miRNA display CGI


Results 1 - 19 of 19 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
31324 5' -50.9 NC_006623.1 + 657 0.66 0.995382
Target:  5'- aACGGCGGGCGguCCcGUCAg-AGACa- -3'
miRNA:   3'- -UGUUGCUUGCguGG-CAGUagUCUGcu -5'
31324 5' -50.9 NC_006623.1 + 129761 0.66 0.994544
Target:  5'- cGCGACauauccgccgccuGAAgGCGCCGUCAgcuuUCAGAUu- -3'
miRNA:   3'- -UGUUG-------------CUUgCGUGGCAGU----AGUCUGcu -5'
31324 5' -50.9 NC_006623.1 + 63438 0.66 0.994544
Target:  5'- cAUAGCGGACGCgaggaauACUGUCGUCcagcguucguGGACa- -3'
miRNA:   3'- -UGUUGCUUGCG-------UGGCAGUAG----------UCUGcu -5'
31324 5' -50.9 NC_006623.1 + 124347 0.66 0.992808
Target:  5'- aGCGGCG-ACGCucGCCG-CGUCGG-CGGc -3'
miRNA:   3'- -UGUUGCuUGCG--UGGCaGUAGUCuGCU- -5'
31324 5' -50.9 NC_006623.1 + 115974 0.67 0.9892
Target:  5'- aACAGagggGGACGCugCGUC-UUAGAgGAg -3'
miRNA:   3'- -UGUUg---CUUGCGugGCAGuAGUCUgCU- -5'
31324 5' -50.9 NC_006623.1 + 145638 0.67 0.9892
Target:  5'- aACAGagggGGACGCugCGUC-UUAGAgGAg -3'
miRNA:   3'- -UGUUg---CUUGCGugGCAGuAGUCUgCU- -5'
31324 5' -50.9 NC_006623.1 + 116846 0.69 0.959658
Target:  5'- gGCAGCGAGCa---CGUCA-CGGACGAu -3'
miRNA:   3'- -UGUUGCUUGcgugGCAGUaGUCUGCU- -5'
31324 5' -50.9 NC_006623.1 + 144765 0.69 0.959658
Target:  5'- gGCAGCGAGCa---CGUCA-CGGACGAu -3'
miRNA:   3'- -UGUUGCUUGcgugGCAGUaGUCUGCU- -5'
31324 5' -50.9 NC_006623.1 + 47447 0.69 0.951757
Target:  5'- cACAugGAGCGUggcCCGUCA--GGAUGAa -3'
miRNA:   3'- -UGUugCUUGCGu--GGCAGUagUCUGCU- -5'
31324 5' -50.9 NC_006623.1 + 123894 0.7 0.942881
Target:  5'- cGCGGCuaAGCGCGCCGUCG-CAGcgGCGGu -3'
miRNA:   3'- -UGUUGc-UUGCGUGGCAGUaGUC--UGCU- -5'
31324 5' -50.9 NC_006623.1 + 18122 0.7 0.938069
Target:  5'- -aGACGAACGCAauaCGUUGUCGGuuCGGg -3'
miRNA:   3'- ugUUGCUUGCGUg--GCAGUAGUCu-GCU- -5'
31324 5' -50.9 NC_006623.1 + 45995 0.7 0.927688
Target:  5'- cCGGCGAGCGCGCC-UCGagCGGACu- -3'
miRNA:   3'- uGUUGCUUGCGUGGcAGUa-GUCUGcu -5'
31324 5' -50.9 NC_006623.1 + 124181 0.71 0.916292
Target:  5'- cGCGGCGAGCGuCGCCGcuaaCGUCGGcgccGCGGg -3'
miRNA:   3'- -UGUUGCUUGC-GUGGCa---GUAGUC----UGCU- -5'
31324 5' -50.9 NC_006623.1 + 18673 0.71 0.897312
Target:  5'- uGCAAUGAACGCAUCGUUAUacugaauGGAgCGAc -3'
miRNA:   3'- -UGUUGCUUGCGUGGCAGUAg------UCU-GCU- -5'
31324 5' -50.9 NC_006623.1 + 129299 0.73 0.818929
Target:  5'- gACGAgGAAUGCGCCGgUCcgCuGGACGAg -3'
miRNA:   3'- -UGUUgCUUGCGUGGC-AGuaG-UCUGCU- -5'
31324 5' -50.9 NC_006623.1 + 137718 0.74 0.809971
Target:  5'- cGCGGCuAGCGCGCCGUCG-CAGcgGCGGu -3'
miRNA:   3'- -UGUUGcUUGCGUGGCAGUaGUC--UGCU- -5'
31324 5' -50.9 NC_006623.1 + 108068 0.77 0.618364
Target:  5'- gGCAACGGcccgaaaauucGCGCACCGUUAUCucGCGAa -3'
miRNA:   3'- -UGUUGCU-----------UGCGUGGCAGUAGucUGCU- -5'
31324 5' -50.9 NC_006623.1 + 132358 0.79 0.524917
Target:  5'- gGCAauauauACGAAUGCACCGUCcucaucUCAGACGGc -3'
miRNA:   3'- -UGU------UGCUUGCGUGGCAGu-----AGUCUGCU- -5'
31324 5' -50.9 NC_006623.1 + 111437 1.09 0.009231
Target:  5'- gACAACGAACGCACCGUCAUCAGACGAc -3'
miRNA:   3'- -UGUUGCUUGCGUGGCAGUAGUCUGCU- -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.