miRNA display CGI


Results 1 - 20 of 34 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
29288 5' -55.6 NC_006150.1 + 141250 0.66 0.960889
Target:  5'- uGCUCUCgGCCcucauucagaacAAAGUGCUuauGGAGuauuGCg -3'
miRNA:   3'- -UGAGAGgUGG------------UUUCGCGGu--CCUCu---CG- -5'
29288 5' -55.6 NC_006150.1 + 149168 0.66 0.958764
Target:  5'- aGC-CUCCGCCAGAGCcucagcagccggccGCUaacagacggacucgAGGAGGGg -3'
miRNA:   3'- -UGaGAGGUGGUUUCG--------------CGG--------------UCCUCUCg -5'
29288 5' -55.6 NC_006150.1 + 160020 0.66 0.957304
Target:  5'- cUUCUCCACCAAAGCagGCCAaGuAG-GUa -3'
miRNA:   3'- uGAGAGGUGGUUUCG--CGGUcC-UCuCG- -5'
29288 5' -55.6 NC_006150.1 + 85948 0.66 0.953501
Target:  5'- uACUCUUUggagACCuacGUGCCugAGGAGGGCc -3'
miRNA:   3'- -UGAGAGG----UGGuuuCGCGG--UCCUCUCG- -5'
29288 5' -55.6 NC_006150.1 + 221164 0.66 0.953501
Target:  5'- aGCUUUCCuccCCAGGGCGCUgaaugcGGGucuGGCa -3'
miRNA:   3'- -UGAGAGGu--GGUUUCGCGG------UCCuc-UCG- -5'
29288 5' -55.6 NC_006150.1 + 88178 0.66 0.952317
Target:  5'- gGCUCcgcccccCCACCGAGGCuGCgaggccccggugggCGGGGGGGUg -3'
miRNA:   3'- -UGAGa------GGUGGUUUCG-CG--------------GUCCUCUCG- -5'
29288 5' -55.6 NC_006150.1 + 119820 0.66 0.946953
Target:  5'- cACUCUCCucucgcaggugcgggGCCGcAGCGC--GGuAGAGCg -3'
miRNA:   3'- -UGAGAGG---------------UGGUuUCGCGguCC-UCUCG- -5'
29288 5' -55.6 NC_006150.1 + 75966 0.66 0.945226
Target:  5'- -gUCUCCGCCGgaGAGCGaugugcucaCGGuGGAGCu -3'
miRNA:   3'- ugAGAGGUGGU--UUCGCg--------GUCcUCUCG- -5'
29288 5' -55.6 NC_006150.1 + 126664 0.66 0.945226
Target:  5'- cCUCUCgagugUGCCuagauGGCGUCGGGAGGGa -3'
miRNA:   3'- uGAGAG-----GUGGuu---UCGCGGUCCUCUCg -5'
29288 5' -55.6 NC_006150.1 + 4081 0.66 0.945226
Target:  5'- -gUCU-CGCCGAgcauAGCGUCAGGcucGAGCg -3'
miRNA:   3'- ugAGAgGUGGUU----UCGCGGUCCu--CUCG- -5'
29288 5' -55.6 NC_006150.1 + 117882 0.66 0.945226
Target:  5'- uGCUCUCCugUugAAAGCGgCAuucGGuGAGUc -3'
miRNA:   3'- -UGAGAGGugG--UUUCGCgGU---CCuCUCG- -5'
29288 5' -55.6 NC_006150.1 + 138057 0.67 0.93604
Target:  5'- cCUCUCCACUc-AGCGCCcu--GAGCc -3'
miRNA:   3'- uGAGAGGUGGuuUCGCGGuccuCUCG- -5'
29288 5' -55.6 NC_006150.1 + 47010 0.67 0.933105
Target:  5'- cCUCUgCCcCCAAuauuuacauAGCGCCAucuuucuacugcugcGGAGAGUg -3'
miRNA:   3'- uGAGA-GGuGGUU---------UCGCGGU---------------CCUCUCG- -5'
29288 5' -55.6 NC_006150.1 + 171606 0.67 0.931101
Target:  5'- uACUCUCCGCCcc-GCGa-AGGAGAu- -3'
miRNA:   3'- -UGAGAGGUGGuuuCGCggUCCUCUcg -5'
29288 5' -55.6 NC_006150.1 + 139391 0.67 0.920525
Target:  5'- gACggUCCGCCGccuGGgGUaCGGGAGGGCa -3'
miRNA:   3'- -UGagAGGUGGUu--UCgCG-GUCCUCUCG- -5'
29288 5' -55.6 NC_006150.1 + 65423 0.67 0.920525
Target:  5'- aGCUCggCgGCCGuGGCGCUGGGGGccguuuGCa -3'
miRNA:   3'- -UGAGa-GgUGGUuUCGCGGUCCUCu-----CG- -5'
29288 5' -55.6 NC_006150.1 + 118747 0.67 0.919972
Target:  5'- gUUCUCCACC--AGCGUCgcaccacgaaguaAGGAG-GCg -3'
miRNA:   3'- uGAGAGGUGGuuUCGCGG-------------UCCUCuCG- -5'
29288 5' -55.6 NC_006150.1 + 132455 0.68 0.896604
Target:  5'- -gUCUCCGCgGucGCGgcucuggcCCAGGAcGAGCu -3'
miRNA:   3'- ugAGAGGUGgUuuCGC--------GGUCCU-CUCG- -5'
29288 5' -55.6 NC_006150.1 + 95171 0.68 0.876307
Target:  5'- gACUgUCUACCAGAGcCGacagCGGGAuGGGCu -3'
miRNA:   3'- -UGAgAGGUGGUUUC-GCg---GUCCU-CUCG- -5'
29288 5' -55.6 NC_006150.1 + 55246 0.68 0.873454
Target:  5'- aACUCaCUACCGcuguuGAGaaugaauuugauaGCCGGGGGAGCa -3'
miRNA:   3'- -UGAGaGGUGGU-----UUCg------------CGGUCCUCUCG- -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.