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 331 of 378
Found at i:100607242 original size:15 final size:16
Alignment explanation
Indices: 100607200--100607245 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
100607190 TTATAGACAA
100607200 AATAATAGTAATAATAT
1 AATAATAG-AATAATAT
100607217 AA-AACTA-AATAAT-T
1 AATAA-TAGAATAATAT
100607231 AATAATAGAATAATA
1 AATAATAGAATAATA
100607246 AAGTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 2 0.08
17 4 0.16
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (16 bp):
AATAATAGAATAATAT
Found at i:100608364 original size:26 final size:25
Alignment explanation
Indices: 100608321--100608381 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
100608311 TTTAAATTTT
100608321 AAAATTATATTTAATATAATAT-AATA
1 AAAATTAT-TTTAATAT-ATATCAATA
* *
100608347 AAAATTATTTTAATTATATTTCATTA
1 AAAATTATTTTAA-TATATATCAATA
100608373 AAAATTATT
1 AAAATTATT
100608382 GAACTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAATTATTTTAATATATATCAATA
Found at i:100608389 original size:25 final size:28
Alignment explanation
Indices: 100608344--100608401 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
100608334 ATATAATATA
* *
100608344 ATAAAAATTATTTTAATTATATT-TCAT
1 ATAAAAATTATTTGAACTATATTATCAT
100608371 -TAAAAATTA-TTGAACTATATTATCAT
1 ATAAAAATTATTTGAACTATATTATCAT
100608397 ATAAA
1 ATAAA
100608402 TTCGATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 10 0.37
26 13 0.48
27 4 0.15
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (28 bp):
ATAAAAATTATTTGAACTATATTATCAT
Found at i:100617733 original size:4 final size:4
Alignment explanation
Indices: 100617724--100617767 Score: 61
Period size: 4 Copynumber: 10.2 Consensus size: 4
100617714 TTCTTTTGTC
100617724 TTAT TTAT TTAT TTATT TTATT TTATT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTA-T TTA-T TTA-T TTAT TTAT TTAT TTAT T
100617768 ATTATTAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 25 0.64
5 14 0.36
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:100617742 original size:27 final size:27
Alignment explanation
Indices: 100617707--100617773 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
100617697 TTTTGACTTT
* *
100617707 TTTACTTTTCTTTTGTCTTATTTATTTA
1 TTTA-TTTTATTTTATCTTATTTATTTA
*
100617735 TTTATTTTATTTTATTTTATTTATTTA
1 TTTATTTTATTTTATCTTATTTATTTA
100617762 TTTATTATTATT
1 TTTATT-TTATT
100617774 AACTTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 26 0.74
28 9 0.26
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.75
Consensus pattern (27 bp):
TTTATTTTATTTTATCTTATTTATTTA
Found at i:100617757 original size:23 final size:23
Alignment explanation
Indices: 100617727--100617773 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
100617717 TTTTGTCTTA
100617727 TTTATTTATTTATTTTATT-TTAT
1 TTTATTTATTTA-TTTATTATTAT
100617750 TTTATTTATTTATTTATTATTAT
1 TTTATTTATTTATTTATTATTAT
100617773 T
1 T
100617774 AACTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTATTTATTTATTTATTATTAT
Found at i:100617780 original size:27 final size:27
Alignment explanation
Indices: 100617724--100617780 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
100617714 TTCTTTTGTC
* *
100617724 TTATTTATTTATTTATTTTATTTTATT
1 TTATTTATTTATTTATTTTATTTAACT
100617751 TTATTTATTTATTTATTATTA-TTAACT
1 TTATTTATTTATTTATT-TTATTTAACT
100617778 TTA
1 TTA
100617781 AAAATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (27 bp):
TTATTTATTTATTTATTTTATTTAACT
Found at i:100617869 original size:21 final size:21
Alignment explanation
Indices: 100617845--100617888 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
100617835 TTAAATATAT
*
100617845 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTA-TTTTTTAA
100617866 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
100617887 AT
1 AT
100617889 ATTTTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:100617974 original size:14 final size:15
Alignment explanation
Indices: 100617943--100617981 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
100617933 TATTATTTAA
*
100617943 TTTAATTTATAATAT
1 TTTAAATTATAATAT
*
100617958 TTTAAATTATGAT-T
1 TTTAAATTATAATAT
100617972 TTTAAATTAT
1 TTTAAATTAT
100617982 TTTTAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTAAATTATAATAT
Found at i:100618232 original size:19 final size:19
Alignment explanation
Indices: 100618208--100618251 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
100618198 TTCACTTTTT
100618208 TTTTTTTACTTATTTATTA
1 TTTTTTTACTTATTTATTA
* *
100618227 TTTTTTTAGTTTTTTATTA
1 TTTTTTTACTTATTTATTA
100618246 TCTTTT
1 T-TTTT
100618252 GTCTTTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTTACTTATTTATTA
Found at i:100618330 original size:16 final size:18
Alignment explanation
Indices: 100618297--100618338 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
100618287 ATATTTTTTC
100618297 TTATTTTATTTTGTTTAT
1 TTATTTTATTTTGTTTAT
100618315 TTATTTT-TTTTG-TTAT
1 TTATTTTATTTTGTTTAT
*
100618331 TAATTTTA
1 TTATTTTA
100618339 AAAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
17 5 0.23
18 7 0.32
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (18 bp):
TTATTTTATTTTGTTTAT
Found at i:100618843 original size:20 final size:19
Alignment explanation
Indices: 100618808--100618850 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
100618798 TATTTAAAAG
*
100618808 TTAAAAAATAATATTTTAA
1 TTAAAAAATAATATTTGAA
100618827 TTAAAAAAGTGAA-ATTTGAA
1 TTAAAAAA-T-AATATTTGAA
100618847 TTAA
1 TTAA
100618851 TTAGAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 11 0.52
21 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
TTAAAAAATAATATTTGAA
Found at i:100618876 original size:18 final size:18
Alignment explanation
Indices: 100618855--100618896 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
100618845 AATTAATTAG
100618855 AAAATAAAA-ATATTTGTT
1 AAAA-AAAATATATTTGTT
*
100618873 AAAAAAAATTTATTTGTT
1 AAAAAAAATATATTTGTT
100618891 AAAAAA
1 AAAAAA
100618897 TAAATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AAAAAAAATATATTTGTT
Found at i:100618896 original size:20 final size:18
Alignment explanation
Indices: 100618865--100618907 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 18
100618855 AAAATAAAAA
100618865 TATTTGTTAAAAAAAATT
1 TATTTGTTAAAAAAAATT
100618883 TATTTGTTAAAAAATAAATT
1 TATTTGTT-AAAAA-AAATT
100618903 TATTT
1 TATTT
100618908 AAAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
TATTTGTTAAAAAAAATT
Found at i:100618903 original size:16 final size:17
Alignment explanation
Indices: 100618863--100618920 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
100618853 AGAAAATAAA
100618863 AATATTTGTTAAAAAA-
1 AATATTTGTTAAAAAAT
100618879 AATTTATTTGTTAAAAAAT
1 AA--TATTTGTTAAAAAAT
* *
100618898 AA-ATTTATTTAAAAAT
1 AATATTTGTTAAAAAAT
100618914 ATATATT
1 A-ATATT
100618921 AAAAAGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 15 0.43
17 1 0.03
18 17 0.49
19 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AATATTTGTTAAAAAAT
Found at i:100618932 original size:20 final size:21
Alignment explanation
Indices: 100618906--100618966 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 21
100618896 ATAAATTTAT
100618906 TTAAAAATATATATTAAAAAG
1 TTAAAAATATATATTAAAAAG
* *
100618927 -TAAAAATTTAAATT-AAAAG
1 TTAAAAATATATATTAAAAAG
100618946 TTAAAAATATATATTATAAAA
1 TTAAAAATATATATTA-AAAA
100618967 TTACATCATG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 5 0.15
20 24 0.73
22 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (21 bp):
TTAAAAATATATATTAAAAAG
Found at i:100619428 original size:20 final size:20
Alignment explanation
Indices: 100619405--100619469 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
100619395 ATAATTTTTT
100619405 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * *
100619425 AATTTATA-TATTA-ATTTTTT
1 AATTT-TAGTA-CACATTTATA
* *
100619445 AATTTTAGTACACGTTCATA
1 AATTTTAGTACACATTTATA
100619465 AATTT
1 AATTT
100619470 ATGTACTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:100619440 original size:40 final size:41
Alignment explanation
Indices: 100619396--100619480 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 41
100619386 GTGTTGGTTA
*
100619396 TAATTTTTTAATTTTAGTACACATTTATAAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
* *
100619436 TAATTTTTTAATTTTAGTACACGTTCATAAATTTATGTACT
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
100619477 TAAT
1 TAAT
100619481 ATATATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
Found at i:100619491 original size:40 final size:40
Alignment explanation
Indices: 100619404--100619491 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
100619394 TATAATTTTT
* * *
100619404 TAATTTTAGTACACATTTATAAATTTATATATTAATTTTT
1 TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
* *
100619444 TAATTTTAGTACACGTTCATAAATTTATGTACTTAA-TATA
1 TAATTTTAGTACACATTCATAAATTTATATA-TTAATTATA
*
100619484 TATTTTTA
1 TAATTTTA
100619492 ATAGATAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (40 bp):
TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
Found at i:100619630 original size:71 final size:71
Alignment explanation
Indices: 100619543--100619694 Score: 232
Period size: 71 Copynumber: 2.1 Consensus size: 71
100619533 GGTTAATAAC
* * * * * *
100619543 TTAAAGAAATTAAATATATTAAAAAATGTTATGTATAGCCAATTTTAAAATTTTAATATATTTAA
1 TTAAA-AAATTAAATATATTAAAAAATGTTAAGTATAACAAATATTAAAATTATAATATATTCAA
100619608 TATATTT
65 TATATTT
100619615 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACAAATATTAAAATTATAATATATTCAAT
1 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACAAATATTAAAATTATAATATATTCAAT
100619680 ATATTT
66 ATATTT
*
100619686 TTTAAAAAT
1 TTAAAAAAT
100619695 ATATTTTAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 68 0.93
72 5 0.07
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (71 bp):
TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACAAATATTAAAATTATAATATATTCAAT
ATATTT
Found at i:100619776 original size:17 final size:16
Alignment explanation
Indices: 100619754--100619816 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 16
100619744 AAAAATGATT
100619754 TTTTAATATATATAAAA
1 TTTTAA-ATATATAAAA
* *
100619771 TTTTAAAAAACGTAAAAAA
1 TTTT-AAATA--TATAAAA
*
100619790 GTTTAAATATATTAAAA
1 TTTTAAATATA-TAAAA
100619807 TTTTAAATAT
1 TTTTAAATAT
100619817 GTTAAAAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
16 2 0.06
17 19 0.53
18 6 0.17
19 9 0.25
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (16 bp):
TTTTAAATATATAAAA
Found at i:100619821 original size:17 final size:17
Alignment explanation
Indices: 100619786--100619824 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
100619776 AAAAACGTAA
100619786 AAAAGTTTAAATATATT
1 AAAAGTTTAAATATATT
* *
100619803 AAAATTTTAAATATGTT
1 AAAAGTTTAAATATATT
100619820 AAAAG
1 AAAAG
100619825 AAAATGTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAGTTTAAATATATT
Found at i:100621877 original size:30 final size:30
Alignment explanation
Indices: 100621841--100621942 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
100621831 CGTAGAGCAA
*
100621841 TTCATATCACTCGGACATTGCCGGTTCAAG
1 TTCATATCACTCGGACATAGCCGGTTCAAG
*
100621871 TTCATATCACTCGGATATAGGCC-GTTCAAG
1 TTCATATCACTCGGACATA-GCCGGTTCAAG
* ** * *
100621901 TTCATATCACCCAAACATAGGCGGTTCGAG
1 TTCATATCACTCGGACATAGCCGGTTCAAG
*
100621931 TTCATTTCACTC
1 TTCATATCACTC
100621943 AAAGCAACCA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 2 0.03
30 55 0.92
31 3 0.05
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (30 bp):
TTCATATCACTCGGACATAGCCGGTTCAAG
Found at i:100626254 original size:13 final size:13
Alignment explanation
Indices: 100626223--100626259 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
100626213 ATTATATTTA
100626223 AAATTTAAAA-A-
1 AAATTTAAAATAT
*
100626234 ATATTTAAAATAT
1 AAATTTAAAATAT
100626247 AAATTTAAAATAT
1 AAATTTAAAATAT
100626260 TATAAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 9 0.41
12 1 0.05
13 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAAAATAT
Found at i:100626299 original size:116 final size:115
Alignment explanation
Indices: 100626173--100626417 Score: 284
Period size: 116 Copynumber: 2.1 Consensus size: 115
100626163 AAATGTTTGA
* * * *
100626173 ATATCGTTAAAATTAATTTTAAAATT-AATAATTTATAAAAATTAT-ATT-TAAAATT-TAAAA-
1 ATATCTTTAAAATTAA-TAT-AAATTAAATAA-TT-TAAAAATCATAATTAAAAAATTATAAAAC
* *
100626233 AATATTTAAAATATAAATTTAAAATATTATAAAACAAATAATAAATTTGAAATGTC
62 AA-A-TTAAAATATAAATTTAAAATATTATAAAACAAATAATAAATTTAAAAGGTC
* ** *
100626289 ATATCTTTAAAAATAATATACTTTAAATAATTTCAAAATCATAATTAAAAAAATTATAAAACAAA
1 ATATCTTTAAAATTAATATAAATTAAATAATTTAAAAATCATAATT-AAAAAATTATAAAACAAA
* *
100626354 TTAAAATATACATTTAAAATATTATAAAACTAATAATAAATTTAAAAGGTC
65 TTAAAATATAAATTTAAAATATTATAAAACAAATAATAAATTTAAAAGGTC
100626405 ATATCTTTAAAAT
1 ATATCTTTAAAAT
100626418 ATTTAAATGT
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
113 8 0.07
114 8 0.07
115 7 0.06
116 79 0.72
117 6 0.05
118 2 0.02
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (115 bp):
ATATCTTTAAAATTAATATAAATTAAATAATTTAAAAATCATAATTAAAAAATTATAAAACAAAT
TAAAATATAAATTTAAAATATTATAAAACAAATAATAAATTTAAAAGGTC
Found at i:100626474 original size:116 final size:113
Alignment explanation
Indices: 100626199--100626474 Score: 292
Period size: 116 Copynumber: 2.4 Consensus size: 113
100626189 TTTTAAAATT
100626199 AATAATTTATAAAAATTATATTTAAAATT-TAAAAAATATTTAAAATATAAATTTAAAATATTAT
1 AATAA-TT-TAAAAA-TATATTTAAAATTATAAAAAATATTTAAAATATAAATTTAAAATATTAT
* *
100626263 AAAACAAATAATAAATTTGAAATGTCATATCTTTAAAAATAATATACTTTA
63 AAAACAAATAATAAATTTAAAAGGTCATATCTTTAAAAATAATATACTTTA
* * *
100626314 AATAATTTCAAAATCATAATTAAAAAAATTATAAAACAA-A-TTAAAATATACATTTAAAATATT
1 AATAATTTAAAAAT-AT-ATT--TAAAATTATAAAA-AATATTTAAAATATAAATTTAAAATATT
* **
100626377 ATAAAACTAATAATAAATTTAAAAGGTCATATCTTTAAAATATTTAA-ATGTTTTA
61 ATAAAACAAATAATAAATTTAAAAGGTCATATCTTTAAAA-A--TAATATACTTTA
* * * *
100626432 TATTA-TTAAAAATATATTTAATAGTTAAAAAATAATATTTAAA
1 AATAATTTAAAAATATATTTAA-AATTATAAAA-AATATTTAAA
100626475 TTTTTAAACA
Statistics
Matches: 134, Mismatches: 15, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
112 1 0.01
113 9 0.07
114 15 0.11
115 9 0.07
116 72 0.54
117 14 0.10
118 11 0.08
119 3 0.02
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (113 bp):
AATAATTTAAAAATATATTTAAAATTATAAAAAATATTTAAAATATAAATTTAAAATATTATAAA
ACAAATAATAAATTTAAAAGGTCATATCTTTAAAAATAATATACTTTA
Found at i:100626524 original size:20 final size:21
Alignment explanation
Indices: 100626488--100626529 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
100626478 TTAAACAATG
100626488 ATTTAAAAATAATATTT-AAA
1 ATTTAAAAATAATATTTCAAA
*
100626508 ATTTAGAAA-AATAATTTCAAA
1 ATTTAAAAATAAT-ATTTCAAA
100626529 A
1 A
100626530 ATGTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
ATTTAAAAATAATATTTCAAA
Found at i:100626545 original size:22 final size:24
Alignment explanation
Indices: 100626520--100626575 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
100626510 TTAGAAAAAT
*
100626520 AATTTCAAAAATGTATATT-T-AA
1 AATTTCAAAAATATATATTATAAA
*
100626542 AATTTAAAAAATATATATTATAAA
1 AATTTCAAAAATATATATTATAAA
100626566 ACATTTCAAA
1 A-ATTTCAAA
100626576 TATACATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.61
23 1 0.04
24 3 0.11
25 7 0.25
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (24 bp):
AATTTCAAAAATATATATTATAAA
Found at i:100626545 original size:35 final size:32
Alignment explanation
Indices: 100626459--100626554 Score: 120
Period size: 33 Copynumber: 2.9 Consensus size: 32
100626449 TTAATAGTTA
* * *
100626459 AAAAATAATATTTAAATTTTTAAACAATGATTT
1 AAAAATAATATTTAAA-ATTTAAAAAATAATTT
100626492 AAAAATAATATTTAAAATTTAGAAAAATAATTT
1 AAAAATAATATTTAAAATTTA-AAAAATAATTT
*
100626525 CAAAAATGTATATTTAAAATTTAAAAAATA
1 -AAAAAT-AATATTTAAAATTTAAAAAATA
100626555 TATATTATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
32 4 0.07
33 25 0.45
34 13 0.23
35 14 0.25
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (32 bp):
AAAAATAATATTTAAAATTTAAAAAATAATTT
Found at i:100626621 original size:12 final size:12
Alignment explanation
Indices: 100626604--100626670 Score: 52
Period size: 12 Copynumber: 5.6 Consensus size: 12
100626594 TAAGATTAAT
100626604 AATAAAAAATAA
1 AATAAAAAATAA
100626616 AAT-AAAAAT-A
1 AATAAAAAATAA
100626626 AATAAATAAAT-A
1 AATAAA-AAATAA
*
100626638 AATAAATAAAGATA
1 AATAAA-AAATA-A
*
100626652 AAGACAAAAATAA
1 AATA-AAAAATAA
100626665 AA-AAAA
1 AATAAAA
100626671 TGTCAGAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
10 4 0.09
11 11 0.23
12 19 0.40
13 3 0.06
14 8 0.17
15 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.16
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:100626630 original size:4 final size:4
Alignment explanation
Indices: 100626604--100626647 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
100626594 TAAGATTAAT
100626604 AATA AA-A AATA AA-A TAA-A AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA -AATA AATA AATA AATA AATA AATA AATA AA
100626648 GATAAAGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 6 0.16
4 31 0.84
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:100626662 original size:26 final size:27
Alignment explanation
Indices: 100626604--100626671 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
100626594 TAAGATTAAT
*
100626604 AATAAA-AAATAAAATAAAAATAAATA
1 AATAAATAAATAAAATAAAAATAAAGA
*
100626630 AATAAATAAAT-AAATAAAGATAAAGA
1 AATAAATAAATAAAATAAAAATAAAGA
*
100626656 CAA-AAATAAAAAAAAT
1 -AATAAATAAATAAAAT
100626672 GTCAGAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 26 0.72
27 10 0.28
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (27 bp):
AATAAATAAATAAAATAAAAATAAAGA
Found at i:100626770 original size:31 final size:33
Alignment explanation
Indices: 100626728--100626788 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
100626718 TTAATGTTTA
100626728 AAAAAACAATA-TTCAAAATTTAAAAAATAGTT
1 AAAAAACAATATTTCAAAATTTAAAAAATAGTT
* *
100626760 AAAAAA-AATATTTTAAATTTTAAAAAATA
1 AAAAAACAATATTTCAAAATTTAAAAAATA
100626789 TATATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (33 bp):
AAAAAACAATATTTCAAAATTTAAAAAATAGTT
Found at i:100626793 original size:23 final size:23
Alignment explanation
Indices: 100626758--100626826 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
100626748 TAAAAAATAG
100626758 TTAAAAAA-A-ATATTTTAAATT
1 TTAAAAAATATATATTTTAAATT
*
100626779 TTAAAAAATATATATTATAAAATAT
1 TTAAAAAATATATATT-TTAAAT-T
* *
100626804 TT--CAAATATACATTTTAAATT
1 TTAAAAAATATATATTTTAAATT
100626825 TT
1 TT
100626827 TTAAAATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 11 0.28
22 6 0.15
23 15 0.38
24 5 0.12
25 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAAAAAATATATATTTTAAATT
Found at i:100626833 original size:23 final size:23
Alignment explanation
Indices: 100626769--100626833 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
100626759 TAAAAAAAAT
** *
100626769 ATTTTAAATTTTAAAAAATATAT
1 ATTTTAAATTTTTTAAAATATAC
* * * *
100626792 ATTATAAAATATTTCAAATATAC
1 ATTTTAAATTTTTTAAAATATAC
100626815 ATTTTAAATTTTTTAAAAT
1 ATTTTAAATTTTTTAAAAT
100626834 TAATAACAAA
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTTAAATTTTTTAAAATATAC
Found at i:100627178 original size:14 final size:15
Alignment explanation
Indices: 100627159--100627191 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
100627149 ATCTTTAAAA
100627159 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
100627173 ATAATTTAAAATATT
1 ATAATTTAAAATATT
100627188 ATAA
1 ATAA
100627192 AACAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:100627305 original size:22 final size:24
Alignment explanation
Indices: 100627272--100627328 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
100627262 TAAAAAAGTA
*
100627272 ATTTCAAAATATATATT-TAAAAT
1 ATTTAAAAATATATATTATAAAAT
100627295 -TTTAAAAATATATATTAATAAAAT
1 ATTTAAAAATATATATT-ATAAAAT
*
100627319 ATTTCAAAAT
1 ATTTAAAAAT
100627329 TTTTAAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 15 0.52
24 6 0.21
25 8 0.28
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTAAAAATATATATTATAAAAT
Found at i:100627328 original size:34 final size:33
Alignment explanation
Indices: 100627246--100627331 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 33
100627236 TTTGAAAGTT
*
100627246 TAAAATATTTAAAATTTAAAAAAGTAATTTCAA
1 TAAAATATTTAAAATTTTAAAAAGTAATTTCAA
100627279 -AATATATATTTAAAATTTTAAAAA-TATATATT-AA
1 TAA-A-ATATTTAAAATTTTAAAAAGTA-AT-TTCAA
100627313 TAAAATATTTCAAAATTTT
1 TAAAATATTT-AAAATTTT
100627332 TAAAGTTAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
32 2 0.04
33 9 0.20
34 31 0.67
35 4 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (33 bp):
TAAAATATTTAAAATTTTAAAAAGTAATTTCAA
Found at i:100627348 original size:34 final size:33
Alignment explanation
Indices: 100627246--100627350 Score: 90
Period size: 34 Copynumber: 3.1 Consensus size: 33
100627236 TTTGAAAGTT
* *
100627246 TAAAATATTTAAAATTTAAAAAAGTAATTTCAA-AA
1 TAAAATATTTAAAATTTTAAAAA-T-ATAT-AATAA
* *
100627281 T-ATATATTTAAAATTTTAAAAATATATATTAA
1 TAAAATATTTAAAATTTTAAAAATATATAATAA
* *
100627313 TAAAATATTTCAAAATTTTTAAAGT-TAATAATAA
1 TAAAATATTT-AAAATTTTAAAAATAT-ATAATAA
100627347 TAAA
1 TAAA
100627351 TAAATAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
31 1 0.02
32 6 0.10
33 9 0.16
34 41 0.71
35 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (33 bp):
TAAAATATTTAAAATTTTAAAAATATATAATAA
Found at i:100627365 original size:14 final size:14
Alignment explanation
Indices: 100627339--100627376 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
100627329 TTTTAAAGTT
100627339 AATAATAAT-AAATA
1 AATAA-AATAAAATA
100627353 AATAAAATAAAATA
1 AATAAAATAAAATA
100627367 AAT-AAATAAA
1 AATAAAATAAA
100627377 GAAAAAAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:100627368 original size:18 final size:19
Alignment explanation
Indices: 100627339--100627376 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
100627329 TTTTAAAGTT
100627339 AATAATAATAAATAAATAA
1 AATAATAATAAATAAATAA
100627358 AATAA-AATAAATAAATAA
1 AATAATAATAAATAAATAA
100627376 A
1 A
100627377 GAAAAAAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AATAATAATAAATAAATAA
Found at i:100632517 original size:38 final size:40
Alignment explanation
Indices: 100632466--100632662 Score: 150
Period size: 38 Copynumber: 4.7 Consensus size: 40
100632456 GAAAAAACAT
100632466 GGTGCTAAGTGGATATACCACGGTTATACA-TG-TAATGA
1 GGTGCTAAGTGGATATACCACGGTTATACATTGATAATGA
* *
100632504 GGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACA
1 GGTGCTAAGTGGATATACCACGGTTATAC--ATTGATA-ATG----A
* * * *
100632551 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGT
1 -GGTGCTAAGTGGATATACCACGGTT--ATACATTG----A-TAATGA
* *
100632599 GGTGCTAAGTGGATATACCACGGTTAAACA-TGA-AATGT
1 GGTGCTAAGTGGATATACCACGGTTATACATTGATAATGA
*
100632637 GGTGCTAAGTGGATATGCCACGGTTA
1 GGTGCTAAGTGGATATACCACGGTTA
100632663 CATATATTGA
Statistics
Matches: 129, Mismatches: 13, Indels: 34
0.73 0.07 0.19
Matches are distributed among these distances:
38 56 0.43
40 2 0.02
41 2 0.02
42 2 0.02
43 3 0.02
44 2 0.02
45 3 0.02
47 25 0.19
48 27 0.21
50 2 0.02
52 3 0.02
53 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (40 bp):
GGTGCTAAGTGGATATACCACGGTTATACATTGATAATGA
Found at i:100632620 original size:47 final size:47
Alignment explanation
Indices: 100632504--100632709 Score: 259
Period size: 47 Copynumber: 4.6 Consensus size: 47
100632494 CATGTAATGA
* * * *
100632504 GGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACAT
1 GGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAACGT
*
100632552 GGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGT
1 GGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGT
* *
100632599 GGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG----A--AATGT
1 GGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGT
*
100632637 GGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGT
1 GGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGT
*
100632684 GGTGCTAAGTGGATATACCATGGTTA
1 GGTGCTAAGTGGATATACCACGGTTA
100632710 AACATGTTAA
Statistics
Matches: 136, Mismatches: 13, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
38 29 0.21
39 1 0.01
40 3 0.02
41 2 0.01
44 2 0.01
45 3 0.02
46 1 0.01
47 58 0.43
48 37 0.27
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (47 bp):
GGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGT
Found at i:100632653 original size:85 final size:85
Alignment explanation
Indices: 100632551--100632715 Score: 321
Period size: 85 Copynumber: 1.9 Consensus size: 85
100632541 ACATGTAACA
100632551 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
1 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
100632616 CCACGGTTAAACATGAAATG
66 CCACGGTTAAACATGAAATG
100632636 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
1 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
*
100632701 CCATGGTTAAACATG
66 CCACGGTTAAACATG
100632716 TTAATTTGAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (85 bp):
TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
CCACGGTTAAACATGAAATG
Found at i:100642251 original size:37 final size:37
Alignment explanation
Indices: 100642208--100642280 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
100642198 AAAGACTGAT
100642208 GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTAC
1 GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTAC
100642245 GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTA
1 GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTA
100642281 GGATATTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (37 bp):
GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTAC
Found at i:100652302 original size:22 final size:22
Alignment explanation
Indices: 100652265--100652307 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
100652255 TTTTTGTTTA
100652265 TTTTATTTATTATTAT-ATTAG
1 TTTTATTTATTATTATCATTAG
*
100652286 TTTTATTGTATTGTTATCATTA
1 TTTTATT-TATTATTATCATTA
100652308 CCATTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (22 bp):
TTTTATTTATTATTATCATTAG
Found at i:100652444 original size:15 final size:15
Alignment explanation
Indices: 100652407--100652482 Score: 57
Period size: 15 Copynumber: 4.9 Consensus size: 15
100652397 ATTATTTAAA
*
100652407 TTTTATTTAGTTTTATG
1 TTTTATTTA-TTTT-TC
100652424 TTTTATTTATTTTTC
1 TTTTATTTATTTTTC
* *
100652439 TTTTATTTCTATTTC
1 TTTTATTTATTTTTC
* *
100652454 TATT-TGTATTTTTTC
1 TTTTATTTA-TTTTTC
100652469 TTGTTA-TTATTTTT
1 TT-TTATTTATTTTT
100652483 TTTATTTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
14 2 0.04
15 28 0.60
16 8 0.17
17 9 0.19
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.75
Consensus pattern (15 bp):
TTTTATTTATTTTTC
Found at i:100652488 original size:25 final size:25
Alignment explanation
Indices: 100652460--100652550 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 25
100652450 TTTCTATTTG
100652460 TATTTTTTCTTGTTATTATTTTTTT
1 TATTTTTTCTTGTTATTATTTTTTT
* *
100652485 TATTTTTAGACTTATATATTTTATTTTATTTT
1 TATTTTT--TCTTGT-TA--TTA-TTT-TTTT
100652517 GTATTTTTTCTTGTTATTATTTTTTT
1 -TATTTTTTCTTGTTATTATTTTTTT
100652543 TATTTTTT
1 TATTTTTT
100652551 AGACTTATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
25 15 0.28
26 4 0.07
27 7 0.13
28 5 0.09
30 5 0.09
31 7 0.13
32 4 0.07
33 7 0.13
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.76
Consensus pattern (25 bp):
TATTTTTTCTTGTTATTATTTTTTT
Found at i:100652492 original size:6 final size:6
Alignment explanation
Indices: 100652412--100652549 Score: 58
Period size: 6 Copynumber: 22.5 Consensus size: 6
100652402 TTAAATTTTA
* * * *
100652412 TTTAGT TTTATGT TTTA-- TTTATT TTT-CT TTTATT TCTATT TCTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
100652458 TGTATT TTT-TCT TGTTATT ATTT-TT TTTATT TTTAGACT TATATAT
1 TTTATT TTTAT-T T-TTATT -TTTATT TTTATT TTT--ATT TTTAT-T
100652504 TTTA-T TTTATT TTGTATT TTT-TCT TGTTATT ATTT-TT TTTATT TTT
1 TTTATT TTTATT TT-TATT TTTAT-T T-TTATT -TTTATT TTTATT TTT
100652550 TAGACTTATA
Statistics
Matches: 103, Mismatches: 10, Indels: 38
0.68 0.07 0.25
Matches are distributed among these distances:
4 4 0.04
5 17 0.17
6 49 0.48
7 25 0.24
8 8 0.08
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:100652550 original size:59 final size:58
Alignment explanation
Indices: 100652442--100652575 Score: 234
Period size: 58 Copynumber: 2.3 Consensus size: 58
100652432 ATTTTTCTTT
100652442 TATTTCTATTTCTA-TTTGTATTTTTTCTTGTTATTATTTTTTTTATTTTTAGACTTATA
1 TATTT-TATTT-TATTTTGTATTTTTTCTTGTTATTATTTTTTTTATTTTTAGACTTATA
100652501 TATTTTATTTTATTTTGTATTTTTTCTTGTTATTATTTTTTTTATTTTTTAGACTTATA
1 TATTTTATTTTATTTTGTATTTTTTCTTGTTATTATTTTTTTTA-TTTTTAGACTTATA
100652560 TATTTTATTTTATTTT
1 TATTTTATTTTATTTT
100652576 ATTTTATTAT
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
57 2 0.03
58 36 0.49
59 35 0.48
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (58 bp):
TATTTTATTTTATTTTGTATTTTTTCTTGTTATTATTTTTTTTATTTTTAGACTTATA
Found at i:100652576 original size:32 final size:31
Alignment explanation
Indices: 100652475--100652580 Score: 118
Period size: 31 Copynumber: 3.5 Consensus size: 31
100652465 TTTCTTGTTA
100652475 TTATTTTTTTTA-TTTTTAGACTTATATATT
1 TTATTTTTTTTATTTTTTAGACTTATATATT
*
100652505 TTATTTTATTTTGTATTTTTT---CTTGT-TA--
1 TTA-TTT-TTTT-TATTTTTTAGACTTATATATT
100652533 TTATTTTTTTTATTTTTTAGACTTATATATT
1 TTATTTTTTTTATTTTTTAGACTTATATATT
100652564 TTATTTTATTTTATTTT
1 TTATTTT-TTTTATTTT
100652581 ATTATGTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
25 8 0.13
26 4 0.06
27 3 0.05
28 7 0.11
29 2 0.03
30 5 0.08
31 14 0.22
32 13 0.21
33 2 0.03
34 5 0.08
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.74
Consensus pattern (31 bp):
TTATTTTTTTTATTTTTTAGACTTATATATT
Found at i:100655622 original size:25 final size:26
Alignment explanation
Indices: 100655594--100655647 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
100655584 CTAATAAAAT
*
100655594 CCTAACC-TACCAAATTAGTTATCAA
1 CCTAACCATACCAAATTAGGTATCAA
*
100655619 CCT-ACCATACTAAATTAGGTATCAA
1 CCTAACCATACCAAATTAGGTATCAA
100655644 CCTA
1 CCTA
100655648 CCAGATTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.39, C:0.28, G:0.06, T:0.28
Consensus pattern (26 bp):
CCTAACCATACCAAATTAGGTATCAA
Found at i:100656167 original size:159 final size:159
Alignment explanation
Indices: 100655878--100656201 Score: 648
Period size: 159 Copynumber: 2.0 Consensus size: 159
100655868 ACAATAAAAA
100655878 TTCATGGAAGAGAATAGAACACAAAACCTCAAGCTTATAAAGAGTACTTAACCACTACACCAAAT
1 TTCATGGAAGAGAATAGAACACAAAACCTCAAGCTTATAAAGAGTACTTAACCACTACACCAAAT
100655943 TAATCTACACAACACAATTAAATACCTGAAAATTAAAGAATTTTGGGATGTTACAATTGCTCACT
66 TAATCTACACAACACAATTAAATACCTGAAAATTAAAGAATTTTGGGATGTTACAATTGCTCACT
100656008 TGAGGCCACTTTTCATAAGGAAAAACATC
131 TGAGGCCACTTTTCATAAGGAAAAACATC
100656037 TTCATGGAAGAGAATAGAACACAAAACCTCAAGCTTATAAAGAGTACTTAACCACTACACCAAAT
1 TTCATGGAAGAGAATAGAACACAAAACCTCAAGCTTATAAAGAGTACTTAACCACTACACCAAAT
100656102 TAATCTACACAACACAATTAAATACCTGAAAATTAAAGAATTTTGGGATGTTACAATTGCTCACT
66 TAATCTACACAACACAATTAAATACCTGAAAATTAAAGAATTTTGGGATGTTACAATTGCTCACT
100656167 TGAGGCCACTTTTCATAAGGAAAAACATC
131 TGAGGCCACTTTTCATAAGGAAAAACATC
100656196 TTCATG
1 TTCATG
100656202 TCGCAACACC
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 165 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (159 bp):
TTCATGGAAGAGAATAGAACACAAAACCTCAAGCTTATAAAGAGTACTTAACCACTACACCAAAT
TAATCTACACAACACAATTAAATACCTGAAAATTAAAGAATTTTGGGATGTTACAATTGCTCACT
TGAGGCCACTTTTCATAAGGAAAAACATC
Found at i:100656999 original size:41 final size:41
Alignment explanation
Indices: 100656939--100657020 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
100656929 AAAAAGGCAA
* * *
100656939 AGTTAGTGTTTCCTCGTTATATCTAAAGAATGTCATCCCAT
1 AGTTAGTGTTTCCTCGTTATATATAAAAAATGGCATCCCAT
*
100656980 AGTTAGTGTTTCCTTGTTATATATAAAAAATGGCATCCCAT
1 AGTTAGTGTTTCCTCGTTATATATAAAAAATGGCATCCCAT
100657021 CTTAATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (41 bp):
AGTTAGTGTTTCCTCGTTATATATAAAAAATGGCATCCCAT
Found at i:100659117 original size:2 final size:2
Alignment explanation
Indices: 100659110--100659143 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
100659100 TTGTATTGAT
*
100659110 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100659144 AATAAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100670004 original size:26 final size:26
Alignment explanation
Indices: 100669975--100670051 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
100669965 TCTCATCTCT
100669975 ATTTTACCCTCAGTAAAATTTTGACG
1 ATTTTACCCTCAGTAAAATTTTGACG
* ** *
100670001 ATTTTACTCTTGGTAAAATTTTTGATG
1 ATTTTACCCTCAGTAAAA-TTTTGACG
*
100670028 ATTTTA-CCTCTATTAAAATTTTGA
1 ATTTTACCCTC-AGTAAAATTTTGA
100670052 GAAAATATGT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 23 0.56
27 18 0.44
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (26 bp):
ATTTTACCCTCAGTAAAATTTTGACG
Found at i:100670044 original size:27 final size:27
Alignment explanation
Indices: 100669975--100670049 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
100669965 TCTCATCTCT
*
100669975 ATTTTACC-CTCAGTAAAA-TTTTGACG
1 ATTTTACCTCT-ATTAAAATTTTTGACG
*
100670001 ATTTTA-CTCT-TGGTAAAATTTTTGATG
1 ATTTTACCTCTAT--TAAAATTTTTGACG
100670028 ATTTTACCTCTATTAAAATTTT
1 ATTTTACCTCTATTAAAATTTT
100670050 GAGAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 1 0.02
26 13 0.32
27 22 0.54
28 4 0.10
29 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.48
Consensus pattern (27 bp):
ATTTTACCTCTATTAAAATTTTTGACG
Found at i:100670199 original size:6 final size:6
Alignment explanation
Indices: 100670188--100670236 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
100670178 TGTAAATGAA
* *
100670188 TCATTT TCATTT TCATTT TCATTT TCATTT CCATTT TCATTT CCATTT
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
100670236 T
1 T
100670237 GGAAACCTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.63
Consensus pattern (6 bp):
TCATTT
Found at i:100670305 original size:34 final size:34
Alignment explanation
Indices: 100670257--100670333 Score: 145
Period size: 34 Copynumber: 2.3 Consensus size: 34
100670247 ATTAATTTCC
*
100670257 TAATGATTCTATTTCTCCATTTCTAAAAGAACCA
1 TAATCATTCTATTTCTCCATTTCTAAAAGAACCA
100670291 TAATCATTCTATTTCTCCATTTCTAAAAGAACCA
1 TAATCATTCTATTTCTCCATTTCTAAAAGAACCA
100670325 TAATCATTC
1 TAATCATTC
100670334 CTGAATGTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (34 bp):
TAATCATTCTATTTCTCCATTTCTAAAAGAACCA
Found at i:100671445 original size:17 final size:18
Alignment explanation
Indices: 100671419--100671460 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
100671409 TAAGAATAAA
100671419 AAAC-AAATAA-AAATCAT
1 AAACTAAATAAGAAAT-AT
100671436 AAA-TAAATAAGAAATAT
1 AAACTAAATAAGAAATAT
100671453 AAACTAAA
1 AAACTAAA
100671461 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (18 bp):
AAACTAAATAAGAAATAT
Found at i:100676017 original size:136 final size:137
Alignment explanation
Indices: 100675773--100676058 Score: 493
Period size: 136 Copynumber: 2.1 Consensus size: 137
100675763 CATTGGGCCT
** * * *
100675773 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGTCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
100675838 CGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
100675902 CATATGC
131 CATATGC
100675909 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
100675974 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
100676039 CATATGC
131 CATATGC
*
100676046 AAGCTCATTTGGG
1 AAGCCCATTTGGG
100676059 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 120 0.85
137 21 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:100677872 original size:26 final size:26
Alignment explanation
Indices: 100677836--100677960 Score: 225
Period size: 26 Copynumber: 4.8 Consensus size: 26
100677826 CATGATATTC
100677836 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
100677862 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100677888 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100677914 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
100677940 TTATCATG-AACATTTACCTAA
1 TTATCATGAAACATTTACCTAA
100677961 TATTATCAAG
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 13 0.14
26 82 0.86
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100681929 original size:135 final size:136
Alignment explanation
Indices: 100681687--100681970 Score: 509
Period size: 135 Copynumber: 2.1 Consensus size: 136
100681677 CATTGGGCCT
** *
100681687 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
100681752 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
100681816 ATATGC
131 ATATGC
100681822 AAGCCCATTTGGGTAACAGTGATACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAG-CCTTTTCAGATTACAATAAACTGGGCCTT
*
100681886 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
100681951 CATATGC
130 CATATGC
100681958 AAGCCCATTTGGG
1 AAGCCCATTTGGG
100681971 GAGACTACTC
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
134 2 0.01
135 119 0.83
136 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:100683790 original size:26 final size:26
Alignment explanation
Indices: 100683754--100683888 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
100683744 ACATGAATTC
100683754 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
100683780 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100683806 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100683832 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
100683858 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100683883 TTATCA
1 TTATCA
100683889 AGTGTACATT
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
25 22 0.21
26 82 0.79
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100687793 original size:19 final size:19
Alignment explanation
Indices: 100687664--100687795 Score: 74
Period size: 18 Copynumber: 6.8 Consensus size: 19
100687654 AGTAATAGTC
*
100687664 AATTATTCGGTAACAAT-A
1 AATTATTCAGTAACAATCA
* *
100687682 AATTATTCAATAATAATC-
1 AATTATTCAGTAACAATCA
* *
100687700 AGTTATTCAGTATCAATCA
1 AATTATTCAGTAACAATCA
* *
100687719 ACTGATCGGTTATCCAGTAACAGTC-
1 A---A----TTATTCAGTAACAATCA
*
100687744 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAACAATCA
* * *
100687763 GA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATCA
100687781 AATTATTCAGTAACA
1 AATTATTCAGTAACA
100687796 GTCGATCTTT
Statistics
Matches: 83, Mismatches: 20, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
18 55 0.66
19 13 0.16
22 1 0.01
25 1 0.01
26 13 0.16
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (19 bp):
AATTATTCAGTAACAATCA
Found at i:100687983 original size:59 final size:58
Alignment explanation
Indices: 100687907--100688047 Score: 168
Period size: 53 Copynumber: 2.5 Consensus size: 58
100687897 TCGGCCGAAG
*
100687907 CCGAAACAGTAATAGTAACAGTAGCAGTACGGTACATAGAGTACCTCATC-GAAACAAAT
1 CCGAAACAGTAATAGTAACAGTA-CAGTACGGTACACAGAGTACCTCATCAG-AACAAAT
*
100687966 CCGAAACAGTAACAGTAACA-T----TACGGTACACAGAGTACCTCATCAGAACAAAT
1 CCGAAACAGTAATAGTAACAGTACAGTACGGTACACAGAGTACCTCATCAGAACAAAT
** *
100688019 TTGAAACAGTAATAGTAACGGTAACAGTA
1 CCGAAACAGTAATAGTAACAGT-ACAGTA
100688048 ACAATATCCG
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
53 45 0.65
54 2 0.03
58 1 0.01
59 21 0.30
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (58 bp):
CCGAAACAGTAATAGTAACAGTACAGTACGGTACACAGAGTACCTCATCAGAACAAAT
Found at i:100688437 original size:2 final size:2
Alignment explanation
Indices: 100688430--100688454 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100688420 TTGAAACATT
100688430 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 T
100688455 TCATAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100689211 original size:12 final size:12
Alignment explanation
Indices: 100689165--100689202 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
100689155 CAATTTTCCC
*
100689165 TTTCTTCTTTCT
1 TTTCTCCTTTCT
100689177 TTTCTCCTTTCT
1 TTTCTCCTTTCT
100689189 TTTCTCCTTTCT
1 TTTCTCCTTTCT
100689201 TT
1 TT
100689203 CTTTCTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTCCTTTCT
Found at i:100689284 original size:2 final size:2
Alignment explanation
Indices: 100689279--100689314 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
100689269 ATTAAACCAT
100689279 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100689315 ATAACTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100691750 original size:22 final size:22
Alignment explanation
Indices: 100691724--100691765 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
100691714 ATAATTTAAA
100691724 ATATAAATTTATTAATATATAT
1 ATATAAATTTATTAATATATAT
100691746 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
100691766 GTAAAAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATAAATTTATTAATATATAT
Found at i:100693141 original size:16 final size:17
Alignment explanation
Indices: 100693120--100693152 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100693110 TGCGTAATAG
*
100693120 AATAAAA-AAAAGCTAA
1 AATAAAAGAAAACCTAA
100693136 AATAAAAGAAAACCTAA
1 AATAAAAGAAAACCTAA
100693153 TGCTAGAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.73, C:0.09, G:0.06, T:0.12
Consensus pattern (17 bp):
AATAAAAGAAAACCTAA
Found at i:100693753 original size:17 final size:18
Alignment explanation
Indices: 100693733--100693766 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
100693723 AAATTTGATA
100693733 ATAAAAAAATAA-AAATT
1 ATAAAAAAATAAGAAATT
*
100693750 ATAAATAAATAAGAAAT
1 ATAAAAAAATAAGAAAT
100693767 AGAAATTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAAAAAAATAAGAAATT
Found at i:100694243 original size:8 final size:8
Alignment explanation
Indices: 100694230--100694254 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
100694220 AAAAATTCAG
100694230 AATAATAA
1 AATAATAA
100694238 AATAATAA
1 AATAATAA
100694246 AATAATAA
1 AATAATAA
100694254 A
1 A
100694255 CGCTGATAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAATAA
Found at i:100695635 original size:26 final size:26
Alignment explanation
Indices: 100695601--100695665 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
100695591 TAATCTTTTG
100695601 AAAAGCCTTTGTGGCATGTCACTTGA
1 AAAAGCCTTTGTGGCATGTCACTTGA
* * * *
100695627 AAAAACCTTTTTGGCATGTCATTTGG
1 AAAAGCCTTTGTGGCATGTCACTTGA
100695653 AAAAGCCTTTGTG
1 AAAAGCCTTTGTG
100695666 CCTAATCTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (26 bp):
AAAAGCCTTTGTGGCATGTCACTTGA
Found at i:100699396 original size:19 final size:19
Alignment explanation
Indices: 100699347--100699398 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
100699337 GCAGGTCATC
*
100699347 GGCCATATTTGATCTCAAT
1 GGCCATATTTGGTCTCAAT
100699366 GGCCATATTTGGTCTCAAT
1 GGCCATATTTGGTCTCAAT
100699385 GGCCATATTTGGTC
1 GGCCATATTTGGTC
100699399 CAACAACTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
GGCCATATTTGGTCTCAAT
Found at i:100708236 original size:32 final size:32
Alignment explanation
Indices: 100708195--100708259 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
100708185 AGTCACAACT
100708195 TCAAATATGAATTATAAAATGAACATGAAAAG
1 TCAAATATGAATTATAAAATGAACATGAAAAG
100708227 TCAAATATGAATTATAAAATGAACATGAAAAG
1 TCAAATATGAATTATAAAATGAACATGAAAAG
100708259 T
1 T
100708260 TAAAAAAATA
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:0.55, C:0.06, G:0.12, T:0.26
Consensus pattern (32 bp):
TCAAATATGAATTATAAAATGAACATGAAAAG
Found at i:100710201 original size:7 final size:8
Alignment explanation
Indices: 100710159--100710199 Score: 50
Period size: 7 Copynumber: 5.2 Consensus size: 8
100710149 TAAGTATAAG
100710159 ATAT-TTA
1 ATATATTA
100710166 ATATATATA
1 ATATAT-TA
100710175 ATATATTA
1 ATATATTA
*
100710183 TTATATTA
1 ATATATTA
100710191 AT-TATTA
1 ATATATTA
100710198 AT
1 AT
100710200 TAATTGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 11 0.37
8 11 0.37
9 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATATATTA
Found at i:100710285 original size:12 final size:11
Alignment explanation
Indices: 100710268--100710303 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
100710258 ACGAAATTGG
100710268 GGAAAGAAAGAA
1 GGAAAGAAA-AA
100710280 GGAAAGAAAAA
1 GGAAAGAAAAA
*
100710291 GAAAAGAAAAA
1 GGAAAGAAAAA
100710302 GG
1 GG
100710304 GAAAATTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (11 bp):
GGAAAGAAAAA
Found at i:100717300 original size:20 final size:19
Alignment explanation
Indices: 100717260--100717301 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
100717250 TTTTTAGAAT
* *
100717260 TTTTTTTAAAAAATTACAA
1 TTTTTCTAAAAAATTAAAA
100717279 TTTTTCTAAAAAATATAAAA
1 TTTTTCTAAAAAAT-TAAAA
100717299 TTT
1 TTT
100717302 GATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTTCTAAAAAATTAAAA
Found at i:100717473 original size:23 final size:23
Alignment explanation
Indices: 100717447--100717490 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
100717437 AACTCATATT
*
100717447 ACTT-ATTCGAGTTGACTCGAATA
1 ACTTGATTCGA-TTAACTCGAATA
100717470 ACTTGATTCGATTAACTCGAA
1 ACTTGATTCGATTAACTCGAA
100717491 ATTCGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (23 bp):
ACTTGATTCGATTAACTCGAATA
Found at i:100720393 original size:8 final size:9
Alignment explanation
Indices: 100720352--100720403 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
100720342 ATGTTTTCTA
100720352 ATAATTTTT
1 ATAATTTTT
100720361 ATAAGTTTTT
1 ATAA-TTTTT
**
100720371 A-AAAATTT
1 ATAATTTTT
100720379 ATAATTTTT
1 ATAATTTTT
100720388 AT-ATTTTT
1 ATAATTTTT
*
100720396 AAAATTTT
1 ATAATTTT
100720404 GTGATTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 11 0.31
9 18 0.51
10 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:100720612 original size:27 final size:27
Alignment explanation
Indices: 100720577--100720639 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
100720567 AAGTTGTCTA
*
100720577 ATAA-TTTTTATCAGTTTTTACATGTTT
1 ATAACTTTTAATCA-TTTTTACATGTTT
* *
100720604 ATAACTTTTAAATCATTTTTATATTTTT
1 ATAACTTTT-AATCATTTTTACATGTTT
*
100720632 AAAACTTT
1 ATAACTTT
100720640 AAAGGTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.13
28 22 0.73
29 4 0.13
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (27 bp):
ATAACTTTTAATCATTTTTACATGTTT
Found at i:100725947 original size:6 final size:6
Alignment explanation
Indices: 100725936--100725961 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
100725926 ACGTTTGTGG
100725936 AAAAGA AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AA
100725962 TCTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:100726388 original size:10 final size:10
Alignment explanation
Indices: 100726373--100726422 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
100726363 TAATTTTAGG
100726373 ATTTAT-TTT
1 ATTTATCTTT
100726382 CATTTATCTTT
1 -ATTTATCTTT
*
100726393 AATTATCTTT
1 ATTTATCTTT
100726403 ATTTAT-TTGT
1 ATTTATCTT-T
100726413 ATTTATCTTT
1 ATTTATCTTT
100726423 TAGAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:100731578 original size:21 final size:21
Alignment explanation
Indices: 100731552--100731600 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
100731542 AAATTAACAC
100731552 GGGCGTGAGGCTTGCATACAT
1 GGGCGTGAGGCTTGCATACAT
100731573 GGGCGTGAGGCTTGCATACAT
1 GGGCGTGAGGCTTGCATACAT
100731594 GGGCGTG
1 GGGCGTG
100731601 GGAGAAGCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.43, T:0.22
Consensus pattern (21 bp):
GGGCGTGAGGCTTGCATACAT
Found at i:100745460 original size:5 final size:5
Alignment explanation
Indices: 100745450--100745479 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
100745440 TTCTGAAACT
100745450 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
100745480 AGAGAGGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:100751739 original size:2 final size:2
Alignment explanation
Indices: 100751732--100751757 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
100751722 TTAGAAAATT
100751732 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
100751758 AATTAAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100753136 original size:19 final size:20
Alignment explanation
Indices: 100753109--100753158 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
100753099 TACAATTTCT
*
100753109 TTTAATTTTTT-AATAATT-
1 TTTACTTTTTTAAATAATTA
100753127 TTATACTTTTTTAAATAATTA
1 TT-TACTTTTTTAAATAATTA
100753148 TTTACTTTTTT
1 TTTACTTTTTT
100753159 TTTTTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 8 0.29
20 16 0.57
21 2 0.07
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTACTTTTTTAAATAATTA
Found at i:100763534 original size:33 final size:33
Alignment explanation
Indices: 100763492--100763554 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
100763482 AGGAAACATT
100763492 ATGATTAAGGGTATTAATAAGATTGACTATATC
1 ATGATTAAGGGTATTAATAAGATTGACTATATC
*
100763525 ATGATTAAGGGTATTAATAAGTTTGACTAT
1 ATGATTAAGGGTATTAATAAGATTGACTAT
100763555 CTTGGGATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (33 bp):
ATGATTAAGGGTATTAATAAGATTGACTATATC
Found at i:100763564 original size:33 final size:33
Alignment explanation
Indices: 100763494--100763568 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
100763484 GAAACATTAT
*
100763494 GATTAAGGGTATTAATAAGATTGACTATATCAT
1 GATTAAGGGTATTAATAAGATTGACTATATCAG
* * **
100763527 GATTAAGGGTATTAATAAGTTTGACTATCTTGG
1 GATTAAGGGTATTAATAAGATTGACTATATCAG
100763560 GATTAAGGG
1 GATTAAGGG
100763569 AAGCGGTGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (33 bp):
GATTAAGGGTATTAATAAGATTGACTATATCAG
Found at i:100764212 original size:25 final size:25
Alignment explanation
Indices: 100764184--100764235 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
100764174 TTTGGCTTGA
**
100764184 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
100764209 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
100764234 CA
1 CA
100764236 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:100765484 original size:11 final size:11
Alignment explanation
Indices: 100765468--100765492 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
100765458 TTCAGCTGGC
100765468 GAAAATGAAGA
1 GAAAATGAAGA
100765479 GAAAATGAAGA
1 GAAAATGAAGA
100765490 GAA
1 GAA
100765493 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:100770506 original size:24 final size:24
Alignment explanation
Indices: 100770479--100770528 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
100770469 TTCCCCACAT
* * *
100770479 AAATCTAGTTTCTTCTCCCAGTTA
1 AAATCTACTATCTTCTCCCAATTA
*
100770503 AAATCTACTATCTTTTCCCAATTA
1 AAATCTACTATCTTCTCCCAATTA
100770527 AA
1 AA
100770529 CTATGATTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATCTACTATCTTCTCCCAATTA
Found at i:100771117 original size:23 final size:23
Alignment explanation
Indices: 100771091--100771135 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
100771081 AAAATTTTAA
*
100771091 TTAAATTTTAAAGAAAACATAAG
1 TTAAAGTTTAAAGAAAACATAAG
**
100771114 TTAAAGTTTAATTAAAACATAA
1 TTAAAGTTTAAAGAAAACATAA
100771136 AATAAACATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
TTAAAGTTTAAAGAAAACATAAG
Found at i:100779779 original size:15 final size:13
Alignment explanation
Indices: 100779747--100779771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100779737 AAGAGTTTCA
100779747 AAAGAAATGTATC
1 AAAGAAATGTATC
100779760 AAAGAAATGTAT
1 AAAGAAATGTAT
100779772 ATCGAAGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.16, T:0.24
Consensus pattern (13 bp):
AAAGAAATGTATC
Found at i:100784457 original size:13 final size:13
Alignment explanation
Indices: 100784439--100784513 Score: 50
Period size: 13 Copynumber: 5.7 Consensus size: 13
100784429 GAATAAATAA
*
100784439 AAGAAAGAGAAAC
1 AAGAAAAAGAAAC
100784452 AAGAAAAAGAAAC
1 AAGAAAAAGAAAC
100784465 AGAGAAGAAACGAAA-
1 A-AGAA-AAA-GAAAC
* *
100784480 TAGAAAGAAAGAAAG
1 AAG-AA-AAAGAAAC
100784495 AAG-AAAAG-AA-
1 AAGAAAAAGAAAC
100784505 AAGAAAAAG
1 AAGAAAAAG
100784514 GAGAAATTAG
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
10 3 0.06
11 7 0.13
12 4 0.08
13 14 0.26
14 10 0.19
15 11 0.21
16 4 0.08
ACGTcount: A:0.72, C:0.04, G:0.23, T:0.01
Consensus pattern (13 bp):
AAGAAAAAGAAAC
Found at i:100784519 original size:26 final size:26
Alignment explanation
Indices: 100784457--100784510 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
100784447 GAAACAAGAA
* * *
100784457 AAAGAAACAGAGAAGAAACGAAATAG
1 AAAGAAAGAAAGAAGAAAAGAAATAG
100784483 AAAGAAAGAAAGAAGAAAAGAAA-AG
1 AAAGAAAGAAAGAAGAAAAGAAATAG
100784508 AAA
1 AAA
100784511 AAGGAGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.02
Consensus pattern (26 bp):
AAAGAAAGAAAGAAGAAAAGAAATAG
Found at i:100788333 original size:2 final size:2
Alignment explanation
Indices: 100788326--100788352 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
100788316 GTAAGTAATG
100788326 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 T
100788353 GAATAGTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100788997 original size:25 final size:25
Alignment explanation
Indices: 100788967--100789045 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 25
100788957 GCCCTCTCTC
100788967 GAGCCATATAATAGGAAGCTCATGT
1 GAGCCATATAATAGGAAGCTCATGT
* ** * *
100788992 GAGCCATGTAACGGGAAGCTTATCT
1 GAGCCATATAATAGGAAGCTCATGT
* **
100789017 GGGCTGTATAATAGGAAGCTCATGT
1 GAGCCATATAATAGGAAGCTCATGT
100789042 GAGC
1 GAGC
100789046 TAATAACGGG
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (25 bp):
GAGCCATATAATAGGAAGCTCATGT
Found at i:100797623 original size:147 final size:147
Alignment explanation
Indices: 100797444--100797723 Score: 320
Period size: 147 Copynumber: 1.9 Consensus size: 147
100797434 CACAAACGCC
* * ** ***
100797444 ATCTAATGAGCAATGCAAATGCCTTTTGCTATTGATTC-TTGTTCTATATTTCATTC-CAACTTG
1 ATCTAATGAACAATGCAAATGCATTTCACTATTGATTCAACATTCTATATTTCATTCAC-A-TT-
** * *
100797507 TAT-CTATATCTTATGTTAC-GATTTTGG-GGGAAGATGCCGAA-ATGAATACCGTTCTGCCATG
63 TATGCTATATCTTACATTACGGA--TTGGAGGAAAGATGCC-AAGATGAATACCGTTCTACCATG
100797568 ATTGAATTCTAATGCCTTCGTTT
125 ATTGAATTCTAATGCCTTCGTTT
**
100797591 ATCTAATGAACAATGCAAATTTATTTCACTATTGATTCAACATTCTATATTTCATTCACATTTAT
1 ATCTAATGAACAATGCAAATGCATTTCACTATTGATTCAACATTCTATATTTCATTCACATTTAT
* * *
100797656 GTTATATCTTACATTACGGATTGGAGGAAAGATGCCAAGGTGAATACTGTTCTACCATGATTGAA
66 GCTATATCTTACATTACGGATTGGAGGAAAGATGCCAAGATGAATACCGTTCTACCATGATTGAA
100797721 TTC
131 TTC
100797724 AAACACTTTT
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
146 9 0.08
147 83 0.75
148 18 0.16
149 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (147 bp):
ATCTAATGAACAATGCAAATGCATTTCACTATTGATTCAACATTCTATATTTCATTCACATTTAT
GCTATATCTTACATTACGGATTGGAGGAAAGATGCCAAGATGAATACCGTTCTACCATGATTGAA
TTCTAATGCCTTCGTTT
Found at i:100799063 original size:16 final size:16
Alignment explanation
Indices: 100799026--100799081 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
100799016 AATTGAATTG
*
100799026 CCATTACAATTCTATT
1 CCATTACAACTCTATT
**
100799042 TTATTACAACTCTATT
1 CCATTACAACTCTATT
* *
100799058 CCATTACAGCCCTATT
1 CCATTACAACTCTATT
*
100799074 CAATTACA
1 CCATTACA
100799082 CTGAATCAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.39
Consensus pattern (16 bp):
CCATTACAACTCTATT
Found at i:100804817 original size:20 final size:18
Alignment explanation
Indices: 100804792--100804839 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
100804782 AGATTTGAGG
*
100804792 AAGAAAATGCAAAGAAAGTT
1 AAGAAAATG-AAA-AAAATT
100804812 AAGAAAGCATGAAAAAAATT
1 AAGAAA--ATGAAAAAAATT
100804832 AAGAAAAT
1 AAGAAAAT
100804840 TTGGGTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
20 17 0.68
21 3 0.12
22 3 0.12
ACGTcount: A:0.65, C:0.04, G:0.17, T:0.15
Consensus pattern (18 bp):
AAGAAAATGAAAAAAATT
Found at i:100819012 original size:18 final size:18
Alignment explanation
Indices: 100818989--100819029 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
100818979 TTGTTCTTTA
100818989 TTCTTTTTCATTTCGTAT
1 TTCTTTTTCATTTCGTAT
* * *
100819007 TTCTTTTTCTTTTTGTTT
1 TTCTTTTTCATTTCGTAT
100819025 TTCTT
1 TTCTT
100819030 GCTTTCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.76
Consensus pattern (18 bp):
TTCTTTTTCATTTCGTAT
Found at i:100819653 original size:19 final size:20
Alignment explanation
Indices: 100819604--100819653 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
100819594 TTTCTTAGTT
*
100819604 TTTTAA-ATTCTTTTACTCTT
1 TTTTAATATT-TTTTACTCTA
*
100819624 TTTTTAT-TTTTTTA-TCTA
1 TTTTAATATTTTTTACTCTA
100819642 TTTTAATATTTT
1 TTTTAATATTTT
100819654 ACGTTCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 9 0.36
19 9 0.36
20 7 0.28
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTAATATTTTTTACTCTA
Found at i:100820591 original size:130 final size:127
Alignment explanation
Indices: 100820342--100820779 Score: 506
Period size: 130 Copynumber: 3.4 Consensus size: 127
100820332 AACATAAGGA
* * *
100820342 AATATCTCGTATTTGGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTCTTTTCATT
1 AATATTTCGTATTT-GGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
*
100820407 CGACTAAAATACGGAATATCC-TTTGAAAATTTCATCCATGTTTTTTTTAAAAAATAAAATGAGG
65 CGACTAAAATACGGAATATCCTTTTGAAAATTTCATCCATG-TTTTCTT--AAAATAAAATGAGG
*
100820471 T
127 C
* *
100820472 AATATTTCGTATTTGGAGAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCGTTTTTTTCGTT
1 AATATTTCGTATTTGGA-AGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
* * * *
100820537 CGACTAAAATATGGAATATCCTTTTTTGAAATTTTCATCCACGTTTTCTTAAAATAAAATGAGGG
65 CGACTAAAATACGGAATATCC--TTTTGAAAATTTCATCCATGTTTTCTTAAAATAAAATGAGGC
** * * ** *
100820602 AATATTTCGTGCTTGGAAGTTTG-GGGAGTCGTGCCCAATCGTGCTGGGCTTC-AATTTTCCATT
1 AATATTTCGTATTTGGAAGTTTGAGAGA-TCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
** * * * *
100820665 CGACTAAAATACAAAATATCCTTTTG-AAGTTTCGTCCTTGTTTTCTTAAATTAAAATGAGGC
65 CGACTAAAATACGGAATATCCTTTTGAAAATTTCATCCATGTTTTCTTAAAATAAAATGAGGC
* * * * * *
100820727 AATGTTTCGTATTTGGAAATTCGATAAATTGTGCCCAATCGTGCTGGGTTTCG
1 AATATTTCGTATTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCG
100820780 ATTTACCGTT
Statistics
Matches: 263, Mismatches: 38, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
125 70 0.27
126 6 0.02
128 28 0.11
129 30 0.11
130 106 0.40
132 6 0.02
133 17 0.06
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (127 bp):
AATATTTCGTATTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTCATTC
GACTAAAATACGGAATATCCTTTTGAAAATTTCATCCATGTTTTCTTAAAATAAAATGAGGC
Found at i:100822256 original size:46 final size:46
Alignment explanation
Indices: 100822189--100822393 Score: 119
Period size: 46 Copynumber: 4.6 Consensus size: 46
100822179 GGAGTGGAAT
* *
100822189 AGATCAAATTTCGAC-AGATCTTATCTTCGCTGAGCAGGAGCGGAGC
1 AGATCAAATTTTGGCGA-ATCTTATCTTCGCTGAGCAGGAGCGGAGC
* **
100822235 AGATCAAATTTTGGCGAATCTTATC-TC-CATGTATC-GGCATTGGAGC
1 AGATCAAATTTTGGCGAATCTTATCTTCGC-TG-AGCAGG-AGCGGAGC
* * * * * *
100822281 AGAT----TTTAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGC
1 AGATCAAATTTTGGC-GAA-TCTTATCTTCGCTGAGCAGGAGCGGAGC
* ** *
100822325 AG-GCTAAATACT--AG-ATCTTATCTTCGCTGAGCAGGAGCGGAGC
1 AGATC-AAATTTTGGCGAATCTTATCTTCGCTGAGCAGGAGCGGAGC
*
100822368 AGATCAAATTTTGGTGAATCTTATCT
1 AGATCAAATTTTGGCGAATCTTATCT
100822394 CCATGTATCG
Statistics
Matches: 117, Mismatches: 24, Indels: 36
0.66 0.14 0.20
Matches are distributed among these distances:
42 5 0.04
43 34 0.29
44 20 0.17
45 13 0.11
46 43 0.37
47 1 0.01
48 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (46 bp):
AGATCAAATTTTGGCGAATCTTATCTTCGCTGAGCAGGAGCGGAGC
Found at i:100822442 original size:133 final size:133
Alignment explanation
Indices: 100822204--100822913 Score: 1044
Period size: 133 Copynumber: 5.3 Consensus size: 133
100822194 AAATTTCGAC
*
100822204 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
* *
100822269 CGGCATTGGAGCAGATTTTAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
66 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
100822334 ACT
131 ACT
* *
100822337 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
*
100822402 CGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAC
66 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-
*
100822467 ATACC
129 ATACT
* * *
100822472 AGATCTTATCTTCACTGAGTAGGAGTGAAGCAGATCAAATTTTGGC-AAGTCTTATCTCCATGTA
1 AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCGAA-TCTTATCTCCATGTA
* * *
100822536 TCAGTATTGGAGCAGATTTCAGCCACCAGCCTTAGCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 TCGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
100822601 TACT
130 TACT
* *
100822605 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATTTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
* * *
100822670 CGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTATAT
66 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
100822735 ACT
131 ACT
** * ** *
100822738 AGATCTTATCTTCGCCAAGCAGGAGCAAAGCAGATCAAATTTTGATGAATCTTATCTCTATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
* * * * ** *
100822803 CAGCAATAGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAC
66 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-
*
100822868 ATACC
129 ATACT
** **
100822873 AGATCTTATCTTTACTGAGCAGGAGTAAAGCAGATCAAATT
1 AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATT
100822914 ACAGTAGATC
Statistics
Matches: 521, Mismatches: 50, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
133 354 0.68
134 9 0.02
135 158 0.30
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (133 bp):
AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
ACT
Found at i:100822456 original size:44 final size:44
Alignment explanation
Indices: 100822408--100822594 Score: 130
Period size: 44 Copynumber: 4.2 Consensus size: 44
100822398 GTATCGGCAA
100822408 TGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAG
1 TGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAG
** * * * * *
100822452 TGGAGCAG-GCTAAACATACCAGATCTTATCTTCACTGAGTAGGAG
1 TGGAGCAGATTTCAGC-CACCAG-CCTTATCTTCACTGAGCAGGAG
* ** * * * * * *
100822497 TGAAGCAGATCAAATTTTGGCA--AGTCTTATCTCCA-TGTATCAGTAT
1 TGGAGCAGAT----TTCAGCCACCAGCCTTATCTTCACTG-AGCAGGAG
*
100822543 TGGAGCAGATTTCAGCCACCAGCCTTAGCTTCACTGAGCAGGAG
1 TGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAG
100822587 TGGAGCAG
1 TGGAGCAG
100822595 GCTAAATACT
Statistics
Matches: 102, Mismatches: 30, Indels: 22
0.66 0.19 0.14
Matches are distributed among these distances:
42 5 0.05
43 3 0.03
44 36 0.35
45 31 0.30
46 23 0.23
47 2 0.02
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (44 bp):
TGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAG
Found at i:100822682 original size:268 final size:265
Alignment explanation
Indices: 100822203--100822913 Score: 1055
Period size: 268 Copynumber: 2.7 Consensus size: 265
100822193 CAAATTTCGA
*
100822203 CAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTA
1 CAGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGC-AATCTTATCTCCATGTA
* * *
100822268 TCGGCATTGGAGCAGATTTTAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 TCAGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
*
100822333 TACTAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCAT
130 TACTAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCAT
* *
100822398 GTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT
195 GTATCGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCT
100822463 AAACATAC
260 --ACATAC
* * *
100822471 CAGATCTTATCTTCACTGAGTAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTA
1 CAGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCAA-TCTTATCTCCATGTA
* *
100822536 TCAGTATTGGAGCAGATTTCAGCCACCAGCCTTAGCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 TCAGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
*
100822601 TACTAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATTTCCAT
130 TACTAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCAT
*
100822666 GTATCGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCT
195 GTATCGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCT
*
100822731 ATATAC
260 ACATAC
* ** * *
100822737 TAGATCTTATCTTCGCCAAGCAGGAGCAAAGCAGATCAAATTTTGATG-AATCTTATCTCTATGT
1 CAGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTG--GCAATCTTATCTCCATGT
* * * ** *
100822801 ATCAGCAATAGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
64 ATCAGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-A
* ** ***
100822866 ACATACCAGATCTTATCTTTACTGAGCAGGAGTAAAGCAGATCAAATT
128 A-ATACTAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATT
100822914 ACAGTAGATC
Statistics
Matches: 401, Mismatches: 37, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
266 111 0.28
267 6 0.01
268 284 0.71
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (265 bp):
CAGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCAATCTTATCTCCATGTAT
CAGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
ACTAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATG
TATCGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTA
CATAC
Found at i:100823201 original size:37 final size:37
Alignment explanation
Indices: 100823155--100823225 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
100823145 CTAACTTCAT
* *
100823155 CACCTTACTAAACCATCCACTACCTCCATTACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
*
100823192 CACCCTACTAAACCGTCCACTACCTCCATCACCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCC
100823226 TACTTGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.28, C:0.51, G:0.01, T:0.20
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:100823306 original size:11 final size:11
Alignment explanation
Indices: 100823292--100823324 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
100823282 GGGGATTGAG
100823292 AGAGGATTTTT
1 AGAGGATTTTT
100823303 AGAGGATTTTT
1 AGAGGATTTTT
100823314 AGAGGATTTTT
1 AGAGGATTTTT
100823325 GGGGGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (11 bp):
AGAGGATTTTT
Found at i:100823335 original size:22 final size:22
Alignment explanation
Indices: 100823292--100823335 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
100823282 GGGGATTGAG
*
100823292 AGAGGATTTTTAGAGGATTTTT
1 AGAGGATTTTTAGAGGAATTTT
* *
100823314 AGAGGATTTTTGGGGGAATTTT
1 AGAGGATTTTTAGAGGAATTTT
100823336 TTAGAGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (22 bp):
AGAGGATTTTTAGAGGAATTTT
Found at i:100823663 original size:63 final size:62
Alignment explanation
Indices: 100823540--100823659 Score: 156
Period size: 62 Copynumber: 2.0 Consensus size: 62
100823530 CCCTTTTTTA
*
100823540 TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGT
1 TTTTTGTTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTTTATATTTGT
* * * *
100823603 TTTTTTTTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATT
1 TTTTTGTTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTTTTATATT
100823660 ATTTATTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
60 15 0.29
61 4 0.08
62 20 0.39
63 12 0.24
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.63
Consensus pattern (62 bp):
TTTTTGTTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTTTATATTTGT
Found at i:100823672 original size:19 final size:18
Alignment explanation
Indices: 100823648--100823684 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
100823638 TTATGTTTCA
100823648 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
100823667 TATTATTATATATTTATT
1 TATTATTATATATTTATT
100823685 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:100823683 original size:11 final size:12
Alignment explanation
Indices: 100823648--100823703 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 12
100823638 TTATGTTTCA
100823648 TATTAT-TATAT
1 TATTATATATAT
*
100823659 TATT-TATTTAT
1 TATTATATATAT
100823670 TATTATATAT-T
1 TATTATATATAT
* *
100823681 TATTATGTA-AA
1 TATTATATATAT
100823692 TA-TATATATAT
1 TATTATATATAT
100823703 T
1 T
100823704 TTAAGCGAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
10 6 0.17
11 25 0.71
12 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
TATTATATATAT
Found at i:100823696 original size:17 final size:14
Alignment explanation
Indices: 100823656--100823686 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
100823646 CATATTATTA
*
100823656 TATTATTTATTTAT
1 TATTATATATTTAT
100823670 TATTATATATTTAT
1 TATTATATATTTAT
100823684 TAT
1 TAT
100823687 GTAAATATAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:100824378 original size:125 final size:126
Alignment explanation
Indices: 100824146--100824388 Score: 425
Period size: 125 Copynumber: 1.9 Consensus size: 126
100824136 CATTGATCTT
* *
100824146 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* *
100824211 ACGTATTGGGTTTCGCTTTCTTTGTTTATCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTAGGTTTCGCTTTCTTTGTTTATCTTGAATATTCGAATATCCTCTTACCAGTTCA
100824272 CTCT-AAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* *
100824336 ACGTACTAGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACGTACTAGGTTTCGCTTTCTTTGTTTATCTTGAATATTCGAATATCCTCTTA
100824389 AGGCTAAAAC
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 107 0.96
126 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTAGGTTTCGCTTTCTTTGTTTATCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:100824987 original size:35 final size:35
Alignment explanation
Indices: 100824944--100825018 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
100824934 TACAATCCTT
100824944 TTAC-TGCATTCATTTTGGTTCAAGTCCCCTTGCA
1 TTACATGCATTCATTTTGGTTCAAGTCCCCTTGCA
*
100824978 TTACATGCATTCATTTTGGTTTAAGTCCCCTTGCA
1 TTACATGCATTCATTTTGGTTCAAGTCCCCTTGCA
100825013 TTACAT
1 TTACAT
100825019 ATTACATGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 4 0.10
35 35 0.90
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (35 bp):
TTACATGCATTCATTTTGGTTCAAGTCCCCTTGCA
Found at i:100828667 original size:37 final size:37
Alignment explanation
Indices: 100828614--100828697 Score: 150
Period size: 37 Copynumber: 2.3 Consensus size: 37
100828604 TATAAAAGAA
100828614 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
100828651 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
100828688 GTCTCACCCG
1 GTCTTACCCG
100828698 AAACATATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:100828859 original size:49 final size:49
Alignment explanation
Indices: 100828800--100829149 Score: 517
Period size: 49 Copynumber: 7.4 Consensus size: 49
100828790 TTTTACATTA
*
100828800 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* *
100828849 GCCGTTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* *
100828898 GCCATTGGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* *
100828947 GCCATTGGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* *
100828996 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
100829045 GCCATTAGGCC---T----TAT-C--ACA--TTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
100829082 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
100829131 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
100829150 CATATATGTA
Statistics
Matches: 279, Mismatches: 10, Indels: 24
0.89 0.03 0.08
Matches are distributed among these distances:
37 29 0.10
39 2 0.01
40 1 0.00
41 1 0.00
42 3 0.01
44 3 0.01
45 1 0.00
46 1 0.00
47 3 0.01
49 235 0.84
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
Done.