Contig Sequence

Contig name: BC000018921 (Nimblegen Contig name: CONTIG69377)

Contains SNP BS00043037 at position 276 (ambiguity code highlighted in red in the sequence below).

GGTTAGCTTCATCGGCCTTGGCGGCGACGGTGACGGCGACGGCGGGGAATTGGGATTCATGGCGTGCGTAGGGGAGGAGGAGTTGAGTTGGGAGGACCTCTTCTTTAACAAGGCGGCGATGCTGGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACGCCTAGCGCACCAGCAGGTCAAGGCATCCATCCTGGAGCACGACCCCAAGACGAAGCGCA[W]GGTCTACACCCGCTACTCCTTCAACGACTTCTCGGTCTTCGACATCAACGCCGAGTCGCCTATCCCTCCAATGCGATACACCAAGAGGTGTGTAAATGGTTTGGAACTCCAAGACACTGCAAACATACTTACTGTCAAGATAGTCTCCTCGGATAAAGGCTTCCCAATCGATGTGTATGGCACTATCATCGCTAGAGACAGCATTGACCACAAGTGCATGTACCTCTTTAACCGCACCAGGGACAATTGCCAACCTATCAAGTCAAGGGATGAAAATTTGATCTTAACTGGCCCAGGTCGAGGTCTGGTATTACTTGATTTCATATATCTGGAGATAGATCTTAAAATCAAGGTTGGCGAGGAGCCTCTAGGCGAGCAAATCAGCAAGGGTTTGCTTATGATTGATGGACGAGTTCTGCCTAGAGACGAAAAGGTTGCTGTTGCACATCAAACTCTTGAGAGCTGGTTTAGTATTGTGGACGTGAGGTATGCAACTCTTCTTAATGCTGTTGAGGGTACGTTCGAGATCAAGTTACTTGAGGGACGATTCTGTGGAAAGATCATGGCTGGCATCGAGGGCATTCAACCTAGGATTGTGATTTATAATAGCAAGGAAGACGGTGTGGTGTCTTGTGAAGGACGTACAGATATCACACTCCGGCGGCGAGTCATGACCCTCCGTCTGAATGGTATGCTCACAGTTGGCTTTGCAGTCTGTGGTGGTGGTGGTGCTGCTACTAGAAAACAGAAAGTTGAATTCACACCACAGCACCGTGGTGAAGAGAAAAAGGAGAT

Note: The ambiguity code W, highlighted in red, translates to A or T).

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 20 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 in a particular cross, the corresponding fields in the table are left blank.

SNPs id Position Map Location AxC cM Map Location SxR cM Map Location SxO cM
BS00043036 244
BS00043037 276 1A 15.22
BS00043038 387
BS00043039 702
BS00043040 711
BS00043041 713
BS00043042 750
BS00043043 823
BS00043044 835
BS00043045 840
BS00043046 850
BS00043047 895
BS00043048 916
BS00043049 943
BS00043050 962
BS00043051 977
BS00043052 992
BS00043053 998
BS00043054 999
BS00043035 1046



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 


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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.


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