miRNA display CGI


Results 1 - 20 of 23 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
22690 3' -53.7 NC_005091.1 + 16184 0.66 0.835278
Target:  5'- gCGCAucuucacggAGGUacuucGUCGCGCCCgccgucGCGCc -3'
miRNA:   3'- gGCGU---------UCCAau---UAGCGCGGGa-----CGUGc -5'
22690 3' -53.7 NC_005091.1 + 5078 0.66 0.835278
Target:  5'- gCCuCGGGGUUGGcUGC-CCCUGCGgGg -3'
miRNA:   3'- -GGcGUUCCAAUUaGCGcGGGACGUgC- -5'
22690 3' -53.7 NC_005091.1 + 33422 0.66 0.832594
Target:  5'- -aGCAGGGcguccucgcgaGCGCgCUGCGCGa -3'
miRNA:   3'- ggCGUUCCaauuag-----CGCGgGACGUGC- -5'
22690 3' -53.7 NC_005091.1 + 3520 0.66 0.825345
Target:  5'- uUCGCAAGGcgucUCGCuGUucccgauCCUGCACGc -3'
miRNA:   3'- -GGCGUUCCaauuAGCG-CG-------GGACGUGC- -5'
22690 3' -53.7 NC_005091.1 + 36176 0.66 0.817033
Target:  5'- aCGCgAAGGcg---CGCGCcgaaguCCUGCGCGa -3'
miRNA:   3'- gGCG-UUCCaauuaGCGCG------GGACGUGC- -5'
22690 3' -53.7 NC_005091.1 + 28981 0.66 0.817033
Target:  5'- aCgGCAGGGgcAGgcgucucCGCGCCgaaCUGCACu -3'
miRNA:   3'- -GgCGUUCCaaUUa------GCGCGG---GACGUGc -5'
22690 3' -53.7 NC_005091.1 + 28873 0.67 0.768186
Target:  5'- -aGCAuGGUUGAcccaGCCCUGCACc -3'
miRNA:   3'- ggCGUuCCAAUUagcgCGGGACGUGc -5'
22690 3' -53.7 NC_005091.1 + 40555 0.67 0.757949
Target:  5'- gCCGCcgagucGGUauccCGCGCCgaGCACGg -3'
miRNA:   3'- -GGCGuu----CCAauuaGCGCGGgaCGUGC- -5'
22690 3' -53.7 NC_005091.1 + 24678 0.68 0.694216
Target:  5'- gUCGaCAGGGcg---CGCGCCUUGCaACGa -3'
miRNA:   3'- -GGC-GUUCCaauuaGCGCGGGACG-UGC- -5'
22690 3' -53.7 NC_005091.1 + 54215 0.68 0.690952
Target:  5'- aCGCGAGGcaUUGAUgcCGCGCUaugugcaagcgcaaUUGCACGg -3'
miRNA:   3'- gGCGUUCC--AAUUA--GCGCGG--------------GACGUGC- -5'
22690 3' -53.7 NC_005091.1 + 49131 0.68 0.681129
Target:  5'- cCCGCAcacGGUgcgcagcagCGCGCCCgcaGCACc -3'
miRNA:   3'- -GGCGUu--CCAauua-----GCGCGGGa--CGUGc -5'
22690 3' -53.7 NC_005091.1 + 34407 0.69 0.628294
Target:  5'- gCCGCAGGGcUAcuggauucagGUCGCGCaccccggcgaCCUGUACc -3'
miRNA:   3'- -GGCGUUCCaAU----------UAGCGCG----------GGACGUGc -5'
22690 3' -53.7 NC_005091.1 + 23834 0.7 0.595238
Target:  5'- cCUGCG----UAAUCGCGCCgagCUGCACGa -3'
miRNA:   3'- -GGCGUuccaAUUAGCGCGG---GACGUGC- -5'
22690 3' -53.7 NC_005091.1 + 4998 0.7 0.573343
Target:  5'- gCGCGAagcauucGAUCGCGUCCUGCGCc -3'
miRNA:   3'- gGCGUUccaa---UUAGCGCGGGACGUGc -5'
22690 3' -53.7 NC_005091.1 + 51419 0.7 0.573343
Target:  5'- gCGCAAGGcguucCGCGCaCUGUACGg -3'
miRNA:   3'- gGCGUUCCaauuaGCGCGgGACGUGC- -5'
22690 3' -53.7 NC_005091.1 + 32967 0.71 0.50906
Target:  5'- uCCGCGAGagcggcGUUGAgUUGCGCCC-GUACGa -3'
miRNA:   3'- -GGCGUUC------CAAUU-AGCGCGGGaCGUGC- -5'
22690 3' -53.7 NC_005091.1 + 53057 0.72 0.498626
Target:  5'- gUGCGGGGUucgcUGAUCGCGgCgaGCAUGg -3'
miRNA:   3'- gGCGUUCCA----AUUAGCGCgGgaCGUGC- -5'
22690 3' -53.7 NC_005091.1 + 53253 0.73 0.428565
Target:  5'- aCCGgAAGGc---UCGCGCCC-GCGCGc -3'
miRNA:   3'- -GGCgUUCCaauuAGCGCGGGaCGUGC- -5'
22690 3' -53.7 NC_005091.1 + 24598 0.74 0.356078
Target:  5'- uUGCAAGGcg---CGCGCCCUGUcgACGg -3'
miRNA:   3'- gGCGUUCCaauuaGCGCGGGACG--UGC- -5'
22690 3' -53.7 NC_005091.1 + 14052 0.75 0.307643
Target:  5'- gCCGCGAGGUUGAacgaCGUGCCgauCUGcCACGa -3'
miRNA:   3'- -GGCGUUCCAAUUa---GCGCGG---GAC-GUGC- -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.