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
12097 3' -52.4 NC_003309.1 + 47487 0.66 0.890161
Target:  5'- gCGCAgcgAcACCUUCGCcGCCGGGCg-- -3'
miRNA:   3'- gGCGUa--UaUGGAGGCG-UGGCUUGagc -5'
12097 3' -52.4 NC_003309.1 + 21604 0.66 0.882699
Target:  5'- cCCGCGUAgcucacgGCUUCCGUaggACU-AGCUCGc -3'
miRNA:   3'- -GGCGUAUa------UGGAGGCG---UGGcUUGAGC- -5'
12097 3' -52.4 NC_003309.1 + 16996 0.66 0.882699
Target:  5'- gCCGCccaAUGCCaucgaCGCACCGAGCc-- -3'
miRNA:   3'- -GGCGua-UAUGGag---GCGUGGCUUGagc -5'
12097 3' -52.4 NC_003309.1 + 9997 0.66 0.882699
Target:  5'- uCgGcCAUcgACUugagCUGCGCCGAACUCu -3'
miRNA:   3'- -GgC-GUAuaUGGa---GGCGUGGCUUGAGc -5'
12097 3' -52.4 NC_003309.1 + 17943 0.66 0.874975
Target:  5'- cUCGCAcgugAUACgaaCGCACCGGcacGCUCGa -3'
miRNA:   3'- -GGCGUa---UAUGgagGCGUGGCU---UGAGC- -5'
12097 3' -52.4 NC_003309.1 + 42128 0.67 0.832664
Target:  5'- gCGCGUugACgCUCuggaCGCACCGGACUUc -3'
miRNA:   3'- gGCGUAuaUG-GAG----GCGUGGCUUGAGc -5'
12097 3' -52.4 NC_003309.1 + 51567 0.67 0.823521
Target:  5'- aCCGCGauUGCCUCgGCAacUCGAAgcaUCGg -3'
miRNA:   3'- -GGCGUauAUGGAGgCGU--GGCUUg--AGC- -5'
12097 3' -52.4 NC_003309.1 + 46377 0.68 0.794902
Target:  5'- cUCGCcUGUcGCCUCCGCgagcGCCGc-CUCGa -3'
miRNA:   3'- -GGCGuAUA-UGGAGGCG----UGGCuuGAGC- -5'
12097 3' -52.4 NC_003309.1 + 166 0.68 0.774939
Target:  5'- gCCGCGau--UUUCCGCGCCGucgGCUUGg -3'
miRNA:   3'- -GGCGUauauGGAGGCGUGGCu--UGAGC- -5'
12097 3' -52.4 NC_003309.1 + 51912 0.68 0.764726
Target:  5'- gCCGCA-GUGCgUCCGCuauCCcaaGACUCGu -3'
miRNA:   3'- -GGCGUaUAUGgAGGCGu--GGc--UUGAGC- -5'
12097 3' -52.4 NC_003309.1 + 6372 0.69 0.700943
Target:  5'- aCCGCGU-UACCccuucgCCGCGgUGGGCUUGg -3'
miRNA:   3'- -GGCGUAuAUGGa-----GGCGUgGCUUGAGC- -5'
12097 3' -52.4 NC_003309.1 + 12386 0.69 0.700943
Target:  5'- uCCGCGUcaAUCUgCGCACUGcGCUCc -3'
miRNA:   3'- -GGCGUAuaUGGAgGCGUGGCuUGAGc -5'
12097 3' -52.4 NC_003309.1 + 7569 0.7 0.690006
Target:  5'- gCCuuCAUGUGCUg-CGUGCCGAACUCGu -3'
miRNA:   3'- -GGc-GUAUAUGGagGCGUGGCUUGAGC- -5'
12097 3' -52.4 NC_003309.1 + 770 0.7 0.6458
Target:  5'- uUCGCucagcgGCCUCCGgAUCGAACUUc -3'
miRNA:   3'- -GGCGuaua--UGGAGGCgUGGCUUGAGc -5'
12097 3' -52.4 NC_003309.1 + 27250 0.73 0.493358
Target:  5'- aUCGCA---GCCUUCGCACUGAGCaauUCGu -3'
miRNA:   3'- -GGCGUauaUGGAGGCGUGGCUUG---AGC- -5'
12097 3' -52.4 NC_003309.1 + 1026 1.11 0.001665
Target:  5'- cCCGCAUAUACCUCCGCACCGAACUCGu -3'
miRNA:   3'- -GGCGUAUAUGGAGGCGUGGCUUGAGC- -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.