miRNA display CGI


Results 1 - 20 of 36 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
13421 3' -52.1 NC_003409.1 + 61920 0.66 0.982496
Target:  5'- -uCAGAGuaaACCcgGCCauCUGGCAGGCCc -3'
miRNA:   3'- acGUCUC---UGGa-UGGauGACUGUCUGG- -5'
13421 3' -52.1 NC_003409.1 + 106801 0.66 0.982496
Target:  5'- -cCGGGGGCCcgcACCUcCUGACAaGCCc -3'
miRNA:   3'- acGUCUCUGGa--UGGAuGACUGUcUGG- -5'
13421 3' -52.1 NC_003409.1 + 43110 0.66 0.982496
Target:  5'- gUGCGGAGAUUgaGCUUGCggccGCAGACa -3'
miRNA:   3'- -ACGUCUCUGGa-UGGAUGac--UGUCUGg -5'
13421 3' -52.1 NC_003409.1 + 16017 0.66 0.982496
Target:  5'- -aCGGAGACCUACaCUGCauucuacgcuuuUGG-GGACCa -3'
miRNA:   3'- acGUCUCUGGAUG-GAUG------------ACUgUCUGG- -5'
13421 3' -52.1 NC_003409.1 + 21141 0.66 0.980364
Target:  5'- gUGCucGGAGACCUACauguaUACU--CAGGCUc -3'
miRNA:   3'- -ACG--UCUCUGGAUGg----AUGAcuGUCUGG- -5'
13421 3' -52.1 NC_003409.1 + 3410 0.66 0.978043
Target:  5'- cGCAGGGACCaguggggGCC-----GCAGACCc -3'
miRNA:   3'- aCGUCUCUGGa------UGGaugacUGUCUGG- -5'
13421 3' -52.1 NC_003409.1 + 125780 0.66 0.975526
Target:  5'- cUGCAGGGGCU--CCUGCUG-CuguGGCUc -3'
miRNA:   3'- -ACGUCUCUGGauGGAUGACuGu--CUGG- -5'
13421 3' -52.1 NC_003409.1 + 42540 0.66 0.975526
Target:  5'- cGCGGAcagauaGAcaccgacaacuaCCUACCUGCgGugGGAUCa -3'
miRNA:   3'- aCGUCU------CU------------GGAUGGAUGaCugUCUGG- -5'
13421 3' -52.1 NC_003409.1 + 88155 0.66 0.975526
Target:  5'- -cCGGAGAUCcGCCUgcuccaucaacGCUGACcGGCCc -3'
miRNA:   3'- acGUCUCUGGaUGGA-----------UGACUGuCUGG- -5'
13421 3' -52.1 NC_003409.1 + 125682 0.66 0.975526
Target:  5'- cUGCAGGGGCU--CCUGCUG-CuguGGCUc -3'
miRNA:   3'- -ACGUCUCUGGauGGAUGACuGu--CUGG- -5'
13421 3' -52.1 NC_003409.1 + 54800 0.66 0.972805
Target:  5'- cUGCAGuGGCCggccgGCCUuGCgGcCAGACUu -3'
miRNA:   3'- -ACGUCuCUGGa----UGGA-UGaCuGUCUGG- -5'
13421 3' -52.1 NC_003409.1 + 73384 0.66 0.969871
Target:  5'- gGCAuGAGACCgcuuCCUGgauagGACAGuCCa -3'
miRNA:   3'- aCGU-CUCUGGau--GGAUga---CUGUCuGG- -5'
13421 3' -52.1 NC_003409.1 + 6723 0.67 0.968006
Target:  5'- aGCAGGGAUgcgauuuuucguuuuUUACCcACUGuCAGGCUu -3'
miRNA:   3'- aCGUCUCUG---------------GAUGGaUGACuGUCUGG- -5'
13421 3' -52.1 NC_003409.1 + 129961 0.67 0.966718
Target:  5'- -----uGGCCUGCUUGCUGACcgggucGACCa -3'
miRNA:   3'- acgucuCUGGAUGGAUGACUGu-----CUGG- -5'
13421 3' -52.1 NC_003409.1 + 13458 0.67 0.964718
Target:  5'- aGCGGAGACCgugACaCUacaagggcgaaagauGCUGGagagaucuCAGGCCu -3'
miRNA:   3'- aCGUCUCUGGa--UG-GA---------------UGACU--------GUCUGG- -5'
13421 3' -52.1 NC_003409.1 + 86609 0.67 0.963339
Target:  5'- gUGCGGGGACCUggACCU-CgGGCGccgccuauccguGGCCu -3'
miRNA:   3'- -ACGUCUCUGGA--UGGAuGaCUGU------------CUGG- -5'
13421 3' -52.1 NC_003409.1 + 11004 0.67 0.963339
Target:  5'- cGCAGGGcACCU-CCUAgcGGCGGAgCCc -3'
miRNA:   3'- aCGUCUC-UGGAuGGAUgaCUGUCU-GG- -5'
13421 3' -52.1 NC_003409.1 + 94544 0.67 0.962988
Target:  5'- aGCAGAGGCaggACCUAacuagGAgcauaucCGGACCu -3'
miRNA:   3'- aCGUCUCUGga-UGGAUga---CU-------GUCUGG- -5'
13421 3' -52.1 NC_003409.1 + 4189 0.67 0.959353
Target:  5'- cGCAGAGcagGCCUugCaUAUUGGCGcccagcuguuugcGGCCa -3'
miRNA:   3'- aCGUCUC---UGGAugG-AUGACUGU-------------CUGG- -5'
13421 3' -52.1 NC_003409.1 + 77135 0.67 0.955878
Target:  5'- --gAGAGAUCgGCCU-CUGACGG-CCa -3'
miRNA:   3'- acgUCUCUGGaUGGAuGACUGUCuGG- -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.