Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 245 of 295
Found at i:78901664 original size:17 final size:16
Alignment explanation
Indices: 78901642--78901674 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
78901632 GTTTCAAACC
78901642 TTATATTTTATTATTTA
1 TTATATTTTA-TATTTA
78901659 TTATATTTTATATTTA
1 TTATATTTTATATTTA
78901675 AATGCACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATATTTTATATTTA
Found at i:78909315 original size:17 final size:17
Alignment explanation
Indices: 78909290--78909328 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
78909280 AAACACACAA
78909290 TTTTATCTTCTTCTTTT
1 TTTTATCTTCTTCTTTT
* *
78909307 TTTTTTCTTTTTCTTTT
1 TTTTATCTTCTTCTTTT
78909324 TTTTA
1 TTTTA
78909329 ATTTTCCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTATCTTCTTCTTTT
Found at i:78909587 original size:28 final size:28
Alignment explanation
Indices: 78909522--78909592 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
78909512 TTCTCTTGAA
*
78909522 TAGGGTTTAAAATTTTAAGATTTAGTGT
1 TAGGGTTTACAATTTTAAGATTTAGTGT
* * *
78909550 TAAGGCTTACAATTTTATGATTTTA-TGT
1 TAGGGTTTACAATTTTAAGA-TTTAGTGT
*
78909578 TTGGGTTTACAATTT
1 TAGGGTTTACAATTT
78909593 AAACTTTTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.49
Consensus pattern (28 bp):
TAGGGTTTACAATTTTAAGATTTAGTGT
Found at i:78910049 original size:25 final size:25
Alignment explanation
Indices: 78910019--78910073 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
78910009 AAAATAAAAA
* *
78910019 AAATAAATTAATTTAAATAATA-TTT
1 AAATAAATTAATAT-AATAATACATT
*
78910044 AAATAATTTAATATAATAATACATT
1 AAATAAATTAATATAATAATACATT
78910069 AAATA
1 AAATA
78910074 TTTAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
AAATAAATTAATATAATAATACATT
Found at i:78910055 original size:16 final size:16
Alignment explanation
Indices: 78910036--78910086 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
78910026 TTAATTTAAA
78910036 TAATATTTAAATAATT
1 TAATATTTAAATAATT
*
78910052 TAATA-TAATAATACATT
1 TAATATTTA-AATA-ATT
*
78910069 AAATATTTAAATAATT
1 TAATATTTAAATAATT
78910085 TA
1 TA
78910087 GTATAATGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 2 0.07
16 13 0.46
17 11 0.39
18 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATATTTAAATAATT
Found at i:78910059 original size:21 final size:21
Alignment explanation
Indices: 78910022--78910061 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
78910012 ATAAAAAAAA
78910022 TAAATTAATTTAAATAATATT
1 TAAATTAATTTAAATAATATT
78910043 TAAA-TAATTTAATATAATA
1 TAAATTAATTTAA-ATAATA
78910062 ATACATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATTAATTTAAATAATATT
Found at i:78910076 original size:33 final size:33
Alignment explanation
Indices: 78910037--78910107 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
78910027 TAATTTAAAT
*
78910037 AATATTTAAATAATTTAATATAATAATACATTA
1 AATATTTAAATAATTTAATATAATAATACATAA
* * *
78910070 AATATTTAAATAATTTAGTATAATGATATATAA
1 AATATTTAAATAATTTAATATAATAATACATAA
78910103 AATAT
1 AATAT
78910108 ATCAATTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (33 bp):
AATATTTAAATAATTTAATATAATAATACATAA
Found at i:78911720 original size:36 final size:36
Alignment explanation
Indices: 78911673--78911745 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
78911663 TTGTGAAAGG
78911673 TGTTAGCATGAAAACACCTAAAAGGATTATTTTGCA
1 TGTTAGCATGAAAACACCTAAAAGGATTATTTTGCA
78911709 TGTTAGCATGAAAACACCTAAAAGGATTATTTTGCA
1 TGTTAGCATGAAAACACCTAAAAGGATTATTTTGCA
78911745 T
1 T
78911746 AAATTGCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (36 bp):
TGTTAGCATGAAAACACCTAAAAGGATTATTTTGCA
Found at i:78912463 original size:45 final size:45
Alignment explanation
Indices: 78912362--78912478 Score: 123
Period size: 45 Copynumber: 2.6 Consensus size: 45
78912352 GAGAGCTAGT
*
78912362 GTAAGACATGTCT-GGACATGCATCGGCCTCGAGACGTAAGCCAAT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGT-AGCCAAC
* * * *
78912407 GTAAGAAATGTCTGGGACATGCATCGG-CTACTAGATGT-GTCAAC
1 GTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAGCCAAC
*
78912451 GTAAGACTATGTCTGAGACATGGCATCG
1 GTAAGAC-ATGTCTGGGACAT-GCATCG
78912479 ACACATATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
44 10 0.16
45 26 0.43
46 25 0.41
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAGCCAAC
Found at i:78921029 original size:25 final size:25
Alignment explanation
Indices: 78920992--78921041 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
78920982 TTGTAAATCA
78920992 GAAAAATATCTTTAGA-AATTTTCT
1 GAAAAATATCTTTAGAGAATTTTCT
*
78921016 GAAATAATCTCTTTAGAGAATTTTCT
1 GAAA-AATATCTTTAGAGAATTTTCT
78921042 CTCTACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (25 bp):
GAAAAATATCTTTAGAGAATTTTCT
Found at i:78921275 original size:37 final size:36
Alignment explanation
Indices: 78921213--78921288 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
78921203 GATAATCAAT
*
78921213 TTAATATTAATTTAATAAAATACTATTAAGATAAATA
1 TTAATATTAATTTAATAAAATACTATTAAAAT-AATA
*
78921250 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATT-AATTTAATA-AAATACTATTAAAATAATA
78921286 TTA
1 TTA
78921289 TTTCTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 10 0.29
37 23 0.66
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (36 bp):
TTAATATTAATTTAATAAAATACTATTAAAATAATA
Found at i:78928368 original size:25 final size:25
Alignment explanation
Indices: 78928322--78928390 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
78928312 CACAGCTCTT
* * *
78928322 ATGAGCTTCCCAATACGT-AGCTCGC
1 ATGAGCTTCCCATTA-TTCAGCTCAC
* *
78928347 ATGAGCTTTCCGTTATTCAGCTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
78928372 ATGAGCTTCCCATTATTCA
1 ATGAGCTTCCCATTATTCA
78928391 ACTGGGAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCATTATTCAGCTCAC
Found at i:78929652 original size:162 final size:162
Alignment explanation
Indices: 78929367--78929680 Score: 441
Period size: 162 Copynumber: 1.9 Consensus size: 162
78929357 CATGTGTCAT
* *
78929367 TGTATATTTAAACTTGTGCAAGTCAGTATGCTCAACACGGCCTAGCACACGAGCATGTGACTTGG
1 TGTATATTTAAAATTGTGCAAGTCAGTATGCTCAACACGGCCTAGCACACGAGCATGTGACTTGA
* * * * *
78929432 CCGTATGACCCAAGTTATGGAGTTACACGGGCAAGAACATGGGCTGAGACATGGCCGTGTGTCCC
66 CCGTATGACCCAAGTCAGGGAGTTACACAGGCAAGAACACGGGCTGAGACACGGCCGTGTGTCCC
* *
78929497 TATTTTGATTGCCCACACGGCCGTGTGTCTCC
131 TATTTCGAATGCCCACACGGCCGTGTGTCTCC
* * *
78929529 TGTATCTTTAAAATTGTGCAAG-CTAGTATGCTCAACACGGCCTAGCACACGGGCGTGTGACTTG
1 TGTATATTTAAAATTGTGCAAGTC-AGTATGCTCAACACGGCCTAGCACACGAGCATGTGACTTG
* * * * * * *
78929593 ACTGTGTGACCTAAGTCAGGGAGTTACACAGGTACGGACACGGGCTGAGACACGGCCGTGTGTTC
65 ACCGTATGACCCAAGTCAGGGAGTTACACAGGCAAGAACACGGGCTGAGACACGGCCGTGTGTCC
78929658 CTATTTCGAATGCCCACACGGCC
130 CTATTTCGAATGCCCACACGGCC
78929681 TGAGACACTA
Statistics
Matches: 132, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
161 1 0.01
162 131 0.99
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (162 bp):
TGTATATTTAAAATTGTGCAAGTCAGTATGCTCAACACGGCCTAGCACACGAGCATGTGACTTGA
CCGTATGACCCAAGTCAGGGAGTTACACAGGCAAGAACACGGGCTGAGACACGGCCGTGTGTCCC
TATTTCGAATGCCCACACGGCCGTGTGTCTCC
Found at i:78937154 original size:40 final size:40
Alignment explanation
Indices: 78937070--78937296 Score: 291
Period size: 40 Copynumber: 5.7 Consensus size: 40
78937060 TTTGAATGAT
* * * *
78937070 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCAT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA
** *
78937110 ATCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAA
78937150 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
*
78937190 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
*
78937230 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA-A
* *
78937271 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGTTAAGTCCCGAAGGCATTTG
78937297 AACGAGGAGC
Statistics
Matches: 172, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 158 0.92
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:78937314 original size:80 final size:79
Alignment explanation
Indices: 78937070--78937329 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 79
78937060 TTTGAATGAT
* * * * * * *
78937070 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCC
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCA
*
78937133 TTTGTGCGAGATACTAA
64 TTTGTGCGAG-GACTAA
* *
78937150 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA-AATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCAT
*
78937214 TTGTGCGAGTTACTAA
65 TTGTGCGAG-GACTAA
*
78937230 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
** *
78937295 TGAACGAGGAGCTAT
66 TGTGCGAGGA-CTAA
* *
78937310 ATCC-GGTTAAATTCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
78937330 TACGTGATTT
Statistics
Matches: 156, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
79 17 0.11
80 130 0.83
81 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
TGTGCGAGGACTAA
Found at i:78937314 original size:120 final size:120
Alignment explanation
Indices: 78937068--78937329 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
78937058 TATTTGAATG
* * *
78937068 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCC
1 ATATCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA
* **
78937133 TTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
66 TTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGATACT
* * * * **
78937188 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATATCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGG
* * *
78937251 CATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGGA-GCT
64 CATTTGTGCGAGATACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGA-GATACT
* *
78937308 ATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGTTAAGTCCCGAAGG
78937330 TACGTGATTT
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
119 15 0.12
120 94 0.78
121 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
ATATCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA
TTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGATACT
Found at i:78938983 original size:5 final size:5
Alignment explanation
Indices: 78938973--78938998 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
78938963 ATTAAGTGAT
78938973 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
78938999 AACCTATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:78939472 original size:50 final size:49
Alignment explanation
Indices: 78939390--78939494 Score: 120
Period size: 50 Copynumber: 2.1 Consensus size: 49
78939380 CACAGCTCTT
** * * * * * *
78939390 ATGAGCTTCCCGATACTCAGTTTAGATTAGCTTTCTGTTATTTAGCTCGC
1 ATGAGCTTCCCGATACTCAACTCACATGAGCTTCCCGTT-TATAGCTCGC
*
78939440 ATGAGCTTCCCGATACTCAACTCACATGAGCTTCCCGTTTATAGCTCGT
1 ATGAGCTTCCCGATACTCAACTCACATGAGCTTCCCGTTTATAGCTCGC
78939489 ATGAGC
1 ATGAGC
78939495 ATACATGTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
49 14 0.30
50 32 0.70
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (49 bp):
ATGAGCTTCCCGATACTCAACTCACATGAGCTTCCCGTTTATAGCTCGC
Found at i:78939783 original size:32 final size:32
Alignment explanation
Indices: 78939747--78939846 Score: 77
Period size: 32 Copynumber: 3.2 Consensus size: 32
78939737 CTTTTGGCCA
78939747 AAATGGTTTGGATATGTTTATATGCTTGCCTT
1 AAATGGTTTGGATATGTTTATATGCTTGCCTT
* * *
78939779 AAATGTGATTAAATGG-TAAG-TTA-A--ATTGCC-A
1 AAATG-G-TT---TGGATATGTTTATATGCTTGCCTT
*
78939810 AAATGGTTTGGATATGTTTATATGCTTACCTT
1 AAATGGTTTGGATATGTTTATATGCTTGCCTT
78939842 AAATG
1 AAATG
78939847 TGATTAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 22
0.63 0.09 0.28
Matches are distributed among these distances:
26 3 0.06
27 3 0.06
28 3 0.06
29 3 0.06
30 1 0.02
31 9 0.18
32 15 0.30
33 1 0.02
34 3 0.06
35 3 0.06
36 3 0.06
37 3 0.06
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (32 bp):
AAATGGTTTGGATATGTTTATATGCTTGCCTT
Found at i:78939820 original size:63 final size:63
Alignment explanation
Indices: 78939743--78939868 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
78939733 TAGGCTTTTG
*
78939743 GCCAAAATGGTTTGGATATGTTTATATGCTTGCCTTAAATGTGATTAAATGGTAAGTTAAATT
1 GCCAAAATGGTTTGGATATGTTTATATGCTTACCTTAAATGTGATTAAATGGTAAGTTAAATT
78939806 GCCAAAATGGTTTGGATATGTTTATATGCTTACCTTAAATGTGATTAAATGGTAAGTTAAATT
1 GCCAAAATGGTTTGGATATGTTTATATGCTTACCTTAAATGTGATTAAATGGTAAGTTAAATT
78939869 ATGTATTATA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (63 bp):
GCCAAAATGGTTTGGATATGTTTATATGCTTACCTTAAATGTGATTAAATGGTAAGTTAAATT
Found at i:78944539 original size:20 final size:20
Alignment explanation
Indices: 78944511--78944567 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
78944501 AAGATTATGA
*
78944511 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
78944531 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* **
78944551 TCCATTTTATTTACTTA
1 ACCATTCCATTTACTTA
78944568 GCATAAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:78944553 original size:15 final size:16
Alignment explanation
Indices: 78944525--78944557 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
78944515 CTCCATTTAC
78944525 TTACTTACCATTCCAT
1 TTACTTACCATTCCAT
*
78944541 TTACTTA-CTTTCCAT
1 TTACTTACCATTCCAT
78944556 TT
1 TT
78944558 TATTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (16 bp):
TTACTTACCATTCCAT
Found at i:78945459 original size:5 final size:5
Alignment explanation
Indices: 78945449--78945516 Score: 136
Period size: 5 Copynumber: 13.6 Consensus size: 5
78945439 AATAATTAAG
78945449 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
78945499 TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TAT
78945517 TATATATAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 63 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:78951720 original size:20 final size:20
Alignment explanation
Indices: 78951652--78951720 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
78951642 TTCAACTATG
*
78951652 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCACATTAAT
78951673 ATTAAATT--T-A-ATTTAAT
1 ATTAAATTAATCACA-TTAAT
78951690 ATTAAGA-TAATCACATTAAT
1 ATTAA-ATTAATCACATTAAT
78951710 ATTAAATTAAT
1 ATTAAATTAAT
78951721 AAAAAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
17 12 0.30
18 2 0.05
19 2 0.05
20 17 0.43
21 7 0.17
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.43
Consensus pattern (20 bp):
ATTAAATTAATCACATTAAT
Found at i:78954337 original size:21 final size:21
Alignment explanation
Indices: 78954310--78954368 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
78954300 AAAAATAATG
*
78954310 GTAGTGGTGAGATTAGTTACT
1 GTAGTGGTGAGATTAGATACT
*
78954331 TTAGTGGTGAGATTAGATACT
1 GTAGTGGTGAGATTAGATACT
* *
78954352 GTAGCGATGAGATTAGA
1 GTAGTGGTGAGATTAGA
78954369 AATAGCGGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.05, G:0.32, T:0.34
Consensus pattern (21 bp):
GTAGTGGTGAGATTAGATACT
Found at i:78954508 original size:18 final size:18
Alignment explanation
Indices: 78954472--78954514 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
78954462 TTATAATAAA
*
78954472 ATAAATAATTAAATTTAT
1 ATAAATAATTAAATATAT
78954490 ATAAAT-ATTAAATA-AT
1 ATAAATAATTAAATATAT
78954506 ATAACATAA
1 ATAA-ATAA
78954515 AATAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 9 0.41
18 7 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAATAATTAAATATAT
Found at i:78955287 original size:17 final size:17
Alignment explanation
Indices: 78955265--78955319 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
78955255 AAAAATATGA
78955265 AAAAAAATTAAAATATT
1 AAAAAAATTAAAATATT
*
78955282 -AAAAAATT-CAATATTT
1 AAAAAAATTAAAATA-TT
* *
78955298 TAAAAAATAAAAATATAT
1 AAAAAAATTAAAATAT-T
78955316 AAAA
1 AAAA
78955320 TTTAATTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 4 0.13
16 10 0.33
17 8 0.27
18 8 0.27
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAAATTAAAATATT
Found at i:78955294 original size:15 final size:16
Alignment explanation
Indices: 78955266--78955319 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
78955256 AAAATATGAA
78955266 AAAAAATTAAAATATT
1 AAAAAATTAAAATATT
* *
78955282 AAAAAATTCAATATTTT
1 AAAAAATT-AAAATATT
*
78955299 AAAAAATAAAAATATAT
1 AAAAAATTAAAATAT-T
78955316 AAAA
1 AAAA
78955320 TTTAATTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 13 0.42
17 18 0.58
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAAATTAAAATATT
Found at i:78961952 original size:17 final size:16
Alignment explanation
Indices: 78961925--78961983 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
78961915 ATGACATGCC
*
78961925 AATAAATAATTTTAAA
1 AATAAAAAATTTTAAA
78961941 ATATAAAAAATTTTAAGA
1 A-ATAAAAAATTTTAA-A
*
78961959 AATAAAAAA-TTAAAA
1 AATAAAAAATTTTAAA
78961974 AATAAAAAAT
1 AATAAAAAAT
78961984 CATGAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
15 10 0.26
16 5 0.13
17 21 0.55
18 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AATAAAAAATTTTAAA
Found at i:78961971 original size:15 final size:15
Alignment explanation
Indices: 78961936--78961983 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
78961926 ATAAATAATT
*
78961936 TTAAAATATAAAAAA
1 TTAAAAAATAAAAAA
*
78961951 TTTTAAGAAATAAAAAA
1 --TTAAAAAATAAAAAA
78961968 TTAAAAAATAAAAAA
1 TTAAAAAATAAAAAA
78961983 T
1 T
78961984 CATGAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 15 0.54
17 13 0.46
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
TTAAAAAATAAAAAA
Found at i:78964855 original size:83 final size:83
Alignment explanation
Indices: 78964659--78964857 Score: 319
Period size: 84 Copynumber: 2.4 Consensus size: 83
78964649 ATGAGAAATT
78964659 AAATTAAATAAAATCTGTTTCCGGATTTATTCCCACCGATTAACAAAATTTTATTTGATTTTATT
1 AAATTAAATAAAATCTGTTT-CGGATTTATTCCCACCGATTAACAAAATTTTATTTGATTTTATT
*
78964724 TTGTTTTCAAATTAGAATA
65 TTGTTTCCAAATTAGAATA
* *
78964743 AAATTAAATAAAATCTGTTTCGGGATTTATTCCTACCGTTTAACAAAATTTTATTTGATTTTATT
1 AAATTAAATAAAATCTGTTTC-GGATTTATTCCCACCGATTAACAAAATTTTATTTGATTTTATT
78964808 TT-TTTCCAAATTAGAATA
65 TTGTTTCCAAATTAGAATA
* *
78964826 GAATTAAATAAAATATGTTTCGAGATTTATTC
1 AAATTAAATAAAATCTGTTTCG-GATTTATTC
78964858 TCGTCATTTA
Statistics
Matches: 108, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
82 1 0.01
83 44 0.41
84 63 0.58
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (83 bp):
AAATTAAATAAAATCTGTTTCGGATTTATTCCCACCGATTAACAAAATTTTATTTGATTTTATTT
TGTTTCCAAATTAGAATA
Found at i:78964877 original size:83 final size:81
Alignment explanation
Indices: 78964659--78964897 Score: 284
Period size: 83 Copynumber: 2.9 Consensus size: 81
78964649 ATGAGAAATT
*
78964659 AAATTAAATAAAATCTGTTTCCGGATTTATTCC-CACCGATTAACAAAATTTTATTTGATTTTAT
1 AAATTAAATAAAATCTGTTT-CGGATTTATTCCTCA---TTTAACAAAATTTTATTTGATTTTAT
*
78964723 TTTGTTTTCAAATTAGAATA
62 TTTGTTTCCAAATTAGAATA
*
78964743 AAATTAAATAAAATCTGTTTCGGGATTTATTCCTACCGTTTAACAAAATTTTATTTGATTTTATT
1 AAATTAAATAAAATCTGTTTC-GGATTTATTCCT--CATTTAACAAAATTTTATTTGATTTTATT
78964808 TT-TTTCCAAATTAGAATA
63 TTGTTTCCAAATTAGAATA
* * * * * * *
78964826 GAATTAAATAAAATATGTTTCGAGATTTATTCTCGTCATTTATCAAGATTTTATTCGATATTGTT
1 AAATTAAATAAAATCTGTTTCG-GATTTATTC-C-TCATTTAACAAAATTTTATTTGATTTTATT
78964891 TTGTTTC
63 TTGTTTC
78964898 TAAACCAAGA
Statistics
Matches: 136, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
82 1 0.01
83 69 0.51
84 64 0.47
85 1 0.01
87 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (81 bp):
AAATTAAATAAAATCTGTTTCGGATTTATTCCTCATTTAACAAAATTTTATTTGATTTTATTTTG
TTTCCAAATTAGAATA
Found at i:78966976 original size:493 final size:493
Alignment explanation
Indices: 78966009--78966994 Score: 1767
Period size: 493 Copynumber: 2.0 Consensus size: 493
78965999 AATTAAATGA
78966009 TTTATATGTTTAATTATAAAGGTTAAATTTGTAATTCATAAAATAAACATGAATTAAGTAAAAAT
1 TTTATATGTTTAATTATAAAGGTTAAATTTGTAATTCATAAAATAAACATGAATTAAGTAAAAAT
* *
78966074 AAACCAAAATTTTCCTCCATTTTCATCTTCTACCACTGAAAATAAGAAAGAAAAAAGAAAAGCAT
66 AAACCAAAATTTTCCTCCATTTTCATCTTCTACCACCGAAAATAAGAAAGAAAAAAGAAAAACAT
* *
78966139 CCATGGGAGGTTTTTAGGGTTCGGCCACTTTATGATTTAATTGTAAGTCCGTTTTTGTCTCCTTT
131 CCATGGGAGGTTTTTAGGGTTCGGCCACTTTATGATCTAATTGTAAGTCCGTTTTTGTCCCCTTT
78966204 TTAATGATTTCTATGTTTTTGTGATCATTGCAACTAGTACTAGCTAGCCCAGGGACTATTTTGCA
196 TTAATGATTTCTATGTTTTTGTGATCATTGCAACTAGTACTAGCTAGCCCAGGGACTATTTTGCA
* * *
78966269 AAACTTTTTAAAGATTTTTAATGATGCCATTGATGAATATGTATGAGTTTTGAAGTTTCTTGATA
261 AAACTTGTTAAAGATTTTGAATGATGCCATTGATGAATATATATGAGTTTTGAAGTTTCTTGATA
* *
78966334 GATTTTGATTGCTTGTTGATAGATATACAAGTTTGGTTTAGTGATTTTTAGTGAAAATGCAAAAT
326 GATTTTGATTGCTTGTTGATAGATATACAAGTTTGGTTAAGTGATTTTTAATGAAAATGCAAAAT
* *
78966399 AGGGATTAAATTGAAAAATGTTAAAACTTTGTGGTTAAAATGTGAAATAAATGAAAAATATGGGT
391 AGGGATTAAATTGAAAAATGTTAAAACTTTGTGGTTAAAATGTGAAATAAATGAAAAAAATGGGC
* *
78966464 TACTAGAGGTATTTGGTAATTCGGCTAAGCATGGGTGT
456 TACTAGAGGTATATGGTAATTCGACTAAGCATGGGTGT
78966502 TTTATATGTTTAATTATAAAGGTTAAATTTGTAATTCATAAAATAAACATGAATTAAGTAAAAAT
1 TTTATATGTTTAATTATAAAGGTTAAATTTGTAATTCATAAAATAAACATGAATTAAGTAAAAAT
78966567 AAACCAAAATTTTCCTCCATTTTCATCTTCTACCACCGAAAATAAGAAAGAAAAAAGAAAAACAT
66 AAACCAAAATTTTCCTCCATTTTCATCTTCTACCACCGAAAATAAGAAAGAAAAAAGAAAAACAT
78966632 CCATGGGAGGTTTTTAGGGTTCGGCCACTTTATGATCTAATTGTAAGTCCGTTTTTGTCCCCTTT
131 CCATGGGAGGTTTTTAGGGTTCGGCCACTTTATGATCTAATTGTAAGTCCGTTTTTGTCCCCTTT
* *
78966697 TTAATGATTTCTATGTTTTTGTGATCATTGCAACTAGTACTAGCTAGCCCAGTGACTGTTTTGCA
196 TTAATGATTTCTATGTTTTTGTGATCATTGCAACTAGTACTAGCTAGCCCAGGGACTATTTTGCA
*
78966762 AAAC-TGTTAAAGATTTTGAATGATGTCATTGATGAATATATATGAGTTTTGAAGTTTCTTGATA
261 AAACTTGTTAAAGATTTTGAATGATGCCATTGATGAATATATATGAGTTTTGAAGTTTCTTGATA
* *
78966826 GATTTTTATTGCTTGTTGTTAGATATACAAGTTTGGTTAAGTGATTTTTAATGAAAATGCAAAAT
326 GATTTTGATTGCTTGTTGATAGATATACAAGTTTGGTTAAGTGATTTTTAATGAAAATGCAAAAT
* *
78966891 AGGGATTAAATTGAGAAATGTTGAAACTTTGTGGTTAAAATGTGAAATAAATGAAAAAAATGGGC
391 AGGGATTAAATTGAAAAATGTTAAAACTTTGTGGTTAAAATGTGAAATAAATGAAAAAAATGGGC
*
78966956 TACTAGAGGTATAATGGTAATTTGACTAAGCATGGGTGT
456 TACTAGAGGTAT-ATGGTAATTCGACTAAGCATGGGTGT
78966995 CTAGCATGGG
Statistics
Matches: 471, Mismatches: 21, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
492 190 0.40
493 281 0.60
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (493 bp):
TTTATATGTTTAATTATAAAGGTTAAATTTGTAATTCATAAAATAAACATGAATTAAGTAAAAAT
AAACCAAAATTTTCCTCCATTTTCATCTTCTACCACCGAAAATAAGAAAGAAAAAAGAAAAACAT
CCATGGGAGGTTTTTAGGGTTCGGCCACTTTATGATCTAATTGTAAGTCCGTTTTTGTCCCCTTT
TTAATGATTTCTATGTTTTTGTGATCATTGCAACTAGTACTAGCTAGCCCAGGGACTATTTTGCA
AAACTTGTTAAAGATTTTGAATGATGCCATTGATGAATATATATGAGTTTTGAAGTTTCTTGATA
GATTTTGATTGCTTGTTGATAGATATACAAGTTTGGTTAAGTGATTTTTAATGAAAATGCAAAAT
AGGGATTAAATTGAAAAATGTTAAAACTTTGTGGTTAAAATGTGAAATAAATGAAAAAAATGGGC
TACTAGAGGTATATGGTAATTCGACTAAGCATGGGTGT
Found at i:78967002 original size:13 final size:13
Alignment explanation
Indices: 78966984--78967009 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78966974 AATTTGACTA
78966984 AGCATGGGTGTCT
1 AGCATGGGTGTCT
78966997 AGCATGGGTGTCT
1 AGCATGGGTGTCT
78967010 TGAAATTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (13 bp):
AGCATGGGTGTCT
Found at i:78983739 original size:49 final size:49
Alignment explanation
Indices: 78983686--78983783 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
78983676 CATAAACCTT
78983686 TTTTTTCCTGGCCTTTTGTGCTTTAAAGTGTGCAGAACTTCATAAGCTA
1 TTTTTTCCTGGCCTTTTGTGCTTTAAAGTGTGCAGAACTTCATAAGCTA
78983735 TTTTTTCCTGGCCTTTTGTGCTTTAAAGTGTGCAGAACTTCATAAGCTA
1 TTTTTTCCTGGCCTTTTGTGCTTTAAAGTGTGCAGAACTTCATAAGCTA
78983784 GTAATACGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (49 bp):
TTTTTTCCTGGCCTTTTGTGCTTTAAAGTGTGCAGAACTTCATAAGCTA
Found at i:78986979 original size:20 final size:20
Alignment explanation
Indices: 78986954--78986991 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78986944 TATAATAAAT
78986954 TTTAG-ATTTAGTTAGTTATA
1 TTTAGAATTTA-TTAGTTATA
78986974 TTTAGAATTTATTAGTTA
1 TTTAGAATTTATTAGTTA
78986992 GTCCTAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (20 bp):
TTTAGAATTTATTAGTTATA
Found at i:78987919 original size:22 final size:22
Alignment explanation
Indices: 78987894--78987939 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
78987884 AGACAGTGAT
78987894 AATTTAAAGTGAAATTATACAA
1 AATTTAAAGTGAAATTATACAA
78987916 AATTTAAAGTGAAATTATACAA
1 AATTTAAAGTGAAATTATACAA
78987938 AA
1 AA
78987940 CGATTCTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (22 bp):
AATTTAAAGTGAAATTATACAA
Found at i:78991133 original size:16 final size:16
Alignment explanation
Indices: 78991112--78991156 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
78991102 CGACAACTTG
*
78991112 GCTCAATGAAAAGCTA
1 GCTCAAGGAAAAGCTA
*
78991128 GCTCAAGGAAAATCTA
1 GCTCAAGGAAAAGCTA
78991144 GCTCAAGGAAAAG
1 GCTCAAGGAAAAG
78991157 GTAGATTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (16 bp):
GCTCAAGGAAAAGCTA
Found at i:78993163 original size:26 final size:26
Alignment explanation
Indices: 78993134--78993241 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
78993124 TGGTACAAAT
78993134 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
78993160 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
78993186 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
78993212 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
78993238 TGAT
1 TGAT
78993242 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:78998246 original size:40 final size:40
Alignment explanation
Indices: 78998155--78998327 Score: 228
Period size: 39 Copynumber: 4.4 Consensus size: 40
78998145 TCCTCGTTCA
* * * ** *
78998155 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
78998194 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
78998234 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** *
78998274 AATGCCTTC-GGACTTAACCCGGATTT-AGTACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
78998312 AAGGCCTTC-GGACTTA
1 AATGCCTTCGGGACTTA
78998328 TCCGGATATA
Statistics
Matches: 123, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
38 24 0.20
39 50 0.41
40 49 0.40
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:78998256 original size:79 final size:78
Alignment explanation
Indices: 78998153--78998373 Score: 241
Period size: 79 Copynumber: 2.8 Consensus size: 78
78998143 GCTCCTCGTT
* * * *
78998153 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTTAACCCGGA
78998218 TTTAACAACTCGCA
66 TTT-ACAACTCGCA
* * *
78998232 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTC-GGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC-AATGCCTTCGGGACTTAACCCGG
**
78998296 ATTTAGTACTCGCA
65 ATTTACAACTCGCA
* * * * * * * *
78998310 CAAAGGCCTTC-GGACTT-ATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCA-CACAATGCCTTCGGGACTTAACCCGG
78998373 A
65 A
78998374 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
76 20 0.17
77 22 0.18
78 17 0.14
79 51 0.43
80 9 0.08
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTTAACCCGGA
TTTACAACTCGCA
Found at i:79017479 original size:27 final size:27
Alignment explanation
Indices: 79017420--79017571 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
79017410 TAAATTGTAC
*
79017420 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
79017448 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
79017475 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
79017502 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
79017530 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
79017557 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79017572 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:79017529 original size:55 final size:54
Alignment explanation
Indices: 79017420--79017571 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 54
79017410 TAAATTGTAC
79017420 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAATTGACTATGT
* * * *
79017475 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
* *
79017530 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
79017572 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
Found at i:79017531 original size:82 final size:82
Alignment explanation
Indices: 79017420--79017571 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
79017410 TAAATTGTAC
* *
79017420 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
79017485 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
79017502 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
79017567 GTGCG
66 GTGCG
79017572 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:79020175 original size:27 final size:27
Alignment explanation
Indices: 79020145--79020214 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
79020135 ATTGCGTTTG
* * *
79020145 TCAGAGAGGCTCAACTAGTCGCGCCTA
1 TCAGAGAGACACAACCAGTCGCGCCTA
* *
79020172 TCAGATAGACACAACCATTCGCGCCTA
1 TCAGAGAGACACAACCAGTCGCGCCTA
* * *
79020199 CCAGATAGACGCAACC
1 TCAGAGAGACACAACC
79020215 TATATACCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.33, G:0.20, T:0.16
Consensus pattern (27 bp):
TCAGAGAGACACAACCAGTCGCGCCTA
Found at i:79020421 original size:16 final size:16
Alignment explanation
Indices: 79020397--79020432 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
79020387 ATTTCAGTAT
*
79020397 ATAATTTGATAGACTA
1 ATAAGTTGATAGACTA
79020413 ATAAGTTGATAGACTA
1 ATAAGTTGATAGACTA
79020429 ATAA
1 ATAA
79020433 AATCAGCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (16 bp):
ATAAGTTGATAGACTA
Found at i:79020582 original size:15 final size:16
Alignment explanation
Indices: 79020555--79020586 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
79020545 TGTCATCAAA
79020555 AAATATATTAAAAAAT
1 AAATATATTAAAAAAT
79020571 AAATAT-TTAAAAAAT
1 AAATATATTAAAAAAT
79020586 A
1 A
79020587 GTTATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATATATTAAAAAAT
Found at i:79021197 original size:18 final size:19
Alignment explanation
Indices: 79021160--79021198 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
79021150 AATACAAAAT
*
79021160 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
79021179 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
79021197 AA
1 AA
79021199 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:79030338 original size:18 final size:18
Alignment explanation
Indices: 79030315--79030352 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
79030305 CTGATGATAT
79030315 TGACGACAAAGACGTGAA
1 TGACGACAAAGACGTGAA
**
79030333 TGACGATGAAGACGTGAA
1 TGACGACAAAGACGTGAA
79030351 TG
1 TG
79030353 GCGATGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (18 bp):
TGACGACAAAGACGTGAA
Found at i:79030357 original size:18 final size:18
Alignment explanation
Indices: 79030323--79030358 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
79030313 ATTGACGACA
79030323 AAGACGTGAATGACGATG
1 AAGACGTGAATGACGATG
*
79030341 AAGACGTGAATGGCGATG
1 AAGACGTGAATGACGATG
79030359 GAAACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.36, T:0.17
Consensus pattern (18 bp):
AAGACGTGAATGACGATG
Found at i:79034662 original size:15 final size:16
Alignment explanation
Indices: 79034636--79034665 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
79034626 TATTAGTTTC
79034636 ATATTATTTTATGTAA
1 ATATTATTTTATGTAA
79034652 ATATT-TTTTATGTA
1 ATATTATTTTATGTA
79034666 TACTTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
ATATTATTTTATGTAA
Found at i:79035112 original size:18 final size:18
Alignment explanation
Indices: 79035062--79035112 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
79035052 ATTATGTACA
* *
79035062 TTATATCTTATTATGTGTT
1 TTATATATTATT-TATGTT
*
79035081 TTAT-TATTCTTTTATGTT
1 TTATATATT-ATTTATGTT
79035099 TTATATATTATTTA
1 TTATATATTATTTA
79035113 AGCTATCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (18 bp):
TTATATATTATTTATGTT
Found at i:79046262 original size:49 final size:51
Alignment explanation
Indices: 79046190--79046341 Score: 184
Period size: 53 Copynumber: 3.0 Consensus size: 51
79046180 AGGGAAGGAA
* *
79046190 GCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACTACA-AAAAA-AAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAAAAAGAAAGG
* * *
79046239 GCCAAAGTGAAATCCCGCAAAGGGCACTTTGAGACCAAATAAAAATGGAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAAAAA--GAAAGG
** *
79046292 GCCAAAGAAAAAACCCGCAAAGGGCGCTTTGAGACTCAATAATAAA-AAAG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAA-AAAGAAAG
79046342 AAAGAAAAAG
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
49 34 0.39
50 5 0.06
51 4 0.05
53 41 0.47
54 3 0.03
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (51 bp):
GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAAAAAGAAAGG
Found at i:79046352 original size:53 final size:53
Alignment explanation
Indices: 79046252--79046358 Score: 121
Period size: 53 Copynumber: 2.0 Consensus size: 53
79046242 AAAGTGAAAT
* **
79046252 CCCGCAAAGGGCACTTTGAGACCAAATAAAAATGGAAAGGGCCAAAGA-AAAAA
1 CCCGCAAAGGGCACTTTGAGACCAAATAAAAATAGAAA-GGAAAAAGAGAAAAA
*
79046305 CCCGCAAAGGGCGCTTTGAGACTCAATAATAAAAA-AGAAA-GAAAAAGAGAAAAA
1 CCCGCAAAGGGCACTTTGAGAC-C-A-AATAAAAATAGAAAGGAAAAAGAGAAAAA
79046359 GGAGAGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
53 27 0.59
54 6 0.13
55 5 0.11
56 8 0.17
ACGTcount: A:0.51, C:0.17, G:0.21, T:0.10
Consensus pattern (53 bp):
CCCGCAAAGGGCACTTTGAGACCAAATAAAAATAGAAAGGAAAAAGAGAAAAA
Found at i:79047344 original size:15 final size:16
Alignment explanation
Indices: 79047318--79047347 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
79047308 TATTAGTTTC
79047318 ATATTATTTTATGTAA
1 ATATTATTTTATGTAA
79047334 ATATT-TTTTATGTA
1 ATATTATTTTATGTA
79047348 TACTTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
ATATTATTTTATGTAA
Found at i:79050674 original size:68 final size:64
Alignment explanation
Indices: 79050564--79050714 Score: 169
Period size: 68 Copynumber: 2.3 Consensus size: 64
79050554 ATATAGATGG
* * * * **
79050564 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTTTACAAGAGAGCTACGAGACAT
1 TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAGACAAGAGAGCTACGAG--A-
79050629 TA
63 TA
* *
79050631 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGAGAT
1 T-ATGTAGCTAGGTCACATGGATGATACTGA-GTGCACACCATGTAGACAAGAGAGCTACGAGAT
79050695 A
64 A
*
79050696 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCACATG
79050715 CGTGGTTCCA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 17 0.23
65 3 0.04
66 1 0.01
67 2 0.03
68 50 0.68
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:79060186 original size:8 final size:8
Alignment explanation
Indices: 79060175--79060200 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
79060165 TAATTTGGTA
79060175 AATTAAAT
1 AATTAAAT
79060183 AATTAAAT
1 AATTAAAT
79060191 AATTAAAT
1 AATTAAAT
79060199 AA
1 AA
79060201 GAAAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTAAAT
Found at i:79065059 original size:22 final size:22
Alignment explanation
Indices: 79065018--79065076 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
79065008 GTTTTAAGAA
* *
79065018 TTGTTTTAGTA-TCATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
79065039 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
79065061 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
79065077 GATTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.48
22 10 0.30
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.68
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:79065075 original size:20 final size:22
Alignment explanation
Indices: 79065031--79065076 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
79065021 TTTTAGTATC
* *
79065031 ATTTTTATTTGTTTTAATATTT
1 ATTTTTATGTGTTTTAATATAT
79065053 ATTTTTATGT-TTTTAA-ATAT
1 ATTTTTATGTGTTTTAATATAT
79065073 ATTT
1 ATTT
79065077 GATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTTTATGTGTTTTAATATAT
Found at i:79065093 original size:26 final size:24
Alignment explanation
Indices: 79065047--79065095 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
79065037 ATTTGTTTTA
*
79065047 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
79065071 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
79065096 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:79065106 original size:25 final size:26
Alignment explanation
Indices: 79065050--79065107 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
79065040 TGTTTTAATA
*
79065050 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
79065075 TTGATTTATTATATTTTTAAA-ATTT
1 TTTATTTATTATATTTTTAAATATAT
79065100 TTTATTTA
1 TTTATTTA
79065108 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:79068027 original size:31 final size:30
Alignment explanation
Indices: 79067989--79068053 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 30
79067979 CCACGTGGGA
*
79067989 AACCGAGGAAGCTATGAGAAAATAGTACCC
1 AACCGAGGAAGCTATGAGAAAACAGTACCC
79068019 TAACCGAGGAAGCTATGAGAAAACAGTACCC
1 -AACCGAGGAAGCTATGAGAAAACAGTACCC
79068050 AACC
1 AACC
79068054 TATTTTCTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (30 bp):
AACCGAGGAAGCTATGAGAAAACAGTACCC
Found at i:79071604 original size:64 final size:64
Alignment explanation
Indices: 79071504--79071663 Score: 241
Period size: 64 Copynumber: 2.5 Consensus size: 64
79071494 TGAGTTTATG
* *
79071504 TAATTTATATAAAATAAATTTTATATTACAAGGTTTGTTCCAATTAGATTAATG-TTGTAATGTA
1 TAATTTATATAACA-AAA-TTTATATTACAAAGTTTGTTCCAATTAGATT-ATGATTGTAATGTA
79071568 TT
63 TT
79071570 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGATTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGATTGTAATGTATT
* * *
79071634 TAATTTATATAACATATTTTATGTTACAAA
1 TAATTTATATAACAAAATTTATATTACAAA
79071664 ACTAAGTTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
63 3 0.03
64 69 0.78
65 3 0.03
66 13 0.15
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (64 bp):
TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGATTGTAATGTATT
Found at i:79074039 original size:111 final size:109
Alignment explanation
Indices: 79073867--79074083 Score: 346
Period size: 111 Copynumber: 2.0 Consensus size: 109
79073857 AAACAAAAAA
*
79073867 TTTATATTAAAATACTAAAAATAATATGCCAATAAAAAAACATAACATAAAAGATACATAATAAA
1 TTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAACATAACATAAAAGATACATAATAAA
* *
79073932 TACAAATATTTTTATTATTATTTTAAAATGATAGA-AAGTAAGTT
66 TAAAAATATTTTTATTATTACTTTAAAATGATA-ATAAGTAAGTT
* * *
79073976 TTTATATTAAAAATACTAAGAATAACATGTCAATAACAAAAACATAACATAAACGATACATAATA
1 TTTATATT-AAAATACTAAAAATAACATGCCAATAA-AAAAACATAACATAAAAGATACATAATA
79074041 AATAAAAATATTTTTATTATTACTTTAAAATGATAATAAGTAA
64 AATAAAAATATTTTTATTATTACTTTAAAATGATAATAAGTAA
79074084 ATATTTTTGG
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
109 8 0.08
110 25 0.25
111 66 0.67
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.33
Consensus pattern (109 bp):
TTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAACATAACATAAAAGATACATAATAAA
TAAAAATATTTTTATTATTACTTTAAAATGATAATAAGTAAGTT
Found at i:79074789 original size:20 final size:20
Alignment explanation
Indices: 79074764--79074804 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
79074754 CCACCCTCTC
*
79074764 CTTCTCTTTCT-TCTTCTTCT
1 CTTCTCCTTCTCT-TTCTTCT
79074784 CTTCTCCTTCTCTTTCTTCT
1 CTTCTCCTTCTCTTTCTTCT
79074804 C
1 C
79074805 CTTTACTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (20 bp):
CTTCTCCTTCTCTTTCTTCT
Found at i:79074804 original size:15 final size:15
Alignment explanation
Indices: 79074760--79074807 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
79074750 CTACCCACCC
79074760 TCTCCTTCTCTTTC-
1 TCTCCTTCTCTTTCT
*
79074774 T-T-CTTCT-TCTCT
1 TCTCCTTCTCTTTCT
79074786 TCTCCTTCTCTTTCT
1 TCTCCTTCTCTTTCT
79074801 TCTCCTT
1 TCTCCTT
79074808 TACTCACGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 3 0.11
12 6 0.21
13 2 0.07
14 6 0.21
15 11 0.39
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (15 bp):
TCTCCTTCTCTTTCT
Found at i:79078041 original size:46 final size:46
Alignment explanation
Indices: 79077930--79078060 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 46
79077920 TAATATTTCA
* * * *
79077930 TATTCTTTAGTCCGCAACATATGTAAGAGTTGGGAACCTAAATTTG
1 TATTCTTCAGTCCGCAACATATGTAAGAGCTAGGAACCTAAATTCG
* ** *
79077976 TATTCTTCAGCCCATAACATATGTACGAGCTAGGAACCTAAATTCG
1 TATTCTTCAGTCCGCAACATATGTAAGAGCTAGGAACCTAAATTCG
* *
79078022 TATTC-TCGAGTCCGCAACATATGTAGGAGCTAGCAACCT
1 TATTCTTC-AGTCCGCAACATATGTAAGAGCTAGGAACCT
79078061 GGACAAAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 2 0.03
46 69 0.97
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (46 bp):
TATTCTTCAGTCCGCAACATATGTAAGAGCTAGGAACCTAAATTCG
Found at i:79082742 original size:48 final size:47
Alignment explanation
Indices: 79082605--79082772 Score: 129
Period size: 48 Copynumber: 3.6 Consensus size: 47
79082595 CGCATAGTAT
*
79082605 GATGCCAATGCCATATCCCAGATATGTTCTTACATGGGAT-C--ATA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCCATATA
* *
79082649 GAT-CGAAGTTG--ATAGT-CCAGCTATGGTCTTACAT--GATGCCTCATATA
1 GATGCCAA--TGCCATA-TCCCAGATATGGTCTTACATGGGAT--C-CATATA
* *
79082696 GTTGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATC-CATATA
* ** *
79082744 GATGCCAAAGCCATGGCCCAGACATGGTC
1 GATGCCAATGCCATATCCCAGATATGGTC
79082773 ATCAGGATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
41 3 0.03
43 22 0.23
44 4 0.04
45 3 0.03
46 2 0.02
47 6 0.06
48 53 0.55
50 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (47 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCCATATA
Found at i:79089911 original size:43 final size:44
Alignment explanation
Indices: 79089840--79089974 Score: 193
Period size: 43 Copynumber: 3.1 Consensus size: 44
79089830 TATCGAAATG
*
79089840 TGATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
79089884 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
79089927 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
79089972 TGA
1 TGA
79089975 AATGTTATGT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
42 1 0.01
43 37 0.47
44 8 0.10
45 32 0.41
46 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:79090301 original size:38 final size:38
Alignment explanation
Indices: 79090244--79090435 Score: 185
Period size: 38 Copynumber: 5.1 Consensus size: 38
79090234 ATGATATTTG
* **
79090244 TATCCGGATTAAAGACCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCATGCTGGAATTA
** *
79090282 TATATGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGG-AATTA
*
79090320 TATCCGGATTAAATCCC-CAGGCTTCATGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGG-AATTA
* * * * *
79090357 TATCCGGGTTAATTCCCGCATGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
* * * *
79090395 TATCTGGGTTAAATCCCGCAGGCCTAATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
79090433 TAT
1 TAT
79090436 TCGGCCCTTT
Statistics
Matches: 127, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
37 36 0.28
38 89 0.70
39 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
Found at i:79090351 original size:75 final size:74
Alignment explanation
Indices: 79090244--79090435 Score: 215
Period size: 75 Copynumber: 2.5 Consensus size: 74
79090234 ATGATATTTG
* * *
79090244 TATCCGGATTAAAGACCGCAGGCTATATGCTGGAATTATATATGGGTTAAATCCCGCAGGCTTCG
1 TATCCGGATTAAA-TCCCCAGGCT-TATGCTGGAATTATATACGGGTTAAATCCCGCAGGCTTCG
*
79090309 TGCTGGTAATA
64 TGCTAGTAATA
* * *
79090320 TATCCGGATTAAATCCCCAGGCTTCATGCTGGTAA-TATATCCGGGTTAATTCCCGCATGCTTCG
1 TATCCGGATTAAATCCCCAGGCTT-ATGCTGG-AATTATATACGGGTTAAATCCCGCAGGCTTCG
*
79090384 TGCTAGTATTA
64 TGCTAGTAATA
* * * *
79090395 TATCTGGGTTAAATCCCGCAGGCCTAATGCTGGTATTATAT
1 TATCCGGATTAAATCCC-CAGG-CTTATGCTGGAATTATAT
79090436 TCGGCCCTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
74 1 0.01
75 65 0.66
76 31 0.31
77 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (74 bp):
TATCCGGATTAAATCCCCAGGCTTATGCTGGAATTATATACGGGTTAAATCCCGCAGGCTTCGTG
CTAGTAATA
Found at i:79090558 original size:45 final size:45
Alignment explanation
Indices: 79090433--79090558 Score: 175
Period size: 45 Copynumber: 2.8 Consensus size: 45
79090423 GCTGGTATTA
* * * *
79090433 TATTCGGCCCTTT-GAGCCTAGCAGGTTATTATGCCAGTGAGACAC
1 TATTCGG-GCTTTGGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
*
79090478 TATTCGGGCCTTTGG-GCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGG-CTTTGGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
79090523 TATTCGGGCTTTGGAGCCTAGCAGGCTATAATGCCG
1 TATTCGGGCTTTGGAGCCTAGCAGGCTATAATGCCG
79090559 ATGAAATGAT
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
44 6 0.08
45 66 0.90
46 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCTTTGGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:79090575 original size:45 final size:44
Alignment explanation
Indices: 79090442--79090576 Score: 139
Period size: 45 Copynumber: 3.0 Consensus size: 44
79090432 ATATTCGGCC
* * * * * *
79090442 CTTTGAGCCTAGCAGGTTATTATGCC-AGTGAGACACTATTCGGG
1 CTTTGGGCCTAGCAGGCTATAATGCCGA-TGAAATACTAATCGGG
* * *
79090486 CCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG
1 -CTTTGGGCCTAGCAGGCTATAATGCCGATGAAATACTAATCGGG
79090531 CTTTGGAGCCTAGCAGGCTATAATGCCGATGAAATGA-TAATCGGG
1 CTTTGG-GCCTAGCAGGCTATAATGCCGATGAAAT-ACTAATCGGG
79090576 C
1 C
79090577 CTCGATCCTA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
44 6 0.08
45 72 0.91
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (44 bp):
CTTTGGGCCTAGCAGGCTATAATGCCGATGAAATACTAATCGGG
Found at i:79093199 original size:46 final size:46
Alignment explanation
Indices: 79093149--79093242 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 46
79093139 AGTTAGAAGA
*
79093149 CTAAAT-TAGTATTCTCCAATCCACAACATATGCAGGAGCTGGTAAC
1 CTAAATCTA-TATTCTCCAATCCACAACATATGCAGGAGCTGGGAAC
* *
79093195 CTAAATCTATATTCTCCAATCTACCACATATGCAGGAGCTGGGAAC
1 CTAAATCTATATTCTCCAATCCACAACATATGCAGGAGCTGGGAAC
79093241 CT
1 CT
79093243 GAGCAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 42 0.95
47 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (46 bp):
CTAAATCTATATTCTCCAATCCACAACATATGCAGGAGCTGGGAAC
Found at i:79096272 original size:17 final size:17
Alignment explanation
Indices: 79096229--79096281 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
79096219 ACTCAATTCG
* *
79096229 AAAGATGGAAAAATGAAG
1 AAAGAT-GAAAAATAAAA
*
79096247 AAATA-GAAAAATAAAA
1 AAAGATGAAAAATAAAA
79096263 AAAGATGAAAAATATAAA
1 AAAGATGAAAAATA-AAA
79096281 A
1 A
79096282 TTTCATTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 13 0.45
17 8 0.28
18 8 0.28
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (17 bp):
AAAGATGAAAAATAAAA
Found at i:79110499 original size:42 final size:42
Alignment explanation
Indices: 79110422--79110552 Score: 131
Period size: 44 Copynumber: 3.0 Consensus size: 42
79110412 TTTTACATGT
* * * * *
79110422 AATCAAATATTGATGCCACTGTCCCAGATAGGGTCTTACACGA
1 AATCAAATA-CGATGCCAATGTTCCAGACATGGTCTTACACGA
*
79110465 AATCAAATACGATGCCAATGTTCCAGACATGGTCTTACACATA
1 AATCAAATACGATGCCAATGTTCCAGACATGGTCTTACAC-GA
* *
79110508 AATCATAAGT-CGATGCCAACG-TCCTAGACGTGGTCTTACACGA
1 AATCA-AA-TACGATGCCAATGTTCC-AGACATGGTCTTACACGA
79110551 AA
1 AA
79110553 ACACATATCG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
42 26 0.35
43 21 0.28
44 27 0.36
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
AATCAAATACGATGCCAATGTTCCAGACATGGTCTTACACGA
Found at i:79110542 original size:44 final size:42
Alignment explanation
Indices: 79110391--79110552 Score: 125
Period size: 43 Copynumber: 3.8 Consensus size: 42
79110381 AGCTCGTACA
** * * * *
79110391 ATGCCAAC-TTCCTAGATGTGGTTTTACATGTAATCAAATATTG
1 ATGCCAACGTTCC-AGACATGGTCTTACACGAAATCAAATA-CG
* * *
79110434 ATGCC-ACTGTCCCAGATAGGGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTTCCAGACATGGTCTTACACGAAATCAAATACG
* *
79110476 ATGCCAATGTTCCAGACATGGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACGTTCCAGACATGGTCTTACAC-GAAATCA-AA-TACG
*
79110520 ATGCCAACG-TCCTAGACGTGGTCTTACACGAAA
1 ATGCCAACGTTCC-AGACATGGTCTTACACGAAA
79110553 ACACATATCG
Statistics
Matches: 97, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
42 26 0.27
43 40 0.41
44 30 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGCCAACGTTCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:79115378 original size:45 final size:45
Alignment explanation
Indices: 79115314--79115528 Score: 171
Period size: 45 Copynumber: 4.9 Consensus size: 45
79115304 TAGGATTCTA
* *
79115314 ATATGTGTTTCTGA-GTAAGACCACGTCTAGGACGTTGGCATCGAT
1 ATATGTGTTT-TCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
* *
79115359 ATATGTGTTTTCATGTAAGACTACGTTTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * * * * * *
79115404 TTATGTGGTTTCGTGTAAGACCATGTCTGGGACATTGACATTG-T
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
* *
79115448 AT-T-TG-ATTCGA-GTAAGACC-CTATCTGGGACAG-TGGCATCG--
1 ATATGTGTTTTC-ATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* * **
79115488 ATATGAGATAGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCAT
79115529 TGTATGATAT
Statistics
Matches: 134, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
40 2 0.01
41 26 0.19
42 5 0.04
43 24 0.18
44 5 0.04
45 72 0.54
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (45 bp):
ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:79124528 original size:15 final size:15
Alignment explanation
Indices: 79124510--79124540 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
79124500 AAAACATATC
79124510 AATTCAACTTATTCA
1 AATTCAACTTATTCA
79124525 AATTCAACTTATTCA
1 AATTCAACTTATTCA
79124540 A
1 A
79124541 TCATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTCAACTTATTCA
Found at i:79135458 original size:19 final size:19
Alignment explanation
Indices: 79135434--79135473 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
79135424 ATAGAATTGT
79135434 TGCATGAACTTTGCCATGA
1 TGCATGAACTTTGCCATGA
79135453 TGCATGAACTTTGCCATGA
1 TGCATGAACTTTGCCATGA
79135472 TG
1 TG
79135474 TTTTGATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (19 bp):
TGCATGAACTTTGCCATGA
Found at i:79135598 original size:16 final size:16
Alignment explanation
Indices: 79135573--79135607 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
79135563 ATTGAACTGC
79135573 TATTGTTTGAATGG-T
1 TATTGTTTGAATGGAT
79135588 TATTAGTTTGAATGGAT
1 TATT-GTTTGAATGGAT
79135605 TAT
1 TAT
79135608 ATGCCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 10 0.56
17 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (16 bp):
TATTGTTTGAATGGAT
Found at i:79139283 original size:34 final size:34
Alignment explanation
Indices: 79139240--79139307 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
79139230 TCGATCAAAT
*
79139240 GCAATTTGGGCCTAAGCCTATTTCAGTTTCAGTA
1 GCAATTTGGGCCTAAGCCCATTTCAGTTTCAGTA
* *
79139274 GCAATTTGGGCCTTAGCCCATTTCAGTTTTAGTA
1 GCAATTTGGGCCTAAGCCCATTTCAGTTTCAGTA
79139308 TCAGATATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (34 bp):
GCAATTTGGGCCTAAGCCCATTTCAGTTTCAGTA
Found at i:79139924 original size:31 final size:31
Alignment explanation
Indices: 79139889--79139966 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
79139879 GACCCAGAAT
* * *
79139889 CCCACACGCCCGTGTGGACTACCCTTGTGGA
1 CCCACACGCCCGTGTGGACTACCCATATGAA
* *
79139920 CCCACACACCCGTGTAGACTACCCATATGAA
1 CCCACACGCCCGTGTGGACTACCCATATGAA
*
79139951 CCCACACGCCTGTGTG
1 CCCACACGCCCGTGTG
79139967 CCCCATTATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.22, C:0.40, G:0.21, T:0.18
Consensus pattern (31 bp):
CCCACACGCCCGTGTGGACTACCCATATGAA
Found at i:79147225 original size:13 final size:13
Alignment explanation
Indices: 79147207--79147238 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
79147197 TTTCCAGCAA
79147207 TTATGAATTTATT
1 TTATGAATTTATT
79147220 TTATGAATTTATT
1 TTATGAATTTATT
*
79147233 TGATGA
1 TTATGA
79147239 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:79147465 original size:50 final size:50
Alignment explanation
Indices: 79147333--79147674 Score: 443
Period size: 50 Copynumber: 6.7 Consensus size: 50
79147323 ATTTGGCTAA
* * * * *
79147333 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATT
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* * *
79147389 AGAGGTCCCTTGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
*
79147439 AGAGGTCCCCTGTAAGACCATATCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
79147489 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
79147539 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
79147589 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** *
79147639 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCCTGTAAGACCATGTCTGGGACATGGC
79147675 TTTGGCATGT
Statistics
Matches: 258, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
49 1 0.00
50 185 0.72
51 29 0.11
53 3 0.01
55 2 0.01
56 38 0.15
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:79147620 original size:150 final size:154
Alignment explanation
Indices: 79147333--79147674 Score: 496
Period size: 150 Copynumber: 2.2 Consensus size: 154
79147323 ATTTGGCTAA
* *
79147333 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATTAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCC-TAAGATCA-GAGAGGTCCC
* *
79147398 TTGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAGGTCCCCTGTAAGACCATATC
64 ATGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAGGTCCCCTATAAGACCATATC
*
79147463 TGGGACATGGCATGGGCACCGA-GACG
129 TGGGACATGGCATGGGCACC-ATCACG
* * *
79147489 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCA-CC-GAGA-C-GAGAGGTCCCAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCTAAGATCAGAGAGGTCCCAT
* * * *
79147550 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAAGACCATGTCTG
66 GTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAGGTCCCCTATAAGACCATATCTG
79147615 GGACATGGCATGGGCACCATCACG
131 GGACATGGCATGGGCACCATCACG
*
79147639 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
79147675 TTTGGCATGT
Statistics
Matches: 169, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
149 1 0.01
150 93 0.55
151 30 0.18
152 1 0.01
153 3 0.02
155 2 0.01
156 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (154 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCTAAGATCAGAGAGGTCCCAT
GTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAGGTCCCCTATAAGACCATATCTG
GGACATGGCATGGGCACCATCACG
Found at i:79152564 original size:27 final size:26
Alignment explanation
Indices: 79152531--79152725 Score: 188
Period size: 27 Copynumber: 7.5 Consensus size: 26
79152521 AAACTGTACA
79152531 GCACTAAGTGTGCGATATGACTATGTT
1 GCACTAAGTGTGCGATATGACTATG-T
* *
79152558 GCACTAAGTGTGCGAAATGAATA-GAT
1 GCACTAAGTGTGCGATATGACTATG-T
*
79152584 GCACTAAGTGTGCGAAATGA-TCA--T
1 GCACTAAGTGTGCGATATGACT-ATGT
*
79152608 GCACTAAGTGTGCGAT-TGAC-ATGC
1 GCACTAAGTGTGCGATATGACTATGT
*
79152632 GCACTAAGTGTGCGATTTGACTATGT
1 GCACTAAGTGTGCGATATGACTATGT
* * *
79152658 GCACTAAGTGTGCGATTTGATTACGT
1 GCACTAAGTGTGCGATATGACTATGT
* *
79152684 GGCACTAAGTGTGCGAGT-TGATTATAT
1 -GCACTAAGTGTGCGA-TATGACTATGT
*
79152711 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
79152726 GGCTCAATAT
Statistics
Matches: 148, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
22 1 0.01
23 3 0.02
24 32 0.22
25 5 0.03
26 50 0.34
27 56 0.38
28 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATATGACTATGT
Found at i:79152593 original size:26 final size:26
Alignment explanation
Indices: 79152531--79152699 Score: 152
Period size: 26 Copynumber: 6.6 Consensus size: 26
79152521 AAACTGTACA
* *
79152531 GCACTAAGTGTGCGATATGACTATGTT
1 GCACTAAGTGTGCGAAATGAATATG-T
79152558 GCACTAAGTGTGCGAAATGAATA-GAT
1 GCACTAAGTGTGCGAAATGAATATG-T
79152584 GCACTAAGTGTGCGAAATG-ATCA--T
1 GCACTAAGTGTGCGAAATGAAT-ATGT
* * *
79152608 GCACTAAGTGTGCG-ATTG-ACATGC
1 GCACTAAGTGTGCGAAATGAATATGT
** *
79152632 GCACTAAGTGTGCGATTTGACTATGT
1 GCACTAAGTGTGCGAAATGAATATGT
** * *
79152658 GCACTAAGTGTGCGATTTGATTACGT
1 GCACTAAGTGTGCGAAATGAATATGT
79152684 GGCACTAAGTGTGCGA
1 -GCACTAAGTGTGCGA
79152700 GTTGATTATA
Statistics
Matches: 124, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.01
23 4 0.03
24 29 0.23
25 5 0.04
26 49 0.40
27 36 0.29
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGAAATGAATATGT
Found at i:79160789 original size:27 final size:27
Alignment explanation
Indices: 79160756--79160957 Score: 178
Period size: 27 Copynumber: 7.5 Consensus size: 27
79160746 AAACTGTACA
*
79160756 GCACTAAGTGTGCGATATGACTATGTT
1 GCACTAAGTGTGCGATATGAATATGTT
* * *
79160783 GCACTAAGTGTGCGAAATGAATACGAT
1 GCACTAAGTGTGCGATATGAATATGTT
* *
79160810 GCACTAAGTGTGCGAAATGAATA-GAT
1 GCACTAAGTGTGCGATATGAATATGTT
**
79160836 GCACTAAGTGTGCGA-ATG-ATCATGCG
1 GCACTAAGTGTGCGATATGAAT-ATGTT
* * *
79160862 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TATGAATATGTT
* * * *
79160890 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATATGAATATGTT
* * *
79160917 GCACTAAGTGTGCGAGT-TGATTATATA
1 GCACTAAGTGTGCGA-TATGAATATGTT
*
79160944 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
79160958 GGCTCAATAT
Statistics
Matches: 152, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
24 2 0.01
25 4 0.03
26 34 0.22
27 90 0.59
28 21 0.14
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGATATGAATATGTT
Found at i:79160816 original size:54 final size:54
Alignment explanation
Indices: 79160756--79160957 Score: 211
Period size: 54 Copynumber: 3.8 Consensus size: 54
79160746 AAACTGTACA
*
79160756 GCACTAAGTGTGCGA-TATGACTATGTTGCACTAAGTGTGCGAAATGAATACGAT
1 GCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGTGTGCGAAATGAATACG-T
* * *
79160810 GCACTAAGTGTGCGA-AATGAATA-G-ATGCACTAAGTGTGCG-AATGATCATGCG-
1 GCACTAAGTGTGCGAGTATGACTATGTA-GCACTAAGTGTGCGAAATGA--ATACGT
* ** *
79160862 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT
1 GCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGTGTGCGAAATGAATACGT
* * *
79160916 GGCACTAAGTGTGCGAGT-TGATTATATAGCACTGAGTGTGCG
1 -GCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGTGTGCG
79160958 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
52 20 0.16
53 23 0.18
54 61 0.49
55 21 0.17
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGTGTGCGAAATGAATACGT
Found at i:79164717 original size:27 final size:26
Alignment explanation
Indices: 79164686--79164860 Score: 172
Period size: 27 Copynumber: 6.5 Consensus size: 26
79164676 TAAATTGTAC
79164686 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
79164713 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
79164739 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
79164767 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
79164795 AGCACTAAGTGTGCGATTGGATTACGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* *
79164822 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
79164849 AGCACTGAGTGT
1 AGCACTAAGTGT
79164861 ACGGGCTCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 3 0.02
27 95 0.76
28 27 0.22
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:79164827 original size:82 final size:81
Alignment explanation
Indices: 79164687--79164842 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
79164677 AAATTGTACA
* *
79164687 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
79164752 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * *
79164768 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGGATTACG-TAGCACTAAG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAAT-GAATACGAT-GCACTAAG
*
79164831 TGTGCGAGTTGA
63 TGTGCGAATTGA
79164843 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79164854 original size:82 final size:81
Alignment explanation
Indices: 79164683--79164860 Score: 207
Period size: 82 Copynumber: 2.2 Consensus size: 81
79164673 GATTAAATTG
* *
79164683 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
79164748 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * *
79164764 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAAT-GAATACGAT-GCAC
* **
79164827 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
79164846 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
79164861 ACGGGCTCAA
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 20 0.25
82 60 0.75
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:79168756 original size:27 final size:26
Alignment explanation
Indices: 79168725--79168890 Score: 163
Period size: 27 Copynumber: 6.1 Consensus size: 26
79168715 TAAATTGTAC
79168725 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
79168752 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
79168778 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
79168806 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
79168834 AGCACTAAGTGTGCGATTGGATTACGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* *
79168861 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
79168888 AGC
1 AGC
79168891 NNNNNNNNNN
Statistics
Matches: 117, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.03
27 87 0.74
28 27 0.23
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:79168866 original size:55 final size:53
Alignment explanation
Indices: 79168725--79168879 Score: 177
Period size: 55 Copynumber: 2.8 Consensus size: 53
79168715 TAAATTGTAC
* **
79168725 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGA-AATGAATATG
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
* ** *
79168778 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
* *
79168833 TAGCACTAAGTGTGCGATTGGATTACGTAGCACTAAGTGTGCGAGTT
1 -AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAGTT
79168880 GATTATATAG
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
53 1 0.01
54 38 0.44
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
Found at i:79168866 original size:82 final size:81
Alignment explanation
Indices: 79168726--79168881 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
79168716 AAATTGTACA
* *
79168726 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
79168791 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * *
79168807 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGGATTACG-TAGCACTAAG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAAT-GAATACGAT-GCACTAAG
*
79168870 TGTGCGAGTTGA
63 TGTGCGAATTGA
79168882 TTATATAGCN
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79183791 original size:18 final size:19
Alignment explanation
Indices: 79183768--79183823 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
79183758 TCAGGTATTG
* *
79183768 AAAAAAATATTAATATAA-
1 AAAAAAATAATAAAATAAT
*
79183786 AAAAAAAAAATAAAATAAT
1 AAAAAAATAATAAAATAAT
*
79183805 AAAAAAATAA-AAAAAAAT
1 AAAAAAATAATAAAATAAT
79183823 A
1 A
79183824 TCAAGTGGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 23 0.72
19 9 0.28
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAAAATAATAAAATAAT
Found at i:79183794 original size:21 final size:21
Alignment explanation
Indices: 79183768--79183823 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
79183758 TCAGGTATTG
*
79183768 AAAAAAATATTAAT-ATAAAAA
1 AAAAAAATA-AAATAATAAAAA
79183789 AAAAAAATAAAATAATAAAAA
1 AAAAAAATAAAATAATAAAAA
79183810 AATAAAAA-AAAATA
1 AA-AAAAATAAAATA
79183824 TCAAGTGGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 3 0.09
21 24 0.75
22 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAAAAATAAAATAATAAAAA
Found at i:79183800 original size:8 final size:8
Alignment explanation
Indices: 79183779--79183819 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
79183769 AAAAAATATT
*
79183779 AATATAAA
1 AATAAAAA
79183787 AA-AAAAA
1 AATAAAAA
*
79183794 AATAAAAT
1 AATAAAAA
79183802 AATAAAAA
1 AATAAAAA
79183810 AATAAAAA
1 AATAAAAA
79183818 AA
1 AA
79183820 AATATCAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AATAAAAA
Found at i:79185708 original size:26 final size:27
Alignment explanation
Indices: 79185679--79185851 Score: 190
Period size: 27 Copynumber: 6.5 Consensus size: 27
79185669 TAAATGTACA
79185679 GCACTAAGTGTGCGA-TTGACTATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTT
** * *
79185705 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAGTTGACTATGTT
* **
79185732 GCACTAAGTGTGCGAATTGAC-ATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTT
*
79185758 GCACTAAGTGTGCGAGTTGACTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTT
* * *
79185785 GCACTAAGTGTGCGATTTGATTACG-T
1 GCACTAAGTGTGCGAGTTGACTATGTT
* * *
79185811 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGACTATGTT
*
79185838 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
79185852 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 60 0.48
27 66 0.52
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGACTATGTT
Found at i:79185738 original size:53 final size:53
Alignment explanation
Indices: 79185678--79185851 Score: 203
Period size: 53 Copynumber: 3.3 Consensus size: 53
79185668 TTAAATGTAC
**
79185678 AGCACTAAGTGTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTGACTATG-TGCACTAAGTGTGCGAGTTGAATATGAT
* *
79185732 -GCACTAAGTGTGCGAATTGAC-ATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCG-ATTGACTATG-TGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
79185784 GGCACTAAGTGTGCGATTTGATTACGTGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTGACTATGTGCACTAAGTGTGCGAGTTGAATATGAT
*
79185837 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79185852 GGCTCAATAT
Statistics
Matches: 104, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
52 2 0.02
53 94 0.90
54 8 0.08
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTGACTATGTGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:79193969 original size:28 final size:27
Alignment explanation
Indices: 79193847--79194025 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
79193837 TAAACTGTAC
79193847 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
79193874 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
79193900 ATGCACTAAGTGTGCGAAATGA-TCATGC
1 A-GCACTAAGTGTGCGATATGACT-ATGT
* *
79193928 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
79193956 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
79193983 GGCACTAAGTGGTGCGAGT-TGATTATAT
1 AGCACTAAGT-GTGCGA-TATGACTATGT
*
79194011 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79194026 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 1 0.01
27 84 0.65
28 42 0.33
29 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:79193971 original size:55 final size:54
Alignment explanation
Indices: 79193847--79194025 Score: 200
Period size: 55 Copynumber: 3.3 Consensus size: 54
79193837 TAAACTGTAC
* **
79193847 AGCACTAAGTGTGCGATATGA-CTATGTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGATC-ATGTGGCACTAAGTGTGCGAGTTGAATATGT
* * *
79193900 ATGCACTAAGTGTGCGAAATGATCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGATATGATCATGTGGCACTAAGTGTGCGAG-TTGAATATGT
* * * * *
79193956 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATATGATCATGTGGCACTAAGT-GTGCGAGTTGAATATGT
*
79194011 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79194026 GGCTCAATAT
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 37 0.35
55 61 0.57
56 8 0.07
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATATGATCATGTGGCACTAAGTGTGCGAGTTGAATATGT
Found at i:79193988 original size:82 final size:82
Alignment explanation
Indices: 79193848--79193999 Score: 218
Period size: 82 Copynumber: 1.9 Consensus size: 82
79193838 AAACTGTACA
* *
79193848 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT-G
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGG
79193912 TGCGAAATGATCATGCG
66 TGCGAAATGATCATGCG
* ** *
79193929 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAGT
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
79193993 GGTGCGA
64 GGTGCGA
79194000 GTTGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
81 16 0.26
82 40 0.65
83 6 0.10
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (82 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGG
TGCGAAATGATCATGCG
Found at i:79199677 original size:13 final size:13
Alignment explanation
Indices: 79199659--79199690 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
79199649 TTTCCAGCAA
79199659 TTATGAATTTATT
1 TTATGAATTTATT
79199672 TTATGAATTTATT
1 TTATGAATTTATT
*
79199685 TGATGA
1 TTATGA
79199691 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:79199897 original size:50 final size:50
Alignment explanation
Indices: 79199785--79200076 Score: 379
Period size: 50 Copynumber: 5.7 Consensus size: 50
79199775 ATTTGGGTAA
* * *
79199785 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC----GA-GATG
*
79199841 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* *
79199891 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* *
79199941 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * * *
79199991 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GATG
**
79200041 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
79200077 TTTGGCATGT
Statistics
Matches: 215, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.00
50 142 0.66
51 31 0.14
55 2 0.01
56 39 0.18
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:79202473 original size:30 final size:30
Alignment explanation
Indices: 79202387--79202572 Score: 173
Period size: 30 Copynumber: 6.3 Consensus size: 30
79202377 TGACTTTAGG
* * * *
79202387 TTGCTTACATAAGCTGACATTATGATAGAA
1 TTGCTCACACAAGCTGACATTATAATAGAT
* * * * *
79202417 ATGCTTACACAAGCTAAAATTGTAATAGAT
1 TTGCTCACACAAGCTGACATTATAATAGAT
*
79202447 TTGCTCACACAAGCTGACTTTATAATAG-T
1 TTGCTCACACAAGCTGACATTATAATAGAT
*
79202476 GTTGCTCACACAAGTTGACA-T-TAATAGAT
1 -TTGCTCACACAAGCTGACATTATAATAGAT
* * *
79202505 TTGCTCACACAAGTTGACTTTATAATA-AGG
1 TTGCTCACACAAGCTGACATTATAATAGA-T
* * *
79202535 TTGCTCACACAAGTTGACATTATGATAGAA
1 TTGCTCACACAAGCTGACATTATAATAGAT
79202565 TTGCTCAC
1 TTGCTCAC
79202573 TTAAGCTAAC
Statistics
Matches: 130, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
28 24 0.18
29 5 0.04
30 100 0.77
31 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (30 bp):
TTGCTCACACAAGCTGACATTATAATAGAT
Found at i:79202511 original size:58 final size:58
Alignment explanation
Indices: 79202439--79202572 Score: 216
Period size: 58 Copynumber: 2.3 Consensus size: 58
79202429 GCTAAAATTG
79202439 TAATAGATTTGCTCACACAAGCTGACTTTATAAT-AGTGTTGCTCACACAAGTTGACAT
1 TAATAGATTTGCTCACACAAGCTGACTTTATAATAAG-GTTGCTCACACAAGTTGACAT
*
79202497 TAATAGATTTGCTCACACAAGTTGACTTTATAATAAGGTTGCTCACACAAGTTGACAT
1 TAATAGATTTGCTCACACAAGCTGACTTTATAATAAGGTTGCTCACACAAGTTGACAT
*
79202555 TATGATAGAATTGCTCAC
1 TA--ATAGATTTGCTCAC
79202573 TTAAGCTAAC
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
58 56 0.79
59 2 0.03
60 13 0.18
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (58 bp):
TAATAGATTTGCTCACACAAGCTGACTTTATAATAAGGTTGCTCACACAAGTTGACAT
Found at i:79206735 original size:17 final size:17
Alignment explanation
Indices: 79206713--79206747 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
79206703 AAATGTCACC
79206713 TACCACATTTTTACACT
1 TACCACATTTTTACACT
79206730 TACCACATTTTTACACT
1 TACCACATTTTTACACT
79206747 T
1 T
79206748 TCATTTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (17 bp):
TACCACATTTTTACACT
Found at i:79217374 original size:44 final size:41
Alignment explanation
Indices: 79217278--79217398 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 41
79217268 TGTAATTAAT
* * *
79217278 ATCGATGCCACTATCCCAGACAGGGTTTTACACGAAATCAA
1 ATCGATGCCAATATCCCAGACATGGTCTTACACGAAATCAA
* *
79217319 ATACGATGCCAATTTCCCAGACATGGTCTTATACGTAAATCTCAA
1 AT-CGATGCCAATATCCCAGACATGGTCTTACACG-AAA--TCAA
** **
79217364 ATCGATGCCAACGTCCCAGATGTGGTCTTACACGA
1 ATCGATGCCAATATCCCAGACATGGTCTTACACGA
79217399 TAACACATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 27 0.41
43 4 0.06
44 27 0.41
45 6 0.09
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (41 bp):
ATCGATGCCAATATCCCAGACATGGTCTTACACGAAATCAA
Found at i:79220732 original size:14 final size:14
Alignment explanation
Indices: 79220715--79220744 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
79220705 TAGCCAACTA
*
79220715 CAAGACCATTTAAC
1 CAAGACCATTCAAC
79220729 CAAGACCATTCAAC
1 CAAGACCATTCAAC
79220743 CA
1 CA
79220745 TACCACATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.33, G:0.07, T:0.17
Consensus pattern (14 bp):
CAAGACCATTCAAC
Found at i:79221935 original size:17 final size:19
Alignment explanation
Indices: 79221899--79221939 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
79221889 GCCATATAAT
79221899 TATCATGAACCAAATCATA
1 TATCATGAACCAAATCATA
*
79221918 TATCAT-AA-CAAATTATA
1 TATCATGAACCAAATCATA
79221935 T-TCAT
1 TATCAT
79221940 TTAGTATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 2 0.10
19 6 0.29
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.34
Consensus pattern (19 bp):
TATCATGAACCAAATCATA
Found at i:79225380 original size:18 final size:17
Alignment explanation
Indices: 79225357--79225390 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
79225347 GAAGTATGAA
79225357 ATTTTGTGTATTTTGTGT
1 ATTTTGTG-ATTTTGTGT
79225375 ATTTTGTGATTTTGTG
1 ATTTTGTGATTTTGTG
79225391 AAATAGGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.65
Consensus pattern (17 bp):
ATTTTGTGATTTTGTGT
Found at i:79225391 original size:8 final size:9
Alignment explanation
Indices: 79225357--79225390 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
79225347 GAAGTATGAA
79225357 ATTTTGTGT
1 ATTTTGTGT
79225366 ATTTTGTGT
1 ATTTTGTGT
79225375 ATTTTGTG-
1 ATTTTGTGT
79225383 ATTTTGTG
1 ATTTTGTG
79225391 AAATAGGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.65
Consensus pattern (9 bp):
ATTTTGTGT
Found at i:79225779 original size:28 final size:29
Alignment explanation
Indices: 79225714--79225808 Score: 104
Period size: 28 Copynumber: 3.3 Consensus size: 29
79225704 GTGAAAAAGA
* *
79225714 CACTTAGTGTACGAAACTTCCAGAAATGG
1 CACTTAGTGTACGAAACATCCAGAGATGG
* *
79225743 CACTTAGTGTGCGAGACATCCAG-GATGG
1 CACTTAGTGTACGAAACATCCAGAGATGG
* * *
79225771 CACTTAGTGTACGATACATCC-GTGAAGG
1 CACTTAGTGTACGAAACATCCAGAGATGG
*
79225799 CACTAAGTGT
1 CACTTAGTGT
79225809 GCAAAACTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 36 0.63
29 20 0.35
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (29 bp):
CACTTAGTGTACGAAACATCCAGAGATGG
Found at i:79231223 original size:29 final size:28
Alignment explanation
Indices: 79231173--79231273 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
79231163 GTGAAAACGA
* *
79231173 CACTTAGTGTGAGAAACTTCCAGAAATGG
1 CACTTAGTGTGTGAAACATCCAG-AATGG
* * *
79231202 CACTTAGTATGTGAGACATCCAGGATGG
1 CACTTAGTGTGTGAAACATCCAGAATGG
*
79231230 CACTTAGTGTGTGATACATCCATGAA-GG
1 CACTTAGTGTGTGAAACATCCA-GAATGG
* *
79231258 CACTAAGTGTGCGAAA
1 CACTTAGTGTGTGAAA
79231274 ATTCGAGAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 39 0.65
29 21 0.35
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (28 bp):
CACTTAGTGTGTGAAACATCCAGAATGG
Found at i:79234057 original size:20 final size:22
Alignment explanation
Indices: 79234017--79234060 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 22
79234007 ATTTTATAAA
79234017 TTATTTAATAATTAAAAATAATT
1 TTATTTAATAATT-AAAATAATT
79234040 TTATTT-ATAATT-AAATAATT
1 TTATTTAATAATTAAAATAATT
79234060 T
1 T
79234061 AAAAAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTTAATAATTAAAATAATT
Found at i:79234057 original size:30 final size:29
Alignment explanation
Indices: 79234023--79234080 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
79234013 TAAATTATTT
*
79234023 AATAA-TTAAAAATAATTTTATTTATAATTA
1 AATAATTTAAAAA-AACTTTATTTA-AATTA
79234053 AATAATTTAAAAAAACTTTATTTAAATT
1 AATAATTTAAAAAAACTTTATTTAAATT
79234081 TATCACCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 15 0.58
31 7 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AATAATTTAAAAAAACTTTATTTAAATTA
Found at i:79236424 original size:20 final size:21
Alignment explanation
Indices: 79236385--79236424 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79236375 ACCTGACACT
*
79236385 TTTTTTTTCATATTTCTTTTG
1 TTTTTTTTCATATTTATTTTG
79236406 TTTTTTTTCAT-TTTATTTT
1 TTTTTTTTCATATTTATTTT
79236425 CATATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTTTTTCATATTTATTTTG
Found at i:79236451 original size:31 final size:30
Alignment explanation
Indices: 79236384--79236455 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 30
79236374 TACCTGACAC
* *
79236384 TTTTT-TTTTCATATTTCTTTTGTTTTTTT
1 TTTTTATTTTCATATTTCTTTTATTTTTCT
79236413 TCATTTTATTTTCATATTTCTTTTATTTTTACT
1 T--TTTTATTTTCATATTTCTTTTATTTTT-CT
79236446 TTTTTATTTT
1 TTTTTATTTT
79236456 ATTTCTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 1 0.03
31 13 0.35
32 21 0.57
33 2 0.05
ACGTcount: A:0.12, C:0.08, G:0.01, T:0.78
Consensus pattern (30 bp):
TTTTTATTTTCATATTTCTTTTATTTTTCT
Done.