miRNA display CGI


Results 1 - 20 of 34 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
23506 5' -52.8 NC_005259.1 + 6553 0.7 0.697632
Target:  5'- -gCGGUGaaGCUGUGcgcGGCGugUCAGGCc -3'
miRNA:   3'- agGCCAC--UGGUACu--UCGUugAGUCCG- -5'
23506 5' -52.8 NC_005259.1 + 7870 0.77 0.309752
Target:  5'- cCCGGUGGCCc-GAGuGCuugGACUCGGGCa -3'
miRNA:   3'- aGGCCACUGGuaCUU-CG---UUGAGUCCG- -5'
23506 5' -52.8 NC_005259.1 + 10251 0.69 0.74045
Target:  5'- -gCGGUGugCuUGAugAGCGGgccgguCUCAGGCa -3'
miRNA:   3'- agGCCACugGuACU--UCGUU------GAGUCCG- -5'
23506 5' -52.8 NC_005259.1 + 15464 0.69 0.729882
Target:  5'- cCCGuUGGCCAaGgcGCAACUCucgcuGGCc -3'
miRNA:   3'- aGGCcACUGGUaCuuCGUUGAGu----CCG- -5'
23506 5' -52.8 NC_005259.1 + 20977 0.66 0.894342
Target:  5'- gCCGGggUGACaacugCGUGuGGGCcuACUCGGGCg -3'
miRNA:   3'- aGGCC--ACUG-----GUAC-UUCGu-UGAGUCCG- -5'
23506 5' -52.8 NC_005259.1 + 23260 0.67 0.838195
Target:  5'- -gCGGUGGCCAccaUGA-GCAccaagAC-CGGGCg -3'
miRNA:   3'- agGCCACUGGU---ACUuCGU-----UGaGUCCG- -5'
23506 5' -52.8 NC_005259.1 + 24407 0.66 0.894342
Target:  5'- aCCGuGcucaaUGACCucggcgagGAAGCGACagCGGGCa -3'
miRNA:   3'- aGGC-C-----ACUGGua------CUUCGUUGa-GUCCG- -5'
23506 5' -52.8 NC_005259.1 + 26817 0.7 0.686738
Target:  5'- gCCGGUaccGGCgGUGGugccggGGCGgucuGCUCGGGCa -3'
miRNA:   3'- aGGCCA---CUGgUACU------UCGU----UGAGUCCG- -5'
23506 5' -52.8 NC_005259.1 + 27383 0.7 0.696545
Target:  5'- -aCGGUGACCGgcggcGGugucggcagcggcGGCAGCUCGGuGCc -3'
miRNA:   3'- agGCCACUGGUa----CU-------------UCGUUGAGUC-CG- -5'
23506 5' -52.8 NC_005259.1 + 29613 0.75 0.393822
Target:  5'- aUCCGGUGgcauuACCAucgcUGucAGCAACUCuGGCg -3'
miRNA:   3'- -AGGCCAC-----UGGU----ACu-UCGUUGAGuCCG- -5'
23506 5' -52.8 NC_005259.1 + 34873 0.69 0.750908
Target:  5'- gUCGGUG-CCGgaccGggGUGcCUCGGGCa -3'
miRNA:   3'- aGGCCACuGGUa---CuuCGUuGAGUCCG- -5'
23506 5' -52.8 NC_005259.1 + 35189 0.66 0.886335
Target:  5'- gCCGGUGAgCAgcaccgugccgccUGAGGCGGCg-AGGa -3'
miRNA:   3'- aGGCCACUgGU-------------ACUUCGUUGagUCCg -5'
23506 5' -52.8 NC_005259.1 + 41391 0.71 0.598595
Target:  5'- gCCGGUacCCAUGgcGCGccGCUCGGGg -3'
miRNA:   3'- aGGCCAcuGGUACuuCGU--UGAGUCCg -5'
23506 5' -52.8 NC_005259.1 + 44804 0.66 0.863728
Target:  5'- gCCGGUGGCCuggcccuUGGucAGCAGCUCc--- -3'
miRNA:   3'- aGGCCACUGGu------ACU--UCGUUGAGuccg -5'
23506 5' -52.8 NC_005259.1 + 45493 0.66 0.887076
Target:  5'- gCUGGUGGCCuu--GGUcGCUguGGCc -3'
miRNA:   3'- aGGCCACUGGuacuUCGuUGAguCCG- -5'
23506 5' -52.8 NC_005259.1 + 45523 0.66 0.879548
Target:  5'- gCCGGUGuuggccGCCGUGGcugcgAGCGgguuGCUCgccGGGCc -3'
miRNA:   3'- aGGCCAC------UGGUACU-----UCGU----UGAG---UCCG- -5'
23506 5' -52.8 NC_005259.1 + 45646 0.74 0.450879
Target:  5'- gCCGGUGccGCCGUGAAcaccgccguccGCGuaguaccgccuGCUCAGGCc -3'
miRNA:   3'- aGGCCAC--UGGUACUU-----------CGU-----------UGAGUCCG- -5'
23506 5' -52.8 NC_005259.1 + 46623 0.66 0.887076
Target:  5'- cUUGGUGGCC-UGAcuGGuCAGCUCcauGGCc -3'
miRNA:   3'- aGGCCACUGGuACU--UC-GUUGAGu--CCG- -5'
23506 5' -52.8 NC_005259.1 + 50415 0.73 0.481056
Target:  5'- gCCGGUG-CCuUGAc-CGGCUCGGGCa -3'
miRNA:   3'- aGGCCACuGGuACUucGUUGAGUCCG- -5'
23506 5' -52.8 NC_005259.1 + 51160 0.7 0.65158
Target:  5'- uUCgGGuUGACCGUGGcgAGCcacagaucgauCUCAGGCa -3'
miRNA:   3'- -AGgCC-ACUGGUACU--UCGuu---------GAGUCCG- -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.