miRNA display CGI


Results 1 - 20 of 60 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
28037 3' -62.1 NC_005887.1 + 1000 0.66 0.31413
Target:  5'- cUUCCCGGCGG-CGcGCGgaUCGUacucaaccgGCGUCa -3'
miRNA:   3'- -AAGGGCCGUCgGC-CGC--AGCAa--------CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 28030 0.68 0.2157
Target:  5'- gUUCaCCuGCuuGUCGGCGUCGgccUGCGCUu -3'
miRNA:   3'- -AAG-GGcCGu-CGGCCGCAGCa--ACGCGG- -5'
28037 3' -62.1 NC_005887.1 + 17332 0.68 0.204779
Target:  5'- --aCCGGCuGGCCGGCGgcCGccgGCGCg -3'
miRNA:   3'- aagGGCCG-UCGGCCGCa-GCaa-CGCGg -5'
28037 3' -62.1 NC_005887.1 + 20832 1.09 0.000142
Target:  5'- uUUCCCGGCAGCCGGCGUCGUUGCGCCg -3'
miRNA:   3'- -AAGGGCCGUCGGCCGCAGCAACGCGG- -5'
28037 3' -62.1 NC_005887.1 + 792 0.66 0.284923
Target:  5'- gUCUCGGC-GCUGGCugacuucgCGUgcGCGCCg -3'
miRNA:   3'- aAGGGCCGuCGGCCGca------GCAa-CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 40167 0.66 0.284923
Target:  5'- -gCCCGaucaccGCGGCCGGCGUCag-GCcgaaguccauGCCg -3'
miRNA:   3'- aaGGGC------CGUCGGCCGCAGcaaCG----------CGG- -5'
28037 3' -62.1 NC_005887.1 + 38466 0.67 0.271143
Target:  5'- -aUCCGGCA--UGGCGUCGUaugccgggcUGcCGCCg -3'
miRNA:   3'- aaGGGCCGUcgGCCGCAGCA---------AC-GCGG- -5'
28037 3' -62.1 NC_005887.1 + 29447 0.67 0.251484
Target:  5'- --aCCGGCGuGCUGGC-UCGccGUGCCg -3'
miRNA:   3'- aagGGCCGU-CGGCCGcAGCaaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 1660 0.67 0.245197
Target:  5'- cUCCUGcCAGCCGuGCG-CGc-GCGCCa -3'
miRNA:   3'- aAGGGCcGUCGGC-CGCaGCaaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 6177 0.68 0.221345
Target:  5'- aUCCCGGuCGGCaCGGUGac---GCGCCg -3'
miRNA:   3'- aAGGGCC-GUCG-GCCGCagcaaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 27381 0.67 0.239041
Target:  5'- -gCCUGcGCGGCguaGGCGUCGagUUGCGgCg -3'
miRNA:   3'- aaGGGC-CGUCGg--CCGCAGC--AACGCgG- -5'
28037 3' -62.1 NC_005887.1 + 15092 0.67 0.245197
Target:  5'- aUCaUUGGCgacgcgGGCCGGCGcgcgaugcaGUUGCGCCg -3'
miRNA:   3'- aAG-GGCCG------UCGGCCGCag-------CAACGCGG- -5'
28037 3' -62.1 NC_005887.1 + 7975 0.66 0.307366
Target:  5'- -gCCCGGCcGCCucugauacgcggGGCGcUCGUcuccagccguggccgGCGCCa -3'
miRNA:   3'- aaGGGCCGuCGG------------CCGC-AGCAa--------------CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 26028 0.68 0.227117
Target:  5'- gUUCgCGGCgaccucgaacaGGCCGGCGUCc-UGCGUg -3'
miRNA:   3'- -AAGgGCCG-----------UCGGCCGCAGcaACGCGg -5'
28037 3' -62.1 NC_005887.1 + 15499 0.66 0.292018
Target:  5'- -gCCCGGCGGCaaCGGCuacCGgcagacGCGCCc -3'
miRNA:   3'- aaGGGCCGUCG--GCCGca-GCaa----CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 32864 0.67 0.245197
Target:  5'- aUgCCGGgguCGGCCGG-GUCGUUcGuCGCCa -3'
miRNA:   3'- aAgGGCC---GUCGGCCgCAGCAA-C-GCGG- -5'
28037 3' -62.1 NC_005887.1 + 1583 0.68 0.227117
Target:  5'- --gCCGGCucGgCGGCGcgCGgcGCGCCa -3'
miRNA:   3'- aagGGCCGu-CgGCCGCa-GCaaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 28330 0.68 0.204779
Target:  5'- --gCCGGCGgcgcGCCGGCGguugCGgagGCGCg -3'
miRNA:   3'- aagGGCCGU----CGGCCGCa---GCaa-CGCGg -5'
28037 3' -62.1 NC_005887.1 + 25224 0.66 0.291303
Target:  5'- -cCuuGcGUAGCuCGGCGUCGUUcagcggauucccgGCGUCg -3'
miRNA:   3'- aaGggC-CGUCG-GCCGCAGCAA-------------CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 1060 0.66 0.277965
Target:  5'- -gCCCGGCGGCagcaGcGCGcccgugcgcaggUCGacgGCGCCa -3'
miRNA:   3'- aaGGGCCGUCGg---C-CGC------------AGCaa-CGCGG- -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.