miRNA display CGI


Results 1 - 20 of 22 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
1064 3' -63.9 NC_000929.1 + 27519 0.73 0.067637
Target:  5'- cACCACCUGCCAGaaaCGCuCCCGGCAa -3'
miRNA:   3'- -UGGUGGGCGGUUgccGUGcGGGCCGU- -5'
1064 3' -63.9 NC_000929.1 + 30065 0.71 0.088796
Target:  5'- -aCAgCCGCCAGCGGCcCGCUgacugucaccacauCGGCAg -3'
miRNA:   3'- ugGUgGGCGGUUGCCGuGCGG--------------GCCGU- -5'
1064 3' -63.9 NC_000929.1 + 25530 0.7 0.114882
Target:  5'- cCCACCCGgCGuaccgguaACGGCACGgCCuGCAc -3'
miRNA:   3'- uGGUGGGCgGU--------UGCCGUGCgGGcCGU- -5'
1064 3' -63.9 NC_000929.1 + 14780 0.69 0.121028
Target:  5'- cGCCGCCuUGCCAuucaggcgcuggaAUGGCGCaucGCuCCGGCAc -3'
miRNA:   3'- -UGGUGG-GCGGU-------------UGCCGUG---CG-GGCCGU- -5'
1064 3' -63.9 NC_000929.1 + 19236 0.69 0.12136
Target:  5'- uCCACCCGCaguaauacguAUGGCugGCUgGGUAa -3'
miRNA:   3'- uGGUGGGCGgu--------UGCCGugCGGgCCGU- -5'
1064 3' -63.9 NC_000929.1 + 27576 0.69 0.131717
Target:  5'- aGCCGgaaCUGgCAACGGCugGCCC-GCAg -3'
miRNA:   3'- -UGGUg--GGCgGUUGCCGugCGGGcCGU- -5'
1064 3' -63.9 NC_000929.1 + 16093 0.68 0.14561
Target:  5'- cGCCuCCCGCCAAaggaGGCugucgcguauuuccGCGCCaaaGGCu -3'
miRNA:   3'- -UGGuGGGCGGUUg---CCG--------------UGCGGg--CCGu -5'
1064 3' -63.9 NC_000929.1 + 17198 0.68 0.150801
Target:  5'- gGCaACCCG-UGACGGCACGgCCCGGa- -3'
miRNA:   3'- -UGgUGGGCgGUUGCCGUGC-GGGCCgu -5'
1064 3' -63.9 NC_000929.1 + 26886 0.67 0.176997
Target:  5'- gGCCuCCuCGCUGAUgggGGCGCuGUCCGGCGu -3'
miRNA:   3'- -UGGuGG-GCGGUUG---CCGUG-CGGGCCGU- -5'
1064 3' -63.9 NC_000929.1 + 18360 0.66 0.218162
Target:  5'- uCCACCCacGCUggacGGCGGCG-GCCCaGCAg -3'
miRNA:   3'- uGGUGGG--CGG----UUGCCGUgCGGGcCGU- -5'
1064 3' -63.9 NC_000929.1 + 17717 0.73 0.065754
Target:  5'- -aCACCCGau-AUGGCAcccCGCCCGGCAg -3'
miRNA:   3'- ugGUGGGCgguUGCCGU---GCGGGCCGU- -5'
1064 3' -63.9 NC_000929.1 + 22666 0.66 0.235598
Target:  5'- gACgCGCCgGgUCGAUGGaaaGCGCCUGGCu -3'
miRNA:   3'- -UG-GUGGgC-GGUUGCCg--UGCGGGCCGu -5'
1064 3' -63.9 NC_000929.1 + 25960 0.66 0.22966
Target:  5'- --aGgCUGCCAACGGCACcgccgagccauGCaCCGGCu -3'
miRNA:   3'- uggUgGGCGGUUGCCGUG-----------CG-GGCCGu -5'
1064 3' -63.9 NC_000929.1 + 22293 0.66 0.223848
Target:  5'- uUCACCCGCguaauaguucCAGC-GCACGuCCaCGGCAg -3'
miRNA:   3'- uGGUGGGCG----------GUUGcCGUGC-GG-GCCGU- -5'
1064 3' -63.9 NC_000929.1 + 30102 0.66 0.206623
Target:  5'- gUCGCCUGUUuGCGGCgcACGCCCcagaaccGGCAg -3'
miRNA:   3'- uGGUGGGCGGuUGCCG--UGCGGG-------CCGU- -5'
1064 3' -63.9 NC_000929.1 + 11240 0.68 0.167843
Target:  5'- cUCAUCUGCCAgccguGCGGCACGauuugCGGCAc -3'
miRNA:   3'- uGGUGGGCGGU-----UGCCGUGCgg---GCCGU- -5'
1064 3' -63.9 NC_000929.1 + 19831 0.69 0.135346
Target:  5'- aGCCAUCUGCCAGaaGC-CGUaaCCGGCAg -3'
miRNA:   3'- -UGGUGGGCGGUUgcCGuGCG--GGCCGU- -5'
1064 3' -63.9 NC_000929.1 + 30833 0.69 0.133883
Target:  5'- -aCACCUGCCAccgcacggauaauACGGgAgggggcaagugcgcCGCCCGGCAu -3'
miRNA:   3'- ugGUGGGCGGU-------------UGCCgU--------------GCGGGCCGU- -5'
1064 3' -63.9 NC_000929.1 + 27549 0.69 0.124725
Target:  5'- cACUACCCGCCAGuuGCA-GCCCGcGUu -3'
miRNA:   3'- -UGGUGGGCGGUUgcCGUgCGGGC-CGu -5'
1064 3' -63.9 NC_000929.1 + 29565 0.7 0.108727
Target:  5'- aACCAUCCGgCAGCGugucagaauccaGCGCGCgCCGGUc -3'
miRNA:   3'- -UGGUGGGCgGUUGC------------CGUGCG-GGCCGu -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.