Contig Sequence

Contig name: BC000021345 (Nimblegen Contig name: CONTIG88858)

Contains SNP BS00050522 at position 1034 (ambiguity code highlighted in red in the sequence below).

ACAACAGGAGGACAAAGGTGTTCCAGGACGGCGCGTTCCGGCACACCAAGTGGACCAGGCTCCGGGTCGGCGACGTCGTCAAGGTGGAGAAGGACGAGTTCTTCCCCGCCGACCTCGTCCTCCTCTCCTCCAGCTACGACGACGCCATCTGCTACGTCGAGACCATGAACCTCGACGGCGAGACCAACCTAAAGCTCAAGCAGTCCCTCGACGTCACCTCGCGCCTGCAGGACGACCACAGCTTCGCCGGCTTTGGCGCCGTGATACGGTGCGAGGACCCCAATGCAAACCTCTACTCGTTTGTGGGGAACATAGAGATCGAGGNNNNNNNNNNNNNNNNNTACCCTCTGTCGCCGCAGCAGCTCCTGCTCAGGGACTCCAAGCTCCGCAACACCGAGTACGTGTACGGCGTGGTGGTTTTCACCGGCCACGACACCAAGGTGATGCAGAATGCCACCAGCGCTCCCTCCAAGAGGAGCAAGATTGAGAAGAAGATGGATGGGGCCATTTACGTCCTCATGTCCATCCTCGTCCTCATTTCGGTCATCGGCTCGGTCGTCTTCGGCCTTGCGACCAAGCATGATCTGGTGGATGGCAGGATGAAGAGGTGGTACCTCAGGCCGGATAACCCTGACAACATCTACGATCCCAACAACCCGGCCGTGTCGGCCGCGCTGCATTTCTTCACCGCCATGATCCTCTACGGCTACTTCATCCCCATCTCCCTCTACGTCTCCATCGAGCTCGTCAAGCTGCTGCAGGCTCTCTTCATCAACAGCGACATCCATATGTACCATGAGGAGAGCGACACGCCGGCTCATGCCAGGACCTCCAACCTGAACGAGGAGCTGGGCCAGGTCTACACCATTCTCACCGATAAGACCGGGACTCTGACCTGCAACTCCATGGAGTTCATCAAATGTTCCATCGCGGGCACGGCGTACGGGCGTGGAATCACCGAGGTCGAGAGAGCTATGGCAAAGAGAAACGGTTCCCCCGTGATCTCTGACTTTGAGCTCGGCGTCGAAGACTT[Y]CATCAGTCCGAGGGCAGATCTGCGGTCAAAGGGTTTAACTTCAGAGATGAGCGTGTCATGGATGGTAACTGGGTTCACCAAGCCCACTCCGGTGTGATCGAGATGTTCTTCCGGCTGCTGGCCATCTGCCACACATGCATACCGGAGGTCGACGAAGTAACAGGGAAGATCTCGTACGAAGCAGAGTCTCCCGATGAGGCTGCCTTTGTTGTCGCGGCACATGAACTTGGTTTCACTTTTTACCAAAGGACGCAGGCGGGTGTTTATCTGCATGAGTTGGATCCCTCGTCTGGAGAACAAGTCGACAGGTTTTATAAGGTCTTGCATGTCCTTGAGTTCAGCAGTGCTCGGCGGCGGATGTCGGTAATAGTCAGGGACGAGGAGGGGAAAACATTTATCTTCAGTAAAGGTGCCGACAGTATAATGTACGAGAGGCTATCAACCTCTGAGAGTACGTATGCTGAAGCGACGCAAAAGCACATAAATGATTACGCTGATGCTGGCCTCAGAACACTAGTTCTTGCATACCGTCACTCGAGGAGATCGAGTACGCAAATTCGAAAGGAAGTTCACTGCAGCTAAAAATTCTGTCAGCTGATCGAGATGAGCTGATCGACGAGGCTGCAGATTTGATAGAGAAGGATTTGATTCTTCTTGGCGCCACCGCGTTGAGGACAGCTTCAAAGGGGGTACCTGATGCATTAAAAACTGCTAAGGCGGGATTCAAATTGGGTCCCCCGGCCGCAGATGAAACCCCATAACTCGGTTTG

Note: The ambiguity code Y, highlighted in red, translates to C 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 75 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 Map Location SxO cM
BS00050567 58
BS00050577 75
BS00050583 86
BS00050537 173
BS00050538 176
BS00050539 191
BS00050540 237
BS00050541 239
BS00050542 242
BS00050543 246
BS00050544 247
BS00050545 248
BS00050546 254
BS00050547 263
BS00050548 267
BS00050549 281
BS00050550 293
BS00050551 401
BS00050552 428
BS00050553 431
BS00050554 461
BS00050555 467
BS00050556 479
BS00050557 503
BS00050558 509
BS00050559 518
BS00050560 524
BS00050561 526
BS00050562 527
BS00050563 551
BS00050564 554
BS00050565 563
BS00050566 569
BS00050568 585
BS00050569 593
BS00050570 605
BS00050571 623
BS00050572 632
BS00050573 689
BS00050574 701
BS00050575 716
BS00050576 719
BS00050578 797
BS00050579 818
BS00050580 830
BS00050581 837
BS00050582 851
BS00050584 863
BS00050585 866
BS00050586 869
BS00050587 875
BS00050588 896
BS00050589 923
BS00050590 926
BS00050591 941
BS00050592 965
BS00050593 970
BS00050594 974
BS00050520 1004
BS00050521 1010
BS00050522 1034 1B 21.93
BS00050523 1049
BS00050524 1059
BS00050525 1067
BS00050526 1115
BS00050527 1116
BS00050528 1117
BS00050529 1118
BS00050530 1124
BS00050531 1149
BS00050532 1184
BS00050533 1208
BS00050534 1292
BS00050535 1322
BS00050536 1337



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.