miRNA display CGI


Results 1 - 20 of 33 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
16230 3' -60.1 NC_004065.1 + 189 0.67 0.776229
Target:  5'- uUCCGAGaaguuCCCCuuuucugggAAGAuUCUGGCGGGAa -3'
miRNA:   3'- uGGGCUCc----GGGG---------UUCU-AGACCGUCCU- -5'
16230 3' -60.1 NC_004065.1 + 1957 0.74 0.364581
Target:  5'- uGCCCcccgugaugaggGAGGCCCgAcgcuAGAUCUGGCuGGAu -3'
miRNA:   3'- -UGGG------------CUCCGGGgU----UCUAGACCGuCCU- -5'
16230 3' -60.1 NC_004065.1 + 24507 0.69 0.663371
Target:  5'- gGCCCuGAgcgccGGCCCCAAGA--UGGCGGcGGc -3'
miRNA:   3'- -UGGG-CU-----CCGGGGUUCUagACCGUC-CU- -5'
16230 3' -60.1 NC_004065.1 + 30120 0.67 0.758221
Target:  5'- cCCCGGcGGCCUgGGGAg--GGCGGGu -3'
miRNA:   3'- uGGGCU-CCGGGgUUCUagaCCGUCCu -5'
16230 3' -60.1 NC_004065.1 + 36418 0.66 0.835163
Target:  5'- gACCUGGugaacGGCUCCAcggucaAGGUCUGGCGaGAc -3'
miRNA:   3'- -UGGGCU-----CCGGGGU------UCUAGACCGUcCU- -5'
16230 3' -60.1 NC_004065.1 + 50272 0.68 0.721052
Target:  5'- cGCCCGAuucgGGCCCCGAGAccgccgUCcGcGCGGcGAu -3'
miRNA:   3'- -UGGGCU----CCGGGGUUCU------AGaC-CGUC-CU- -5'
16230 3' -60.1 NC_004065.1 + 50857 0.67 0.766378
Target:  5'- gGCgCGGGGCCUCugacggaGAGAUCgacgGGCAcGGGc -3'
miRNA:   3'- -UGgGCUCCGGGG-------UUCUAGa---CCGU-CCU- -5'
16230 3' -60.1 NC_004065.1 + 64339 0.68 0.721051
Target:  5'- cACaCGAGGCCCUggGA--UGGCAGa- -3'
miRNA:   3'- -UGgGCUCCGGGGuuCUagACCGUCcu -5'
16230 3' -60.1 NC_004065.1 + 68566 0.73 0.429216
Target:  5'- uCCCGaAGGCCCgGAGcUCUcaGGUAGGAa -3'
miRNA:   3'- uGGGC-UCCGGGgUUCuAGA--CCGUCCU- -5'
16230 3' -60.1 NC_004065.1 + 71005 0.66 0.835163
Target:  5'- gACCCGAGGUCUCuGGAgggaUGGUaauuccccucacGGGAc -3'
miRNA:   3'- -UGGGCUCCGGGGuUCUag--ACCG------------UCCU- -5'
16230 3' -60.1 NC_004065.1 + 80560 0.67 0.739807
Target:  5'- gACCCGgaGGGCUUCGGGGUCgauagccucgGGgGGGAg -3'
miRNA:   3'- -UGGGC--UCCGGGGUUCUAGa---------CCgUCCU- -5'
16230 3' -60.1 NC_004065.1 + 81543 0.72 0.497367
Target:  5'- gACCCGAGGaucacgcgccacguCCCCGAGAUCUGcauGCuguacaAGGAg -3'
miRNA:   3'- -UGGGCUCC--------------GGGGUUCUAGAC---CG------UCCU- -5'
16230 3' -60.1 NC_004065.1 + 82329 0.73 0.446401
Target:  5'- uGCCCGAGGCCgUAgccguagaaggaGGAUUUGGUgacGGGAg -3'
miRNA:   3'- -UGGGCUCCGGgGU------------UCUAGACCG---UCCU- -5'
16230 3' -60.1 NC_004065.1 + 91154 0.67 0.76728
Target:  5'- uGCUCGAGGaCCCAcGGAUCgucGCAGGc -3'
miRNA:   3'- -UGGGCUCCgGGGU-UCUAGac-CGUCCu -5'
16230 3' -60.1 NC_004065.1 + 104778 0.66 0.793767
Target:  5'- gACCCGGcGGCCUCGAGA-CgGGCAu-- -3'
miRNA:   3'- -UGGGCU-CCGGGGUUCUaGaCCGUccu -5'
16230 3' -60.1 NC_004065.1 + 121603 0.69 0.653632
Target:  5'- gGCCCGGGaCCCCccGGUagGGCAGGAu -3'
miRNA:   3'- -UGGGCUCcGGGGuuCUAgaCCGUCCU- -5'
16230 3' -60.1 NC_004065.1 + 126419 0.67 0.749061
Target:  5'- uGCCCGcGGUCCCGGcugcGGUCcaGCAGGAa -3'
miRNA:   3'- -UGGGCuCCGGGGUU----CUAGacCGUCCU- -5'
16230 3' -60.1 NC_004065.1 + 136422 0.69 0.634116
Target:  5'- uCCUGGGGgCCCGgugagccgAGGUCgguaGGCGGGAa -3'
miRNA:   3'- uGGGCUCCgGGGU--------UCUAGa---CCGUCCU- -5'
16230 3' -60.1 NC_004065.1 + 136489 0.67 0.767279
Target:  5'- -gCCGAGGCCgguagCCGGGGagCUGGUccGGGAa -3'
miRNA:   3'- ugGGCUCCGG-----GGUUCUa-GACCG--UCCU- -5'
16230 3' -60.1 NC_004065.1 + 136588 0.66 0.819061
Target:  5'- uCCUGcGGUCCgGGGAUCcGGguGGGg -3'
miRNA:   3'- uGGGCuCCGGGgUUCUAGaCCguCCU- -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.