miRNA display CGI


Results 1 - 20 of 30 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
27230 3' -61.7 NC_005832.1 + 92424 1.1 0.000631
Target:  5'- gAGCCGUCCCCGUCGCGUCCUCGGACCc -3'
miRNA:   3'- -UCGGCAGGGGCAGCGCAGGAGCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 50809 0.66 0.613299
Target:  5'- cGGCCGaUCCaguccuaCCGUCGUGUCCcgucucucccuuuuuUccgcgCGGACCu -3'
miRNA:   3'- -UCGGC-AGG-------GGCAGCGCAGG---------------A-----GCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 486 0.66 0.600431
Target:  5'- cGgCGUCCUgGUCGgGgccCCUgUGGGCCg -3'
miRNA:   3'- uCgGCAGGGgCAGCgCa--GGA-GCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 41491 0.66 0.590558
Target:  5'- cGUCGaCCCCGUCGUcaucgggcUCCUCGuACCc -3'
miRNA:   3'- uCGGCaGGGGCAGCGc-------AGGAGCcUGG- -5'
27230 3' -61.7 NC_005832.1 + 100392 0.66 0.580713
Target:  5'- uGGCCGUaCUCGUCGuCGUCUUCuucguuccuGGCCg -3'
miRNA:   3'- -UCGGCAgGGGCAGC-GCAGGAGc--------CUGG- -5'
27230 3' -61.7 NC_005832.1 + 11493 0.67 0.55141
Target:  5'- cAGCagcUCCCUGUacgggGUGUCUUCGGACa -3'
miRNA:   3'- -UCGgc-AGGGGCAg----CGCAGGAGCCUGg -5'
27230 3' -61.7 NC_005832.1 + 89575 0.68 0.513087
Target:  5'- gGGCCGUCagCCUGUCGagcuUCCUCGuGAUg -3'
miRNA:   3'- -UCGGCAG--GGGCAGCgc--AGGAGC-CUGg -5'
27230 3' -61.7 NC_005832.1 + 10734 0.68 0.485077
Target:  5'- uGCgGUCCCCG--GCGUCCUgGucCCa -3'
miRNA:   3'- uCGgCAGGGGCagCGCAGGAgCcuGG- -5'
27230 3' -61.7 NC_005832.1 + 91635 0.68 0.466815
Target:  5'- uGCCGUCCCCGccacCGCcucccacaCCUUGGAgCa -3'
miRNA:   3'- uCGGCAGGGGCa---GCGca------GGAGCCUgG- -5'
27230 3' -61.7 NC_005832.1 + 65481 0.69 0.448914
Target:  5'- gGGCCcucacGUCCCCGUgGUGUCCaugugcucCGGuCCc -3'
miRNA:   3'- -UCGG-----CAGGGGCAgCGCAGGa-------GCCuGG- -5'
27230 3' -61.7 NC_005832.1 + 2290 0.7 0.381359
Target:  5'- uGGCCGUCUCCaaCGcCGUCa--GGACCa -3'
miRNA:   3'- -UCGGCAGGGGcaGC-GCAGgagCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 50502 0.71 0.328079
Target:  5'- cAGCCacUCUCCGccUC-CGUCCUCGGACUc -3'
miRNA:   3'- -UCGGc-AGGGGC--AGcGCAGGAGCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 90399 0.74 0.217064
Target:  5'- gGGCCcUCCUCGacaGCuuGUCCUCGGGCCu -3'
miRNA:   3'- -UCGGcAGGGGCag-CG--CAGGAGCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 65534 0.74 0.204964
Target:  5'- uAGCCGUCCCCaccuacgagugcaUCGCucacgccuacacGUCCUCGGGCa -3'
miRNA:   3'- -UCGGCAGGGGc------------AGCG------------CAGGAGCCUGg -5'
27230 3' -61.7 NC_005832.1 + 79463 0.68 0.513087
Target:  5'- cGGCUuuGUCCCCGgUGgGUUCUgGGGCUu -3'
miRNA:   3'- -UCGG--CAGGGGCaGCgCAGGAgCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 92582 0.68 0.465911
Target:  5'- cGUCGUCCUCGUCGUccaccaccuccggGUCCgaGGACg -3'
miRNA:   3'- uCGGCAGGGGCAGCG-------------CAGGagCCUGg -5'
27230 3' -61.7 NC_005832.1 + 36331 0.69 0.431399
Target:  5'- uGCCG-CCgCGUcCGCGUCUUUauccaGGGCCg -3'
miRNA:   3'- uCGGCaGGgGCA-GCGCAGGAG-----CCUGG- -5'
27230 3' -61.7 NC_005832.1 + 54284 0.71 0.342723
Target:  5'- aAGCCGgaCCCGUcaCGUacagGUCCUCGGGCa -3'
miRNA:   3'- -UCGGCagGGGCA--GCG----CAGGAGCCUGg -5'
27230 3' -61.7 NC_005832.1 + 20128 0.72 0.27418
Target:  5'- uGuuGUCCCUGgugggaGCGaUCCUCaGGACCg -3'
miRNA:   3'- uCggCAGGGGCag----CGC-AGGAG-CCUGG- -5'
27230 3' -61.7 NC_005832.1 + 32297 0.66 0.630157
Target:  5'- uGCCGuggacUCCCC-UCGCcgcUCCUCcGGCCa -3'
miRNA:   3'- uCGGC-----AGGGGcAGCGc--AGGAGcCUGG- -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.