miRNA display CGI


Results 1 - 18 of 18 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
12164 3' -58.7 NC_003309.1 + 19897 0.66 0.544025
Target:  5'- uCGAGCUCGaucgcUGCUGcgCCG-CGaCCGUGUc -3'
miRNA:   3'- -GCUCGAGU-----ACGGCa-GGCcGC-GGUACG- -5'
12164 3' -58.7 NC_003309.1 + 1995 0.66 0.502645
Target:  5'- -aAGCUgGUGCgacagGUUCGuuGCGCCGUGCg -3'
miRNA:   3'- gcUCGAgUACGg----CAGGC--CGCGGUACG- -5'
12164 3' -58.7 NC_003309.1 + 5158 0.66 0.502645
Target:  5'- gCGAGCUgCGcGUCG-CCGcGCGCCGccGCg -3'
miRNA:   3'- -GCUCGA-GUaCGGCaGGC-CGCGGUa-CG- -5'
12164 3' -58.7 NC_003309.1 + 53126 0.66 0.49251
Target:  5'- aGGGCUgaCAgaggccGCUGUCgCGGCGCaagAUGCg -3'
miRNA:   3'- gCUCGA--GUa-----CGGCAG-GCCGCGg--UACG- -5'
12164 3' -58.7 NC_003309.1 + 25529 0.67 0.45297
Target:  5'- aCGGGCgUCGUuucGCCuUUCGGCGaCAUGCc -3'
miRNA:   3'- -GCUCG-AGUA---CGGcAGGCCGCgGUACG- -5'
12164 3' -58.7 NC_003309.1 + 31936 0.67 0.45297
Target:  5'- -cAGUUCuucGCCGcccgcggCCGGCGCCA-GCg -3'
miRNA:   3'- gcUCGAGua-CGGCa------GGCCGCGGUaCG- -5'
12164 3' -58.7 NC_003309.1 + 10459 0.67 0.433858
Target:  5'- gCGAGUUCGgccugcgcUGCCGccUCCGcCGCC-UGCg -3'
miRNA:   3'- -GCUCGAGU--------ACGGC--AGGCcGCGGuACG- -5'
12164 3' -58.7 NC_003309.1 + 30829 0.68 0.403376
Target:  5'- gGAGCUUcucaacgagaaucgAcGCCGUCUGGCGCgcaAUGUc -3'
miRNA:   3'- gCUCGAG--------------UaCGGCAGGCCGCGg--UACG- -5'
12164 3' -58.7 NC_003309.1 + 12561 0.68 0.388212
Target:  5'- gCGAGCcaagCGUGCCGUCCuuucgcGCGCCc--- -3'
miRNA:   3'- -GCUCGa---GUACGGCAGGc-----CGCGGuacg -5'
12164 3' -58.7 NC_003309.1 + 46673 0.68 0.379468
Target:  5'- aGGcGCUCAggUGaCCGggCCGGCGCguaAUGCg -3'
miRNA:   3'- gCU-CGAGU--AC-GGCa-GGCCGCGg--UACG- -5'
12164 3' -58.7 NC_003309.1 + 3650 0.69 0.370857
Target:  5'- uCGGGCUCAgguagaugucGCCGcccuugaCCGGCGgCAUGUu -3'
miRNA:   3'- -GCUCGAGUa---------CGGCa------GGCCGCgGUACG- -5'
12164 3' -58.7 NC_003309.1 + 48233 0.69 0.345835
Target:  5'- --cGCUCGaucgaGCCGUCCGaGCGCCGcugacGCg -3'
miRNA:   3'- gcuCGAGUa----CGGCAGGC-CGCGGUa----CG- -5'
12164 3' -58.7 NC_003309.1 + 7811 0.69 0.345835
Target:  5'- gCGAGCgcCAUGUCGagC-GCGCCAUGUa -3'
miRNA:   3'- -GCUCGa-GUACGGCagGcCGCGGUACG- -5'
12164 3' -58.7 NC_003309.1 + 10695 0.69 0.337768
Target:  5'- uCGAGCUCcUGCUG-CgCGGCgGCCGUcucGCg -3'
miRNA:   3'- -GCUCGAGuACGGCaG-GCCG-CGGUA---CG- -5'
12164 3' -58.7 NC_003309.1 + 9712 0.7 0.292264
Target:  5'- uCGAGCgguUGCCGUgugUCGcGCGCgAUGCg -3'
miRNA:   3'- -GCUCGaguACGGCA---GGC-CGCGgUACG- -5'
12164 3' -58.7 NC_003309.1 + 22624 0.71 0.25812
Target:  5'- cCGGGCac--GCCGUcgccaCCGGCuGCCGUGCa -3'
miRNA:   3'- -GCUCGaguaCGGCA-----GGCCG-CGGUACG- -5'
12164 3' -58.7 NC_003309.1 + 10228 0.76 0.130083
Target:  5'- cCGAGCUUcacgAUGCCGUCgaGGUGCUcUGCg -3'
miRNA:   3'- -GCUCGAG----UACGGCAGg-CCGCGGuACG- -5'
12164 3' -58.7 NC_003309.1 + 39015 1.12 0.000287
Target:  5'- uCGAGCUCAUGCCGUCCGGCGCCAUGCa -3'
miRNA:   3'- -GCUCGAGUACGGCAGGCCGCGGUACG- -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.