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
26806 5' -52.9 NC_005808.1 + 14582 0.66 0.761731
Target:  5'- -gGCugAUGCCGGcGGccGAuCCGCUUUu -3'
miRNA:   3'- agCGugUACGGUU-CCaaCU-GGCGAAG- -5'
26806 5' -52.9 NC_005808.1 + 41617 0.66 0.761731
Target:  5'- -gGCACcgGCCAGGcGgccaagUGGCUGCa-- -3'
miRNA:   3'- agCGUGuaCGGUUC-Ca-----ACUGGCGaag -5'
26806 5' -52.9 NC_005808.1 + 28787 0.66 0.717885
Target:  5'- gUCGCGCuUGCCcuGGUUG-CCGa-UCu -3'
miRNA:   3'- -AGCGUGuACGGuuCCAACuGGCgaAG- -5'
26806 5' -52.9 NC_005808.1 + 35507 0.66 0.717885
Target:  5'- gUGCGCGUgggcgcGCCGuGGGUaGGCCGCggcgUCa -3'
miRNA:   3'- aGCGUGUA------CGGU-UCCAaCUGGCGa---AG- -5'
26806 5' -52.9 NC_005808.1 + 9804 0.68 0.649579
Target:  5'- aCGCGCAgcaccagcgaggUGCCGAGGgcGgacuucGCCGcCUUCu -3'
miRNA:   3'- aGCGUGU------------ACGGUUCCaaC------UGGC-GAAG- -5'
26806 5' -52.9 NC_005808.1 + 19479 0.68 0.638062
Target:  5'- cUUGCGCcagGUGCCGguGGGcaGGCCGCUg- -3'
miRNA:   3'- -AGCGUG---UACGGU--UCCaaCUGGCGAag -5'
26806 5' -52.9 NC_005808.1 + 42110 0.68 0.638062
Target:  5'- -gGCGCAguaugcUGCCGAGGcauccGACCGCg-- -3'
miRNA:   3'- agCGUGU------ACGGUUCCaa---CUGGCGaag -5'
26806 5' -52.9 NC_005808.1 + 42374 0.68 0.638062
Target:  5'- gCGCGCcaAUGCCGAGGUgcgccaguucGCCGUgUCg -3'
miRNA:   3'- aGCGUG--UACGGUUCCAac--------UGGCGaAG- -5'
26806 5' -52.9 NC_005808.1 + 24706 0.68 0.615021
Target:  5'- gUC-CAUcgGUGCCAGucGGUcgGGCCGCUUCc -3'
miRNA:   3'- -AGcGUG--UACGGUU--CCAa-CUGGCGAAG- -5'
26806 5' -52.9 NC_005808.1 + 19870 0.68 0.611569
Target:  5'- uUCGgGCGUGCCgAAGGcgucgcgcgccuucUUGGCCGUggCa -3'
miRNA:   3'- -AGCgUGUACGG-UUCC--------------AACUGGCGaaG- -5'
26806 5' -52.9 NC_005808.1 + 21212 0.69 0.576047
Target:  5'- cUCGCGCAggcccagcgcGCCAuugcgacgaacucGGUUGAUCGUUUCg -3'
miRNA:   3'- -AGCGUGUa---------CGGUu------------CCAACUGGCGAAG- -5'
26806 5' -52.9 NC_005808.1 + 6433 0.69 0.546615
Target:  5'- -gGCGCcUGUCAcGGUcuUGGCUGCUUCc -3'
miRNA:   3'- agCGUGuACGGUuCCA--ACUGGCGAAG- -5'
26806 5' -52.9 NC_005808.1 + 16944 0.7 0.485082
Target:  5'- aCGUACAugacgccggcagaacUGCCGAGGUgGACgCGCUg- -3'
miRNA:   3'- aGCGUGU---------------ACGGUUCCAaCUG-GCGAag -5'
26806 5' -52.9 NC_005808.1 + 33320 0.72 0.41811
Target:  5'- aUGCGCA-GCCGguguaccGGGccGACCGCUUCc -3'
miRNA:   3'- aGCGUGUaCGGU-------UCCaaCUGGCGAAG- -5'
26806 5' -52.9 NC_005808.1 + 22545 0.74 0.31863
Target:  5'- gCGCGCGUGCCGguguugucgAGGaUGuuguuguGCCGCUUCu -3'
miRNA:   3'- aGCGUGUACGGU---------UCCaAC-------UGGCGAAG- -5'
26806 5' -52.9 NC_005808.1 + 40050 1.11 0.000755
Target:  5'- gUCGCACAUGCCAAGGUUGACCGCUUCa -3'
miRNA:   3'- -AGCGUGUACGGUUCCAACUGGCGAAG- -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.