miRNA display CGI


Results 1 - 20 of 35 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
19424 3' -54.8 NC_004685.1 + 9360 0.66 0.835433
Target:  5'- aGCUGUUgacgCAUCaCGCGGGGUUucggcgGCCC-CGg -3'
miRNA:   3'- -CGGCAA----GUAG-GCGUUCCAG------UGGGaGC- -5'
19424 3' -54.8 NC_004685.1 + 29814 0.66 0.835433
Target:  5'- cGCCGggCuguUCCGUGAGG-CAUCCg-- -3'
miRNA:   3'- -CGGCaaGu--AGGCGUUCCaGUGGGagc -5'
19424 3' -54.8 NC_004685.1 + 62194 0.66 0.826627
Target:  5'- cGCaacgaGUUCGUCgGCAagcAGGUCAaCUUCGc -3'
miRNA:   3'- -CGg----CAAGUAGgCGU---UCCAGUgGGAGC- -5'
19424 3' -54.8 NC_004685.1 + 54117 0.66 0.826627
Target:  5'- uCCGagCAcagUUCGguGGGUCGgCCUCGg -3'
miRNA:   3'- cGGCaaGU---AGGCguUCCAGUgGGAGC- -5'
19424 3' -54.8 NC_004685.1 + 52325 0.66 0.817626
Target:  5'- uGCCGguggUCAUCgccggugcgCGCuGAGGUCAUgUUCGg -3'
miRNA:   3'- -CGGCa---AGUAG---------GCG-UUCCAGUGgGAGC- -5'
19424 3' -54.8 NC_004685.1 + 39335 0.66 0.817626
Target:  5'- cGCCGUUCGcgCCGUuguugccGGUCACCg--- -3'
miRNA:   3'- -CGGCAAGUa-GGCGuu-----CCAGUGGgagc -5'
19424 3' -54.8 NC_004685.1 + 37436 0.66 0.808437
Target:  5'- uGCCGUUCGUCgGCAA---CGCgCUCa -3'
miRNA:   3'- -CGGCAAGUAGgCGUUccaGUGgGAGc -5'
19424 3' -54.8 NC_004685.1 + 35479 0.66 0.808437
Target:  5'- gGCCGgUgAUCCGCGAgcgguccuugacGGUCACCacguacgUCGg -3'
miRNA:   3'- -CGGCaAgUAGGCGUU------------CCAGUGGg------AGC- -5'
19424 3' -54.8 NC_004685.1 + 14424 0.66 0.798126
Target:  5'- uGgCGUUCAUCCacugcucgaugucGuCGAGGUCGCcgguguCCUCGg -3'
miRNA:   3'- -CgGCAAGUAGG-------------C-GUUCCAGUG------GGAGC- -5'
19424 3' -54.8 NC_004685.1 + 17007 0.66 0.789538
Target:  5'- aGCCGaUCAccgccauauucUCgGCGAGGaugcgcgucgacUCACCCUUGc -3'
miRNA:   3'- -CGGCaAGU-----------AGgCGUUCC------------AGUGGGAGC- -5'
19424 3' -54.8 NC_004685.1 + 53901 0.67 0.779847
Target:  5'- gGUCGggCAU-CGUggGGUUACCUUCc -3'
miRNA:   3'- -CGGCaaGUAgGCGuuCCAGUGGGAGc -5'
19424 3' -54.8 NC_004685.1 + 50650 0.67 0.73972
Target:  5'- cGCCaacgUCAUCCGCGAaaacaaccuGGUCGgCgUCGg -3'
miRNA:   3'- -CGGca--AGUAGGCGUU---------CCAGUgGgAGC- -5'
19424 3' -54.8 NC_004685.1 + 65104 0.67 0.73972
Target:  5'- gGCCug-CAUCagCGCGcGGUCGCCCgUCGa -3'
miRNA:   3'- -CGGcaaGUAG--GCGUuCCAGUGGG-AGC- -5'
19424 3' -54.8 NC_004685.1 + 29909 0.68 0.729401
Target:  5'- gGCUGUUCGUCCaugccgugaaGCGGaucaagauuuGGUCACCgUCa -3'
miRNA:   3'- -CGGCAAGUAGG----------CGUU----------CCAGUGGgAGc -5'
19424 3' -54.8 NC_004685.1 + 6691 0.68 0.729401
Target:  5'- cGUCGUcgUCAggUUCGCuGGGGUCGCgCUCGu -3'
miRNA:   3'- -CGGCA--AGU--AGGCG-UUCCAGUGgGAGC- -5'
19424 3' -54.8 NC_004685.1 + 64002 0.68 0.723164
Target:  5'- cGCCGaUCAUUCGCAccaccgccuuguaccAGGcgauuuUCACCUUCa -3'
miRNA:   3'- -CGGCaAGUAGGCGU---------------UCC------AGUGGGAGc -5'
19424 3' -54.8 NC_004685.1 + 25817 0.68 0.718989
Target:  5'- gGCCGgUCAgcgCCGCGGGcucUCGCCCgUCa -3'
miRNA:   3'- -CGGCaAGUa--GGCGUUCc--AGUGGG-AGc -5'
19424 3' -54.8 NC_004685.1 + 16202 0.68 0.697927
Target:  5'- gGCCGUgcgCGUCgGCGGuGUUGCCCUgGu -3'
miRNA:   3'- -CGGCAa--GUAGgCGUUcCAGUGGGAgC- -5'
19424 3' -54.8 NC_004685.1 + 50102 0.69 0.659454
Target:  5'- aGCgCGUUCAUCUGCGGGGUguggacgaugcuguaCACCagCGg -3'
miRNA:   3'- -CG-GCAAGUAGGCGUUCCA---------------GUGGgaGC- -5'
19424 3' -54.8 NC_004685.1 + 22150 0.69 0.655152
Target:  5'- cGCCG-UCAUUCGCGAGcaGcCGCCCgCGa -3'
miRNA:   3'- -CGGCaAGUAGGCGUUC--CaGUGGGaGC- -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.