miRNA display CGI


Results 1 - 17 of 17 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
2670 5' -61.9 NC_001491.2 + 63484 0.66 0.654172
Target:  5'- gGGGacgaCGCGGaCCCCUCCCAuaaACUCAa -3'
miRNA:   3'- -UCCga--GCGCUaGGGGAGGGUc--UGGGU- -5'
2670 5' -61.9 NC_001491.2 + 84699 0.66 0.654172
Target:  5'- -aGCUacCGgGaAUCCCCUCUCAGccaACCCAa -3'
miRNA:   3'- ucCGA--GCgC-UAGGGGAGGGUC---UGGGU- -5'
2670 5' -61.9 NC_001491.2 + 97302 0.66 0.644309
Target:  5'- aAGGCggugagggCGCGaAUCCCCa-CCAGcACCCc -3'
miRNA:   3'- -UCCGa-------GCGC-UAGGGGagGGUC-UGGGu -5'
2670 5' -61.9 NC_001491.2 + 78608 0.66 0.644309
Target:  5'- cGGCcCGCGuggGUCCCCaggUUCCGG-CCCGu -3'
miRNA:   3'- uCCGaGCGC---UAGGGG---AGGGUCuGGGU- -5'
2670 5' -61.9 NC_001491.2 + 145989 0.66 0.634437
Target:  5'- uGGaGCUCGUGGgagaCCaCCUCCCAG-CCg- -3'
miRNA:   3'- -UC-CGAGCGCUa---GG-GGAGGGUCuGGgu -5'
2670 5' -61.9 NC_001491.2 + 35370 0.66 0.624563
Target:  5'- gAGGCcgcguUCGCGcgCCUgUaCCCGGACUCu -3'
miRNA:   3'- -UCCG-----AGCGCuaGGGgA-GGGUCUGGGu -5'
2670 5' -61.9 NC_001491.2 + 46055 0.66 0.614694
Target:  5'- cGGCcaugCGCcuGUaCgCCUCCCGGACCCu -3'
miRNA:   3'- uCCGa---GCGc-UA-GgGGAGGGUCUGGGu -5'
2670 5' -61.9 NC_001491.2 + 32428 0.66 0.614694
Target:  5'- cGGCUCcagcuuCGGcgCCCgCUCCCAGccGCCCGg -3'
miRNA:   3'- uCCGAGc-----GCUa-GGG-GAGGGUC--UGGGU- -5'
2670 5' -61.9 NC_001491.2 + 35953 0.67 0.604838
Target:  5'- cGGC-C-CGAgCCCCggcguggCCCAGGCCCu -3'
miRNA:   3'- uCCGaGcGCUaGGGGa------GGGUCUGGGu -5'
2670 5' -61.9 NC_001491.2 + 8376 0.68 0.546316
Target:  5'- -aGCUCcgGCGA-CCCCggCCCAG-CCCAg -3'
miRNA:   3'- ucCGAG--CGCUaGGGGa-GGGUCuGGGU- -5'
2670 5' -61.9 NC_001491.2 + 8351 0.68 0.546316
Target:  5'- -aGCUCcgGCGA-CCCCggCCCAG-CCCAg -3'
miRNA:   3'- ucCGAG--CGCUaGGGGa-GGGUCuGGGU- -5'
2670 5' -61.9 NC_001491.2 + 101654 0.68 0.53672
Target:  5'- gGGGCUUGUGAUCacaCCUcugcCCUAGacGCCCGc -3'
miRNA:   3'- -UCCGAGCGCUAGg--GGA----GGGUC--UGGGU- -5'
2670 5' -61.9 NC_001491.2 + 33644 0.68 0.517709
Target:  5'- gGGGCgucCGCcGUCCCCggaCUGGACCCc -3'
miRNA:   3'- -UCCGa--GCGcUAGGGGag-GGUCUGGGu -5'
2670 5' -61.9 NC_001491.2 + 31934 0.71 0.350076
Target:  5'- cGGGCUCGCcgcgaugcugaagauGGUCCacuCCUCCguGGCCCc -3'
miRNA:   3'- -UCCGAGCG---------------CUAGG---GGAGGguCUGGGu -5'
2670 5' -61.9 NC_001491.2 + 4887 0.73 0.284528
Target:  5'- cGGCcggGCGAUCCCCUCCgGaggacGGCCCGg -3'
miRNA:   3'- uCCGag-CGCUAGGGGAGGgU-----CUGGGU- -5'
2670 5' -61.9 NC_001491.2 + 130291 0.73 0.253802
Target:  5'- gGGGCUCGCG-UCUacuuCCUCgUCGGGCCCAa -3'
miRNA:   3'- -UCCGAGCGCuAGG----GGAG-GGUCUGGGU- -5'
2670 5' -61.9 NC_001491.2 + 75036 1.07 0.001043
Target:  5'- gAGGCUCGCGAUCCCCUCCCAGACCCAc -3'
miRNA:   3'- -UCCGAGCGCUAGGGGAGGGUCUGGGU- -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.