miRNA display CGI


Results 1 - 20 of 23 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
16671 5' -49 NC_004156.1 + 78990 0.66 0.999749
Target:  5'- uAGACACUCGGACgCUAGAa--UCGu- -3'
miRNA:   3'- -UUUGUGAGCCUGaGAUUUgugAGCcu -5'
16671 5' -49 NC_004156.1 + 25652 0.66 0.999749
Target:  5'- -cACAUUCGGACaacaugUCUcGAACACagagCGGAu -3'
miRNA:   3'- uuUGUGAGCCUG------AGA-UUUGUGa---GCCU- -5'
16671 5' -49 NC_004156.1 + 226896 0.66 0.999602
Target:  5'- gGAACucuuUUCGGugUCUGuAAUAUUUGGAu -3'
miRNA:   3'- -UUUGu---GAGCCugAGAU-UUGUGAGCCU- -5'
16671 5' -49 NC_004156.1 + 149159 0.66 0.999602
Target:  5'- aGAGCuACccaaGGGCUUUGAACuaccGCUCGGAg -3'
miRNA:   3'- -UUUG-UGag--CCUGAGAUUUG----UGAGCCU- -5'
16671 5' -49 NC_004156.1 + 35041 0.66 0.999504
Target:  5'- ---aACUCGGACUCUGcuaAACACguuUCGa- -3'
miRNA:   3'- uuugUGAGCCUGAGAU---UUGUG---AGCcu -5'
16671 5' -49 NC_004156.1 + 89391 0.67 0.999072
Target:  5'- cGAGCAC-CGaagcuauauuGGCUCUGGugACUCGGc -3'
miRNA:   3'- -UUUGUGaGC----------CUGAGAUUugUGAGCCu -5'
16671 5' -49 NC_004156.1 + 139101 0.67 0.99887
Target:  5'- -cGCACUCuGGACUCguacAAGCgACUCGa- -3'
miRNA:   3'- uuUGUGAG-CCUGAGa---UUUG-UGAGCcu -5'
16671 5' -49 NC_004156.1 + 129983 0.67 0.998731
Target:  5'- -uGCACcgucUCGGgagccuccauauaguACUCUuuGCACUCGGGc -3'
miRNA:   3'- uuUGUG----AGCC---------------UGAGAuuUGUGAGCCU- -5'
16671 5' -49 NC_004156.1 + 218185 0.67 0.998631
Target:  5'- cAACAUUCGGugUCUGuACACguUCGa- -3'
miRNA:   3'- uUUGUGAGCCugAGAUuUGUG--AGCcu -5'
16671 5' -49 NC_004156.1 + 6822 0.68 0.998351
Target:  5'- -uACACUCGcGACUUgacgaUGAGCACUCa-- -3'
miRNA:   3'- uuUGUGAGC-CUGAG-----AUUUGUGAGccu -5'
16671 5' -49 NC_004156.1 + 19558 0.68 0.997644
Target:  5'- --cUACUUGGACgccCUAGAagucaACUCGGAc -3'
miRNA:   3'- uuuGUGAGCCUGa--GAUUUg----UGAGCCU- -5'
16671 5' -49 NC_004156.1 + 94759 0.68 0.997206
Target:  5'- ---gACUCGGACUCUucggaaucGGACACa-GGAg -3'
miRNA:   3'- uuugUGAGCCUGAGA--------UUUGUGagCCU- -5'
16671 5' -49 NC_004156.1 + 158673 0.69 0.994721
Target:  5'- uGGCACUCGGucGCcgUCUGAuuGCAUUCGGu -3'
miRNA:   3'- uUUGUGAGCC--UG--AGAUU--UGUGAGCCu -5'
16671 5' -49 NC_004156.1 + 17322 0.69 0.994721
Target:  5'- cGGCACUCGGcacacucuACUCUAcACACUCu-- -3'
miRNA:   3'- uUUGUGAGCC--------UGAGAUuUGUGAGccu -5'
16671 5' -49 NC_004156.1 + 166053 0.7 0.992932
Target:  5'- -uGCACUCGGACUUguuAGCGgcacccauCUCGGu -3'
miRNA:   3'- uuUGUGAGCCUGAGau-UUGU--------GAGCCu -5'
16671 5' -49 NC_004156.1 + 45999 0.7 0.991872
Target:  5'- cAACACUUGGACU---AGCACUCGc- -3'
miRNA:   3'- uUUGUGAGCCUGAgauUUGUGAGCcu -5'
16671 5' -49 NC_004156.1 + 106398 0.7 0.99069
Target:  5'- --cCAUUCGGACUCguucaaauUGAACGCUCuGAg -3'
miRNA:   3'- uuuGUGAGCCUGAG--------AUUUGUGAGcCU- -5'
16671 5' -49 NC_004156.1 + 9290 0.72 0.970176
Target:  5'- ---gGCUCcGACUCUGAAUcaaACUCGGAc -3'
miRNA:   3'- uuugUGAGcCUGAGAUUUG---UGAGCCU- -5'
16671 5' -49 NC_004156.1 + 118463 0.72 0.963738
Target:  5'- --gUAUUCuGGGCUCUcAAUACUCGGAu -3'
miRNA:   3'- uuuGUGAG-CCUGAGAuUUGUGAGCCU- -5'
16671 5' -49 NC_004156.1 + 92936 0.75 0.904882
Target:  5'- aAAGgACUCGGACUCUGAA---UCGGAu -3'
miRNA:   3'- -UUUgUGAGCCUGAGAUUUgugAGCCU- -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.