miRNA display CGI


Results 1 - 20 of 27 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
23463 3' -53.5 NC_005259.1 + 67054 0.7 0.639764
Target:  5'- aGCAcccgugCGCCGAUCUCaagGGCC--AGCg -3'
miRNA:   3'- -CGUaa----GCGGCUAGAGca-CCGGcaUCG- -5'
23463 3' -53.5 NC_005259.1 + 61263 0.67 0.841114
Target:  5'- aGCAUgcgaccgUCGCUGGUCUCGauGCCGacgaacgcgAGCg -3'
miRNA:   3'- -CGUA-------AGCGGCUAGAGCacCGGCa--------UCG- -5'
23463 3' -53.5 NC_005259.1 + 60500 0.66 0.849653
Target:  5'- aGCAcgCGCCGGUgUUGUcguagugcgccauGGCCG-GGCc -3'
miRNA:   3'- -CGUaaGCGGCUAgAGCA-------------CCGGCaUCG- -5'
23463 3' -53.5 NC_005259.1 + 60469 0.67 0.833246
Target:  5'- ----aCGCUGGUCUCGUaGGCaCGcaccAGCg -3'
miRNA:   3'- cguaaGCGGCUAGAGCA-CCG-GCa---UCG- -5'
23463 3' -53.5 NC_005259.1 + 60213 0.73 0.480597
Target:  5'- ---cUCGCCGAUCUCGUcGGCgcugAGCu -3'
miRNA:   3'- cguaAGCGGCUAGAGCA-CCGgca-UCG- -5'
23463 3' -53.5 NC_005259.1 + 60079 0.67 0.824307
Target:  5'- gGCGgcUCGCCGAcuuUCUCGaUGGCg--AGCu -3'
miRNA:   3'- -CGUa-AGCGGCU---AGAGC-ACCGgcaUCG- -5'
23463 3' -53.5 NC_005259.1 + 58433 0.7 0.65064
Target:  5'- gGCAgauugCGCUGAUCg-GUGGCCuUGGUg -3'
miRNA:   3'- -CGUaa---GCGGCUAGagCACCGGcAUCG- -5'
23463 3' -53.5 NC_005259.1 + 56893 0.66 0.866848
Target:  5'- ----cCGCCaAUCgcagCGUGGCCGccGCa -3'
miRNA:   3'- cguaaGCGGcUAGa---GCACCGGCauCG- -5'
23463 3' -53.5 NC_005259.1 + 50241 0.67 0.833246
Target:  5'- cGCGggCGCgGA--UCGUGGCCaacgGGCu -3'
miRNA:   3'- -CGUaaGCGgCUagAGCACCGGca--UCG- -5'
23463 3' -53.5 NC_005259.1 + 49555 0.67 0.81517
Target:  5'- ----gUGCCGGgcugUUCGUcGGUCGUGGCc -3'
miRNA:   3'- cguaaGCGGCUa---GAGCA-CCGGCAUCG- -5'
23463 3' -53.5 NC_005259.1 + 45514 0.69 0.725731
Target:  5'- gGCcaccgCGCCGGUgUUGgccGCCGUGGCu -3'
miRNA:   3'- -CGuaa--GCGGCUAgAGCac-CGGCAUCG- -5'
23463 3' -53.5 NC_005259.1 + 37582 0.69 0.73514
Target:  5'- cGCccgCGCCGAUCugcaagcugaacgUCG-GGCCG-AGCu -3'
miRNA:   3'- -CGuaaGCGGCUAG-------------AGCaCCGGCaUCG- -5'
23463 3' -53.5 NC_005259.1 + 31889 0.72 0.542656
Target:  5'- ---cUCGCCGGUCUCaaGGcCCGgcGCg -3'
miRNA:   3'- cguaAGCGGCUAGAGcaCC-GGCauCG- -5'
23463 3' -53.5 NC_005259.1 + 31859 0.66 0.874671
Target:  5'- cGCGUcaUUGgCGAUCUUGUcGGUCGUGa- -3'
miRNA:   3'- -CGUA--AGCgGCUAGAGCA-CCGGCAUcg -5'
23463 3' -53.5 NC_005259.1 + 28960 0.71 0.585467
Target:  5'- cGCA-UCGCCGAggUCGgugccgaGGCCGcgAGCg -3'
miRNA:   3'- -CGUaAGCGGCUagAGCa------CCGGCa-UCG- -5'
23463 3' -53.5 NC_005259.1 + 26435 0.66 0.866848
Target:  5'- cGCAc-CGCCGAg--CGggcgGGCCGgugGGCc -3'
miRNA:   3'- -CGUaaGCGGCUagaGCa---CCGGCa--UCG- -5'
23463 3' -53.5 NC_005259.1 + 26125 0.67 0.824307
Target:  5'- cGCcggUCGCCGGUCcgacgccgcCGaGGCCG-AGCa -3'
miRNA:   3'- -CGua-AGCGGCUAGa--------GCaCCGGCaUCG- -5'
23463 3' -53.5 NC_005259.1 + 24677 0.67 0.833246
Target:  5'- cCGUUCGCCaucCUCGUGcacguGCCG-AGCg -3'
miRNA:   3'- cGUAAGCGGcuaGAGCAC-----CGGCaUCG- -5'
23463 3' -53.5 NC_005259.1 + 15421 0.67 0.824307
Target:  5'- uGCGUgccaccaagGCCGAUCUCGaguaucUGGCCGagaucaacccguUGGCc -3'
miRNA:   3'- -CGUAag-------CGGCUAGAGC------ACCGGC------------AUCG- -5'
23463 3' -53.5 NC_005259.1 + 14729 0.66 0.858787
Target:  5'- cGCucgUCGCCGAgauguacgCGcUGGCCG-GGCc -3'
miRNA:   3'- -CGua-AGCGGCUaga-----GC-ACCGGCaUCG- -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.