miRNA display CGI


Results 1 - 20 of 35 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
13436 5' -64 NC_003409.1 + 79623 0.66 0.573549
Target:  5'- cCUugGCGgCCGGCCacuggagGCGUCCgAcauuaaauauauGCUg -3'
miRNA:   3'- -GGugCGCgGGCCGGa------CGCAGGgU------------CGG- -5'
13436 5' -64 NC_003409.1 + 19001 0.66 0.564004
Target:  5'- cCCGCGgGCCCcuCCU-CGUCCUGGUUa -3'
miRNA:   3'- -GGUGCgCGGGccGGAcGCAGGGUCGG- -5'
13436 5' -64 NC_003409.1 + 84347 0.66 0.545048
Target:  5'- cCCaAUGUGCCaaaccuGGCCUGCGagaUAGCCa -3'
miRNA:   3'- -GG-UGCGCGGg-----CCGGACGCaggGUCGG- -5'
13436 5' -64 NC_003409.1 + 78449 0.67 0.51702
Target:  5'- aUAUGCGgcuaCCGGgCUGCG--CCAGCCa -3'
miRNA:   3'- gGUGCGCg---GGCCgGACGCagGGUCGG- -5'
13436 5' -64 NC_003409.1 + 43526 0.67 0.516096
Target:  5'- aCCACG-GCCUcugggcagcagguGGCCgGCGUCCUGGagaCg -3'
miRNA:   3'- -GGUGCgCGGG-------------CCGGaCGCAGGGUCg--G- -5'
13436 5' -64 NC_003409.1 + 95427 0.67 0.507804
Target:  5'- gUCACGCaCuuGGCCcugauaugcaUGUGUCUguGCCc -3'
miRNA:   3'- -GGUGCGcGggCCGG----------ACGCAGGguCGG- -5'
13436 5' -64 NC_003409.1 + 88846 0.67 0.498659
Target:  5'- cCCcCGCGCCCcuGCCUGCcGgcagcgauaUCCC-GCCu -3'
miRNA:   3'- -GGuGCGCGGGc-CGGACG-C---------AGGGuCGG- -5'
13436 5' -64 NC_003409.1 + 109502 0.67 0.498659
Target:  5'- gUACGCGUCCGGggcgGCGUgcUCCGGCUc -3'
miRNA:   3'- gGUGCGCGGGCCgga-CGCA--GGGUCGG- -5'
13436 5' -64 NC_003409.1 + 45380 0.67 0.493207
Target:  5'- -gACGUGCCCuuucgucacccaGGCCgcucGCGUgaucacaaagcgggaCCCGGCCc -3'
miRNA:   3'- ggUGCGCGGG------------CCGGa---CGCA---------------GGGUCGG- -5'
13436 5' -64 NC_003409.1 + 133127 0.67 0.480594
Target:  5'- -uGCGCaCCCaccuGCCUGCGgaUCCCgcGGCCg -3'
miRNA:   3'- ggUGCGcGGGc---CGGACGC--AGGG--UCGG- -5'
13436 5' -64 NC_003409.1 + 116607 0.67 0.480594
Target:  5'- aCCGuCGCaCCCGGCCgcUGCGUCUC--CCu -3'
miRNA:   3'- -GGU-GCGcGGGCCGG--ACGCAGGGucGG- -5'
13436 5' -64 NC_003409.1 + 14164 0.68 0.457599
Target:  5'- cCUACGUGUUCGucgacgccccagguaGCCUGCGcUCCgAGCUg -3'
miRNA:   3'- -GGUGCGCGGGC---------------CGGACGC-AGGgUCGG- -5'
13436 5' -64 NC_003409.1 + 43774 0.68 0.457599
Target:  5'- gCCGCGgGCCCGGacauggcacuuuccaCUUGC--CCCAGCa -3'
miRNA:   3'- -GGUGCgCGGGCC---------------GGACGcaGGGUCGg -5'
13436 5' -64 NC_003409.1 + 74560 0.68 0.445463
Target:  5'- uUCGCaaggGCGUCUGuGCCUGCGuuaacuUCCCAGgCa -3'
miRNA:   3'- -GGUG----CGCGGGC-CGGACGC------AGGGUCgG- -5'
13436 5' -64 NC_003409.1 + 89124 0.68 0.445463
Target:  5'- gCCAguCGCGCCCuccaucgcGCCUGCGaauuuUCCCA-CCa -3'
miRNA:   3'- -GGU--GCGCGGGc-------CGGACGC-----AGGGUcGG- -5'
13436 5' -64 NC_003409.1 + 19555 0.68 0.445463
Target:  5'- aCACGCGCgUGGUCUGgCGaCCCuuGCg -3'
miRNA:   3'- gGUGCGCGgGCCGGAC-GCaGGGu-CGg -5'
13436 5' -64 NC_003409.1 + 40699 0.68 0.428444
Target:  5'- aCugGCGCCaccgaaCGGCC-GCGUCCaacgAGCa -3'
miRNA:   3'- gGugCGCGG------GCCGGaCGCAGGg---UCGg -5'
13436 5' -64 NC_003409.1 + 24212 0.68 0.42008
Target:  5'- -gGCGCGCCagCGGUggGCGgggccccauccUCCCGGCCc -3'
miRNA:   3'- ggUGCGCGG--GCCGgaCGC-----------AGGGUCGG- -5'
13436 5' -64 NC_003409.1 + 110076 0.68 0.411815
Target:  5'- uCC-UGCGCCUGGCCgaccagGCGcUCgCCGGUg -3'
miRNA:   3'- -GGuGCGCGGGCCGGa-----CGC-AG-GGUCGg -5'
13436 5' -64 NC_003409.1 + 118491 0.69 0.401223
Target:  5'- cCgGCGCGgcgcaccccaggaaCCCGGCgCgGCGcacCCCAGCCu -3'
miRNA:   3'- -GgUGCGC--------------GGGCCG-GaCGCa--GGGUCGG- -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.