miRNA display CGI


Results 1 - 20 of 26 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
27926 5' -49.7 NC_005886.2 + 42454 0.66 0.938613
Target:  5'- cGCCGCACUCcggguggauGCGCGGUgcggcaACCu -3'
miRNA:   3'- aCGGUGUGAG---------CGUGCUAacuuucUGG- -5'
27926 5' -49.7 NC_005886.2 + 38579 0.66 0.933076
Target:  5'- cGCCGCACUUGC-UGAUccAAGcgcGGCCg -3'
miRNA:   3'- aCGGUGUGAGCGuGCUAacUUU---CUGG- -5'
27926 5' -49.7 NC_005886.2 + 27063 0.66 0.929608
Target:  5'- aGCCGCguagauguagaaacgGCcCGCGCGAUgc--GGGCCg -3'
miRNA:   3'- aCGGUG---------------UGaGCGUGCUAacuuUCUGG- -5'
27926 5' -49.7 NC_005886.2 + 22665 0.66 0.927235
Target:  5'- aUGUCGCGUUCGCACGGcaGucGGACg -3'
miRNA:   3'- -ACGGUGUGAGCGUGCUaaCuuUCUGg -5'
27926 5' -49.7 NC_005886.2 + 7507 0.66 0.923584
Target:  5'- cGUaacCACUCGCACGccccauuccgugggaAUUGGcuGACCg -3'
miRNA:   3'- aCGgu-GUGAGCGUGC---------------UAACUuuCUGG- -5'
27926 5' -49.7 NC_005886.2 + 9646 0.66 0.921089
Target:  5'- gGCUugGUUCGCGCG--UGAAGGAUUu -3'
miRNA:   3'- aCGGugUGAGCGUGCuaACUUUCUGG- -5'
27926 5' -49.7 NC_005886.2 + 38447 0.66 0.921089
Target:  5'- cGCCGCGCagcuUCGagACGGaUGAGGGAUUg -3'
miRNA:   3'- aCGGUGUG----AGCg-UGCUaACUUUCUGG- -5'
27926 5' -49.7 NC_005886.2 + 35838 0.67 0.914638
Target:  5'- cUGCCACugUaucggGCAUGAUc-GAAGAUCa -3'
miRNA:   3'- -ACGGUGugAg----CGUGCUAacUUUCUGG- -5'
27926 5' -49.7 NC_005886.2 + 32372 0.67 0.914638
Target:  5'- gGCCgACAacaUCGCGCGAcagUGGGuGAUCu -3'
miRNA:   3'- aCGG-UGUg--AGCGUGCUa--ACUUuCUGG- -5'
27926 5' -49.7 NC_005886.2 + 44124 0.67 0.907883
Target:  5'- cGCCGCaACUCGUGcCGAcgcaGAAAGcgGCCg -3'
miRNA:   3'- aCGGUG-UGAGCGU-GCUaa--CUUUC--UGG- -5'
27926 5' -49.7 NC_005886.2 + 37483 0.67 0.900828
Target:  5'- gGCCGgaaagGCUCGCaACGAUgGAGGGugUg -3'
miRNA:   3'- aCGGUg----UGAGCG-UGCUAaCUUUCugG- -5'
27926 5' -49.7 NC_005886.2 + 18804 0.67 0.900828
Target:  5'- cGCgaACACUCGCuucucAUGcgUGGAAGuCCa -3'
miRNA:   3'- aCGg-UGUGAGCG-----UGCuaACUUUCuGG- -5'
27926 5' -49.7 NC_005886.2 + 14147 0.67 0.885833
Target:  5'- cGCCuu-CUUGaCGCGGUUGAAAuGCCc -3'
miRNA:   3'- aCGGuguGAGC-GUGCUAACUUUcUGG- -5'
27926 5' -49.7 NC_005886.2 + 35697 0.67 0.885833
Target:  5'- cGCCGCAUagCGCACGcggcgaauacUUGGAcgcauGGGCCg -3'
miRNA:   3'- aCGGUGUGa-GCGUGCu---------AACUU-----UCUGG- -5'
27926 5' -49.7 NC_005886.2 + 26850 0.68 0.869694
Target:  5'- cGCCAUacaaGCUCaGCACGAUcaacGAGGuucuGACCg -3'
miRNA:   3'- aCGGUG----UGAG-CGUGCUAa---CUUU----CUGG- -5'
27926 5' -49.7 NC_005886.2 + 531 0.68 0.843465
Target:  5'- cGCUGCAacuuaUCGCGCuGUUGAAcuGCCg -3'
miRNA:   3'- aCGGUGUg----AGCGUGcUAACUUucUGG- -5'
27926 5' -49.7 NC_005886.2 + 20089 0.68 0.842551
Target:  5'- -uUUACACUCGCAuCGAUcaugucgUGAAgcGGACCc -3'
miRNA:   3'- acGGUGUGAGCGU-GCUA-------ACUU--UCUGG- -5'
27926 5' -49.7 NC_005886.2 + 45622 0.69 0.815035
Target:  5'- aGUCACgcuuacgggucaACUCGCGCuGUUGAuguugaucgAAGACCu -3'
miRNA:   3'- aCGGUG------------UGAGCGUGcUAACU---------UUCUGG- -5'
27926 5' -49.7 NC_005886.2 + 42592 0.69 0.795003
Target:  5'- aGCCGCGCgcauaUCGaCGCGAU----GGACCg -3'
miRNA:   3'- aCGGUGUG-----AGC-GUGCUAacuuUCUGG- -5'
27926 5' -49.7 NC_005886.2 + 13447 0.7 0.76358
Target:  5'- cGCCGCGCUCGCaACGc-UGcAAG-CCg -3'
miRNA:   3'- aCGGUGUGAGCG-UGCuaACuUUCuGG- -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.