miRNA display CGI


Results 1 - 17 of 17 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
26862 3' -56.7 NC_005809.1 + 10819 0.66 0.538073
Target:  5'- gCGCGGCUGaaUCCUuccgGCUcggucuugagguggUCGAGCAGg -3'
miRNA:   3'- gGCGCCGGCacAGGA----UGA--------------AGCUCGUU- -5'
26862 3' -56.7 NC_005809.1 + 21293 0.66 0.530534
Target:  5'- cCCaGCGGUCGgcGUCgaACUugUCGAGCAc -3'
miRNA:   3'- -GG-CGCCGGCa-CAGgaUGA--AGCUCGUu -5'
26862 3' -56.7 NC_005809.1 + 7555 0.67 0.509215
Target:  5'- cUCGCGGCCGgGUCgUACUuaaUCGgauAGUAGc -3'
miRNA:   3'- -GGCGCCGGCaCAGgAUGA---AGC---UCGUU- -5'
26862 3' -56.7 NC_005809.1 + 39769 0.67 0.488265
Target:  5'- -aGcCGGUUcUGUCCUGCUUCG-GCGAa -3'
miRNA:   3'- ggC-GCCGGcACAGGAUGAAGCuCGUU- -5'
26862 3' -56.7 NC_005809.1 + 37519 0.67 0.488265
Target:  5'- gCCGCGGCCuGUGcUCaagcaggACgccaUCGAGCGGg -3'
miRNA:   3'- -GGCGCCGG-CAC-AGga-----UGa---AGCUCGUU- -5'
26862 3' -56.7 NC_005809.1 + 14742 0.67 0.467729
Target:  5'- gCGCGGCCGgcgCC-ACcgCGGGCAGc -3'
miRNA:   3'- gGCGCCGGCacaGGaUGaaGCUCGUU- -5'
26862 3' -56.7 NC_005809.1 + 9999 0.68 0.457629
Target:  5'- gCGuCGGCgGUGUCCUGauacgUCgGAGCGg -3'
miRNA:   3'- gGC-GCCGgCACAGGAUga---AG-CUCGUu -5'
26862 3' -56.7 NC_005809.1 + 10491 0.68 0.447647
Target:  5'- aCGCGGCCGUGUUg-GCggggccgaUGAGCAu -3'
miRNA:   3'- gGCGCCGGCACAGgaUGaa------GCUCGUu -5'
26862 3' -56.7 NC_005809.1 + 15421 0.68 0.428052
Target:  5'- gUGCGGCgCGUGggggACUUCGAGUGAu -3'
miRNA:   3'- gGCGCCG-GCACaggaUGAAGCUCGUU- -5'
26862 3' -56.7 NC_005809.1 + 32633 0.69 0.399635
Target:  5'- gCCGCGGUCGcUGUCCUG--UCGAaguucggcgccGCGAa -3'
miRNA:   3'- -GGCGCCGGC-ACAGGAUgaAGCU-----------CGUU- -5'
26862 3' -56.7 NC_005809.1 + 40535 0.69 0.390434
Target:  5'- uUGCGcGCCGUGUUCUaucgccugcgcgACUUCGccAGCGAg -3'
miRNA:   3'- gGCGC-CGGCACAGGA------------UGAAGC--UCGUU- -5'
26862 3' -56.7 NC_005809.1 + 37058 0.69 0.363676
Target:  5'- -gGCGGCCGgcgUGUCCUacgACUUUG-GCAGc -3'
miRNA:   3'- ggCGCCGGC---ACAGGA---UGAAGCuCGUU- -5'
26862 3' -56.7 NC_005809.1 + 14501 0.71 0.283951
Target:  5'- gCCGCGGCCaccUG-CCcGCUguUCGAGCAGa -3'
miRNA:   3'- -GGCGCCGGc--ACaGGaUGA--AGCUCGUU- -5'
26862 3' -56.7 NC_005809.1 + 26440 0.71 0.276786
Target:  5'- gUGCGGCCGcaGUCCUACgUCGGGg-- -3'
miRNA:   3'- gGCGCCGGCa-CAGGAUGaAGCUCguu -5'
26862 3' -56.7 NC_005809.1 + 9674 0.71 0.269766
Target:  5'- gCCGUGGCCGcaguucuuguUGUCCUuccagUCGGGCGc -3'
miRNA:   3'- -GGCGCCGGC----------ACAGGAuga--AGCUCGUu -5'
26862 3' -56.7 NC_005809.1 + 8230 0.72 0.256157
Target:  5'- gCGCGGCCGUGcCCUcg-UCG-GCGAa -3'
miRNA:   3'- gGCGCCGGCACaGGAugaAGCuCGUU- -5'
26862 3' -56.7 NC_005809.1 + 26164 1.07 0.000655
Target:  5'- cCCGCGGCCGUGUCCUACUUCGAGCAAc -3'
miRNA:   3'- -GGCGCCGGCACAGGAUGAAGCUCGUU- -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.