Contig Sequence

Contig name: BC000005677 (Nimblegen Contig name: CONTIG46584)

Contains SNP BS00011591 at position 141 (ambiguity code highlighted in red in the sequence below).


Note: The ambiguity code R, highlighted in red, translates to A or G).

The highlighted SNP has not been mapped. Any other SNPs on the same contig are reported in the table below.

All SNPs on contig

There are 17 putative SNPs on this contig. If mapping information obtained from varietal crosses is available, it is shown in the table. When the SNP has NOT been mapped, the corresponding fields in the table are left blank and, if available, a putaive location for the contig, based on our extensive NGS of various wheat lines, is given below the table.

SNPs id Position Map Location AxC cM Map Location SxR cM
BS00020253 18
BS00011591 141 6A 29.86
BS00011046 370
BS00022697 393
BS00011420 431
BS00011175 490
BS00010928 495
BS00010183 557
BS00009704 620
BS00010433 708
BS00010313 722
BS00011245 758
BS00015856 764
BS00009275 794
BS00010725 797
BS00012550 802
BS00011611 847

BLAST information

To BLAST the above sequence against our SNP database click on the 'Query' button below. You may select an e-value cut-off for this search.

e-value cutoff 

Alternatively, if you wish to perform a BLASTN search with this sequence, please use the drop-down fields below to select the parameters (database and e-value cutoff value) you wish to use and then click the grey 'BLAST' button.   At present your search can only be performed against Brachypodium distachyon, rice ( Oryza sativa ) or rye ( Secale cereale ) libraries.   However, this site is actively being worked on and we hope to be able to add additional libraries.

BLAST input parameters Database: 

e-value cutoff: 

Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon