miRNA display CGI


Results 1 - 20 of 50 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
20489 3' -55.6 NC_004688.1 + 56035 0.66 0.878507
Target:  5'- cGG-GGCGUGCggAAucuCCuGuUGCCGCg -3'
miRNA:   3'- aCCgCCGCAUGagUUu--GGuC-ACGGCG- -5'
20489 3' -55.6 NC_004688.1 + 11597 0.71 0.601996
Target:  5'- gGGCGaGCGc-CUCAAacugcgGCCAGaucUGCCGCu -3'
miRNA:   3'- aCCGC-CGCauGAGUU------UGGUC---ACGGCG- -5'
20489 3' -55.6 NC_004688.1 + 102856 0.7 0.643958
Target:  5'- uUGGCGGCgGUAC-CAggaGACCGGa-CCGCu -3'
miRNA:   3'- -ACCGCCG-CAUGaGU---UUGGUCacGGCG- -5'
20489 3' -55.6 NC_004688.1 + 10647 0.69 0.682643
Target:  5'- aGcGCGGCGUugUCcgcGGCCuggaucgcggucgaGGUGCCGg -3'
miRNA:   3'- aC-CGCCGCAugAGu--UUGG--------------UCACGGCg -5'
20489 3' -55.6 NC_004688.1 + 28750 0.69 0.685759
Target:  5'- gUGGuCGGCGUGC-CAu-CgAG-GCCGCg -3'
miRNA:   3'- -ACC-GCCGCAUGaGUuuGgUCaCGGCG- -5'
20489 3' -55.6 NC_004688.1 + 12278 0.69 0.685759
Target:  5'- aUGGUcugGGCGUugUCGuacccgauGCCGG-GCUGCu -3'
miRNA:   3'- -ACCG---CCGCAugAGUu-------UGGUCaCGGCG- -5'
20489 3' -55.6 NC_004688.1 + 10877 0.69 0.689908
Target:  5'- cGGUGGCGcgcacGCcgacgaccugguuguUCGAGCCGGUGCC-Cg -3'
miRNA:   3'- aCCGCCGCa----UG---------------AGUUUGGUCACGGcG- -5'
20489 3' -55.6 NC_004688.1 + 599 0.69 0.695083
Target:  5'- cUGGCGGagGUccuccagGCUCAuGACCGGUggGCCGUu -3'
miRNA:   3'- -ACCGCCg-CA-------UGAGU-UUGGUCA--CGGCG- -5'
20489 3' -55.6 NC_004688.1 + 3991 0.69 0.706417
Target:  5'- cGGCGGCGUGCacgCGGcccACCAcccuauUGCCGg -3'
miRNA:   3'- aCCGCCGCAUGa--GUU---UGGUc-----ACGGCg -5'
20489 3' -55.6 NC_004688.1 + 90219 0.71 0.591544
Target:  5'- cGGCgGGCGgucgUCGGuCCAGuUGCCGCg -3'
miRNA:   3'- aCCG-CCGCaug-AGUUuGGUC-ACGGCG- -5'
20489 3' -55.6 NC_004688.1 + 3284 0.71 0.570741
Target:  5'- gGGCGGUGUAgUCAAcGCCGa-GUCGCg -3'
miRNA:   3'- aCCGCCGCAUgAGUU-UGGUcaCGGCG- -5'
20489 3' -55.6 NC_004688.1 + 66299 0.72 0.519644
Target:  5'- cGGCGGCGaaACUgGAACC---GCCGCg -3'
miRNA:   3'- aCCGCCGCa-UGAgUUUGGucaCGGCG- -5'
20489 3' -55.6 NC_004688.1 + 1737 0.82 0.153147
Target:  5'- gGGCGGCGUACgUUuuACCguucugccugGGUGCCGCg -3'
miRNA:   3'- aCCGCCGCAUG-AGuuUGG----------UCACGGCG- -5'
20489 3' -55.6 NC_004688.1 + 28166 0.77 0.280895
Target:  5'- cUGGCGGuCGUugUU--GgCGGUGCCGCa -3'
miRNA:   3'- -ACCGCC-GCAugAGuuUgGUCACGGCG- -5'
20489 3' -55.6 NC_004688.1 + 19682 0.76 0.316362
Target:  5'- gGGCGGaaagAUUCAGACCcccgggccccGGUGCCGCa -3'
miRNA:   3'- aCCGCCgca-UGAGUUUGG----------UCACGGCG- -5'
20489 3' -55.6 NC_004688.1 + 28341 0.75 0.388421
Target:  5'- cGGUGGCGUugUCGccgaacGACCAGcgguUGaCCGCc -3'
miRNA:   3'- aCCGCCGCAugAGU------UUGGUC----AC-GGCG- -5'
20489 3' -55.6 NC_004688.1 + 39852 0.75 0.39446
Target:  5'- gUGGCgcaGGCGUGCUUGuagauuuugccguguCCGGUGCCGUg -3'
miRNA:   3'- -ACCG---CCGCAUGAGUuu-------------GGUCACGGCG- -5'
20489 3' -55.6 NC_004688.1 + 101167 0.74 0.405833
Target:  5'- gUGGCGGCGaUGCUCGuuGAUgAGcUGuCCGCa -3'
miRNA:   3'- -ACCGCCGC-AUGAGU--UUGgUC-AC-GGCG- -5'
20489 3' -55.6 NC_004688.1 + 98552 0.73 0.470445
Target:  5'- uUGGCGGUGU-CUCAa--CAGgcgcGCCGCa -3'
miRNA:   3'- -ACCGCCGCAuGAGUuugGUCa---CGGCG- -5'
20489 3' -55.6 NC_004688.1 + 10041 0.73 0.480102
Target:  5'- gGGUGGCGacUGCUUcAACCGccGCCGCg -3'
miRNA:   3'- aCCGCCGC--AUGAGuUUGGUcaCGGCG- -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.