miRNA display CGI


Results 1 - 19 of 19 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
1400 3' -54.2 NC_001335.1 + 24804 0.66 0.808639
Target:  5'- uCCUgGCGUGGaCGAGcCUccGGUUCg -3'
miRNA:   3'- cGGAgCGCACUaGCUCuGGuuCCAGG- -5'
1400 3' -54.2 NC_001335.1 + 7324 0.66 0.789382
Target:  5'- gGCCaCGCGaUGGcagaggucaUCGAaggcaacauGACCAAGGUCg -3'
miRNA:   3'- -CGGaGCGC-ACU---------AGCU---------CUGGUUCCAGg -5'
1400 3' -54.2 NC_001335.1 + 3292 0.66 0.789382
Target:  5'- aUCUCGa--GGUCGAGuggguuGCCGAGGUCg -3'
miRNA:   3'- cGGAGCgcaCUAGCUC------UGGUUCCAGg -5'
1400 3' -54.2 NC_001335.1 + 10527 0.66 0.769472
Target:  5'- uCCUCGCGgaacuucucaaGGUCGuGACCGgacucguuccagAGGUCg -3'
miRNA:   3'- cGGAGCGCa----------CUAGCuCUGGU------------UCCAGg -5'
1400 3' -54.2 NC_001335.1 + 16632 0.67 0.738579
Target:  5'- cGCCU-GCGUGccgguagCGAGcacaggGCCGAGGcCCg -3'
miRNA:   3'- -CGGAgCGCACua-----GCUC------UGGUUCCaGG- -5'
1400 3' -54.2 NC_001335.1 + 7951 0.67 0.738579
Target:  5'- cCC-CGCGaagacGUUGAcGCCAAGGUCCa -3'
miRNA:   3'- cGGaGCGCac---UAGCUcUGGUUCCAGG- -5'
1400 3' -54.2 NC_001335.1 + 23279 0.67 0.735431
Target:  5'- -aCUCGgGUGAcCGAGuucggagugcccugGCCGAGGUUg -3'
miRNA:   3'- cgGAGCgCACUaGCUC--------------UGGUUCCAGg -5'
1400 3' -54.2 NC_001335.1 + 2285 0.67 0.706723
Target:  5'- gGCCa-GCGaGGUCGAGGCUgaacuucgccgcGAGGUCg -3'
miRNA:   3'- -CGGagCGCaCUAGCUCUGG------------UUCCAGg -5'
1400 3' -54.2 NC_001335.1 + 45496 0.68 0.674213
Target:  5'- gGCCUCGUccucgGUGG-CGaAGACguAGGUCUc -3'
miRNA:   3'- -CGGAGCG-----CACUaGC-UCUGguUCCAGG- -5'
1400 3' -54.2 NC_001335.1 + 30180 0.68 0.663282
Target:  5'- uGCUUCG-G-GAUCGAGAUgGAgGGUCUg -3'
miRNA:   3'- -CGGAGCgCaCUAGCUCUGgUU-CCAGG- -5'
1400 3' -54.2 NC_001335.1 + 29353 0.69 0.608398
Target:  5'- cGCCgggaUGCcgGUGAUCGAcauGCgCGAGGUCCg -3'
miRNA:   3'- -CGGa---GCG--CACUAGCUc--UG-GUUCCAGG- -5'
1400 3' -54.2 NC_001335.1 + 47969 0.7 0.564795
Target:  5'- ----gGCGUGAcCGgcaaguucuGGGCCAAGGUCCa -3'
miRNA:   3'- cggagCGCACUaGC---------UCUGGUUCCAGG- -5'
1400 3' -54.2 NC_001335.1 + 1195 0.7 0.563714
Target:  5'- cGCCUCugcgguuGCGUGcuccgguucCGGGACCGGGG-CCg -3'
miRNA:   3'- -CGGAG-------CGCACua-------GCUCUGGUUCCaGG- -5'
1400 3' -54.2 NC_001335.1 + 47630 0.71 0.522053
Target:  5'- aGCCUCGUG-GGUucaCGAGgacggcucACCGAGGuUCCa -3'
miRNA:   3'- -CGGAGCGCaCUA---GCUC--------UGGUUCC-AGG- -5'
1400 3' -54.2 NC_001335.1 + 47275 0.71 0.48062
Target:  5'- aGCCUCGUaugGAUCG--GCCAAGG-CCa -3'
miRNA:   3'- -CGGAGCGca-CUAGCucUGGUUCCaGG- -5'
1400 3' -54.2 NC_001335.1 + 11371 0.72 0.450625
Target:  5'- uCCUCgGCGUGAaCGAccCCAAGGUCg -3'
miRNA:   3'- cGGAG-CGCACUaGCUcuGGUUCCAGg -5'
1400 3' -54.2 NC_001335.1 + 32107 0.72 0.450625
Target:  5'- cGCCUCgGCGacguucuacAUCGAGGCCAgcAGGUCg -3'
miRNA:   3'- -CGGAG-CGCac-------UAGCUCUGGU--UCCAGg -5'
1400 3' -54.2 NC_001335.1 + 11789 0.74 0.358739
Target:  5'- cGCCaUCGCGaaggcGGUCGcGACCuuGGUCCg -3'
miRNA:   3'- -CGG-AGCGCa----CUAGCuCUGGuuCCAGG- -5'
1400 3' -54.2 NC_001335.1 + 40166 1.15 0.000552
Target:  5'- aGCCUCGCGUGAUCGAGACCAAGGUCCa -3'
miRNA:   3'- -CGGAGCGCACUAGCUCUGGUUCCAGG- -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.