miRNA display CGI


Results 1 - 7 of 7 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
27395 3' -55.6 NC_005859.1 + 17514 0.67 0.805008
Target:  5'- uGCCCguugaaaACACCGCCAGUAUcUA-GGUa -3'
miRNA:   3'- gUGGG-------UGUGGCGGUCGUAaAUgCCGc -5'
27395 3' -55.6 NC_005859.1 + 64385 0.67 0.805008
Target:  5'- aGCCCACGCCGaCCuucgcgcAGCAUUcucugaUGCuGGCu -3'
miRNA:   3'- gUGGGUGUGGC-GG-------UCGUAA------AUG-CCGc -5'
27395 3' -55.6 NC_005859.1 + 7335 0.68 0.7968
Target:  5'- uGCCCGCuuCCaGUuuugCAGCAUUUacaACGGCGg -3'
miRNA:   3'- gUGGGUGu-GG-CG----GUCGUAAA---UGCCGC- -5'
27395 3' -55.6 NC_005859.1 + 118755 0.68 0.7968
Target:  5'- uGCCCGCuuCCaGUuuugCAGCAUUUacaACGGCGg -3'
miRNA:   3'- gUGGGUGu-GG-CG----GUCGUAAA---UGCCGC- -5'
27395 3' -55.6 NC_005859.1 + 94218 0.73 0.493445
Target:  5'- cCACCaAUACCGCCAGCAguaAgGGCa -3'
miRNA:   3'- -GUGGgUGUGGCGGUCGUaaaUgCCGc -5'
27395 3' -55.6 NC_005859.1 + 1996 1.03 0.006097
Target:  5'- aCACaCCACACCGCCAGCAUUUACGGCGg -3'
miRNA:   3'- -GUG-GGUGUGGCGGUCGUAAAUGCCGC- -5'
27395 3' -55.6 NC_005859.1 + 113414 1.1 0.002078
Target:  5'- aCACCCACACCGCCAGCAUUUACGGCGg -3'
miRNA:   3'- -GUGGGUGUGGCGGUCGUAAAUGCCGC- -5'
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.