miRNA display CGI


Results 1 - 20 of 42 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
12216 5' -50.7 NC_003309.1 + 3301 0.68 0.829415
Target:  5'- aGGCGCaGCGcgucGAUCAgcgcuGCAUCGACGuUCg -3'
miRNA:   3'- -CCGCG-CGC----UUGGU-----UGUAGCUGUuAGa -5'
12216 5' -50.7 NC_003309.1 + 4183 0.66 0.934266
Target:  5'- aGGCaGCGCGGaugucguccGCCAGC-UCGAacgcgcCGGUCg -3'
miRNA:   3'- -CCG-CGCGCU---------UGGUUGuAGCU------GUUAGa -5'
12216 5' -50.7 NC_003309.1 + 4686 0.73 0.555678
Target:  5'- cGGcCGCGCGAGCCGaaacgcuacggcgcGCAuucgcgccUUGACGAUCg -3'
miRNA:   3'- -CC-GCGCGCUUGGU--------------UGU--------AGCUGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 5063 0.68 0.85626
Target:  5'- gGGCGCgGCG-GCCGgugccGCGaCGGCGGUCg -3'
miRNA:   3'- -CCGCG-CGCuUGGU-----UGUaGCUGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 5562 0.69 0.800593
Target:  5'- -uCGCGCGcGCCGAUcgCGGCGGUg- -3'
miRNA:   3'- ccGCGCGCuUGGUUGuaGCUGUUAga -5'
12216 5' -50.7 NC_003309.1 + 6077 0.67 0.903049
Target:  5'- cGUGaCGCGGGCCGAaGUCGuucuuuGCGAUCa -3'
miRNA:   3'- cCGC-GCGCUUGGUUgUAGC------UGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 6750 0.71 0.716407
Target:  5'- cGGCGCGCGcauacGGCCAACGUgcuUGACcggCUg -3'
miRNA:   3'- -CCGCGCGC-----UUGGUUGUA---GCUGuuaGA- -5'
12216 5' -50.7 NC_003309.1 + 9693 0.75 0.48311
Target:  5'- cGCGCGCGAugCGcagcACGUCGuucugcGCAAUCg -3'
miRNA:   3'- cCGCGCGCUugGU----UGUAGC------UGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 10046 0.67 0.888544
Target:  5'- cGCGCGCG--UCAGCGccUCGACGAg-- -3'
miRNA:   3'- cCGCGCGCuuGGUUGU--AGCUGUUaga -5'
12216 5' -50.7 NC_003309.1 + 11828 0.67 0.87293
Target:  5'- cGCGCGCccGCCGcgGCuuucgaauccuuGUCGGCGAUCg -3'
miRNA:   3'- cCGCGCGcuUGGU--UG------------UAGCUGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 11986 0.7 0.748982
Target:  5'- cGCGCGCGGcaGCCGcggcgcgcgccGCGUCGGCGu--- -3'
miRNA:   3'- cCGCGCGCU--UGGU-----------UGUAGCUGUuaga -5'
12216 5' -50.7 NC_003309.1 + 12465 0.69 0.810402
Target:  5'- cGCGCGCGuuUCAccCAUCGACA-UCg -3'
miRNA:   3'- cCGCGCGCuuGGUu-GUAGCUGUuAGa -5'
12216 5' -50.7 NC_003309.1 + 12863 0.73 0.559012
Target:  5'- cGCGCGCGccgaaAACCGcgcgAgGUCGGCGAUCa -3'
miRNA:   3'- cCGCGCGC-----UUGGU----UgUAGCUGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 16204 0.71 0.660513
Target:  5'- cGGCcgGCGCGAacucgcACCAGuCGUCGACGccgAUCg -3'
miRNA:   3'- -CCG--CGCGCU------UGGUU-GUAGCUGU---UAGa -5'
12216 5' -50.7 NC_003309.1 + 16704 0.67 0.903049
Target:  5'- aGCGCGCGcACCGcCuUCG-CGGUCg -3'
miRNA:   3'- cCGCGCGCuUGGUuGuAGCuGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 16948 0.76 0.402966
Target:  5'- cGGCuGCGCGaAACCgAACGUCG-CGAUCg -3'
miRNA:   3'- -CCG-CGCGC-UUGG-UUGUAGCuGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 19958 0.69 0.780425
Target:  5'- uGCGCGCGAuCCG-CuUCGACGcgCg -3'
miRNA:   3'- cCGCGCGCUuGGUuGuAGCUGUuaGa -5'
12216 5' -50.7 NC_003309.1 + 21751 0.69 0.820013
Target:  5'- aGGCGUgcaGCGAGCuCGAUcugcucUCGACGAUCc -3'
miRNA:   3'- -CCGCG---CGCUUG-GUUGu-----AGCUGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 22085 0.7 0.748982
Target:  5'- aGGCGCGCGGcCCGAUGUUguaGGCGAa-- -3'
miRNA:   3'- -CCGCGCGCUuGGUUGUAG---CUGUUaga -5'
12216 5' -50.7 NC_003309.1 + 22423 0.75 0.471619
Target:  5'- cGGCGCGCGAGaucuugcCCAACGcuUCGGCAu--- -3'
miRNA:   3'- -CCGCGCGCUU-------GGUUGU--AGCUGUuaga -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.