miRNA display CGI


Results 1 - 20 of 22 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
26042 3' -56.1 NC_005342.2 + 43719 0.66 0.645729
Target:  5'- -gUCGaCCGGGcgCAcgaacGUGCGCGGCa -3'
miRNA:   3'- ggAGC-GGUUCuaGUuc---CACGCGCCGa -5'
26042 3' -56.1 NC_005342.2 + 37233 0.66 0.644623
Target:  5'- gCCaCGUgAAGAUCAGucguuccGGUGCGCuGCUc -3'
miRNA:   3'- -GGaGCGgUUCUAGUU-------CCACGCGcCGA- -5'
26042 3' -56.1 NC_005342.2 + 43297 0.66 0.634662
Target:  5'- gCUCGCCucGAacgCGA-GUGCGCGaGCa -3'
miRNA:   3'- gGAGCGGuuCUa--GUUcCACGCGC-CGa -5'
26042 3' -56.1 NC_005342.2 + 8530 0.66 0.634662
Target:  5'- gCUUGCCGAGGUCGcuugucgucAGuG-GCGCaGGCa -3'
miRNA:   3'- gGAGCGGUUCUAGU---------UC-CaCGCG-CCGa -5'
26042 3' -56.1 NC_005342.2 + 31900 0.66 0.623593
Target:  5'- aCUCGCCGAGGUUcAGGacgacgaGCGCGaugaGCa -3'
miRNA:   3'- gGAGCGGUUCUAGuUCCa------CGCGC----CGa -5'
26042 3' -56.1 NC_005342.2 + 17920 0.67 0.590469
Target:  5'- gCCgcgCGCCuGGcggguggcGUCGcAGGUGCGaCGGCg -3'
miRNA:   3'- -GGa--GCGGuUC--------UAGU-UCCACGC-GCCGa -5'
26042 3' -56.1 NC_005342.2 + 30309 0.67 0.568549
Target:  5'- gCUUCGCCGAGAaacccCAggccggacgccAGGUcgugcagcaGCGCGGCa -3'
miRNA:   3'- -GGAGCGGUUCUa----GU-----------UCCA---------CGCGCCGa -5'
26042 3' -56.1 NC_005342.2 + 42688 0.67 0.568549
Target:  5'- cCCUCGCCGgcGGA-CGAGc-GgGCGGCg -3'
miRNA:   3'- -GGAGCGGU--UCUaGUUCcaCgCGCCGa -5'
26042 3' -56.1 NC_005342.2 + 19347 0.67 0.557662
Target:  5'- gCCUgCGCCGAGcgCGAcc-GUGCGGCa -3'
miRNA:   3'- -GGA-GCGGUUCuaGUUccaCGCGCCGa -5'
26042 3' -56.1 NC_005342.2 + 29679 0.67 0.536079
Target:  5'- aCUUCGCCuuGAUCGuuugcAGGUGUGCagGGUUc -3'
miRNA:   3'- -GGAGCGGuuCUAGU-----UCCACGCG--CCGA- -5'
26042 3' -56.1 NC_005342.2 + 14017 0.67 0.536079
Target:  5'- aUCUCGUgu-GAUCAuagcagcgauggGGGUGCGCaGGCa -3'
miRNA:   3'- -GGAGCGguuCUAGU------------UCCACGCG-CCGa -5'
26042 3' -56.1 NC_005342.2 + 22387 0.68 0.525396
Target:  5'- gCCgucUGCCA-GGUCGAGGcuuCGCGGCg -3'
miRNA:   3'- -GGa--GCGGUuCUAGUUCCac-GCGCCGa -5'
26042 3' -56.1 NC_005342.2 + 47268 0.68 0.483539
Target:  5'- aCCUCGCCAcGGcgcUCGcGG-GCGgCGGCa -3'
miRNA:   3'- -GGAGCGGUuCU---AGUuCCaCGC-GCCGa -5'
26042 3' -56.1 NC_005342.2 + 11011 0.68 0.480464
Target:  5'- aUCUCGCCAagcgcgcccGGGUCGaauucucgaccgccGGGcGUGCGGCc -3'
miRNA:   3'- -GGAGCGGU---------UCUAGU--------------UCCaCGCGCCGa -5'
26042 3' -56.1 NC_005342.2 + 7807 0.69 0.443353
Target:  5'- gCUCGCC-AGAUCGAcgcGGccUGCGcCGGCc -3'
miRNA:   3'- gGAGCGGuUCUAGUU---CC--ACGC-GCCGa -5'
26042 3' -56.1 NC_005342.2 + 8824 0.69 0.433602
Target:  5'- uCCUUGUCu-GGUUAAGGUauCGCGGCUg -3'
miRNA:   3'- -GGAGCGGuuCUAGUUCCAc-GCGCCGA- -5'
26042 3' -56.1 NC_005342.2 + 47717 0.7 0.395887
Target:  5'- -gUCGUCGGcGUCAucggcGGUGUGCGGCUg -3'
miRNA:   3'- ggAGCGGUUcUAGUu----CCACGCGCCGA- -5'
26042 3' -56.1 NC_005342.2 + 27399 0.7 0.395887
Target:  5'- cCCgacgCGCCGAcGAUCAGcG-GCGCGGCc -3'
miRNA:   3'- -GGa---GCGGUU-CUAGUUcCaCGCGCCGa -5'
26042 3' -56.1 NC_005342.2 + 18859 0.7 0.390414
Target:  5'- gCUUCGCCGGcaacGAgccgcUCGAGGUgcguguuaagcagccGCGCGGCUg -3'
miRNA:   3'- -GGAGCGGUU----CU-----AGUUCCA---------------CGCGCCGA- -5'
26042 3' -56.1 NC_005342.2 + 392 0.71 0.327105
Target:  5'- uCCUUGaUCAAGA-CAGGcUGCGCGGCa -3'
miRNA:   3'- -GGAGC-GGUUCUaGUUCcACGCGCCGa -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.