miRNA display CGI


Results 1 - 18 of 18 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
22394 3' -49.7 NC_005056.1 + 10150 0.66 0.874979
Target:  5'- uGCUCAAGGUcAGuGACaGUCAg--GCCa -3'
miRNA:   3'- -CGAGUUCCGuUUuCUG-CAGUaggCGG- -5'
22394 3' -49.7 NC_005056.1 + 22675 0.67 0.848602
Target:  5'- aCUCAgaAGGgAAAuuuauaACGUCAcUCCGCCu -3'
miRNA:   3'- cGAGU--UCCgUUUuc----UGCAGU-AGGCGG- -5'
22394 3' -49.7 NC_005056.1 + 6330 0.67 0.839271
Target:  5'- uUUCAccGUc---GAUGUCGUCCGCCg -3'
miRNA:   3'- cGAGUucCGuuuuCUGCAGUAGGCGG- -5'
22394 3' -49.7 NC_005056.1 + 7029 0.67 0.829687
Target:  5'- uCUCGAcaugcuGGCAguguccgaAGGGACGgcgaaUCAUCCGCUg -3'
miRNA:   3'- cGAGUU------CCGU--------UUUCUGC-----AGUAGGCGG- -5'
22394 3' -49.7 NC_005056.1 + 29088 0.68 0.798504
Target:  5'- aGCUCAucGGGCGucAGAuuuuCGUUgaccauaAUCCGCUg -3'
miRNA:   3'- -CGAGU--UCCGUuuUCU----GCAG-------UAGGCGG- -5'
22394 3' -49.7 NC_005056.1 + 18288 0.68 0.778411
Target:  5'- uGCUC-AGGCGAAAGuGCuggaAUCCGCa -3'
miRNA:   3'- -CGAGuUCCGUUUUC-UGcag-UAGGCGg -5'
22394 3' -49.7 NC_005056.1 + 6024 0.68 0.756578
Target:  5'- gGCUCccguguccgguGAGGguAcGGugGUCAUcCCGCa -3'
miRNA:   3'- -CGAG-----------UUCCguUuUCugCAGUA-GGCGg -5'
22394 3' -49.7 NC_005056.1 + 12200 0.69 0.745433
Target:  5'- gGCUCAGGGCGuucgcAGACcugccgcaugGUCAUCauCGUCa -3'
miRNA:   3'- -CGAGUUCCGUuu---UCUG----------CAGUAG--GCGG- -5'
22394 3' -49.7 NC_005056.1 + 7399 0.69 0.734156
Target:  5'- cGCUCAAuGCGucccgcccGGAUGUCAUCCaGCg -3'
miRNA:   3'- -CGAGUUcCGUuu------UCUGCAGUAGG-CGg -5'
22394 3' -49.7 NC_005056.1 + 22104 0.69 0.71126
Target:  5'- cCUCAA-GCucuAAGGACGUCGUgaagCCGCUa -3'
miRNA:   3'- cGAGUUcCGu--UUUCUGCAGUA----GGCGG- -5'
22394 3' -49.7 NC_005056.1 + 278 0.7 0.688004
Target:  5'- gGCUC--GGUc-AGGAgGUCAUCCGCUu -3'
miRNA:   3'- -CGAGuuCCGuuUUCUgCAGUAGGCGG- -5'
22394 3' -49.7 NC_005056.1 + 1442 0.7 0.676276
Target:  5'- aGC-CAcGGCGGAuGACGUCuUuuGCCu -3'
miRNA:   3'- -CGaGUuCCGUUUuCUGCAGuAggCGG- -5'
22394 3' -49.7 NC_005056.1 + 17077 0.7 0.652687
Target:  5'- -aUCAGGGCGuugcAAAGucCGUCAcgCUGCCa -3'
miRNA:   3'- cgAGUUCCGU----UUUCu-GCAGUa-GGCGG- -5'
22394 3' -49.7 NC_005056.1 + 21867 0.72 0.558424
Target:  5'- uGgUCAGGGCAAAA-ACGUUGUCaGCCu -3'
miRNA:   3'- -CgAGUUCCGUUUUcUGCAGUAGgCGG- -5'
22394 3' -49.7 NC_005056.1 + 18044 0.73 0.479245
Target:  5'- uGCUCAGGGCuguuGACcaggCAUcCCGCCc -3'
miRNA:   3'- -CGAGUUCCGuuuuCUGca--GUA-GGCGG- -5'
22394 3' -49.7 NC_005056.1 + 26870 0.74 0.416006
Target:  5'- gGCgggCAAuGGCAGAAuaugccugccucGugGUCAUCUGCCc -3'
miRNA:   3'- -CGa--GUU-CCGUUUU------------CugCAGUAGGCGG- -5'
22394 3' -49.7 NC_005056.1 + 18689 0.75 0.367385
Target:  5'- uGCUCGgcguGGCAAAAGAC----UCCGCCg -3'
miRNA:   3'- -CGAGUu---CCGUUUUCUGcaguAGGCGG- -5'
22394 3' -49.7 NC_005056.1 + 1506 1.16 0.000686
Target:  5'- uGCUCAAGGCAAAAGACGUCAUCCGCCg -3'
miRNA:   3'- -CGAGUUCCGUUUUCUGCAGUAGGCGG- -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.