miRNA display CGI


Results 1 - 18 of 18 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
23149 5' -57.2 NC_005178.1 + 2650 0.66 0.489411
Target:  5'- uUCGCgaUAGGGUGccucgaucaGGCGGCGCaCAGUGa -3'
miRNA:   3'- -AGCG--GUCCCGC---------UUGCCGUGaGUCAUa -5'
23149 5' -57.2 NC_005178.1 + 30486 0.66 0.478924
Target:  5'- cUCGcCCAGGGCcg--GGCACUCAa--- -3'
miRNA:   3'- -AGC-GGUCCCGcuugCCGUGAGUcaua -5'
23149 5' -57.2 NC_005178.1 + 25679 0.66 0.46855
Target:  5'- -gGCCuGGGCGAucugcuCGGCGCUgUAGg-- -3'
miRNA:   3'- agCGGuCCCGCUu-----GCCGUGA-GUCaua -5'
23149 5' -57.2 NC_005178.1 + 28270 0.66 0.438141
Target:  5'- cCGCCaauggugucaguGGGGUGAcCGGCGCUgCGGg-- -3'
miRNA:   3'- aGCGG------------UCCCGCUuGCCGUGA-GUCaua -5'
23149 5' -57.2 NC_005178.1 + 14743 0.67 0.428259
Target:  5'- gUGCCc--GCGAugGGCACUCGGc-- -3'
miRNA:   3'- aGCGGuccCGCUugCCGUGAGUCaua -5'
23149 5' -57.2 NC_005178.1 + 16331 0.67 0.428259
Target:  5'- -gGCCGGccGGgGAGCGGguUUCGGUGc -3'
miRNA:   3'- agCGGUC--CCgCUUGCCguGAGUCAUa -5'
23149 5' -57.2 NC_005178.1 + 23353 0.67 0.408895
Target:  5'- aUCGgcaCCGGGGCGucgcaccagGGCGGCAgUCGGg-- -3'
miRNA:   3'- -AGC---GGUCCCGC---------UUGCCGUgAGUCaua -5'
23149 5' -57.2 NC_005178.1 + 28122 0.67 0.399421
Target:  5'- -gGCCuGGGCGGuggcaccgaugGCGGCGCcCAGg-- -3'
miRNA:   3'- agCGGuCCCGCU-----------UGCCGUGaGUCaua -5'
23149 5' -57.2 NC_005178.1 + 23458 0.68 0.362959
Target:  5'- -gGCCAGGGCGccCGGCGCgaagcCGGc-- -3'
miRNA:   3'- agCGGUCCCGCuuGCCGUGa----GUCaua -5'
23149 5' -57.2 NC_005178.1 + 29064 0.68 0.354211
Target:  5'- uUCGCCugauGGGCGGcACGGCGUUCAa--- -3'
miRNA:   3'- -AGCGGu---CCCGCU-UGCCGUGAGUcaua -5'
23149 5' -57.2 NC_005178.1 + 9368 0.68 0.345613
Target:  5'- gUCGCCAGGGCGc-CGGC-CgaggCGGa-- -3'
miRNA:   3'- -AGCGGUCCCGCuuGCCGuGa---GUCaua -5'
23149 5' -57.2 NC_005178.1 + 5334 0.68 0.337167
Target:  5'- -gGcCCAGGGCGGcgucgAUGGCcaaacGCUCGGUGUc -3'
miRNA:   3'- agC-GGUCCCGCU-----UGCCG-----UGAGUCAUA- -5'
23149 5' -57.2 NC_005178.1 + 34830 0.68 0.337167
Target:  5'- cUCGcCCAGGGCGGcguucagcagcGCGGCGCg-GGUu- -3'
miRNA:   3'- -AGC-GGUCCCGCU-----------UGCCGUGagUCAua -5'
23149 5' -57.2 NC_005178.1 + 27497 0.7 0.282284
Target:  5'- -aGCUccaGGGGCGAugGGCGCUggccaggagcgCGGUGa -3'
miRNA:   3'- agCGG---UCCCGCUugCCGUGA-----------GUCAUa -5'
23149 5' -57.2 NC_005178.1 + 18049 0.7 0.282284
Target:  5'- aCuCCAGGGCGAacuggacgguauACGGCGCgggaCGGUAg -3'
miRNA:   3'- aGcGGUCCCGCU------------UGCCGUGa---GUCAUa -5'
23149 5' -57.2 NC_005178.1 + 28127 0.7 0.275048
Target:  5'- -gGCCGGGGCGGuuu-CGCUCAGUGg -3'
miRNA:   3'- agCGGUCCCGCUugccGUGAGUCAUa -5'
23149 5' -57.2 NC_005178.1 + 19702 0.72 0.194079
Target:  5'- cUCGCCgAGGGCGGcaGGCGCUCccagGGUGc -3'
miRNA:   3'- -AGCGG-UCCCGCUugCCGUGAG----UCAUa -5'
23149 5' -57.2 NC_005178.1 + 26328 1.06 0.000524
Target:  5'- cUCGCCAGGGCGAACGGCACUCAGUAUg -3'
miRNA:   3'- -AGCGGUCCCGCUUGCCGUGAGUCAUA- -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.