Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 70 of 378
Found at i:18337832 original size:22 final size:21
Alignment explanation
Indices: 18337807--18337848 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18337797 TATGTTATAT
18337807 ATATTATAAACATATATTTTCA
1 ATATTATAAA-ATATATTTTCA
* *
18337829 ATATTATTAATTATATTTTC
1 ATATTATAAAATATATTTTC
18337849 TTATAATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATTATAAAATATATTTTCA
Found at i:18338297 original size:13 final size:13
Alignment explanation
Indices: 18338281--18338310 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18338271 TTATCGTGTA
18338281 TATTTTTTATTTC
1 TATTTTTTATTTC
*
18338294 TATTTTTTGTTTC
1 TATTTTTTATTTC
18338307 TATT
1 TATT
18338311 AACCATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (13 bp):
TATTTTTTATTTC
Found at i:18344151 original size:30 final size:29
Alignment explanation
Indices: 18344079--18344143 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
18344069 TGACGAGATT
* *
18344079 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
18344108 GGCACTAAGTGTGCATGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAC
18344138 GGCACT
1 GGCACT
18344144 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:18351986 original size:30 final size:29
Alignment explanation
Indices: 18351914--18351978 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
18351904 TGACGAGATT
* *
18351914 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
18351943 GGCACTAAGTGTGCATGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAC
18351973 GGCACT
1 GGCACT
18351979 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:18357593 original size:21 final size:18
Alignment explanation
Indices: 18357555--18357607 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
18357545 GGAAGAATAA
18357555 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
18357573 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
18357594 A-AAA-GAAAAAAAAA
1 AGAAATGAAAAAAAAA
18357608 GTGTTCATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 7 0.22
19 6 0.19
20 7 0.22
21 5 0.16
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:18365650 original size:30 final size:29
Alignment explanation
Indices: 18365578--18365642 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
18365568 TGACGAGATT
* *
18365578 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
18365607 GGCACTAAGTGTGCATGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAC
18365637 GGCACT
1 GGCACT
18365643 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:18375486 original size:90 final size:90
Alignment explanation
Indices: 18375329--18375493 Score: 253
Period size: 90 Copynumber: 1.8 Consensus size: 90
18375319 AATTTCTTTG
*
18375329 TCAAAAATCACTTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGAGTTTTCAA
1 TCAAAAATCACTTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGAGTTTTCAA
*
18375394 TTTCTGTTTTTACAATTTATATTTT
66 TTTCTATTTTTACAATTTATATTTT
* * *
18375419 TCAAAAATCAAC-TCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCTGAGCTA-TTTTT
1 TCAAAAATC-ACTTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAG-GAGTTTTC
18375482 AATTTCTATTTT
64 AATTTCTATTTT
18375494 AATGTCTGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
90 65 0.96
91 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (90 bp):
TCAAAAATCACTTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGAGTTTTCAA
TTTCTATTTTTACAATTTATATTTT
Found at i:18375608 original size:73 final size:74
Alignment explanation
Indices: 18375488--18375810 Score: 255
Period size: 73 Copynumber: 4.2 Consensus size: 74
18375478 TTTTAATTTC
* * * * *
18375488 TATTTT-AATGTCTGTTT-T-AAAGAGTCAATTCATATTAAGAGATGTGAGTTGAGCCTCAGGAC
1 TATTTTAAATTTCTGTTTGTCAAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGAC
*
18375550 ACACTGAGG
66 ACGCTGAGG
* * * * *
18375559 TATTTTAAATTTCTGTTTGTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAACAT-TGGCT
1 TATTTTAAATTTCTGTTTGTCAAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGG-A
*
18375622 CACGTGCTGAGC
65 CAC--GCTGAGG
* * * * *
18375634 TATTTTTAATTCCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAGGTGAGTTGA
1 TATTTTAAATTTCTG--TT--TGTC------AAAGAATCAACTCATATTACGAGAAGTGAGTTGA
18375699 GCCTCAGGACACGCTGAGG
56 GCCTCAGGACACGCTGAGG
* * *
18375718 TATTTTAAATTTCTGTTTGTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCT
1 TATTTTAAATTTCTGTTTGTCAAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGG-A
*
18375781 CACGTGCTGAGC
65 CAC--GCTGAGG
*
18375793 TATTTTTAATTTCTGTTT
1 TATTTTAAATTTCTGTTT
18375811 TAATGTCTAT
Statistics
Matches: 198, Mismatches: 33, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
71 6 0.03
72 14 0.07
73 64 0.32
74 6 0.03
75 41 0.21
77 2 0.01
79 4 0.02
80 4 0.02
82 2 0.01
84 19 0.10
85 3 0.02
86 31 0.16
87 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (74 bp):
TATTTTAAATTTCTGTTTGTCAAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGAC
ACGCTGAGG
Found at i:18375650 original size:75 final size:75
Alignment explanation
Indices: 18375553--18375810 Score: 270
Period size: 75 Copynumber: 3.3 Consensus size: 75
18375543 TCAGGACACA
* * *
18375553 CTGAGGTATTTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACATT
1 CTGAGCTATTTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
18375618 GGCTCACGTG
66 GGCTCACGTG
* * * * * *
18375628 CTGAGCTATTTTTAATTCCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAGGTG
1 CTGAGCTATTTTAAATTTCTG--TT--TGTC------AAA-AATCAACTCATATTGCGAGAAGTG
* *
18375693 AGTTGAGCCTCAGG-ACAC--G
55 AGTTGAGCCT-TGGCTCACGTG
*
18375712 CTGAGGTATTTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 CTGAGCTATTTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
18375777 GGCTCACGTG
66 GGCTCACGTG
*
18375787 CTGAGCTATTTTTAATTTCTGTTT
1 CTGAGCTATTTTAAATTTCTGTTT
18375811 TAATGTCTAT
Statistics
Matches: 146, Mismatches: 22, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
72 2 0.01
73 33 0.23
74 3 0.02
75 41 0.28
77 2 0.01
79 4 0.03
80 4 0.03
82 2 0.01
84 19 0.13
85 3 0.02
86 31 0.21
87 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (75 bp):
CTGAGCTATTTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
GGCTCACGTG
Found at i:18375694 original size:86 final size:85
Alignment explanation
Indices: 18375585--18375859 Score: 306
Period size: 86 Copynumber: 3.4 Consensus size: 85
18375575 TTGTCAAAAA
* * * *
18375585 TCAACTCATATTGCGAGAAGTGAGTTGAACATTGGCTCACGTGCTGAGCTATTTTTAATTCCTGT
1 TCAACTCATATTACGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTTAATTTCTGT
18375650 TTTAATGTCTGTTTTAAAGAG
66 TTTAATGTCT-TTTTAAAGAG
* * * * * *
18375671 TCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTTAAATTTCTG
1 TCAACTCATATTACGAGAAGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTTAATTTCTG
*
18375733 --TT--TGTC-----AAA-AA
65 TTTTAATGTCTTTTTAAAGAG
*
18375744 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTTAATTTCTGT
1 TCAACTCATATTACGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTTAATTTCTGT
18375809 TTTAATGTCTATTTTAAAGAG
66 TTTAATGTCT-TTTTAAAGAG
* *
18375830 TCAATTCATATTACGAGAAATGAGTTGAGC
1 TCAACTCATATTACGAGAAGTGAGTTGAGC
18375860 TCAGGATCAC
Statistics
Matches: 152, Mismatches: 22, Indels: 30
0.75 0.11 0.15
Matches are distributed among these distances:
72 2 0.01
73 33 0.22
74 3 0.02
75 20 0.13
77 2 0.01
79 4 0.03
80 4 0.03
82 2 0.01
84 19 0.12
85 3 0.02
86 58 0.38
87 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (85 bp):
TCAACTCATATTACGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTTAATTTCTGT
TTTAATGTCTTTTTAAAGAG
Found at i:18375696 original size:159 final size:159
Alignment explanation
Indices: 18375401--18375870 Score: 789
Period size: 159 Copynumber: 2.9 Consensus size: 159
18375391 CAATTTCTGT
* * *
18375401 TTTTACAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCAC
1 TTTTA-AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCAC
* * * *
18375466 ATGCTGAGCTATTTTTAATTTCTATTTTAATGTCTGTTTTAAAGAGTCAATTCATATTAAGAGAT
65 GTGCTGAGCTATTTTTAATTTCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAA
18375531 GTGAGTTGAGCCTCAGGACACACTGAGGTA
130 GTGAGTTGAGCCTCAGGACACACTGAGGTA
* *
18375561 TTTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACATTGGCTCACG
1 TTTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
* *
18375626 TGCTGAGCTATTTTTAATTCCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAGG
66 TGCTGAGCTATTTTTAATTTCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAAG
*
18375691 TGAGTTGAGCCTCAGGACACGCTGAGGTA
131 TGAGTTGAGCCTCAGGACACACTGAGGTA
18375720 TTTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
* *
18375785 TGCTGAGCTATTTTTAATTTCTGTTTTAATGTCTATTTTAAAGAGTCAATTCATATTACGAGAAA
66 TGCTGAGCTATTTTTAATTTCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAAG
18375850 TGAGTTGAG-CTCAGGATCACA
131 TGAGTTGAGCCTCAGGA-CACA
18375871 TGCCAAGTAA
Statistics
Matches: 291, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
158 7 0.02
159 279 0.96
160 5 0.02
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (159 bp):
TTTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
TGCTGAGCTATTTTTAATTTCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAAG
TGAGTTGAGCCTCAGGACACACTGAGGTA
Found at i:18376811 original size:31 final size:31
Alignment explanation
Indices: 18376770--18376866 Score: 158
Period size: 31 Copynumber: 3.1 Consensus size: 31
18376760 CCTTTTCATA
* ** *
18376770 TTTCATATTTCATAACACTGAGCCGAAGCCT
1 TTTCAAATTTCATATTACTGGGCCGAAGCCT
18376801 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATATTACTGGGCCGAAGCCT
18376832 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATATTACTGGGCCGAAGCCT
18376863 TTTC
1 TTTC
18376867 TATAAACAGT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATATTACTGGGCCGAAGCCT
Found at i:18377168 original size:23 final size:24
Alignment explanation
Indices: 18377058--18377270 Score: 281
Period size: 24 Copynumber: 9.0 Consensus size: 24
18377048 GCTTTATCAT
*
18377058 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
18377083 GTAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
* * *
18377107 GTAACTCGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
18377131 ATCACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
18377154 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
18377178 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
18377202 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18377225 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18377248 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18377271 GCACTTCCTC
Statistics
Matches: 170, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
23 65 0.38
24 94 0.55
25 11 0.06
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:18377200 original size:71 final size:71
Alignment explanation
Indices: 18377079--18377271 Score: 309
Period size: 71 Copynumber: 2.7 Consensus size: 71
18377069 CCTAGCCTCT
* * * *
18377079 TTTAGTAACTGGGGCAAAAGCCCTTTTTG-TAACTCGGGCATAAGCCCTTTTGATCACTAGGGCA
1 TTTAATAACTGGGGCATAAGCCC-TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCA
18377143 TAAGCCC
65 TAAGCCC
*
18377150 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCAT
18377215 AAGCCC
66 AAGCCC
*
18377221 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
18377272 CACTTCCTCC
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
70 32 0.28
71 83 0.72
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCAT
AAGCCC
Found at i:18377340 original size:9 final size:9
Alignment explanation
Indices: 18377326--18377384 Score: 55
Period size: 9 Copynumber: 6.1 Consensus size: 9
18377316 ACATCTCATG
18377326 TACATATCA
1 TACATATCA
18377335 TACATATCA
1 TACATATCA
*
18377344 TGTGCATATCA
1 --TACATATCA
*
18377355 TACATGTCA
1 TACATATCA
*
18377364 TGTGCATATCA
1 --TACATATCA
18377375 TACATATCA
1 TACATATCA
18377384 T
1 T
18377385 GTTTATCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 25 0.62
11 15 0.38
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (9 bp):
TACATATCA
Found at i:18377344 original size:20 final size:20
Alignment explanation
Indices: 18377316--18377386 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
18377306 GCATTTATGA
* *
18377316 ACATCTCATGTACATATCAT
1 ACATATCATGTGCATATCAT
18377336 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
18377356 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
18377376 ACATATCATGT
1 ACATATCATGT
18377387 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:18377465 original size:25 final size:24
Alignment explanation
Indices: 18377423--18377470 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
18377413 ATATATAAAC
* * *
18377423 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
18377448 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
18377471 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:18377577 original size:81 final size:81
Alignment explanation
Indices: 18377480--18377637 Score: 230
Period size: 81 Copynumber: 2.0 Consensus size: 81
18377470 TCATGTTATA
*
18377480 AGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCA-GTAAATCGAGGGTAAAAC
1 AGGGTAAAACAGTAATTATATAAATCAAGGGTAAAACAGTAATT-ATGTAAATCGAGGGTAAAAC
*
18377544 GGTAATTCTGTAAGTTG
65 AGTAATTCTGTAAGTTG
* * * *
18377561 AGGGTAAAAC-GATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAAC
1 AGGGTAAAACAG-TAATTATATAAATCAAGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAAC
18377625 AGTAATTCTGTAA
65 AGTAATTCTGTAA
18377638 ATCGGAGGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 67 0.97
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (81 bp):
AGGGTAAAACAGTAATTATATAAATCAAGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACA
GTAATTCTGTAAGTTG
Found at i:18377642 original size:27 final size:27
Alignment explanation
Indices: 18377480--18377641 Score: 202
Period size: 27 Copynumber: 6.0 Consensus size: 27
18377470 TCATGTTATA
* *
18377480 AGGGTAAAACAGTAATTCTATAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
18377507 AGGGTAAAACAGTAATTCAGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
18377534 AGGGTAAAACGGTAATTCTGTAAGTTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
18377561 AGGGTAAAAC-GATAATTATGTAAATC-
1 AGGGTAAAACAG-TAATTCTGTAAATCG
* *
18377587 AGGGGTAAAACGGTAATTATGTAAATCG
1 A-GGGTAAAACAGTAATTCTGTAAATCG
*
18377615 GGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
18377642 GAGGTACTTT
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.02
27 115 0.97
28 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.26
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTCTGTAAATCG
Found at i:18377673 original size:27 final size:27
Alignment explanation
Indices: 18377636--18377742 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
18377626 GTAATTCTGT
*
18377636 AAATCGGAGGTACTTT-GGTAATTTTAC
1 AAATCGAAGGTA-TTTCGGTAATTTTAC
* *
18377663 AAGTCGAAGGTATTTCGGTAAATTTAC
1 AAATCGAAGGTATTTCGGTAATTTTAC
* * *
18377690 AAATCGAGGGTATTTCAGTATTTTTAC
1 AAATCGAAGGTATTTCGGTAATTTTAC
*
18377717 AAA-CTAAGGGTATTTCGGTAATTTTA
1 AAATCGAA-GGTATTTCGGTAATTTTA
18377743 GTAAACTAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 61 0.92
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
AAATCGAAGGTATTTCGGTAATTTTAC
Found at i:18377756 original size:27 final size:27
Alignment explanation
Indices: 18377653--18377757 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
18377643 AGGTACTTTG
* * *
18377653 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
18377680 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
18377707 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
18377734 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
18377758 CTAAATAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:18380545 original size:7 final size:7
Alignment explanation
Indices: 18380533--18380560 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18380523 CCATAGCCCT
18380533 TTTCATA
1 TTTCATA
18380540 TTTCATA
1 TTTCATA
18380547 TTTCATA
1 TTTCATA
18380554 TTTCATA
1 TTTCATA
18380561 ACACTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:18380588 original size:31 final size:31
Alignment explanation
Indices: 18380547--18380610 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
18380537 ATATTTCATA
*
18380547 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
18380578 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
18380609 TT
1 TT
18380611 CTATAAACGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:18380889 original size:23 final size:23
Alignment explanation
Indices: 18380823--18381009 Score: 209
Period size: 23 Copynumber: 8.1 Consensus size: 23
18380813 CCTAGCCTCT
* *
18380823 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
**
18380846 TTTTTGTAACT---GCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* * * *
18380867 TTTGATCACTAGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
18380890 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
18380913 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
18380937 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
18380961 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
18380984 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
18381007 TTT
1 TTT
18381010 TGCACTTCCT
Statistics
Matches: 144, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.05
21 9 0.06
23 75 0.52
24 53 0.37
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:18380997 original size:94 final size:91
Alignment explanation
Indices: 18380802--18381011 Score: 255
Period size: 94 Copynumber: 2.3 Consensus size: 91
18380792 GCTTTATCAT
* *
18380802 ATAACTGGAGGCCT-AGCCTCTTTT-AGTAACTGGGGCAAAAGCCCTTTTTGTAACTGCATAAGC
1 ATAACTGG-GGCATAAGCC-CTTTTGA-TAACTAGGGCAAAAGCCCTTTTTGTAACTGCATAAGC
* * *
18380865 CCTTTGATCACTAGGGTATAAGCCCTTTA
63 CCTTTAATAACTAGGGCATAAGCCCTTTA
*
18380894 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC-TTTTGATAACTGGGGCATAAG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCAAAAGCCCTTTTTG-TAACT---GCATAAG
* *
18380958 CCCTTTAATAATTGGGGCATAAGCCCTTTA
62 CCCTTTAATAACTAGGGCATAAGCCCTTTA
*
18380988 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
18381012 CACTTCCTCC
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
90 5 0.05
91 30 0.29
92 13 0.13
94 55 0.53
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (91 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCAAAAGCCCTTTTTGTAACTGCATAAGCCCT
TTAATAACTAGGGCATAAGCCCTTTA
Found at i:18381086 original size:20 final size:20
Alignment explanation
Indices: 18381061--18381106 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
18381051 TATGAGCATC
*
18381061 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
18381081 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
18381101 TCATGT
1 TCATGT
18381107 TTATCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:18381185 original size:25 final size:24
Alignment explanation
Indices: 18381143--18381190 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
18381133 ATATATAAAC
* * *
18381143 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
18381168 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
18381191 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:18382393 original size:27 final size:27
Alignment explanation
Indices: 18382334--18382408 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
18382324 CATATTCGTC
18382334 ATTTTACCATACAGGGGTATTACGGTT
1 ATTTTACCATACAGGGGTATTACGGTT
* *
18382361 ACTTTACCCTACAGGGGCT-TTACGGTCT
1 ATTTTACCATACAGGGG-TATTACGGT-T
*
18382389 -TTTTACC-TAATAGGGGTATT
1 ATTTTACCAT-ACAGGGGTATT
18382409 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 2 0.05
27 36 0.90
28 2 0.05
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACGGTT
Found at i:18382479 original size:27 final size:27
Alignment explanation
Indices: 18382446--18382662 Score: 163
Period size: 27 Copynumber: 8.0 Consensus size: 27
18382436 TTGGTAAATC
18382446 TACAAACTAAGGGTATTTCAGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
** * *
18382473 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACTAAGGGTATTTC-AGTAA-TTT
* * *
18382501 TAGAAAGTCAAGGGTATTTCTGTAACTTT
1 TACAAACT-AAGGGTATTTCAGTAA-TTT
* * **
18382530 GTA-AATC-AGGGGTATTTTGGTAATTT
1 -TACAAACTAAGGGTATTTCAGTAATTT
* * *
18382556 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
* * *
18382583 CACAAACCAAGGGTATTT-TGATAATTT
1 TACAAACTAAGGGTATTTCAG-TAATTT
* **
18382610 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
*
18382637 TACAAACTAAGGGTATTTTAGTAATT
1 TACAAACTAAGGGTATTTCAGTAATT
18382663 CTGTAAATCG
Statistics
Matches: 149, Mismatches: 32, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
25 2 0.01
26 6 0.04
27 112 0.75
28 9 0.06
29 18 0.12
30 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACTAAGGGTATTTCAGTAATTT
Found at i:18382597 original size:54 final size:54
Alignment explanation
Indices: 18382426--18382662 Score: 224
Period size: 54 Copynumber: 4.4 Consensus size: 54
18382416 TTTCATCCTA
* * * * **
18382426 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
* * * * * * ** *
18382480 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTACAAAC
* * * *
18382536 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
* * *
18382590 CAAGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
* *
18382644 TAAGGGTATTTTAGTAATT
1 CAAGGGTATTTTGGTAATT
18382663 CTGTAAATCG
Statistics
Matches: 147, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
54 94 0.64
55 18 0.12
56 35 0.24
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
Found at i:18382661 original size:81 final size:79
Alignment explanation
Indices: 18382402--18382662 Score: 222
Period size: 81 Copynumber: 3.2 Consensus size: 79
18382392 TACCTAATAG
* ** * * * * **
18382402 GGGTATTTTAGTCATTTCATCCTACAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAG
1 GGGTATTTTAGTAATTTCA-CAAACAAGGGTATTTT-GTAATTTTACAAACTAGGGGTATTTTGG
** *
18382467 TAATTTTGTAAACCAA
64 TAATTTTACAAACTAA
* * * *
18382483 TGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTA-AATC-AGGGGTAT
1 GGGTATTT-TAGTAA-TTTCACAAA--CAAGGGTATTT-TGTAA-TTT-TACAAACTAGGGGTAT
* *
18382545 TTTGGTAATTTTACAAATTGA
59 TTTGGTAATTTTACAAACTAA
**
18382566 GGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTCACAAA-CAAGGGTATTTTG-TAATTTTACAAACTAGGGGTATTTTGG
18382631 TAATTTTACAAACTAA
64 TAATTTTACAAACTAA
18382647 GGGTATTTTAGTAATT
1 GGGTATTTTAGTAATT
18382663 CTGTAAATCG
Statistics
Matches: 140, Mismatches: 29, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
79 2 0.01
80 8 0.06
81 65 0.46
82 13 0.09
83 45 0.32
84 5 0.04
85 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (79 bp):
GGGTATTTTAGTAATTTCACAAACAAGGGTATTTTGTAATTTTACAAACTAGGGGTATTTTGGTA
ATTTTACAAACTAA
Found at i:18382676 original size:27 final size:27
Alignment explanation
Indices: 18382656--18382865 Score: 280
Period size: 27 Copynumber: 7.7 Consensus size: 27
18382646 AGGGTATTTT
18382656 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18382683 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
18382710 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18382737 AGTAATTCAGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
18382764 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18382791 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
18382818 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18382845 GGTAATTCTGTAAATCAGAGG
1 AGTAATTCTGTAAATC-GAGG
18382866 TATTTTGGTA
Statistics
Matches: 165, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.01
27 159 0.96
28 4 0.02
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:18382678 original size:54 final size:51
Alignment explanation
Indices: 18382539--18382678 Score: 145
Period size: 54 Copynumber: 2.6 Consensus size: 51
18382529 TGTAAATCAG
*
18382539 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTT-GTAATTTT--AAATCGAGGGTATTTCGGTAATTTCACAAACCAA
* * * * *
18382593 GGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTG-TAATTTTA-AATCGA-GGGTATTTCGGTAATTTCACAAACCAA
18382647 GGGTATTTTAGTAATTCTGTAAATCGAGGGTA
1 GGGTATTTT-GTAATT-T-TAAATCGAGGGTA
18382679 AAACAGTAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
52 1 0.01
53 4 0.06
54 59 0.82
55 6 0.08
56 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (51 bp):
GGGTATTTTGTAATTTTAAATCGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:18382705 original size:81 final size:80
Alignment explanation
Indices: 18382629--18382867 Score: 259
Period size: 81 Copynumber: 3.0 Consensus size: 80
18382619 GGGGTATTTT
**** *
18382629 GGTAATTTTACAAACTAAGGGTATTTTAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGT
1 GGTAATTTTACAAACTAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
18382694 AAATCAAGGGTAAAAC
66 AAATC-AGGGTAAAAC
* * * *
18382710 AGTAATTCTATAAA-TCAAGGGTAAAACAGTAATTCAGTAAATCGAGGGTAAAACGGTAATTCTG
1 GGTAATTTTACAAACT-AAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTG
*
18382774 TAAGTCGAGGGTAAAAC
65 TAAATC-AGGGTAAAAC
* * * * * *
18382791 GATAATTATGTA-AATC-AGGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAACGGTAATTCT
1 GGTAATT-T-TACAAACTAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCT
18382854 GTAAATCAGAGGTA
64 GTAAATCAG-GGTA
18382868 TTTTGGTAAT
Statistics
Matches: 132, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
80 3 0.02
81 125 0.95
82 2 0.02
83 2 0.02
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (80 bp):
GGTAATTTTACAAACTAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
AAATCAGGGTAAAAC
Found at i:18382902 original size:54 final size:53
Alignment explanation
Indices: 18382856--18382960 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
18382846 GTAATTCTGT
** *
18382856 AAATC-AGAGGTATTTTGGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCAAG-GGTATTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
18382910 AAATCAAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCAAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
18382961 TAGTAAACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 8 0.18
54 34 0.77
55 2 0.05
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (53 bp):
AAATCAAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:18382969 original size:28 final size:27
Alignment explanation
Indices: 18382864--18382971 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
18382854 GTAAATCAGA
* * *
18382864 GGTATTTTGGTAATTTTACAAGTCGAA-
1 GGTATTTCGGTAATTTTACAA-ACTAAG
*
18382891 GGTATTTCGGTAAATTTACAAA-TCAAG
1 GGTATTTCGGTAATTTTACAAACT-AAG
* *
18382918 GGTATTTCAGTATTTTTACAAACTAAG
1 GGTATTTCGGTAATTTTACAAACTAAG
*
18382945 GGTATTTCGGTAATTTTAGTAAACTAA
1 GGTATTTCGGTAATTTTA-CAAACTAA
18382972 AGTATTCTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.03
27 57 0.85
28 8 0.12
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAACTAAG
Found at i:18385530 original size:9 final size:9
Alignment explanation
Indices: 18385518--18385547 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
18385508 ATTATAATAT
18385518 TTATATTTA
1 TTATATTTA
18385527 TTATATTTA
1 TTATATTTA
*
18385536 TTGTATTTA
1 TTATATTTA
18385545 TTA
1 TTA
18385548 CATGTCGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTATATTTA
Found at i:18385602 original size:13 final size:12
Alignment explanation
Indices: 18385584--18385633 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
18385574 TATGTATGCG
18385584 TATGTAATATACT
1 TATGTAATATA-T
*
18385597 TATGTATTATAT
1 TATGTAATATAT
*
18385609 TATAT-ATATA-
1 TATGTAATATAT
*
18385619 TATTTAATATAT
1 TATGTAATATAT
18385631 TAT
1 TAT
18385634 ATGTATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 4 0.13
11 9 0.29
12 8 0.26
13 10 0.32
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (12 bp):
TATGTAATATAT
Found at i:18385628 original size:9 final size:10
Alignment explanation
Indices: 18385603--18385667 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 10
18385593 TACTTATGTA
18385603 TTATAT-TAT
1 TTATATATAT
*
18385612 ATATATATAT
1 TTATATATAT
18385622 TTA-ATATA-
1 TTATATATAT
*
18385630 TTATATGTAT
1 TTATATATAT
18385640 TT-TAATATTAT
1 TTAT-ATA-TAT
18385651 GTTATATATA-
1 -TTATATATAT
18385661 TTATATA
1 TTATATA
18385668 CATATATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
8 3 0.07
9 22 0.49
10 9 0.20
11 5 0.11
12 5 0.11
13 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
TTATATATAT
Found at i:18385628 original size:20 final size:19
Alignment explanation
Indices: 18385605--18385697 Score: 65
Period size: 19 Copynumber: 4.9 Consensus size: 19
18385595 CTTATGTATT
18385605 ATATTATATATATATATTTA
1 ATATTAT-TATATATATTTA
*
18385625 ATA-TATTATATGTATTTTA
1 ATATTATTATATATA-TTTA
18385644 ATATTATGT-TATATATATT-
1 ATATTAT-TATATATAT-TTA
*
18385663 ATA-TA-CATATAT-TTTCA
1 ATATTATTATATATATTT-A
18385680 ATATTATTA-ATTATATTT
1 ATATTATTATA-TATATTT
18385698 TCTTATAATC
Statistics
Matches: 58, Mismatches: 4, Indels: 22
0.69 0.05 0.26
Matches are distributed among these distances:
15 2 0.03
16 1 0.02
17 8 0.14
18 12 0.21
19 18 0.31
20 16 0.28
21 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
ATATTATTATATATATTTA
Found at i:18385657 original size:36 final size:36
Alignment explanation
Indices: 18385617--18385686 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
18385607 ATTATATATA
* * *
18385617 TATATTTAATATATTATATGTATTTT-AATATTATGT
1 TATATATAATATA-TACATATATTTTCAATATTATGT
*
18385653 TATATATATTATATACATATATTTTCAATATTAT
1 TATATATAATATATACATATATTTTCAATATTAT
18385687 TAATTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 10 0.34
36 19 0.66
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (36 bp):
TATATATAATATATACATATATTTTCAATATTATGT
Found at i:18385777 original size:23 final size:23
Alignment explanation
Indices: 18385746--18385790 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18385736 ATGTTCCTAA
*
18385746 ATACTATGTTA-TATATATTTTTT
1 ATACCATGTTAGTAT-TATTTTTT
18385769 ATACCATGTTAGTATTATTTTT
1 ATACCATGTTAGTATTATTTTT
18385791 GTACTATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (23 bp):
ATACCATGTTAGTATTATTTTTT
Found at i:18386140 original size:13 final size:13
Alignment explanation
Indices: 18386124--18386153 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18386114 TTATCGTGTA
18386124 TATTTTTTATTTC
1 TATTTTTTATTTC
*
18386137 TATTTTTTGTTTC
1 TATTTTTTATTTC
18386150 TATT
1 TATT
18386154 AACCATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (13 bp):
TATTTTTTATTTC
Found at i:18386470 original size:26 final size:26
Alignment explanation
Indices: 18386441--18386522 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
18386431 TGATACAAAT
18386441 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18386467 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18386493 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18386519 TGAT
1 TGAT
18386523 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18393466 original size:26 final size:26
Alignment explanation
Indices: 18393437--18393518 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
18393427 TGATACAAAT
18393437 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18393463 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18393489 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18393515 TGAT
1 TGAT
18393519 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18396911 original size:39 final size:39
Alignment explanation
Indices: 18396828--18396980 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
18396818 TATGGTAACC
** * *
18396828 CGCACAAAGGCCTTCGGGACTTAACCCGAATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
18396868 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
18396907 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
18396946 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
18396981 TCGAACATTC
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 91 0.85
40 16 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:18402517 original size:21 final size:21
Alignment explanation
Indices: 18402462--18402507 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18402452 TGTAGCATAG
*
18402462 AAGTGCATAT-AGGGGCACGA
1 AAGTGCAAATCAGGGGCACGA
*
18402482 GAGTGCAAATCAGGGGCACGA
1 AAGTGCAAATCAGGGGCACGA
18402503 AAGTG
1 AAGTG
18402508 TAATCAAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.35, C:0.15, G:0.37, T:0.13
Consensus pattern (21 bp):
AAGTGCAAATCAGGGGCACGA
Found at i:18402518 original size:20 final size:21
Alignment explanation
Indices: 18402474--18402519 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18402464 GTGCATATAG
* *
18402474 GGGCACGAGAGTGCAAATCAG
1 GGGCACGAAAGTGCAAATCAA
*
18402495 GGGCACGAAAGTG-TAATCAA
1 GGGCACGAAAGTGCAAATCAA
18402515 GGGCA
1 GGGCA
18402520 TTGGAGGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.35, C:0.17, G:0.37, T:0.11
Consensus pattern (21 bp):
GGGCACGAAAGTGCAAATCAA
Found at i:18407490 original size:15 final size:15
Alignment explanation
Indices: 18407472--18407507 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
18407462 ATAATAGTAG
*
18407472 TAATAGTAATAAAAA
1 TAATAGTAACAAAAA
18407487 TAATAGTAACAAAAA
1 TAATAGTAACAAAAA
18407502 TAATAG
1 TAATAG
18407508 CAAGGGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.25
Consensus pattern (15 bp):
TAATAGTAACAAAAA
Found at i:18407666 original size:24 final size:23
Alignment explanation
Indices: 18407603--18407683 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 23
18407593 ATAGTATGTT
18407603 AAATAAAAATAAAAAT-ATAATAG
1 AAAT-AAAATAAAAATGATAATAG
18407626 AAATAATAATTACAAAAATGATAAT-G
1 AAATAA-AA-T--AAAAATGATAATAG
*
18407652 ATAATAAAATAAAAATGATACTAG
1 A-AATAAAATAAAAATGATAATAG
*
18407676 CAATAAAA
1 AAATAAAA
18407684 ATAGTAATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
22 2 0.04
23 24 0.49
24 2 0.04
25 1 0.02
26 10 0.20
27 10 0.20
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (23 bp):
AAATAAAATAAAAATGATAATAG
Found at i:18408052 original size:3 final size:3
Alignment explanation
Indices: 18407604--18408040 Score: 240
Period size: 3 Copynumber: 143.3 Consensus size: 3
18407594 TAGTATGTTA
* * * * * *
18407604 AAT AAA AAT AAA AAT -AT AAT AGA- AAT AAT AAT TAC AAA AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* * * * ** * *
18407648 AAT GAT AAT AA- AAT AAA AAT GAT ACT AGC AAT AAA AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
18407695 AGT AAT AAT AGT AAT AAT AACGT AAT AAA AAG AAA AAG AGAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT A-AT AAT AAT
*
18407743 ATGT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
18407790 AAT AAT AAT AAT -AT ATT GAT AAT GAAC AAT AAT AA- AAGG AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AAT
* * * * * * *
18407835 AAT AAC AGT AAT AAT AAG ACT ATT AAT AAT ATT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
18407883 AAC AAT AAT -AT AAAT AAT AAT ATAT ACAT GAAA AAT AAA AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT A-AT A-AT -AAT AAT AAT AAT AAT AAT
* * * * * * * * *
18407931 GAT AAT AGT AAT AAA AAT AAA AAC AGT AAC AAT GAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
18407979 GAT AAT AAAT AAT AAT AGT AAT AAT AAT ACT AAT AAT AAT AA- AGT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
18408024 GAAT AGT AAT AAT AAT A
1 -AAT AAT AAT AAT AAT A
18408041 GATTCATAAT
Statistics
Matches: 319, Mismatches: 95, Indels: 40
0.70 0.21 0.09
Matches are distributed among these distances:
2 12 0.04
3 281 0.88
4 21 0.07
5 5 0.02
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:18411849 original size:20 final size:20
Alignment explanation
Indices: 18411826--18411863 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18411816 CACATCCAAA
*
18411826 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
18411846 TACAAAATATTAAAAATC
1 TACAAAATATTAAAAATC
18411864 GCGAATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:18412720 original size:16 final size:15
Alignment explanation
Indices: 18412683--18412725 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
18412673 AAAATTTGAT
*
18412683 TTTAAAATAATTTTAA
1 TTTAAAATGA-TTTAA
*
18412699 TATAAAATGATTTAA
1 TTTAAAATGATTTAA
18412714 GTTTAAAATGAT
1 -TTTAAAATGAT
18412726 AAGAAACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (15 bp):
TTTAAAATGATTTAA
Found at i:18414354 original size:13 final size:13
Alignment explanation
Indices: 18414336--18414399 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
18414326 TTTGGCAATA
18414336 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
18414349 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
18414362 CTGTAGAAAAGTG
1 CTTTTGAAAAGTG
* *
18414375 ATTTTGAGAAGTG
1 CTTTTGAAAAGTG
18414388 CTTTTGAAAAGT
1 CTTTTGAAAAGT
18414400 TTGGTTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:18420724 original size:37 final size:38
Alignment explanation
Indices: 18420642--18420726 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 38
18420632 TATCAAAAGT
**
18420642 CCTTCAATCTTTATCCAACCATTTTTTTAAATCTTCAAC
1 CCTTCAATCTTTATCCAACCA-TACTTTAAATCTTCAAC
* *
18420681 CCTTCAATCTTTATCCAGCCA-ACTTTAAATCTTCAAT
1 CCTTCAATCTTTATCCAACCATACTTTAAATCTTCAAC
*
18420718 CTTTCAATC
1 CCTTCAATC
18420727 AAGCCTTCCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 21 0.51
39 20 0.49
ACGTcount: A:0.28, C:0.29, G:0.01, T:0.41
Consensus pattern (38 bp):
CCTTCAATCTTTATCCAACCATACTTTAAATCTTCAAC
Found at i:18424966 original size:166 final size:166
Alignment explanation
Indices: 18424692--18425006 Score: 594
Period size: 166 Copynumber: 1.9 Consensus size: 166
18424682 TCATGGAAAA
18424692 TTTGAGAAATAATGATTTGTATGGATTGATATAGGTCCCTAGAGAAATTGGCTAGCTTGACAAAA
1 TTTGAGAAATAATGATTTGTATGGATTGATATAGGTCCCTAGAGAAATTGGCTAGCTTGACAAAA
18424757 GGATAAAAATGCTTAGATTTCAAGTTATGAACTTAAGGACTAAATTGTGAAAAGTTCAAATGTTA
66 GGATAAAAATGCTTAGATTTCAAGTTATGAACTTAAGGACTAAATTGTGAAAAGTTCAAATGTTA
*
18424822 GGGGAAAAATAGTAATTTTGCCCCTAACATTTGAAC
131 GAGGAAAAATAGTAATTTTGCCCCTAACATTTGAAC
*
18424858 TTTGAGAAATAATGATTTGTATGGATTGATATAGGTCCCTAGAGAAATTGGCTAGCTTGAGAAAA
1 TTTGAGAAATAATGATTTGTATGGATTGATATAGGTCCCTAGAGAAATTGGCTAGCTTGACAAAA
*
18424923 GGATAAAAATGGTTAGATTTCAAGTTATGAACTTAAGGACTAAATTGTGAAAAGTTCAAATGTTA
66 GGATAAAAATGCTTAGATTTCAAGTTATGAACTTAAGGACTAAATTGTGAAAAGTTCAAATGTTA
*
18424988 GAGGCAAAATAGTAATTTT
131 GAGGAAAAATAGTAATTTT
18425007 TCAAATTATG
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
166 145 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (166 bp):
TTTGAGAAATAATGATTTGTATGGATTGATATAGGTCCCTAGAGAAATTGGCTAGCTTGACAAAA
GGATAAAAATGCTTAGATTTCAAGTTATGAACTTAAGGACTAAATTGTGAAAAGTTCAAATGTTA
GAGGAAAAATAGTAATTTTGCCCCTAACATTTGAAC
Found at i:18427665 original size:40 final size:40
Alignment explanation
Indices: 18427609--18427686 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
18427599 TATTTTTGTA
** **
18427609 TTGGTTATTGTTTGTCATTGTCTAGGTTATATGAAAGTTT
1 TTGGTTATTGCCTGTCATTACCTAGGTTATATGAAAGTTT
* *
18427649 TTGGTTATTGCCTGTCATTACCTAGGTTGTATTAAAGT
1 TTGGTTATTGCCTGTCATTACCTAGGTTATATGAAAGT
18427687 GTTCGATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.21, C:0.09, G:0.22, T:0.49
Consensus pattern (40 bp):
TTGGTTATTGCCTGTCATTACCTAGGTTATATGAAAGTTT
Found at i:18427697 original size:40 final size:40
Alignment explanation
Indices: 18427621--18427697 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
18427611 GGTTATTGTT
** * * *
18427621 TGTCATTGTCTAGGTTATATGAAAGTTTTTGGTTATTGCC
1 TGTCATTACCTAGGTTATATGAAAGTGTTCGATTATTGCC
* *
18427661 TGTCATTACCTAGGTTGTATTAAAGTGTTCGATTATT
1 TGTCATTACCTAGGTTATATGAAAGTGTTCGATTATT
18427698 ATTTTCCATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (40 bp):
TGTCATTACCTAGGTTATATGAAAGTGTTCGATTATTGCC
Found at i:18430260 original size:21 final size:21
Alignment explanation
Indices: 18430208--18430281 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
18430198 ATAACCAAAT
*
18430208 AGTTGCCCCAACTCAACAAGA
1 AGTTGCCCCAACTTAACAAGA
* * *
18430229 AGCTACCCCAACTTACCAAGA
1 AGTTGCCCCAACTTAACAAGA
* ** *
18430250 AGTTGCGCCAACTTGTCAACA
1 AGTTGCCCCAACTTAACAAGA
*
18430271 AGCTGCCCCAA
1 AGTTGCCCCAA
18430282 GAGAAAAGCT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.34, C:0.35, G:0.15, T:0.16
Consensus pattern (21 bp):
AGTTGCCCCAACTTAACAAGA
Found at i:18431331 original size:3 final size:3
Alignment explanation
Indices: 18431323--18431386 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
18431313 GCATCTCCAT
18431323 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
18431371 TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC T
18431387 ACCTAAACCC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:18444848 original size:24 final size:24
Alignment explanation
Indices: 18444816--18444862 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
18444806 AGGCCTCTTA
18444816 ATGGATTGATGTTATCTTCGGACC
1 ATGGATTGATGTTATCTTCGGACC
18444840 ATGGATTGATGTTATCTTCGGAC
1 ATGGATTGATGTTATCTTCGGAC
18444863 TAAGTAGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (24 bp):
ATGGATTGATGTTATCTTCGGACC
Found at i:18446068 original size:41 final size:39
Alignment explanation
Indices: 18446023--18446112 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
18446013 AAAAAATTAT
* *
18446023 TTATATTAAAAAATACTACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAAT-CGA-AATAAATATAATAAATGTTTTA
* *
18446064 TTATATTAAAAAATGGAAATAAATATAGTAAATGTTTTA
1 TTATATTAAAAAATCGAAATAAATATAATAAATGTTTTA
*
18446103 TTGTATTAAA
1 TTATATTAAA
18446113 TATAATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 29 0.66
40 1 0.02
41 14 0.32
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (39 bp):
TTATATTAAAAAATCGAAATAAATATAATAAATGTTTTA
Found at i:18451382 original size:15 final size:16
Alignment explanation
Indices: 18451362--18451401 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
18451352 GATTTCAATG
18451362 ATTAAATGTTTAAAAA
1 ATTAAATGTTTAAAAA
*
18451378 A-TAAAT-ATTAAAAA
1 ATTAAATGTTTAAAAA
18451392 ATTAAATGTT
1 ATTAAATGTT
18451402 GACTTTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
14 8 0.40
15 10 0.50
16 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTAAATGTTTAAAAA
Found at i:18452265 original size:11 final size:11
Alignment explanation
Indices: 18452249--18452300 Score: 77
Period size: 11 Copynumber: 4.7 Consensus size: 11
18452239 TGGTTTCTCT
18452249 CTATTTTGCTA
1 CTATTTTGCTA
18452260 CTATTTTGCTA
1 CTATTTTGCTA
*
18452271 CTATTTTACTA
1 CTATTTTGCTA
* *
18452282 TTATGTTGCTA
1 CTATTTTGCTA
18452293 CTATTTTG
1 CTATTTTG
18452301 TTGTTATTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:18452542 original size:12 final size:12
Alignment explanation
Indices: 18452521--18452554 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18452511 TATATATTTT
*
18452521 AAAATTATATAA
1 AAAATAATATAA
18452533 AAAATAATATAA
1 AAAATAATATAA
*
18452545 AAATTAATAT
1 AAAATAATAT
18452555 GAGTTGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:18455049 original size:89 final size:89
Alignment explanation
Indices: 18454931--18455125 Score: 214
Period size: 89 Copynumber: 2.2 Consensus size: 89
18454921 TTTTTTTTTC
* * * * * * **
18454931 TTTTGCACTCACTTGGGCACTTGAGCTTTCACAATACATCAAAAA-GACTCTCGAACTTTTTTTT
1 TTTTGCACTCAATTGGACACTTAAACTTTCAAAATACAT-AAAAAGGACTCTC-AAATTTTTTCA
* * *
18454995 TAAAAAA-AATTAAGCCCTTGCATTT
64 AAAAAAACAATTAAGCCCATACATTT
*
18455020 TTTTGCACTCAATTGGACACTTAAACTTTCAAAATGCATAAAAAGGACTCTCAAATTTTTTCAAA
1 TTTTGCACTCAATTGGACACTTAAACTTTCAAAATACATAAAAAGGACTCTCAAATTTTTTCAAA
* *
18455085 AAAAAGCAATTAAGTCCATATATTT
66 AAAAA-CAATTAAGCCCATACATTT
*
18455110 TTTTGCACTTAATTGG
1 TTTTGCACTCAATTGG
18455126 GTACTTGAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
88 19 0.22
89 40 0.45
90 29 0.33
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (89 bp):
TTTTGCACTCAATTGGACACTTAAACTTTCAAAATACATAAAAAGGACTCTCAAATTTTTTCAAA
AAAAACAATTAAGCCCATACATTT
Found at i:18455284 original size:29 final size:28
Alignment explanation
Indices: 18455194--18455277 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
18455184 ATGACATGTG
**
18455194 ACAAAAAATGATAAAAA-A-TAAAAATTA
1 ACAAAAAAT-ATAAAAATATTAAATTTTA
* ** *
18455221 ATAAAAGTTATAAAAATATTATATTTTA
1 ACAAAAAATATAAAAATATTAAATTTTA
18455249 ACAAAAAATATAAAAATATTTAAATTTTA
1 ACAAAAAATATAAAAATA-TTAAATTTTA
18455278 TTTAAAATTA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 7 0.16
27 7 0.16
28 21 0.48
29 9 0.20
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
ACAAAAAATATAAAAATATTAAATTTTA
Found at i:18455289 original size:29 final size:28
Alignment explanation
Indices: 18455218--18455297 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 28
18455208 AAAATAAAAA
*
18455218 TTAA-TAAAAGTTATAAAAATATTATATT
1 TTAACTAAAA-TTATAAAAATATTAAATT
* *
18455246 TTAACAAAAAATATAAAAATATTTAAATT
1 TTAACTAAAATTATAAAAATA-TTAAATT
**
18455275 TTATTTAAAATTATAAAAA-ATTA
1 TTAACTAAAATTATAAAAATATTA
18455298 CAAAAATTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 3 0.07
28 15 0.35
29 25 0.58
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (28 bp):
TTAACTAAAATTATAAAAATATTAAATT
Found at i:18455294 original size:10 final size:10
Alignment explanation
Indices: 18455281--18455361 Score: 58
Period size: 10 Copynumber: 8.2 Consensus size: 10
18455271 AATTTTATTT
18455281 AAAATTATAA
1 AAAATTATAA
*
18455291 AAAATTACAA
1 AAAATTATAA
* *
18455301 AAATTGTAAAA
1 AAAAT-TATAA
18455312 AAAATTAT-A
1 AAAATTATAA
*
18455321 AAAATTGTAA
1 AAAATTATAA
**
18455331 AATTTTAT-A
1 AAAATTATAA
**
18455340 AAAATCGTAA
1 AAAATTATAA
*
18455350 AAAAATATAA
1 AAAATTATAA
18455360 AA
1 AA
18455362 TTTTATAAAT
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
9 13 0.25
10 31 0.60
11 8 0.15
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (10 bp):
AAAATTATAA
Found at i:18455311 original size:9 final size:9
Alignment explanation
Indices: 18455281--18455432 Score: 69
Period size: 9 Copynumber: 15.9 Consensus size: 9
18455271 AATTTTATTT
18455281 AAAATTATAA
1 AAAATTAT-A
*
18455291 AAAATTACA
1 AAAATTATA
*
18455300 AAAATTGTAAAA
1 AAAA-T-T-ATA
18455312 AAAATTATA
1 AAAATTATA
*
18455321 AAAATTGTA
1 AAAATTATA
*
18455330 AAATTTTATA
1 AAA-ATTATA
18455340 AAAATCGTA-A
1 AAAAT--TATA
*
18455350 AAAAATAT-
1 AAAATTATA
*
18455358 AAAATTTTA
1 AAAATTATA
*
18455367 TAAATTCATA
1 AAAATT-ATA
18455377 AGAAATT-TA
1 A-AAATTATA
* *
18455386 AAAAATGTA
1 AAAATTATA
*
18455395 AAGAAATAT-
1 AA-AATTATA
18455404 AAAATTCATA
1 AAAATT-ATA
18455414 AAAAGTATATA
1 AAAA-T-TATA
18455425 AAAATTAT
1 AAAATTAT
18455433 CGTACTAAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 33
0.69 0.10 0.21
Matches are distributed among these distances:
8 15 0.14
9 38 0.35
10 33 0.30
11 17 0.15
12 7 0.06
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:18455315 original size:21 final size:21
Alignment explanation
Indices: 18455289--18455332 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
18455279 TTAAAATTAT
18455289 AAAAAATTACAAAAATTGTAA
1 AAAAAATTACAAAAATTGTAA
*
18455310 AAAAAATTATAAAAATTGTAA
1 AAAAAATTACAAAAATTGTAA
18455331 AA
1 AA
18455333 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAAAATTACAAAAATTGTAA
Found at i:18455338 original size:19 final size:19
Alignment explanation
Indices: 18455281--18455391 Score: 93
Period size: 19 Copynumber: 5.8 Consensus size: 19
18455271 AATTTTATTT
* *
18455281 AAAATTATAAAAAATTACA
1 AAAATTGTAAAAAATTATA
18455300 AAAATTGTAAAAAAAATTATA
1 AAAATTGT--AAAAAATTATA
**
18455321 AAAATTGTAAAATTTTATA
1 AAAATTGTAAAAAATTATA
* *
18455340 AAAATCGTAAAAAAATAT-
1 AAAATTGTAAAAAATTATA
* *
18455358 AAAATT-TTATAAATTCATA
1 AAAATTGTAAAAAATT-ATA
18455377 AGAAATT-TAAAAAAT
1 A-AAATTGTAAAAAAT
18455392 GTAAAGAAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
17 6 0.08
18 7 0.10
19 31 0.42
20 11 0.15
21 18 0.25
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (19 bp):
AAAATTGTAAAAAATTATA
Found at i:18455390 original size:38 final size:39
Alignment explanation
Indices: 18455299--18455390 Score: 93
Period size: 37 Copynumber: 2.4 Consensus size: 39
18455289 AAAAAATTAC
*
18455299 AAAAATTGTAAAAAAAATTATAAAAATTGTAAAATTTTAT
1 AAAAATT-TAAAAAAAATTATAAAAATTGTAAAATTTCAT
* *
18455339 AAAAATCGT-AAAAAAA-TAT-AAAATTTTATAAA-TTCAT
1 AAAAAT-TTAAAAAAAATTATAAAAATTGTA-AAATTTCAT
18455376 AAGAAATTTAAAAAA
1 AA-AAATTTAAAAAA
18455391 TGTAAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
37 15 0.34
38 15 0.34
39 7 0.16
40 7 0.16
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (39 bp):
AAAAATTTAAAAAAAATTATAAAAATTGTAAAATTTCAT
Found at i:18455484 original size:5 final size:6
Alignment explanation
Indices: 18455469--18455493 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18455459 TTTCTATAAT
18455469 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
18455494 CAATTTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:18455628 original size:10 final size:10
Alignment explanation
Indices: 18455615--18455731 Score: 79
Period size: 10 Copynumber: 12.3 Consensus size: 10
18455605 TTTTTATGCA
18455615 TTTTATAATT
1 TTTTATAATT
*
18455625 TTTTATGA-T
1 TTTTATAATT
**
18455634 TTTTATAAAA
1 TTTTATAATT
*
18455644 TTTTACAATT
1 TTTTATAATT
*
18455654 TTTTCTAATTT
1 TTTTATAA-TT
*
18455665 TTTTATATTT
1 TTTTATAATT
18455675 TTTTATAA--
1 TTTTATAATT
*
18455683 TTTAATAA-T
1 TTTTATAATT
* *
18455692 TGTTATAA-C
1 TTTTATAATT
18455701 TTTTATTAA-T
1 TTTTA-TAATT
18455711 TTTTAT--TT
1 TTTTATAATT
18455719 TTTTATAATT
1 TTTTATAATT
18455729 TTT
1 TTT
18455732 CACATGTCAC
Statistics
Matches: 83, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
8 14 0.17
9 19 0.23
10 42 0.51
11 8 0.10
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:18455628 original size:19 final size:19
Alignment explanation
Indices: 18455604--18455641 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
18455594 TTAAATGACG
18455604 TTTTTTATGCA-TTTTATAA
1 TTTTTTATG-ATTTTTATAA
18455623 TTTTTTATGATTTTTATAA
1 TTTTTTATGATTTTTATAA
18455642 AATTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTTATGATTTTTATAA
Found at i:18455647 original size:19 final size:19
Alignment explanation
Indices: 18455606--18455648 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18455596 AAATGACGTT
**
18455606 TTTTATGCATTTTATAATT
1 TTTTATGCATTTTATAAAA
18455625 TTTTATG-ATTTTTATAAAA
1 TTTTATGCA-TTTTATAAAA
18455644 TTTTA
1 TTTTA
18455649 CAATTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTATGCATTTTATAAAA
Found at i:18455668 original size:21 final size:21
Alignment explanation
Indices: 18455615--18455685 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
18455605 TTTTTATGCA
**
18455615 TTTTATAA-TTTTTTATGA-T
1 TTTTATAATTTTTTTACAATT
**
18455634 TTTTATAA-AATTTTACAATT
1 TTTTATAATTTTTTTACAATT
* * *
18455654 TTTTCTAATTTTTTTATATTT
1 TTTTATAATTTTTTTACAATT
18455675 TTTTATAATTT
1 TTTTATAATTT
18455686 AATAATTGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 14 0.35
20 8 0.20
21 18 0.45
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (21 bp):
TTTTATAATTTTTTTACAATT
Found at i:18473843 original size:39 final size:39
Alignment explanation
Indices: 18473800--18473878 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
18473790 CAAAGCTATG
18473800 CCAATTAAACACATTGAATATATGGCATGCAAATTTTAT
1 CCAATTAAACACATTGAATATATGGCATGCAAATTTTAT
18473839 CCAATTAAACACATTGAATATATGGCATGCAAATTTTAT
1 CCAATTAAACACATTGAATATATGGCATGCAAATTTTAT
18473878 C
1 C
18473879 ATTTACGCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (39 bp):
CCAATTAAACACATTGAATATATGGCATGCAAATTTTAT
Found at i:18480300 original size:42 final size:42
Alignment explanation
Indices: 18480247--18480378 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 42
18480237 ATCAATATCA
* **
18480247 ATGCCTCTGTCCCAGACAGGGTCTTACACGAAT-TCAGATACG
1 ATGCCTGTGTCCCAGACACAGTCTTACACGAATCTCAGAT-CG
* *
18480289 ATGCC-GATGTCCCAAACATC-GTCTTACACGTAAATCTCAAATCG
1 ATGCCTG-TGTCCCAGACA-CAGTCTTACACG--AATCTCAGATCG
* *
18480333 AGGCCTGTGTCCCAGACACAGTTTTACACGATATCTCAGATCG
1 ATGCCTGTGTCCCAGACACAGTCTTACACGA-ATCTCAGATCG
18480376 ATG
1 ATG
18480379 ACAACGTTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 15
0.75 0.09 0.15
Matches are distributed among these distances:
42 26 0.36
43 13 0.18
44 28 0.38
45 6 0.08
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCTGTGTCCCAGACACAGTCTTACACGAATCTCAGATCG
Found at i:18483369 original size:40 final size:41
Alignment explanation
Indices: 18483310--18483467 Score: 195
Period size: 40 Copynumber: 4.0 Consensus size: 41
18483300 TCGAATGATG
* * *
18483310 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTGAGTTACTAAA
*
18483350 TCCGGACTAAGATCTGAAGGCATTTGTG-TGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCTGAGTTACTAAA
18483390 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCTGAGTTACTAAA
*
18483430 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGC-GAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCTGAGTTACTA
18483468 TAACCGGGCC
Statistics
Matches: 107, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
39 1 0.01
40 96 0.90
41 10 0.09
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCTGAGTTACTAAA
Found at i:18483475 original size:40 final size:40
Alignment explanation
Indices: 18483310--18483495 Score: 186
Period size: 40 Copynumber: 4.7 Consensus size: 40
18483300 TCGAATGATG
* * *
18483310 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
18483350 TCC-GGACTAAGAT-CTGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
18483390 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18483430 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** * *
18483471 -CCGGGCCATGTCCCGAAGGTATTTG
1 TCCGGGATAAGTCCCGAAGGCATTTG
18483496 AACGACTGGC
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18485485 original size:29 final size:29
Alignment explanation
Indices: 18485453--18485612 Score: 151
Period size: 29 Copynumber: 5.5 Consensus size: 29
18485443 GTTTACTTTC
18485453 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
*
18485482 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* * *
18485511 GGCACTAAGTGTGCATGATGGAAATATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * * * ***
18485540 GGCACTGGGTGTGCGAGTTCGAAGGGTAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* * * **
18485569 GGCACTATGTGTGCGGGCT-TAAATCGCAT
1 GGCACTAAGTGTGCGTGCTGGAAAT-ATAT
18485598 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
18485613 AAATCGAGTA
Statistics
Matches: 108, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
28 2 0.02
29 106 0.98
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:18493515 original size:40 final size:40
Alignment explanation
Indices: 18493453--18493632 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
18493443 CATTTGAATG
18493453 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
18493492 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
18493532 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
18493572 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
18493612 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
18493633 AAACTTGGGT
Statistics
Matches: 127, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 25 0.20
40 101 0.80
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:18497875 original size:40 final size:40
Alignment explanation
Indices: 18497818--18498003 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
18497808 TCGAATGATG
* * *
18497818 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
18497858 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
18497898 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18497938 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * * *
18497979 -CCGGGCCATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
18498004 AACGAGTGGC
Statistics
Matches: 132, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18498021 original size:80 final size:80
Alignment explanation
Indices: 18497848--18498022 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 80
18497838 CTTTGTGCTA
* *
18497848 AGTGACTAAATCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
1 AGTGACTAAATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACCAAGAT
**
18497911 CCGAAGGCATTTGTGCG
64 CCGAAGGCATTTGAACG
* * *
18497928 AGTTACTAAATCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCCATG-TC
1 AGTGACTAAATCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACCAAGAT-
*
18497991 CCGAAGGTATTTGAACG
64 CCGAAGGCATTTGAACG
* *
18498008 AGTGGCTATATCCGG
1 AGTGACTAAATCCGG
18498023 TTAAACTCCG
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
79 2 0.03
80 73 0.91
81 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (80 bp):
AGTGACTAAATCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACCAAGATCC
GAAGGCATTTGAACG
Found at i:18501160 original size:46 final size:46
Alignment explanation
Indices: 18501107--18501281 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
18501097 ATTTGGGCAT
18501107 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
** * *
18501153 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATAT-AACTAG-GCAT--
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAATGC
* * *
18501200 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
18501246 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18501282 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 6 0.06
45 1 0.01
46 62 0.58
47 27 0.25
48 1 0.01
49 8 0.07
50 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:18501261 original size:93 final size:93
Alignment explanation
Indices: 18501102--18501273 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
18501092 AGGATATTTG
* * *
18501102 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
18501167 TTGAGTCCGAGTTCGAGAGATATAACTA
66 TTGAGTCCGAGTTCGAGAGATATAACTA
*
18501195 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
18501260 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
18501274 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATATAACTA
Found at i:18504930 original size:56 final size:54
Alignment explanation
Indices: 18504870--18504982 Score: 190
Period size: 56 Copynumber: 2.1 Consensus size: 54
18504860 GAATTTTAGC
*
18504870 TAATTAAATAAATAGTTAAGAATAAGTTAAGTGGTTGTCCCATAAATTTAATTAAA
1 TAATTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCATAAA--TAATTAAA
*
18504926 TAATTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCGTAAATAATTAAA
1 TAATTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCATAAATAATTAAA
18504980 TAA
1 TAA
18504983 ATTTAATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
54 11 0.20
56 44 0.80
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (54 bp):
TAATTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCATAAATAATTAAA
Found at i:18505006 original size:56 final size:54
Alignment explanation
Indices: 18504870--18505024 Score: 154
Period size: 56 Copynumber: 2.8 Consensus size: 54
18504860 GAATTTTAGC
* *
18504870 TAATTAAATAAATAGTTAAGAATAAGTTAAGTGGTTGTCCCATAAATTTAATTAAA
1 TAATTAAATAAATAGCTAAAAATAAG-TAAGTGGTTGTCCCATAAA-TTAATTAAA
* * *
18504926 TAATTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCGTAAA-TAATTAAA
1 TAATTAAATAAATAGCTAAAAATAAGT-AAGTGGTTGTCCCATAAATTAATTAAA
* ** *
18504980 TAAATTTAAT-TTTAGCTAATTAAATAAAT-AGTGGTTGTCCCATAA
1 T-AATTAAATAAATAGCTAA--AAATAAGTAAGTGGTTGTCCCATAA
18505025 GTCAAGTGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
54 30 0.34
55 8 0.09
56 49 0.56
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (54 bp):
TAATTAAATAAATAGCTAAAAATAAGTAAGTGGTTGTCCCATAAATTAATTAAA
Found at i:18506018 original size:2 final size:2
Alignment explanation
Indices: 18506013--18506047 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
18506003 TCTTTATGAT
18506013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18506048 TAATTTCTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18513809 original size:28 final size:28
Alignment explanation
Indices: 18513767--18513850 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
18513757 ATGTCATTGA
** *
18513767 ATACTCAATGCCTTGCACACTAAGTGTC
1 ATACTCAATATCTTGCACACTAAGTGCC
* *
18513795 ATACTCAATATCTTGTACACTAAATGCC
1 ATACTCAATATCTTGCACACTAAGTGCC
* * *
18513823 ACACTCGATATCTCGCACACTAAGTGCC
1 ATACTCAATATCTTGCACACTAAGTGCC
18513851 GCATATAGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (28 bp):
ATACTCAATATCTTGCACACTAAGTGCC
Found at i:18513897 original size:40 final size:40
Alignment explanation
Indices: 18513835--18513993 Score: 219
Period size: 40 Copynumber: 3.9 Consensus size: 40
18513825 ACTCGATATC
* ** *
18513835 TCGCACACTAAGTGCCGCATATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTTCCATATATAGCCGAAGCTATGTCAAA
18513875 TCGCACACTAAGTTCCATATATATAGCCGAAGCTATGTCAAA
1 TCGCACACTAAGTTCC--ATATATAGCCGAAGCTATGTCAAA
* **
18513917 TCGCACACTAATTTCCATATATAGCCGAAGCTATGTCGTA
1 TCGCACACTAAGTTCCATATATAGCCGAAGCTATGTCAAA
* *
18513957 TCACACACTAAATTCCATATATAGCCGAAGCTATGTC
1 TCGCACACTAAGTTCCATATATAGCCGAAGCTATGTC
18513994 GTAACGACAT
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
40 72 0.67
42 36 0.33
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTTCCATATATAGCCGAAGCTATGTCAAA
Found at i:18513973 original size:82 final size:80
Alignment explanation
Indices: 18513835--18514014 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 80
18513825 ACTCGATATC
* * *
18513835 TCGCACACTAAGTGCCGCATATAGCCGAAGCTATCTCAAATCGCACACTAAGTTCCATATATATA
1 TCGCACACTAAGTGCCACATATAGCCGAAGCTATCTCAAATCACACACTAAATTCC--ATATATA
18513900 GCCGAAGCTATGTCAAA
64 GCCGAAGCTATGTCAAA
* * * * **
18513917 TCGCACACTAATTTCCATATATAGCCGAAGCTATGTCGTATCACACACTAAATTCCATATATAGC
1 TCGCACACTAAGTGCCACATATAGCCGAAGCTATCTCAAATCACACACTAAATTCCATATATAGC
*
18513982 CGAAGCTATGTCGTAA
66 CGAAGCTATGTC-AAA
*
18513998 -CG-ACATTAAGTGCCACA
1 TCGCACACTAAGTGCCACA
18514015 AATAACTGAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 11 0.13
80 23 0.28
81 2 0.02
82 47 0.57
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (80 bp):
TCGCACACTAAGTGCCACATATAGCCGAAGCTATCTCAAATCACACACTAAATTCCATATATAGC
CGAAGCTATGTCAAA
Found at i:18517622 original size:44 final size:45
Alignment explanation
Indices: 18517506--18517678 Score: 230
Period size: 45 Copynumber: 3.9 Consensus size: 45
18517496 TATTGTACGG
* * *
18517506 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
18517551 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
18517596 TACTATT-GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
18517640 TGA--AATCGGG-CTTCGAGCCTAGCAGGC-AAAATGCCGGTG
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
18517679 GATGAATTCG
Statistics
Matches: 118, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
42 11 0.09
43 19 0.16
44 38 0.32
45 50 0.42
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:18517702 original size:41 final size:42
Alignment explanation
Indices: 18517614--18517720 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 42
18517604 GGCCTTCGAG
* ** *
18517614 CCTAGCAGGCTATAATGCCGGTGAAATGAAATCGGGCTTCGAG
1 CCTAGCAGGC-AAAATGCCGGTGAAATGAAATCGGGCTTAAAA
* * *
18517657 CCTAGCAGGCAAAATGCCGGTG-GATGAATTCGGGTTTAAAA
1 CCTAGCAGGCAAAATGCCGGTGAAATGAAATCGGGCTTAAAA
* *
18517698 CCTAGCAGGCTAAATGCTGGTGA
1 CCTAGCAGGCAAAATGCCGGTGA
18517721 TTTGATAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
41 33 0.61
42 11 0.20
43 10 0.19
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (42 bp):
CCTAGCAGGCAAAATGCCGGTGAAATGAAATCGGGCTTAAAA
Found at i:18520324 original size:42 final size:41
Alignment explanation
Indices: 18520211--18520324 Score: 104
Period size: 44 Copynumber: 2.7 Consensus size: 41
18520201 TTCCGATATG
* * * *
18520211 TGATTTCGTGTAAGACCAC-GCCTGGGACGTTGGCATCGATT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATCGACATCGATT
* * *
18520252 TGAGATTTACATGTAAGACCATGTCAGGGACATCGACATCGTATT
1 T--GATTT-CGTGTAAGACCCTGTCTGGGACATCGACATCG-ATT
*
18520297 TGATTTCGTGTAAGACCCTATCTGGGAC
1 TGATTTCGTGTAAGACCCTGTCTGGGAC
18520325 TGTGGTATCG
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.02
42 18 0.32
43 10 0.18
44 24 0.42
45 4 0.07
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATCGACATCGATT
Found at i:18520364 original size:43 final size:42
Alignment explanation
Indices: 18520258--18520364 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
18520248 GATTTGAGAT
* *
18520258 TTACATGTAAGACCATGTCAGGGACATCGACATCGTATTTGA
1 TTACATGTAAGACCATGTCTGGGACATCGACATCGTACTTGA
* * * * * **
18520300 TTTCGTGTAAGACCCTATCTGGGAC-TGTGGTATCGATACTTGA
1 TTACATGTAAGACCATGTCTGGGACAT-CGACATCG-TACTTGA
18520343 TTACATGTAAGACCATGTCTGG
1 TTACATGTAAGACCATGTCTGG
18520365 AACGGTGGCA
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
41 1 0.02
42 25 0.50
43 24 0.48
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACATCGACATCGTACTTGA
Found at i:18526561 original size:116 final size:116
Alignment explanation
Indices: 18526357--18526568 Score: 329
Period size: 116 Copynumber: 1.8 Consensus size: 116
18526347 ACATGCTATA
* * *
18526357 TGACCCAACTGAGTGAGTTACACGGGTTGAGACACGCGCTGGGACACGACCTTGTGTCCCTTTGT
1 TGACCCAACTGAGTGAGTTACACGGGTTGAGACACGCGCTCGGACAAGACCGTGTGTCCCTTTGT
18526422 TTGATTGTTACACGACCTGGGCTATGTCACATGGCCTACGACATGGCCGTG
66 TTGATTGTTACACGACCTGGGCTATGTCACATGGCCTACGACATGGCCGTG
* * *
18526473 TGACCTAACTTAGTGAGTTACACGGGTTGAGACACAG-GCTCGGACATAG-TCGTGTGTCCCTTT
1 TGACCCAACTGAGTGAGTTACACGGGTTGAGACAC-GCGCTCGGACA-AGACCGTGTGTCCCTTT
*
18526536 GTTTGATTGTTACACGGCCTGGGCTATGTCACA
64 GTTTGATTGTTACACGACCTGGGCTATGTCACA
18526569 CCGCCGTGTG
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
116 85 0.98
117 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (116 bp):
TGACCCAACTGAGTGAGTTACACGGGTTGAGACACGCGCTCGGACAAGACCGTGTGTCCCTTTGT
TTGATTGTTACACGACCTGGGCTATGTCACATGGCCTACGACATGGCCGTG
Found at i:18527213 original size:258 final size:250
Alignment explanation
Indices: 18526756--18527264 Score: 910
Period size: 258 Copynumber: 2.0 Consensus size: 250
18526746 TTTTTATTGA
18526756 GATATTTTGATGTTAAAAGTTGTTCTGATTCTTTGATAATGCTTTGTAACCCTAATTCGACAATG
1 GATATTTTGATGTTAAAAGTTGTTCTGATTCTTTGATAATGCTTTGTAACCCTAATTCGACAATG
18526821 AAGACTGGTTAGAGGTGTTACATTTAGTTGTATCAGAGCTACTGTTTAGTCAGTTCTCGGACTGA
66 AAGACTGGTTAGAGGTGTTACATTTAGTTGTATCAGAGCTACTGTTTAGTCAGTTCTCGGACTGA
*
18526886 ACCTAGAATGTATGGAGTCTAGAAATACATGTCATTATATAACTTGTGATAGTGTGATATCTTCT
131 ACCTAGAATGTATGGAGTCTAGAAATACATGTCATTATATAACTTGTGATAATGTGATATCTTCT
*
18526951 GACTCAAATTGAATTATGTTTTCATATAGATAAAATATGTCCAACCGAGTTGATTCCGATGAG
196 GACTC-------A-TATGTTTTCATATAGATAAAAGATGTCCAACCGAGTTGATTCCGATGAG
*
18527014 GATATTTTGATGTTAAAAGTTGTTCTGATTGTTTGATAATGCTTTGTAACCCTAATTCGACAATG
1 GATATTTTGATGTTAAAAGTTGTTCTGATTCTTTGATAATGCTTTGTAACCCTAATTCGACAATG
18527079 AAGACTGGTTAGAGGTGTTACATTTAGTTGTATCAGAGCTACTGTTTAGTCAGTTCTCGGACTGA
66 AAGACTGGTTAGAGGTGTTACATTTAGTTGTATCAGAGCTACTGTTTAGTCAGTTCTCGGACTGA
*
18527144 ACCTAGATTGTATGGAGTCTAGAAATACATGTCATTATATAACTTGTGATAATGTGATATCTTCT
131 ACCTAGAATGTATGGAGTCTAGAAATACATGTCATTATATAACTTGTGATAATGTGATATCTTCT
18527209 GACTCATATGTTTTCATATAGATAAAAGATGTCCAACCGAGTTGATTCCGATGAG
196 GACTCATATGTTTTCATATAGATAAAAGATGTCCAACCGAGTTGATTCCGATGAG
18527264 G
1 G
18527265 TTGAATGTAA
Statistics
Matches: 247, Mismatches: 4, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
250 49 0.20
251 1 0.00
258 197 0.80
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.37
Consensus pattern (250 bp):
GATATTTTGATGTTAAAAGTTGTTCTGATTCTTTGATAATGCTTTGTAACCCTAATTCGACAATG
AAGACTGGTTAGAGGTGTTACATTTAGTTGTATCAGAGCTACTGTTTAGTCAGTTCTCGGACTGA
ACCTAGAATGTATGGAGTCTAGAAATACATGTCATTATATAACTTGTGATAATGTGATATCTTCT
GACTCATATGTTTTCATATAGATAAAAGATGTCCAACCGAGTTGATTCCGATGAG
Found at i:18530189 original size:21 final size:21
Alignment explanation
Indices: 18530163--18530204 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18530153 GGACTTATTA
18530163 TTAATATTTGATTATGATATG
1 TTAATATTTGATTATGATATG
18530184 TTAATATTTGATTATGATATG
1 TTAATATTTGATTATGATATG
18530205 ACGATGCATG
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:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (21 bp):
TTAATATTTGATTATGATATG
Found at i:18531536 original size:51 final size:51
Alignment explanation
Indices: 18531481--18531580 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
18531471 CTACCCCATA
* *
18531481 ACATGTAA-CACATCCATAATTAACTC-AGACCTGTCAACGAGCTCGGATGTT
1 ACATG-AATCACATCCATAATGAACTCGA-ACCTCTCAACGAGCTCGGATGTT
** *
18531532 ACATGAATCGTATCCATTATGAACTCGAACCTCTCAACGAGCTCGGATG
1 ACATGAATCACATCCATAATGAACTCGAACCTCTCAACGAGCTCGGATG
18531581 CCACATATCT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.05
51 39 0.93
52 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCGAACCTCTCAACGAGCTCGGATGTT
Found at i:18537672 original size:21 final size:21
Alignment explanation
Indices: 18537623--18537681 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
18537613 ATAATAAATT
*
18537623 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
18537643 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
18537665 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
18537682 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:18539293 original size:21 final size:21
Alignment explanation
Indices: 18539244--18539291 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
18539234 CATGTATTTT
*
18539244 AATGATTGATGATAGATTATG
1 AATGTTTGATGATAGATTATG
18539265 AATGTTTGATGATAG-TTATAG
1 AATGTTTGATGATAGATTAT-G
18539286 AA-GTTT
1 AATGTTT
18539292 TGTTAAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATG
Found at i:18547084 original size:54 final size:54
Alignment explanation
Indices: 18547002--18547106 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
18546992 TTTTAAATGA
*
18547002 ATAAACTCCTATATTTAGTTAGTAGGTTTATAAATAAATATGGGTATAACATGT
1 ATAAACTCCTATATTTAGTCAGTAGGTTTATAAATAAATATGGGTATAACATGT
*
18547056 ATAAACTCCTATCTTTAGTCAGTAGGTTTATAAATAAATATGGGTATAACA
1 ATAAACTCCTATATTTAGTCAGTAGGTTTATAAATAAATATGGGTATAACA
18547107 GGTAAGAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (54 bp):
ATAAACTCCTATATTTAGTCAGTAGGTTTATAAATAAATATGGGTATAACATGT
Found at i:18555273 original size:29 final size:31
Alignment explanation
Indices: 18555225--18555288 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
18555215 TTTATAGTTA
*
18555225 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
18555256 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
18555285 TTTA
1 TTTA
18555289 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:18555277 original size:8 final size:8
Alignment explanation
Indices: 18555266--18555290 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18555256 TTTAATAAGA
18555266 TATTTTAT
1 TATTTTAT
18555274 TATTTTAT
1 TATTTTAT
18555282 TATTTTAT
1 TATTTTAT
18555290 T
1 T
18555291 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:18562051 original size:46 final size:46
Alignment explanation
Indices: 18561998--18562167 Score: 143
Period size: 46 Copynumber: 3.7 Consensus size: 46
18561988 GGCATCTGAA
18561998 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
1 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
* * * * * * * *
18562044 CTCATTGAGTTGAGTCCAAATTC-GTGA--GATG-TAACTAGGCATTCAAA
1 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAG
* * *
18562091 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
*
18562137 CTCGTTGAGTTGAGTCCGAGTT-AGCTTATGG
1 CTCATTGAGTTGAGTCCGAGTTCA-CTTATGG
18562168 GCGGGTTATA
Statistics
Matches: 95, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 52 0.55
47 23 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
Found at i:18563865 original size:24 final size:23
Alignment explanation
Indices: 18563838--18563882 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
18563828 AAACATGGCC
* *
18563838 ATGAGTTGTTCATCTTTTTGATGA
1 ATGAGTTGATCA-CTATTTGATGA
18563862 ATGAGTTGATCACTATTTGAT
1 ATGAGTTGATCACTATTTGAT
18563883 AGTGATTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (23 bp):
ATGAGTTGATCACTATTTGATGA
Found at i:18568080 original size:31 final size:31
Alignment explanation
Indices: 18568042--18568105 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
18568032 CCTTTTCATA
18568042 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
18568073 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
18568104 TT
1 TT
18568106 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:18568347 original size:24 final size:24
Alignment explanation
Indices: 18568296--18568413 Score: 143
Period size: 24 Copynumber: 4.9 Consensus size: 24
18568286 GCTTTATCAT
* *
18568296 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTCA
*
18568321 ATAACTGGCGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCCCTTTCA
*
18568345 ATAACTGGGGCATAAGCCCTTT-T
1 ATAACTGGGGCATAAGCCCTTTCA
*
18568368 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTCA
18568392 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
18568414 TTCACTTCCT
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
23 25 0.30
24 44 0.53
25 14 0.17
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTCA
Found at i:18568375 original size:47 final size:48
Alignment explanation
Indices: 18568296--18568414 Score: 163
Period size: 47 Copynumber: 2.5 Consensus size: 48
18568286 GCTTTATCAT
*
18568296 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGCGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGG-GCCATAAGCCCTTTCA
* *
18568345 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCCATAAGCCCTTTCA
18568392 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18568415 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 3 0.05
47 41 0.63
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCCATAAGCCCTTTCA
Found at i:18568495 original size:20 final size:20
Alignment explanation
Indices: 18568470--18568524 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
18568460 TTACCTTATA
18568470 TGCATATCATACATATCATG
1 TGCATATCATACATATCATG
*
18568490 TGCATATCATACATTTCATG
1 TGCATATCATACATATCATG
18568510 TGCATATCATACATA
1 TGCATATCATACATA
18568525 CCATATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (20 bp):
TGCATATCATACATATCATG
Found at i:18572022 original size:33 final size:33
Alignment explanation
Indices: 18571984--18572050 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
18571974 TAATTACATA
18571984 TCATTATATAAAATTATGAGTCCAAAACTTTAC
1 TCATTATATAAAATTATGAGTCCAAAACTTTAC
18572017 TCATTATATAAAATTATGAGTCCAAAACTTTAC
1 TCATTATATAAAATTATGAGTCCAAAACTTTAC
18572050 T
1 T
18572051 ATCTTATCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (33 bp):
TCATTATATAAAATTATGAGTCCAAAACTTTAC
Found at i:18577362 original size:6 final size:7
Alignment explanation
Indices: 18577347--18577372 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18577337 CACTTTGAAA
18577347 TTTTATT
1 TTTTATT
18577354 TTTTATT
1 TTTTATT
18577361 TTTTATT
1 TTTTATT
18577368 TTTTA
1 TTTTA
18577373 AAAGGGAGTG
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:18577472 original size:19 final size:19
Alignment explanation
Indices: 18577448--18577485 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18577438 GAAATGAATA
18577448 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
18577467 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
18577486 GCAATCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:18578420 original size:19 final size:20
Alignment explanation
Indices: 18578387--18578426 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
18578377 ATATATGTAT
18578387 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
18578406 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
18578426 A
1 A
18578427 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:18581844 original size:24 final size:21
Alignment explanation
Indices: 18581797--18581848 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
18581787 TCACGGAGTT
18581797 GAAGAAGCTACTTGGAAACTA
1 GAAGAAGCTACTTGGAAACTA
* *
18581818 GAAGAAGCTACTTGGGAACTG
1 GAAGAAGCTACTTGGAAACTA
18581839 GAAGAAGCTA
1 GAAGAAGCTA
18581849 TAAAAGGGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.17
Consensus pattern (21 bp):
GAAGAAGCTACTTGGAAACTA
Found at i:18585778 original size:54 final size:53
Alignment explanation
Indices: 18585714--18585923 Score: 273
Period size: 54 Copynumber: 3.9 Consensus size: 53
18585704 CTTGGTTTAC
**
18585714 AAAATTACCAAAATACCCTC-AATTAGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTCGAATT-GTAAAATTACCAAAATA-CCCTAACTTGT
* *
18585768 AAAATTACCAAAATACCCTCGACTTGTAAAATTACCAAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGAATTGTAAAATTACCAAAATACCCT-AACTTGT
* *
18585822 AAAATTACCAAAATACCCTCGACTTGTAAAATTATCAAAATACCCTCAACTTGT
1 AAAATTACCAAAATACCCTCGAATTGTAAAATTACCAAAATACCCT-AACTTGT
* *
18585876 AAAATTACTC-AAATACCCTCG-ATTTTTAAATTACCAAAATACCTCTAA
1 AAAATTAC-CAAAATACCCTCGAATTGTAAAATTACCAAAATACC-CTAA
18585924 TTTAGAAAAT
Statistics
Matches: 142, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
53 24 0.17
54 114 0.80
55 4 0.03
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.28
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTCGAATTGTAAAATTACCAAAATACCCTAACTTGT
Found at i:18585824 original size:81 final size:80
Alignment explanation
Indices: 18585714--18585935 Score: 297
Period size: 81 Copynumber: 2.8 Consensus size: 80
18585704 CTTGGTTTAC
*
18585714 AAAATTACCAAAATACCCTCAATTAGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCGATT-GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
*
18585779 AATACCCTCGACTTGT
65 AATACCCTCAACTTGT
* * *
18585795 AAAATTACCAAAATACCCTCGACTTGTAAAATTACCAAAATA-CCCTCGACTTGTAAAATTATCA
1 AAAATTACCAAAATACCCTCGA-TTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
18585859 AAATACCCTCAACTTGT
64 AAATACCCTCAACTTGT
* * * *
18585876 AAAATTACTC-AAATACCCTCGATTTTTAAATTACCAAAATACCTCTAATTTAG-AAAATTA
1 AAAATTAC-CAAAATACCCTCGATTGTAAAATTACCAAAATACCCCTAGTTT-GTAAAATTA
18585936 TTGAAATACC
Statistics
Matches: 125, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
80 31 0.25
81 91 0.73
82 3 0.02
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTCGATTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCTCAACTTGT
Done.