miRNA display CGI


Results 1 - 16 of 16 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
21266 5' -55.7 NC_004778.3 + 32839 0.66 0.87621
Target:  5'- gACGCGGCUGGCCua--CguGGcCGAc -3'
miRNA:   3'- gUGUGUCGACCGGcuuaGguCCaGCU- -5'
21266 5' -55.7 NC_004778.3 + 112288 0.66 0.87621
Target:  5'- aAUGCGuGCUGGUCGAuUCUAcGUCGAa -3'
miRNA:   3'- gUGUGU-CGACCGGCUuAGGUcCAGCU- -5'
21266 5' -55.7 NC_004778.3 + 57379 0.66 0.861149
Target:  5'- -uCGCGGCcGGUCGAGUCCAcagcuccGUCGGc -3'
miRNA:   3'- guGUGUCGaCCGGCUUAGGUc------CAGCU- -5'
21266 5' -55.7 NC_004778.3 + 52673 0.67 0.845234
Target:  5'- aCACGCAGUUGGCCGg--CCGGcuggCGc -3'
miRNA:   3'- -GUGUGUCGACCGGCuuaGGUCca--GCu -5'
21266 5' -55.7 NC_004778.3 + 98449 0.67 0.836973
Target:  5'- uGgGCAGCccGGUCGucUCCAGGUCu- -3'
miRNA:   3'- gUgUGUCGa-CCGGCuuAGGUCCAGcu -5'
21266 5' -55.7 NC_004778.3 + 49051 0.68 0.80209
Target:  5'- uCGCACAGCgGGUCGc--CCGGGUUa- -3'
miRNA:   3'- -GUGUGUCGaCCGGCuuaGGUCCAGcu -5'
21266 5' -55.7 NC_004778.3 + 57905 0.68 0.792951
Target:  5'- gGCGCGGCgGGCguCGAccuuGUCCAuGGUCGu -3'
miRNA:   3'- gUGUGUCGaCCG--GCU----UAGGU-CCAGCu -5'
21266 5' -55.7 NC_004778.3 + 83246 0.69 0.725311
Target:  5'- gCGCGCaAGCUGGUCGAGUCgcuaCAGGcCa- -3'
miRNA:   3'- -GUGUG-UCGACCGGCUUAG----GUCCaGcu -5'
21266 5' -55.7 NC_004778.3 + 14200 0.69 0.715239
Target:  5'- gACACAGCUGGCgGGAcgCCAGcacuUUGAc -3'
miRNA:   3'- gUGUGUCGACCGgCUUa-GGUCc---AGCU- -5'
21266 5' -55.7 NC_004778.3 + 35973 0.7 0.684624
Target:  5'- gGCGCuuGUUGGUgCGGcgCCGGGUCGGg -3'
miRNA:   3'- gUGUGu-CGACCG-GCUuaGGUCCAGCU- -5'
21266 5' -55.7 NC_004778.3 + 127083 0.7 0.674316
Target:  5'- aGCGCAGCgUGGCCGAagugcucgacuuGUCCAGcaugCGGc -3'
miRNA:   3'- gUGUGUCG-ACCGGCU------------UAGGUCca--GCU- -5'
21266 5' -55.7 NC_004778.3 + 121195 0.71 0.601662
Target:  5'- gCACAUuauGGuCUGGCCGggUagCAGGUCGc -3'
miRNA:   3'- -GUGUG---UC-GACCGGCuuAg-GUCCAGCu -5'
21266 5' -55.7 NC_004778.3 + 32270 0.72 0.580992
Target:  5'- cCGCGCAcGCUGGCCGGcggcgCCGuGUCGGg -3'
miRNA:   3'- -GUGUGU-CGACCGGCUua---GGUcCAGCU- -5'
21266 5' -55.7 NC_004778.3 + 112215 0.72 0.550288
Target:  5'- gCGCAUAGC-GGCCGcgcGGUCCAGGU-GAu -3'
miRNA:   3'- -GUGUGUCGaCCGGC---UUAGGUCCAgCU- -5'
21266 5' -55.7 NC_004778.3 + 4064 0.74 0.461872
Target:  5'- -cCACuGCUacgcGGgCGAGUCCAGGUCGGc -3'
miRNA:   3'- guGUGuCGA----CCgGCUUAGGUCCAGCU- -5'
21266 5' -55.7 NC_004778.3 + 118534 1.09 0.002572
Target:  5'- gCACACAGCUGGCCGAAUCCAGGUCGAa -3'
miRNA:   3'- -GUGUGUCGACCGGCUUAGGUCCAGCU- -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.