miRNA display CGI


Results 1 - 20 of 45 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
2874 5' -56.9 NC_001493.1 + 65329 0.66 0.880203
Target:  5'- cCGcGGCGUGCCguUCGCGcGGgcGAuGGCGg -3'
miRNA:   3'- -GCuCUGCGCGG--AGUGC-UCuuCU-CCGC- -5'
2874 5' -56.9 NC_001493.1 + 126513 0.66 0.873067
Target:  5'- aCGAGauGCGCGCCUUcuACGAGAcGuGcGCc -3'
miRNA:   3'- -GCUC--UGCGCGGAG--UGCUCUuCuC-CGc -5'
2874 5' -56.9 NC_001493.1 + 124798 0.66 0.864972
Target:  5'- -aGGAUGCGUCgUCGgGAcaggaccGggGAGGCGg -3'
miRNA:   3'- gcUCUGCGCGG-AGUgCU-------CuuCUCCGC- -5'
2874 5' -56.9 NC_001493.1 + 9244 0.66 0.864972
Target:  5'- -aGGAUGCGUCgUCGgGAcaggaccGggGAGGCGg -3'
miRNA:   3'- gcUCUGCGCGG-AGUgCU-------CuuCUCCGC- -5'
2874 5' -56.9 NC_001493.1 + 21406 0.66 0.858161
Target:  5'- gCGGcGAUGCgGCUUCACcAGggGcGGCGg -3'
miRNA:   3'- -GCU-CUGCG-CGGAGUGcUCuuCuCCGC- -5'
2874 5' -56.9 NC_001493.1 + 114152 0.66 0.858161
Target:  5'- -aGGACGCGCCaaUCGCGGGGAcguaccacauGAGcGUGu -3'
miRNA:   3'- gcUCUGCGCGG--AGUGCUCUU----------CUC-CGC- -5'
2874 5' -56.9 NC_001493.1 + 69763 0.66 0.858161
Target:  5'- gCGGGACGUGUCcccgaUCGCGAacGAGccGAGGCc -3'
miRNA:   3'- -GCUCUGCGCGG-----AGUGCU--CUU--CUCCGc -5'
2874 5' -56.9 NC_001493.1 + 56448 0.66 0.858161
Target:  5'- aCGAcGACcaacgaGCGCCUCG-GGGAAGugauGGCGu -3'
miRNA:   3'- -GCU-CUG------CGCGGAGUgCUCUUCu---CCGC- -5'
2874 5' -56.9 NC_001493.1 + 126202 0.66 0.842449
Target:  5'- uCGGGACGCGCCcgaucgCGCGAGcuccccGGGUu -3'
miRNA:   3'- -GCUCUGCGCGGa-----GUGCUCuuc---UCCGc -5'
2874 5' -56.9 NC_001493.1 + 49858 0.66 0.842449
Target:  5'- --cGACGCGCuCUU-CGAGGAG-GGUGg -3'
miRNA:   3'- gcuCUGCGCG-GAGuGCUCUUCuCCGC- -5'
2874 5' -56.9 NC_001493.1 + 10648 0.66 0.842449
Target:  5'- uCGGGACGCGCCcgaucgCGCGAGcuccccGGGUu -3'
miRNA:   3'- -GCUCUGCGCGGa-----GUGCUCuuc---UCCGc -5'
2874 5' -56.9 NC_001493.1 + 36403 0.67 0.834306
Target:  5'- uCGGGGCGgGcCCUCuuGGuucGAGGGGGCu -3'
miRNA:   3'- -GCUCUGCgC-GGAGugCU---CUUCUCCGc -5'
2874 5' -56.9 NC_001493.1 + 91000 0.67 0.834306
Target:  5'- uCGAGGCcCGCCggcUC-CGAGucGAGAGGCc -3'
miRNA:   3'- -GCUCUGcGCGG---AGuGCUC--UUCUCCGc -5'
2874 5' -56.9 NC_001493.1 + 19638 0.67 0.825983
Target:  5'- uGAG-CGuCGCCauacccguUCugGAGAGG-GGCGa -3'
miRNA:   3'- gCUCuGC-GCGG--------AGugCUCUUCuCCGC- -5'
2874 5' -56.9 NC_001493.1 + 10123 0.67 0.817484
Target:  5'- gCGAuuCGCGaCCUCACGGGGccauacAGAGGg- -3'
miRNA:   3'- -GCUcuGCGC-GGAGUGCUCU------UCUCCgc -5'
2874 5' -56.9 NC_001493.1 + 125678 0.67 0.817484
Target:  5'- gCGAuuCGCGaCCUCACGGGGccauacAGAGGg- -3'
miRNA:   3'- -GCUcuGCGC-GGAGUGCUCU------UCUCCgc -5'
2874 5' -56.9 NC_001493.1 + 109156 0.67 0.80882
Target:  5'- -uGGACaGcCGCCgCACGGGGAGAgauGGCGa -3'
miRNA:   3'- gcUCUG-C-GCGGaGUGCUCUUCU---CCGC- -5'
2874 5' -56.9 NC_001493.1 + 35676 0.67 0.80882
Target:  5'- gGAGAagacgaGCGCCgcaGCGAGAGG-GGUc -3'
miRNA:   3'- gCUCUg-----CGCGGag-UGCUCUUCuCCGc -5'
2874 5' -56.9 NC_001493.1 + 45064 0.67 0.799997
Target:  5'- gCGAGAuauuUGCGCC-CugGAGAAacGGGCa -3'
miRNA:   3'- -GCUCU----GCGCGGaGugCUCUUc-UCCGc -5'
2874 5' -56.9 NC_001493.1 + 26341 0.67 0.799997
Target:  5'- aCGAGGCaCGgUUCucucCGAGAAGAGaGCGa -3'
miRNA:   3'- -GCUCUGcGCgGAGu---GCUCUUCUC-CGC- -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.