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
12554 3' -57.4 NC_003345.1 + 52175 0.66 0.742192
Target:  5'- gGUCGuGgaguaGCACUUCGGGCaUUAGCCAc- -3'
miRNA:   3'- gCAGC-C-----UGUGGAGCCUG-AGUCGGUcg -5'
12554 3' -57.4 NC_003345.1 + 61129 0.66 0.732159
Target:  5'- gGUCGG-CGCuCUCGGAgUgAGaCAGUa -3'
miRNA:   3'- gCAGCCuGUG-GAGCCUgAgUCgGUCG- -5'
12554 3' -57.4 NC_003345.1 + 74709 0.66 0.711829
Target:  5'- -aUCaGAUACCUCGcuGGCUCAauaCCAGCg -3'
miRNA:   3'- gcAGcCUGUGGAGC--CUGAGUc--GGUCG- -5'
12554 3' -57.4 NC_003345.1 + 20081 0.66 0.711829
Target:  5'- aCGUCGGAauCACCacguacaGGuCuUCGGUCAGCu -3'
miRNA:   3'- -GCAGCCU--GUGGag-----CCuG-AGUCGGUCG- -5'
12554 3' -57.4 NC_003345.1 + 71594 0.66 0.707727
Target:  5'- uCGUCGGGggacggaagcucaACCUCGGGgUCGauuCCAGCc -3'
miRNA:   3'- -GCAGCCUg------------UGGAGCCUgAGUc--GGUCG- -5'
12554 3' -57.4 NC_003345.1 + 39146 0.66 0.701553
Target:  5'- aCGUUugaaGACGgcUCUCGGACUCgaaAGCUGGCg -3'
miRNA:   3'- -GCAGc---CUGU--GGAGCCUGAG---UCGGUCG- -5'
12554 3' -57.4 NC_003345.1 + 32805 0.66 0.701553
Target:  5'- uCGUCGGGcCGCCguagcCGGugUagguguuGCCGGUg -3'
miRNA:   3'- -GCAGCCU-GUGGa----GCCugAgu-----CGGUCG- -5'
12554 3' -57.4 NC_003345.1 + 63304 0.67 0.657828
Target:  5'- -aUCGGAUgcguCCUCGcucaccggcccCUCGGCCAGCg -3'
miRNA:   3'- gcAGCCUGu---GGAGCcu---------GAGUCGGUCG- -5'
12554 3' -57.4 NC_003345.1 + 32495 0.67 0.628423
Target:  5'- --cCGaGCgACCUCGGACUCgauaAGCuCAGCa -3'
miRNA:   3'- gcaGCcUG-UGGAGCCUGAG----UCG-GUCG- -5'
12554 3' -57.4 NC_003345.1 + 37606 0.68 0.617917
Target:  5'- uGcCGGACugUcacgggGGACUCGGcCCGGCg -3'
miRNA:   3'- gCaGCCUGugGag----CCUGAGUC-GGUCG- -5'
12554 3' -57.4 NC_003345.1 + 13790 0.68 0.596946
Target:  5'- gCGUCGGaACACC-CGGAggaaaUCaagcgGGCCGGUg -3'
miRNA:   3'- -GCAGCC-UGUGGaGCCUg----AG-----UCGGUCG- -5'
12554 3' -57.4 NC_003345.1 + 36934 0.68 0.596946
Target:  5'- --cCGGAgACUcagCGGGCUguucagccguaCAGCCAGCg -3'
miRNA:   3'- gcaGCCUgUGGa--GCCUGA-----------GUCGGUCG- -5'
12554 3' -57.4 NC_003345.1 + 53977 0.69 0.513719
Target:  5'- aGUCGGAuucgugaCACuCUC-GAUUcCAGCCAGCg -3'
miRNA:   3'- gCAGCCU-------GUG-GAGcCUGA-GUCGGUCG- -5'
12554 3' -57.4 NC_003345.1 + 40219 0.7 0.475313
Target:  5'- aCGaUUGGGaacccgACCUCGaACUCAGCCAGUc -3'
miRNA:   3'- -GC-AGCCUg-----UGGAGCcUGAGUCGGUCG- -5'
12554 3' -57.4 NC_003345.1 + 27358 0.75 0.233574
Target:  5'- aGUgCGGugACUUCGaGACggacguaaUCAGCCAGCg -3'
miRNA:   3'- gCA-GCCugUGGAGC-CUG--------AGUCGGUCG- -5'
12554 3' -57.4 NC_003345.1 + 38150 1.11 0.000783
Target:  5'- uCGUCGGACACCUCGGACUCAGCCAGCu -3'
miRNA:   3'- -GCAGCCUGUGGAGCCUGAGUCGGUCG- -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.