miRNA display CGI


Results 1 - 16 of 16 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
12531 5' -56.8 NC_003345.1 + 63409 0.66 0.722119
Target:  5'- aGGGGCCGGUg--AGCGAgGAcgcAUCCg- -3'
miRNA:   3'- -CUCCGGCCAguaUCGCUgCU---UGGGag -5'
12531 5' -56.8 NC_003345.1 + 21333 0.66 0.711747
Target:  5'- gGAGcGCCGuuGUCGUcGGUGGCGAACCa-- -3'
miRNA:   3'- -CUC-CGGC--CAGUA-UCGCUGCUUGGgag -5'
12531 5' -56.8 NC_003345.1 + 62854 0.66 0.690793
Target:  5'- gGAGGCCaG-CGUAGgcccCGACGuggaguAGCCCUCa -3'
miRNA:   3'- -CUCCGGcCaGUAUC----GCUGC------UUGGGAG- -5'
12531 5' -56.8 NC_003345.1 + 20353 0.67 0.680231
Target:  5'- cGGGCCGGuugguUCAUcgaaggagacAGCGGCGGcCCCa- -3'
miRNA:   3'- cUCCGGCC-----AGUA----------UCGCUGCUuGGGag -5'
12531 5' -56.8 NC_003345.1 + 33847 0.67 0.644058
Target:  5'- cGGGUCGGUCGgcaucccguacucGGCGGCGAggucaacguACaCCUCg -3'
miRNA:   3'- cUCCGGCCAGUa------------UCGCUGCU---------UG-GGAG- -5'
12531 5' -56.8 NC_003345.1 + 33167 0.67 0.637651
Target:  5'- cGGGUuggCGGUCGgccCGGCGuAGCCCUCg -3'
miRNA:   3'- cUCCG---GCCAGUaucGCUGC-UUGGGAG- -5'
12531 5' -56.8 NC_003345.1 + 15459 0.68 0.616295
Target:  5'- cGGGCCGuGguUCGUAGaaauGAUGAguGCCCUCg -3'
miRNA:   3'- cUCCGGC-C--AGUAUCg---CUGCU--UGGGAG- -5'
12531 5' -56.8 NC_003345.1 + 8095 0.68 0.616295
Target:  5'- aAGGCCGGUCAgu-UGACcGACCC-Cg -3'
miRNA:   3'- cUCCGGCCAGUaucGCUGcUUGGGaG- -5'
12531 5' -56.8 NC_003345.1 + 34511 0.68 0.59499
Target:  5'- cGAGuCCGGUCu--GCGACuguCCCUCa -3'
miRNA:   3'- -CUCcGGCCAGuauCGCUGcuuGGGAG- -5'
12531 5' -56.8 NC_003345.1 + 45976 0.69 0.54238
Target:  5'- -cGGCCcaauccucggGGUCAagccccgugcgAGCGGCGAACCaCUCg -3'
miRNA:   3'- cuCCGG----------CCAGUa----------UCGCUGCUUGG-GAG- -5'
12531 5' -56.8 NC_003345.1 + 19260 0.69 0.539267
Target:  5'- aGAGGCagaGGUCGaAGUGGCGAagcaggaagcucguGCCCa- -3'
miRNA:   3'- -CUCCGg--CCAGUaUCGCUGCU--------------UGGGag -5'
12531 5' -56.8 NC_003345.1 + 60224 0.69 0.511546
Target:  5'- -uGGCCGaGUCGUGGCG--GAACgCUCa -3'
miRNA:   3'- cuCCGGC-CAGUAUCGCugCUUGgGAG- -5'
12531 5' -56.8 NC_003345.1 + 71634 0.7 0.481463
Target:  5'- --cGCCGGgCGUGGCGACaggguacaGAACCCUg -3'
miRNA:   3'- cucCGGCCaGUAUCGCUG--------CUUGGGAg -5'
12531 5' -56.8 NC_003345.1 + 32179 0.71 0.442748
Target:  5'- cGAGGCCGGUCuugucGGUGucuuCGuACCCUUc -3'
miRNA:   3'- -CUCCGGCCAGua---UCGCu---GCuUGGGAG- -5'
12531 5' -56.8 NC_003345.1 + 43189 0.72 0.362549
Target:  5'- cGGGCCGuGUCGUacAGCGGCauccGAACCCg- -3'
miRNA:   3'- cUCCGGC-CAGUA--UCGCUG----CUUGGGag -5'
12531 5' -56.8 NC_003345.1 + 22538 1.08 0.001171
Target:  5'- aGAGGCCGGUCAUAGCGACGAACCCUCc -3'
miRNA:   3'- -CUCCGGCCAGUAUCGCUGCUUGGGAG- -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.