miRNA display CGI


Results 1 - 18 of 18 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
19613 3' -57.6 NC_004686.1 + 49285 0.66 0.619661
Target:  5'- aCUUCGGCGaucaacucggGAacgagagUgCGCGCC-UGGGCg -3'
miRNA:   3'- gGAAGCCGCa---------CU-------AgGCGUGGcACCCG- -5'
19613 3' -57.6 NC_004686.1 + 27728 0.66 0.610072
Target:  5'- aCCcagUCGGCGaagGGcUCgGCAUCGUGauGGCg -3'
miRNA:   3'- -GGa--AGCCGCa--CU-AGgCGUGGCAC--CCG- -5'
19613 3' -57.6 NC_004686.1 + 26463 0.67 0.599434
Target:  5'- gCgUUCGGCGgGGUCguaGC-CCuUGGGCa -3'
miRNA:   3'- -GgAAGCCGCaCUAGg--CGuGGcACCCG- -5'
19613 3' -57.6 NC_004686.1 + 56106 0.67 0.599434
Target:  5'- gCCgggUUGGCG-GGUgCCGgGCgGgUGGGCg -3'
miRNA:   3'- -GGa--AGCCGCaCUA-GGCgUGgC-ACCCG- -5'
19613 3' -57.6 NC_004686.1 + 3008 0.67 0.578246
Target:  5'- --gUCGGUGUGGgaagCC-CGCC-UGGGCc -3'
miRNA:   3'- ggaAGCCGCACUa---GGcGUGGcACCCG- -5'
19613 3' -57.6 NC_004686.1 + 14498 0.67 0.546794
Target:  5'- aCCUgccaGGC--GAUCCGgaGCCGUGGcGCg -3'
miRNA:   3'- -GGAag--CCGcaCUAGGCg-UGGCACC-CG- -5'
19613 3' -57.6 NC_004686.1 + 51519 0.68 0.536427
Target:  5'- ----gGGCGUGGaUCGCGgCGUGGGa -3'
miRNA:   3'- ggaagCCGCACUaGGCGUgGCACCCg -5'
19613 3' -57.6 NC_004686.1 + 10971 0.68 0.52613
Target:  5'- ---gCGGCGUGuacCC-CGCCG-GGGCa -3'
miRNA:   3'- ggaaGCCGCACua-GGcGUGGCaCCCG- -5'
19613 3' -57.6 NC_004686.1 + 4782 0.68 0.485747
Target:  5'- gCCUgcuccgCGGCGcGGUCUGCgagccucuucGCC-UGGGCa -3'
miRNA:   3'- -GGAa-----GCCGCaCUAGGCG----------UGGcACCCG- -5'
19613 3' -57.6 NC_004686.1 + 15769 0.68 0.485747
Target:  5'- gCCUgcugcugCGGCGUcagccGGgccaCCGCAUCGcGGGCa -3'
miRNA:   3'- -GGAa------GCCGCA-----CUa---GGCGUGGCaCCCG- -5'
19613 3' -57.6 NC_004686.1 + 44462 0.69 0.446898
Target:  5'- uCCggaacCGGCGaacgGAUCCGCaaccacACCGUcGGGUg -3'
miRNA:   3'- -GGaa---GCCGCa---CUAGGCG------UGGCA-CCCG- -5'
19613 3' -57.6 NC_004686.1 + 25924 0.71 0.373905
Target:  5'- aCCgacgUCGGCGaaaccguUGAUCUGUcccgGCCGcGGGCc -3'
miRNA:   3'- -GGa---AGCCGC-------ACUAGGCG----UGGCaCCCG- -5'
19613 3' -57.6 NC_004686.1 + 21160 0.72 0.318425
Target:  5'- --gUCaGGCGuUGuUCCGCGCCGcggGGGCu -3'
miRNA:   3'- ggaAG-CCGC-ACuAGGCGUGGCa--CCCG- -5'
19613 3' -57.6 NC_004686.1 + 30928 0.72 0.29559
Target:  5'- uCCgggagCGGCGaUGAUgCCGUggguguggacguuGCCGUGGGUg -3'
miRNA:   3'- -GGaa---GCCGC-ACUA-GGCG-------------UGGCACCCG- -5'
19613 3' -57.6 NC_004686.1 + 13692 0.72 0.289204
Target:  5'- gCCg-CGGCGcUGGUcCCGC-CCGUGGGg -3'
miRNA:   3'- -GGaaGCCGC-ACUA-GGCGuGGCACCCg -5'
19613 3' -57.6 NC_004686.1 + 17821 0.73 0.282236
Target:  5'- aCCUUCGGCGUGAacUCCuGCGCCacc-GCg -3'
miRNA:   3'- -GGAAGCCGCACU--AGG-CGUGGcaccCG- -5'
19613 3' -57.6 NC_004686.1 + 22488 0.77 0.148392
Target:  5'- cCCggCGGCGaUGA-CCGuCACCGgUGGGCa -3'
miRNA:   3'- -GGaaGCCGC-ACUaGGC-GUGGC-ACCCG- -5'
19613 3' -57.6 NC_004686.1 + 35625 1.13 0.000397
Target:  5'- cCCUUCGGCGUGAUCCGCACCGUGGGCu -3'
miRNA:   3'- -GGAAGCCGCACUAGGCGUGGCACCCG- -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.