miRNA display CGI


Results 1 - 20 of 22 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
22700 3' -51.3 NC_005091.1 + 4301 0.66 0.901499
Target:  5'- aCGGCAcggUGAcgGGCGC----GCCGCCGGGc -3'
miRNA:   3'- -GUCGU---AUU--UCGCGacuaUGGCGGUCU- -5'
22700 3' -51.3 NC_005091.1 + 11398 0.66 0.901499
Target:  5'- gCGGCAgccgcucaacAAGGCGUUGAaGCCGCgaaGGAg -3'
miRNA:   3'- -GUCGUa---------UUUCGCGACUaUGGCGg--UCU- -5'
22700 3' -51.3 NC_005091.1 + 56489 0.66 0.894255
Target:  5'- gAGCc--GAGCGUUGA-GCCuuGCCAGAc -3'
miRNA:   3'- gUCGuauUUCGCGACUaUGG--CGGUCU- -5'
22700 3' -51.3 NC_005091.1 + 28364 0.66 0.893514
Target:  5'- gCAGCA--AGGCGaaGGUcacgcaaGCCGCCAGc -3'
miRNA:   3'- -GUCGUauUUCGCgaCUA-------UGGCGGUCu -5'
22700 3' -51.3 NC_005091.1 + 45092 0.66 0.886724
Target:  5'- -cGCAUGGuucgauGCGCUG---UCGCCGGAa -3'
miRNA:   3'- guCGUAUUu-----CGCGACuauGGCGGUCU- -5'
22700 3' -51.3 NC_005091.1 + 34564 0.67 0.862472
Target:  5'- cCGGCG--AAGUGCUGGcgACUGCCGa- -3'
miRNA:   3'- -GUCGUauUUCGCGACUa-UGGCGGUcu -5'
22700 3' -51.3 NC_005091.1 + 31535 0.67 0.861623
Target:  5'- uGGCGUGAuucaguccggcccGGCGCUGucgauGUACUGgCAGGg -3'
miRNA:   3'- gUCGUAUU-------------UCGCGAC-----UAUGGCgGUCU- -5'
22700 3' -51.3 NC_005091.1 + 57944 0.67 0.859915
Target:  5'- aCGGCGgcuugucgccugcGCGCUGAUcgACCGCCGa- -3'
miRNA:   3'- -GUCGUauuu---------CGCGACUA--UGGCGGUcu -5'
22700 3' -51.3 NC_005091.1 + 550 0.67 0.859915
Target:  5'- aCGGCGgcuugucgccugcGCGCUGAUcgACCGCCGa- -3'
miRNA:   3'- -GUCGUauuu---------CGCGACUA--UGGCGGUcu -5'
22700 3' -51.3 NC_005091.1 + 2868 0.67 0.844995
Target:  5'- aCGGCAgcccGAGCGCUucuuuuacuucGAUgaGCCGCCAc- -3'
miRNA:   3'- -GUCGUau--UUCGCGA-----------CUA--UGGCGGUcu -5'
22700 3' -51.3 NC_005091.1 + 5696 0.67 0.835889
Target:  5'- -----cGAGGCGUUGAUGCuCGUCGGGa -3'
miRNA:   3'- gucguaUUUCGCGACUAUG-GCGGUCU- -5'
22700 3' -51.3 NC_005091.1 + 34027 0.67 0.835889
Target:  5'- uCGGCAUucGGCGa----ACCGCCGGAc -3'
miRNA:   3'- -GUCGUAuuUCGCgacuaUGGCGGUCU- -5'
22700 3' -51.3 NC_005091.1 + 20279 0.68 0.807226
Target:  5'- aAGCAgu-GGCGCgGAacGCCGCCAa- -3'
miRNA:   3'- gUCGUauuUCGCGaCUa-UGGCGGUcu -5'
22700 3' -51.3 NC_005091.1 + 1674 0.68 0.787107
Target:  5'- -uGCGUAGGcGCGCUGAUcgaCGCCAu- -3'
miRNA:   3'- guCGUAUUU-CGCGACUAug-GCGGUcu -5'
22700 3' -51.3 NC_005091.1 + 36503 0.69 0.71187
Target:  5'- -cGCAUGGAagcgccGUGCUGcgGCgGCCGGAu -3'
miRNA:   3'- guCGUAUUU------CGCGACuaUGgCGGUCU- -5'
22700 3' -51.3 NC_005091.1 + 12254 0.7 0.70068
Target:  5'- -cGaCAUGAAgGCGCUGAUcCCGCCGc- -3'
miRNA:   3'- guC-GUAUUU-CGCGACUAuGGCGGUcu -5'
22700 3' -51.3 NC_005091.1 + 19242 0.7 0.666728
Target:  5'- gCGGCGgggguaAAAGCGgaGAUACCGUCAu- -3'
miRNA:   3'- -GUCGUa-----UUUCGCgaCUAUGGCGGUcu -5'
22700 3' -51.3 NC_005091.1 + 33726 0.72 0.58681
Target:  5'- gCGGCugGUGAAGUcCcGAUGCCGCCGGGc -3'
miRNA:   3'- -GUCG--UAUUUCGcGaCUAUGGCGGUCU- -5'
22700 3' -51.3 NC_005091.1 + 22333 0.74 0.445636
Target:  5'- aCGGCAUuccGAAGCGCggaGAUACCG-CAGGu -3'
miRNA:   3'- -GUCGUA---UUUCGCGa--CUAUGGCgGUCU- -5'
22700 3' -51.3 NC_005091.1 + 26410 0.75 0.387079
Target:  5'- gUAGCGgccGGGCGC-GAgcagGCCGCCAGAg -3'
miRNA:   3'- -GUCGUau-UUCGCGaCUa---UGGCGGUCU- -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.