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 + 25462 0.66 0.807594
Target:  5'- gGCCUucaacgaGCGCucCGUGGCCGCGcACCu -3'
miRNA:   3'- -UGGAug-----CGUGcuGCAUUGGUGUcUGG- -5'
2262 3' -51.9 NC_001405.1 + 11202 0.66 0.807594
Target:  5'- cAUCUGC-CGCcGCGUcAGCCGCGGAUg -3'
miRNA:   3'- -UGGAUGcGUGcUGCA-UUGGUGUCUGg -5'
2262 3' -51.9 NC_001405.1 + 5383 0.66 0.797561
Target:  5'- aGCCcggaGCGCACcccuucacCGUGACC-CAGACUa -3'
miRNA:   3'- -UGGa---UGCGUGcu------GCAUUGGuGUCUGG- -5'
2262 3' -51.9 NC_001405.1 + 25056 0.66 0.797561
Target:  5'- -aCUugGaggaGCGACGcaagcuaaugaUGGCCGCAGugCu -3'
miRNA:   3'- ugGAugCg---UGCUGC-----------AUUGGUGUCugG- -5'
2262 3' -51.9 NC_001405.1 + 5411 0.66 0.787339
Target:  5'- cCCUGCGCGuCGGCcagGUAGCauuuGACCa -3'
miRNA:   3'- uGGAUGCGU-GCUG---CAUUGguguCUGG- -5'
2262 3' -51.9 NC_001405.1 + 7873 0.67 0.766377
Target:  5'- gACCgccGCGCGaGACcUAGCCGUGGACCu -3'
miRNA:   3'- -UGGa--UGCGUgCUGcAUUGGUGUCUGG- -5'
2262 3' -51.9 NC_001405.1 + 33518 0.67 0.766377
Target:  5'- uACCUGCGCuuGugGUAugaugGCCACGuGGg- -3'
miRNA:   3'- -UGGAUGCGugCugCAU-----UGGUGU-CUgg -5'
2262 3' -51.9 NC_001405.1 + 22366 0.67 0.755662
Target:  5'- aAUCUGCGCAC--UGUGGCUGCGGAa- -3'
miRNA:   3'- -UGGAUGCGUGcuGCAUUGGUGUCUgg -5'
2262 3' -51.9 NC_001405.1 + 12727 0.67 0.744809
Target:  5'- -gCUGCGCGCGcucACGcugcGCCACGG-CCu -3'
miRNA:   3'- ugGAUGCGUGC---UGCau--UGGUGUCuGG- -5'
2262 3' -51.9 NC_001405.1 + 21730 0.67 0.733831
Target:  5'- gGCgUGCGCAgguacacggucuCGAUGacGCCGCGGugCg -3'
miRNA:   3'- -UGgAUGCGU------------GCUGCauUGGUGUCugG- -5'
2262 3' -51.9 NC_001405.1 + 15865 0.68 0.711553
Target:  5'- ---gACGCGCGGCGaGACUAUgcccaGGGCCu -3'
miRNA:   3'- uggaUGCGUGCUGCaUUGGUG-----UCUGG- -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 + 12245 0.68 0.700279
Target:  5'- uGCCaGCGCGCG-CGgguGCCACc-GCCa -3'
miRNA:   3'- -UGGaUGCGUGCuGCau-UGGUGucUGG- -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 + 23318 0.68 0.666071
Target:  5'- aACCUACaaGCACcACGagcCCACGGGCUg -3'
miRNA:   3'- -UGGAUG--CGUGcUGCauuGGUGUCUGG- -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 + 16201 0.69 0.643071
Target:  5'- uGCCgcccaACGCGCGGCGgcggcccugcuUAACCGCGcacgucgcaccGGCCg -3'
miRNA:   3'- -UGGa----UGCGUGCUGC-----------AUUGGUGU-----------CUGG- -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 + 7823 0.69 0.620027
Target:  5'- gUCU-CGCGCGGCGgucACCAgAGGCUc -3'
miRNA:   3'- uGGAuGCGUGCUGCau-UGGUgUCUGG- -5'
2262 3' -51.9 NC_001405.1 + 11463 0.71 0.496213
Target:  5'- uCCcGCGCGCGcacACGUGgcgGCCGCcGACCu -3'
miRNA:   3'- uGGaUGCGUGC---UGCAU---UGGUGuCUGG- -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.