miRNA display CGI


Results 1 - 18 of 18 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
26678 3' -56.7 NC_005808.1 + 31901 0.66 0.541488
Target:  5'- uCCGCcaucgaGGCCGaGUgCCUGCggcguUUCGAGCGc -3'
miRNA:   3'- -GGCG------CCGGCaCA-GGAUG-----AAGCUCGUu -5'
26678 3' -56.7 NC_005808.1 + 10819 0.66 0.538245
Target:  5'- gCGCGGCUGaaUCCUuccgGCUcggucuugagguggUCGAGCAGg -3'
miRNA:   3'- gGCGCCGGCacAGGA----UGA--------------AGCUCGUU- -5'
26678 3' -56.7 NC_005808.1 + 21293 0.66 0.530706
Target:  5'- cCCaGCGGUCGgcGUCgaACUugUCGAGCAc -3'
miRNA:   3'- -GG-CGCCGGCa-CAGgaUGA--AGCUCGUu -5'
26678 3' -56.7 NC_005808.1 + 7555 0.67 0.509385
Target:  5'- cUCGCGGCCGgGUCgUACUuaaUCGgauAGUAGc -3'
miRNA:   3'- -GGCGCCGGCaCAGgAUGA---AGC---UCGUU- -5'
26678 3' -56.7 NC_005808.1 + 39794 0.67 0.488433
Target:  5'- -aGcCGGUUcUGUCCUGCUUCG-GCGAa -3'
miRNA:   3'- ggC-GCCGGcACAGGAUGAAGCuCGUU- -5'
26678 3' -56.7 NC_005808.1 + 37544 0.67 0.488433
Target:  5'- gCCGCGGCCuGUGcUCaagcaggACgccaUCGAGCGGg -3'
miRNA:   3'- -GGCGCCGG-CAC-AGga-----UGa---AGCUCGUU- -5'
26678 3' -56.7 NC_005808.1 + 14767 0.67 0.467894
Target:  5'- gCGCGGCCGgcgCC-ACcgCGGGCAGc -3'
miRNA:   3'- gGCGCCGGCacaGGaUGaaGCUCGUU- -5'
26678 3' -56.7 NC_005808.1 + 10023 0.68 0.457792
Target:  5'- gCGuCGGCgGUGUCCUGauacgUCgGAGCGg -3'
miRNA:   3'- gGC-GCCGgCACAGGAUga---AG-CUCGUu -5'
26678 3' -56.7 NC_005808.1 + 10515 0.68 0.447809
Target:  5'- aCGCGGCCGUGUUg-GCggggccgaUGAGCAu -3'
miRNA:   3'- gGCGCCGGCACAGgaUGaa------GCUCGUu -5'
26678 3' -56.7 NC_005808.1 + 15446 0.68 0.42821
Target:  5'- gUGCGGCgCGUGggggACUUCGAGUGAu -3'
miRNA:   3'- gGCGCCG-GCACaggaUGAAGCUCGUU- -5'
26678 3' -56.7 NC_005808.1 + 32634 0.69 0.399788
Target:  5'- gCCGCGGUCGcUGUCCUG--UCGAaguucggcgccGCGAa -3'
miRNA:   3'- -GGCGCCGGC-ACAGGAUgaAGCU-----------CGUU- -5'
26678 3' -56.7 NC_005808.1 + 40560 0.69 0.390585
Target:  5'- uUGCGcGCCGUGUUCUaucgccugcgcgACUUCGccAGCGAg -3'
miRNA:   3'- gGCGC-CGGCACAGGA------------UGAAGC--UCGUU- -5'
26678 3' -56.7 NC_005808.1 + 37083 0.69 0.363821
Target:  5'- -gGCGGCCGgcgUGUCCUacgACUUUG-GCAGc -3'
miRNA:   3'- ggCGCCGGC---ACAGGA---UGAAGCuCGUU- -5'
26678 3' -56.7 NC_005808.1 + 14526 0.71 0.284074
Target:  5'- gCCGCGGCCaccUG-CCcGCUguUCGAGCAGa -3'
miRNA:   3'- -GGCGCCGGc--ACaGGaUGA--AGCUCGUU- -5'
26678 3' -56.7 NC_005808.1 + 26465 0.71 0.276907
Target:  5'- gUGCGGCCGcaGUCCUACgUCGGGg-- -3'
miRNA:   3'- gGCGCCGGCa-CAGGAUGaAGCUCguu -5'
26678 3' -56.7 NC_005808.1 + 9698 0.71 0.269885
Target:  5'- gCCGUGGCCGcaguucuuguUGUCCUuccagUCGGGCGc -3'
miRNA:   3'- -GGCGCCGGC----------ACAGGAuga--AGCUCGUu -5'
26678 3' -56.7 NC_005808.1 + 8230 0.72 0.256273
Target:  5'- gCGCGGCCGUGcCCUcg-UCG-GCGAa -3'
miRNA:   3'- gGCGCCGGCACaGGAugaAGCuCGUU- -5'
26678 3' -56.7 NC_005808.1 + 26189 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.