Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 93 of 345
Found at i:30618550 original size:13 final size:13
Alignment explanation
Indices: 30618506--30618550 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
30618496 CGCCGAGGTA
30618506 TTTTTAATTTCTG
1 TTTTTAATTTCTG
30618519 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
30618533 CTTTTAATTTCTG
1 TTTTTAATTTCTG
30618546 TTTTT
1 TTTTT
30618551 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:30618615 original size:100 final size:97
Alignment explanation
Indices: 30618447--30618814 Score: 391
Period size: 100 Copynumber: 3.8 Consensus size: 97
30618437 CAATTTATAC
* * * * *
30618447 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTTA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
30618512 ATTTCTGTTTTTCAATTTCTGCTTTTAATTTCTGT
66 ATTTCTGTTTTTCAATTT-T-CTTTTAATTTCT-T
* *
30618547 TTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
** * *
30618612 ATTTCTGTTTTTCAATTTTTACCTTACAAATTCTAC
66 ATTTCTGTTTTTCAA-TTTT--CTTTTAATTTCT-T
* *
30618648 TTTTC--AAATCAATTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
*
30618711 A-------TTTTC-A-TTT-TTTTAATTTATT
66 ATTTCTGTTTTTCAATTTTCTTTTAATTTCTT
* * * *
30618733 TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTT
1 TTT-T-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
* *
30618798 CAATTTTTGTTTGTCAA
64 CAATTTCTGTTTTTCAA
30618815 AACTCAACTC
Statistics
Matches: 229, Mismatches: 25, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
85 3 0.01
86 8 0.03
89 57 0.25
91 1 0.00
92 5 0.02
96 4 0.02
97 1 0.00
99 57 0.25
100 76 0.33
101 17 0.07
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (97 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
ATTTCTGTTTTTCAATTTTCTTTTAATTTCTT
Found at i:30619122 original size:220 final size:220
Alignment explanation
Indices: 30618731--30619442 Score: 950
Period size: 220 Copynumber: 3.2 Consensus size: 220
30618721 TTTTAATTTA
* *
30618731 TTTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGCTGAGGTAAT
1 TTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGCTGAGGTAAT
* * * * *
30618796 TTCAATTTTTGTTTGTCAAAACTCAACTCATATTGTGAAAGGTGAGTTGAGCCTCAAGACACATT
63 TTAAATTTTT-TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
30618861 GAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTC
127 GAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTC
* * *
30618926 AAGACAAGTTGAGGTATTTTCAATTTCTG
192 AAGACACGCTGAGGTGTTTTCAATTTCTG
* * * *
30618955 TTTTTTAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAGGTAATTTA
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTAATTTA
*
30619020 AATTTTTTTTGTCAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
66 AATTTTTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
30619085 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAA-A
131 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
30619149 -ACGCTGAGGTGTTTTCAATTTCTG
196 CACGCTGAGGTGTTTTCAATTTCTG
* * **
30619173 TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC----AACACGCTGAGGTAA
* * * *
30619238 TTTCAACTTCTGTTTT-TCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAGGACA
62 TTT-AAATT-TTTTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * *
30619302 CGTTGAGGTAGTTTT-AATTTCTAT-TCATC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
123 CGTTGAGGTA-TTTTCAATTTCTGTCT-TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTG
* ** *
30619364 AGCCTCGGGTCACACGCTGAGGTGTTTTCAATTTATG
186 AACCTCAAG--ACACGCTGAGGTGTTTTCAATTTCTG
*
30619401 TTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
30619443 TCTCGGGCCA
Statistics
Matches: 436, Mismatches: 38, Indels: 24
0.88 0.08 0.05
Matches are distributed among these distances:
218 63 0.14
219 1 0.00
220 115 0.26
221 23 0.05
222 14 0.03
223 43 0.10
224 48 0.11
225 61 0.14
226 4 0.01
227 1 0.00
228 63 0.14
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (220 bp):
TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTAATTTA
AATTTTTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
CACGCTGAGGTGTTTTCAATTTCTG
Found at i:30619261 original size:77 final size:75
Alignment explanation
Indices: 30618731--30619482 Score: 873
Period size: 75 Copynumber: 10.1 Consensus size: 75
30618721 TTTTAATTTA
* * *
30618731 TTTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGCTGAGGTAAT
1 TTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
*
30618796 TTCAATTTTTG
65 TTCAATTTCTG
* * * * * **
30618807 TTTGTC--AAAACTCAACTCATATTGTGAAAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
30618870 TCAATTTCTG
66 TCAATTTCTG
* * * * * * *
30618880 TCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAAGTTGAGGTATTT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
30618945 TCAATTTCTG
66 TCAATTTCTG
* * * * *
30618955 TTTTTTAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA--AGACGCTGAGGTAATT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
*
30619018 TAAATTT-T-
66 TCAATTTCTG
* * *
30619026 TTTTGTC--AAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
1 TTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
30619089 TTCAATTTCTG
65 TTCAATTTCTG
* * * * *
30619100 TCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AAACGCTGAGGTGTTT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
30619163 TCAATTTCTG
66 TCAATTTCTG
* * *
30619173 TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAT
*
30619238 TTTCAACTTCTG
64 TTTCAATTTCTG
* *
30619250 TTTTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAGTT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TT
*
30619315 TT-AATTTCTA
65 TTCAATTTCTG
** * *
30619325 TTCATC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAT
*
30619389 TTTCAATTTATG
64 TTTCAATTTCTG
* * * *
30619401 TTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACG-TCGAGGTC
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTA
* *
30619465 CTTTCAAATTCTG
63 TTTTCAATTTCTG
30619478 TTTTT
1 TTTTT
30619483 AATATCTTTT
Statistics
Matches: 581, Mismatches: 76, Indels: 37
0.84 0.11 0.05
Matches are distributed among these distances:
70 36 0.06
71 4 0.01
72 21 0.04
73 146 0.25
74 43 0.07
75 164 0.28
76 31 0.05
77 136 0.23
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (75 bp):
TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
TCAATTTCTG
Found at i:30619569 original size:88 final size:87
Alignment explanation
Indices: 30619513--30619756 Score: 266
Period size: 88 Copynumber: 2.8 Consensus size: 87
30619503 ATGTGTTTCA
* *
30619513 AAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCATTTCT
1 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCAATTTCT
*
30619578 ATTTTCAATTTCTATTTTAATTC
66 ATTTTCAATTTCTATTGT-ATTC
* * * * *
30619601 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCCGTTAAGGTATTTTCAA-TT
1 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTCAAGA--CGCTGAGGTGTTTTCAATTT
* ** * *
30619665 -TGTGCTCAATTTATGTT-T-TTC
64 CTATTTTCAATTTCTATTGTATTC
* * * *
30619686 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-ACATGCTGAGGTGTTTTCAATTTCT
1 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCAATTTCT
30619749 ATTTTCAA
66 ATTTTCAA
30619757 AAAATCAACT
Statistics
Matches: 132, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
81 13 0.10
82 2 0.02
83 8 0.06
84 38 0.29
85 3 0.02
87 1 0.01
88 52 0.39
89 2 0.02
90 13 0.10
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (87 bp):
AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCAATTTCT
ATTTTCAATTTCTATTGTATTC
Found at i:30619588 original size:13 final size:13
Alignment explanation
Indices: 30619566--30619599 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
30619556 CGCTGAGGTG
*
30619566 TTTTCCATTTCTA
1 TTTTCAATTTCTA
30619579 TTTTCAATTTCTA
1 TTTTCAATTTCTA
30619592 TTTT-AATT
1 TTTTCAATT
30619600 CAAAAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTCAATTTCTA
Found at i:30620027 original size:151 final size:152
Alignment explanation
Indices: 30619686--30620125 Score: 605
Period size: 151 Copynumber: 2.9 Consensus size: 152
30619676 TATGTTTTTC
*
30619686 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C---TCACATGCTGAGGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
* * **
30619746 TCT-ATTTTC-AAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTTGGCTTACACGCTGAG
66 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGACACGCTGAG
*
30619809 GTATTTTTCAATTTCTGTTTGTCAAA
128 GTAGTTTTCAATTTCTG-TTGTCAAA
* *
30619835 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAACT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
* * *
30619900 TCTGTTTTTCAAAAAAATCAACTAATGTTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
66 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGT
30619965 AGTTTT-AATTTCTG-T-TCATAA
130 AGTTTTCAATTTCTGTTGTCA-AA
30619986 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
* * * *
30620051 TATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGT
66 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGT
30620116 A-TTTTCAATT
130 AGTTTTCAATT
30620126 AATGTTTTTT
Statistics
Matches: 260, Mismatches: 21, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
149 33 0.13
150 8 0.03
151 129 0.50
153 9 0.03
154 41 0.16
155 6 0.02
156 34 0.13
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (152 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTA
GTTTTCAATTTCTGTTGTCAAA
Found at i:30620083 original size:77 final size:77
Alignment explanation
Indices: 30619670--30620134 Score: 582
Period size: 77 Copynumber: 6.2 Consensus size: 77
30619660 CAATTTGTGC
* *
30619670 TCAATTTATGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C---TCACAT
1 TCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
30619728 GCTGAGGTGTTT
66 GCTGAGGTGTTT
* * * * *
30619740 TCAATTTCT-ATTTTC-AAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTTGGCTTACAC
1 TCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
*
30619803 GCTGAGGTATTTT
66 GCTGAGGT-GTTT
* *
30619816 TCAATTTCTGTTTGTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
30619881 CGCTGAGGTGTTT
65 CGCTGAGGTGTTT
* * * **
30619894 TCAACTTCTGTTTTTCAAAAAAATCAACTAATGTTGCGAGAGGTGAGTTGAGCCTCAAG--ACAC
1 TCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
*
30619957 GTTGAGGTAGTTT
66 GCTGAGGT-GTTT
**
30619970 T-AATTTCTGTTCAT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
1 TCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
30620033 GCTGAGGTGTTT
66 GCTGAGGTGTTT
* * *
30620045 TCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--GCAT
1 TCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
*
30620108 GCTGAGGTATTT
66 GCTGAGGTGTTT
**
30620120 TCAATTAATGTTTTT
1 TCAATTTCTGTTTTT
30620135 TCAATTTATG
Statistics
Matches: 342, Mismatches: 38, Indels: 25
0.84 0.09 0.06
Matches are distributed among these distances:
69 5 0.01
70 41 0.12
71 1 0.00
74 39 0.11
75 65 0.19
76 38 0.11
77 85 0.25
78 17 0.05
79 51 0.15
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (77 bp):
TCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
GCTGAGGTGTTT
Found at i:30620267 original size:87 final size:85
Alignment explanation
Indices: 30620040--30620378 Score: 315
Period size: 88 Copynumber: 3.8 Consensus size: 85
30620030 CACGCTGAGG
**
30620040 TGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-
1 TGTTTTCAATTT-TG-TTTT---AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGT
* * *
30620104 -GCATGCTGAGGTATTTTCAATTAATG
61 CACATGCCGAGGTATTTTCAA--AATC
* * *
30620130 TTTTTTCAATTTATGCTTTTCAAGAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGGTCA
1 TGTTTTCAATTT-TG-TTTT-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCA
*
30620195 CATACCGAGGTATTTTCAAAATC
63 CATGCCGAGGTATTTTCAAAATC
* * *
30620218 TGTTTTACAAATTTTGTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCAC
1 TGTTTT-C-AATTTTGTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCAC
* * * **
30620283 GTGCTGAGCTATTTTCAATTTC
64 ATGCCGAGGTATTTTCAAAATC
* * * * *
30620305 TGTTTTTAATGTCTAGTTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGATC
1 TGTTTTCAAT-T-TTGTTTTAAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGGTC
30620369 ACATGCCGAG
62 ACATGCCGAG
30620379 TAAAGAATCA
Statistics
Matches: 209, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
85 3 0.01
86 1 0.00
87 73 0.35
88 89 0.43
89 3 0.01
90 40 0.19
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (85 bp):
TGTTTTCAATTTTGTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCACAT
GCCGAGGTATTTTCAAAATC
Found at i:30620354 original size:175 final size:175
Alignment explanation
Indices: 30620063--30620378 Score: 435
Period size: 175 Copynumber: 1.8 Consensus size: 175
30620053 TGTTTTTCAA
* * *
30620063 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATTAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCGCATGCTGAGCTATTTTCAATTAA
* *
30620128 TGTTTTTTCAATTTATGCTTTTCAAGAATCAACTCATATTACGAGAAATGAGTTGAGCCTC-GGG
66 TGTTTTTTCAATTTATGCTTTTAAAGAATCAACTCATATTACGAGAAATGAGTTGAG-CTCAGGA
30620192 TCACATACCGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT
130 TCACATACCGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT
* *
30620238 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCGCA--TGCTGAGCTATTTTCAATT
** * * *
30620303 TCTG-TTTTT-AATGTCTA-G-TTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGCTCA
64 AATGTTTTTTCAAT-T-TATGCTTTTAAAGAATCAACTCATATTACGAGAAATGAGTTGAGCTCA
*
30620364 GGATCACATGCCGAG
127 GGATCACATACCGAG
30620379 TAAAGAATCA
Statistics
Matches: 123, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
174 3 0.02
175 91 0.74
176 7 0.06
177 22 0.18
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (175 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCGCATGCTGAGCTATTTTCAATTAA
TGTTTTTTCAATTTATGCTTTTAAAGAATCAACTCATATTACGAGAAATGAGTTGAGCTCAGGAT
CACATACCGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT
Found at i:30621588 original size:24 final size:23
Alignment explanation
Indices: 30621540--30621591 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
30621530 CTTTTTTTGT
*
30621540 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
30621563 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
30621587 TATTA
1 TATTA
30621592 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:30621647 original size:27 final size:26
Alignment explanation
Indices: 30621607--30621678 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
30621597 ATTCTAAATT
*
30621607 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
30621632 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
*
30621657 CTATATTATTTATATATATATT
1 CTATATTATGTATATATATATT
30621679 TTTTCTACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 2 0.05
25 35 0.90
26 2 0.05
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:30621676 original size:29 final size:28
Alignment explanation
Indices: 30621636--30621745 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
30621626 ATTATACTAT
30621636 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
30621665 TTTATATATATATTTTTTCTAC-ATGTTA
1 TTTATGTATATA-TTTTAATACTATATTA
30621693 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
30621720 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
30621745 T
1 T
30621746 GTACATATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.14
26 7 0.11
27 6 0.09
28 11 0.17
29 27 0.41
30 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:30621746 original size:25 final size:24
Alignment explanation
Indices: 30621696--30621758 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
30621686 CATGTTATCT
*
30621696 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
30621722 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
30621747 TACATATTTTTT
1 TATGTATTTTTT
30621759 TATATCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:30621767 original size:27 final size:25
Alignment explanation
Indices: 30621701--30621772 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
30621691 TATCTTATGT
* *
30621701 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
30621725 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
30621750 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
30621773 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:30621846 original size:25 final size:24
Alignment explanation
Indices: 30621818--30621873 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
30621808 GTTATATTTT
*
30621818 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
30621843 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
30621866 CACTATTA
1 CACTATTA
30621874 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:30624661 original size:24 final size:24
Alignment explanation
Indices: 30624629--30624679 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
30624619 TCGAATGATT
30624629 GTATGTTATACTGGAGCGATGCTA
1 GTATGTTATACTGGAGCGATGCTA
*
30624653 GTATGTTATACTGGGGCGATGCTA
1 GTATGTTATACTGGAGCGATGCTA
30624677 GTA
1 GTA
30624680 AAAATGTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (24 bp):
GTATGTTATACTGGAGCGATGCTA
Found at i:30632572 original size:34 final size:35
Alignment explanation
Indices: 30632526--30632613 Score: 115
Period size: 34 Copynumber: 2.5 Consensus size: 35
30632516 CTGTTTGGTG
*
30632526 TGTTTCGATTGGACTAGCTCTTATAAGCACT-ACA
1 TGTTTCGGTTGGACTAGCTCTTATAAGCACTGACA
* * * *
30632560 TGTTTCGGTTGGACTAGCTCTTATGAGCATTGGCG
1 TGTTTCGGTTGGACTAGCTCTTATAAGCACTGACA
*
30632595 TGTTTTGGTTGGACTAGCT
1 TGTTTCGGTTGGACTAGCT
30632614 TTTGTGAGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 28 0.60
35 19 0.40
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (35 bp):
TGTTTCGGTTGGACTAGCTCTTATAAGCACTGACA
Found at i:30632606 original size:35 final size:36
Alignment explanation
Indices: 30632519--30632681 Score: 152
Period size: 36 Copynumber: 4.6 Consensus size: 36
30632509 ATACTCTCTG
* * * *
30632519 TTTGGTGTGTTTCGATTGGACTAGCTCTTATAAGCA
1 TTTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
* * * *
30632555 -CT-ACATGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TTTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
* *
30632589 -TTGGCGTGTTTTGGTTGGACTAGCTTTTGTGAGCA
1 TTTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
* ** * * *
30632624 TTTGGTGTGTTTTGGAGGGATTGGCTCATATGAGCA
1 TTTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
*
30632660 TTTGGCGTGTTATGGTTGGACT
1 TTTGGCGTGTTTTGGTTGGACT
30632682 GACAATGTAC
Statistics
Matches: 100, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
34 28 0.28
35 28 0.28
36 44 0.44
ACGTcount: A:0.16, C:0.13, G:0.31, T:0.40
Consensus pattern (36 bp):
TTTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
Found at i:30635030 original size:75 final size:75
Alignment explanation
Indices: 30634945--30635098 Score: 236
Period size: 75 Copynumber: 2.1 Consensus size: 75
30634935 GCAGTTGTCC
* * *
30634945 TATAATTTTTTGATGTCATGGGAAACATGTTGACAAAATGTTTGCAACATGTTGACTGCTTCTAT
1 TATAATTTTTTGATGTCATGGGAAACAAGTTGACAAAATGTTCGCAACATGTTGACTACTTCTAT
30635010 TAGGATTTTA
66 TAGGATTTTA
** * *
30635020 TATAATTTTTTGATGTCATGTTAAACAAGTTGACAACATGTTCGCAACTTGTTGACTACTTCTAT
1 TATAATTTTTTGATGTCATGGGAAACAAGTTGACAAAATGTTCGCAACATGTTGACTACTTCTAT
*
30635085 TAGGATTTTG
66 TAGGATTTTA
30635095 TATA
1 TATA
30635099 TAAATTACTA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (75 bp):
TATAATTTTTTGATGTCATGGGAAACAAGTTGACAAAATGTTCGCAACATGTTGACTACTTCTAT
TAGGATTTTA
Found at i:30635512 original size:38 final size:38
Alignment explanation
Indices: 30635337--30635810 Score: 422
Period size: 38 Copynumber: 13.0 Consensus size: 38
30635327 TACCTTTTCC
*
30635337 TTTTT-AAGGTTGCCTTAGAC--GGATTTATCCCAA-CT
1 TTTTTAAAGGTTGCCTTAGACAAGG-TCTATCCCAACCT
* * * *
30635372 TTTTTTAA-GTTGCCTTGGAAAAGGTCTATCACAACC-
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* * * * *
30635408 TTTTTACAA--CTG-TTTAAAC-ATGTCTATCCCAA-CA
1 TTTTTA-AAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* * *
30635442 TTTTT-AAGGTTGTCTTAGAC-GGGTCAATCCCAACCT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* *
30635478 TTTTTAAAAGTTACCTTAGACAAGGTCTATCCCAACC-
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* * * *
30635515 TTTCT-AAGGTTACCTTAGACGA-GTCTATCCTAACC-
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* *
30635550 TTTTT-AAGGTTGCTTTAGACAA-GTCTATCTCAA-CT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
**
30635585 TTTTTAAAAGGTTGCCTTAGA-TTGGTCTATCCCAACCT
1 TTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
*
30635623 TTTTTAAAGGTTGCCTTAGACAAGGTCTAACCCAA-CT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* *
30635660 TTTTTAAAAGGTTGCTTTAGAC-TGGTCTATCCCAACCT
1 TTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* *
30635698 GTTTTAAAGGTTGCCTTAGACAAGGCCTATCCCAA-CT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
**
30635735 TCTTTTAAAGGTTGCCTTAGACAAGGTCTATCTTAACCT
1 T-TTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* * *
30635774 TTTTCAAAGGTTAGCCTT-GACTAGGTCTTTCCCAACC
1 TTTTTAAAGGTT-GCCTTAGACAAGGTCTATCCCAACC
30635811 CTTCAATAAG
Statistics
Matches: 358, Mismatches: 57, Indels: 45
0.78 0.12 0.10
Matches are distributed among these distances:
32 2 0.01
33 1 0.00
34 19 0.05
35 77 0.22
36 38 0.11
37 94 0.26
38 119 0.33
39 8 0.02
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (38 bp):
TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
Found at i:30635673 original size:75 final size:74
Alignment explanation
Indices: 30635337--30635809 Score: 456
Period size: 75 Copynumber: 6.5 Consensus size: 74
30635327 TACCTTTTCC
* * * **
30635337 TTTTT-AAGGTTGCCTTAGAC--GGATTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGGTC
1 TTTTTAAAGGTTGCCTTAGACAAGG-TCTATCCCAACTTTTTTAAAGGTTGCCTTAG-ACTGGTC
*
30635398 TATCACAACC-
64 TATCCCAACCT
* * * * * * * *
30635408 TTTTTACAA--CTG-TTTAAAC-ATGTCTATCCCAACATTTTT-AAGGTTGTCTTAGACGGGTCA
1 TTTTTA-AAGGTTGCCTTAGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTTAGACTGGTCT
30635468 ATCCCAACCT
65 ATCCCAACCT
* * * * *
30635478 TTTTTAAAAGTTACCTTAGACAAGGTCTATCCCAACCTTTCT-AAGGTTACCTTAGAC-GAGTCT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTTAGACTG-GTCT
*
30635541 ATCCTAACC-
65 ATCCCAACCT
* * *
30635550 TTTTT-AAGGTTGCTTTAGACAA-GTCTATCTCAACTTTTTTAAAAGGTTGCCTTAGATTGGTCT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACTTTTTT-AAAGGTTGCCTTAGACTGGTCT
30635613 ATCCCAACCT
65 ATCCCAACCT
* *
30635623 TTTTTAAAGGTTGCCTTAGACAAGGTCTAACCCAACTTTTTTAAAAGGTTGCTTTAGACTGGTCT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACTTTTTT-AAAGGTTGCCTTAGACTGGTCT
30635688 ATCCCAACCT
65 ATCCCAACCT
* * *
30635698 GTTTTAAAGGTTGCCTTAGACAAGGCCTATCCCAACTTCTTTTAAAGGTTGCCTTAGACAAGGTC
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACTT-TTTTAAAGGTTGCCTTAGAC-TGGTC
**
30635763 TATCTTAACCT
64 TATCCCAACCT
* * *
30635774 TTTTCAAAGGTTAGCCTT-GACTAGGTCTTTCCCAAC
1 TTTTTAAAGGTT-GCCTTAGACAAGGTCTATCCCAAC
30635810 CCTTCAATAA
Statistics
Matches: 334, Mismatches: 49, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
69 17 0.05
70 49 0.15
71 23 0.07
72 36 0.11
73 49 0.15
74 16 0.05
75 97 0.29
76 42 0.13
77 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (74 bp):
TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTTAGACTGGTCTA
TCCCAACCT
Found at i:30636016 original size:15 final size:15
Alignment explanation
Indices: 30635998--30636043 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
30635988 ATTTTATTGT
30635998 AATATAATTTATATA
1 AATATAATTTATATA
30636013 AATA-AATTTTATTATA
1 AATATAA-TTTA-TATA
30636029 AA-ATAATTTAATATA
1 AATATAATTT-ATATA
30636044 TTTTAGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.07
15 16 0.59
16 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATAATTTATATA
Found at i:30636030 original size:16 final size:17
Alignment explanation
Indices: 30635988--30636037 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 17
30635978 TGATAGACTT
*
30635988 ATTTTATTGT-AATATA
1 ATTTTATTATAAATATA
30636004 A-TTTA-TATAAATA-A
1 ATTTTATTATAAATATA
30636018 ATTTTATTATAAA-ATA
1 ATTTTATTATAAATATA
30636034 ATTT
1 ATTT
30636038 AATATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 4 0.14
15 13 0.45
16 12 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTTATTATAAATATA
Found at i:30637530 original size:12 final size:12
Alignment explanation
Indices: 30637509--30637541 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
30637499 CTCTTCTAGT
30637509 TCATCATCATCC
1 TCATCATCATCC
*
30637521 TCATCCTCATCC
1 TCATCATCATCC
30637533 TCATCATCA
1 TCATCATCA
30637542 ACCCCACGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.42, G:0.00, T:0.33
Consensus pattern (12 bp):
TCATCATCATCC
Found at i:30649337 original size:18 final size:18
Alignment explanation
Indices: 30649314--30649405 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
30649304 CCCAACTACT
*
30649314 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
30649332 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
*
30649350 GTATACGT-AATAGTATC
1 GTATACGTGAATAGTACC
*
30649367 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
30649385 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
30649403 GTA
1 GTA
30649406 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
17 16 0.25
18 48 0.75
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:30649373 original size:35 final size:36
Alignment explanation
Indices: 30649314--30649405 Score: 141
Period size: 35 Copynumber: 2.6 Consensus size: 36
30649304 CCCAACTACT
* *
30649314 GTATACGTGAACAGTACCGTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
30649350 GTATACGT-AATAGTATCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
30649385 ATATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
30649406 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
35 31 0.62
36 19 0.38
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:30650653 original size:16 final size:17
Alignment explanation
Indices: 30650632--30650664 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30650622 AAAATAACCT
*
30650632 ATAATTTGAA-TTAAAA
1 ATAATTTAAACTTAAAA
30650648 ATAATTTAAACTTAAAA
1 ATAATTTAAACTTAAAA
30650665 TAGCTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
ATAATTTAAACTTAAAA
Found at i:30655827 original size:16 final size:16
Alignment explanation
Indices: 30655782--30655828 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
30655772 CAAAGATAAA
*
30655782 ATTAATTTAGTTTA-T
1 ATTATTTTAGTTTATT
* *
30655797 ATTTATTTGAATTTATT
1 A-TTATTTTAGTTTATT
30655814 ATTATTTTAGTTTAT
1 ATTATTTTAGTTTAT
30655829 ATTTGAAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 1 0.04
16 22 0.88
17 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (16 bp):
ATTATTTTAGTTTATT
Found at i:30655845 original size:20 final size:20
Alignment explanation
Indices: 30655817--30655856 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
30655807 ATTTATTATT
*
30655817 ATTTTAGTTTATATTTGAAG
1 ATTTCAGTTTATATTTGAAG
30655837 ATTTCAGTTTATATTTGAAG
1 ATTTCAGTTTATATTTGAAG
30655857 TTCTAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.53
Consensus pattern (20 bp):
ATTTCAGTTTATATTTGAAG
Found at i:30656239 original size:21 final size:21
Alignment explanation
Indices: 30656209--30656250 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
30656199 AGAAGTTGGG
*
30656209 ATTGATACATTCTTAACAAAT
1 ATTGACACATTCTTAACAAAT
30656230 ATTGACACATTCTTAACAAAT
1 ATTGACACATTCTTAACAAAT
30656251 CTAACTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
ATTGACACATTCTTAACAAAT
Found at i:30656326 original size:16 final size:16
Alignment explanation
Indices: 30656313--30656351 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
30656303 ACACAAAAGA
30656313 AAAAAAAAACAAAAAC
1 AAAAAAAAACAAAAAC
* *
30656329 AAAAAACAACAACAAC
1 AAAAAAAAACAAAAAC
30656345 AATAAAA
1 AA-AAAA
30656352 GGAATCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAAAAACAAAAAC
Found at i:30658932 original size:6 final size:6
Alignment explanation
Indices: 30658921--30658980 Score: 102
Period size: 6 Copynumber: 9.8 Consensus size: 6
30658911 GGTTTTGTCC
*
30658921 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
30658969 AAATGAG AAATG
1 AAATG-G AAATG
30658981 ATTTATTTGC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 46 0.90
7 5 0.10
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:30660931 original size:25 final size:25
Alignment explanation
Indices: 30660890--30660940 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
30660880 GTCACACGGT
*
30660890 CGTGTCACATGCCCGTGTGCTAGGC
1 CGTGTCACACGCCCGTGTGCTAGGC
* *
30660915 CGTGTCACACGCTCGTGTGTTAGGC
1 CGTGTCACACGCCCGTGTGCTAGGC
30660940 C
1 C
30660941 CTGTAACTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.25
Consensus pattern (25 bp):
CGTGTCACACGCCCGTGTGCTAGGC
Found at i:30662895 original size:14 final size:14
Alignment explanation
Indices: 30662876--30662931 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
30662866 TATTCGGTCT
*
30662876 TATGAATATGTGTA
1 TATGAATATATGTA
* *
30662890 TATGAATCTCT-TA
1 TATGAATATATGTA
30662903 T-T-AATATATGTA
1 TATGAATATATGTA
*
30662915 TATGAATCTATGTA
1 TATGAATATATGTA
30662929 TAT
1 TAT
30662932 TAGATCATAC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.15
12 4 0.12
13 4 0.12
14 21 0.62
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.46
Consensus pattern (14 bp):
TATGAATATATGTA
Found at i:30662908 original size:25 final size:25
Alignment explanation
Indices: 30662873--30662923 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
30662863 ATATATTCGG
*
30662873 TCTTATGAATATGTGTATATGAATC
1 TCTTATGAATATATGTATATGAATC
*
30662898 TCTTATTAATATATGTATATGAATC
1 TCTTATGAATATATGTATATGAATC
30662923 T
1 T
30662924 ATGTATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (25 bp):
TCTTATGAATATATGTATATGAATC
Found at i:30675162 original size:43 final size:42
Alignment explanation
Indices: 30675127--30675231 Score: 131
Period size: 42 Copynumber: 2.4 Consensus size: 42
30675117 TCTTACATAT
* *
30675127 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACGA
1 AATCAAATA-CGATGCCAATGTCCCAAACAGGGTCTTACACGA
* *
30675170 AATCAAATACGATGCCAATGTCCCAAACATGGTCTTAAACGTA
1 AATCAAATACGATGCCAATGTCCCAAACAGGGTCTTACACG-A
30675213 AATCTCAAAT-CGATGCCAA
1 AA--TCAAATACGATGCCAA
30675232 CTTCCCAGAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
42 28 0.51
43 12 0.22
44 9 0.16
45 6 0.11
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (42 bp):
AATCAAATACGATGCCAATGTCCCAAACAGGGTCTTACACGA
Found at i:30675204 original size:42 final size:42
Alignment explanation
Indices: 30675096--30675260 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 42
30675086 AGCTTGTACA
* * * *
30675096 ATGCCAACGTCTCAGACGTGGTCTTACA-TATAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCAAATA-CG
* *
30675139 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
* *
30675181 ATGCCAATGTCCCAAACATGGTCTTAAACGTAAATCTCAAAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAA--TCAAATACG
* * *
30675225 ATGCCAACT-TCCCAGACGTAGTCTTACACAAAATCA
1 ATGCCAA-TGTCCCAGACATGGTCTTACACGAAATCA
30675261 CATATCGAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 28 0.27
43 38 0.37
44 26 0.25
45 7 0.07
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:30678338 original size:8 final size:8
Alignment explanation
Indices: 30678310--30678349 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
30678300 CACGAAATGC
*
30678310 CGGCTCTT
1 CGGCTTTT
30678318 CGGCATTTT
1 CGGC-TTTT
30678327 -GGCTTTT
1 CGGCTTTT
30678334 CGGCTTTT
1 CGGCTTTT
30678342 CGGCTTTT
1 CGGCTTTT
30678350 GCCAATCTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 4 0.14
8 22 0.76
9 3 0.10
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:30679994 original size:3 final size:3
Alignment explanation
Indices: 30679986--30680010 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30679976 AAACATATGA
30679986 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
30680011 TCCAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30681618 original size:9 final size:10
Alignment explanation
Indices: 30681594--30681618 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30681584 CAAAACATAC
30681594 TAAAAATAAT
1 TAAAAATAAT
30681604 TAAAAATAAT
1 TAAAAATAAT
30681614 TAAAA
1 TAAAA
30681619 CAGCCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:30681967 original size:60 final size:60
Alignment explanation
Indices: 30681889--30682015 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
30681879 TGGGCTTTAA
* *
30681889 CCCATATCAATATTAATCTGGGCCATAGCCC-CTTACAATATC-AGAGTATACTGGGCCTAG
1 CCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAT-TCGAGA-TATACTGGGCCTAG
* * * *
30681949 CCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAATTCGAGATATATTGGGCCTTG
1 CCCATATCAATATCAATCTGGGCCATAGCCCTATTACAATTCGAGATATACTGGGCCTAG
30682009 CCCATAT
1 CCCATAT
30682016 TAACATAGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
60 49 0.83
61 10 0.17
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (60 bp):
CCCATATCAATATCAATCTGGGCCATAGCCCTATTACAATTCGAGATATACTGGGCCTAG
Found at i:30684787 original size:51 final size:51
Alignment explanation
Indices: 30684640--30684776 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
30684630 CTACCATCAA
* * *
30684640 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
30684691 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
30684742 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
30684777 AGTTACCATA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:30687348 original size:51 final size:51
Alignment explanation
Indices: 30687232--30687360 Score: 150
Period size: 51 Copynumber: 2.5 Consensus size: 51
30687222 CTACCATCAA
* * * *
30687232 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATAATATCTTATAAGATTCCATATCATAGATAAG
* * ** * **
30687283 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATAATATCTTATAAGATTCCATATCATAGATAAG
*
30687334 ATCTCTAAGATTATAATATTATATCTT
1 ATCTCTAAGATTATAATATAATATCTT
30687361 CTAAAATTAG
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATAATATCTTATAAGATTCCATATCATAGATAAG
Found at i:30689684 original size:36 final size:33
Alignment explanation
Indices: 30689604--30689684 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 33
30689594 TATTTAATAC
30689604 AATA-AAATATTTATTATATTTATTATTTTTTA
1 AATATAAATATTTATTATATTTATTATTTTTTA
30689636 ATATAATAAAATATTTATTATATTTATGATAGTGTTTTT-
1 A-AT-AT-AAATATTTATTATATTTAT--TA-T-TTTTTA
30689675 AATATAAATA
1 AATATAAATA
30689685 CTTTTTAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
32 1 0.02
33 2 0.05
34 1 0.02
36 24 0.59
37 2 0.05
38 4 0.10
39 2 0.05
40 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (33 bp):
AATATAAATATTTATTATATTTATTATTTTTTA
Found at i:30696746 original size:22 final size:22
Alignment explanation
Indices: 30696707--30696756 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
30696697 AAATGGTATT
30696707 TGAGTATGAATGTATAAATGTA
1 TGAGTATGAATGTATAAATGTA
*
30696729 TGAGTTATGTATGT-TAAATG-A
1 TGAG-TATGAATGTATAAATGTA
*
30696750 TGTGTAT
1 TGAGTAT
30696757 TGATTGGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 3 0.12
21 4 0.16
22 10 0.40
23 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (22 bp):
TGAGTATGAATGTATAAATGTA
Found at i:30706425 original size:21 final size:21
Alignment explanation
Indices: 30706393--30706457 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
30706383 TAAGTTTTTA
*
30706393 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
30706413 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
30706434 AAGTTAAA-ATATAATATAGAAT
1 AA-ATAAATATATAATATA-AAT
30706456 AA
1 AA
30706458 TAATTTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:30706496 original size:12 final size:13
Alignment explanation
Indices: 30706477--30706507 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
30706467 AATTTTGAAA
30706477 ATATAAATAATAT
1 ATATAAATAATAT
30706490 A-ATAAATAATAT
1 ATATAAATAATAT
30706502 ATATAA
1 ATATAA
30706508 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:30706505 original size:16 final size:15
Alignment explanation
Indices: 30706482--30706512 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30706472 TGAAAATATA
30706482 AATAATATAATAAAT
1 AATAATATAATAAAT
30706497 AATATATATAATAAAT
1 AATA-ATATAATAAAT
30706513 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:30706868 original size:17 final size:18
Alignment explanation
Indices: 30706815--30706921 Score: 155
Period size: 17 Copynumber: 5.9 Consensus size: 18
30706805 AATCATATCT
*
30706815 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
30706834 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
30706852 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
30706869 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
30706887 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
30706904 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
30706922 TGAAGATTAT
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 32 0.40
18 32 0.40
19 16 0.20
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:30706873 original size:35 final size:35
Alignment explanation
Indices: 30706815--30706921 Score: 187
Period size: 35 Copynumber: 3.0 Consensus size: 35
30706805 AATCATATCT
30706815 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
30706852 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
30706887 TCTAAGATTGTATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
30706922 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
35 54 0.78
36 5 0.07
37 10 0.14
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:30710770 original size:19 final size:18
Alignment explanation
Indices: 30710735--30710786 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
30710725 ATCAAGAAGT
* *
30710735 TATTAACTTCCAGAATGA
1 TATTAATTTCCAAAATGA
*
30710753 TATTAAATTTCCAAAATGT
1 TATT-AATTTCCAAAATGA
30710772 TATTAATTTCCAAAA
1 TATTAATTTCCAAAA
30710787 CATCACTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (18 bp):
TATTAATTTCCAAAATGA
Found at i:30713132 original size:41 final size:42
Alignment explanation
Indices: 30713074--30713194 Score: 138
Period size: 41 Copynumber: 2.9 Consensus size: 42
30713064 GTGCCATCAT
*
30713074 ATATCGATGCCACTGTCCTAGACAGGGTCTTACACGAACCAA
1 ATATCGATGCCAATGTCCTAGACAGGGTCTTACACGAACCAA
* * * *
30713116 ATA-CGATGCCAATGTCCTAGACATGGTCTTACATGTAATCAC
1 ATATCGATGCCAATGTCCTAGACAGGGTCTTACACG-AACCAA
* * *
30713158 ATATCGATGCCAACGACCCAGAC-GTGGTCTTACACGA
1 ATATCGATGCCAATGTCCTAGACAG-GGTCTTACACGA
30713195 GAACATATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 29 0.44
42 11 0.17
43 26 0.39
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCTAGACAGGGTCTTACACGAACCAA
Found at i:30713187 original size:84 final size:84
Alignment explanation
Indices: 30713037--30713194 Score: 203
Period size: 84 Copynumber: 1.9 Consensus size: 84
30713027 ATATCGTACA
* * * * * *
30713037 ATGCCAACGTCCCAGACGTGGTCTTACGTGCCATCATATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACATGCAATCACATATCGATGCCACTGACCCAGACAGGGT
30713102 CTTACACGAACCAAATACG
66 CTTACACGAACCAAATACG
* * *
30713121 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATATCGATGCCAAC-GACCCAGAC-GTG
1 ATGCCAACGTCCCAGACATGGTCTTACATGCAATCACATATCGATGCC-ACTGACCCAGACAG-G
30713184 GTCTTACACGA
64 GTCTTACACGA
30713195 GAACATATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.02
84 60 0.95
85 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGCAATCACATATCGATGCCACTGACCCAGACAGGGT
CTTACACGAACCAAATACG
Found at i:30713205 original size:43 final size:42
Alignment explanation
Indices: 30713037--30713205 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 42
30713027 ATATCGTACA
** *
30713037 ATGCCAACGTCCCAGACGTGGTCTTACGTGCCATCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCATATATCG
* * *
30713080 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGAACCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAATCATATATCG
* * * * *
30713121 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCATATATCG
* *
30713164 ATGCCAACGACCCAGACGTGGTCTTACACGAGAACATATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA-ATCATATATC
30713206 AGAAATCCTA
Statistics
Matches: 101, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
41 26 0.26
42 17 0.17
43 57 0.56
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAATCATATATCG
Found at i:30715833 original size:22 final size:22
Alignment explanation
Indices: 30715808--30715849 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30715798 ACTTCTCACT
30715808 CCTTAAT-TTCCTCACCAAAATC
1 CCTTAATCTT-CTCACCAAAATC
*
30715830 CCTTAATCTTCTCCCCAAAA
1 CCTTAATCTTCTCACCAAAA
30715850 CTGTCCACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (22 bp):
CCTTAATCTTCTCACCAAAATC
Found at i:30724066 original size:19 final size:18
Alignment explanation
Indices: 30724038--30724080 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
30724028 CTTTATTATG
30724038 TTTTTGTATTTCAGCATA
1 TTTTTGTATTTCAGCATA
* *
30724056 TTTTATGTATTTTAGCTTA
1 TTTT-TGTATTTCAGCATA
30724075 TTTTTG
1 TTTTTG
30724081 AATTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.19, C:0.07, G:0.12, T:0.63
Consensus pattern (18 bp):
TTTTTGTATTTCAGCATA
Found at i:30724291 original size:68 final size:66
Alignment explanation
Indices: 30724219--30724370 Score: 182
Period size: 64 Copynumber: 2.3 Consensus size: 66
30724209 CATCATGTGT
* * * * *
30724219 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTA-CACCAT
1 ACAAGAGAGCTACGAGA-A-TAT-ATGCAGCTAGGTCGCATGCGTGATACCAGGTGAAGCACCAT
30724283 GTAG
63 GTAG
* *
30724287 ACAAGAGAGCTACGAG-ATATATGCAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGGCACCATG
1 ACAAGAGAGCTACGAGAATATATGCAGCTAGGTCGCATGCGTGATACCAGGTGAA--GCACCATG
30724351 TAG
64 TAG
30724354 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
30724371 TAAACTGGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
64 27 0.37
65 3 0.04
66 1 0.01
67 26 0.36
68 16 0.22
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGAATATATGCAGCTAGGTCGCATGCGTGATACCAGGTGAAGCACCATGTA
G
Found at i:30724424 original size:66 final size:66
Alignment explanation
Indices: 30724277--30724430 Score: 195
Period size: 66 Copynumber: 2.3 Consensus size: 66
30724267 ACTATGTGTA
* * * * *
30724277 CACCATGTAGACAAGAGAGCTACGAGATATATGCAGCTAGGTCGCATGCGTGGTTCCAGGTGAAG
1 CACCATGTAGACAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGAGTGGTACCAAGTGAAG
*
30724342 GG
65 GC
*
30724344 CACCATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGAGTGGTACTAAGTGAAG
1 CACCATGTAGACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGAGTGGTACCAAGTGAAG
30724408 GC
65 GC
*
30724410 CACTATGT-GTACAAGAGAGCT
1 CACCATGTAG-ACAAGAGAGCT
30724431 TCGATTTTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
65 1 0.01
66 44 0.57
67 30 0.39
68 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (66 bp):
CACCATGTAGACAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGAGTGGTACCAAGTGAAGG
C
Found at i:30724996 original size:42 final size:42
Alignment explanation
Indices: 30724949--30725032 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
30724939 AATGAGTCTA
30724949 GTTTCAAATGAAATAAATGAGAACATCCTTTGAATTCTGTAC
1 GTTTCAAATGAAATAAATGAGAACATCCTTTGAATTCTGTAC
30724991 GTTTCAAATGAAATAAATGAGAACATCCTTTGAATTCTGTAC
1 GTTTCAAATGAAATAAATGAGAACATCCTTTGAATTCTGTAC
30725033 AAGGAGAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (42 bp):
GTTTCAAATGAAATAAATGAGAACATCCTTTGAATTCTGTAC
Found at i:30726401 original size:25 final size:25
Alignment explanation
Indices: 30726345--30726401 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
30726335 TTTTAGGTGT
* *
30726345 TTTCAGTATAGTCTATCTATAGTAG
1 TTTCAGTATAGTCTACCTATAGAAG
**
30726370 TCACAGTATA-TACTACCTATAGAAG
1 TTTCAGTATAGT-CTACCTATAGAAG
30726395 TTTCAGT
1 TTTCAGT
30726402 CAAAAACATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (25 bp):
TTTCAGTATAGTCTACCTATAGAAG
Found at i:30728743 original size:22 final size:22
Alignment explanation
Indices: 30728718--30728761 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
30728708 ACTCTTCACT
30728718 CCTTAAT-TTCCTCACCAAAATC
1 CCTTAATCTT-CTCACCAAAATC
*
30728740 CCTTAATCTTCTCCCCAAAATC
1 CCTTAATCTTCTCACCAAAATC
30728762 GTCCACCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.30, C:0.39, G:0.00, T:0.32
Consensus pattern (22 bp):
CCTTAATCTTCTCACCAAAATC
Found at i:30730156 original size:43 final size:43
Alignment explanation
Indices: 30730104--30730213 Score: 211
Period size: 43 Copynumber: 2.6 Consensus size: 43
30730094 ATGCGATGAA
30730104 AATGTTCCAGACATGGTCTTACACGTTTTCTCATTTCGATGCC
1 AATGTTCCAGACATGGTCTTACACGTTTTCTCATTTCGATGCC
30730147 AATGTTCCAGACATGGTCTTACACGTTTTCTCATTTCGATGCC
1 AATGTTCCAGACATGGTCTTACACGTTTTCTCATTTCGATGCC
*
30730190 AATGTCCCAGACATGGTCTTACAC
1 AATGTTCCAGACATGGTCTTACAC
30730214 AAATCACACA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (43 bp):
AATGTTCCAGACATGGTCTTACACGTTTTCTCATTTCGATGCC
Found at i:30739914 original size:19 final size:17
Alignment explanation
Indices: 30739879--30739917 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
30739869 AAATGCTCGT
*
30739879 GAAAAAAAAAAGTAAAA
1 GAAAAAAAAAAGCAAAA
30739896 GAAAAGAAAAAGAGCAAAA
1 GAAAA-AAAAA-AGCAAAA
30739915 GAA
1 GAA
30739918 GAGCATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.03
Consensus pattern (17 bp):
GAAAAAAAAAAGCAAAA
Found at i:30744751 original size:48 final size:48
Alignment explanation
Indices: 30744672--30744766 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
30744662 AATTATATGG
* *
30744672 TGGTCTATCCACGATGTGCTTTGTGCCCGTTCATCGATATCTATGTGA
1 TGGTCTATCCACGATGTGCTATGTGACCGTTCATCGATATCTATGTGA
* * *
30744720 TGGTTTATCCACGATGTGCTATGTGATCGTTCATCGGTATCTATGTG
1 TGGTCTATCCACGATGTGCTATGTGACCGTTCATCGATATCTATGTG
30744767 GTGGCTTGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (48 bp):
TGGTCTATCCACGATGTGCTATGTGACCGTTCATCGATATCTATGTGA
Found at i:30744779 original size:48 final size:48
Alignment explanation
Indices: 30744677--30744779 Score: 143
Period size: 48 Copynumber: 2.1 Consensus size: 48
30744667 TATGGTGGTC
* * *
30744677 TATCCACGATGTGCTTTGTGCCCGTTCATCGATATCTATGTGATGGTT
1 TATCCACGATGTGCTATGTGACCGTTCATCGATATCTATGTGATGGCT
* * *
30744725 TATCCACGATGTGCTATGTGATCGTTCATCGGTATCTATGTGGTGGCT
1 TATCCACGATGTGCTATGTGACCGTTCATCGATATCTATGTGATGGCT
*
30744773 TGTCCAC
1 TATCCAC
30744780 AAACTGATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (48 bp):
TATCCACGATGTGCTATGTGACCGTTCATCGATATCTATGTGATGGCT
Found at i:30745729 original size:10 final size:10
Alignment explanation
Indices: 30745714--30745739 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30745704 CTTTAAATGT
30745714 GAAACTATAG
1 GAAACTATAG
30745724 GAAACTATAG
1 GAAACTATAG
30745734 GAAACT
1 GAAACT
30745740 TTTGATTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (10 bp):
GAAACTATAG
Found at i:30751657 original size:49 final size:48
Alignment explanation
Indices: 30751538--30751665 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 48
30751528 GGGTATACTA
* * *
30751538 CTGATGCCATGTCGCAGACATGGTCTTACACTAGCTCATCCATCAAGT
1 CTGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCCATCAAGG
* *
30751586 C-GATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCAATATCGAGG
1 CTGATGCCATGTCCCAGACATGGTCTTACACTAACTCATC--CATCAAGG
*
30751634 CTGACGCCATGTCCCAGACATGGTCTTACACT
1 CTGATGCCATGTCCCAGACATGGTCTTACACT
30751666 GACAAATCTC
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
46 3 0.04
47 32 0.45
48 7 0.10
49 29 0.41
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
CTGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCCATCAAGG
Found at i:30753536 original size:29 final size:29
Alignment explanation
Indices: 30753473--30753540 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
30753463 TAATCAACCA
30753473 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
30753502 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
30753531 CGCACACTTA
1 CGCACACTTA
30753541 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:30753681 original size:29 final size:30
Alignment explanation
Indices: 30753642--30753720 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
30753632 CTTAATAATC
30753642 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30753672 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30753701 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30753721 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30761643 original size:29 final size:29
Alignment explanation
Indices: 30761581--30761647 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
30761571 AATCAACCAT
30761581 GCACACTTAGTGCCATGCACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
* **
30761610 ACACACTTAGTGCCATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
30761639 GCACACTTA
1 GCACACTTA
30761648 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:30761788 original size:29 final size:30
Alignment explanation
Indices: 30761749--30761827 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
30761739 CTTAATAATC
30761749 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30761779 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30761808 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30761828 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30774874 original size:43 final size:43
Alignment explanation
Indices: 30774822--30774904 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
30774812 GATCTATGTG
30774822 GCATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCGA
**
30774865 GCATCCGAGCTTGTTGAGAGGTCCGAGTTCATTATGGATG
1 GCATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGGATG
30774905 TATACATGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCGA
Found at i:30786251 original size:47 final size:49
Alignment explanation
Indices: 30786180--30786593 Score: 260
Period size: 46 Copynumber: 8.7 Consensus size: 49
30786170 AAGGTATACT
* *
30786180 GCCGATGCCATGTCCCCGACATGGTCTTATACTGGCTCATC-CATCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
* * *
30786227 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGATATCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATCAAG
* *
30786276 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCA--AG
* ** * * * * * * *
30786325 TGCCGATGCCATCTCTTAAAGATGGTCTTACACTGACACCTC-TAT-ACG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
* * * * *
30786373 TGCCGATGCCATGTCTCAGACATGGTCTTACACTGACACATCTCGT--A-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
* *
30786420 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATC-TCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA-CATCAAG
* ** * * *
30786466 GCCGATG-CATGTCTCAGACAT-GTCTTGTACTAGCTC-TCGGC-TCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATCAAG
* * * * * **
30786512 GCAGATGCCGTGTCTCAGACATGGTCTTACACTGGCTC-CCATAGT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACA-TCAAG
*
30786560 GCCGATG-CGTGTCCCAGACAT-GTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
30786594 ACACAAATAA
Statistics
Matches: 294, Mismatches: 54, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
43 2 0.01
44 14 0.05
45 14 0.05
46 65 0.22
47 60 0.20
48 65 0.22
49 39 0.13
50 33 0.11
51 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
Found at i:30786398 original size:48 final size:48
Alignment explanation
Indices: 30786174--30786451 Score: 227
Period size: 48 Copynumber: 5.9 Consensus size: 48
30786164 AAACATAAGG
* * * * *
30786174 TATAC-TGCCGATGCCATGTCCCCGACATGGTCTTATACTGGCTCATC
1 TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTC
* * * **
30786221 CATCAAGT--CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGA
1 TAT-ACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTC
* *
30786269 TATCAAG-GCCGATGCCATGTCCCAGACATGGTCTTACACT-AGC-TCTC
1 TAT-ACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACCTC
* * ** * *
30786316 ACATATCTGTGCCGATGCCATCTCTTAAAGATGGTCTTACACTGACACCTC
1 -TATA-C-GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTC
* *
30786367 TATACGTGCCGATGCCATGTCTCAGACATGGTCTTACACTGACACATC
1 TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTC
30786415 --T-CGTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 TATACGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTG
30786452 GCTTACATCT
Statistics
Matches: 190, Mismatches: 28, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.06
45 16 0.08
46 8 0.04
47 36 0.19
48 48 0.25
49 35 0.18
50 32 0.17
51 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTC
Found at i:30792412 original size:49 final size:49
Alignment explanation
Indices: 30792355--30792485 Score: 190
Period size: 49 Copynumber: 2.7 Consensus size: 49
30792345 TGTTGTGTGT
*
30792355 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
* * * * *
30792404 CAGTGTAAGACCTGCCTGGGACATGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
* *
30792453 CAATGTAAGACCTGTCTGGGACACGGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
30792486 TTCAATGTGC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
Found at i:30812417 original size:19 final size:20
Alignment explanation
Indices: 30812377--30812417 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
30812367 TTGCACAAGT
*
30812377 TGTGAAATAGGTAATAAATG
1 TGTGAAATAGGTAAGAAATG
*
30812397 TGTGAAATA-GTAAGAATTG
1 TGTGAAATAGGTAAGAAATG
30812416 TG
1 TG
30812418 GCCTACTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (20 bp):
TGTGAAATAGGTAAGAAATG
Found at i:30813030 original size:48 final size:49
Alignment explanation
Indices: 30812920--30813041 Score: 149
Period size: 48 Copynumber: 2.5 Consensus size: 49
30812910 CTTGTTGTGT
*
30812920 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAA
* * * * * *
30812969 GCCAGCGTAAGACCTGTCTAGGACAT-GCATCGTC-CTTGATATATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAAA
*
30813017 GTCAGTGTAAGACCTATCTGGGACA
1 GTCAGTGTAAGACCTGTCTGGGACA
30813042 CAGCATTGAC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
47 1 0.02
48 37 0.61
49 23 0.38
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAA
Found at i:30821381 original size:45 final size:45
Alignment explanation
Indices: 30821330--30821421 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
30821320 GAAGAAGCCA
30821330 TACTTTGTGTGCTTAAATTTCTTAGTGAACATTCGGCTATGTCCC
1 TACTTTGTGTGCTTAAATTTCTTAGTGAACATTCGGCTATGTCCC
30821375 TACTTTGTGTGCTTAAATTTCTTAGTGAACATTCGGCTATGTCCC
1 TACTTTGTGTGCTTAAATTTCTTAGTGAACATTCGGCTATGTCCC
30821420 TA
1 TA
30821422 GTGAATGGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (45 bp):
TACTTTGTGTGCTTAAATTTCTTAGTGAACATTCGGCTATGTCCC
Found at i:30822270 original size:39 final size:39
Alignment explanation
Indices: 30822096--30822254 Score: 228
Period size: 39 Copynumber: 4.1 Consensus size: 39
30822086 CATGTGAATA
** * *
30822096 TATATGCGAGAATTATATCCAGACTACAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCAGACTTTAAGTCCGCAGGC
* *
30822135 TATAAGCGAGAATTATATCCAGACTTCAAGTCCGCAGGC
1 TATATGCGAGAATTATATCCAGACTTTAAGTCCGCAGGC
* *
30822174 TATATACGAGAATTATATCCAGACTTTATGTCCGCAGGC
1 TATATGCGAGAATTATATCCAGACTTTAAGTCCGCAGGC
* *
30822213 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCAGACTTTAAGTCCGCAGGC
30822252 TAT
1 TAT
30822255 GTGCTGGACA
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCAGACTTTAAGTCCGCAGGC
Found at i:30824496 original size:6 final size:6
Alignment explanation
Indices: 30824485--30824771 Score: 529
Period size: 6 Copynumber: 47.8 Consensus size: 6
30824475 ACATGTGATA
30824485 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
30824533 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
30824581 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
30824629 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
* *
30824677 TATGTG CATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTA
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
* * *
30824725 TATGTG TATGTG TATGTG TATGTG AATGTT TATGTG TACGTG TATGT
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGT
30824772 TAAAATCCAT
Statistics
Matches: 271, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 271 1.00
ACGTcount: A:0.17, C:0.01, G:0.32, T:0.49
Consensus pattern (6 bp):
TATGTG
Found at i:30829049 original size:40 final size:40
Alignment explanation
Indices: 30829005--30829088 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
30828995 ATTCTAAGCC
*
30829005 TAAAAACTTAAAATATCCTAAGAAATAAAATAAAGTAAAG
1 TAAAAACTTAAAATATCCTAAGAAATAAAATAAAATAAAG
*
30829045 TAAAAACTTAAAATATCCTAGGAAATAAAATAAAATAAAG
1 TAAAAACTTAAAATATCCTAAGAAATAAAATAAAATAAAG
30829085 TAAA
1 TAAA
30829089 GAAAATATCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (40 bp):
TAAAAACTTAAAATATCCTAAGAAATAAAATAAAATAAAG
Found at i:30835292 original size:15 final size:16
Alignment explanation
Indices: 30835263--30835292 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30835253 CAAGCATACT
30835263 TTAACACATTATCAAA
1 TTAACACATTATCAAA
30835279 TTAACACA-TATCAA
1 TTAACACATTATCAA
30835293 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:30836004 original size:20 final size:21
Alignment explanation
Indices: 30835979--30836018 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30835969 GTATGAAACA
30835979 TGAAAT-CTTGGATTTTCAAT
1 TGAAATGCTTGGATTTTCAAT
* *
30835999 TGAAATGTTTGGTTTTTCAA
1 TGAAATGCTTGGATTTTCAA
30836019 CATGTTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (21 bp):
TGAAATGCTTGGATTTTCAAT
Found at i:30859041 original size:54 final size:55
Alignment explanation
Indices: 30858973--30859082 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 55
30858963 ACCTCTTCGG
30858973 GTTTTCTGTTCAAAA-TTGAGCTGAATAAGAAGACAG-GTACC-TCTTCAGTGAAA
1 GTTTTCTGTTCAAAATTTGAGCTGAATAAGAAGACAGAGTACCAT-TTCAGTGAAA
30859026 GTTTCTCTGTTCAAAATTTGAGCTGAATAAGAAGACAGAGTACCATTTCAGTGAAA
1 GTTT-TCTGTTCAAAATTTGAGCTGAATAAGAAGACAGAGTACCATTTCAGTGAAA
30859082 G
1 G
30859083 AACCTTGATG
Statistics
Matches: 53, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
53 4 0.08
54 11 0.21
55 21 0.40
56 16 0.30
57 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.30
Consensus pattern (55 bp):
GTTTTCTGTTCAAAATTTGAGCTGAATAAGAAGACAGAGTACCATTTCAGTGAAA
Found at i:30860082 original size:25 final size:26
Alignment explanation
Indices: 30860053--30860104 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
30860043 CCCACTAAAG
30860053 ACCCAAACACCCCAAA-ACAACCCAA
1 ACCCAAACACCCCAAATACAACCCAA
** *
30860078 ACCCACGCAGCCCAAATACAACCCAA
1 ACCCAAACACCCCAAATACAACCCAA
30860104 A
1 A
30860105 ATAAAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.48, C:0.46, G:0.04, T:0.02
Consensus pattern (26 bp):
ACCCAAACACCCCAAATACAACCCAA
Found at i:30862013 original size:12 final size:12
Alignment explanation
Indices: 30861998--30862044 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
30861988 TCATTTCTAA
30861998 ATTATTACT-TGT
1 ATTATTACTAT-T
30862010 ATTATTACTATT
1 ATTATTACTATT
*
30862022 ATTATTATTATT
1 ATTATTACTATT
*
30862034 ACTATTACTAT
1 ATTATTACTAT
30862045 ACTACCATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
12 30 0.97
13 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (12 bp):
ATTATTACTATT
Found at i:30862021 original size:9 final size:9
Alignment explanation
Indices: 30862009--30862040 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
30861999 TTATTACTTG
30862009 TATTATTAC
1 TATTATTAC
*
30862018 TATTATTAT
1 TATTATTAC
30862027 TATTATTAC
1 TATTATTAC
30862036 TATTA
1 TATTA
30862041 CTATACTACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATTAC
Found at i:30865336 original size:26 final size:25
Alignment explanation
Indices: 30865282--30865338 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
30865272 TAAGATGATT
30865282 ATATATAAAACTATAACAAATAAAA
1 ATATATAAAACTATAACAAATAAAA
* *
30865307 ATATATAAAATTATTAA-ATAATATAA
1 ATATATAAAACTA-TAACA-AATAAAA
30865333 ATATAT
1 ATATAT
30865339 GTTTTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
ATATATAAAACTATAACAAATAAAA
Found at i:30871520 original size:22 final size:21
Alignment explanation
Indices: 30871490--30871548 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
30871480 ATTACACATT
*
30871490 TTAATAATTAATATAAAT-TA
1 TTAAAAATTAATATAAATATA
30871510 TTTGAAAAATTAATA-AAATATA
1 -TT-AAAAATTAATATAAATATA
30871532 TTAAAAATTAAATATAA
1 TTAAAAATT-AATATAA
30871549 TAATAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 7 0.21
21 12 0.36
22 14 0.42
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAAAATTAATATAAATATA
Found at i:30871537 original size:20 final size:21
Alignment explanation
Indices: 30871489--30871548 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
30871479 TATTACACAT
*
30871489 TTTAATAATTAATATAAATTA
1 TTTAAAAATTAATATAAATTA
30871510 TTTGAAAAATTAATA-AAA-TA
1 TTT-AAAAATTAATATAAATTA
30871530 TATTAAAAATTAAATATAA
1 T-TTAAAAATT-AATATAA
30871549 TAATAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 10 0.29
21 12 0.35
22 12 0.35
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTTAAAAATTAATATAAATTA
Found at i:30871546 original size:16 final size:16
Alignment explanation
Indices: 30871525--30871578 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
30871515 AAAATTAATA
30871525 AAATATATTAAAAATT
1 AAATATATTAAAAATT
*
30871541 AAATATAATAATAAA-T
1 AAATATATTAA-AAATT
30871557 -AATAT-TTAAATAATT
1 AAATATATTAAA-AATT
*
30871572 TAATATA
1 AAATATA
30871579 ATCATACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 6 0.19
16 16 0.52
17 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATATTAAAAATT
Found at i:30871577 original size:31 final size:31
Alignment explanation
Indices: 30871526--30871598 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
30871516 AAATTAATAA
30871526 AATATATTAAA-AATTAAATATAATAATAAAT
1 AATAT-TTAAATAATTAAATATAATAATAAAT
* * *
30871557 AATATTTAAATAATTTAATATAATCATACAT
1 AATATTTAAATAATTAAATATAATAATAAAT
* *
30871588 AAAATATAAAT
1 AATATTTAAAT
30871599 TAATACAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (31 bp):
AATATTTAAATAATTAAATATAATAATAAAT
Found at i:30872122 original size:30 final size:30
Alignment explanation
Indices: 30872087--30872146 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
30872077 TATTTTATTA
30872087 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
* *
30872117 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
30872147 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:30873366 original size:35 final size:35
Alignment explanation
Indices: 30873327--30873428 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 35
30873317 TTTTGGTCGC
30873327 TTTGGGTTTTAGAGAGTTTCAGTTCAAGTTTCAAT
1 TTTGGGTTTTAGAGAGTTTCAGTTCAAGTTTCAAT
* *
30873362 TTTGGG-TTT-G-G-G--TCCGTTCAAG-TTCTA-
1 TTTGGGTTTTAGAGAGTTTCAGTTCAAGTTTCAAT
* * *
30873389 GTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTTAAT
1 TTTGGGTTTTAGAGAGTTTCAGTTCAAGTTTCAAT
30873424 TTTGG
1 TTTGG
30873429 ATTTGGGTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
27 5 0.10
28 7 0.14
29 10 0.20
30 1 0.02
31 2 0.04
32 1 0.02
33 9 0.18
34 6 0.12
35 10 0.20
ACGTcount: A:0.19, C:0.08, G:0.27, T:0.46
Consensus pattern (35 bp):
TTTGGGTTTTAGAGAGTTTCAGTTCAAGTTTCAAT
Found at i:30873402 original size:62 final size:62
Alignment explanation
Indices: 30873328--30873454 Score: 200
Period size: 62 Copynumber: 2.0 Consensus size: 62
30873318 TTTGGTCGCT
* * *
30873328 TTGGGTTTTAGAGAGTTTCAGTTCAAGTTTCAATTTTGGGTTTGGGTCCGTTCAAGTTCTAG
1 TTGGGTTTTAGAGAGTTTCAGTTCAAGTTTCAATTTTGGATTTGGGTCCATTCAAGTTCCAG
* * *
30873390 TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTTAATTTTGGATTTGGGTCTATTCAAGTTCCAG
1 TTGGGTTTTAGAGAGTTTCAGTTCAAGTTTCAATTTTGGATTTGGGTCCATTCAAGTTCCAG
30873452 TTG
1 TTG
30873455 AAAAATTTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.19, C:0.09, G:0.27, T:0.45
Consensus pattern (62 bp):
TTGGGTTTTAGAGAGTTTCAGTTCAAGTTTCAATTTTGGATTTGGGTCCATTCAAGTTCCAG
Found at i:30876326 original size:50 final size:51
Alignment explanation
Indices: 30876287--30876405 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
30876277 TTCAGGTCAT
*
30876287 TTTCATTT-T-CATTTTTATTTTGGAGAAACCTACATTCATTTCCAAATAA
1 TTTCATTTCTCCATTTTCATTTTGGAGAAACCTACATTCATTTCCAAATAA
* **
30876336 TTTCATTTCTCCATTTTCATTTTGGAGAAATCATA-A-TCATTTCCAAATGT
1 TTTCATTTCTCCATTTTCATTTTGGAGAAA-CCTACATTCATTTCCAAATAA
*
30876386 TTCTCATTTATCCATTTTCA
1 TT-TCATTTCTCCATTTTCA
30876406 CAATTTTTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
49 8 0.13
50 15 0.25
51 35 0.57
52 3 0.05
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (51 bp):
TTTCATTTCTCCATTTTCATTTTGGAGAAACCTACATTCATTTCCAAATAA
Found at i:30880659 original size:103 final size:103
Alignment explanation
Indices: 30880526--30880731 Score: 403
Period size: 103 Copynumber: 2.0 Consensus size: 103
30880516 CTGCTTTCAG
30880526 ACTATCACGAATTACTTCCACTTTTTCTTCAATTTCTCTAATCAGATCAACCCTGTGAATCTTAT
1 ACTATCACGAATTACTTCCACTTTTTCTTCAATTTCTCTAATCAGATCAACCCTGTGAATCTTAT
30880591 TCTCGCTAAGTTCAGTCCAATATAATGGTGTTTGACAC
66 TCTCGCTAAGTTCAGTCCAATATAATGGTGTTTGACAC
*
30880629 ACTATCACGAATTACTTTCACTTTTTCTTCAATTTCTCTAATCAGATCAACCCTGTGAATCTTAT
1 ACTATCACGAATTACTTCCACTTTTTCTTCAATTTCTCTAATCAGATCAACCCTGTGAATCTTAT
30880694 TCTCGCTAAGTTCAGTCCAATATAATGGTGTTTGACAC
66 TCTCGCTAAGTTCAGTCCAATATAATGGTGTTTGACAC
30880732 TTTTGACTCT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (103 bp):
ACTATCACGAATTACTTCCACTTTTTCTTCAATTTCTCTAATCAGATCAACCCTGTGAATCTTAT
TCTCGCTAAGTTCAGTCCAATATAATGGTGTTTGACAC
Found at i:30885383 original size:31 final size:31
Alignment explanation
Indices: 30885345--30885404 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
30885335 TCACTATCCA
*
30885345 ATACAATTCAGATAGCATATATTGAGCTCAC
1 ATACAATTCACATAGCATATATTGAGCTCAC
30885376 ATACAATTCACATAGCATATATTGAGCTC
1 ATACAATTCACATAGCATATATTGAGCTC
30885405 TCATCTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (31 bp):
ATACAATTCACATAGCATATATTGAGCTCAC
Found at i:30885707 original size:50 final size:49
Alignment explanation
Indices: 30885546--30885725 Score: 183
Period size: 49 Copynumber: 3.7 Consensus size: 49
30885536 TAGGGTATAA
30885546 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C-ATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAATC-AG
* * * * * * *
30885595 T--CAATGCCCTGTCCTAGACATGATCTTACACT-GACTATCGAAAATGAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ACAATCAG
* * *
30885643 -GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-ATCAG
30885692 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
30885726 GACACATCTC
Statistics
Matches: 103, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
46 3 0.03
47 29 0.28
48 4 0.04
49 35 0.34
50 32 0.31
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.25
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCAG
Found at i:30885853 original size:47 final size:46
Alignment explanation
Indices: 30885547--30885865 Score: 195
Period size: 46 Copynumber: 6.8 Consensus size: 46
30885537 AGGGTATAAT
30885547 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCATCCATCAA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-C-TCAA
* * * * * ** * *
30885594 GTCAATGCCCTGTCCTAGACATGATCTTACACT-GACTATCGAAAATGAG
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTAG-CTCTC--ATCTCAA
* * * **
30885643 GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCGT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCT--CATCT-CAA
* *
30885693 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCA-A
* * * * * *
30885739 GCTGGT-TCATGTCCCAGACATGTCTTACATTGGCT-TACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTC-AA
* * *
30885785 GTCGATG-CATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAA
* *
30885830 CGCCAATGCCATGTCCCAGACATGTCTTATACTAGC
1 -GCCGATGCCATGTCCCAGACATGTCTTACACTAGC
30885866 AAACAAATAA
Statistics
Matches: 206, Mismatches: 46, Indels: 40
0.71 0.16 0.14
Matches are distributed among these distances:
44 9 0.04
45 17 0.08
46 54 0.26
47 54 0.26
48 1 0.00
49 36 0.17
50 33 0.16
51 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAA
Found at i:30890926 original size:40 final size:40
Alignment explanation
Indices: 30890835--30890969 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 40
30890825 TACAATCTTG
* * * * * *
30890835 CACACTAAGTTCC-TTTCATAGCTGAAGCTATCTCATTCTCG
1 CACACTAAGTGCCATAT-ATAGCCGAAGCTATCTCAAT-ACA
* * * *
30890876 CACACTAAGTGCCATATGTAGTCGAAGCTATTCTGAAT-CC
1 CACACTAAGTGCCATATATAGCCGAAGCTA-TCTCAATACA
***
30890916 CACACTAAGTGTTTTATATAGCCGAAGCTATCTCAATACA
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATACA
30890956 CACACTAAGTGCCA
1 CACACTAAGTGCCA
30890970 AACATAATCA
Statistics
Matches: 73, Mismatches: 18, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
39 6 0.08
40 38 0.52
41 22 0.30
42 7 0.10
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATACA
Found at i:30892564 original size:23 final size:23
Alignment explanation
Indices: 30892529--30892608 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 23
30892519 TGCCACACGG
* *
30892529 GCCAAAGAAAATACACCACATAA
1 GCCAAACAGAATACACCACATAA
* * * *
30892552 GCTAAACATAATACGCCACATAG
1 GCCAAACAGAATACACCACATAA
*
30892575 GCCAAACAGAATACTCCACA-AA
1 GCCAAACAGAATACACCACATAA
*
30892597 GGCAATACAGAA
1 GCCAA-ACAGAA
30892609 AATACTACAA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
22 5 0.11
23 41 0.89
ACGTcount: A:0.50, C:0.26, G:0.12, T:0.11
Consensus pattern (23 bp):
GCCAAACAGAATACACCACATAA
Found at i:30895434 original size:27 final size:27
Alignment explanation
Indices: 30895404--30895457 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
30895394 CCAAGTTTTT
30895404 TTCATTAGACAACATTATGAAA-GAGGA
1 TTCATTAGACAACATTAT-AAAGGAGGA
*
30895431 TTCATTAGACTACATTATAAAGGAGGA
1 TTCATTAGACAACATTATAAAGGAGGA
30895458 GGAGTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (27 bp):
TTCATTAGACAACATTATAAAGGAGGA
Found at i:30897764 original size:51 final size:51
Alignment explanation
Indices: 30897683--30897781 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
30897673 TGGAAAGAAT
*
30897683 AGGGTGGGATAGTCCCCAAATAGTCTTTAACATGCGTTGAAGTTGAATGAC
1 AGGGTGGGATAGTCCCCAAATAGTCATTAACATGCGTTGAAGTTGAATGAC
* * *
30897734 AGGGTGGGATAGTCCTCAAATATTCATTAACATGTGTTGAAGTTGAAT
1 AGGGTGGGATAGTCCCCAAATAGTCATTAACATGCGTTGAAGTTGAAT
30897782 AGTCCCCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
AGGGTGGGATAGTCCCCAAATAGTCATTAACATGCGTTGAAGTTGAATGAC
Found at i:30898193 original size:28 final size:28
Alignment explanation
Indices: 30898161--30898245 Score: 161
Period size: 28 Copynumber: 3.0 Consensus size: 28
30898151 GTTTGCCTAG
30898161 AGATGAAAGGTGTACGGAGGAATGTTGA
1 AGATGAAAGGTGTACGGAGGAATGTTGA
30898189 AGATGAAAGGTGTACGGAGGAATGTTGA
1 AGATGAAAGGTGTACGGAGGAATGTTGA
*
30898217 AGATGAAAGGTGTATGGAGGAATGTTGA
1 AGATGAAAGGTGTACGGAGGAATGTTGA
30898245 A
1 A
30898246 TTACTATTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.36, C:0.02, G:0.39, T:0.22
Consensus pattern (28 bp):
AGATGAAAGGTGTACGGAGGAATGTTGA
Found at i:30899209 original size:45 final size:45
Alignment explanation
Indices: 30899145--30899237 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
30899135 GCATATTATG
30899145 GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
1 GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
*
30899190 GGAAAGGAGGTTAGTAATTTTTGTCTTAATATTTTGAACAATAAT
1 GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
30899235 GGA
1 GGA
30899238 TCGATTGAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (45 bp):
GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
Found at i:30905122 original size:100 final size:98
Alignment explanation
Indices: 30904947--30905175 Score: 280
Period size: 100 Copynumber: 2.3 Consensus size: 98
30904937 TATTGTGAAG
* * * *
30904947 TCACGTGTGTAGTACTAAGTCCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATATGTAGTACT
* *
30905012 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCATACCAGATAA-TT-GA
* * * *
30905047 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTTAGGTCACGTATGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCACATATGTAGTAC
* **
30905111 TAAGTGTAGGCTACTACGTGTACCAGATAATTGA
65 TAAGTGCAGGCTACTACGCATACCAGATAATTGA
** *
30905145 TTGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
30905176 TGCGTACCAG
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 30 0.27
99 4 0.04
100 78 0.70
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATATGTAGTACT
AAGTGCAGGCTACTACGCATACCAGATAATTGA
Found at i:30905183 original size:49 final size:50
Alignment explanation
Indices: 30904947--30905188 Score: 256
Period size: 49 Copynumber: 4.9 Consensus size: 50
30904937 TATTGTGAAG
* * * * *
30904947 TCACGTGTGTAGTACTAAGTCCAGGCTACTACATGTACCGGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
* * ** * *
30904996 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGA
* * * *
30905047 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
* * *
30905096 TCACGTATGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT-GA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
** * *
30905145 TTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
30905189 GCCTTGTCTA
Statistics
Matches: 159, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 118 0.74
50 4 0.03
51 37 0.23
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
Found at i:30909800 original size:10 final size:10
Alignment explanation
Indices: 30909787--30909833 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
30909777 AAGCTCCATC
*
30909787 CAGCTCAATT
1 CAGCTCATTT
30909797 CAGCTCATTT
1 CAGCTCATTT
*
30909807 GAGCTCATTT
1 CAGCTCATTT
*
30909817 CAGCTCGTTT
1 CAGCTCATTT
*
30909827 GAGCTCA
1 CAGCTCA
30909834 ACCGAGCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (10 bp):
CAGCTCATTT
Found at i:30909811 original size:20 final size:20
Alignment explanation
Indices: 30909788--30909834 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
30909778 AGCTCCATCC
30909788 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
30909808 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
30909828 AGCTCAA
1 AGCTCAA
30909835 CCGAGCTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:30911415 original size:12 final size:12
Alignment explanation
Indices: 30911398--30911422 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30911388 GGTTCGTTGT
30911398 AAAAAAAATTCA
1 AAAAAAAATTCA
30911410 AAAAAAAATTCA
1 AAAAAAAATTCA
30911422 A
1 A
30911423 GTTGTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:30911492 original size:12 final size:12
Alignment explanation
Indices: 30911475--30911507 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
30911465 AAGTATTAAC
30911475 AAAAAAGAAGAGA
1 AAAAAAGAAGA-A
30911488 AAAAAA-AAGAA
1 AAAAAAGAAGAA
30911499 AAAAAAGAA
1 AAAAAAGAA
30911508 ATACGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.37
12 6 0.32
13 6 0.32
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAGAA
Found at i:30912493 original size:13 final size:12
Alignment explanation
Indices: 30912457--30912491 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
30912447 GAACAAAAAA
*
30912457 GAAAAATGAAATT
1 GAAAAA-GAAAGT
30912470 GAAAAAGAAAGT
1 GAAAAAGAAAGT
30912482 GAAAAAGAAA
1 GAAAAAGAAA
30912492 AGAGAAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (12 bp):
GAAAAAGAAAGT
Found at i:30912494 original size:17 final size:17
Alignment explanation
Indices: 30912472--30912506 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30912462 ATGAAATTGA
30912472 AAAAGA-AAGTGAAAAAG
1 AAAAGAGAAG-GAAAAAG
30912489 AAAAGAGAAGGAAAAAG
1 AAAAGAGAAGGAAAAAG
30912506 A
1 A
30912507 GATCGAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (17 bp):
AAAAGAGAAGGAAAAAG
Found at i:30916327 original size:25 final size:25
Alignment explanation
Indices: 30916299--30916358 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
30916289 CCATTTACAT
30916299 CAAAACCCAACAGTAGCCCAAACAC
1 CAAAACCCAACAGTAGCCCAAACAC
30916324 CAAAACCCAACAGTAGCCCAAACAC
1 CAAAACCCAACAGTAGCCCAAACAC
*
30916349 TAAAACCCAA
1 CAAAACCCAA
30916359 AATAAGAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.50, C:0.38, G:0.07, T:0.05
Consensus pattern (25 bp):
CAAAACCCAACAGTAGCCCAAACAC
Found at i:30916448 original size:28 final size:28
Alignment explanation
Indices: 30916397--30916450 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
30916387 CTCACCCTAG
*
30916397 CCACCGCCCCACTTGCCTCTGCCACCAC
1 CCACCGCCCCACTTGCCTCAGCCACCAC
*
30916425 CCACCGCCCCTCTT-CCGTCAGCCACC
1 CCACCGCCCCACTTGCC-TCAGCCACC
30916451 TCCTCCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.13, C:0.61, G:0.11, T:0.15
Consensus pattern (28 bp):
CCACCGCCCCACTTGCCTCAGCCACCAC
Found at i:30917587 original size:16 final size:15
Alignment explanation
Indices: 30917512--30917605 Score: 66
Period size: 15 Copynumber: 6.1 Consensus size: 15
30917502 ATTGTTTATG
* *
30917512 TTACTACTATTATTG
1 TTACTAGTATTATTA
*
30917527 TTACTA-TATTTTTA
1 TTACTAGTATTATTA
* *
30917541 TTCCCT-CTATTATGTA
1 TT-ACTAGTATTAT-TA
*
30917557 TTAATAATGTATTATTA
1 TTACT-A-GTATTATTA
30917574 TTACTAGTTATTATTA
1 TTACTAG-TATTATTA
*
30917590 TTTCTAGTATTATTA
1 TTACTAGTATTATTA
30917605 T
1 T
30917606 ATATATAATA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
14 8 0.13
15 24 0.38
16 19 0.30
17 6 0.10
18 6 0.10
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (15 bp):
TTACTAGTATTATTA
Found at i:30917653 original size:18 final size:20
Alignment explanation
Indices: 30917605--30917653 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 20
30917595 AGTATTATTA
30917605 TATATATAATATTAGTGTATG
1 TATATAT-ATATTAGTGTATG
*
30917626 T-TTTAT-TATATA-TGTATG
1 TATATATATAT-TAGTGTATG
30917644 TATATATATA
1 TATATATATA
30917654 GTATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
18 10 0.43
19 6 0.26
20 6 0.26
21 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
TATATATATATTAGTGTATG
Found at i:30917660 original size:29 final size:28
Alignment explanation
Indices: 30917594--30917661 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
30917584 TTATTATTTC
*
30917594 TAGTATTATTATATATATAATATTAGTG
1 TAGTATTATTATATATATAATATTAGTA
* * *
30917622 TATGTTTTATTATATATGTATGTATATA-TA
1 TA-GTATTATTATATATATA-ATAT-TAGTA
30917652 TAGTATTATT
1 TAGTATTATT
30917662 TTAATTACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.06
29 22 0.69
30 6 0.19
31 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.54
Consensus pattern (28 bp):
TAGTATTATTATATATATAATATTAGTA
Done.