miRNA display CGI


Results 1 - 20 of 30 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
23343 5' -57.9 NC_005259.1 + 2181 0.67 0.617816
Target:  5'- uUGCCGAGGUCauggGCCGcuaCG-GCaaGGUGCu -3'
miRNA:   3'- -ACGGCUCCAG----CGGCa--GCaCG--UCAUGc -5'
23343 5' -57.9 NC_005259.1 + 2742 1.09 0.000786
Target:  5'- aUGCCGAGGUCGCCGUCGUGCAGUACGa -3'
miRNA:   3'- -ACGGCUCCAGCGGCAGCACGUCAUGC- -5'
23343 5' -57.9 NC_005259.1 + 4431 0.68 0.554828
Target:  5'- cGcCCGAGGUCgaGCCGccCGUGCgAGUGgGc -3'
miRNA:   3'- aC-GGCUCCAG--CGGCa-GCACG-UCAUgC- -5'
23343 5' -57.9 NC_005259.1 + 6115 0.68 0.524003
Target:  5'- gGCCGAGGcCGCCGcuacgCGgGCAcUGCa -3'
miRNA:   3'- aCGGCUCCaGCGGCa----GCaCGUcAUGc -5'
23343 5' -57.9 NC_005259.1 + 7412 0.68 0.554828
Target:  5'- gGCauccucGUCGCCGUCG-GCGGUGCc -3'
miRNA:   3'- aCGgcuc--CAGCGGCAGCaCGUCAUGc -5'
23343 5' -57.9 NC_005259.1 + 8703 0.67 0.565225
Target:  5'- cUGUCGAGGUCGUCGcggucaagCGUGuCGGUcAUGu -3'
miRNA:   3'- -ACGGCUCCAGCGGCa-------GCAC-GUCA-UGC- -5'
23343 5' -57.9 NC_005259.1 + 13420 0.72 0.318126
Target:  5'- gGCCGGGGUCGCCGcCGggGCcGcGCu -3'
miRNA:   3'- aCGGCUCCAGCGGCaGCa-CGuCaUGc -5'
23343 5' -57.9 NC_005259.1 + 17337 0.68 0.554828
Target:  5'- gUGCCGGucaacGUCGCCGUCGaggucgGCGGcucgGCGc -3'
miRNA:   3'- -ACGGCUc----CAGCGGCAGCa-----CGUCa---UGC- -5'
23343 5' -57.9 NC_005259.1 + 21045 0.67 0.596689
Target:  5'- cGCgCGuucaAGGUCGCCGccaUCGUGUGG-ACGc -3'
miRNA:   3'- aCG-GC----UCCAGCGGC---AGCACGUCaUGC- -5'
23343 5' -57.9 NC_005259.1 + 27507 0.69 0.478103
Target:  5'- cGCCGAGGUcgacguguccgcacaCGCCGUCGaggccccacgGCGGgauguUGCGg -3'
miRNA:   3'- aCGGCUCCA---------------GCGGCAGCa---------CGUC-----AUGC- -5'
23343 5' -57.9 NC_005259.1 + 33051 0.76 0.188778
Target:  5'- uUGCCGGGGUCGCuCG-CGUGCuucuGGUAUc -3'
miRNA:   3'- -ACGGCUCCAGCG-GCaGCACG----UCAUGc -5'
23343 5' -57.9 NC_005259.1 + 35278 0.76 0.18829
Target:  5'- cGCCGGGGUCGCCGaUGUGCcccuugaAGUAg- -3'
miRNA:   3'- aCGGCUCCAGCGGCaGCACG-------UCAUgc -5'
23343 5' -57.9 NC_005259.1 + 35963 0.67 0.617816
Target:  5'- gUGaCCGuGGUCGCUGUCaacgGCGGgaaaccgACGg -3'
miRNA:   3'- -AC-GGCuCCAGCGGCAGca--CGUCa------UGC- -5'
23343 5' -57.9 NC_005259.1 + 36444 0.69 0.474204
Target:  5'- cGCCGAGGUCGaccgCGUCGagGguGaGCa -3'
miRNA:   3'- aCGGCUCCAGCg---GCAGCa-CguCaUGc -5'
23343 5' -57.9 NC_005259.1 + 40036 0.66 0.670684
Target:  5'- aUGCUuuGAGGUCGCCGgugaUCGgGuCGGUcGCGa -3'
miRNA:   3'- -ACGG--CUCCAGCGGC----AGCaC-GUCA-UGC- -5'
23343 5' -57.9 NC_005259.1 + 40138 0.67 0.565225
Target:  5'- gGgCGAGcUCGCCGUCGguUGuCGGUGCc -3'
miRNA:   3'- aCgGCUCcAGCGGCAGC--AC-GUCAUGc -5'
23343 5' -57.9 NC_005259.1 + 41313 0.67 0.586163
Target:  5'- aGCgCGAGGUCGaCC-UCGaaaaggGCGGUGCc -3'
miRNA:   3'- aCG-GCUCCAGC-GGcAGCa-----CGUCAUGc -5'
23343 5' -57.9 NC_005259.1 + 45315 0.67 0.596689
Target:  5'- cGCCGAGGcCGCCGcCGaacUGCGuggccUGCGc -3'
miRNA:   3'- aCGGCUCCaGCGGCaGC---ACGUc----AUGC- -5'
23343 5' -57.9 NC_005259.1 + 48186 0.75 0.198772
Target:  5'- cGCCGGGuGUCggaccgggcauGCCGUCGUaGUGGUACGa -3'
miRNA:   3'- aCGGCUC-CAG-----------CGGCAGCA-CGUCAUGC- -5'
23343 5' -57.9 NC_005259.1 + 50405 0.69 0.4521
Target:  5'- cGCCGAGcG-CGCCGgugccuugaccggcUCGggcaGCGGUGCGg -3'
miRNA:   3'- aCGGCUC-CaGCGGC--------------AGCa---CGUCAUGC- -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.