miRNA display CGI


Results 1 - 20 of 66 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
23306 3' -57.2 NC_005259.1 + 44615 0.66 0.748558
Target:  5'- --cUUAGCGUUGCCGcCGuAGGUUGcGCc -3'
miRNA:   3'- gccAGUUGCAGCGGCaGC-UCCAGC-CG- -5'
23306 3' -57.2 NC_005259.1 + 68830 0.66 0.748558
Target:  5'- uCGGUCAAagcaGUCGgUGAGGUgGGCc -3'
miRNA:   3'- -GCCAGUUgcagCGGCaGCUCCAgCCG- -5'
23306 3' -57.2 NC_005259.1 + 19064 0.66 0.748558
Target:  5'- ---cCGAUGUCGgUGUCGcGGUcCGGCg -3'
miRNA:   3'- gccaGUUGCAGCgGCAGCuCCA-GCCG- -5'
23306 3' -57.2 NC_005259.1 + 28943 0.66 0.747568
Target:  5'- gCGG-CAcgauccuGCGcCGCauCGcCGAGGUCGGUg -3'
miRNA:   3'- -GCCaGU-------UGCaGCG--GCaGCUCCAGCCG- -5'
23306 3' -57.2 NC_005259.1 + 38679 0.66 0.738618
Target:  5'- -uGUUGGC--CGCCGggUCGAGGUUGGCc -3'
miRNA:   3'- gcCAGUUGcaGCGGC--AGCUCCAGCCG- -5'
23306 3' -57.2 NC_005259.1 + 60037 0.66 0.738618
Target:  5'- uCGG-CAACGaUGUCGuUCGGGGUCuucucgGGCu -3'
miRNA:   3'- -GCCaGUUGCaGCGGC-AGCUCCAG------CCG- -5'
23306 3' -57.2 NC_005259.1 + 43879 0.66 0.738618
Target:  5'- cCGG-CAGCGUUGCCGcCGAcauugcccGcGcCGGCu -3'
miRNA:   3'- -GCCaGUUGCAGCGGCaGCU--------C-CaGCCG- -5'
23306 3' -57.2 NC_005259.1 + 26265 0.66 0.738618
Target:  5'- aCGGUCuccauGAUGUCGCCGgugccgcccUCGAcgGGUaCGGg -3'
miRNA:   3'- -GCCAG-----UUGCAGCGGC---------AGCU--CCA-GCCg -5'
23306 3' -57.2 NC_005259.1 + 51757 0.66 0.737618
Target:  5'- uCGG-CAGCGUugcgcucggcgagCGCC-UUGAGGuauUCGGCg -3'
miRNA:   3'- -GCCaGUUGCA-------------GCGGcAGCUCC---AGCCG- -5'
23306 3' -57.2 NC_005259.1 + 46637 0.66 0.732606
Target:  5'- uGGUCAGC-UCcauggccacacggcuGCgGUUGAGGuucUCGGCg -3'
miRNA:   3'- gCCAGUUGcAG---------------CGgCAGCUCC---AGCCG- -5'
23306 3' -57.2 NC_005259.1 + 49570 0.66 0.72858
Target:  5'- uCGGUCGugGccaGaCCGgcgggCGGGGUCaGCa -3'
miRNA:   3'- -GCCAGUugCag-C-GGCa----GCUCCAGcCG- -5'
23306 3' -57.2 NC_005259.1 + 51622 0.66 0.72858
Target:  5'- cCGGUCcacACGagGUCGUCGGagcGGUaGGCg -3'
miRNA:   3'- -GCCAGu--UGCagCGGCAGCU---CCAgCCG- -5'
23306 3' -57.2 NC_005259.1 + 33307 0.66 0.718455
Target:  5'- gCGGcUCGAUccCGCCGUCGGcGGUCacGCg -3'
miRNA:   3'- -GCC-AGUUGcaGCGGCAGCU-CCAGc-CG- -5'
23306 3' -57.2 NC_005259.1 + 46571 0.66 0.718455
Target:  5'- uGGUCGcgGCGUCGaCCGcgccgccCGAGG-CGaGCa -3'
miRNA:   3'- gCCAGU--UGCAGC-GGCa------GCUCCaGC-CG- -5'
23306 3' -57.2 NC_005259.1 + 50256 0.66 0.708253
Target:  5'- uGGcCAACGggcuacUCGCUGUCGucGGU-GGCg -3'
miRNA:   3'- gCCaGUUGC------AGCGGCAGCu-CCAgCCG- -5'
23306 3' -57.2 NC_005259.1 + 66443 0.66 0.697983
Target:  5'- aCGGUCu-CGaaagUGCCGUCGAacUCGGUg -3'
miRNA:   3'- -GCCAGuuGCa---GCGGCAGCUccAGCCG- -5'
23306 3' -57.2 NC_005259.1 + 47622 0.66 0.697983
Target:  5'- aGGUUcuUGUCGUCGcCGAGGgcagcgaGGCc -3'
miRNA:   3'- gCCAGuuGCAGCGGCaGCUCCag-----CCG- -5'
23306 3' -57.2 NC_005259.1 + 15526 0.66 0.697983
Target:  5'- aGGUCAGCacucagGcCGCCGUCacuGGcCGGUg -3'
miRNA:   3'- gCCAGUUG------CaGCGGCAGcu-CCaGCCG- -5'
23306 3' -57.2 NC_005259.1 + 26034 0.66 0.697983
Target:  5'- gGGUUGGCcagcagCGCCGcCG-GGUUGGCc -3'
miRNA:   3'- gCCAGUUGca----GCGGCaGCuCCAGCCG- -5'
23306 3' -57.2 NC_005259.1 + 54108 0.66 0.693859
Target:  5'- gGGUCAACGUgaggcugacauagcCGCuCGugaccagacgguuUCGAGGccCGGCg -3'
miRNA:   3'- gCCAGUUGCA--------------GCG-GC-------------AGCUCCa-GCCG- -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.