miRNA display CGI


Results 1 - 20 of 21 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
16451 3' -56.8 NC_004084.1 + 56297 0.66 0.684306
Target:  5'- gUGUacuUCGAGGacugcaUCGAGGgcaugucccagcgccUCGAGGGUGAc -3'
miRNA:   3'- gACA---AGCUCU------AGCUCC---------------GGCUCCCGCU- -5'
16451 3' -56.8 NC_004084.1 + 55720 0.66 0.657502
Target:  5'- ---cUCGAGAUCGAGG-CGAGGaaucgucGCGc -3'
miRNA:   3'- gacaAGCUCUAGCUCCgGCUCC-------CGCu -5'
16451 3' -56.8 NC_004084.1 + 22671 0.67 0.61546
Target:  5'- ---aUCGAGAUggcaGAGGCCuGGGGCc- -3'
miRNA:   3'- gacaAGCUCUAg---CUCCGGcUCCCGcu -5'
16451 3' -56.8 NC_004084.1 + 40115 0.67 0.61546
Target:  5'- --cUUCGAGuccuaCGAGGCCGAcGGUGGc -3'
miRNA:   3'- gacAAGCUCua---GCUCCGGCUcCCGCU- -5'
16451 3' -56.8 NC_004084.1 + 35530 0.67 0.61546
Target:  5'- cCUGcgCGuGAUCGAGGaCCucGGcGGCGAg -3'
miRNA:   3'- -GACaaGCuCUAGCUCC-GGc-UC-CCGCU- -5'
16451 3' -56.8 NC_004084.1 + 9074 0.67 0.604693
Target:  5'- -cGUUCgGAGAUCGccgcgguacGCCGAccGGGCGAu -3'
miRNA:   3'- gaCAAG-CUCUAGCuc-------CGGCU--CCCGCU- -5'
16451 3' -56.8 NC_004084.1 + 29571 0.67 0.593948
Target:  5'- -cGUUCGAGGuUCGuGaCCGAGacGGCGAa -3'
miRNA:   3'- gaCAAGCUCU-AGCuCcGGCUC--CCGCU- -5'
16451 3' -56.8 NC_004084.1 + 1044 0.67 0.593948
Target:  5'- ---gUCGGGAUucCGAGGCaucuGGGCGAu -3'
miRNA:   3'- gacaAGCUCUA--GCUCCGgcu-CCCGCU- -5'
16451 3' -56.8 NC_004084.1 + 7494 0.67 0.593948
Target:  5'- -gGUcgUCGAcGUCGAGGCCGAuccgcugcuGGGCc- -3'
miRNA:   3'- gaCA--AGCUcUAGCUCCGGCU---------CCCGcu -5'
16451 3' -56.8 NC_004084.1 + 8199 0.67 0.590731
Target:  5'- -cGUUCGAGAaucagaaCGAcGGCUucaucacgguugcaGAGGGCGAc -3'
miRNA:   3'- gaCAAGCUCUa------GCU-CCGG--------------CUCCCGCU- -5'
16451 3' -56.8 NC_004084.1 + 5710 0.69 0.509745
Target:  5'- -aGUUCGAGGacgUCGcucGGGCCGAGGuccuCGAu -3'
miRNA:   3'- gaCAAGCUCU---AGC---UCCGGCUCCc---GCU- -5'
16451 3' -56.8 NC_004084.1 + 41833 0.69 0.509745
Target:  5'- -cGUagGGGGUgaCGAGGCCGAuGGUGAg -3'
miRNA:   3'- gaCAagCUCUA--GCUCCGGCUcCCGCU- -5'
16451 3' -56.8 NC_004084.1 + 53267 0.69 0.479417
Target:  5'- ----aCGAGAUCG-GGCCGGGcgacguccuGGCGAc -3'
miRNA:   3'- gacaaGCUCUAGCuCCGGCUC---------CCGCU- -5'
16451 3' -56.8 NC_004084.1 + 57225 0.69 0.469504
Target:  5'- -cGUUCaGGAUCGA-GCCGuuGGCGAa -3'
miRNA:   3'- gaCAAGcUCUAGCUcCGGCucCCGCU- -5'
16451 3' -56.8 NC_004084.1 + 21623 0.7 0.440416
Target:  5'- ---gUCGAGAaCGAaGUCGAGGGUGAa -3'
miRNA:   3'- gacaAGCUCUaGCUcCGGCUCCCGCU- -5'
16451 3' -56.8 NC_004084.1 + 22815 0.7 0.412381
Target:  5'- aCUGUg-GAGAUCG-GGCCGGGugaGGCGu -3'
miRNA:   3'- -GACAagCUCUAGCuCCGGCUC---CCGCu -5'
16451 3' -56.8 NC_004084.1 + 32444 0.71 0.394314
Target:  5'- ----aCGAGGUCGAGGUCGAuGGG-GAa -3'
miRNA:   3'- gacaaGCUCUAGCUCCGGCU-CCCgCU- -5'
16451 3' -56.8 NC_004084.1 + 41367 0.72 0.315033
Target:  5'- -cGUcgUCGAcgauuacgaacucucGAUCGAGGuaGAGGGCGAg -3'
miRNA:   3'- gaCA--AGCU---------------CUAGCUCCggCUCCCGCU- -5'
16451 3' -56.8 NC_004084.1 + 51397 0.73 0.307503
Target:  5'- ----aCGAGAuggcggccgacgccgUCGAGGCCuucGAGGGCGAc -3'
miRNA:   3'- gacaaGCUCU---------------AGCUCCGG---CUCCCGCU- -5'
16451 3' -56.8 NC_004084.1 + 54533 0.73 0.30453
Target:  5'- cCUGgacggCGAGAUCGuccGGCgcuguaucacCGAGGGCGAg -3'
miRNA:   3'- -GACaa---GCUCUAGCu--CCG----------GCUCCCGCU- -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.