miRNA display CGI


Results 1 - 20 of 97 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
28179 5' -57.7 NC_005887.1 + 40963 0.66 0.49249
Target:  5'- gGGCCcaugaugaacgaGCGCGaCGcGCGGGACAGGauguaGCg -3'
miRNA:   3'- aCCGG------------CGUGUaGC-CGUUCUGUCCg----UG- -5'
28179 5' -57.7 NC_005887.1 + 23426 0.68 0.34078
Target:  5'- cGGCCGCuGCGagauUCGGUGAGcgcuGCGGGCu- -3'
miRNA:   3'- aCCGGCG-UGU----AGCCGUUC----UGUCCGug -5'
28179 5' -57.7 NC_005887.1 + 33466 0.68 0.332491
Target:  5'- aGGuCCGCgagcGCGUaCGGCGucgcgaucucGACGGGCGCg -3'
miRNA:   3'- aCC-GGCG----UGUA-GCCGUu---------CUGUCCGUG- -5'
28179 5' -57.7 NC_005887.1 + 14917 0.76 0.100465
Target:  5'- gGGCCgGCAUGggccUCGGCAAGACGGucaGCACg -3'
miRNA:   3'- aCCGG-CGUGU----AGCCGUUCUGUC---CGUG- -5'
28179 5' -57.7 NC_005887.1 + 10514 0.66 0.451447
Target:  5'- -aGCCGUauucggaacgggGCggCGGCAAGAaGGGCAUg -3'
miRNA:   3'- acCGGCG------------UGuaGCCGUUCUgUCCGUG- -5'
28179 5' -57.7 NC_005887.1 + 32738 0.67 0.431639
Target:  5'- cGGUCGCGCAUCaGGCAAagccGAUu-GCGCc -3'
miRNA:   3'- aCCGGCGUGUAG-CCGUU----CUGucCGUG- -5'
28179 5' -57.7 NC_005887.1 + 30258 0.67 0.412348
Target:  5'- cGGCCaGCACGUCGGUGAccuGACcGaGCGa -3'
miRNA:   3'- aCCGG-CGUGUAGCCGUU---CUGuC-CGUg -5'
28179 5' -57.7 NC_005887.1 + 6800 0.67 0.402905
Target:  5'- -cGCCGCACAugUCGaGC-AGACcaucGGCGCu -3'
miRNA:   3'- acCGGCGUGU--AGC-CGuUCUGu---CCGUG- -5'
28179 5' -57.7 NC_005887.1 + 37525 0.67 0.3936
Target:  5'- cGGUCGaCugGUUGGCGcGGCAGaacuGCGCg -3'
miRNA:   3'- aCCGGC-GugUAGCCGUuCUGUC----CGUG- -5'
28179 5' -57.7 NC_005887.1 + 2189 0.68 0.349217
Target:  5'- -cGUCGCGCAgcucacacgCGGCGAGcGCGGcGCGCa -3'
miRNA:   3'- acCGGCGUGUa--------GCCGUUC-UGUC-CGUG- -5'
28179 5' -57.7 NC_005887.1 + 6440 0.67 0.384435
Target:  5'- cGGCCGCGCcgagAUCGaaguGCGcgaccugaAGuACGGGCGCg -3'
miRNA:   3'- aCCGGCGUG----UAGC----CGU--------UC-UGUCCGUG- -5'
28179 5' -57.7 NC_005887.1 + 37839 0.67 0.3936
Target:  5'- -cGCCGCcguaGUCGGCGAG-CAGacGCGCg -3'
miRNA:   3'- acCGGCGug--UAGCCGUUCuGUC--CGUG- -5'
28179 5' -57.7 NC_005887.1 + 6955 0.66 0.49249
Target:  5'- aGGCCGUgcgcgggcGCAUCGaGCAugAGcuguGCAGGCccGCg -3'
miRNA:   3'- aCCGGCG--------UGUAGC-CGU--UC----UGUCCG--UG- -5'
28179 5' -57.7 NC_005887.1 + 5931 0.68 0.357803
Target:  5'- cGGCCGCg---CGG-AAGGCGGuGCGCa -3'
miRNA:   3'- aCCGGCGuguaGCCgUUCUGUC-CGUG- -5'
28179 5' -57.7 NC_005887.1 + 41528 0.66 0.482063
Target:  5'- cGGCCGCG-AUCGcGCGAG-CAuGGCu- -3'
miRNA:   3'- aCCGGCGUgUAGC-CGUUCuGU-CCGug -5'
28179 5' -57.7 NC_005887.1 + 362 0.67 0.402905
Target:  5'- gGGCCGCAgGcCGuGCugcuGAUAGGCGa -3'
miRNA:   3'- aCCGGCGUgUaGC-CGuu--CUGUCCGUg -5'
28179 5' -57.7 NC_005887.1 + 15654 0.68 0.349217
Target:  5'- cGGCCGCGCGaCGGCuguaucgcGACAuggaacGGCAg -3'
miRNA:   3'- aCCGGCGUGUaGCCGuu------CUGU------CCGUg -5'
28179 5' -57.7 NC_005887.1 + 27370 0.68 0.34078
Target:  5'- cGGCCuGCGCGgccugcgCGGCGuAGGCGucgaguugcGGCGCg -3'
miRNA:   3'- aCCGG-CGUGUa------GCCGU-UCUGU---------CCGUG- -5'
28179 5' -57.7 NC_005887.1 + 13165 0.66 0.470717
Target:  5'- aGGCCGCGCAgauccUCGcagcgcaGCAAGACAucCGCu -3'
miRNA:   3'- aCCGGCGUGU-----AGC-------CGUUCUGUccGUG- -5'
28179 5' -57.7 NC_005887.1 + 5245 0.67 0.431639
Target:  5'- cGGCCGCGCgAUCGcCGAGGCuGuGCuCg -3'
miRNA:   3'- aCCGGCGUG-UAGCcGUUCUGuC-CGuG- -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.