miRNA display CGI


Results 1 - 13 of 13 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
19586 3' -53.5 NC_004686.1 + 42455 0.66 0.826979
Target:  5'- --gGUAGGuuucccguucuccaUCGCCACcugAUCAgcaccACGGGCGa -3'
miRNA:   3'- gcaCAUCC--------------AGCGGUG---UAGU-----UGUCCGC- -5'
19586 3' -53.5 NC_004686.1 + 40688 0.66 0.820515
Target:  5'- aCGUGgcGG-CGUCGCAaccgguguccCAACGGGCa -3'
miRNA:   3'- -GCACauCCaGCGGUGUa---------GUUGUCCGc -5'
19586 3' -53.5 NC_004686.1 + 53298 0.66 0.817714
Target:  5'- cCGUGUacgGGGUCaccgauucgaugcgGCCACGcgAACGGGCc -3'
miRNA:   3'- -GCACA---UCCAG--------------CGGUGUagUUGUCCGc -5'
19586 3' -53.5 NC_004686.1 + 29473 0.66 0.811111
Target:  5'- ----cAGGUcCGCCACAUCcacaacAGCuGGCGg -3'
miRNA:   3'- gcacaUCCA-GCGGUGUAG------UUGuCCGC- -5'
19586 3' -53.5 NC_004686.1 + 5051 0.67 0.751056
Target:  5'- -cUG-AGGcUCGgC-CAUCGACAGGCGg -3'
miRNA:   3'- gcACaUCC-AGCgGuGUAGUUGUCCGC- -5'
19586 3' -53.5 NC_004686.1 + 15685 0.67 0.740548
Target:  5'- gGUGgcccGGcugaCGCCGCAgCAGCAGGCc -3'
miRNA:   3'- gCACau--CCa---GCGGUGUaGUUGUCCGc -5'
19586 3' -53.5 NC_004686.1 + 53504 0.69 0.653459
Target:  5'- gGUGaGGGUCGCC-CAagAcCAGGCa -3'
miRNA:   3'- gCACaUCCAGCGGuGUagUuGUCCGc -5'
19586 3' -53.5 NC_004686.1 + 45951 0.69 0.642366
Target:  5'- uGUGUGGGUgGagcggggaugaUCACA-CAACAGGCa -3'
miRNA:   3'- gCACAUCCAgC-----------GGUGUaGUUGUCCGc -5'
19586 3' -53.5 NC_004686.1 + 19798 0.71 0.532497
Target:  5'- gGUGgAGGUCGCCACcg-AugAGGUGg -3'
miRNA:   3'- gCACaUCCAGCGGUGuagUugUCCGC- -5'
19586 3' -53.5 NC_004686.1 + 21700 0.74 0.392442
Target:  5'- uCGUGgGGGugaugaccuuguUCGCCACAUCAaccacaagcGCAGGCu -3'
miRNA:   3'- -GCACaUCC------------AGCGGUGUAGU---------UGUCCGc -5'
19586 3' -53.5 NC_004686.1 + 49397 0.76 0.27157
Target:  5'- aGUGUuGaGUCGCCACGUCA--AGGCGu -3'
miRNA:   3'- gCACAuC-CAGCGGUGUAGUugUCCGC- -5'
19586 3' -53.5 NC_004686.1 + 39830 0.84 0.090392
Target:  5'- cCGUGUAGGaggCGCCGuCGUCgAGCAGGCGg -3'
miRNA:   3'- -GCACAUCCa--GCGGU-GUAG-UUGUCCGC- -5'
19586 3' -53.5 NC_004686.1 + 17931 1.08 0.001761
Target:  5'- gCGUGUAGGUCGCCACAUCAACAGGCGc -3'
miRNA:   3'- -GCACAUCCAGCGGUGUAGUUGUCCGC- -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.