miRNA display CGI


Results 1 - 16 of 16 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
12418 3' -54.7 NC_003324.1 + 29266 0.67 0.691085
Target:  5'- cGCCGG-GCUCGCGcUCgAUCGGCG-GAUu -3'
miRNA:   3'- -CGGCCuUGGGCGC-AG-UAGCUGUaCUA- -5'
12418 3' -54.7 NC_003324.1 + 20444 0.67 0.680207
Target:  5'- gGCCGGAGCuCCGgcCGUCAUUGAgAa--- -3'
miRNA:   3'- -CGGCCUUG-GGC--GCAGUAGCUgUacua -5'
12418 3' -54.7 NC_003324.1 + 21520 0.68 0.658324
Target:  5'- gGUCGGAcggccGCCacgGCG-CAUCGAUGUGAUg -3'
miRNA:   3'- -CGGCCU-----UGGg--CGCaGUAGCUGUACUA- -5'
12418 3' -54.7 NC_003324.1 + 46023 0.68 0.636345
Target:  5'- aCCGGGACCCGUuucCAUUGGC-UGAUc -3'
miRNA:   3'- cGGCCUUGGGCGca-GUAGCUGuACUA- -5'
12418 3' -54.7 NC_003324.1 + 430 0.69 0.603371
Target:  5'- cCCGGAGCCCGCGaauGUcCGACAUc-- -3'
miRNA:   3'- cGGCCUUGGGCGCag-UA-GCUGUAcua -5'
12418 3' -54.7 NC_003324.1 + 54290 0.69 0.600081
Target:  5'- uGCUGGAagGCCUGCGUCugcgccgucugcacGUCcGugGUGAUa -3'
miRNA:   3'- -CGGCCU--UGGGCGCAG--------------UAG-CugUACUA- -5'
12418 3' -54.7 NC_003324.1 + 48620 0.69 0.600081
Target:  5'- gGUCGGcGCCCGCauccGgcuccgccgcaacaUCAUCGGCAUGAg -3'
miRNA:   3'- -CGGCCuUGGGCG----C--------------AGUAGCUGUACUa -5'
12418 3' -54.7 NC_003324.1 + 54155 0.69 0.581495
Target:  5'- aCgGGAGCuggCCGCGUCAugUCGGCGUGu- -3'
miRNA:   3'- cGgCCUUG---GGCGCAGU--AGCUGUACua -5'
12418 3' -54.7 NC_003324.1 + 21489 0.69 0.570616
Target:  5'- uGCCGGAugCCGCGccCGUCG-CGUu-- -3'
miRNA:   3'- -CGGCCUugGGCGCa-GUAGCuGUAcua -5'
12418 3' -54.7 NC_003324.1 + 15068 0.69 0.570616
Target:  5'- cGCUGGAAguCCUGCG-CAUaggugcCGACGUGAUg -3'
miRNA:   3'- -CGGCCUU--GGGCGCaGUA------GCUGUACUA- -5'
12418 3' -54.7 NC_003324.1 + 31173 0.7 0.549017
Target:  5'- cCCGGccugcgccaucaGGCCCGgGUUAUCcGACGUGAa -3'
miRNA:   3'- cGGCC------------UUGGGCgCAGUAG-CUGUACUa -5'
12418 3' -54.7 NC_003324.1 + 16807 0.7 0.549017
Target:  5'- cGCCGGGcagauuGCCCaGCGcugCAUCGACAaGGg -3'
miRNA:   3'- -CGGCCU------UGGG-CGCa--GUAGCUGUaCUa -5'
12418 3' -54.7 NC_003324.1 + 5559 0.7 0.517124
Target:  5'- cGCCGcAACCUucgccgcggGCGUCAUCGGCcUGAc -3'
miRNA:   3'- -CGGCcUUGGG---------CGCAGUAGCUGuACUa -5'
12418 3' -54.7 NC_003324.1 + 18374 0.7 0.506656
Target:  5'- gGCCGGGgcagcgauuGCCCGCG-CGUCGGCc-GAUu -3'
miRNA:   3'- -CGGCCU---------UGGGCGCaGUAGCUGuaCUA- -5'
12418 3' -54.7 NC_003324.1 + 17512 0.71 0.443995
Target:  5'- aCCGGGcUCCGCGUCAgaccgacgagggCGACGUGGc -3'
miRNA:   3'- cGGCCUuGGGCGCAGUa-----------GCUGUACUa -5'
12418 3' -54.7 NC_003324.1 + 5301 1.07 0.001731
Target:  5'- gGCCGGAACCCGCGUCAUCGACAUGAUc -3'
miRNA:   3'- -CGGCCUUGGGCGCAGUAGCUGUACUA- -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.