miRNA display CGI


Results 1 - 18 of 18 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
19655 3' -56.5 NC_004686.1 + 26910 0.66 0.665873
Target:  5'- -aCCUGUUCAccuCGGCGUUGACGgcGGAg -3'
miRNA:   3'- ugGGACGGGUu--GCCGUAGUUGCa-CCU- -5'
19655 3' -56.5 NC_004686.1 + 52757 0.66 0.665873
Target:  5'- aACCCUGCUCGaagACGcGCuUCucugAAUGUGGGa -3'
miRNA:   3'- -UGGGACGGGU---UGC-CGuAG----UUGCACCU- -5'
19655 3' -56.5 NC_004686.1 + 894 0.66 0.654945
Target:  5'- gACCCUGagCAuugcGCGGCAggccggCAaaACGUGGGg -3'
miRNA:   3'- -UGGGACggGU----UGCCGUa-----GU--UGCACCU- -5'
19655 3' -56.5 NC_004686.1 + 23060 0.66 0.633036
Target:  5'- uUCCguaaGCuCCAGCGGCAgc-AUGUGGAu -3'
miRNA:   3'- uGGGa---CG-GGUUGCCGUaguUGCACCU- -5'
19655 3' -56.5 NC_004686.1 + 43749 0.66 0.611123
Target:  5'- uGCCCcauUGCCCugaugUGGCAUCGGCGgaGGc -3'
miRNA:   3'- -UGGG---ACGGGuu---GCCGUAGUUGCa-CCu -5'
19655 3' -56.5 NC_004686.1 + 5396 0.66 0.611123
Target:  5'- -aCCUGUCCccgGACGGUGUC-GCGcUGGAc -3'
miRNA:   3'- ugGGACGGG---UUGCCGUAGuUGC-ACCU- -5'
19655 3' -56.5 NC_004686.1 + 38263 0.67 0.578412
Target:  5'- cGCCCUGUCUGACG--AUCGAUugGUGGAa -3'
miRNA:   3'- -UGGGACGGGUUGCcgUAGUUG--CACCU- -5'
19655 3' -56.5 NC_004686.1 + 35277 0.67 0.55681
Target:  5'- --gUUGUCgGuucCGGCGUCGGCGUGGAa -3'
miRNA:   3'- uggGACGGgUu--GCCGUAGUUGCACCU- -5'
19655 3' -56.5 NC_004686.1 + 10028 0.67 0.546095
Target:  5'- cACCCuUGCCCAgucguAUGGgAU--GCGUGGAc -3'
miRNA:   3'- -UGGG-ACGGGU-----UGCCgUAguUGCACCU- -5'
19655 3' -56.5 NC_004686.1 + 49599 0.67 0.546095
Target:  5'- uACCCugucgUGCCCAGCGaGCuucggcuccGUCGACGaUGGu -3'
miRNA:   3'- -UGGG-----ACGGGUUGC-CG---------UAGUUGC-ACCu -5'
19655 3' -56.5 NC_004686.1 + 55649 0.68 0.535446
Target:  5'- cGCCCUcGCCCAACaGCAcacCGAC-UGGGc -3'
miRNA:   3'- -UGGGA-CGGGUUGcCGUa--GUUGcACCU- -5'
19655 3' -56.5 NC_004686.1 + 22182 0.69 0.483435
Target:  5'- cGCCCUGCUgauUGACGGCAUCAaggccgccaACGgcUGGu -3'
miRNA:   3'- -UGGGACGG---GUUGCCGUAGU---------UGC--ACCu -5'
19655 3' -56.5 NC_004686.1 + 36637 0.69 0.457361
Target:  5'- gUCUUGCCCAccacaaccguuuccgGCGGCGUCGGCGg--- -3'
miRNA:   3'- uGGGACGGGU---------------UGCCGUAGUUGCaccu -5'
19655 3' -56.5 NC_004686.1 + 15330 0.69 0.440726
Target:  5'- gACCCUGCCCAGagGGCGUggggaaagaucgagCAAauCGUGGc -3'
miRNA:   3'- -UGGGACGGGUUg-CCGUA--------------GUU--GCACCu -5'
19655 3' -56.5 NC_004686.1 + 6030 0.69 0.433977
Target:  5'- cCCCUGaUCCAcACGGCGUgGAgGUGGu -3'
miRNA:   3'- uGGGAC-GGGU-UGCCGUAgUUgCACCu -5'
19655 3' -56.5 NC_004686.1 + 25919 0.7 0.404828
Target:  5'- uGCCCaacggaaUGCCCGAcCGGCAgCAGCcUGGGa -3'
miRNA:   3'- -UGGG-------ACGGGUU-GCCGUaGUUGcACCU- -5'
19655 3' -56.5 NC_004686.1 + 23614 0.72 0.312712
Target:  5'- aGCCa---CCGACGGCAUCAACcUGGAc -3'
miRNA:   3'- -UGGgacgGGUUGCCGUAGUUGcACCU- -5'
19655 3' -56.5 NC_004686.1 + 11745 1.09 0.000785
Target:  5'- cACCCUGCCCAACGGCAUCAACGUGGAg -3'
miRNA:   3'- -UGGGACGGGUUGCCGUAGUUGCACCU- -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.