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
11342 3' -58 NC_003084.1 + 32751 0.66 0.806673
Target:  5'- aCGGUGAACCGgcgccCCGauaugGUcaaagGGGCCGa- -3'
miRNA:   3'- -GCCACUUGGCa----GGCg----CAa----CCCGGUgg -5'
11342 3' -58 NC_003084.1 + 66285 0.66 0.797802
Target:  5'- aCGGaGAACCcggUgGgGUcGGGCCACCc -3'
miRNA:   3'- -GCCaCUUGGca-GgCgCAaCCCGGUGG- -5'
11342 3' -58 NC_003084.1 + 38291 0.66 0.789691
Target:  5'- uGGUGAgcACCGUcaCCGaCGUguggagacucuuuuGGCCGCCc -3'
miRNA:   3'- gCCACU--UGGCA--GGC-GCAac------------CCGGUGG- -5'
11342 3' -58 NC_003084.1 + 87681 0.66 0.788783
Target:  5'- gGGUGAGCUc-CCG-GUUuauGGCCACCa -3'
miRNA:   3'- gCCACUUGGcaGGCgCAAc--CCGGUGG- -5'
11342 3' -58 NC_003084.1 + 26713 0.66 0.779624
Target:  5'- aGGagGAGCUGUCgCGCcgaccgGGGCUAUCg -3'
miRNA:   3'- gCCa-CUUGGCAG-GCGcaa---CCCGGUGG- -5'
11342 3' -58 NC_003084.1 + 42660 0.66 0.779624
Target:  5'- aGGgcccaGGGCgGUCCGuUGUUGGGUgGCg -3'
miRNA:   3'- gCCa----CUUGgCAGGC-GCAACCCGgUGg -5'
11342 3' -58 NC_003084.1 + 45915 0.66 0.759976
Target:  5'- aCGG-GAGCUGgggUCGUcgaagaaGUUGGGcCCGCCu -3'
miRNA:   3'- -GCCaCUUGGCa--GGCG-------CAACCC-GGUGG- -5'
11342 3' -58 NC_003084.1 + 61333 0.67 0.751399
Target:  5'- uGGUGAGCCa--CGgGUUGGccgcaCCGCCg -3'
miRNA:   3'- gCCACUUGGcagGCgCAACCc----GGUGG- -5'
11342 3' -58 NC_003084.1 + 38771 0.67 0.74177
Target:  5'- -uGUGGGCUGcacacCCGCGggaaccgGGGCUGCCg -3'
miRNA:   3'- gcCACUUGGCa----GGCGCaa-----CCCGGUGG- -5'
11342 3' -58 NC_003084.1 + 94712 0.67 0.74177
Target:  5'- uGGcGAACC-UuuGCGgccGGCCGCCg -3'
miRNA:   3'- gCCaCUUGGcAggCGCaacCCGGUGG- -5'
11342 3' -58 NC_003084.1 + 25874 0.67 0.74177
Target:  5'- uCGGcUGGACUuuuGUgCGCGUUuGGGCUcCCg -3'
miRNA:   3'- -GCC-ACUUGG---CAgGCGCAA-CCCGGuGG- -5'
11342 3' -58 NC_003084.1 + 43455 0.68 0.662091
Target:  5'- gCGGUGGcAUUGUgCCGCaUU-GGCCACCg -3'
miRNA:   3'- -GCCACU-UGGCA-GGCGcAAcCCGGUGG- -5'
11342 3' -58 NC_003084.1 + 68151 0.68 0.662091
Target:  5'- aGGUGAGCCacggCCacgaGUUGGGCUaaACCu -3'
miRNA:   3'- gCCACUUGGca--GGcg--CAACCCGG--UGG- -5'
11342 3' -58 NC_003084.1 + 25313 0.68 0.641759
Target:  5'- cCGGUauaaAGCCGUCCGagcaGGGCgGCCu -3'
miRNA:   3'- -GCCAc---UUGGCAGGCgcaaCCCGgUGG- -5'
11342 3' -58 NC_003084.1 + 88926 0.68 0.641759
Target:  5'- aCGGUGGACaCGUUCaaGgaGGGuaCCACCa -3'
miRNA:   3'- -GCCACUUG-GCAGGcgCaaCCC--GGUGG- -5'
11342 3' -58 NC_003084.1 + 67597 0.7 0.580826
Target:  5'- uGGUGAGCuCGUCCaaGUUGc-CCACCg -3'
miRNA:   3'- gCCACUUG-GCAGGcgCAACccGGUGG- -5'
11342 3' -58 NC_003084.1 + 54138 0.7 0.580826
Target:  5'- cCGGUGcugcugcuGCUGUCUGCGUUcacGGGCC-CUu -3'
miRNA:   3'- -GCCACu-------UGGCAGGCGCAA---CCCGGuGG- -5'
11342 3' -58 NC_003084.1 + 25619 0.7 0.564736
Target:  5'- aCGGUGGACaaCGuggugguguucagguUCCGCGUaaccgaGGGCCACg -3'
miRNA:   3'- -GCCACUUG--GC---------------AGGCGCAa-----CCCGGUGg -5'
11342 3' -58 NC_003084.1 + 30351 0.7 0.560731
Target:  5'- aGGUGAguuGCgGUCCGCccgaGUUGGcCCACUu -3'
miRNA:   3'- gCCACU---UGgCAGGCG----CAACCcGGUGG- -5'
11342 3' -58 NC_003084.1 + 10737 0.7 0.550755
Target:  5'- aCGGUGAACCG-CUGCuca--GCCGCCg -3'
miRNA:   3'- -GCCACUUGGCaGGCGcaaccCGGUGG- -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.