miRNA display CGI


Results 1 - 7 of 7 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
22159 3' -56.5 NC_004927.1 + 44351 0.66 0.724472
Target:  5'- -cUCGGGGaugaGUUCAacaUCACCAUCgUCu -3'
miRNA:   3'- ucAGCCUCg---CAGGUg--AGUGGUAGgAG- -5'
22159 3' -56.5 NC_004927.1 + 51800 0.67 0.693122
Target:  5'- cGGUCGGugAGCGUgCgACUCcCCAUCUg- -3'
miRNA:   3'- -UCAGCC--UCGCA-GgUGAGuGGUAGGag -5'
22159 3' -56.5 NC_004927.1 + 14594 0.67 0.650588
Target:  5'- cGGUCuGGAGCGuUCCACggcgcucgugggUCGCCAgCCg- -3'
miRNA:   3'- -UCAG-CCUCGC-AGGUG------------AGUGGUaGGag -5'
22159 3' -56.5 NC_004927.1 + 35268 0.68 0.597121
Target:  5'- --cCGG-GCGUCCucuUUCGCCAUCCc- -3'
miRNA:   3'- ucaGCCuCGCAGGu--GAGUGGUAGGag -5'
22159 3' -56.5 NC_004927.1 + 35196 0.69 0.565308
Target:  5'- -uUCGaGGGCGUCgGCUC-CCgugaaGUCCUCg -3'
miRNA:   3'- ucAGC-CUCGCAGgUGAGuGG-----UAGGAG- -5'
22159 3' -56.5 NC_004927.1 + 22576 0.69 0.544343
Target:  5'- uAGUCaGccGCGUCCAC-CACCAugUCCUUg -3'
miRNA:   3'- -UCAGcCu-CGCAGGUGaGUGGU--AGGAG- -5'
22159 3' -56.5 NC_004927.1 + 41577 0.75 0.240974
Target:  5'- cGUCGGGGagaGUCCACUCGCU--UCUCa -3'
miRNA:   3'- uCAGCCUCg--CAGGUGAGUGGuaGGAG- -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.