miRNA display CGI


Results 1 - 20 of 81 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
29152 3' -58.5 NC_006146.1 + 169738 0.69 0.663531
Target:  5'- --gGcgCGGGGgaGCCCcgGGGCGG-CCCg -3'
miRNA:   3'- cuaCuaGCCCCa-CGGG--UCUGCCuGGG- -5'
29152 3' -58.5 NC_006146.1 + 168806 0.69 0.663531
Target:  5'- --gGcgCGGGGgaGCCCcgGGGCGG-CCCg -3'
miRNA:   3'- cuaCuaGCCCCa-CGGG--UCUGCCuGGG- -5'
29152 3' -58.5 NC_006146.1 + 167874 0.69 0.663531
Target:  5'- --gGcgCGGGGgaGCCCcgGGGCGG-CCCg -3'
miRNA:   3'- cuaCuaGCCCCa-CGGG--UCUGCCuGGG- -5'
29152 3' -58.5 NC_006146.1 + 167066 0.66 0.859978
Target:  5'- --aGGUCcgguagggcagcgGGGGUGCCCcgccuGGCcuGACCCa -3'
miRNA:   3'- cuaCUAG-------------CCCCACGGGu----CUGc-CUGGG- -5'
29152 3' -58.5 NC_006146.1 + 164635 0.93 0.027451
Target:  5'- aGAUGAUCGGGGU-CgCCAGACGGACCCu -3'
miRNA:   3'- -CUACUAGCCCCAcG-GGUCUGCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 163440 0.69 0.712478
Target:  5'- aGGUGAuugcucacUCGGGGUGCCCGGucuugcaGGuuCUg -3'
miRNA:   3'- -CUACU--------AGCCCCACGGGUCug-----CCugGG- -5'
29152 3' -58.5 NC_006146.1 + 161763 0.67 0.821406
Target:  5'- --aGGUCcgagGGGGcGCCUGGGCGGggGCCUg -3'
miRNA:   3'- cuaCUAG----CCCCaCGGGUCUGCC--UGGG- -5'
29152 3' -58.5 NC_006146.1 + 158419 0.67 0.804502
Target:  5'- --gGAU-GGGGaagccggaGUCCAGAgGGGCCCg -3'
miRNA:   3'- cuaCUAgCCCCa-------CGGGUCUgCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 157766 0.69 0.711511
Target:  5'- --aGGUcCGGGGUGuugagccugcugcCCCAGGagaggcCGGACCCc -3'
miRNA:   3'- cuaCUA-GCCCCAC-------------GGGUCU------GCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 157466 0.66 0.845533
Target:  5'- aAUGGUcaCGGGcagcGUGaugaCCGGGCGGGCCUu -3'
miRNA:   3'- cUACUA--GCCC----CACg---GGUCUGCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 157063 0.66 0.860719
Target:  5'- -----cCGGGGUcccuccggccgGCCU-GAUGGACCCg -3'
miRNA:   3'- cuacuaGCCCCA-----------CGGGuCUGCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 155340 0.67 0.804502
Target:  5'- --gGAU-GGGGaagccggaGUCCAGAgGGGCCCg -3'
miRNA:   3'- cuaCUAgCCCCa-------CGGGUCUgCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 154887 0.66 0.837664
Target:  5'- ---cGUCGGGGggcagggccucGCCCGGGCuGACCg -3'
miRNA:   3'- cuacUAGCCCCa----------CGGGUCUGcCUGGg -5'
29152 3' -58.5 NC_006146.1 + 154687 0.67 0.820576
Target:  5'- --gGAgucCGGGGUGuugagccugcugcCCCAGGagaggcCGGACCCc -3'
miRNA:   3'- cuaCUa--GCCCCAC-------------GGGUCU------GCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 153985 0.66 0.860719
Target:  5'- -----cCGGGGUcccuccggccgGCCU-GAUGGACCCg -3'
miRNA:   3'- cuacuaGCCCCA-----------CGGGuCUGCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 152262 0.67 0.804502
Target:  5'- --gGAU-GGGGaagccggaGUCCAGAgGGGCCCg -3'
miRNA:   3'- cuaCUAgCCCCa-------CGGGUCUgCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 151611 0.69 0.711511
Target:  5'- --aGGUcCGGGGUGuugagccugcugcCCCAGGagaggcCGGACCCc -3'
miRNA:   3'- cuaCUA-GCCCCAC-------------GGGUCU------GCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 150907 0.66 0.860719
Target:  5'- -----cCGGGGUcccuccggccgGCCU-GAUGGACCCg -3'
miRNA:   3'- cuacuaGCCCCA-----------CGGGuCUGCCUGGG- -5'
29152 3' -58.5 NC_006146.1 + 149924 0.69 0.690099
Target:  5'- aGAUGAcucguagccugcccUCGGGGUugaggggcGCCCAGGCguugggaguggGGGCCa -3'
miRNA:   3'- -CUACU--------------AGCCCCA--------CGGGUCUG-----------CCUGGg -5'
29152 3' -58.5 NC_006146.1 + 149184 0.67 0.804502
Target:  5'- --gGAU-GGGGaagccggaGUCCAGAgGGGCCCg -3'
miRNA:   3'- cuaCUAgCCCCa-------CGGGUCUgCCUGGG- -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.