miRNA display CGI


Results 1 - 18 of 18 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
18103 5' -59.5 NC_004680.1 + 55897 0.66 0.515472
Target:  5'- --cGGCGUGuGGCGguugggguuuuACCGGCCAUCgCGAg -3'
miRNA:   3'- uucUCGCAC-CUGC-----------UGGUCGGUGG-GCU- -5'
18103 5' -59.5 NC_004680.1 + 22766 0.66 0.505275
Target:  5'- uAGGAgGCG-GcGACGGCCcccacCCACCCGAa -3'
miRNA:   3'- -UUCU-CGCaC-CUGCUGGuc---GGUGGGCU- -5'
18103 5' -59.5 NC_004680.1 + 22006 0.66 0.485149
Target:  5'- uGGGGauggGGGCGGCCAGCCACa--- -3'
miRNA:   3'- uUCUCgca-CCUGCUGGUCGGUGggcu -5'
18103 5' -59.5 NC_004680.1 + 8557 0.66 0.485149
Target:  5'- cAGGGGCgGUGGGCuGGCUuugugugguGCCugCCGGg -3'
miRNA:   3'- -UUCUCG-CACCUG-CUGGu--------CGGugGGCU- -5'
18103 5' -59.5 NC_004680.1 + 40902 0.66 0.474244
Target:  5'- --cGGCGUGGAcuacucacaggcuCGACCcccgaGGCC-CCCGAu -3'
miRNA:   3'- uucUCGCACCU-------------GCUGG-----UCGGuGGGCU- -5'
18103 5' -59.5 NC_004680.1 + 19686 0.66 0.469328
Target:  5'- uGGGcGGCGgagaccagaaggucaUGGGCGGCCAcgguacGCCACCUGGu -3'
miRNA:   3'- -UUC-UCGC---------------ACCUGCUGGU------CGGUGGGCU- -5'
18103 5' -59.5 NC_004680.1 + 11106 0.66 0.465414
Target:  5'- cGGGGCc-GGGgGGCCGGCUgGCCCGAu -3'
miRNA:   3'- uUCUCGcaCCUgCUGGUCGG-UGGGCU- -5'
18103 5' -59.5 NC_004680.1 + 28455 0.67 0.446104
Target:  5'- -cGAGCuGUGGAUGaACCAcauCgCACCCGAa -3'
miRNA:   3'- uuCUCG-CACCUGC-UGGUc--G-GUGGGCU- -5'
18103 5' -59.5 NC_004680.1 + 50041 0.67 0.436618
Target:  5'- -cGAGC-UGGGCGugCcagAGCCugcaACCCGAu -3'
miRNA:   3'- uuCUCGcACCUGCugG---UCGG----UGGGCU- -5'
18103 5' -59.5 NC_004680.1 + 1841 0.67 0.418
Target:  5'- ---cGCGUGGGCgGGCCGGUU-CCCGGa -3'
miRNA:   3'- uucuCGCACCUG-CUGGUCGGuGGGCU- -5'
18103 5' -59.5 NC_004680.1 + 12411 0.68 0.399874
Target:  5'- uGGuGCGUGGGCGccuaacCCAGCCccgcuGCCCa- -3'
miRNA:   3'- uUCuCGCACCUGCu-----GGUCGG-----UGGGcu -5'
18103 5' -59.5 NC_004680.1 + 13301 0.68 0.35682
Target:  5'- uGAGguaGGUGUGGaaugccGCGGCCGGUC-CCCGAa -3'
miRNA:   3'- -UUC---UCGCACC------UGCUGGUCGGuGGGCU- -5'
18103 5' -59.5 NC_004680.1 + 23306 0.68 0.35682
Target:  5'- -cGAGC-UGGcCGACCAgauGCCGCCCu- -3'
miRNA:   3'- uuCUCGcACCuGCUGGU---CGGUGGGcu -5'
18103 5' -59.5 NC_004680.1 + 11171 0.69 0.348609
Target:  5'- -uGGGCGccgGGGCcGCCaccaaGGCCGCCCGGc -3'
miRNA:   3'- uuCUCGCa--CCUGcUGG-----UCGGUGGGCU- -5'
18103 5' -59.5 NC_004680.1 + 33399 0.71 0.241766
Target:  5'- gGAGGGUGUGG-CGACCaggaauguGGCCGCCUu- -3'
miRNA:   3'- -UUCUCGCACCuGCUGG--------UCGGUGGGcu -5'
18103 5' -59.5 NC_004680.1 + 12315 0.73 0.191739
Target:  5'- uGGGGCGgGGGCGACCGccgcuucggguGCCGCgCCGGg -3'
miRNA:   3'- uUCUCGCaCCUGCUGGU-----------CGGUG-GGCU- -5'
18103 5' -59.5 NC_004680.1 + 11862 0.74 0.15513
Target:  5'- gGAGAGCGgucaUGGACacACCGGCCGCaCCGGc -3'
miRNA:   3'- -UUCUCGC----ACCUGc-UGGUCGGUG-GGCU- -5'
18103 5' -59.5 NC_004680.1 + 21132 1.06 0.000606
Target:  5'- gAAGAGCGUGGACGACCAGCCACCCGAg -3'
miRNA:   3'- -UUCUCGCACCUGCUGGUCGGUGGGCU- -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.