miRNA display CGI


Results 1 - 20 of 76 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
12961 3' -54.2 NC_003387.1 + 41884 0.68 0.620398
Target:  5'- -gUCGGCGAGCUGGcgaagcuccaACGUcaUCGcuuGCCCg -3'
miRNA:   3'- aaAGCUGCUCGACU----------UGCAc-AGC---CGGG- -5'
12961 3' -54.2 NC_003387.1 + 12483 0.67 0.686915
Target:  5'- --aCGACGAGCUGcauGCGggggcugccGUCGuCCCa -3'
miRNA:   3'- aaaGCUGCUCGACu--UGCa--------CAGCcGGG- -5'
12961 3' -54.2 NC_003387.1 + 6376 0.67 0.686915
Target:  5'- -cUCGgccGCGGGCgacgccuuGCGUGggCGGCCCc -3'
miRNA:   3'- aaAGC---UGCUCGacu-----UGCACa-GCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 49522 0.67 0.686915
Target:  5'- --gCGGCGAGCUu-GCGcugcugGUUGGCCUc -3'
miRNA:   3'- aaaGCUGCUCGAcuUGCa-----CAGCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 14752 0.67 0.675899
Target:  5'- -gUCGACGAuCUGGuCGuUGUCGuGCUCg -3'
miRNA:   3'- aaAGCUGCUcGACUuGC-ACAGC-CGGG- -5'
12961 3' -54.2 NC_003387.1 + 32063 0.68 0.653749
Target:  5'- -gUCGACGGuGUcGAACGUGUUcGCCg -3'
miRNA:   3'- aaAGCUGCU-CGaCUUGCACAGcCGGg -5'
12961 3' -54.2 NC_003387.1 + 12975 0.68 0.650418
Target:  5'- -gUCGGCGAGCUGGucgucgauaaucucGCGcugcGUCGucagcaGCCCg -3'
miRNA:   3'- aaAGCUGCUCGACU--------------UGCa---CAGC------CGGG- -5'
12961 3' -54.2 NC_003387.1 + 6158 0.68 0.642638
Target:  5'- -gUCGGCGuAGCcGAucaGCGUcacgacGUCGGCCUu -3'
miRNA:   3'- aaAGCUGC-UCGaCU---UGCA------CAGCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 31086 0.68 0.631518
Target:  5'- -gUCGACGAGCUGA-CGc-UCGacgccuGCCCg -3'
miRNA:   3'- aaAGCUGCUCGACUuGCacAGC------CGGG- -5'
12961 3' -54.2 NC_003387.1 + 35152 0.67 0.686915
Target:  5'- -gUCGACcAGCgGGGCGuUGUC-GCCCu -3'
miRNA:   3'- aaAGCUGcUCGaCUUGC-ACAGcCGGG- -5'
12961 3' -54.2 NC_003387.1 + 33863 0.66 0.73033
Target:  5'- --gCGACGAGCgccucGGGCGacgacagGUCGauGCCCg -3'
miRNA:   3'- aaaGCUGCUCGa----CUUGCa------CAGC--CGGG- -5'
12961 3' -54.2 NC_003387.1 + 835 0.66 0.73033
Target:  5'- -cUCGACGAGCUucuCGgcgaCGGCCUu -3'
miRNA:   3'- aaAGCUGCUCGAcuuGCaca-GCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 19851 0.66 0.782253
Target:  5'- -gUCGuCGAGCUGGcagucgGCGcaGUCGGCg- -3'
miRNA:   3'- aaAGCuGCUCGACU------UGCa-CAGCCGgg -5'
12961 3' -54.2 NC_003387.1 + 40097 0.66 0.776204
Target:  5'- cUUCGACGAGUaguUGGggaucauaaugucgaGCGcc-CGGCCCg -3'
miRNA:   3'- aAAGCUGCUCG---ACU---------------UGCacaGCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 20473 0.66 0.77214
Target:  5'- -cUCGGCGAcgGCcaGGCG-GUCGGCCa -3'
miRNA:   3'- aaAGCUGCU--CGacUUGCaCAGCCGGg -5'
12961 3' -54.2 NC_003387.1 + 44613 0.66 0.76188
Target:  5'- --gCGuACGAGCUGGgcucgcccucggGCGgGUUGGCgCCg -3'
miRNA:   3'- aaaGC-UGCUCGACU------------UGCaCAGCCG-GG- -5'
12961 3' -54.2 NC_003387.1 + 7886 0.66 0.758775
Target:  5'- -aUCGACGAccugGCUGucgucgauccacacGACGUcgGUCaGCCCg -3'
miRNA:   3'- aaAGCUGCU----CGAC--------------UUGCA--CAGcCGGG- -5'
12961 3' -54.2 NC_003387.1 + 31570 0.66 0.755657
Target:  5'- -cUCGcCGAGCcgcugcuugaccgccUGAACcaUGUCGGCCg -3'
miRNA:   3'- aaAGCuGCUCG---------------ACUUGc-ACAGCCGGg -5'
12961 3' -54.2 NC_003387.1 + 20069 0.66 0.751483
Target:  5'- -cUCGGCGuGCgUGAGCGUuauGUCcuugaGGCUCa -3'
miRNA:   3'- aaAGCUGCuCG-ACUUGCA---CAG-----CCGGG- -5'
12961 3' -54.2 NC_003387.1 + 22991 0.66 0.740963
Target:  5'- -cUCGcccGCGuAGCUGc-CGUcGUCGGCCUg -3'
miRNA:   3'- aaAGC---UGC-UCGACuuGCA-CAGCCGGG- -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.