miRNA display CGI


Results 1 - 20 of 30 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
23981 3' -58 NC_005262.1 + 3467 0.71 0.328509
Target:  5'- aCGGGcaCGggGCgCauaGCAUcGUGCGGCa -3'
miRNA:   3'- -GCCCacGCuuCG-Gg--CGUAaCACGCCG- -5'
23981 3' -58 NC_005262.1 + 4593 0.72 0.284299
Target:  5'- uCGGGcGUGAGcGCCCGCAggaacggGCGGUg -3'
miRNA:   3'- -GCCCaCGCUU-CGGGCGUaaca---CGCCG- -5'
23981 3' -58 NC_005262.1 + 5044 0.67 0.57606
Target:  5'- gCGGauuaUGCGAauccuggucgaugagGGCCCGCAacacGUGCGGa -3'
miRNA:   3'- -GCCc---ACGCU---------------UCGGGCGUaa--CACGCCg -5'
23981 3' -58 NC_005262.1 + 5059 0.68 0.489405
Target:  5'- uCGGcGgGC-AGGCCCGCGgcg-GCGGCg -3'
miRNA:   3'- -GCC-CaCGcUUCGGGCGUaacaCGCCG- -5'
23981 3' -58 NC_005262.1 + 6569 0.75 0.184078
Target:  5'- gCGGGuUGCGAacuucugGGCCCGCGUcGaUGcCGGCg -3'
miRNA:   3'- -GCCC-ACGCU-------UCGGGCGUAaC-AC-GCCG- -5'
23981 3' -58 NC_005262.1 + 9438 1.12 0.000405
Target:  5'- gCGGGUGCGAAGCCCGCAUUGUGCGGCa -3'
miRNA:   3'- -GCCCACGCUUCGGGCGUAACACGCCG- -5'
23981 3' -58 NC_005262.1 + 10802 0.67 0.561295
Target:  5'- gCGGGaGCGccGgCCGCGUgcgcGCGGCc -3'
miRNA:   3'- -GCCCaCGCuuCgGGCGUAaca-CGCCG- -5'
23981 3' -58 NC_005262.1 + 13466 0.76 0.170543
Target:  5'- aGGGcGCGAAGCCCGCGcgcGUcGCGcGCu -3'
miRNA:   3'- gCCCaCGCUUCGGGCGUaa-CA-CGC-CG- -5'
23981 3' -58 NC_005262.1 + 14664 0.66 0.582415
Target:  5'- uGGGUGCGguGCgCGUgagcgccGCGGCg -3'
miRNA:   3'- gCCCACGCuuCGgGCGuaaca--CGCCG- -5'
23981 3' -58 NC_005262.1 + 20917 0.67 0.518729
Target:  5'- gCGGGUGCcgcGcCCCGCGaUGUucccugucgauucGCGGCu -3'
miRNA:   3'- -GCCCACGcuuC-GGGCGUaACA-------------CGCCG- -5'
23981 3' -58 NC_005262.1 + 23228 0.66 0.635757
Target:  5'- gCGGuaUGCGAAGCgCG----GUGCGGCg -3'
miRNA:   3'- -GCCc-ACGCUUCGgGCguaaCACGCCG- -5'
23981 3' -58 NC_005262.1 + 23372 0.68 0.498426
Target:  5'- gCGGcG-GCGAAgGCCCGCAacGUgaagcgccacaagGCGGCg -3'
miRNA:   3'- -GCC-CaCGCUU-CGGGCGUaaCA-------------CGCCG- -5'
23981 3' -58 NC_005262.1 + 23844 0.7 0.369084
Target:  5'- -aGGUGUGAaaaAGCCCGCAcgcUGCGGg -3'
miRNA:   3'- gcCCACGCU---UCGGGCGUaacACGCCg -5'
23981 3' -58 NC_005262.1 + 25349 0.67 0.570776
Target:  5'- uGcGGUGCcagaggcggcgcaGGAGCCgGCGUUGcgcGCGGUu -3'
miRNA:   3'- gC-CCACG-------------CUUCGGgCGUAACa--CGCCG- -5'
23981 3' -58 NC_005262.1 + 26392 0.67 0.575002
Target:  5'- uCGGGcucuuguucgucgucUGCcccuGAcgcacguGGUCCGCGUcGUGCGGCa -3'
miRNA:   3'- -GCCC---------------ACG----CU-------UCGGGCGUAaCACGCCG- -5'
23981 3' -58 NC_005262.1 + 27180 0.66 0.614368
Target:  5'- -uGGUGUGguGCCgUGC--UGUGUGGCa -3'
miRNA:   3'- gcCCACGCuuCGG-GCGuaACACGCCG- -5'
23981 3' -58 NC_005262.1 + 27628 0.67 0.561295
Target:  5'- cCGGG-GCuGAGCUCGCccucgucgGUGCGcGCg -3'
miRNA:   3'- -GCCCaCGcUUCGGGCGuaa-----CACGC-CG- -5'
23981 3' -58 NC_005262.1 + 29426 0.71 0.336354
Target:  5'- aGGaGcagcagGCGAAgGCCCGCAagGcUGCGGCa -3'
miRNA:   3'- gCC-Ca-----CGCUU-CGGGCGUaaC-ACGCCG- -5'
23981 3' -58 NC_005262.1 + 30892 0.67 0.571832
Target:  5'- cCGGGUuuGCGAuguaGGUCUGCAU-GU-CGGCu -3'
miRNA:   3'- -GCCCA--CGCU----UCGGGCGUAaCAcGCCG- -5'
23981 3' -58 NC_005262.1 + 32834 0.71 0.313229
Target:  5'- cCGGcGacgucgGCGAcaagguuucGGCCCGCAc-GUGCGGCg -3'
miRNA:   3'- -GCC-Ca-----CGCU---------UCGGGCGUaaCACGCCG- -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.