miRNA display CGI


Results 1 - 20 of 31 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
23348 3' -53.9 NC_005259.1 + 8671 0.66 0.859022
Target:  5'- gCCAcGCGGGcaacGGGGCCGCCuCgAUGUc -3'
miRNA:   3'- gGGU-UGUCCu---UCCUGGUGGuGgUACA- -5'
23348 3' -53.9 NC_005259.1 + 48805 0.66 0.8507
Target:  5'- uCCCGcCgAGGAAGGuagaaaugACCACCAUCAc-- -3'
miRNA:   3'- -GGGUuG-UCCUUCC--------UGGUGGUGGUaca -5'
23348 3' -53.9 NC_005259.1 + 39988 0.66 0.8507
Target:  5'- cCUCGACGGGcu-GAUCGCCGCCGa-- -3'
miRNA:   3'- -GGGUUGUCCuucCUGGUGGUGGUaca -5'
23348 3' -53.9 NC_005259.1 + 30008 0.66 0.8507
Target:  5'- aCCaCGACaAGGu--GACCACCGCCggGg -3'
miRNA:   3'- -GG-GUUG-UCCuucCUGGUGGUGGuaCa -5'
23348 3' -53.9 NC_005259.1 + 23655 0.66 0.8507
Target:  5'- gCCGACGGcGAcggcuGGACCGCCgACCccGa -3'
miRNA:   3'- gGGUUGUC-CUu----CCUGGUGG-UGGuaCa -5'
23348 3' -53.9 NC_005259.1 + 47800 0.66 0.848159
Target:  5'- gUCCGACGGuGAGucgcgagaccucgcGGGCCACCGCUg--- -3'
miRNA:   3'- -GGGUUGUC-CUU--------------CCUGGUGGUGGuaca -5'
23348 3' -53.9 NC_005259.1 + 27575 0.66 0.842152
Target:  5'- aCCGGCGGGAu--GCCguacuugucgcACCACCAUGc -3'
miRNA:   3'- gGGUUGUCCUuccUGG-----------UGGUGGUACa -5'
23348 3' -53.9 NC_005259.1 + 25021 0.66 0.824411
Target:  5'- aCCaCAAacacaaAGGA--GAUCACCACCAUGg -3'
miRNA:   3'- -GG-GUUg-----UCCUucCUGGUGGUGGUACa -5'
23348 3' -53.9 NC_005259.1 + 37280 0.66 0.824411
Target:  5'- gCCCGGCAGGAcuugcauggcGGugC-CCGCCggGUc -3'
miRNA:   3'- -GGGUUGUCCUu---------CCugGuGGUGGuaCA- -5'
23348 3' -53.9 NC_005259.1 + 14554 0.66 0.815237
Target:  5'- gUCCGGCAGGccgagcGGGGACCGgcgaaCACCAUc- -3'
miRNA:   3'- -GGGUUGUCC------UUCCUGGUg----GUGGUAca -5'
23348 3' -53.9 NC_005259.1 + 7844 0.67 0.805873
Target:  5'- cCCCuuACGGGAcGGACCG-CGCCGa-- -3'
miRNA:   3'- -GGGu-UGUCCUuCCUGGUgGUGGUaca -5'
23348 3' -53.9 NC_005259.1 + 27542 0.67 0.786617
Target:  5'- cCCCAcgGCGGGAuguuGcGGCCACCGauCCAUa- -3'
miRNA:   3'- -GGGU--UGUCCUu---C-CUGGUGGU--GGUAca -5'
23348 3' -53.9 NC_005259.1 + 48099 0.67 0.780713
Target:  5'- gCCCGACGGGuccggucaggaaaccGAGcacaccgccucGACCACCGCCGc-- -3'
miRNA:   3'- -GGGUUGUCC---------------UUC-----------CUGGUGGUGGUaca -5'
23348 3' -53.9 NC_005259.1 + 24109 0.67 0.776746
Target:  5'- aCCGAUGGGAccGGGcggggacuacACCGCCGCCGc-- -3'
miRNA:   3'- gGGUUGUCCU--UCC----------UGGUGGUGGUaca -5'
23348 3' -53.9 NC_005259.1 + 26200 0.67 0.766728
Target:  5'- -gCGGCAGcauGG-CCGCCGCCGUGUu -3'
miRNA:   3'- ggGUUGUCcuuCCuGGUGGUGGUACA- -5'
23348 3' -53.9 NC_005259.1 + 1741 0.68 0.756572
Target:  5'- aCCAACGaGAgaaAGaGAgCACCGCCAUGg -3'
miRNA:   3'- gGGUUGUcCU---UC-CUgGUGGUGGUACa -5'
23348 3' -53.9 NC_005259.1 + 25058 0.68 0.756572
Target:  5'- gCCCGuuuuCAGGcAAGGguggcgcuGCCACCGCCGc-- -3'
miRNA:   3'- -GGGUu---GUCC-UUCC--------UGGUGGUGGUaca -5'
23348 3' -53.9 NC_005259.1 + 60893 0.68 0.725399
Target:  5'- aCCGaauGCGGGcuuGGCCACCAUCGUGa -3'
miRNA:   3'- gGGU---UGUCCuucCUGGUGGUGGUACa -5'
23348 3' -53.9 NC_005259.1 + 4399 0.68 0.725399
Target:  5'- aCCGACAccgaacuacGAGGGCCGCCACCGc-- -3'
miRNA:   3'- gGGUUGUcc-------UUCCUGGUGGUGGUaca -5'
23348 3' -53.9 NC_005259.1 + 355 0.68 0.713747
Target:  5'- aCCGaaaGCAGGAaacgaugAGcACCAUCACCAUGa -3'
miRNA:   3'- gGGU---UGUCCU-------UCcUGGUGGUGGUACa -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.