *
10672249 TTAAAGTTTAAGG-TTAGGGGT
1 TTAGGGTTT-AGGTTTA-GGAT
* *
10672270 TTAGGGCTTGGGTTTA-G--
1 TTAGGGTTTAGGTTTAGGAT
*
10672287 TTA-GGTTTAGGATTTAAGAT
1 TTAGGGTTTAGG-TTTAGGAT
10672307 TTAGGGTTTAGG
1 TTAGGGTTTAGG
10672319 GTTTTAGAAT
Statistics
Matches: 153, Mismatches: 16, Indels: 38
0.74 0.08 0.18
Matches are distributed among these distances:
16 6 0.04
17 7 0.05
18 5 0.03
19 39 0.25
20 50 0.33
21 45 0.29
22 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (20 bp):
TTAGGGTTTAGGTTTAGGAT
Found at i:10672160 original size:41 final size:39
Alignment explanation
Indices: 10672114--10672318 Score: 111
Period size: 41 Copynumber: 5.1 Consensus size: 39
10672104 CTAAGGTTAG
10672114 GGTTTAGGTTTTAG-GATTTAGGGTTT-GAGTTTAGGATTTA
1 GGTTTAGG-TTTAGAG-TTTAGGGTTTAG-GTTTAGGATTTA
*
10672154 GTGTTTAAGGTTTAGAGTTTAGGGTTTAGGTTTAGGGTTTA
1 G-GTTT-AGGTTTAGAGTTTAGGGTTTAGGTTTAGGATTTA
* *
10672195 GGTTTAAAGTTT-GGGTTTATGATTTGGTTTAAGGTTTAGGATTT-
1 GGTTT-AGGTTTAGAGTTTA-G----GGTTT-AGGTTTAGGATTTA
* * ** *
10672239 GGTTTAAGGTTTAAAGTTTAAGG-TTAGGGGTTTAGGGCTTG
1 GGTTT-AGGTTTAGAGTTTAGGGTTTA--GGTTTAGGATTTA
* * *
10672280 GGTTTA-G-TTAG-GTTTAGGATTTAAGATTTAGGGTTTA
1 GGTTTAGGTTTAGAGTTTAGGGTTT-AGGTTTAGGATTTA
10672317 GG
1 GG
10672319 GTTTTAGAAT
Statistics
Matches: 133, Mismatches: 16, Indels: 35
0.72 0.09 0.19
Matches are distributed among these distances:
37 18 0.14
38 6 0.05
39 10 0.08
40 25 0.19
41 36 0.27
42 5 0.04
44 16 0.12
45 17 0.13
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (39 bp):
GGTTTAGGTTTAGAGTTTAGGGTTTAGGTTTAGGATTTA
Found at i:10672319 original size:7 final size:7
Alignment explanation
Indices: 10672000--10672322 Score: 150
Period size: 7 Copynumber: 48.4 Consensus size: 7
10671990 AAATGTTGGT
10672000 TTTAGGG
1 TTTAGGG
10672007 TTT-GGG
1 TTTAGGG
*
10672013 GTTA--G
1 TTTAGGG
10672018 TTTAGGG
1 TTTAGGG
*
10672025 TATA-GG
1 TTTAGGG
*
10672031 -TTAAGG
1 TTTAGGG
*
10672037 TTTAGGC
1 TTTAGGG
*
10672044 TTTAAGGC
1 TTT-AGGG
10672052 TTT--GG
1 TTTAGGG
10672057 TTTAGGG
1 TTTAGGG
*
10672064 TCTA-GG
1 TTTAGGG
10672070 -TTAGGG
1 TTTAGGG
*
10672076 TTTAGGT
1 TTTAGGG
*
10672083 TTTAAGGC
1 TTT-AGGG
10672091 TTT--GG
1 TTTAGGG
*
10672096 TTTAAGG
1 TTTAGGG
* *
10672103 TCTAAGG
1 TTTAGGG
10672110 -TTAGGG
1 TTTAGGG
*
10672116 TTTAGGT
1 TTTAGGG
*
10672123 TTTAGGA
1 TTTAGGG
10672130 TTTAGGG
1 TTTAGGG
*
10672137 TTT-GAG
1 TTTAGGG
*
10672143 TTTAGGA
1 TTTAGGG
*
10672150 TTTAGTG
1 TTTAGGG
*
10672157 TTTAAGG
1 TTTAGGG
*
10672164 TTTAGAG
1 TTTAGGG
10672171 TTTAGGG
1 TTTAGGG
10672178 TTTA-GG
1 TTTAGGG
10672184 TTTAGGG
1 TTTAGGG
10672191 TTTA-GG
1 TTTAGGG
**
10672197 TTTAAAG
1 TTTAGGG
10672204 TTT-GGG
1 TTTAGGG
* *
10672210 TTTATGA
1 TTTAGGG
10672217 TTT--GG
1 TTTAGGG
*
10672222 TTTAAGG
1 TTTAGGG
*
10672229 TTTAGGA
1 TTTAGGG
10672236 TTT--GG
1 TTTAGGG
*
10672241 TTTAAGG
1 TTTAGGG
**
10672248 TTTAAAG
1 TTTAGGG
*
10672255 TTTAAGG
1 TTTAGGG
10672262 -TTAGGGG
1 TTTA-GGG
10672269 TTTAGGG
1 TTTAGGG
*
10672276 CTT-GGG
1 TTTAGGG
10672282 TTTAGTTAGG
1 TTTAG---GG
*
10672292 TTTAGGA
1 TTTAGGG
* *
10672299 TTTAAGA
1 TTTAGGG
10672306 TTTAGGG
1 TTTAGGG
10672313 TTTAGGG
1 TTTAGGG
10672320 TTT
1 TTT
10672323 TAGAATGCAT
Statistics
Matches: 242, Mismatches: 46, Indels: 56
0.70 0.13 0.16
Matches are distributed among these distances:
5 24 0.10
6 46 0.19
7 149 0.62
8 16 0.07
10 7 0.03
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:10672424 original size:61 final size:59
Alignment explanation
Indices: 10672325--10672505 Score: 229
Period size: 61 Copynumber: 3.0 Consensus size: 59
10672315 TAGGGTTTTA
* * *
10672325 GAATGCATGTAACAAATTATCGAAATACCATTGATAAAAATGCAAACTTTGATGCATGGG
1 GAATGCATGTAACAAATTA-CCAAATGCCATTGATAAAAATGCAAACTTTGATGCATAGG
* * * *
10672385 GAATACATGTAACAGAATTACCAAATTGCCATTAATAAAAATGTAAAC-TTAATGCATAGG
1 GAATGCATGTAACA-AATTACCAAA-TGCCATTGATAAAAATGCAAACTTTGATGCATAGG
*
10672445 GAATGCATGTAACAAAAATTACCAAAATGCCATTGATAAAAATGCAAACTTTGATTCATAG
1 GAATGCATGTAAC--AAATTACC-AAATGCCATTGATAAAAATGCAAACTTTGATGCATAG
10672506 AATATGAATG
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
60 39 0.38
61 51 0.50
62 13 0.13
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.27
Consensus pattern (59 bp):
GAATGCATGTAACAAATTACCAAATGCCATTGATAAAAATGCAAACTTTGATGCATAGG
Found at i:10682500 original size:10 final size:11
Alignment explanation
Indices: 10682483--10682508 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10682473 ATTTTTGTAG
10682483 GAAAAAAAAAA
1 GAAAAAAAAAA
10682494 GAAAAAAAAAA
1 GAAAAAAAAAA
10682505 GAAA
1 GAAA
10682509 GAAAGATTTA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:10690421 original size:28 final size:28
Alignment explanation
Indices: 10690389--10690445 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10690379 GCAATGAGTA
10690389 AGTGAATTTGAAGGTATTGTTTTTCATC
1 AGTGAATTTGAAGGTATTGTTTTTCATC
10690417 AGTGAATTTGAAGGTATTGTTTTTCATC
1 AGTGAATTTGAAGGTATTGTTTTTCATC
10690445 A
1 A
10690446 TATTGCATTT
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:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (28 bp):
AGTGAATTTGAAGGTATTGTTTTTCATC
Found at i:10693255 original size:27 final size:28
Alignment explanation
Indices: 10693195--10693255 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
10693185 AGTGAAATAT
* *
10693195 TTAATATGATACTTAAATTTAAAAATTTT
1 TTAATATGATACTTAAA-TTAAAAATGTC
*
10693224 TTAATATGATACTTAAA-TATAAATGTC
1 TTAATATGATACTTAAATTAAAAATGTC
10693251 TTAAT
1 TTAAT
10693256 TAATACAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 12 0.41
29 17 0.59
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (28 bp):
TTAATATGATACTTAAATTAAAAATGTC
Found at i:10693369 original size:29 final size:30
Alignment explanation
Indices: 10693337--10693396 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
10693327 ATCACATTAA
* *
10693337 TTTATAATTTAAATATTATATTAAA-ATTT
1 TTTAAAATTTAAATATTACATTAAATATTT
10693366 TTTAAAATTTAAATATTACATTAAATATTT
1 TTTAAAATTTAAATATTACATTAAATATTT
10693396 T
1 T
10693397 ATTAGAGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTAAAATTTAAATATTACATTAAATATTT
Found at i:10694066 original size:2 final size:2
Alignment explanation
Indices: 10694059--10694107 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
10694049 CCAAACCGGG
10694059 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10694101 GA GA GA G
1 GA GA GA G
10694108 GAAGGAGCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10699103 original size:25 final size:26
Alignment explanation
Indices: 10699075--10699132 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
10699065 TATTAGTAAA
* **
10699075 TTTATTATGAAA-AAATAAATTATTT
1 TTTATTATAAAATAAATAAAAAATTT
*
10699100 TTTATCA-AAAATAAATAAAAAATTT
1 TTTATTATAAAATAAATAAAAAATTT
10699125 TTTATTAT
1 TTTATTAT
10699133 TTTATCTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTATTATAAAATAAATAAAAAATTT
Found at i:10699104 original size:22 final size:21
Alignment explanation
Indices: 10699074--10699115 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10699064 GTATTAGTAA
10699074 ATTTATTATGAAAAAATAAATT
1 ATTTATTAT-AAAAAATAAATT
* *
10699096 ATTTTTTATCAAAAATAAAT
1 ATTTATTATAAAAAATAAAT
10699116 AAAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTATTATAAAAAATAAATT
Found at i:10703604 original size:9 final size:9
Alignment explanation
Indices: 10703590--10703627 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
10703580 TTATTTTTTA
*
10703590 TATCTTGTT
1 TATCTTATT
10703599 TATCTTATT
1 TATCTTATT
10703608 TAT-TTATT
1 TATCTTATT
*
10703616 TATCTTTTT
1 TATCTTATT
10703625 TAT
1 TAT
10703628 GTTTTAGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.71
Consensus pattern (9 bp):
TATCTTATT
Found at i:10704458 original size:19 final size:18
Alignment explanation
Indices: 10704422--10704464 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
10704412 TCTTTCATCC
*
10704422 TATTTTATGTTTTGATTT
1 TATTTTATGTTTTAATTT
*
10704440 TATTTTACTTTTTTAATTT
1 TATTTTA-TGTTTTAATTT
10704459 TATTTT
1 TATTTT
10704465 TAAAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (18 bp):
TATTTTATGTTTTAATTT
Found at i:10706630 original size:9 final size:9
Alignment explanation
Indices: 10706616--10706653 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
10706606 TTATTTTTTA
*
10706616 TATCTTGTT
1 TATCTTATT
10706625 TATCTTATT
1 TATCTTATT
10706634 TAT-TTATT
1 TATCTTATT
*
10706642 TATCTTTTT
1 TATCTTATT
10706651 TAT
1 TAT
10706654 GTTTTAGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.71
Consensus pattern (9 bp):
TATCTTATT
Found at i:10707477 original size:5 final size:5
Alignment explanation
Indices: 10707462--10707506 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
10707452 CTATTTTATG
*
10707462 TTTTGA TTTTA TTTTA TTTT- TTTAA TTTTA TTTTAA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTT
10707507 TAGATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 3 0.09
5 23 0.66
6 9 0.26
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:10707489 original size:19 final size:19
Alignment explanation
Indices: 10707453--10707501 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
10707443 TCTTTCATCC
* *
10707453 TATTTTA-TGTTTTGATTT
1 TATTTTATTTTTTTAATTT
10707471 TATTTTATTTTTTTAATTT
1 TATTTTATTTTTTTAATTT
10707490 TATTTTAATTTT
1 TATTTT-ATTTT
10707502 ATTTTTAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 7 0.26
19 15 0.56
20 5 0.19
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (19 bp):
TATTTTATTTTTTTAATTT
Found at i:10707521 original size:30 final size:29
Alignment explanation
Indices: 10707453--10707525 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
10707443 TCTTTCATCC
* *
10707453 TATTTTATGTTTTGATTTTATTTTATTTTTT
1 TATTTTA--TTTTAATTTTATTTTAATTTTT
10707484 TAATTTTATTTTAATTTTATTTTTAGATTTTT
1 T-ATTTTATTTTAATTTTA-TTTTA-ATTTTT
10707516 T-TTTTATTTT
1 TATTTTATTTT
10707526 TTCACTACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
30 19 0.51
31 6 0.16
32 12 0.32
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (29 bp):
TATTTTATTTTAATTTTATTTTAATTTTT
Found at i:10708295 original size:64 final size:63
Alignment explanation
Indices: 10708226--10708421 Score: 168
Period size: 64 Copynumber: 3.1 Consensus size: 63
10708216 AAAGCACCTA
* *
10708226 CAATAATCCAATCAATAAATTTTTATGAGAGATTATTGAAGGCGATTTTGGTAAAAAATGCCTT
1 CAATAATCCAATCAATAAATTTTTATGAG-GATTATTAAAGGCGATTTTGGTCAAAAATGCCTT
* * ** * * * * * *
10708290 TAATAATCC-ATACAA-AAGA--GTTAAAATGGATTCTTAAATGCGTTTTTGGCCTAAAATACCT
1 CAATAATCCAAT-CAATAA-ATTTTTATGA-GGATTATTAAAGGCGATTTTGGTCAAAAATGCCT
10708351 T
63 T
* * *
10708352 CAATAATCCACTCAATAAATTTTTATGAGGGATTATTTAAGAC-AGTTTTGGTCAAAAATGCCTT
1 CAATAATCCAATCAATAAATTTTTATGA-GGATTATTAAAGGCGA-TTTTGGTCAAAAATGCCTT
10708416 CAATAA
1 CAATAA
10708422 CATTTTGTTA
Statistics
Matches: 98, Mismatches: 26, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
62 42 0.43
63 8 0.08
64 48 0.49
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (63 bp):
CAATAATCCAATCAATAAATTTTTATGAGGATTATTAAAGGCGATTTTGGTCAAAAATGCCTT
Found at i:10708356 original size:126 final size:126
Alignment explanation
Indices: 10708152--10708421 Score: 355
Period size: 126 Copynumber: 2.1 Consensus size: 126
10708142 TTTTGACAAA
* * * *
10708152 AAAAAATGCCTTCAATAATCTATAAAAAAAATTTGAAACGGATTCTTGAAGGCATTTTTGGCCAA
1 AAAAAATGCCTTCAATAATCCATAAAAAAAAGTTAAAACGGATTCTTAAAGGCATTTTTGGCCAA
*
10708217 AAGCACCTACAATAATCCAATCAATAAATTTTTATGAGAGATTATTGAAGGC-GATTTTGGT
66 AAGCACCTACAATAATCCAATCAATAAATTTTTATGAGAGATTATTGAAGACAG-TTTTGGT
* * * * * *
10708278 AAAAAATGCCTTTAATAATCCATACAAAAGAGTTAAAATGGATTCTTAAATGCGTTTTTGGCCTA
1 AAAAAATGCCTTCAATAATCCATAAAAAAAAGTTAAAACGGATTCTTAAAGGCATTTTTGGCC-A
* * * * *
10708343 AAA-TACCTTCAATAATCCACTCAATAAATTTTTATGAGGGATTATTTAAGACAGTTTTGGT
65 AAAGCACCTACAATAATCCAATCAATAAATTTTTATGAGAGATTATTGAAGACAGTTTTGGT
*
10708404 CAAAAATGCCTTCAATAA
1 AAAAAATGCCTTCAATAA
10708422 CATTTTGTTA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
126 119 0.96
127 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (126 bp):
AAAAAATGCCTTCAATAATCCATAAAAAAAAGTTAAAACGGATTCTTAAAGGCATTTTTGGCCAA
AAGCACCTACAATAATCCAATCAATAAATTTTTATGAGAGATTATTGAAGACAGTTTTGGT
Found at i:10711728 original size:25 final size:25
Alignment explanation
Indices: 10711711--10711762 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
10711701 CAGCAATGTG
*
10711711 TTCAGAAACACCATTCAGGAAACCA
1 TTCAGAAACACCATTCAGCAAACCA
*
10711736 TTCAGAAACACCATTCAGCAAATCA
1 TTCAGAAACACCATTCAGCAAACCA
10711761 TT
1 TT
10711763 TAGCAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (25 bp):
TTCAGAAACACCATTCAGCAAACCA
Found at i:10711737 original size:12 final size:12
Alignment explanation
Indices: 10711720--10711772 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
10711710 GTTCAGAAAC
*
10711720 ACCATTCAGGAA
1 ACCATTCAGCAA
*
10711732 ACCATTCAGAAA
1 ACCATTCAGCAA
10711744 CACCATTCAGCAA
1 -ACCATTCAGCAA
* *
10711757 ATCATTTAGCAA
1 ACCATTCAGCAA
10711769 ACCA
1 ACCA
10711773 ATATCATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
12 24 0.69
13 11 0.31
ACGTcount: A:0.43, C:0.28, G:0.09, T:0.19
Consensus pattern (12 bp):
ACCATTCAGCAA
Found at i:10711750 original size:13 final size:13
Alignment explanation
Indices: 10711711--10711753 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
10711701 CAGCAATGTG
10711711 TTCAGAAACACCA
1 TTCAGAAACACCA
*
10711724 TTCAGGAA-ACCA
1 TTCAGAAACACCA
10711736 TTCAGAAACACCA
1 TTCAGAAACACCA
10711749 TTCAG
1 TTCAG
10711754 CAAATCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.42, C:0.28, G:0.12, T:0.19
Consensus pattern (13 bp):
TTCAGAAACACCA
Found at i:10716575 original size:21 final size:20
Alignment explanation
Indices: 10716549--10716591 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
10716539 CAGCTGATTC
10716549 TTTCCTTTCCTCTTTTTATTT
1 TTTCCTTTCC-CTTTTTATTT
10716570 TTTCCTTTCCCTTTTT-TTT
1 TTTCCTTTCCCTTTTTATTT
10716589 TTT
1 TTT
10716592 TTGTTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 6 0.27
21 10 0.45
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTCCTTTCCCTTTTTATTT
Found at i:10716593 original size:21 final size:21
Alignment explanation
Indices: 10716549--10716592 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
10716539 CAGCTGATTC
10716549 TTTCCTTTCCTCTTTTTATTT
1 TTTCCTTTCCTCTTTTTATTT
*
10716570 TTTCCTTTCC-CTTTTTTTTT
1 TTTCCTTTCCTCTTTTTATTT
10716590 TTT
1 TTT
10716593 TGTTTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTCCTTTCCTCTTTTTATTT
Found at i:10720261 original size:24 final size:25
Alignment explanation
Indices: 10720234--10720286 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 25
10720224 AAATCACAAT
10720234 ATTTCAATAAC-TAGT-AATATATAA
1 ATTTCAATAACTTA-TAAATATATAA
10720258 ATTTCAATAACTTATCAAATATATAA
1 ATTTCAATAACTTAT-AAATATATAA
10720284 ATT
1 ATT
10720287 ACTTCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 12 0.46
25 2 0.08
26 12 0.46
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTTCAATAACTTATAAATATATAA
Found at i:10720318 original size:38 final size:37
Alignment explanation
Indices: 10720275--10720362 Score: 133
Period size: 38 Copynumber: 2.4 Consensus size: 37
10720265 TAACTTATCA
10720275 AATATATAAATTACTTCAAAATAA-ATATAAATCTTAAT
1 AATATATAAATTACTTCAAAATAATATATAAA--TTAAT
*
10720313 AATATATAAATTACTTCAAAATAATATATAAATTAGT
1 AATATATAAATTACTTCAAAATAATATATAAATTAAT
*
10720350 AACATATAAATTA
1 AATATATAAATTA
10720363 TAACCATCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 16 0.34
38 24 0.51
39 7 0.15
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.36
Consensus pattern (37 bp):
AATATATAAATTACTTCAAAATAATATATAAATTAAT
Found at i:10720337 original size:22 final size:22
Alignment explanation
Indices: 10720275--10720347 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
10720265 TAACTTATCA
10720275 AATATATAAATTACTTCAAAAT
1 AATATATAAATTACTTCAAAAT
10720297 AA-ATATAAA-T-CTT---AAT
1 AATATATAAATTACTTCAAAAT
10720313 AATATATAAATTACTTCAAAAT
1 AATATATAAATTACTTCAAAAT
10720335 AATATATAAATTA
1 AATATATAAATTA
10720348 GTAACATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.11
17 7 0.16
18 1 0.02
19 6 0.13
20 1 0.02
21 7 0.16
22 18 0.40
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATATAAATTACTTCAAAAT
Found at i:10720358 original size:15 final size:14
Alignment explanation
Indices: 10720333--10720366 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
10720323 TTACTTCAAA
*
10720333 ATAATATATAAATT
1 ATAACATATAAATT
10720347 AGTAACATATAAATT
1 A-TAACATATAAATT
10720362 ATAAC
1 ATAAC
10720367 CATCAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
ATAACATATAAATT
Found at i:10720681 original size:25 final size:25
Alignment explanation
Indices: 10720653--10720721 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 25
10720643 CATTAATACT
10720653 TAACAAAAAATCTAACAAAAATATA
1 TAACAAAAAATCTAACAAAAATATA
* *
10720678 TAACCAACAAAT-T-TCAACAAATATA
1 TAA-CAAAAAATCTAACAA-AAATATA
* * *
10720703 TAACCAAAACTCAAACAAA
1 TAACAAAAAATCTAACAAA
10720722 TTTTAACAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
24 8 0.24
25 15 0.45
26 10 0.30
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (25 bp):
TAACAAAAAATCTAACAAAAATATA
Found at i:10725450 original size:26 final size:27
Alignment explanation
Indices: 10725400--10725451 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
10725390 TTTTAAAATT
10725400 TGATCTAATTCTGAATCAAACTCTATA
1 TGATCTAATTCTGAATCAAACTCTATA
* * *
10725427 TGATCTGATTC-GAATTAAATTCTAT
1 TGATCTAATTCTGAATCAAACTCTAT
10725452 TGGTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (27 bp):
TGATCTAATTCTGAATCAAACTCTATA
Found at i:10725490 original size:7 final size:8
Alignment explanation
Indices: 10725471--10725514 Score: 74
Period size: 8 Copynumber: 5.8 Consensus size: 8
10725461 TTAGTTTATC
10725471 AATTTTAA
1 AATTTTAA
10725479 AATTTT-A
1 AATTTTAA
10725486 AATTTT-A
1 AATTTTAA
10725493 AATTTTAA
1 AATTTTAA
10725501 AATTTTAA
1 AATTTTAA
10725509 AATTTT
1 AATTTT
10725515 TTAATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 14 0.40
8 21 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
AATTTTAA
Found at i:10725491 original size:15 final size:16
Alignment explanation
Indices: 10725471--10725514 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
10725461 TTAGTTTATC
10725471 AATTTTAAAATTTT-A
1 AATTTTAAAATTTTAA
10725486 AATTTT-AAATTTTAA
1 AATTTTAAAATTTTAA
10725501 AATTTTAAAATTTT
1 AATTTTAAAATTTT
10725515 TTAATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.26
15 13 0.48
16 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTTAAAATTTTAA
Found at i:10725520 original size:8 final size:8
Alignment explanation
Indices: 10725473--10725557 Score: 64
Period size: 8 Copynumber: 10.0 Consensus size: 8
10725463 AGTTTATCAA
*
10725473 TTTTAAAA
1 TTTTAAAT
10725481 TTTTAAA-
1 TTTTAAAT
10725488 TTTTAAAT
1 TTTTAAAT
*
10725496 TTTAAAAT
1 TTTTAAAT
*
10725504 TTTAAAATT
1 TTTTAAA-T
*
10725513 TTTTAATTT
1 TTTTAA-AT
10725522 TTTTAAAAT
1 TTTT-AAAT
10725531 TTTTAATAT
1 TTTTAA-AT
*
10725540 ATTTAAAT
1 TTTTAAAT
10725548 ATATTTAAAT
1 -T-TTTAAAT
10725558 ATATTTAAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
7 7 0.11
8 25 0.39
9 23 0.36
10 9 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TTTTAAAT
Found at i:10725548 original size:10 final size:10
Alignment explanation
Indices: 10725523--10725570 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
10725513 TTTTAATTTT
10725523 TTTAAA-AT-
1 TTTAAATATA
*
10725531 TTTTAATATA
1 TTTAAATATA
10725541 TTTAAATATA
1 TTTAAATATA
10725551 TTTAAATATA
1 TTTAAATATA
*
10725561 TTTAAGTATA
1 TTTAAATATA
10725571 AAATAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
8 5 0.14
9 2 0.06
10 28 0.80
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (10 bp):
TTTAAATATA
Found at i:10725619 original size:18 final size:19
Alignment explanation
Indices: 10725589--10725629 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
10725579 AATTTTATTT
*
10725589 TATA-AAAATTTAA-AAAA
1 TATATAAAAGTTAATAAAA
10725606 TATATAAAAGTTAATAAAA
1 TATATAAAAGTTAATAAAA
10725625 -ATATA
1 TATATA
10725630 TTATTTGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
TATATAAAAGTTAATAAAA
Found at i:10728926 original size:17 final size:18
Alignment explanation
Indices: 10728886--10728926 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10728876 TTAAATTTTA
*
10728886 AATTTTAAATATATAATT
1 AATTTTAAATATATAATC
*
10728904 AATTTTAAATATAT-GTC
1 AATTTTAAATATATAATC
10728921 AATTTT
1 AATTTT
10728927 TTAAATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
AATTTTAAATATATAATC
Found at i:10733201 original size:51 final size:51
Alignment explanation
Indices: 10733117--10733214 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
10733107 AGGGATCTTG
*
10733117 TTTAAGTTTGGAGGAAAAAATTAAGAACCATGTTAACTATGAGCCATCTCA
1 TTTAAGTTTGGAGGAAAAAATTAAGAACCATGTTAACTATCAGCCATCTCA
* *
10733168 TTTAAGTTTGGGGGAAAAAATTATA-AACTATGTTAACTATCAGCCAT
1 TTTAAGTTTGGAGGAAAAAATTA-AGAACCATGTTAACTATCAGCCAT
10733215 TGCTCTTAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (51 bp):
TTTAAGTTTGGAGGAAAAAATTAAGAACCATGTTAACTATCAGCCATCTCA
Found at i:10738739 original size:79 final size:79
Alignment explanation
Indices: 10738647--10738804 Score: 262
Period size: 79 Copynumber: 2.0 Consensus size: 79
10738637 TATTGTGCGT
* *
10738647 CATATTATTTCATGAGTTTGTGAATATTGTCATTTGAGATTTTGAATTGCTTTTAAGTTTTGGAT
1 CATATTATCTCATGAGTTTGTGAATATTGTCATTTGAGATTTTGAATTACTTTTAAGTTTTGGAT
10738712 TTTTAGGATTTTTC
66 TTTTAGGATTTTTC
* * *
10738726 CATATTATCTCATGATTTTGTGAATATTGTCATTTGAGATTTTTAATTATTTTTAAGTTTTGGAT
1 CATATTATCTCATGAGTTTGTGAATATTGTCATTTGAGATTTTGAATTACTTTTAAGTTTTGGAT
*
10738791 TTTTTGGATTTTTC
66 TTTTAGGATTTTTC
10738805 TAAAAAAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (79 bp):
CATATTATCTCATGAGTTTGTGAATATTGTCATTTGAGATTTTGAATTACTTTTAAGTTTTGGAT
TTTTAGGATTTTTC
Found at i:10739586 original size:19 final size:19
Alignment explanation
Indices: 10739564--10739600 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10739554 CATAAGAAGA
10739564 AAAAAAAATGA-AAAGAAAG
1 AAAAAAAA-GAGAAAGAAAG
10739583 AAAAAAAAGAGAAAGAAA
1 AAAAAAAAGAGAAAGAAA
10739601 TTCTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (19 bp):
AAAAAAAAGAGAAAGAAAG
Found at i:10739596 original size:20 final size:19
Alignment explanation
Indices: 10739560--10739600 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
10739550 AAAACATAAG
10739560 AAGAAAAAAAAATGAAAAGA
1 AAGAAAAAAAAATG-AAAGA
10739580 AAGAAAAAAAAGA-GAAAGA
1 AAGAAAAAAAA-ATGAAAGA
10739599 AA
1 AA
10739601 TTCTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 12 0.60
21 1 0.05
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAAAATGAAAGA
Found at i:10740495 original size:7 final size:7
Alignment explanation
Indices: 10740485--10740515 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
10740475 AAATAAAACA
10740485 AAAAATG
1 AAAAATG
10740492 AAAAATG
1 AAAAATG
10740499 AAAAAATG
1 -AAAAATG
10740507 AAAAATG
1 AAAAATG
10740514 AA
1 AA
10740516 GGAAAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:10740502 original size:15 final size:15
Alignment explanation
Indices: 10740484--10740515 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10740474 AAAATAAAAC
10740484 AAAAAATGAAAAATG
1 AAAAAATGAAAAATG
10740499 AAAAAATGAAAAATG
1 AAAAAATGAAAAATG
10740514 AA
1 AA
10740516 GGAAAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:10742194 original size:7 final size:6
Alignment explanation
Indices: 10742178--10742237 Score: 50
Period size: 6 Copynumber: 9.3 Consensus size: 6
10742168 AAAGCCTACC
* *
10742178 AAAAGA AAAATGAA AAAAAA AAAAGA AAAAAA AGCAAAGCA AAAAGA AAAA-A
1 AAAAGA AAAA-G-A AAAAGA AAAAGA AAAAGA A--AAAG-A AAAAGA AAAAGA
10742230 AAAAGA AA
1 AAAAGA AA
10742238 GTTTATTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 5 0.11
6 24 0.55
7 5 0.11
8 8 0.18
9 2 0.05
ACGTcount: A:0.83, C:0.03, G:0.12, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:10742200 original size:14 final size:13
Alignment explanation
Indices: 10742178--10742230 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
10742168 AAAGCCTACC
* *
10742178 AAAAGAAAAATGA
1 AAAAAAAAAAAGA
10742191 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
*
10742204 AAAAAAAGCAAAGCA
1 AAAAAAA-AAAAG-A
10742219 AAAAGAAAAAAA
1 AAAA-AAAAAAA
10742231 AAAGAAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 18 0.55
14 4 0.12
15 8 0.24
16 3 0.09
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:10742276 original size:15 final size:16
Alignment explanation
Indices: 10742256--10742285 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10742246 TGGAAAAGAT
10742256 AAAAGAG-AAATAAAA
1 AAAAGAGAAAATAAAA
10742271 AAAAGAGAAAATAAA
1 AAAAGAGAAAATAAA
10742286 CCAAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAAGAGAAAATAAAA
Found at i:10742526 original size:33 final size:33
Alignment explanation
Indices: 10742489--10742580 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
10742479 TAAGCTTTAC
* ** *
10742489 TTAGTTGGCACCTAGATGAGATTTAAGCCCAGT
1 TTAGTTGGCACCTAGATAAGACCTAAGCCCAAT
*
10742522 TTAGTTGGCACAC-ATATAAGACCTAAGCCCAAT
1 TTAGTTGGCAC-CTAGATAAGACCTAAGCCCAAT
*
10742555 TTAGTTGGCACCTAGAGAAGA-CTAAG
1 TTAGTTGGCACCTAGATAAGACCTAAG
10742581 TCTAGTTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 6 0.12
33 43 0.86
34 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (33 bp):
TTAGTTGGCACCTAGATAAGACCTAAGCCCAAT
Found at i:10742732 original size:33 final size:32
Alignment explanation
Indices: 10742695--10742802 Score: 103
Period size: 33 Copynumber: 3.4 Consensus size: 32
10742685 TTAAGCCCAA
10742695 TTTAGCTGGCACATAGATAAGACCTAAGCTTAG
1 TTTAGCTGGCACATAGATAAGA-CTAAGCTTAG
** * * * *
10742728 TTTAGCTGGCACCCAAAGAAGACAAAGCCTAG
1 TTTAGCTGGCACATAGATAAGACTAAGCTTAG
*
10742760 TTTAGCTGG--TATAGATAAGATCTAAGCTTAG
1 TTTAGCTGGCACATAGATAAGA-CTAAGCTTAG
* *
10742791 ATTAGTTGGCAC
1 TTTAGCTGGCAC
10742803 TTTAAGCCCA
Statistics
Matches: 56, Mismatches: 16, Indels: 6
0.72 0.21 0.08
Matches are distributed among these distances:
30 6 0.11
31 15 0.27
32 17 0.30
33 18 0.32
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (32 bp):
TTTAGCTGGCACATAGATAAGACTAAGCTTAG
Found at i:10742808 original size:23 final size:22
Alignment explanation
Indices: 10742781--10742847 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
10742771 TAGATAAGAT
*
10742781 CTAAGCTTAGATTAGTTGGCAC
1 CTAAGCCTAGATTAGTTGGCAC
* * *
10742803 TTTAAGCCCAGATTAGCTGGCAC
1 -CTAAGCCTAGATTAGTTGGCAC
**
10742826 CTAAGCCTATTTTAGTTGGCAC
1 CTAAGCCTAGATTAGTTGGCAC
10742848 AGATGAGATT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 17 0.49
23 18 0.51
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
CTAAGCCTAGATTAGTTGGCAC
Found at i:10742890 original size:33 final size:32
Alignment explanation
Indices: 10742827--10742927 Score: 132
Period size: 33 Copynumber: 3.1 Consensus size: 32
10742817 AGCTGGCACC
* **
10742827 TAAGCCTATTTTAGTTGGCAC-AGATGAGATT
1 TAAGCCTAGTTTAACTGGCACTAGATGAGATT
10742858 TAAGCCTAGTTTAACTGGCACATAGATGAGATT
1 TAAGCCTAGTTTAACTGGCAC-TAGATGAGATT
* *
10742891 TAAGCCCAGTTTAACTGGCACTTAAATGAGATT
1 TAAGCCTAGTTTAACTGGCAC-TAGATGAGATT
10742924 TAAG
1 TAAG
10742928 TCCATATTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
31 18 0.29
33 44 0.71
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (32 bp):
TAAGCCTAGTTTAACTGGCACTAGATGAGATT
Found at i:10742943 original size:33 final size:32
Alignment explanation
Indices: 10742850--10742943 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 32
10742840 GTTGGCACAG
*
10742850 ATGAGATTTAAGCC-TAGTTTAACTGGCACATAG
1 ATGAGATTTAAGCCATA--TTAACTGGCACATAA
*
10742883 ATGAGATTTAAGCCCAGT-TTAACTGGCACTTAA
1 ATGAGATTTAAG-CCA-TATTAACTGGCACATAA
*
10742916 ATGAGATTTAAGTCCATATTAATTGGCA
1 ATGAGATTTAAG-CCATATTAACTGGCA
10742944 TTTTAAGCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.02
33 49 0.92
34 2 0.04
36 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (32 bp):
ATGAGATTTAAGCCATATTAACTGGCACATAA
Found at i:10743761 original size:7 final size:7
Alignment explanation
Indices: 10743749--10743801 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
10743739 ATTCATTAAT
10743749 TAAAAAA
1 TAAAAAA
10743756 TAAAAAAA
1 T-AAAAAA
*
10743764 CAAAAAA
1 TAAAAAA
*
10743771 CAAAAAA
1 TAAAAAA
10743778 -ATAAAAA
1 TA-AAAAA
10743785 TAAAAAA
1 TAAAAAA
10743792 T-AAAAA
1 TAAAAAA
10743798 TAAA
1 TAAA
10743802 GAAAAACAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
6 7 0.17
7 27 0.66
8 7 0.17
ACGTcount: A:0.85, C:0.04, G:0.00, T:0.11
Consensus pattern (7 bp):
TAAAAAA
Found at i:10743761 original size:8 final size:8
Alignment explanation
Indices: 10743750--10743797 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
10743740 TTCATTAATT
10743750 AAAAAATA
1 AAAAAATA
*
10743758 AAAAAA-C
1 AAAAAATA
*
10743765 AAAAAACA
1 AAAAAATA
10743773 AAAAAAT-
1 AAAAAATA
10743780 -AAAAAT-
1 AAAAAATA
10743786 AAAAAATA
1 AAAAAATA
10743794 AAAA
1 AAAA
10743798 TAAAGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 6 0.18
7 12 0.35
8 16 0.47
ACGTcount: A:0.88, C:0.04, G:0.00, T:0.08
Consensus pattern (8 bp):
AAAAAATA
Found at i:10743770 original size:15 final size:14
Alignment explanation
Indices: 10743750--10743807 Score: 64
Period size: 15 Copynumber: 4.1 Consensus size: 14
10743740 TTCATTAATT
10743750 AAAAAATAAAAAAA
1 AAAAAATAAAAAAA
*
10743764 CAAAAAACAAAAAAA
1 -AAAAAATAAAAAAA
*
10743779 TAAAAAT-AAAAAA
1 AAAAAATAAAAAAA
*
10743792 TAAAAATAAAGAAAA
1 AAAAAATAAA-AAAA
10743807 A
1 A
10743808 CAGAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 13 0.35
14 7 0.19
15 17 0.46
ACGTcount: A:0.86, C:0.03, G:0.02, T:0.09
Consensus pattern (14 bp):
AAAAAATAAAAAAA
Found at i:10743791 original size:13 final size:13
Alignment explanation
Indices: 10743749--10743801 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
10743739 ATTCATTAAT
10743749 TAAAAAATAAAAA
1 TAAAAAATAAAAA
* *
10743762 -AACAAA-AAACA
1 TAAAAAATAAAAA
10743773 -AAAAAATAAAAA
1 TAAAAAATAAAAA
10743785 TAAAAAATAAAAA
1 TAAAAAATAAAAA
10743798 TAAA
1 TAAA
10743802 GAAAAACAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
11 9 0.26
12 9 0.26
13 16 0.47
ACGTcount: A:0.85, C:0.04, G:0.00, T:0.11
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:10743791 original size:23 final size:21
Alignment explanation
Indices: 10743750--10743818 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 21
10743740 TTCATTAATT
10743750 AAAAAATAAAAAAACAAAAAACA
1 AAAAAATAAAAAAA-AAAAAA-A
10743773 AAAAAATAAAAATAAAAAATAAA
1 AAAAAATAAAAA-AAAAAA-AAA
* * * *
10743796 AATAAAGAAAAACAGAAAAAA
1 AAAAAATAAAAAAAAAAAAAA
10743817 AA
1 AA
10743819 CTTTCAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 5 0.12
22 4 0.10
23 27 0.68
24 4 0.10
ACGTcount: A:0.86, C:0.04, G:0.03, T:0.07
Consensus pattern (21 bp):
AAAAAATAAAAAAAAAAAAAA
Found at i:10743798 original size:6 final size:6
Alignment explanation
Indices: 10743751--10743801 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
10743741 TCATTAATTA
10743751 AAAAAT AAAAA- AACAAA- AAACAA- AAAAAT AAAAAT AAAAAAT AAAAAT
1 AAAAAT AAAAAT AA-AAAT AAA-AAT AAAAAT AAAAAT -AAAAAT AAAAAT
10743799 AAA
1 AAA
10743802 GAAAAACAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.12
6 30 0.73
7 6 0.15
ACGTcount: A:0.86, C:0.04, G:0.00, T:0.10
Consensus pattern (6 bp):
AAAAAT
Found at i:10744198 original size:3 final size:3
Alignment explanation
Indices: 10744190--10744216 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10744180 CTCAATTTCA
10744190 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
10744217 AAATAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10746217 original size:25 final size:24
Alignment explanation
Indices: 10746189--10746235 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
10746179 TCTTTTGCAG
* *
10746189 TAATCAATATTTAAAATAATAAATA
1 TAATAAATA-TTAAAAAAATAAATA
10746214 TAATAAATATTAAAAAAATAAA
1 TAATAAATATTAAAAAAATAAA
10746236 AATATTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
TAATAAATATTAAAAAAATAAATA
Found at i:10753424 original size:3 final size:3
Alignment explanation
Indices: 10753411--10753447 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
10753401 TAAACACCAT
10753411 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10753448 TATTTAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:10753465 original size:7 final size:7
Alignment explanation
Indices: 10753455--10753529 Score: 53
Period size: 7 Copynumber: 9.9 Consensus size: 7
10753445 ATTTATTTAA
10753455 TCTTTTT
1 TCTTTTT
10753462 TCTTTTT
1 TCTTTTT
10753469 TCTTGTTT
1 TCTT-TTT
*
10753477 CCTGTTTTT
1 --TCTTTTT
10753486 TGCGTTTTT
1 T-C-TTTTT
*
10753495 TC-TTCT
1 TCTTTTT
10753501 TCTTTTT
1 TCTTTTT
10753508 TCTTTCTT
1 TCTTT-TT
*
10753516 TCTTCCTT
1 TCTT-TTT
10753524 TCTTTT
1 TCTTTT
10753530 CATTTCTTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
6 5 0.09
7 21 0.39
8 16 0.30
9 9 0.17
10 3 0.06
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (7 bp):
TCTTTTT
Found at i:10753517 original size:21 final size:22
Alignment explanation
Indices: 10753493--10753547 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
10753483 TTTTGCGTTT
10753493 TTTCTTCTTCTTTTTTC-TTTC
1 TTTCTTCTTCTTTTTTCATTTC
*
10753514 TTTCTTCCTT-TCTTTTCATTTC
1 TTTCTT-CTTCTTTTTTCATTTC
*
10753536 -TTCTTCATCTTT
1 TTTCTTCTTCTTT
10753548 ATCCGGTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.07
21 19 0.68
22 7 0.25
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCTTCTTCTTTTTTCATTTC
Found at i:10753520 original size:18 final size:17
Alignment explanation
Indices: 10753492--10753540 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
10753482 TTTTTGCGTT
*
10753492 TTTTC-TTCTTCTTTTT
1 TTTTCTTTCTTCTTTTC
*
10753508 TCTTTCTTTCTTCCTTTC
1 T-TTTCTTTCTTCTTTTC
10753526 TTTTCATTTCTTCTT
1 TTTTC-TTTCTTCTT
10753541 CATCTTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 8 0.30
18 18 0.67
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCTTTCTTCTTTTC
Found at i:10753708 original size:23 final size:24
Alignment explanation
Indices: 10753678--10753723 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
10753668 GAAAAAATGG
10753678 GATTTGAATCCCAG-AAGATCTAA
1 GATTTGAATCCCAGCAAGATCTAA
*
10753701 GATTTGAATCCCAGCAAGCTCTA
1 GATTTGAATCCCAGCAAGATCTA
10753724 TAAATAGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (24 bp):
GATTTGAATCCCAGCAAGATCTAA
Found at i:10759339 original size:10 final size:10
Alignment explanation
Indices: 10759319--10759351 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
10759309 CCAAGTTCTA
10759319 ACTAT-TTTG
1 ACTATATTTG
10759328 ACTATATTTG
1 ACTATATTTG
*
10759338 ACTTTATTTG
1 ACTATATTTG
10759348 ACTA
1 ACTA
10759352 AGTTTGATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (10 bp):
ACTATATTTG
Found at i:10760837 original size:23 final size:23
Alignment explanation
Indices: 10760806--10760855 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
10760796 AAAAATACTA
*
10760806 TTGA-CATTG-ATTACTTAATTGG
1 TTGACCATTGCATCACTT-ATTGG
*
10760828 TTGACCATTGCATCAGTTATTGG
1 TTGACCATTGCATCACTTATTGG
10760851 TTGAC
1 TTGAC
10760856 TCTTTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 15 0.62
24 5 0.21
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (23 bp):
TTGACCATTGCATCACTTATTGG
Found at i:10761012 original size:12 final size:12
Alignment explanation
Indices: 10760987--10761041 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
10760977 TAATTGTAAG
10760987 TTTAATTTCT-AT
1 TTTAATTT-TGAT
10760999 TTTAATTTTGAT
1 TTTAATTTTGAT
*
10761011 TTT--TTTAG-T
1 TTTAATTTTGAT
*
10761020 TTTAGTTTTGAT
1 TTTAATTTTGAT
10761032 TTTAATTTTG
1 TTTAATTTTG
10761042 TGATTCATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 5 0.14
12 23 0.64
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.69
Consensus pattern (12 bp):
TTTAATTTTGAT
Found at i:10761963 original size:21 final size:21
Alignment explanation
Indices: 10761917--10761968 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
10761907 TTTGGTTTTT
*
10761917 ATTTATTTTCTTGTTTTCCTA
1 ATTTATTTTCTTGTTTTACTA
* *
10761938 TTTTATTTAT-TTGTTTTATTA
1 ATTTATTT-TCTTGTTTTACTA
10761959 ATTTAATTTT
1 ATTT-ATTTT
10761969 TTAATTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (21 bp):
ATTTATTTTCTTGTTTTACTA
Found at i:10762168 original size:16 final size:16
Alignment explanation
Indices: 10762149--10762179 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10762139 GCATATTTGT
*
10762149 TTATTTGATTGCATGG
1 TTATTTAATTGCATGG
10762165 TTATTTAATTGCATG
1 TTATTTAATTGCATG
10762180 ATATATTATA
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:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (16 bp):
TTATTTAATTGCATGG
Found at i:10766244 original size:14 final size:13
Alignment explanation
Indices: 10766185--10766241 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
10766175 AAAAATGACT
*
10766185 AAATGAAGAAAAA
1 AAATAAAGAAAAA
*
10766198 AAGTAAAGAAAAA
1 AAATAAAGAAAAA
* **
10766211 AAATGAA-AAATG
1 AAATAAAGAAAAA
10766223 AAA-AAAGAAAAA
1 AAATAAAGAAAAA
10766235 AAATAAA
1 AAATAAA
10766242 AGATGGAGTG
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
11 2 0.06
12 12 0.36
13 19 0.58
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (13 bp):
AAATAAAGAAAAA
Found at i:10768809 original size:74 final size:77
Alignment explanation
Indices: 10768712--10768897 Score: 222
Period size: 74 Copynumber: 2.5 Consensus size: 77
10768702 TTGAGATTTT
* * * * *
10768712 CTAGATAATATTCAGTTAAGATGAGTTTTTAAGCCTAACTTAGTTGGAAAAGAGGTTTGAGC-C-
1 CTAGATGATATTCAGTTAAGATGAGTTTTTAAGCCCAACCTAATTGGAAAAGAGGTTTAAGCTCA
*
10768775 CTAAAATTGGCA
66 CTAAAATTGACA
* *
10768787 CTAGATGATATT-AGTTAAGATGAGTTTTTAAGCCCAACCTAATTGTAAGAGAGGTTTAAGCTCA
1 CTAGATGATATTCAGTTAAGATGAGTTTTTAAGCCCAACCTAATTGGAAAAGAGGTTTAAGCTCA
* *
10768851 GTGAAATTGACA
66 CTAAAATTGACA
* *
10768863 TTAGATGATATTCA-TT-AGTTGAG-TTTTAAGCCCAA
1 CTAGATGATATTCAGTTAAGATGAGTTTTTAAGCCCAA
10768898 TCTAGTTGTC
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
74 55 0.57
75 18 0.19
76 22 0.23
77 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (77 bp):
CTAGATGATATTCAGTTAAGATGAGTTTTTAAGCCCAACCTAATTGGAAAAGAGGTTTAAGCTCA
CTAAAATTGACA
Found at i:10768978 original size:15 final size:15
Alignment explanation
Indices: 10768960--10768993 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
10768950 AGTCCAATCT
*
10768960 AGTTGGTATTAGTTA
1 AGTTGGCATTAGTTA
10768975 AGTTGGCATTAGTTA
1 AGTTGGCATTAGTTA
10768990 AGTT
1 AGTT
10768994 TTAAGTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (15 bp):
AGTTGGCATTAGTTA
Found at i:10769482 original size:16 final size:16
Alignment explanation
Indices: 10769472--10769503 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10769462 TAAAAAATTT
10769472 AAAA-TTCAAAAAATA
1 AAAAGTTCAAAAAATA
10769487 AAAAGTTC-AAAAATA
1 AAAAGTTCAAAAAATA
10769502 AA
1 AA
10769504 CAAAATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.81
16 3 0.19
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAAGTTCAAAAAATA
Found at i:10769520 original size:24 final size:22
Alignment explanation
Indices: 10769440--10769520 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 22
10769430 AGAGCTTTCT
*
10769440 AAAAATAAAAAATAAAAAAAAATA
1 AAAAATCAAAAAT--AAAAAAATA
* * *
10769464 AAAAATTTAAAATTCAAAAAATA
1 AAAAA-TCAAAAATAAAAAAATA
*
10769487 AAAAGTTCAAAAATAAACAAAATA
1 AAAA-ATCAAAAATAAA-AAAATA
10769511 ACAAAATCAA
1 A-AAAATCAA
10769521 TCAAAAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
23 20 0.44
24 16 0.36
25 9 0.20
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.17
Consensus pattern (22 bp):
AAAAATCAAAAATAAAAAAATA
Found at i:10769607 original size:22 final size:22
Alignment explanation
Indices: 10769595--10769640 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
10769585 ATCAATTACA
10769595 AAATTCAAAAAAATAAATAAAT
1 AAATTCAAAAAAATAAATAAAT
*
10769617 AAATTCAAAGAAATAAA-AAAT
1 AAATTCAAAAAAATAAATAAAT
10769638 AAA
1 AAA
10769641 AATAAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (22 bp):
AAATTCAAAAAAATAAATAAAT
Found at i:10771813 original size:23 final size:23
Alignment explanation
Indices: 10771773--10771840 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
10771763 AAAAACTATT
** * *
10771773 AATAATAAAATTACTATTTTAAT
1 AATAATAAAAACAATATTTTAAG
*
10771796 ATTAATAAAAACAATATTTTAAG
1 AATAATAAAAACAATATTTTAAG
* * *
10771819 AATAATAATAATAATGTTTTAA
1 AATAATAAAAACAATATTTTAA
10771841 ATGTTTTAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (23 bp):
AATAATAAAAACAATATTTTAAG
Found at i:10771938 original size:14 final size:14
Alignment explanation
Indices: 10771871--10771955 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 14
10771861 AAAGAATAAC
*
10771871 AAATAGTTTTATTTT
1 AAATA-TTTTATATT
*
10771886 AAGTATTTTATATTAAT
1 AAATATTTTATA-T--T
10771903 ATAATATTTTAATATT
1 A-AATATTTT-ATATT
10771919 AAATATTTT-TATT
1 AAATATTTTATATT
*
10771932 AAAATATAATTATTATT
1 -AAATAT-TTTA-TATT
10771949 AAATATT
1 AAATATT
10771956 AATAATTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
13 4 0.07
14 12 0.21
15 15 0.27
16 8 0.14
17 6 0.11
18 8 0.14
19 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
AAATATTTTATATT
Found at i:10771958 original size:17 final size:17
Alignment explanation
Indices: 10771915--10771958 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 17
10771905 AATATTTTAA
*
10771915 TATTAAATATT-TTTAT
1 TATTAAATATTAATTAT
10771931 TA--AAATA-TAATTAT
1 TATTAAATATTAATTAT
10771945 TATTAAATATTAAT
1 TATTAAATATTAAT
10771959 AATTTTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
13 1 0.04
14 11 0.48
16 7 0.30
17 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATATTAATTAT
Found at i:10771962 original size:20 final size:21
Alignment explanation
Indices: 10771895--10771959 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 21
10771885 TAAGTATTTT
*
10771895 ATATTAATATAATATT-TT-A
1 ATATTAATATATTATTATTAA
*
10771914 ATATTAA-ATATTTTTATTAA
1 ATATTAATATATTATTATTAA
10771934 A-A-T-ATA-ATTATTATTAA
1 ATATTAATATATTATTATTAA
10771951 ATATTAATA
1 ATATTAATA
10771960 ATTTTAATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
17 12 0.32
18 9 0.24
19 11 0.30
20 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTAATATATTATTATTAA
Found at i:10771966 original size:16 final size:16
Alignment explanation
Indices: 10771933--10771987 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
10771923 ATTTTTATTA
*
10771933 AAATA-TAATTATTATT
1 AAATATTAATAATT-TT
10771949 AAATATTAATAATTTT
1 AAATATTAATAATTTT
*
10771965 -AATCATAAATAATTTT
1 AAAT-ATTAATAATTTT
*
10771981 TAATATT
1 AAATATT
10771988 TTAATAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.09
16 20 0.61
17 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATATTAATAATTTT
Found at i:10772252 original size:29 final size:29
Alignment explanation
Indices: 10772219--10772394 Score: 91
Period size: 29 Copynumber: 6.2 Consensus size: 29
10772209 AAAAAAACTT
10772219 ACCCTAACCTAACCCTAACCCTAGCCTAA
1 ACCCTAACCTAACCCTAACCCTAGCCTAA
* *** **
10772248 ACCCTAACCTAGCTAAAACCCTAAACTAA
1 ACCCTAACCTAACCCTAACCCTAGCCTAA
* *
10772277 ACCC--A---AACACTAA-CCTAGCCGAA
1 ACCCTAACCTAACCCTAACCCTAGCCTAA
* ** * * *
10772300 A-CTTAAAATTAAACCTTAACCCTATCTTAA
1 ACCCT-AACCT-AACCCTAACCCTAGCCTAA
* **
10772330 ACCCTTACCTAACCAAAACCCTAAG-CTAA
1 ACCCTAACCTAACCCTAACCCT-AGCCTAA
*
10772359 ACCCTAACCCTAACCCTAA-CCTAGCCAAA
1 ACCCTAA-CCTAACCCTAACCCTAGCCTAA
10772388 ACCCTAA
1 ACCCTAA
10772395 ACTTAAACCC
Statistics
Matches: 104, Mismatches: 31, Indels: 24
0.65 0.19 0.15
Matches are distributed among these distances:
22 1 0.01
23 8 0.08
24 4 0.04
25 1 0.01
27 1 0.01
28 2 0.02
29 65 0.62
30 20 0.19
31 2 0.02
ACGTcount: A:0.41, C:0.38, G:0.03, T:0.18
Consensus pattern (29 bp):
ACCCTAACCTAACCCTAACCCTAGCCTAA
Found at i:10772258 original size:17 final size:17
Alignment explanation
Indices: 10772229--10772301 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
10772219 ACCCTAACCT
10772229 AACCCTAACCCTAGCCTA
1 AACCCTAA-CCTAGCCTA
10772247 AACCCTAACCTAG-CTAA
1 AACCCTAACCTAGCCT-A
* * *
10772264 AACCCTAAACTAAACCCA
1 AACCCTAACCT-AGCCTA
* *
10772282 AACACTAACCTAGCCGA
1 AACCCTAACCTAGCCTA
10772299 AAC
1 AAC
10772302 TTAAAATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.04
17 23 0.51
18 19 0.42
19 1 0.02
ACGTcount: A:0.42, C:0.38, G:0.05, T:0.14
Consensus pattern (17 bp):
AACCCTAACCTAGCCTA
Found at i:10772280 original size:41 final size:40
Alignment explanation
Indices: 10772235--10772410 Score: 124
Period size: 41 Copynumber: 4.2 Consensus size: 40
10772225 ACCTAACCCT
* * *
10772235 AACCCTAGCCTAAACCCTAACCTAGCTAAAACCCTAAACTA
1 AACCCTAACCT-AACCCTAACCTAACCAAAACCCTAAACTA
* * * * * *
10772276 AACCCAAACACTAA-CCTAGCCGAAACTTAAAA--TTAAACCTT
1 AACCCTAAC-CTAACCCTAACC-TAAC-CAAAACCCTAAA-CTA
* * * *
10772317 AACCCTATCTTAAACCCTTACCTAACCAAAACCCTAAGCTA
1 AACCCTAACCT-AACCCTAACCTAACCAAAACCCTAAACTA
*
10772358 AACCCTAACCCTAACCCTAACCTAGCCAAAACCCTAAACTTA
1 AACCCTAA-CCTAACCCTAACCTAACCAAAACCCTAAAC-TA
10772400 AACCCTTAACC
1 AACCC-TAACC
10772411 ATAAATCTAA
Statistics
Matches: 102, Mismatches: 22, Indels: 21
0.70 0.15 0.14
Matches are distributed among these distances:
40 15 0.15
41 58 0.57
42 26 0.25
43 3 0.03
ACGTcount: A:0.41, C:0.36, G:0.03, T:0.19
Consensus pattern (40 bp):
AACCCTAACCTAACCCTAACCTAACCAAAACCCTAAACTA
Found at i:10772352 original size:12 final size:12
Alignment explanation
Indices: 10772337--10772379 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
10772327 TAAACCCTTA
10772337 CCTAACCAAAAC
1 CCTAACCAAAAC
* *
10772349 CCTAAGCTAAAC
1 CCTAACCAAAAC
**
10772361 CCTAACCCTAAC
1 CCTAACCAAAAC
10772373 CCTAACC
1 CCTAACC
10772380 TAGCCAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.40, C:0.44, G:0.02, T:0.14
Consensus pattern (12 bp):
CCTAACCAAAAC
Found at i:10772448 original size:26 final size:27
Alignment explanation
Indices: 10772387--10772449 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
10772377 ACCTAGCCAA
10772387 AACCCTAAA-CTTAAACCCTTAACCAT
1 AACCCTAAACCTTAAACCCTTAACCAT
**
10772413 AAATCT-AACCTTAAA-CCTTAA-CAT
1 AACCCTAAACCTTAAACCCTTAACCAT
10772437 ATACCCTAAACCT
1 A-ACCCTAAACCT
10772450 AACTCTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 4 0.13
25 11 0.37
26 15 0.50
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (27 bp):
AACCCTAAACCTTAAACCCTTAACCAT
Done.