Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 83 of 202
Found at i:24476165 original size:32 final size:32
Alignment explanation
Indices: 24476124--24476195 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
24476114 AGCCCGTGTA
** *
24476124 GCCCACACGCCCAGA-TTGGCCTTGCCCATTTG
1 GCCCACACGCCCA-ACTTGGCCTACCCCATGTG
*
24476156 GCCCACACGCCCAACTTGGCCTACCCCGTGTG
1 GCCCACACGCCCAACTTGGCCTACCCCATGTG
24476188 GCCCACAC
1 GCCCACAC
24476196 AGCCACACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.17, C:0.46, G:0.21, T:0.17
Consensus pattern (32 bp):
GCCCACACGCCCAACTTGGCCTACCCCATGTG
Found at i:24485029 original size:16 final size:17
Alignment explanation
Indices: 24484993--24485030 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
24484983 ACTATCTTAA
*
24484993 TATTTAATATTTATGAT
1 TATTTAATATATATGAT
*
24485010 TATTTAA-ATATATTAT
1 TATTTAATATATATGAT
24485026 TATTT
1 TATTT
24485031 TATTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTTAATATATATGAT
Found at i:24485096 original size:27 final size:27
Alignment explanation
Indices: 24485073--24485128 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
24485063 AATATATTTA
* * *
24485073 TATTTTCATTATATTTTATGATATGTT
1 TATTTTAAATATATTTTATAATATGTT
* *
24485100 TATTTTAAATGTATTTTATAATATATT
1 TATTTTAAATATATTTTATAATATGTT
24485127 TA
1 TA
24485129 AAATAAGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (27 bp):
TATTTTAAATATATTTTATAATATGTT
Found at i:24491549 original size:10 final size:10
Alignment explanation
Indices: 24491534--24491566 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
24491524 TATACTTTTG
*
24491534 AATTTTTTAA
1 AATTTTTAAA
24491544 AATTTTTAAA
1 AATTTTTAAA
24491554 AA-TTTTAAA
1 AATTTTTAAA
24491563 AATT
1 AATT
24491567 GAATTATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:24493419 original size:36 final size:36
Alignment explanation
Indices: 24493344--24493421 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
24493334 TTCTCTTTCT
* *
24493344 TTTCTTCTCTCATCCCTCTATCTTTCTCCCATATTTC
1 TTTC-TCTCTCATCCCTCTATATTTCTCCCATATCTC
* **
24493381 TTTCTCTCTCATCCCTCTATATTTTTCTTATATCTC
1 TTTCTCTCTCATCCCTCTATATTTCTCCCATATCTC
24493417 TTTCT
1 TTTCT
24493422 TCCTACTCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 32 0.89
37 4 0.11
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.55
Consensus pattern (36 bp):
TTTCTCTCTCATCCCTCTATATTTCTCCCATATCTC
Found at i:24507540 original size:15 final size:16
Alignment explanation
Indices: 24507508--24507540 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
24507498 AAATTTGCAC
24507508 TTGGAAGGGTTAAAGG
1 TTGGAAGGGTTAAAGG
24507524 TTGGAAGGGTT-AAGG
1 TTGGAAGGGTTAAAGG
24507539 TT
1 TT
24507541 ATGCCCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.30
Consensus pattern (16 bp):
TTGGAAGGGTTAAAGG
Found at i:24514649 original size:10 final size:10
Alignment explanation
Indices: 24514634--24514658 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24514624 GGGCATTTGA
24514634 TTTTTTATTT
1 TTTTTTATTT
24514644 TTTTTTATTT
1 TTTTTTATTT
24514654 TTTTT
1 TTTTT
24514659 CTTTCACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:24515063 original size:3 final size:3
Alignment explanation
Indices: 24515049--24515116 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
24515039 ACTTTTTTCA
* ** *
24515049 ATT ATT -TT ATT ATT ATT TTT ATT ATT A-T ACC ATT ATT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
24515095 A-T ATT ACTT ACT ATC ATT ATT A
1 ATT ATT A-TT ATT ATT ATT ATT A
24515117 CTGCCACATT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:24519094 original size:20 final size:20
Alignment explanation
Indices: 24519069--24519108 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24519059 TTCATCTCAT
24519069 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
24519089 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
24519109 AAGACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:24525788 original size:44 final size:43
Alignment explanation
Indices: 24525699--24526109 Score: 426
Period size: 44 Copynumber: 9.3 Consensus size: 43
24525689 TCATCGCCAT
** * * *
24525699 ATCTTGTCTTCCCATACTGGTGGCGAAGTACATCGAAGAAAACAG
1 ATCTTGTCTTCATATACTGG-CGTGAAGTAGATCGAAG-AAACAG
* *
24525744 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
1 ATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGA-AACAG
* ** *
24525788 ATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
1 ATCTTGTCTTCATATACTGG-CGTGAAGTAGATCGAAG-AAACAG
* *
24525833 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
1 ATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGA-AACAG
** * *
24525877 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAG
1 ATCTTGTCTTCATATACTGG-CGTGAAGTAGATCGAAGAAA-CAG
* * * *
24525922 ATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGA-AACAG
* *
24525966 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
1 ATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGAAA-CAG
* ** * *
24526010 GTCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTAG
1 ATCTTGTCTTCATATACTGG-CGTGAAGTAGATCGAAGAAA-CAG
* * *
24526055 ATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGACAGCAG
1 ATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGA-AACAG
24526099 ATCTTGTCTTC
1 ATCTTGTCTTC
24526110 CCATATCGGT
Statistics
Matches: 306, Mismatches: 50, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
43 3 0.01
44 175 0.57
45 127 0.42
46 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (43 bp):
ATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGAAACAG
Found at i:24525853 original size:89 final size:89
Alignment explanation
Indices: 24525699--24526109 Score: 531
Period size: 89 Copynumber: 4.6 Consensus size: 89
24525689 TCATCGCCAT
* * *
24525699 ATCTTGTCTTCCCATACTGGTGGCGAAGTACATCGAAGAAAACAGATCTTGTCTTCATGTACTGG
1 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGG
24525764 CGTGAAGTAGATCAAAGATAACAG
66 CGTGAAGTAGATCAAAGATAACAG
* *
24525788 ATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG
1 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGG
24525853 CGTGAAGTAGATCAAAGATAACAG
66 CGTGAAGTAGATCAAAGATAACAG
* *
24525877 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
1 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGG
* * *
24525942 CATGAAGTAGATCGAAGATAGCAG
66 CGTGAAGTAGATCAAAGATAACAG
*** * * * ***
24525966 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCAGGTCTTGTCTTCCCATACTGG
1 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGG
* * *
24526030 TGGTGAAGTAGATCGAAGA-AAGTAG
66 -CGTGAAGTAGATCAAAGATAA-CAG
** * * * *
24526055 ATCTTGTCTTCATATATTGG-CGTGAAGTAGATCAAAGACAGCAGATCTTGTCTTC
1 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
24526110 CCATATCGGT
Statistics
Matches: 291, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
88 38 0.13
89 253 0.87
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (89 bp):
ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGG
CGTGAAGTAGATCAAAGATAACAG
Found at i:24525955 original size:133 final size:132
Alignment explanation
Indices: 24525723--24526109 Score: 517
Period size: 133 Copynumber: 2.9 Consensus size: 132
24525713 TACTGGTGGC
* *** * *
24525723 GAAGTACATCGAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA-C
1 GAAGTAGATCGAAG-AAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA-AAGC
* ** * * *
24525786 AGATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
64 AGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
24525851 GGCGT
128 GGCGT
* *
24525856 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGA-AACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCA
* * * *
24525921 GATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
65 GATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGG
24525986 CGT
130 CGT
* *
24525989 GAAGTAGATCGAAGAAAGCAGGTCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTA
1 GAAGTAGATCGAAGAAA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCA
* *
24526054 GATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGACAGCAGATCTTGTCTTC
65 GATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
24526110 CCATATCGGT
Statistics
Matches: 224, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
132 3 0.01
133 188 0.84
134 33 0.15
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAG
ATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGC
GT
Found at i:24526130 original size:222 final size:222
Alignment explanation
Indices: 24525723--24526137 Score: 672
Period size: 222 Copynumber: 1.9 Consensus size: 222
24525713 TACTGGTGGC
24525723 GAAGTACATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
1 GAAGTACATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
* *
24525788 ATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG
66 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATATACTGG
* *
24525853 CGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
131 CGTGAAGTAGATCAAAGACAACAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAA
24525918 GCAGATCTTGTCTTCATGTATTGGCAT
196 GCAGATCTTGTCTTCATGTATTGGCAT
* * * * *
24525945 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-AAGCA
1 GAAGTACATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAA-CA
* ** *
24526009 GGTCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATATATTG
65 GATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATATACTG
*
24526074 GCGTGAAGTAGATCAAAGACAGCAGATCTTGTCTTCCCATA-TCGGTGGCAAAGTAGATCGAAGA
130 GCGTGAAGTAGATCAAAGACAACAGATCTTGTCTTCCCATACT-GGTGGCAAAGTAGATCGAAGA
24526138 TCGCATCTAG
Statistics
Matches: 177, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
221 3 0.02
222 174 0.98
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (222 bp):
GAAGTACATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATATACTGG
CGTGAAGTAGATCAAAGACAACAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAA
GCAGATCTTGTCTTCATGTATTGGCAT
Found at i:24526256 original size:45 final size:44
Alignment explanation
Indices: 24526146--24526304 Score: 141
Period size: 44 Copynumber: 3.6 Consensus size: 44
24526136 GATCGCATCT
* *
24526146 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGTAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAG-AATCA
24526190 AGTCTTATC-CTCCTGAAGTTGCAGTGAAGCAGACTAAAG-ATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGAAGCAGACTAAAGAAT--C-A
* * *
24526236 A-TCTTATCTCCCTGAAGTTGCAGT-AAGGCATACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAA-GCAGACTAAAGAATCA
* * *
24526279 AATCATATCTCCTTGACA-TTGCAGTG
1 AGTCTTATCTCCCTGA-AGTTGCAGTG
24526305 GAGTAGATTG
Statistics
Matches: 97, Mismatches: 7, Indels: 21
0.78 0.06 0.17
Matches are distributed among these distances:
43 5 0.05
44 53 0.55
45 35 0.36
46 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGAATCA
Found at i:24527541 original size:3 final size:3
Alignment explanation
Indices: 24527529--24527596 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
24527519 ATTTTTTTCA
* ** *
24527529 ATT ATT -TT ATT ATT TTT ATT ATT ATT A-T ACC ATT ATT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
24527575 A-T ATT ACTT ACT ATC ATT ATT A
1 ATT ATT A-TT ATT ATT ATT ATT A
24527597 CTGCCACATT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:24527820 original size:13 final size:14
Alignment explanation
Indices: 24527802--24527832 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
24527792 TTTCATAGTT
24527802 TATTTATATAT-TA
1 TATTTATATATATA
24527815 TATTTATATATATA
1 TATTTATATATATA
24527829 TATT
1 TATT
24527833 GTTCTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:24527863 original size:6 final size:6
Alignment explanation
Indices: 24527852--24527878 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24527842 TTGTAAATAT
24527852 ATATAC ATATAC ATATAC ATATAC ATA
1 ATATAC ATATAC ATATAC ATATAC ATA
24527879 CTTTTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:24530297 original size:20 final size:20
Alignment explanation
Indices: 24530272--24530312 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
24530262 GCAAATGTTC
24530272 TTTCATTCTTT-ACGATTTTT
1 TTTCATTCTTTCA-GATTTTT
24530292 TTTCATTCTTTCAGATTTTT
1 TTTCATTCTTTCAGATTTTT
24530312 T
1 T
24530313 CTCCCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTCATTCTTTCAGATTTTT
Found at i:24531662 original size:13 final size:13
Alignment explanation
Indices: 24531644--24531668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24531634 TAAATCAATT
24531644 TCTTTGTTATCCA
1 TCTTTGTTATCCA
24531657 TCTTTGTTATCC
1 TCTTTGTTATCC
24531669 TCGACAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTTTGTTATCCA
Found at i:24532719 original size:44 final size:44
Alignment explanation
Indices: 24532540--24532886 Score: 171
Period size: 44 Copynumber: 7.9 Consensus size: 44
24532530 ATGGGCAACC
* *
24532540 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGAGCAGTA
* * * * * * *
24532584 GTAGAGCAGA-TCAAGGATGACAGATTTTACCTCTCTGAG--GTTACA
1 GTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTGAGCAG-T--A
* * * * * **
24532629 GTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCTTGGGCAACA
1 GTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGAGCAGTA
* *
24532672 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGAGCAGTA
* ** * * *
24532716 GTGGAGCAGATT-AAGGATGGCGGATTTTACCTCCCTGAG--GTTACA
1 GTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTGAGCAG-T--A
* * * * *
24532761 GTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAGCA
1 GTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGAGCAGTA
*
24532804 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCT-AGGCAGTA
1 GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGA-GCAGTA
* ** * *
24532848 GTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAG
1 GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGAG
24532887 GTTACAGTGG
Statistics
Matches: 214, Mismatches: 63, Indels: 52
0.65 0.19 0.16
Matches are distributed among these distances:
41 6 0.03
42 4 0.02
43 41 0.19
44 129 0.60
45 24 0.11
46 7 0.03
47 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGAGCAGTA
Found at i:24532926 original size:44 final size:45
Alignment explanation
Indices: 24532627--24532928 Score: 141
Period size: 44 Copynumber: 6.9 Consensus size: 45
24532617 TCTGAGGTTA
* * *
24532627 CAGTGGAGTACATTGAAGCCAGTA-ATTCTATCTCCTTG-GGCAA
1 CAGTGGAGTAGATTGAAGCCAGTACATTCTATCTCCCTGAGGCAG
* * * *
24532670 CAGTGGAATAGATTGAAG--ATTACAGATCTTATCTCCCT-AAGCAG
1 CAGTGGAGTAGATTGAAGCCAGTACA-TTC-TATCTCCCTGAGGCAG
* * * * * * *
24532714 TAGTGGAGCAGATT-AAG-GA-TGGCGGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGCCAGT-AC--ATTCTATCTCCCTGAGG-CAG
*
24532759 CAGTGGAGTACATTGAAGCCAGTA-ATTCTATCTCCCTG-GGCAG
1 CAGTGGAGTAGATTGAAGCCAGTACATTCTATCTCCCTGAGGCAG
* * *
24532802 CAGTGGAATAGATTGAAG--ATTACAGATCTTATCTCCCT-AGGCAG
1 CAGTGGAGTAGATTGAAGCCAGTACA-TTC-TATCTCCCTGAGGCAG
* * *** * * * * *
24532846 TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGCCAGTACATTCTATCTCCCTGAGG-CAG
* *
24532891 CAGTGGAGTATATTGAAGCCAATA-ATTCTATCTCCCTG
1 CAGTGGAGTAGATTGAAGCCAGTACATTCTATCTCCCTG
24532929 GTCGGCAGTG
Statistics
Matches: 188, Mismatches: 49, Indels: 43
0.67 0.17 0.15
Matches are distributed among these distances:
41 6 0.03
42 3 0.02
43 42 0.22
44 93 0.49
45 34 0.18
46 8 0.04
47 1 0.01
48 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (45 bp):
CAGTGGAGTAGATTGAAGCCAGTACATTCTATCTCCCTGAGGCAG
Found at i:24532991 original size:132 final size:132
Alignment explanation
Indices: 24532467--24532952 Score: 785
Period size: 132 Copynumber: 3.7 Consensus size: 132
24532457 GGAGCAGGTT
* *
24532467 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCAT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* *
24532532 GGGCAACCGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCA
66 GGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
24532597 AG
131 AG
* * *
24532599 GATGACAGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCTT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*
24532664 GGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
66 GGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
24532729 AG
131 AG
*
24532731 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
24532796 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCG
66 GGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-
24532861 AA-
130 AAG
* *
24532863 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAATAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* ** * *
24532928 GGTCGGCAGTGGAATCGATCGAAGA
66 GGGCAACAGTGGAATAGATTGAAGA
24532953 AAGCAAATCT
Statistics
Matches: 331, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 329 0.99
133 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
AG
Found at i:24536736 original size:21 final size:20
Alignment explanation
Indices: 24536684--24536736 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
24536674 ATAATATAAA
24536684 TTTTATATTTATTTTTCACCT
1 TTTTA-ATTTATTTTTCACCT
**
24536705 TTTT-ATATTATTTTTCATGGT
1 TTTTAAT-TTATTTTTCA-CCT
24536726 TTTTAATTTAT
1 TTTTAATTTAT
24536737 ATTGATCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.07
20 10 0.37
21 13 0.48
22 2 0.07
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTAATTTATTTTTCACCT
Found at i:24543921 original size:51 final size:51
Alignment explanation
Indices: 24543861--24543964 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
24543851 TTATTATGAC
* * * *
24543861 ATAGAAAACTAAGATATGCTAGTATGATCATATTGCATAAACTAGTTAAAA
1 ATAGAAAACTAAGACATGATAGCATGATCATATTGCATAAACTAGCTAAAA
*
24543912 ATAGAAAACTAGGACATGATAGCATGATCATATTGCATAAACTAGCTAAAA
1 ATAGAAAACTAAGACATGATAGCATGATCATATTGCATAAACTAGCTAAAA
24543963 AT
1 AT
24543965 GATTTAGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (51 bp):
ATAGAAAACTAAGACATGATAGCATGATCATATTGCATAAACTAGCTAAAA
Found at i:24547008 original size:21 final size:21
Alignment explanation
Indices: 24546993--24547039 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
24546983 TAATTTATTT
24546993 ATAC-TTTTTAAAAATTATCG
1 ATACTTTTTTAAAAATTATCG
* *
24547013 ATACTTTTTTAAAAAGTATCA
1 ATACTTTTTTAAAAATTATCG
24547034 ATACTT
1 ATACTT
24547040 GGGGGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (21 bp):
ATACTTTTTTAAAAATTATCG
Found at i:24548605 original size:23 final size:23
Alignment explanation
Indices: 24548543--24548615 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
24548533 TTTTATATGC
*
24548543 GCAAGTGATAGTGGCACTATAGT
1 GCAAGTGATAGTGGCATTATAGT
* *
24548566 TCAAGTG-TCTGTGGCATTATAGT
1 GCAAGTGAT-AGTGGCATTATAGT
* * *
24548589 GCAAGTGATAGCGGCATTTTGGT
1 GCAAGTGATAGTGGCATTATAGT
24548612 GCAA
1 GCAA
24548616 ATTATTGACT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
24 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (23 bp):
GCAAGTGATAGTGGCATTATAGT
Found at i:24559425 original size:70 final size:70
Alignment explanation
Indices: 24559264--24559425 Score: 188
Period size: 70 Copynumber: 2.3 Consensus size: 70
24559254 ACACTTTTGC
* *
24559264 GTGACCCACACGGGCTACCACATGGCCTACCACATGACTGTGTGACCCACACAAGCTACAACACG
1 GTGACCCACACGAGCTACCACATGGCCTACCACACGACTGTGTGACCCACACAAGCTACAACACG
24559329 ATCGT
66 ATCGT
* * * * *
24559334 GTGGCTCACTC-AGTTTACCACATGGCCTACCACACGA-TCGTGTGACCCACACAA-CTTACTAC
1 GTGACCCACACGAG-CTACCACATGGCCTACCACACGACT-GTGTGACCCACACAAGC-TACAAC
24559396 ACGA-CTGT
63 ACGATC-GT
*
24559404 GTGACCCACACGAGCTGCCACA
1 GTGACCCACACGAGCTACCACA
24559426 CGGCTGCGTG
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
69 4 0.05
70 69 0.92
71 2 0.03
ACGTcount: A:0.27, C:0.36, G:0.19, T:0.18
Consensus pattern (70 bp):
GTGACCCACACGAGCTACCACATGGCCTACCACACGACTGTGTGACCCACACAAGCTACAACACG
ATCGT
Found at i:24559426 original size:29 final size:28
Alignment explanation
Indices: 24559363--24559454 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
24559353 ACATGGCCTA
* *
24559363 CCACACGA-TCGTGTGACCCACACAACTTA
1 CCACACGACT-GTGTGACCCACACAGC-TG
*
24559392 CTACACGACTGTGTGACCCACACGAGCTG
1 CCACACGACTGTGTGACCCACAC-AGCTG
* *
24559421 CCACACGGCTGCGTGACCCACACAAGCTG
1 CCACACGACTGTGTGACCCACAC-AGCTG
24559450 CCACA
1 CCACA
24559455 TGACCTATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 51 0.94
30 3 0.06
ACGTcount: A:0.27, C:0.39, G:0.20, T:0.14
Consensus pattern (28 bp):
CCACACGACTGTGTGACCCACACAGCTG
Found at i:24560389 original size:20 final size:20
Alignment explanation
Indices: 24560364--24560403 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24560354 ACTAATCCTT
24560364 GACAAATATAAAAAATTCTG
1 GACAAATATAAAAAATTCTG
24560384 GACAAATATAAAAAATTCTG
1 GACAAATATAAAAAATTCTG
24560404 CAATTTAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (20 bp):
GACAAATATAAAAAATTCTG
Found at i:24563256 original size:63 final size:64
Alignment explanation
Indices: 24563128--24563262 Score: 161
Period size: 63 Copynumber: 2.1 Consensus size: 64
24563118 TCATGAGGGT
* *
24563128 GGCCGTGTAACTCACTGTTCATCGATTTAGAGCCACATAGTCAAGGCACACTGGCGTGTGTCCA
1 GGCCGTGTAACTCACTGTTCATCGATTTAGAGCCACAGAGTCAAGGCACACTGGCGTGTGCCCA
* * * *
24563192 GGCCGTGTAACTCACTGTTTAT-GCTTTAGAGTCATACGAG-CAGAGG-ACA-TAGGCGTGTGCC
1 GGCCGTGTAACTCACTGTTCATCGATTTAGAGCCACA-GAGTCA-AGGCACACT-GGCGTGTGCC
24563253 CA
63 CA
24563255 GGCCGTGT
1 GGCCGTGT
24563263 GGCATATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
62 1 0.02
63 35 0.56
64 26 0.42
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (64 bp):
GGCCGTGTAACTCACTGTTCATCGATTTAGAGCCACAGAGTCAAGGCACACTGGCGTGTGCCCA
Found at i:24568890 original size:87 final size:87
Alignment explanation
Indices: 24568744--24568925 Score: 328
Period size: 87 Copynumber: 2.1 Consensus size: 87
24568734 TCGGAACTCT
24568744 TTTAACTCATTGAGTTGGAACATCCGTTTCTCTTTCACGAGCTTAGGATCCAAATTAAGCTGTTG
1 TTTAACTCATTGAGTTGGAACATCCGTTTCTCTTTCACGAGCTTAGGATCCAAATTAAGCTGTTG
*
24568809 AATAGCCGAGTAAGCTTTGTGC
66 AATAGCCCAGTAAGCTTTGTGC
**
24568831 TTTAACTCATTGAGTTGGAACATCCGTTTCTCTTTCGTGAGCTTAGGATCCAAATTAAGCTGTTG
1 TTTAACTCATTGAGTTGGAACATCCGTTTCTCTTTCACGAGCTTAGGATCCAAATTAAGCTGTTG
*
24568896 AATTGCCCAGTAAGCTTTGTGC
66 AATAGCCCAGTAAGCTTTGTGC
24568918 TTTAACTC
1 TTTAACTC
24568926 CAATGGTAGA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (87 bp):
TTTAACTCATTGAGTTGGAACATCCGTTTCTCTTTCACGAGCTTAGGATCCAAATTAAGCTGTTG
AATAGCCCAGTAAGCTTTGTGC
Found at i:24580271 original size:8 final size:8
Alignment explanation
Indices: 24580242--24580291 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
24580232 TCATCATTTC
24580242 CTCTTTTT
1 CTCTTTTT
24580250 -TC-TTTT
1 CTCTTTTT
*
24580256 CTTTTTTTT
1 C-TCTTTTT
24580265 CTCTTTTT
1 CTCTTTTT
24580273 C-CTTTGTT
1 CTCTTT-TT
24580281 CTCTTTTT
1 CTCTTTTT
24580289 CTC
1 CTC
24580292 CCCTTTCGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
6 4 0.11
7 6 0.17
8 16 0.46
9 9 0.26
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (8 bp):
CTCTTTTT
Found at i:24588231 original size:23 final size:23
Alignment explanation
Indices: 24588196--24588240 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24588186 AATGACTATA
*
24588196 ATATCCATTTCATTTCCATTTTC
1 ATATCCATTTCATTTCAATTTTC
24588219 ATAT-CATTCTCATTTCAATTTT
1 ATATCCATT-TCATTTCAATTTT
24588241 ATTTCATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATCCATTTCATTTCAATTTTC
Found at i:24589626 original size:2 final size:2
Alignment explanation
Indices: 24589621--24589661 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
24589611 GTTAGGACGT
24589621 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
24589662 TGTGTGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:24591088 original size:29 final size:28
Alignment explanation
Indices: 24590995--24591089 Score: 75
Period size: 29 Copynumber: 3.3 Consensus size: 28
24590985 GCCATACGGC
* *
24590995 CTGCCACATGGCCGTGTGACCTACATGGGT
1 CTGCCACATGACTGTGTGACC-ACAT-GGT
* * *
24591025 -TGCCACACGCCTGTGTGACCCACACGGT
1 CTGCCACATGACTGTGTGA-CCACATGGT
** *
24591053 CAACCACATGACTATGTGACTCACATGGT
1 CTGCCACATGACTGTGTGAC-CACATGGT
24591082 CTGCCACA
1 CTGCCACA
24591090 CGATCGTGTG
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
28 4 0.08
29 44 0.88
30 2 0.04
ACGTcount: A:0.22, C:0.34, G:0.23, T:0.21
Consensus pattern (28 bp):
CTGCCACATGACTGTGTGACCACATGGT
Found at i:24591646 original size:24 final size:24
Alignment explanation
Indices: 24591594--24591644 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
24591584 TTATAGGAAT
* *
24591594 AAAA-TAAAAAAGAAACACAAGAA
1 AAAATTAAAAAAGAAAAAAAAGAA
24591617 AAAATTAAAAAAGAAAGAAAAAGAA
1 AAAATTAAAAAAGAAA-AAAAAGAA
24591642 AAA
1 AAA
24591645 TTGTGCTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 11 0.46
25 9 0.38
ACGTcount: A:0.80, C:0.04, G:0.10, T:0.06
Consensus pattern (24 bp):
AAAATTAAAAAAGAAAAAAAAGAA
Found at i:24593157 original size:47 final size:47
Alignment explanation
Indices: 24593071--24593181 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 47
24593061 ACCATTTGTA
* * * * *
24593071 GACAAGCTACTACATAAATGTCGAAAATGACCACGTAGCATATTGTG
1 GACAAGCCACCACATAAATGTCGAAAAAGACCACATAGCATATTATG
* * *
24593118 GGCAAGTCACCATATAAATGTCGAAAACAG-CCACATAGCATATTATG
1 GACAAGCCACCACATAAATGTCGAAAA-AGACCACATAGCATATTATG
24593165 GACAAGCCACCACATAA
1 GACAAGCCACCACATAA
24593182 TTGCAGATAA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
47 51 0.98
48 1 0.02
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.20
Consensus pattern (47 bp):
GACAAGCCACCACATAAATGTCGAAAAAGACCACATAGCATATTATG
Found at i:24593199 original size:22 final size:22
Alignment explanation
Indices: 24593174--24593224 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
24593164 GGACAAGCCA
24593174 CCACATAATTGCAGATAAACTG
1 CCACATAATTGCAGATAAACTG
24593196 CCACATAATTGCAGATAAACTG
1 CCACATAATTGCAGATAAACTG
24593218 CCACATA
1 CCACATA
24593225 TCTTCCTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (22 bp):
CCACATAATTGCAGATAAACTG
Found at i:24596503 original size:6 final size:6
Alignment explanation
Indices: 24596486--24596535 Score: 66
Period size: 6 Copynumber: 8.2 Consensus size: 6
24596476 TAAAGCATAA
*
24596486 CAAAACC CAAAAC CAAAAC CAAAAC CAAAAC CAAATC C-AAAC CTAAAAC
1 CAAAA-C CAAAAC CAAAAC CAAAAC CAAAAC CAAAAC CAAAAC C-AAAAC
24596535 C
1 C
24596536 TTAGTCCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 4 0.10
6 25 0.64
7 10 0.26
ACGTcount: A:0.60, C:0.36, G:0.00, T:0.04
Consensus pattern (6 bp):
CAAAAC
Found at i:24597410 original size:41 final size:41
Alignment explanation
Indices: 24597330--24597410 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
24597320 GGCTTGACGC
*
24597330 ACGACCTCACACATGCCCGTGTGACCCACAAGGGCTGCCAT
1 ACGACCTCACACATGCCCGTGTGACCCACAAGAGCTGCCAT
* * *
24597371 ACGACCTGC-CACATAG-CCGTGTGACCTACACGAGTTGCCA
1 ACGACCT-CACACAT-GCCCGTGTGACCCACAAGAGCTGCCA
24597411 CACGGTCGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.25, C:0.37, G:0.22, T:0.16
Consensus pattern (41 bp):
ACGACCTCACACATGCCCGTGTGACCCACAAGAGCTGCCAT
Found at i:24597420 original size:29 final size:29
Alignment explanation
Indices: 24597388--24597455 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
24597378 GCCACATAGC
**
24597388 CGTGTGACCTACACGAGT-TGCCACACGGT
1 CGTGTGACCTACACGA-TCAACCACACGGT
*
24597417 CGTGTGACCCACACGATCAACCACACGGT
1 CGTGTGACCTACACGATCAACCACACGGT
*
24597446 AGTGTGACCT
1 CGTGTGACCT
24597456 GCCATATGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (29 bp):
CGTGTGACCTACACGATCAACCACACGGT
Found at i:24599057 original size:19 final size:19
Alignment explanation
Indices: 24599014--24599083 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 19
24599004 AGAGCAATAC
* *
24599014 TAACTTGTTTTAAAATAGTTT
1 TAACTTGATTGAAAAT-G-TT
24599035 TAACTTGATTGAAAATGTT
1 TAACTTGATTGAAAATGTT
**
24599054 TAACTCAATTGAAACCAT-TT
1 TAACTTGATTGAAA--ATGTT
24599074 TAACTTGATT
1 TAACTTGATT
24599084 TTATCATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
19 14 0.34
20 11 0.27
21 16 0.39
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (19 bp):
TAACTTGATTGAAAATGTT
Found at i:24606479 original size:11 final size:10
Alignment explanation
Indices: 24606457--24606487 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
24606447 TTTATAATGA
24606457 TTGTTGGCAT
1 TTGTTGGCAT
24606467 TTGTTGAGCAT
1 TTGTTG-GCAT
24606478 TTGTTGGCAT
1 TTGTTGGCAT
24606488 ATATGTTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.13, C:0.10, G:0.29, T:0.48
Consensus pattern (10 bp):
TTGTTGGCAT
Found at i:24609148 original size:11 final size:11
Alignment explanation
Indices: 24609132--24609156 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24609122 GGTGCTTCGA
24609132 TTTTCACTCAT
1 TTTTCACTCAT
24609143 TTTTCACTCAT
1 TTTTCACTCAT
24609154 TTT
1 TTT
24609157 GCTCCTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCACTCAT
Found at i:24612338 original size:14 final size:14
Alignment explanation
Indices: 24612321--24612354 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24612311 ATAAAATATA
*
24612321 AATTTATATTTAAT
1 AATTCATATTTAAT
*
24612335 AATTCATTTTTAAT
1 AATTCATATTTAAT
24612349 AATTCA
1 AATTCA
24612355 ATAATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTCATATTTAAT
Found at i:24612827 original size:19 final size:19
Alignment explanation
Indices: 24612805--24612842 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24612795 TCAATCATCC
24612805 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
24612824 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
24612843 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:24618972 original size:3 final size:3
Alignment explanation
Indices: 24618966--24619011 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
24618956 GTATAAAAAT
24618966 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24619012 AAGTTGTCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24620660 original size:34 final size:34
Alignment explanation
Indices: 24620620--24620687 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
24620610 TTTGGTATGA
* *
24620620 TTGGTTGGACAGAGTTGGTGTGTAGCGGATGGGG
1 TTGGTTGGACAGAGTTGATGTGTAGCAGATGGGG
*
24620654 TTGGTTGGACATAGTTGATGTGTAGCAGATGGGG
1 TTGGTTGGACAGAGTTGATGTGTAGCAGATGGGG
24620688 GTAGAATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.18, C:0.06, G:0.46, T:0.31
Consensus pattern (34 bp):
TTGGTTGGACAGAGTTGATGTGTAGCAGATGGGG
Found at i:24623768 original size:31 final size:31
Alignment explanation
Indices: 24623732--24623793 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
24623722 CATTGGCAAC
* * *
24623732 TTAGGTAGGTCATGTGGGGCACACGGGCTGG
1 TTAGGTAGGTCATGTAGGCCACACAGGCTGG
*
24623763 TTAGGTAGGTCGTGTAGGCCACACAGGCTGG
1 TTAGGTAGGTCATGTAGGCCACACAGGCTGG
24623794 CCAATTAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.42, T:0.23
Consensus pattern (31 bp):
TTAGGTAGGTCATGTAGGCCACACAGGCTGG
Found at i:24626301 original size:25 final size:27
Alignment explanation
Indices: 24626268--24626324 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 27
24626258 TAAGTAATAA
24626268 AAATAAATTAAACA-AAATATT-ATTT
1 AAATAAATTAAACATAAATATTAATTT
* * *
24626293 AAATTAATTCAACATAATTATTAGATTT
1 AAATAAATTAAACATAAATATTA-ATTT
24626321 AAAT
1 AAAT
24626325 GTAAGTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 12 0.46
26 6 0.23
28 8 0.31
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (27 bp):
AAATAAATTAAACATAAATATTAATTT
Found at i:24627316 original size:2 final size:2
Alignment explanation
Indices: 24627309--24627342 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
24627299 AATTGAAATC
24627309 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24627343 AGCTCTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24627651 original size:15 final size:16
Alignment explanation
Indices: 24627633--24627673 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
24627623 ATATTTGAAA
24627633 ATTTTAAATA-ATATT
1 ATTTTAAATACATATT
*
24627648 ATTTCAAATACATATT
1 ATTTTAAATACATATT
24627664 ATTTATAAAT
1 ATTT-TAAAT
24627674 TAAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 9 0.41
17 4 0.18
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTAAATACATATT
Found at i:24630663 original size:2 final size:2
Alignment explanation
Indices: 24630656--24630686 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24630646 AGAGAAATTA
24630656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24630687 AAAAGATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24635966 original size:122 final size:121
Alignment explanation
Indices: 24635743--24636002 Score: 263
Period size: 122 Copynumber: 2.1 Consensus size: 121
24635733 CTGATATCCT
* * * * * * *
24635743 TAGAGTTCTACCGCTATCTTAAGGTCTTCTATCGCAACAAGTCAAAATAGTAGCCAAGGTTCAAC
1 TAGAGTTCTACCGATACCTTAAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAAC
* * * * **
24635808 GTCTCCCATATTTCTACCGAAACTCTAATGGCTTCTATAGATACGAGTTGAAACCAC
66 ATCTCCCACATTTCTACCGAAACTCTAATGGCTTCTACAGATACCAAATGAAACC-C
* * * *
24635865 TAGAGTTCTACCGATACCTTGAGGACTTCTACCGAAACAAGTCAAGACAGTAGCCAAAGTTTAGC
1 TAGAGTTCTACCGATACCTTAAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAAC
** * * *
24635930 ATCTCTTACACTTT-TACCGATACTCTGATTGG-TTCTACCGATACCAAATGAAACCC
66 ATCTCCCACA-TTTCTACCGAAACTCT-AATGGCTTCTACAGATACCAAATGAAACCC
*
24635986 TCAGATTTCTACCGATA
1 T-AGAGTTCTACCGATA
24636003 TAAGGGAACT
Statistics
Matches: 112, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
121 2 0.02
122 103 0.92
123 7 0.06
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (121 bp):
TAGAGTTCTACCGATACCTTAAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAAC
ATCTCCCACATTTCTACCGAAACTCTAATGGCTTCTACAGATACCAAATGAAACCC
Found at i:24642813 original size:122 final size:122
Alignment explanation
Indices: 24642592--24642813 Score: 277
Period size: 122 Copynumber: 1.8 Consensus size: 122
24642582 CTCAGAGTTT
* * * * * *
24642592 TACCGGTACCTTGAGGTCTTATACCGCAACAAGTCAAAACAGTAGCCAAGGTTCAGCTTCTCCCT
1 TACCGATACCTTGAGGACTTATACCGAAACAAGTCAAAACAATAGCCAAAGTTCAGCATCTCCCT
* * *
24642657 TATTTCTACTGAAACTCTGATGGCTTCTACTGATATGAGTTGAAACCACCAGACCTC
66 CACTTCTACAGAAACTCTGATGGCTTCTACTGATATGAGTTGAAACCACCAGACCTC
* * * *
24642714 TACCGATACCTTGAGGACTTCTACCGAAACAAGTTAAGACAATAGCCAAAGTTTAGCATC-CCCT
1 TACCGATACCTTGAGGACTTATACCGAAACAAGTCAAAACAATAGCCAAAGTTCAGCATCTCCCT
* *
24642778 GCACTTCTACAGATACTCTGATTGG-TTCTATTGATA
66 -CACTTCTACAGAAACTCTGA-TGGCTTCTACTGATA
24642814 CCGAATGAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
121 4 0.05
122 76 0.92
123 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (122 bp):
TACCGATACCTTGAGGACTTATACCGAAACAAGTCAAAACAATAGCCAAAGTTCAGCATCTCCCT
CACTTCTACAGAAACTCTGATGGCTTCTACTGATATGAGTTGAAACCACCAGACCTC
Found at i:24648566 original size:26 final size:26
Alignment explanation
Indices: 24648524--24648583 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
24648514 CCTAAATCCG
*
24648524 AATGTCAAAACCTTATGGTTTCATTAA
1 AATGT-AAAAACTTATGGTTTCATTAA
**
24648551 AATGTAAAAACTTATGGTTTTGTTAA
1 AATGTAAAAACTTATGGTTTCATTAA
24648577 AATGTAA
1 AATGTAA
24648584 CACCTACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (26 bp):
AATGTAAAAACTTATGGTTTCATTAA
Found at i:24648686 original size:17 final size:18
Alignment explanation
Indices: 24648661--24648704 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
24648651 AAATGAATAG
24648661 TAATAAAATAGG-AAAAT
1 TAATAAAATAGGCAAAAT
* *
24648678 TAATTAAATTGGCTAAAAT
1 TAATAAAATAGGC-AAAAT
24648697 TAATAAAA
1 TAATAAAA
24648705 AGTTAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (18 bp):
TAATAAAATAGGCAAAAT
Found at i:24652572 original size:42 final size:42
Alignment explanation
Indices: 24652509--24652688 Score: 243
Period size: 42 Copynumber: 4.3 Consensus size: 42
24652499 TCGAAATGAG
* *
24652509 AATGCAGAAGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
1 AATGCA-ATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
24652552 AATGCAATGAAAAGTGAATGGATCTCCACCCCTGGGACTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
24652594 AATGCAATGAAAACTGAATGGACCTCCACATCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
24652636 AATGAAATGAAAAGTAAATGCACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
24652678 AATGTAATGAA
1 AATGCAATGAA
24652689 TGCTTTCCTT
Statistics
Matches: 120, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 114 0.95
43 6 0.05
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:24662464 original size:11 final size:11
Alignment explanation
Indices: 24662448--24662472 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24662438 GGCCATTTTG
24662448 AAGCTTAATTC
1 AAGCTTAATTC
24662459 AAGCTTAATTC
1 AAGCTTAATTC
24662470 AAG
1 AAG
24662473 TACTACAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (11 bp):
AAGCTTAATTC
Found at i:24663244 original size:43 final size:43
Alignment explanation
Indices: 24663181--24663351 Score: 136
Period size: 43 Copynumber: 4.0 Consensus size: 43
24663171 CATAGGATTT
* * * *
24663181 TCGATGTGTGTTTTCATGTAAGACCACGTCTGCGACGTTGGCA
1 TCGATTTGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* * * * *
24663224 TCGATTTGTGTTTACGTGTAAGACCATGTCTGGGACATTTGCA
1 TCGATTTGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* * * *
24663267 TTG-TATT-TAATT-CGTGTAAGACC-CTATCTGGGACAG-TGGCA
1 TCGAT-TTGTGATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * *
24663308 TCGATATGTGATTACATATAAGACCACGTCTAGGACGTTGGCA
1 TCGATTTGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
24663351 T
1 T
24663352 TGTACGAGCC
Statistics
Matches: 99, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 26 0.26
42 10 0.10
43 62 0.63
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATTTGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:24669097 original size:23 final size:20
Alignment explanation
Indices: 24669048--24669097 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
24669038 ATGACATTAG
*
24669048 ACAATTAAATAAATTAATGC
1 ACAAATAAATAAATTAATGC
*
24669068 ACGAATAAATAAATCTAATATGC
1 ACAAATAAATAAAT-T-A-ATGC
24669091 ACAAATA
1 ACAAATA
24669098 CTAAAAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 1 0.04
22 1 0.04
23 10 0.42
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (20 bp):
ACAAATAAATAAATTAATGC
Found at i:24669675 original size:25 final size:24
Alignment explanation
Indices: 24669630--24669677 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
24669620 GATACCTAAA
24669630 TAATTTACCTTCAATTCCTAAAAT
1 TAATTTACCTTCAATTCCTAAAAT
*
24669654 TAATTCTATCTTCGAATT-CTAAAA
1 TAATT-TACCTTC-AATTCCTAAAA
24669678 AAAAAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 12 0.57
26 4 0.19
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (24 bp):
TAATTTACCTTCAATTCCTAAAAT
Found at i:24670200 original size:27 final size:28
Alignment explanation
Indices: 24670156--24670217 Score: 117
Period size: 27 Copynumber: 2.2 Consensus size: 28
24670146 CCTAAATCCT
24670156 AATGTAAAAACCTTTATGGTTTCATTAA
1 AATGTAAAAACCTTTATGGTTTCATTAA
24670184 AATGTAAAAA-CTTTATGGTTTCATTAA
1 AATGTAAAAACCTTTATGGTTTCATTAA
24670211 AATGTAA
1 AATGTAA
24670218 CACCTACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 24 0.71
28 10 0.29
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (28 bp):
AATGTAAAAACCTTTATGGTTTCATTAA
Found at i:24671251 original size:51 final size:52
Alignment explanation
Indices: 24671195--24671293 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
24671185 AAATAGTTGA
24671195 AAAAAATCAAAACTTTATTTTACAAAATCTAAACTTT-TCC-TTTAAAAGGACT
1 AAAAAA-CAAAACTTTATTTTA-AAAATCTAAACTTTCTCCTTTTAAAAGGACT
* *
24671247 AAAAAACAAAATTTTATTTTAAAAATCTAAAGTTTCTCCTTTTAAAA
1 AAAAAACAAAACTTTATTTTAAAAATCTAAACTTTCTCCTTTTAAAA
24671294 AAAAACTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 13 0.30
51 17 0.40
52 13 0.30
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.36
Consensus pattern (52 bp):
AAAAAACAAAACTTTATTTTAAAAATCTAAACTTTCTCCTTTTAAAAGGACT
Found at i:24671673 original size:157 final size:158
Alignment explanation
Indices: 24671476--24671769 Score: 455
Period size: 157 Copynumber: 1.9 Consensus size: 158
24671466 AAAAAAAATA
** * *
24671476 ATTTTTCTTAAAGATCAATTCTTTTATTTTGAAATAGTTGAAAAAAAATCAAAATTTTGTTTTAA
1 ATTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAA
* *
24671541 AAATTTAAAATTTCCTTTAAAATGACTAAAAAATAGATTTTTATTTTTTAAAATCTAAAATTTCT
66 AAATTTAAAATTTCCTTAAAAATGACTAAAAAACAGATTTTTATTTTTTAAAATCTAAAATTTCT
24671606 -CTTTTTCTTTTTAAAAAAATAAACATC
131 CCTTTTTCTTTTTAAAAAAATAAACATC
* * *
24671633 ATTTTTCTTAAATATCAAAACTTTTATTTTGAAATAGTTGAAAAAAAGTCAAAACTTTATTTTTA
1 ATTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAA
* * * * *
24671698 ACATTTAAAGTTTCCTTAAAAATGACTAAAAAACATATTTTTATTTTTTTAAATCTAAACTTTCT
66 AAATTTAAAATTTCCTTAAAAATGACTAAAAAACAGATTTTTATTTTTTAAAATCTAAAATTTCT
24671763 CCTTTTT
131 CCTTTTT
24671770 AAAAAAGAAT
Statistics
Matches: 122, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
157 116 0.95
158 6 0.05
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (158 bp):
ATTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAA
AAATTTAAAATTTCCTTAAAAATGACTAAAAAACAGATTTTTATTTTTTAAAATCTAAAATTTCT
CCTTTTTCTTTTTAAAAAAATAAACATC
Found at i:24678508 original size:17 final size:18
Alignment explanation
Indices: 24678486--24678520 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24678476 ATTTTGGGTT
24678486 GTGTGGG-CCACATGGGC
1 GTGTGGGCCCACATGGGC
24678503 GTGTGGGCCCACATGGGC
1 GTGTGGGCCCACATGGGC
24678521 ATGCAACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
GTGTGGGCCCACATGGGC
Found at i:24695051 original size:15 final size:15
Alignment explanation
Indices: 24695031--24695059 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24695021 ACCTCTGTCC
24695031 TCGGCTACACTAGCA
1 TCGGCTACACTAGCA
24695046 TCGGCTACACTAGC
1 TCGGCTACACTAGC
24695060 TTTCTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (15 bp):
TCGGCTACACTAGCA
Found at i:24703671 original size:27 final size:27
Alignment explanation
Indices: 24703644--24703860 Score: 182
Period size: 27 Copynumber: 8.0 Consensus size: 27
24703634 GTCATTCTTT
* *
24703644 ATAGATCGCCACAAAGACTTCCTTTTT
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* * *
24703671 ATAGATCACCACAGAGGTTTCCTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* * * * * *
24703698 ATGGATTGCAATAGAGGCTTCATTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* *
24703725 ATGGATCGCCATAAAGGCTTCCTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* * ** * *
24703752 ATGGGTTACCACAAAGGCTTCATTTTG
1 ATAGATCGCCACAAAGGCTTCCTTTTC
** * *
24703779 ATAGATTTCCACAAAAGCTTCTTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* *
24703806 ATAGACCGCCACAAAGGCTTCATTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* *
24703833 ATAGATTGCCACAAAGACTTCCCTTTTC
1 ATAGATCGCCACAAAGGCTT-CCTTTTC
24703861 TGGCGTGTTC
Statistics
Matches: 152, Mismatches: 37, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
27 146 0.96
28 6 0.04
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (27 bp):
ATAGATCGCCACAAAGGCTTCCTTTTC
Found at i:24703763 original size:81 final size:81
Alignment explanation
Indices: 24703635--24703853 Score: 213
Period size: 81 Copynumber: 2.7 Consensus size: 81
24703625 GCAAAAAGGG
* * * * * *
24703635 TCATTCTTTATAGATCGCCACAAAGACTTCCTTTTTATAGATCACCACAGAGGTTTCCTTTTCAT
1 TCATT-TTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCATTTTCAT
* * * *
24703700 GGATTGCAATAGAGGCT
65 AGATTGCAACAAAAGCT
* * * * * *
24703717 TCATTTTCATGGATCGCCATAAAGGCTTCCTTTTCATGGGTTACCACAAAGGCTTCATTTTGATA
1 TCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCATTTTCATA
* *
24703782 GATTTCCACAAAAGCT
66 GATTGCAACAAAAGCT
* * * ** *
24703798 TCTTTTTCATAGACCGCCACAAAGGCTTCATTTTCATAGATTGCCACAAAGACTTC
1 TCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTC
24703854 CCTTTTCTGG
Statistics
Matches: 110, Mismatches: 27, Indels: 1
0.80 0.20 0.01
Matches are distributed among these distances:
81 105 0.95
82 5 0.05
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (81 bp):
TCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCATTTTCATA
GATTGCAACAAAAGCT
Found at i:24703771 original size:54 final size:54
Alignment explanation
Indices: 24703651--24703860 Score: 204
Period size: 54 Copynumber: 3.9 Consensus size: 54
24703641 TTTATAGATC
* * * * * *
24703651 GCCACAAAGACTTCCTTTTTATAGATCACCACAGAGGTTTCCTTTTCATGGATT
1 GCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATGGATT
* * * * * *
24703705 GCAATAGAGGCTTCATTTTCATGGATCGCCATAAAGGCTTCCTTTTCATGGGTT
1 GCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATGGATT
* * ** * * * **
24703759 ACCACAAAGGCTTCATTTTGATAGATTTCCACAAAAGCTTCTTTTTCATAGACC
1 GCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATGGATT
* *
24703813 GCCACAAAGGCTTCATTTTCATAGATTGCCACAAAGACTTCCCTTTTC
1 GCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGCTT-CCTTTTC
24703861 TGGCGTGTTC
Statistics
Matches: 122, Mismatches: 33, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
54 116 0.95
55 6 0.05
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (54 bp):
GCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATGGATT
Found at i:24711113 original size:16 final size:15
Alignment explanation
Indices: 24711090--24711129 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
24711080 TCTATAAATA
*
24711090 TGATTATGTGTATTG
1 TGATTATGTGTAATG
24711105 TGATATATGTGTAATG
1 TGAT-TATGTGTAATG
24711121 TGATGTATG
1 TGAT-TATG
24711130 CCTAAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (15 bp):
TGATTATGTGTAATG
Found at i:24711433 original size:156 final size:155
Alignment explanation
Indices: 24711073--24711424 Score: 533
Period size: 156 Copynumber: 2.3 Consensus size: 155
24711063 GCTCAAGTGC
24711073 CAAATTATCTATAAATATGATTATGTGTATTGTGATATATGTGTAATGTGATGTATGCCTAAATG
1 CAAATTATCTATAAATATG-TTATGTGTATTGTGATATATGTGTAATGTGATGTATGCCTAAATG
* *
24711138 AGGATGTAGTTGCTATGAAAATTATATTAAATTGTATATATGTGTAAAGTGTGTATTGTGATATG
65 AGGATGTAGTTGCTATGAAAATTATATTAAATTGTATATACGTGTAAAGTGTGTATTGTGATATA
24711203 TGTTTATATGACATGTGACCATTATG
130 TGTTTATATGACATGTGACCATTATG
* ** *
24711229 CAAATTATCGATAAATATGGTTGCGTGTATTGTGATATATGTGTAATGTGATGTATGCTTAAATG
1 CAAATTATCTATAAATAT-GTTATGTGTATTGTGATATATGTGTAATGTGATGTATGCCTAAATG
* * * * *
24711294 AGTATGTGGTTGTTATGCAAATTATTTTAAATTGTATATACGTGTAAAGTGTGTATTGTGATATA
65 AGGATGTAGTTGCTATGAAAATTATATTAAATTGTATATACGTGTAAAGTGTGTATTGTGATATA
24711359 TGTTTATATGACATGTGACCATTATG
130 TGTTTATATGACATGTGACCATTATG
* * * * **
24711385 TAATTTATCTATAAACATGTTTTGAATATTGTGATATATG
1 CAAATTATCTATAAATATGTTATGTGTATTGTGATATATG
24711425 CTTGAATGTT
Statistics
Matches: 176, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
155 18 0.10
156 157 0.89
157 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (155 bp):
CAAATTATCTATAAATATGTTATGTGTATTGTGATATATGTGTAATGTGATGTATGCCTAAATGA
GGATGTAGTTGCTATGAAAATTATATTAAATTGTATATACGTGTAAAGTGTGTATTGTGATATAT
GTTTATATGACATGTGACCATTATG
Found at i:24713016 original size:17 final size:17
Alignment explanation
Indices: 24712988--24713021 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24712978 AACTAATCAA
24712988 CCAACACTCACTTATCTT
1 CCAACACTCACTT-TCTT
24713006 CCAAC-CTCACTTTCTT
1 CCAACACTCACTTTCTT
24713022 GACCGGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35
Consensus pattern (17 bp):
CCAACACTCACTTTCTT
Found at i:24713512 original size:21 final size:21
Alignment explanation
Indices: 24713447--24713501 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
24713437 GTTGAAGAAC
*
24713447 AAAGAAAATAAAATTGTTTTA
1 AAAGAAAATAAAATTGTATTA
24713468 AAAGAAAATAAAATTGTATTA
1 AAAGAAAATAAAATTGTATTA
24713489 AAAGAAAATAAAA
1 AAAGAAAATAAAA
24713502 CTAAATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.25
Consensus pattern (21 bp):
AAAGAAAATAAAATTGTATTA
Found at i:24714462 original size:17 final size:17
Alignment explanation
Indices: 24714440--24714476 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
24714430 TCAATTTTGC
24714440 AATAAAAAAATAAAAAA
1 AATAAAAAAATAAAAAA
* *
24714457 AATAAAAAATTAAACAA
1 AATAAAAAAATAAAAAA
24714474 AAT
1 AAT
24714477 TATTACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (17 bp):
AATAAAAAAATAAAAAA
Found at i:24725815 original size:29 final size:29
Alignment explanation
Indices: 24725779--24725853 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
24725769 TTATTGATTA
* *
24725779 CCACAAAGGTATTTCTTATCAGAGATTTG
1 CCACAAAGGCATTCCTTATCAGAGATTTG
* * *
24725808 CCACAAAGCCATTCCTTATTAGAGATTTT
1 CCACAAAGGCATTCCTTATCAGAGATTTG
*
24725837 CTACAAAGGCATTCCTT
1 CCACAAAGGCATTCCTT
24725854 TAATAGAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (29 bp):
CCACAAAGGCATTCCTTATCAGAGATTTG
Found at i:24728024 original size:61 final size:58
Alignment explanation
Indices: 24727918--24728029 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 58
24727908 TTAATATTAG
* * * *
24727918 ATTAATATAATACTTATCAAGATAAATATTAGATTAATTTTAATATTAAATATATTGA
1 ATTAATAGAATACTTATCAAGATAAATATTAAATGAAATTTAATATTAAATATATTGA
24727976 ATTAATAGAATACTTATCTACAAGATAAATATTAAATGAAATTTAATATTAAAT
1 ATTAATAGAATACTTA--T-CAAGATAAATATTAAATGAAATTTAATATTAAAT
24728030 TAATAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
58 15 0.32
60 1 0.02
61 31 0.66
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.40
Consensus pattern (58 bp):
ATTAATAGAATACTTATCAAGATAAATATTAAATGAAATTTAATATTAAATATATTGA
Found at i:24728073 original size:17 final size:17
Alignment explanation
Indices: 24728003--24728076 Score: 66
Period size: 17 Copynumber: 4.5 Consensus size: 17
24727993 CTACAAGATA
*
24728003 AATATTAAATGAAATTT
1 AATATTAAATTAAATTT
**
24728020 AATATTAAATT-AATAA
1 AATATTAAATTAAATTT
*
24728036 AATACT--ATTAAA-TT
1 AATATTAAATTAAATTT
*
24728050 AAGTATTGAATTAAATTT
1 AA-TATTAAATTAAATTT
24728068 AATATTAAA
1 AATATTAAA
24728077 ACTATTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
14 5 0.11
15 5 0.11
16 8 0.18
17 22 0.50
18 4 0.09
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:24731344 original size:68 final size:69
Alignment explanation
Indices: 24731236--24731429 Score: 198
Period size: 68 Copynumber: 2.8 Consensus size: 69
24731226 TTAAAATCAG
* * * * * * *
24731236 GAGTCTCCTAGGATAGTTAACATGGGATCATAGTGCGTAAGACCATAGCTAGGCTATGGA-AACA
1 GAGTCTACTAGGACACTAAACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGGAGAACA
*
24731300 AATG
66 AATA
*
24731304 GAGT-TCACTAGGACACTAAACATGGGTTAATAATGTGTAAGACCATAGCTAGGCTAT-GAGAAC
1 GAGTCT-ACTAGGACACTAAACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGGAGAAC
*
24731367 ATATA
65 AAATA
** * * * *
24731372 GAGTCTGGTAGGACATTAAACATGGGTTCGTACTGTGTAAAACCATAGCT-GAGCTATG
1 GAGTCTACTAGGACACTAAACATGGGTTCATAATGTGTAAGACCATAGCTAG-GCTATG
24731430 ATAACAGAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
67 4 0.04
68 99 0.95
69 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (69 bp):
GAGTCTACTAGGACACTAAACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGGAGAACA
AATA
Found at i:24731445 original size:68 final size:68
Alignment explanation
Indices: 24731312--24731446 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 68
24731302 TGGAGTTCAC
* * * *
24731312 TAGGACACTAAACATGGGTTAATAATGTGTAAGACCATAGCTAGGCTATGAGAACATATAGAGTC
1 TAGGACACTAAACATGGGTTAATAATGTGTAAAACCATAGCTAGGCTATGAGAACAGAAAAAGTC
24731377 TGG
66 TGG
* ** * *
24731380 TAGGACATTAAACATGGGTTCGTACTGTGTAAAACCATAGCT-GAGCTATGATAACAGAAAAAGT
1 TAGGACACTAAACATGGGTTAATAATGTGTAAAACCATAGCTAG-GCTATGAGAACAGAAAAAGT
24731444 CTG
65 CTG
24731447 CTAGAATGGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 1 0.02
68 56 0.98
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (68 bp):
TAGGACACTAAACATGGGTTAATAATGTGTAAAACCATAGCTAGGCTATGAGAACAGAAAAAGTC
TGG
Found at i:24735835 original size:17 final size:17
Alignment explanation
Indices: 24735815--24735860 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
24735805 TTAAACAAAG
24735815 AAAATAAATAAATAAGA
1 AAAATAAATAAATAAGA
* * *
24735832 AAAATAAACAAATGATA
1 AAAATAAATAAATAAGA
*
24735849 AAAATCAATAAA
1 AAAATAAATAAA
24735861 CTAATCAGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAATAAGA
Found at i:24737199 original size:16 final size:16
Alignment explanation
Indices: 24737154--24737200 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
24737144 TTTAATATCA
24737154 TATTTCACACGTTTATTC
1 TATTTCACA--TTTATTC
24737172 -ATCTTC-CATTTATTC
1 TAT-TTCACATTTATTC
24737187 TATTTCACATTTAT
1 TATTTCACATTTAT
24737201 CACATTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 10 0.38
16 9 0.35
17 4 0.15
18 3 0.12
ACGTcount: A:0.23, C:0.21, G:0.02, T:0.53
Consensus pattern (16 bp):
TATTTCACATTTATTC
Found at i:24748316 original size:20 final size:21
Alignment explanation
Indices: 24748283--24748324 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24748273 TTCTTTATAT
24748283 ATTTTTAGAA-TTTTTTAAAA
1 ATTTTTAGAATTTTTTTAAAA
* *
24748303 ATTTTTATAGTTTTTTTAAAA
1 ATTTTTAGAATTTTTTTAAAA
24748324 A
1 A
24748325 ATAAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTTAGAATTTTTTTAAAA
Found at i:24748341 original size:22 final size:20
Alignment explanation
Indices: 24748316--24748361 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24748306 TTTATAGTTT
24748316 TTTTAAAAAATAAATTTTGGAA
1 TTTTAAAAAAT--ATTTTGGAA
* *
24748338 TTTTTATAAATATTTTGGAA
1 TTTTAAAAAATATTTTGGAA
24748358 TTTT
1 TTTT
24748362 TAATATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
22 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (20 bp):
TTTTAAAAAATATTTTGGAA
Found at i:24751684 original size:45 final size:45
Alignment explanation
Indices: 24751615--24751703 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
24751605 AATAGATACT
* * * *
24751615 CGGTGGATTCATCACATAGGAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
* *
24751660 CGGTGGAATCAGCAGATAGCAACCACCTTACTAATTAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
24751704 TCGATTCACA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:24751791 original size:51 final size:50
Alignment explanation
Indices: 24751715--24751845 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
24751705 CGATTCACAA
* *
24751715 AGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TCTGACACACGT
1 AGTAGCCTGCAAATAGTACTACACATGTGACC--TACCATTCCGACACACGT
* * *
24751766 AGTAGCCTGCAAATAGTACTACACATGCGACCTATCATTCCGATACACGT
1 AGTAGCCTGCAAATAGTACTACACATGTGACCTACCATTCCGACACACGT
* *
24751816 AGTAGCCTGCATATAGTACTACACACGTGA
1 AGTAGCCTGCAAATAGTACTACACATGTGA
24751846 TCATCACTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
49 4 0.06
50 37 0.52
51 30 0.42
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
AGTAGCCTGCAAATAGTACTACACATGTGACCTACCATTCCGACACACGT
Found at i:24762353 original size:21 final size:21
Alignment explanation
Indices: 24762312--24762353 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
24762302 TAGTGTCGTA
* *
24762312 TTAAAATTTGGTTCAGAAATT
1 TTAAAATTTAGATCAGAAATT
24762333 TTAAAATTTAGAT-AGATAATT
1 TTAAAATTTAGATCAGA-AATT
24762354 AAGTAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (21 bp):
TTAAAATTTAGATCAGAAATT
Found at i:24777768 original size:327 final size:328
Alignment explanation
Indices: 24777159--24778147 Score: 1583
Period size: 327 Copynumber: 3.0 Consensus size: 328
24777149 ATTTCCACAG
* * * ***
24777159 AGACAACATGAGACCTCATTGAATTACTCCAAGAATTTGAAGATTTCTTCTTTTGGTCATACCAG
1 AGACAATACGAGACCTCATTGAATTACTCCAAGAATTTGAAGATGTCTTCGCATGGTCATACCAG
* * *
24777224 GATATGCTCGAATTAAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGCC
66 GATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGCC
*
24777289 AGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGTTTAAAATAAAAGAGGAAGCCAATA
131 AGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGTTTAAAATAAAAGAGGAAGTCAATA
* * * * *
24777354 AACAGTTTGATGTTGGGTTTTTATAGGAGGTCAAATATTCTGAGTTGGTGGCCAACATCATTCCA
196 AGCAGTTTGATGTTGGGTTTTTACAGGAGGTCAAATATTCTGAATGGGTGGCCAACATCGTTCCA
* * *** * *
24777419 GTCCCTCAAAAAA-AAGGAAAAGTACGAATGCATGTGGATGATAGAGATTT-AACAAAGCAAGCC
261 GT-CCTTAAAAAAGAAAGAAAAGTACGAATGTGCGTGGATTACAGAGATTTGAACAAAGCAAGCC
24777482 CAAA
325 CAAA
24777486 AGACAATACGAGACCTCATTGAATTACTCCAAGAA-TTGAAAGATGTCTTCGCATGGTCATACCA
1 AGACAATACGAGACCTCATTGAATTACTCCAAGAATTTG-AAGATGTCTTCGCATGGTCATACCA
*
24777550 AGATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGC
65 GGATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGC
*
24777615 CAGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGCTTAAAATAAAAGAGGAAGTCAAT
130 CAGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGTTTAAAATAAAAGAGGAAGTCAAT
* * *
24777680 AAGCAGTTTGATGTTTGGTTTTTACAGGAGGTCAAATAGTCTAAATGGGTGGCCAACATCGTTCC
195 AAGCAGTTTGATGTTGGGTTTTTACAGGAGGTCAAATATTCTGAATGGGTGGCCAACATCGTTCC
*
24777745 AGTCTTTAAAAAAGAAAGAAAAGTACGAATGTGCGTGGATTACAGAGATTTGAACAAAGCAAGCC
260 AGTCCTTAAAAAAGAAAGAAAAGTACGAATGTGCGTGGATTACAGAGATTTGAACAAAGCAAGCC
24777810 CAAA
325 CAAA
* * *
24777814 AGACAAGACGAGACCTCATTGGATTACTCTAAGAATTTGAAGATGTCTTCGCATGGTCATACCAG
1 AGACAATACGAGACCTCATTGAATTACTCCAAGAATTTGAAGATGTCTTCGCATGGTCATACCAG
24777879 GATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGCC
66 GATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGCC
*
24777944 AGTTCAATAGAAGCTCAGAAGAATGAGG-CTGATATTGTGTTTAAAATAAAAGAGGAAGTCAATA
131 AGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGTTTAAAATAAAAGAGGAAGTCAATA
*
24778008 AGCAGTTTGATGTTGGGTTTTTACAGGAGGTCAAATATTCTGAATGGGTGGCCAACGTCGTTCCA
196 AGCAGTTTGATGTTGGGTTTTTACAGGAGGTCAAATATTCTGAATGGGTGGCCAACATCGTTCCA
* * * *
24778073 GTCCCTAAAAAAG-ATGAAAAAGTACGAATGTGCGTGGATTACAGAGATTTGAAGAAAGTAAGCC
261 GTCCTTAAAAAAGAAAG-AAAAGTACGAATGTGCGTGGATTACAGAGATTTGAACAAAGCAAGCC
24778137 CAAA
325 CAAA
24778141 AGACAAT
1 AGACAAT
24778148 TTCCCATTGC
Statistics
Matches: 613, Mismatches: 44, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
326 13 0.02
327 431 0.70
328 166 0.27
329 3 0.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (328 bp):
AGACAATACGAGACCTCATTGAATTACTCCAAGAATTTGAAGATGTCTTCGCATGGTCATACCAG
GATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGCC
AGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGTTTAAAATAAAAGAGGAAGTCAATA
AGCAGTTTGATGTTGGGTTTTTACAGGAGGTCAAATATTCTGAATGGGTGGCCAACATCGTTCCA
GTCCTTAAAAAAGAAAGAAAAGTACGAATGTGCGTGGATTACAGAGATTTGAACAAAGCAAGCCC
AAA
Found at i:24782280 original size:40 final size:39
Alignment explanation
Indices: 24782229--24782376 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 39
24782219 GATTAAAGTA
* **
24782229 ATAGATCTTATCTCTCTGAAGTTCCAGAGAGCAGATCGCAT
1 ATAGATCTTATCTCCCTGAAGTTGTAGAGAGCAGAT--CAT
* * *
24782270 ATAG-TCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGT
1 ATAGATCTTATCTCCCTGAAGTTGTAG-AGAGCAGA-T-CA-T
*
24782312 GATAGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCAT
1 -ATAGATCTTATCTCCCTGAAGTTGTAGAGAGCAGATCAT
*
24782352 ATCAGGTCTTATCTCCCTGAAGTTG
1 AT-AGATCTTATCTCCCTGAAGTTG
24782377 CAGTGGAGCA
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
39 2 0.02
40 40 0.45
41 12 0.14
42 3 0.03
43 10 0.11
44 21 0.24
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (39 bp):
ATAGATCTTATCTCCCTGAAGTTGTAGAGAGCAGATCAT
Found at i:24782309 original size:84 final size:84
Alignment explanation
Indices: 24782201--24782561 Score: 390
Period size: 84 Copynumber: 4.2 Consensus size: 84
24782191 CCTATATCCT
* * * *
24782201 TGAAGTTGCAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTCCAGAGAGCAGATC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATC
24782266 GCATATAGTCTTATCTCCC
66 GCATATAGTCTTATCTCCC
* * * *
24782285 TGAAGTTGTAGTGGAACAGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGTAGAGAGCAGAT-
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATC
24782349 -CATATCAGGTCTTATCTCCC
66 GCATAT-A-GTCTTATCTCCC
*** ** * *
24782369 TGAAGTTGCAGTGGAGCAGACCCAAGATG-GCGAATCTTATCTCCCTAAAGTTGCA-ATGGAGTA
1 TGAAGTTGCAGTGGAGCAGATTAAAG-TGATAG-ATCTTATCTCTCTAAAGTTGCAGA--GAGCA
* * * *
24782432 AATTAAAGCCA-ATAATCCTATCTCCC
62 GA-T--CG-CATATAGTCTTATCTCCC
* * *
24782458 TAAAGTTGTAGTGGAGCAGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATC
*
24782523 GCATCTAGTCTTATCTCCC
66 GCATATAGTCTTATCTCCC
24782542 TGAAGTTGCAGTGGAGCAGA
1 TGAAGTTGCAGTGGAGCAGA
24782562 CCCAAGAAAG
Statistics
Matches: 225, Mismatches: 37, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
82 5 0.02
83 3 0.01
84 124 0.55
85 21 0.09
86 6 0.03
87 6 0.03
88 23 0.10
89 32 0.14
90 1 0.00
91 2 0.01
92 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (84 bp):
TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATC
GCATATAGTCTTATCTCCC
Found at i:24782325 original size:44 final size:44
Alignment explanation
Indices: 24782201--24782602 Score: 253
Period size: 44 Copynumber: 9.4 Consensus size: 44
24782191 CCTATATCCT
* * *
24782201 TGAAGTTGCAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
* * ***
24782245 TGAAGTTCCAG-AGAGCAGATCGCA-T-ATAG-TCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
* * *
24782285 TGAAGTTGTAGTGGAACAGATTAAAGTGATAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
* * * *
24782329 TGAAGTTGTAG-AGAGCAGA-T-CA-T-ATCAGGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGAT-AGATCTTATCTCCC
*** **
24782369 TGAAGTTGCAGTGGAGCAGACCCAAGATG-GCGAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAG-TGATAG-ATCTTATCTCCC
* * * * ** *
24782414 TAAAGTTGCAATGGAGTAAATTAAAGCCAATA-ATCCTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAG-TGATAGATCTTATCTCCC
* * * *
24782458 TAAAGTTGTAGTGGAGCAGATTAAAATGATAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
* * *** *
24782502 TAAAGTTGCAG-AGAGCAGATCGCA-T-CTAG-TCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
*** *
24782542 TGAAGTTGCAGTGGAGCAGACCCAA--GAAAGCAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAG--A-TCTTATCTCCC
24782587 TGAAGTTGCAGTGGAG
1 TGAAGTTGCAGTGGAG
24782603 TAGACCCGAA
Statistics
Matches: 275, Mismatches: 63, Indels: 39
0.73 0.17 0.10
Matches are distributed among these distances:
39 2 0.01
40 62 0.23
41 34 0.12
42 4 0.01
43 31 0.11
44 84 0.31
45 58 0.21
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
Found at i:24782409 original size:45 final size:44
Alignment explanation
Indices: 24782358--24782652 Score: 192
Period size: 45 Copynumber: 6.7 Consensus size: 44
24782348 TCATATCAGG
*
24782358 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGATGGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAT-GCTAA
* * * * *** ****
24782403 TCTTATCTCCCTAAAGTTGCAATGGAGTAAATTAAAGCCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGATGCTAA
* * * ** * *
24782447 TCCTATCTCCCTAAAGTTGTAGTGGAGCAGA-TTAAAATGATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGATGCTA-A
* * * * *
24782491 TCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-TC--GCAT-CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAG-ATGCTAA
*
24782531 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGC-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAG-ATGCTAA
* * *
24782575 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACCCGAATAAGC-AA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCC-AAGATGCTAA
* * *
24782620 GTCTTATCCCCCTGAAATTGCAGTGGGGCAGAC
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
24782653 TGAATAAACA
Statistics
Matches: 198, Mismatches: 43, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
40 20 0.10
41 9 0.05
42 3 0.02
43 14 0.07
44 51 0.26
45 99 0.50
46 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGATGCTAA
Found at i:24782490 original size:173 final size:173
Alignment explanation
Indices: 24782277--24782604 Score: 525
Period size: 173 Copynumber: 1.9 Consensus size: 173
24782267 CATATAGTCT
* * * *
24782277 TATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGTAGAG
1 TATCTCCCTAAAGTTGTAGTGGAACAGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGAG
* **
24782342 AGCAGATCATATC-AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGATGGCGAA-TC
66 AGCAGATCACATCTA-GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGC-AAGTC
24782405 TTATCTCCCTAAAGTTGCAATGGAGTAAATTAAAGCCAATAATCC
129 TTATCTCCCTAAAGTTGCAATGGAGTAAATTAAAGCCAATAATCC
*
24782450 TATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGAG
1 TATCTCCCTAAAGTTGTAGTGGAACAGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGAG
*
24782515 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGTCTT
66 AGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGTCTT
* *
24782580 ATCTCCCTGAAGTTGCAGTGGAGTA
131 ATCTCCCTAAAGTTGCAATGGAGTA
24782605 GACCCGAATA
Statistics
Matches: 142, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
172 2 0.01
173 139 0.98
174 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (173 bp):
TATCTCCCTAAAGTTGTAGTGGAACAGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGAG
AGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGTCTT
ATCTCCCTAAAGTTGCAATGGAGTAAATTAAAGCCAATAATCC
Found at i:24782641 original size:90 final size:89
Alignment explanation
Indices: 24782529--24782692 Score: 229
Period size: 90 Copynumber: 1.8 Consensus size: 89
24782519 GATCGCATCT
* * * * *
24782529 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGTCTTATCTCCCTGAAGTT
1 AGTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAA-CAAATCCTATCTCCCTAAAGTT
24782594 GCAGTGGAGTAGACCCGAATAAGCA
65 GCAGTGGAGTAGACCCGAATAAGCA
* ** *
24782619 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTGAATAAACAAATCCTATCTCCCTAAAGTTG
1 AGTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAACAAATCCTATCTCCCTAAAGTTG
*
24782684 TAGTGGAGT
66 CAGTGGAGT
24782693 GGATTAGAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
89 28 0.44
90 36 0.56
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (89 bp):
AGTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAACAAATCCTATCTCCCTAAAGTTG
CAGTGGAGTAGACCCGAATAAGCA
Found at i:24790754 original size:25 final size:25
Alignment explanation
Indices: 24790729--24790782 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
24790719 TTCTCTCAAA
*
24790729 TTTCAATTTTATTTAATTATTTAAAT
1 TTTCAA-TTTATTGAATTATTTAAAT
24790755 TTTCAATTTATTGAATTA-TTAATAT
1 TTTCAATTTATTGAATTATTTAA-AT
24790780 TTT
1 TTT
24790783 ATACGAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 4 0.15
25 16 0.62
26 6 0.23
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTCAATTTATTGAATTATTTAAAT
Found at i:24791688 original size:3 final size:3
Alignment explanation
Indices: 24791680--24791757 Score: 138
Period size: 3 Copynumber: 26.0 Consensus size: 3
24791670 AGGATCTCGG
* *
24791680 AGA AGA AGA AGA AGA AGA AGA AGG AGA AGA AGA AGA AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24791728 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24791758 TCCCACAGAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:24793086 original size:6 final size:5
Alignment explanation
Indices: 24793057--24793099 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
24793047 AAATGCTCGT
* * *
24793057 GAAAA AAAAA GAAAA GAAAA GAAAA TGAAAA AAAAA GAGAA GA
1 GAAAA GAAAA GAAAA GAAAA GAAAA -GAAAA GAAAA GAAAA GA
24793100 GCATACATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (5 bp):
GAAAA
Found at i:24802498 original size:15 final size:16
Alignment explanation
Indices: 24802480--24802512 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24802470 AATTGTTTTG
*
24802480 TTGC-TAATTTTACTT
1 TTGCATAATTTCACTT
24802495 TTGCATAATTTCACTT
1 TTGCATAATTTCACTT
24802511 TT
1 TT
24802513 TCACTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.58
Consensus pattern (16 bp):
TTGCATAATTTCACTT
Found at i:24802806 original size:51 final size:50
Alignment explanation
Indices: 24802743--24802929 Score: 198
Period size: 51 Copynumber: 3.7 Consensus size: 50
24802733 CTGGTTCACA
* * * *
24802743 TAGTAGCCTGCACATAGTACTACACATGTGACCATCATTATTCGATACATG
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT-ATTATTCGGTACACG
* * * * * * *
24802794 TAGTAGCATGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATA-TTATTCGGTACACG
* * *
24802845 TAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATATTATTC-GGTACACG
24802895 TAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
24802930 CACTTTCACT
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 3 0.03
50 40 0.36
51 65 0.59
52 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATATTATTCGGTACACG
Found at i:24802959 original size:101 final size:102
Alignment explanation
Indices: 24802735--24802925 Score: 269
Period size: 102 Copynumber: 1.9 Consensus size: 102
24802725 TAATGATACT
* * * *
24802735 GGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCATTATTCGATACATGTAGTAG
1 GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCATTACTCGATACACGTAGTAG
* *
24802800 CATGCACATAGTACTACACACGTGATCGAAGCTATCC
66 CATACACATAGTACTACACACGTGATCCAAGCTATCC
* * *
24802837 GGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCTATCATT-CT-GGTACACGTAGTA
1 GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCATTACTCGATACACGTAGTA
*
24802900 GCCTACACATAGTACTACACACGTGA
65 GCATACACATAGTACTACACACGTGA
24802926 CCATCACTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 35 0.44
102 38 0.48
103 6 0.08
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (102 bp):
GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCATTACTCGATACACGTAGTAG
CATACACATAGTACTACACACGTGATCCAAGCTATCC
Found at i:24803177 original size:16 final size:16
Alignment explanation
Indices: 24803152--24803183 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24803142 ATCCAGTCCA
24803152 AAAATCACATTTTTGC
1 AAAATCACATTTTTGC
*
24803168 AAAATTACATTTTTGC
1 AAAATCACATTTTTGC
24803184 CCCTCAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAATCACATTTTTGC
Found at i:24820755 original size:27 final size:26
Alignment explanation
Indices: 24820714--24820766 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
24820704 AATGTGAAAG
*
24820714 GGGGTTGCTATGTGCTGATTCCTCCGA
1 GGGGTTGCTAAGTGCTGATTCC-CCGA
24820741 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
24820767 TTTCATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:24820827 original size:104 final size:103
Alignment explanation
Indices: 24820636--24821006 Score: 609
Period size: 104 Copynumber: 3.6 Consensus size: 103
24820626 TGTATATAAA
** * *
24820636 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
* *
24820700 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCTCCG
65 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
24820740 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
*
24820805 TTGAAATGAAAAGGGGGTTGCTATGTTCTGATTCCCCCG
65 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
24820844 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
24820909 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
24820948 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
24821007 ATAACGGTTA
Statistics
Matches: 254, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
103 29 0.11
104 183 0.72
105 41 0.16
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:24832323 original size:46 final size:46
Alignment explanation
Indices: 24832273--24832365 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
24832263 CAGATGAACT
24832273 TAGTGAGTTATGAAAACAACTTACCATTTTAACTTTTCTTTATAAG
1 TAGTGAGTTATGAAAACAACTTACCATTTTAACTTTTCTTTATAAG
*
24832319 TAGTGAGTTATGAACACAACTTACCATTTTAACTTTTCTTTATAAG
1 TAGTGAGTTATGAAAACAACTTACCATTTTAACTTTTCTTTATAAG
24832365 T
1 T
24832366 TTTTCTTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (46 bp):
TAGTGAGTTATGAAAACAACTTACCATTTTAACTTTTCTTTATAAG
Found at i:24833008 original size:22 final size:22
Alignment explanation
Indices: 24832980--24833073 Score: 79
Period size: 20 Copynumber: 4.4 Consensus size: 22
24832970 AATGCCATAG
24832980 AGGCCATATCAGAATACCACAA
1 AGGCCATATCAGAATACCACAA
* *
24833002 AGGCCATATTAGAATACACCCAA
1 AGGCCATATCAGAATAC-CACAA
* * * *
24833025 AGG-C-TAACAAAATGCCATAA
1 AGGCCATATCAGAATACCACAA
* *
24833045 AGGCCA-A-CATAATGCCACAA
1 AGGCCATATCAGAATACCACAA
24833065 AGGCCATAT
1 AGGCCATAT
24833074 TAAAATACAT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
20 23 0.40
21 10 0.18
22 17 0.30
23 7 0.12
ACGTcount: A:0.45, C:0.26, G:0.15, T:0.15
Consensus pattern (22 bp):
AGGCCATATCAGAATACCACAA
Found at i:24834221 original size:115 final size:111
Alignment explanation
Indices: 24834019--24834264 Score: 402
Period size: 115 Copynumber: 2.2 Consensus size: 111
24834009 ACGGGATACA
* *
24834019 TAAAAACTTTACTACTAATGGGTTTAATAATTTTGCTTAAAAACTTTACTCGGATACATAAAATG
1 TAAAAAATTTACTACTAATGGGTTTAATAATTTTCCTTAAAAACTTTACTCGGATACATAAAATG
* *
24834084 GACGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATGTCCTTATTCCT
66 GACGCTATGACTTCACTCGAATCTCAAGTATCTTTG--GT--ATATTCCT
*
24834134 TAAAAAATTTACTACTAATGGGTTTAATAATTTTCCTTAAAAACTTTACTCGGATACATAAAGTG
1 TAAAAAATTTACTACTAATGGGTTTAATAATTTTCCTTAAAAACTTTACTCGGATACATAAAATG
*
24834199 GACGCTATGACTTCACTCGAATCTCAAGTATCTTTGGTATCTTCCT
66 GACGCTATGACTTCACTCGAATCTCAAGTATCTTTGGTATATTCCT
24834245 TAAAAAATTTACTACTAATG
1 TAAAAAATTTACTACTAATG
24834265 TATCATGTTT
Statistics
Matches: 125, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
111 26 0.21
113 2 0.02
115 97 0.78
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (111 bp):
TAAAAAATTTACTACTAATGGGTTTAATAATTTTCCTTAAAAACTTTACTCGGATACATAAAATG
GACGCTATGACTTCACTCGAATCTCAAGTATCTTTGGTATATTCCT
Found at i:24836194 original size:52 final size:52
Alignment explanation
Indices: 24836124--24836227 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
24836114 TCATTAAGTG
* *
24836124 GTTATATGCATATATAATTTTCTCCAACTTAGATAGTTCATGGGTAAGTCCA
1 GTTAGATGCATATATAATTTTCCCCAACTTAGATAGTTCATGGGTAAGTCCA
24836176 GTTAGATGCATATATAATTTTCCCCAACTTAGATAGTTCATGGGTAAGTCCA
1 GTTAGATGCATATATAATTTTCCCCAACTTAGATAGTTCATGGGTAAGTCCA
24836228 TTCTACTGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (52 bp):
GTTAGATGCATATATAATTTTCCCCAACTTAGATAGTTCATGGGTAAGTCCA
Found at i:24840927 original size:27 final size:27
Alignment explanation
Indices: 24840623--24840926 Score: 387
Period size: 27 Copynumber: 11.2 Consensus size: 27
24840613 GGTATAACAG
*
24840623 TCATTTTACCCTATGGAGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
24840650 TCATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
24840677 TCATTTTACCCTATGGGGGTATTTCTG-
1 TCATTTTACCCTATGGGGGTATTTC-GA
* **
24840704 TCATTCTACCCTATAAGGGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
* * * *
24840730 GTTATTTAACCCTATGGGAGTATTTCGG
1 -TCATTTTACCCTATGGGGGTATTTCGA
*
24840758 TCATTTTACCCTATGGGGTTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
24840785 TCAATTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
24840812 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
24840839 TCATTTTACCATATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* * * *
24840866 TCATTCTACCTTATAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
*
24840893 TCATTTTACCCTGTAGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGGTATTTCGA
24840921 TCATTT
1 TCATTT
24840927 ATCGACCTCT
Statistics
Matches: 238, Mismatches: 34, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
27 220 0.92
28 18 0.08
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:24857418 original size:29 final size:29
Alignment explanation
Indices: 24857376--24857464 Score: 169
Period size: 29 Copynumber: 3.1 Consensus size: 29
24857366 ACTCAAACTA
24857376 GACTTAAATTGGTATGTACCTCTAGACTC
1 GACTTAAATTGGTATGTACCTCTAGACTC
24857405 GACTTAAATTGGTATGTACCTCTAGACTC
1 GACTTAAATTGGTATGTACCTCTAGACTC
*
24857434 GACTTAAATTGGCATGTACCTCTAGACTC
1 GACTTAAATTGGTATGTACCTCTAGACTC
24857463 GA
1 GA
24857465 TTCTAAGCTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (29 bp):
GACTTAAATTGGTATGTACCTCTAGACTC
Found at i:24860773 original size:23 final size:23
Alignment explanation
Indices: 24860743--24860803 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
24860733 TTTGTCAAAA
*
24860743 AATATTTACTGTTCACGCCAGAG
1 AATATTTACTGTTCACACCAGAG
* *
24860766 AATATTTACTATTCACATCAGAG
1 AATATTTACTGTTCACACCAGAG
*
24860789 AATATTTATTGTTCA
1 AATATTTACTGTTCA
24860804 TTCGTCTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (23 bp):
AATATTTACTGTTCACACCAGAG
Found at i:24866338 original size:50 final size:50
Alignment explanation
Indices: 24866214--24866512 Score: 364
Period size: 50 Copynumber: 5.8 Consensus size: 50
24866204 ATTTGAGTAA
*
24866214 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--C-TGAG---ATG
* * *
24866270 AGAGGTCCCCTGTAAGACCATTTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
*
24866320 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** *
24866370 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * ** *
24866420 AGAGGTCCCAGGTAAAACCATGTCTGGGACATGGAAAGGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * *
24866470 AGAACATCCCATGTAAGACCATGTATGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24866513 TGCTATGATC
Statistics
Matches: 213, Mismatches: 29, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
50 139 0.65
51 31 0.15
53 4 0.02
54 1 0.00
56 38 0.18
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:24882163 original size:22 final size:22
Alignment explanation
Indices: 24882135--24882211 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
24882125 TGTCGTGAAA
24882135 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
24882157 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * * **
24882179 CATGAGGGTTTAGTTCGTTAAA
1 CATGAGAGCTTAGTACGTTAGC
24882201 CATGAGAGCTT
1 CATGAGAGCTT
24882212 TCAACGAAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:24885188 original size:23 final size:23
Alignment explanation
Indices: 24885156--24885250 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
24885146 GATAAGATCA
* *
24885156 ATTCTGTGATGCCTTTTTGGCGT
1 ATTCTATGATGCCTTTGTGGCGT
24885179 ATTCTATGATGCCTTTGTGGCGT
1 ATTCTATGATGCCTTTGTGGCGT
** * *
24885202 ATTCTGCGATGCCTTTCTGGTGT
1 ATTCTATGATGCCTTTGTGGCGT
24885225 ATTCTATGATGCCTTTGTGGCGT
1 ATTCTATGATGCCTTTGTGGCGT
24885248 ATT
1 ATT
24885251 TTCTAACTCC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.12, C:0.18, G:0.25, T:0.45
Consensus pattern (23 bp):
ATTCTATGATGCCTTTGTGGCGT
Found at i:24885227 original size:46 final size:46
Alignment explanation
Indices: 24885156--24885250 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
24885146 GATAAGATCA
* *
24885156 ATTCTGTGATGCCTTTTTGGCGTATTCTATGATGCCTTTGTGGCGT
1 ATTCTGCGATGCCTTTCTGGCGTATTCTATGATGCCTTTGTGGCGT
*
24885202 ATTCTGCGATGCCTTTCTGGTGTATTCTATGATGCCTTTGTGGCGT
1 ATTCTGCGATGCCTTTCTGGCGTATTCTATGATGCCTTTGTGGCGT
24885248 ATT
1 ATT
24885251 TTCTAACTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.12, C:0.18, G:0.25, T:0.45
Consensus pattern (46 bp):
ATTCTGCGATGCCTTTCTGGCGTATTCTATGATGCCTTTGTGGCGT
Found at i:24897091 original size:14 final size:14
Alignment explanation
Indices: 24897072--24897099 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24897062 CCAATTTATT
24897072 AATGAATTATTAAA
1 AATGAATTATTAAA
24897086 AATGAATTATTAAA
1 AATGAATTATTAAA
24897100 TATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:24899316 original size:15 final size:15
Alignment explanation
Indices: 24899296--24899347 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
24899286 ACTACAAAAC
24899296 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
24899311 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
24899330 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
24899345 ATT
1 ATT
24899348 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:24907015 original size:14 final size:14
Alignment explanation
Indices: 24906996--24907025 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24906986 TGTAATGACC
24906996 GAGGACAATGGATG
1 GAGGACAATGGATG
24907010 GAGGACAATGGATG
1 GAGGACAATGGATG
24907024 GA
1 GA
24907026 TTAAGGCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.43, T:0.13
Consensus pattern (14 bp):
GAGGACAATGGATG
Found at i:24907450 original size:27 final size:26
Alignment explanation
Indices: 24907416--24907467 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
24907406 AGAATATATG
*
24907416 ATGCGATGATTTTGTGAGAAATGTATA
1 ATGCGATGATTTTGT-AAAAATGTATA
24907443 ATGCGATGATTTTGTAAAAATGTAT
1 ATGCGATGATTTTGTAAAAATGTAT
24907468 GGTGTTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (26 bp):
ATGCGATGATTTTGTAAAAATGTATA
Found at i:24907735 original size:22 final size:22
Alignment explanation
Indices: 24907710--24907761 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
24907700 TGAGTACCAA
*
24907710 ACGATGAGGGGAAAACTTCACG
1 ACGATGAGGGGAAAACCTCACG
* *
24907732 ACGATAAGGGGAAAACCTCATG
1 ACGATGAGGGGAAAACCTCACG
*
24907754 GCGATGAG
1 ACGATGAG
24907762 TTTAAGCGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.17, G:0.33, T:0.13
Consensus pattern (22 bp):
ACGATGAGGGGAAAACCTCACG
Found at i:24907878 original size:29 final size:29
Alignment explanation
Indices: 24907833--24907888 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
24907823 CTTTGAAAGG
*
24907833 ACACCTTTATGACAATCTCTGTTAAAAAA
1 ACACCTTTATGACAATCTCTATTAAAAAA
* *
24907862 ACACCTTTGTGGA-AATCTTTATTAAAA
1 ACACCTTTAT-GACAATCTCTATTAAAA
24907889 GGAAGTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (29 bp):
ACACCTTTATGACAATCTCTATTAAAAAA
Done.