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
11593 3' -60.2 NC_003085.1 + 19394 0.66 0.437573
Target:  5'- gUGGGCCGGUacCC-CAGCAaggcccaGGGCGGc -3'
miRNA:   3'- -ACCCGGCCGacGGcGUUGUa------CUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 5558 0.68 0.332959
Target:  5'- aGGGCCuGGC-GCCGCGAacgGuGCGc -3'
miRNA:   3'- aCCCGG-CCGaCGGCGUUguaCuCGCc -5'
11593 3' -60.2 NC_003085.1 + 6743 0.68 0.332959
Target:  5'- aUGGuccgacugcCCGGcCUGCCGCGcCGUG-GCGGa -3'
miRNA:   3'- -ACCc--------GGCC-GACGGCGUuGUACuCGCC- -5'
11593 3' -60.2 NC_003085.1 + 8813 0.67 0.349061
Target:  5'- cUGGGacugaGGCUGCCGaGACAUGGcuGCGc -3'
miRNA:   3'- -ACCCgg---CCGACGGCgUUGUACU--CGCc -5'
11593 3' -60.2 NC_003085.1 + 38193 0.67 0.374237
Target:  5'- cUGGGCUGGCg---GCAACucGGGCGGc -3'
miRNA:   3'- -ACCCGGCCGacggCGUUGuaCUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 14353 0.66 0.391692
Target:  5'- gGGGCCGGacCUGCCacuCAACG-GGGUGa -3'
miRNA:   3'- aCCCGGCC--GACGGc--GUUGUaCUCGCc -5'
11593 3' -60.2 NC_003085.1 + 21480 0.66 0.409668
Target:  5'- aGGG-CGGcCUG-CGCGGCGUG-GUGGa -3'
miRNA:   3'- aCCCgGCC-GACgGCGUUGUACuCGCC- -5'
11593 3' -60.2 NC_003085.1 + 25158 0.66 0.418847
Target:  5'- gUGuGGCCGGC-GaCCGUGGCcUGguGGCGGu -3'
miRNA:   3'- -AC-CCGGCCGaC-GGCGUUGuAC--UCGCC- -5'
11593 3' -60.2 NC_003085.1 + 11816 0.66 0.437573
Target:  5'- --cGCCGGgUGCCcCGACGcUGAGgCGGa -3'
miRNA:   3'- accCGGCCgACGGcGUUGU-ACUC-GCC- -5'
11593 3' -60.2 NC_003085.1 + 6615 0.68 0.317409
Target:  5'- aUGGGgguccucaaguCCGGC-GCCG-GACGUGAGCGc -3'
miRNA:   3'- -ACCC-----------GGCCGaCGGCgUUGUACUCGCc -5'
11593 3' -60.2 NC_003085.1 + 41058 0.69 0.265328
Target:  5'- cGGGCUgcuacgcgacugggGGCUGCCGaugAGC--GAGCGGa -3'
miRNA:   3'- aCCCGG--------------CCGACGGCg--UUGuaCUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 25426 0.69 0.260716
Target:  5'- -cGGCaaCGGCUGa-GCAGCAcUGAGCGGc -3'
miRNA:   3'- acCCG--GCCGACggCGUUGU-ACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 3242 0.76 0.089328
Target:  5'- cUGGGCCGGCccacacacucGCC-CGcCAUGAGCGGg -3'
miRNA:   3'- -ACCCGGCCGa---------CGGcGUuGUACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 15034 0.75 0.099862
Target:  5'- cUGGGCCGGCccaaGCCGCAGCccaGGGCc- -3'
miRNA:   3'- -ACCCGGCCGa---CGGCGUUGua-CUCGcc -5'
11593 3' -60.2 NC_003085.1 + 34442 0.74 0.127986
Target:  5'- cGGaGCCGGCgacGUCGgcCAGCAUGAGCGu -3'
miRNA:   3'- aCC-CGGCCGa--CGGC--GUUGUACUCGCc -5'
11593 3' -60.2 NC_003085.1 + 12392 0.73 0.135163
Target:  5'- aGGGCCGGgUGCUGCuGCucgacccGGCGGg -3'
miRNA:   3'- aCCCGGCCgACGGCGuUGuac----UCGCC- -5'
11593 3' -60.2 NC_003085.1 + 40331 0.72 0.181625
Target:  5'- aGGGCUGGCgcgUGCCuCA--GUGGGCGGu -3'
miRNA:   3'- aCCCGGCCG---ACGGcGUugUACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 8067 0.71 0.196558
Target:  5'- cGaGUCaGGCaugGCCGguACAUGAGCGGa -3'
miRNA:   3'- aCcCGG-CCGa--CGGCguUGUACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 20343 0.71 0.201768
Target:  5'- cUGGGCCacGGC-GCCuCAGCGcggGAGCGGc -3'
miRNA:   3'- -ACCCGG--CCGaCGGcGUUGUa--CUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 11682 0.71 0.207099
Target:  5'- gGGGCUGugaGUUGCCGCuaccaguuCAUGGGCGa -3'
miRNA:   3'- aCCCGGC---CGACGGCGuu------GUACUCGCc -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.