miRNA display CGI


Results 1 - 20 of 37 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
19702 3' -55.4 NC_004686.1 + 6538 0.66 0.717595
Target:  5'- -aGGACGaacCUgGCACACCACagGCAGu -3'
miRNA:   3'- agUCUGCgauGA-CGUGUGGUGg-CGUC- -5'
19702 3' -55.4 NC_004686.1 + 15037 0.66 0.717595
Target:  5'- -aGGACGgUGCcaacaaggcGUACACCAUCGCAu -3'
miRNA:   3'- agUCUGCgAUGa--------CGUGUGGUGGCGUc -5'
19702 3' -55.4 NC_004686.1 + 4550 0.66 0.71437
Target:  5'- gUCGGAUcaCUGCUGCugaaucugagcgggACACCGCCaaaGCGGa -3'
miRNA:   3'- -AGUCUGc-GAUGACG--------------UGUGGUGG---CGUC- -5'
19702 3' -55.4 NC_004686.1 + 32212 0.66 0.706815
Target:  5'- gCAG-UGCUGCUGCGCGuaguCCAaaaGCAGc -3'
miRNA:   3'- aGUCuGCGAUGACGUGU----GGUgg-CGUC- -5'
19702 3' -55.4 NC_004686.1 + 2974 0.66 0.705733
Target:  5'- gUCGG-UGCUGCUGUGCgguuuugGCUGCCGguGu -3'
miRNA:   3'- -AGUCuGCGAUGACGUG-------UGGUGGCguC- -5'
19702 3' -55.4 NC_004686.1 + 16403 0.66 0.695962
Target:  5'- gCGGcgcaACGCgguucgACUGCACcCCACCGUc- -3'
miRNA:   3'- aGUC----UGCGa-----UGACGUGuGGUGGCGuc -5'
19702 3' -55.4 NC_004686.1 + 43775 0.66 0.692693
Target:  5'- gCGGAgGCUGCUGUccuaccgguuguugACcaGCCGCUGUGGg -3'
miRNA:   3'- aGUCUgCGAUGACG--------------UG--UGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 53374 0.66 0.689418
Target:  5'- aCGGACGCUucggcgcaggcuuguACgGCaACACCugCGCc- -3'
miRNA:   3'- aGUCUGCGA---------------UGaCG-UGUGGugGCGuc -5'
19702 3' -55.4 NC_004686.1 + 3958 0.66 0.685045
Target:  5'- cCGGACGaguucuUGCgGUACACCACaGCGGu -3'
miRNA:   3'- aGUCUGCg-----AUGaCGUGUGGUGgCGUC- -5'
19702 3' -55.4 NC_004686.1 + 36014 0.66 0.674078
Target:  5'- cUCAGgucGCGCUGCUcGUugaaaACGCCugACCGCAu -3'
miRNA:   3'- -AGUC---UGCGAUGA-CG-----UGUGG--UGGCGUc -5'
19702 3' -55.4 NC_004686.1 + 8772 0.66 0.674078
Target:  5'- cUCGGugGUggagaACUGCAC-CU-CCGCGGa -3'
miRNA:   3'- -AGUCugCGa----UGACGUGuGGuGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 33079 0.66 0.67078
Target:  5'- aCAGAUGUUgaaucucagcaacgACUGCACACCAauguuuaCGCu- -3'
miRNA:   3'- aGUCUGCGA--------------UGACGUGUGGUg------GCGuc -5'
19702 3' -55.4 NC_004686.1 + 19951 0.67 0.652035
Target:  5'- gCAGACG-UAC-GCAUuuCCACUGCGGg -3'
miRNA:   3'- aGUCUGCgAUGaCGUGu-GGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 40680 0.67 0.652035
Target:  5'- aCAGGCGUUuCg--ACACCAuCCGCAGg -3'
miRNA:   3'- aGUCUGCGAuGacgUGUGGU-GGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 33551 0.67 0.652035
Target:  5'- gCGGGC-CUGCcgaauguuggGCugGCCACCGguGa -3'
miRNA:   3'- aGUCUGcGAUGa---------CGugUGGUGGCguC- -5'
19702 3' -55.4 NC_004686.1 + 38366 0.67 0.640979
Target:  5'- aCAGGCGCauccacCACAUCGCCGCGa -3'
miRNA:   3'- aGUCUGCGaugac-GUGUGGUGGCGUc -5'
19702 3' -55.4 NC_004686.1 + 27100 0.67 0.629917
Target:  5'- --cGACGCUGCU-CACACCACaaCGUg- -3'
miRNA:   3'- aguCUGCGAUGAcGUGUGGUG--GCGuc -5'
19702 3' -55.4 NC_004686.1 + 18818 0.67 0.62881
Target:  5'- cUCGGAcaccucaCGCUGCUGCcuCAUCGCgGCGa -3'
miRNA:   3'- -AGUCU-------GCGAUGACGu-GUGGUGgCGUc -5'
19702 3' -55.4 NC_004686.1 + 55397 0.68 0.596778
Target:  5'- -gAGGCGC-ACacCugACCGCCGCGGa -3'
miRNA:   3'- agUCUGCGaUGacGugUGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 12949 0.68 0.574822
Target:  5'- gCAGACGUggaagcagggUGCUcgGCGCGCCGCgcaaaGCAGa -3'
miRNA:   3'- aGUCUGCG----------AUGA--CGUGUGGUGg----CGUC- -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.