Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 88 of 333
Found at i:27409393 original size:25 final size:25
Alignment explanation
Indices: 27409359--27409411 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
27409349 ATCAAGTGCA
27409359 TTCGCAATGACACAAACCAACTTAC
1 TTCGCAATGACACAAACCAACTTAC
27409384 TTCGCAATGACACAAACCAACTTAC
1 TTCGCAATGACACAAACCAACTTAC
27409409 TTC
1 TTC
27409412 AATATTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.32, G:0.08, T:0.23
Consensus pattern (25 bp):
TTCGCAATGACACAAACCAACTTAC
Found at i:27412933 original size:39 final size:40
Alignment explanation
Indices: 27412816--27413038 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
27412806 GCTCCTCGTT
* * *
27412816 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
27412856 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27412896 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27412935 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
27412974 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
27413015 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27413039 CATCATTCAA
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.55
40 61 0.37
41 11 0.07
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:27412993 original size:79 final size:80
Alignment explanation
Indices: 27412816--27413038 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 80
27412806 GCTCCTCGTT
* * * * *
27412816 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGTACAAATGCCTTTGGGACTTAACCC
1 CAAATGCCTTC-GGACTTAGCCCGGAAT-TAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCC
*
27412879 GGATTTAGTAACTCGCA
64 GGAATTAGTAACTCGCA
*
27412896 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27412959 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * *
27412974 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCACAAATGCCTTCGGGACTTAGCC
27413035 CGGA
63 CGGA
27413039 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 46 0.37
79 58 0.46
80 21 0.17
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:27431069 original size:20 final size:20
Alignment explanation
Indices: 27431044--27431083 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27431034 CTAATTATGT
27431044 TAGACAACTTGTACTACTCG
1 TAGACAACTTGTACTACTCG
27431064 TAGACAACTTGTACTACTCG
1 TAGACAACTTGTACTACTCG
27431084 GTTTTAAGCG
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:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
TAGACAACTTGTACTACTCG
Found at i:27431279 original size:30 final size:30
Alignment explanation
Indices: 27431239--27431299 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
27431229 ATTCCCGAGC
* *
27431239 TTAGGGGCAAAAGTGTAATTATGCAAAAGT
1 TTAGCGGCAAAAATGTAATTATGCAAAAGT
* *
27431269 TTAGCGGCAAAAATGTAATTTTGCCAAAGT
1 TTAGCGGCAAAAATGTAATTATGCAAAAGT
27431299 T
1 T
27431300 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (30 bp):
TTAGCGGCAAAAATGTAATTATGCAAAAGT
Found at i:27432014 original size:13 final size:13
Alignment explanation
Indices: 27431996--27432026 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
27431986 TGAATAAGAA
27431996 GAAGGCCTAAAAT
1 GAAGGCCTAAAAT
27432009 GAAGGCCTAAAAT
1 GAAGGCCTAAAAT
27432022 GAAGG
1 GAAGG
27432027 TGACATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.29, T:0.13
Consensus pattern (13 bp):
GAAGGCCTAAAAT
Found at i:27448180 original size:37 final size:37
Alignment explanation
Indices: 27448130--27448208 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27448120 TTATTACGAA
* * *
27448130 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27448167 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27448204 GTCTT
1 GTCTT
27448209 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27448414 original size:47 final size:47
Alignment explanation
Indices: 27448371--27448896 Score: 827
Period size: 47 Copynumber: 11.1 Consensus size: 47
27448361 TTGGCCACTC
* * *
27448371 GGCCTTGTCACATATATACACTTTCACATTCGTCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
27448418 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* * *
27448465 GGCCTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
*
27448512 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* * *
27448559 GGCCCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
*
27448606 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* * * *
27448653 GGCCCTATCACACATATACGCTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
27448700 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
**
27448747 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
**
27448794 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
27448841 GGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTA
27448890 GGCCTTA
1 GGCCTTA
27448897 CTATCATTTC
Statistics
Matches: 453, Mismatches: 24, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
47 412 0.91
49 41 0.09
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.31
Consensus pattern (47 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:27460279 original size:37 final size:37
Alignment explanation
Indices: 27460221--27460328 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
27460211 GCTCAGACGA
* *
27460221 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACA-
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
27460257 AGATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 A-ATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
27460295 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
27460329 ATATATTTCC
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
36 1 0.01
37 66 0.97
38 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:27460609 original size:47 final size:47
Alignment explanation
Indices: 27460530--27460723 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
27460520 CATATATATT
* * * *
27460530 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
27460577 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
27460624 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
27460671 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
27460718 TCACAT
1 TCACAT
27460724 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:27460650 original size:22 final size:22
Alignment explanation
Indices: 27460623--27460694 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
27460613 GCTCACATTC
27460623 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
27460645 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
27460669 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
27460692 ATC
1 ATC
27460695 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:27465499 original size:118 final size:112
Alignment explanation
Indices: 27465277--27465507 Score: 248
Period size: 118 Copynumber: 2.0 Consensus size: 112
27465267 AAACTACATG
* * * * * ** *
27465277 ATACATACTTTAACATTTCAAGCAAATATAATATAGAAAATGATAAATAATGACATAAATTGCAT
1 ATACATACATTAACATTTCAAGAAAATACAACATAGAAAATAATAAATAACAACATAAATTACAT
* ** *
27465342 AATATATTATTAACATTTCATGCTGATATAATCATAAATAACATAAT
66 AATATATTAATAACATTTCATGCAAATATAATCATAAATAACAAAAT
* *
27465389 ATACATACATTAACATTTCATGTAAAATACAACATAGAAAATAATGAATATAACAATATAAATTA
1 ATACATACATTAACATTTCAAG-AAAATACAACATAGAAAATAAT-AA-ATAACAACATAAATTA
* *
27465454 CATAGTATATATATAATAATATTTCATGCAAATATAA-CTTAAAATAACAAAAT
63 CATA--ATATAT-TAATAACATTTCATGCAAATATAATCAT-AAATAACAAAAT
27465507 A
1 A
27465508 AATAAACAAT
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
112 20 0.21
113 18 0.19
114 2 0.02
115 16 0.17
117 8 0.08
118 32 0.33
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.32
Consensus pattern (112 bp):
ATACATACATTAACATTTCAAGAAAATACAACATAGAAAATAATAAATAACAACATAAATTACAT
AATATATTAATAACATTTCATGCAAATATAATCATAAATAACAAAAT
Found at i:27465937 original size:14 final size:14
Alignment explanation
Indices: 27465918--27465959 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
27465908 ATTTTGAAAT
27465918 TATACATAATATAA
1 TATACATAATATAA
*
27465932 TATAC--AATAAAA
1 TATACATAATATAA
*
27465944 TATAAATAATATAA
1 TATACATAATATAA
27465958 TA
1 TA
27465960 GGTAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
TATACATAATATAA
Found at i:27467670 original size:90 final size:91
Alignment explanation
Indices: 27467539--27467736 Score: 303
Period size: 90 Copynumber: 2.2 Consensus size: 91
27467529 CCTCATCAAC
* *
27467539 TACAGAGACACCAAATC-TGCTATCTTCGATCTGCTTTGATGTAAACACACGAATGTCAGATCTG
1 TACAGAGACGCCAAATCTTGCTATCTTCGATCTGATTTGATGTAAACACACGAATGTCAGATCTG
27467603 CTATCTTCGATCTGCTCCCCGTCTAA
66 CTATCTTCGATCTGCTCCCCGTCTAA
* * *
27467629 TACGGAGACGCCAAATCTTTC-ATCTTCGATCT-ATTTCGATGTAAACACACGAATGTTAGATCT
1 TACAGAGACGCCAAATCTTGCTATCTTCGATCTGATTT-GATGTAAACACACGAATGTCAGATCT
*
27467692 GCTATCTTTGATCTGCTCCCCGTCTAA
65 GCTATCTTCGATCTGCTCCCCGTCTAA
*
27467719 TACAGAGATGCCAAATCT
1 TACAGAGACGCCAAATCT
27467737 ACTTCTTCGA
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
89 3 0.03
90 93 0.95
91 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (91 bp):
TACAGAGACGCCAAATCTTGCTATCTTCGATCTGATTTGATGTAAACACACGAATGTCAGATCTG
CTATCTTCGATCTGCTCCCCGTCTAA
Found at i:27471164 original size:30 final size:30
Alignment explanation
Indices: 27471128--27471187 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
27471118 TTCCCGAGCC
*
27471128 TAGGGGCAAAAGTGAAATTATGCAAAAGTT
1 TAGGGGCAAAAATGAAATTATGCAAAAGTT
* * *
27471158 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGAAATTATGCAAAAGTT
27471188 CATATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGCAAAAATGAAATTATGCAAAAGTT
Found at i:27475604 original size:69 final size:69
Alignment explanation
Indices: 27475493--27475631 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
27475483 ATGCTCCTAC
27475493 TATGTTTATGGATTTAATGAATCGCATATTTCGGCCATACTTGGACAAATTTGTTGTGGTGTTTA
1 TATGTTTATGGATTTAATGAATCGCATATTTCGGCCATACTTGGACAAATTTGTTGTGGTGTTTA
27475558 TAGA
66 TAGA
27475562 TATGTTTATGGATTTAATGAATCGCATATTTCGGCCATACTTGGACAAATTTGTTGTGGTGTTTA
1 TATGTTTATGGATTTAATGAATCGCATATTTCGGCCATACTTGGACAAATTTGTTGTGGTGTTTA
27475627 TAGA
66 TAGA
27475631 T
1 T
27475632 GATATTTTAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (69 bp):
TATGTTTATGGATTTAATGAATCGCATATTTCGGCCATACTTGGACAAATTTGTTGTGGTGTTTA
TAGA
Found at i:27478772 original size:29 final size:30
Alignment explanation
Indices: 27478725--27478783 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
27478715 TTCCTGAGCC
*
27478725 TAGGGGCAAAAGTGAAATTATGCAAAAGTT
1 TAGGGGCAAAAATGAAATTATGCAAAAGTT
* * *
27478755 TAGGGG-AAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGAAATTATGCAAAAGTT
27478784 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGCAAAAATGAAATTATGCAAAAGTT
Found at i:27489622 original size:18 final size:18
Alignment explanation
Indices: 27489599--27489633 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27489589 ATGCAAATAT
*
27489599 ATAAAAACAATAAATAAC
1 ATAAAAACAACAAATAAC
*
27489617 ATAAAAATAACAAATAA
1 ATAAAAACAACAAATAA
27489634 TTTATAAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAAACAACAAATAAC
Found at i:27489874 original size:17 final size:18
Alignment explanation
Indices: 27489830--27489875 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
27489820 AAAAAAATGG
27489830 TTAATATATATAAATACAC
1 TTAATATATAT-AATACAC
*
27489849 -T-ATAGATATAATA-AC
1 TTAATATATATAATACAC
27489864 TTAATATATATA
1 TTAATATATATA
27489876 TTTATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 2 0.09
16 5 0.22
17 15 0.65
18 1 0.04
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (18 bp):
TTAATATATATAATACAC
Found at i:27490029 original size:26 final size:26
Alignment explanation
Indices: 27489989--27490066 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
27489979 TTTAAAATTT
*
27489989 TAAAATTATACATAATATAATATAAAA
1 TAAAA-TATAAATAATATAATATAAAA
*
27490016 TAAAATATAAATAATATAATATATAA
1 TAAAATATAAATAATATAATATAAAA
*
27490042 TACAAA-A-AAATAATAATAAAATAAA
1 TA-AAATATAAATAAT-ATAATATAAA
27490067 CATTTTTACA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
25 7 0.16
26 30 0.67
27 8 0.18
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (26 bp):
TAAAATATAAATAATATAATATAAAA
Found at i:27490060 original size:31 final size:31
Alignment explanation
Indices: 27490000--27490065 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 31
27489990 AAAATTATAC
*
27490000 ATAATATAATATAAAATAAAATATAAATAAT
1 ATAATATAATATAAAATAAAATATAAATAAA
27490031 ATAATAT-ATAATACAAA-AAAATA-ATAATAAA
1 ATAATATAAT-ATA-AAATAAAATATA-AATAAA
27490062 ATAA
1 ATAA
27490066 ACATTTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
30 3 0.10
31 25 0.81
32 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (31 bp):
ATAATATAATATAAAATAAAATATAAATAAA
Found at i:27490066 original size:5 final size:5
Alignment explanation
Indices: 27490000--27490066 Score: 55
Period size: 5 Copynumber: 13.0 Consensus size: 5
27489990 AAAATTATAC
* * * * *
27490000 ATAAT ATAAT ATAAA ATAAA ATATAA ATAAT ATAAT ATATA ATACAA A-AAA
1 ATAAA ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA ATA-AA ATAAA
27490051 ATAATA ATAAA ATAAA
1 ATAA-A ATAAA ATAAA
27490067 CATTTTTACA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
4 3 0.06
5 38 0.72
6 12 0.23
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (5 bp):
ATAAA
Found at i:27494173 original size:46 final size:45
Alignment explanation
Indices: 27493971--27494286 Score: 255
Period size: 45 Copynumber: 7.0 Consensus size: 45
27493961 TAAGAAAGGA
* * * *
27493971 TGCCATAGCGTCTTTCAGCTATGGTCTTAGTTC-TATAT-ATAATGA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTA-TTCAT-TTTCGTCATGT
* * * * * * **
27494016 TGCCATCGCGTCTTTCAGCCATGCTCTTACTC-GTTTCTGACAAAT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTCATTTTC-GTCATGT
* * * * *
27494061 TGCCATAGCATTTTTCAACTATGGTCTTATTCATTTTTGTTATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTCATTTTCGTCATGT
* * **
27494106 T--CATAGCTTCTTTAAGCTATGGTCTTATTTGGTTTTCGTCATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTA-TTCATTTTCGTCATGT
* * * **
27494150 TGCCATAGCGTCTTTTAGGTATGGTCTTATTGATTTTTTTCATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTCATTTTCGTCATGT
* * *
27494195 TGCCATAGTGCCTTTCAGCTATAGTCTTATTCATTTTCGTCATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTCATTTTCGTCATGT
* * * * *
27494240 TGCCATAGCGTATTTCAGTTATGCTCTTATTCGTTTTCATCATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTCATTTTCGTCATGT
27494285 TG
1 TG
27494287 GTGATAACAT
Statistics
Matches: 210, Mismatches: 55, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
43 24 0.11
44 15 0.07
45 145 0.69
46 26 0.12
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.46
Consensus pattern (45 bp):
TGCCATAGCGTCTTTCAGCTATGGTCTTATTCATTTTCGTCATGT
Found at i:27501438 original size:34 final size:33
Alignment explanation
Indices: 27501394--27501472 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
27501384 AAAAAGTCTG
* *
27501394 GGCCTAAGCCC-TTATCAGTAGCAATATCAATGTT
1 GGCCTTAGCCCGTTA-CAGTAACAATATCAATG-T
* *
27501428 GGCCTTAGCCCGTTACGGTAACAGTATCAATGT
1 GGCCTTAGCCCGTTACAGTAACAATATCAATGT
27501461 GGACCTTAGCCC
1 GG-CCTTAGCCC
27501473 AATTCAGTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 3 0.08
34 33 0.85
35 3 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (33 bp):
GGCCTTAGCCCGTTACAGTAACAATATCAATGT
Found at i:27516425 original size:44 final size:43
Alignment explanation
Indices: 27516361--27516524 Score: 188
Period size: 44 Copynumber: 3.8 Consensus size: 43
27516351 GTACTAATCG
* **
27516361 GGCCTTTGAGCCTAATAGGCTATAATGCCGGTGAAATGATATCT
1 GGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT-ATATCT
* * *
27516405 GGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAAATACTATTCG
1 GGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATA-TA-TCT
* *
27516450 GGCCTTCGAGCCTAGTAGGCTATAATGCCAGTGAAATAATAT-T
1 GGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT-ATATCT
* *
27516493 GGGCTTCGAGCCTAGCAGGCGA-AATGCCGGTG
1 GGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
27516525 GATGAATTCG
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
42 9 0.09
43 20 0.19
44 37 0.36
45 37 0.36
46 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (43 bp):
GGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATATATCT
Found at i:27516470 original size:45 final size:45
Alignment explanation
Indices: 27516352--27516524 Score: 203
Period size: 45 Copynumber: 3.9 Consensus size: 45
27516342 TACCGTACGG
* * **
27516352 TACTAATCGGGCCTTTGAGCCTAATAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
27516397 TGA-TA-TCTGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAAA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
27516441 TACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCAGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
27516486 TAATATT-GGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTG
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
27516525 GATGAATTCG
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
42 9 0.08
43 18 0.16
44 41 0.37
45 43 0.38
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:27529938 original size:34 final size:35
Alignment explanation
Indices: 27529869--27529963 Score: 97
Period size: 34 Copynumber: 2.8 Consensus size: 35
27529859 GCAATGTAAA
* * *
27529869 CAGTTTGGGCCTAAGCCC-TTATCAGTAGCAATAT
1 CAGTGTGGGCCTTAGCCCATTATCAGTAACAATAT
* *
27529903 CAGTGTGGGCCTTAGCCCATTA-CGGTAACAGTAT
1 CAGTGTGGGCCTTAGCCCATTATCAGTAACAATAT
* * *
27529937 CAATGTAGGCCTTAGCCCAAT-TCAGTA
1 CAGTGTGGGCCTTAGCCCATTATCAGTA
27529964 TAGTATCAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
34 47 0.94
35 3 0.06
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (35 bp):
CAGTGTGGGCCTTAGCCCATTATCAGTAACAATAT
Found at i:27535694 original size:34 final size:35
Alignment explanation
Indices: 27535641--27535740 Score: 157
Period size: 35 Copynumber: 2.9 Consensus size: 35
27535631 AATCCAACCA
*
27535641 AAACACACCAGATGCTCATAAGAGCCAATCCATCTG
1 AAACACACCA-ATGCTCATAAGAGCTAATCCATCTG
*
27535677 -AACACACCAATGCTCATAAGAGCTAATCCTTCTG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCTG
*
27535711 AAACACACCAATGCTCATAAAAGCTAATCC
1 AAACACACCAATGCTCATAAGAGCTAATCC
27535741 CTTCGTAACA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
34 23 0.38
35 37 0.62
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCTG
Found at i:27535751 original size:35 final size:34
Alignment explanation
Indices: 27535642--27535756 Score: 151
Period size: 35 Copynumber: 3.3 Consensus size: 34
27535632 ATCCAACCAA
* *
27535642 AACACACCAGATGCTCATAAGAGCCAATCCATC-T
1 AACACACCA-ATGCTCATAAGAGCTAATCCTTCGT
*
27535676 GAACACACCAATGCTCATAAGAGCTAATCCTTCTGA
1 -AACACACCAATGCTCATAAGAGCTAATCCTTC-GT
*
27535712 AACACACCAATGCTCATAAAAGCTAATCCCTTCGT
1 AACACACCAATGCTCATAAGAGCTAAT-CCTTCGT
27535747 AACACACCAA
1 AACACACCAA
27535757 AAAAAAAGAG
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
34 21 0.29
35 46 0.64
36 5 0.07
ACGTcount: A:0.39, C:0.31, G:0.10, T:0.19
Consensus pattern (34 bp):
AACACACCAATGCTCATAAGAGCTAATCCTTCGT
Found at i:27538164 original size:40 final size:40
Alignment explanation
Indices: 27538087--27538307 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
27538077 ACCCAAGTAT
* * *
27538087 CTTCGGGATTTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
27538126 CTTCGAGTCTTAGCCTGGATAGAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27538166 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27538206 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
27538246 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
27538286 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27538308 CATTCGAATA
Statistics
Matches: 156, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 14 0.09
40 137 0.88
41 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27538250 original size:120 final size:119
Alignment explanation
Indices: 27538087--27538307 Score: 356
Period size: 120 Copynumber: 1.8 Consensus size: 119
27538077 ACCCAAGTAT
*
27538087 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAATGCCTTC-GAGTCTTAG-CCTGGATAGAG
1 CTTCGGGACTTAGCCGGATATAACAACTCGCACAAATGCCTTCGGA-TCTTAGTCC-GGATAGAG
* *
27538150 TCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
64 TCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* *
27538206 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGT
1 CTTCGGGACTTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATAGAGT
27538271 CACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
65 CACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
27538308 CATTCGAATA
Statistics
Matches: 94, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
119 12 0.13
120 78 0.83
121 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCGGATATAACAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATAGAGTC
ACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:27545276 original size:50 final size:49
Alignment explanation
Indices: 27545146--27545387 Score: 227
Period size: 50 Copynumber: 4.9 Consensus size: 49
27545136 AGCCGAAGCT
* * * * * *
27545146 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCGACC
* *
27545195 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTGACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-GACC
* *
27545245 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCG-A-CC
* * * * ** *
27545296 AT-TGA-ATATGTATAGTAGCCTGCACTTAGTACTACACATGCGACTTAAC
1 ATCTGATACACG--TAGTAGCCTGCACTTAGTACTACACACGTGACCGACC
* * * *
27545345 AGTATGGTACATGTAGTAGCCTACACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
27545388 TACTCACAAT
Statistics
Matches: 160, Mismatches: 25, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
49 45 0.28
50 77 0.48
51 34 0.21
52 4 0.03
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCGACC
Found at i:27545284 original size:28 final size:28
Alignment explanation
Indices: 27545202--27545285 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 28
27545192 ACAATCCGGT
27545202 ACACGTAGTAGCCTGCACTTAGTACTAC
1 ACACGTAGTAGCCTGCACTTAGTACTAC
* *
27545230 ACACGT-G-A-CCTG-AC-CA-T-CTGAT
1 ACACGTAGTAGCCTGCACTTAGTACT-AC
27545252 ACACGTAGTAGCCTGCACTTAGTACTAC
1 ACACGTAGTAGCCTGCACTTAGTACTAC
27545280 ACACGT
1 ACACGT
27545286 GATCGAAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.18
23 2 0.05
24 3 0.07
25 8 0.18
26 3 0.07
27 2 0.05
28 14 0.32
29 2 0.05
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
ACACGTAGTAGCCTGCACTTAGTACTAC
Found at i:27555513 original size:24 final size:24
Alignment explanation
Indices: 27555481--27555530 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
27555471 TATGAATACT
27555481 TAGTACTCCAGGTGATAAGGTGTG
1 TAGTACTCCAGGTGATAAGGTGTG
27555505 TAGTACTCCAGGTGATAAGGTGTG
1 TAGTACTCCAGGTGATAAGGTGTG
27555529 TA
1 TA
27555531 CTTCTACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (24 bp):
TAGTACTCCAGGTGATAAGGTGTG
Found at i:27555626 original size:16 final size:16
Alignment explanation
Indices: 27555605--27555636 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27555595 TCAACAAATC
27555605 CTGAAATGCCGAAAAG
1 CTGAAATGCCGAAAAG
*
27555621 CTGAAATGTCGAAAAG
1 CTGAAATGCCGAAAAG
27555637 TCAGAAGTCT
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:0.44, C:0.16, G:0.25, T:0.16
Consensus pattern (16 bp):
CTGAAATGCCGAAAAG
Found at i:27556245 original size:27 final size:26
Alignment explanation
Indices: 27556215--27556319 Score: 77
Period size: 27 Copynumber: 3.9 Consensus size: 26
27556205 GTAATAAAGA
27556215 AAAATTACAAAAATACCCCTGATTTAC
1 AAAATTAC-AAAATACCCCTGATTTAC
* ** *
27556242 AAAATTACTAAAACACCATTGGTTTAC
1 AAAATTAC-AAAATACCCCTGATTTAC
** * **
27556269 AAAATTACTGAATA-CCCTCGACTTGT
1 AAAATTACAAAATACCCCT-GATTTAC
*
27556295 AAAATTACCAAAATACCCCTAATTT
1 AAAATTA-CAAAATACCCCTGATTT
27556320 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 18, Indels: 6
0.70 0.22 0.07
Matches are distributed among these distances:
25 2 0.04
26 13 0.23
27 38 0.67
28 4 0.07
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.29
Consensus pattern (26 bp):
AAAATTACAAAATACCCCTGATTTAC
Found at i:27556403 original size:27 final size:27
Alignment explanation
Indices: 27556269--27556410 Score: 144
Period size: 27 Copynumber: 5.3 Consensus size: 27
27556259 ATTGGTTTAC
27556269 AAAATTACTG-AATACCCTCGACTTGT
1 AAAATTACTGAAATACCCTCGACTTGT
** * *
27556295 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACTGAAATACCCTC-GACTTGT
* * * * *
27556322 GAAATTACCGAAATACCCTGGACCTAT
1 AAAATTACTGAAATACCCTCGACTTGT
* *
27556349 ACAATTACTGAAATACCCTCGACCTGT
1 AAAATTACTGAAATACCCTCGACTTGT
* *
27556376 ACAATTATTGAAATACCCTCGACTTGT
1 AAAATTACTGAAATACCCTCGACTTGT
27556403 AAAATTAC
1 AAAATTAC
27556411 CAAAATGCCC
Statistics
Matches: 93, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
26 9 0.10
27 84 0.90
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTCGACTTGT
Found at i:27556409 original size:54 final size:54
Alignment explanation
Indices: 27556270--27556424 Score: 163
Period size: 54 Copynumber: 2.9 Consensus size: 54
27556260 TTGGTTTACA
**
27556270 AAATTACTG-AATACCCTCGACTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTAACCTGTG
* * * * * ** *
27556323 AAATTACCGAAATACCCTGGACCTATACAATTACTGAAATA-CCCTCGACCTGT-
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCT-AACCTGTG
* *
27556376 ACAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAATGCCCCTAA
1 A-AATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTAA
27556425 GGGTGAGAAT
Statistics
Matches: 78, Mismatches: 20, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
53 13 0.17
54 61 0.78
55 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTAACCTGTG
Found at i:27572975 original size:34 final size:34
Alignment explanation
Indices: 27572929--27573010 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
27572919 GTAAACATTT
* * *
27572929 TGGGCCTAAGCCC-TTATCAGTAGCAATATCAGTG
1 TGGGCCTTAGCCCATTA-CAGTAACAATATCAATG
* *
27572963 TGGGCCTTAGCCCATTACGGTAACAGTATCAATG
1 TGGGCCTTAGCCCATTACAGTAACAATATCAATG
*
27572997 TAGGCCTTAGCCCA
1 TGGGCCTTAGCCCA
27573011 ATTCAATACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 38 0.93
35 3 0.07
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTACAGTAACAATATCAATG
Found at i:27584349 original size:16 final size:16
Alignment explanation
Indices: 27584328--27584361 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
27584318 TCAACAAATC
*
27584328 CTAAAATGCTGAAAAG
1 CTAAAATGCCGAAAAG
27584344 CTAAAATGCCGAAAAG
1 CTAAAATGCCGAAAAG
27584360 CT
1 CT
27584362 GAAAGTCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (16 bp):
CTAAAATGCCGAAAAG
Found at i:27584659 original size:28 final size:29
Alignment explanation
Indices: 27584598--27584666 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
27584588 TTCGGGCTAC
* *
27584598 ATGGGCCATATGAATGTGATTTGGGGCGA
1 ATGGGCCATATGAATGAGATTTGGGCCGA
*
27584627 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCGA
*
27584655 GTGGGCCATATG
1 ATGGGCCATATG
27584667 CATATATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.26
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCGA
Found at i:27585005 original size:27 final size:27
Alignment explanation
Indices: 27584966--27585090 Score: 117
Period size: 27 Copynumber: 4.7 Consensus size: 27
27584956 GTAATAAAGA
*
27584966 AAAATTACAGAAATACCCCTAATTTAC
1 AAAATTACTGAAATACCCCTAATTTAC
* * **
27584993 AAAATTATTGAAATACCCTTGGTTTAC
1 AAAATTACTGAAATACCCCTAATTTAC
* * **
27585020 AAAATTACTG-AATACCCTTAACTTGT
1 AAAATTACTGAAATACCCCTAATTTAC
** **
27585046 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACTGAAATACCCCTAATTTAC
*
27585073 GAAATTACTGAAATACCC
1 AAAATTACTGAAATACCC
27585091 TCGACCTGTA
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 19 0.24
27 60 0.76
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTAATTTAC
Found at i:27585105 original size:27 final size:27
Alignment explanation
Indices: 27585020--27585140 Score: 86
Period size: 27 Copynumber: 4.5 Consensus size: 27
27585010 CTTGGTTTAC
** *
27585020 AAAATTACTG-AATACCCTTAACTTGT
1 AAAATTACTGAAATACCCTCGACCTGT
** * **
27585046 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACTGAAATACCCTC-GACCTGT
*
27585073 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACTGAAATACCCTCGACCTGT
* * *
27585100 ACAATTA-TCGAAATACCCTTGACTTGT
1 AAAATTACT-GAAATACCCTCGACCTGT
*
27585127 AAAATTACCGAAAT
1 AAAATTACTGAAAT
27585141 GCCCCTAAGG
Statistics
Matches: 74, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
26 9 0.12
27 64 0.86
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTCGACCTGT
Found at i:27585106 original size:80 final size:80
Alignment explanation
Indices: 27584966--27585148 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
27584956 GTAATAAAGA
* * * *
27584966 AAAATTA-CAGAAATACCCCTAATTTACAAAATTATTGAAATACCCTTGGTTTACAAAATTA-CT
1 AAAATTACCA-AAATACCCCTAATTTACAAAATTACTGAAATACCCTCGCTGTAC-AAATTATC-
27585029 G-AATACCCTTAACTTGT
63 GAAATACCCTTAACTTGT
***
27585046 AAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTAC-AATTATCG
1 AAAATTACCAAAATACCCCTAATTTACAAAATTACTGAAATACCCTCG--CTGTACAAATTATCG
*
27585110 AAATACCCTTGACTTGT
64 AAATACCCTTAACTTGT
* *
27585127 AAAATTACCGAAATGCCCCTAA
1 AAAATTACCAAAATACCCCTAA
27585149 GGGTGAGAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
80 46 0.52
81 38 0.43
82 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTAATTTACAAAATTACTGAAATACCCTCGCTGTACAAATTATCGAA
ATACCCTTAACTTGT
Found at i:27585114 original size:54 final size:54
Alignment explanation
Indices: 27585020--27585140 Score: 136
Period size: 54 Copynumber: 2.3 Consensus size: 54
27585010 CTTGGTTTAC
* * *
27585020 AAAATTACTG-AATACCCTTAACTTGTAAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACTGAAATACCCTCAACCTGTAAAATTACCAAAATACCCCTAACTTGT
* * * * * * *
27585073 GAAATTACTGAAATACCCTCGACCTGTACAATTATCGAAATACCCTTGACTTGT
1 AAAATTACTGAAATACCCTCAACCTGTAAAATTACCAAAATACCCCTAACTTGT
*
27585127 AAAATTACCGAAAT
1 AAAATTACTGAAAT
27585141 GCCCCTAAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 9 0.16
54 46 0.84
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAATTACTGAAATACCCTCAACCTGTAAAATTACCAAAATACCCCTAACTTGT
Found at i:27585628 original size:16 final size:16
Alignment explanation
Indices: 27585607--27585638 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27585597 CCCAAAATGA
27585607 CTAATGATTGCTTTAT
1 CTAATGATTGCTTTAT
27585623 CTAATGATTGCTTTAT
1 CTAATGATTGCTTTAT
27585639 ACTCATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (16 bp):
CTAATGATTGCTTTAT
Found at i:27587489 original size:40 final size:39
Alignment explanation
Indices: 27587452--27587669 Score: 224
Period size: 40 Copynumber: 5.5 Consensus size: 39
27587442 ATATCCGGAC
27587452 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
27587492 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
27587532 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGAGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
27587572 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * *
27587612 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
27587651 TATGTCCTGAAGGCATTTG
1 TAAGTCC-GAAGGCATTTG
27587670 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.01
39 31 0.20
40 122 0.77
41 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:27595608 original size:20 final size:20
Alignment explanation
Indices: 27595571--27595608 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27595561 TGTGGATTCC
**
27595571 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTCCCTTGGG
27595591 ACACGCCCGTGTCCCTTG
1 ACACGCCCGTGTCCCTTG
27595609 TCCGTGGGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTCCCTTGGG
Found at i:27610444 original size:33 final size:33
Alignment explanation
Indices: 27610382--27610444 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
27610372 AAGGCCCACA
** *
27610382 CAGTTACTGTATAGGGCTAAAGCCTAGACTGTT
1 CAGTTACTAAATAGGGCTAAAGCCCAGACTGTT
**
27610415 CAGTTACTAAATAGGGCTATGGCCCAGACT
1 CAGTTACTAAATAGGGCTAAAGCCCAGACT
27610445 ATTTTGCATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (33 bp):
CAGTTACTAAATAGGGCTAAAGCCCAGACTGTT
Found at i:27614379 original size:28 final size:28
Alignment explanation
Indices: 27614316--27614413 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
27614306 ATATTAAGTC
*
27614316 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
27614343 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
27614371 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
27614400 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27614414 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27626114 original size:40 final size:40
Alignment explanation
Indices: 27626024--27626243 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
27626014 ACCCAAGTAT
* * ** * *
27626024 CTTCGAGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
27626062 CTTCAGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
27626102 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
27626142 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
27626182 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
27626222 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27626244 CATTCGAATA
Statistics
Matches: 150, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
38 9 0.06
39 18 0.12
40 119 0.79
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27631580 original size:37 final size:37
Alignment explanation
Indices: 27631518--27631663 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
27631508 AGCTCAGACG
* * *
27631518 AAATCTCCACACGAAGTTATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
27631555 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
27631592 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
27631629 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
27631664 ATATATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:27631921 original size:47 final size:47
Alignment explanation
Indices: 27631869--27632062 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
27631859 CATACATATT
* * * *
27631869 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
27631916 TCACATTGGCCATTCGACCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
27631963 TCGCATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
27632010 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
27632057 TCACAT
1 TCACAT
27632063 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:27635883 original size:48 final size:46
Alignment explanation
Indices: 27635827--27636041 Score: 161
Period size: 46 Copynumber: 4.6 Consensus size: 46
27635817 CATTACACGC
* * * *
27635827 CATGTCCCAAATAGGTCTTATACTAGCTTCTATATCGTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTATATC-T-AGGCCGATG
* **
27635875 CATGTCCCAGACATGTCTTACACTAGCTCTCGT-T-TCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TC-TATATCTAGGCCGATG
**
27635921 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTATATCT--AGGCCGATG
* * * **
27635969 CATGTCCCATACATGT-TATACACTGGC-TCTCATA-CTGTGGTTGATG
1 CATGTCCCAGACATGTCT-TACACTAGCTTCT-ATATCT-AGGCCGATG
* * *
27636015 AATATCCTAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
27636042 ACACATATCA
Statistics
Matches: 133, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 63 0.47
47 5 0.04
48 59 0.44
49 3 0.02
50 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCTATATCTAGGCCGATG
Found at i:27636693 original size:30 final size:30
Alignment explanation
Indices: 27636657--27636717 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27636647 TCCTTAACTC
27636657 AAACTTTGGAAAATTTACAAATTTGCCCCT
1 AAACTTTGGAAAATTTACAAATTTGCCCCT
* * * **
27636687 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTTACAAATTTGCCCCT
27636717 A
1 A
27636718 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAAATTTGCCCCT
Found at i:27643224 original size:25 final size:25
Alignment explanation
Indices: 27643196--27643265 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
27643186 CTCTTTTAAT
27643196 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
27643221 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
27643246 AACTGGGGCATAGTCCTTTT
1 AACTGGGGCAAAGCCCTTTT
27643266 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:27643498 original size:27 final size:27
Alignment explanation
Indices: 27643468--27643709 Score: 290
Period size: 27 Copynumber: 9.0 Consensus size: 27
27643458 GGGGCAAAAT
* * *
27643468 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
27643495 GGTAATTCTACCCTAC-AGGGCTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
27643522 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
27643549 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
27643576 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
27643603 AGTAATTCTACCTTA-TAGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
27643630 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
27643657 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
27643684 GATAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
27643710 TGATATTTTA
Statistics
Matches: 191, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 7 0.04
27 176 0.92
28 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:27643534 original size:54 final size:54
Alignment explanation
Indices: 27643469--27643709 Score: 322
Period size: 54 Copynumber: 4.5 Consensus size: 54
27643459 GGGCAAAATG
* * * * *
27643469 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGCTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
27643523 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * ** * * *
27643577 GTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCTTATAGGGTTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
27643631 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
27643684 GATAATTCTACCCTACAGGGGTATTT
1 G-TAATTCTACCCTACAAGGGTATTT
27643710 TGATATTTTA
Statistics
Matches: 164, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 1 0.01
54 163 0.99
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:27643752 original size:27 final size:28
Alignment explanation
Indices: 27643700--27643919 Score: 213
Period size: 27 Copynumber: 8.1 Consensus size: 28
27643690 TCTACCCTAC
*
27643700 AGGGGTATTTTGAT-ATTTTACAAATCG
1 AGGGGTATTTTGGTAATTTTACAAATCG
* * *
27643727 A-GAGTATTTTGATAATTTCACAAATC-
1 AGGGGTATTTTGGTAATTTTACAAATCG
* *
27643753 AGGGGTATTTTGGTAATTTTAC-AAGCT
1 AGGGGTATTTTGGTAATTTTACAAATCG
*
27643780 AGGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAATCG
* *
27643807 AGGGGTATTTTAGTAATTTTACAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAATCG
* **
27643834 AAGGGTATTTTGGTAATTTTACTGATCG
1 AGGGGTATTTTGGTAATTTTACAAATCG
** *
27643862 A-GGGTATTTTGGTAATTTTGTAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAATCG
* * **
27643888 AAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGGTATTTTGGTAATTTTACAAATCG
27643916 AGGG
1 AGGG
27643920 TGAACGGTAA
Statistics
Matches: 165, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
26 17 0.10
27 140 0.85
28 8 0.05
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACAAATCG
Found at i:27643920 original size:27 final size:27
Alignment explanation
Indices: 27643702--27644161 Score: 175
Period size: 27 Copynumber: 17.2 Consensus size: 27
27643692 TACCCTACAG
* **
27643702 GGGTATTTTGAT-ATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
* * ***
27643728 GAGTATTTTGATAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTGTAAATCGA
* *
27643754 GGGGTATTTTGGTAA-TTT-TACAAGCTA
1 -GGGTATTTTGGTAATTTTGTA-AATCGA
** *
27643781 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTGTAAATCGA
* ** * *
27643808 GGGGTATTTTAGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTGTAAATCGA
* *
27643836 GGGTATTTTGGTAATTTTACT-GATCGA
1 GGGTATTTTGGTAATTTT-GTAAATCGA
* *
27643863 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAATCGA
*
27643890 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
**
27643917 GGGTGA--ACGGTAATTTTGTAAATCGA
1 GGGT-ATTTTGGTAATTTTGTAAATCGA
*** *
27643943 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
**** * *
27643970 GGGTAACACGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
**** * * * *
27643997 GGGTAAAACGATAATTCTATAAATTGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
*** * *
27644024 GGGTAAGATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
*** * *
27644051 GGGTA-AACGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
*** * *
27644077 GGGTA-AACGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
*** * * *
27644103 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
**** *
27644130 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
27644157 GGGTA
1 GGGTA
27644162 AAACGGTAAT
Statistics
Matches: 375, Mismatches: 46, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.01
26 89 0.24
27 275 0.73
28 8 0.02
29 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAATCGA
Found at i:27643920 original size:81 final size:81
Alignment explanation
Indices: 27643700--27643907 Score: 260
Period size: 81 Copynumber: 2.6 Consensus size: 81
27643690 TCTACCCTAC
* * * * * * *
27643700 AGGGGTATTTTGAT-ATTTTACAAATCGAGAGTATTTT-GATAATTTCACAAATCAGGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTTACAAACCAAGGGTATTT
*
27643763 TGGTAATTTTACAAGCT
65 TGGTAATTTTACAAGCG
*
27643780 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
* *
27643845 GGTAATTTTACTGATCG
66 GGTAATTTTAC-AAGCG
**
27643862 A-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
27643908 GTAAATCGAG
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
80 13 0.12
81 94 0.85
82 4 0.04
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
GGTAATTTTACAAGCG
Found at i:27644162 original size:27 final size:27
Alignment explanation
Indices: 27643900--27644186 Score: 391
Period size: 27 Copynumber: 10.7 Consensus size: 27
27643890 GGGTATTTTA
* * *
27643900 GTAATTTTGTAAATCGAGGGT-GAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
27643926 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
27643953 GTAATTCTGTAAATCGAGGGTAACACG
1 GTAATTCTATAAATCGAGGGTAAAACG
27643980 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
27644007 ATAATTCTATAAATTGAGGGTAAGATG
1 GTAATTCTATAAATCGAGGGTAAAACG
27644034 GTAATTCTATAAATCGAGGGT-AAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
27644060 GTAATTCTATAAATCGAGGGT-AAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
**
27644086 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
27644113 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
27644140 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
27644167 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
27644187 CATTTCAGTA
Statistics
Matches: 235, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
26 71 0.30
27 164 0.70
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:27646098 original size:24 final size:24
Alignment explanation
Indices: 27645954--27646097 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
27645944 GCTTAATCAT
*
27645954 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
27645979 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
27646003 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
27646027 ATAGCTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
** *
27646051 ATAACTGAAGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
27646075 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27646098 GCACTTCTTC
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
24 96 0.89
25 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:27646172 original size:20 final size:20
Alignment explanation
Indices: 27646147--27646213 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
27646137 TTATGAATAC
27646147 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
27646167 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
27646187 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
27646207 ACCATGT
1 ATCATGT
27646214 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:27646178 original size:11 final size:11
Alignment explanation
Indices: 27646147--27646202 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
27646137 TTATGAATAC
27646147 ATCATGTGCAT
1 ATCATGTGCAT
*
27646158 ATCA--TACAT
1 ATCATGTGCAT
27646167 ATCATGTGCAT
1 ATCATGTGCAT
*
27646178 ATCA--TACAT
1 ATCATGTGCAT
*
27646187 GTCATGTGCAT
1 ATCATGTGCAT
27646198 ATCAT
1 ATCAT
27646203 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:27659883 original size:50 final size:49
Alignment explanation
Indices: 27659767--27659998 Score: 311
Period size: 49 Copynumber: 4.7 Consensus size: 49
27659757 CTGGTACGCA
* *
27659767 TAGTAGCCTGCACTTAGTACTACAGATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** * *
27659816 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
27659866 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
*
27659917 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
27659966 TAGTAGCCTACACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
27659999 TCACAATAGA
Statistics
Matches: 158, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 72 0.46
50 48 0.30
51 38 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:27665144 original size:49 final size:49
Alignment explanation
Indices: 27664967--27665162 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 49
27664957 TAGCCAAAGC
* * *
27664967 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* ** * **
27665017 CATCTATTACACGTAGTAGCCTGCACTTAGTACTACACGCGTGATTGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * *
27665068 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
27665117 TATCTGGTACATGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
27665163 TCACAATAGA
Statistics
Matches: 117, Mismatches: 27, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
49 40 0.34
50 42 0.36
51 35 0.30
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:27675031 original size:43 final size:43
Alignment explanation
Indices: 27674905--27675062 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
27674895 ATGTGTTATT
*
27674905 GTGTAAGACCACT-TTTGGGAC-GTTGGCATCGAT-TTGTGATTTAC
1 GTGTAAGACCA-TGTCTGGGACAG-TGGCATCGATATT-TGATTT-C
* * * *
27674949 GTGTAAGACCATGTCTAGGATATTGGCATC-ATATATGATTTC
1 GTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTC
* *
27674991 GTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTC
* * * *
27675034 ATGTAAGACCACGTTTGGGACATTGGCAT
1 GTGTAAGACCATGTCTGGGACAGTGGCAT
27675063 TATACGAGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 27 0.29
43 43 0.46
44 24 0.26
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTC
Found at i:27679820 original size:20 final size:20
Alignment explanation
Indices: 27679797--27679834 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27679787 TTATACAAAA
*
27679797 ACATGAATCTATATGCAATG
1 ACATGAACCTATATGCAATG
27679817 ACATGAACCTATATGCAA
1 ACATGAACCTATATGCAA
27679835 CACTATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (20 bp):
ACATGAACCTATATGCAATG
Found at i:27684856 original size:40 final size:40
Alignment explanation
Indices: 27684805--27685349 Score: 894
Period size: 40 Copynumber: 13.6 Consensus size: 40
27684795 CATTTGAATG
27684805 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27684845 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27684885 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27684925 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27684965 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
27685005 ATATCCGGGTTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27685045 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27685085 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
27685125 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
27685165 ATATCCGGGATAAGACCTGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
27685205 ATATCCGGGCTAAGACCCGACGACGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27685245 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
27685285 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
27685325 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
27685350 ATTGAGCTTG
Statistics
Matches: 474, Mismatches: 29, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.00
40 471 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:27692309 original size:39 final size:40
Alignment explanation
Indices: 27692055--27692317 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
27692045 TTGAATGCTG
* * * * * *
27692055 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
27692095 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
27692135 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
27692175 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
27692215 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
27692255 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTCACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27692294 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27692318 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:27719134 original size:43 final size:43
Alignment explanation
Indices: 27718977--27719137 Score: 132
Period size: 43 Copynumber: 3.8 Consensus size: 43
27718967 TTTAATTAGT
* * * * *
27718977 ATCGATGCCACTGTTCCAGACAAGGTCTTACACG-AA-ATCAA
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCTA
* * *
27719018 ATACGATGTCGATGTCCCAGACATGGTCTTACATGTAATCTCTA
1 AT-CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCTA
* * * * *
27719062 ATCGATGCTAGTGTCCCAGGCACGATCTTACACG-ATATCTC-A
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACGTA-ATCTCTA
* *
27719104 AGTTGATGCCAATGTCCCAGACGTGGTCTTACAC
1 A-TCGATGCCAATGTCCCAGACATGGTCTTACAC
27719138 AAAATCATAT
Statistics
Matches: 92, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 56 0.61
44 5 0.05
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
ATCGATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCTA
Found at i:27727657 original size:27 final size:27
Alignment explanation
Indices: 27727627--27727688 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
27727617 GGGCCCAATT
*
27727627 TGTAAAATTATTGAAATACACTTGTAG
1 TGTAAAATTATTGAAATACACTTATAG
*
27727654 TGTAAAATTATTGAAATACCCTTATAG
1 TGTAAAATTATTGAAATACACTTATAG
27727681 TGTAAAAT
1 TGTAAAAT
27727689 AACCGGCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (27 bp):
TGTAAAATTATTGAAATACACTTATAG
Found at i:27727997 original size:41 final size:41
Alignment explanation
Indices: 27727952--27728113 Score: 234
Period size: 41 Copynumber: 4.0 Consensus size: 41
27727942 AGGAAGTATA
* *
27727952 TGAGGATCGCATGGTTGCTTCACGACCATGGATCCACCGAT
1 TGAGGATCACATGGTTGCTTGACGACCATGGATCCACCGAT
* *
27727993 TGAGGATCACATGGTTGCTTGACTACCATAGATCCACCGAT
1 TGAGGATCACATGGTTGCTTGACGACCATGGATCCACCGAT
* *
27728034 TGAGAATCACATGGTTGCTTGACGACCATGGATCCATCGAT
1 TGAGGATCACATGGTTGCTTGACGACCATGGATCCACCGAT
* * * *
27728075 TAAGGATCGCATGGTTGCTTGATGACCGTGGATCCACCG
1 TGAGGATCACATGGTTGCTTGACGACCATGGATCCACCG
27728114 GTGACTTTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 107 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (41 bp):
TGAGGATCACATGGTTGCTTGACGACCATGGATCCACCGAT
Found at i:27728293 original size:22 final size:22
Alignment explanation
Indices: 27728261--27728319 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
27728251 TATTCAGATC
*
27728261 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
27728283 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
27728305 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
27728320 ACATATTTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:27730048 original size:40 final size:40
Alignment explanation
Indices: 27729993--27730172 Score: 283
Period size: 40 Copynumber: 4.5 Consensus size: 40
27729983 TGGCTCCTAC
* *
27729993 TGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCACACA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* *
27730033 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
27730073 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* *
27730113 TGCCTTCGGG-CTTAGCCC-GAAATTAGTCACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAA
27730152 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
27730173 TTATCATCCG
Statistics
Matches: 129, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
38 3 0.02
39 33 0.26
40 92 0.71
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
Found at i:27735672 original size:46 final size:46
Alignment explanation
Indices: 27735576--27735698 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
27735566 TTGTTTCGTA
* ** * * * *
27735576 GCCGAAGCATGTCTTAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCTACATCTCAAG
*
27735622 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACT-CATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-CTACATCTCAAG
27735668 GCCGATGCCATGTCCCAGACATGGTCTTACA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACA
27735699 ATGACTTACA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 43 0.65
47 15 0.23
48 8 0.12
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCCTACATCTCAAG
Found at i:27741230 original size:47 final size:47
Alignment explanation
Indices: 27741174--27741374 Score: 173
Period size: 46 Copynumber: 4.3 Consensus size: 47
27741164 CCTAGATACG
** *
27741174 GTCTTACACTGGCTCAT-ATCTC-AAGTTGAGGCCATGTCCCAGACAT
1 GTCTTACACTGGCTCATCATCTCGAAGCCGATG-CATGTCCCAGACAT
* * * * * *
27741220 GCTCTTACACTGACT-ATCGTTTCGTAGCCGACGCATGTCCTAGACAT
1 G-TCTTACACTGGCTCATCATCTCGAAGCCGATGCATGTCCCAGACAT
* * *
27741267 GTCTTACACTGGCTTA-CGTCTCGAGGCCGATGCATGTCCCAGACAT
1 GTCTTACACTGGCTCATCATCTCGAAGCCGATGCATGTCCCAGACAT
* *
27741313 GTCTTACACTAGCAC-TCATCTC-AATGTCC-ATGCCATGTCCCAGACAT
1 GTCTTACACTGGCTCATCATCTCGAA-G-CCGATG-CATGTCCCAGACAT
27741360 GGTCTTACACTGGCT
1 -GTCTTACACTGGCT
27741375 TACACAAGTG
Statistics
Matches: 125, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 61 0.49
47 46 0.37
48 17 0.14
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GTCTTACACTGGCTCATCATCTCGAAGCCGATGCATGTCCCAGACAT
Found at i:27743307 original size:2 final size:2
Alignment explanation
Indices: 27743302--27743340 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
27743292 TATATATGTA
*
27743302 TG TG TG TG TG TG TG TG TG TG TG TG TC TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
27743341 AACATGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.03, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:27754085 original size:27 final size:27
Alignment explanation
Indices: 27754055--27754313 Score: 331
Period size: 27 Copynumber: 9.6 Consensus size: 27
27754045 TTAGTTTACC
27754055 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
27754082 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
27754109 AAATCACCAAAATACCCC-GGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
27754135 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
27754162 AAATTACGAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
27754189 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
27754216 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
27754243 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
27754270 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
27754297 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
27754314 TCGACCTGTA
Statistics
Matches: 202, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 23 0.11
27 179 0.89
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:27754120 original size:54 final size:54
Alignment explanation
Indices: 27754055--27754447 Score: 380
Period size: 54 Copynumber: 7.3 Consensus size: 54
27754045 TTAGTTTACC
27754055 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
27754109 AAATCACCAAAATACCCC-GGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
27754162 AAATTACGAAAATACCTCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * *
27754216 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
** * * * *** *
27754270 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*** * ** * * *
27754324 AAATTATTGAAGTA-CCCTCGACTTGTAAAATTACCT-AAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTA-CTAAAATACCCTTGGTTTATA
* * *** * ** * *
27754378 GAATAACCATTTTA-CCCTCGATTTACAAAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
27754432 AAATTACCAAAATACC
1 AAATTACCAAAATACC
27754448 ATCGATCAAT
Statistics
Matches: 277, Mismatches: 57, Indels: 9
0.81 0.17 0.03
Matches are distributed among these distances:
53 54 0.19
54 220 0.79
55 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:27754363 original size:27 final size:27
Alignment explanation
Indices: 27754055--27754368 Score: 119
Period size: 27 Copynumber: 11.7 Consensus size: 27
27754045 TTAGTTTACC
* **
27754055 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCTAAATACCCTC-GACTTGTA
* ** *
27754082 AAATTA-CTAAAATACCCTTGGTTTATA
1 AAATTACCT-AAATACCCTCGACTTGTA
* * **
27754109 AAATCACCAAAATACCC-CGGTTTGTA
1 AAATTACCTAAATACCCTCGACTTGTA
* * ** **
27754135 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCTAAATACCCTCGACTTGTA
** **
27754162 AAATTACGAAAATA-CCTCTGGTTTGTA
1 AAATTACCTAAATACCCTC-GACTTGTA
* * *
27754189 AAATTA-CTAAAATACCCTTTG-TTTATA
1 AAATTACCT-AAATACCC-TCGACTTGTA
* * *
27754216 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCTAAATACCCTCGA-CTTGTA
* * *
27754243 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCTAAATACCCTCGA-CTTGTA
* * * *
27754270 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCTAAATACCCTC-GACTTGTA
*
27754297 AAATTA-CTGAAATACCCTCGACCTGTA
1 AAATTACCT-AAATACCCTCGACTTGTA
* *
27754324 AAATTA-TTGAAGTACCCTCGACTTGTA
1 AAATTACCT-AAATACCCTCGACTTGTA
*
27754351 AAATTACCTAAGTACCCT
1 AAATTACCTAAATACCCT
27754369 TGATTTACAG
Statistics
Matches: 238, Mismatches: 34, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
26 28 0.12
27 201 0.84
28 8 0.03
29 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCTAAATACCCTCGACTTGTA
Found at i:27754420 original size:27 final size:27
Alignment explanation
Indices: 27754390--27754491 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 27
27754380 ATAACCATTT
** **
27754390 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
27754417 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* ***
27754444 TACCATCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
27754471 TACCC-CTGATTTGTGAAATTA
1 TACCCTC-GATTTGTAAAATTA
27754492 TTGAAATACC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
26 1 0.02
27 58 0.98
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:27754497 original size:81 final size:80
Alignment explanation
Indices: 27754055--27754505 Score: 347
Period size: 81 Copynumber: 5.6 Consensus size: 80
27754045 TTAGTTTACC
* * * *
27754055 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAA
* * *
27754120 ATACCCCGGTTTGTA
66 ATACCTCGATTTATA
* * ** *
27754135 AAATTACCAAAATACCCTTGGTTTACAAAATTAC-GAAAATA-CCTCTGGTTTGTAAAATTACTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTG-AAATACCCT-TGGTTTGTAAAATTACCA
*
27754198 AAATACCCTTTG-TTTATA
64 AAATA-CC-TCGATTTATA
** * *
27754216 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAA
* * * *
27754280 AATACCCCTAATTTGTG
65 AATACCTC-GATTTATA
** ** * * * ** *
27754297 AAATTACTGAAATA-CCCTCGACCTGTAAAATTATTGAAGTACCCTCGACTTGTAAAATTACCTA
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAA
* * *
27754361 AGTACCCTTGATTTACA
65 AATA-CCTCGATTTATA
* * *** ** **
27754378 GAATAACCATTTTA-CCCTCGATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAA
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAA
**
27754442 AATACCATCGATCAATA
65 AATACC-TCGATTTATA
* *
27754459 AAATTACCAAAATACCCCTGATTTGTGAAATTATTGAAATACCCTTG
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAATACCCTTG
27754506 TAAGGTAGAA
Statistics
Matches: 280, Mismatches: 77, Indels: 27
0.73 0.20 0.07
Matches are distributed among these distances:
79 3 0.01
80 64 0.23
81 203 0.73
82 10 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAA
ATACCTCGATTTATA
Found at i:27754517 original size:27 final size:27
Alignment explanation
Indices: 27754494--27754733 Score: 326
Period size: 27 Copynumber: 9.0 Consensus size: 27
27754484 TGAAATTATT
* * *
27754494 GAAATACCCTTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
27754521 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
27754548 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
27754575 GAAATA-CCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
27754601 -AGAATACCTCTGTAAGGTAGAATTACT
1 GA-AATACCCCTGTAGGGTAGAATTACC
*
27754628 GAATTA-CCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
27754654 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
27754681 AAAATACCCCTGTAGGGTGGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
27754708 GAGATA-CCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
27754734 ATTTTGCTCC
Statistics
Matches: 190, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.01
26 62 0.33
27 126 0.66
28 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:27754608 original size:53 final size:54
Alignment explanation
Indices: 27754494--27754733 Score: 326
Period size: 53 Copynumber: 4.5 Consensus size: 54
27754484 TGAAATTATT
* * *
27754494 GAAATACCCTTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
27754548 GAAATACCCCTGTAGGGTAGAATTACCGAAATA-CCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
* * * *
27754601 -AGAATACCTCTGTAAGGTAGAATTACTGAATTA-CCCTGTAGGGTAGAATTACC
1 GA-AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
* *
27754654 GAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTGGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
* * * *
27754708 GAGATA-CCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
27754734 ATTTTGCTCC
Statistics
Matches: 166, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
52 1 0.01
53 110 0.66
54 55 0.33
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (54 bp):
GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
Found at i:27754626 original size:80 final size:79
Alignment explanation
Indices: 27754494--27754733 Score: 329
Period size: 80 Copynumber: 3.0 Consensus size: 79
27754484 TGAAATTATT
* *
27754494 GAAATACCCTTGTAAGGTAGAATTA-CTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCC
1 GAAATACCC-TGTAGGGTAGAATTACCAG-AATACCCCTGTAGGGTAGAATTACCGAAATA-CCC
27754558 TGTAGGGTAGAATTACC
63 TGTAGGGTAGAATTACC
* * * *
27754575 GAAATACCCTGTAGGGTAGAATTACCAGAATACCTCTGTAAGGTAGAATTACTGAATTACCCTGT
1 GAAATACCCTGTAGGGTAGAATTACCAGAATACCCCTGTAGGGTAGAATTACCGAAATACCCTGT
27754640 AGGGTAGAATTACC
66 AGGGTAGAATTACC
* * * *
27754654 GAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTGGAATTACCGAGATACCTTG
1 GAAATA-CCCTGTAGGGTAGAATTACCAGAATACCCCTGTAGGGTAGAATTACCGAAATACCCTG
* *
27754719 TGGGGTAAAATTACC
65 TAGGGTAGAATTACC
27754734 ATTTTGCTCC
Statistics
Matches: 141, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
79 26 0.18
80 104 0.74
81 11 0.08
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (79 bp):
GAAATACCCTGTAGGGTAGAATTACCAGAATACCCCTGTAGGGTAGAATTACCGAAATACCCTGT
AGGGTAGAATTACC
Found at i:27754734 original size:53 final size:54
Alignment explanation
Indices: 27754460--27754734 Score: 303
Period size: 53 Copynumber: 5.1 Consensus size: 54
27754450 CGATCAATAA
** ** *
27754460 AATTACCAAAATACCCCTG-ATTTGT-GAAATTATTGAAATACCCTTGTAAGGTAG
1 AATTACCAAAATACCCCTGTA-GGGTAG-AATTACCGAAATACCCTTGTAGGGTAG
** *
27754514 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* *
27754568 AATTACCGAAATA-CCCTGTAGGGTAGAATTACC-AGAATA-CCTCTGTAAGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGA-AATACCCT-TGTAGGGTAG
** * *
27754621 AATTACTGAATTA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * *
27754674 AATTACCAAAATACCCCTGTAGGGTGGAATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
27754727 AATTACCA
1 AATTACCA
27754735 TTTTGCTCCT
Statistics
Matches: 191, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
52 3 0.02
53 105 0.55
54 81 0.42
55 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
Found at i:27755212 original size:22 final size:22
Alignment explanation
Indices: 27755160--27755224 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
27755150 TTAAAGCCTT
* *
27755160 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
27755182 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
27755204 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
27755225 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:27755419 original size:26 final size:27
Alignment explanation
Indices: 27755383--27755443 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
27755373 ATTCTGTTAA
* * *
27755383 GTGGCTTTGCCATATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
27755409 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
*
27755436 GTGACTCT
1 GTGGCTCT
27755444 ATCGCAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:27755451 original size:27 final size:26
Alignment explanation
Indices: 27755398--27755456 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
27755388 TTTGCCATAT
* *
27755398 TATCTGTTCTGGTGGCTCTGCCACAA
1 TATCTGTTCTGGTGACTCTACCACAA
* *
27755424 TATCTGTATCTGGTGACTCTATCGCAA
1 TATCTGT-TCTGGTGACTCTACCACAA
27755451 TATCTG
1 TATCTG
27755457 ATAACTGAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
TATCTGTTCTGGTGACTCTACCACAA
Found at i:27755631 original size:6 final size:6
Alignment explanation
Indices: 27755593--27755766 Score: 90
Period size: 6 Copynumber: 27.8 Consensus size: 6
27755583 TTGCATTCAC
* * *
27755593 ATTCTG ATTTTTG ATTCT- ATTACCTG ATACTG ATTCTG ATTTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG A-TTCTG ATTCTG
* * * * *
27755644 -TTACCTG ATACTA ATTCTG ATTTTG TTTCTG -TTACCTG ATACTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * *
27755694 ATTTTG ATTTTG -TTACCTG ATAT-TG ATTCTG ATTCTG ATTCTG -TCACTTG
1 ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG AT-TC-TG
27755744 ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
27755767 AGTTCTAATA
Statistics
Matches: 130, Mismatches: 19, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
5 11 0.08
6 89 0.68
7 23 0.18
8 6 0.05
9 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:27755674 original size:31 final size:31
Alignment explanation
Indices: 27755593--27755766 Score: 240
Period size: 31 Copynumber: 5.5 Consensus size: 31
27755583 TTGCATTCAC
*
27755593 ATTCTGATTTTTGATTCTATTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
27755625 ATTCTGATTTTTGATTCTGTTACCTGATACTA
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
27755657 ATTCTGATTTTGTTTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
27755688 ATTCTGATTTTGATTTTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
27755719 ATTCTGATTCTGATTCTGTCACTTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
27755750 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
27755767 AGTTCTAATA
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 92 0.71
32 37 0.29
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:27767934 original size:16 final size:16
Alignment explanation
Indices: 27767913--27767959 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
27767903 ATTATATTAA
27767913 ATTTATCAAGATAAAT
1 ATTTATCAAGATAAAT
*
27767929 ATTTATCAA-CT--A-
1 ATTTATCAAGATAAAT
27767941 ATTTATCAAGATAAAT
1 ATTTATCAAGATAAAT
27767957 ATT
1 ATT
27767960 ATATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
15 2 0.08
16 12 0.48
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTTATCAAGATAAAT
Found at i:27773431 original size:45 final size:45
Alignment explanation
Indices: 27773344--27773431 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
27773334 GTTCCAAGTG
* * *
27773344 TTCATATCATATCAAATCCATATAGTAGTGTAATAGGTTAGATTA
1 TTCATATCATATCAAATCCATACAGTAGTGTAACAGGCTAGATTA
* *
27773389 TTCATATCATATCAAATCTATACAGTAGTGTAACATGCTAGAT
1 TTCATATCATATCAAATCCATACAGTAGTGTAACAGGCTAGAT
27773432 CACAACTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (45 bp):
TTCATATCATATCAAATCCATACAGTAGTGTAACAGGCTAGATTA
Found at i:27777395 original size:93 final size:93
Alignment explanation
Indices: 27777282--27777453 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
27777272 GCCCATAAGT
* *
27777282 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
27777347 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGAATGCCTAGTTACATCTCTC
* * *
27777375 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
27777440 CGAGTTCGAATGCC
66 CGAGCTCGAATGCC
27777454 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCTC
Found at i:27777447 original size:46 final size:45
Alignment explanation
Indices: 27777274--27777443 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
27777264 TGTAACCCGC
*
27777274 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
27777320 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
27777366 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
27777413 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCAGACTCAACTCAACGAG
27777444 TTCGAATGCC
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 62 0.60
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:27777468 original size:46 final size:46
Alignment explanation
Indices: 27777325--27777468 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
27777315 CGCATCCATA
* * * *
27777325 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCA--TACATC-CT
* * * * *
27777374 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGCCCATACATCCT
*
27777418 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCATACATCCT
27777464 AGTGA
1 AGTGA
27777469 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 31 0.42
47 28 0.38
48 1 0.01
49 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCATACATCCT
Found at i:27786172 original size:39 final size:39
Alignment explanation
Indices: 27785989--27786326 Score: 296
Period size: 39 Copynumber: 8.6 Consensus size: 39
27785979 AAAGCATGCG
* * * *
27785989 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTC
1 GGAC-TTAAGCCCGGATATATTTCCAGCACTAATGCCTGC
* * * *
27786029 AGGACTT-AGCCCGGATATAATGCCAGCACGAATGCCTTC
1 -GGACTTAAGCCCGGATATATTTCCAGCACTAATGCCTGC
*** * *
27786068 GGGACTT-AGCCCGGATATAGCACCAGCACAAATGCCTTC
1 -GGACTTAAGCCCGGATATATTTCCAGCACTAATGCCTGC
* * * *
27786107 AGGACTT-AGCCCGGATATAATACCAGCACGAATGCCTTC
1 -GGACTTAAGCCCGGATATATTTCCAGCACTAATGCCTGC
* *
27786146 GGGACTT-AGCCCGGATATTTTTCCAGCACTTA-GCCTGC
1 -GGACTTAAGCCCGGATATATTTCCAGCACTAATGCCTGC
* *
27786184 GGACTTTAAGTCCGGATATATTTCCAGCA-TAAAGCCTGC
1 GGAC-TTAAGCCCGGATATATTTCCAGCACTAATGCCTGC
* *
27786223 GGACTTCAAGTCCGGATATATTTCCAGCA-TAAAGCCTGC
1 GGACTT-AAGCCCGGATATATTTCCAGCACTAATGCCTGC
* *
27786262 GGACTTCAAGTCCGGATATATTTCCAGCA-TAAAGCCTGC
1 GGACTT-AAGCCCGGATATATTTCCAGCACTAATGCCTGC
* *
27786301 GGACTTCAAGTCCGGATATTTTTCCA
1 GGACTT-AAGCCCGGATATATTTCCA
27786327 ATACCATGCA
Statistics
Matches: 272, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
37 4 0.01
38 11 0.04
39 251 0.92
40 2 0.01
41 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
GGACTTAAGCCCGGATATATTTCCAGCACTAATGCCTGC
Found at i:27786203 original size:117 final size:115
Alignment explanation
Indices: 27785970--27786319 Score: 359
Period size: 117 Copynumber: 3.0 Consensus size: 115
27785960 AAAATCAAAT
* *
27785970 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACT
1 CACCAGCACAAAGCCTGC-GGAC-TTAAGCCCGGATATAATACCAGCACGAATGCCTTC-GGACT
* * * * *
27786035 TAGCCCGGATATAATGCCAGCACGAATGCCTTCGGGAC-TT-AGCCCGGATATAG
63 TAGCCCGGATATATTTCCAGCACTAA-GCCTGC-GGACTTTAAGTCCGGATATAG
*
27786088 CACCAGCACAAATGCCTTCAGGACTT-AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACT
1 CACCAGCACAAA-GCCTGC-GGACTTAAGCCCGGATATAATACCAGCACGAATGCCTTC-GGACT
* * *
27786152 TAGCCCGGATATTTTTCCAGCACTTAGCCTGCGGACTTTAAGTCCGGATATAT
63 TAGCCCGGATATATTTCCAGCACTAAGCCTGCGGACTTTAAGTCCGGATATAG
** * * * * * * *
27786205 TTCCAGCATAAAGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCA-TAAAGCCTGCGGACTTC
1 CACCAGCACAAAGCCTGCGGACTT-AAGCCCGGATATAATACCAGCACGAATGCCTTCGGACTT-
* *
27786269 AAGTCCGGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGTCCGGATAT
64 -AGCCCGGATATATTTCCAGCACT-AAGCCTGCGGACTTTAAGTCCGGATAT
27786320 TTTTCCAATA
Statistics
Matches: 197, Mismatches: 27, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
115 16 0.08
116 20 0.10
117 140 0.71
118 13 0.07
119 8 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (115 bp):
CACCAGCACAAAGCCTGCGGACTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGACTTAG
CCCGGATATATTTCCAGCACTAAGCCTGCGGACTTTAAGTCCGGATATAG
Found at i:27790181 original size:27 final size:27
Alignment explanation
Indices: 27790139--27790297 Score: 177
Period size: 27 Copynumber: 5.9 Consensus size: 27
27790129 GCGAGGTTGC
* *
27790139 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
27790166 CAGATATTGTGGC-GAAGCCACCAGA-A
1 CAGATATTGTGGCAG-AGCCACCAGATA
27790192 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
27790219 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
27790246 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
27790273 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
27790298 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:27790298 original size:54 final size:54
Alignment explanation
Indices: 27790157--27790300 Score: 247
Period size: 54 Copynumber: 2.7 Consensus size: 54
27790147 GTGACGAAGT
*
27790157 CACCAGATACAGAT-ATTGTGGCGA-AGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGC-ATAGCCACCAGGACAGATATATGTGGCAGAGC
27790211 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
27790265 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
27790301 GCTTCCTCCA
Statistics
Matches: 87, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
53 6 0.07
54 81 0.93
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:27790705 original size:8 final size:8
Alignment explanation
Indices: 27790689--27790718 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
27790679 CTCAAAATAC
27790689 CGGCTTTT
1 CGGCTTTT
*
27790697 CGGCATTT
1 CGGCTTTT
27790705 CGGCTTTT
1 CGGCTTTT
27790713 CGGCTT
1 CGGCTT
27790719 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:27791919 original size:26 final size:26
Alignment explanation
Indices: 27791885--27791963 Score: 158
Period size: 26 Copynumber: 3.0 Consensus size: 26
27791875 AATTCTCATA
27791885 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
27791911 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
27791937 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
27791963 A
1 A
27791964 ATTTGTATCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:27795792 original size:48 final size:48
Alignment explanation
Indices: 27795466--27795794 Score: 428
Period size: 48 Copynumber: 6.9 Consensus size: 48
27795456 ACGAGATCCC
* * * * *
27795466 GTGTAAGACCACGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGATATGTGTGCCA
* * * ***
27795515 GTGTTAGACCATGTTTGGGATATGGCATCGATGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCA
* *
27795563 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCA
*
27795611 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCA
* *
27795659 GTGTAAGACCATGTTTGGAACATGGCATCGGC-TTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCA
* *
27795706 GTGTAAGACCATGTCTAGGACATGGCATCGACGA-TGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGATATGTGTGCCA
* * * *
27795754 GTGTAAGACTATGTTTGGGACATGGCATTGGCACTGATATG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATG
27795795 AGACTTCGTA
Statistics
Matches: 245, Mismatches: 32, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
47 43 0.18
48 176 0.72
49 26 0.11
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCA
Found at i:27795794 original size:143 final size:143
Alignment explanation
Indices: 27795466--27795797 Score: 477
Period size: 143 Copynumber: 2.3 Consensus size: 143
27795456 ACGAGATCCC
* * * *
27795466 GTGTAAGACCACGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCCAGTGTTAGACCATGTTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCA-CTGATATGAGAGCCAGTGTAAGACCATGTTT
* * * *
27795531 GGGATATGGCATCGATGTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCG
65 GGAACATGGCATCGA-GTTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACG
* *
27795596 TTGATATGTGTGCTA
129 ATGATATGTGTGCCA
* * * *
27795611 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGTGTGCCAGTGTAAGACCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATGAGAGCCAGTGTAAGACCATGTTTG
27795676 GAACATGGCATCG-GCTTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACGA
66 GAACATGGCATCGAG-TTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACGA
27795740 TGATATGTGTGCCA
130 TGATATGTGTGCCA
* * *
27795754 GTGTAAGACTATGTTTGGGACATGGCATTGGCACTGATATGAGA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATGAGA
27795798 CTTCGTATAA
Statistics
Matches: 165, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
142 1 0.01
143 96 0.58
144 37 0.22
145 31 0.19
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (143 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATGAGAGCCAGTGTAAGACCATGTTTG
GAACATGGCATCGAGTTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACGAT
GATATGTGTGCCA
Found at i:27795811 original size:191 final size:193
Alignment explanation
Indices: 27795466--27795827 Score: 471
Period size: 191 Copynumber: 1.9 Consensus size: 193
27795456 ACGAGATCCC
* *
27795466 GTGTAAGACCACGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCCAGTGTTAGACCATGTTT
1 GTGTAAGACCACGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCCAGTGTAAGACCATGTCT
* * * * *
27795531 GGGATATGGCATCGATGTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCG
66 AGGACATGGCATCGACGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
* * * * * *
27795596 TTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGTGTGCCA
131 CTGATATGAGTACTAGTATAAGACCATATATGGGACATGGCATCGGCATTAATATGTGTGCCA
* * * * *
27795659 GTGTAAGACCATGT-TTGGAACATGGCATCGGC-T-TGATATGTGTGCCAGTGTAAGACCATGTC
1 GTGTAAGACCACGTCTAGG-ACATGGCATCGGCATCTGAGATGAGAGCCAGTGTAAGACCATGTC
* * *
27795721 TAGGACATGGCATCGACGATGATATGTGTGCCAGTGTAAGACTATGTTTGGGACATGGCATTGGC
65 TAGGACATGGCATCGACGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
* *
27795786 ACTGATATGAG-ACTTCGTATAAGACCATATATGGGATATGGC
130 ACTGATATGAGTAC-TAGTATAAGACCATATATGGGACATGGC
27795828 GTCGACATGT
Statistics
Matches: 144, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
190 1 0.01
191 113 0.78
192 4 0.03
193 26 0.18
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (193 bp):
GTGTAAGACCACGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCCAGTGTAAGACCATGTCT
AGGACATGGCATCGACGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
CTGATATGAGTACTAGTATAAGACCATATATGGGACATGGCATCGGCATTAATATGTGTGCCA
Found at i:27799697 original size:18 final size:18
Alignment explanation
Indices: 27799674--27799710 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
27799664 TTTAGTGTCA
27799674 CACGACCGTATCACACAG
1 CACGACCGTATCACACAG
27799692 CACGACCGTATCACACAG
1 CACGACCGTATCACACAG
27799710 C
1 C
27799711 CGTGTGGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.41, G:0.16, T:0.11
Consensus pattern (18 bp):
CACGACCGTATCACACAG
Found at i:27815493 original size:47 final size:47
Alignment explanation
Indices: 27815437--27815872 Score: 637
Period size: 47 Copynumber: 9.3 Consensus size: 47
27815427 TACAAGTATA
* *
27815437 TATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
* * **
27815484 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTCAACATGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
* *
27815531 TATATGAGATAAGGCCGAATGGCCAATATGATGAATGTGAACATGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
* **
27815578 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
*
27815625 TATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
*
27815672 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
* **
27815719 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
*
27815766 TATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-A-GTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
* *
27815811 TACATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGA-A-GTG
1 T--ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
27815858 TATAAATGTGATAAG
1 TAT--ATGTGATAAG
27815873 TCCCGAAGGG
Statistics
Matches: 353, Mismatches: 32, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
45 4 0.01
46 1 0.00
47 348 0.99
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
Found at i:27815750 original size:22 final size:22
Alignment explanation
Indices: 27815723--27815844 Score: 70
Period size: 22 Copynumber: 5.3 Consensus size: 22
27815713 CATGTGTATG
27815723 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
27815745 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
27815770 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * **
27815792 TGTGATGAATG-TGAAAGTGTACATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
27815817 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
27815839 TGTGAT
1 TGTGAT
27815845 GGATGTGGAA
Statistics
Matches: 72, Mismatches: 16, Indels: 24
0.64 0.14 0.21
Matches are distributed among these distances:
22 21 0.29
23 18 0.25
24 18 0.25
25 15 0.21
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:27818433 original size:48 final size:48
Alignment explanation
Indices: 27818106--27818509 Score: 398
Period size: 48 Copynumber: 8.5 Consensus size: 48
27818096 TGAGATCCCC
* * *
27818106 TGTAAGACCATGTTTGGGACATGGCATCGACATCCTAGATA--AGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACAT--T-GATATGTGTGCCAG
* * * * *
27818155 TGTAAGACCATGTATGGGATATGGCATTGGCGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCAG
* * *
27818203 TGTAAAACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCAG
* * *
27818251 TGTAAGGCCATGTCTAGGACATGGCATCGACGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCAG
* *
27818299 TGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCAG
* * * *
27818347 TGTAAGGCCATGTTTGGGACATGACATCGACGA-TGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-ATTGATATGTGTGCCAG
* * * ** * *
27818395 TGTAAGATCATGTCTAGGACATGGCATCGGCACCGATATGAGACT-TC-G
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTG--TGCCAG
* * * *
27818443 TATAAGACCATATCTGGGATATGGCATCGACA-TG-TA-G-AT-CCA-
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCAG
27818485 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
27818510 TTTGGTACTT
Statistics
Matches: 298, Mismatches: 50, Indels: 21
0.81 0.14 0.06
Matches are distributed among these distances:
42 24 0.08
45 1 0.00
46 6 0.02
47 3 0.01
48 234 0.79
49 29 0.10
50 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCAG
Found at i:27818449 original size:144 final size:144
Alignment explanation
Indices: 27818106--27818469 Score: 444
Period size: 144 Copynumber: 2.5 Consensus size: 144
27818096 TGAGATCCCC
* * * * * * * *
27818106 TGTAAGACCATGTTTGGGACATGGCATCGACATCCTAGATAAGAGCCAGTGTAAGACCATGTATG
1 TGTAAGACCATGTCTAGGACATGGCATCGACA-CCGATATGAGTGCCAGTATAAGACCATGTCTG
* * *
27818171 GGATATGGCATTGGCGTTGATATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGT
65 GGATATGGCATTGGCATTGATATGTGTGCCAGTGTAAAACCATGTCTGGGACATGACATCGACGA
27818236 TGATATGTGTGCCAA
130 TGATATGTGTGCCAA
* *** * *
27818251 TGTAAGGCCATGTCTAGGACATGGCATCGACGTTGATATGTGTGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTAGGACATGGCATCGACACCGATATGAGTGCCAGTATAAGACCATGTCTGG
* ** *
27818316 GACATGGCATTGGCATTGATATGTGTGCCAGTGTAAGGCCATGTTTGGGACATGACATCGACGAT
66 GATATGGCATTGGCATTGATATGTGTGCCAGTGTAAAACCATGTCTGGGACATGACATCGACGAT
* *
27818381 GATATGTGTGCTAG
131 GATATGTGTGCCAA
* * * *
27818395 TGTAAGATCATGTCTAGGACATGGCATCGGCACCGATATGAGACT-TC-GTATAAGACCATATCT
1 TGTAAGACCATGTCTAGGACATGGCATCGACACCGATATGAG--TGCCAGTATAAGACCATGTCT
27818458 GGGATATGGCAT
64 GGGATATGGCAT
27818470 CGACATGTAG
Statistics
Matches: 185, Mismatches: 32, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
144 155 0.84
145 29 0.16
146 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (144 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACACCGATATGAGTGCCAGTATAAGACCATGTCTGG
GATATGGCATTGGCATTGATATGTGTGCCAGTGTAAAACCATGTCTGGGACATGACATCGACGAT
GATATGTGTGCCAA
Found at i:27833138 original size:50 final size:49
Alignment explanation
Indices: 27833016--27833250 Score: 267
Period size: 50 Copynumber: 4.7 Consensus size: 49
27833006 CGAAGCTATC
* *
27833016 TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGATC-AATAAT
1 TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAATCAT
* * * * * *
27833064 TCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTCATCAT
1 T-GATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAATCAT
* * *
27833114 CTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCAT
1 -TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-TCAT
* *
27833165 TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAAT-AGT
1 TGA-TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAATCA-T
* *
27833215 ATGATACACGTAGTAGCCTACACTTAGTACTACACA
1 -TGATACACATAGTAGCCTGCACTTAGTACTACACA
27833251 CGCGTATTCA
Statistics
Matches: 157, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 36 0.23
50 75 0.48
51 45 0.29
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (49 bp):
TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAATCAT
Found at i:27833231 original size:101 final size:99
Alignment explanation
Indices: 27833016--27833250 Score: 312
Period size: 101 Copynumber: 2.4 Consensus size: 99
27833006 CGAAGCTATC
*
27833016 TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGATCAATAATTCGGTACACGTAGTAGC
1 TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGATCAATAATTCGGTACACATAGTAGC
* * *
27833081 CTACACTTAGTACTACACACGTGACCTCATCATC
66 CTACACTTAGTACTACACACGCGACCTAATCATA
* * *
27833115 TGATACACATAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATT-GAGTACGCATAGT
1 TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGATC-AA-TAATTCG-GTACACATAGT
* * *
27833179 AGCCTGCACTTAGTACTACACATGCGACTTAAT-AGTA
63 AGCCTACACTTAGTACTACACACGCGACCTAATCA-TA
* *
27833216 TGATACACGTAGTAGCCTACACTTAGTACTACACA
1 TGATACACATAGTAGCCTGCACTTAGTACTACACA
27833251 CGCGTATTCA
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
99 41 0.34
100 4 0.03
101 75 0.62
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (99 bp):
TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGATCAATAATTCGGTACACATAGTAGC
CTACACTTAGTACTACACACGCGACCTAATCATA
Found at i:27835937 original size:80 final size:80
Alignment explanation
Indices: 27835840--27836000 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
27835830 TTATGTTGAA
27835840 TGAAGAATATTATCTGTGGCTGTGACACACATACAAACTATGATTCATGTTGGCATATTTTGAAA
1 TGAAGAATATTATCTGTGGCTGTGACACACATACAAACTATGATTCATGTTGGCATATTTTGAAA
27835905 CTTAGTATAAAACTC
66 CTTAGTATAAAACTC
27835920 TGAAGAATATTATCTGTGGCTGTGACACACATACAAACTATGATTCATGTTGGCATATTTTGAAA
1 TGAAGAATATTATCTGTGGCTGTGACACACATACAAACTATGATTCATGTTGGCATATTTTGAAA
27835985 CTTAGTATAAAACTC
66 CTTAGTATAAAACTC
27836000 T
1 T
27836001 AAAAATGCTT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (80 bp):
TGAAGAATATTATCTGTGGCTGTGACACACATACAAACTATGATTCATGTTGGCATATTTTGAAA
CTTAGTATAAAACTC
Found at i:27842081 original size:30 final size:30
Alignment explanation
Indices: 27842047--27842107 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27842037 TCCTTAACTC
27842047 AAACTTTGTAAAAATTACAATTTTGCCCCT
1 AAACTTTGTAAAAATTACAATTTTGCCCCT
* * * * *
27842077 AAACTTTTTCATATTTACACTTTTGCCCCT
1 AAACTTTGTAAAAATTACAATTTTGCCCCT
27842107 A
1 A
27842108 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGTAAAAATTACAATTTTGCCCCT
Found at i:27852285 original size:46 final size:45
Alignment explanation
Indices: 27852230--27852389 Score: 189
Period size: 46 Copynumber: 3.5 Consensus size: 45
27852220 GACGAGGGCT
* *
27852230 AGTGTAAGACATGTCTGGGACACGCATCAGCCACAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAG-ATGAGAGCC
* **
27852276 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AGATGAGAGCC
* * * * *
27852322 AGTGTCAGACATGTCTGGGACATGCGTCGGCTAC-GA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGA-GAGCC
27852366 AGTGTAAGACATGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
27852390 GCATTGACAC
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.01
44 27 0.28
46 68 0.69
47 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAGAGCC
Found at i:27855881 original size:95 final size:93
Alignment explanation
Indices: 27855765--27855937 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
27855755 CGATGGTTGA
* * **
27855765 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTAATTGGATGCGAATGTTCGAACTCGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT-A-TGGATGCGAACGCCCGAACTCGTTGA
*
27855830 GTTGAGTCCGAGTTCGTGAGATGTAACTAG
64 GCTGAGTCCGAGTTCGTGAGATGTAACTAG
* *
27855860 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGC
27855925 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27855938 ACTTATGGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 36 0.51
94 1 0.01
95 34 0.48
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGC
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27855931 original size:46 final size:46
Alignment explanation
Indices: 27855769--27855945 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
27855759 GGTTGAGCAT
* * *
27855769 CCGAACTCGTTGAGTTGAGTTCGAGTTCACTTAATTGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTT-A-TGGATGCGAACGC
* * * *
27855817 TCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
27855862 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
27855910 CCGAGCTCGTTGAGCTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27855946 GTGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 1 0.01
46 36 0.34
47 27 0.25
48 30 0.28
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:27887689 original size:33 final size:32
Alignment explanation
Indices: 27887640--27887703 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
27887630 CTCGCTAAAA
* *
27887640 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
27887673 TCTGGTGGCCTAGCCACAATATTTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
27887704 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Done.