miRNA display CGI


Results 1 - 20 of 21 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
18428 3' -59.9 NC_004681.1 + 18309 0.66 0.574509
Target:  5'- cGCCCgguaCACCcgGGGGuGCGCCgGgaggCGc -3'
miRNA:   3'- -UGGGa---GUGGuaCCCC-UGCGGgUa---GCa -5'
18428 3' -59.9 NC_004681.1 + 44991 0.66 0.574509
Target:  5'- cAUCCUCGgccUCGUGGGcGuCGCCCGcuUCGg -3'
miRNA:   3'- -UGGGAGU---GGUACCC-CuGCGGGU--AGCa -5'
18428 3' -59.9 NC_004681.1 + 64159 0.66 0.564186
Target:  5'- -gCUUCACCGUuGGGACGCUCAa--- -3'
miRNA:   3'- ugGGAGUGGUAcCCCUGCGGGUagca -5'
18428 3' -59.9 NC_004681.1 + 22453 0.66 0.564186
Target:  5'- gUCCUCGCCGUGGGGGauuucaCCGaccUCGa -3'
miRNA:   3'- uGGGAGUGGUACCCCUgcg---GGU---AGCa -5'
18428 3' -59.9 NC_004681.1 + 48569 0.66 0.564186
Target:  5'- aGCCCUgcugCAUCGUGGGccACGCCC-UCGc -3'
miRNA:   3'- -UGGGA----GUGGUACCCc-UGCGGGuAGCa -5'
18428 3' -59.9 NC_004681.1 + 24973 0.66 0.56007
Target:  5'- cGCCCUCGCCAuugcuggUGaGGGAgccuuggcggccgcCGCCCG-CGc -3'
miRNA:   3'- -UGGGAGUGGU-------AC-CCCU--------------GCGGGUaGCa -5'
18428 3' -59.9 NC_004681.1 + 1364 0.66 0.556989
Target:  5'- cGCCCUCcgacaugucggggGCCAcgaguuccccaucggUGGGGAUcgGCUCGUCGc -3'
miRNA:   3'- -UGGGAG-------------UGGU---------------ACCCCUG--CGGGUAGCa -5'
18428 3' -59.9 NC_004681.1 + 16118 0.67 0.513441
Target:  5'- cGCCCUUGCCAgcagccGGGacGAUGCCCAgauacgCGg -3'
miRNA:   3'- -UGGGAGUGGUa-----CCC--CUGCGGGUa-----GCa -5'
18428 3' -59.9 NC_004681.1 + 44407 0.67 0.503508
Target:  5'- cUCCUCGCCAcagggUGuGGGacgcgcGCGCCCAgCGUg -3'
miRNA:   3'- uGGGAGUGGU-----AC-CCC------UGCGGGUaGCA- -5'
18428 3' -59.9 NC_004681.1 + 677 0.68 0.455198
Target:  5'- cGCCCugaaggaacUCGCC-UGGGGAUGCggCCGUCa- -3'
miRNA:   3'- -UGGG---------AGUGGuACCCCUGCG--GGUAGca -5'
18428 3' -59.9 NC_004681.1 + 51131 0.68 0.445836
Target:  5'- cGCCgUCGCCGaGGGcgauGACGCCC-UUGUg -3'
miRNA:   3'- -UGGgAGUGGUaCCC----CUGCGGGuAGCA- -5'
18428 3' -59.9 NC_004681.1 + 16401 0.68 0.427441
Target:  5'- gAUCCg-GCCGcGGGGAUGCCC-UCGg -3'
miRNA:   3'- -UGGGagUGGUaCCCCUGCGGGuAGCa -5'
18428 3' -59.9 NC_004681.1 + 56038 0.68 0.409503
Target:  5'- cGCCUUCACCGUGGaGACGCagCUGUcCGUg -3'
miRNA:   3'- -UGGGAGUGGUACCcCUGCG--GGUA-GCA- -5'
18428 3' -59.9 NC_004681.1 + 53872 0.68 0.409503
Target:  5'- gGCCUaCAUCAUGGGGGCugucuGgCCAUCGc -3'
miRNA:   3'- -UGGGaGUGGUACCCCUG-----CgGGUAGCa -5'
18428 3' -59.9 NC_004681.1 + 22391 0.69 0.375072
Target:  5'- cACCCUgCGCCAUGacgggcaGGGCGCCCA-CGc -3'
miRNA:   3'- -UGGGA-GUGGUACc------CCUGCGGGUaGCa -5'
18428 3' -59.9 NC_004681.1 + 26970 0.69 0.374237
Target:  5'- gUCCUCGCCgccauagguggcgGUGGGGACcgGCCCAcugCGg -3'
miRNA:   3'- uGGGAGUGG-------------UACCCCUG--CGGGUa--GCa -5'
18428 3' -59.9 NC_004681.1 + 22795 0.69 0.371738
Target:  5'- uGCCCaCACCA-GGGGGCGCCacuccuugggcugGUCGg -3'
miRNA:   3'- -UGGGaGUGGUaCCCCUGCGGg------------UAGCa -5'
18428 3' -59.9 NC_004681.1 + 22657 0.7 0.319696
Target:  5'- gACCCagACCAUcuucuGGGugGCCuCGUCGUa -3'
miRNA:   3'- -UGGGagUGGUAc----CCCugCGG-GUAGCA- -5'
18428 3' -59.9 NC_004681.1 + 37041 0.7 0.312304
Target:  5'- gGCCaUCGCCAgggucggugaUGGGGugGCUCAUCc- -3'
miRNA:   3'- -UGGgAGUGGU----------ACCCCugCGGGUAGca -5'
18428 3' -59.9 NC_004681.1 + 27497 0.73 0.227899
Target:  5'- gACCCUgACC-UGGGGcACGCCUcagAUCGa -3'
miRNA:   3'- -UGGGAgUGGuACCCC-UGCGGG---UAGCa -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.