miRNA display CGI


Results 1 - 20 of 73 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
26263 3' -59.5 NC_005345.2 + 1648 0.66 0.469786
Target:  5'- cGCGGUaCCGagugUGGUucGUACGUCCGCu -3'
miRNA:   3'- cCGCCG-GGCga--GCUA--CAUGCAGGCGc -5'
26263 3' -59.5 NC_005345.2 + 2483 0.7 0.292194
Target:  5'- cGCGaGCgaGCUCGAUGUACacgCCGCu -3'
miRNA:   3'- cCGC-CGggCGAGCUACAUGca-GGCGc -5'
26263 3' -59.5 NC_005345.2 + 2678 0.68 0.395516
Target:  5'- cGGCGaGgCCGCgggcguugUCGAUGUGggUGUCgGCGg -3'
miRNA:   3'- -CCGC-CgGGCG--------AGCUACAU--GCAGgCGC- -5'
26263 3' -59.5 NC_005345.2 + 3623 0.77 0.097446
Target:  5'- -aCGGCCCGCgccgcaGGUGUGcCGUCCGCa -3'
miRNA:   3'- ccGCCGGGCGag----CUACAU-GCAGGCGc -5'
26263 3' -59.5 NC_005345.2 + 3980 0.66 0.483511
Target:  5'- cGGCugcgacgucaGGCCCGgUCGGacgagccgcagcGCGUCCGCGu -3'
miRNA:   3'- -CCG----------CCGGGCgAGCUaca---------UGCAGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 4368 0.74 0.150308
Target:  5'- gGGCGGgCCGCUCGGUGgggguguCGgucaCCGUGa -3'
miRNA:   3'- -CCGCCgGGCGAGCUACau-----GCa---GGCGC- -5'
26263 3' -59.5 NC_005345.2 + 5771 0.67 0.422486
Target:  5'- aGGCGGUCCGCa-GGUcgGCGUaCGCGu -3'
miRNA:   3'- -CCGCCGGGCGagCUAcaUGCAgGCGC- -5'
26263 3' -59.5 NC_005345.2 + 6468 0.68 0.378165
Target:  5'- aGCGGgCCGC-CGAgcUGUACGgCgGCGa -3'
miRNA:   3'- cCGCCgGGCGaGCU--ACAUGCaGgCGC- -5'
26263 3' -59.5 NC_005345.2 + 7108 0.67 0.441069
Target:  5'- -aCGGCCCGCgacGUGUgGCG-CCGCGc -3'
miRNA:   3'- ccGCCGGGCGagcUACA-UGCaGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 7500 0.71 0.258471
Target:  5'- uGGCGGgCCGCcauUCGGUGgGCGUgCUGCc -3'
miRNA:   3'- -CCGCCgGGCG---AGCUACaUGCA-GGCGc -5'
26263 3' -59.5 NC_005345.2 + 7959 0.67 0.441069
Target:  5'- gGGCGGggauCCCG-UCGGUcgucgugucGUGcCGUCCGCGu -3'
miRNA:   3'- -CCGCC----GGGCgAGCUA---------CAU-GCAGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 8703 0.68 0.386777
Target:  5'- gGGCGGCCCgGCU--GUGgccgacuCGUCCGUc -3'
miRNA:   3'- -CCGCCGGG-CGAgcUACau-----GCAGGCGc -5'
26263 3' -59.5 NC_005345.2 + 9044 0.71 0.252121
Target:  5'- cGGCGaccGCCgGCUCG-UGcAgGUCCGCGa -3'
miRNA:   3'- -CCGC---CGGgCGAGCuACaUgCAGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 9302 0.67 0.413374
Target:  5'- cGCGGCCgGCgUUGA-GUuCGUCgGCGa -3'
miRNA:   3'- cCGCCGGgCG-AGCUaCAuGCAGgCGC- -5'
26263 3' -59.5 NC_005345.2 + 9364 0.69 0.345028
Target:  5'- gGGCGGCCgGgCUCGAccacUACGggcagCCGCu -3'
miRNA:   3'- -CCGCCGGgC-GAGCUac--AUGCa----GGCGc -5'
26263 3' -59.5 NC_005345.2 + 9961 0.68 0.369683
Target:  5'- cGCGGCCCggGUUCGGgcugGgGUCCGCc -3'
miRNA:   3'- cCGCCGGG--CGAGCUaca-UgCAGGCGc -5'
26263 3' -59.5 NC_005345.2 + 10143 0.7 0.306616
Target:  5'- aGGCGGCggCCGCUCuGcgGaGCGcCCGCc -3'
miRNA:   3'- -CCGCCG--GGCGAG-CuaCaUGCaGGCGc -5'
26263 3' -59.5 NC_005345.2 + 10733 0.71 0.258471
Target:  5'- cGGaUGGCCgCGCUCGAUGU-CGU-CGCc -3'
miRNA:   3'- -CC-GCCGG-GCGAGCUACAuGCAgGCGc -5'
26263 3' -59.5 NC_005345.2 + 10803 0.7 0.306616
Target:  5'- aGGCGGaCCgGCUCGAUugGUGC--CUGCGg -3'
miRNA:   3'- -CCGCC-GGgCGAGCUA--CAUGcaGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 10995 0.69 0.353114
Target:  5'- cGGCGGCCCGaaguagacguuCUCGAaGUAgGUgacgaccccggCCGCa -3'
miRNA:   3'- -CCGCCGGGC-----------GAGCUaCAUgCA-----------GGCGc -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.