Contig Sequence

Contig name: BC000034413 (Nimblegen Contig name: CONTIG62205)

Contains SNP BS00094480 at position 344 (ambiguity code highlighted in red in the sequence below).

GTAAAACAATACAAAACATATATATGCATTGGTAGTATATATGCTGAGGATAAATATGTCCATAATTGCCATTTCCACGACAAAATGCAAAATAGAAGTACATGGTAGTATCGTCCCAATATCTGCCCAGTTCTTACACATTAGGAGAGATGATGGTGATTCTAAATATTTTCACCATATCTAAGTACATGGTTTACTATTTTTTGAGACCACATAATCTCATCGACACGAGAAGAATCAAGCAGGATGGTAGTTCAGCCAGAATTCTTTCTACTGACCCCGATCCCGGCCGTCTTGGTACCATTCGGCATCGGATGCGGATGATCAAATCAGTTCTCAGTCC[R]GAAGTCAAAAGACCGTTAGCTTAGGAGCTTCACTCGCCATACTTTTCTTATGTACAAAAATATGGGCCTTGGTGATTATCAGTGATCCTGTGATCGTCTAGAACTCAATCTCTGGATGATCCGCTGCTTGTAGCTGACCATCGAAATTCGGTGCCGAACCCGCATTCTCCTGGCTTTGCTCGTGGTCCATATGCAGCCCATTTTGGGCACCCGCCTCCCAGAAATCTTGCTGCTGTTTTTGAAAAGGGTACTGCGGGGCGGGCGGTAGAGCCATGTCTAACAGACCCATGGAGCATTGGTTCTCCATAGCACCCGAACTGAAGGACTGGTAAAGGTCTGCTTGGTCACACAATGGGTACACTGTGCCAGCACTCTCCAATGGGAAGACCGTGCTCGCCGAGGGGCCAAGTGCTTGGTTCATATCTTTGTGTAGGAGGTTAGACAAGGTGTCGAAGTCAAGTTGCGGGTTCACGGTGGAGAGCTTCATGGACAAGAACTCGACTTGCTGCTGCAGCGATTGAACATAGTTTATGATCTCATCGAGCATGAGCGCTTTA

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

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 10 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
BS00094472 200
BS00094473 205
BS00094474 213
BS00094475 266
BS00094476 274
BS00094477 276
BS00094478 277
BS00094479 282
BS00094480 344
BS00094481 370

This contig has been mapped provisionally to chromosome 5BL.




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