miRNA display CGI


Results 1 - 17 of 17 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
23290 3' -55.5 NC_005259.1 + 23312 0.66 0.776943
Target:  5'- -cCGGCgcgGUCG-GUGuCGCCGAGccGGAu -3'
miRNA:   3'- caGCCG---UAGCaCGC-GCGGCUUuaCCU- -5'
23290 3' -55.5 NC_005259.1 + 63680 0.66 0.776943
Target:  5'- --gGGCAcCG-GCGCGCCGg---GGAu -3'
miRNA:   3'- cagCCGUaGCaCGCGCGGCuuuaCCU- -5'
23290 3' -55.5 NC_005259.1 + 52779 0.66 0.767013
Target:  5'- uGUCGGCAgCGUGUGCcGUCGAc----- -3'
miRNA:   3'- -CAGCCGUaGCACGCG-CGGCUuuaccu -5'
23290 3' -55.5 NC_005259.1 + 36803 0.66 0.767013
Target:  5'- cGUCGGCAUUGUugaccgGCGCGgUGAGAc--- -3'
miRNA:   3'- -CAGCCGUAGCA------CGCGCgGCUUUaccu -5'
23290 3' -55.5 NC_005259.1 + 6439 0.66 0.73646
Target:  5'- uGUCGGCAcCGU-CGCGCUGAuc-GGc -3'
miRNA:   3'- -CAGCCGUaGCAcGCGCGGCUuuaCCu -5'
23290 3' -55.5 NC_005259.1 + 7426 0.67 0.70923
Target:  5'- cGUCGGCG--GUGCccgcgccgcauggcaGCGCCGAgGAUGGc -3'
miRNA:   3'- -CAGCCGUagCACG---------------CGCGGCU-UUACCu -5'
23290 3' -55.5 NC_005259.1 + 23704 0.67 0.698614
Target:  5'- -aCcGCGUCGUGauCGCGCCGGAcgguucggugcucacGUGGGa -3'
miRNA:   3'- caGcCGUAGCAC--GCGCGGCUU---------------UACCU- -5'
23290 3' -55.5 NC_005259.1 + 25529 0.68 0.662117
Target:  5'- -gUGGCAUCGcgUGgGUGCUGGGAcGGAu -3'
miRNA:   3'- caGCCGUAGC--ACgCGCGGCUUUaCCU- -5'
23290 3' -55.5 NC_005259.1 + 45169 0.68 0.629638
Target:  5'- cUUGGCcUUGuUGCGCGCCGAGGUc-- -3'
miRNA:   3'- cAGCCGuAGC-ACGCGCGGCUUUAccu -5'
23290 3' -55.5 NC_005259.1 + 30817 0.68 0.618804
Target:  5'- aGUCGGguaGUcCG-GCGCGCCGAGGUcGGc -3'
miRNA:   3'- -CAGCCg--UA-GCaCGCGCGGCUUUA-CCu -5'
23290 3' -55.5 NC_005259.1 + 42180 0.69 0.575666
Target:  5'- cGUCGaacuGUAUcCGcUGCGCGCCGucgcGAUGGAu -3'
miRNA:   3'- -CAGC----CGUA-GC-ACGCGCGGCu---UUACCU- -5'
23290 3' -55.5 NC_005259.1 + 68300 0.69 0.575666
Target:  5'- aUCGGgAUCGgGCGCGuCCGGcgAcgGGAu -3'
miRNA:   3'- cAGCCgUAGCaCGCGC-GGCU--UuaCCU- -5'
23290 3' -55.5 NC_005259.1 + 31187 0.69 0.575666
Target:  5'- aGUCGGCGagGaUGC-CGCCGAAGaucgGGAu -3'
miRNA:   3'- -CAGCCGUagC-ACGcGCGGCUUUa---CCU- -5'
23290 3' -55.5 NC_005259.1 + 29410 0.7 0.543755
Target:  5'- cUCGGCGagcUCGUGCGCGCacaca-GGAu -3'
miRNA:   3'- cAGCCGU---AGCACGCGCGgcuuuaCCU- -5'
23290 3' -55.5 NC_005259.1 + 56808 0.7 0.512444
Target:  5'- aUCGGgGUCGguggccacccauUGCGCGCCuauGUGGAu -3'
miRNA:   3'- cAGCCgUAGC------------ACGCGCGGcuuUACCU- -5'
23290 3' -55.5 NC_005259.1 + 47899 0.71 0.449357
Target:  5'- cGUCGGC-UCGUugagcgccuugaugGCGuCGCCGAGGcccUGGAa -3'
miRNA:   3'- -CAGCCGuAGCA--------------CGC-GCGGCUUU---ACCU- -5'
23290 3' -55.5 NC_005259.1 + 22144 1.09 0.001275
Target:  5'- cGUCGGCAUCGUGCGCGCCGAAAUGGAu -3'
miRNA:   3'- -CAGCCGUAGCACGCGCGGCUUUACCU- -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.