miRNA display CGI


Results 1 - 20 of 26 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
18729 3' -60.3 NC_004682.1 + 36679 0.66 0.48456
Target:  5'- gCUGCCCuuGUAGUaGGCgUAGUccGUCCGCu -3'
miRNA:   3'- -GGCGGG--CAUCAgCCG-GUCG--UAGGCGc -5'
18729 3' -60.3 NC_004682.1 + 44728 0.66 0.48456
Target:  5'- -gGCCgCGUAG-CgGGCCAGCAucgucuUCUGCc -3'
miRNA:   3'- ggCGG-GCAUCaG-CCGGUCGU------AGGCGc -5'
18729 3' -60.3 NC_004682.1 + 47779 0.66 0.48456
Target:  5'- gCGCCCGUuccguuGGaCGGCCuGCcuuGUCCGaCa -3'
miRNA:   3'- gGCGGGCA------UCaGCCGGuCG---UAGGC-Gc -5'
18729 3' -60.3 NC_004682.1 + 30709 0.66 0.48456
Target:  5'- -gGCCCuc-GUCGGCCaggaAGCAccgCCGCa -3'
miRNA:   3'- ggCGGGcauCAGCCGG----UCGUa--GGCGc -5'
18729 3' -60.3 NC_004682.1 + 44071 0.66 0.471852
Target:  5'- gCCGUCCGUGauggaggcguacauGUCa-CCAGCGUgCGCGu -3'
miRNA:   3'- -GGCGGGCAU--------------CAGccGGUCGUAgGCGC- -5'
18729 3' -60.3 NC_004682.1 + 48225 0.66 0.465079
Target:  5'- gCCgGCCuCGUA-UCGGCCAGC---CGCGa -3'
miRNA:   3'- -GG-CGG-GCAUcAGCCGGUCGuagGCGC- -5'
18729 3' -60.3 NC_004682.1 + 31058 0.66 0.465079
Target:  5'- uCCaGCCCGUAgaggauGUCGGCCuugcucgcccAGUAguccugcuUCCGCa -3'
miRNA:   3'- -GG-CGGGCAU------CAGCCGG----------UCGU--------AGGCGc -5'
18729 3' -60.3 NC_004682.1 + 5107 0.66 0.45454
Target:  5'- aCC-CCCGUGGUCGacGCCGcgccgauccuggcGCGUgCUGCGg -3'
miRNA:   3'- -GGcGGGCAUCAGC--CGGU-------------CGUA-GGCGC- -5'
18729 3' -60.3 NC_004682.1 + 45392 0.66 0.436645
Target:  5'- gCCgGCCCacuucAGaUCGGCCAGCG-CaCGCGg -3'
miRNA:   3'- -GG-CGGGca---UC-AGCCGGUCGUaG-GCGC- -5'
18729 3' -60.3 NC_004682.1 + 24537 0.66 0.427391
Target:  5'- aUGCUCGgGGUCGGCCAcuGCGgggcCUGUGg -3'
miRNA:   3'- gGCGGGCaUCAGCCGGU--CGUa---GGCGC- -5'
18729 3' -60.3 NC_004682.1 + 29481 0.67 0.409238
Target:  5'- aCCGCCCGgaugaagcccGUCaGCCAGgAgCCGCc -3'
miRNA:   3'- -GGCGGGCau--------CAGcCGGUCgUaGGCGc -5'
18729 3' -60.3 NC_004682.1 + 22146 0.67 0.382929
Target:  5'- gCCGCCgCG-AGUgGG-CGGCAUCgGCa -3'
miRNA:   3'- -GGCGG-GCaUCAgCCgGUCGUAGgCGc -5'
18729 3' -60.3 NC_004682.1 + 26351 0.67 0.374413
Target:  5'- aCCGCCUGUuccccuGUCGGCgcgCAGCGgccuccuggaUCUGCu -3'
miRNA:   3'- -GGCGGGCAu-----CAGCCG---GUCGU----------AGGCGc -5'
18729 3' -60.3 NC_004682.1 + 36881 0.67 0.374413
Target:  5'- gCCGCCCGccuGaUCGGCUuGCucagCCGCu -3'
miRNA:   3'- -GGCGGGCau-C-AGCCGGuCGua--GGCGc -5'
18729 3' -60.3 NC_004682.1 + 48860 0.68 0.366025
Target:  5'- aCCGCCguCGUAG-CGGUaCAGCAgaCCGCc -3'
miRNA:   3'- -GGCGG--GCAUCaGCCG-GUCGUa-GGCGc -5'
18729 3' -60.3 NC_004682.1 + 44489 0.68 0.349643
Target:  5'- aCCGCCCGcgccguGUCGGCgGGgaGUCC-CGg -3'
miRNA:   3'- -GGCGGGCau----CAGCCGgUCg-UAGGcGC- -5'
18729 3' -60.3 NC_004682.1 + 37639 0.68 0.341651
Target:  5'- aCCGCCCGccGGUCGuGgaaCGGgAUCUGCGu -3'
miRNA:   3'- -GGCGGGCa-UCAGC-Cg--GUCgUAGGCGC- -5'
18729 3' -60.3 NC_004682.1 + 43122 0.68 0.333791
Target:  5'- -gGUCCuucUGGUCGGUCGGCAgCCGCc -3'
miRNA:   3'- ggCGGGc--AUCAGCCGGUCGUaGGCGc -5'
18729 3' -60.3 NC_004682.1 + 26224 0.69 0.29224
Target:  5'- -aGCCCGUggcguucgccgGGUCGGagucggagcacgacaCCAGCA-CCGCGu -3'
miRNA:   3'- ggCGGGCA-----------UCAGCC---------------GGUCGUaGGCGC- -5'
18729 3' -60.3 NC_004682.1 + 21793 0.69 0.282505
Target:  5'- aCGCuCCGUG--CGGUCGGCAUgCCGCu -3'
miRNA:   3'- gGCG-GGCAUcaGCCGGUCGUA-GGCGc -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.