miRNA display CGI


Results 1 - 20 of 25 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
2038 3' -53 NC_001347.2 + 94310 0.76 0.701866
Target:  5'- aGCGCgaucgccgcCCAcGGCGUccUCGGCGUCGUCg -3'
miRNA:   3'- -CGUGaa-------GGU-CUGCA--AGCCGCAGCAGg -5'
2038 3' -53 NC_001347.2 + 142422 0.76 0.711631
Target:  5'- cGCGC--CCAGugGcgUCGGCGcggCGUCCg -3'
miRNA:   3'- -CGUGaaGGUCugCa-AGCCGCa--GCAGG- -5'
2038 3' -53 NC_001347.2 + 181181 0.75 0.73765
Target:  5'- cGUACg-CCAGuACGUcuugguggacacuuUCGGCGUCGUCUa -3'
miRNA:   3'- -CGUGaaGGUC-UGCA--------------AGCCGCAGCAGG- -5'
2038 3' -53 NC_001347.2 + 168093 0.74 0.821352
Target:  5'- aGCACcgugUCCAGuuCGgugUCGGUGUCGcgCCg -3'
miRNA:   3'- -CGUGa---AGGUCu-GCa--AGCCGCAGCa-GG- -5'
2038 3' -53 NC_001347.2 + 78341 0.72 0.882355
Target:  5'- cGCGCguggUCCGGGCGgaccCGGCGUgGUg- -3'
miRNA:   3'- -CGUGa---AGGUCUGCaa--GCCGCAgCAgg -5'
2038 3' -53 NC_001347.2 + 178070 0.71 0.919431
Target:  5'- -gACUgaUCCAGGCG-UCGGCGUUGg-- -3'
miRNA:   3'- cgUGA--AGGUCUGCaAGCCGCAGCagg -5'
2038 3' -53 NC_001347.2 + 161564 0.7 0.956261
Target:  5'- uGCACUUUUugauGACGcgCGGCGcCG-CCg -3'
miRNA:   3'- -CGUGAAGGu---CUGCaaGCCGCaGCaGG- -5'
2038 3' -53 NC_001347.2 + 165580 0.69 0.95987
Target:  5'- cGCGacUCCAGGCGgcgCGGCacuucGUCGcCCa -3'
miRNA:   3'- -CGUgaAGGUCUGCaa-GCCG-----CAGCaGG- -5'
2038 3' -53 NC_001347.2 + 81525 0.69 0.972248
Target:  5'- -gACUUCCAcGACGUuguuuucaccgUCGcCGUCGUCa -3'
miRNA:   3'- cgUGAAGGU-CUGCA-----------AGCcGCAGCAGg -5'
2038 3' -53 NC_001347.2 + 164069 0.68 0.977278
Target:  5'- aGCGCUUUCAGAauUUCG-CGUCGgUUCa -3'
miRNA:   3'- -CGUGAAGGUCUgcAAGCcGCAGC-AGG- -5'
2038 3' -53 NC_001347.2 + 40514 0.68 0.979525
Target:  5'- cGgGCUUCgGGACGguguUUCGGCG-CGcugCCg -3'
miRNA:   3'- -CgUGAAGgUCUGC----AAGCCGCaGCa--GG- -5'
2038 3' -53 NC_001347.2 + 170053 0.68 0.983519
Target:  5'- gGguUUUaCgAGugGUggCGGCGUCGUCa -3'
miRNA:   3'- -CguGAA-GgUCugCAa-GCCGCAGCAGg -5'
2038 3' -53 NC_001347.2 + 1324 0.67 0.985279
Target:  5'- cGCGCagCCAGAUGaaCGGCGUgGg-- -3'
miRNA:   3'- -CGUGaaGGUCUGCaaGCCGCAgCagg -5'
2038 3' -53 NC_001347.2 + 17612 0.67 0.989708
Target:  5'- aGCACUUUguGuagg-CGGCG-CGUCCc -3'
miRNA:   3'- -CGUGAAGguCugcaaGCCGCaGCAGG- -5'
2038 3' -53 NC_001347.2 + 172337 0.67 0.990926
Target:  5'- uCugUUCCAGGCGgcacCGGCGa--UCCa -3'
miRNA:   3'- cGugAAGGUCUGCaa--GCCGCagcAGG- -5'
2038 3' -53 NC_001347.2 + 129162 0.66 0.992027
Target:  5'- cGgGCUUCCGuGGCGgacauagGGCGUCcUCCu -3'
miRNA:   3'- -CgUGAAGGU-CUGCaag----CCGCAGcAGG- -5'
2038 3' -53 NC_001347.2 + 173102 0.66 0.992027
Target:  5'- uGCACguggaUCUAGAU-UUCGGCGUgGUggCCg -3'
miRNA:   3'- -CGUGa----AGGUCUGcAAGCCGCAgCA--GG- -5'
2038 3' -53 NC_001347.2 + 220409 0.66 0.992027
Target:  5'- aCGCUUgugaggugaCAGAUGUgugUGGCGUCGUUg -3'
miRNA:   3'- cGUGAAg--------GUCUGCAa--GCCGCAGCAGg -5'
2038 3' -53 NC_001347.2 + 188464 0.66 0.992027
Target:  5'- gGCGCcgCUAGugGUggCGGUGUU-UCCa -3'
miRNA:   3'- -CGUGaaGGUCugCAa-GCCGCAGcAGG- -5'
2038 3' -53 NC_001347.2 + 196967 0.66 0.993911
Target:  5'- cGCGCcgCC-GACGcccgagaCGGCGcgCGUCCa -3'
miRNA:   3'- -CGUGaaGGuCUGCaa-----GCCGCa-GCAGG- -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.