miRNA display CGI


Results 1 - 11 of 11 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
28546 3' -59.4 NC_005946.1 + 13760 0.66 0.727586
Target:  5'- uCCAgUCCgacgcauacgcCUCGGCCugggaccAGGACGCCGg- -3'
miRNA:   3'- -GGU-AGGa----------GAGCCGGc------UCCUGCGGCac -5'
28546 3' -59.4 NC_005946.1 + 57903 0.66 0.717808
Target:  5'- gCCAgggcCCUgUUGGCCGGGGgggagaGCGCCc-- -3'
miRNA:   3'- -GGUa---GGAgAGCCGGCUCC------UGCGGcac -5'
28546 3' -59.4 NC_005946.1 + 92014 0.66 0.707958
Target:  5'- aCAUCUUUUCGG-CGuGGACGCacagcuuuaCGUGa -3'
miRNA:   3'- gGUAGGAGAGCCgGCuCCUGCG---------GCAC- -5'
28546 3' -59.4 NC_005946.1 + 65032 0.66 0.698046
Target:  5'- -gAUCCUCUCGcCCGccuuGACGCCGcUGa -3'
miRNA:   3'- ggUAGGAGAGCcGGCuc--CUGCGGC-AC- -5'
28546 3' -59.4 NC_005946.1 + 76592 0.67 0.647845
Target:  5'- uCCAUCCggugacaUCGGuCCGGucGGGC-CCGUGg -3'
miRNA:   3'- -GGUAGGag-----AGCC-GGCU--CCUGcGGCAC- -5'
28546 3' -59.4 NC_005946.1 + 98632 0.69 0.557321
Target:  5'- uCCA-CCUCcugcggCGGCCGuGGugGCCu-- -3'
miRNA:   3'- -GGUaGGAGa-----GCCGGCuCCugCGGcac -5'
28546 3' -59.4 NC_005946.1 + 2881 0.7 0.452417
Target:  5'- cCUGUCCUCgcaggacgcCGGCUGGGccacuaggcccGACGCCGUGu -3'
miRNA:   3'- -GGUAGGAGa--------GCCGGCUC-----------CUGCGGCAC- -5'
28546 3' -59.4 NC_005946.1 + 12908 0.71 0.434487
Target:  5'- gCCcgCUUUguugggcgcgUCGGCCGcGGAgGCCGUGg -3'
miRNA:   3'- -GGuaGGAG----------AGCCGGCuCCUgCGGCAC- -5'
28546 3' -59.4 NC_005946.1 + 60164 0.72 0.383279
Target:  5'- cCCAgauguaCCUCUCGgaGCCGgucAGGGCuGCCGUGg -3'
miRNA:   3'- -GGUa-----GGAGAGC--CGGC---UCCUG-CGGCAC- -5'
28546 3' -59.4 NC_005946.1 + 36643 0.73 0.306601
Target:  5'- cCCAUCCUcCUCGaaagacaGCUG-GGACGCCGUc -3'
miRNA:   3'- -GGUAGGA-GAGC-------CGGCuCCUGCGGCAc -5'
28546 3' -59.4 NC_005946.1 + 21318 0.76 0.200556
Target:  5'- -uGUCCagggCUUGGCCGAGGAgGCCGg- -3'
miRNA:   3'- ggUAGGa---GAGCCGGCUCCUgCGGCac -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.