miRNA display CGI


Results 1 - 20 of 20 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
9875 3' -50.8 NC_002641.1 + 130085 0.66 0.994178
Target:  5'- cGCuACAUCCgGcucugAGCGGcgcCAUCgAUCCg -3'
miRNA:   3'- aCGuUGUAGGgU-----UCGCCa--GUAG-UAGG- -5'
9875 3' -50.8 NC_002641.1 + 152388 0.66 0.994178
Target:  5'- cGCuACAUCCgGcucugAGCGGcgcCAUCgAUCCg -3'
miRNA:   3'- aCGuUGUAGGgU-----UCGCCa--GUAG-UAGG- -5'
9875 3' -50.8 NC_002641.1 + 31518 0.66 0.993261
Target:  5'- aGUAGCA-CCCAAGCuucGUUGUugcCAUCCa -3'
miRNA:   3'- aCGUUGUaGGGUUCGc--CAGUA---GUAGG- -5'
9875 3' -50.8 NC_002641.1 + 12771 0.66 0.992232
Target:  5'- gGCAgacGCGUCCgAuGgGGUCGUagcgaAUCCa -3'
miRNA:   3'- aCGU---UGUAGGgUuCgCCAGUAg----UAGG- -5'
9875 3' -50.8 NC_002641.1 + 25023 0.67 0.986815
Target:  5'- aGauauCGUCCCuuuAGCGG-CGUCGUCg -3'
miRNA:   3'- aCguu-GUAGGGu--UCGCCaGUAGUAGg -5'
9875 3' -50.8 NC_002641.1 + 45445 0.67 0.985089
Target:  5'- aUGCAuuuCAUCCaCGAGCcGGUCcUCugcugCCa -3'
miRNA:   3'- -ACGUu--GUAGG-GUUCG-CCAGuAGua---GG- -5'
9875 3' -50.8 NC_002641.1 + 120578 0.67 0.985089
Target:  5'- gGUcAUGUCCCGAGaUGGUCGUC-UCg -3'
miRNA:   3'- aCGuUGUAGGGUUC-GCCAGUAGuAGg -5'
9875 3' -50.8 NC_002641.1 + 3145 0.67 0.985089
Target:  5'- gGUcAUGUCCCGAGaUGGUCGUC-UCg -3'
miRNA:   3'- aCGuUGUAGGGUUC-GCCAGUAGuAGg -5'
9875 3' -50.8 NC_002641.1 + 103681 0.67 0.984908
Target:  5'- aUGUAACGUUUCuuuauuuGAGCGGUCAcaaaUCAgaagCCa -3'
miRNA:   3'- -ACGUUGUAGGG-------UUCGCCAGU----AGUa---GG- -5'
9875 3' -50.8 NC_002641.1 + 152176 0.67 0.983197
Target:  5'- cGCGGuCGUCCCGuGCG-UCGUacaCGUCCa -3'
miRNA:   3'- aCGUU-GUAGGGUuCGCcAGUA---GUAGG- -5'
9875 3' -50.8 NC_002641.1 + 130296 0.67 0.983197
Target:  5'- cGCGGuCGUCCCGuGCG-UCGUacaCGUCCa -3'
miRNA:   3'- aCGUU-GUAGGGUuCGCcAGUA---GUAGG- -5'
9875 3' -50.8 NC_002641.1 + 109972 0.68 0.976427
Target:  5'- --aGACAUgCUAcGGCGGUCAUC-UCCc -3'
miRNA:   3'- acgUUGUAgGGU-UCGCCAGUAGuAGG- -5'
9875 3' -50.8 NC_002641.1 + 60433 0.7 0.948992
Target:  5'- aGCAAUAuUCCCucGUGGUUuUCAUCa -3'
miRNA:   3'- aCGUUGU-AGGGuuCGCCAGuAGUAGg -5'
9875 3' -50.8 NC_002641.1 + 70656 0.7 0.929467
Target:  5'- gGCGGCAuuucaagcgccUCCgGAGCGGUUugguguUCGUCUa -3'
miRNA:   3'- aCGUUGU-----------AGGgUUCGCCAGu-----AGUAGG- -5'
9875 3' -50.8 NC_002641.1 + 152861 0.71 0.912137
Target:  5'- gGCAGCA-CCCc-GCGuGUCggCAUCCg -3'
miRNA:   3'- aCGUUGUaGGGuuCGC-CAGuaGUAGG- -5'
9875 3' -50.8 NC_002641.1 + 129611 0.71 0.912137
Target:  5'- gGCAGCA-CCCc-GCGuGUCggCAUCCg -3'
miRNA:   3'- aCGUUGUaGGGuuCGC-CAGuaGUAGG- -5'
9875 3' -50.8 NC_002641.1 + 136032 0.72 0.885492
Target:  5'- aUGUGGCccaCCCAGGCGGUCcuGUCG-CCg -3'
miRNA:   3'- -ACGUUGua-GGGUUCGCCAG--UAGUaGG- -5'
9875 3' -50.8 NC_002641.1 + 146441 0.72 0.885492
Target:  5'- aUGUGGCccaCCCAGGCGGUCcuGUCG-CCg -3'
miRNA:   3'- -ACGUUGua-GGGUUCGCCAG--UAGUaGG- -5'
9875 3' -50.8 NC_002641.1 + 48871 0.74 0.77361
Target:  5'- gGUGugAUUCCAAGUGGUCAUUucccauaAUCCu -3'
miRNA:   3'- aCGUugUAGGGUUCGCCAGUAG-------UAGG- -5'
9875 3' -50.8 NC_002641.1 + 38677 1.12 0.005696
Target:  5'- aUGCAACAUCCCAAGCGGUCAUCAUCCc -3'
miRNA:   3'- -ACGUUGUAGGGUUCGCCAGUAGUAGG- -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.