Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, 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: 4020056
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 21
Found at i:2435111 original size:30 final size:29
Alignment explanation
Indices: 2435071--2435137 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
2435061 TCATTTGCAC
* * *
2435071 AAAAAATTATTT-GATTGTTTTATATTTTAT
1 AAAATATTATTTAGAAT-TTTTA-ATTTAAT
2435101 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
2435130 AATAATAT
1 AA-AATAT
2435138 ATACCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:2435307 original size:21 final size:22
Alignment explanation
Indices: 2435282--2435333 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
2435272 ACACTTTACA
*
2435282 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
2435305 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
2435328 ATATAA
1 ATATAA
2435334 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:2435318 original size:23 final size:23
Alignment explanation
Indices: 2435292--2435354 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2435282 ATATAACCAC
2435292 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2435315 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
2435338 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2435355 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2435692 original size:20 final size:20
Alignment explanation
Indices: 2435667--2435705 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2435657 TCCACATTGA
* *
2435667 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
2435687 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
2435706 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:2435746 original size:22 final size:22
Alignment explanation
Indices: 2435708--2435777 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 22
2435698 ACACTTTACA
*
2435708 ATATAACCACTACCTATTACATT
1 ATATAACGA-TACCTATTACATT
2435731 ATATAACGATACCTATTACATT
1 ATATAACGATACCTATTACATT
** * *
2435753 ATA-AGGGCTACCTATTACATC
1 ATATAACGATACCTATTACATT
2435774 ATAT
1 ATAT
2435778 GTTTACCTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
21 17 0.41
22 16 0.39
23 8 0.20
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (22 bp):
ATATAACGATACCTATTACATT
Found at i:2436083 original size:852 final size:859
Alignment explanation
Indices: 2434439--2437164 Score: 5252
Period size: 852 Copynumber: 3.2 Consensus size: 859
2434429 GCGAGATAGA
2434439 TACCTATTACATTATAT-AACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
2434503 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2434568 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
2434633 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
2434698 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
2434763 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
2434827 ACACTTTAT-AAAAGGATAGACACTTTACAATATAACCA-TACCTATTACATTATATAAACGATA
391 ACACTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATA
*
2434890 CCTA-TACATTATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATA
456 CCTATTACATTATAAGGGCTACCTATTACATCATATGTTTACCTATTTTATTGAAAGTGTCCATA
2434954 CTTTTTATAAAAAGGATCGATACTTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
521 CTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
2435019 CAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
585 CAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
2435084 ATTG-TTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
650 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
2435148 GTAAAAAATAAATCATTAGAC-CCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
715 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
2435212 AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACT
780 AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACT
2435277 TTACAATATAACCAC
845 TTACAATATAACCAC
2435292 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
2435357 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2435422 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
2435487 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATA-TTT-TAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
2435550 AATTTAATAATAATATATACCGTAACGT-AAAAA-AAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
* *
2435613 AATATCTTAAAACTTACTCAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
2435678 ACACTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT-AACGATA
391 ACACTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATA
2435742 CCTATTACATTATAAGGGCTACCTATTACATCATATGTTTACCTATTTTATTGAAAGTGTCCATA
456 CCTATTACATTATAAGGGCTACCTATTACATCATATGTTTACCTATTTTATTGAAAGTGTCCATA
2435807 CTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAAC
521 CTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAAC
2435872 AGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGA
586 AGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGA
2435937 TTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATACCGTAACG
651 TTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAACG
2436000 TAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
716 TAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
2436065 ACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTT
781 ACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTT
2436130 TACAATATAACCAC
846 TACAATATAACCAC
2436144 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2436209 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2436274 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
2436339 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
2436404 AATTTAATAAT-ATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
2436468 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
2436533 ACACTTTTATAAAAAGGATAGACACTTTAC-ATATAACCACTACCTATTACATTATATAAACGAT
391 ACAC-TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGAT
2436597 ACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTTTATTGAAAGTGTCC
455 ACCTATTACA-T-TATAAGGGCTACCTATTACATCATATGTTTACCTATTTTATTGAAAGTGTCC
2436662 ATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTT
518 ATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTT
2436726 AACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATT
583 AACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATT
2436791 TGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTA
648 TGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTA
2436856 ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
713 ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
2436921 ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACA
778 ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACA
2436986 CTTTACAATATAACCAC
843 CTTTACAATATAACCAC
2437003 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2437068 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2437133 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
2437165 ACTGCGAATT
Statistics
Matches: 1848, Mismatches: 8, Indels: 28
0.98 0.00 0.01
Matches are distributed among these distances:
850 81 0.04
851 58 0.03
852 556 0.30
853 183 0.10
854 251 0.14
855 124 0.07
856 41 0.02
857 156 0.08
858 79 0.04
859 319 0.17
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (859 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
ACACTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATA
CCTATTACATTATAAGGGCTACCTATTACATCATATGTTTACCTATTTTATTGAAAGTGTCCATA
CTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAAC
AGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGA
TTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAACG
TAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
ACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTT
TACAATATAACCAC
Found at i:2436159 original size:21 final size:22
Alignment explanation
Indices: 2436134--2436185 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
2436124 ACACTTTACA
*
2436134 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
2436157 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
2436180 ATATAA
1 ATATAA
2436186 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:2436170 original size:23 final size:23
Alignment explanation
Indices: 2436144--2436206 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2436134 ATATAACCAC
2436144 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2436167 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
2436190 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2436207 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2436481 original size:430 final size:431
Alignment explanation
Indices: 2434439--2437164 Score: 5237
Period size: 429 Copynumber: 6.4 Consensus size: 431
2434429 GCGAGATAGA
2434439 TACCTATTACATTATAT-AACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
2434503 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2434568 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
2434633 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
2434698 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
2434763 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
2434827 ACAC-TTTAT-AAAAGGATAGACACTTTACAATATAACCA-
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
2434865 TACCTATTACATTATATAAACGATACCTA-TACA-T-TATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
2434927 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAACTT
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAACTT
2434992 ATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAAT
130 ATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAAT
2435057 AATTTCATTTGCACAAAAAATTATTTGATTG-TTTTATATTTTATAAAATATTATTTAGAATTTT
195 AATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTT
2435121 TAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGAC-CCTATAATTACTAAAT
260 TAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAAT
2435185 TAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATG
325 TAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATG
2435250 GACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
390 GACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
2435292 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
2435357 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2435422 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
2435487 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATA-TTT-TAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
2435550 AATTTAATAATAATATATACCGTAACGT-AAAAA-AAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
* *
2435613 AATATCTTAAAACTTACTCAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
2435678 ACAC-TTTATAAAAAGGATAGACACTTTACAATATAACCAC
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
2435718 TACCTATTACATTATAT-AACGATACCTATTACA-T-TATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2435780 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2435845 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
2435910 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
2435975 AATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
2436038 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
2436103 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
2436144 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2436209 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2436274 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
2436339 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
2436404 AATTTAATAAT-ATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
2436468 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
2436533 ACACTTTTATAAAAAGGATAGACACTTTAC-ATATAACCAC
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
2436573 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2436638 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2436702 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
2436767 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
2436832 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
2436897 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
2436962 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
2437003 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2437068 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2437133 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
2437165 ACTGCGAATT
Statistics
Matches: 2270, Mismatches: 7, Indels: 41
0.98 0.00 0.02
Matches are distributed among these distances:
423 279 0.12
424 184 0.08
425 262 0.12
426 168 0.07
427 145 0.06
428 210 0.09
429 622 0.27
430 354 0.16
431 46 0.02
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
Found at i:2436591 original size:23 final size:23
Alignment explanation
Indices: 2436563--2436635 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
2436553 GACACTTTAC
*
2436563 ATATAACCACTACCTATTACATT
1 ATATAACGACTACCTATTACATT
2436586 ATATAAACGA-TACCTATTACATT
1 ATAT-AACGACTACCTATTACATT
* * *
2436609 ATATAAGGGCTACCTATTACATC
1 ATATAACGACTACCTATTACATT
2436632 ATAT
1 ATAT
2436636 GTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.07
23 37 0.84
24 4 0.09
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAACGACTACCTATTACATT
Found at i:2437018 original size:21 final size:22
Alignment explanation
Indices: 2436993--2437044 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
2436983 ACACTTTACA
*
2436993 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
2437016 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
2437039 ATATAA
1 ATATAA
2437045 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:2437029 original size:23 final size:23
Alignment explanation
Indices: 2437003--2437065 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2436993 ATATAACCAC
2437003 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2437026 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
2437049 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2437066 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2438683 original size:197 final size:199
Alignment explanation
Indices: 2438292--2439899 Score: 2940
Period size: 197 Copynumber: 8.1 Consensus size: 199
2438282 ATTTAATTTG
* *
2438292 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2438357 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2438422 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
2438485 AAAA
196 AAAA
2438489 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2438553 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2438618 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
2438683 AAAA
196 AAAA
2438687 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2438752 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
2438817 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
2438882 AAAA
196 AAAA
2438886 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
2438951 ATTGTA-CGGTTAGATTAAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2439014 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
2439079 AAAAA
195 AAAAA
*
2439084 TATCGACACAAA--ATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
2439146 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2439210 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
2439275 AAAA
196 AAAA
2439279 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2439344 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2439408 CGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
2439472 AAAA
196 AAAA
2439476 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2439541 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
2439606 CGACAC-TTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
2439668 AAAA
196 AAAA
2439672 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
2439737 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2439802 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
2439866 AAAAA
195 AAAAA
* *
2439871 TATTGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
2439900 TGACCTTAAT
Statistics
Matches: 1374, Mismatches: 22, Indels: 28
0.96 0.02 0.02
Matches are distributed among these distances:
195 92 0.07
196 312 0.23
197 356 0.26
198 321 0.23
199 293 0.21
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:2439421 original size:592 final size:592
Alignment explanation
Indices: 2438292--2439899 Score: 2962
Period size: 592 Copynumber: 2.7 Consensus size: 592
2438282 ATTTAATTTG
* *
2438292 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2438357 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2438422 CGACACTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT-GGAAAA
2438486 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAACCGGTA
195 AAATATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAACCGGTA
* *
2438551 TAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGG
259 TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
2438616 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAA
324 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAA
2438681 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACC
389 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACC
2438746 GGTATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTT
454 GGTATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTT
*
2438811 TGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT
519 TGGGATCGACACTTTTT-TATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCT
2438876 GGAAAAAAAA
583 GGAAAAAAAA
2438886 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2438951 ATTGTA-CGGTTAGATTAAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2439014 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC--TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AA
*
2439079 AAAAATATCGACACAAA-ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAACCGGT
193 AAAAATATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAACCGGT
2439143 ATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGG
258 ATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
2439207 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
323 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
2439272 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAAC
388 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAAC
2439337 CGGTATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGA-T
453 CGGTATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATT
*
2439401 TTGGGATCGACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT
518 TTGGGATCGACACTTTTTTATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCT
2439466 GGAAAAAAAA
583 GGAAAAAAAA
2439476 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2439541 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
2439606 CGACACTTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
2439670 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
196 AATATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAACCGGTA
2439735 TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
259 TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
2439800 ATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-
324 ATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
* *
2439864 AAAAAAATATTGACACAAACTATATTAGTATCGACA
388 AAAAAAATATCGACACAAACTATATTAGTGTCGACA
2439900 TGACCTTAAT
Statistics
Matches: 988, Mismatches: 15, Indels: 24
0.96 0.01 0.02
Matches are distributed among these distances:
588 19 0.02
589 31 0.03
590 184 0.19
591 92 0.09
592 356 0.36
593 165 0.17
594 75 0.08
595 66 0.07
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (592 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
AATATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTTATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGA
AAAAAAA
Found at i:2440006 original size:19 final size:19
Alignment explanation
Indices: 2439979--2440020 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
2439969 TATTCACATA
2439979 AAAAATATAAATCGTATAC
1 AAAAATATAAATCGTATAC
* *
2439998 AAAATTATAAATCTTATAC
1 AAAAATATAAATCGTATAC
2440017 AAAA
1 AAAA
2440021 CTAACTCGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATATAAATCGTATAC
Found at i:2441839 original size:33 final size:33
Alignment explanation
Indices: 2441802--2441867 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2441792 CATCTTAATA
*
2441802 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
2441835 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
2441868 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:2444005 original size:24 final size:24
Alignment explanation
Indices: 2443968--2444020 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2443958 CCGTTCTATC
2443968 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
2443992 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
2444016 TATTT
1 TATTT
2444021 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:2444182 original size:17 final size:18
Alignment explanation
Indices: 2444160--2444201 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
2444150 ATATATCCGG
*
2444160 TATCATTT-TACCGTTTT
1 TATCATTTATACCGGTTT
2444177 TATCATTTGATACCGGTTT
1 TATCATTT-ATACCGGTTT
2444196 TATCAT
1 TATCAT
2444202 ATTTTACCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
19 14 0.64
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:2444209 original size:19 final size:19
Alignment explanation
Indices: 2444164--2444209 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
2444154 ATCCGGTATC
*
2444164 ATTTTACCGTTTTTATCAT
1 ATTTTACCGGTTTTATCAT
*
2444183 -TTGATACCGGTTTTATCAT
1 ATT-TTACCGGTTTTATCAT
2444202 ATTTTACC
1 ATTTTACC
2444210 TGTTATATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.09
19 18 0.82
20 2 0.09
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (19 bp):
ATTTTACCGGTTTTATCAT
Found at i:2445994 original size:16 final size:16
Alignment explanation
Indices: 2445973--2446035 Score: 90
Period size: 16 Copynumber: 3.9 Consensus size: 16
2445963 TTACCCGACC
*
2445973 TGTTTTCAACCTGACT
1 TGTTTTCAACCTGACA
* *
2445989 TGTTTTTAACCTGACC
1 TGTTTTCAACCTGACA
2446005 TGTTTTCAACCTGACA
1 TGTTTTCAACCTGACA
*
2446021 TGTTTTTAACCTGAC
1 TGTTTTCAACCTGAC
2446036 CTGTAAATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.43
Consensus pattern (16 bp):
TGTTTTCAACCTGACA
Found at i:2446010 original size:32 final size:32
Alignment explanation
Indices: 2445969--2446039 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
2445959 GGTATTACCC
*
2445969 GACCTGTTTTCAACCTGACTTGTTTTTAACCT
1 GACCTGTTTTCAACCTGACATGTTTTTAACCT
2446001 GACCTGTTTTCAACCTGACATGTTTTTAACCT
1 GACCTGTTTTCAACCTGACATGTTTTTAACCT
2446033 GACCTGT
1 GACCTGT
2446040 AAATGATCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (32 bp):
GACCTGTTTTCAACCTGACATGTTTTTAACCT
Found at i:2446329 original size:14 final size:14
Alignment explanation
Indices: 2446307--2446353 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
2446297 TGCAAAGGAA
*
2446307 AATTAATATAGTTT
1 AATTTATATAGTTT
2446321 AATTTATATA----
1 AATTTATATAGTTT
2446331 AA-TTATATAGTTT
1 AATTTATATAGTTT
2446344 AATTTATATA
1 AATTTATATA
2446354 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:2446340 original size:23 final size:24
Alignment explanation
Indices: 2446306--2446355 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
2446296 ATGCAAAGGA
2446306 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
2446330 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
2446353 AAA
1 AAA
2446356 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:2446540 original size:14 final size:14
Alignment explanation
Indices: 2446518--2446548 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2446508 TCCATTTAAA
2446518 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*
2446532 TTAGTGTTTATGGT
1 TTAGGGTTTATGGT
2446546 TTA
1 TTA
2446549 AAGTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:2446685 original size:15 final size:15
Alignment explanation
Indices: 2446665--2446701 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
2446655 TAATTTACTT
2446665 TATATAGTTTATATA
1 TATATAGTTTATATA
2446680 TATATAGTTTATATA
1 TATATAGTTTATATA
2446695 TACTATA
1 TA-TATA
2446702 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:2446735 original size:13 final size:13
Alignment explanation
Indices: 2446725--2446751 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2446715 TACATATTAT
2446725 ATAAAATTATTTA
1 ATAAAATTATTTA
2446738 ATAAAATTATTTA
1 ATAAAATTATTTA
2446751 A
1 A
2446752 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:2446761 original size:15 final size:14
Alignment explanation
Indices: 2446725--2446767 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
2446715 TACATATTAT
2446725 ATAAAATTATTT-A
1 ATAAAATTATTTAA
2446738 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
2446752 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
2446767 A
1 A
2446768 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:2447086 original size:7 final size:7
Alignment explanation
Indices: 2447063--2447141 Score: 61
Period size: 7 Copynumber: 11.3 Consensus size: 7
2447053 TCCATTTATA
2447063 TTAGGGT
1 TTAGGGT
* *
2447070 TTATGAT
1 TTAGGGT
*
2447077 TTAGTGT
1 TTAGGGT
*
2447084 TTAGTGT
1 TTAGGGT
*
2447091 CT-GTGGT
1 TTAG-GGT
**
2447098 TTAAAGT
1 TTAGGGT
2447105 TTAGGGT
1 TTAGGGT
2447112 TTAGGGT
1 TTAGGGT
2447119 TTAGGGT
1 TTAGGGT
* *
2447126 TTATGAT
1 TTAGGGT
2447133 TTAGGGT
1 TTAGGGT
2447140 TT
1 TT
2447142 CTATAAATTA
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
6 1 0.02
7 53 0.98
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.49
Consensus pattern (7 bp):
TTAGGGT
Found at i:2447098 original size:28 final size:28
Alignment explanation
Indices: 2447064--2447141 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
2447054 CCATTTATAT
* *
2447064 TAGGGTTTATGATTTAGTGTTTAGTGTC
1 TAGGGTTTATGATTTAGGGTTTAGGGTC
* *
2447092 T-GTGGTTTA-AAGTTTAGGGTTTAGGGTT
1 TAG-GGTTTATGA-TTTAGGGTTTAGGGTC
2447120 TAGGGTTTATGATTTAGGGTTT
1 TAGGGTTTATGATTTAGGGTTT
2447142 CTATAAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
27 2 0.05
28 37 0.90
29 2 0.05
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.49
Consensus pattern (28 bp):
TAGGGTTTATGATTTAGGGTTTAGGGTC
Found at i:2447229 original size:47 final size:48
Alignment explanation
Indices: 2447124--2447248 Score: 207
Period size: 47 Copynumber: 2.6 Consensus size: 48
2447114 AGGGTTTAGG
* *
2447124 GTTTATGATTTAGGGTTTCTATAAATTATAAATTTTATTACTTTATATA
1 GTTTATG-TATAGTGTTTCTATAAATTATAAATTTTATTACTTTATATA
2447173 GTTTATGTATAGTGTTTCTATAAATTATAAATTTT-TTACTTTATATA
1 GTTTATGTATAGTGTTTCTATAAATTATAAATTTTATTACTTTATATA
*
2447220 GTTTATGTATAGTGTTTCTATAAACTATA
1 GTTTATGTATAGTGTTTCTATAAATTATA
2447249 TAAGTAATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
47 40 0.55
48 26 0.36
49 7 0.10
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.53
Consensus pattern (48 bp):
GTTTATGTATAGTGTTTCTATAAATTATAAATTTTATTACTTTATATA
Found at i:2447267 original size:2 final size:2
Alignment explanation
Indices: 2447262--2447356 Score: 156
Period size: 2 Copynumber: 47.0 Consensus size: 2
2447252 GTAATTTATT
2447262 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2447303 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
2447346 TA TA TA CTA TA
1 TA TA TA -TA TA
2447357 CGTGGTTTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
1 1 0.01
2 84 0.95
3 3 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2447390 original size:13 final size:13
Alignment explanation
Indices: 2447380--2447406 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2447370 TACATATTAT
2447380 ATAAAATTATTTA
1 ATAAAATTATTTA
2447393 ATAAAATTATTTA
1 ATAAAATTATTTA
2447406 A
1 A
2447407 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:2447416 original size:15 final size:14
Alignment explanation
Indices: 2447380--2447422 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
2447370 TACATATTAT
2447380 ATAAAATTATTT-A
1 ATAAAATTATTTAA
2447393 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
2447407 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
2447422 A
1 A
2447423 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:2448647 original size:21 final size:21
Alignment explanation
Indices: 2448618--2448676 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2448608 TCTATTTATA
* **
2448618 TTAGGGTTTATGATTTAGTGT
1 TTAGGGTTTATGGTTTAAAGT
* *
2448639 TTAGTGTTTGTGGTTTAAAGT
1 TTAGGGTTTATGGTTTAAAGT
2448660 TTAGGGTTTATGGTTTA
1 TTAGGGTTTATGGTTTA
2448677 TGATTTAAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTAAAGT
Found at i:2448675 original size:14 final size:14
Alignment explanation
Indices: 2448618--2448676 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
2448608 TCTATTTATA
*
2448618 TTAGGGTTTATGAT
1 TTAGGGTTTATGGT
*
2448632 TTAGTGTTTA-GTGT
1 TTAGGGTTTATG-GT
**
2448646 TT-GTGGTTTAAAGT
1 TTAG-GGTTTATGGT
2448660 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
2448674 TTA
1 TTA
2448677 TGATTTAAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
13 2 0.06
14 32 0.91
15 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.53
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:2448683 original size:21 final size:20
Alignment explanation
Indices: 2448618--2448689 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
2448608 TCTATTTATA
* *
2448618 TTAGGGTTTATGATTTAGTGT
1 TTAGGGTTTATGGTTTAG-AT
* * *
2448639 TTAGTGTTTGTGGTTTAAAGT
1 TTAGGGTTTATGGTTTAGA-T
2448660 TTAGGGTTTATGGTTTATGAT
1 TTAGGGTTTATGGTTTA-GAT
*
2448681 TTAAGGTTT
1 TTAGGGTTT
2448690 CTATAAACTA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (20 bp):
TTAGGGTTTATGGTTTAGAT
Found at i:2448740 original size:48 final size:49
Alignment explanation
Indices: 2448686--2448780 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
2448676 ATGATTTAAG
** * *
2448686 GTTTCTATAAACTATATATTTTA-CTACTTTATATAGTTTATGTATAGT
1 GTTTCTATAAACTATATAAGTAATCTACTTTATATAGTTTATATATAGT
*
2448734 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATA
1 GTTTCTATAAACTATATAAGTAATCTACTTTATATAGTTTATATATA
2448781 TATATAGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 20 0.49
49 21 0.51
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (49 bp):
GTTTCTATAAACTATATAAGTAATCTACTTTATATAGTTTATATATAGT
Found at i:2448776 original size:9 final size:9
Alignment explanation
Indices: 2448762--2448795 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2448752 AGTAATTTAC
2448762 TTTATATAG
1 TTTATATAG
2448771 TTTATATA-
1 TTTATATAG
*
2448779 TATATATAG
1 TTTATATAG
2448788 TTTATATA
1 TTTATATA
2448796 TACTATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (9 bp):
TTTATATAG
Found at i:2448813 original size:20 final size:18
Alignment explanation
Indices: 2448764--2448802 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
2448754 TAATTTACTT
2448764 TATATAGTTTATATATA-
1 TATATAGTTTATATATAC
2448781 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
2448799 TATA
1 TATA
2448803 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:2448836 original size:13 final size:13
Alignment explanation
Indices: 2448826--2448852 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2448816 TACATATTAT
2448826 ATAAAATTATTTA
1 ATAAAATTATTTA
2448839 ATAAAATTATTTA
1 ATAAAATTATTTA
2448852 A
1 A
2448853 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:2448862 original size:15 final size:14
Alignment explanation
Indices: 2448826--2448868 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
2448816 TACATATTAT
2448826 ATAAAATTATTT-A
1 ATAAAATTATTTAA
2448839 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
2448853 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
2448868 A
1 A
2448869 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:2450093 original size:21 final size:21
Alignment explanation
Indices: 2450064--2450122 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2450054 TCTATTTATA
* **
2450064 TTAGGGTTTATGATTTAGTGT
1 TTAGGGTTTATGGTTTAAAGT
* *
2450085 TTAGTGTTTGTGGTTTAAAGT
1 TTAGGGTTTATGGTTTAAAGT
2450106 TTAGGGTTTATGGTTTA
1 TTAGGGTTTATGGTTTA
2450123 TGATTTAAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTAAAGT
Found at i:2450121 original size:14 final size:14
Alignment explanation
Indices: 2450064--2450122 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
2450054 TCTATTTATA
*
2450064 TTAGGGTTTATGAT
1 TTAGGGTTTATGGT
*
2450078 TTAGTGTTTA-GTGT
1 TTAGGGTTTATG-GT
**
2450092 TT-GTGGTTTAAAGT
1 TTAG-GGTTTATGGT
2450106 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
2450120 TTA
1 TTA
2450123 TGATTTAAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
13 2 0.06
14 32 0.91
15 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.53
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:2450129 original size:21 final size:20
Alignment explanation
Indices: 2450064--2450135 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
2450054 TCTATTTATA
* *
2450064 TTAGGGTTTATGATTTAGTGT
1 TTAGGGTTTATGGTTTAG-AT
* * *
2450085 TTAGTGTTTGTGGTTTAAAGT
1 TTAGGGTTTATGGTTTAGA-T
2450106 TTAGGGTTTATGGTTTATGAT
1 TTAGGGTTTATGGTTTA-GAT
*
2450127 TTAAGGTTT
1 TTAGGGTTT
2450136 CTATAAACTA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (20 bp):
TTAGGGTTTATGGTTTAGAT
Found at i:2450186 original size:48 final size:49
Alignment explanation
Indices: 2450132--2450226 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
2450122 ATGATTTAAG
** * *
2450132 GTTTCTATAAACTATATATTTTA-CTACTTTATATAGTTTATGTATAGT
1 GTTTCTATAAACTATATAAGTAATCTACTTTATATAGTTTATATATAGT
*
2450180 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATA
1 GTTTCTATAAACTATATAAGTAATCTACTTTATATAGTTTATATATA
2450227 TATATAGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 20 0.49
49 21 0.51
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (49 bp):
GTTTCTATAAACTATATAAGTAATCTACTTTATATAGTTTATATATAGT
Found at i:2450222 original size:9 final size:9
Alignment explanation
Indices: 2450208--2450241 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2450198 AGTAATTTAC
2450208 TTTATATAG
1 TTTATATAG
2450217 TTTATATA-
1 TTTATATAG
*
2450225 TATATATAG
1 TTTATATAG
2450234 TTTATATA
1 TTTATATA
2450242 TACTATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (9 bp):
TTTATATAG
Found at i:2450259 original size:20 final size:18
Alignment explanation
Indices: 2450210--2450248 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
2450200 TAATTTACTT
2450210 TATATAGTTTATATATA-
1 TATATAGTTTATATATAC
2450227 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
2450245 TATA
1 TATA
2450249 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:2450282 original size:13 final size:13
Alignment explanation
Indices: 2450272--2450298 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2450262 TACATATTAT
2450272 ATAAAATTATTTA
1 ATAAAATTATTTA
2450285 ATAAAATTATTTA
1 ATAAAATTATTTA
2450298 A
1 A
2450299 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:2450308 original size:15 final size:14
Alignment explanation
Indices: 2450272--2450314 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
2450262 TACATATTAT
2450272 ATAAAATTATTT-A
1 ATAAAATTATTTAA
2450285 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
2450299 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
2450314 A
1 A
2450315 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:2450477 original size:7 final size:7
Alignment explanation
Indices: 2450413--2450483 Score: 54
Period size: 7 Copynumber: 10.3 Consensus size: 7
2450403 TTCATTTATA
2450413 TTAGGGT
1 TTAGGGT
*
2450420 TTATGGT
1 TTAGGGT
*
2450427 TTAGTGT
1 TTAGGGT
*
2450434 TTAGTGT
1 TTAGGGT
*
2450441 TTATGGT
1 TTAGGGT
**
2450448 TTAAAG-
1 TTAGGGT
*
2450454 TTAGGAT
1 TTAGGGT
* *
2450461 GTATGGT
1 TTAGGGT
2450468 TTAGGGT
1 TTAGGGT
2450475 TTAGGGT
1 TTAGGGT
2450482 TT
1 TT
2450484 CTATAAACTA
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
6 3 0.06
7 45 0.94
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.49
Consensus pattern (7 bp):
TTAGGGT
Found at i:2450601 original size:40 final size:40
Alignment explanation
Indices: 2450533--2450610 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
2450523 ATAGTATTTC
*
2450533 TATAAACTATATAAGTAATTTACTTTATATAGTATATATA
1 TATAAACTATATAAGTAAATTACTTTATATAGTATATATA
* *
2450573 TATAAACTATATAAAGTAAATTGC-TTATATAGTTTATA
1 TATAAACTATAT-AAGTAAATTACTTTATATAGTATATA
2450611 GAAATACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 25 0.74
41 9 0.26
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (40 bp):
TATAAACTATATAAGTAAATTACTTTATATAGTATATATA
Found at i:2450670 original size:23 final size:22
Alignment explanation
Indices: 2450644--2450698 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
2450634 ATATACATAT
2450644 CATACATGCATTA-ATAAATTACA
1 CATACATGCATTACAT--ATTACA
* *
2450667 CATATATGCA-TACATATTATA
1 CATACATGCATTACATATTACA
2450688 CATACATGCAT
1 CATACATGCAT
2450699 GCATTAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 14 0.52
22 2 0.07
23 11 0.41
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (22 bp):
CATACATGCATTACATATTACA
Found at i:2450716 original size:44 final size:47
Alignment explanation
Indices: 2450635--2450727 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 47
2450625 ATTACATTAA
*
2450635 TATACATATCATACATGCATTAATAAATTACACATATATGCATA-CATAT
1 TATACATATCATACATGCATTAATAAATT--A-ATATATACATATCATAT
*
2450684 TATACATA-CATGCATGCATTAATAAATT-ATATATACATATCATA
1 TATACATATCATACATGCATTAATAAATTAATATATACATATCATA
2450728 CATTCGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
44 10 0.24
45 4 0.10
48 19 0.46
49 8 0.20
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.35
Consensus pattern (47 bp):
TATACATATCATACATGCATTAATAAATTAATATATACATATCATAT
Found at i:2451654 original size:64 final size:64
Alignment explanation
Indices: 2451516--2451655 Score: 192
Period size: 64 Copynumber: 2.2 Consensus size: 64
2451506 GAACTGAAAA
* * *
2451516 TGACCAGACTTGAACCCGATCTGGATCTGGTGTCAAATCAACCTGAAAATAACCTGAACTGATT
1 TGACCCGACCTGAACCCGATCTGGATCTAGTGTCAAATCAACCTGAAAATAACCTGAACTGATT
* * * *
2451580 TGACCTGACCTGAACCCGATCTGGATCTAGTGTCAAATCAACCTG-AATTAACTTGTATCTGATT
1 TGACCCGACCTGAACCCGATCTGGATCTAGTGTCAAATCAACCTGAAAATAACCTG-AACTGATT
*
2451644 TTACCCGACCTG
1 TGACCCGACCTG
2451656 CCAAGATTCG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 8 0.12
64 59 0.88
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (64 bp):
TGACCCGACCTGAACCCGATCTGGATCTAGTGTCAAATCAACCTGAAAATAACCTGAACTGATT
Found at i:2456513 original size:20 final size:20
Alignment explanation
Indices: 2456488--2456535 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2456478 GACCAACAAA
*
2456488 TTCGCAACGCAAACTCCAAT
1 TTCGCAACCCAAACTCCAAT
***
2456508 TTCGCAACCCAGTTTCCAAT
1 TTCGCAACCCAAACTCCAAT
2456528 TTCGCAAC
1 TTCGCAAC
2456536 TCGAATATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.25
Consensus pattern (20 bp):
TTCGCAACCCAAACTCCAAT
Found at i:2456635 original size:20 final size:20
Alignment explanation
Indices: 2456622--2456740 Score: 211
Period size: 20 Copynumber: 6.0 Consensus size: 20
2456612 GCAACATAGA
2456622 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
* * *
2456642 AGTCAAATTCGCAACACAAA
1 AGTCAAATTCGCAACGCGAT
2456662 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
2456682 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
2456702 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
2456722 AGTCAAATTCGCAACGCGA
1 AGTCAAATTCGCAACGCGA
2456741 AACACAATAT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 93 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCGAT
Found at i:2456874 original size:22 final size:22
Alignment explanation
Indices: 2456849--2456899 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
2456839 CTACGGCGAC
*
2456849 ATCCGTCCCCATCTCC-GACGAA
1 ATCCGTCCCCATCTCCAG-CAAA
2456871 ATCCGTCCCCATCTCCAGCAAA
1 ATCCGTCCCCATCTCCAGCAAA
2456893 ATCCGTC
1 ATCCGTC
2456900 TATCTCCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.45, G:0.12, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCAGCAAA
Found at i:2457281 original size:14 final size:14
Alignment explanation
Indices: 2457249--2457282 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2457239 ACACGAAAAT
2457249 GAAAATCGCAACAC
1 GAAAATCGCAACAC
* *
2457263 CAAAATCGCAACGC
1 GAAAATCGCAACAC
2457277 GAAAAT
1 GAAAAT
2457283 TGTAACGCGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.26, G:0.15, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:2457324 original size:20 final size:20
Alignment explanation
Indices: 2457299--2457351 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
2457289 GCGGTTTTAG
2457299 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
2457319 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
2457339 TTTCACGTTGCGA
1 TTTCGCGTTGCGA
2457352 ATTTAAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:2457362 original size:20 final size:20
Alignment explanation
Indices: 2457293--2457363 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
2457283 TGTAACGCGG
*
2457293 TTTT-AGTTTCGCGTTGCGA
1 TTTTCAGTTTCACGTTGCGA
* *
2457312 TTTTCATTTTCGCGTTGCGA
1 TTTTCAGTTTCACGTTGCGA
*
2457332 TTTTCATTTTCACGTTGCGA
1 TTTTCAGTTTCACGTTGCGA
* *
2457352 ATTTAAGTTTCA
1 TTTTCAGTTTCA
2457364 GAAACTACTC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 4 0.09
20 42 0.91
ACGTcount: A:0.15, C:0.17, G:0.18, T:0.49
Consensus pattern (20 bp):
TTTTCAGTTTCACGTTGCGA
Found at i:2459561 original size:42 final size:42
Alignment explanation
Indices: 2459514--2459632 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
2459504 AATGCACCTA
* * *
2459514 TCATCATTCAAGAGGCGCCTCATATCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAGGCCCCTCACACCGTTCAAGAGGCCCCTC
* * * *
2459556 TCATCA-TCGAAGAAGCCCCTCCCACCGTTCAAGAGGCCCTTG
1 TCATCATTC-AAGAGGCCCCTCACACCGTTCAAGAGGCCCCTC
* * * *
2459598 TCATCGTTCAAGAGGTCCCGCCCACCGTTCAAGAG
1 TCATCATTCAAGAGGCCCCTCACACCGTTCAAGAG
2459633 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 60 0.94
43 2 0.03
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTCACACCGTTCAAGAGGCCCCTC
Found at i:2459589 original size:21 final size:21
Alignment explanation
Indices: 2459520--2459632 Score: 84
Period size: 21 Copynumber: 5.4 Consensus size: 21
2459510 CCTATCATCA
* ** *
2459520 TTCAAGAGGCGCCTCATATCG
1 TTCAAGAGGCCCCTCCCACCG
* *
2459541 TTCAAGAGGCCCCTCTCATC-
1 TTCAAGAGGCCCCTCCCACCG
* *
2459561 ATCGAAGAAGCCCCTCCCACCG
1 TTC-AAGAGGCCCCTCCCACCG
* ** *
2459583 TTCAAGAGGCCCTTGTCATCG
1 TTCAAGAGGCCCCTCCCACCG
* *
2459604 TTCAAGAGGTCCCGCCCACCG
1 TTCAAGAGGCCCCTCCCACCG
2459625 TTCAAGAG
1 TTCAAGAG
2459633 CCCGATTCAC
Statistics
Matches: 71, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
20 2 0.03
21 67 0.94
22 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.20
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCG
Found at i:2460871 original size:24 final size:24
Alignment explanation
Indices: 2460839--2460891 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
2460829 ATTTGTTGTT
2460839 TGTTGGTTTTAGACGTGTAGAAAG
1 TGTTGGTTTTAGACGTGTAGAAAG
** *
2460863 TGTTGGTTTTTTATGTGTAGAAAG
1 TGTTGGTTTTAGACGTGTAGAAAG
2460887 TGTTG
1 TGTTG
2460892 TTTGAGCAAA
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:0.21, C:0.02, G:0.32, T:0.45
Consensus pattern (24 bp):
TGTTGGTTTTAGACGTGTAGAAAG
Found at i:2461064 original size:70 final size:67
Alignment explanation
Indices: 2460983--2461159 Score: 247
Period size: 66 Copynumber: 2.6 Consensus size: 67
2460973 TGGGGTACAC
*
2460983 TTTTTTCGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAA-TTGATGA-GGAAAT
1 TTTTTTTGCTTGTTTAATTGAATTTGT--A---AAAGTTGATTTGTTTAATTTGAT-ATGGAAAT
2461045 AAGAATTA
60 AAGAATTA
*
2461053 TTTTTTTGCTTGTTTAATTG-ATTTGTAAAAGTTGATTTGTTTAATTTGATATGTAAATAAGAAT
1 TTTTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAATTTGATATGGAAATAAGAAT
2461117 TA
66 TA
2461119 TTTTTTTGCTTGTTTAATTG-ATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTT
2461160 GTTTTGAATT
Statistics
Matches: 102, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
65 18 0.18
66 59 0.58
68 1 0.01
69 4 0.04
70 20 0.20
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (67 bp):
TTTTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAATTTGATATGGAAATAAGAAT
TA
Found at i:2461123 original size:65 final size:65
Alignment explanation
Indices: 2461015--2461159 Score: 256
Period size: 66 Copynumber: 2.2 Consensus size: 65
2461005 TTTTACATTG
2461015 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGTA
*
2461080 AAAGTTGATTTGTTTAATTTGAT-ATGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTG
1 AAAGTTGATTTGTTTAA-TTGATGA-GGAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTG
2461144 TA
64 TA
2461146 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
2461160 GTTTTGAATT
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
65 18 0.23
66 59 0.77
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.51
Consensus pattern (65 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGTA
Found at i:2462279 original size:18 final size:18
Alignment explanation
Indices: 2462256--2462292 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2462246 CGAAATTTAT
2462256 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2462274 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2462292 A
1 A
2462293 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2462706 original size:25 final size:25
Alignment explanation
Indices: 2462678--2462727 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2462668 CATTATTTTC
*
2462678 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2462703 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2462728 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:2462879 original size:20 final size:20
Alignment explanation
Indices: 2462856--2462900 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2462846 GTCAAATTCG
*
2462856 CGTTGCGAATTTTACTTTCA
1 CGTTGCGAATTTGACTTTCA
*
2462876 CGTTGCGAATTTGACTTTCG
1 CGTTGCGAATTTGACTTTCA
2462896 CGTTG
1 CGTTG
2462901 ATCGCAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGAATTTGACTTTCA
Found at i:2463209 original size:18 final size:18
Alignment explanation
Indices: 2463186--2463221 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2463176 AAGCCGGTTG
2463186 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
2463204 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
2463222 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:2465517 original size:24 final size:24
Alignment explanation
Indices: 2465483--2465536 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2465473 CCATCACATC
2465483 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2465507 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2465531 ATCAAA
1 ATCAAA
2465537 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2465550 original size:24 final size:24
Alignment explanation
Indices: 2465483--2465550 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
2465473 CCATCACATC
* * *
2465483 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
2465507 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
2465531 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
2465551 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:2466314 original size:14 final size:15
Alignment explanation
Indices: 2466278--2466315 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2466268 GAAATCATTG
2466278 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
2466293 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
2466308 AAAAATTA
1 AAAAATTA
2466316 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:2466390 original size:18 final size:18
Alignment explanation
Indices: 2466367--2466405 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
2466357 CCGGAGAGAG
2466367 TGATAGATGGAGATGGAA
1 TGATAGATGGAGATGGAA
2466385 TGATAGATGGAGATGGAA
1 TGATAGATGGAGATGGAA
2466403 TGA
1 TGA
2466406 GTTGCGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (18 bp):
TGATAGATGGAGATGGAA
Found at i:2466515 original size:19 final size:21
Alignment explanation
Indices: 2466491--2466542 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
2466481 CTAAAACATA
*
2466491 TTGCGAAATT-AAATT-CGTG
1 TTGCGAAATTGAAATTCCGCG
*
2466510 TTGCGAATTTGAAATTCCGCG
1 TTGCGAAATTGAAATTCCGCG
*
2466531 TTGCGAATTTGA
1 TTGCGAAATTGA
2466543 CTTTTGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.31
20 5 0.17
21 15 0.52
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (21 bp):
TTGCGAAATTGAAATTCCGCG
Found at i:2466526 original size:20 final size:20
Alignment explanation
Indices: 2466491--2466761 Score: 155
Period size: 20 Copynumber: 13.6 Consensus size: 20
2466481 CTAAAACATA
*
2466491 TTGCGAAATT-AAATTCGTG
1 TTGCGAATTTGAAATTCGTG
*
2466510 TTGCGAATTTGAAATTCCGCG
1 TTGCGAATTTGAAATT-CGTG
** *
2466531 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGAAATTCGTG
*
2466551 TTGCGAATTTG-ACTTCTGTG
1 TTGCGAATTTGAAATTC-GTG
* *
2466571 TTGCG-ATTTACAAATTCGCG
1 TTGCGAATTT-GAAATTCGTG
* * *
2466591 TTGCGCATTTG-ACTATCGCG
1 TTGCGAATTTGAAAT-TCGTG
** *
2466611 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGAAATTCGTG
* *
2466631 TTGCGAATTTG-ATTATCGCG
1 TTGCGAATTTGAAAT-TCGTG
*
2466651 TTGCGAATTTG-ACTATCGTG
1 TTGCGAATTTGAAAT-TCGTG
*
2466671 TTGCGAATTTG-ACTTCTGTG
1 TTGCGAATTTGAAATTC-GTG
* *
2466691 TTGCG-ATTTACAAATTCGCG
1 TTGCGAATTT-GAAATTCGTG
* * *
2466711 TTGCGAAACTGGAAACT-GTG
1 TTGCG-AATTTGAAATTCGTG
* * * *
2466731 TTGCGAAATTGGAGTTCGCG
1 TTGCGAATTTGAAATTCGTG
2466751 TTGCGAATTTG
1 TTGCGAATTTG
2466762 TTGGTCATTT
Statistics
Matches: 198, Mismatches: 39, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
19 31 0.16
20 131 0.66
21 34 0.17
22 2 0.01
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (20 bp):
TTGCGAATTTGAAATTCGTG
Found at i:2466574 original size:40 final size:40
Alignment explanation
Indices: 2466504--2466696 Score: 214
Period size: 40 Copynumber: 4.8 Consensus size: 40
2466494 CGAAATTAAA
* *
2466504 TTCGTGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACT
1 TTCGTGTTGCGAATTTG-ACTTCTGCGTTGCGAATTTGACT
* * *
2466545 TTTGTGTTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACAAA
1 TTCGTGTTGCGAATTTGACTTCTGCGTTGCGAATTTGAC--T
* *
2466585 TTCGCGTTGCGCATTTGACTATC-GCGTTGCGAATTTGACT
1 TTCGTGTTGCGAATTTGACT-TCTGCGTTGCGAATTTGACT
* *
2466625 TTTGTGTTGCGAATTTGA-TTATCGCGTTGCGAATTTGACT
1 TTCGTGTTGCGAATTTGACTTCT-GCGTTGCGAATTTGACT
* *
2466665 ATCGTGTTGCGAATTTGACTTCTGTGTTGCGA
1 TTCGTGTTGCGAATTTGACTTCTGCGTTGCGA
2466697 TTTACAAATT
Statistics
Matches: 126, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
38 3 0.02
39 5 0.04
40 91 0.72
41 25 0.20
42 2 0.02
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (40 bp):
TTCGTGTTGCGAATTTGACTTCTGCGTTGCGAATTTGACT
Found at i:2466714 original size:40 final size:41
Alignment explanation
Indices: 2466502--2466717 Score: 189
Period size: 40 Copynumber: 5.4 Consensus size: 41
2466492 TGCGAAATTA
* * *
2466502 AATTCGTGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGAC
1 AATTCGCGTTGCGAATTTG-ACTTCTGCGTTGCGAATTTGAC
* * * *
2466544 -TTTTGTGTTGCGAATTTGACTTCTGTGTTGCG-ATTT-AC
1 AATTCGCGTTGCGAATTTGACTTCTGCGTTGCGAATTTGAC
*
2466582 AAATTCGCGTTGCGCATTTGACTATC-GCGTTGCGAATTTGAC
1 -AATTCGCGTTGCGAATTTGACT-TCTGCGTTGCGAATTTGAC
* * * *
2466624 -TTTTGTGTTGCGAATTTGA-TTATCGCGTTGCGAATTTGAC
1 AATTCGCGTTGCGAATTTGACTTCT-GCGTTGCGAATTTGAC
* * *
2466664 TA-TCGTGTTGCGAATTTGACTTCTGTGTTGCG-ATTT-AC
1 AATTCGCGTTGCGAATTTGACTTCTGCGTTGCGAATTTGAC
2466702 AAATTCGCGTTGCGAA
1 -AATTCGCGTTGCGAA
2466718 ACTGGAAACT
Statistics
Matches: 142, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
38 5 0.04
39 10 0.07
40 100 0.70
41 25 0.18
42 2 0.01
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.40
Consensus pattern (41 bp):
AATTCGCGTTGCGAATTTGACTTCTGCGTTGCGAATTTGAC
Found at i:2466737 original size:60 final size:60
Alignment explanation
Indices: 2466507--2466717 Score: 293
Period size: 60 Copynumber: 3.5 Consensus size: 60
2466497 AATTAAATTC
* * *
2466507 GTGTTGCGAATTT-GAAATTCCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCT
1 GTGTTGCG-ATTTACAAATT-CGCGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTCT
* * *
2466568 GTGTTGCGATTTACAAATTCGCGTTGCGCATTTGACTATCGCGTTGCGAATTTGACTTTT
1 GTGTTGCGATTTACAAATTCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTCT
* *
2466628 GTGTTGCGAATTT--GATTATCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTCT
1 GTGTTGCG-ATTTACAAAT-TCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTCT
2466688 GTGTTGCGATTTACAAATTCGCGTTGCGAA
1 GTGTTGCGATTTACAAATTCGCGTTGCGAA
2466718 ACTGGAAACT
Statistics
Matches: 132, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
59 6 0.05
60 107 0.81
61 19 0.14
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.40
Consensus pattern (60 bp):
GTGTTGCGATTTACAAATTCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTCT
Found at i:2473143 original size:75 final size:75
Alignment explanation
Indices: 2473020--2473178 Score: 309
Period size: 75 Copynumber: 2.1 Consensus size: 75
2473010 TCCTATTCCC
*
2473020 GCCATTCCTAGACCATCACAATCCAACTGCAGAAGCGAAGCAATCTCCAAAAGTGGATTGAAGTA
1 GCCATTCCTAGACCATCACAATCCAACTGCAGAAGCAAAGCAATCTCCAAAAGTGGATTGAAGTA
2473085 CACTTGATCT
66 CACTTGATCT
2473095 GCCATTCCTAGACCATCACAATCCAACTGCAGAAGCAAAGCAATCTCCAAAAGTGGATTGAAGTA
1 GCCATTCCTAGACCATCACAATCCAACTGCAGAAGCAAAGCAATCTCCAAAAGTGGATTGAAGTA
2473160 CACTTGATCT
66 CACTTGATCT
2473170 GCCATTCCT
1 GCCATTCCT
2473179 CCTATTCCCG
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 83 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (75 bp):
GCCATTCCTAGACCATCACAATCCAACTGCAGAAGCAAAGCAATCTCCAAAAGTGGATTGAAGTA
CACTTGATCT
Found at i:2473795 original size:24 final size:24
Alignment explanation
Indices: 2473768--2473814 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2473758 CAAAATCCGA
2473768 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
2473792 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
2473815 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:2473823 original size:24 final size:24
Alignment explanation
Indices: 2473772--2473823 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2473762 ATCCGAGTAT
** *
2473772 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
2473796 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
2473820 TGAC
1 TGAC
2473824 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:2474588 original size:14 final size:15
Alignment explanation
Indices: 2474552--2474589 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2474542 GAAATCATTG
2474552 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
2474567 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
2474582 AAAAATTA
1 AAAAATTA
2474590 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:2474948 original size:19 final size:19
Alignment explanation
Indices: 2474888--2474958 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
2474878 ACATATTCGC
* * *
2474888 GTTGCGAATTTGGAAACTGG
1 GTTGCGAATTT-GAGATTGT
*
2474908 GTTGCGAAATTG-GAGTTCGT
1 GTTGCGAATTTGAGA-TT-GT
2474928 GTTGCGAATTTGAGATTGT
1 GTTGCGAATTTGAGATTGT
*
2474947 GTTGTGAATTTG
1 GTTGCGAATTTG
2474959 TTGGTCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 1 0.02
19 15 0.36
20 24 0.57
21 2 0.05
ACGTcount: A:0.21, C:0.07, G:0.34, T:0.38
Consensus pattern (19 bp):
GTTGCGAATTTGAGATTGT
Found at i:2475260 original size:5 final size:5
Alignment explanation
Indices: 2475250--2475275 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2475240 GACAGGTTGA
2475250 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
2475276 GATAGGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2475873 original size:29 final size:28
Alignment explanation
Indices: 2475825--2475879 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
2475815 ATAATAAGTG
*
2475825 ATTATTATTTTTTGTTTTTTTATAATAT
1 ATTATTATTTTTTGTGTTTTTATAATAT
*
2475853 ATTATCTATTTTTT-TAGTTTTTTTAAT
1 ATTAT-TATTTTTTGT-GTTTTTATAAT
2475880 TTTAAATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (28 bp):
ATTATTATTTTTTGTGTTTTTATAATAT
Found at i:2475959 original size:23 final size:23
Alignment explanation
Indices: 2475901--2475959 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
2475891 TTTTATTTCA
*
2475901 TTGTGACATATTTTTCTCTATTC
1 TTGTGATATATTTTTCTCTATTC
*
2475924 TTGTGGTATATTTTTCTCTGATT-
1 TTGTGATATATTTTTCTCT-ATTC
*
2475947 TTGTGATACATTT
1 TTGTGATATATTT
2475960 CTTACGGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 28 0.90
24 3 0.10
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.58
Consensus pattern (23 bp):
TTGTGATATATTTTTCTCTATTC
Found at i:2476964 original size:20 final size:21
Alignment explanation
Indices: 2476939--2476990 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2476929 TTTTCCCAAT
*
2476939 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2476959 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2476980 TCGCAATGCGA
1 TCGCAATGCGA
2476991 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2477004 original size:20 final size:20
Alignment explanation
Indices: 2476979--2477113 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
2476969 AATTGGGAAA
2476979 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
2476999 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
2477019 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
2477040 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * * *
2477060 TTCGCAACGCGATTCTAACT
1 ATCGCAATGCGATACTGACT
* * *
2477080 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
2477100 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
2477114 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.04
20 66 0.69
21 24 0.25
22 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:2477023 original size:61 final size:61
Alignment explanation
Indices: 2476976--2477107 Score: 183
Period size: 61 Copynumber: 2.2 Consensus size: 61
2476966 GCGAATTGGG
* * * * *
2476976 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTAACTATCGCAACGCGATAATAC
* * *
2477037 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTAACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTAACTATCGCAACGCGATAATAC
*
2477098 ATAATCGCAA
1 AAAATCGCAA
2477108 TGCGATTTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTAACTATCGCAACGCGATAATAC
Found at i:2477309 original size:22 final size:22
Alignment explanation
Indices: 2477281--2477324 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2477271 CACTCTCTCA
2477281 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2477303 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2477325 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2477642 original size:20 final size:20
Alignment explanation
Indices: 2477588--2477646 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2477578 GCGATTCTCT
**
2477588 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
2477608 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
2477628 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
2477647 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:2477837 original size:25 final size:24
Alignment explanation
Indices: 2477783--2477837 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
2477773 TGTTTATTAT
* *
2477783 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
2477807 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
2477833 TGTTT
1 TGTTT
2477838 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:2478987 original size:18 final size:18
Alignment explanation
Indices: 2478966--2479028 Score: 99
Period size: 18 Copynumber: 3.5 Consensus size: 18
2478956 TCTACTTCGG
*
2478966 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
2478984 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
2479002 GAGCCATCACCTCACCTA
1 GAGCCATCACCTCACCCA
2479020 GAGCCATCA
1 GAGCCATCA
2479029 TCTGATCGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.27, C:0.44, G:0.14, T:0.14
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2479564 original size:19 final size:20
Alignment explanation
Indices: 2479510--2479565 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
2479500 TAGTTTACTT
* *
2479510 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
* *
2479530 TCGTAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
2479550 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
2479566 AAATCACAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:2479603 original size:19 final size:19
Alignment explanation
Indices: 2479549--2479645 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
2479539 GGAAATGGCT
2479549 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
2479568 ATCACAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
2479582 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2479601 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
2479615 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2479634 ATCGCAATGCGA
1 ATCGCAATGCGA
2479646 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.49
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2479617 original size:14 final size:14
Alignment explanation
Indices: 2479565--2479623 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
2479555 ATGCGAAATG
*
2479565 AAAATCACAACGAC
1 AAAATCGCAACGAC
*
2479579 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
2479598 AAAATCGCAACGAC
1 AAAATCGCAACGAC
2479612 AAAATCGCAACG
1 AAAATCGCAACG
2479624 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 21 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.27
ACGTcount: A:0.51, C:0.24, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2479637 original size:33 final size:33
Alignment explanation
Indices: 2479549--2479640 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
2479539 GGAAATGGCT
*
2479549 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2479582 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2479615 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
2479641 TGCGATTTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2479676 original size:14 final size:14
Alignment explanation
Indices: 2479657--2479746 Score: 81
Period size: 14 Copynumber: 5.8 Consensus size: 14
2479647 TTGTGTTTCG
2479657 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2479671 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2479687 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
2479703 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
2479720 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
2479736 CGTTGCGATTT
1 CGTTGCGATTT
2479747 GCATTTCGCA
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 26 0.41
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.10
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2479721 original size:33 final size:33
Alignment explanation
Indices: 2479652--2479763 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
2479642 GCGATTTGTG
*
2479652 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
2479684 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
2479717 TTTCGCATTGCGATTTTGTCGTTGCGATTTGCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
2479750 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
2479764 AGCCATTTCC
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 26 0.34
33 51 0.66
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:2479782 original size:20 final size:19
Alignment explanation
Indices: 2479748--2479803 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2479738 TTGCGATTTG
*
2479748 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2479767 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
2479787 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
2479804 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:2481699 original size:14 final size:14
Alignment explanation
Indices: 2481665--2481703 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2481655 TTGATTGTTT
2481665 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
2481679 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
2481693 TGTTGATTTGT
1 AATTGATTTGT
2481704 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:2481895 original size:19 final size:19
Alignment explanation
Indices: 2481840--2481888 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2481830 ATCGCAACGA
*
2481840 GAAAATCGCAATGCGAAAT
1 GAAAATTGCAATGCGAAAT
*
2481859 GAAAATTACAATGCGAAAT
1 GAAAATTGCAATGCGAAAT
2481878 GAAAATTGCAA
1 GAAAATTGCAA
2481889 CGAGAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.18
Consensus pattern (19 bp):
GAAAATTGCAATGCGAAAT
Found at i:2481951 original size:20 final size:20
Alignment explanation
Indices: 2481926--2482021 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
2481916 TCGCATTGCG
*
2481926 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* ***
2481946 ATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGA-TAGCC
*
2481967 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* *
2481986 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGAGTTGCGATAGCC
* *
2482006 ATTTTTGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
2482022 TTCCCCATTG
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 3 0.05
20 54 0.90
21 3 0.05
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.43
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:2481959 original size:34 final size:36
Alignment explanation
Indices: 2481914--2482001 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 36
2481904 GCGATTTTCA
* *
2481914 TTTCGCATTGCGATTTTC-T-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
2481948 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGCCAT
2481988 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
2482002 AGTCATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
34 12 0.26
35 5 0.11
38 1 0.02
39 1 0.02
40 27 0.59
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
Found at i:2482021 original size:40 final size:40
Alignment explanation
Indices: 2481928--2482009 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
2481918 GCATTGCGAT
* **
2481928 TTTCTAGTTGCGATAGCCATTTTCGCGTTGCGATTTTTCA
1 TTTCGAGTTGCGATAGCCATTTTCGCGTTGCGATTAGTCA
*
2481968 TTTCGAATTGCGATAGCCATTTTCGCGTTGCGA-TAGTCA
1 TTTCGAGTTGCGATAGCCATTTTCGCGTTGCGATTAGTCA
2482007 TTT
1 TTT
2482010 TTGCGTTGCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
39 7 0.18
40 31 0.82
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.43
Consensus pattern (40 bp):
TTTCGAGTTGCGATAGCCATTTTCGCGTTGCGATTAGTCA
Found at i:2482580 original size:12 final size:12
Alignment explanation
Indices: 2482561--2482594 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2482551 TCTCCCGGCG
2482561 ACATCCGTTCCT
1 ACATCCGTTCCT
*
2482573 ATATCCGTTCCT
1 ACATCCGTTCCT
2482585 ACATCC-TTCC
1 ACATCCGTTCC
2482595 CCATCTGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:2483176 original size:24 final size:24
Alignment explanation
Indices: 2483149--2483202 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2483139 GTATTCGAAA
*
2483149 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
2483173 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
2483197 TTTGAT
1 TTTGAT
2483203 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:2485728 original size:19 final size:19
Alignment explanation
Indices: 2485696--2485794 Score: 74
Period size: 19 Copynumber: 5.7 Consensus size: 19
2485686 GCAATGAGAG
*
2485696 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2485715 AATCGCAACGCG-AAT---
1 AATCGCAATGCGAAATGAA
*
2485730 -TTCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
**
2485748 AATCGCAA--CG--A-GGG
1 AATCGCAATGCGAAATGAA
2485762 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2485781 AATCGCAACGCGAA
1 AATCGCAATGCGAA
2485795 TTTAATTTCG
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
14 18 0.30
15 4 0.07
16 2 0.03
17 2 0.03
18 4 0.07
19 30 0.50
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2485735 original size:33 final size:33
Alignment explanation
Indices: 2485698--2485797 Score: 150
Period size: 33 Copynumber: 3.0 Consensus size: 33
2485688 AATGAGAGAA
*
2485698 TCGCAATACGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
2485731 TCGCAATGCGAAATGAAAATCGCAACGAGGGAA--
1 TCGCAATGCGAAATGAAAATCGCAAC--GCGAATT
2485764 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
2485797 T
1 T
2485798 AATTTCGCGT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
31 4 0.07
33 52 0.87
35 4 0.07
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:2485822 original size:14 final size:14
Alignment explanation
Indices: 2485805--2485857 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
2485795 TTTAATTTCG
2485805 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2485819 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2485838 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2485852 CGTTGC
1 CGTTGC
2485858 AATCTTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
16 3 0.09
17 3 0.09
19 10 0.31
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2485841 original size:33 final size:33
Alignment explanation
Indices: 2485790--2485879 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
2485780 AAATCGCAAC
* *
2485790 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
2485823 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
* * *
2485856 GCAATCTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
2485880 AGTACTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.42
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:2486001 original size:14 final size:14
Alignment explanation
Indices: 2485982--2486018 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2485972 CATCAATTAA
2485982 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2485996 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2486010 ACAAATCAA
1 ACAAATCAA
2486019 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2487815 original size:91 final size:92
Alignment explanation
Indices: 2487634--2487818 Score: 279
Period size: 91 Copynumber: 2.0 Consensus size: 92
2487624 ATTTCAAACT
* *
2487634 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGT
1 TTCAACCAAAAGACAAAACAAAGAAAAATACTAACTTCACAGTGTTAAAGAATA-ACAGTTTAGC
2487699 AGAATTGGCAGCAACCGAATAAATTTAC
65 AGAATTGGCAGCAACCGAATAAATTTAC
2487727 TTCAACCAAAAGACAAAACAAAAAGAAAAATACTAACTTCACAGTGTTAATA-AAT-A-A-TTTA
1 TTCAACCAAAAGACAAAAC--AAAGAAAAATACTAACTTCACAGTGTTAA-AGAATAACAGTTTA
*
2487788 GCAGTATTGGCAGCAACCGAATAAATTTAC
63 GCAGAATTGGCAGCAACCGAATAAATTTAC
2487818 T
1 T
2487819 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
91 33 0.38
92 1 0.01
93 20 0.23
95 31 0.36
96 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (92 bp):
TTCAACCAAAAGACAAAACAAAGAAAAATACTAACTTCACAGTGTTAAAGAATAACAGTTTAGCA
GAATTGGCAGCAACCGAATAAATTTAC
Found at i:2489636 original size:19 final size:19
Alignment explanation
Indices: 2489505--2489628 Score: 132
Period size: 19 Copynumber: 6.7 Consensus size: 19
2489495 TCTTTTGGTT
* *
2489505 GAAATGAAAAACGCAACGA
1 GAAATGAAAATCGCAACGC
*
2489524 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
2489544 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
2489564 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2489583 GAAATGAAAATCACAA--C
1 GAAATGAAAATCGCAACGC
*
2489600 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2489616 GAAATGAAAATCG
1 GAAATGAAAATCG
2489629 TAATGCGATT
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
14 9 0.10
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 41 0.47
20 29 0.33
21 2 0.02
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2490254 original size:20 final size:20
Alignment explanation
Indices: 2490231--2490508 Score: 149
Period size: 20 Copynumber: 13.7 Consensus size: 20
2490221 CGATAGTAAG
*
2490231 ATTCGTATTGCGATTTACGT-
1 ATTCGCATTGCGATTTAC-TA
* *
2490251 ATTCGCATTGCAATTTTCCTA
1 ATTCGCATTGCGA-TTTACTA
2490272 ATTCGCATTGCGATTTACTA
1 ATTCGCATTGCGATTTACTA
*
2490292 ATTCGCGTTGCGATTTACTA
1 ATTCGCATTGCGATTTACTA
*
2490312 ATTCGCGTTGCGATTTACGT-
1 ATTCGCATTGCGATTTAC-TA
*
2490332 ATTCGCATTGCGAATTA-TGAA
1 ATTCGCATTGCGATTTACT--A
* ** *
2490353 AATCGCAACGCGA-ATACGTA
1 ATTCGCATTGCGATTTAC-TA
* * * **
2490373 AATCGCAATGCGAATTAGGAA
1 ATTCGCATTGCGATTTA-CTA
* *
2490394 AATCGCATTGCGA--TAGTCA
1 ATTCGCATTGCGATTTACT-A
* * * *
2490413 GTATCCCATTGCGATTTTCCAA
1 AT-TCGCATTGCGA-TTTACTA
*
2490435 ATTCGCATTGCGA--TAGTCA
1 ATTCGCATTGCGATTTACT-A
* * *
2490454 GTATCGCATTGCGATTTTCCAA
1 AT-TCGCATTGCGA-TTTACTA
*
2490476 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACTA
2490496 ATTCGCATTGCGA
1 ATTCGCATTGCGA
2490509 ATTGGGAAAA
Statistics
Matches: 201, Mismatches: 37, Indels: 40
0.72 0.13 0.14
Matches are distributed among these distances:
18 3 0.01
19 5 0.02
20 123 0.61
21 63 0.31
22 5 0.02
23 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTA
Found at i:2490282 original size:41 final size:41
Alignment explanation
Indices: 2490231--2490511 Score: 193
Period size: 41 Copynumber: 6.9 Consensus size: 41
2490221 CGATAGTAAG
* *
2490231 ATTCGTATTGCGATTTACGTATTCGCATTGCAATTTTCCTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCAATTTTCCAA
* * * *
2490272 ATTCGCATTGCGATTTAC-TAATTCGCGTTGCGA-TTTACTA
1 ATTCGCATTGCGATTTACGT-ATTCGCATTGCAATTTTCCAA
* * *
2490312 ATTCGCGTTGCGATTTACGTATTCGCATTGCGAATTAT-GAA
1 ATTCGCATTGCGATTTACGTATTCGCATTGC-AATTTTCCAA
* ** * * * ***
2490353 AATCGCAACGCGA-ATACGTAAATCGCAATGCGAA-TTAGGAA
1 ATTCGCATTGCGATTTACGT-ATTCGCATTGC-AATTTTCCAA
* * * *
2490394 AATCGCATTGCGATAGT-CAGTA-TCCCATTGCGATTTTCCAA
1 ATTCGCATTGCGAT-TTAC-GTATTCGCATTGCAATTTTCCAA
* *
2490435 ATTCGCATTGCGATAGT-CAGTA-TCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGAT-TTAC-GTATTCGCATTGCAATTTTCCAA
*
2490476 ATTCGCATTGCGATTTACTTATTCGCATTGCGAATT
1 ATTCGCATTGCGATTTACGTATTCGCATTGC-AATT
2490512 GGGAAAATCG
Statistics
Matches: 194, Mismatches: 33, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
40 44 0.23
41 140 0.72
42 7 0.04
43 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCAATTTTCCAA
Found at i:2490405 original size:21 final size:21
Alignment explanation
Indices: 2490334--2490406 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
2490324 ATTTACGTAT
* *
2490334 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
2490355 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
2490375 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
*
2490396 TCGCATTGCGA
1 TCGCAATGCGA
2490407 TAGTCAGTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:2490550 original size:21 final size:22
Alignment explanation
Indices: 2490498--2490550 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
2490488 ATTTACTTAT
2490498 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
2490519 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
2490540 TCGCATTGCGA
1 TCGCATTGCGA
2490551 TAGTCATAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:2491408 original size:13 final size:12
Alignment explanation
Indices: 2491384--2491429 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
2491374 AAAGGTTTAG
2491384 ATAAAGAATAAAA
1 ATAAA-AATAAAA
*
2491397 CGTAAAAATAAAA
1 -ATAAAAATAAAA
2491410 ATAAAAAATAAAA
1 AT-AAAAATAAAA
2491423 ATAAAAA
1 ATAAAAA
2491430 ATAGTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 6 0.21
13 19 0.66
14 4 0.14
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:2491410 original size:6 final size:6
Alignment explanation
Indices: 2491384--2491429 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
2491374 AAAGGTTTAG
*
2491384 ATAAAGA ATAAAA CGTAAAA ATAAAA ATAAAAA ATAAAA ATAAAA A
1 ATAAA-A ATAAAA -ATAAAA ATAAAA AT-AAAA ATAAAA ATAAAA A
2491430 ATAGTAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 19 0.54
7 16 0.46
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
ATAAAA
Done.