miRNA display CGI


Results 1 - 20 of 27 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
27033 3' -53.2 NC_005832.1 + 39051 0.66 0.934063
Target:  5'- uCGGUGACguGGUUCUCGaaaaAGUUUGUCAGGu -3'
miRNA:   3'- -GUCACUG--CCGGGAGU----UCGAGUAGUUC- -5'
27033 3' -53.2 NC_005832.1 + 19374 0.66 0.934063
Target:  5'- --cUGAUGGCCCUCucugcGGCUCcgCu-- -3'
miRNA:   3'- gucACUGCCGGGAGu----UCGAGuaGuuc -5'
27033 3' -53.2 NC_005832.1 + 12563 0.66 0.92868
Target:  5'- uGGUGcaGaaGCCCgugucugcCGAGCUCAUCAGGa -3'
miRNA:   3'- gUCAC--UgcCGGGa-------GUUCGAGUAGUUC- -5'
27033 3' -53.2 NC_005832.1 + 96786 0.66 0.92868
Target:  5'- aGGUGgACGGCCUcaagcagacaugUCGGGCU--UCAAGa -3'
miRNA:   3'- gUCAC-UGCCGGG------------AGUUCGAguAGUUC- -5'
27033 3' -53.2 NC_005832.1 + 13164 0.67 0.897805
Target:  5'- gAGcUGGCaGCCgUCuccgagAGGCUCGUCAAGa -3'
miRNA:   3'- gUC-ACUGcCGGgAG------UUCGAGUAGUUC- -5'
27033 3' -53.2 NC_005832.1 + 75515 0.67 0.897805
Target:  5'- aCAGgGGCcuccacccGGCCCUCAAGCg---CAAGg -3'
miRNA:   3'- -GUCaCUG--------CCGGGAGUUCGaguaGUUC- -5'
27033 3' -53.2 NC_005832.1 + 56283 0.67 0.897805
Target:  5'- gGGUaccACGGCCgUCAAGCUC--CAGGa -3'
miRNA:   3'- gUCAc--UGCCGGgAGUUCGAGuaGUUC- -5'
27033 3' -53.2 NC_005832.1 + 95774 0.67 0.890851
Target:  5'- cUAGUGGCGGCuacCCUCGGGCUgGc---- -3'
miRNA:   3'- -GUCACUGCCG---GGAGUUCGAgUaguuc -5'
27033 3' -53.2 NC_005832.1 + 42376 0.67 0.890851
Target:  5'- cCAGagcaUGGCGGCCCUC---CUCAUgGAGc -3'
miRNA:   3'- -GUC----ACUGCCGGGAGuucGAGUAgUUC- -5'
27033 3' -53.2 NC_005832.1 + 78409 0.67 0.883644
Target:  5'- cCAGgguaaagGACGGCCUgcgCAaggAGCUCAaCGAGc -3'
miRNA:   3'- -GUCa------CUGCCGGGa--GU---UCGAGUaGUUC- -5'
27033 3' -53.2 NC_005832.1 + 6734 0.67 0.879202
Target:  5'- gGGUGugGGacucggaacauaccaCCCUCAAGUacgaGUCGAGg -3'
miRNA:   3'- gUCACugCC---------------GGGAGUUCGag--UAGUUC- -5'
27033 3' -53.2 NC_005832.1 + 74334 0.68 0.871603
Target:  5'- ---cGGCGGCUucuaaaccuuaugcgCUCGAGgUCGUCAAGg -3'
miRNA:   3'- gucaCUGCCGG---------------GAGUUCgAGUAGUUC- -5'
27033 3' -53.2 NC_005832.1 + 94067 0.68 0.860566
Target:  5'- -cGUGGCGGCCCUgAuguacuugaGGCccgaacCGUCGAGg -3'
miRNA:   3'- guCACUGCCGGGAgU---------UCGa-----GUAGUUC- -5'
27033 3' -53.2 NC_005832.1 + 48478 0.68 0.860566
Target:  5'- gGGUGACGGgCUUCAGGCcCGgcuuuuacgCGAGa -3'
miRNA:   3'- gUCACUGCCgGGAGUUCGaGUa--------GUUC- -5'
27033 3' -53.2 NC_005832.1 + 31855 0.68 0.844027
Target:  5'- gGGUGAUGGCCgUgCAcacuacccAGCUCAUCu-- -3'
miRNA:   3'- gUCACUGCCGGgA-GU--------UCGAGUAGuuc -5'
27033 3' -53.2 NC_005832.1 + 54053 0.68 0.826636
Target:  5'- aGGUGACguGGCCC-CAGGcCUCcuUCAGGa -3'
miRNA:   3'- gUCACUG--CCGGGaGUUC-GAGu-AGUUC- -5'
27033 3' -53.2 NC_005832.1 + 31770 0.68 0.826636
Target:  5'- -uGUGAUGcugccgggguaGUCCUCGAGCUCG-CAAGg -3'
miRNA:   3'- guCACUGC-----------CGGGAGUUCGAGUaGUUC- -5'
27033 3' -53.2 NC_005832.1 + 50507 0.69 0.788616
Target:  5'- aAGUGgguucagguccccGCGGCCCUUAAGCUagaCAGGu -3'
miRNA:   3'- gUCAC-------------UGCCGGGAGUUCGAguaGUUC- -5'
27033 3' -53.2 NC_005832.1 + 104099 0.69 0.779895
Target:  5'- ---cGGCGGCCCUCAGGgccaccauCUCcUCGGGa -3'
miRNA:   3'- gucaCUGCCGGGAGUUC--------GAGuAGUUC- -5'
27033 3' -53.2 NC_005832.1 + 94207 0.7 0.750008
Target:  5'- aCGGUu-CGGgCCUCAAGUaCAUCAGGg -3'
miRNA:   3'- -GUCAcuGCCgGGAGUUCGaGUAGUUC- -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.