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
19597 3' -56.2 NC_004686.1 + 33527 0.66 0.679786
Target:  5'- -uGCCGUGGgGCcgucuGGGAUGUaGUCGAa- -3'
miRNA:   3'- acUGGCACUgCG-----CCCUGCA-CAGCUag -5'
19597 3' -56.2 NC_004686.1 + 26553 0.67 0.658271
Target:  5'- gUGGCCGaUGACGCGGGugGc------- -3'
miRNA:   3'- -ACUGGC-ACUGCGCCCugCacagcuag -5'
19597 3' -56.2 NC_004686.1 + 21263 0.67 0.658271
Target:  5'- cGGCCcgGUGACcaauGUGGGGucUGUGUCGGUg -3'
miRNA:   3'- aCUGG--CACUG----CGCCCU--GCACAGCUAg -5'
19597 3' -56.2 NC_004686.1 + 21899 0.67 0.657192
Target:  5'- cGGCgGUGGCgGUGGcggugccuauaucGACGUGUUGAUUc -3'
miRNA:   3'- aCUGgCACUG-CGCC-------------CUGCACAGCUAG- -5'
19597 3' -56.2 NC_004686.1 + 47545 0.67 0.640987
Target:  5'- aUGcCCGUGAUGCGGaGuuggaGCGccggcuggcccgcgcUGUCGGUCg -3'
miRNA:   3'- -ACuGGCACUGCGCC-C-----UGC---------------ACAGCUAG- -5'
19597 3' -56.2 NC_004686.1 + 27689 0.68 0.582725
Target:  5'- cGACCGcgauccUGACGCGGG-UGcUGUCGcuauUCg -3'
miRNA:   3'- aCUGGC------ACUGCGCCCuGC-ACAGCu---AG- -5'
19597 3' -56.2 NC_004686.1 + 38607 0.68 0.572024
Target:  5'- uUGGCgGUGACGauGG-CGUcUCGGUCg -3'
miRNA:   3'- -ACUGgCACUGCgcCCuGCAcAGCUAG- -5'
19597 3' -56.2 NC_004686.1 + 5100 0.68 0.550771
Target:  5'- -cGCCGcGAgGCGGGGCG-GUCagGGUCa -3'
miRNA:   3'- acUGGCaCUgCGCCCUGCaCAG--CUAG- -5'
19597 3' -56.2 NC_004686.1 + 14097 0.7 0.468739
Target:  5'- aGACgGUGACGUGGucGugGUGUgCGAc- -3'
miRNA:   3'- aCUGgCACUGCGCC--CugCACA-GCUag -5'
19597 3' -56.2 NC_004686.1 + 19692 0.71 0.41152
Target:  5'- cGAUCGaUGAggacuucaCGUGGGAUG-GUCGAUCg -3'
miRNA:   3'- aCUGGC-ACU--------GCGCCCUGCaCAGCUAG- -5'
19597 3' -56.2 NC_004686.1 + 23315 0.71 0.40241
Target:  5'- -cACCGUGACGacguCGGGAacaGUGUCGGc- -3'
miRNA:   3'- acUGGCACUGC----GCCCUg--CACAGCUag -5'
19597 3' -56.2 NC_004686.1 + 8454 0.72 0.36728
Target:  5'- gGAUCG-GAgGCGGGAaUGaUGUCGGUCa -3'
miRNA:   3'- aCUGGCaCUgCGCCCU-GC-ACAGCUAG- -5'
19597 3' -56.2 NC_004686.1 + 19889 0.72 0.334317
Target:  5'- aUGGCCGaUGGUGCGGGGCcugGUGUCGGc- -3'
miRNA:   3'- -ACUGGC-ACUGCGCCCUG---CACAGCUag -5'
19597 3' -56.2 NC_004686.1 + 54122 0.77 0.186935
Target:  5'- -cGCUgGUGugGCGGGGCGUGUUGAg- -3'
miRNA:   3'- acUGG-CACugCGCCCUGCACAGCUag -5'
19597 3' -56.2 NC_004686.1 + 32214 0.79 0.128132
Target:  5'- -aGCCGagugucuggguuUGACGUGGGAcCGUGUCGAUCu -3'
miRNA:   3'- acUGGC------------ACUGCGCCCU-GCACAGCUAG- -5'
19597 3' -56.2 NC_004686.1 + 24693 1.1 0.000823
Target:  5'- cUGACCGUGACGCGGGACGUGUCGAUCa -3'
miRNA:   3'- -ACUGGCACUGCGCCCUGCACAGCUAG- -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.