miRNA display CGI


Results 1 - 20 of 30 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
2262 3' -51.9 NC_001405.1 + 18970 1.13 0.000765
Target:  5'- cACCUACGCACGACGUAACCACAGACCg -3'
miRNA:   3'- -UGGAUGCGUGCUGCAUUGGUGUCUGG- -5'
2262 3' -51.9 NC_001405.1 + 6502 0.78 0.210481
Target:  5'- cGCCUACGCGgaGAgGUAGCCACcagcguuGACCu -3'
miRNA:   3'- -UGGAUGCGUg-CUgCAUUGGUGu------CUGG- -5'
2262 3' -51.9 NC_001405.1 + 17812 0.76 0.261872
Target:  5'- cGCCgguggUGCGCACGACGcauGCCGCccgucAGGCCg -3'
miRNA:   3'- -UGG-----AUGCGUGCUGCau-UGGUG-----UCUGG- -5'
2262 3' -51.9 NC_001405.1 + 9948 0.75 0.306791
Target:  5'- gACCUGCGC-CGAUGUcaaaacgaAGCCugGGGCa -3'
miRNA:   3'- -UGGAUGCGuGCUGCA--------UUGGugUCUGg -5'
2262 3' -51.9 NC_001405.1 + 14176 0.75 0.314827
Target:  5'- uCCUACGagaGCGugGUGAgCGCGGcGCCa -3'
miRNA:   3'- uGGAUGCg--UGCugCAUUgGUGUC-UGG- -5'
2262 3' -51.9 NC_001405.1 + 10808 0.74 0.348549
Target:  5'- gGCC-GCGCGCGGCGUAAgCGguUAGGCUg -3'
miRNA:   3'- -UGGaUGCGUGCUGCAUUgGU--GUCUGG- -5'
2262 3' -51.9 NC_001405.1 + 17601 0.72 0.433414
Target:  5'- cCCUGCGCACGGaaauCGggGCCagcACGGGCUg -3'
miRNA:   3'- uGGAUGCGUGCU----GCauUGG---UGUCUGG- -5'
2262 3' -51.9 NC_001405.1 + 10862 0.72 0.443565
Target:  5'- cGCUUACGC-CGcGCGcGGCCAguGGCCa -3'
miRNA:   3'- -UGGAUGCGuGC-UGCaUUGGUguCUGG- -5'
2262 3' -51.9 NC_001405.1 + 3400 0.72 0.453849
Target:  5'- aGCCUgugAUGCugGAUGUGACCGaggagcugAGGCCc -3'
miRNA:   3'- -UGGA---UGCGugCUGCAUUGGUg-------UCUGG- -5'
2262 3' -51.9 NC_001405.1 + 12416 0.72 0.46426
Target:  5'- aACCcugACGCGuucCGGCaGcAGCCGCAGGCCa -3'
miRNA:   3'- -UGGa--UGCGU---GCUG-CaUUGGUGUCUGG- -5'
2262 3' -51.9 NC_001405.1 + 11463 0.71 0.496213
Target:  5'- uCCcGCGCGCGcacACGUGgcgGCCGCcGACCu -3'
miRNA:   3'- uGGaUGCGUGC---UGCAU---UGGUGuCUGG- -5'
2262 3' -51.9 NC_001405.1 + 7823 0.69 0.620027
Target:  5'- gUCU-CGCGCGGCGgucACCAgAGGCUc -3'
miRNA:   3'- uGGAuGCGUGCUGCau-UGGUgUCUGG- -5'
2262 3' -51.9 NC_001405.1 + 27994 0.69 0.631549
Target:  5'- gGCCcgGCGCACGGCGUccGGCuCACc-ACCc -3'
miRNA:   3'- -UGGa-UGCGUGCUGCA--UUG-GUGucUGG- -5'
2262 3' -51.9 NC_001405.1 + 16201 0.69 0.643071
Target:  5'- uGCCgcccaACGCGCGGCGgcggcccugcuUAACCGCGcacgucgcaccGGCCg -3'
miRNA:   3'- -UGGa----UGCGUGCUGC-----------AUUGGUGU-----------CUGG- -5'
2262 3' -51.9 NC_001405.1 + 10594 0.68 0.662628
Target:  5'- -aCUGCGCACGccucaccggccagaGCGUcccGACCAUGGAgCa -3'
miRNA:   3'- ugGAUGCGUGC--------------UGCA---UUGGUGUCUgG- -5'
2262 3' -51.9 NC_001405.1 + 23318 0.68 0.666071
Target:  5'- aACCUACaaGCACcACGagcCCACGGGCUg -3'
miRNA:   3'- -UGGAUG--CGUGcUGCauuGGUGUCUGG- -5'
2262 3' -51.9 NC_001405.1 + 12126 0.68 0.677525
Target:  5'- gACCUGCGCugGGCcccaAGCCgACGcGCCc -3'
miRNA:   3'- -UGGAUGCGugCUGca--UUGG-UGUcUGG- -5'
2262 3' -51.9 NC_001405.1 + 12245 0.68 0.700279
Target:  5'- uGCCaGCGCGCG-CGgguGCCACc-GCCa -3'
miRNA:   3'- -UGGaUGCGUGCuGCau-UGGUGucUGG- -5'
2262 3' -51.9 NC_001405.1 + 9063 0.68 0.700279
Target:  5'- uGCCggGCGaagACGGCGUAGuuUCGCAGGCg -3'
miRNA:   3'- -UGGa-UGCg--UGCUGCAUU--GGUGUCUGg -5'
2262 3' -51.9 NC_001405.1 + 15865 0.68 0.711553
Target:  5'- ---gACGCGCGGCGaGACUAUgcccaGGGCCu -3'
miRNA:   3'- uggaUGCGUGCUGCaUUGGUG-----UCUGG- -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.