miRNA display CGI


Results 1 - 20 of 24 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
1516 5' -53.8 NC_001335.1 + 31363 0.66 0.789825
Target:  5'- aGGuCUCGAuGCUUuccgaggagacaACCGgUUGGCCAUc -3'
miRNA:   3'- gCCuGAGCUuCGAG------------UGGC-AACUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 19180 0.66 0.779825
Target:  5'- uCGGugUCGAugacgcAGUucUCGCCGUaGAUCAa -3'
miRNA:   3'- -GCCugAGCU------UCG--AGUGGCAaCUGGUg -5'
1516 5' -53.8 NC_001335.1 + 36855 0.66 0.779825
Target:  5'- aCGGGCUCGGguaguccaucAGgUCACCGaugugGACgACc -3'
miRNA:   3'- -GCCUGAGCU----------UCgAGUGGCaa---CUGgUG- -5'
1516 5' -53.8 NC_001335.1 + 24573 0.66 0.769669
Target:  5'- aGGGCccCGAGGCauUC-CUGgUGACCACg -3'
miRNA:   3'- gCCUGa-GCUUCG--AGuGGCaACUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 43693 0.66 0.759367
Target:  5'- aGGuCUaCGAgaaGGCUCugGCCGagGGCCGCg -3'
miRNA:   3'- gCCuGA-GCU---UCGAG--UGGCaaCUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 11257 0.66 0.759367
Target:  5'- aGGACUCGggGUcuugUUGCCGaauccgccGACCAg -3'
miRNA:   3'- gCCUGAGCuuCG----AGUGGCaa------CUGGUg -5'
1516 5' -53.8 NC_001335.1 + 5372 0.67 0.738377
Target:  5'- -cGAUUCGGugcAGCUCACCGa-GAUCGCc -3'
miRNA:   3'- gcCUGAGCU---UCGAGUGGCaaCUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 13185 0.67 0.727711
Target:  5'- cCGGugUCGAggaGGCUCaucagagcACCGccGACCGu -3'
miRNA:   3'- -GCCugAGCU---UCGAG--------UGGCaaCUGGUg -5'
1516 5' -53.8 NC_001335.1 + 5292 0.67 0.726639
Target:  5'- aGGcgauCUCGGugAGCUgCACCGaaucgugUUGGCCGCg -3'
miRNA:   3'- gCCu---GAGCU--UCGA-GUGGC-------AACUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 44289 0.68 0.673157
Target:  5'- aGGGCUCcgagaGAAGCUCcucgaugUCGUcUGGCCACg -3'
miRNA:   3'- gCCUGAG-----CUUCGAGu------GGCA-ACUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 7288 0.68 0.662082
Target:  5'- gGGGCUCGAGG-UCGCUGccucaauacGGCCACc -3'
miRNA:   3'- gCCUGAGCUUCgAGUGGCaa-------CUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 23080 0.68 0.650978
Target:  5'- aGGuCUCGAAGaacggCcCCGUgcUGGCCACa -3'
miRNA:   3'- gCCuGAGCUUCga---GuGGCA--ACUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 38673 0.68 0.639856
Target:  5'- aGGACggcggCGAAGCccUCGCCGgucuCCGCu -3'
miRNA:   3'- gCCUGa----GCUUCG--AGUGGCaacuGGUG- -5'
1516 5' -53.8 NC_001335.1 + 5519 0.69 0.606489
Target:  5'- uCGGAuCUUGggGCUCAUa---GGCCACc -3'
miRNA:   3'- -GCCU-GAGCuuCGAGUGgcaaCUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 18252 0.69 0.595399
Target:  5'- aGGAgUCGAAGaaCGCgcuguccguCGUUGGCCGCu -3'
miRNA:   3'- gCCUgAGCUUCgaGUG---------GCAACUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 34042 0.69 0.595399
Target:  5'- gCGGGCgaccgCGAAGCU-GCCGUagcccuccuUGGCCAg -3'
miRNA:   3'- -GCCUGa----GCUUCGAgUGGCA---------ACUGGUg -5'
1516 5' -53.8 NC_001335.1 + 20689 0.71 0.477283
Target:  5'- cCGGGCUCGAGGacaucgUCACCGgacugGGCgACu -3'
miRNA:   3'- -GCCUGAGCUUCg-----AGUGGCaa---CUGgUG- -5'
1516 5' -53.8 NC_001335.1 + 2638 0.72 0.427446
Target:  5'- cCGGGCUCuAAGUUCccGCCGUcgGGCUACg -3'
miRNA:   3'- -GCCUGAGcUUCGAG--UGGCAa-CUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 1749 0.73 0.399064
Target:  5'- aGGACUCGGucaaggaccGCgUCACCG-UGACCAUc -3'
miRNA:   3'- gCCUGAGCUu--------CG-AGUGGCaACUGGUG- -5'
1516 5' -53.8 NC_001335.1 + 43470 0.74 0.346054
Target:  5'- cCGGcGCUCGAugucacGCUCACCGUUGuACgGCc -3'
miRNA:   3'- -GCC-UGAGCUu-----CGAGUGGCAAC-UGgUG- -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.