miRNA display CGI


Results 1 - 20 of 24 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
19517 3' -59.7 NC_004685.1 + 25794 0.65 0.564571
Target:  5'- --aCCGAgacccgcgugguuGCAGGGGC-CGaCCGcGACGa -3'
miRNA:   3'- aaaGGCU-------------UGUCCCCGaGC-GGCcCUGC- -5'
19517 3' -59.7 NC_004685.1 + 35526 0.66 0.555248
Target:  5'- -cUCCGAGCAGcuGGGCgUCgacuacgugggGCCGuGGGCa -3'
miRNA:   3'- aaAGGCUUGUC--CCCG-AG-----------CGGC-CCUGc -5'
19517 3' -59.7 NC_004685.1 + 57914 0.66 0.555248
Target:  5'- --aCCGGAguGGGcGgcccgccgucCUUGCCGGGAUGc -3'
miRNA:   3'- aaaGGCUUguCCC-C----------GAGCGGCCCUGC- -5'
19517 3' -59.7 NC_004685.1 + 69239 0.66 0.544942
Target:  5'- ---aCGggUaAGGGGCgcgccacaaUCGCCGGuGACGc -3'
miRNA:   3'- aaagGCuuG-UCCCCG---------AGCGGCC-CUGC- -5'
19517 3' -59.7 NC_004685.1 + 9390 0.66 0.534698
Target:  5'- --gCUGAGCcGGauGGCgUCGCCGuGGGCGg -3'
miRNA:   3'- aaaGGCUUGuCC--CCG-AGCGGC-CCUGC- -5'
19517 3' -59.7 NC_004685.1 + 44972 0.66 0.524524
Target:  5'- -aUCCGAAgccgcuucauCAGGGGCUucaccgucucaaCGCCGGuGAa- -3'
miRNA:   3'- aaAGGCUU----------GUCCCCGA------------GCGGCC-CUgc -5'
19517 3' -59.7 NC_004685.1 + 15423 0.66 0.514423
Target:  5'- gUUgaGGACA---GCUCGCCGGGACGu -3'
miRNA:   3'- aAAggCUUGUcccCGAGCGGCCCUGC- -5'
19517 3' -59.7 NC_004685.1 + 60032 0.67 0.484624
Target:  5'- --aCCGGAuCGGGGGUggcgUCGCCcuucgGGGugGc -3'
miRNA:   3'- aaaGGCUU-GUCCCCG----AGCGG-----CCCugC- -5'
19517 3' -59.7 NC_004685.1 + 20014 0.67 0.455675
Target:  5'- -gUCUGcGCGagucGGGCgaccCGCCGGGGCGg -3'
miRNA:   3'- aaAGGCuUGUc---CCCGa---GCGGCCCUGC- -5'
19517 3' -59.7 NC_004685.1 + 23759 0.68 0.446234
Target:  5'- --gUCGGGCAGGuccaGCUUGCCGGGcaGCGc -3'
miRNA:   3'- aaaGGCUUGUCCc---CGAGCGGCCC--UGC- -5'
19517 3' -59.7 NC_004685.1 + 12625 0.68 0.433202
Target:  5'- --gCCGGGCAGGaaaucgaccggcuGCUCGCCGccGGGCGg -3'
miRNA:   3'- aaaGGCUUGUCCc------------CGAGCGGC--CCUGC- -5'
19517 3' -59.7 NC_004685.1 + 10065 0.68 0.427685
Target:  5'- --cCCGAGgAGGcGGUcgccgagauUCGCCGGGcGCGg -3'
miRNA:   3'- aaaGGCUUgUCC-CCG---------AGCGGCCC-UGC- -5'
19517 3' -59.7 NC_004685.1 + 25954 0.68 0.4096
Target:  5'- -gUCCGAGCGGGGGaaUGUCGcGGcCGa -3'
miRNA:   3'- aaAGGCUUGUCCCCgaGCGGC-CCuGC- -5'
19517 3' -59.7 NC_004685.1 + 65511 0.68 0.400737
Target:  5'- --aCCGu-CGGGcaGGCUCgGCCGGGugGu -3'
miRNA:   3'- aaaGGCuuGUCC--CCGAG-CGGCCCugC- -5'
19517 3' -59.7 NC_004685.1 + 2980 0.68 0.399858
Target:  5'- gUUUCCGAACAGGgcucccuGGCUuucCGCCGGuccaccGACa -3'
miRNA:   3'- -AAAGGCUUGUCC-------CCGA---GCGGCC------CUGc -5'
19517 3' -59.7 NC_004685.1 + 36600 0.69 0.38253
Target:  5'- --gCCGAggaccugGCGGGuGcGCUCGCCGcGGGCa -3'
miRNA:   3'- aaaGGCU-------UGUCC-C-CGAGCGGC-CCUGc -5'
19517 3' -59.7 NC_004685.1 + 15725 0.69 0.374897
Target:  5'- --cCCGAGuuGGGGCUCGgCGcaGGACa -3'
miRNA:   3'- aaaGGCUUguCCCCGAGCgGC--CCUGc -5'
19517 3' -59.7 NC_004685.1 + 45724 0.69 0.374055
Target:  5'- --gCUGAaugagcagaaacgGCAGcGGG-UCGCCGGGGCGg -3'
miRNA:   3'- aaaGGCU-------------UGUC-CCCgAGCGGCCCUGC- -5'
19517 3' -59.7 NC_004685.1 + 64407 0.69 0.358308
Target:  5'- gUUUCCGAACAGGGcugccauaguGCUCuGCCagcgucuGGGCGg -3'
miRNA:   3'- -AAAGGCUUGUCCC----------CGAG-CGGc------CCUGC- -5'
19517 3' -59.7 NC_004685.1 + 23869 0.69 0.350208
Target:  5'- aUUCUGAACgAGGGGCcggccgaCGCCGaGACGu -3'
miRNA:   3'- aAAGGCUUG-UCCCCGa------GCGGCcCUGC- -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.