miRNA display CGI


Results 1 - 20 of 40 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
23864 3' -54.7 NC_005262.1 + 19614 0.72 0.449156
Target:  5'- -gUGCGAGugGCGGUCGgcguccagcCCGGCAAa -3'
miRNA:   3'- ggAUGCUCugCGUCGGCa--------GGCUGUUa -5'
23864 3' -54.7 NC_005262.1 + 51491 0.66 0.794249
Target:  5'- uCCUACGAGAuCGagcggauCGGCCGcaaCGGCGAg -3'
miRNA:   3'- -GGAUGCUCU-GC-------GUCGGCag-GCUGUUa -5'
23864 3' -54.7 NC_005262.1 + 17997 0.66 0.785505
Target:  5'- uUCUuCGAcGugGCuGCCGggcCCGACGAg -3'
miRNA:   3'- -GGAuGCU-CugCGuCGGCa--GGCUGUUa -5'
23864 3' -54.7 NC_005262.1 + 48073 0.66 0.765633
Target:  5'- aCCUGcCGcGACG-AGCCGcCCGGCGc- -3'
miRNA:   3'- -GGAU-GCuCUGCgUCGGCaGGCUGUua -5'
23864 3' -54.7 NC_005262.1 + 992 0.67 0.744188
Target:  5'- aCCUGCGGGGCGgGGCgGUguagagcuugucgCCGAUc-- -3'
miRNA:   3'- -GGAUGCUCUGCgUCGgCA-------------GGCUGuua -5'
23864 3' -54.7 NC_005262.1 + 60494 0.67 0.734842
Target:  5'- --gGCGAGACGCcgGGCCG-CgCGGCGc- -3'
miRNA:   3'- ggaUGCUCUGCG--UCGGCaG-GCUGUua -5'
23864 3' -54.7 NC_005262.1 + 54353 0.67 0.731708
Target:  5'- aUCUACGAgGACccggcgaagggcugGCAGaCGUCCGACGc- -3'
miRNA:   3'- -GGAUGCU-CUG--------------CGUCgGCAGGCUGUua -5'
23864 3' -54.7 NC_005262.1 + 57413 0.68 0.680566
Target:  5'- aCCgcCGAGAagGCGGCCGacaacgcUCCGGCAc- -3'
miRNA:   3'- -GGauGCUCUg-CGUCGGC-------AGGCUGUua -5'
23864 3' -54.7 NC_005262.1 + 49946 0.68 0.670825
Target:  5'- cCCggaugGCGuGACGUucgAGCCGaucgCCGACGAg -3'
miRNA:   3'- -GGa----UGCuCUGCG---UCGGCa---GGCUGUUa -5'
23864 3' -54.7 NC_005262.1 + 34514 0.68 0.670825
Target:  5'- uUCUGCGAgacGACGCGGCUGUggcguuUUGACGAc -3'
miRNA:   3'- -GGAUGCU---CUGCGUCGGCA------GGCUGUUa -5'
23864 3' -54.7 NC_005262.1 + 23427 0.71 0.498178
Target:  5'- --cAUGAGcCGCgucaucgAGCCGUCCGACGAc -3'
miRNA:   3'- ggaUGCUCuGCG-------UCGGCAGGCUGUUa -5'
23864 3' -54.7 NC_005262.1 + 55897 0.71 0.519914
Target:  5'- uCCUgACGAGccaacagcucGCGCAGuacgucgaCCGUCCGGCGAUc -3'
miRNA:   3'- -GGA-UGCUC----------UGCGUC--------GGCAGGCUGUUA- -5'
23864 3' -54.7 NC_005262.1 + 27822 0.7 0.55158
Target:  5'- --aGCGAGaaGCGCGGCCGgUCUGACu-- -3'
miRNA:   3'- ggaUGCUC--UGCGUCGGC-AGGCUGuua -5'
23864 3' -54.7 NC_005262.1 + 57134 0.7 0.569785
Target:  5'- uCCgGCGAGuacauCGCGGCCGUgucggucgacauccCCGGCGAc -3'
miRNA:   3'- -GGaUGCUCu----GCGUCGGCA--------------GGCUGUUa -5'
23864 3' -54.7 NC_005262.1 + 17837 0.69 0.594638
Target:  5'- aCUgGCGAGAuggaaaCGCGGCCGU-CGACAGc -3'
miRNA:   3'- gGA-UGCUCU------GCGUCGGCAgGCUGUUa -5'
23864 3' -54.7 NC_005262.1 + 35617 0.69 0.627285
Target:  5'- --gGCGu--UGCAGUCGUCCGGCAAc -3'
miRNA:   3'- ggaUGCucuGCGUCGGCAGGCUGUUa -5'
23864 3' -54.7 NC_005262.1 + 61616 1.08 0.001684
Target:  5'- gCCUACGAGACGCAGCCGUCCGACAAUa -3'
miRNA:   3'- -GGAUGCUCUGCGUCGGCAGGCUGUUA- -5'
23864 3' -54.7 NC_005262.1 + 37232 0.66 0.804752
Target:  5'- gCCUGCGcgaacuGGCGCAGCgCGUCgGcCGc- -3'
miRNA:   3'- -GGAUGCu-----CUGCGUCG-GCAGgCuGUua -5'
23864 3' -54.7 NC_005262.1 + 34008 0.66 0.804752
Target:  5'- gUUGCuGGGGugcCGC-GCCGUCCGGCAc- -3'
miRNA:   3'- gGAUG-CUCU---GCGuCGGCAGGCUGUua -5'
23864 3' -54.7 NC_005262.1 + 17329 0.66 0.804752
Target:  5'- gCUGCGucguggccGGCGCGGCauucggGUCCGGCGc- -3'
miRNA:   3'- gGAUGCu-------CUGCGUCGg-----CAGGCUGUua -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.