miRNA display CGI


Results 1 - 12 of 12 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
28043 5' -56.1 NC_005887.1 + 39451 0.66 0.628695
Target:  5'- gUCGUUCGCGGCGGccgaCGUGUCc---- -3'
miRNA:   3'- gAGCGAGUGCCGCUa---GCACAGcuccu -5'
28043 5' -56.1 NC_005887.1 + 11011 0.66 0.594524
Target:  5'- gCUCGggUGCGGCGGUCuggucgaGUGUUGGGaGAa -3'
miRNA:   3'- -GAGCgaGUGCCGCUAG-------CACAGCUC-CU- -5'
28043 5' -56.1 NC_005887.1 + 37624 0.66 0.591229
Target:  5'- aUUGCUCGCGGCGGUUccagaaacgGAGGAa -3'
miRNA:   3'- gAGCGAGUGCCGCUAGcacag----CUCCU- -5'
28043 5' -56.1 NC_005887.1 + 8829 0.67 0.584649
Target:  5'- -gCGCUCACGGUGAUCGc--CGAcaagaucgcgcGGAu -3'
miRNA:   3'- gaGCGAGUGCCGCUAGCacaGCU-----------CCU- -5'
28043 5' -56.1 NC_005887.1 + 17243 0.67 0.584649
Target:  5'- aUCGCgUACGGCGGcgucaauaagaUCGUGcCGGGcGAg -3'
miRNA:   3'- gAGCGaGUGCCGCU-----------AGCACaGCUC-CU- -5'
28043 5' -56.1 NC_005887.1 + 4883 0.67 0.573715
Target:  5'- -cCGCUCGCGaCGAUgGUcGcCGAGGGc -3'
miRNA:   3'- gaGCGAGUGCcGCUAgCA-CaGCUCCU- -5'
28043 5' -56.1 NC_005887.1 + 33708 0.67 0.531606
Target:  5'- uUCGUggCGCGGCGGUCGaucugcucgaucgcgG-CGAGGAu -3'
miRNA:   3'- gAGCGa-GUGCCGCUAGCa--------------CaGCUCCU- -5'
28043 5' -56.1 NC_005887.1 + 5908 0.67 0.53054
Target:  5'- gCUCGgUCGCcaGGCGAUgcgcaaguucggUGUGUCGGGcGAg -3'
miRNA:   3'- -GAGCgAGUG--CCGCUA------------GCACAGCUC-CU- -5'
28043 5' -56.1 NC_005887.1 + 4517 0.68 0.509391
Target:  5'- gCUCGCcgacUACGGCGG-CGUcccgGUCGAGGc -3'
miRNA:   3'- -GAGCGa---GUGCCGCUaGCA----CAGCUCCu -5'
28043 5' -56.1 NC_005887.1 + 14606 0.68 0.498949
Target:  5'- -aCGCgUACGGCcGUCGgcgccGUCGAGGGc -3'
miRNA:   3'- gaGCGaGUGCCGcUAGCa----CAGCUCCU- -5'
28043 5' -56.1 NC_005887.1 + 24470 0.7 0.382462
Target:  5'- -cCGUuggCGCGGcCGAUCGUGUCGucGAu -3'
miRNA:   3'- gaGCGa--GUGCC-GCUAGCACAGCucCU- -5'
28043 5' -56.1 NC_005887.1 + 19643 1.09 0.000714
Target:  5'- uCUCGCUCACGGCGAUCGUGUCGAGGAa -3'
miRNA:   3'- -GAGCGAGUGCCGCUAGCACAGCUCCU- -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.