miRNA display CGI


Results 1 - 20 of 21 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
27669 3' -55.4 NC_005882.1 + 3678 0.66 0.55963
Target:  5'- --aCCGGAGGUAuucguCCaGGCGCgggccGUCGAGc -3'
miRNA:   3'- uaaGGCUUCCGUu----GG-CCGCG-----UAGCUU- -5'
27669 3' -55.4 NC_005882.1 + 5343 0.66 0.558497
Target:  5'- uUUCCGGcgAGGCAACCGccaauucGCGgcacaCAUCGAu -3'
miRNA:   3'- uAAGGCU--UCCGUUGGC-------CGC-----GUAGCUu -5'
27669 3' -55.4 NC_005882.1 + 32878 0.66 0.548328
Target:  5'- -gUCCGucauaguGGGCGgcGCCGuuguaGCGCAUCGGc -3'
miRNA:   3'- uaAGGCu------UCCGU--UGGC-----CGCGUAGCUu -5'
27669 3' -55.4 NC_005882.1 + 15493 0.66 0.547202
Target:  5'- cUUCUGcGAGGUAuugGCCGuugccccGCGCGUCGAAg -3'
miRNA:   3'- uAAGGC-UUCCGU---UGGC-------CGCGUAGCUU- -5'
27669 3' -55.4 NC_005882.1 + 27647 0.66 0.537097
Target:  5'- --cUCG-GGGCGgaucgccgGCUGGCGCAUCGGu -3'
miRNA:   3'- uaaGGCuUCCGU--------UGGCCGCGUAGCUu -5'
27669 3' -55.4 NC_005882.1 + 20951 0.66 0.525948
Target:  5'- --cCCGAgaucAGGUAGCCGGCGUccgcgcCGAGc -3'
miRNA:   3'- uaaGGCU----UCCGUUGGCCGCGua----GCUU- -5'
27669 3' -55.4 NC_005882.1 + 1322 0.66 0.523729
Target:  5'- -cUCCGcAGGaugcguuuaacGCCGGcCGCAUCGAGg -3'
miRNA:   3'- uaAGGCuUCCgu---------UGGCC-GCGUAGCUU- -5'
27669 3' -55.4 NC_005882.1 + 25954 0.66 0.508295
Target:  5'- -cUCCGAgacgcucgggaucaaGGGCGACgCGGCGCugaaGGAg -3'
miRNA:   3'- uaAGGCU---------------UCCGUUG-GCCGCGuag-CUU- -5'
27669 3' -55.4 NC_005882.1 + 16887 0.66 0.503921
Target:  5'- --gUCGAagacGGGuCGAUCGGCGcCGUCGAAg -3'
miRNA:   3'- uaaGGCU----UCC-GUUGGCCGC-GUAGCUU- -5'
27669 3' -55.4 NC_005882.1 + 9401 0.66 0.503921
Target:  5'- --gCCGcGAGGUAGCUGGCGUccggCGAAc -3'
miRNA:   3'- uaaGGC-UUCCGUUGGCCGCGua--GCUU- -5'
27669 3' -55.4 NC_005882.1 + 23733 0.67 0.471664
Target:  5'- --gCCcuuGGuCGAUCGGCGCGUCGAc -3'
miRNA:   3'- uaaGGcuuCC-GUUGGCCGCGUAGCUu -5'
27669 3' -55.4 NC_005882.1 + 16023 0.67 0.450749
Target:  5'- --gCCGcAAGGCGGCCGugaaaGCGC-UCGAAu -3'
miRNA:   3'- uaaGGC-UUCCGUUGGC-----CGCGuAGCUU- -5'
27669 3' -55.4 NC_005882.1 + 5062 0.68 0.420363
Target:  5'- -cUCuCGAAGcGCAugcugcGCUGGCGUAUCGGc -3'
miRNA:   3'- uaAG-GCUUC-CGU------UGGCCGCGUAGCUu -5'
27669 3' -55.4 NC_005882.1 + 21291 0.68 0.420363
Target:  5'- ---gCGAcGGCGGCCGGCGaCGUCa-- -3'
miRNA:   3'- uaagGCUuCCGUUGGCCGC-GUAGcuu -5'
27669 3' -55.4 NC_005882.1 + 6680 0.68 0.410512
Target:  5'- gGUUUCGAAGGCGGCacgcaGGuUGCcgCGAAu -3'
miRNA:   3'- -UAAGGCUUCCGUUGg----CC-GCGuaGCUU- -5'
27669 3' -55.4 NC_005882.1 + 20515 0.69 0.372582
Target:  5'- --gCCGAAcacgauGGUGAUCGGUGCGUCGGc -3'
miRNA:   3'- uaaGGCUU------CCGUUGGCCGCGUAGCUu -5'
27669 3' -55.4 NC_005882.1 + 12232 0.7 0.320315
Target:  5'- -cUCUGGGagcgcaucacGGCGGCCGGUGCAUgCGAGc -3'
miRNA:   3'- uaAGGCUU----------CCGUUGGCCGCGUA-GCUU- -5'
27669 3' -55.4 NC_005882.1 + 18704 0.71 0.288633
Target:  5'- -gUCCGGAGGCGcgcagagcgcgAUCGGCuCGUCGAc -3'
miRNA:   3'- uaAGGCUUCCGU-----------UGGCCGcGUAGCUu -5'
27669 3' -55.4 NC_005882.1 + 29866 0.71 0.281107
Target:  5'- ---aCGAAgcuGGCcGCCGGUGCGUCGAu -3'
miRNA:   3'- uaagGCUU---CCGuUGGCCGCGUAGCUu -5'
27669 3' -55.4 NC_005882.1 + 12537 0.72 0.22028
Target:  5'- -gUCgCGgcGGCGGCCGGCGCugcggCGAu -3'
miRNA:   3'- uaAG-GCuuCCGUUGGCCGCGua---GCUu -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.