miRNA display CGI


Results 1 - 18 of 18 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
11591 3' -62.2 NC_003085.1 + 17836 0.66 0.351475
Target:  5'- -----aGGCCcCUGGGGCAgugcuGGuGCCCg -3'
miRNA:   3'- gcauuaCCGGuGGCCCCGU-----CC-CGGGa -5'
11591 3' -62.2 NC_003085.1 + 3270 0.66 0.351475
Target:  5'- -----cGG-CAUCGGGcCAGGGCCCg -3'
miRNA:   3'- gcauuaCCgGUGGCCCcGUCCCGGGa -5'
11591 3' -62.2 NC_003085.1 + 35724 0.66 0.351475
Target:  5'- -----cGGCCACggCGaGGGCAGGGUggCCg -3'
miRNA:   3'- gcauuaCCGGUG--GC-CCCGUCCCG--GGa -5'
11591 3' -62.2 NC_003085.1 + 48277 0.66 0.350662
Target:  5'- gGUcAAUGGUCGCCccGGCAGcgucguaGGCCCUa -3'
miRNA:   3'- gCA-UUACCGGUGGccCCGUC-------CCGGGA- -5'
11591 3' -62.2 NC_003085.1 + 41169 0.66 0.335477
Target:  5'- -----cGGCUACCuGGGCaaGGGGCuCCa -3'
miRNA:   3'- gcauuaCCGGUGGcCCCG--UCCCG-GGa -5'
11591 3' -62.2 NC_003085.1 + 8484 0.67 0.305099
Target:  5'- -----aGGCCGCCGaGGCGcuGGCCCg -3'
miRNA:   3'- gcauuaCCGGUGGCcCCGUc-CCGGGa -5'
11591 3' -62.2 NC_003085.1 + 11975 0.67 0.300729
Target:  5'- gCGUGAgcggauugguccucuUGGCCugCGGcaGCAGcGGCCUg -3'
miRNA:   3'- -GCAUU---------------ACCGGugGCCc-CGUC-CCGGGa -5'
11591 3' -62.2 NC_003085.1 + 33692 0.67 0.297842
Target:  5'- uGUGGUGGCCcagacuucgaagGCCGuuGGCGuGGGCaCCUg -3'
miRNA:   3'- gCAUUACCGG------------UGGCc-CCGU-CCCG-GGA- -5'
11591 3' -62.2 NC_003085.1 + 30325 0.67 0.29072
Target:  5'- -----gGGCgGCgGGGGCuGGGCgCCg -3'
miRNA:   3'- gcauuaCCGgUGgCCCCGuCCCG-GGa -5'
11591 3' -62.2 NC_003085.1 + 25323 0.67 0.283732
Target:  5'- cCGUGGUGGCCACCGacaaGGUGGauGGCgCg -3'
miRNA:   3'- -GCAUUACCGGUGGCc---CCGUC--CCGgGa -5'
11591 3' -62.2 NC_003085.1 + 14602 0.67 0.276877
Target:  5'- -----aGGCCACCGGGGaguuGGuGUCCc -3'
miRNA:   3'- gcauuaCCGGUGGCCCCgu--CC-CGGGa -5'
11591 3' -62.2 NC_003085.1 + 42003 0.68 0.257106
Target:  5'- aGUGG-GGCCauGCCGuGGGCAcGGGCUa- -3'
miRNA:   3'- gCAUUaCCGG--UGGC-CCCGU-CCCGGga -5'
11591 3' -62.2 NC_003085.1 + 964 0.68 0.250777
Target:  5'- -----aGGCCgcuGCCGGGGCAGGacacGCCg- -3'
miRNA:   3'- gcauuaCCGG---UGGCCCCGUCC----CGGga -5'
11591 3' -62.2 NC_003085.1 + 12777 0.69 0.204684
Target:  5'- gGUGAUGccccuGCCGCCGuugucGGGCAGGugcuccacGCCCUg -3'
miRNA:   3'- gCAUUAC-----CGGUGGC-----CCCGUCC--------CGGGA- -5'
11591 3' -62.2 NC_003085.1 + 22914 0.7 0.179749
Target:  5'- -----aGGCUGCCGGGGCGaaGCCCUc -3'
miRNA:   3'- gcauuaCCGGUGGCCCCGUccCGGGA- -5'
11591 3' -62.2 NC_003085.1 + 19024 0.73 0.110998
Target:  5'- -----cGcGCCACCGucGGCGGGGCCCUg -3'
miRNA:   3'- gcauuaC-CGGUGGCc-CCGUCCCGGGA- -5'
11591 3' -62.2 NC_003085.1 + 1310 0.74 0.086674
Target:  5'- gGUGAUGuacGCCACCaGGGCAGGGUuguCCUu -3'
miRNA:   3'- gCAUUAC---CGGUGGcCCCGUCCCG---GGA- -5'
11591 3' -62.2 NC_003085.1 + 34235 1.06 0.000277
Target:  5'- gCGUAAUGGCCACCGGGGCAGGGCCCUc -3'
miRNA:   3'- -GCAUUACCGGUGGCCCCGUCCCGGGA- -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.