miRNA display CGI


Results 1 - 12 of 12 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
16337 3' -57.1 NC_004084.1 + 33386 0.66 0.659962
Target:  5'- cACgCGCUCCGuGcaacGGCUGcGUCGAcGCACg -3'
miRNA:   3'- -UGaGCGAGGC-C----UUGGC-CAGCUaCGUG- -5'
16337 3' -57.1 NC_004084.1 + 25275 0.66 0.659962
Target:  5'- -aUCGUUCUGGuagguCCGGUUGGccugGCGCc -3'
miRNA:   3'- ugAGCGAGGCCuu---GGCCAGCUa---CGUG- -5'
16337 3' -57.1 NC_004084.1 + 27667 0.66 0.60265
Target:  5'- cGCUCGaCUCCGGuccguacacguccauCCGGUCGAacaGCcCa -3'
miRNA:   3'- -UGAGC-GAGGCCuu-------------GGCCAGCUa--CGuG- -5'
16337 3' -57.1 NC_004084.1 + 17430 0.67 0.573632
Target:  5'- uCUCGUUCCGGAACUcGUCGG-GUuCg -3'
miRNA:   3'- uGAGCGAGGCCUUGGcCAGCUaCGuG- -5'
16337 3' -57.1 NC_004084.1 + 29194 0.67 0.552346
Target:  5'- uACUCGC-CCGcGAACaacGUCGAcGCGCu -3'
miRNA:   3'- -UGAGCGaGGC-CUUGgc-CAGCUaCGUG- -5'
16337 3' -57.1 NC_004084.1 + 49978 0.68 0.520892
Target:  5'- gACUCGuCUCgCGGAcGCUGGU-GAUGCGu -3'
miRNA:   3'- -UGAGC-GAG-GCCU-UGGCCAgCUACGUg -5'
16337 3' -57.1 NC_004084.1 + 2185 0.68 0.500314
Target:  5'- cGCUCGagcgCCGGGA-CGGcaaGAUGCACg -3'
miRNA:   3'- -UGAGCga--GGCCUUgGCCag-CUACGUG- -5'
16337 3' -57.1 NC_004084.1 + 18132 0.68 0.500314
Target:  5'- gGCUCgGC-CCGGAuggaguCCgGGUCGAUcaGCGCg -3'
miRNA:   3'- -UGAG-CGaGGCCUu-----GG-CCAGCUA--CGUG- -5'
16337 3' -57.1 NC_004084.1 + 14628 0.69 0.431433
Target:  5'- cCUCGCcgCCGGAcucuccGCCGG-CGA-GCGCc -3'
miRNA:   3'- uGAGCGa-GGCCU------UGGCCaGCUaCGUG- -5'
16337 3' -57.1 NC_004084.1 + 26458 0.71 0.335361
Target:  5'- -gUCGUUCCcGAGCUGGUUGA-GCGCg -3'
miRNA:   3'- ugAGCGAGGcCUUGGCCAGCUaCGUG- -5'
16337 3' -57.1 NC_004084.1 + 35130 0.73 0.26242
Target:  5'- cGCUCGCU-CGGGACUGGUCGGccGCuCg -3'
miRNA:   3'- -UGAGCGAgGCCUUGGCCAGCUa-CGuG- -5'
16337 3' -57.1 NC_004084.1 + 13959 0.96 0.006241
Target:  5'- aACUCGCUCCGGAA-CGGUCGAUGCACu -3'
miRNA:   3'- -UGAGCGAGGCCUUgGCCAGCUACGUG- -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.