Contig Sequence

Contig name: BC000035424 (Nimblegen Contig name: CONTIG76535)

Contains SNP BS00099158 at position 941 (ambiguity code highlighted in red in the sequence below).

GCCCAGATGATGGGGAAATCGATGGCATTCTTGCTGATGTGCCACACTATGAGCATTTAGAGTTCCTCGACTGCTGCAATGGTTTAGTCCTTTGTAAGTATAGGAGCAGCTATACTTCTACAAACGTTTGCCGCTTCGTTGTGTGCAACCCAGCAACACGAGAGTGGAGGATACTTCCTGATACACATCCTGGGACAGATGACCCTCGTTATGTAACTATTTTGGCGTTTGATCCATCATGGTCACCGCAGTTCTACATCTTCAATTTTCATCTGAAACATGTCCATGGTTTGATACTTGGTACCAGCAAACTTGAGATATTCCGGTCTGAAAGTTACCACGTGGCTTGAGGATGATACCTTGGACCGAGATATAAGTATTTCTGGGCGAACACACTTATTTGTTAATGGAATGTTGTATGTGACTGTTGGATATGAAGTTTTGATGTTCGAAGGCCTGGAGGCAATGAATGATGGCATACCGCCCTATCATCAGATCATAAGTTTGCCGCCTGAAGCTTCAGACCTGAGCACTTTTACCAATGGTTGCTTTGGCAAATCTTCAGGGATCTTACACTATGCAATGCCGCATGTGAATGGTCGCTCGATTGTTGTTTGGACATTGGATGATTTTGGCTCATCATTTATGGACTTGGACTGAGATGTGTCATCTTAGCATGACGGATGCGTTTGGAAAGGATGAGTTTGTTCACTACGACGATGGTGGCGATGGTGGTGAGGATAAATGGTTTTGGAACTGCGATTATCGGATTGTCGACCTCGACTTGGAGAGAGGGCTTGTTTTCCTCCATGACCAGAAGGCAAATAAGCTTCTTTCATACAATATCAGTGGGGGGAAACTCAACGAGATACAAGACGCCTTTGGGTGGGATCGATACTATGTCTATGTACCATGCTACTCAGAGCTTCCAGCGCAAGAA[M]CTTCGGTTCAGTGAATGTCAAATTCTATTCAATGCGCATCTGTGGATGTTCTGCTGCGATATGCTGAACCACCTTGTATATCACGCTAGCTAGTCGGAGTCATCCGTGTGACCAGTCCAGGAACCCTGCCATTTTTACTTTGTCGATGCAGAGTTACGTTCCTGTACTAACCTAAAACTCTTCACCATGTTCCTAGTTAAATACCTTGTTTAAGTTTGCTATATATCTTTTATGTAAAATGGAGACCTGTTCGTTGGGCCTGTTTGGGGTNNNNNNNTTTAACCATAATTCTTTATTTGGTGAGAAAA

Note: The ambiguity code M, highlighted in red, translates to A or C).

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 28 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
BS00099137 126
BS00099138 134
BS00099139 186
BS00099140 194
BS00099141 207
BS00099142 209
BS00099143 237
BS00099144 240
BS00099145 271
BS00099146 433
BS00099147 495
BS00099148 528
BS00099149 688
BS00099150 715
BS00099151 774
BS00099152 785
BS00099153 796
BS00099154 797
BS00099155 851
BS00099156 907
BS00099157 934
BS00099158 941
BS00099159 946
BS00099160 959
BS00099161 963
BS00099162 968
BS00099163 976
BS00099164 987

This contig has been mapped provisionally to chromosome 1AS.



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

Maintained by Mark Winfield.