miRNA display CGI


Results 1 - 20 of 38 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
28047 5' -55.6 NC_005887.1 + 8827 0.66 0.640331
Target:  5'- -aGGCgCucacggUGAUCGCCGACaagaUCGCGCGg -3'
miRNA:   3'- uaCUG-G------ACUAGCGGCUGaa--GGCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 35743 0.66 0.639209
Target:  5'- cGUGGCCcacUCGCuCGGCUUCucguucaCGCGCGg -3'
miRNA:   3'- -UACUGGacuAGCG-GCUGAAG-------GCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 9997 0.66 0.629107
Target:  5'- -gGACgUcacgaaGAUCGCCGACcacaUCaCGCGCGg -3'
miRNA:   3'- uaCUGgA------CUAGCGGCUGa---AG-GCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 34375 0.66 0.617886
Target:  5'- -cGACgUGAuucgcuugUCGCCGAuCUUCgucagCGCGCGg -3'
miRNA:   3'- uaCUGgACU--------AGCGGCU-GAAG-----GCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 9919 0.66 0.617886
Target:  5'- --aACCUGAUCGCCGcCggccacaucgCCGC-CGg -3'
miRNA:   3'- uacUGGACUAGCGGCuGaa--------GGCGuGC- -5'
28047 5' -55.6 NC_005887.1 + 2506 0.66 0.617886
Target:  5'- -cGGCCUGcUCGugcacCCgGACUgCCGCACGc -3'
miRNA:   3'- uaCUGGACuAGC-----GG-CUGAaGGCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 262 0.66 0.617886
Target:  5'- -cGACCUGAU-GCCGAaagacgUgGCGCGg -3'
miRNA:   3'- uaCUGGACUAgCGGCUgaa---GgCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 30271 0.66 0.595493
Target:  5'- gGUGACCUGAccgagcgacgUGCCGACcugCUGCAgCGc -3'
miRNA:   3'- -UACUGGACUa---------GCGGCUGaa-GGCGU-GC- -5'
28047 5' -55.6 NC_005887.1 + 8539 0.66 0.595493
Target:  5'- -cGACCUGAcacccgcguggUgGCCGugggUCCGCGCu -3'
miRNA:   3'- uaCUGGACU-----------AgCGGCuga-AGGCGUGc -5'
28047 5' -55.6 NC_005887.1 + 6932 0.66 0.595493
Target:  5'- -cGACCUGAucgacUCGUgGGCgaaggCCGUGCGc -3'
miRNA:   3'- uaCUGGACU-----AGCGgCUGaa---GGCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 27739 0.66 0.58434
Target:  5'- -cGcCCUcGAcggCGCCGACggCCGUACGc -3'
miRNA:   3'- uaCuGGA-CUa--GCGGCUGaaGGCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 13506 0.67 0.573229
Target:  5'- -cGACgaGGUCGCCGGCacgggcaUGCGCGc -3'
miRNA:   3'- uaCUGgaCUAGCGGCUGaag----GCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 4890 0.67 0.562168
Target:  5'- -cGACgaUGGUCGCCGAgggCCgGCGCGa -3'
miRNA:   3'- uaCUGg-ACUAGCGGCUgaaGG-CGUGC- -5'
28047 5' -55.6 NC_005887.1 + 14656 0.67 0.561065
Target:  5'- -gGugCUGcccGUCGCCGguucgacGCUgccCCGCACGa -3'
miRNA:   3'- uaCugGAC---UAGCGGC-------UGAa--GGCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 25785 0.67 0.551165
Target:  5'- -gGGCCcGGUCGagauCGGCUUCgUGCACGa -3'
miRNA:   3'- uaCUGGaCUAGCg---GCUGAAG-GCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 5245 0.67 0.544595
Target:  5'- -cGGCCgcgcGAUCGCCGaggcugugcucgcccGCUUCgGUGCGa -3'
miRNA:   3'- uaCUGGa---CUAGCGGC---------------UGAAGgCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 975 0.67 0.540229
Target:  5'- -cGAggUGAUCGCCGACa--CGCGCa -3'
miRNA:   3'- uaCUggACUAGCGGCUGaagGCGUGc -5'
28047 5' -55.6 NC_005887.1 + 29102 0.67 0.539139
Target:  5'- uGUGACCgucGGUCgcgacgaGCCGGgUUUCGUACGg -3'
miRNA:   3'- -UACUGGa--CUAG-------CGGCUgAAGGCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 26407 0.67 0.529367
Target:  5'- -gGuuCUGGUCgaGCUGGCggCCGCGCGg -3'
miRNA:   3'- uaCugGACUAG--CGGCUGaaGGCGUGC- -5'
28047 5' -55.6 NC_005887.1 + 39532 0.67 0.529367
Target:  5'- ----aCUGG-CGCCGGCUcuguaccccaaUCCGCGCGa -3'
miRNA:   3'- uacugGACUaGCGGCUGA-----------AGGCGUGC- -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.