miRNA display CGI


Results 1 - 20 of 32 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
26721 3' -60.2 NC_005808.1 + 30916 0.69 0.224427
Target:  5'- --aGUCCGCCGCAGucugacaccuuggcaGugguguuUCGUCCGGCGUa -3'
miRNA:   3'- uugCGGGUGGCGUC---------------U-------AGCAGGCCGUA- -5'
26721 3' -60.2 NC_005808.1 + 34828 0.71 0.170242
Target:  5'- gGACGCCgGC-GCAGAUCGcgCCGGUg- -3'
miRNA:   3'- -UUGCGGgUGgCGUCUAGCa-GGCCGua -5'
26721 3' -60.2 NC_005808.1 + 5897 1.02 0.000589
Target:  5'- cAACGCCCACCGCAGAUCGUCCGGCAUc -3'
miRNA:   3'- -UUGCGGGUGGCGUCUAGCAGGCCGUA- -5'
26721 3' -60.2 NC_005808.1 + 25999 0.66 0.350864
Target:  5'- cGGCGCcaacaCCAUCGCGuGGucggccUCGUCCGGCGc -3'
miRNA:   3'- -UUGCG-----GGUGGCGU-CU------AGCAGGCCGUa -5'
26721 3' -60.2 NC_005808.1 + 33784 0.66 0.334329
Target:  5'- --gGCCCgACCcaGCAGAUCGguacugaCCGGCGc -3'
miRNA:   3'- uugCGGG-UGG--CGUCUAGCa------GGCCGUa -5'
26721 3' -60.2 NC_005808.1 + 41770 0.66 0.326278
Target:  5'- -cUGCCCACCugGCcGA-CGUUCGGCAa -3'
miRNA:   3'- uuGCGGGUGG--CGuCUaGCAGGCCGUa -5'
26721 3' -60.2 NC_005808.1 + 42391 0.66 0.367971
Target:  5'- uGCGCCaguuCGCCGU--GUCGcCCGGCAg -3'
miRNA:   3'- uUGCGG----GUGGCGucUAGCaGGCCGUa -5'
26721 3' -60.2 NC_005808.1 + 28168 0.66 0.367971
Target:  5'- -uCGCCCaacacgguGCCGCAGGcgCGcCUGGCGa -3'
miRNA:   3'- uuGCGGG--------UGGCGUCUa-GCaGGCCGUa -5'
26721 3' -60.2 NC_005808.1 + 35183 0.66 0.340874
Target:  5'- gGGCGCCCGCUGCucuauacccUGUCCGGUc- -3'
miRNA:   3'- -UUGCGGGUGGCGucua-----GCAGGCCGua -5'
26721 3' -60.2 NC_005808.1 + 24330 0.67 0.318372
Target:  5'- uGACgGCCgGCaaguucucggCGCAGGUCGUgaCCGGCAUc -3'
miRNA:   3'- -UUG-CGGgUG----------GCGUCUAGCA--GGCCGUA- -5'
26721 3' -60.2 NC_005808.1 + 11157 0.68 0.253693
Target:  5'- cGAUGaCCaCGCCGCAGAUCGU--GGCGUc -3'
miRNA:   3'- -UUGC-GG-GUGGCGUCUAGCAggCCGUA- -5'
26721 3' -60.2 NC_005808.1 + 12520 0.67 0.310611
Target:  5'- uGGCGCCCgggcGCCGCacaaaGGAUauuUCCGGCAc -3'
miRNA:   3'- -UUGCGGG----UGGCG-----UCUAgc-AGGCCGUa -5'
26721 3' -60.2 NC_005808.1 + 39045 0.66 0.367971
Target:  5'- --aGCCCGCUGCuGcgCuGUUCGGCGg -3'
miRNA:   3'- uugCGGGUGGCGuCuaG-CAGGCCGUa -5'
26721 3' -60.2 NC_005808.1 + 28000 0.69 0.216854
Target:  5'- cGACGCaCUGCUgaaaaGCGGAUCGgccgCCGGCAUc -3'
miRNA:   3'- -UUGCG-GGUGG-----CGUCUAGCa---GGCCGUA- -5'
26721 3' -60.2 NC_005808.1 + 39858 0.66 0.334329
Target:  5'- cACGCCCgagcagcgccggGCCGCGcucaagCGUCCGGCc- -3'
miRNA:   3'- uUGCGGG------------UGGCGUcua---GCAGGCCGua -5'
26721 3' -60.2 NC_005808.1 + 33874 0.66 0.326278
Target:  5'- cGCGCCCGCCggGCAcAUCuucguGUUCGGCAg -3'
miRNA:   3'- uUGCGGGUGG--CGUcUAG-----CAGGCCGUa -5'
26721 3' -60.2 NC_005808.1 + 621 0.66 0.326278
Target:  5'- --aGCagCGCCGUGGAcacggCGUCCGGCGUc -3'
miRNA:   3'- uugCGg-GUGGCGUCUa----GCAGGCCGUA- -5'
26721 3' -60.2 NC_005808.1 + 24578 0.67 0.295522
Target:  5'- -cCGgCCACgGuCGGGcCGUCCGGCGUg -3'
miRNA:   3'- uuGCgGGUGgC-GUCUaGCAGGCCGUA- -5'
26721 3' -60.2 NC_005808.1 + 400 0.69 0.234667
Target:  5'- gGGCGCCCACCaGCAgcacggcgguGAUCGU-CGGCc- -3'
miRNA:   3'- -UUGCGGGUGG-CGU----------CUAGCAgGCCGua -5'
26721 3' -60.2 NC_005808.1 + 13289 0.68 0.267069
Target:  5'- cAGCGCCgAUUGCAGcgCGccggggCCGGCGUu -3'
miRNA:   3'- -UUGCGGgUGGCGUCuaGCa-----GGCCGUA- -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.