miRNA display CGI


Results 1 - 20 of 27 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
12900 3' -59.5 NC_003387.1 + 50891 0.66 0.501627
Target:  5'- gUUGuacAGGUCGGCCGCGgugaggucgaUCGUGCagcgcaugauCCGg -3'
miRNA:   3'- gAAC---UCCAGCCGGCGUg---------AGCACG----------GGC- -5'
12900 3' -59.5 NC_003387.1 + 48160 0.66 0.501627
Target:  5'- --cGAGGcccgcgCGGUCGCGCaggCGcagGCCCGc -3'
miRNA:   3'- gaaCUCCa-----GCCGGCGUGa--GCa--CGGGC- -5'
12900 3' -59.5 NC_003387.1 + 28648 0.66 0.495587
Target:  5'- gCUUGAGGgCGucgucgacggcgaucGCCGC-CUCGgucGCCCa -3'
miRNA:   3'- -GAACUCCaGC---------------CGGCGuGAGCa--CGGGc -5'
12900 3' -59.5 NC_003387.1 + 7988 0.66 0.491577
Target:  5'- --gGAGcaggGGCCGCAacagugacuCUCGUGCCCu -3'
miRNA:   3'- gaaCUCcag-CCGGCGU---------GAGCACGGGc -5'
12900 3' -59.5 NC_003387.1 + 15980 0.66 0.491577
Target:  5'- --gGAGGacaauUCgGGCCGCACUgGcugGUCCGg -3'
miRNA:   3'- gaaCUCC-----AG-CCGGCGUGAgCa--CGGGC- -5'
12900 3' -59.5 NC_003387.1 + 24855 0.66 0.471766
Target:  5'- --gGGGGcUCGGUCgggGCGCUCGgcgUGCUCGg -3'
miRNA:   3'- gaaCUCC-AGCCGG---CGUGAGC---ACGGGC- -5'
12900 3' -59.5 NC_003387.1 + 35947 0.66 0.471766
Target:  5'- aUUGAGGacgccgcgaaGGCCGCGgUCGaggagGCCCu -3'
miRNA:   3'- gAACUCCag--------CCGGCGUgAGCa----CGGGc -5'
12900 3' -59.5 NC_003387.1 + 26217 0.67 0.442832
Target:  5'- --cGGGGUCaGGCCGCGCgagCGgcgacggacGCgCCGa -3'
miRNA:   3'- gaaCUCCAG-CCGGCGUGa--GCa--------CG-GGC- -5'
12900 3' -59.5 NC_003387.1 + 1758 0.67 0.442831
Target:  5'- -aUGAGcccggCGGCgGCGCUgGcGCCCGa -3'
miRNA:   3'- gaACUCca---GCCGgCGUGAgCaCGGGC- -5'
12900 3' -59.5 NC_003387.1 + 51908 0.67 0.433411
Target:  5'- --cGAGGUgcugcccgagcUGGCCGaCAUcaUCGUGaCCCGg -3'
miRNA:   3'- gaaCUCCA-----------GCCGGC-GUG--AGCAC-GGGC- -5'
12900 3' -59.5 NC_003387.1 + 34392 0.67 0.412195
Target:  5'- ---cGGGUCGGCCGCgggcagcgcgggcuGCUCGggcaGCCaCGu -3'
miRNA:   3'- gaacUCCAGCCGGCG--------------UGAGCa---CGG-GC- -5'
12900 3' -59.5 NC_003387.1 + 32294 0.67 0.405865
Target:  5'- --cGAGGagcaccggCGGCUGCACaaccCGaUGCCCGa -3'
miRNA:   3'- gaaCUCCa-------GCCGGCGUGa---GC-ACGGGC- -5'
12900 3' -59.5 NC_003387.1 + 47067 0.68 0.353386
Target:  5'- ---cAGG-CGGcCCGCGCUCGUcgucgucGCCCGc -3'
miRNA:   3'- gaacUCCaGCC-GGCGUGAGCA-------CGGGC- -5'
12900 3' -59.5 NC_003387.1 + 35720 0.69 0.330175
Target:  5'- --cGAGGUCGGCCa-----GUGCCCGc -3'
miRNA:   3'- gaaCUCCAGCCGGcgugagCACGGGC- -5'
12900 3' -59.5 NC_003387.1 + 32974 0.69 0.330174
Target:  5'- --cGAGGa--GCCGCGCgacuaCGUGCCCGc -3'
miRNA:   3'- gaaCUCCagcCGGCGUGa----GCACGGGC- -5'
12900 3' -59.5 NC_003387.1 + 42878 0.69 0.314832
Target:  5'- --cGGGGcUCGGCUGcCACcgCGUGCCUu -3'
miRNA:   3'- gaaCUCC-AGCCGGC-GUGa-GCACGGGc -5'
12900 3' -59.5 NC_003387.1 + 8397 0.7 0.300035
Target:  5'- --cGAGGUCGGCCGgGC-CGUagugaugcgccGCgCCGg -3'
miRNA:   3'- gaaCUCCAGCCGGCgUGaGCA-----------CG-GGC- -5'
12900 3' -59.5 NC_003387.1 + 10415 0.7 0.300035
Target:  5'- --cGGGGUCGGCCGUA-UCGacGCCgCGg -3'
miRNA:   3'- gaaCUCCAGCCGGCGUgAGCa-CGG-GC- -5'
12900 3' -59.5 NC_003387.1 + 47809 0.7 0.29284
Target:  5'- --aGAGGUCGGUCGCGauucugCGgGCCUGc -3'
miRNA:   3'- gaaCUCCAGCCGGCGUga----GCaCGGGC- -5'
12900 3' -59.5 NC_003387.1 + 51214 0.7 0.264752
Target:  5'- -cUGAGccugcacGUCGGCCGCGgcCUgGUGCUCGa -3'
miRNA:   3'- gaACUC-------CAGCCGGCGU--GAgCACGGGC- -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.