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 + 22749 0.66 0.431219
Target:  5'- aGGUcCGCUGAGCGGgCGCGGaUGCuGAGc -3'
miRNA:   3'- gCUA-GUGGCUUGCCgGCGUC-GCG-CUU- -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 + 20317 0.66 0.431219
Target:  5'- -cGUUGCCGAGCagGGCCGUGGCgGUGGu -3'
miRNA:   3'- gcUAGUGGCUUG--CCGGCGUCG-CGCUu -5'
11947 3' -58.3 NC_003278.1 + 30040 0.66 0.431219
Target:  5'- -aAUCACCcgcgaGAGCcaGGCCGCAGC-CGAc -3'
miRNA:   3'- gcUAGUGG-----CUUG--CCGGCGUCGcGCUu -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 + 5160 0.66 0.421534
Target:  5'- cCGGUCACCGgu-GGCgGCAGUGUc-- -3'
miRNA:   3'- -GCUAGUGGCuugCCGgCGUCGCGcuu -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 + 30896 0.66 0.393281
Target:  5'- uCGAccUCACCGAgcugcGCGGCCucgaccCAGCGCu-- -3'
miRNA:   3'- -GCU--AGUGGCU-----UGCCGGc-----GUCGCGcuu -5'
11947 3' -58.3 NC_003278.1 + 22077 0.66 0.393281
Target:  5'- ----uGCCGGAgcUGGCCgGCAGCGCGu- -3'
miRNA:   3'- gcuagUGGCUU--GCCGG-CGUCGCGCuu -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 + 2352 0.67 0.366287
Target:  5'- gGAUCACCGAAggugaaGGCCucgGCacggccacccuGGCGCGGGa -3'
miRNA:   3'- gCUAGUGGCUUg-----CCGG---CG-----------UCGCGCUU- -5'
11947 3' -58.3 NC_003278.1 + 22229 0.67 0.357577
Target:  5'- uCGAUCACCcacaGGCCGUAGaUGCGu- -3'
miRNA:   3'- -GCUAGUGGcuugCCGGCGUC-GCGCuu -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 + 32341 0.68 0.332328
Target:  5'- uCGAuaUCGCCGGgcaGCGGCaUGCGGC-CGAGg -3'
miRNA:   3'- -GCU--AGUGGCU---UGCCG-GCGUCGcGCUU- -5'
11947 3' -58.3 NC_003278.1 + 28778 0.68 0.324208
Target:  5'- gGAuguUCAUCGAugacGCGGCCG-AGCGCGu- -3'
miRNA:   3'- gCU---AGUGGCU----UGCCGGCgUCGCGCuu -5'
11947 3' -58.3 NC_003278.1 + 33204 0.68 0.324208
Target:  5'- gCGGUucCGCCGGcuGCGGCCGaggccaucgcCGGCGUGAu -3'
miRNA:   3'- -GCUA--GUGGCU--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 + 14282 0.68 0.308413
Target:  5'- --cUCGCCGGGCGcGCCGcCGGCGUc-- -3'
miRNA:   3'- gcuAGUGGCUUGC-CGGC-GUCGCGcuu -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 + 13736 0.69 0.278604
Target:  5'- uCGAUCGCUGGGacagcaccUGGCCGgAGCGUGu- -3'
miRNA:   3'- -GCUAGUGGCUU--------GCCGGCgUCGCGCuu -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.