miRNA display CGI


Results 1 - 20 of 28 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
18547 3' -55.9 NC_004682.1 + 39217 0.66 0.710302
Target:  5'- --cGCUGGAACGCCuCGCG-CU-CGu- -3'
miRNA:   3'- cgaCGACCUUGCGG-GUGCuGAaGCcc -5'
18547 3' -55.9 NC_004682.1 + 48249 0.66 0.703899
Target:  5'- cCUGCUGGAcccuguggccccugaAUGCCCuGCgGGCcUUGGGc -3'
miRNA:   3'- cGACGACCU---------------UGCGGG-UG-CUGaAGCCC- -5'
18547 3' -55.9 NC_004682.1 + 5275 0.66 0.696398
Target:  5'- cGC-GCUGGGGCugcugcucacgccgGCCC-CGGCgcaggCGGGu -3'
miRNA:   3'- -CGaCGACCUUG--------------CGGGuGCUGaa---GCCC- -5'
18547 3' -55.9 NC_004682.1 + 47099 0.66 0.688867
Target:  5'- aCUGCUGGuAUGCCaaaGCGGCguagUCGcGa -3'
miRNA:   3'- cGACGACCuUGCGGg--UGCUGa---AGC-Cc -5'
18547 3' -55.9 NC_004682.1 + 7150 0.66 0.678063
Target:  5'- cGCUcgGCUGGGGCGUCC-UGaACUggUGGGc -3'
miRNA:   3'- -CGA--CGACCUUGCGGGuGC-UGAa-GCCC- -5'
18547 3' -55.9 NC_004682.1 + 19072 0.66 0.678063
Target:  5'- cCU-CUGGGGCuUCCGCGACUUCGuccGGg -3'
miRNA:   3'- cGAcGACCUUGcGGGUGCUGAAGC---CC- -5'
18547 3' -55.9 NC_004682.1 + 10078 0.66 0.667216
Target:  5'- --gGCgUGGggUGCCCGCcag-UCGGGc -3'
miRNA:   3'- cgaCG-ACCuuGCGGGUGcugaAGCCC- -5'
18547 3' -55.9 NC_004682.1 + 18451 0.66 0.667216
Target:  5'- cGCUGCU----CGUCUACGGCgacagCGGGg -3'
miRNA:   3'- -CGACGAccuuGCGGGUGCUGaa---GCCC- -5'
18547 3' -55.9 NC_004682.1 + 48826 0.66 0.667216
Target:  5'- ---cCUGGAcggguGCGCCguCGGCcUCGGGg -3'
miRNA:   3'- cgacGACCU-----UGCGGguGCUGaAGCCC- -5'
18547 3' -55.9 NC_004682.1 + 41056 0.66 0.663956
Target:  5'- gGCUGUUGGGgucgaugcucuucuGCGUCCAgacgguCGGCUUCGu- -3'
miRNA:   3'- -CGACGACCU--------------UGCGGGU------GCUGAAGCcc -5'
18547 3' -55.9 NC_004682.1 + 28251 0.67 0.634524
Target:  5'- aGUUGCcgaacgucaGGAA-GCCuCAuCGGCUUCGGGg -3'
miRNA:   3'- -CGACGa--------CCUUgCGG-GU-GCUGAAGCCC- -5'
18547 3' -55.9 NC_004682.1 + 20562 0.67 0.623609
Target:  5'- gGCU-CUGGAACGgCgaCAUGGucCUUCGGGg -3'
miRNA:   3'- -CGAcGACCUUGCgG--GUGCU--GAAGCCC- -5'
18547 3' -55.9 NC_004682.1 + 32692 0.67 0.623609
Target:  5'- --gGCaGGAcCGCCCugGccGCUUCGcGGg -3'
miRNA:   3'- cgaCGaCCUuGCGGGugC--UGAAGC-CC- -5'
18547 3' -55.9 NC_004682.1 + 45268 0.67 0.612701
Target:  5'- --gGUUGGcGCGUCCG-GugUUCGGGu -3'
miRNA:   3'- cgaCGACCuUGCGGGUgCugAAGCCC- -5'
18547 3' -55.9 NC_004682.1 + 5724 0.67 0.606164
Target:  5'- aGUUGCUGGcACGaCCACaACUgaacauagaaucuauUCGGGa -3'
miRNA:   3'- -CGACGACCuUGCgGGUGcUGA---------------AGCCC- -5'
18547 3' -55.9 NC_004682.1 + 17626 0.67 0.60181
Target:  5'- cGCUGCUGG--UGCCCAaccugcaGACgcUCGGc -3'
miRNA:   3'- -CGACGACCuuGCGGGUg------CUGa-AGCCc -5'
18547 3' -55.9 NC_004682.1 + 33875 0.67 0.590945
Target:  5'- uCUGCUcGAACGCUggcauCAgGACUUCGGc -3'
miRNA:   3'- cGACGAcCUUGCGG-----GUgCUGAAGCCc -5'
18547 3' -55.9 NC_004682.1 + 30835 0.68 0.547905
Target:  5'- -aUGCUcgGGAGCGCCUccaggcGCGACUUCa-- -3'
miRNA:   3'- cgACGA--CCUUGCGGG------UGCUGAAGccc -5'
18547 3' -55.9 NC_004682.1 + 29857 0.69 0.526746
Target:  5'- gGUUGUccgGGAGCGUCCACaGACUcguuucgagUCGGa -3'
miRNA:   3'- -CGACGa--CCUUGCGGGUG-CUGA---------AGCCc -5'
18547 3' -55.9 NC_004682.1 + 12670 0.7 0.445695
Target:  5'- --gGCUGGAccgaggGCGUCCACGACUacguccaccaGGGg -3'
miRNA:   3'- cgaCGACCU------UGCGGGUGCUGAag--------CCC- -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.