Contig Sequence

Contig name: BC000033193 (Nimblegen Contig name: CONTIG43128)

Contains SNP BS00089856 at position 1663 (ambiguity code highlighted in red in the sequence below).

GCCATGAAGTCGGAGAAGAAGCGGCAGAAGGAGCACGAGGAGAACGTGCAGAAGGTCGTGAAGCGGCTCAAGCAGCGCAACCCCAAGAAGGACGGCCTCGTCTGCACGGCCAGGAAGCCCTGGATCGCCGTCGGCATGCGCAACGTCGACTACAAGCGTGCCAGGCACTTCGAGGTCGACCTCTCTGCCTTCAGGAACATCCTTGAGATCGACCCCGAGAGGATGGTTGCCAAGGTGGAGCCGCTCGTCAACATGGGCCAGATATCCAGGGCCACCTGCCCGATGAACCTCTCCCTCGCCGTGGTGGCGGAGCTCGACGACCTCACCGTCGGCGGCCTCATCAACGGCTACGGCATCGAGGGGAGCTCTCACATCTACGGGCTCTTCTCCGACACGGTGGTGGCGCTGGAGATCGTCCTGGCTGACGGCCGGGTCGTCCGGGCCACCAAGGACAACGAGTACTCCGACCTCTTCTACGGCGTGCCCTGGTCGCAGGGCACTCTCGGGTTCCTTGTTTCAGCCGAGATCAAGCTCATCCCCATCAAGGAGTACATGAGGCTGACCTACACCCCGGTGAAGGGCCCCCTGAAGGAGGTGGCGCAGGCATACGCCGACGCCGTCGCGCCGAGGGACGGCGACCCCGCAAAGGTCCCCGACTTCGTGGAAGGGATGGTGTACAGCGCGACGGAGGGCGTGATGATGACCGGCGTGTACGCGTCCAAGGAGGAGGCCAAGAAGAAGGGCAACAAGATCAACAGCGTGGGGTGGTGGTTCAAGCCATGGTTCTACCAGCACGCGCAGACGGCGCTCAAGAAGGGCGAGTTCGTGGAGTACATCCCGACGAGGGAGTACTACCACAGGCACACCCGGTGCCTGTACTGGGAGGGGAAGCTCATCCTGCCCTTCGGCGACCAGTTCTGGTTCAGGTTCCTCTTCGGCTGGCTGATGCCCCCCAAGGTGTCCCTGCTCAAGGCCACCCAGGGCGACGCCATCAGGAACTACTACCATGACAACCATGTCATCCAGGACATGCTCGTGCCGCTGTACAAGGTTGGAGACGCCCTCGAGTTCGTCCACCACGAGATGGAGGTGTACCCGCTGTGGCTGTGCCCGCACCGGCTGTTCAAGCTGCCGGTGAAGACGATGATCTACCCGGAGCCTGGGTTCGAGCACCACCAGCGGCAGGGGGACACGAGCTACGCGCAGATGTTCACGGACGTGGGGGTGTACTACACGCCGGCGTGCATCTTCAGGGGGGAGGAGTTCGACGGGGCGGAGTCGGTGAAGCGGCTGGAGCAGTGGCTGATCGAGAACCACAGCTACCAGCCGCAGTACGCGGTGACGGAGCTGAACGAGAAGGACTTCTGGCGCATGTTCGACGCGTCGCACTACGAGCACTGCCGGCAGAAATACGGCGCCGTGGGCACCTTCATGAGCGTCTACTACAAGTCCAAGAAGGGGCGCAAGTCGGAGAAGGAGGTGCAGGAGGCCGAGGCCGCCATCCTCGAGCCCGCCTACGCCGACGAGGCCTAGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAACTCTGGATTAATTGGTTCCCTTTTGCTTGGTTGCTTAATTATTAATAAGTAGAACTTGATCGA[K]CGTGTAGCGTTGATTGGTAGCAGCCTGCGGCCTGTAGCAGCATGAGTCATTGTTGTCGCCCGTGAGTACTTGATTCAACCGCCCCTTTATGTTGATGGGATTAATTGCTTAGAACTTAAAATGAGGCAGATGCGTATGTGGGAATAATATTGCGA

Note: The ambiguity code K, highlighted in red, translates to G 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 24 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
BS00089860 42
BS00089851 60
BS00089857 249
BS00089858 348
BS00089849 378
BS00089859 378
BS00089861 423
BS00089862 456
BS00089863 561
BS00089850 597
BS00089864 597
BS00089865 633
BS00089866 934
BS00089867 936
BS00089868 951
BS00089869 984
BS00089852 984
BS00089853 987
BS00089854 1035
BS00089846 1044
BS00089847 1062
BS00089848 1065
BS00089855 1279
BS00089856 1663

This contig has been mapped provisionally to chromosome 7BL.




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: 








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