miRNA display CGI


Results 1 - 20 of 45 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
27066 3' -49.7 NC_005832.1 + 72292 0.66 0.993727
Target:  5'- gGGUcccAGGGGC-GACCaggGGCCGcAAGGAg -3'
miRNA:   3'- -CCA---UUUCUGcCUGGa--CCGGCaUUUCU- -5'
27066 3' -49.7 NC_005832.1 + 105387 0.68 0.971492
Target:  5'- cGGgccAGACGGuccagacauCCUGaCCGUAAAGAc -3'
miRNA:   3'- -CCauuUCUGCCu--------GGACcGGCAUUUCU- -5'
27066 3' -49.7 NC_005832.1 + 93639 0.68 0.971492
Target:  5'- gGGUGuGAGcCGGGuuUGccGCCGUAGAGAa -3'
miRNA:   3'- -CCAU-UUCuGCCUggAC--CGGCAUUUCU- -5'
27066 3' -49.7 NC_005832.1 + 72739 0.67 0.983819
Target:  5'- uGGgcAAGACGGGuCCcaggGGCCcaGAGGGc -3'
miRNA:   3'- -CCauUUCUGCCU-GGa---CCGGcaUUUCU- -5'
27066 3' -49.7 NC_005832.1 + 32452 0.67 0.985702
Target:  5'- --aGGAGGCaGuACCUGGCCGcAAAGu -3'
miRNA:   3'- ccaUUUCUGcC-UGGACCGGCaUUUCu -5'
27066 3' -49.7 NC_005832.1 + 63911 0.67 0.985702
Target:  5'- --gGAGGACGGAgaUGGCgGUcgcAGAGAg -3'
miRNA:   3'- ccaUUUCUGCCUggACCGgCA---UUUCU- -5'
27066 3' -49.7 NC_005832.1 + 76391 0.66 0.990222
Target:  5'- --cAAGGGCcucuacuacuugaGGACCUGcGCCGgGAGGAc -3'
miRNA:   3'- ccaUUUCUG-------------CCUGGAC-CGGCaUUUCU- -5'
27066 3' -49.7 NC_005832.1 + 5700 0.66 0.992729
Target:  5'- cGGggGAGACGGugACCaGGCCGc----- -3'
miRNA:   3'- -CCauUUCUGCC--UGGaCCGGCauuucu -5'
27066 3' -49.7 NC_005832.1 + 94747 0.66 0.992729
Target:  5'- uGGUcuGGAgGGACUgcaGGCCcagGAGGAu -3'
miRNA:   3'- -CCAuuUCUgCCUGGa--CCGGca-UUUCU- -5'
27066 3' -49.7 NC_005832.1 + 28073 0.68 0.968381
Target:  5'- uGGUGGGGACcaagaGGcCCUuuGCCGUGGAGGu -3'
miRNA:   3'- -CCAUUUCUG-----CCuGGAc-CGGCAUUUCU- -5'
27066 3' -49.7 NC_005832.1 + 43389 0.69 0.96145
Target:  5'- cGUGAGGAgGGugCUGGaCCcaGAGGGg -3'
miRNA:   3'- cCAUUUCUgCCugGACC-GGcaUUUCU- -5'
27066 3' -49.7 NC_005832.1 + 27951 0.69 0.953531
Target:  5'- gGGUcccgccGGAGACGG-CCUGGUCGUc---- -3'
miRNA:   3'- -CCA------UUUCUGCCuGGACCGGCAuuucu -5'
27066 3' -49.7 NC_005832.1 + 41065 0.75 0.707126
Target:  5'- gGGUAcGGGACGGcAUCaaaguaaaacgaUGGCCGUAAAGAc -3'
miRNA:   3'- -CCAU-UUCUGCC-UGG------------ACCGGCAUUUCU- -5'
27066 3' -49.7 NC_005832.1 + 97035 0.74 0.779128
Target:  5'- cGUGGuGGCGGACCUGGCCu------ -3'
miRNA:   3'- cCAUUuCUGCCUGGACCGGcauuucu -5'
27066 3' -49.7 NC_005832.1 + 36233 0.74 0.788907
Target:  5'- cGGgaGGGucGCGGACCUugaGGCCGUAcuugGAGAg -3'
miRNA:   3'- -CCauUUC--UGCCUGGA---CCGGCAU----UUCU- -5'
27066 3' -49.7 NC_005832.1 + 74451 0.73 0.817249
Target:  5'- aGUAccuGACGGGCCUGgacGCCGUcAAGAu -3'
miRNA:   3'- cCAUuu-CUGCCUGGAC---CGGCAuUUCU- -5'
27066 3' -49.7 NC_005832.1 + 40820 0.72 0.876332
Target:  5'- aGGgccAGGcCGGACCUGggagccacccuGCCGUAGAGGc -3'
miRNA:   3'- -CCau-UUCuGCCUGGAC-----------CGGCAUUUCU- -5'
27066 3' -49.7 NC_005832.1 + 2023 0.71 0.900841
Target:  5'- cGGacuuuAAGACGGuCCUGGggucugcccuccucaCCGUGGAGAg -3'
miRNA:   3'- -CCau---UUCUGCCuGGACC---------------GGCAUUUCU- -5'
27066 3' -49.7 NC_005832.1 + 65644 0.7 0.934576
Target:  5'- uGG-AAGGACaGGAaggcCCUGGCCGUcuucaGGGGAu -3'
miRNA:   3'- -CCaUUUCUG-CCU----GGACCGGCA-----UUUCU- -5'
27066 3' -49.7 NC_005832.1 + 61911 0.69 0.949188
Target:  5'- -cUAGAGAUGGACUcgaggaGGCCGUuuGGGu -3'
miRNA:   3'- ccAUUUCUGCCUGGa-----CCGGCAuuUCU- -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.