miRNA display CGI


Results 1 - 20 of 21 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
18970 5' -50.9 NC_004683.1 + 54270 0.66 0.939771
Target:  5'- uUCGGgGUCgAGCUGCgcGAuGGCCUUGa -3'
miRNA:   3'- -GGCUgCAGgUUGACGaaCU-UUGGGAC- -5'
18970 5' -50.9 NC_004683.1 + 4454 0.66 0.939771
Target:  5'- uCCGACGacgcgcagcgaUCCAcCcGCUcGGAACCCUc -3'
miRNA:   3'- -GGCUGC-----------AGGUuGaCGAaCUUUGGGAc -5'
18970 5' -50.9 NC_004683.1 + 53648 0.66 0.928841
Target:  5'- gCCGGCGUCUGccGCgGCguu--GCCCUGc -3'
miRNA:   3'- -GGCUGCAGGU--UGaCGaacuuUGGGAC- -5'
18970 5' -50.9 NC_004683.1 + 12240 0.66 0.928264
Target:  5'- gCGACGgaucaaaCGACgGCUUGGccgaaucGGCCCUGc -3'
miRNA:   3'- gGCUGCag-----GUUGaCGAACU-------UUGGGAC- -5'
18970 5' -50.9 NC_004683.1 + 52563 0.66 0.922943
Target:  5'- gCCGAg--CCAGC-GCgcGAGACCCUGc -3'
miRNA:   3'- -GGCUgcaGGUUGaCGaaCUUUGGGAC- -5'
18970 5' -50.9 NC_004683.1 + 11513 0.66 0.916756
Target:  5'- aCCGcacgagcaGCGUUCGGCgccgUGCUgGAuGCCCUGg -3'
miRNA:   3'- -GGC--------UGCAGGUUG----ACGAaCUuUGGGAC- -5'
18970 5' -50.9 NC_004683.1 + 6948 0.67 0.903521
Target:  5'- gCGcCGUCCAGCggccguaggGCUUGGuaagcguGCCCUu -3'
miRNA:   3'- gGCuGCAGGUUGa--------CGAACUu------UGGGAc -5'
18970 5' -50.9 NC_004683.1 + 43131 0.67 0.896478
Target:  5'- aCCGGCGUgCGGCUGCgu--GGCCg-- -3'
miRNA:   3'- -GGCUGCAgGUUGACGaacuUUGGgac -5'
18970 5' -50.9 NC_004683.1 + 4443 0.67 0.892118
Target:  5'- gCUGGCGUCUcGCUGCgcggcuucguccugUGAGACCg-- -3'
miRNA:   3'- -GGCUGCAGGuUGACGa-------------ACUUUGGgac -5'
18970 5' -50.9 NC_004683.1 + 36070 0.68 0.865574
Target:  5'- uCCGgcagaACGUCCGAUUGUgucgaggagUGGGACCCc- -3'
miRNA:   3'- -GGC-----UGCAGGUUGACGa--------ACUUUGGGac -5'
18970 5' -50.9 NC_004683.1 + 52341 0.68 0.865574
Target:  5'- uCCGGCGUUCGGCgGUacuc-GCCCUGg -3'
miRNA:   3'- -GGCUGCAGGUUGaCGaacuuUGGGAC- -5'
18970 5' -50.9 NC_004683.1 + 3943 0.68 0.865573
Target:  5'- gCCGugGUCgAACUGC-----ACCUUGg -3'
miRNA:   3'- -GGCugCAGgUUGACGaacuuUGGGAC- -5'
18970 5' -50.9 NC_004683.1 + 3230 0.68 0.857195
Target:  5'- cCCGugauCGUCgGACUGUccGAGGgCCUGg -3'
miRNA:   3'- -GGCu---GCAGgUUGACGaaCUUUgGGAC- -5'
18970 5' -50.9 NC_004683.1 + 52767 0.68 0.84857
Target:  5'- aCGACGUCgAgacACUGCaaGAGGCgCUGc -3'
miRNA:   3'- gGCUGCAGgU---UGACGaaCUUUGgGAC- -5'
18970 5' -50.9 NC_004683.1 + 792 0.68 0.830617
Target:  5'- aCCGAgGgCCGcCUGCUUcucGAAACCCg- -3'
miRNA:   3'- -GGCUgCaGGUuGACGAA---CUUUGGGac -5'
18970 5' -50.9 NC_004683.1 + 32333 0.69 0.782104
Target:  5'- gCCGAauUGUgCCAACUcGCgUGAAACUCUGc -3'
miRNA:   3'- -GGCU--GCA-GGUUGA-CGaACUUUGGGAC- -5'
18970 5' -50.9 NC_004683.1 + 9894 0.7 0.749892
Target:  5'- cUCGGCGccgauccUCCAGCUGCUUGGccaucaCCUGc -3'
miRNA:   3'- -GGCUGC-------AGGUUGACGAACUuug---GGAC- -5'
18970 5' -50.9 NC_004683.1 + 48345 0.7 0.729533
Target:  5'- gCCGACGUCCGcauccccgcGCUGCUcGAcACuCCg- -3'
miRNA:   3'- -GGCUGCAGGU---------UGACGAaCUuUG-GGac -5'
18970 5' -50.9 NC_004683.1 + 32580 0.72 0.640744
Target:  5'- gCC-ACGUCCGGCUGCacGAuGCCCg- -3'
miRNA:   3'- -GGcUGCAGGUUGACGaaCUuUGGGac -5'
18970 5' -50.9 NC_004683.1 + 18950 0.74 0.551331
Target:  5'- gUCGcaaauCGUCCGgcACUGCUUGGGcCCCUGu -3'
miRNA:   3'- -GGCu----GCAGGU--UGACGAACUUuGGGAC- -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.