Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 40 of 127
Found at i:7996845 original size:12 final size:12
Alignment explanation
Indices: 7996828--7996856 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7996818 ATATTTTCAA
7996828 AATAACAACAAC
1 AATAACAACAAC
7996840 AATAACAACAAC
1 AATAACAACAAC
7996852 AATAA
1 AATAA
7996857 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.21, G:0.00, T:0.10
Consensus pattern (12 bp):
AATAACAACAAC
Found at i:8000541 original size:25 final size:25
Alignment explanation
Indices: 8000504--8000557 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
8000494 TCCCCACAAT
* *
8000504 ATTCATAAGGGTATTTAATTTAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
8000529 ATTCATAAAGGTATTTAATTAAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
8000554 ATTC
1 ATTC
8000558 TTATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (25 bp):
ATTCATAAAGGTATTTAATTAAGGC
Found at i:8000794 original size:32 final size:32
Alignment explanation
Indices: 8000753--8000863 Score: 105
Period size: 32 Copynumber: 3.3 Consensus size: 32
8000743 TGAGGGATCA
8000753 GGTTCTGTTGAAGCTGCTGTAAACGTCGAATG
1 GGTTCTGTTGAAGCTGCTGTAAACGTCGAATG
* *
8000785 GGTTCTGTTGAAGCTGCTATAAACTGTTGAAGCTG
1 GGTTCTGTTGAAGCTGCTGTAAAC-GTCGAA--TG
*** * *
8000820 CTGCAAACTGTTGAAGCTGCTGCAAACGTCGAAGG
1 --G-GTTCTGTTGAAGCTGCTGTAAACGTCGAATG
8000855 GGTTCTGTT
1 GGTTCTGTT
8000864 CAAGATCTGC
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
32 28 0.46
33 6 0.10
35 3 0.05
37 6 0.10
38 18 0.30
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (32 bp):
GGTTCTGTTGAAGCTGCTGTAAACGTCGAATG
Found at i:8000813 original size:19 final size:19
Alignment explanation
Indices: 8000789--8000846 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 19
8000779 CGAATGGGTT
*
8000789 CTGTTGAAGCTGCTATAAA
1 CTGTTGAAGCTGCTACAAA
*
8000808 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTACAAA
*
8000827 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTACAAA
8000846 C
1 C
8000847 GTCGAAGGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (19 bp):
CTGTTGAAGCTGCTACAAA
Found at i:8000874 original size:31 final size:30
Alignment explanation
Indices: 8000839--8000934 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 30
8000829 GTTGAAGCTG
8000839 CTGCAAACGTCGAAGGGGTTCTGTTCAAGAT
1 CTGCAAACGTCGAA-GGGTTCTGTTCAAGAT
* * * *
8000870 CTGCAAACTATTGAA-GCTGCTG--CAAG--
1 CTGCAAAC-GTCGAAGGGTTCTGTTCAAGAT
8000896 CTGCAAACGTCGAATGGGTTCTGTTCAAGAT
1 CTGCAAACGTCGAA-GGGTTCTGTTCAAGAT
8000927 CTGCAAAC
1 CTGCAAAC
8000935 TGTTGAAGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
25 4 0.08
26 8 0.16
27 5 0.10
28 4 0.08
29 4 0.08
30 5 0.10
31 16 0.32
32 4 0.08
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (30 bp):
CTGCAAACGTCGAAGGGTTCTGTTCAAGAT
Found at i:8000874 original size:50 final size:50
Alignment explanation
Indices: 8000824--8001566 Score: 702
Period size: 50 Copynumber: 14.4 Consensus size: 50
8000814 AAGCTGCTGC
* *
8000824 AAACTGTTGAAGCTGCTGCAAACGTCGAAGGGGTTCTGTTCAAGATCTGC
1 AAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
* *
8000874 AAACTATTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGC
1 AAACTGTTGAA---GCT----GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
* *
8000931 AAACTGTTGAAGCTGCTGTAAATGTCGAATGGGTTCTGTTCAAGATCTGT
1 AAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
8000981 AAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
1 AAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
*
8001031 AAATTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
1 AAACTGTTGAA---GCT----GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
8001088 AAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
1 AAACTGTTGAA---GCT----GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
* *
8001145 AAACTGTTGAAGCTGCTGCAAACTATTC-AA---GATCTG-T-AA-A-CTGTT
1 AAACTGTTGAAGCTGCTGCAAAC--GTCGAATGGGTTCTGTTCAAGATCTG-T
* *
8001190 GAAGCTGCTGCAA---GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
1 -AAACTGTTG-AAGCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
*
8001239 AAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTAT
1 AAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
8001289 AAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
1 AAACTGTTGAA---GCT----GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
* *
8001346 AAACTGTTGAAGCTGCTGCAAACTATTC-AA---GATCTG--CAA-A-CTGTT
1 AAACTGTTGAAGCTGCTGCAAAC--GTCGAATGGGTTCTGTTCAAGATCTG-T
* *
8001391 GAAGCTGCTGCAA---GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
1 -AAACTGTTG-AAGCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
* ** * * * *
8001440 AAACTGTTGAAGCTGCTGCAAACTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGC
1 AAACTGTTGAAGCTGCTGCAAAC-G-TCGA-ATGGGT--TCTGTTCAAGAT-CTGT
* **
8001496 AAACTGTTGAAGCTGTTGCAAACGTCGAATGGGTTCTGTTCAAGATCTAC
1 AAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
8001546 AAACTGTTGAAGCTGCTGCAA
1 AAACTGTTGAAGCTGCTGCAA
8001567 GCTGCAAACG
Statistics
Matches: 590, Mismatches: 44, Indels: 118
0.78 0.06 0.16
Matches are distributed among these distances:
42 4 0.01
43 4 0.01
44 24 0.04
45 4 0.01
46 29 0.05
47 10 0.02
48 29 0.05
49 4 0.01
50 203 0.34
51 14 0.02
52 7 0.01
53 17 0.03
54 12 0.02
55 10 0.02
56 25 0.04
57 194 0.33
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
AAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
Found at i:8000924 original size:57 final size:57
Alignment explanation
Indices: 8000838--8001165 Score: 504
Period size: 57 Copynumber: 6.0 Consensus size: 57
8000828 TGTTGAAGCT
* * *
8000838 GCTGCAAACGTCGAAGGGGTTCTGTTCAAGATCTGCAAACTATTGAAGCTGCTGCAA
1 GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
*
8000895 GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGCAAACTGTTGAAGCTGCT----
1 GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
*
8000948 G-T--AAATGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAA---GCT----
1 GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
*
8000995 GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAATTGTTGAAGCTGCTGCAA
1 GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
8001052 GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
1 GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
8001109 GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
1 GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
8001166 ACTATTCAAG
Statistics
Matches: 254, Mismatches: 7, Indels: 20
0.90 0.02 0.07
Matches are distributed among these distances:
47 4 0.02
48 1 0.00
50 80 0.31
52 1 0.00
53 4 0.02
57 164 0.65
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (57 bp):
GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
Found at i:8000958 original size:107 final size:106
Alignment explanation
Indices: 8000824--8001167 Score: 486
Period size: 107 Copynumber: 3.2 Consensus size: 106
8000814 AAGCTGCTGC
* * *
8000824 AAACTGTTGAAGCTGCTGCAAACGTCGAAGGGGTTCTGTTCAAGATCTGCAAACTATTGAAGCTG
1 AAACTGTTGAAGCTGCTG-AAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTG
*
8000889 CTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGC
65 CTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
*
8000931 AAACTGTTGAAGCTGCTGTAAATGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAA---G
1 AAACTGTTGAAGCTGCTG-AAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTG
8000993 CT----GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
65 CTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
*
8001031 AAATTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTT
1 AAACTGTTGAA---GCT----GCTG-AAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTT
8001096 GAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
58 GAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
8001145 AAACTGTTGAAGCTGCTGCAAAC
1 AAACTGTTGAAGCTGCTG-AAAC
8001168 TATTCAAGAT
Statistics
Matches: 213, Mismatches: 10, Indels: 28
0.85 0.04 0.11
Matches are distributed among these distances:
100 45 0.21
103 3 0.01
104 3 0.01
107 110 0.52
110 3 0.01
111 3 0.01
114 46 0.22
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (106 bp):
AAACTGTTGAAGCTGCTGAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGC
TGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGT
Found at i:8001196 original size:201 final size:203
Alignment explanation
Indices: 8000969--8001566 Score: 806
Period size: 201 Copynumber: 3.0 Consensus size: 203
8000959 ATGGGTTCTG
8000969 TTCAAGATCTGTAAACTGTTGAA-GCT-GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTA
1 TTCAAGATCTGTAAACTGTTGAACGCTAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTA
*
8001032 AATTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTG
66 AACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTG
8001097 AAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCT
131 AAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCT
8001162 GCAAACTA
196 GCAAACTA
8001170 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
1 TTCAAGATCTGTAAACTGTTGAA-C-GCT---AGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
*
8001235 CTGTAAACTGTTGAA---GCT----GCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTATAAAC
61 CTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAAC
8001293 TGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAG
126 TGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAG
8001358 CTGCTGCAAACTA
191 CTGCTGCAAACTA
*
8001371 TTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
1 TTCAAGATCTGTAAACTGTTGAA-C-GCT---AGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
* **** * * *
8001436 CTGTAAACTGTTGAAGCTGCTGCAAACTGTTC-AA-GATC---TGTAAACTGTTGAAGCTGCTGC
61 CTGTAAACTGTTGAAGCTGCTGCAAGCTG--CAAACG-TCGAATGGGTTCTGTTCAAGAT-CTGT
**
8001496 AAACTGTTGAAGCTG-T------TGCAAACGTCGAATGGGTTCTGTTCAAGATCTACAAACTGTT
122 AAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTT
8001554 GAAGCTGCTGCAA
187 GAAGCTGCTGCAA
8001567 GCTGCAAACG
Statistics
Matches: 365, Mismatches: 14, Indels: 37
0.88 0.03 0.09
Matches are distributed among these distances:
200 53 0.15
201 219 0.60
204 6 0.02
205 3 0.01
206 12 0.03
207 17 0.05
208 50 0.14
209 4 0.01
210 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (203 bp):
TTCAAGATCTGTAAACTGTTGAACGCTAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTA
AACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTG
AAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCT
GCAAACTA
Found at i:8001237 original size:94 final size:94
Alignment explanation
Indices: 8001076--8001566 Score: 712
Period size: 94 Copynumber: 5.0 Consensus size: 94
8001066 ATGGGTTCTG
8001076 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
1 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
8001141 CTGTAAACTGTTGAAGCTGCTGCAAACTA
66 CTGTAAACTGTTGAAGCTGCTGCAAACTA
8001170 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
1 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
8001235 CTGTAAACTGTTGAAGCTGCTGCAAACGTCGAA
66 CTGTAAACTGTTGAAGCTGCTGCAAAC-T---A
*
8001268 TGGGTTCTGTTCAAGATCTATAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCT
1 ---------TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCT
8001333 GTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAACTA
57 GTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAACTA
*
8001371 TTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
1 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
*
8001436 CTGTAAACTGTTGAAGCTGCTGCAAACTG
66 CTGTAAACTGTTGAAGCTGCTGCAAACTA
8001465 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGTTGCAAACGTCGAATGGGT
1 TTCAAGATCTGTAAACTGTTGAAGCTGCTG----C-----AAGC---TGCAAACGTCGAATGGGT
**
8001530 TCTGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAA
54 TCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
8001567 GCTGCAAACG
Statistics
Matches: 365, Mismatches: 7, Indels: 38
0.89 0.02 0.09
Matches are distributed among these distances:
94 212 0.58
95 1 0.00
98 2 0.01
103 5 0.01
106 54 0.15
107 91 0.25
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (94 bp):
TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAGAT
CTGTAAACTGTTGAAGCTGCTGCAAACTA
Found at i:8001239 original size:57 final size:57
Alignment explanation
Indices: 8001170--8001366 Score: 336
Period size: 57 Copynumber: 3.6 Consensus size: 57
8001160 CTGCAAACTA
8001170 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
1 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
8001227 TTCAAGATCTGTAAACTGTTGAA---GCT----GCTGCAAACGTCGAATGGGTTCTG
1 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
*
8001277 TTCAAGATCTATAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
1 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
8001334 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
1 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAA
8001367 ACTATTCAAG
Statistics
Matches: 131, Mismatches: 2, Indels: 14
0.89 0.01 0.10
Matches are distributed among these distances:
50 46 0.35
53 3 0.02
54 3 0.02
57 79 0.60
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (57 bp):
TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
Found at i:8001384 original size:18 final size:18
Alignment explanation
Indices: 8001334--8001387 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
8001324 ATGGGTTCTG
* *
8001334 TTCAAGATCTGTAAACTG
1 TTCAAGATCTGCAAACTA
* *
8001352 TTGAAGCTGCTGCAAACTA
1 TTCAAGAT-CTGCAAACTA
8001371 TTCAAGATCTGCAAACT
1 TTCAAGATCTGCAAACT
8001388 GTTGAAGCTG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (18 bp):
TTCAAGATCTGCAAACTA
Found at i:8001403 original size:19 final size:19
Alignment explanation
Indices: 8001346--8001518 Score: 122
Period size: 19 Copynumber: 9.2 Consensus size: 19
8001336 CAAGATCTGT
8001346 AAACTGTTGAAGCTGCTGC
1 AAACTGTTGAAGCTGCTGC
* * *
8001365 AAACTATTCAAGAT-CTGC
1 AAACTGTTGAAGCTGCTGC
8001383 AAACTGTTGAAGCTGCTGC
1 AAACTGTTGAAGCTGCTGC
* * * * *
8001402 AAGCTG--CAAACGTCGAATGG
1 AAACTGTTGAAGC-T-G-CTGC
*** * * *
8001422 GTTCTGTTCAAGAT-CTGT
1 AAACTGTTGAAGCTGCTGC
8001440 AAACTGTTGAAGCTGCTGC
1 AAACTGTTGAAGCTGCTGC
* * *
8001459 AAACTGTTCAAGAT-CTGT
1 AAACTGTTGAAGCTGCTGC
8001477 AAACTGTTGAAGCTGCTGC
1 AAACTGTTGAAGCTGCTGC
*
8001496 AAACTGTTGAAGCTGTTGC
1 AAACTGTTGAAGCTGCTGC
8001515 AAAC
1 AAAC
8001519 GTCGAATGGG
Statistics
Matches: 115, Mismatches: 31, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
17 3 0.03
18 42 0.37
19 61 0.53
20 5 0.04
21 1 0.01
22 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (19 bp):
AAACTGTTGAAGCTGCTGC
Found at i:8001444 original size:57 final size:57
Alignment explanation
Indices: 8001371--8001592 Score: 243
Period size: 57 Copynumber: 4.0 Consensus size: 57
8001361 CTGCAAACTA
8001371 TTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
1 TTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
* * ****
8001428 TTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAACTGTTC-AA-GATC---TGTAAACTG
1 TTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTG--CAAACG-TCGAATGGGTTCTG
* *
8001483 TTGAAGCTGCTGCAAACTGTTGAAGCTG-T------TGCAAACGTCGAATGGGTTCTG
1 TTCAAGAT-CTGCAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
*
8001534 TTCAAGATCTACAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
1 TTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
8001591 TT
1 TT
8001593 GAAGCTGTTA
Statistics
Matches: 133, Mismatches: 16, Indels: 32
0.73 0.09 0.18
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 3 0.02
50 18 0.14
51 12 0.09
55 12 0.09
56 18 0.14
57 60 0.45
58 4 0.03
59 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (57 bp):
TTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTG
Found at i:8001466 original size:37 final size:37
Alignment explanation
Indices: 8001425--8001503 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
8001415 CGAATGGGTT
8001425 CTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAA
1 CTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAA
8001462 CTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAA
1 CTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAA
8001499 CTGTT
1 CTGTT
8001504 GAAGCTGTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (37 bp):
CTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAA
Found at i:8004013 original size:45 final size:45
Alignment explanation
Indices: 8003940--8004029 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
8003930 AGCTTCACTT
* * *
8003940 GACTAAAATATTTCAATAATAGTTAATTGAGATCTAAAATTTCTC
1 GACTAAAATATTTCAATAAGAGTCAATTGAGATCTAAAACTTCTC
* * *
8003985 GACTTAAATATTTCAATAAGGGTCAATTGAGATTTAAAACTTCTC
1 GACTAAAATATTTCAATAAGAGTCAATTGAGATCTAAAACTTCTC
8004030 TAGCAAATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (45 bp):
GACTAAAATATTTCAATAAGAGTCAATTGAGATCTAAAACTTCTC
Found at i:8009774 original size:17 final size:17
Alignment explanation
Indices: 8009752--8009786 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8009742 GATCACTCTA
8009752 AGATTACATTATTCAAT
1 AGATTACATTATTCAAT
*
8009769 AGATTATATTATTCAAT
1 AGATTACATTATTCAAT
8009786 A
1 A
8009787 TCTTAGAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (17 bp):
AGATTACATTATTCAAT
Found at i:8012958 original size:16 final size:17
Alignment explanation
Indices: 8012939--8012972 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8012929 TTTTAGAGTC
8012939 TTTAAAA-GTAAATATT
1 TTTAAAATGTAAATATT
*
8012955 TTTAAAATTTAAATATT
1 TTTAAAATGTAAATATT
8012972 T
1 T
8012973 AATTATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAAAATGTAAATATT
Found at i:8016674 original size:14 final size:14
Alignment explanation
Indices: 8016645--8016705 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
8016635 AAAATTATTT
8016645 TTTAATTA-AT-TA
1 TTTAATTATATATA
8016657 TTTAATTATATATA
1 TTTAATTATATATA
* *
8016671 TTTATATAATGATATT
1 TTTA-ATTAT-ATATA
* *
8016687 TTTAAATATTTATA
1 TTTAATTATATATA
8016701 TTTAA
1 TTTAA
8016706 AAAATAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 8 0.21
13 2 0.05
14 14 0.36
15 7 0.18
16 8 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTTAATTATATATA
Found at i:8016691 original size:30 final size:30
Alignment explanation
Indices: 8016657--8016718 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
8016647 TAATTAATTA
* * * *
8016657 TTTAATTATATATATTTATATAATGATATT
1 TTTAAATATATATATTTAAAAAATAATATT
*
8016687 TTTAAATATTTATATTTAAAAAATAATATT
1 TTTAAATATATATATTTAAAAAATAATATT
8016717 TT
1 TT
8016719 ATATTTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTAAATATATATATTTAAAAAATAATATT
Found at i:8016721 original size:21 final size:21
Alignment explanation
Indices: 8016691--8016741 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
8016681 GATATTTTTA
8016691 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
8016711 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
8016732 AATATTTTAT
1 AATATTTTAT
8016742 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:8017782 original size:69 final size:69
Alignment explanation
Indices: 8017671--8017810 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
8017661 TTTTGTTACA
* *
8017671 TCCTATATCCTCAAACATAAAATGTACTCTGCTTGGGTTGATAAAATTTAGTTTACACTTCAGTT
1 TCCTATATCCTCAAACATAAAATGTACTCTGCTCGGGTTGATAAAATTTAGTCTACACTTCAGTT
8017736 GCAT
66 GCAT
*
8017740 TCCTATATCCTCAAACATAAAATGTACTCTGCTCGGGTTGATAAAATTTAGTCTGCACTTCAGTT
1 TCCTATATCCTCAAACATAAAATGTACTCTGCTCGGGTTGATAAAATTTAGTCTACACTTCAGTT
8017805 GCAT
66 GCAT
8017809 TC
1 TC
8017811 ATATTGTATG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (69 bp):
TCCTATATCCTCAAACATAAAATGTACTCTGCTCGGGTTGATAAAATTTAGTCTACACTTCAGTT
GCAT
Found at i:8023665 original size:14 final size:14
Alignment explanation
Indices: 8023648--8023705 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
8023638 AATACTATTT
8023648 AATTAATTAAAATA
1 AATTAATTAAAATA
* * *
8023662 AATTAATCATAATT
1 AATTAATTAAAATA
* *
8023676 AATTAACTAAAATT
1 AATTAATTAAAATA
8023690 AATT-ATTAAAAATA
1 AATTAATT-AAAATA
8023704 AA
1 AA
8023706 AATTATCCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
13 2 0.06
14 33 0.94
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTAATTAAAATA
Found at i:8023724 original size:96 final size:95
Alignment explanation
Indices: 8023550--8023724 Score: 205
Period size: 96 Copynumber: 1.8 Consensus size: 95
8023540 TTTTATTAAA
* **
8023550 TTAATTATAAAAATAATATTAATCATAATTAATTAATAAAATATAATTATTAATTAAGTCATTTC
1 TTAATTATAAAAATAATATTAATCATAATTAATTAATAAAATATAATTATTAAATAAGAAATTTC
* **
8023615 CATCTTATTATTAATTATTAGTTAATACTAT
66 CAAC-TAAAATTAATTATTAGTTAATACTAT
*
8023646 TTAATTAATTAAAATAA-ATTAATCATAATTAATTAACTAAAAT-TAATTATTAAAAATAA-AAA
1 TTAATT-ATAAAAATAATATTAATCATAATTAATTAA-TAAAATATAATTATT--AAATAAGAAA
8023708 TTATCCAAC-AAAATTAA
62 TT-TCCAACTAAAATTAA
8023725 AGAAAAATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
96 39 0.58
97 18 0.27
98 10 0.15
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.41
Consensus pattern (95 bp):
TTAATTATAAAAATAATATTAATCATAATTAATTAATAAAATATAATTATTAAATAAGAAATTTC
CAACTAAAATTAATTATTAGTTAATACTAT
Found at i:8023797 original size:20 final size:20
Alignment explanation
Indices: 8023772--8023815 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
8023762 ATTTTTTTTC
*
8023772 TCTTTC-CTCTCTCTTCCTTT
1 TCTTTCTCTC-CTCTTCCATT
*
8023792 TCTTTCTCTCCTTTTCCATT
1 TCTTTCTCTCCTCTTCCATT
8023812 TCTT
1 TCTT
8023816 CCCCATTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.61
Consensus pattern (20 bp):
TCTTTCTCTCCTCTTCCATT
Found at i:8029699 original size:62 final size:62
Alignment explanation
Indices: 8029614--8029739 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 62
8029604 ATTTTATAAG
* ** * * *
8029614 TGTATCTTTGGTTTAAATGAAGTAATGGAGGAAAGCAAATGAGTTTCATTTTTAGAATAGAA
1 TGTATCTTTGGTTAAAACAAAGTAATGGAGGAAAGAAAATGAGTTTCATTTTGAGAATAAAA
*
8029676 TGTATCTTTTGTTAAAACAAAGTAATGGAGGAAAGAAAATGAGTTTCATTTTGAGAATAAAA
1 TGTATCTTTGGTTAAAACAAAGTAATGGAGGAAAGAAAATGAGTTTCATTTTGAGAATAAAA
8029738 TG
1 TG
8029740 AAACTTAGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (62 bp):
TGTATCTTTGGTTAAAACAAAGTAATGGAGGAAAGAAAATGAGTTTCATTTTGAGAATAAAA
Found at i:8037666 original size:27 final size:24
Alignment explanation
Indices: 8037619--8037709 Score: 67
Period size: 27 Copynumber: 3.5 Consensus size: 24
8037609 TATATAGGTA
8037619 ATTTTTTATAAATATATATTAATATAT
1 ATTTTTTATAAA-ATA-ATTAAT-TAT
*
8037646 ATTTTTTAATAAAATACATTAATTTT
1 ATTTTTT-ATAAAATA-ATTAATTAT
* **
8037672 AATTAATATAAAATAA-TAATTTAT
1 ATTTTTTATAAAATAATTAA-TTAT
*
8037696 ATTATTTAATAAAA
1 ATT-TTTTATAAAA
8037710 ACTCTATTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
23 3 0.06
24 6 0.12
25 15 0.29
26 6 0.12
27 16 0.31
28 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTTTTATAAAATAATTAATTAT
Found at i:8039452 original size:12 final size:12
Alignment explanation
Indices: 8039435--8039470 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8039425 GCCATTATGA
8039435 TTAATGGAATTT
1 TTAATGGAATTT
*
8039447 TTAATGAAATTT
1 TTAATGGAATTT
*
8039459 TTGATGGAATTT
1 TTAATGGAATTT
8039471 CGTCTATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (12 bp):
TTAATGGAATTT
Found at i:8044682 original size:19 final size:19
Alignment explanation
Indices: 8044647--8044690 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
8044637 ATTTCATCCA
* *
8044647 TCAAATTTCAAATCTAACT
1 TCAAATTTCAAAGCTAAAT
8044666 TCAAAGTTTC-AAGCTAAAT
1 TCAAA-TTTCAAAGCTAAAT
8044685 TCAAAT
1 TCAAAT
8044691 CGCAAAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 17 0.77
20 4 0.18
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (19 bp):
TCAAATTTCAAAGCTAAAT
Found at i:8051307 original size:2 final size:2
Alignment explanation
Indices: 8051266--8051290 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8051256 ATATTTAAGC
8051266 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8051291 CACACTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8053002 original size:3 final size:3
Alignment explanation
Indices: 8052994--8053038 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
8052984 TTATTTACTG
8052994 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8053039 AAAAATTCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8056302 original size:21 final size:21
Alignment explanation
Indices: 8056260--8056319 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
8056250 TGAGATGAAA
* *
8056260 AATTA-ATTATAAAAGAAGAAT
1 AATTATATTA-AAAATAAAAAT
8056281 AATTATATTAAAAATAAAAAT
1 AATTATATTAAAAATAAAAAT
*
8056302 -A-TATATGTATAAATAAAA
1 AATTATAT-TAAAAATAAAA
8056320 TATGCAGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 5 0.15
20 11 0.32
21 14 0.41
22 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
AATTATATTAAAAATAAAAAT
Found at i:8059821 original size:2 final size:2
Alignment explanation
Indices: 8059814--8059840 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8059804 TGAGGGACAT
8059814 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
8059841 AACTTAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8061284 original size:2 final size:2
Alignment explanation
Indices: 8061277--8061304 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8061267 TATAAATAAG
8061277 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8061305 ATAATCCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8063010 original size:26 final size:24
Alignment explanation
Indices: 8062981--8063043 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
8062971 TAAATTTAAA
8062981 AAAAATTTATCACCTAAAAATTTTTT
1 AAAAATTTATCA-CTAAAAA-TTTTT
* * *
8063007 AAAAATTTATTATTTAAAATTTTT
1 AAAAATTTATCACTAAAAATTTTT
8063031 AAAAATTTTATCA
1 AAAAA-TTTATCA
8063044 TTAGATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 10 0.31
25 11 0.34
26 11 0.34
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (24 bp):
AAAAATTTATCACTAAAAATTTTT
Found at i:8063282 original size:26 final size:26
Alignment explanation
Indices: 8063251--8063325 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
8063241 ACAAATTTAG
*
8063251 ATAAAAATTTCTCACTTAAAAATTTT
1 ATAAAAATTTATCACTTAAAAATTTT
* * *
8063277 ATAAAAATTTATCATTTGAAATTTTT
1 ATAAAAATTTATCACTTAAAAATTTT
*
8063303 AT-AAATTTTATCA-TTAAATAATT
1 ATAAAAATTTATCACTTAAA-AATT
8063326 AATACTTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 4 0.10
25 13 0.32
26 24 0.59
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (26 bp):
ATAAAAATTTATCACTTAAAAATTTT
Found at i:8063298 original size:25 final size:25
Alignment explanation
Indices: 8063251--8063325 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
8063241 ACAAATTTAG
*
8063251 ATAAAAATTTCTCACTTAAAAATTTT
1 ATAAAAATTTATCA-TTAAAAATTTT
**
8063277 ATAAAAATTTATCATTTGAAATTTT
1 ATAAAAATTTATCATTAAAAATTTT
*
8063302 -TATAAATTTTATCATTAAATAATT
1 ATA-AAAATTTATCATTAAA-AATT
8063326 AATACTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.05
25 22 0.54
26 17 0.41
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (25 bp):
ATAAAAATTTATCATTAAAAATTTT
Found at i:8066522 original size:31 final size:31
Alignment explanation
Indices: 8066487--8066550 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
8066477 ATTCACCTTA
*
8066487 TAAGATAACAAGTGTATGAATGATAGTCAAT
1 TAAGATAACAAGCGTATGAATGATAGTCAAT
*
8066518 TAAGATAACAAGCGTATGAATGATATTCAAT
1 TAAGATAACAAGCGTATGAATGATAGTCAAT
8066549 TA
1 TA
8066551 TTAATTAGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (31 bp):
TAAGATAACAAGCGTATGAATGATAGTCAAT
Found at i:8071882 original size:3 final size:3
Alignment explanation
Indices: 8071874--8071903 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8071864 TCCTTTTTTC
8071874 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
8071904 CTCTCTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:8075470 original size:20 final size:20
Alignment explanation
Indices: 8075445--8075483 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8075435 TCCTACTTCA
*
8075445 ACTGAATTCATATATTTCCC
1 ACTGAATGCATATATTTCCC
8075465 ACTGAATGCATATATTTCC
1 ACTGAATGCATATATTTCC
8075484 TAGATTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (20 bp):
ACTGAATGCATATATTTCCC
Found at i:8081728 original size:195 final size:197
Alignment explanation
Indices: 8081374--8081761 Score: 555
Period size: 195 Copynumber: 2.0 Consensus size: 197
8081364 CCCCTCCATT
* * * **
8081374 CCATTATCTTAAGATCTATTTTAATTGCACAAAGTTAAAAGACAATTATGAATGCAGTTGACTCA
1 CCATTATCTTAAAACCTATTTTAATTGCACAAAGGTAAAAGACAACAATGAATGCAGTTGACTCA
* * * *
8081439 TAACATTCTAGACATTTGTCCTCAATGAGTATCCATTGTGTTGCAACAAGGGATATAAAAGTAGC
66 TAACATTCTAGACATTTGCCCTCAATGAGTATCCATTGGGTTACAACAAGAGATATAAAAGTAGC
* *
8081504 AAACATGCACCTTGTAGTGTACAAACAATTTGAGACACAGCAAAAAGGAAGACCAAAGAAAAACA
131 AAACAGGCACCTTGTACTGTACAAACAATTTGAGACACAGCAAAAAGGAAGACCAAAGAAAAACA
8081569 TC
196 TC
**
8081571 CCATTATCTTAAAACCTATTTTAATTGCACAAAGGTAAAAGACAACAAT-AATGCAGTTGACTTG
1 CCATTATCTTAAAACCTATTTTAATTGCACAAAGGTAAAAGACAACAATGAATGCAGTTGACTCA
* * * * *
8081635 TAACATTTTA-CCATTTGCCCTCAATGAGTATTCATTGGGTTATAACAAGATATATAAAAGTAGC
66 TAACATTCTAGACATTTGCCCTCAATGAGTATCCATTGGGTTACAACAAGAGATATAAAAGTAGC
* ** * *
8081699 AAGCAGGTGCTTTGTACTGTACAAACAATTTGAGACACAGGAAAAAGGAAGACCAAAGAAAAA
131 AAACAGGCACCTTGTACTGTACAAACAATTTGAGACACAGCAAAAAGGAAGACCAAAGAAAAA
8081762 GATTAGTTTT
Statistics
Matches: 168, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
195 102 0.61
196 22 0.13
197 44 0.26
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (197 bp):
CCATTATCTTAAAACCTATTTTAATTGCACAAAGGTAAAAGACAACAATGAATGCAGTTGACTCA
TAACATTCTAGACATTTGCCCTCAATGAGTATCCATTGGGTTACAACAAGAGATATAAAAGTAGC
AAACAGGCACCTTGTACTGTACAAACAATTTGAGACACAGCAAAAAGGAAGACCAAAGAAAAACA
TC
Found at i:8082278 original size:154 final size:154
Alignment explanation
Indices: 8081998--8082305 Score: 589
Period size: 154 Copynumber: 2.0 Consensus size: 154
8081988 ATGGTTGTTA
* *
8081998 AGCCCACTCTAGGAAGCAAACATTTCTCAGATCGGCAAAACTTCACCTAAGTGTTGGCATATCCC
1 AGCCCACTCTAGGAAGCAAACATTTCTCAGATCGGCAAAAATTCACCTAACTGTTGGCATATCCC
8082063 TTCCTAAGTTAGTATGAAAAAGTTAACCATGACCTGAATATTGTGAATGATTTAGAAGAAGAACA
66 TTCCTAAGTTAGTATGAAAAAGTTAACCATGACCTGAATATTGTGAATGATTTAGAAGAAGAACA
*
8082128 TGGCGAAAAGGTTGTTAAGCCCAT
131 TGGCAAAAAGGTTGTTAAGCCCAT
8082152 AGCCCACTCTAGGAAGCAAACATTTCTCAGATCGGCAAAAATTCACCTAACTGTTGGCATATCCC
1 AGCCCACTCTAGGAAGCAAACATTTCTCAGATCGGCAAAAATTCACCTAACTGTTGGCATATCCC
8082217 TTCCTAAGTTAGTATGAAAAAGTTAACCATGACCTGAATATTGTGAATGATTTAGAAGAAGAACA
66 TTCCTAAGTTAGTATGAAAAAGTTAACCATGACCTGAATATTGTGAATGATTTAGAAGAAGAACA
8082282 TGGCAAAAAGGTTGTTAAGCCCAT
131 TGGCAAAAAGGTTGTTAAGCCCAT
8082306 CTTAGGGAAG
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 151 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (154 bp):
AGCCCACTCTAGGAAGCAAACATTTCTCAGATCGGCAAAAATTCACCTAACTGTTGGCATATCCC
TTCCTAAGTTAGTATGAAAAAGTTAACCATGACCTGAATATTGTGAATGATTTAGAAGAAGAACA
TGGCAAAAAGGTTGTTAAGCCCAT
Found at i:8085982 original size:11 final size:12
Alignment explanation
Indices: 8085946--8085998 Score: 74
Period size: 11 Copynumber: 4.5 Consensus size: 12
8085936 CAAATTTAAC
8085946 AATATAAAATAT
1 AATATAAAATAT
8085958 AATATAATAATAT
1 AATATAA-AATAT
8085971 AATAT-AAATAT
1 AATATAAAATAT
*
8085982 AAT-TAAAAAAT
1 AATATAAAATAT
8085993 AATATA
1 AATATA
8085999 GTTTAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
10 1 0.03
11 16 0.43
12 10 0.27
13 10 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATATAAAATAT
Found at i:8087599 original size:20 final size:20
Alignment explanation
Indices: 8087548--8087599 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
8087538 TTTGTTAACA
*
8087548 ATAAATAAAAATTAATTAAT
1 ATAAATAAAAAATAATTAAT
*
8087568 AT-ATTAAAAAAATAA-TAAT
1 ATAAAT-AAAAAATAATTAAT
8087587 ATAAATAAGAAAA
1 ATAAATAA-AAAA
8087600 AAGAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAAATAAAAAATAATTAAT
Found at i:8087599 original size:21 final size:21
Alignment explanation
Indices: 8087554--8087600 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
8087544 AACAATAAAT
*
8087554 AAAAATTAATTAATATATTAA
1 AAAAATTAATTAATATAATAA
8087575 AAAAA-TAA-TAATATAAATAA
1 AAAAATTAATTAATAT-AATAA
8087595 GAAAAA
1 -AAAAA
8087601 AGAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 7 0.30
21 10 0.43
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATTAATTAATATAATAA
Found at i:8087763 original size:207 final size:198
Alignment explanation
Indices: 8087388--8087773 Score: 424
Period size: 207 Copynumber: 1.9 Consensus size: 198
8087378 TTGATAAAAA
* * * * *
8087388 AAATAAGAAAAAAAAATTTATCCAATGATGAAATTTAAAGGTATTTCGGTAGAAATGCTTATGAA
1 AAATAAGAAAAAAAAATTTATCCAATGATGAAATTCAAAAGTATTCCGGTAAAAATGCTTAAGAA
* * * * *
8087453 ATCTCTATGTGAGAATAATTTTTTTAAATACTACCAGTGTATTGTAGAATTTATAAAAAATTTTC
66 ATATCTAGGTGAGAAGAATTTTTTTAAATACTACCAGTATATTGTAGAATTTATAAAAAACTTTC
8087518 AATACAATAAAAAAAAAATTTTTGTTAACAATAAATAAAAATTAATTAATATATTAAAAAAATAA
131 AATACAAT-AAAAAAAAATTTTTGTTAACAATAAAT-AAAA-TAATTAATATATTAAAAAAATAA
8087583 TAATAT
193 TAATAT
** *
8087589 AAATAAGAAAAAAGAAAATTTTATCCAATGATGGGATTCCAAAAGTATTCCGAGTAAAAATGTTT
1 AAATAAG-AAAAA-AAAA-TTTATCCAATGATGAAATT-CAAAAGTATTCCG-GTAAAAATG-CT
* * **
8087654 TAAGAAATATCTAGGTGAGAAGATTTTTTTTAAATATTTTCAGTATA-T-TAGAATATTTATAGA
60 TAAGAAATATCTAGGTGAGAAGAATTTTTTTAAATACTACCAGTATATTGTAG-A-ATTTATA-A
*
8087717 AAAACTTT-AATATAAT-AAAAAAAATTTTCT-TTAA-AATTAAAAATAAAATAATTAATA
122 AAAACTTTCAATACAATAAAAAAAAATTTT-TGTTAACAA-T--AAATAAAATAATTAATA
8087774 AAACAATTAA
Statistics
Matches: 154, Mismatches: 18, Indels: 22
0.79 0.09 0.11
Matches are distributed among these distances:
201 7 0.05
202 5 0.03
203 4 0.03
204 19 0.12
205 39 0.25
206 15 0.10
207 57 0.37
208 8 0.05
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.35
Consensus pattern (198 bp):
AAATAAGAAAAAAAAATTTATCCAATGATGAAATTCAAAAGTATTCCGGTAAAAATGCTTAAGAA
ATATCTAGGTGAGAAGAATTTTTTTAAATACTACCAGTATATTGTAGAATTTATAAAAAACTTTC
AATACAATAAAAAAAAATTTTTGTTAACAATAAATAAAATAATTAATATATTAAAAAAATAATAA
TAT
Found at i:8087773 original size:12 final size:12
Alignment explanation
Indices: 8087758--8087787 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8087748 TAAAATTAAA
*
8087758 AATAAAATAATT
1 AATAAAACAATT
8087770 AATAAAACAATT
1 AATAAAACAATT
8087782 AATAAA
1 AATAAA
8087788 TTTTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAAAACAATT
Found at i:8088055 original size:16 final size:17
Alignment explanation
Indices: 8088029--8088064 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
8088019 ATAATATTTG
*
8088029 AATATAAAAAAATAATA
1 AATATAAAAAAATAAAA
8088046 AATA-AAAAAAATAAAA
1 AATATAAAAAAATAAAA
8088062 AAT
1 AAT
8088065 CAAGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AATATAAAAAAATAAAA
Found at i:8089137 original size:24 final size:24
Alignment explanation
Indices: 8089109--8089161 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
8089099 AAATAATAAT
* *
8089109 AAAATTACTATAGTTTTGATTAAA
1 AAAATTACTATAATTATGATTAAA
*
8089133 AAAATTATTATAATTATGATTAAA
1 AAAATTACTATAATTATGATTAAA
8089157 AAAAT
1 AAAAT
8089162 AAAATTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (24 bp):
AAAATTACTATAATTATGATTAAA
Found at i:8090665 original size:13 final size:13
Alignment explanation
Indices: 8090647--8090671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8090637 ATATATGAGT
8090647 TTAGTATTTAAAA
1 TTAGTATTTAAAA
8090660 TTAGTATTTAAA
1 TTAGTATTTAAA
8090672 CTTGAAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TTAGTATTTAAAA
Found at i:8092954 original size:72 final size:72
Alignment explanation
Indices: 8092865--8093008 Score: 225
Period size: 72 Copynumber: 2.0 Consensus size: 72
8092855 GTGCTTTTTA
* * * ** *
8092865 ACTTGTTTAATTTTTCCTGTTATATATGTAAAAGTAAGATATGATTTGAGTGTAATCATGGGTGC
1 ACTTATTTAATTTTTCCTGTTATATATGTAAAAATAAGATATGATTTAAGTAAAAACATGGGTGC
8092930 TTGTGTT
66 TTGTGTT
*
8092937 ACTTATTTAATTTTTCCTGTTATATATGTAAAAATAAGATATGATTTAAGTAAAAAGATGGGTGC
1 ACTTATTTAATTTTTCCTGTTATATATGTAAAAATAAGATATGATTTAAGTAAAAACATGGGTGC
8093002 TTGTGTT
66 TTGTGTT
8093009 TGATTTGTGT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (72 bp):
ACTTATTTAATTTTTCCTGTTATATATGTAAAAATAAGATATGATTTAAGTAAAAACATGGGTGC
TTGTGTT
Found at i:8093325 original size:16 final size:17
Alignment explanation
Indices: 8093294--8093335 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
8093284 TATAGTTTAC
8093294 TTTATAATGCATCTATAA
1 TTTATAAT-CATCTATAA
8093312 TTTATAAT-ATCTAT-A
1 TTTATAATCATCTATAA
*
8093327 TTTTTAATC
1 TTTATAATC
8093336 TAATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 6 0.27
18 8 0.36
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTATAATCATCTATAA
Found at i:8093640 original size:2 final size:2
Alignment explanation
Indices: 8093633--8093674 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
8093623 ATCTATCCTT
*
8093633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8093675 CATGTACACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8099094 original size:26 final size:26
Alignment explanation
Indices: 8099060--8099122 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
8099050 GACTAAACTT
8099060 TATATATAATAATAATTTTTCATATA
1 TATATATAATAATAATTTTTCATATA
8099086 TATATATAATAATAATTTTTCATATA
1 TATATATAATAATAATTTTTCATATA
8099112 TATATAATAAT
1 TATAT-ATAAT
8099123 GGTAAAGTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 31 0.86
27 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (26 bp):
TATATATAATAATAATTTTTCATATA
Found at i:8102028 original size:20 final size:20
Alignment explanation
Indices: 8102003--8102042 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8101993 AAAACACTTA
8102003 CCCTTCTAAGTTCAATATAT
1 CCCTTCTAAGTTCAATATAT
8102023 CCCTTCTAAGTTCAATATAT
1 CCCTTCTAAGTTCAATATAT
8102043 TTTAACTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (20 bp):
CCCTTCTAAGTTCAATATAT
Found at i:8103671 original size:16 final size:15
Alignment explanation
Indices: 8103640--8103678 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8103630 AAGTCAAGTA
*
8103640 TTCAACATGGGAATT
1 TTCAACATGAGAATT
8103655 TTCAACTATGAGAATT
1 TTCAAC-ATGAGAATT
*
8103671 TTGAACAT
1 TTCAACAT
8103679 AAGTTTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (15 bp):
TTCAACATGAGAATT
Found at i:8108105 original size:22 final size:22
Alignment explanation
Indices: 8108063--8108115 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
8108053 CACAAAATCG
* *
8108063 TTATAATAAATAATATTAAATT-
1 TTATAA-AAATAAAATAAAATTA
8108085 TTATAAAAATAAAAATAAAATTAA
1 TTATAAAAAT-AAAATAAAATT-A
8108109 TTATAAA
1 TTATAAA
8108116 TATTCGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 4 0.15
22 15 0.58
24 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTATAAAAATAAAATAAAATTA
Found at i:8109679 original size:18 final size:17
Alignment explanation
Indices: 8109639--8109682 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
8109629 TATATTTATT
*
8109639 TAATAAAAATTAATTAA
1 TAATAAAAAGTAATTAA
*
8109656 TCAATAAAAAGTAATTTAC
1 T-AATAAAAAGTAA-TTAA
8109675 TAATAAAA
1 TAATAAAA
8109683 TAACGAGCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 18 0.78
19 4 0.17
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (17 bp):
TAATAAAAAGTAATTAA
Found at i:8114573 original size:20 final size:23
Alignment explanation
Indices: 8114531--8114573 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
8114521 GATTTTATTT
*
8114531 ATTAGTTTATAAATAAGTCTATA
1 ATTAGTTTATAAATAAATCTATA
8114554 ATTA-TTTA-AAATAAAT-TATA
1 ATTAGTTTATAAATAAATCTATA
8114574 CTATTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
22 4 0.21
23 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (23 bp):
ATTAGTTTATAAATAAATCTATA
Found at i:8117524 original size:21 final size:20
Alignment explanation
Indices: 8117492--8117531 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
8117482 CTTGGTAAGC
8117492 AAAAAAAAAATTTG-AATTA
1 AAAAAAAAAATTTGCAATTA
8117511 AAAAAAAGATAATTTGCAATT
1 AAAAAAA-A-AATTTGCAATT
8117532 TTTTGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 6 0.33
22 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAAAAAAAATTTGCAATTA
Found at i:8118070 original size:4 final size:4
Alignment explanation
Indices: 8118061--8118114 Score: 72
Period size: 4 Copynumber: 13.5 Consensus size: 4
8118051 ATCAAGCATT
* * *
8118061 TATA TATA TATA TATA TATA TATA TATA TATA TATT TATT TATT TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
8118109 TTTA TA
1 TATA TA
8118115 GGATTGGTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (4 bp):
TATA
Found at i:8118072 original size:6 final size:6
Alignment explanation
Indices: 8118061--8118114 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
8118051 ATCAAGCATT
* * *
8118061 TATATA TATATA TATATA TATATA TATATA TATATT TATTTA TTTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
8118109 TTTATA
1 TATATA
8118115 GGATTGGTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
TATATA
Found at i:8118182 original size:26 final size:26
Alignment explanation
Indices: 8118133--8118183 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
8118123 ACCCAATAAT
8118133 AGAAAAAAGAATAATTAAGTTGAAAC
1 AGAAAAAAGAATAATTAAGTTGAAAC
*
8118159 AGAAGAAAAGAATGATTAAG-TGAAA
1 AGAA-AAAAGAATAATTAAGTTGAAA
8118184 GCCCAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.18
Consensus pattern (26 bp):
AGAAAAAAGAATAATTAAGTTGAAAC
Found at i:8120526 original size:23 final size:24
Alignment explanation
Indices: 8120499--8120543 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
8120489 CAAATTTATA
8120499 AATAACCCATTGTAATT-TTATGT
1 AATAACCCATTGTAATTGTTATGT
*
8120522 AATAACCCATTTTAATTGTTAT
1 AATAACCCATTGTAATTGTTAT
8120544 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (24 bp):
AATAACCCATTGTAATTGTTATGT
Found at i:8122002 original size:23 final size:25
Alignment explanation
Indices: 8121967--8122020 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
8121957 ATAATTGTTA
* *
8121967 TTTAAGATGCATAAAAA-AAT-TAT
1 TTTAATATACATAAAAATAATATAT
8121990 TTTAATATACATAAAAATAATATAT
1 TTTAATATACATAAAAATAATATAT
*
8122015 TATAAT
1 TTTAAT
8122021 TATTCTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 15 0.58
24 3 0.12
25 8 0.31
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (25 bp):
TTTAATATACATAAAAATAATATAT
Found at i:8130606 original size:18 final size:18
Alignment explanation
Indices: 8130581--8130727 Score: 91
Period size: 18 Copynumber: 8.3 Consensus size: 18
8130571 TTCTTTTGGA
8130581 ATTT-TTTTTATTTATTT
1 ATTTATTTTTATTTATTT
8130598 ATTTATTTTTATTTATTT
1 ATTTATTTTTATTTATTT
* *
8130616 ATTTA--TTTATTAGATTAG
1 ATTTATTTTTATT-TATT-T
*
8130634 ATTTA--TTTA-ATATTT
1 ATTTATTTTTATTTATTT
*
8130649 -TTTATCTTTATCTTA-TT
1 ATTTATTTTTAT-TTATTT
8130666 -TTTATTTTTATTTTACTTT
1 ATTTATTTTTA-TTTA-TTT
8130685 ATTTTACTTTTTATTT-TTT
1 A-TTTA-TTTTTATTTATTT
8130704 ATTT-TTTATTATTCTATTT
1 ATTTATTT-TTATT-TATTT
*
8130723 TTTTA
1 ATTTA
8130728 AAATAAAAAT
Statistics
Matches: 105, Mismatches: 8, Indels: 31
0.73 0.06 0.22
Matches are distributed among these distances:
14 4 0.04
16 16 0.15
17 26 0.25
18 34 0.32
19 12 0.11
21 7 0.07
22 6 0.06
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.73
Consensus pattern (18 bp):
ATTTATTTTTATTTATTT
Found at i:8130607 original size:22 final size:22
Alignment explanation
Indices: 8130582--8130713 Score: 85
Period size: 22 Copynumber: 5.9 Consensus size: 22
8130572 TCTTTTGGAA
8130582 TTTTTTTTATTTATTTATTTAT
1 TTTTTTTTATTTATTTATTTAT
*
8130604 TTTTATTTATTTATTTATTTAT
1 TTTTTTTTATTTATTTATTTAT
*** **
8130626 TAGATTAGATTTATTTAATATT-T
1 TTTTTTTTATTTATTT-AT-TTAT
*
8130649 TTTATCTTTATCTTA-TT-TTTAT
1 TTT-TTTTTAT-TTATTTATTTAT
8130671 TTTTATTTTACTTTATTTTACTTT-T
1 TTTT-TTTTA-TTTA-TTTA-TTTAT
*
8130696 TATTTTTTATTT-TTTATT
1 TTTTTTTTATTTATTTATT
8130714 ATTCTATTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
20 2 0.02
21 7 0.08
22 43 0.51
23 8 0.10
24 14 0.17
25 7 0.08
26 3 0.04
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTTTTATTTATTTATTTAT
Found at i:8130610 original size:14 final size:14
Alignment explanation
Indices: 8130591--8130724 Score: 77
Period size: 14 Copynumber: 9.2 Consensus size: 14
8130581 ATTTTTTTTA
8130591 TTTATTTATTTATT
1 TTTATTTATTTATT
8130605 TTTATTTATTTA--
1 TTTATTTATTTATT
*
8130617 TTTATTTATTAGATT
1 TTTATTTATT-TATT
8130632 AGATTTATTTAATATT-TT
1 ---TTTATTT-AT-TTATT
*
8130650 TTATCTTTATCTTATT
1 TT-TATTTAT-TTATT
8130666 TTTA-TT-TTTA-T
1 TTTATTTATTTATT
8130677 TTTACTTTATTTTACTT
1 TTTA-TTTA-TTTA-TT
8130694 TTTATTT-TTTATT
1 TTTATTTATTTATT
8130707 TTT-TATTATTCTATT
1 TTTAT-TTATT-TATT
8130722 TTT
1 TTT
8130725 TTAAAATAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 37
0.70 0.04 0.27
Matches are distributed among these distances:
11 5 0.05
12 14 0.15
13 11 0.11
14 20 0.21
15 18 0.19
16 11 0.11
17 5 0.05
18 9 0.09
19 2 0.02
20 1 0.01
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:8130616 original size:26 final size:26
Alignment explanation
Indices: 8130587--8130727 Score: 82
Period size: 26 Copynumber: 5.5 Consensus size: 26
8130577 TGGAATTTTT
8130587 TTTATTTATTTATTTATTTTTATTTA
1 TTTATTTATTTATTTATTTTTATTTA
* **
8130613 TTTATTTATTTA-TTAGATTAGATTTA
1 TTTATTTATTTATTTA-TTTTTATTTA
* *
8130639 TTTA-ATATTT-TTTATCTTTATCTTA
1 TTTATTTATTTATTTATTTTTAT-TTA
* *
8130664 TTT-TTATTTTTATTT-TACTTTATTTTA
1 TTTATT-TATTTATTTAT-TTTTA-TTTA
*
8130691 CTT-TTTATTT-TTTATTTTT-TATTA
1 TTTATTTATTTATTTATTTTTAT-TTA
*
8130715 TTCTATTTTTTTA
1 TT-TATTTATTTA
8130728 AAATAAAAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 25
0.69 0.12 0.20
Matches are distributed among these distances:
23 1 0.01
24 7 0.08
25 24 0.28
26 39 0.45
27 15 0.17
28 1 0.01
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (26 bp):
TTTATTTATTTATTTATTTTTATTTA
Found at i:8130695 original size:6 final size:5
Alignment explanation
Indices: 8130635--8130723 Score: 51
Period size: 5 Copynumber: 17.6 Consensus size: 5
8130625 TTAGATTAGA
* * * *
8130635 TTTAT TTAAT ATT-T TTTAT CTTTAT CTTATT TTTATT TTTAT TTTAC
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTAT
* *
8130682 TTTAT TTTACT TTT-T ATT-T TTTAT TTT-T TATTAT TCTAT TTT
1 TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTT
8130724 TTTAAAATAA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
4 11 0.17
5 33 0.51
6 21 0.32
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:8130702 original size:7 final size:7
Alignment explanation
Indices: 8130664--8130725 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
8130654 CTTTATCTTA
8130664 TTTTTA-
1 TTTTTAT
8130670 TTTTTAT
1 TTTTTAT
8130677 TTTACTT-T
1 TTT--TTAT
* *
8130685 ATTTTAC
1 TTTTTAT
8130692 TTTTTAT
1 TTTTTAT
8130699 TTTTTAT
1 TTTTTAT
8130706 TTTTTAT
1 TTTTTAT
*
8130713 TATTCTAT
1 T-TTTTAT
8130721 TTTTT
1 TTTTT
8130726 TAAAATAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
6 8 0.18
7 26 0.58
8 9 0.20
9 2 0.04
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTAT
Found at i:8130762 original size:20 final size:22
Alignment explanation
Indices: 8130725--8130764 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
8130715 TTCTATTTTT
*
8130725 TTAAAATAAAAATCAATTTTCC
1 TTAAAATAAAAATAAATTTTCC
8130747 TTAAAA-AAAAA-AAATTTT
1 TTAAAATAAAAATAAATTTT
8130765 TCAAAAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (22 bp):
TTAAAATAAAAATAAATTTTCC
Found at i:8130840 original size:59 final size:59
Alignment explanation
Indices: 8130736--8130984 Score: 320
Period size: 59 Copynumber: 4.2 Consensus size: 59
8130726 TAAAATAAAA
* ** *
8130736 ATCAATTTTCCTTAAAAAAAAAAAATTTTTCAAAAAGGGGGTTTTTGAGGAAAAGTTGAAAGT
1 ATCAATTTTCCTT---AAAAATAAA-TTTTCAAAAAAAGAGTTTTTGAGGAAAAGTTGAAAGT
*
8130799 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGAATTTTTGAGGAAAAGTTGAAAGT
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGAGTTTTTGAGGAAAAGTTGAAAGT
* *
8130858 ATCAATTTTCCTTTAAAATAAAATTTCAAAAAAAG-GTTTTTGAGGAAAAGTTGAAAGT
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGAGTTTTTGAGGAAAAGTTGAAAGT
* * * * * * *
8130916 ATCAATTTTCCTTGAAAATCAAAGTTCCTAAAAAATATTTTTTGGGGAAAAGTTGAAAGT
1 ATCAATTTTCCTTAAAAAT-AAATTTTCAAAAAAAGAGTTTTTGAGGAAAAGTTGAAAGT
8130976 ATCAATTTT
1 ATCAATTTT
8130985 TCCTGCACAA
Statistics
Matches: 169, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
58 40 0.24
59 78 0.46
60 38 0.22
63 13 0.08
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.35
Consensus pattern (59 bp):
ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGAGTTTTTGAGGAAAAGTTGAAAGT
Found at i:8134893 original size:10 final size:10
Alignment explanation
Indices: 8134871--8134952 Score: 55
Period size: 10 Copynumber: 8.3 Consensus size: 10
8134861 ACAATGGATG
*
8134871 AAAAATGAGA
1 AAAAAAGAGA
*
8134881 AAAAGAGA-A
1 AAAAAAGAGA
8134890 AAAAAAGATGA
1 AAAAAAGA-GA
*
8134901 TAAAAAAAAGA
1 -AAAAAAGAGA
*
8134912 AAAAAAAAGA
1 AAAAAAGAGA
8134922 AAAAAA-A-A
1 AAAAAAGAGA
8134930 AGAAAAAGA-A
1 A-AAAAAGAGA
* *
8134940 AGAAATGAGA
1 AAAAAAGAGA
8134950 AAA
1 AAA
8134953 TGAAAAAAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
8 2 0.03
9 19 0.32
10 28 0.47
11 3 0.05
12 7 0.12
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (10 bp):
AAAAAAGAGA
Found at i:8134894 original size:11 final size:11
Alignment explanation
Indices: 8134880--8134942 Score: 76
Period size: 10 Copynumber: 5.6 Consensus size: 11
8134870 GAAAAATGAG
8134880 AAAAAGAGAAA
1 AAAAAGAGAAA
8134891 AAAAAGATGATAA
1 AAAAAGA-GA-AA
8134904 AAAAA-AGAAA
1 AAAAAGAGAAA
8134914 AAAAA-AGAAA
1 AAAAAGAGAAA
*
8134924 AAAAAAAGAAA
1 AAAAAGAGAAA
8134935 AAGAAAGA
1 AA-AAAGA
8134943 AATGAGAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
10 17 0.36
11 16 0.34
12 7 0.15
13 7 0.15
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (11 bp):
AAAAAGAGAAA
Found at i:8134905 original size:22 final size:22
Alignment explanation
Indices: 8134871--8134936 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 22
8134861 ACAATGGATG
*
8134871 AAAAATGAG-AAAAAGAGAAAA
1 AAAAATGAGAAAAAAAAGAAAA
*
8134892 AAAAGATGATAAAAAAAAGAAAA
1 AAAA-ATGAGAAAAAAAAGAAAA
*
8134915 AAAAA-GAAAAAAAAAAGAAAA
1 AAAAATGAGAAAAAAAAGAAAA
8134936 A
1 A
8134937 GAAAGAAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
21 20 0.50
22 5 0.12
23 15 0.38
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (22 bp):
AAAAATGAGAAAAAAAAGAAAA
Found at i:8134914 original size:21 final size:21
Alignment explanation
Indices: 8134880--8134944 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
8134870 GAAAAATGAG
* *
8134880 AAAAAGAGAAAAAAAAGATGATA
1 AAAAAAAGAAAAAAAA-A-GAAA
8134903 AAAAAAAGAAAAAAAAAGAAA
1 AAAAAAAGAAAAAAAAAGAAA
*
8134924 AAAAAAAGAAAAAGAAAGAAA
1 AAAAAAAGAAAAAAAAAGAAA
8134945 TGAGAAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 23 0.59
22 1 0.03
23 15 0.38
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (21 bp):
AAAAAAAGAAAAAAAAAGAAA
Found at i:8134950 original size:17 final size:17
Alignment explanation
Indices: 8134885--8134957 Score: 52
Period size: 17 Copynumber: 4.7 Consensus size: 17
8134875 ATGAGAAAAA
8134885 GAGAAAAA-AAAG--AT
1 GAGAAAAAGAAAGAAAT
*
8134899 GATAAAAA-AAAGAAA-
1 GAGAAAAAGAAAGAAAT
* *
8134914 -A-AAAAAGAAAAAAAA
1 GAGAAAAAGAAAGAAAT
*
8134929 AAGAAAAAGAAAGAAAT
1 GAGAAAAAGAAAGAAAT
*
8134946 GAGAAAATGAAA
1 GAGAAAAAGAAA
8134958 AAAGGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
13 5 0.11
14 18 0.38
16 2 0.04
17 22 0.47
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (17 bp):
GAGAAAAAGAAAGAAAT
Found at i:8136190 original size:42 final size:41
Alignment explanation
Indices: 8136144--8136440 Score: 429
Period size: 42 Copynumber: 7.1 Consensus size: 41
8136134 ATGATTGTCA
8136144 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
8136186 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
8136227 AGGAGCAATTTACTTTTTCAAAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTTCAAAG--TCGTGGTGCCTCTGTTTAG
* *
8136269 AGGAGCAATTTACTTTTTCAAAGTCCTGGTACCTCTGTTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
8136311 AGGAGCAATTTA-TTTTCTAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
8136352 AGGAGCAATTTAATTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTT-ATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
8136394 AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
8136435 AGGAGC
1 AGGAGC
8136441 TTTGGTCAAA
Statistics
Matches: 233, Mismatches: 14, Indels: 17
0.88 0.05 0.06
Matches are distributed among these distances:
40 8 0.03
41 103 0.44
42 113 0.48
43 5 0.02
44 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:8136283 original size:83 final size:80
Alignment explanation
Indices: 8136144--8136440 Score: 407
Period size: 83 Copynumber: 3.6 Consensus size: 80
8136134 ATGATTGTCA
* *
8136144 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
1 AGGAGCAATTTA-CTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
8136209 CGTGGTGCCTCTGTTTAG
63 CGTGGTGCCTCTGTTTAG
8136227 AGGAGCAATTTACTTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG
1 AGGAGCAATTTAC-TTTTCAAAG--TCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAG
* *
8136292 TCCTGGTACCTCTGTTTAG
62 TCGTGGTGCCTCTGTTTAG
* *
8136311 AGGAGCAATTTA-TTTTCTAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTAATTTTTCAAAG
1 AGGAGCAATTTACTTTTC-AAAGTC--GTTGCCTCTGTTTAGAGGAGCAATTT-ACTTTTCAAAG
*
8136375 TCGTGGTGCCTCTATTTAG
62 TCGTGGTGCCTCTGTTTAG
8136394 AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTACTTTTCAAAGTCGTT--GCCTCTGTTTAGAGGAGC
8136441 TTTGGTCAAA
Statistics
Matches: 193, Mismatches: 10, Indels: 22
0.86 0.04 0.10
Matches are distributed among these distances:
81 4 0.02
82 5 0.03
83 137 0.71
84 43 0.22
85 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (80 bp):
AGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
GGTGCCTCTGTTTAG
Found at i:8136305 original size:125 final size:124
Alignment explanation
Indices: 8136144--8136440 Score: 456
Period size: 125 Copynumber: 2.4 Consensus size: 124
8136134 ATGATTGTCA
* *
8136144 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
* * *
8136209 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTTTCGT-TGCCTCTGTTTAG
66 CATGGTGCCTCTGTTTAGAGGAGCAATTTAATTTTTCAAAG--TCGTGTGCCTCTATTTAG
* * *
8136269 AGGAGCAATTTACTTTTTCAAAGTCCTGGTACCTCTGTTTAGAGGAGCAATTTATTTTCTAAAGT
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
8136334 CATGGTGCCTCTGTTTAGAGGAGCAATTTAATTTTTCAAAGTCGTGGTGCCTCTATTTAG
66 CATGGTGCCTCTGTTTAGAGGAGCAATTTAATTTTTCAAAGTCGT-GTGCCTCTATTTAG
*
8136394 AGGAGCAATTTAC-TTTTCAAAGTCGTTG-AGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTA-CCTCTGTTTAGAGGAGC
8136441 TTTGGTCAAA
Statistics
Matches: 159, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
123 5 0.03
124 30 0.19
125 124 0.78
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (124 bp):
AGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
CATGGTGCCTCTGTTTAGAGGAGCAATTTAATTTTTCAAAGTCGTGTGCCTCTATTTAG
Found at i:8136458 original size:1 final size:1
Alignment explanation
Indices: 8136448--8136496 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
8136438 AGCTTTGGTC
* * * * *
8136448 AAAAACAAAAAAAAAAACAAAAAAATAAAAAAACAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8136497 TGACAATGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:8136479 original size:16 final size:15
Alignment explanation
Indices: 8136454--8136496 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
8136444 GGTCAAAAAC
8136454 AAAAAAAAAAACAAA
1 AAAAAAAAAAACAAA
8136469 AAAATAAAAAAACAAA
1 AAAA-AAAAAAACAAA
8136485 AAAAACAAAAAA
1 AAAAA-AAAAAA
8136497 TGACAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.91, C:0.07, G:0.00, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAACAAA
Found at i:8136502 original size:10 final size:9
Alignment explanation
Indices: 8136448--8136496 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
8136438 AGCTTTGGTC
8136448 AAAAACAAA
1 AAAAACAAA
8136457 AAAAA-AAA
1 AAAAACAAA
*
8136465 CAAAAAAATAA
1 -AAAAACA-AA
8136476 AAAAACAAA
1 AAAAACAAA
8136485 AAAAACAAA
1 AAAAACAAA
8136494 AAA
1 AAA
8136497 TGACAATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 3 0.08
9 24 0.67
10 7 0.19
11 2 0.06
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAACAAA
Found at i:8136710 original size:16 final size:18
Alignment explanation
Indices: 8136688--8136735 Score: 66
Period size: 16 Copynumber: 2.8 Consensus size: 18
8136678 CTTTCTTTTG
8136688 TATTTTATGTATT-TTAT
1 TATTTTATGTATTATTAT
8136705 TA-TTTAT-TATTATTAT
1 TATTTTATGTATTATTAT
8136721 TATTATTATGTATTA
1 TATT-TTATGTATTA
8136736 ATATATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.15
16 11 0.41
17 3 0.11
18 4 0.15
19 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
TATTTTATGTATTATTAT
Found at i:8136712 original size:12 final size:13
Alignment explanation
Indices: 8136688--8136754 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 13
8136678 CTTTCTTTTG
*
8136688 TATT-TTATGTAT
1 TATTATTATTTAT
8136700 T-TTATTATTTAT
1 TATTATTATTTAT
8136712 TATTATTA-TTAT
1 TATTATTATTTAT
*
8136724 TATTATGTATTAAT
1 TATTAT-TATTTAT
8136738 ATATGTATATATTTAT
1 -TAT-TAT-TATTTAT
8136754 T
1 T
8136755 TATTTATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
11 2 0.04
12 19 0.42
13 8 0.18
14 3 0.07
15 4 0.09
16 9 0.20
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TATTATTATTTAT
Found at i:8136714 original size:3 final size:3
Alignment explanation
Indices: 8136688--8136735 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
8136678 CTTTCTTTTG
8136688 TAT T-T TAT GTAT T-T TAT TATT TAT TAT TAT TAT TAT TAT TAT GTAT
1 TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT
8136734 TA
1 TA
8136736 ATATATGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 4 0.10
3 27 0.68
4 9 0.22
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8137557 original size:18 final size:20
Alignment explanation
Indices: 8137515--8137558 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
8137505 AGCTTTTAGA
8137515 GAGAAGAGAGAGAAGAAGGG
1 GAGAAGAGAGAGAAGAAGGG
* *
8137535 AAGAAGAGGGAG-AG-AGGG
1 GAGAAGAGAGAGAAGAAGGG
8137553 GAGAAG
1 GAGAAG
8137559 GGTTCTGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 9 0.43
19 2 0.10
20 10 0.48
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (20 bp):
GAGAAGAGAGAGAAGAAGGG
Found at i:8137782 original size:8 final size:8
Alignment explanation
Indices: 8137771--8137895 Score: 55
Period size: 8 Copynumber: 15.0 Consensus size: 8
8137761 TTCTTTTGGA
8137771 ATTTATTT
1 ATTTATTT
8137779 ATTTATTT
1 ATTTATTT
8137787 ATTTATTT
1 ATTTATTT
* *
8137795 ATTAGATTAG
1 ATT-TATT-T
8137805 ATTTATTT
1 ATTTATTT
*
8137813 A-ATATTT
1 ATTTATTT
*
8137820 TTTTATCTTT
1 ATTTA--TTT
8137830 ATCTTATTT
1 AT-TTATTT
*
8137839 -TTATTTTT
1 ATT-TATTT
8137847 ATTTTACTTTT
1 A-TTTA--TTT
*
8137858 ATTTACTT
1 ATTTATTT
8137866 -TTTATTT
1 ATTTATTT
8137873 -TTTAATTT
1 ATTT-ATTT
8137881 -TTTA-TT
1 ATTTATTT
8137887 ATTCTATTT
1 ATT-TATTT
8137896 TCTTTAAATA
Statistics
Matches: 90, Mismatches: 12, Indels: 29
0.69 0.09 0.22
Matches are distributed among these distances:
6 2 0.02
7 18 0.20
8 38 0.42
9 12 0.13
10 13 0.14
11 7 0.08
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (8 bp):
ATTTATTT
Found at i:8137851 original size:11 final size:11
Alignment explanation
Indices: 8137819--8137873 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
8137809 ATTTAATATT
8137819 TTTTTATCTTTA
1 TTTTTAT-TTTA
*
8137831 -TCTTATTTTTA
1 TTTTTA-TTTTA
8137842 TTTTTATTTTA
1 TTTTTATTTTA
*
8137853 CTTTTA-TTTA
1 TTTTTATTTTA
8137863 CTTTTTATTTT
1 -TTTTTATTTT
8137874 TTAATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 4 0.11
11 23 0.66
12 8 0.23
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:8137860 original size:17 final size:17
Alignment explanation
Indices: 8137820--8137861 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8137810 TTTAATATTT
* *
8137820 TTTTATCTTTATCTTAT
1 TTTTATTTTTATCTTAC
*
8137837 TTTTATTTTTATTTTAC
1 TTTTATTTTTATCTTAC
8137854 TTTTATTT
1 TTTTATTT
8137862 ACTTTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATCTTAC
Found at i:8137874 original size:17 final size:17
Alignment explanation
Indices: 8137819--8137874 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
8137809 ATTTAATATT
*
8137819 TTTTTATCTT-TATCTTA
1 TTTTTAT-TTCTATTTTA
*
8137836 TTTTTATTTTTATTTTA
1 TTTTTATTTCTATTTTA
*
8137853 CTTTTATTTACT-TTTTA
1 TTTTTATTT-CTATTTTA
8137870 TTTTT
1 TTTTT
8137875 TAATTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.06
17 30 0.91
18 1 0.03
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTATTTCTATTTTA
Found at i:8137896 original size:29 final size:26
Alignment explanation
Indices: 8137820--8137896 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 26
8137810 TTTAATATTT
8137820 TTTTATCTTTATCTTATTTTTATTTTTA
1 TTTTAT-TTTAT-TTATTTTTATTTTTA
8137848 TTTTACTTTTATTTACTTTTTATTTTTTAA
1 TTTTA-TTTTATTTA-TTTTTA-TTTTT-A
8137878 TTTT-TTATTATTCTATTTT
1 TTTTATT-TTATT-TATTTT
8137897 CTTTAAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
27 3 0.07
28 18 0.42
29 15 0.35
30 7 0.16
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTATTTTATTTATTTTTATTTTTA
Found at i:8137937 original size:22 final size:22
Alignment explanation
Indices: 8137892--8137940 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
8137882 TTATTATTCT
* * *
8137892 ATTTT-CTTTAAATAAAAATTA
1 ATTTTCCTTAAAAAAAAAATAA
8137913 ATTTTCCTTAAAAAAAAAATAA
1 ATTTTCCTTAAAAAAAAAATAA
8137935 ATTTTC
1 ATTTTC
8137941 AAAAAGGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTCCTTAAAAAAAAAATAA
Found at i:8138096 original size:62 final size:59
Alignment explanation
Indices: 8137927--8138102 Score: 226
Period size: 59 Copynumber: 2.9 Consensus size: 59
8137917 TCCTTAAAAA
* *** * *
8137927 AAAAATAAATTTTCAAAAAGGGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAAGTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
*
8137986 AAAAATAAATTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAAGTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
** * *
8138045 GGAAATCAAAGTTTCAAAAAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAT-AAAGTTTC--AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
8138103 TTCTGCACAA
Statistics
Matches: 104, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
59 58 0.56
60 7 0.07
62 39 0.38
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (59 bp):
AAAAATAAAGTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:8140445 original size:22 final size:22
Alignment explanation
Indices: 8140420--8140463 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
8140410 ATACTTATAG
8140420 CAATTGATATAGGAGCTTAAAC
1 CAATTGATATAGGAGCTTAAAC
8140442 CAATTGATATAGGAGCTTAAAC
1 CAATTGATATAGGAGCTTAAAC
8140464 ATTTGGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (22 bp):
CAATTGATATAGGAGCTTAAAC
Found at i:8144524 original size:15 final size:16
Alignment explanation
Indices: 8144497--8144526 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8144487 TTTCTACTTA
8144497 GAACAACTAAAAGTAT
1 GAACAACTAAAAGTAT
8144513 GAACAA-TAAAAGTA
1 GAACAACTAAAAGTA
8144527 AAGACAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (16 bp):
GAACAACTAAAAGTAT
Found at i:8145366 original size:23 final size:23
Alignment explanation
Indices: 8145340--8145404 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 23
8145330 TTATGATTTG
*
8145340 TTTATTGTTCATGAATATATTCA
1 TTTATTGTTCATGAACATATTCA
8145363 TTTATATGTATTCATGAACATATTCA
1 TTTAT-TG--TTCATGAACATATTCA
* *
8145389 TTTAATATTCATGAAC
1 TTTATTGTTCATGAAC
8145405 GAGTTTGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 14 0.39
24 2 0.06
25 1 0.03
26 19 0.53
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.48
Consensus pattern (23 bp):
TTTATTGTTCATGAACATATTCA
Found at i:8145377 original size:26 final size:23
Alignment explanation
Indices: 8145347--8145404 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 23
8145337 TTGTTTATTG
*
8145347 TTCATGAATATATTCATTTATATGTA
1 TTCATGAACATATTCATTTA-A--TA
8145373 TTCATGAACATATTCATTTAATA
1 TTCATGAACATATTCATTTAATA
8145396 TTCATGAAC
1 TTCATGAAC
8145405 GAGTTTGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 11 0.35
25 1 0.03
26 19 0.61
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (23 bp):
TTCATGAACATATTCATTTAATA
Found at i:8148416 original size:19 final size:18
Alignment explanation
Indices: 8148380--8148428 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
8148370 TGATTCTTGA
8148380 TTAATA-AAATATTATTT
1 TTAATATAAATATTATTT
8148397 TTAATATAAATATTATTT
1 TTAATATAAATATTATTT
8148415 TTAAATATAAATAT
1 TT-AATATAAATAT
8148429 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.20
18 13 0.43
19 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATATAAATATTATTT
Found at i:8149854 original size:26 final size:27
Alignment explanation
Indices: 8149786--8149862 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 27
8149776 AAATTGAAAA
* *
8149786 ATATTAAGAAAT-GAATAATAATATTC
1 ATATTAAGTAATAAAATAATAATATTC
* *
8149812 ATATT-ACTAA-AATAATAATATTATT-
1 ATATTAAGTAATAA-AATAATAATATTC
8149837 ATATTAAGTAATAAAATAATTAATAT
1 ATATTAAGTAATAAAATAA-TAATAT
8149863 ATTATTTACT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
25 8 0.20
26 25 0.62
27 7 0.17
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.39
Consensus pattern (27 bp):
ATATTAAGTAATAAAATAATAATATTC
Found at i:8149882 original size:29 final size:29
Alignment explanation
Indices: 8149819--8149874 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
8149809 TTCATATTAC
*
8149819 TAAAATAATAATATTATTATATTAAGTAA
1 TAAAATAATAATATTATTATATTAACTAA
8149848 TAAAATAATTAATA-TATTAT-TT-ACTAA
1 TAAAATAA-TAATATTATTATATTAACTAA
8149875 AGTAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 4 0.16
28 2 0.08
29 14 0.56
30 5 0.20
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TAAAATAATAATATTATTATATTAACTAA
Found at i:8150680 original size:21 final size:21
Alignment explanation
Indices: 8150654--8150708 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
8150644 CATTGATTTA
* *
8150654 ATATAATAAATTAATTTTATT
1 ATATAATAAATAAATTCTATT
8150675 ATATAATAAATAAATTCTATT
1 ATATAATAAATAAATTCTATT
*
8150696 GTATAATAAATAA
1 ATATAATAAATAA
8150709 CTAATATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATAATAAATAAATTCTATT
Found at i:8154768 original size:2 final size:2
Alignment explanation
Indices: 8154761--8154799 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
8154751 ATTTCCCGGC
* *
8154761 GA GA GA GA GA GA GA GA GC GA GA GA GA GA GA AA G- GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8154800 AGTGAAGGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8155253 original size:26 final size:25
Alignment explanation
Indices: 8155224--8155293 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 25
8155214 ATAGTTTCTA
8155224 AAATAAAAT-TTATATATAATAATATT
1 AAATAAAATATT-T-TATAATAATATT
*
8155250 AAATAAATATATTTTGTAATAATATT
1 AAATAAA-ATATTTTATAATAATATT
8155276 AAATAAAAATATTTTATA
1 AAAT-AAAATATTTTATA
8155294 TTTTTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 31 0.79
27 6 0.15
28 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (25 bp):
AAATAAAATATTTTATAATAATATT
Found at i:8155450 original size:20 final size:20
Alignment explanation
Indices: 8155427--8155473 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
8155417 AAAATCAGCG
* *
8155427 TTTTTATATTAAAAATATTA
1 TTTTTATAATAAAAATAATA
* *
8155447 TTTTTGTAATAAAGATAATA
1 TTTTTATAATAAAAATAATA
8155467 TTTTTAT
1 TTTTTAT
8155474 CTTTAAAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTTTATAATAAAAATAATA
Found at i:8155472 original size:109 final size:112
Alignment explanation
Indices: 8155356--8155565 Score: 297
Period size: 114 Copynumber: 1.9 Consensus size: 112
8155346 ATAATTATTT
*
8155356 TATTTTTATC-TTAAAAACATCATTTTTATT-AATTTT-AAAAAT-ATTTTTTCATATCTTTAAC
1 TATTTTTATCTTTAAAAA-ATCATTTTTATTAAATTTTAAAAAATAATTTTTT-ATATCTTCAAC
8155417 -AAAATCAGCG-TTTTTATATTAAAAATATTATTTTTGTAATAAAGATAA
64 AAAAATCA-CGTTTTTTATATTAAAAATATTATTTTTGTAATAAAGATAA
* *
8155465 TATTTTTATCTTTAAAAAGTCATTTTTATTAAATTTTAAAAAATAAATTTTTTATATGTTCAACA
1 TATTTTTATCTTTAAAAAATCATTTTTATTAAATTTTAAAAAAT-AATTTTTTATATCTTCAACA
*
8155530 AAAATCACGTTTTTTTATCTTAAAAATATTATTTTT
65 AAAATCACG-TTTTTTATATTAAAAATATTATTTTT
8155566 ATTGAATTAA
Statistics
Matches: 89, Mismatches: 4, Indels: 11
0.86 0.04 0.11
Matches are distributed among these distances:
109 21 0.24
110 13 0.15
111 6 0.07
112 11 0.12
113 14 0.16
114 24 0.27
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (112 bp):
TATTTTTATCTTTAAAAAATCATTTTTATTAAATTTTAAAAAATAATTTTTTATATCTTCAACAA
AAATCACGTTTTTTATATTAAAAATATTATTTTTGTAATAAAGATAA
Found at i:8157349 original size:8 final size:8
Alignment explanation
Indices: 8157332--8157408 Score: 63
Period size: 8 Copynumber: 9.6 Consensus size: 8
8157322 AACACATTTA
*
8157332 AAAAAAAT
1 AAAAATAT
8157340 AAAAATAT
1 AAAAATAT
8157348 AAAAA-AT
1 AAAAATAT
8157355 ATAAAATAT
1 A-AAAATAT
8157364 AAAAAGT-T
1 AAAAA-TAT
* *
8157372 AAAATTTT
1 AAAAATAT
8157380 AAATATATAT
1 AAA-A-ATAT
8157390 AAAAAT-T
1 AAAAATAT
8157397 AAAAATA-
1 AAAAATAT
8157404 AAAAA
1 AAAAA
8157409 AAACCAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
7 16 0.28
8 31 0.53
9 6 0.10
10 5 0.09
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:8157351 original size:16 final size:17
Alignment explanation
Indices: 8157332--8157368 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
8157322 AACACATTTA
8157332 AAAAAAATA-AAAATAT
1 AAAAAAATATAAAATAT
8157348 -AAAAAATATAAAATAT
1 AAAAAAATATAAAATAT
8157364 AAAAA
1 AAAAA
8157369 GTTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 7 0.37
17 4 0.21
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAAAATATAAAATAT
Found at i:8163468 original size:11 final size:10
Alignment explanation
Indices: 8163434--8163473 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
8163424 TGGAAAAATC
8163434 TAAAAAATTT
1 TAAAAAATTT
*
8163444 TAAAAAATTG
1 TAAAAAATTT
*
8163454 TAAAATTATTT
1 TAAAA-AATTT
8163465 TAAAAAATT
1 TAAAAAATT
8163474 ATGAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (10 bp):
TAAAAAATTT
Found at i:8163488 original size:22 final size:21
Alignment explanation
Indices: 8163440--8163486 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
8163430 AATCTAAAAA
*
8163440 ATTTTAAAAAATTGTAAAATT
1 ATTTTAAAAAATTATAAAATT
*
8163461 ATTTTAAAAAATTATGAAATT
1 ATTTTAAAAAATTATAAAATT
*
8163482 TTTTT
1 ATTTT
8163487 TATTTTGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
ATTTTAAAAAATTATAAAATT
Found at i:8163559 original size:17 final size:17
Alignment explanation
Indices: 8163539--8163572 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8163529 GAATTTTGAT
8163539 ATTTTT-ATTTTTATTAA
1 ATTTTTAATTTTT-TTAA
8163556 ATTTTTAATTTTTTTAA
1 ATTTTTAATTTTTTTAA
8163573 TAACTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTAATTTTTTTAA
Found at i:8163608 original size:9 final size:9
Alignment explanation
Indices: 8163547--8163615 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
8163537 ATATTTTTAT
8163547 TTTTATTAAA
1 TTTT-TTAAA
*
8163557 -TTTTTAAT
1 TTTTTTAAA
8163565 TTTTTTAATAA
1 TTTTTT-A-AA
*
8163576 CTTTTTATAA
1 TTTTTTA-AA
* * *
8163586 TATTTCATA
1 TTTTTTAAA
8163595 TTTTTTAAA
1 TTTTTTAAA
8163604 TTTTTTAAA
1 TTTTTTAAA
8163613 TTT
1 TTT
8163616 CAGAATTTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
8 4 0.09
9 27 0.59
10 9 0.20
11 6 0.13
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:8163652 original size:19 final size:18
Alignment explanation
Indices: 8163604--8163654 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
8163594 ATTTTTTAAA
*
8163604 TTTTTTAAATTTCAGAAT
1 TTTTTTAAATTTAAGAAT
*
8163622 TTTTTGAAAAATTTAAGAAT
1 TTTTT--TAAATTTAAGAAT
8163642 TTTTATTAAATTT
1 TTTT-TTAAATTT
8163655 TCAGATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 5 0.19
19 6 0.22
20 15 0.56
21 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (18 bp):
TTTTTTAAATTTAAGAAT
Found at i:8163851 original size:8 final size:9
Alignment explanation
Indices: 8163812--8163922 Score: 54
Period size: 9 Copynumber: 12.4 Consensus size: 9
8163802 AAATTTTGAG
8163812 ATTTTTATGA
1 ATTTTTAT-A
8163822 ATTTTT-TA
1 ATTTTTATA
* *
8163830 AGCTTTCATA
1 A-TTTTTATA
8163840 ATTTTT-TA
1 ATTTTTATA
8163848 ATTTTTATA
1 ATTTTTATA
* *
8163857 ATTTCTAAAA
1 ATTT-TTATA
*
8163867 ATATTTCAT-
1 AT-TTTTATA
8163876 A-TTTT-TA
1 ATTTTTATA
8163883 ATTTATTATA
1 ATTT-TTATA
* *
8163893 AATTTTAAA
1 ATTTTTATA
* *
8163902 AATATTATA
1 ATTTTTATA
8163911 ATTTTT-TA
1 ATTTTTATA
8163919 ATTT
1 ATTT
8163923 AAAATTTTTT
Statistics
Matches: 77, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
8 18 0.23
9 31 0.40
10 21 0.27
11 2 0.03
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (9 bp):
ATTTTTATA
Found at i:8163880 original size:36 final size:38
Alignment explanation
Indices: 8163833--8163923 Score: 131
Period size: 36 Copynumber: 2.5 Consensus size: 38
8163823 TTTTTTAAGC
8163833 TTTCATAATTTTTTAATTT-TTAT-AATTTCTAAAAATA
1 TTTCATAATTTTTTAATTTATTATAAATTT-TAAAAATA
8163870 TTTCAT-A-TTTTTAATTTATTATAAATTTTAAAAATA
1 TTTCATAATTTTTTAATTTATTATAAATTTTAAAAATA
8163906 -TT-ATAATTTTTTAATTTA
1 TTTCATAATTTTTTAATTTA
8163924 AAATTTTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
34 2 0.04
35 13 0.26
36 24 0.48
37 11 0.22
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (38 bp):
TTTCATAATTTTTTAATTTATTATAAATTTTAAAAATA
Found at i:8163897 original size:18 final size:18
Alignment explanation
Indices: 8163876--8163923 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
8163866 AATATTTCAT
8163876 ATTTTTAATTTATTATAA
1 ATTTTTAATTTATTATAA
* **
8163894 ATTTTAAAAATATTATAA
1 ATTTTTAATTTATTATAA
*
8163912 TTTTTTAATTTA
1 ATTTTTAATTTA
8163924 AAATTTTTTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTAATTTATTATAA
Found at i:8164301 original size:28 final size:26
Alignment explanation
Indices: 8164260--8164313 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 26
8164250 ATCCCCTATC
*
8164260 ATAAAAAGTATTAATTAATTATTATTTAT
1 ATAAAAAGAATTAA--AA-TATTATTTAT
8164289 ATAAAAA-AATTAAAATATTATTTAT
1 ATAAAAAGAATTAAAATATTATTTAT
8164314 TACACGTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 10 0.42
26 2 0.08
28 5 0.21
29 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
ATAAAAAGAATTAAAATATTATTTAT
Found at i:8164996 original size:22 final size:22
Alignment explanation
Indices: 8164971--8165014 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8164961 AACATATAGT
* *
8164971 TTATAATTTTTTATTTATAATA
1 TTATAATTATTTAATTATAATA
8164993 TTATAATTATTTAATTATAATA
1 TTATAATTATTTAATTATAATA
8165015 AAAGTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATAATTATTTAATTATAATA
Found at i:8171707 original size:18 final size:18
Alignment explanation
Indices: 8171671--8171705 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8171661 GCTCCAACCT
8171671 TTTTATATAATGATGAAA
1 TTTTATATAATGATGAAA
*
8171689 TTTTCTATAATGA-GAAA
1 TTTTATATAATGATGAAA
8171706 ATGACAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (18 bp):
TTTTATATAATGATGAAA
Done.