miRNA display CGI


Results 1 - 20 of 47 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
16504 3' -57.5 NC_004084.1 + 48192 0.66 0.65397
Target:  5'- aGGCGACcUCaagcgGCGACG--GGUGGCGGa -3'
miRNA:   3'- -CUGCUGcAGa----CGCUGUagCCGCCGCU- -5'
16504 3' -57.5 NC_004084.1 + 6318 0.66 0.65397
Target:  5'- -cCGACGUCgacaucccgGCGguaACGUCGGCGauguacGCGAc -3'
miRNA:   3'- cuGCUGCAGa--------CGC---UGUAGCCGC------CGCU- -5'
16504 3' -57.5 NC_004084.1 + 19078 0.66 0.643262
Target:  5'- cGCGGcCGUCUacGuCGACGUCGaucagcaccGCGGCGGc -3'
miRNA:   3'- cUGCU-GCAGA--C-GCUGUAGC---------CGCCGCU- -5'
16504 3' -57.5 NC_004084.1 + 50239 0.66 0.632545
Target:  5'- aACGAguCcUCUGCGuccucgucgcCGUUGGCGGCGAg -3'
miRNA:   3'- cUGCU--GcAGACGCu---------GUAGCCGCCGCU- -5'
16504 3' -57.5 NC_004084.1 + 56118 0.66 0.632545
Target:  5'- -uCGACGUCgUGCGccgcaguguCGUCGGCGuCGAc -3'
miRNA:   3'- cuGCUGCAG-ACGCu--------GUAGCCGCcGCU- -5'
16504 3' -57.5 NC_004084.1 + 16945 0.66 0.631473
Target:  5'- cGGCgGGCGUC-GCGACGUCGGgucuucgagcgccUGGaCGAc -3'
miRNA:   3'- -CUG-CUGCAGaCGCUGUAGCC-------------GCC-GCU- -5'
16504 3' -57.5 NC_004084.1 + 47364 0.66 0.621827
Target:  5'- cGGCGGCcgccccuucGUCcGCGuCGUCGaCGGCGAg -3'
miRNA:   3'- -CUGCUG---------CAGaCGCuGUAGCcGCCGCU- -5'
16504 3' -57.5 NC_004084.1 + 3522 0.66 0.621827
Target:  5'- aGCG-CGUCUGgGACuucugguUCGGCGaCGAc -3'
miRNA:   3'- cUGCuGCAGACgCUGu------AGCCGCcGCU- -5'
16504 3' -57.5 NC_004084.1 + 39834 0.66 0.611118
Target:  5'- uGAUGGCG-CU-CGAgucCAUCGGCGGCc- -3'
miRNA:   3'- -CUGCUGCaGAcGCU---GUAGCCGCCGcu -5'
16504 3' -57.5 NC_004084.1 + 43777 0.66 0.611118
Target:  5'- cGACugGGCGcUCgccgGCGGagaGUcCGGCGGCGAg -3'
miRNA:   3'- -CUG--CUGC-AGa---CGCUg--UA-GCCGCCGCU- -5'
16504 3' -57.5 NC_004084.1 + 11690 0.67 0.58976
Target:  5'- aGCGACGUCUacaCGGCGUCGGaaGCc- -3'
miRNA:   3'- cUGCUGCAGAc--GCUGUAGCCgcCGcu -5'
16504 3' -57.5 NC_004084.1 + 30011 0.67 0.58976
Target:  5'- uGACGACGUCaGCGuucGCAUCGaC-GCGAa -3'
miRNA:   3'- -CUGCUGCAGaCGC---UGUAGCcGcCGCU- -5'
16504 3' -57.5 NC_004084.1 + 55065 0.67 0.579128
Target:  5'- cGACGcACGUC-GaCGACcaAUCGGCGGUu- -3'
miRNA:   3'- -CUGC-UGCAGaC-GCUG--UAGCCGCCGcu -5'
16504 3' -57.5 NC_004084.1 + 45645 0.67 0.579128
Target:  5'- cGACGGCGUCucggaUGcCGACAacgacgagacggUCGGCGuCGAc -3'
miRNA:   3'- -CUGCUGCAG-----AC-GCUGU------------AGCCGCcGCU- -5'
16504 3' -57.5 NC_004084.1 + 30840 0.67 0.579128
Target:  5'- cGCGACGUCgaaaGAgGUgGGCGGCc- -3'
miRNA:   3'- cUGCUGCAGacg-CUgUAgCCGCCGcu -5'
16504 3' -57.5 NC_004084.1 + 57816 0.67 0.568537
Target:  5'- uGCGugGUCUGguUGACGUCGGCcGUc- -3'
miRNA:   3'- cUGCugCAGAC--GCUGUAGCCGcCGcu -5'
16504 3' -57.5 NC_004084.1 + 53249 0.68 0.537088
Target:  5'- gGGCGGuCGUCgacgGCGACGagaUCGGgccgGGCGAc -3'
miRNA:   3'- -CUGCU-GCAGa---CGCUGU---AGCCg---CCGCU- -5'
16504 3' -57.5 NC_004084.1 + 3174 0.68 0.535011
Target:  5'- aGACGuCGUCgacgGCGAgGacgugaacgaggCGGUGGCGAa -3'
miRNA:   3'- -CUGCuGCAGa---CGCUgUa-----------GCCGCCGCU- -5'
16504 3' -57.5 NC_004084.1 + 54111 0.68 0.526735
Target:  5'- cGACGACGcCcGCGAuCAcCGGCGG-GAc -3'
miRNA:   3'- -CUGCUGCaGaCGCU-GUaGCCGCCgCU- -5'
16504 3' -57.5 NC_004084.1 + 2404 0.68 0.523643
Target:  5'- cGACGACGagUcgagggcaaaguacGCGAuCGUgGGCGGUGAa -3'
miRNA:   3'- -CUGCUGCagA--------------CGCU-GUAgCCGCCGCU- -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.