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
17480 3' -51.2 NC_004456.1 + 27821 0.66 0.878603
Target:  5'- cGCCAGGCa---GUCCGuuguCGGCaCg-UCGa -3'
miRNA:   3'- -CGGUCUGguaaCAGGU----GCCG-GunAGC- -5'
17480 3' -51.2 NC_004456.1 + 8672 0.66 0.8778
Target:  5'- -aCGGcACCAUUGUUaucaagugugacgUAUGGCCucUCGg -3'
miRNA:   3'- cgGUC-UGGUAACAG-------------GUGCCGGunAGC- -5'
17480 3' -51.2 NC_004456.1 + 36537 0.66 0.876187
Target:  5'- aGCCAGACCAggguuuaauucaUaaaccuggagagcaUaGUCagaGCGGCCAuaUUGg -3'
miRNA:   3'- -CGGUCUGGU------------A--------------A-CAGg--UGCCGGUn-AGC- -5'
17480 3' -51.2 NC_004456.1 + 18366 0.66 0.870454
Target:  5'- uCCGGGCCAUagucuccgaUGUCCu--GCCAa-CGg -3'
miRNA:   3'- cGGUCUGGUA---------ACAGGugcCGGUnaGC- -5'
17480 3' -51.2 NC_004456.1 + 32236 0.67 0.796291
Target:  5'- aGCCAGcugcaaggcaGCCAaa--CCACGGCCAgagCGc -3'
miRNA:   3'- -CGGUC----------UGGUaacaGGUGCCGGUna-GC- -5'
17480 3' -51.2 NC_004456.1 + 6050 0.68 0.775645
Target:  5'- aCCGGACCAggacuaUGauaCCugGGCaCGugUCGg -3'
miRNA:   3'- cGGUCUGGUa-----ACa--GGugCCG-GUn-AGC- -5'
17480 3' -51.2 NC_004456.1 + 33386 0.68 0.769321
Target:  5'- cGCCAGgcacugaaccgaGCCGgagUGUCCACcaaggaccuugccggGGCuCAgUCGa -3'
miRNA:   3'- -CGGUC------------UGGUa--ACAGGUG---------------CCG-GUnAGC- -5'
17480 3' -51.2 NC_004456.1 + 14757 0.68 0.741305
Target:  5'- aUCGGcACCGUUGUCaccggcaaaccaGCGGCCAaccuuaUCGa -3'
miRNA:   3'- cGGUC-UGGUAACAGg-----------UGCCGGUn-----AGC- -5'
17480 3' -51.2 NC_004456.1 + 16983 0.7 0.641779
Target:  5'- uUCGGGCUcUUGUUCAUGGCCAcagCa -3'
miRNA:   3'- cGGUCUGGuAACAGGUGCCGGUna-Gc -5'
17480 3' -51.2 NC_004456.1 + 18490 0.71 0.595786
Target:  5'- uGUCAGGCCAUUaccaacggCUGCGGCCAccCa -3'
miRNA:   3'- -CGGUCUGGUAAca------GGUGCCGGUnaGc -5'
17480 3' -51.2 NC_004456.1 + 17320 0.78 0.254415
Target:  5'- uCCAGACgGUUGUCCugGGUa--UCGa -3'
miRNA:   3'- cGGUCUGgUAACAGGugCCGgunAGC- -5'
17480 3' -51.2 NC_004456.1 + 20520 1.13 0.001083
Target:  5'- aGCCAGACCAUUGUCCACGGCCAnUCGg -3'
miRNA:   3'- -CGGUCUGGUAACAGGUGCCGGUnAGC- -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.