miRNA display CGI


Results 1 - 20 of 24 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
23489 5' -56.4 NC_005259.1 + 66263 0.66 0.724593
Target:  5'- gGCCCGcGCCGgGCggCG-GCUCAc- -3'
miRNA:   3'- aCGGGCuCGGCaUGuaGCuCGAGUcu -5'
23489 5' -56.4 NC_005259.1 + 33981 0.66 0.714125
Target:  5'- uUGCCCuGAGCCGgguaUGCggUGAGCUgCAa- -3'
miRNA:   3'- -ACGGG-CUCGGC----AUGuaGCUCGA-GUcu -5'
23489 5' -56.4 NC_005259.1 + 31794 0.66 0.692968
Target:  5'- uUGaCCGcGUCGU-CAUCGAGCUCGa- -3'
miRNA:   3'- -ACgGGCuCGGCAuGUAGCUCGAGUcu -5'
23489 5' -56.4 NC_005259.1 + 38064 0.66 0.682298
Target:  5'- cUGCCgaCGAGCCGc-CAUCGAGCa---- -3'
miRNA:   3'- -ACGG--GCUCGGCauGUAGCUCGagucu -5'
23489 5' -56.4 NC_005259.1 + 14021 0.66 0.682298
Target:  5'- cUGCCCGAcgGCaCGauCAUCGAGCggCAGc -3'
miRNA:   3'- -ACGGGCU--CG-GCauGUAGCUCGa-GUCu -5'
23489 5' -56.4 NC_005259.1 + 61392 0.66 0.682298
Target:  5'- cGCCCGAuGCCGU-CGguguccucgCGGGCaCGGAc -3'
miRNA:   3'- aCGGGCU-CGGCAuGUa--------GCUCGaGUCU- -5'
23489 5' -56.4 NC_005259.1 + 27332 0.67 0.657602
Target:  5'- uUGCCuCGGuagagcauccaaucGCCGUACugAUCGGGCUUGGu -3'
miRNA:   3'- -ACGG-GCU--------------CGGCAUG--UAGCUCGAGUCu -5'
23489 5' -56.4 NC_005259.1 + 68116 0.67 0.650057
Target:  5'- aGUUCGGGUCGagaGCAgcggCGAGCUCGGc -3'
miRNA:   3'- aCGGGCUCGGCa--UGUa---GCUCGAGUCu -5'
23489 5' -56.4 NC_005259.1 + 53556 0.68 0.55345
Target:  5'- gGCUCGGGCgGUGCGaucCGAGUaCGGAa -3'
miRNA:   3'- aCGGGCUCGgCAUGUa--GCUCGaGUCU- -5'
23489 5' -56.4 NC_005259.1 + 45224 0.69 0.542913
Target:  5'- aGCCCGAuGCCcUGCAcCuuGCUCAGGu -3'
miRNA:   3'- aCGGGCU-CGGcAUGUaGcuCGAGUCU- -5'
23489 5' -56.4 NC_005259.1 + 50430 0.69 0.542913
Target:  5'- gGCUCGGGCa--GCGgugCGGGCUCGGGg -3'
miRNA:   3'- aCGGGCUCGgcaUGUa--GCUCGAGUCU- -5'
23489 5' -56.4 NC_005259.1 + 63030 0.69 0.538717
Target:  5'- aUGCCCGcgagcugacucgacAGCagcggugCGUACAUCGcgaugAGCUCAGGg -3'
miRNA:   3'- -ACGGGC--------------UCG-------GCAUGUAGC-----UCGAGUCU- -5'
23489 5' -56.4 NC_005259.1 + 4805 0.69 0.522047
Target:  5'- cUGCCCGAGCUGccagACGUUGcGCcgaCAGAc -3'
miRNA:   3'- -ACGGGCUCGGCa---UGUAGCuCGa--GUCU- -5'
23489 5' -56.4 NC_005259.1 + 7313 0.71 0.427043
Target:  5'- gUGCCCGAGUUcaccgccgucgccgaGUACGUCGAGgC-CGGAc -3'
miRNA:   3'- -ACGGGCUCGG---------------CAUGUAGCUC-GaGUCU- -5'
23489 5' -56.4 NC_005259.1 + 59124 0.71 0.423306
Target:  5'- gGCaUCGAGCaGaGCGUCGAGCUCGGc -3'
miRNA:   3'- aCG-GGCUCGgCaUGUAGCUCGAGUCu -5'
23489 5' -56.4 NC_005259.1 + 55762 0.71 0.41405
Target:  5'- cGUgCGcAGCCGcguacGCGUCGAGCUCGGc -3'
miRNA:   3'- aCGgGC-UCGGCa----UGUAGCUCGAGUCu -5'
23489 5' -56.4 NC_005259.1 + 25348 0.71 0.41405
Target:  5'- gUGCCCGAGCCGggaACGcCGAacGCaCAGAc -3'
miRNA:   3'- -ACGGGCUCGGCa--UGUaGCU--CGaGUCU- -5'
23489 5' -56.4 NC_005259.1 + 44126 0.73 0.313275
Target:  5'- cGCCUGuAGCUGUGCGUUGAGCg-AGGu -3'
miRNA:   3'- aCGGGC-UCGGCAUGUAGCUCGagUCU- -5'
23489 5' -56.4 NC_005259.1 + 9361 0.73 0.305768
Target:  5'- cGUCUGuaGGUCGUACucggCGAGCUCGGAg -3'
miRNA:   3'- aCGGGC--UCGGCAUGua--GCUCGAGUCU- -5'
23489 5' -56.4 NC_005259.1 + 30272 0.73 0.2984
Target:  5'- aUGCaCCGGGCCagcaGCGUCGAGCUCu-- -3'
miRNA:   3'- -ACG-GGCUCGGca--UGUAGCUCGAGucu -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.