Contig Sequence

Contig name: BC000019677 (Nimblegen Contig name: CONTIG75031)

Contains SNP BS00045546 at position 852 (ambiguity code highlighted in red in the sequence below).

TGCAACACAGACTATGAGATTATCTTCATATAGAACTGAACCAGTGAAAAATGTTTTTATGTTCTTTTCCATAAGGCTAACTTGATAGATGACACTGAGTTGCTGGATTATACTTGTCCGTGACTAGATGGCAAATCTTGTGAAGAACCTCACCAATACCGGTCGAAAGCCAGTGGCGGTTGCCGACCACATCTTTGCCACGCTGGACGGGATCATCGGCTCTTTCGCCTTTGGCGAAAACTACGGGGCGGAGCAGTTCAAGGGGCAGTTTGTCCCTGTGCTGAACGAGACCATGGACATGCTGAGCGGCTTCTCTACCGAGGACTTCTTTCCCAACAGCGTCGGTCGCCTCATCGACAAAGTTACGGGCATTAAGTCCCGTCGAGAGAGGATCTTCAAGAAGATTGATGCCTTCTTTGAACAAGTCATCGACAAGTGCGTCGGCGACAATCCCAGTCGCAGAAGGCAGCCCGGTGACGAGTGCGCATCTGTACTCGTGCAAGAGCTCGTGGACCTTTGGAAAAATCCTGCAGGAGCCACCAACAGCTTCACAAGGGAACATGCCAAGGCCATCCTCATGAACACTTTCGTCGGTGGCAATCACACTAGCTCGTGACAATAAACTGGGCAATGGCGGAGCTAATTCGGCAGCCAAGGATGCTCGGTAAGGTACAAGACGAAATCAGGGCCATCGGAGGCAAGACAGAGCTCCTGCAGCACGACGACATGCCCAAGCTCAAATACCTGAAGATGGTGGTGAAGGAGACGCTGCGGCTGCATCCCCCGGCAACGTTGCTCGTCCCGAGGGAGACCACGGGGCGGATTCGGGTCGCAGGATATGACATCCCAGC[M]AAGACAAAGATCATCGTGAATGCATGGGCTATCGGTCGGGATCCCAGCGTGTGGAATGATGATCCAAAGGAATTTCGCCCGGAAAGGTTTCAGGACAAGGATGTTGACTTCAATGGGGCACATTTCGAGCTTTTGCCGTTTGGCTCAGGACGACGGATCTGCCCTGGATTGGCCATGGGCGTGGCCAATGTCGAGTTCATCTTGGCCAACTTGCTCTACTGCTTCAACTGGGAGCTCCCTGATGGGGTGAGCTGTGAGGATATCAACATGGAGGAGGCAGGGGCACTGACTTTCCGAAAGAAGACGCCACTCATGCTGGTACCGACAAGGTACAGTATGTGTCCTTGATTGAAATT

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 21 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
BS00045536 157
BS00045537 178
BS00045538 277
BS00045539 331
BS00045540 444
BS00045541 678
BS00045542 789
BS00045543 816
BS00045544 827
BS00045545 840
BS00045546 852
BS00045547 873
BS00045548 894
BS00045549 902
BS00045550 903
BS00045551 918
BS00045552 919
BS00045553 972
BS00045533 1041
BS00045534 1063
BS00045535 1092

This contig has been mapped provisionally to chromosome 4AL.



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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