miRNA display CGI


Results 1 - 15 of 15 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
26583 3' -55.2 NC_005357.1 + 34354 0.66 0.62694
Target:  5'- uACGUGCGCGccuuGGGCggugaaCUGAugGUCGa -3'
miRNA:   3'- uUGCACGCGCu---UCCG------GGCUugUAGUc -5'
26583 3' -55.2 NC_005357.1 + 29346 0.66 0.60431
Target:  5'- uGCGcGCGUGGAGGC-CGAGCGcCAa -3'
miRNA:   3'- uUGCaCGCGCUUCCGgGCUUGUaGUc -5'
26583 3' -55.2 NC_005357.1 + 11251 0.67 0.548341
Target:  5'- gAACGUGCGC---GGCCCGuGCuUCAc -3'
miRNA:   3'- -UUGCACGCGcuuCCGGGCuUGuAGUc -5'
26583 3' -55.2 NC_005357.1 + 32642 0.67 0.537323
Target:  5'- cGGCGUGCGCGAccuGGCCgcgugGAACgAUCuGg -3'
miRNA:   3'- -UUGCACGCGCUu--CCGGg----CUUG-UAGuC- -5'
26583 3' -55.2 NC_005357.1 + 20259 0.68 0.515527
Target:  5'- gAugGUGCGCGAAuucGGCaaGGACAagugCAGc -3'
miRNA:   3'- -UugCACGCGCUU---CCGggCUUGUa---GUC- -5'
26583 3' -55.2 NC_005357.1 + 40173 0.68 0.501552
Target:  5'- cGugGUGCGCGucgaacugccggccAAGGCCCG-GCGUUu- -3'
miRNA:   3'- -UugCACGCGC--------------UUCCGGGCuUGUAGuc -5'
26583 3' -55.2 NC_005357.1 + 26382 0.69 0.462745
Target:  5'- cACGUGCGCGAAcuGGCCUacAACuggCAGg -3'
miRNA:   3'- uUGCACGCGCUU--CCGGGc-UUGua-GUC- -5'
26583 3' -55.2 NC_005357.1 + 10195 0.69 0.442435
Target:  5'- cACGUcaaGCGCacGccGGCCCGAugGUCGGc -3'
miRNA:   3'- uUGCA---CGCG--CuuCCGGGCUugUAGUC- -5'
26583 3' -55.2 NC_005357.1 + 14688 0.7 0.384691
Target:  5'- cAGCGaguUGCGCGAGGGCCU---CAUCAa -3'
miRNA:   3'- -UUGC---ACGCGCUUCCGGGcuuGUAGUc -5'
26583 3' -55.2 NC_005357.1 + 35261 0.7 0.366582
Target:  5'- gGGCGUcaGCGCGucGGGCCUGGGCuUCAa -3'
miRNA:   3'- -UUGCA--CGCGCu-UCCGGGCUUGuAGUc -5'
26583 3' -55.2 NC_005357.1 + 34467 0.71 0.357751
Target:  5'- cACGaUGCGCGccGAGGCCaCGGGCAagcugUCGGa -3'
miRNA:   3'- uUGC-ACGCGC--UUCCGG-GCUUGU-----AGUC- -5'
26583 3' -55.2 NC_005357.1 + 31276 0.73 0.250026
Target:  5'- cAACGUGCGCaGgcGGCCC-AGCAgCAGg -3'
miRNA:   3'- -UUGCACGCG-CuuCCGGGcUUGUaGUC- -5'
26583 3' -55.2 NC_005357.1 + 32801 0.73 0.250026
Target:  5'- cAACGUGUaccGCGAcuugaAGGCCCuGAACGUCGa -3'
miRNA:   3'- -UUGCACG---CGCU-----UCCGGG-CUUGUAGUc -5'
26583 3' -55.2 NC_005357.1 + 24916 0.73 0.250026
Target:  5'- gAACGUGCGCGAcuuGGGCUgGAugAuguccUCGGg -3'
miRNA:   3'- -UUGCACGCGCU---UCCGGgCUugU-----AGUC- -5'
26583 3' -55.2 NC_005357.1 + 31051 1.07 0.00088
Target:  5'- cAACGUGCGCGAAGGCCCGAACAUCAGg -3'
miRNA:   3'- -UUGCACGCGCUUCCGGGCUUGUAGUC- -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.