miRNA display CGI


Results 1 - 20 of 28 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
16387 3' -51.9 NC_004084.1 + 6390 0.66 0.908211
Target:  5'- --aCGAGAGCGCCGAGGaccgAGa-- -3'
miRNA:   3'- cuaGCUCUUGUGGCUCCgacaUCagg -5'
16387 3' -51.9 NC_004084.1 + 23133 0.66 0.908211
Target:  5'- cGAUCGAGGaccuccccaGCGCCGAGGaCU----UCCc -3'
miRNA:   3'- -CUAGCUCU---------UGUGGCUCC-GAcaucAGG- -5'
16387 3' -51.9 NC_004084.1 + 33129 0.66 0.899315
Target:  5'- gGAUCGAcguGAGCGCCGAGucagucgaggucgaGCUgcuccugaacgGUGGUCUc -3'
miRNA:   3'- -CUAGCU---CUUGUGGCUC--------------CGA-----------CAUCAGG- -5'
16387 3' -51.9 NC_004084.1 + 44205 0.66 0.897196
Target:  5'- cGGUUGAGGACcucgacgagcggaugGCCGAcGGCUGggagcucGUCUa -3'
miRNA:   3'- -CUAGCUCUUG---------------UGGCU-CCGACau-----CAGG- -5'
16387 3' -51.9 NC_004084.1 + 52787 0.66 0.894332
Target:  5'- -uUCGAGGACGUCGcucGGGCcGaGGUCCu -3'
miRNA:   3'- cuAGCUCUUGUGGC---UCCGaCaUCAGG- -5'
16387 3' -51.9 NC_004084.1 + 3939 0.66 0.894332
Target:  5'- --gCGGGGuuggACACCGAGGUuccgGUGGagCCg -3'
miRNA:   3'- cuaGCUCU----UGUGGCUCCGa---CAUCa-GG- -5'
16387 3' -51.9 NC_004084.1 + 19056 0.66 0.894332
Target:  5'- uGAUCGAGAcCAgCGAGGagucGUAGcucagcUCCg -3'
miRNA:   3'- -CUAGCUCUuGUgGCUCCga--CAUC------AGG- -5'
16387 3' -51.9 NC_004084.1 + 18797 0.66 0.894332
Target:  5'- ---aGGGAACAuCCaGGGCgUGUGGUCg -3'
miRNA:   3'- cuagCUCUUGU-GGcUCCG-ACAUCAGg -5'
16387 3' -51.9 NC_004084.1 + 10804 0.66 0.894332
Target:  5'- -cUCuGGAGCGCCGAacucguGGUgcuccgcGUAGUCCa -3'
miRNA:   3'- cuAGcUCUUGUGGCU------CCGa------CAUCAGG- -5'
16387 3' -51.9 NC_004084.1 + 35664 0.66 0.893609
Target:  5'- -uUCGAGc-CGCCGAGGCgaacgucguUGUAgagcugcGUCCg -3'
miRNA:   3'- cuAGCUCuuGUGGCUCCG---------ACAU-------CAGG- -5'
16387 3' -51.9 NC_004084.1 + 38497 0.66 0.88698
Target:  5'- -cUCGAGuucgcgcuuuAUGCCGAGGCcGUacgguuGGUCCu -3'
miRNA:   3'- cuAGCUCu---------UGUGGCUCCGaCA------UCAGG- -5'
16387 3' -51.9 NC_004084.1 + 46749 0.66 0.88698
Target:  5'- aAUCGcGGACugUGGcGGaUGUAGUCCu -3'
miRNA:   3'- cUAGCuCUUGugGCU-CCgACAUCAGG- -5'
16387 3' -51.9 NC_004084.1 + 30073 0.66 0.879359
Target:  5'- cGUCGAGGcUGCCGcGGUUGUuGUUCa -3'
miRNA:   3'- cUAGCUCUuGUGGCuCCGACAuCAGG- -5'
16387 3' -51.9 NC_004084.1 + 48921 0.66 0.879359
Target:  5'- --gCGAGAACuuCGAGGCagGUGG-CUa -3'
miRNA:   3'- cuaGCUCUUGugGCUCCGa-CAUCaGG- -5'
16387 3' -51.9 NC_004084.1 + 3092 0.67 0.863338
Target:  5'- cGUCGGGGACGCUGucccgGUAGUCUa -3'
miRNA:   3'- cUAGCUCUUGUGGCuccgaCAUCAGG- -5'
16387 3' -51.9 NC_004084.1 + 10926 0.68 0.82838
Target:  5'- -cUCGAGGGCcUCGAGGUcaaaugggaUGgcgAGUCCu -3'
miRNA:   3'- cuAGCUCUUGuGGCUCCG---------ACa--UCAGG- -5'
16387 3' -51.9 NC_004084.1 + 22951 0.68 0.82838
Target:  5'- --cCGAGAACACgacacucgcgaCGAGGCcGaccgAGUCCu -3'
miRNA:   3'- cuaGCUCUUGUG-----------GCUCCGaCa---UCAGG- -5'
16387 3' -51.9 NC_004084.1 + 40596 0.68 0.809586
Target:  5'- --aCGAGAACAgCGAgcgGGCUG--GUCCc -3'
miRNA:   3'- cuaGCUCUUGUgGCU---CCGACauCAGG- -5'
16387 3' -51.9 NC_004084.1 + 5212 0.69 0.738359
Target:  5'- cGGUCGcc-ACGCCGAGGUUGUaucgacGGUCg -3'
miRNA:   3'- -CUAGCucuUGUGGCUCCGACA------UCAGg -5'
16387 3' -51.9 NC_004084.1 + 29696 0.7 0.694968
Target:  5'- cGGUCGcGGACGCUGuccuGGCUG-AGUCg -3'
miRNA:   3'- -CUAGCuCUUGUGGCu---CCGACaUCAGg -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.