miRNA display CGI


Results 1 - 11 of 11 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
1217 3' -47.7 NC_001266.1 + 55012 0.66 0.999874
Target:  5'- uUCGUaUUUGAAUugguAACGAUCCcuAGGUCUa -3'
miRNA:   3'- uGGCG-AAAUUUG----UUGCUAGG--UCCAGG- -5'
1217 3' -47.7 NC_001266.1 + 34331 0.66 0.999732
Target:  5'- cGCCGUaUUuGAUAGguCGGUCCAGGUa- -3'
miRNA:   3'- -UGGCGaAAuUUGUU--GCUAGGUCCAgg -5'
1217 3' -47.7 NC_001266.1 + 70776 0.66 0.999732
Target:  5'- aACCGC----GAUAACGAUUguucgUAGGUCUg -3'
miRNA:   3'- -UGGCGaaauUUGUUGCUAG-----GUCCAGG- -5'
1217 3' -47.7 NC_001266.1 + 28840 0.66 0.999732
Target:  5'- gGCCGCU---GACGAaccUCCcuuGGUCCg -3'
miRNA:   3'- -UGGCGAaauUUGUUgcuAGGu--CCAGG- -5'
1217 3' -47.7 NC_001266.1 + 86756 0.67 0.999572
Target:  5'- uACCGUauccgacACGAUGA-CUAGGUCCu -3'
miRNA:   3'- -UGGCGaaauu--UGUUGCUaGGUCCAGG- -5'
1217 3' -47.7 NC_001266.1 + 113778 0.67 0.999335
Target:  5'- gGCCGauu----CAGCG-UCCAGGUCg -3'
miRNA:   3'- -UGGCgaaauuuGUUGCuAGGUCCAGg -5'
1217 3' -47.7 NC_001266.1 + 93250 0.68 0.9978
Target:  5'- uCCaaUUUAGGCAAUauguucgugucaaGGUCCAGGUCUa -3'
miRNA:   3'- uGGcgAAAUUUGUUG-------------CUAGGUCCAGG- -5'
1217 3' -47.7 NC_001266.1 + 140337 0.69 0.995017
Target:  5'- uACCGCUuucUUAGAUAGcCGAauUCCuGaGUCCa -3'
miRNA:   3'- -UGGCGA---AAUUUGUU-GCU--AGGuC-CAGG- -5'
1217 3' -47.7 NC_001266.1 + 12339 0.7 0.991048
Target:  5'- uACCGCUUUAacAACAuCGuacUCCGaGUCCa -3'
miRNA:   3'- -UGGCGAAAU--UUGUuGCu--AGGUcCAGG- -5'
1217 3' -47.7 NC_001266.1 + 147519 0.7 0.991048
Target:  5'- uACCGCUUUAacAACAuCGuacUCCGaGUCCa -3'
miRNA:   3'- -UGGCGAAAU--UUGUuGCu--AGGUcCAGG- -5'
1217 3' -47.7 NC_001266.1 + 52691 1.12 0.01267
Target:  5'- gACCGCUUUAAACAACGAUCCAGGUCCc -3'
miRNA:   3'- -UGGCGAAAUUUGUUGCUAGGUCCAGG- -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.