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
31765 5' -62.8 NC_006938.1 + 42253 0.66 0.403625
Target:  5'- gGaGCCGG-GGAGuGGcCCUUCAGCu-- -3'
miRNA:   3'- gC-CGGCCuCCUCuCC-GGAGGUCGugc -5'
31765 5' -62.8 NC_006938.1 + 55669 0.66 0.36173
Target:  5'- gCGGCCugGGAGGAG-GGCCcaagCAGaCGCa -3'
miRNA:   3'- -GCCGG--CCUCCUCuCCGGag--GUC-GUGc -5'
31765 5' -62.8 NC_006938.1 + 35197 0.67 0.353722
Target:  5'- gCGGCCGGAGG-GAcaGCUgUCCAGC-Ca -3'
miRNA:   3'- -GCCGGCCUCCuCUc-CGG-AGGUCGuGc -5'
31765 5' -62.8 NC_006938.1 + 21551 0.67 0.338085
Target:  5'- gGGUCGGAcGGAGcGGCUcgCCaAGCugGu -3'
miRNA:   3'- gCCGGCCU-CCUCuCCGGa-GG-UCGugC- -5'
31765 5' -62.8 NC_006938.1 + 50674 0.67 0.330458
Target:  5'- aGGa-GGcGGGAGAGGCC-CCGGCgaGCGc -3'
miRNA:   3'- gCCggCC-UCCUCUCCGGaGGUCG--UGC- -5'
31765 5' -62.8 NC_006938.1 + 27825 0.67 0.330458
Target:  5'- gCGGCCGGA--AG-GGUCaggUCCAGCugGa -3'
miRNA:   3'- -GCCGGCCUccUCuCCGG---AGGUCGugC- -5'
31765 5' -62.8 NC_006938.1 + 14244 0.67 0.322957
Target:  5'- gCGGCCGGAGGGu--GCUccgUCUGGCGCa -3'
miRNA:   3'- -GCCGGCCUCCUcucCGG---AGGUCGUGc -5'
31765 5' -62.8 NC_006938.1 + 18512 0.67 0.322957
Target:  5'- cCGGCCGGAcGAcGGuGGCCUCUGG-GCGg -3'
miRNA:   3'- -GCCGGCCUcCU-CU-CCGGAGGUCgUGC- -5'
31765 5' -62.8 NC_006938.1 + 9141 0.67 0.30834
Target:  5'- gGGCCGcGAGGAcagugGuGGCCucgacUCCGGcCGCGa -3'
miRNA:   3'- gCCGGC-CUCCU-----CuCCGG-----AGGUC-GUGC- -5'
31765 5' -62.8 NC_006938.1 + 37935 0.68 0.294233
Target:  5'- uGGCCaGGGcGGuGGAGGCgucggCUCUGGCGCGa -3'
miRNA:   3'- gCCGG-CCU-CC-UCUCCG-----GAGGUCGUGC- -5'
31765 5' -62.8 NC_006938.1 + 40134 0.68 0.267539
Target:  5'- gGGCCaggucGAGGAGcucuccggagaGGGCCUUCGGgGCGa -3'
miRNA:   3'- gCCGGc----CUCCUC-----------UCCGGAGGUCgUGC- -5'
31765 5' -62.8 NC_006938.1 + 4540 0.69 0.261179
Target:  5'- -cGUCGGAGGGGAGGCaccgucgUCGGcCACGa -3'
miRNA:   3'- gcCGGCCUCCUCUCCGga-----GGUC-GUGC- -5'
31765 5' -62.8 NC_006938.1 + 44413 0.69 0.254943
Target:  5'- aGGCCGGu---GGGGCaUUCAGCGCGg -3'
miRNA:   3'- gCCGGCCuccuCUCCGgAGGUCGUGC- -5'
31765 5' -62.8 NC_006938.1 + 56046 0.69 0.254943
Target:  5'- cCGGaauaUGGGGGAGuGGCCggaugCCAGcCACu -3'
miRNA:   3'- -GCCg---GCCUCCUCuCCGGa----GGUC-GUGc -5'
31765 5' -62.8 NC_006938.1 + 62718 0.69 0.254943
Target:  5'- uGGCgcaucuucgUGGAcGGcaacuuGGAGGCCUCgGGCACGg -3'
miRNA:   3'- gCCG---------GCCU-CC------UCUCCGGAGgUCGUGC- -5'
31765 5' -62.8 NC_006938.1 + 50029 0.69 0.231213
Target:  5'- uGGCCccgccucuGGAacGcGAGAGGCCUuugugcCCGGCGCGg -3'
miRNA:   3'- gCCGG--------CCU--C-CUCUCCGGA------GGUCGUGC- -5'
31765 5' -62.8 NC_006938.1 + 21073 0.7 0.220062
Target:  5'- aCGGCCGGAucacGAcGAccaccuuccGGCC-CCAGCACGa -3'
miRNA:   3'- -GCCGGCCUc---CU-CU---------CCGGaGGUCGUGC- -5'
31765 5' -62.8 NC_006938.1 + 54410 0.7 0.214661
Target:  5'- gCGGCCGGAGucGAGGCCaCCAcuguccuCGCGg -3'
miRNA:   3'- -GCCGGCCUCcuCUCCGGaGGUc------GUGC- -5'
31765 5' -62.8 NC_006938.1 + 21126 0.7 0.204199
Target:  5'- cCGGCCGaGGGAGuGGCaggcgucgCUCCGGcCGCGu -3'
miRNA:   3'- -GCCGGCcUCCUCuCCG--------GAGGUC-GUGC- -5'
31765 5' -62.8 NC_006938.1 + 32261 0.71 0.184597
Target:  5'- uCGGCa-GGGGAuGGGGCCUgCAGUACa -3'
miRNA:   3'- -GCCGgcCUCCU-CUCCGGAgGUCGUGc -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.