miRNA display CGI


Results 1 - 8 of 8 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
17472 3' -56.2 NC_004456.1 + 41265 0.75 0.182729
Target:  5'- -aGCUCCGCACCGAGuucuGCCAGCa-- -3'
miRNA:   3'- agCGAGGUGUGGUUCcu--UGGUCGccu -5'
17472 3' -56.2 NC_004456.1 + 37119 0.72 0.286796
Target:  5'- uUUGCUCCACguaACCuuGGGAAaacggUCAGCGGGa -3'
miRNA:   3'- -AGCGAGGUG---UGGu-UCCUU-----GGUCGCCU- -5'
17472 3' -56.2 NC_004456.1 + 34203 0.74 0.198295
Target:  5'- gCGCUUagggguaaGCACUAGGGAuGCUAGCGGAa -3'
miRNA:   3'- aGCGAGg-------UGUGGUUCCU-UGGUCGCCU- -5'
17472 3' -56.2 NC_004456.1 + 33372 0.66 0.611469
Target:  5'- -aGCUCCaagaaauGCGCCAGGcacuGAACCgAGcCGGAg -3'
miRNA:   3'- agCGAGG-------UGUGGUUC----CUUGG-UC-GCCU- -5'
17472 3' -56.2 NC_004456.1 + 32474 0.68 0.462096
Target:  5'- gCGCaaacCUAUGCCGGGGGACCuucGUGGAc -3'
miRNA:   3'- aGCGa---GGUGUGGUUCCUUGGu--CGCCU- -5'
17472 3' -56.2 NC_004456.1 + 26359 0.66 0.590338
Target:  5'- -aGCUCCACAUCAAaguGGAucacACCgcgcuuGGCGGu -3'
miRNA:   3'- agCGAGGUGUGGUU---CCU----UGG------UCGCCu -5'
17472 3' -56.2 NC_004456.1 + 20376 0.67 0.49296
Target:  5'- gCGCUCaucguCACUGAGGA-CCuuauGCGGAg -3'
miRNA:   3'- aGCGAGgu---GUGGUUCCUuGGu---CGCCU- -5'
17472 3' -56.2 NC_004456.1 + 11998 1.09 0.000578
Target:  5'- uUCGCUCCACACCAAGGAACCAGCGGAc -3'
miRNA:   3'- -AGCGAGGUGUGGUUCCUUGGUCGCCU- -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.