miRNA display CGI


Results 1 - 20 of 28 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
26253 5' -64.3 NC_005345.2 + 3027 0.66 0.23967
Target:  5'- cGGGCggcgGCAGcaugCUCGCuuGCGGGGg -3'
miRNA:   3'- uUCCGa---CGUCcg--GAGCGggCGCUCCa -5'
26253 5' -64.3 NC_005345.2 + 33705 0.66 0.23967
Target:  5'- -cGGCUcgGGGCCgUCGCggGCGAGGUg -3'
miRNA:   3'- uuCCGAcgUCCGG-AGCGggCGCUCCA- -5'
26253 5' -64.3 NC_005345.2 + 15318 0.66 0.233686
Target:  5'- -cGGCUGUAGGUCggugCGUCgGcCGGGGc -3'
miRNA:   3'- uuCCGACGUCCGGa---GCGGgC-GCUCCa -5'
26253 5' -64.3 NC_005345.2 + 28105 0.66 0.231915
Target:  5'- uGAGGC-GCAGGUgcaugggggguccuCUCGgCgGCGAGGg -3'
miRNA:   3'- -UUCCGaCGUCCG--------------GAGCgGgCGCUCCa -5'
26253 5' -64.3 NC_005345.2 + 3442 0.66 0.227827
Target:  5'- -cGGCgaUGCGGGCCccgaGCUCGCGcGGg -3'
miRNA:   3'- uuCCG--ACGUCCGGag--CGGGCGCuCCa -5'
26253 5' -64.3 NC_005345.2 + 21374 0.66 0.227827
Target:  5'- -cGGcCUGCAGGCCg-GUgCGCG-GGUg -3'
miRNA:   3'- uuCC-GACGUCCGGagCGgGCGCuCCA- -5'
26253 5' -64.3 NC_005345.2 + 12361 0.66 0.227827
Target:  5'- -cGGCUGCacgGGGCCcgaCGCCuCGCagcgGAGGg -3'
miRNA:   3'- uuCCGACG---UCCGGa--GCGG-GCG----CUCCa -5'
26253 5' -64.3 NC_005345.2 + 14332 0.66 0.222094
Target:  5'- -cGGCgagggGCAGGCgCacggCGUgCGCGAGGa -3'
miRNA:   3'- uuCCGa----CGUCCG-Ga---GCGgGCGCUCCa -5'
26253 5' -64.3 NC_005345.2 + 19133 0.66 0.222094
Target:  5'- -uGGCUGCGGGCCgcauggCGCgccacccggaccCCGgcCGAGGa -3'
miRNA:   3'- uuCCGACGUCCGGa-----GCG------------GGC--GCUCCa -5'
26253 5' -64.3 NC_005345.2 + 23966 0.66 0.216483
Target:  5'- cGGGCUGCu-GUCgCGgCCGCGAGGc -3'
miRNA:   3'- uUCCGACGucCGGaGCgGGCGCUCCa -5'
26253 5' -64.3 NC_005345.2 + 25909 0.66 0.216483
Target:  5'- -cGGcCUGCgAGGCCUCGCgCGCGu--- -3'
miRNA:   3'- uuCC-GACG-UCCGGAGCGgGCGCucca -5'
26253 5' -64.3 NC_005345.2 + 4263 0.67 0.210995
Target:  5'- cGAGGCcacguUGCuGcGCCUCGCgacgcggccgCCGCGGGGc -3'
miRNA:   3'- -UUCCG-----ACGuC-CGGAGCG----------GGCGCUCCa -5'
26253 5' -64.3 NC_005345.2 + 28865 0.67 0.210995
Target:  5'- gGGGGCUcuucgGCGGGCacuacgggCGCCacugCGCGAGGUc -3'
miRNA:   3'- -UUCCGA-----CGUCCGga------GCGG----GCGCUCCA- -5'
26253 5' -64.3 NC_005345.2 + 1207 0.67 0.205627
Target:  5'- -cGGCccGCGGGCCaCGCCgCGCGguacGGGUc -3'
miRNA:   3'- uuCCGa-CGUCCGGaGCGG-GCGC----UCCA- -5'
26253 5' -64.3 NC_005345.2 + 26616 0.67 0.205627
Target:  5'- -cGGC-GCAGGCCggugUGCCCGaggacuacacCGAGGc -3'
miRNA:   3'- uuCCGaCGUCCGGa---GCGGGC----------GCUCCa -5'
26253 5' -64.3 NC_005345.2 + 47112 0.68 0.171276
Target:  5'- cGGGCcGCgccGGGCC-CGCUCGaCGAGGa -3'
miRNA:   3'- uUCCGaCG---UCCGGaGCGGGC-GCUCCa -5'
26253 5' -64.3 NC_005345.2 + 17498 0.68 0.16681
Target:  5'- gAAGGaaCUGCGGGCCgccggUCGCCggccggGCGAGGa -3'
miRNA:   3'- -UUCC--GACGUCCGG-----AGCGGg-----CGCUCCa -5'
26253 5' -64.3 NC_005345.2 + 26898 0.68 0.162448
Target:  5'- gAGGcGCUGCAGGCggCGCUCGcCGAccGGUa -3'
miRNA:   3'- -UUC-CGACGUCCGgaGCGGGC-GCU--CCA- -5'
26253 5' -64.3 NC_005345.2 + 18631 0.68 0.15403
Target:  5'- cAGaGCgGCAGcacCCUCGCCCGCG-GGUc -3'
miRNA:   3'- uUC-CGaCGUCc--GGAGCGGGCGCuCCA- -5'
26253 5' -64.3 NC_005345.2 + 37585 0.69 0.146011
Target:  5'- cGGGCUGCAGGCgggcgaccggCUCGCgUUGCGAGu- -3'
miRNA:   3'- uUCCGACGUCCG----------GAGCG-GGCGCUCca -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.