Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 70 of 126
Found at i:20901467 original size:120 final size:118
Alignment explanation
Indices: 20901186--20901482 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
20901176 TTGAATGATG
* *
20901186 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
20901246 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
20901304 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
20901369 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
20901425 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
20901483 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:20908463 original size:16 final size:15
Alignment explanation
Indices: 20908438--20908471 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
20908428 AAAGTTGATA
*
20908438 ATAATTAATATACATT
1 ATAATAAATATA-ATT
20908454 ATAATAAATATAATT
1 ATAATAAATATAATT
20908469 ATA
1 ATA
20908472 TATTACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:20911695 original size:20 final size:20
Alignment explanation
Indices: 20911670--20911708 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20911660 TCGCTTCTTC
* *
20911670 TTTACTTACTTTCTTACTTG
1 TTTACTTAATTGCTTACTTG
20911690 TTTACTTAATTGCTTACTT
1 TTTACTTAATTGCTTACTT
20911709 AAATATCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTACTTAATTGCTTACTTG
Found at i:20912033 original size:50 final size:50
Alignment explanation
Indices: 20911909--20912088 Score: 195
Period size: 50 Copynumber: 3.6 Consensus size: 50
20911899 GATAATAACA
* * *
20911909 TGCCAAAGACATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* *
20911958 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * ** ** * *
20912008 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
*
20912058 TGCCAACGCCATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
20912089 GTAGGGGTGA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
48 4 0.04
49 38 0.35
50 68 0.62
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:20912484 original size:30 final size:31
Alignment explanation
Indices: 20912450--20912509 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
20912440 AAACCTTTTA
*
20912450 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
20912480 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
20912510 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:20912616 original size:18 final size:20
Alignment explanation
Indices: 20912588--20912631 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
20912578 ACTCTCCCTA
*
20912588 TTTACTTTCCCTC-AAACTT
1 TTTACTTTCCCCCTAAACTT
20912607 TTTA-TTTCCCCCTAAAC-T
1 TTTACTTTCCCCCTAAACTT
20912625 TTTACTT
1 TTTACTT
20912632 CTCACCCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTACTTTCCCCCTAAACTT
Found at i:20920366 original size:60 final size:60
Alignment explanation
Indices: 20920273--20920392 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
20920263 CTGTATTGCC
20920273 AATTCCATATCCCAGTTATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTCATGT
1 AATTCCATATCCCAGTTATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTCATGT
20920333 AATTCCATATCCCAGTTATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTCATGT
1 AATTCCATATCCCAGTTATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTCATGT
20920393 CCTAAACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (60 bp):
AATTCCATATCCCAGTTATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTCATGT
Found at i:20927145 original size:12 final size:12
Alignment explanation
Indices: 20927116--20927146 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
20927106 TCGAAAATAA
20927116 ATAAAATTTATT
1 ATAAAATTTATT
20927128 -TAAAATTTATT
1 ATAAAATTTATT
20927139 ATAAAATT
1 ATAAAATT
20927147 AATCAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAAAATTTATT
Found at i:20930757 original size:79 final size:80
Alignment explanation
Indices: 20930669--20930826 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 80
20930659 GTATGAGGGT
* ** ** *
20930669 TATATATGTATATACAAGATTCGAATACATATATGTATATACATGTAT-AAATTCTT-GGTTTAA
1 TATATATGTATACACAAGACCCGAATACATATATAAATATACATGAATAAAATT-TTGGGTTTAA
20930732 TCAAAGGTATGTATAA
65 TCAAAGGTATGTATAA
* * * *
20930748 TATATATGTATACATAAGGCCCGAATATATATATAAATATACATGAATAAAATTTTGGGTTTGAT
1 TATATATGTATACACAAGACCCGAATACATATATAAATATACATGAATAAAATTTTGGGTTTAAT
*
20930813 TAAAGGTATGTATA
66 CAAAGGTATGTATA
20930827 TTGTATTTGC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
79 41 0.62
80 25 0.38
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (80 bp):
TATATATGTATACACAAGACCCGAATACATATATAAATATACATGAATAAAATTTTGGGTTTAAT
CAAAGGTATGTATAA
Found at i:20931255 original size:41 final size:41
Alignment explanation
Indices: 20931192--20931294 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
20931182 GGCTTAGCAC
* *
20931192 CTAGCAGGCTTATTGCCAGTGAAACAATTCAAACTTTATGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATTCAAACTATATGT
*** * *
20931233 CTAGCAGGCTTAATGTTGGTGAAACATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATTCAAACTATATGT
*
20931274 CTAGTAGGC-TAAGTGCCAGTG
1 CTAGCAGGCTTAA-TGCCAGTG
20931295 TACTGAATCA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
40 3 0.06
41 47 0.94
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCAGTGAAACAATTCAAACTATATGT
Found at i:20932913 original size:49 final size:48
Alignment explanation
Indices: 20932854--20932984 Score: 190
Period size: 49 Copynumber: 2.7 Consensus size: 48
20932844 TTGAATTTTA
* *
20932854 AAAACTCTTTTAAATAATAATCTAAATTCTATTTAATTATCCTTTATTT
1 AAAACTCTTTTAAATAATAAT-TAAATTCTATTTAATTATCATTTATCT
*
20932903 AAAACTCTTTTAAATAATAATTAAATTCTATTTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAATTAAATTCTA-TTTAATTATCATTTATCT
* * *
20932952 AAAACTCTTTGAAATAAAAATTAAATTTTATTT
1 AAAACTCTTTTAAATAATAATTAAATTCTATTT
20932985 CCTTATCTAA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
48 12 0.16
49 63 0.84
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.48
Consensus pattern (48 bp):
AAAACTCTTTTAAATAATAATTAAATTCTATTTAATTATCATTTATCT
Found at i:20933061 original size:94 final size:94
Alignment explanation
Indices: 20932932--20933105 Score: 269
Period size: 94 Copynumber: 1.9 Consensus size: 94
20932922 ATTAAATTCT
* *
20932932 ATTTTAATTATTATTTATCTAAAACTCTTTGAAATAAAAATTAAATTTTATTTCCTTATCTAATA
1 ATTTTAATTATTATTTATCTAAAACTATTTGAAATAAAAATTAAATTCTATTTCCTTATCTAATA
*
20932997 ATGAATATATCAAATCCTTTTGATTTTGA
66 AGGAATATATCAAATCCTTTTGATTTTGA
* * * *
20933026 ATTTTAATTGTTATTTATATTAAAA-TATTTTAAATAATAATTAAATTCTATTTCCTTATCTAAT
1 ATTTTAATTATTATTTAT-CTAAAACTATTTGAAATAAAAATTAAATTCTATTTCCTTATCTAAT
20933090 AAGGAATATATCAAAT
65 AAGGAATATATCAAAT
20933106 TCCCTTTTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 67 0.93
95 5 0.07
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (94 bp):
ATTTTAATTATTATTTATCTAAAACTATTTGAAATAAAAATTAAATTCTATTTCCTTATCTAATA
AGGAATATATCAAATCCTTTTGATTTTGA
Found at i:20934815 original size:71 final size:71
Alignment explanation
Indices: 20934734--20935028 Score: 581
Period size: 71 Copynumber: 4.2 Consensus size: 71
20934724 TAATTGATTA
20934734 TCATTCCTAATTTAAAATAATATTATCATTTTAAATTACTTAAAGGGAGCGATAAACTAAACCAT
1 TCATTCCTAATTTAAAATAATATTATCATTTTAAATTACTTAAAGGGAGCGATAAACTAAACCAT
20934799 TCTTGT
66 TCTTGT
20934805 TCATTCCTAATTTAAAATAATATTATCATTTTAAATTACTTAAAGGGAGCGATAAACTAAACCAT
1 TCATTCCTAATTTAAAATAATATTATCATTTTAAATTACTTAAAGGGAGCGATAAACTAAACCAT
20934870 TCTTGT
66 TCTTGT
20934876 TCATTCCTAATTTAAAATAATATTATCATTTTAAATTACTTAAAGGGAGCGATAAACTAAACCAT
1 TCATTCCTAATTTAAAATAATATTATCATTTTAAATTACTTAAAGGGAGCGATAAACTAAACCAT
20934941 TCTTGT
66 TCTTGT
20934947 TCATTCCTAATTTAAAATAATATTATCATTTTAAATTACTTAAAGGGAGCGATAAACTAAACCAT
1 TCATTCCTAATTTAAAATAATATTATCATTTTAAATTACTTAAAGGGAGCGATAAACTAAACCAT
20935012 TCTTGT
66 TCTTGT
*
20935018 TCATTCTTAAT
1 TCATTCCTAAT
20935029 GTGCGACCCT
Statistics
Matches: 223, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 223 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (71 bp):
TCATTCCTAATTTAAAATAATATTATCATTTTAAATTACTTAAAGGGAGCGATAAACTAAACCAT
TCTTGT
Found at i:20943714 original size:45 final size:45
Alignment explanation
Indices: 20943663--20943751 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
20943653 TGTGAATCGA
* * *
20943663 ACATCATTGATTAGTAAAGTGGTTGCCATGTGTTGATTCCACCGG
1 ACATCATTGATTAATAAAGTGGTTGCCATGTGCTGAATCCACCGG
* *
20943708 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAAGTGGTTGCCATGTGCTGAATCCACCG
20943752 AGTATCTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAAGTGGTTGCCATGTGCTGAATCCACCGG
Found at i:20946316 original size:103 final size:103
Alignment explanation
Indices: 20946137--20946345 Score: 400
Period size: 103 Copynumber: 2.0 Consensus size: 103
20946127 TGGTGTGATA
*
20946137 TGTGCTACTGTGTAAGACCATAGCTGGGCTACGGCATCAATATGTAAATATGTGTAAGACCATAG
1 TGTGCTACTGTGTAAGACCATAGCTAGGCTACGGCATCAATATGTAAATATGTGTAAGACCATAG
20946202 TTGGATTATGGCATAGAGAAAAAAGAAGTACTCAAATC
66 TTGGATTATGGCATAGAGAAAAAAGAAGTACTCAAATC
20946240 TGTGCTACTGTGTAAGACCATAGCTAGGCTACGGCATCAATATGTAAATATGTGTAAGACCATAG
1 TGTGCTACTGTGTAAGACCATAGCTAGGCTACGGCATCAATATGTAAATATGTGTAAGACCATAG
*
20946305 TTGGATTATGGCATAGAGAAAAAAGAAGTACTCAATTC
66 TTGGATTATGGCATAGAGAAAAAAGAAGTACTCAAATC
20946343 TGT
1 TGT
20946346 AAGACATTCT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (103 bp):
TGTGCTACTGTGTAAGACCATAGCTAGGCTACGGCATCAATATGTAAATATGTGTAAGACCATAG
TTGGATTATGGCATAGAGAAAAAAGAAGTACTCAAATC
Found at i:20950749 original size:26 final size:26
Alignment explanation
Indices: 20950720--20950772 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
20950710 CTGATCAAAA
20950720 AGGGGTTGCCAAGTGCAGATTCCCCG
1 AGGGGTTGCCAAGTGCAGATTCCCCG
* * *
20950746 AGGGGTTGCTAAGTTCTGATTCCCCG
1 AGGGGTTGCCAAGTGCAGATTCCCCG
20950772 A
1 A
20950773 ATGATTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.25
Consensus pattern (26 bp):
AGGGGTTGCCAAGTGCAGATTCCCCG
Found at i:20950838 original size:43 final size:41
Alignment explanation
Indices: 20950746--20950861 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 41
20950736 AGATTCCCCG
* * *
20950746 AGGGGTTGCTAAGTTCTGATTCCCCGAATGATTGATTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTAA
* *
20950787 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTCT-AA
* *
20950831 AGGGGTTGCTATGTGTTGATTCCCCGTATCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCA
20950862 CTGAATATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
41 3 0.05
42 26 0.41
43 30 0.47
44 5 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTAA
Found at i:20953016 original size:21 final size:22
Alignment explanation
Indices: 20952990--20953030 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20952980 GAACCATATT
*
20952990 GACCTC-AATGTCGTGACATAG
1 GACCTCGAATGTCGCGACATAG
*
20953011 GACCTCGTATGTCGCGACAT
1 GACCTCGAATGTCGCGACAT
20953031 CACCTTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (22 bp):
GACCTCGAATGTCGCGACATAG
Found at i:20958298 original size:79 final size:81
Alignment explanation
Indices: 20958164--20958346 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
20958154 GAATGATGTT
*
20958164 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
*
20958228 TGCGAGATACTA-ATTC
66 TGCGAGATACTATA-AC
* * * **
20958244 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTT
* *
20958306 GTGCTAGTTACTATAAC
65 GTGCGAGATACTATAAC
*
20958323 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
20958347 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTATAAC
Found at i:20958360 original size:40 final size:41
Alignment explanation
Indices: 20958164--20958346 Score: 218
Period size: 40 Copynumber: 4.6 Consensus size: 41
20958154 GAATGATGTT
* * *
20958164 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATC
* * *
20958204 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAATC
20958244 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATC
* *
20958283 CGGGTTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATC
*
20958323 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
20958347 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATC
Found at i:20958369 original size:79 final size:79
Alignment explanation
Indices: 20958215--20958369 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
20958205 GGACTAAGAT
* **
20958215 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
20958280 ATCCGGGTTAAGTC
66 ATCCGAGTTAAGTC
* * *
20958294 CCGAAGGCATTTGTGCTAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
20958357 TATATCC-AGTTAA
63 TAAATCCGAGTTAA
20958370 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGAGTTAAGTC
Found at i:20960600 original size:45 final size:45
Alignment explanation
Indices: 20960528--20960618 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
20960518 GGGATTTTTT
* * *
20960528 TTCCCTTTCTCGTGACGACACTTTGCAAAAGCGTAGAGGTTCCGA
1 TTCCCTATCTCGTGACGACACTCTGCAAAAGCGCAGAGGTTCCGA
* *
20960573 TTCCCTATCTCGTGAC-AGCACTCTGCAAAAGTGCAGAGGTTTCGA
1 TTCCCTATCTCGTGACGA-CACTCTGCAAAAGCGCAGAGGTTCCGA
20960618 T
1 T
20960619 AGATGAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (45 bp):
TTCCCTATCTCGTGACGACACTCTGCAAAAGCGCAGAGGTTCCGA
Found at i:20963722 original size:14 final size:15
Alignment explanation
Indices: 20963705--20963733 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20963695 AAAGAAAGAT
20963705 CTTGA-AACCCTAGG
1 CTTGACAACCCTAGG
20963719 CTTGACAACCCTAGG
1 CTTGACAACCCTAGG
20963734 AAGCCATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (15 bp):
CTTGACAACCCTAGG
Found at i:20968156 original size:26 final size:26
Alignment explanation
Indices: 20968113--20968383 Score: 291
Period size: 26 Copynumber: 10.3 Consensus size: 26
20968103 GGTGTTGACC
*
20968113 GAAATA-CCTCGATGGGTAAATTATT
1 GAAATACCCTCGATGGGTAAATTACT
* *
20968138 GAAATACCCTCGATAGGTAAATTACC
1 GAAATACCCTCGATGGGTAAATTACT
* * *
20968164 AAAATACCCTTGATGGGTATATTACT
1 GAAATACCCTCGATGGGTAAATTACT
20968190 GAAATACCCTCGATGGGTAAATTACT
1 GAAATACCCTCGATGGGTAAATTACT
* *
20968216 GAAATACCCTTGATGGGTAAATTACC
1 GAAATACCCTCGATGGGTAAATTACT
* *
20968242 AAAATACCCTTGATTGGG-AAATTA-T
1 GAAATACCCTCGA-TGGGTAAATTACT
*
20968267 CGAAATACCATCGATGGGTAAATTACT
1 -GAAATACCCTCGATGGGTAAATTACT
*
20968294 GAAATACTCTCGATGGGTAAATTACT
1 GAAATACCCTCGATGGGTAAATTACT
*
20968320 GAAATACCC-CTG-TGGGGCAAAATTACT
1 GAAATACCCTC-GAT-GGG-TAAATTACT
* * *
20968347 GAAATACCCCCAGAAGGGTAGATTGACT
1 GAAATACCCTC-GATGGGTAAATT-ACT
*
20968375 GATATACCC
1 GAAATACCC
20968384 CTAGTAGATG
Statistics
Matches: 208, Mismatches: 27, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
25 12 0.06
26 154 0.74
27 26 0.12
28 16 0.08
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (26 bp):
GAAATACCCTCGATGGGTAAATTACT
Found at i:20968205 original size:78 final size:77
Alignment explanation
Indices: 20968113--20968383 Score: 332
Period size: 78 Copynumber: 3.5 Consensus size: 77
20968103 GGTGTTGACC
* *
20968113 GAAATA-CCTCGATGGGTAAATTATTGAAATACCCTCGATAGGTAAATTACCAAAATACCCTTGA
1 GAAATACCCTCGATGGGTAAATTACTGAAATACCCTCGATGGGTAAATTACCAAAATACCCTTGA
*
20968177 TGGGTATATTACT
66 TGGG-AAATTACT
*
20968190 GAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGTAAATTACCAAAATACCCTTGA
1 GAAATACCCTCGATGGGTAAATTACTGAAATACCCTCGATGGGTAAATTACCAAAATACCCTTGA
20968255 TTGGGAAATTA-T
66 -TGGGAAATTACT
* * ** *
20968267 CGAAATACCATCGATGGGTAAATTACTGAAATACTCTCGATGGGTAAATTACTGAAATACCCCTG
1 -GAAATACCCTCGATGGGTAAATTACTGAAATACCCTCGATGGGTAAATTACCAAAATACCCTTG
20968332 -TGGGGCAAAATTACT
65 AT-GGG--AAATTACT
* * * *
20968347 GAAATACCCCCAGAAGGGTAGATTGACTGATATACCC
1 GAAATACCCTC-GATGGGTAAATT-ACTGAAATACCC
20968384 CTAGTAGATG
Statistics
Matches: 169, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
76 1 0.01
77 10 0.06
78 118 0.70
79 19 0.11
80 11 0.07
81 10 0.06
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (77 bp):
GAAATACCCTCGATGGGTAAATTACTGAAATACCCTCGATGGGTAAATTACCAAAATACCCTTGA
TGGGAAATTACT
Found at i:20968793 original size:28 final size:28
Alignment explanation
Indices: 20968739--20968795 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
20968729 ATACTATAAC
* * * *
20968739 GGGCTTAGGCCCACATTGTTATTATATT
1 GGGCTAAGGCCCACACTATTATGATATT
*
20968767 GGGCTAAGGCCCACACTATTCTGATATT
1 GGGCTAAGGCCCACACTATTATGATATT
20968795 G
1 G
20968796 TATTGGGCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (28 bp):
GGGCTAAGGCCCACACTATTATGATATT
Found at i:20982119 original size:16 final size:17
Alignment explanation
Indices: 20982095--20982128 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20982085 AAATATTATG
*
20982095 AAATGAAAA-CAAACAA
1 AAATAAAAACCAAACAA
20982111 AAATAAAAACCAAACAA
1 AAATAAAAACCAAACAA
20982128 A
1 A
20982129 TGCCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.15, G:0.03, T:0.06
Consensus pattern (17 bp):
AAATAAAAACCAAACAA
Found at i:20984327 original size:15 final size:16
Alignment explanation
Indices: 20984307--20984336 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20984297 TGGAGCCTTG
20984307 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
20984322 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
20984337 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:20988161 original size:35 final size:36
Alignment explanation
Indices: 20988122--20988191 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
20988112 CATTATAATC
* * *
20988122 ACTGTCGCATGGTATGAA-AACATACTCACATATTT
1 ACTGTCACATGGCATGAATAACATACCCACATATTT
20988157 ACTGTCACATGGCATGAATAACATACCCACATATT
1 ACTGTCACATGGCATGAATAACATACCCACATATT
20988192 CTCTTTCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 16 0.52
36 15 0.48
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.29
Consensus pattern (36 bp):
ACTGTCACATGGCATGAATAACATACCCACATATTT
Found at i:20994634 original size:23 final size:23
Alignment explanation
Indices: 20994608--20994654 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
20994598 TAGCTTAGTA
20994608 AGTTCATATTTAAATCTAAACAT
1 AGTTCATATTTAAATCTAAACAT
20994631 AGTTCATATTTAAATCTAAACAT
1 AGTTCATATTTAAATCTAAACAT
20994654 A
1 A
20994655 CTTACCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (23 bp):
AGTTCATATTTAAATCTAAACAT
Found at i:20994911 original size:25 final size:25
Alignment explanation
Indices: 20994877--20994928 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
20994867 CAATCACATA
20994877 TCTTAACAAGTCTTTTACAGTTCAT
1 TCTTAACAAGTCTTTTACAGTTCAT
20994902 TCTTAACAAGTCTTTTACAGTTCAT
1 TCTTAACAAGTCTTTTACAGTTCAT
20994927 TC
1 TC
20994929 ACGTTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (25 bp):
TCTTAACAAGTCTTTTACAGTTCAT
Found at i:21009107 original size:45 final size:45
Alignment explanation
Indices: 21009026--21009155 Score: 167
Period size: 45 Copynumber: 2.9 Consensus size: 45
21009016 AATCGTTACA
* *
21009026 CGGTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATT-
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGAT-TTC
* * **
21009069 CGGTGGAATCATCATATAGCAACCACCTTTATTTTCAATGATTTC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATTTC
*
21009114 CGGTGGAGTCAGCACATAGCAACCACCTTTATAATCAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGAT
21009156 ACTCAGAACA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 6 0.08
44 13 0.18
45 54 0.74
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATTTC
Found at i:21009279 original size:72 final size:72
Alignment explanation
Indices: 21009162--21009306 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
21009152 TGATACTCAG
21009162 AACATGTAGTAGCTTGGACACAGTACTACACACGTGACCATTACTATCACTTTCACATAGTGGCC
1 AACATGTAGTAGCTTGGACACAGTACTACACACGTGACCATTACTATCACTTTCACATAGTGGCC
21009227 TGCACAT
66 TGCACAT
21009234 AACATGTAGTAGCTTGGACACAGTACTACACACGTGACCATTACTATCACTTTCACATAGTGGCC
1 AACATGTAGTAGCTTGGACACAGTACTACACACGTGACCATTACTATCACTTTCACATAGTGGCC
21009299 TGCACAT
66 TGCACAT
21009306 A
1 A
21009307 GTCCGTGCCA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (72 bp):
AACATGTAGTAGCTTGGACACAGTACTACACACGTGACCATTACTATCACTTTCACATAGTGGCC
TGCACAT
Found at i:21014483 original size:45 final size:45
Alignment explanation
Indices: 21014334--21014557 Score: 245
Period size: 45 Copynumber: 5.0 Consensus size: 45
21014324 AACCGTTACA
* * ** *
21014334 CGGTGG-ATCAGCACGTAGC-ACCACCCTTATAATCAATTATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACT
* ** *** **
21014377 CGGTGGAATCAGCATATAGCAACCACCTTTATTTTCAAAAATTTT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACT
* * * *
21014422 TGGTGGAGTCAGCACATAGCAGCCACCTTTATAATCACTGGTACT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACT
* * *
21014467 CGTTGGAATCAACACATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACT
*
21014512 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACT
21014557 C
1 C
21014558 AGTACACGTA
Statistics
Matches: 148, Mismatches: 31, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
43 6 0.04
44 11 0.07
45 131 0.89
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACT
Found at i:21016248 original size:20 final size:20
Alignment explanation
Indices: 21016223--21016297 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
21016213 TGTAGAAATT
21016223 AAACTAAAATAAGTTAGATA
1 AAACTAAAATAAGTTAGATA
* ** *
21016243 AAACTAATATACCTGTAGAAATT
1 AAACTAAAATAAGT-TAG--ATA
21016266 AAACTAAAATAAGTTAGATA
1 AAACTAAAATAAGTTAGATA
*
21016286 AAACTAATATAA
1 AAACTAAAATAA
21016298 CTAAGTAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
20 24 0.56
21 3 0.07
22 3 0.07
23 13 0.30
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (20 bp):
AAACTAAAATAAGTTAGATA
Found at i:21016271 original size:43 final size:43
Alignment explanation
Indices: 21016210--21016296 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
21016200 CTGACGGCAA
21016210 ACCTGTAGAAATTAAACTAAAATAAGTTAGATAAAACTAATAT
1 ACCTGTAGAAATTAAACTAAAATAAGTTAGATAAAACTAATAT
21016253 ACCTGTAGAAATTAAACTAAAATAAGTTAGATAAAACTAATAT
1 ACCTGTAGAAATTAAACTAAAATAAGTTAGATAAAACTAATAT
21016296 A
1 A
21016297 ACTAAGTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (43 bp):
ACCTGTAGAAATTAAACTAAAATAAGTTAGATAAAACTAATAT
Found at i:21020955 original size:185 final size:185
Alignment explanation
Indices: 21020643--21021010 Score: 596
Period size: 185 Copynumber: 2.0 Consensus size: 185
21020633 ACTGTAAAAT
* * *
21020643 AACTCTGATTATTACTGCAGCCATTAAAGACAGTTAAAGTTCATCAAAGTAATCCTAACCCTATG
1 AACTCTGATTAGTACTGCAACCATTAAAGACAGTTAAAGTTCATCAAAGTAATCCCAACCCTATG
* *
21020708 AGATTTAACTTATAGGTTGGAAAATAAAATTCAACTCAAACATCGTTTTCATCACTGTAATTCAT
66 AGATTTAACTCATAGGCTGGAAAATAAAATTCAACTCAAACATCGTTTTCATCACTGTAATTCAT
** *
21020773 GAAGGAACAAATT-AGAAATATTGGAAAAATGTCAGAAAGACAACATTCACTTGAC
131 GAAGGAACAAATTAAG-AATATTGGAAAAACATCAGAAAGAAAACATTCACTTGAC
*
21020828 AACTCTGATTAGTGCTGCAACCATTAAAGACAGTTAAAGTTCATCAAAGTAATCCCAACCCTATG
1 AACTCTGATTAGTACTGCAACCATTAAAGACAGTTAAAGTTCATCAAAGTAATCCCAACCCTATG
*
21020893 AGATTTAACTCATAGGCTGGCAAAA-AAAATTCTACTCAAACATCGTTTTCATCACTGTAATTCA
66 AGATTTAACTCATAGGCTGG-AAAATAAAATTCAACTCAAACATCGTTTTCATCACTGTAATTCA
* *
21020957 TGAAGGAACAAATTAAGAATATTGGAAAAACATCGGGAAGAAAACATTCACTTG
130 TGAAGGAACAAATTAAGAATATTGGAAAAACATCAGAAAGAAAACATTCACTTG
21021011 TCCAATCCAC
Statistics
Matches: 169, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
185 163 0.96
186 6 0.04
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (185 bp):
AACTCTGATTAGTACTGCAACCATTAAAGACAGTTAAAGTTCATCAAAGTAATCCCAACCCTATG
AGATTTAACTCATAGGCTGGAAAATAAAATTCAACTCAAACATCGTTTTCATCACTGTAATTCAT
GAAGGAACAAATTAAGAATATTGGAAAAACATCAGAAAGAAAACATTCACTTGAC
Found at i:21034359 original size:26 final size:25
Alignment explanation
Indices: 21034322--21034370 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
21034312 TCTCATTCCA
21034322 ATTTTACCTTAGTAAAATTTTAACG
1 ATTTTACCTTAGTAAAATTTTAACG
*
21034347 ATTTTATCCTTAGTAAAGTTTTAA
1 ATTTTA-CCTTAGTAAAATTTTAA
21034371 AAAATATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (25 bp):
ATTTTACCTTAGTAAAATTTTAACG
Found at i:21035475 original size:19 final size:19
Alignment explanation
Indices: 21035453--21035493 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
21035443 TTCAATCGGT
21035453 TTACTCATTTTCGATTAGA
1 TTACTCATTTTCGATTAGA
21035472 TTACTCATTTTCGATTAGA
1 TTACTCATTTTCGATTAGA
21035491 TTA
1 TTA
21035494 AGGGCATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.49
Consensus pattern (19 bp):
TTACTCATTTTCGATTAGA
Found at i:21036773 original size:14 final size:15
Alignment explanation
Indices: 21036745--21036775 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
21036735 CACATATCAA
21036745 ATTTCTATGTATTTC
1 ATTTCTATGTATTTC
21036760 ATTTCTAT-TATTTC
1 ATTTCTATGTATTTC
21036774 AT
1 AT
21036776 CCATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTTCTATGTATTTC
Found at i:21039012 original size:39 final size:39
Alignment explanation
Indices: 21038967--21039045 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
21038957 AAAGAACCAA
21038967 CGAGTGTTGCTGTCGCAGCCAAATTAACCTTCACCATTT
1 CGAGTGTTGCTGTCGCAGCCAAATTAACCTTCACCATTT
*
21039006 CGAGTGTTGCTGTCGCAGCCAAATTAGCCTTCACCATTT
1 CGAGTGTTGCTGTCGCAGCCAAATTAACCTTCACCATTT
21039045 C
1 C
21039046 AATTTCTTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (39 bp):
CGAGTGTTGCTGTCGCAGCCAAATTAACCTTCACCATTT
Found at i:21039196 original size:17 final size:17
Alignment explanation
Indices: 21039169--21039209 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
21039159 TTTCCCTTAT
21039169 TTAAA-TAATAAATTAAA
1 TTAAACTAAT-AATTAAA
21039186 -TAAACTAATAATTAAA
1 TTAAACTAATAATTAAA
21039202 TTAAACTA
1 TTAAACTA
21039210 GAATTAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAAACTAATAATTAAA
Found at i:21039214 original size:16 final size:16
Alignment explanation
Indices: 21039179--21039216 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
21039169 TTAAATAATA
*
21039179 AATTAAATAAACTAAT
1 AATTAAATAAACTAAG
21039195 AATTAAATTAAACT-AG
1 AATTAAA-TAAACTAAG
21039211 AATTAA
1 AATTAA
21039217 TCGAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
AATTAAATAAACTAAG
Found at i:21050444 original size:39 final size:41
Alignment explanation
Indices: 21050368--21050464 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
21050358 CGTTTGGACC
* * * *
21050368 AAAAACGCCGGTAAAAATAGAGTATTAGCGGCGTTTTTC-A
1 AAAAACGCCGCTAAAAATAGAGCATTAACGGCATTTTTCTA
*
21050408 AAAAACGTCGCTAAAAAT-GAGCATTAACGGCATTTTTCTA
1 AAAAACGCCGCTAAAAATAGAGCATTAACGGCATTTTTCTA
*
21050448 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
21050465 CCTAAGCCCA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
39 17 0.35
40 32 0.65
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATAGAGCATTAACGGCATTTTTCTA
Found at i:21050562 original size:41 final size:41
Alignment explanation
Indices: 21050504--21050737 Score: 357
Period size: 41 Copynumber: 5.7 Consensus size: 41
21050494 TTTTGGGGTG
* * **
21050504 TTAGCGGCGTTTCTGAAAAAGCGACGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTTGGCT
*
21050545 TTAGCGGCGTTTTTGAAAAA-CTGCCGCTAATGCTC-GGGTCT
1 TTAGCGGCGTTTTTGAAAAAGC-GCCGCTAATGCTCTTGG-CT
21050586 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTTGGCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTTGGCT
*
21050627 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCTTGGCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTTGGCT
* *
21050668 TTAGCGGCATTTTTGAGAAA-CGCCGCTAATGCTCTTGGCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTTGGCT
21050708 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
21050738 AAACATTTTA
Statistics
Matches: 181, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
40 42 0.23
41 136 0.75
42 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTTGGCT
Found at i:21051124 original size:14 final size:15
Alignment explanation
Indices: 21051091--21051135 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 15
21051081 TTTTAAGGTA
*
21051091 TAGGGAGTATGGATT
1 TAGGGATTATGGATT
21051106 TAGGGATTATGGA-T
1 TAGGGATTATGGATT
21051120 TAGGGATTATGG-TT
1 TAGGGATTATGGATT
21051134 TA
1 TA
21051136 AGGGTTGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.38
Consensus pattern (15 bp):
TAGGGATTATGGATT
Found at i:21051446 original size:14 final size:14
Alignment explanation
Indices: 21051428--21051471 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
21051418 ACGGGTTATA
21051428 GTTTAAGGGTT-GG
1 GTTTAAGGGTTAGG
*
21051441 GATTTAAGGTTTAGG
1 G-TTTAAGGGTTAGG
21051456 GTTTAAGGGTTTAGG
1 GTTTAAGGG-TTAGG
21051471 G
1 G
21051472 GTTAGACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 16 0.62
15 9 0.35
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (14 bp):
GTTTAAGGGTTAGG
Found at i:21051498 original size:36 final size:35
Alignment explanation
Indices: 21051458--21051547 Score: 101
Period size: 36 Copynumber: 2.6 Consensus size: 35
21051448 GGTTTAGGGT
* *
21051458 TTAAGGGTTTAGGGGTTAGACATTAGGGGTTAAGAG
1 TTAAGGGTTTAGGGTTTAGACATTAGGGGAT-AGAG
* * * *
21051494 TTAAGGATTTAGGGTTTAGAGATTTGGGGATCGAG
1 TTAAGGGTTTAGGGTTTAGACATTAGGGGATAGAG
*
21051529 TT-AGGGTTTTGGGTTTAGA
1 TTAAGGGTTTAGGGTTTAGA
21051548 TTAATTATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 15 0.33
35 5 0.11
36 26 0.57
ACGTcount: A:0.24, C:0.02, G:0.38, T:0.36
Consensus pattern (35 bp):
TTAAGGGTTTAGGGTTTAGACATTAGGGGATAGAG
Found at i:21051842 original size:58 final size:58
Alignment explanation
Indices: 21051772--21051910 Score: 251
Period size: 58 Copynumber: 2.4 Consensus size: 58
21051762 ACCATTTGAT
*
21051772 ATATTTAAATATTAGTTTAAATAGAATTAATGAATAAGTTTAAAGAAAATATATTTAA
1 ATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAAGAAAATATATTTAA
* *
21051830 ATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAA
1 ATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAAGAAAATATATTTAA
21051888 ATATTTAAATATTAGTTTAAATA
1 ATATTTAAATATTAGTTTAAATA
21051911 AAATAATTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 77 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (58 bp):
ATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAAGAAAATATATTTAA
Found at i:21051879 original size:15 final size:16
Alignment explanation
Indices: 21051861--21051915 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 16
21051851 TAGAATTAAT
21051861 AAATA-AGTTTAAATA
1 AAATATAGTTTAAATA
21051876 AAATATA-TTTAAATA
1 AAATATAGTTTAAATA
21051891 TTTAAATATTAGTTTAAATA
1 ---AAATA-TAGTTTAAATA
21051911 AAATA
1 AAATA
21051916 ATTTTTGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
15 13 0.38
16 1 0.03
17 5 0.15
18 5 0.15
19 2 0.06
20 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
AAATATAGTTTAAATA
Found at i:21054252 original size:27 final size:27
Alignment explanation
Indices: 21054158--21054252 Score: 72
Period size: 27 Copynumber: 3.5 Consensus size: 27
21054148 TACTTGTATT
*
21054158 TAAAATAATAAAACT-TA-AAAAAGTT-
1 TAAAATAATAAAAATATATAAAAA-TTA
* * **
21054183 TAAAACAAATTAAAAATACATAAATTTTA
1 TAAAA-TAA-TAAAAATATATAAAAATTA
*
21054212 TAAAAGAA-ATAAAATATATAAAAATTA
1 TAAAATAATA-AAAATATATAAAAATTA
21054239 TAAAATAATAAAAA
1 TAAAATAATAAAAA
21054253 ACTTGAAAGT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
25 5 0.09
26 3 0.06
27 31 0.58
28 6 0.11
29 8 0.15
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.27
Consensus pattern (27 bp):
TAAAATAATAAAAATATATAAAAATTA
Found at i:21056385 original size:43 final size:43
Alignment explanation
Indices: 21056292--21056630 Score: 457
Period size: 43 Copynumber: 7.9 Consensus size: 43
21056282 TTTTTGCTAG
* * * *
21056292 AAGCGCCGCTAAAGGT-TTGTTCTTTCGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
* * *
21056334 AAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGATAG
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
* * *
21056377 AAGAGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
* *
21056420 AAGCGCCGCTAAAGGTCGTGGTTTTTAGCGGCGTTTGTGAGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
**
21056463 AAGCGCCGCTAAAGGTGTTGGTCTTTAGCGGCGTTTGTGAGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
* *
21056506 ATGCGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTTTGTGAGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG-TTTGTGAGAA
* *
21056550 AAGCGCCACTAAAGGTCATGGTCTTTAGTGGCGTTTGTG-GTAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAG-AA
* * *
21056593 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCAGCTTTTGT
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT
21056631 TTCTAAAAAC
Statistics
Matches: 266, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
42 17 0.06
43 208 0.78
44 41 0.15
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
Found at i:21057016 original size:27 final size:27
Alignment explanation
Indices: 21056967--21057020 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
21056957 AAAATCGAAG
*
21056967 TAATTCGGTTAACCGACCGAATTCGGT
1 TAATTCGGTTAACCGAACGAATTCGGT
**
21056994 TAATTCGGTTAACCGAATTAATTCGGT
1 TAATTCGGTTAACCGAACGAATTCGGT
21057021 CGGGGGTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (27 bp):
TAATTCGGTTAACCGAACGAATTCGGT
Found at i:21058074 original size:4 final size:4
Alignment explanation
Indices: 21058065--21058113 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
21058055 TAATAGCTAG
** *
21058065 TAGT TAGT TAGT TGAAA TAGT TAGT TAGT TAGT TAGT TAG- AAGT TAGT
1 TAGT TAGT TAGT T-AGT TAGT TAGT TAGT TAGT TAGT TAGT TAGT TAGT
21058113 T
1 T
21058114 GCTAGGTAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
3 2 0.05
4 33 0.89
5 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (4 bp):
TAGT
Found at i:21058098 original size:25 final size:24
Alignment explanation
Indices: 21058056--21058102 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
21058046 CGGGATAACT
21058056 AATAGCTAGTAGTTAGTTAGTTGA
1 AATAGCTAGTAGTTAGTTAGTTGA
*
21058080 AATAGTTAGTTAGTTAGTTAGTT
1 AATAGCTAG-TAGTTAGTTAGTT
21058103 AGAAGTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (24 bp):
AATAGCTAGTAGTTAGTTAGTTGA
Found at i:21060377 original size:13 final size:13
Alignment explanation
Indices: 21060343--21060545 Score: 97
Period size: 13 Copynumber: 15.2 Consensus size: 13
21060333 GTTAACACTT
*
21060343 TGAAATGGCTATA
1 TGAAATGGTTATA
**
21060356 CAAAATGGTTATA
1 TGAAATGGTTATA
*
21060369 TGAATTGGTTATA
1 TGAAATGGTTATA
*
21060382 TGAAATGGTTATG
1 TGAAATGGTTATA
*
21060395 TGAAATGATTATA
1 TGAAATGGTTATA
* *
21060408 AGAATTGGTTATA
1 TGAAATGGTTATA
* *
21060421 TATAAATAGATATATA
1 T-GAAAT-GGT-TATA
*
21060437 TACAAAATGGTTATA
1 T--GAAATGGTTATA
*
21060452 TG-AATCAGTTATA
1 TGAAAT-GGTTATA
*
21060465 TGGAAATAGG-TAAA
1 T-GAAAT-GGTTATA
* **
21060479 CGAAATAATTATA
1 TGAAATGGTTATA
* *
21060492 TGAATTAGTTATA
1 TGAAATGGTTATA
**
21060505 TGGAAATAATTATA
1 T-GAAATGGTTATA
* *
21060519 TG-ATTTGTTATA
1 TGAAATGGTTATA
*
21060531 TGAAATGTTTATA
1 TGAAATGGTTATA
21060544 TG
1 TG
21060546 GATAGATATG
Statistics
Matches: 140, Mismatches: 40, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
12 12 0.09
13 88 0.63
14 18 0.13
15 11 0.08
16 7 0.05
17 4 0.03
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (13 bp):
TGAAATGGTTATA
Found at i:21060490 original size:27 final size:28
Alignment explanation
Indices: 21060460--21060520 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
21060450 TATGAATCAG
21060460 TTATATGGAAATAGGTA-AACGAAATAA
1 TTATATGGAAATAGGTATAACGAAATAA
* * **
21060487 TTATAT-GAATTAGTTATATGGAAATAA
1 TTATATGGAAATAGGTATAACGAAATAA
21060514 TTATATG
1 TTATATG
21060521 ATTTGTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (28 bp):
TTATATGGAAATAGGTATAACGAAATAA
Found at i:21060512 original size:84 final size:81
Alignment explanation
Indices: 21060352--21060519 Score: 203
Period size: 84 Copynumber: 2.0 Consensus size: 81
21060342 TTGAAATGGC
** *** * *
21060352 TATACAAAATGGTTATATGAATTGGTTATATGAAATGGTTATGTGAAATGATTATAAGAATTGGT
1 TATACAAAATGGTTATATGAATCAGTTATATGAAATGGTTAAACGAAATAATTATAAGAATTAGT
*
21060417 TATATATAAATAGATATA
66 TATATAGAAATA-AT-TA
*
21060435 TATACAAAATGGTTATATGAATCAGTTATATGGAAATAGG-TAAACGAAATAATTATATGAATTA
1 TATACAAAATGGTTATATGAATCAGTTATAT-GAAAT-GGTTAAACGAAATAATTATAAGAATTA
*
21060499 GTTATATGGAAATAATTA
64 GTTATATAGAAATAATTA
21060517 TAT
1 TAT
21060520 GATTTGTTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
82 5 0.07
83 31 0.42
84 35 0.48
85 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (81 bp):
TATACAAAATGGTTATATGAATCAGTTATATGAAATGGTTAAACGAAATAATTATAAGAATTAGT
TATATAGAAATAATTA
Found at i:21060519 original size:14 final size:14
Alignment explanation
Indices: 21060480--21060520 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
21060470 ATAGGTAAAC
21060480 GAAATAATTATAT-
1 GAAATAATTATATG
* *
21060493 GAATTAGTTATATG
1 GAAATAATTATATG
21060507 GAAATAATTATATG
1 GAAATAATTATATG
21060521 ATTTGTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (14 bp):
GAAATAATTATATG
Found at i:21060542 original size:25 final size:27
Alignment explanation
Indices: 21060480--21060545 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
21060470 ATAGGTAAAC
21060480 GAAATAATTATATGAATTAGTTATATG
1 GAAATAATTATATGAATTAGTTATATG
*
21060507 GAAATAATTATATG-ATTTGTTATAT-
1 GAAATAATTATATGAATTAGTTATATG
**
21060532 GAAATGTTTATATG
1 GAAATAATTATATG
21060546 GATAGATATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 12 0.33
26 10 0.28
27 14 0.39
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (27 bp):
GAAATAATTATATGAATTAGTTATATG
Found at i:21062109 original size:24 final size:24
Alignment explanation
Indices: 21062061--21062107 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
21062051 ACTGGTTATA
*
21062061 GAGAGAATTTAGGAGGGATATTTG
1 GAGAGAATTTAGGAGGAATATTTG
21062085 GAGAG-ATTTAAGGAGAGAATATT
1 GAGAGAATTT-AGGAG-GAATATT
21062108 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 10 0.50
25 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (24 bp):
GAGAGAATTTAGGAGGAATATTTG
Found at i:21062814 original size:27 final size:27
Alignment explanation
Indices: 21062775--21062859 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
21062765 AGAGGTCAGT
* * *
21062775 AAATGACCAAATTACCCCCAAAGGATA
1 AAATGACCGAATTACCCCCATAGGGTA
* *
21062802 AAATGACTGAATTACCCCTATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
21062829 AAATGACCGAATTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
21062856 AAAT
1 AAAT
21062860 AACTGTTATA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.20
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCATAGGGTA
Found at i:21065057 original size:20 final size:19
Alignment explanation
Indices: 21065032--21065070 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
21065022 TCTTTTCTTG
*
21065032 TTCAATTGATTGCTTTTGTT
1 TTCAATCGATTG-TTTTGTT
21065052 TTCAATCGATTGTTTTGTT
1 TTCAATCGATTGTTTTGTT
21065071 ATCTATTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.59
Consensus pattern (19 bp):
TTCAATCGATTGTTTTGTT
Found at i:21068262 original size:32 final size:32
Alignment explanation
Indices: 21068226--21068290 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
21068216 TGTCTATAAC
21068226 ACCTCAAAAATTTTGATATGGCATGTGGCATA
1 ACCTCAAAAATTTTGATATGGCATGTGGCATA
21068258 ACCTCAAAAATTTTGATATGGCATGTGGCATA
1 ACCTCAAAAATTTTGATATGGCATGTGGCATA
21068290 A
1 A
21068291 TTTTAGGCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (32 bp):
ACCTCAAAAATTTTGATATGGCATGTGGCATA
Found at i:21081831 original size:52 final size:53
Alignment explanation
Indices: 21081749--21081852 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 53
21081739 TCGAAGTTTG
* * * *
21081749 GTCACATGGCCTTGTCGCCAGGCCATGTAACTAT-TGTGACCATGTGGTTCAA
1 GTCACATGACCGTGTCACCAGGCCATGTAACTATATGAGACCATGTGGTTCAA
* * *
21081801 GTCACATGACCGTGTCACTAGGTCATGTAACTCTATGAGACCATGTGGTTCA
1 GTCACATGACCGTGTCACCAGGCCATGTAACTATATGAGACCATGTGGTTCA
21081853 TCCTGCACAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 28 0.64
53 16 0.36
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (53 bp):
GTCACATGACCGTGTCACCAGGCCATGTAACTATATGAGACCATGTGGTTCAA
Found at i:21081949 original size:24 final size:24
Alignment explanation
Indices: 21081894--21081956 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
21081884 TATTTGGGGT
21081894 GGCCGTGTGATAGCCAGTGTCCTA
1 GGCCGTGTGATAGCCAGTGTCCTA
*
21081918 GGCCGTGTAATAGCCAGTGTCCCT-
1 GGCCGTGTGATAGCCAGTGT-CCTA
**
21081942 GGTTGTGTGATAGCC
1 GGCCGTGTGATAGCC
21081957 CGTATCCCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 31 0.91
25 3 0.09
ACGTcount: A:0.16, C:0.24, G:0.33, T:0.27
Consensus pattern (24 bp):
GGCCGTGTGATAGCCAGTGTCCTA
Found at i:21088315 original size:42 final size:42
Alignment explanation
Indices: 21088217--21088327 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 42
21088207 CCGTGCTGAT
* * * *
21088217 GCCCGTGTAACATT--TGAACTAGAGACACACGGCCGTGTCCCG
1 GCCCGTGTAAC-TTACTGAA-TAGGGTCACACGACCGTGTCCCA
*
21088259 GCCCATGTAACTTACTGAATAGGGTCACACGACCGTGTCCCA
1 GCCCGTGTAACTTACTGAATAGGGTCACACGACCGTGTCCCA
*
21088301 GCCCGTGTAACTTACTGAGTAGGGTCA
1 GCCCGTGTAACTTACTGAATAGGGTCA
21088328 TACGGCTGTG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
41 2 0.03
42 54 0.90
43 4 0.07
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (42 bp):
GCCCGTGTAACTTACTGAATAGGGTCACACGACCGTGTCCCA
Found at i:21094455 original size:37 final size:37
Alignment explanation
Indices: 21094414--21094498 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
21094404 AAAGTGTTTC
* *
21094414 ACCATATACTTATTCATTTTCGTACACATATCAAACA
1 ACCATATACTTATTCATTTCCCTACACATATCAAACA
* *
21094451 ACCATATACTTATTCATTTCCCTTCACTTATCAAACA
1 ACCATATACTTATTCATTTCCCTACACATATCAAACA
*
21094488 ACCAAATACTT
1 ACCATATACTT
21094499 CTTATTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.36, C:0.27, G:0.01, T:0.35
Consensus pattern (37 bp):
ACCATATACTTATTCATTTCCCTACACATATCAAACA
Found at i:21101173 original size:20 final size:20
Alignment explanation
Indices: 21101140--21101179 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21101130 AAATAAACAA
*
21101140 GGAAAAAGAAAGAAGGAAAT
1 GGAAAAAGAAAGAAGAAAAT
* *
21101160 GGAAAAATAGAGAAGAAAAT
1 GGAAAAAGAAAGAAGAAAAT
21101180 AGTAATAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.28, T:0.07
Consensus pattern (20 bp):
GGAAAAAGAAAGAAGAAAAT
Found at i:21101313 original size:16 final size:16
Alignment explanation
Indices: 21101280--21101314 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21101270 TATCATCATC
* *
21101280 ATTTATTTACCAATTT
1 ATTTATTTACAAAATT
21101296 ATTTATTTACAAAATT
1 ATTTATTTACAAAATT
21101312 ATT
1 ATT
21101315 AAATACTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTATTTACAAAATT
Found at i:21104614 original size:23 final size:23
Alignment explanation
Indices: 21104578--21104636 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
21104568 TACAGAACTT
** *
21104578 ACCACAAAAACATTGCAAAATA-
1 ACCACAAAGGCATTACAAAATAC
* *
21104600 AGCTACAAAGGCATTACAGAATAC
1 A-CCACAAAGGCATTACAAAATAC
21104624 ACCACAAAGGCAT
1 ACCACAAAGGCAT
21104637 GGCAGAATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.03
23 27 0.93
24 1 0.03
ACGTcount: A:0.51, C:0.24, G:0.12, T:0.14
Consensus pattern (23 bp):
ACCACAAAGGCATTACAAAATAC
Found at i:21106971 original size:23 final size:23
Alignment explanation
Indices: 21106945--21106995 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
21106935 ACCTACTTTC
* * *
21106945 TTACGGCAGTAACTTTCGGGGTA
1 TTACAGCACTAACTTTCGGGATA
* *
21106968 TTACAGTACTAATTTTCGGGATA
1 TTACAGCACTAACTTTCGGGATA
21106991 TTACA
1 TTACA
21106996 AGAATACACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (23 bp):
TTACAGCACTAACTTTCGGGATA
Found at i:21107026 original size:23 final size:23
Alignment explanation
Indices: 21106996--21107040 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
21106986 GGATATTACA
21106996 AGAATACACCACAAAAGCATTGT
1 AGAATACACCACAAAAGCATTGT
21107019 AGAATACACCACAAAAGCATTG
1 AGAATACACCACAAAAGCATTG
21107041 CAAAATATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.22, G:0.13, T:0.16
Consensus pattern (23 bp):
AGAATACACCACAAAAGCATTGT
Found at i:21107056 original size:23 final size:23
Alignment explanation
Indices: 21106998--21107047 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
21106988 ATATTACAAG
* *
21106998 AATACACCACAAAAGCATTGTAG
1 AATACACCACAAAAGCATTGCAA
21107021 AATACACCACAAAAGCATTGCAA
1 AATACACCACAAAAGCATTGCAA
21107044 AATA
1 AATA
21107048 TGGCACAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.22, G:0.10, T:0.16
Consensus pattern (23 bp):
AATACACCACAAAAGCATTGCAA
Found at i:21111317 original size:16 final size:16
Alignment explanation
Indices: 21111283--21111320 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
21111273 GGAAAATTCT
21111283 TCAAACCATCATCCCAA
1 TCAAACCATCA-CCCAA
21111300 TCAAAGCCATCA-CCAA
1 TCAAA-CCATCACCCAA
21111316 TCAAA
1 TCAAA
21111321 AATTGATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 5 0.25
18 6 0.30
ACGTcount: A:0.45, C:0.37, G:0.03, T:0.16
Consensus pattern (16 bp):
TCAAACCATCACCCAA
Found at i:21111784 original size:36 final size:36
Alignment explanation
Indices: 21111744--21111823 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
21111734 TTCAATTTTC
21111744 TTTTCTTTCGCACACTCATCTTCTTTTTCTTTCTCT
1 TTTTCTTTCGCACACTCATCTTCTTTTTCTTTCTCT
** * * * * *
21111780 TTTTCTCGCTCGCACTCTTTTTCTTTTTCTTTTTCT
1 TTTTCTTTCGCACACTCATCTTCTTTTTCTTTCTCT
21111816 TTTTCTTT
1 TTTTCTTT
21111824 TTCTTTTTCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.05, C:0.28, G:0.04, T:0.64
Consensus pattern (36 bp):
TTTTCTTTCGCACACTCATCTTCTTTTTCTTTCTCT
Found at i:21111806 original size:6 final size:6
Alignment explanation
Indices: 21111795--21111901 Score: 117
Period size: 6 Copynumber: 17.7 Consensus size: 6
21111785 TCGCTCGCAC
**
21111795 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCACTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
** * * **
21111843 TCTTTT TCACTT TATTTT TCTTTTT TACTTTT T-TTTT GCAATT TCTTTT
1 TCTTTT TCTTTT TCTTTT TC-TTTT T-CTTTT TCTTTT TCTTTT TCTTTT
21111892 TCTTTT TCTT
1 TCTTTT TCTT
21111902 CTTTTTCATT
Statistics
Matches: 82, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
5 4 0.05
6 67 0.82
7 10 0.12
8 1 0.01
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:21113405 original size:31 final size:31
Alignment explanation
Indices: 21113367--21113428 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
21113357 AGGATGGTGA
*
21113367 TAAGTTCAAAGAGTCGGGTTGACACCACTAG
1 TAAGTTCAAAGAGTCGGATTGACACCACTAG
21113398 TAAGTTCAAAGAGTCGGATTGACACCACTAG
1 TAAGTTCAAAGAGTCGGATTGACACCACTAG
21113429 CTAGATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (31 bp):
TAAGTTCAAAGAGTCGGATTGACACCACTAG
Found at i:21122846 original size:12 final size:12
Alignment explanation
Indices: 21122829--21122859 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
21122819 ATAGAGGAAC
21122829 TCCCAAATACTT
1 TCCCAAATACTT
21122841 TCCCAAATACTT
1 TCCCAAATACTT
21122853 TCCCAAA
1 TCCCAAA
21122860 CTCTTAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (12 bp):
TCCCAAATACTT
Found at i:21125760 original size:57 final size:58
Alignment explanation
Indices: 21125640--21125760 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 58
21125630 TCATACCGGA
* * * *
21125640 ATTCAGTGAAATGGGAGCCACAATAGTGTTGTCTCCAATTTGAATTGAATGTCCATCC
1 ATTCAGTGAAATGGGAGCCACAATAGTGTTGTCTCCAAATTGAATTAAAAGGCCATCC
** * * *
21125698 A-TCAGTGATGTGGGAGCCACCATTGTGTTGTCTCCAAATTGGATTAAAAGGCCA-CC
1 ATTCAGTGAAATGGGAGCCACAATAGTGTTGTCTCCAAATTGAATTAAAAGGCCATCC
21125754 ATTCAGT
1 ATTCAGT
21125761 TTTGTACAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
56 3 0.06
57 49 0.92
58 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (58 bp):
ATTCAGTGAAATGGGAGCCACAATAGTGTTGTCTCCAAATTGAATTAAAAGGCCATCC
Found at i:21131352 original size:40 final size:39
Alignment explanation
Indices: 21131308--21131392 Score: 152
Period size: 40 Copynumber: 2.2 Consensus size: 39
21131298 AAATATATTT
21131308 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
1 ATTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTTA
*
21131348 ATTTTTTAATTTTAAAATATTTTTAATATACTTTTTTTA
1 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
21131387 ATTTTT
1 ATTTTT
21131393 AAAATAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 14 0.32
40 30 0.68
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (39 bp):
ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:21131392 original size:21 final size:21
Alignment explanation
Indices: 21131366--21131405 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21131356 ATTTTAAAAT
* *
21131366 ATTTTTAATATACTTTTTTTA
1 ATTTTTAAAATAATTTTTTTA
21131387 ATTTTTAAAATAATTTTTT
1 ATTTTTAAAATAATTTTTT
21131406 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTTAAAATAATTTTTTTA
Found at i:21132199 original size:24 final size:24
Alignment explanation
Indices: 21132167--21132216 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
21132157 TTTCAATTTG
21132167 TTGGAAAATATTTATGTTGATGTT
1 TTGGAAAATATTTATGTTGATGTT
*
21132191 TTGGGAAATATTTATGTTGATGTT
1 TTGGAAAATATTTATGTTGATGTT
21132215 TT
1 TT
21132217 TAGTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (24 bp):
TTGGAAAATATTTATGTTGATGTT
Found at i:21132260 original size:11 final size:11
Alignment explanation
Indices: 21132244--21132274 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21132234 TATACATATT
21132244 TAAAAATTATA
1 TAAAAATTATA
*
21132255 TAAAAATAATA
1 TAAAAATTATA
21132266 TAAAAATTA
1 TAAAAATTA
21132275 ATACAGACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:21132526 original size:26 final size:30
Alignment explanation
Indices: 21132475--21132536 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 30
21132465 TCAAGATCTT
*
21132475 TTTTTAATTAATAAATATGTTATTTTTAAG
1 TTTTTAATTAATAAATATGTTATTTTAAAG
*
21132505 TTTTTAATTAA-AAA-ATG-T-TTTTAAAT
1 TTTTTAATTAATAAATATGTTATTTTAAAG
21132531 TTTTTA
1 TTTTTA
21132537 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 12 0.40
27 1 0.03
28 3 0.10
29 3 0.10
30 11 0.37
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (30 bp):
TTTTTAATTAATAAATATGTTATTTTAAAG
Found at i:21137195 original size:38 final size:38
Alignment explanation
Indices: 21137152--21137229 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
21137142 GATACACTAG
21137152 ATCCAACATTAAATCCATAAACTATTTATACATAATAT
1 ATCCAACATTAAATCCATAAACTATTTATACATAATAT
*
21137190 ATCCAACATTAAATCCATAAACTATTTATTCATAATAT
1 ATCCAACATTAAATCCATAAACTATTTATACATAATAT
21137228 AT
1 AT
21137230 GCAGTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (38 bp):
ATCCAACATTAAATCCATAAACTATTTATACATAATAT
Found at i:21144326 original size:29 final size:28
Alignment explanation
Indices: 21144270--21144338 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 28
21144260 TAGAAAATTA
21144270 TTAAAAATT-TAA-AAAATCATAACCTATTT
1 TTAAAAATTATAAGAAAATCATAA-CTA--T
21144299 TTAAAAATTATAAGAAAAT-ATATA-TAT
1 TTAAAAATTATAAGAAAATCATA-ACTAT
21144326 TT-AAAATTATAAG
1 TTAAAAATTATAAG
21144339 TATGCAAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
26 11 0.30
27 3 0.08
29 11 0.30
30 6 0.16
31 6 0.16
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (28 bp):
TTAAAAATTATAAGAAAATCATAACTAT
Found at i:21148016 original size:16 final size:17
Alignment explanation
Indices: 21147995--21148034 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
21147985 ATGCTAAGTT
21147995 ATTTTAA-TAATATAA-A
1 ATTTTAATTAA-ATAACA
21148011 ATTTTAATTAAATAACA
1 ATTTTAATTAAATAACA
21148028 ATTTTAA
1 ATTTTAA
21148035 CAATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTTAATTAAATAACA
Found at i:21152511 original size:27 final size:27
Alignment explanation
Indices: 21152480--21152657 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21152470 TAAATTGTAC
21152480 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21152507 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21152533 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21152561 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21152589 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21152616 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21152643 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21152658 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21152594 original size:82 final size:81
Alignment explanation
Indices: 21152481--21152636 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21152471 AAATTGTACA
* *
21152481 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21152545 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21152562 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21152627 TGCGAGTTGA
65 TGCGAATTGA
21152637 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21152648 original size:82 final size:81
Alignment explanation
Indices: 21152477--21152657 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21152467 GATTAAATTG
* *
21152477 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21152542 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21152558 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21152622 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21152640 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21152658 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21157046 original size:138 final size:138
Alignment explanation
Indices: 21156798--21157065 Score: 344
Period size: 138 Copynumber: 1.9 Consensus size: 138
21156788 AATGGGTTTA
* *
21156798 CTCACACAAGCTGTCAGTCGAAATGTAAGCTACACGATGCTGTTCACACAAGCTGTCAAGTATCC
1 CTCACACAAGCTGTCAGTCGAAATGTAAGCTACACGATGCTGCTCACACAAGCTGTCAAGTAACC
* * * * *
21156863 GCAACTAATGTCAGACCTCAGCCATCGGTAGGACATTCAAGACCAACACCCAAAACA-TGGTAAC
66 ACAACTAATGCCAAAACTCAGCCACCGGTAGGACATTCAAGACCAACACCCAAAACACT-GTAAC
21156927 CTAGATATG
130 CTAGATATG
* * * * * *
21156936 CTCACACAAGCTTTCGGTCGAAATGT-AGCTAGATGGTGCTGCTCACACAAGCTGTTAAGTAACC
1 CTCACACAAGCTGTCAGTCGAAATGTAAGCTACACGATGCTGCTCACACAAGCTGTCAAGTAACC
* * *
21157000 ATAAC-ACATGCCGAAAACTCAGCCACCGGTAGGACGTTCAGGACCAACACCCAAAACACTGTAA
66 ACAACTA-ATGCC-AAAACTCAGCCACCGGTAGGACATTCAAGACCAACACCCAAAACACTGTAA
21157064 CC
129 CC
21157066 CTAATGACAT
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
136 1 0.01
137 39 0.35
138 70 0.63
139 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (138 bp):
CTCACACAAGCTGTCAGTCGAAATGTAAGCTACACGATGCTGCTCACACAAGCTGTCAAGTAACC
ACAACTAATGCCAAAACTCAGCCACCGGTAGGACATTCAAGACCAACACCCAAAACACTGTAACC
TAGATATG
Found at i:21159848 original size:54 final size:54
Alignment explanation
Indices: 21159759--21159936 Score: 221
Period size: 54 Copynumber: 3.3 Consensus size: 54
21159749 CCTGTCAGCC
* * * *
21159759 TTTGTGTCGTACTCTGCATTGATAGCCTTTGTGGCGTACCTTGAATGAATCACT
1 TTTGTGGCATACTCTGTATAGATAGCCTTTGTGGCGTACCTTGAATGAATCACT
* ** * *
21159813 TTTGTGGCATACTTTGTATAGATAGCCTTCATGGCGTACCCTGAATGAATCACC
1 TTTGTGGCATACTCTGTATAGATAGCCTTTGTGGCGTACCTTGAATGAATCACT
* * * **
21159867 TTTGTGGCATACTCTGTATAGATAGCCTTTGTGGCATACTTTGTATGGGTCACT
1 TTTGTGGCATACTCTGTATAGATAGCCTTTGTGGCGTACCTTGAATGAATCACT
*
21159921 TTTGTGGCGTACTCTG
1 TTTGTGGCATACTCTG
21159937 GTTAGATTGA
Statistics
Matches: 104, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (54 bp):
TTTGTGGCATACTCTGTATAGATAGCCTTTGTGGCGTACCTTGAATGAATCACT
Found at i:21159895 original size:27 final size:26
Alignment explanation
Indices: 21159755--21159913 Score: 108
Period size: 27 Copynumber: 5.9 Consensus size: 26
21159745 GCATCCTGTC
* * *
21159755 AGCCTTTGTGTCGTACTCTGCATTGAT
1 AGCCTTTGTGGCATACTCTGTA-TGAT
* *
21159782 AGCCTTTGTGGCGTAC-CTTGAATGAAT
1 AGCCTTTGTGGCATACTC-TGTATG-AT
* *
21159809 CA-CTTTTGTGGCATACTTTGTATAGAT
1 -AGCCTTTGTGGCATACTCTGTAT-GAT
** * * *
21159836 AGCCTTCATGGCGTACCCTGAATGAAT
1 AGCCTTTGTGGCATACTCTGTATG-AT
21159863 CA-CCTTTGTGGCATACTCTGTATAGAT
1 -AGCCTTTGTGGCATACTCTGTAT-GAT
*
21159890 AGCCTTTGTGGCATACTTTGTATG
1 AGCCTTTGTGGCATACTCTGTATG
21159914 GGTCACTTTT
Statistics
Matches: 103, Mismatches: 19, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
26 7 0.07
27 92 0.89
28 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
AGCCTTTGTGGCATACTCTGTATGAT
Found at i:21159924 original size:27 final size:27
Alignment explanation
Indices: 21159807--21159936 Score: 104
Period size: 27 Copynumber: 4.8 Consensus size: 27
21159797 CCTTGAATGA
* *
21159807 ATCACTTTTGTGGCATACTTTGTATAG
1 ATCACCTTTGTGGCATACTCTGTATAG
** * * *
21159834 AT-AGCCTTCATGGCGTACCCTGAAT-G
1 ATCA-CCTTTGTGGCATACTCTGTATAG
21159860 AATCACCTTTGTGGCATACTCTGTATAG
1 -ATCACCTTTGTGGCATACTCTGTATAG
* *
21159888 AT-AGCCTTTGTGGCATACTTTGTATGG
1 ATCA-CCTTTGTGGCATACTCTGTATAG
* * *
21159915 GTCACTTTTGTGGCGTACTCTG
1 ATCACCTTTGTGGCATACTCTG
21159937 GTTAGATTGA
Statistics
Matches: 79, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
26 3 0.04
27 73 0.92
28 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (27 bp):
ATCACCTTTGTGGCATACTCTGTATAG
Found at i:21176743 original size:19 final size:19
Alignment explanation
Indices: 21176719--21176757 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
21176709 TGTGGACTAA
21176719 ATTGAATACTAGAAGTATT
1 ATTGAATACTAGAAGTATT
21176738 ATTGAATACTAGAAGTATT
1 ATTGAATACTAGAAGTATT
21176757 A
1 A
21176758 AATGGATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (19 bp):
ATTGAATACTAGAAGTATT
Found at i:21186472 original size:50 final size:50
Alignment explanation
Indices: 21186389--21186630 Score: 286
Period size: 50 Copynumber: 4.8 Consensus size: 50
21186379 ATTTGGGTAA
*
21186389 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * *
21186439 AGAGGTCTCATGTAAGATCATGCCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * *
21186489 AGAGGTCCCATGTAAGATCATGTCTGGGACATGACGCTCGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
21186539 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
21186589 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
21186631 GTACAAGAAA
Statistics
Matches: 161, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 161 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:21186664 original size:49 final size:50
Alignment explanation
Indices: 21186394--21186679 Score: 175
Period size: 50 Copynumber: 5.7 Consensus size: 50
21186384 GGTAAAGAGA
* * * * * **
21186394 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
* * * * * * * **
21186444 TCTCATGTAAGATCATGCCTGGGACATGGCGTTGGCACCGAGATA-AGAGG
1 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCTACA-AGAGAAC
* * * ** * * * **
21186494 TCCCATGTAAGATCATGTCTGGGACATGACGCTCGCA-CTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCT-ACAAGAGAAC
** * * * *
21186544 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
* * *
21186594 TCTCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
* * *
21186642 ATCCCATGTAAGACTATGTCTGGGATATAGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA
21186680 TGTTATATTT
Statistics
Matches: 195, Mismatches: 36, Indels: 11
0.81 0.15 0.05
Matches are distributed among these distances:
48 3 0.02
49 38 0.19
50 152 0.78
51 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
Found at i:21190128 original size:24 final size:24
Alignment explanation
Indices: 21190100--21190151 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
21190090 TTAGTAAGTC
* *
21190100 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
21190124 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
21190148 AAAT
1 AAAT
21190152 CATCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:21190473 original size:7 final size:7
Alignment explanation
Indices: 21190461--21190485 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21190451 ACATCTCTCA
21190461 TTCATCC
1 TTCATCC
21190468 TTCATCC
1 TTCATCC
21190475 TTCATCC
1 TTCATCC
21190482 TTCA
1 TTCA
21190486 ATTTTAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.40, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCATCC
Found at i:21196377 original size:18 final size:18
Alignment explanation
Indices: 21196337--21196386 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
21196327 TTTTTTATTA
21196337 CTCTC-TTCTTTTTC-A-
1 CTCTCTTTCTTTTTCAAT
*
21196352 CTC-ATTTCTTTTTCAAT
1 CTCTCTTTCTTTTTCAAT
21196369 CTCTCTTTCTTTTTCAAT
1 CTCTCTTTCTTTTTCAAT
21196387 AACAACACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 12 0.41
16 1 0.03
17 3 0.10
18 13 0.45
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
CTCTCTTTCTTTTTCAAT
Found at i:21197716 original size:19 final size:17
Alignment explanation
Indices: 21197684--21197718 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
21197674 GTATTTGCAA
21197684 CAAATTTTTTTTATATT
1 CAAATTTTTTTTATATT
21197701 CAAATCTTTCTTTTATAT
1 CAAAT-TTT-TTTTATAT
21197719 ATATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (17 bp):
CAAATTTTTTTTATATT
Found at i:21203260 original size:19 final size:19
Alignment explanation
Indices: 21203232--21203272 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
21203222 CGGGTAGCCG
21203232 ATTCGAGTCTAGGAATTAA
1 ATTCGAGTCTAGGAATTAA
*
21203251 ATTCGGGTCTAGGAATTAA
1 ATTCGAGTCTAGGAATTAA
21203270 ATT
1 ATT
21203273 TGGGAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (19 bp):
ATTCGAGTCTAGGAATTAA
Found at i:21206937 original size:21 final size:22
Alignment explanation
Indices: 21206913--21206984 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 22
21206903 CACTACATAA
21206913 TATATATTATGTT-TTTGTTTT
1 TATATATTATGTTATTTGTTTT
*
21206934 TATA-ATGTAT-TATATTT-TTGT
1 TATATAT-TATGT-TATTTGTTTT
21206955 TATATATTATGTTATTTGTGTTT
1 TATATATTATGTTATTTGT-TTT
*
21206978 TTTATAT
1 TATATAT
21206985 GTTTACATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
20 3 0.07
21 23 0.56
22 7 0.17
23 8 0.20
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (22 bp):
TATATATTATGTTATTTGTTTT
Found at i:21207000 original size:42 final size:41
Alignment explanation
Indices: 21206913--21207006 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 41
21206903 CACTACATAA
* *
21206913 TATATATTATGTTTTTGTTTTTATAATGTATTATATTTTTGT
1 TATATATTATGTTTTTGTTTTTATAATGTATTACA-TTTTAT
*
21206955 TATATATTATGTTATTTGTGTTTTTTATATGT-TTACA-TTTAT
1 TATATATTATGTT-TTTGT-TTTTATA-ATGTATTACATTTTAT
21206997 TATA-ATTATG
1 TATATATTATG
21207007 ACAAATCTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
41 6 0.13
42 21 0.46
43 5 0.11
44 10 0.22
45 4 0.09
ACGTcount: A:0.26, C:0.01, G:0.10, T:0.64
Consensus pattern (41 bp):
TATATATTATGTTTTTGTTTTTATAATGTATTACATTTTAT
Found at i:21207238 original size:21 final size:21
Alignment explanation
Indices: 21207212--21207265 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
21207202 TTATTTTTAA
21207212 TCTCATTGCTACCATATCCAC
1 TCTCATTGCTACCATATCCAC
*
21207233 TCTCATTGCTACCATATTCAC
1 TCTCATTGCTACCATATCCAC
*
21207254 TCTCACTGCTAC
1 TCTCATTGCTAC
21207266 AATAACTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.37, G:0.06, T:0.35
Consensus pattern (21 bp):
TCTCATTGCTACCATATCCAC
Found at i:21221643 original size:22 final size:22
Alignment explanation
Indices: 21221615--21221659 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21221605 AGGGGGAGTG
21221615 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
21221637 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
21221659 T
1 T
21221660 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:21227752 original size:16 final size:17
Alignment explanation
Indices: 21227731--21227762 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21227721 CTTTTTATAA
21227731 ATTTTTTTT-ATTTTTG
1 ATTTTTTTTAATTTTTG
21227747 ATTTTTTTTAATTTTT
1 ATTTTTTTTAATTTTT
21227763 AAATTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (17 bp):
ATTTTTTTTAATTTTTG
Found at i:21227966 original size:25 final size:26
Alignment explanation
Indices: 21227907--21227967 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 26
21227897 ACTCTTTTTT
* * *
21227907 AAATGTTAATAACCAAATTTAGCTAAA
1 AAATG-TAAAAACCAAATTGAGCAAAA
*
21227934 AAGT-TAAAAACCAAATTGA-CAAAA
1 AAATGTAAAAACCAAATTGAGCAAAA
21227958 AAATGTAAAA
1 AAATGTAAAA
21227968 GTTGAGGACT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
24 7 0.25
25 18 0.64
27 3 0.11
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.23
Consensus pattern (26 bp):
AAATGTAAAAACCAAATTGAGCAAAA
Found at i:21228256 original size:20 final size:19
Alignment explanation
Indices: 21228233--21228273 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
21228223 TTGAGCAAAT
*
21228233 TTTTTTTTCTTTTATTTCCC
1 TTTTATTTC-TTTATTTCCC
*
21228253 TTTTATTTCTTTATTTTCC
1 TTTTATTTCTTTATTTCCC
21228272 TT
1 TT
21228274 CTCTTCTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATTTCTTTATTTCCC
Found at i:21228806 original size:15 final size:17
Alignment explanation
Indices: 21228781--21228812 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21228771 ATCAATAGAA
21228781 TTTAGAGTTTT-TCTTT
1 TTTAGAGTTTTGTCTTT
21228797 TTTA-AGTTTTGTCTTT
1 TTTAGAGTTTTGTCTTT
21228813 ATTGGGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.69
Consensus pattern (17 bp):
TTTAGAGTTTTGTCTTT
Found at i:21230272 original size:25 final size:25
Alignment explanation
Indices: 21230218--21230272 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
21230208 TGCTCATGCT
* * * *
21230218 AGCTATGAATTGGTATGTTCTCACG
1 AGCTGTGAATTGGTAAGCTCACACG
21230243 AGCTGTGAATTGGTAAGCTCACACG
1 AGCTGTGAATTGGTAAGCTCACACG
21230268 AGCTG
1 AGCTG
21230273 CAAATCGGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (25 bp):
AGCTGTGAATTGGTAAGCTCACACG
Found at i:21230296 original size:25 final size:25
Alignment explanation
Indices: 21230268--21230322 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
21230258 AGCTCACACG
21230268 AGCTGCAAATCGGGAAACTTATACA
1 AGCTGCAAATCGGGAAACTTATACA
* * *
21230293 AGCTGCAAATTGGGAAGCTTATACG
1 AGCTGCAAATCGGGAAACTTATACA
21230318 AGCTG
1 AGCTG
21230323 TGGTGTGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (25 bp):
AGCTGCAAATCGGGAAACTTATACA
Found at i:21234008 original size:23 final size:22
Alignment explanation
Indices: 21233965--21234008 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
21233955 TTCTAAGTCG
21233965 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
21233988 ATATTCACTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
21234009 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:21234206 original size:51 final size:51
Alignment explanation
Indices: 21234141--21234279 Score: 181
Period size: 51 Copynumber: 2.7 Consensus size: 51
21234131 GTTCGGTTTG
* * *
21234141 CATAGTAGCATGCACATAGTACTACACATGTGACCATTACCATCCGATACC
1 CATAGTAGCCTGCACATAGTACTACACAAGTGACCATAACCATCCGATACC
* * * * * *
21234192 CATAGTATCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTACG
1 CATAGTAGCCTGCACATAGTACTACACAAGTGA-CCATAACCATCCGATACC
21234243 CATAGTAGCCTGCACATAGTACTACACAAGTGACCAT
1 CATAGTAGCCTGCACATAGTACTACACAAGTGACCAT
21234280 CACTTTCACT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
50 2 0.03
51 71 0.95
52 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (51 bp):
CATAGTAGCCTGCACATAGTACTACACAAGTGACCATAACCATCCGATACC
Found at i:21236857 original size:16 final size:18
Alignment explanation
Indices: 21236831--21236863 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21236821 TAACATTGTG
21236831 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
21236848 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
21236864 TCTTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:21240785 original size:14 final size:14
Alignment explanation
Indices: 21240766--21240804 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
21240756 TTGGAAAAGT
21240766 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
21240780 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
21240794 AAACCATTTTC
1 AAATCATTTTC
21240805 AATGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:21242612 original size:20 final size:20
Alignment explanation
Indices: 21242570--21242612 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21242560 GAATCGAGGT
* *
21242570 TTACATTTCATTTTAAAATA
1 TTACATTTCAATTTAAAAGA
* *
21242590 TTACATTTGAATTTATAAGA
1 TTACATTTCAATTTAAAAGA
21242610 TTA
1 TTA
21242613 ATTGATATCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (20 bp):
TTACATTTCAATTTAAAAGA
Found at i:21242832 original size:41 final size:41
Alignment explanation
Indices: 21242774--21242863 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
21242764 TTTCCAAATC
** *
21242774 AATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCAAAAAAGGATAACA
* * *
21242815 AATGAAAGGGTTTAAAAGGATGTTATTAAAAAAGGATAACA
1 AATGAAAAGGTTGAAAAGGATGTTATCAAAAAAGGATAACA
*
21242856 AATTAAAA
1 AATGAAAA
21242864 AAATGTATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.51, C:0.04, G:0.21, T:0.23
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCAAAAAAGGATAACA
Found at i:21246861 original size:24 final size:23
Alignment explanation
Indices: 21246824--21246913 Score: 81
Period size: 24 Copynumber: 3.8 Consensus size: 23
21246814 TCTATAAGGC
* *
21246824 CCTTTTGGCTTATTCTGTAAGTG
1 CCTTTTGGCATATTATGTAAGTG
* * *
21246847 CCTTTGTGGCGTATTTTGAAAGTG
1 CCTTT-TGGCATATTATGTAAGTG
* *
21246871 CCTTTATGGCATATTATATAAATG
1 CCTTT-TGGCATATTATGTAAGTG
*
21246895 CCTTTATAGCATATTATGT
1 CCTTT-TGGCATATTATGT
21246914 GTTGCGTTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
23 5 0.09
24 50 0.91
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (23 bp):
CCTTTTGGCATATTATGTAAGTG
Done.