miRNA display CGI


Results 1 - 8 of 8 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
23516 3' -52.4 NC_005259.1 + 64758 0.7 0.61854
Target:  5'- -cCGC-GCCUCGCGaCGGUGcgCCUCg -3'
miRNA:   3'- uuGUGaCGGAGUGC-GUUACuaGGAGa -5'
23516 3' -52.4 NC_005259.1 + 19502 0.69 0.719239
Target:  5'- cGACACagggUGCCaCGCGCGcgGAaaUCCUCa -3'
miRNA:   3'- -UUGUG----ACGGaGUGCGUuaCU--AGGAGa -5'
23516 3' -52.4 NC_005259.1 + 3491 0.67 0.812548
Target:  5'- cACcCUGCCUCACGCGaccauGUGcgCCg-- -3'
miRNA:   3'- uUGuGACGGAGUGCGU-----UACuaGGaga -5'
23516 3' -52.4 NC_005259.1 + 290 0.67 0.831394
Target:  5'- uACGCgGCCUCGCGC--UGAU-CUCg -3'
miRNA:   3'- uUGUGaCGGAGUGCGuuACUAgGAGa -5'
23516 3' -52.4 NC_005259.1 + 61962 0.67 0.831394
Target:  5'- -cCGCaGCCUCACGCGccGcugCCUCg -3'
miRNA:   3'- uuGUGaCGGAGUGCGUuaCua-GGAGa -5'
23516 3' -52.4 NC_005259.1 + 59385 0.66 0.849358
Target:  5'- cGCACcgUGCCUcCGCGCGcgagcGUGA-CCUCg -3'
miRNA:   3'- uUGUG--ACGGA-GUGCGU-----UACUaGGAGa -5'
23516 3' -52.4 NC_005259.1 + 24322 0.66 0.857986
Target:  5'- cGACAUgguccgGCCUCACGCGcUGG-CCUa- -3'
miRNA:   3'- -UUGUGa-----CGGAGUGCGUuACUaGGAga -5'
23516 3' -52.4 NC_005259.1 + 22022 0.66 0.872078
Target:  5'- cGCACUGCCgUCAacggauaccagaacCGCGAgcccGUCCUCa -3'
miRNA:   3'- uUGUGACGG-AGU--------------GCGUUac--UAGGAGa -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.