Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 78 of 325
Found at i:27092180 original size:18 final size:18
Alignment explanation
Indices: 27092157--27092212 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
27092147 CCACCACCAA
27092157 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
27092175 CTCCACCA-CCA-AC-T-
1 CTCCACTAGCCACACTTG
27092189 CT--ACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
27092205 CTCCACTA
1 CTCCACTA
27092213 CCTACTCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 3 0.10
14 4 0.13
15 2 0.07
16 4 0.13
17 3 0.10
18 11 0.37
ACGTcount: A:0.25, C:0.46, G:0.07, T:0.21
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:27092182 original size:30 final size:30
Alignment explanation
Indices: 27092146--27092232 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
27092136 CCTAAACTTT
27092146 TCCACCACCAACTCCACTAGCCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
*
27092176 TCCACCACCAACTCTACTAGCCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
* *
27092206 TCCACTACCTACTCCACTAGCCACACT
1 TCCACCACCAACTCCACTAGCCACACT
27092233 CCACCACCAC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.20
Consensus pattern (30 bp):
TCCACCACCAACTCCACTAGCCACACTTGC
Found at i:27092813 original size:25 final size:26
Alignment explanation
Indices: 27092785--27092855 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
27092775 ATTCTAAATT
*
27092785 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
27092810 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
*
27092835 CTATATT-TTTATATATATATT
1 CTATATTATGTATATATATATT
27092856 TTTTTCTACA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
24 11 0.29
25 27 0.71
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:27092855 original size:14 final size:15
Alignment explanation
Indices: 27092799--27092858 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
27092789 ATTACGTATA
*
27092799 TATATATTATACTATTT
1 TATATACTATA-T-TTT
* *
27092816 TATGTA-TATATCTT
1 TATATACTATATTTT
27092830 TA-ATACTATATTTT
1 TATATACTATATTTT
27092844 TATATA-TATATTTT
1 TATATACTATATTTT
27092858 T
1 T
27092859 TTCTACATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.05
14 22 0.59
15 4 0.11
16 4 0.11
17 5 0.14
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (15 bp):
TATATACTATATTTT
Found at i:27092893 original size:22 final size:22
Alignment explanation
Indices: 27092868--27092934 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 22
27092858 TTTCTACATG
*
27092868 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
27092890 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
27092915 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
27092935 TAATATTATC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:27092924 original size:25 final size:24
Alignment explanation
Indices: 27092874--27092960 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
27092864 CATGTTATCT
*
27092874 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
27092900 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
27092925 TACATA-TTTTTAA-TATTATCACG
1 TATGTATTTTTTAACTA-TATTATG
*
27092948 TATTTATTTTTTA
1 TATGTATTTTTTA
27092961 TATATGCACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:27092955 original size:23 final size:23
Alignment explanation
Indices: 27092929--27092977 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
27092919 ATTATGTACA
*
27092929 TATTTTTAATATTAT-CACGTATT
1 TATTTTTAATA-TATGCACATATT
*
27092952 TATTTTTTATATATGCACATATT
1 TATTTTTAATATATGCACATATT
27092975 TAT
1 TAT
27092978 GTAGTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTTTTAATATATGCACATATT
Found at i:27093114 original size:16 final size:15
Alignment explanation
Indices: 27093090--27093137 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
27093080 TAATTATTAT
*
27093090 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
27093106 TATTTTAATATTTTA
1 TATTTTAATATTTTA
*
27093121 TATTTTATATACTTTA
1 TATTTTA-ATATTTTA
27093137 T
1 T
27093138 TATTCACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:27093125 original size:7 final size:8
Alignment explanation
Indices: 27093090--27093141 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
27093080 TAATTATTAT
*
27093090 TATTCTAA
1 TATTTTAA
*
27093098 TATTTTGA
1 TATTTTAA
27093106 TATTTTAA
1 TATTTTAA
27093114 TATTTT-A
1 TATTTTAA
27093121 TATTTTATA
1 TATTTTA-A
* *
27093130 TACTTTAT
1 TATTTTAA
27093138 TATT
1 TATT
27093142 CACATCACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 22 0.61
9 7 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:27094275 original size:32 final size:32
Alignment explanation
Indices: 27094238--27094302 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
27094228 GATGAGAACT
27094238 TATTAAAGAAAACCTTTTCAAATTTTCATAGA
1 TATTAAAGAAAACCTTTTCAAATTTTCATAGA
27094270 TATTAAAGAAAACCTTTTCAAATTTTCATAGA
1 TATTAAAGAAAACCTTTTCAAATTTTCATAGA
27094302 T
1 T
27094303 CTAATGTGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.38
Consensus pattern (32 bp):
TATTAAAGAAAACCTTTTCAAATTTTCATAGA
Found at i:27096841 original size:22 final size:22
Alignment explanation
Indices: 27096798--27096843 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27096788 AAAATTTATC
*
27096798 TTAATTTAGAACAAATATTCAA
1 TTAATTTAAAACAAATATTCAA
*
27096820 TTAATTTATAAACATATA-TCAA
1 TTAATTTA-AAACAAATATTCAA
27096842 TT
1 TT
27096844 CATAGAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (22 bp):
TTAATTTAAAACAAATATTCAA
Found at i:27097770 original size:23 final size:23
Alignment explanation
Indices: 27097744--27097792 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
27097734 CAGAGTGTAA
27097744 AATCTACTTAACTTGCTTTAAGT
1 AATCTACTTAACTTGCTTTAAGT
*
27097767 AATCTACTTGACTTGCTTTAAGT
1 AATCTACTTAACTTGCTTTAAGT
27097790 AAT
1 AAT
27097793 GCAGTCACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (23 bp):
AATCTACTTAACTTGCTTTAAGT
Found at i:27099305 original size:20 final size:20
Alignment explanation
Indices: 27099250--27099317 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
27099240 GATGCAAAAC
* * *
27099250 AGGGGCACCAAAGTGTAATC
1 AGGGGCACCAGAGTGCAATT
* * * *
27099270 AAGAGCACGAGTGTGCAATT
1 AGGGGCACCAGAGTGCAATT
*
27099290 AGGGGCACCAGAGTGCATTT
1 AGGGGCACCAGAGTGCAATT
27099310 AGGGGCAC
1 AGGGGCAC
27099318 GAATGTGCTG
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.34, T:0.16
Consensus pattern (20 bp):
AGGGGCACCAGAGTGCAATT
Found at i:27099325 original size:20 final size:20
Alignment explanation
Indices: 27099274--27099334 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
27099264 GTAATCAAGA
* *
27099274 GCACGAGTGTGCAATTAGGG
1 GCACGAATGTGCATTTAGGG
*
27099294 GCACCAGA-GTGCATTTAGGG
1 GCACGA-ATGTGCATTTAGGG
27099314 GCACGAATGTGC-TGTTAGGG
1 GCACGAATGTGCAT-TTAGGG
27099334 G
1 G
27099335 AAAAATTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.23, C:0.16, G:0.39, T:0.21
Consensus pattern (20 bp):
GCACGAATGTGCATTTAGGG
Found at i:27099406 original size:40 final size:40
Alignment explanation
Indices: 27099329--27099444 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
27099319 AATGTGCTGT
* * *
27099329 TAGGGGAAAAATTGTGCAAATAGGGACACCAAAGTGTTTA
1 TAGGGGCAAAATTGTGCAAATAGGAACACCGAAGTGTTTA
*
27099369 TAGGGGCACAATTGTGCAAATAGGAACACCGAAGTGTTTA
1 TAGGGGCAAAATTGTGCAAATAGGAACACCGAAGTGTTTA
* * * * * * *
27099409 CAGTGGCATAGTTGTGTAAACAGGAACATCGAAGTG
1 TAGGGGCAAAATTGTGCAAATAGGAACACCGAAGTG
27099445 CAATCAAGGA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.22
Consensus pattern (40 bp):
TAGGGGCAAAATTGTGCAAATAGGAACACCGAAGTGTTTA
Found at i:27099463 original size:20 final size:20
Alignment explanation
Indices: 27099438--27099480 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
27099428 ACAGGAACAT
27099438 CGAAGTGCAAT-CAAGGACAC
1 CGAAGTG-AATACAAGGACAC
*
27099458 CGAAGTGAATACAAGGGCAC
1 CGAAGTGAATACAAGGACAC
27099478 CGA
1 CGA
27099481 GGTGTAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.40, C:0.23, G:0.28, T:0.09
Consensus pattern (20 bp):
CGAAGTGAATACAAGGACAC
Found at i:27105770 original size:46 final size:46
Alignment explanation
Indices: 27105716--27105891 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
27105706 TGGTTGAGCA
27105716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
27105762 TCCAAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
27105807 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27105855 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27105892 GTGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27105872 original size:93 final size:93
Alignment explanation
Indices: 27105713--27105884 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
27105703 GGATGGTTGA
* *
27105713 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
*
27105778 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
27105806 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
27105871 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
27105885 CTTATGGGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27107812 original size:12 final size:12
Alignment explanation
Indices: 27107795--27107825 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27107785 TCTTTTGGAT
*
27107795 TTATTTATTTAA
1 TTATTTATGTAA
27107807 TTATTTATGTAA
1 TTATTTATGTAA
27107819 TTATTTA
1 TTATTTA
27107826 CTTTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (12 bp):
TTATTTATGTAA
Found at i:27107876 original size:12 final size:13
Alignment explanation
Indices: 27107841--27107877 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
27107831 TTTTAAAATA
27107841 TATTATTTT-AACC
1 TATTATTTTGAA-C
27107854 TATTATTTTGAAC
1 TATTATTTTGAAC
27107867 TATT-TTTTGAA
1 TATTATTTTGAA
27107878 TTCCATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 14 0.61
14 2 0.09
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (13 bp):
TATTATTTTGAAC
Found at i:27112424 original size:7 final size:7
Alignment explanation
Indices: 27112412--27112452 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
27112402 GGAGTTAAAA
27112412 ATAAATT
1 ATAAATT
27112419 ATAAATT
1 ATAAATT
27112426 ATAAATT
1 ATAAATT
*
27112433 AAAAACTT
1 ATAAA-TT
27112441 A-AAA-T
1 ATAAATT
27112446 ATAAATT
1 ATAAATT
27112453 TACCAATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
5 2 0.07
6 3 0.10
7 22 0.73
8 3 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (7 bp):
ATAAATT
Found at i:27112564 original size:17 final size:18
Alignment explanation
Indices: 27112525--27112566 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
27112515 TATATTTAAA
27112525 ATAATTTTAAAAACTATT
1 ATAATTTTAAAAACTATT
* **
27112543 TTAATTTTTGAAA-TATT
1 ATAATTTTAAAAACTATT
27112560 ATAATTT
1 ATAATTT
27112567 AATTTCTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
ATAATTTTAAAAACTATT
Found at i:27118791 original size:3 final size:3
Alignment explanation
Indices: 27118783--27118819 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
27118773 TTTAAAGCAT
27118783 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
27118820 TGATTTATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:27125778 original size:115 final size:115
Alignment explanation
Indices: 27125576--27125805 Score: 460
Period size: 115 Copynumber: 2.0 Consensus size: 115
27125566 GAAAATCTGG
27125576 TTGCACAAGAATAAAGTAAATTTACGAAGGAATAAAACCAAACTCTGTCGCAGAAATCAAGGAAG
1 TTGCACAAGAATAAAGTAAATTTACGAAGGAATAAAACCAAACTCTGTCGCAGAAATCAAGGAAG
27125641 CAAAGGATTACTTTCAAAAGATCAAGAAAGCAACAAGGGATGGGATTACA
66 CAAAGGATTACTTTCAAAAGATCAAGAAAGCAACAAGGGATGGGATTACA
27125691 TTGCACAAGAATAAAGTAAATTTACGAAGGAATAAAACCAAACTCTGTCGCAGAAATCAAGGAAG
1 TTGCACAAGAATAAAGTAAATTTACGAAGGAATAAAACCAAACTCTGTCGCAGAAATCAAGGAAG
27125756 CAAAGGATTACTTTCAAAAGATCAAGAAAGCAACAAGGGATGGGATTACA
66 CAAAGGATTACTTTCAAAAGATCAAGAAAGCAACAAGGGATGGGATTACA
27125806 GTGAACAAAA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (115 bp):
TTGCACAAGAATAAAGTAAATTTACGAAGGAATAAAACCAAACTCTGTCGCAGAAATCAAGGAAG
CAAAGGATTACTTTCAAAAGATCAAGAAAGCAACAAGGGATGGGATTACA
Found at i:27128887 original size:29 final size:30
Alignment explanation
Indices: 27128824--27128890 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 30
27128814 ATCTCAAAAC
27128824 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTATGATTT-ATGTGCAATTG
* *
27128855 TATACATGAACTTTGATTT-TGTGCAATTT
1 TATACATGAACTATGATTTATGTGCAATTG
27128884 TATACAT
1 TATACAT
27128891 AAAATTTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 16 0.47
31 18 0.53
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (30 bp):
TATACATGAACTATGATTTATGTGCAATTG
Found at i:27128904 original size:29 final size:29
Alignment explanation
Indices: 27128824--27128903 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 29
27128814 ATCTCAAAAC
* *
27128824 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATAAACTTTGATTT--TGTGCAATTG
* *
27128855 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATAAACTTTGATTTTGTGCAATTG
*
27128884 TATACATAAAATTTTGATTT
1 TATACAT-AAACTTTGATTT
27128904 GATCTAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 16 0.36
30 10 0.23
31 18 0.41
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (29 bp):
TATACATAAACTTTGATTTTGTGCAATTG
Found at i:27129120 original size:29 final size:30
Alignment explanation
Indices: 27129045--27129133 Score: 108
Period size: 31 Copynumber: 3.0 Consensus size: 30
27129035 GATTAAATCA
* * * *
27129045 AAATTAAAGTTTCAAGCATACATTTGAACC
1 AAATTAAAGTTTCATGTATACAATTGCACC
* *
27129075 ACAATTAGAGTTTCATGTATATAATTGCACC
1 A-AATTAAAGTTTCATGTATACAATTGCACC
27129106 AAATTAAAG-TTCATGTATACAATTGCAC
1 AAATTAAAGTTTCATGTATACAATTGCAC
27129134 ATTAAATCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 18 0.36
30 8 0.16
31 24 0.48
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATACAATTGCACC
Found at i:27129149 original size:31 final size:29
Alignment explanation
Indices: 27129086--27129155 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
27129076 CAATTAGAGT
* *
27129086 TTCATGTATATAATTGCACCAAATTAAAG
1 TTCATGTATACAATTGCACCAAATCAAAG
*
27129115 TTCATGTATACAATTGCACATTAAATCAAAG
1 TTCATGTATACAATTGCAC--CAAATCAAAG
*
27129146 TTCATATATA
1 TTCATGTATA
27129156 ATTTTGAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.51
31 17 0.49
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (29 bp):
TTCATGTATACAATTGCACCAAATCAAAG
Found at i:27130125 original size:43 final size:43
Alignment explanation
Indices: 27130042--27130129 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 43
27130032 AACAAAACTG
27130042 ATATTTGTTTCTTAAAACCCAAGCTATTATGTTATAAAAAATT
1 ATATTTGTTTCTTAAAACCCAAGCTATTATGTTATAAAAAATT
*
27130085 ATATTTGTTTCTTAAAAACCCATGCTATTATGTTATAAAAAATT
1 ATATTTGTTTCTT-AAAACCCAAGCTATTATGTTATAAAAAATT
27130129 A
1 A
27130130 CCAGGTTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 13 0.30
44 30 0.70
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (43 bp):
ATATTTGTTTCTTAAAACCCAAGCTATTATGTTATAAAAAATT
Found at i:27138775 original size:46 final size:46
Alignment explanation
Indices: 27138708--27139020 Score: 430
Period size: 46 Copynumber: 6.8 Consensus size: 46
27138698 GTGTGCTCTC
* *
27138708 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
27138754 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
27138800 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
27138846 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
27138892 TGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*** * *
27138938 TGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * * *
27138985 TGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
27139021 TAAGTTGAAA
Statistics
Matches: 247, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 205 0.83
47 42 0.17
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:27139028 original size:15 final size:15
Alignment explanation
Indices: 27139008--27139037 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27138998 GTAAAACCAT
27139008 AGTTGAAAGATACTA
1 AGTTGAAAGATACTA
27139023 AGTTGAAAGATACTA
1 AGTTGAAAGATACTA
27139038 TGACATCATG
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:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (15 bp):
AGTTGAAAGATACTA
Found at i:27140254 original size:13 final size:13
Alignment explanation
Indices: 27140236--27140264 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27140226 TAAAAGTCTC
27140236 AGTATAATCAATT
1 AGTATAATCAATT
27140249 AGTATAATCAATT
1 AGTATAATCAATT
27140262 AGT
1 AGT
27140265 CTAACTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (13 bp):
AGTATAATCAATT
Found at i:27152587 original size:57 final size:57
Alignment explanation
Indices: 27152474--27152588 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 57
27152464 GATAGGAATG
**
27152474 CATTAGTTATAGATACGAACAAAATATGTTTAACATGCATTAAAAGGCATCGTGGTT
1 CATTAGTTATAGATACGAACAAAATATGTTTAACATGCATTAAAAGGCATAATGGTT
* * * *
27152531 CATTGGTTCTAGATGCGAACAAATTATGTTTAACATGCATTAAAAGGCATAATGGTT
1 CATTAGTTATAGATACGAACAAAATATGTTTAACATGCATTAAAAGGCATAATGGTT
27152588 C
1 C
27152589 TTAAGGATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (57 bp):
CATTAGTTATAGATACGAACAAAATATGTTTAACATGCATTAAAAGGCATAATGGTT
Found at i:27154070 original size:31 final size:31
Alignment explanation
Indices: 27154034--27154093 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
27154024 TTAAACAACA
27154034 TATTTAGACAACAAATACATTATGTTCTTTG
1 TATTTAGACAACAAATACATTATGTTCTTTG
* *
27154065 TATTTAGACAGCAGATACATTATGTTCTT
1 TATTTAGACAACAAATACATTATGTTCTT
27154094 CAATTGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (31 bp):
TATTTAGACAACAAATACATTATGTTCTTTG
Found at i:27154117 original size:16 final size:16
Alignment explanation
Indices: 27154096--27154127 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27154086 ATGTTCTTCA
27154096 ATTGGAATCCTTCTTT
1 ATTGGAATCCTTCTTT
*
27154112 ATTGGAATCTTTCTTT
1 ATTGGAATCCTTCTTT
27154128 TGACACCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (16 bp):
ATTGGAATCCTTCTTT
Found at i:27155080 original size:35 final size:35
Alignment explanation
Indices: 27155034--27155117 Score: 150
Period size: 35 Copynumber: 2.4 Consensus size: 35
27155024 TCTTTGTGTT
*
27155034 TAAATTTTAATGCAACTTCAAGATAATCAATGTAC
1 TAAATTTTAATGCAACTTCAAAATAATCAATGTAC
*
27155069 TAAATTTTAATGCAACTTCAAAATAATTAATGTAC
1 TAAATTTTAATGCAACTTCAAAATAATCAATGTAC
27155104 TAAATTTTAATGCA
1 TAAATTTTAATGCA
27155118 GATCGTTTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (35 bp):
TAAATTTTAATGCAACTTCAAAATAATCAATGTAC
Found at i:27168069 original size:42 final size:42
Alignment explanation
Indices: 27168010--27168095 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
27168000 TCAACGAGTA
27168010 AGCCATAATTAACTGATCTATTTAAGTGAGGGGTAAGTTTCT
1 AGCCATAATTAACTGATCTATTTAAGTGAGGGGTAAGTTTCT
27168052 AGCCATAATTAACTGATCTATTTAAGTGAGGGGTAAGTTTCT
1 AGCCATAATTAACTGATCTATTTAAGTGAGGGGTAAGTTTCT
27168094 AG
1 AG
27168096 ACAAGTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (42 bp):
AGCCATAATTAACTGATCTATTTAAGTGAGGGGTAAGTTTCT
Found at i:27175362 original size:34 final size:34
Alignment explanation
Indices: 27175317--27175393 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
27175307 GTTTGCATTT
*
27175317 CTGATACTGTTACT-ATAATGGGTTAAAACCCACA
1 CTGATACTGTTACTGA-AATGGGCTAAAACCCACA
* * **
27175351 TTGATATTGTTACTGAAATGGGCTAAGGCCCACA
1 CTGATACTGTTACTGAAATGGGCTAAAACCCACA
27175385 CTGATACTG
1 CTGATACTG
27175394 GATTGTCACT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (34 bp):
CTGATACTGTTACTGAAATGGGCTAAAACCCACA
Found at i:27179221 original size:17 final size:18
Alignment explanation
Indices: 27179199--27179239 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
27179189 GGTTAAAGTA
*
27179199 TAATTTTATTATTGTA-T
1 TAATTTTATAATTGTATT
*
27179216 TAA-TTTATAATTTTATT
1 TAATTTTATAATTGTATT
27179233 TAATTTT
1 TAATTTT
27179240 TAAGATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 10 0.50
17 7 0.35
18 3 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TAATTTTATAATTGTATT
Found at i:27184152 original size:4 final size:4
Alignment explanation
Indices: 27184143--27184172 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
27184133 AAGTAAATAC
27184143 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
27184173 ATAATAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:27186262 original size:17 final size:18
Alignment explanation
Indices: 27186237--27186274 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
27186227 TTTAAATTTA
27186237 ATTACATAAAT-ATAAAT
1 ATTACATAAATAATAAAT
*
27186254 ATTAGATAAATAATAAAT
1 ATTACATAAATAATAAAT
27186272 ATT
1 ATT
27186275 TACTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
ATTACATAAATAATAAAT
Found at i:27188257 original size:10 final size:9
Alignment explanation
Indices: 27188235--27188300 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
27188225 ATTTTAGTTG
27188235 TTTTATATA
1 TTTTATATA
27188244 -TTTATATA
1 TTTTATATA
27188252 TTTT-TATAA
1 TTTTATAT-A
* *
27188261 CTTTATAAA
1 TTTTATATA
27188270 TTTTAGT-TA
1 TTTTA-TATA
* *
27188279 GTTTACATA
1 TTTTATATA
27188288 TTTTATATA
1 TTTTATATA
27188297 TTTT
1 TTTT
27188301 TAAAATAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
8 11 0.25
9 30 0.68
10 3 0.07
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATATA
Found at i:27191817 original size:43 final size:43
Alignment explanation
Indices: 27191748--27191844 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
27191738 CGCTATATGC
*
27191748 AACGCCGCTAAAGAACAGGACTTTTAGCGGCGCTCTTT-TAAAA
1 AACGCCGCTAAAGAACAGGACCTTTAGCGGCGCT-TTTATAAAA
* *
27191791 AACGCCGCTAAAGACCGGGACCTTTAGCGGCGCTTTTATAAAA
1 AACGCCGCTAAAGAACAGGACCTTTAGCGGCGCTTTTATAAAA
*
27191834 ATCGCCGCTAA
1 AACGCCGCTAA
27191845 TTTGCCCAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 3 0.06
43 46 0.94
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (43 bp):
AACGCCGCTAAAGAACAGGACCTTTAGCGGCGCTTTTATAAAA
Found at i:27192161 original size:21 final size:21
Alignment explanation
Indices: 27192137--27192184 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
27192127 TTCTGTTCTG
* *
27192137 CTCCGCCTCCCTCGCTACTGC
1 CTCCGCCTCCCGCACTACTGC
*
27192158 CTCCGCCTCCCGCACTGCTGC
1 CTCCGCCTCCCGCACTACTGC
27192179 CTCCGC
1 CTCCGC
27192185 TCTAAGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.58, G:0.17, T:0.21
Consensus pattern (21 bp):
CTCCGCCTCCCGCACTACTGC
Found at i:27197754 original size:9 final size:9
Alignment explanation
Indices: 27197740--27197867 Score: 105
Period size: 9 Copynumber: 13.6 Consensus size: 9
27197730 ATGTATTAGT
27197740 TAAGTTATG
1 TAAGTTATG
27197749 TAAGTTGTTATG
1 TAA---GTTATG
27197761 TACA-TTATG
1 TA-AGTTATG
*
27197770 TGAGTTATG
1 TAAGTTATG
* *
27197779 TAAATTATA
1 TAAGTTATG
27197788 TAAGTTATG
1 TAAGTTATG
*
27197797 TGAGTTATG
1 TAAGTTATG
27197806 TAAGTTGTTATG
1 TAA---GTTATG
*
27197818 TAAATTATG
1 TAAGTTATG
*
27197827 TAAGTTATA
1 TAAGTTATG
*
27197836 TGAGTTATG
1 TAAGTTATG
27197845 TAAGTTATG
1 TAAGTTATG
* *
27197854 TAATTTATT
1 TAAGTTATG
27197863 TAAGT
1 TAAGT
27197868 AATGATTAAT
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
8 1 0.01
9 75 0.80
12 17 0.18
13 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:27197816 original size:39 final size:39
Alignment explanation
Indices: 27197773--27197850 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
27197763 CATTATGTGA
*
27197773 GTTATGTAAATTATATAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATATAAGTTATATGAGTTATGTAAGTT
*
27197812 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 GTTATGTAAATTATATAAGTTATATGAGTTATGTAAGTT
27197851 ATGTAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (39 bp):
GTTATGTAAATTATATAAGTTATATGAGTTATGTAAGTT
Found at i:27197851 original size:48 final size:48
Alignment explanation
Indices: 27197765--27197856 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
27197755 GTTATGTACA
* * *
27197765 TTATGTGAGTTATGTAAATTATATAAGTTATGTGAGTTATGTAAGTTG
1 TTATGTAAATTATGTAAATTATATAAGTTATGTAAGTTATGTAAGTTG
* *
27197813 TTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGTAA
1 TTATGTAAATTATGTAAATTATATAAGTTATGTAAGTTATGTAA
27197857 TTTATTTAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.46
Consensus pattern (48 bp):
TTATGTAAATTATGTAAATTATATAAGTTATGTAAGTTATGTAAGTTG
Found at i:27197867 original size:57 final size:57
Alignment explanation
Indices: 27197740--27197867 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
27197730 ATGTATTAGT
* * *
27197740 TAAGTTATGTAAGTTGTTATGTACATTATGTGAGTTATGTAAATTATATAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATATAAGTTATG
* * * *
27197797 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATATAAGTTATG
* *
27197854 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
27197868 AATGATTAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATATAAGTTATG
Found at i:27198568 original size:10 final size:10
Alignment explanation
Indices: 27198553--27198581 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
27198543 AATAAAATTA
27198553 ATTCATACTT
1 ATTCATACTT
27198563 ATTCATACTT
1 ATTCATACTT
27198573 ATTCATACT
1 ATTCATACT
27198582 CCACTCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTCATACTT
Found at i:27199094 original size:183 final size:182
Alignment explanation
Indices: 27198771--27199101 Score: 608
Period size: 183 Copynumber: 1.8 Consensus size: 182
27198761 CCTAGAACAG
27198771 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTATCTATA
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTATCTATA
* *
27198836 TCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTACAGGATGA
66 TCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACCAATAGTTACAGGAGGA
27198901 GCAAGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 GCAAGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
27198953 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAC-TTATCTAT
* *
27199018 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACTAATAGTTGCAGGAGG
65 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACCAATAGTTACAGGAGG
*
27199083 AGCAGGAAGCAGTAACTGA
130 AGCAAGAAGCAGTAACTGA
27199102 TGCTGAATCT
Statistics
Matches: 143, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
182 56 0.39
183 87 0.61
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (182 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTATCTATA
TCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACCAATAGTTACAGGAGGA
GCAAGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:27200380 original size:148 final size:148
Alignment explanation
Indices: 27200112--27200408 Score: 585
Period size: 148 Copynumber: 2.0 Consensus size: 148
27200102 CCTTAATCAT
27200112 AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
1 AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
27200177 AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAGTGCATATAAATCTCCTT
66 AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAGTGCATATAAATCTCCTT
27200242 TTTACAATTTATTGCATA
131 TTTACAATTTATTGCATA
27200260 AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
1 AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
*
27200325 AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAGTGTATATAAATCTCCTT
66 AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAGTGCATATAAATCTCCTT
27200390 TTTACAATTTATTGCATA
131 TTTACAATTTATTGCATA
27200408 A
1 A
27200409 CATTTCTGAG
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 148 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (148 bp):
AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAGTGCATATAAATCTCCTT
TTTACAATTTATTGCATA
Found at i:27203612 original size:15 final size:15
Alignment explanation
Indices: 27203587--27203629 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
27203577 AGAGTTAACT
27203587 CATAAACCTTAAACC
1 CATAAACCTTAAACC
* *
27203602 CATATATCTTAAA-C
1 CATAAACCTTAAACC
27203616 CATAAACCTTAAAC
1 CATAAACCTTAAAC
27203630 TATAATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (15 bp):
CATAAACCTTAAACC
Found at i:27203626 original size:14 final size:14
Alignment explanation
Indices: 27203587--27203634 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
27203577 AGAGTTAACT
27203587 CATAAACCTTAAACC
1 CATAAACCTTAAA-C
* *
27203602 CATATATCTTAAAC
1 CATAAACCTTAAAC
27203616 CATAAACCTTAAAC
1 CATAAACCTTAAAC
*
27203630 TATAA
1 CATAA
27203635 TGATAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (14 bp):
CATAAACCTTAAAC
Found at i:27203958 original size:41 final size:40
Alignment explanation
Indices: 27203791--27203958 Score: 167
Period size: 41 Copynumber: 4.1 Consensus size: 40
27203781 GTTATATGAC
* *
27203791 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCT-GT
* * * * *
27203832 CTTTAGCGGTGATTTACCAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGT
* * * *
27203872 TTTTAGCGGCGTTTTTTA-CTAAAACGCCTCTATTGCTTTGT
1 TTTTAGCGGCG--TTTTACCAAAAACGCCGCTAATGCTCTGT
* * *
27203913 TTTTAGCGGCGTTTTACCAAAAATGCCGCCATTGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGT
27203953 GTTTTA
1 -TTTTA
27203959 CAATTTTTGC
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 5 0.05
40 28 0.26
41 69 0.65
42 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGT
Found at i:27216453 original size:14 final size:13
Alignment explanation
Indices: 27216422--27216470 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
27216412 ATCTTGAACC
27216422 CCAAACTCTAAAT
1 CCAAACTCTAAAT
*
27216435 CCAAACTCTAAGTT
1 CCAAACTCTAA-AT
* *
27216449 CCAAACTTTGAAT
1 CCAAACTCTAAAT
27216462 CCTAAACTC
1 CC-AAACTC
27216471 CGAACCCTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 14 0.48
14 15 0.52
ACGTcount: A:0.39, C:0.31, G:0.04, T:0.27
Consensus pattern (13 bp):
CCAAACTCTAAAT
Found at i:27219102 original size:26 final size:27
Alignment explanation
Indices: 27219042--27219102 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
27219032 TAAGAAATTT
27219042 TAAAATATTATTTTGTTTTACTTTCAA
1 TAAAATATTATTTTGTTTTACTTTCAA
*
27219069 -AAAATATTATTTTATTTTTA-TTT-AA
1 TAAAATATTATTTT-GTTTTACTTTCAA
*
27219094 TAAATTATT
1 TAAAATATT
27219103 CTGATCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 2 0.07
26 23 0.77
27 5 0.17
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (27 bp):
TAAAATATTATTTTGTTTTACTTTCAA
Found at i:27219381 original size:16 final size:16
Alignment explanation
Indices: 27219350--27219393 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
27219340 ATATAGTAAA
27219350 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
* * *
27219366 ATATAAATATATAAAT
1 AAATAAAAATAAAAAT
*
27219382 AAATAAACATAA
1 AAATAAAAATAA
27219394 TTACTTATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:27221495 original size:31 final size:30
Alignment explanation
Indices: 27221455--27221534 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
27221445 TTTCAAATAT
*
27221455 TTGTTATTTTTGTCACTCCAGTTAGATAAG
1 TTGTAATTTTTGTCACTCCAGTTAGATAAG
* *
27221485 TTGTCAATTTTAGTCACTCCCGTTAGATAAG
1 TTGT-AATTTTTGTCACTCCAGTTAGATAAG
*
27221516 TTGTTATTTTTAGTCACTC
1 TTGTAATTTTT-GTCACTC
27221535 TACCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 9 0.21
31 34 0.79
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (30 bp):
TTGTAATTTTTGTCACTCCAGTTAGATAAG
Found at i:27223324 original size:26 final size:25
Alignment explanation
Indices: 27223284--27223341 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
27223274 AATTTCTACA
* *
27223284 CTTTTTAAAATTAAATATGTATCAT
1 CTTTTTAAAATTAAAAATCTATCAT
*
27223309 CTTATTTAAGAA-TAAAAATCTCTCAT
1 CTT-TTTAA-AATTAAAAATCTATCAT
27223335 CTTTTTA
1 CTTTTTA
27223342 TTATGTATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 7 0.25
26 19 0.68
27 2 0.07
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (25 bp):
CTTTTTAAAATTAAAAATCTATCAT
Found at i:27226053 original size:12 final size:12
Alignment explanation
Indices: 27226036--27226065 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27226026 ATCAGGTACG
27226036 ACGCCAATGCCA
1 ACGCCAATGCCA
*
27226048 ACGCCAATGCCG
1 ACGCCAATGCCA
27226060 ACGCCA
1 ACGCCA
27226066 TATTTCCCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.43, G:0.20, T:0.07
Consensus pattern (12 bp):
ACGCCAATGCCA
Found at i:27230031 original size:14 final size:14
Alignment explanation
Indices: 27230012--27230042 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27230002 TAAAAATTAT
27230012 AAATAATAATAGTA
1 AAATAATAATAGTA
*
27230026 AAATAATAGTAGTA
1 AAATAATAATAGTA
27230040 AAA
1 AAA
27230043 GGTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (14 bp):
AAATAATAATAGTA
Found at i:27230094 original size:14 final size:14
Alignment explanation
Indices: 27230047--27230086 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
27230037 GTAAAAGGTA
*
27230047 AAAAAATAATAAAT
1 AAAATATAATAAAT
*
27230061 AAAATATGATAAAT
1 AAAATATAATAAAT
27230075 AAAATATAATAA
1 AAAATATAATAA
27230087 GTATAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
AAAATATAATAAAT
Found at i:27230147 original size:32 final size:30
Alignment explanation
Indices: 27230090--27230148 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
27230080 ATAATAAGTA
* **
27230090 TAATAAACTATATTTAAAATTATTAACTTT
1 TAATAAAATATATTTAAAAAAATTAACTTT
27230120 TAATAAAATATATATATAAAAAAATTAAC
1 TAATAAAATATAT-T-TAAAAAAATTAAC
27230149 ATAAATAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.50
31 1 0.04
32 11 0.46
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (30 bp):
TAATAAAATATATTTAAAAAAATTAACTTT
Found at i:27230394 original size:16 final size:16
Alignment explanation
Indices: 27230373--27230422 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
27230363 TGAAAATGAT
27230373 ATAATAAGTATAATAA
1 ATAATAAGTATAATAA
*
27230389 ATAAT-AGTGTAA-AA
1 ATAATAAGTATAATAA
27230403 A-AATAA-TATAATAA
1 ATAATAAGTATAATAA
27230417 ATAATA
1 ATAATA
27230423 GGAAAATAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 7 0.24
14 7 0.24
15 10 0.34
16 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
ATAATAAGTATAATAA
Found at i:27230441 original size:23 final size:23
Alignment explanation
Indices: 27230402--27230451 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
27230392 ATAGTGTAAA
*
27230402 AAAATAATATAATAAATAATAGG
1 AAAATAATATAAAAAATAATAGG
* *
27230425 AAAATAACTA-AAAAAATGATAGT
1 AAAATAA-TATAAAAAATAATAGG
27230448 AAAA
1 AAAA
27230452 AAAATAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (23 bp):
AAAATAATATAAAAAATAATAGG
Found at i:27231881 original size:135 final size:134
Alignment explanation
Indices: 27231648--27232136 Score: 705
Period size: 135 Copynumber: 3.6 Consensus size: 134
27231638 GATCTGCTGT
* * ** **
27231648 AATTTAATCTGCTTTACTCCTGCTCAGTAAAGATAAGATCTGGTACGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
* ** *
27231713 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
27231778 ATCAA
131 A-CAA
**
27231783 AATTTGATCTGCTTTGCTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
* * *
27231848 TGCTTAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
27231913 ACCAA
131 A-CAA
* * *
27231918 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTTAGTATA--TAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
*
27231981 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCTGATACATGGAGATAAGACTT
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT
27232046 GC-CAA
130 -CACAA
* * ** *
27232051 AATTTTATTTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
27232116 TGCTCAGTGAAGATAAGGCTG
66 TGCTCAGTGAAGATAAGGCTG
27232137 ATGATATTTG
Statistics
Matches: 319, Mismatches: 31, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
133 116 0.36
134 2 0.01
135 201 0.63
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (134 bp):
AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
ACAA
Found at i:27235206 original size:33 final size:33
Alignment explanation
Indices: 27235169--27235255 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 33
27235159 TCCACCCATG
* *
27235169 TACTCAACTCCTCCAGAGC-CGTATCCACCGCCA
1 TACTCTACTCCTCCAG-GCTCATATCCACCGCCA
* *
27235202 TACTCTACTCCTCCCGGCTCATATCCATCGCCA
1 TACTCTACTCCTCCAGGCTCATATCCACCGCCA
*
27235235 TATTCTACTCCTCTC-GGCTCA
1 TACTCTACTCCTC-CAGGCTCA
27235256 AGTTCATAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 2 0.04
33 44 0.94
34 1 0.02
ACGTcount: A:0.20, C:0.44, G:0.10, T:0.26
Consensus pattern (33 bp):
TACTCTACTCCTCCAGGCTCATATCCACCGCCA
Found at i:27236788 original size:18 final size:18
Alignment explanation
Indices: 27236765--27236833 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
27236755 GAACGATTAT
*
27236765 TTATTCAATAACAGTCAG
1 TTATTCAATAACAATCAG
** *
27236783 TTATTCGGTAACAATCAA
1 TTATTCAATAACAATCAG
*
27236801 TTATTCAATAATAATCAG
1 TTATTCAATAACAATCAG
* *
27236819 TTATTTAGTAACAAT
1 TTATTCAATAACAAT
27236834 TAAATTATTC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (18 bp):
TTATTCAATAACAATCAG
Found at i:27236806 original size:36 final size:37
Alignment explanation
Indices: 27236765--27236853 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
27236755 GAACGATTAT
* *
27236765 TTATTCAATAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAATAACAGTCAGTTATTCAGTAACAATTAAA
* * *
27236801 TTATTCAATAATAATCAGTTATTTAGTAACAATTAAA
1 TTATTCAATAACAGTCAGTTATTCAGTAACAATTAAA
*
27236838 TTATTCAGTAACAGTC
1 TTATTCAATAACAGTC
27236854 GATCTTTCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 28 0.64
37 16 0.36
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.37
Consensus pattern (37 bp):
TTATTCAATAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:27237047 original size:47 final size:47
Alignment explanation
Indices: 27236978--27237084 Score: 160
Period size: 47 Copynumber: 2.3 Consensus size: 47
27236968 CAGTAACAGT
* * *
27236978 AACAGTAGCAATACGGTACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
* **
27237025 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAATAAATTTGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
27237072 AACAGTAACAGTA
1 AACAGTAACAGTA
27237085 ACAGTAACAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:27237085 original size:53 final size:49
Alignment explanation
Indices: 27236971--27237090 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 49
27236961 GCCGAAACAG
* *
27236971 TAACAGTAACAGTAGCAATACGGTACACAGAGTACCTCATCGGAACAAA
1 TAACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAA
* * *
27237020 T--CCGGAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAATAAA
1 TAACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAA
27237067 TTTGAAACAGTAACAGTAACAGTA
1 --T--AACAGTAACAGTAACAGTA
27237091 ACAATATCTG
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
47 41 0.71
49 2 0.03
53 15 0.26
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (49 bp):
TAACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAA
Found at i:27237309 original size:20 final size:20
Alignment explanation
Indices: 27237272--27237308 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27237262 TTTTCAGTTT
27237272 TTAATTAATTCATATTTTAA
1 TTAATTAATTCATATTTTAA
27237292 TTAATTAATT-ATATTTT
1 TTAATTAATTCATATTTT
27237309 TTTTCAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATTAATTCATATTTTAA
Found at i:27237317 original size:20 final size:20
Alignment explanation
Indices: 27237269--27237317 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
27237259 CACTTTTCAG
27237269 TTTTTAATTAATTCATATTT
1 TTTTTAATTAATTCATATTT
**
27237289 TAATTAATTAATT-ATATTT
1 TTTTTAATTAATTCATATTT
27237308 TTTTTCAATT
1 TTTTT-AATT
27237318 CAATATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTAATTAATTCATATTT
Found at i:27237862 original size:15 final size:17
Alignment explanation
Indices: 27237831--27237862 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
27237821 TTATATATAT
27237831 AATATGTTAACTTAATA
1 AATATGTTAACTTAATA
27237848 AATAT-TTAA-TTAATA
1 AATATGTTAACTTAATA
27237863 TCAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
AATATGTTAACTTAATA
Found at i:27238373 original size:22 final size:24
Alignment explanation
Indices: 27238334--27238380 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
27238324 TGTATTACAA
27238334 ATGTATATACATTATTTATCACAC
1 ATGTATATACATTATTTATCACAC
*
27238358 ATGTATA-ATATT-TTTATCACAC
1 ATGTATATACATTATTTATCACAC
27238380 A
1 A
27238381 CTTGGCACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (24 bp):
ATGTATATACATTATTTATCACAC
Found at i:27246550 original size:9 final size:9
Alignment explanation
Indices: 27246527--27246693 Score: 154
Period size: 9 Copynumber: 17.6 Consensus size: 9
27246517 ATTGATCATT
*
27246527 ACTTAAATA
1 ACTTACATA
*
27246536 AATTACATA
1 ACTTACATA
27246545 ACTTACATA
1 ACTTACATA
* *
27246554 ACTCATATA
1 ACTTACATA
27246563 ACTTACATA
1 ACTTACATA
*
27246572 ATTTACATAACA
1 ACTTACAT---A
27246584 ACTTACATA
1 ACTTACATA
*
27246593 ACTCACATA
1 ACTTACATA
27246602 ACTTACATA
1 ACTTACATA
*
27246611 ATTTACATAACA
1 ACTTACAT---A
27246623 ACTTACATA
1 ACTTACATA
*
27246632 ACTCACATA
1 ACTTACATA
27246641 ACTTACATA
1 ACTTACATA
*
27246650 ATTTACATA
1 ACTTACATA
*
27246659 ACTCACATA
1 ACTTACATA
*
27246668 ACGTACATAACA
1 ACTTACAT---A
27246680 ACTTACATA
1 ACTTACATA
27246689 ACTTA
1 ACTTA
27246694 ACTAATACAT
Statistics
Matches: 128, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
9 104 0.81
12 24 0.19
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:27246596 original size:39 final size:39
Alignment explanation
Indices: 27246544--27246660 Score: 225
Period size: 39 Copynumber: 3.0 Consensus size: 39
27246534 TAAATTACAT
*
27246544 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
27246583 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
27246622 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
27246661 TCACATAACG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:27246617 original size:48 final size:47
Alignment explanation
Indices: 27246538--27246693 Score: 186
Period size: 48 Copynumber: 3.3 Consensus size: 47
27246528 CTTAAATAAA
* * *
27246538 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * *
27246586 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTACATA-ACAAC
* * *
27246634 TCACATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAAC-TACATAACAAC
27246682 TTACATAACTTA
1 TTACATAACTTA
27246694 ACTAATACAT
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 4 0.04
48 81 0.91
49 4 0.04
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (47 bp):
TTACATAACTTACATAACTTACATAACTTACATAACTACATAACAAC
Found at i:27246679 original size:57 final size:57
Alignment explanation
Indices: 27246527--27246691 Score: 192
Period size: 57 Copynumber: 2.9 Consensus size: 57
27246517 ATTGATCATT
* * * *
27246527 ACTTAAATAAATTACATAACTTACATAACT-CAT-ATAACTTACATAATTTACATAACA
1 ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACAT-A-A
* * *
27246584 ACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCACAT-A
1 ACTTACATAAATTACATAACTTACATAA-CTACATAACAACTTACATAACTCACATAA
* *
27246641 ACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACTTACATAAATTACATAACTTACATAAC-TACATAACAACTTACATAACT
27246692 TAACTAATAC
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 72 0.77
58 1 0.01
59 3 0.03
60 17 0.18
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (57 bp):
ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACATAA
Found at i:27246689 original size:39 final size:37
Alignment explanation
Indices: 27246527--27246678 Score: 202
Period size: 39 Copynumber: 4.1 Consensus size: 37
27246517 ATTGATCATT
* * *
27246527 ACTTAAATAAATTACAT-AACTTACATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
27246563 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
27246602 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
27246641 ACTTACATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
27246677 AC
1 AC
27246679 AACTTACATA
Statistics
Matches: 108, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
36 33 0.31
37 1 0.01
39 74 0.69
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:27252621 original size:43 final size:43
Alignment explanation
Indices: 27252555--27252778 Score: 283
Period size: 43 Copynumber: 5.3 Consensus size: 43
27252545 ACTGGGTAAA
27252555 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTCCTGGTCT
* * *
27252598 TTAGCGGCGTTTTTTATATAAGCG-TCGCTATAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCT-GCTAAAAGTCCTGGTCT
* * * *
27252641 TTAGCAGCG-TTTTTAAAAAAGCACCGCTAAAAGTCCTGGTCA
1 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTCCTGGTCT
* *
27252683 CTAGCGGCGTGTTTT-AAAAAGCGCTGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTCCTGGTCT
* * * * * *
27252725 TTAGCGGCATTTTTTATATAAGCGCCGCTATAAGTCCTAGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTCCTGGTCT
27252768 TTAGCGGCGTT
1 TTAGCGGCGTT
27252779 ACATATAGCA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
42 70 0.46
43 82 0.54
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTCCTGGTCT
Found at i:27252739 original size:85 final size:85
Alignment explanation
Indices: 27252555--27252777 Score: 288
Period size: 85 Copynumber: 2.6 Consensus size: 85
27252545 ACTGGGTAAA
* * *
27252555 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTTATATAAG
1 TTAGCGGC-TTTTTTAAAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTGTTTTATAAAAG
*
27252620 CGTCGCTATAAGTCCTGGTCT
65 CGTCGCTAAAAGTCCTGGTCT
* * * **
27252641 TTAGCAGCGTTTTTAAAAAAGCACCGCTAAAAGTCCTGGTCACTAGCGGCGTGTTTTA-AAAAGC
1 TTAGCGGCTTTTTTAAAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTGTTTTATAAAAGC
27252705 G-CTGCTAAAAGTCCTGGTCT
66 GTC-GCTAAAAGTCCTGGTCT
* * * *
27252725 TTAGCGGCATTTTTTATATAAGCGCCGCTATAAGTCCTAGTCTTTAGCGGCGT
1 TTAGCGGC-TTTTTTAAAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGT
27252778 TACATATAGC
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
83 1 0.01
84 29 0.25
85 80 0.68
86 7 0.06
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (85 bp):
TTAGCGGCTTTTTTAAAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTGTTTTATAAAAGC
GTCGCTAAAAGTCCTGGTCT
Found at i:27253670 original size:27 final size:27
Alignment explanation
Indices: 27253640--27253696 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
27253630 CCTACCAAGA
*
27253640 AGGCACAACTAGACGTGCCTGTCAGAT
1 AGGCACAACTAGACGAGCCTGTCAGAT
* **
27253667 AGGCTCAACTAGTTGAGCCTGTCAGAT
1 AGGCACAACTAGACGAGCCTGTCAGAT
27253694 AGG
1 AGG
27253697 TGCAAAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (27 bp):
AGGCACAACTAGACGAGCCTGTCAGAT
Found at i:27260947 original size:35 final size:35
Alignment explanation
Indices: 27260920--27261083 Score: 195
Period size: 35 Copynumber: 4.5 Consensus size: 35
27260910 CATGGCAAAG
27260920 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
27260955 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
27260990 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
27261030 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
27261065 TGAAAAATGTAGGTATGGT
1 TGTGAAATGTAGGTATGGT
27261084 GTTTCAATGA
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
34 1 0.01
35 78 0.69
37 2 0.02
38 3 0.03
40 29 0.26
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:27261039 original size:75 final size:71
Alignment explanation
Indices: 27260920--27261083 Score: 215
Period size: 75 Copynumber: 2.3 Consensus size: 71
27260910 CATGGCAAAG
** *
27260920 TGTGAAATGTAGGTATGG-TATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-CCAT
1 TGTGAAATGTAGGTATGGTTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TCCCAT
*
27260983 ACTGAGT
65 ACCGAGT
27260990 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGG--TTATC--ATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
27261055 CATACCGAGT
62 CATACCGAGT
**
27261065 TGAAAAATGTAGGTATGGT
1 TGTGAAATGTAGGTATGGT
27261084 GTTTCAATGA
Statistics
Matches: 82, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
70 18 0.22
73 5 0.06
74 1 0.01
75 58 0.71
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (71 bp):
TGTGAAATGTAGGTATGGTTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCCATA
CCGAGT
Found at i:27265101 original size:25 final size:25
Alignment explanation
Indices: 27265073--27265131 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
27265063 CTTATCCCAG
* *
27265073 TTAAACTTTGTTTTTACTTTC-CTAC
1 TTAAACTCTATTTTTACTTTCAC-AC
*
27265098 TTAAACTCTATTTTTAGTTTCACAC
1 TTAAACTCTATTTTTACTTTCACAC
27265123 TTAAACTCT
1 TTAAACTCT
27265132 GATAAGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.51
Consensus pattern (25 bp):
TTAAACTCTATTTTTACTTTCACAC
Found at i:27267470 original size:36 final size:36
Alignment explanation
Indices: 27267423--27267514 Score: 157
Period size: 36 Copynumber: 2.6 Consensus size: 36
27267413 TGGAAAATGG
27267423 ATTTAGCCCGGACGGGTAATCCGAATTAGGGTCTGA
1 ATTTAGCCCGGACGGGTAATCCGAATTAGGGTCTGA
*
27267459 ATTTAGCCCGGACGGGTAATCTGAATTAGGGTCTGA
1 ATTTAGCCCGGACGGGTAATCCGAATTAGGGTCTGA
* *
27267495 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCCGGACGGGTAAT
27267515 TCAGATCCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (36 bp):
ATTTAGCCCGGACGGGTAATCCGAATTAGGGTCTGA
Found at i:27267929 original size:139 final size:138
Alignment explanation
Indices: 27267679--27268117 Score: 614
Period size: 139 Copynumber: 3.2 Consensus size: 138
27267669 ATGGAATGTG
* * *
27267679 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AGAATATGTAAGACCATGGTTGAAAC
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGA-AATGTGTAAGACCATGGTTGAAAG
* *
27267743 ATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACG
65 ATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC-
*
27267808 GGAAAATGAA
129 AGAAAATGAA
*
27267818 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
* *
27267883 TACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACAT
66 TACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-
*
27267948 G-AAATGAG
130 GAAAATGAA
* * **
27267956 TAAGACCATGGCTGAAAGATACCATGGCAACATGATAGGAAAATGAATAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAAGACCATGGTTGAAAG
*** *
27268021 ATACCATGGCAACATGACGGGAAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACATGAC
65 ATACCATGGCAACATGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
27268086 AGAAAA-CAA
129 AGAAAATGAA
* *
27268095 GTAAAACCATAGTTGAAAGATAC
1 -TAAGACCATGGTTGAAAGATAC
27268118 TATGACATCA
Statistics
Matches: 270, Mismatches: 24, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
138 42 0.16
139 163 0.60
140 65 0.24
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
TACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
AAAATGAA
Found at i:27267977 original size:185 final size:185
Alignment explanation
Indices: 27267665--27268117 Score: 669
Period size: 185 Copynumber: 2.4 Consensus size: 185
27267655 GTGTGCTCTC
* *
27267665 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAGAATATG--TAA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT-GAA-ATGAATAA
* * *
27267728 GACCATGGTTGAAACATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATAC
64 GACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGCTGAAAGATAC
* *
27267793 CATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
129 CATGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
27267850 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGA
27267915 CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGCTGAAAGATACCA
66 CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGCTGAAAGATACCA
*
27267980 TGGCAACATGATAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
131 TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** ** * * **
27268035 TGACGGGAAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACAAGTAA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA-TAA
* *
27268099 AACCATAGTTGAAAGATAC
64 GACCATGGTTGAAAGATAC
27268118 TATGACATCA
Statistics
Matches: 244, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
183 3 0.01
184 3 0.01
185 179 0.73
186 59 0.24
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (185 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGA
CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGCTGAAAGATACCA
TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:27268110 original size:46 final size:47
Alignment explanation
Indices: 27267678--27268117 Score: 538
Period size: 46 Copynumber: 9.5 Consensus size: 47
27267668 TATGGAATGT
* * * *
27267678 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AGAATAT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAAGAA
* * *
27267724 GTAAGACCATGGTTGAAACATACCATGGCAACCTGATATGAAATG-A
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAAGAA
***
27267770 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAA-GAA
* * *
27267818 -TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATG-T
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAAGAA
* *
27267863 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAAGAA
* * *
27267910 -TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATG-A
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAAGAA
* *
27267955 GTAAGACCATGGCTGAAAGATACCATGGCAACATGATAGGAAAATGAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAA-GAA
***
27268003 -TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAA-GAA
* * *
27268050 -TAAAACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAAGAA
* *
27268095 GTAAAACCATAGTTGAAAGATAC
1 GTAAGACCATGGTTGAAAGATAC
27268118 TATGACATCA
Statistics
Matches: 353, Mismatches: 32, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
45 3 0.01
46 227 0.64
47 121 0.34
48 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (47 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAAGAA
Found at i:27274764 original size:28 final size:29
Alignment explanation
Indices: 27274733--27274810 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
27274723 TATTATTATT
*
27274733 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
27274761 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
27274789 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
27274811 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:27274810 original size:31 final size:28
Alignment explanation
Indices: 27274744--27274811 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
27274734 ATATAAATAT
**
27274744 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
27274772 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
27274803 ATAAATTAA
1 ATAAATTAA
27274812 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:27275022 original size:11 final size:11
Alignment explanation
Indices: 27275006--27275031 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27274996 AGAAAGAGAC
27275006 GAAACAGGGGA
1 GAAACAGGGGA
27275017 GAAACAGGGGA
1 GAAACAGGGGA
27275028 GAAA
1 GAAA
27275032 GAAAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:27282155 original size:28 final size:29
Alignment explanation
Indices: 27282124--27282201 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
27282114 TATTATTATT
*
27282124 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
27282152 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
27282180 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
27282202 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:27282201 original size:31 final size:28
Alignment explanation
Indices: 27282135--27282202 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
27282125 ATATAAATAT
**
27282135 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
27282163 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
27282194 ATAAATTAA
1 ATAAATTAA
27282203 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:27282424 original size:11 final size:11
Alignment explanation
Indices: 27282408--27282433 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27282398 AGAAAGAGAC
27282408 GAAACAGGGGA
1 GAAACAGGGGA
27282419 GAAACAGGGGA
1 GAAACAGGGGA
27282430 GAAA
1 GAAA
27282434 GAAAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:27283099 original size:3 final size:3
Alignment explanation
Indices: 27283091--27283149 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
27283081 GTGAGGTAAG
27283091 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27283139 TAT TAT TAT TA
1 TAT TAT TAT TA
27283150 GTAGTAGTAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:27283154 original size:3 final size:3
Alignment explanation
Indices: 27283148--27283181 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
27283138 TTATTATTAT
27283148 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
27283182 GGGAATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:27284954 original size:11 final size:10
Alignment explanation
Indices: 27284938--27284973 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
27284928 TTTACATACG
27284938 AAAATAATAA
1 AAAATAATAA
27284948 TAAAATAATAA
1 -AAAATAATAA
27284959 AATAATAATAA
1 AA-AATAATAA
27284970 AAAA
1 AAAA
27284974 CATACCTCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAATAATAA
Found at i:27286015 original size:15 final size:15
Alignment explanation
Indices: 27285973--27286016 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 15
27285963 TTTTACATGA
27285973 TATTTTAAATTAC--
1 TATTTTAAATTACTT
*
27285986 T-TTTTAAGTTA-TT
1 TATTTTAAATTACTT
27285999 TATTTTAAATTACTT
1 TATTTTAAATTACTT
27286014 TAT
1 TAT
27286017 ATATTCTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
14 9 0.36
15 5 0.20
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTTTAAATTACTT
Found at i:27286166 original size:29 final size:29
Alignment explanation
Indices: 27286097--27286166 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
27286087 AAATTGTTAT
* *
27286097 TTACTGTATTTATTTTAAAACTCGTTTTTA
1 TTACT-TATTTATTTTAAAAATCGTTTTGA
27286127 TATA-TTATTTA-TTTAAAAATCGTTTTGA
1 T-TACTTATTTATTTTAAAAATCGTTTTGA
27286155 TTACTTACTTTA
1 TTACTTA-TTTA
27286167 AATTGTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 2 0.06
28 19 0.54
29 10 0.29
30 2 0.06
31 2 0.06
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.56
Consensus pattern (29 bp):
TTACTTATTTATTTTAAAAATCGTTTTGA
Found at i:27286305 original size:33 final size:32
Alignment explanation
Indices: 27286244--27286306 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
27286234 TAAGATTCTT
*
27286244 TATATTATTTATTTCACACTTTTATATATACA
1 TATATTATTTATTTAACACTTTTATATATACA
* *
27286276 TATATTATTTATTTTAATATTTTTATATATA
1 TATATTATTTA-TTTAACACTTTTATATATA
27286307 ATCCTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (32 bp):
TATATTATTTATTTAACACTTTTATATATACA
Found at i:27291403 original size:7 final size:7
Alignment explanation
Indices: 27291369--27291394 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27291359 TATTTATATT
27291369 ATTTATA
1 ATTTATA
27291376 ATTTATA
1 ATTTATA
27291383 ATTTATA
1 ATTTATA
27291390 ATTTA
1 ATTTA
27291395 ATTTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTATA
Found at i:27295099 original size:7 final size:7
Alignment explanation
Indices: 27295089--27295147 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
27295079 ATGTATAAAA
27295089 TATTATT
1 TATTATT
27295096 TATTATT
1 TATTATT
27295103 TATTATT
1 TATTATT
27295110 T-TTATAT
1 TATTAT-T
*
27295117 TAATA-T
1 TATTATT
* *
27295123 TAATATA
1 TATTATT
27295130 TATTATAT
1 TATTAT-T
*
27295138 TATAATT
1 TATTATT
27295145 TAT
1 TAT
27295148 ATAATTTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
6 10 0.23
7 26 0.60
8 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (7 bp):
TATTATT
Found at i:27295139 original size:15 final size:15
Alignment explanation
Indices: 27295112--27295170 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
27295102 TTATTATTTT
27295112 TATATTAATATTAATA
1 TATATT-ATATTAATA
*
27295128 TATATTATATTATAATT
1 TATATTATA-T-TAATA
* *
27295145 TATATAATTTTAATA
1 TATATTATATTAATA
*
27295160 TGTATTATATT
1 TATATTATATT
27295171 TCGATATATG
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 15 0.44
16 8 0.24
17 11 0.32
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TATATTATATTAATA
Found at i:27295143 original size:17 final size:17
Alignment explanation
Indices: 27295123--27295170 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
27295113 ATATTAATAT
27295123 TAATATATATTATATTA
1 TAATATATATTATATTA
* *
27295140 TAATTTATA-TA-ATTT
1 TAATATATATTATATTA
*
27295155 TAATATGTATTATATT
1 TAATATATATTATATT
27295171 TCGATATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 10 0.40
16 4 0.16
17 11 0.44
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TAATATATATTATATTA
Found at i:27295149 original size:21 final size:21
Alignment explanation
Indices: 27295088--27295150 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
27295078 AATGTATAAA
*
27295088 ATATTAT-TTATTATTTAT-T
1 ATATTATATTATAATTTATAT
* *
27295107 ATTTTTATATTA-ATATTAATAT
1 A-TATTATATTATA-ATTTATAT
27295129 ATATTATATTATAATTTATAT
1 ATATTATATTATAATTTATAT
27295150 A
1 A
27295151 ATTTTAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 1 0.03
20 5 0.15
21 25 0.74
22 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTATATTATAATTTATAT
Found at i:27295868 original size:25 final size:28
Alignment explanation
Indices: 27295840--27295901 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 28
27295830 TTAAAAAATT
27295840 AATATAAAAATG-CAAAA-ATTATA-AA
1 AATATAAAAATGACAAAATATTATATAA
* * *
27295865 AATATTATAATGACAAAATTTTATATAA
1 AATATAAAAATGACAAAATATTATATAA
*
27295893 ATTATAAAA
1 AATATAAAA
27295902 TTTATTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 10 0.36
26 5 0.18
27 5 0.18
28 8 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (28 bp):
AATATAAAAATGACAAAATATTATATAA
Found at i:27295911 original size:46 final size:49
Alignment explanation
Indices: 27295832--27295963 Score: 143
Period size: 46 Copynumber: 2.8 Consensus size: 49
27295822 TAATTTTTTT
* *
27295832 AAAAA-ATTAATATAAA-AATGCAAAAATTATAAAAATATTAT-AATGAC
1 AAAAAGATTTATATAAATTATG-AAAAATTATAAAAATATTATAAATGAC
* * *
27295879 -AAAA-TTTTATATAAATTAT-AAAATTTATTAAAAATA-TATAAATTAC
1 AAAAAGATTTATATAAATTATGAAAAATTA-TAAAAATATTATAAATGAC
*
27295925 AAAAAGATTTATATAATTTATGAAAAATTATAAAAATAT
1 AAAAAGATTTATATAAATTATGAAAAATTATAAAAATAT
27295964 AAGAATTATG
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
45 10 0.14
46 26 0.37
47 6 0.09
48 21 0.30
49 7 0.10
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (49 bp):
AAAAAGATTTATATAAATTATGAAAAATTATAAAAATATTATAAATGAC
Found at i:27295913 original size:19 final size:19
Alignment explanation
Indices: 27295853--27295959 Score: 62
Period size: 19 Copynumber: 5.7 Consensus size: 19
27295843 ATAAAAATGC
*
27295853 AAAAATTATAAAA-ATATT
1 AAAAATTATAAAATTTATT
* * *
27295871 -ATAATGACAAAATTT-TAT
1 AAAAATTATAAAATTTAT-T
*
27295889 ATAAATTATAAAATTTATT
1 AAAAATTATAAAATTTATT
**
27295908 AAAAA-TATATAAA-TTACA
1 AAAAATTATA-AAATTTATT
* *
27295926 AAAAGATTTATATAATTTATG
1 AAAA-A-TTATAAAATTTATT
27295947 AAAAATTATAAAA
1 AAAAATTATAAAA
27295960 ATATAAGAAT
Statistics
Matches: 65, Mismatches: 15, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
17 10 0.15
18 13 0.20
19 27 0.42
20 4 0.06
21 11 0.17
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAAATTATAAAATTTATT
Found at i:27295959 original size:48 final size:47
Alignment explanation
Indices: 27295853--27295989 Score: 140
Period size: 48 Copynumber: 2.9 Consensus size: 47
27295843 ATAAAAATGC
* * * *
27295853 AAAAATTATAAAAATAT-TATAATGAC-AAAATTTTATATAAATTAT
1 AAAAATTATAAAAATATATAGAATTACAAAAAATTTATATAATTTAT
*
27295898 AAAATTTATTAAAAATATATA-AATTACAAAAAGATTTATATAATTTAT
1 AAAAATTA-TAAAAATATATAGAATTACAAAAA-ATTTATATAATTTAT
*
27295946 GAAAAATTATAAAAATATA-AGAATTATGAAAAATATTT-TATAAT
1 -AAAAATTATAAAAATATATAGAATTA-CAAAAA-ATTTATATAAT
27295990 ACAGAAAATT
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
45 7 0.09
46 14 0.18
47 7 0.09
48 34 0.44
49 16 0.21
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (47 bp):
AAAAATTATAAAAATATATAGAATTACAAAAAATTTATATAATTTAT
Found at i:27296031 original size:25 final size:26
Alignment explanation
Indices: 27295994--27296043 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
27295984 TATAATACAG
*
27295994 AAAATTAATAAAACATTT-TAAAAAT
1 AAAATTAACAAAACATTTATAAAAAT
* *
27296019 AAAATTTACAAAATATTTATAAAAA
1 AAAATTAACAAAACATTTATAAAAA
27296044 GCACAAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATTAACAAAACATTTATAAAAAT
Found at i:27298900 original size:25 final size:25
Alignment explanation
Indices: 27298869--27298920 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
27298859 CTAATTTATC
* *
27298869 CTTTCTTTCTT-TCCCTTTTTCTTTT
1 CTTTCTTT-TTCTCCCTGTTTCGTTT
27298894 CTTTCTTTTTCTCCCTGTTTCGTTT
1 CTTTCTTTTTCTCCCTGTTTCGTTT
27298919 CT
1 CT
27298921 ATTATATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.00, C:0.29, G:0.04, T:0.67
Consensus pattern (25 bp):
CTTTCTTTTTCTCCCTGTTTCGTTT
Found at i:27302025 original size:79 final size:80
Alignment explanation
Indices: 27301926--27302146 Score: 211
Period size: 80 Copynumber: 2.8 Consensus size: 80
27301916 CTCGTTCAAG
* * ** *
27301926 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATA
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
27301989 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
27302005 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
27302070 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
27302085 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
27302147 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 17, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 38 0.32
80 74 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:27302078 original size:80 final size:80
Alignment explanation
Indices: 27301966--27302146 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 80
27301956 CTCATTCAAT
* *
27301966 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
27302029 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
27302045 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
27302109 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
27302126 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
27302147 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 8 0.09
80 71 0.79
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:27302106 original size:40 final size:40
Alignment explanation
Indices: 27301963--27302146 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
27301953 TAACTCATTC
*
27301963 AATGCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
27302003 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
27302043 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
27302083 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
27302124 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27302147 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 9 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:27306986 original size:29 final size:30
Alignment explanation
Indices: 27306921--27306987 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
27306911 TTTTAATTTT
* *
27306921 ATTTGATTCATTTTAATAGTATAATAACTA
1 ATTTGATCCATTTTAATAGTAGAATAACTA
** *
27306951 AAGTGATCCA-TTTAATAGTAGAATGACTA
1 ATTTGATCCATTTTAATAGTAGAATAACTA
27306980 ATTTGATC
1 ATTTGATC
27306988 AGGTCCATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (30 bp):
ATTTGATCCATTTTAATAGTAGAATAACTA
Found at i:27307836 original size:30 final size:30
Alignment explanation
Indices: 27307794--27307868 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
27307784 TATACTTTTG
*
27307794 TTATATCCAAATAAGCCCTTACTC-TTTAA
1 TTATATCCAAATAAGCCCTTAATCTTTTAA
*
27307823 TTGATATTCAAATAAGCCCTTAATCTTTTAA
1 TT-ATATCCAAATAAGCCCTTAATCTTTTAA
*
27307854 TTATATCCAATTAAG
1 TTATATCCAAATAAG
27307869 TTATTATGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.05
30 31 0.77
31 7 0.17
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (30 bp):
TTATATCCAAATAAGCCCTTAATCTTTTAA
Found at i:27309167 original size:16 final size:16
Alignment explanation
Indices: 27309148--27309179 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27309138 TATTATGATC
27309148 CCATGTTATTGAGTCA
1 CCATGTTATTGAGTCA
27309164 CCATGTTATTGAGTCA
1 CCATGTTATTGAGTCA
27309180 TTCATCCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (16 bp):
CCATGTTATTGAGTCA
Found at i:27319974 original size:15 final size:15
Alignment explanation
Indices: 27319940--27319978 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
27319930 ACACAGATCA
*
27319940 AGATGATCATGAGAT
1 AGATGATGATGAGAT
*
27319955 AGATGATGATGAGTT
1 AGATGATGATGAGAT
*
27319970 TGATGATGA
1 AGATGATGA
27319979 AGTATTGGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.31, T:0.31
Consensus pattern (15 bp):
AGATGATGATGAGAT
Done.