miRNA display CGI


Results 1 - 20 of 42 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
30545 3' -60 NC_006548.1 + 25454 1.09 0.000222
Target:  5'- cGCCACAGAUCGCGCCGAGGCACGCCUc -3'
miRNA:   3'- -CGGUGUCUAGCGCGGCUCCGUGCGGA- -5'
30545 3' -60 NC_006548.1 + 22644 0.68 0.280077
Target:  5'- uGCgGCAGAUCgGUGCCGAucuggagauccaGG-ACGCCg -3'
miRNA:   3'- -CGgUGUCUAG-CGCGGCU------------CCgUGCGGa -5'
30545 3' -60 NC_006548.1 + 33110 0.68 0.285045
Target:  5'- gGCCGgAGGUCaUGCCcucgacaacauaccGGGGCugGCCg -3'
miRNA:   3'- -CGGUgUCUAGcGCGG--------------CUCCGugCGGa -5'
30545 3' -60 NC_006548.1 + 12520 0.67 0.30186
Target:  5'- gGCCuCGGcAUCcgGCGCCGAccaGCugGCCUg -3'
miRNA:   3'- -CGGuGUC-UAG--CGCGGCUc--CGugCGGA- -5'
30545 3' -60 NC_006548.1 + 29390 0.67 0.304862
Target:  5'- gGCCGCGGuAUCGUuccugcaggcggucaGCCGAucGCugGCCg -3'
miRNA:   3'- -CGGUGUC-UAGCG---------------CGGCUc-CGugCGGa -5'
30545 3' -60 NC_006548.1 + 30761 0.66 0.349279
Target:  5'- uCCGC-GAUCcCGCCGGGcGCugGCUc -3'
miRNA:   3'- cGGUGuCUAGcGCGGCUC-CGugCGGa -5'
30545 3' -60 NC_006548.1 + 30229 0.66 0.35768
Target:  5'- aCCGCGaacccagaccuGGUCGCGgCuGGGCAgGCCUa -3'
miRNA:   3'- cGGUGU-----------CUAGCGCgGcUCCGUgCGGA- -5'
30545 3' -60 NC_006548.1 + 13612 0.66 0.369678
Target:  5'- aGCCugGauUCGCGauucgcaagccaagaCC-AGGCACGCCUg -3'
miRNA:   3'- -CGGugUcuAGCGC---------------GGcUCCGUGCGGA- -5'
30545 3' -60 NC_006548.1 + 36003 0.66 0.39268
Target:  5'- aGCUcCAGGUgCG-GCuCGAucGGCGCGCCUa -3'
miRNA:   3'- -CGGuGUCUA-GCgCG-GCU--CCGUGCGGA- -5'
30545 3' -60 NC_006548.1 + 29350 0.69 0.253
Target:  5'- cGCUGCGcGGUCuCGCCGAuGGCAC-CCUg -3'
miRNA:   3'- -CGGUGU-CUAGcGCGGCU-CCGUGcGGA- -5'
30545 3' -60 NC_006548.1 + 35558 0.7 0.20533
Target:  5'- gGCCGCAGAUaCGUuguucGCCGAGGgcuUugGUCUg -3'
miRNA:   3'- -CGGUGUCUA-GCG-----CGGCUCC---GugCGGA- -5'
30545 3' -60 NC_006548.1 + 22779 0.7 0.199951
Target:  5'- cGCCuuuGCGGAUCGCcgaCGAGGCcggGCGCUa -3'
miRNA:   3'- -CGG---UGUCUAGCGcg-GCUCCG---UGCGGa -5'
30545 3' -60 NC_006548.1 + 1444 0.79 0.042404
Target:  5'- uGCCGCuuuacgucAGcAUCGCGCCGAGGCGgauCGCCg -3'
miRNA:   3'- -CGGUG--------UC-UAGCGCGGCUCCGU---GCGGa -5'
30545 3' -60 NC_006548.1 + 32367 0.74 0.106333
Target:  5'- uGUCGCAGAUCGaucgcgaggaCGCCGAuGGCAUcaGCCUg -3'
miRNA:   3'- -CGGUGUCUAGC----------GCGGCU-CCGUG--CGGA- -5'
30545 3' -60 NC_006548.1 + 13005 0.74 0.11248
Target:  5'- cGCCACcGGcCGCGCCGAGGgugACGCUg -3'
miRNA:   3'- -CGGUGuCUaGCGCGGCUCCg--UGCGGa -5'
30545 3' -60 NC_006548.1 + 18717 0.72 0.136703
Target:  5'- uGCCGCAGAuccUCGCccaGCCGcAGGCcgugcugcucgACGCCa -3'
miRNA:   3'- -CGGUGUCU---AGCG---CGGC-UCCG-----------UGCGGa -5'
30545 3' -60 NC_006548.1 + 19215 0.72 0.152617
Target:  5'- gGCC-CAGGuaUCGC-CUGAcGGCACGCCUu -3'
miRNA:   3'- -CGGuGUCU--AGCGcGGCU-CCGUGCGGA- -5'
30545 3' -60 NC_006548.1 + 13320 0.71 0.179645
Target:  5'- cGCCGCAGGagcgCGCGCCGAuuC-CGCCg -3'
miRNA:   3'- -CGGUGUCUa---GCGCGGCUccGuGCGGa -5'
30545 3' -60 NC_006548.1 + 11678 0.7 0.194694
Target:  5'- cGCCGCAaccccgGCGCCGccGCGCGCCg -3'
miRNA:   3'- -CGGUGUcuag--CGCGGCucCGUGCGGa -5'
30545 3' -60 NC_006548.1 + 5310 0.7 0.19942
Target:  5'- aGCCuCGGcguuggCGCGCCGGGGCuccacuucuucaaAUGCCUg -3'
miRNA:   3'- -CGGuGUCua----GCGCGGCUCCG-------------UGCGGA- -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.