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
11947 3' -58.3 NC_003278.1 + 1179 0.71 0.214162
Target:  5'- aGGUUuCCGGAUagGGCCGCucguGCGCGAu -3'
miRNA:   3'- gCUAGuGGCUUG--CCGGCGu---CGCGCUu -5'
11947 3' -58.3 NC_003278.1 + 2352 0.67 0.366287
Target:  5'- gGAUCACCGAAggugaaGGCCucgGCacggccacccuGGCGCGGGa -3'
miRNA:   3'- gCUAGUGGCUUg-----CCGG---CG-----------UCGCGCUU- -5'
11947 3' -58.3 NC_003278.1 + 3006 1.06 0.00049
Target:  5'- gCGAUCACCGAACGGCCGCAGCGCGAAc -3'
miRNA:   3'- -GCUAGUGGCUUGCCGGCGUCGCGCUU- -5'
11947 3' -58.3 NC_003278.1 + 4426 0.72 0.17174
Target:  5'- gCGAcCA-CGGACGGCCGCaacaucgAGCGCGAc -3'
miRNA:   3'- -GCUaGUgGCUUGCCGGCG-------UCGCGCUu -5'
11947 3' -58.3 NC_003278.1 + 5001 0.7 0.232029
Target:  5'- gCGAUCGCCGAGCacaGCCGCGaccuGgGUGAGc -3'
miRNA:   3'- -GCUAGUGGCUUGc--CGGCGU----CgCGCUU- -5'
11947 3' -58.3 NC_003278.1 + 5160 0.66 0.421534
Target:  5'- cCGGUCACCGgu-GGCgGCAGUGUc-- -3'
miRNA:   3'- -GCUAGUGGCuugCCGgCGUCGCGcuu -5'
11947 3' -58.3 NC_003278.1 + 7032 0.66 0.431219
Target:  5'- aGAUCGgccCCGAGcCGG-CGgGGCGCGGGg -3'
miRNA:   3'- gCUAGU---GGCUU-GCCgGCgUCGCGCUU- -5'
11947 3' -58.3 NC_003278.1 + 8618 0.69 0.257786
Target:  5'- gGGUCAUgCGGAUGGCCucaGCAGgGCGGc -3'
miRNA:   3'- gCUAGUG-GCUUGCCGG---CGUCgCGCUu -5'
11947 3' -58.3 NC_003278.1 + 11900 0.69 0.263895
Target:  5'- aGGUCGCCGGucaacacACGGaCgCGCuGCGCGGc -3'
miRNA:   3'- gCUAGUGGCU-------UGCC-G-GCGuCGCGCUu -5'
11947 3' -58.3 NC_003278.1 + 13736 0.69 0.278604
Target:  5'- uCGAUCGCUGGGacagcaccUGGCCGgAGCGUGu- -3'
miRNA:   3'- -GCUAGUGGCUU--------GCCGGCgUCGCGCuu -5'
11947 3' -58.3 NC_003278.1 + 14143 0.66 0.393281
Target:  5'- --cUCACCGAcauCGGCgCgGCAGCGCuGAu -3'
miRNA:   3'- gcuAGUGGCUu--GCCG-G-CGUCGCG-CUu -5'
11947 3' -58.3 NC_003278.1 + 14282 0.68 0.308413
Target:  5'- --cUCGCCGGGCGcGCCGcCGGCGUc-- -3'
miRNA:   3'- gcuAGUGGCUUGC-CGGC-GUCGCGcuu -5'
11947 3' -58.3 NC_003278.1 + 16797 0.66 0.421534
Target:  5'- aGAaCACCGGcCGGCCGCAccggacugGCuCGAAg -3'
miRNA:   3'- gCUaGUGGCUuGCCGGCGU--------CGcGCUU- -5'
11947 3' -58.3 NC_003278.1 + 19059 0.67 0.375142
Target:  5'- gCGAUCACC---UGGCCGCAG-GCa-- -3'
miRNA:   3'- -GCUAGUGGcuuGCCGGCGUCgCGcuu -5'
11947 3' -58.3 NC_003278.1 + 19753 0.71 0.202917
Target:  5'- cCGG-CACCGGcAUGGCgGCAcGCGCGAc -3'
miRNA:   3'- -GCUaGUGGCU-UGCCGgCGU-CGCGCUu -5'
11947 3' -58.3 NC_003278.1 + 20317 0.66 0.431219
Target:  5'- -cGUUGCCGAGCagGGCCGUGGCgGUGGu -3'
miRNA:   3'- gcUAGUGGCUUG--CCGGCGUCG-CGCUu -5'
11947 3' -58.3 NC_003278.1 + 20436 0.67 0.349013
Target:  5'- aGAcCGCCGguAugGGCaacguacagCGCGGCGCGAu -3'
miRNA:   3'- gCUaGUGGC--UugCCG---------GCGUCGCGCUu -5'
11947 3' -58.3 NC_003278.1 + 21081 0.69 0.285835
Target:  5'- gGAcCACCGGguugGCGGCCaggccccaCAGCGCGAu -3'
miRNA:   3'- gCUaGUGGCU----UGCCGGc-------GUCGCGCUu -5'
11947 3' -58.3 NC_003278.1 + 22052 0.68 0.316236
Target:  5'- uGggCACCGAuGCGGCUGCugcuGGCGUGu- -3'
miRNA:   3'- gCuaGUGGCU-UGCCGGCG----UCGCGCuu -5'
11947 3' -58.3 NC_003278.1 + 22077 0.66 0.393281
Target:  5'- ----uGCCGGAgcUGGCCgGCAGCGCGu- -3'
miRNA:   3'- gcuagUGGCUU--GCCGG-CGUCGCGCuu -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.