miRNA display CGI


Results 1 - 20 of 42 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
22896 3' -58.5 NC_005137.2 + 31740 0.66 0.791975
Target:  5'- gCACCGUcacCGUuaaACUGUGCCCGUGg- -3'
miRNA:   3'- aGUGGCGcu-GCG---UGGUACGGGCACag -5'
22896 3' -58.5 NC_005137.2 + 96474 0.66 0.791975
Target:  5'- -gACCGCGaACGCaacACgGUGCgcgUCGUGUCc -3'
miRNA:   3'- agUGGCGC-UGCG---UGgUACG---GGCACAG- -5'
22896 3' -58.5 NC_005137.2 + 78231 0.66 0.791073
Target:  5'- gUACauUGACGCgcaugauagcaaaACCGauUGCCCGUGUCu -3'
miRNA:   3'- aGUGgcGCUGCG-------------UGGU--ACGGGCACAG- -5'
22896 3' -58.5 NC_005137.2 + 86100 0.66 0.773666
Target:  5'- aCGCCGCGACGagaaaaGCCgCGUGUUu -3'
miRNA:   3'- aGUGGCGCUGCgugguaCGG-GCACAG- -5'
22896 3' -58.5 NC_005137.2 + 96422 0.66 0.76432
Target:  5'- gCGCgGCGACGCGCCc-GCCgCGUugcGUUu -3'
miRNA:   3'- aGUGgCGCUGCGUGGuaCGG-GCA---CAG- -5'
22896 3' -58.5 NC_005137.2 + 95185 0.66 0.754859
Target:  5'- aCGCCGUGcacuACGCACgCAgauUGCaacgCGUGUCg -3'
miRNA:   3'- aGUGGCGC----UGCGUG-GU---ACGg---GCACAG- -5'
22896 3' -58.5 NC_005137.2 + 112020 0.67 0.745291
Target:  5'- gUACCGUGACGCGCU--GCgaCGUGcUCa -3'
miRNA:   3'- aGUGGCGCUGCGUGGuaCGg-GCAC-AG- -5'
22896 3' -58.5 NC_005137.2 + 110597 0.67 0.745291
Target:  5'- cCugUGCGACG-ACCAguuggUGUCCGUGg- -3'
miRNA:   3'- aGugGCGCUGCgUGGU-----ACGGGCACag -5'
22896 3' -58.5 NC_005137.2 + 54489 0.67 0.745291
Target:  5'- -aACUGcCGACGgaagugcaCGCCGUugaauagacGCCCGUGUCa -3'
miRNA:   3'- agUGGC-GCUGC--------GUGGUA---------CGGGCACAG- -5'
22896 3' -58.5 NC_005137.2 + 34965 0.67 0.744328
Target:  5'- gUCGCUaaguuggGCGGCGguggcuugaaaCACCAUGUCCGcGUCu -3'
miRNA:   3'- -AGUGG-------CGCUGC-----------GUGGUACGGGCaCAG- -5'
22896 3' -58.5 NC_005137.2 + 107921 0.67 0.744328
Target:  5'- cUUACCGCGgaacaACGCGCCGUGUaCGccaaguacaaauuUGUCa -3'
miRNA:   3'- -AGUGGCGC-----UGCGUGGUACGgGC-------------ACAG- -5'
22896 3' -58.5 NC_005137.2 + 35835 0.67 0.742401
Target:  5'- gUCACCGCG-UGCcuauuacaaacuuuACCGUGCCCucGUUg -3'
miRNA:   3'- -AGUGGCGCuGCG--------------UGGUACGGGcaCAG- -5'
22896 3' -58.5 NC_005137.2 + 93903 0.67 0.735625
Target:  5'- -aGgCGCGuAUGcCGCCAUGUuugCCGUGUCa -3'
miRNA:   3'- agUgGCGC-UGC-GUGGUACG---GGCACAG- -5'
22896 3' -58.5 NC_005137.2 + 18592 0.67 0.72587
Target:  5'- aCGCCGUacuugcacaauGGCGCGCCGUGCgCGa--- -3'
miRNA:   3'- aGUGGCG-----------CUGCGUGGUACGgGCacag -5'
22896 3' -58.5 NC_005137.2 + 104367 0.67 0.72587
Target:  5'- gCGCUGCGACGCGCac-GCuuGUacgagcGUCa -3'
miRNA:   3'- aGUGGCGCUGCGUGguaCGggCA------CAG- -5'
22896 3' -58.5 NC_005137.2 + 88508 0.67 0.706132
Target:  5'- gUCGCCGCGcagcaaGCGCCGUGUgCGUu-- -3'
miRNA:   3'- -AGUGGCGCug----CGUGGUACGgGCAcag -5'
22896 3' -58.5 NC_005137.2 + 95905 0.67 0.696166
Target:  5'- -gACCGCGuuUGCGCCAaacaGCCgCGUGUa -3'
miRNA:   3'- agUGGCGCu-GCGUGGUa---CGG-GCACAg -5'
22896 3' -58.5 NC_005137.2 + 122278 0.67 0.695166
Target:  5'- -aACCGCGuACGUaauagcuGCC--GCCCGUGUUg -3'
miRNA:   3'- agUGGCGC-UGCG-------UGGuaCGGGCACAG- -5'
22896 3' -58.5 NC_005137.2 + 63971 0.68 0.676084
Target:  5'- aCGCCGCGAUGgGCCAaUGUCgG-GUUa -3'
miRNA:   3'- aGUGGCGCUGCgUGGU-ACGGgCaCAG- -5'
22896 3' -58.5 NC_005137.2 + 123990 0.68 0.676084
Target:  5'- -gGCCGUGACGCGCgugcgccacguUGUGCCCGg--- -3'
miRNA:   3'- agUGGCGCUGCGUG-----------GUACGGGCacag -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.