miRNA display CGI


Results 1 - 6 of 6 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
10220 3' -55.6 NC_002665.1 + 68979 0.7 0.606709
Target:  5'- uUGGUCUUGGUUACAguggcucuguuuuCAUCUcuGGGCAa -3'
miRNA:   3'- -ACCAGGACCGAUGU-------------GUGGGuuUCCGU- -5'
10220 3' -55.6 NC_002665.1 + 14176 0.68 0.702986
Target:  5'- --uUCCUGGCaguaaaUACACACUgaAAAGGCAg -3'
miRNA:   3'- accAGGACCG------AUGUGUGGg-UUUCCGU- -5'
10220 3' -55.6 NC_002665.1 + 64918 0.67 0.786288
Target:  5'- gGGUCCUcacagacagguauaGCUACAUugCCAGaugacauGGGCAa -3'
miRNA:   3'- aCCAGGAc-------------CGAUGUGugGGUU-------UCCGU- -5'
10220 3' -55.6 NC_002665.1 + 68435 0.66 0.811447
Target:  5'- gGGUUgaGGUUuCACAaCCAAAGGCu -3'
miRNA:   3'- aCCAGgaCCGAuGUGUgGGUUUCCGu -5'
10220 3' -55.6 NC_002665.1 + 5628 1.08 0.001925
Target:  5'- aUGGUCCUGGCUACACACCCAAAGGCAc -3'
miRNA:   3'- -ACCAGGACCGAUGUGUGGGUUUCCGU- -5'
10220 3' -55.6 NC_002665.1 + 70700 0.67 0.783421
Target:  5'- aUGGUCCcuuugaugUGGggAUAUACCaCAGGGGCc -3'
miRNA:   3'- -ACCAGG--------ACCgaUGUGUGG-GUUUCCGu -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.