miRNA display CGI


Results 1 - 20 of 60 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
1939 3' -61 NC_001347.2 + 35640 0.76 0.278173
Target:  5'- uGgACCUCCAuggGUCCCUUGaUCCGCCuGCc -3'
miRNA:   3'- gCgUGGAGGU---CAGGGAGC-AGGCGG-CG- -5'
1939 3' -61 NC_001347.2 + 135141 0.76 0.284327
Target:  5'- aGCGCUUCCGGccacacccaaCCUCG-CCGCCGCa -3'
miRNA:   3'- gCGUGGAGGUCag--------GGAGCaGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 156641 0.76 0.296958
Target:  5'- gGCGCCgcugCCGGg-CCUCGgCCGCCGCc -3'
miRNA:   3'- gCGUGGa---GGUCagGGAGCaGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 17112 0.72 0.455205
Target:  5'- cCGCGCCaugCCGGUCguccgCCgUCGgCCGCCGCc -3'
miRNA:   3'- -GCGUGGa--GGUCAG-----GG-AGCaGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 85336 0.71 0.517231
Target:  5'- aGCGCCgccgCCAGcgCCgUCGcCCGCgGCu -3'
miRNA:   3'- gCGUGGa---GGUCa-GGgAGCaGGCGgCG- -5'
1939 3' -61 NC_001347.2 + 69613 0.71 0.535585
Target:  5'- cCGCAgCaugCC-GUCCCa-GUCCGCCGCc -3'
miRNA:   3'- -GCGUgGa--GGuCAGGGagCAGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 130727 0.71 0.535585
Target:  5'- cCGCGgucCCUCCAGUCCCcCGgcgccccUCGCCGg -3'
miRNA:   3'- -GCGU---GGAGGUCAGGGaGCa------GGCGGCg -5'
1939 3' -61 NC_001347.2 + 170478 0.71 0.544848
Target:  5'- uGCGCCa-CGGUCCCugucugauUCGUCacuCGCCGCg -3'
miRNA:   3'- gCGUGGagGUCAGGG--------AGCAG---GCGGCG- -5'
1939 3' -61 NC_001347.2 + 193671 0.71 0.544848
Target:  5'- gCGCGCCUCCGcUCgcggccgcuaCCUaCGUUCGCUGCu -3'
miRNA:   3'- -GCGUGGAGGUcAG----------GGA-GCAGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 38831 0.7 0.572926
Target:  5'- cCGCGCCgugCCGaaaCCaCUCGUCCGCguCGCg -3'
miRNA:   3'- -GCGUGGa--GGUca-GG-GAGCAGGCG--GCG- -5'
1939 3' -61 NC_001347.2 + 145543 0.7 0.591834
Target:  5'- aGC-CCUCCA--CCCUgaCGgCCGCCGCg -3'
miRNA:   3'- gCGuGGAGGUcaGGGA--GCaGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 62728 0.7 0.591834
Target:  5'- -cCACCUCCuccUCCCUCGcgCCGCCcCg -3'
miRNA:   3'- gcGUGGAGGuc-AGGGAGCa-GGCGGcG- -5'
1939 3' -61 NC_001347.2 + 89689 0.7 0.591834
Target:  5'- cCGCACaagcgCCGG-CCC-CG-CCGCCGCc -3'
miRNA:   3'- -GCGUGga---GGUCaGGGaGCaGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 161953 0.7 0.595629
Target:  5'- aGCGCCUuggcgucggggguggUCAcGUCCa--GUCCGCCGCu -3'
miRNA:   3'- gCGUGGA---------------GGU-CAGGgagCAGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 901 0.7 0.601329
Target:  5'- cCGCGCCcCCcGcCCCUUGgucgCgGCCGCg -3'
miRNA:   3'- -GCGUGGaGGuCaGGGAGCa---GgCGGCG- -5'
1939 3' -61 NC_001347.2 + 39486 0.7 0.610844
Target:  5'- gGC-CCUCCGG-CCC-CG-CgGCCGCg -3'
miRNA:   3'- gCGuGGAGGUCaGGGaGCaGgCGGCG- -5'
1939 3' -61 NC_001347.2 + 21353 0.7 0.620373
Target:  5'- gCGCGCCUCCG--UCCUCGU-CGCCu- -3'
miRNA:   3'- -GCGUGGAGGUcaGGGAGCAgGCGGcg -5'
1939 3' -61 NC_001347.2 + 209999 0.69 0.648982
Target:  5'- cCGCACCgCCgGGUCgCg-GUCCGCCGg -3'
miRNA:   3'- -GCGUGGaGG-UCAGgGagCAGGCGGCg -5'
1939 3' -61 NC_001347.2 + 199917 0.69 0.658503
Target:  5'- aCGCuguCCUCCGccUCCUCaUCCGCCGg -3'
miRNA:   3'- -GCGu--GGAGGUcaGGGAGcAGGCGGCg -5'
1939 3' -61 NC_001347.2 + 153831 0.69 0.662307
Target:  5'- gGUGCUUCgAGUCcacagcgcgccacguCCUCGUgUGCCGCg -3'
miRNA:   3'- gCGUGGAGgUCAG---------------GGAGCAgGCGGCG- -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.