Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 45 of 276
Found at i:14101307 original size:73 final size:73
Alignment explanation
Indices: 14101223--14101374 Score: 286
Period size: 73 Copynumber: 2.1 Consensus size: 73
14101213 GTAAATATTT
14101223 TAATTGATTATAATAGAAACTATAAATATTATAAATTATAAATTTTTATGTAATTTTGGTTTTAC
1 TAATTGATTATAATAGAAACTATAAATATTATAAATTATAAATTTTTATGTAATTTTGGTTTTAC
14101288 TTTTTTAA
66 TTTTTTAA
*
14101296 TAATTGATTATAATTGAAACTATAAATATTATAAATTATAAATTTTTATGTAATTTTGGTTTTAC
1 TAATTGATTATAATAGAAACTATAAATATTATAAATTATAAATTTTTATGTAATTTTGGTTTTAC
14101361 TTTTTTAA
66 TTTTTTAA
*
14101369 TTATTG
1 TAATTG
14101375 TATTTTTAAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (73 bp):
TAATTGATTATAATAGAAACTATAAATATTATAAATTATAAATTTTTATGTAATTTTGGTTTTAC
TTTTTTAA
Found at i:14102571 original size:27 final size:27
Alignment explanation
Indices: 14102513--14102571 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
14102503 TAAAAATATC
* *
14102513 CAAACATACCATTTAACTTGTAAATCT
1 CAAATATACCACTTAACTTGTAAATCT
*
14102540 CAAATATACCACTTAACTTGTAAATTT
1 CAAATATACCACTTAACTTGTAAATCT
14102567 CAAAT
1 CAAAT
14102572 CATTCTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.34
Consensus pattern (27 bp):
CAAATATACCACTTAACTTGTAAATCT
Found at i:14104591 original size:14 final size:13
Alignment explanation
Indices: 14104572--14104602 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
14104562 TTTTAATCTT
14104572 TTTTATTTTATTTA
1 TTTTATTTTA-TTA
14104586 TTTTATTTTATTA
1 TTTTATTTTATTA
14104599 TTTT
1 TTTT
14104603 TCTTTCTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:14109434 original size:21 final size:20
Alignment explanation
Indices: 14109410--14109456 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
14109400 TGATTGTTTT
*
14109410 ATTTTATATATTTTATATTTA
1 ATTTTATAAATTTT-TATTTA
* *
14109431 ATTTGATAAATTTTTATTTT
1 ATTTTATAAATTTTTATTTA
14109451 ATTTTA
1 ATTTTA
14109457 ATTATAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTATAAATTTTTATTTA
Found at i:14109521 original size:25 final size:25
Alignment explanation
Indices: 14109487--14109538 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
14109477 TTCCTTACAC
*
14109487 AAACATAAGGCCACCATCCACTATA
1 AAACATAAGGCCACCATACACTATA
14109512 AAACATAAGGCCACCATACACTATA
1 AAACATAAGGCCACCATACACTATA
14109537 AA
1 AA
14109539 TTCCTAACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.48, C:0.29, G:0.08, T:0.15
Consensus pattern (25 bp):
AAACATAAGGCCACCATACACTATA
Found at i:14110379 original size:71 final size:71
Alignment explanation
Indices: 14110259--14110399 Score: 201
Period size: 71 Copynumber: 2.0 Consensus size: 71
14110249 GAACAGGGGG
* * * * * *
14110259 AAATTGTTTTATCTCTACCCCAAGGATCACATGTGGCTAAACGATTGACAACTTGACAAGAGCCC
1 AAATTGTTATACCCCTACCCCAAGGATCACATGTGGCGAAACGAATGACAACCTGACAAGAGCCC
14110324 AGGTAA
66 AGGTAA
* * *
14110330 AAATTGTTATACCCCTACCCCAAGGATCATATGTGGCGGAATGAATGACAACCTGACAAGAGCCC
1 AAATTGTTATACCCCTACCCCAAGGATCACATGTGGCGAAACGAATGACAACCTGACAAGAGCCC
14110395 AGGTA
66 AGGTA
14110400 GGCACCCTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (71 bp):
AAATTGTTATACCCCTACCCCAAGGATCACATGTGGCGAAACGAATGACAACCTGACAAGAGCCC
AGGTAA
Found at i:14112108 original size:54 final size:54
Alignment explanation
Indices: 14112049--14112163 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
14112039 AGCATGGCTG
* * *
14112049 CCAGAACAGATA-ATGTGACAGGGTCACCAAATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCA
* * * * *
14112103 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
14112157 CCAGAAC
1 CCAGAAC
14112164 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 36 0.69
55 16 0.31
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
Found at i:14112111 original size:27 final size:26
Alignment explanation
Indices: 14112049--14112163 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
14112039 AGCATGGCTG
* * *
14112049 CCAGAACAGATAATGTGACAGGGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
14112075 CCAAATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
14112103 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
14112130 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
14112157 CCAGAAC
1 CCAGAAC
14112164 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
26 4 0.05
27 57 0.76
28 14 0.19
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:14113816 original size:26 final size:26
Alignment explanation
Indices: 14113780--14113863 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14113770 CATGAAATTC
14113780 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14113806 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14113832 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14113858 TTATCA
1 TTATCA
14113864 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14120175 original size:20 final size:20
Alignment explanation
Indices: 14120147--14120186 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14120137 TTATTAATTA
*
14120147 TTTATTTAC-TAGTTAGTTTC
1 TTTACTTACTTAGTT-GTTTC
14120167 TTTACTTACTTAGTTGTTTC
1 TTTACTTACTTAGTTGTTTC
14120187 AATTATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTACTTACTTAGTTGTTTC
Found at i:14124070 original size:26 final size:28
Alignment explanation
Indices: 14124016--14124076 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
14124006 TATTATCAAG
* *
14124016 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
14124044 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
14124070 AATTATA
1 AATTATA
14124077 CAAATTCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:14124115 original size:50 final size:47
Alignment explanation
Indices: 14123961--14124170 Score: 191
Period size: 50 Copynumber: 4.5 Consensus size: 47
14123951 TTAGTTCTTT
* * * * *
14123961 TTAATATTAATTATTTTAAATTGTATAAATTCATATAAGAAAATTTA
1 TTAATAATAATTATTTTAAATTATACAAATTCATGTAAGATAATTTA
* * * * *
14124008 TT-ATCAAGAATT-TTATGAAATTATATATTATT-AT-TAA-AT--TATA
1 TTAAT-AATAATTATT-TTAAATTATACA-AATTCATGTAAGATAATTTA
*
14124051 TGTAATAATAATTATTTTAAATTATACAAATTCATGTAAGATAATTAATTC
1 T-TAATAATAATTATTTTAAATTATACAAATTCATGTAAGATAA-T--TTA
14124102 TTAATAATAATTATTTTAAATTATACAAATTCATGTAAGATAATTTA
1 TTAATAATAATTATTTTAAATTATACAAATTCATGTAAGATAATTTA
* *
14124149 TTAGTTATAATTATTTTAAATT
1 TTAATAATAATTATTTTAAATT
14124171 TTATTAAATC
Statistics
Matches: 133, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
43 7 0.05
44 19 0.14
45 8 0.06
46 9 0.07
47 41 0.31
48 3 0.02
49 2 0.02
50 42 0.32
51 2 0.02
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (47 bp):
TTAATAATAATTATTTTAAATTATACAAATTCATGTAAGATAATTTA
Found at i:14124322 original size:16 final size:16
Alignment explanation
Indices: 14124301--14124342 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14124291 TTATTAAATT
*
14124301 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14124317 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14124332 AT-TATGTTTAA
1 ATATAT-TTTAA
14124343 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14124327 original size:15 final size:15
Alignment explanation
Indices: 14124292--14124333 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14124282 TTAAGAATTT
*
14124292 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14124306 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14124320 TATTTAATAATAAT
1 TATTTAATTATAAT
14124334 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14124583 original size:16 final size:16
Alignment explanation
Indices: 14124558--14124609 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
14124548 GATTTGCTAT
14124558 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
14124574 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
14124590 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14124606 TACA
1 TACA
14124610 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14124724 original size:22 final size:23
Alignment explanation
Indices: 14124699--14124742 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
14124689 AATTCTCAAT
14124699 ATTTATATCTTTT-GTCAAATTA
1 ATTTATATCTTTTAGTCAAATTA
* * *
14124721 ATTTTTATTTTTTAGTTAAATT
1 ATTTATATCTTTTAGTCAAATT
14124743 TAACCCTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (23 bp):
ATTTATATCTTTTAGTCAAATTA
Found at i:14129804 original size:17 final size:17
Alignment explanation
Indices: 14129782--14129816 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14129772 AATCCACAAG
14129782 TTAGATTCTCCGAAGAA
1 TTAGATTCTCCGAAGAA
14129799 TTAGATTCTCCGAAGAA
1 TTAGATTCTCCGAAGAA
14129816 T
1 T
14129817 AAGAATGAAA
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:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (17 bp):
TTAGATTCTCCGAAGAA
Found at i:14130865 original size:17 final size:17
Alignment explanation
Indices: 14130843--14130886 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
14130833 TTATAAATTA
14130843 TTGGAAGCTCGATTTGG
1 TTGGAAGCTCGATTTGG
14130860 TTGGAAGCTCGATTTGG
1 TTGGAAGCTCGATTTGG
14130877 TTGGAAGCTC
1 TTGGAAGCTC
14130887 ATCGGAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (17 bp):
TTGGAAGCTCGATTTGG
Found at i:14131936 original size:15 final size:15
Alignment explanation
Indices: 14131916--14131945 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14131906 TTGTAATATA
14131916 AGTTTGTGTTAAAAT
1 AGTTTGTGTTAAAAT
14131931 AGTTTGTGTTAAAAT
1 AGTTTGTGTTAAAAT
14131946 GGAACACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (15 bp):
AGTTTGTGTTAAAAT
Found at i:14135255 original size:42 final size:43
Alignment explanation
Indices: 14135200--14135318 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
14135190 TCCTACAAAT
14135200 GCTGCTAAAGATCATGTTCTTTAGC-GTGTTTGTAGCAAAAGC
1 GCTGCTAAAGATCATGTTCTTTAGCAGTGTTTGTAGCAAAAGC
* * * *
14135242 G-TCGTTAAAGATCATGTTCTTTAGCGGCGTTTGTAGGAAAAGC
1 GCT-GCTAAAGATCATGTTCTTTAGCAGTGTTTGTAGCAAAAGC
* * *
14135285 GCTGCTAAATACCATGATCTTTAGCAGTGTTTGT
1 GCTGCTAAAGATCATGTTCTTTAGCAGTGTTTGT
14135319 GTGAGAAAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 1 0.02
42 22 0.34
43 41 0.63
44 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
GCTGCTAAAGATCATGTTCTTTAGCAGTGTTTGTAGCAAAAGC
Found at i:14136117 original size:51 final size:51
Alignment explanation
Indices: 14136041--14136141 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
14136031 TGAATGAGTT
14136041 AGAAACGAAATATATAATCAAACAAATGAAACATAACTTGGCATTATTTGA
1 AGAAACGAAATATATAATCAAACAAATGAAACATAACTTGGCATTATTTGA
*
14136092 AGAAACGAAATATATAATCAAACAAATGCAACATAACTTGGCATTATTTG
1 AGAAACGAAATATATAATCAAACAAATGAAACATAACTTGGCATTATTTG
14136142 CATTACAAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.26
Consensus pattern (51 bp):
AGAAACGAAATATATAATCAAACAAATGAAACATAACTTGGCATTATTTGA
Found at i:14137381 original size:21 final size:21
Alignment explanation
Indices: 14137343--14137382 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14137333 ATTACTCCAA
*
14137343 AGAAGCCGATTGATTCATCTT
1 AGAAGCCGATTCATTCATCTT
14137364 AGAAGCCGAATTCA-TCATC
1 AGAAGCCG-ATTCATTCATC
14137383 ACGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (21 bp):
AGAAGCCGATTCATTCATCTT
Found at i:14141759 original size:21 final size:21
Alignment explanation
Indices: 14141728--14141775 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
14141718 TTAGCGTTTG
14141728 TTTAC-TCCTTTCACTTCTAT
1 TTTACTTCCTTTCACTTCTAT
14141748 TTTACTTCCTTTCACTTCTAT
1 TTTACTTCCTTTCACTTCTAT
14141769 TTTACTT
1 TTTACTT
14141776 ATTTCTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTACTTCCTTTCACTTCTAT
Found at i:14148408 original size:318 final size:319
Alignment explanation
Indices: 14147831--14148464 Score: 1252
Period size: 318 Copynumber: 2.0 Consensus size: 319
14147821 TTATGGGTCA
14147831 AGTGTGAATTTAGAAGAATTTTTGAATTAGTGAATTTTGGGATTTAAAAAAAATAATTTAATAGG
1 AGTGTGAATTTAGAAGAATTTTTGAATTAGTGAATTTTGGGATTTAAAAAAAATAATTTAATAGG
14147896 TAAATTGGGTCTAAAAAGAGGTATCGAGACCTCGAATGCATAAGTCGAGCCATAAATATTTTTAT
66 TAAATTGGGTCTAAAAAGAGGTATCGAGACCTCGAATGCATAAGTCGAGCCATAAATATTTTTAT
14147961 AAATATTTATGGAGTGTCATTGACTTAATATTAAAGTTTCGTTAGAAAATTTTAATGTTTGGATA
131 AAATATTTATGGAGTGTCATTGACTTAATATTAAAGTTTCGTTAGAAAATTTTAATGTTTGGATA
14148026 GTCAATTAATTAAAAAGGACTAAATTAAAAAAGGTGCAAGACTATCTAAAATGATTAAATAGTTC
196 GTCAATTAATTAAAAAGGACTAAATTAAAAAAGGTGCAAGACTATCTAAAATGATTAAATAGTTC
14148091 AAATGTTAAATGATGG-AGGACTTAAACGGCAAATTAGCCTAAAGGGAATGGGTGAATT
261 AAATGTTAAATGATGGAAGGACTTAAACGGCAAATTAGCCTAAAGGGAATGGGTGAATT
14148149 AGTGTGAATTTAGAAGAATTTTTGAATTAGTGAATTTTGGGATTTAAAAAAAATAATTTAATAGG
1 AGTGTGAATTTAGAAGAATTTTTGAATTAGTGAATTTTGGGATTTAAAAAAAATAATTTAATAGG
14148214 TAAATTGGGTCTAAAAAGAGGTATCGAGACCTCGAATGCATAAGTCGAGCCATAAATATTTTTAT
66 TAAATTGGGTCTAAAAAGAGGTATCGAGACCTCGAATGCATAAGTCGAGCCATAAATATTTTTAT
14148279 AAATATTTATGGAGTGTCATTGACTTAATATTAAAGTTTCGTTAGAAAATTTTAATGTTTGGATA
131 AAATATTTATGGAGTGTCATTGACTTAATATTAAAGTTTCGTTAGAAAATTTTAATGTTTGGATA
*
14148344 GTCAATTAATTAAAAAGGACTAAATTAAAAAAGGTGCAAGACTTTCTAAAATGATTAAATAGTTC
196 GTCAATTAATTAAAAAGGACTAAATTAAAAAAGGTGCAAGACTATCTAAAATGATTAAATAGTTC
14148409 AAATGTTAAATGATGGAAGGACTTAAACGGCAAATTAGCCTAAAGGGAATGGGTGA
261 AAATGTTAAATGATGGAAGGACTTAAACGGCAAATTAGCCTAAAGGGAATGGGTGA
14148465 GGCGGCATAA
Statistics
Matches: 314, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
318 275 0.88
319 39 0.12
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (319 bp):
AGTGTGAATTTAGAAGAATTTTTGAATTAGTGAATTTTGGGATTTAAAAAAAATAATTTAATAGG
TAAATTGGGTCTAAAAAGAGGTATCGAGACCTCGAATGCATAAGTCGAGCCATAAATATTTTTAT
AAATATTTATGGAGTGTCATTGACTTAATATTAAAGTTTCGTTAGAAAATTTTAATGTTTGGATA
GTCAATTAATTAAAAAGGACTAAATTAAAAAAGGTGCAAGACTATCTAAAATGATTAAATAGTTC
AAATGTTAAATGATGGAAGGACTTAAACGGCAAATTAGCCTAAAGGGAATGGGTGAATT
Found at i:14149026 original size:47 final size:47
Alignment explanation
Indices: 14148951--14149067 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
14148941 CGTCATTTCT
* *
14148951 GTATAAGACCA-GT-TGGGCTATGGCATCGGTGTGATATGAGCTTCC
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGAGCTTCC
* *
14148996 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTTCT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGAGCTTCC
* * *
14149043 GTGTAAAACCATACCTGGGATATGG
1 GTATAAGACCATATCTGGGATATGG
14149068 TATTAGTGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
45 11 0.17
46 1 0.02
47 51 0.81
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGAGCTTCC
Found at i:14149082 original size:47 final size:47
Alignment explanation
Indices: 14148964--14149084 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 47
14148954 TAAGACCAGT
* * * * *
14148964 TGGGCTATGGCATCGGTGTGATATGAGCTTCCGTATAAGACCATATC
1 TGGGATATGGCATCAGTGTGATATGTGCTTCCGTATAAAACCATACC
* * *
14149011 TGGGATATGGCATCGGTGTGATATGTGCTTCTGTGTAAAACCATACC
1 TGGGATATGGCATCAGTGTGATATGTGCTTCCGTATAAAACCATACC
* * *
14149058 TGGGATATGGTATTAGTGTAATATGTG
1 TGGGATATGGCATCAGTGTGATATGTG
14149085 ATCCGTGTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (47 bp):
TGGGATATGGCATCAGTGTGATATGTGCTTCCGTATAAAACCATACC
Found at i:14151614 original size:29 final size:29
Alignment explanation
Indices: 14151572--14151632 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
14151562 TGGTAAGCAG
14151572 TATTTTTTTTCTGGCTTTCTCTGAGGAAT
1 TATTTTTTTTCTGGCTTTCTCTGAGGAAT
14151601 TATTTTTTTTCTGGCTTTCTCTGAGGAAT
1 TATTTTTTTTCTGGCTTTCTCTGAGGAAT
14151630 TAT
1 TAT
14151633 CAAGATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.15, C:0.13, G:0.16, T:0.56
Consensus pattern (29 bp):
TATTTTTTTTCTGGCTTTCTCTGAGGAAT
Found at i:14153028 original size:47 final size:48
Alignment explanation
Indices: 14152976--14153139 Score: 178
Period size: 47 Copynumber: 3.5 Consensus size: 48
14152966 TGGTTGGACC
* *
14152976 ATGGCAAC-ATGTGATATGTGATTTTCGTATAAGACCATAGT-TGGGGT
1 ATGGCATCGATGTGATATGTGATTTTCGTATAAGACCATA-TCTGGGAT
* * *
14153023 ATGGCATCGGTGTGATATGAG-CTTTCGTATAAGACCATATCTGGGAT
1 ATGGCATCGATGTGATATGTGATTTTCGTATAAGACCATATCTGGGAT
* * *
14153070 ATGGCATCTG-TGTGATATGTGCTTCT-GTGTAAGACCATATCTGGGAT
1 ATGGCATC-GATGTGATATGTGATTTTCGTATAAGACCATATCTGGGAT
*
14153117 ATGACATC-AGTGTGATATGTGAT
1 ATGGCATCGA-TGTGATATGTGAT
14153140 CCGTGTAAGA
Statistics
Matches: 100, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
46 1 0.01
47 86 0.86
48 13 0.13
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (48 bp):
ATGGCATCGATGTGATATGTGATTTTCGTATAAGACCATATCTGGGAT
Found at i:14153088 original size:16 final size:17
Alignment explanation
Indices: 14153067--14153099 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14153057 CCATATCTGG
14153067 GATATG-GCATCTGTGT
1 GATATGTGCATCTGTGT
*
14153083 GATATGTGCTTCTGTGT
1 GATATGTGCATCTGTGT
14153100 AAGACCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.12, G:0.30, T:0.42
Consensus pattern (17 bp):
GATATGTGCATCTGTGT
Found at i:14153173 original size:46 final size:46
Alignment explanation
Indices: 14152976--14153186 Score: 156
Period size: 47 Copynumber: 4.5 Consensus size: 46
14152966 TGGTTGGACC
* * * * * *
14152976 ATGGCAACA-TGTGATATGTGATTTTCGTATAAGACCATAGTTGGGGT
1 ATGGCATCAGTGTGATATGTGA--TCCGTGTAAGACCACAGCTGGGAT
* * * * * * *
14153023 ATGGCATCGGTGTGATATGAGCTTTCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTG-ATCCGTGTAAGACCACAGCTGGGAT
* * * * *
14153070 ATGGCATCTGTGTGATATGTGCTTCTGTGTAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTG-ATCCGTGTAAGACCACAGCTGGGAT
* *
14153117 ATGACATCAGTGTGATATGTGATCCGTGTAAGACCACGGCT-GGACT
1 ATGGCATCAGTGTGATATGTGATCCGTGTAAGACCACAGCTGGGA-T
*
14153163 ATGGCTTCAGTGTGTGATATGTGA
1 ATGGCATCA--GTGTGATATGTGA
14153187 CTATGTGCAA
Statistics
Matches: 138, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
45 3 0.02
46 23 0.17
47 89 0.64
48 23 0.17
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (46 bp):
ATGGCATCAGTGTGATATGTGATCCGTGTAAGACCACAGCTGGGAT
Found at i:14158018 original size:59 final size:59
Alignment explanation
Indices: 14157949--14158501 Score: 774
Period size: 59 Copynumber: 9.5 Consensus size: 59
14157939 GTAAGTTATG
*
14157949 ATTATCCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
1 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
14158008 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
1 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
14158067 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
1 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
14158126 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
1 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
14158185 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
1 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
* * * * * *
14158244 ATTATTCAT-AGAATTATTATGAAATATGATTATTTACTTATTTAATCGAAAATTAATTA
1 ATTATTCATCA-AACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
* * *
14158303 ATTATTCAT-AGAATTATTATGAAATATG---A-TTATTTACTTAATCT-AAAATTAATTA
1 ATTATTCATCA-AACTATTATGAAATATGACTATTTATTTAATTAAT-TGAAAATTAGTTA
* * * *
14158358 ATTATTCATTAAATTATTATGAAATATG---A-TTATTTACTTAATCT-AAAATTAATTA
1 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAAT-TGAAAATTAGTTA
* * * *
14158413 ATTATTCATTAAATTATTATGAAATATGATTATTTATTTAATTAATT-AGAAATTAATTA
1 ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGA-AAATTAGTTA
* *
14158472 ATTATTCGT-ATAATTATTATGAAATATGAC
1 ATTATTCATCA-AACTATTATGAAATATGAC
14158502 CCAGCTTTTT
Statistics
Matches: 472, Mismatches: 13, Indels: 18
0.94 0.03 0.04
Matches are distributed among these distances:
55 103 0.22
56 2 0.00
58 5 0.01
59 362 0.77
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (59 bp):
ATTATTCATCAAACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTA
Found at i:14158351 original size:55 final size:54
Alignment explanation
Indices: 14158218--14158500 Score: 379
Period size: 55 Copynumber: 5.0 Consensus size: 54
14158208 ATATGACTAT
* *
14158218 TTATTTAATTAAT-TGAAAATTAGTTAATTATTCATAGAATTATTATGAAATATGA
1 TTATTTACTTAATCT-AAAATTAATTAATTATTCATA-AATTATTATGAAATATGA
*
14158273 TTATTTACTTATTTAATCGAAAATTAATTAATTATTCATAGAATTATTATGAAATATGA
1 TTATTTAC----TTAATCTAAAATTAATTAATTATTCATA-AATTATTATGAAATATGA
14158332 TTATTTACTTAATCTAAAATTAATTAATTATTCATTAAATTATTATGAAATATGA
1 TTATTTACTTAATCTAAAATTAATTAATTATTCA-TAAATTATTATGAAATATGA
14158387 TTATTTACTTAATCTAAAATTAATTAATTATTCATTAAATTATTATGAAATATGA
1 TTATTTACTTAATCTAAAATTAATTAATTATTCA-TAAATTATTATGAAATATGA
* * *
14158442 TTATTTATTTAATTAATTAGAAATTAATTAATTATTCGTATAATTATTATGAAATATGA
1 TTATTTACTTAA-T--CTA-AAATTAATTAATTATTCATA-AATTATTATGAAATATGA
14158501 CCCAGCTTTT
Statistics
Matches: 210, Mismatches: 7, Indels: 18
0.89 0.03 0.08
Matches are distributed among these distances:
55 116 0.55
56 3 0.01
58 4 0.02
59 87 0.41
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (54 bp):
TTATTTACTTAATCTAAAATTAATTAATTATTCATAAATTATTATGAAATATGA
Found at i:14159756 original size:25 final size:25
Alignment explanation
Indices: 14159725--14159793 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
14159715 CTAAATATAC
* *
14159725 ACTATCTGTAGT-GTTTTCACAGTAT
1 ACTATCTATAGTAG-TTTCACAATAT
*
14159750 ACTATCTATAGTAGTTTCAGAATAT
1 ACTATCTATAGTAGTTTCACAATAT
* * *
14159775 ACTATTTACAGTATTTTCA
1 ACTATCTATAGTAGTTTCA
14159794 GTTTAAACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (25 bp):
ACTATCTATAGTAGTTTCACAATAT
Found at i:14159794 original size:25 final size:25
Alignment explanation
Indices: 14159738--14159794 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
14159728 ATCTGTAGTG
* * *
14159738 TTTTCACAGTATACTATCTATAGTA
1 TTTTCAGAATATACTATCTACAGTA
* *
14159763 GTTTCAGAATATACTATTTACAGTA
1 TTTTCAGAATATACTATCTACAGTA
14159788 TTTTCAG
1 TTTTCAG
14159795 TTTAAACTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (25 bp):
TTTTCAGAATATACTATCTACAGTA
Found at i:14163959 original size:49 final size:51
Alignment explanation
Indices: 14163896--14164015 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 51
14163886 TTGCCAAGTT
* * * * *
14163896 CCAAATATGGTCTTACACTGA-CTATTGA-A-ATCGAGGCTGACACCATGTC
1 CCAAACATGGTCTTACACTGAGCT-CTCACATATCCAGGCCGACACCATGTC
* **
14163945 CCAAACATGGTCTTACACT-AGCTCTCACATATCCATGCCGATGCCATGTC
1 CCAAACATGGTCTTACACTGAGCTCTCACATATCCAGGCCGACACCATGTC
14163995 CCAAACATGGTCTTACACTGA
1 CCAAACATGGTCTTACACTGA
14164016 AAAATCTCGT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
48 3 0.05
49 21 0.36
50 34 0.58
51 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (51 bp):
CCAAACATGGTCTTACACTGAGCTCTCACATATCCAGGCCGACACCATGTC
Found at i:14164069 original size:46 final size:47
Alignment explanation
Indices: 14163938--14164155 Score: 207
Period size: 46 Copynumber: 4.6 Consensus size: 47
14163928 GAGGCTGACA
* *
14163938 CCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCATGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCT-CATGCCGATG
* ** * *
14163988 CCATGTCCCAAACATGGTCTTACACT-G-AAAAATCTCGTAGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAT-GCCGATG
* *
14164034 -CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCGAGGCCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTTACATCTC-ATGCCGATG
* **
14164080 -CATGTCCCAGACAT-GTCTTACACTAGCACT-CATCTCAATGTGGATG
1 CCATGTCCCAGACATGGTCTTACACTAGC-TTACATCTC-ATGCCGATG
*
14164126 CCATGTCCAAGACATGGTCTTACACTAGCT
1 CCATGTCCCAGACATGGTCTTACACTAGCT
14164156 CACAATAACC
Statistics
Matches: 141, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 61 0.43
47 14 0.10
48 13 0.09
49 1 0.01
50 26 0.18
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCATGCCGATG
Found at i:14169334 original size:41 final size:41
Alignment explanation
Indices: 14169192--14169336 Score: 116
Period size: 41 Copynumber: 3.5 Consensus size: 41
14169182 AATTAGCAGT
* *** *
14169192 GTTTATAGGAAAAATGTTGCTATTGCTTTACCTTTTGCAGC
1 GTTTATAGGAAAAACGCCACTATTGCTTTACCTTTTGCGGC
* * * **
14169233 ATTAAT-GCGAAAAACACTGCTATT-CTTTTACCTTTTGCGGC
1 GTTTATAG-GAAAAACGCCACTATTGC-TTTACCTTTTGCGGC
* * * *
14169274 TTTTATA-CAAATAATGCCACTATTGCTTTATCTTTTGCGGC
1 GTTTATAGGAAA-AACGCCACTATTGCTTTACCTTTTGCGGC
14169315 GTTTATAGGAAAAACGCCACTA
1 GTTTATAGGAAAAACGCCACTA
14169337 ATGGTGTATA
Statistics
Matches: 81, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
40 5 0.06
41 72 0.89
42 4 0.05
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (41 bp):
GTTTATAGGAAAAACGCCACTATTGCTTTACCTTTTGCGGC
Found at i:14170663 original size:7 final size:7
Alignment explanation
Indices: 14170618--14170659 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
14170608 TTGTGTTTGT
14170618 GGTTTAG
1 GGTTTAG
14170625 GGTTTAG
1 GGTTTAG
14170632 GGTTTAG
1 GGTTTAG
14170639 GGTTTAG
1 GGTTTAG
14170646 GGTTTAG
1 GGTTTAG
*
14170653 AGTTTAG
1 GGTTTAG
14170660 AGTTCATGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:14170692 original size:14 final size:13
Alignment explanation
Indices: 14170618--14170694 Score: 64
Period size: 14 Copynumber: 5.5 Consensus size: 13
14170608 TTGTGTTTGT
14170618 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
14170631 GGGTTTAGGGTTTA
1 -GGTTTAGGGTTTA
*
14170645 GGGTTTAGAGTTTA
1 -GGTTTAGGGTTTA
* * *
14170659 GAGTTCATGGTCTCA
1 G-GTTTAGGGT-TTA
*
14170674 AGTTTAGGGTTTCA
1 GGTTTAGGGTTT-A
14170688 GGTTTAG
1 GGTTTAG
14170695 AGTATAATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
13 2 0.04
14 46 0.92
15 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.35, T:0.42
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:14171702 original size:16 final size:16
Alignment explanation
Indices: 14171681--14171722 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
14171671 AAATCCCTAA
14171681 CATTTTCCCCAAATCT
1 CATTTTCCCCAAATCT
*
14171697 CATTTTTTCCCTAAATCT
1 CA--TTTTCCCCAAATCT
14171715 -ATTTTCCC
1 CATTTTCCC
14171723 ATCCCCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 7 0.30
16 2 0.09
17 1 0.04
18 13 0.57
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.45
Consensus pattern (16 bp):
CATTTTCCCCAAATCT
Found at i:14171718 original size:17 final size:18
Alignment explanation
Indices: 14171683--14171719 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14171673 ATCCCTAACA
14171683 TTTTCCCCAAATCTCATT
1 TTTTCCCCAAATCTCATT
*
14171701 TTTTCCCTAAATCT-ATT
1 TTTTCCCCAAATCTCATT
14171718 TT
1 TT
14171720 CCCATCCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTCCCCAAATCTCATT
Found at i:14173161 original size:39 final size:40
Alignment explanation
Indices: 14173118--14173198 Score: 146
Period size: 39 Copynumber: 2.0 Consensus size: 40
14173108 AGGTAGAGAA
*
14173118 CTTAAATTTGTTATTTTGCATGATTATTTGAGATCTG-TT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCTT
14173157 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCTT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCTT
14173197 CT
1 CT
14173199 GTCAACGTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 36 0.90
40 4 0.10
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (40 bp):
CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCTT
Found at i:14175120 original size:64 final size:64
Alignment explanation
Indices: 14175052--14175185 Score: 241
Period size: 64 Copynumber: 2.1 Consensus size: 64
14175042 TAATATTTCG
* *
14175052 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
*
14175116 ATATTTCTATCACGATTTTTGATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
14175180 ATATTT
1 ATATTT
14175186 AATAAAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.47
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
Found at i:14175198 original size:64 final size:64
Alignment explanation
Indices: 14175065--14175199 Score: 193
Period size: 64 Copynumber: 2.1 Consensus size: 64
14175055 TTTCTATCAC
* * * * *
14175065 GATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAAATATTTCTATCAC
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
*
14175129 GATTTTTGATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTA-ATAAA
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
14175192 -ATATTTTA
1 GAT-TTTTA
14175200 TATAGTTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
62 2 0.03
63 7 0.11
64 54 0.86
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
Found at i:14175260 original size:24 final size:24
Alignment explanation
Indices: 14175244--14175303 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
14175234 AATATTCTCT
14175244 TCCGTTTTATCACAAATATTATTG
1 TCCGTTTTATCACAAATATTATTG
**
14175268 TCCGTTTTATCACAAATATTAGCG
1 TCCGTTTTATCACAAATATTATTG
*
14175292 TTCGTTTTATCA
1 TCCGTTTTATCA
14175304 TTTAAGTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (24 bp):
TCCGTTTTATCACAAATATTATTG
Found at i:14175768 original size:241 final size:241
Alignment explanation
Indices: 14175345--14175808 Score: 849
Period size: 241 Copynumber: 1.9 Consensus size: 241
14175335 ATACCTTTTT
14175345 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
*
14175410 TACAACAATAACTTACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAACTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
*
14175475 CTGGAAACCAGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
131 CTGGAAACCAGACGGGTTACCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
*
14175540 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
196 AACGCCACATATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
14175586 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
* *
14175651 TACAACAATAGCTGACCTTCTCTCCAACC-TTTTTTACAATATTTTAGAGATTCAAAGTATATAG
66 TACAACAATAACTGACCTTCTCTCCAACCTTTTTTTA-AATATTTTAAAGATTCAAAGTATATAG
* *
14175715 GCTGGAAATCTGACGGGTTACCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
130 GCTGGAAACCAGACGGGTTACCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
14175780 CAACGCCACATATGATGAATCTTAAAAAA
195 CAACGCCACATATGATGAATCTTAAAAAA
14175809 CAACTTACAT
Statistics
Matches: 215, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
240 7 0.03
241 208 0.97
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (241 bp):
AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
TACAACAATAACTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
CTGGAAACCAGACGGGTTACCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
AACGCCACATATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
Found at i:14175827 original size:9 final size:9
Alignment explanation
Indices: 14175810--14175857 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
14175800 CTTAAAAAAC
14175810 AACTTACAT
1 AACTTACAT
*
14175819 AACTCACAT
1 AACTTACAT
14175828 AACTTACAT
1 AACTTACAT
*
14175837 AATTTACAT
1 AACTTACAT
*
14175846 AACGTACAT
1 AACTTACAT
14175855 AAC
1 AAC
14175858 AACTTACGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:14181474 original size:33 final size:33
Alignment explanation
Indices: 14181432--14181513 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
14181422 TTAGAATTAA
* *
14181432 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
* *
14181465 TGTTTTTGGTTGCA--TTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
* *
14181496 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
14181514 AATGCAGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
Found at i:14182183 original size:12 final size:12
Alignment explanation
Indices: 14182166--14182198 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
14182156 CGGCCCGCCC
14182166 ATATTAATTTTT
1 ATATTAATTTTT
14182178 ATATT-ATTTTT
1 ATATTAATTTTT
14182189 ATA-TAATTTT
1 ATATTAATTTT
14182199 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:14182408 original size:22 final size:22
Alignment explanation
Indices: 14182383--14182425 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14182373 TATCCAAACA
14182383 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
14182405 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
14182426 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:14182429 original size:11 final size:11
Alignment explanation
Indices: 14182390--14182430 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
14182380 ACAATAACAA
14182390 CAAAATAGTAG
1 CAAAATAGTAG
* *
14182401 CAACATAATAG
1 CAAAATAGTAG
*
14182412 TAAAATAGTAG
1 CAAAATAGTAG
14182423 CAAAATAG
1 CAAAATAG
14182431 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:14182962 original size:48 final size:46
Alignment explanation
Indices: 14182908--14183003 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 46
14182898 AAAGCTTTTA
14182908 AACTTTTAAATTGATATTTAAATTATAAATGAAAACAAAAGCAGAAAT
1 AACTTTTAAATTGATATTTAAATTATAAATGAAAACAAAAG--GAAAT
14182956 AACTTTTAAATTGATATTTAAATTATAAATGAAAACAAAAGGAAAT
1 AACTTTTAAATTGATATTTAAATTATAAATGAAAACAAAAGGAAAT
14183002 AA
1 AA
14183004 AAAAAATGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 7 0.15
48 41 0.85
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.31
Consensus pattern (46 bp):
AACTTTTAAATTGATATTTAAATTATAAATGAAAACAAAAGGAAAT
Found at i:14186160 original size:15 final size:15
Alignment explanation
Indices: 14186142--14186174 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14186132 AAGGCTTGGG
*
14186142 AAAGTAATCAGGCAT
1 AAAGTAATAAGGCAT
14186157 AAAGTAATAAGGCAT
1 AAAGTAATAAGGCAT
14186172 AAA
1 AAA
14186175 CATCCTCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (15 bp):
AAAGTAATAAGGCAT
Found at i:14186607 original size:25 final size:25
Alignment explanation
Indices: 14186562--14186610 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14186552 TATTTTTAAA
* *
14186562 TTTTAAAATAATATAATATAATATT
1 TTTTAAAATAATAAAAAATAATATT
14186587 TTTTAAAA-AATTAAAAAATAATAT
1 TTTTAAAATAA-TAAAAAATAATAT
14186611 ATGCGAGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTTAAAATAATAAAAAATAATATT
Found at i:14186764 original size:21 final size:21
Alignment explanation
Indices: 14186738--14186778 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
14186728 CATCCTTAAA
14186738 CCTGACCCAAACTAGGTCTGG
1 CCTGACCCAAACTAGGTCTGG
14186759 CCTGACCCAAACTAGGTCTG
1 CCTGACCCAAACTAGGTCTG
14186779 ACCCATGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.34, G:0.22, T:0.20
Consensus pattern (21 bp):
CCTGACCCAAACTAGGTCTGG
Found at i:14188733 original size:111 final size:111
Alignment explanation
Indices: 14188539--14188758 Score: 431
Period size: 111 Copynumber: 2.0 Consensus size: 111
14188529 ATTGCTAACG
14188539 TACAATGACCAACTTTAAACAATAGAAATGGATAAAATTGCTAACAGGCGTACCAAAACTAATTT
1 TACAATGACCAACTTTAAACAATAGAAATGGATAAAATTGCTAACAGGCGTACCAAAACTAATTT
14188604 ACCAATTTTTTGAATTAAGAAGGCAAAATACAATCTAACTCTTAGT
66 ACCAATTTTTTGAATTAAGAAGGCAAAATACAATCTAACTCTTAGT
*
14188650 TACAATGACCAACTTTAAACAATAGAAATGGATAAAATTGTTAACAGGCGTACCAAAACTAATTT
1 TACAATGACCAACTTTAAACAATAGAAATGGATAAAATTGCTAACAGGCGTACCAAAACTAATTT
14188715 ACCAATTTTTTGAATTAAGAAGGCAAAATACAATCTAACTCTTA
66 ACCAATTTTTTGAATTAAGAAGGCAAAATACAATCTAACTCTTA
14188759 ACAAAAAAAA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 108 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (111 bp):
TACAATGACCAACTTTAAACAATAGAAATGGATAAAATTGCTAACAGGCGTACCAAAACTAATTT
ACCAATTTTTTGAATTAAGAAGGCAAAATACAATCTAACTCTTAGT
Found at i:14192338 original size:27 final size:27
Alignment explanation
Indices: 14192280--14192338 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
14192270 TAAAAATATC
* *
14192280 CAAACATACCATTTAACTTGTAAATCT
1 CAAATATACCACTTAACTTGTAAATCT
*
14192307 CAAATATACCACTTAACTTGTAAATTT
1 CAAATATACCACTTAACTTGTAAATCT
14192334 CAAAT
1 CAAAT
14192339 CATTCTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.34
Consensus pattern (27 bp):
CAAATATACCACTTAACTTGTAAATCT
Found at i:14194349 original size:5 final size:5
Alignment explanation
Indices: 14194339--14194369 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
14194329 TTTTAATCTT
14194339 TTTTA TTTTA TTTTA -TTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
14194370 ATTTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:14194375 original size:14 final size:14
Alignment explanation
Indices: 14194340--14194374 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
14194330 TTTAATCTTT
14194340 TTTATTTTATTTTA
1 TTTATTTTATTTTA
14194354 TTTATTTTATTTTA
1 TTTATTTTATTTTA
14194368 -TTATTTT
1 TTTATTTT
14194375 TCTTTCTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:14199210 original size:21 final size:20
Alignment explanation
Indices: 14199186--14199232 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
14199176 TGATTGTTTT
*
14199186 ATTTTATATATTTTATATTTA
1 ATTTTATAAATTTT-TATTTA
* *
14199207 ATTTGATAAATTTTTATTTT
1 ATTTTATAAATTTTTATTTA
14199227 ATTTTA
1 ATTTTA
14199233 ATTATAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTATAAATTTTTATTTA
Found at i:14200055 original size:71 final size:71
Alignment explanation
Indices: 14199935--14200075 Score: 201
Period size: 71 Copynumber: 2.0 Consensus size: 71
14199925 GAACAGGGGG
* * * * * *
14199935 AAATTGTTTTATCTCTACCCCAAGGATCACATGTGGCTAAACGATTGACAACTTGACAAGAGCCC
1 AAATTGTTATACCCCTACCCCAAGGATCACATGTGGCGAAACGAATGACAACCTGACAAGAGCCC
14200000 AGGTAA
66 AGGTAA
* * *
14200006 AAATTGTTATACCCCTACCCCAAGGATCATATGTGGCGGAATGAATGACAACCTGACAAGAGCCC
1 AAATTGTTATACCCCTACCCCAAGGATCACATGTGGCGAAACGAATGACAACCTGACAAGAGCCC
14200071 AGGTA
66 AGGTA
14200076 GGCACCCTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (71 bp):
AAATTGTTATACCCCTACCCCAAGGATCACATGTGGCGAAACGAATGACAACCTGACAAGAGCCC
AGGTAA
Found at i:14201784 original size:54 final size:54
Alignment explanation
Indices: 14201725--14201839 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
14201715 AGCATGGCTG
* * *
14201725 CCAGAACAGATA-ATGTGACAGGGTCACCAAATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCA
* * * * *
14201779 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
14201833 CCAGAAC
1 CCAGAAC
14201840 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 36 0.69
55 16 0.31
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
Found at i:14201787 original size:27 final size:26
Alignment explanation
Indices: 14201725--14201839 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
14201715 AGCATGGCTG
* * *
14201725 CCAGAACAGATAATGTGACAGGGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
14201751 CCAAATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
14201779 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
14201806 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
14201833 CCAGAAC
1 CCAGAAC
14201840 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
26 4 0.05
27 57 0.76
28 14 0.19
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:14203492 original size:26 final size:26
Alignment explanation
Indices: 14203456--14203539 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14203446 CATGAAATTC
14203456 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14203482 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14203508 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14203534 TTATCA
1 TTATCA
14203540 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14208515 original size:20 final size:20
Alignment explanation
Indices: 14208487--14208526 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14208477 TTATTAATTA
*
14208487 TTTATTTAC-TAGTTAGTTTC
1 TTTACTTACTTAGTT-GTTTC
14208507 TTTACTTACTTAGTTGTTTC
1 TTTACTTACTTAGTTGTTTC
14208527 AATTATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTACTTACTTAGTTGTTTC
Found at i:14215409 original size:3 final size:3
Alignment explanation
Indices: 14215401--14215461 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
14215391 ACTCCTAACA
* * *
14215401 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAT AAA AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14215449 AAG AAG AAG AAG A
1 AAG AAG AAG AAG A
14215462 TAGGAATTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:14219260 original size:26 final size:26
Alignment explanation
Indices: 14219220--14219270 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
14219210 TCAAGCAAAT
14219220 AACCCATTTTAGTATTTATTTTTGTA
1 AACCCATTTTAGTATTTATTTTTGTA
*
14219246 AACCCATTTTGGTATTTATTTTTGT
1 AACCCATTTTAGTATTTATTTTTGT
14219271 GTTTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.55
Consensus pattern (26 bp):
AACCCATTTTAGTATTTATTTTTGTA
Found at i:14221995 original size:19 final size:19
Alignment explanation
Indices: 14221967--14222023 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
14221957 ATCTTCAAAT
*
14221967 ATATGCAATCTTAGATATG
1 ATATGTAATCTTAGATATG
14221986 ATATGTAATCTTAGAGGATATG
1 ATATGTAATCTT--A-GATATG
*
14222008 ATTTTGTAATCTTAGA
1 A-TATGTAATCTTAGA
14222024 GACTTGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 11 0.34
20 2 0.06
21 2 0.06
22 7 0.22
23 10 0.31
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (19 bp):
ATATGTAATCTTAGATATG
Found at i:14222008 original size:22 final size:23
Alignment explanation
Indices: 14221980--14222024 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
14221970 TGCAATCTTA
14221980 GATATGA-TATGTAATCTTAGAG
1 GATATGATTATGTAATCTTAGAG
*
14222002 GATATGATTTTGTAATCTTAGAG
1 GATATGATTATGTAATCTTAGAG
14222025 ACTTGATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
GATATGATTATGTAATCTTAGAG
Found at i:14226399 original size:22 final size:21
Alignment explanation
Indices: 14226355--14226396 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
14226345 TTTTGTTGAT
14226355 TTATGATTAATACATAAAAAA
1 TTATGATTAATACATAAAAAA
14226376 TTATGATTAATACATAAAAAA
1 TTATGATTAATACATAAAAAA
14226397 ATTTAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
TTATGATTAATACATAAAAAA
Found at i:14226848 original size:39 final size:40
Alignment explanation
Indices: 14226781--14226861 Score: 139
Period size: 39 Copynumber: 2.0 Consensus size: 40
14226771 AAAAAAGTAT
14226781 TTATATTAAAAACACTAAAATAAATATAATAAATATTTTA
1 TTATATTAAAAACACTAAAATAAATATAATAAATATTTTA
14226821 TTATATTAAAAA-A-TACAAATAAATATAATAAATATTTTA
1 TTATATTAAAAACACTA-AAATAAATATAATAAATATTTTA
14226860 TT
1 TT
14226862 GCATTAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
38 2 0.05
39 26 0.65
40 12 0.30
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (40 bp):
TTATATTAAAAACACTAAAATAAATATAATAAATATTTTA
Found at i:14231223 original size:21 final size:22
Alignment explanation
Indices: 14231184--14231224 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14231174 TTACCTTTTT
**
14231184 TTAAAGTTAAAAGTTAAAACCA
1 TTAAAGTTAAAAGGAAAAACCA
14231206 TTAAA-TTAAAAGGAAAAAC
1 TTAAAGTTAAAAGGAAAAAC
14231225 TATATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (22 bp):
TTAAAGTTAAAAGGAAAAACCA
Found at i:14231706 original size:20 final size:20
Alignment explanation
Indices: 14231681--14231726 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
14231671 CGGAAAATAA
14231681 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14231701 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14231720 TTTCTGG
1 TTTCTGG
14231727 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:14231987 original size:17 final size:17
Alignment explanation
Indices: 14231965--14231999 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14231955 TAATACATAC
14231965 TTCATCCGACTAAATTA
1 TTCATCCGACTAAATTA
*
14231982 TTCATCTGACTAAATTA
1 TTCATCCGACTAAATTA
14231999 T
1 T
14232000 GTCTGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (17 bp):
TTCATCCGACTAAATTA
Found at i:14232422 original size:42 final size:42
Alignment explanation
Indices: 14232375--14232454 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
14232365 AACGTTTTAT
*
14232375 AAATGTAAGTTATTTTCAAGCAAACAAACACTAGAAAACTAC
1 AAATGTAAGTTACTTTCAAGCAAACAAACACTAGAAAACTAC
*
14232417 AAATGTAAGTTACTTTCAAGCAAACAAACACTGGAAAA
1 AAATGTAAGTTACTTTCAAGCAAACAAACACTAGAAAA
14232455 TTAGGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.23
Consensus pattern (42 bp):
AAATGTAAGTTACTTTCAAGCAAACAAACACTAGAAAACTAC
Found at i:14234052 original size:19 final size:19
Alignment explanation
Indices: 14234019--14234066 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
14234009 TAAACAATTC
14234019 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
14234036 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
14234055 AATAATATAAAT
1 AATAATATAAAT
14234067 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:14234379 original size:8 final size:8
Alignment explanation
Indices: 14234362--14234395 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
14234352 TTTATTTTTA
14234362 TTTTTA-T
1 TTTTTACT
14234369 TTTTTACT
1 TTTTTACT
14234377 TTTTTACT
1 TTTTTACT
14234385 TTTTTACT
1 TTTTTACT
14234393 TTT
1 TTT
14234396 CCTTTGTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTACT
Found at i:14234387 original size:16 final size:15
Alignment explanation
Indices: 14234350--14234395 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 15
14234340 CATGTCAATC
14234350 TTTTTA-TTTTTA--
1 TTTTTATTTTTTACT
14234362 TTTTTATTTTTTACT
1 TTTTTATTTTTTACT
14234377 TTTTTACTTTTTTACT
1 TTTTTA-TTTTTTACT
14234393 TTT
1 TTT
14234396 CCTTTGTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.20
13 6 0.20
15 6 0.20
16 12 0.40
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTTTACT
Found at i:14234526 original size:21 final size:22
Alignment explanation
Indices: 14234489--14234543 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
14234479 ATTAATATAT
*
14234489 ATTTTGAA-ATTACTTTTCTAA
1 ATTTTAAATATTACTTTTCTAA
* *
14234510 ATTTTAAATATTA-TTTTTTTA
1 ATTTTAAATATTACTTTTCTAA
14234531 ATATTTAAATATT
1 AT-TTTAAATATT
14234544 TTAAACTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTAAATATTACTTTTCTAA
Found at i:14234527 original size:22 final size:21
Alignment explanation
Indices: 14234489--14234543 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
14234479 ATTAATATAT
*
14234489 ATTTTGAA-ATTACTTTTCTAA
1 ATTTTAAATATTACTTTT-TAA
* *
14234510 ATTTTAAATATTATTTTTTTA
1 ATTTTAAATATTACTTTTTAA
14234531 ATATTTAAATATT
1 AT-TTTAAATATT
14234544 TTAAACTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATTACTTTTTAA
Found at i:14234546 original size:31 final size:33
Alignment explanation
Indices: 14234502--14234624 Score: 96
Period size: 31 Copynumber: 3.8 Consensus size: 33
14234492 TTGAAATTAC
*
14234502 TTTTCTAA-ATTTTAAA-TATTATTT-TTTTAA
1 TTTTATAATATTTTAAACTATTATTTATTTTAA
*
14234532 TATTTA-AATATTTTAAACTTTTAAATTTATTATTAA
1 T-TTTATAATATTTTAAACTATT--ATTTATT-TTAA
** * *
14234568 TTTTATAATAACTTAAA-TATTATTTAATTT-G
1 TTTTATAATATTTTAAACTATTATTTATTTTAA
* *
14234599 TTTTATAATATTTTAAATTATGATTT
1 TTTTATAATATTTTAAACTATTATTT
14234625 TTAAATTATT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
30 3 0.04
31 26 0.35
32 12 0.16
33 6 0.08
34 4 0.05
35 9 0.12
36 14 0.19
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (33 bp):
TTTTATAATATTTTAAACTATTATTTATTTTAA
Found at i:14234608 original size:22 final size:24
Alignment explanation
Indices: 14234580--14234640 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 24
14234570 TTATAATAAC
14234580 TTAAATATTATTTAATT-TG--TT
1 TTAAATATTATTTAATTATGATTT
*
14234601 TTATAATATT-TTAAATTATGATTT
1 TTA-AATATTATTTAATTATGATTT
14234625 TTAAATTATTATTTAA
1 TTAAA-TATTATTTAA
14234641 AGATATTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 9 0.28
22 8 0.25
23 2 0.06
24 9 0.28
25 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
TTAAATATTATTTAATTATGATTT
Found at i:14234626 original size:14 final size:14
Alignment explanation
Indices: 14234609--14234638 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14234599 TTTTATAATA
14234609 TTTTAAATTATGAT
1 TTTTAAATTATGAT
*
14234623 TTTTAAATTATTAT
1 TTTTAAATTATGAT
14234637 TT
1 TT
14234639 AAAGATATTC
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:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTAAATTATGAT
Found at i:14234908 original size:22 final size:23
Alignment explanation
Indices: 14234856--14234914 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
14234846 ATATCTTTAA
14234856 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAATCATAATT
*
14234878 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTA-AAAATCATAATT
14234899 AAATAATATTAAAAAT
1 AAATAATATTAAAAAT
14234915 ATTAACAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAATATTAAAAATCATAATT
Found at i:14235002 original size:21 final size:21
Alignment explanation
Indices: 14234978--14235059 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
14234968 TTTTATATTA
**
14234978 TTAAAAATATATATTTAATGT
1 TTAAAAATATATATTTAAAAT
* *
14234999 TTAAAAAAATAATATTAAAAAT
1 TTAAAAATAT-ATATTTAAAAT
14235021 TTAAAAA-ATA-ATTTAAAAT
1 TTAAAAATATATATTTAAAAT
14235040 TT-AAAATATATATTATAAAA
1 TTAAAAATATATATT-TAAAA
14235060 CATTTCAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
18 4 0.08
19 13 0.25
20 4 0.08
21 16 0.31
22 15 0.29
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (21 bp):
TTAAAAATATATATTTAAAAT
Found at i:14235005 original size:22 final size:23
Alignment explanation
Indices: 14234980--14235064 Score: 67
Period size: 22 Copynumber: 4.0 Consensus size: 23
14234970 TTATATTATT
* **
14234980 AAAAATAT-ATATTTAATGTTTA
1 AAAAATATAATATTAAAAATTTA
14235002 AAAAA-ATAATATTAAAAATTT-
1 AAAAATATAATATTAAAAATTTA
14235023 AAAAA-ATAAT-TT-AAAATTTA
1 AAAAATATAATATTAAAAATTTA
* *
14235043 AAATATATATTA-TAAAACATTT
1 AAAAATATAATATTAAAA-ATTT
14235065 CAAATATACA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
19 7 0.13
20 6 0.12
21 17 0.33
22 18 0.35
23 4 0.08
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (23 bp):
AAAAATATAATATTAAAAATTTA
Found at i:14235038 original size:19 final size:20
Alignment explanation
Indices: 14234978--14235059 Score: 85
Period size: 19 Copynumber: 4.0 Consensus size: 20
14234968 TTTTATATTA
**
14234978 TTAAAAATATATATTTAATGT
1 TTAAAAA-ATATATTTAAAAT
*
14234999 TTAAAAAAATAATATTAAAAAT
1 TT-AAAAAAT-ATATTTAAAAT
14235021 TTAAAAAATA-ATTTAAAAT
1 TTAAAAAATATATTTAAAAT
*
14235040 TTAAAATATATATTATAAAA
1 TTAAAAAATATATT-TAAAA
14235060 CATTTCAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 17 0.33
20 4 0.08
21 16 0.31
22 15 0.29
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (20 bp):
TTAAAAAATATATTTAAAAT
Found at i:14235092 original size:23 final size:23
Alignment explanation
Indices: 14235014--14235081 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
14235004 AAAATAATAT
*
14235014 TAAAA-ATTTAAAAAATA-ATT-
1 TAAAACATTTAAAATATACATTA
*
14235034 T-AAA-ATTTAAAATATATATTA
1 TAAAACATTTAAAATATACATTA
* *
14235055 TAAAACATTTCAAATATACATTT
1 TAAAACATTTAAAATATACATTA
14235078 TAAA
1 TAAA
14235082 TTTTTTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.35
20 4 0.10
21 1 0.03
22 3 0.08
23 18 0.45
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAAACATTTAAAATATACATTA
Found at i:14235170 original size:24 final size:23
Alignment explanation
Indices: 14235127--14235171 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
14235117 ATAAACAAAA
* *
14235127 TAAAACAAGAAAAATATAAAGCT
1 TAAAAAAAGAAAAAAATAAAGCT
14235150 TAAAAAAAGAAAAAAATTAAAG
1 TAAAAAAAGAAAAAAA-TAAAG
14235172 AAAAAGACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (23 bp):
TAAAAAAAGAAAAAAATAAAGCT
Found at i:14236443 original size:23 final size:23
Alignment explanation
Indices: 14236413--14236458 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
14236403 ACAACTCTTA
14236413 TTTAGGAACAACTC-CTATCCAAG
1 TTTAGGAACAACTCTC-ATCCAAG
14236436 TTTAGGAACAACTCTCATCCAAG
1 TTTAGGAACAACTCTCATCCAAG
14236459 AACAATCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (23 bp):
TTTAGGAACAACTCTCATCCAAG
Found at i:14241395 original size:13 final size:13
Alignment explanation
Indices: 14241377--14241402 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14241367 AAGTAATCGA
14241377 ACACGGGCGTGTC
1 ACACGGGCGTGTC
14241390 ACACGGGCGTGTC
1 ACACGGGCGTGTC
14241403 CCTGCTAAGC
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:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:14245248 original size:34 final size:33
Alignment explanation
Indices: 14245205--14245271 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
14245195 TATTGATAGC
*
14245205 AGGAATGAGGAGTATAAACTCCTCGAACCACCA
1 AGGAATGAGGAGCATAAACTCCTCGAACCACCA
* *
14245238 NAGGAATGAGGAGCATAAATTCCTTGAACCACCA
1 -AGGAATGAGGAGCATAAACTCCTCGAACCACCA
14245272 TGATCATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.16
Consensus pattern (33 bp):
AGGAATGAGGAGCATAAACTCCTCGAACCACCA
Found at i:14249704 original size:21 final size:22
Alignment explanation
Indices: 14249662--14249804 Score: 83
Period size: 22 Copynumber: 6.0 Consensus size: 22
14249652 CACTTATTAT
14249662 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATATTATTATGTA
**
14249684 TTTATTTTCAATATATATGTACATA
1 TTTATTTT-AATAT-TAT-TATGTA
* *
14249709 TTTA-TTAATATATTTTTATGTTA
1 TTTATTTTA-ATATTATTATG-TA
* *
14249732 TTAATATTTATAATATATATCGTATATG
1 TT--TATTT-TAATAT-TAT--TATGTA
*
14249760 TTCATTTT-ATATATATTATGTA
1 TTTATTTTAATAT-TATTATGTA
* *
14249782 TATATTTTAGTATTATTATGTA
1 TTTATTTTAATATTATTATGTA
14249804 T
1 T
14249805 ACACTTTTCA
Statistics
Matches: 92, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
22 30 0.33
23 15 0.16
24 17 0.18
25 11 0.12
26 10 0.11
27 3 0.03
28 3 0.03
29 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.58
Consensus pattern (22 bp):
TTTATTTTAATATTATTATGTA
Found at i:14249710 original size:25 final size:22
Alignment explanation
Indices: 14249662--14249714 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 22
14249652 CACTTATTAT
**
14249662 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATATTATTACATA
14249684 TTTATTTTCAATATATATGTACATA
1 TTTATTTT-AATAT-TAT-TACATA
14249709 TTTATT
1 TTTATT
14249715 AATATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 8 0.31
23 5 0.19
24 3 0.12
25 10 0.38
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTATTTTAATATTATTACATA
Found at i:14253617 original size:38 final size:38
Alignment explanation
Indices: 14253566--14253652 Score: 160
Period size: 38 Copynumber: 2.3 Consensus size: 38
14253556 CAAATTCTTG
14253566 CATATACATTCATGACTAACATTCACTTGACATTTATT
1 CATATACATTCATGACTAACATTCACTTGACATTTATT
14253604 CATATACATTCATGACTAACATTCACTTGACATTTATT
1 CATATACATTCATGACTAACATTCACTTGACATTTATT
14253642 CAT-T-CATTCAT
1 CATATACATTCAT
14253653 TCATTCATTG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 7 0.14
37 1 0.02
38 41 0.84
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (38 bp):
CATATACATTCATGACTAACATTCACTTGACATTTATT
Found at i:14262095 original size:90 final size:90
Alignment explanation
Indices: 14261960--14262123 Score: 251
Period size: 90 Copynumber: 1.8 Consensus size: 90
14261950 TCTGTTTGTC
* * *
14261960 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTAATTTT-AAT
1 AAAAATCAACTCATATTGCGAGAGGTAAGTTAAGCCTCAGCTCACACGCTGAGGT-ATTTTCAAT
14262024 T-TATGTTTTTCAATTTATGTTTCAAA
65 TCT-TGTTTTTCAATTTATGTTTCAAA
* *
14262050 AAAAATCAATTCATATTGCGAGAGGTAAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTAAGTTAAGCCTCAGCTCACACGCTGAGGTATTTTCAATT
14262115 CTTGTTTTT
66 CTTGTTTTT
14262124 TAAAAGTCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
89 5 0.07
90 61 0.91
91 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (90 bp):
AAAAATCAACTCATATTGCGAGAGGTAAGTTAAGCCTCAGCTCACACGCTGAGGTATTTTCAATT
CTTGTTTTTCAATTTATGTTTCAAA
Found at i:14262242 original size:76 final size:75
Alignment explanation
Indices: 14262030--14262418 Score: 415
Period size: 76 Copynumber: 5.1 Consensus size: 75
14262020 TAATTTATGT
** * * *
14262030 TTTTCAATTTATGTTTCAAAAAAAATCAATTCATATTGCGAGAGGTAAGTTAAGCCTCAGGTCAC
1 TTTTCAATTCCTGTTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
14262095 ACGCTGAGGTA
65 ACGCTGAGGTA
* *** * * * *
14262106 TTTTCAATTCTTGTTTTTTAAAAGTCAA-TCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACG
1 TTTTCAATTCCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
*
14262170 CGCTGAGGCA
66 CGCTGAGGTA
*
14262180 TTTTCAATTCCTGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGTCAC
1 TTTTCAATTCCTGTTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
*
14262245 AAGCTGAGGTA
65 ACGCTGAGGTA
* ** * **
14262256 TTTTCAATTCCTATTTTTTTTTAAAAAAGGTCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCAG
1 TTTTCAATTCC------TGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
14262321 GTCACACGCTGAGGTA
60 GTCACACGCTGAGGTA
* * * *** * *
14262337 ATTTCAATTTCTATTTGTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GA-A
1 TTTTCAATTCCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
14262400 CGCTGAGGTA
66 CGCTGAGGTA
14262410 TTTTCAATT
1 TTTTCAATT
14262419 TCTTTTTTTT
Statistics
Matches: 260, Mismatches: 45, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
73 19 0.07
74 56 0.22
75 55 0.21
76 65 0.25
81 61 0.23
82 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (75 bp):
TTTTCAATTCCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
CGCTGAGGTA
Found at i:14262312 original size:81 final size:78
Alignment explanation
Indices: 14262048--14262429 Score: 426
Period size: 75 Copynumber: 5.0 Consensus size: 78
14262038 TTATGTTTCA
* * * *
14262048 AAAAAAATCAATTCATATTGCGAGAGGTAAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAA
1 AAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
*
14262113 TT-CTTGTTTTTT
66 TTCCTTTTTTTTT
* * * *
14262125 --AAAAGTCAA-TCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACGCGCTGAGGCATTTTCAA
1 AAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
* **
14262187 TTCC--TGTTTAA
66 TTCCTTTTTTTTT
* * *
14262198 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGTCACAAGCTGAGGTATTTTCAA
1 AAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
14262263 TTCCTATTTTTTTTT
66 TTCC--TTTTTTTTT
* ** *
14262278 AAAAAAGGTCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCAGGTCACACGCTGAGGTAATTTCA
1 AAAAAA-GTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCA
* * *
14262343 ATT--TCTATTTGT
65 ATTCCTTTTTTTTT
* * *
14262355 CAAAAA-CCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GA-ACGCTGAGGTATTTTCAA
1 AAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
*
14262417 TTTCTTTTTTTTT
66 TTCCTTTTTTTTT
14262430 TTTCAATTTA
Statistics
Matches: 253, Mismatches: 41, Indels: 24
0.80 0.13 0.08
Matches are distributed among these distances:
73 22 0.09
74 50 0.20
75 55 0.22
76 51 0.20
77 11 0.04
80 10 0.04
81 54 0.21
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (78 bp):
AAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
TTCCTTTTTTTTT
Found at i:14262445 original size:19 final size:19
Alignment explanation
Indices: 14262410--14262446 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14262400 CGCTGAGGTA
* *
14262410 TTTTCAATTTCTTTTTTTT
1 TTTTCAATTTATATTTTTT
14262429 TTTTCAATTTATATTTTT
1 TTTTCAATTTATATTTTT
14262447 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCAATTTATATTTTTT
Found at i:14262622 original size:87 final size:85
Alignment explanation
Indices: 14262356--14262657 Score: 241
Period size: 87 Copynumber: 3.4 Consensus size: 85
14262346 TCTATTTGTC
**
14262356 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGAAC-GCTGAGGTATTTTCAATTT
1 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCACTGCTGAGGTATTTTCAATTT
* * *
14262420 CTTTTTTTTTTTTCAATTTATATTTTT
65 C-----TGTTTTT-AATCTATGTTTTT
* * *
14262447 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTTAA
1 -AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCAC-TGCT-GAGGTATTTTCAA
** * * *
14262511 AATCTGCTTTTCAAACTAAG-TTTT
62 TTTCTG-TTTTTAATCTATGTTTTT
* * *
14262535 AAAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-TCAC-TGCTGAGGTATTTTCAATT
* *
14262600 TCTGTTTTTAATGTCTGTTTTT
64 TCTGTTTTTAATCTATGTTTTT
** * **
14262622 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AACCAACTCATATTGCGAGAGGTGAGTTGAGC
14262658 TCAGGATCAC
Statistics
Matches: 170, Mismatches: 32, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
86 10 0.06
87 63 0.37
88 31 0.18
89 5 0.03
90 4 0.02
92 41 0.24
93 1 0.01
94 15 0.09
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (85 bp):
AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGTCACTGCTGAGGTATTTTCAATTTC
TGTTTTTAATCTATGTTTTT
Found at i:14262775 original size:45 final size:45
Alignment explanation
Indices: 14262690--14262778 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
14262680 GAATAAAGAT
* * * *
14262690 TGGAGCTGATTGAAGACACCAGATTTTGTCTCCCTGAAGTTGCAA
1 TGGAGCTGATCGAAGACACCAGATCTTGCCTCCCTAAAGTTGCAA
* * **
14262735 TGGAGCTGATCGAGGACATCAGATCTTGCCTTTCTAAAGTTGCA
1 TGGAGCTGATCGAAGACACCAGATCTTGCCTCCCTAAAGTTGCA
14262779 GAAGAGAAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (45 bp):
TGGAGCTGATCGAAGACACCAGATCTTGCCTCCCTAAAGTTGCAA
Found at i:14263807 original size:23 final size:23
Alignment explanation
Indices: 14263777--14263830 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
14263767 TCGATTACGA
14263777 TGGCCGGACGGTGACTGGCCCGG
1 TGGCCGGACGGTGACTGGCCCGG
*
14263800 TGGCCGGACGGTGACTGGCCCTG
1 TGGCCGGACGGTGACTGGCCCGG
14263823 TGGCCGGA
1 TGGCCGGA
14263831 AATCCCTCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.09, C:0.30, G:0.46, T:0.15
Consensus pattern (23 bp):
TGGCCGGACGGTGACTGGCCCGG
Found at i:14264621 original size:19 final size:19
Alignment explanation
Indices: 14264597--14264635 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
14264587 TACTATTTTA
*
14264597 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
14264616 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
14264635 T
1 T
14264636 ATTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:14272113 original size:15 final size:14
Alignment explanation
Indices: 14272084--14272144 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
14272074 CTATTTCCAC
14272084 AATTAAAAAATTTA
1 AATTAAAAAATTTA
*
14272098 AATTAAAACTATTTA
1 AATTAAAA-AATTTA
* *
14272113 AATTTAACATAATTGA
1 AA-TTAA-AAAATTTA
* *
14272129 AAATAACAAATTTA
1 AATTAAAAAATTTA
14272143 AA
1 AA
14272145 ATTTCATCTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
14 15 0.42
15 10 0.28
16 10 0.28
17 1 0.03
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (14 bp):
AATTAAAAAATTTA
Found at i:14274429 original size:91 final size:90
Alignment explanation
Indices: 14274273--14274448 Score: 271
Period size: 91 Copynumber: 1.9 Consensus size: 90
14274263 CACGATGCAA
* *
14274273 ATAATTATCAACTTAAACACCATAAATAAAATTGTTCCTACCATTTGAACAAATGACATGAGTTT
1 ATAATTATCAACTTAAACACAATAAATAAAATTGCTCCTACCATTTGAACAAATGACATGAG-TT
*
14274338 TTATAATGAACACCCAATACCCTTAG
65 TTAGAATGAACACCCAATACCCTTAG
* * ** *
14274364 ATAATTGTCAACTTAAACACAATAAATAAAATTGCTCTTATGATTTGAACAAATGACATGGGTTT
1 ATAATTATCAACTTAAACACAATAAATAAAATTGCTCCTACCATTTGAACAAATGACATGAGTTT
14274429 TAGAATGAACACCCAATACC
66 TAGAATGAACACCCAATACC
14274449 GCTAGGCCAA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 22 0.29
91 55 0.71
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (90 bp):
ATAATTATCAACTTAAACACAATAAATAAAATTGCTCCTACCATTTGAACAAATGACATGAGTTT
TAGAATGAACACCCAATACCCTTAG
Found at i:14284744 original size:17 final size:17
Alignment explanation
Indices: 14284719--14284762 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
14284709 AAGTTATTAG
14284719 TATTAAAAAATTATAAAAA
1 TATT-AAAAATTA-AAAAA
*
14284738 T-TTAAAATTTAAAAAA
1 TATTAAAAATTAAAAAA
14284754 TATTAAAAA
1 TATTAAAAA
14284763 GAAAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 2 0.09
19 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATTAAAAATTAAAAAA
Found at i:14287210 original size:35 final size:35
Alignment explanation
Indices: 14287164--14287231 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
14287154 AATGTAGATG
* *
14287164 AGCTTACCATAGGCGTGACTATTGGCTTTGCTTGT
1 AGCTTACCATAGGCGTGACTACTAGCTTTGCTTGT
14287199 AGCTTACCATAGGCGTGACTACTAGCTTTGCTT
1 AGCTTACCATAGGCGTGACTACTAGCTTTGCTT
14287232 TTCCCATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (35 bp):
AGCTTACCATAGGCGTGACTACTAGCTTTGCTTGT
Found at i:14289796 original size:19 final size:20
Alignment explanation
Indices: 14289762--14289800 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14289752 AGTGATTTTT
*
14289762 GAAAAATTAATTTTAATCAA
1 GAAAAATTAATATTAATCAA
14289782 GAAAAATTAA-ATTAATCAA
1 GAAAAATTAATATTAATCAA
14289801 ATTAATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (20 bp):
GAAAAATTAATATTAATCAA
Found at i:14290215 original size:37 final size:35
Alignment explanation
Indices: 14290152--14290257 Score: 90
Period size: 37 Copynumber: 2.9 Consensus size: 35
14290142 ATTCTAAAAA
* *
14290152 TAATATTATTTTAATAGTTTAATATTAAATTTATTT
1 TAATATTATCTTAATAGTATAATATT-AATTTATTT
**
14290188 TAATACTTATCTTAATAGTATTTTATTAATTTAATGTT
1 TAATA-TTATCTTAATAGTATAATATTAATTT-AT-TT
* *
14290226 AAAGTGATTATCTTAATATTA-AAT-TTAATTTA
1 TAA-T-ATTATCTTAATAGTATAATATTAATTTA
14290258 ATAACAAGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
36 11 0.19
37 26 0.46
38 5 0.09
39 14 0.25
40 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.54
Consensus pattern (35 bp):
TAATATTATCTTAATAGTATAATATTAATTTATTT
Found at i:14298191 original size:18 final size:18
Alignment explanation
Indices: 14298168--14298204 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14298158 TTAATATTAA
* *
14298168 AATTTGAATAACTCAAAT
1 AATTTGAACAAATCAAAT
14298186 AATTTGAACAAATCAAAT
1 AATTTGAACAAATCAAAT
14298204 A
1 A
14298205 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTTGAACAAATCAAAT
Found at i:14298293 original size:30 final size:30
Alignment explanation
Indices: 14298244--14298301 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
14298234 CAAACCTTTT
*
14298244 ACTTTCCCTCAATACTTTTACTC-CCTCTC
1 ACTTTCCCTCAAAACTTTTACTCTCCTCTC
*
14298273 ACTTTCCTTCTAAAACTTTTACTCTCCTC
1 ACTTTCCCTC-AAAACTTTTACTCTCCTC
14298302 CCATCCCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
30 12 0.48
31 4 0.16
ACGTcount: A:0.19, C:0.38, G:0.00, T:0.43
Consensus pattern (30 bp):
ACTTTCCCTCAAAACTTTTACTCTCCTCTC
Found at i:14299352 original size:27 final size:26
Alignment explanation
Indices: 14299315--14299429 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
14299305 AGCATGGCTG
* *
14299315 CCAGAACAGATAATATGACAGAGTCA
1 CCAGAACAGATAATATGGCAGAGCCA
*
14299341 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-ATGGCAGAGCCA
14299369 CCAGAACAGATATATATGGCAGAGCCA
1 CCAGAACAGATA-ATATGGCAGAGCCA
* * * *
14299396 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATATGGCAGAGCCA
14299423 CCAGAAC
1 CCAGAAC
14299430 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.73
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATATGGCAGAGCCA
Found at i:14299374 original size:54 final size:54
Alignment explanation
Indices: 14299315--14299429 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
14299305 AGCATGGCTG
*
14299315 CCAGAACAGATA-ATATGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATATGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
14299369 CCAGAACAGATATATATGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
14299423 CCAGAAC
1 CCAGAAC
14299430 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:14301084 original size:26 final size:26
Alignment explanation
Indices: 14301048--14301131 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14301038 CATGAAATTC
*
14301048 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
14301074 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
14301100 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
14301126 TTATCA
1 TTATCA
14301132 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:14302110 original size:15 final size:15
Alignment explanation
Indices: 14302090--14302121 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14302080 CATTTCACTA
*
14302090 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
14302105 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
14302120 TT
1 TT
14302122 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:14302869 original size:26 final size:26
Alignment explanation
Indices: 14302833--14302885 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14302823 TGGATTGAGT
14302833 GAACGGATTTAACTCAAAGGAATTAA
1 GAACGGATTTAACTCAAAGGAATTAA
14302859 GAACGGATTTAACTCAAAGGAATTAA
1 GAACGGATTTAACTCAAAGGAATTAA
14302885 G
1 G
14302886 GATATCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (26 bp):
GAACGGATTTAACTCAAAGGAATTAA
Found at i:14303831 original size:51 final size:48
Alignment explanation
Indices: 14303729--14303824 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
14303719 ATTCCAAAAA
* * *
14303729 TAATATTATTTTAATAGTTTAATATTAAATTTATTTTAATACTTAGCT
1 TAATATTATTTTAATAATTTAATATTAAATTTATCTTAATACTTAACT
*
14303777 TAATATTATTTTATTAATTTAATATTAAAGTGATTATCTTAATA-TTAA
1 TAATATTATTTTAATAATTTAATATTAAA-T--TTATCTTAATACTTAA
14303825 ATTTAATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 27 0.66
49 1 0.02
50 3 0.07
51 10 0.24
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (48 bp):
TAATATTATTTTAATAATTTAATATTAAATTTATCTTAATACTTAACT
Found at i:14307043 original size:7 final size:7
Alignment explanation
Indices: 14307031--14307055 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14307021 AGTCGTTTCA
14307031 TATTTAG
1 TATTTAG
14307038 TATTTAG
1 TATTTAG
14307045 TATTTAG
1 TATTTAG
14307052 TATT
1 TATT
14307056 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:14307618 original size:30 final size:30
Alignment explanation
Indices: 14307554--14307619 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
14307544 TGATGACGCG
* * *
14307554 GGCCCATCAACAGCGCCCACACAATCACCT
1 GGCCCATCAACAGCACCCACACAATCAACA
* *
14307584 GGCCCATCAACCGCACCCACACAGTCAACA
1 GGCCCATCAACAGCACCCACACAATCAACA
14307614 GGCCCA
1 GGCCCA
14307620 ACACTTCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.47, G:0.15, T:0.08
Consensus pattern (30 bp):
GGCCCATCAACAGCACCCACACAATCAACA
Found at i:14307690 original size:18 final size:18
Alignment explanation
Indices: 14307667--14307711 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
14307657 GATTCCAGGC
* *
14307667 ATGTATCCTAGCCTTTAT
1 ATGTATCCTAACCCTTAT
14307685 ATGTATCCTAACCCTTAT
1 ATGTATCCTAACCCTTAT
*
14307703 ATGTTTCCT
1 ATGTATCCT
14307712 TTACCAGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.44
Consensus pattern (18 bp):
ATGTATCCTAACCCTTAT
Done.