miRNA display CGI


Results 1 - 18 of 18 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
28420 3' -62.2 NC_005946.1 + 43675 0.66 0.564199
Target:  5'- aGGGucccGUAGAGGGACCccaGGuCCGaGCCGu -3'
miRNA:   3'- cCCCu---CGUCUCCCUGG---UC-GGCcUGGU- -5'
28420 3' -62.2 NC_005946.1 + 13662 0.66 0.544517
Target:  5'- -aGGAGguG-GGGAUCGGCUGcggaGGCCAg -3'
miRNA:   3'- ccCCUCguCuCCCUGGUCGGC----CUGGU- -5'
28420 3' -62.2 NC_005946.1 + 27456 0.66 0.525064
Target:  5'- -aGGAGCcuccuGAGGGGCCcGCCcucGGCCGa -3'
miRNA:   3'- ccCCUCGu----CUCCCUGGuCGGc--CUGGU- -5'
28420 3' -62.2 NC_005946.1 + 76382 0.67 0.50588
Target:  5'- -cGGAGCGGuGGGuCCAaCCGGucCCAg -3'
miRNA:   3'- ccCCUCGUCuCCCuGGUcGGCCu-GGU- -5'
28420 3' -62.2 NC_005946.1 + 97958 0.67 0.50588
Target:  5'- aGGGGAG-GGAGacGACUGGCaGGGCCAg -3'
miRNA:   3'- -CCCCUCgUCUCc-CUGGUCGgCCUGGU- -5'
28420 3' -62.2 NC_005946.1 + 17993 0.67 0.496401
Target:  5'- aGGGccuuGAuCAGGGuGGACUuGCCGGACCc -3'
miRNA:   3'- -CCC----CUcGUCUC-CCUGGuCGGCCUGGu -5'
28420 3' -62.2 NC_005946.1 + 79454 0.67 0.487003
Target:  5'- gGGGuGGGCcGGGuGGACgCuccugGGCUGGACCAc -3'
miRNA:   3'- -CCC-CUCGuCUC-CCUG-G-----UCGGCCUGGU- -5'
28420 3' -62.2 NC_005946.1 + 85244 0.67 0.468465
Target:  5'- aGGGAGCuG-GGGGCCAGg-GGACUg -3'
miRNA:   3'- cCCCUCGuCuCCCUGGUCggCCUGGu -5'
28420 3' -62.2 NC_005946.1 + 10616 0.68 0.449398
Target:  5'- cGGGAGUGGAGGGGuccacuuUCAGCgGcACCAc -3'
miRNA:   3'- cCCCUCGUCUCCCU-------GGUCGgCcUGGU- -5'
28420 3' -62.2 NC_005946.1 + 34768 0.68 0.439582
Target:  5'- cGGcGGGGUAGGGGGACUuucucccaaacuGCCaGGGCUc -3'
miRNA:   3'- -CC-CCUCGUCUCCCUGGu-----------CGG-CCUGGu -5'
28420 3' -62.2 NC_005946.1 + 49065 0.68 0.432521
Target:  5'- --cGAGCAGGGGaGCCAGUCaGACCu -3'
miRNA:   3'- cccCUCGUCUCCcUGGUCGGcCUGGu -5'
28420 3' -62.2 NC_005946.1 + 95161 0.68 0.412596
Target:  5'- uGGGGGCGGAGGuccucgcgggcaucuCCAGCCcGGACg- -3'
miRNA:   3'- cCCCUCGUCUCCcu-------------GGUCGG-CCUGgu -5'
28420 3' -62.2 NC_005946.1 + 49420 0.69 0.393248
Target:  5'- aGGGGA-CGGGGuccucguagacgggaGGACCGccGUCGGACCAa -3'
miRNA:   3'- -CCCCUcGUCUC---------------CCUGGU--CGGCCUGGU- -5'
28420 3' -62.2 NC_005946.1 + 41604 0.7 0.313427
Target:  5'- cGGGGc-CGGcGGGACCAGaaGGACCc -3'
miRNA:   3'- -CCCCucGUCuCCCUGGUCggCCUGGu -5'
28420 3' -62.2 NC_005946.1 + 67562 0.72 0.23732
Target:  5'- uGGuGAGCuGGaGGACCGGCUGGGCCc -3'
miRNA:   3'- cCC-CUCGuCUcCCUGGUCGGCCUGGu -5'
28420 3' -62.2 NC_005946.1 + 102888 0.74 0.172973
Target:  5'- aGGGGucCAGAGGGAcCCAGa-GGACCGg -3'
miRNA:   3'- -CCCCucGUCUCCCU-GGUCggCCUGGU- -5'
28420 3' -62.2 NC_005946.1 + 103051 0.78 0.096342
Target:  5'- uGGGAGCcaGGGGGCUAGUgGGACCAa -3'
miRNA:   3'- cCCCUCGucUCCCUGGUCGgCCUGGU- -5'
28420 3' -62.2 NC_005946.1 + 76633 1.1 0.000453
Target:  5'- aGGGGAGCAGAGGGACCAGCCGGACCAg -3'
miRNA:   3'- -CCCCUCGUCUCCCUGGUCGGCCUGGU- -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.