miRNA display CGI


Results 1 - 20 of 40 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
23812 3' -58.3 NC_005261.1 + 37004 0.68 0.683166
Target:  5'- cCGCGGGCUgCGCGGGGccaGUUUgCGg -3'
miRNA:   3'- -GCGCUCGAgGCGCUCCaugCAGAgGU- -5'
23812 3' -58.3 NC_005261.1 + 57294 0.66 0.831567
Target:  5'- uCGCGAGCagCCGCGcg--ACGUCcucgUCCAu -3'
miRNA:   3'- -GCGCUCGa-GGCGCuccaUGCAG----AGGU- -5'
23812 3' -58.3 NC_005261.1 + 48794 0.67 0.732331
Target:  5'- uCGCcGGCUCCGUGAGGccgUGCGcggCgUCCGc -3'
miRNA:   3'- -GCGcUCGAGGCGCUCC---AUGCa--G-AGGU- -5'
23812 3' -58.3 NC_005261.1 + 86284 0.67 0.732331
Target:  5'- gCGCGAGCacagcCCGCaGGGcACGUCgcccUCCAg -3'
miRNA:   3'- -GCGCUCGa----GGCGcUCCaUGCAG----AGGU- -5'
23812 3' -58.3 NC_005261.1 + 13100 0.67 0.732331
Target:  5'- gGCGGGCUCgGCucGGGG-GCGUCggcggCCGc -3'
miRNA:   3'- gCGCUCGAGgCG--CUCCaUGCAGa----GGU- -5'
23812 3' -58.3 NC_005261.1 + 123250 0.67 0.729429
Target:  5'- gCGCGGGCcCCGCccaucgcccgugacGAGGUGCGgguggUCCGc -3'
miRNA:   3'- -GCGCUCGaGGCG--------------CUCCAUGCag---AGGU- -5'
23812 3' -58.3 NC_005261.1 + 70926 0.68 0.722631
Target:  5'- gCGCGAGCUCCaGCGccuGcGCGUCcgCCGg -3'
miRNA:   3'- -GCGCUCGAGG-CGCuc-CaUGCAGa-GGU- -5'
23812 3' -58.3 NC_005261.1 + 121656 0.68 0.711875
Target:  5'- gCGCGGGCugUCCGCGucggcguAGGUguagGCGccCUCCAg -3'
miRNA:   3'- -GCGCUCG--AGGCGC-------UCCA----UGCa-GAGGU- -5'
23812 3' -58.3 NC_005261.1 + 120312 0.68 0.703014
Target:  5'- gGCGAGgCugUCUGCGAGGcgcgcUGCGUCcCCGa -3'
miRNA:   3'- gCGCUC-G--AGGCGCUCC-----AUGCAGaGGU- -5'
23812 3' -58.3 NC_005261.1 + 104171 0.68 0.692122
Target:  5'- cCGCGGGCgCCGCGcgcGGGU-CGUCgggcgggacggcgUCCAg -3'
miRNA:   3'- -GCGCUCGaGGCGC---UCCAuGCAG-------------AGGU- -5'
23812 3' -58.3 NC_005261.1 + 75081 0.68 0.683166
Target:  5'- gCGgGGGCUCgGCGGGcauCGUCUUCGg -3'
miRNA:   3'- -GCgCUCGAGgCGCUCcauGCAGAGGU- -5'
23812 3' -58.3 NC_005261.1 + 109326 0.79 0.18981
Target:  5'- cCGCGAGCgcggCCGCGGGGUcggcggccGCGUCgccgUCCAg -3'
miRNA:   3'- -GCGCUCGa---GGCGCUCCA--------UGCAG----AGGU- -5'
23812 3' -58.3 NC_005261.1 + 81911 0.68 0.677176
Target:  5'- aCGCGgccAGCUCCuccuUGAGGUGCGggagcaggcccacguUCUCCAc -3'
miRNA:   3'- -GCGC---UCGAGGc---GCUCCAUGC---------------AGAGGU- -5'
23812 3' -58.3 NC_005261.1 + 39232 0.68 0.673176
Target:  5'- uCGCGcGCgCCgGCGAGGUcuccggcgAgGUCUCCAg -3'
miRNA:   3'- -GCGCuCGaGG-CGCUCCA--------UgCAGAGGU- -5'
23812 3' -58.3 NC_005261.1 + 60360 0.69 0.660142
Target:  5'- gCGCGccaGGCagugcuuggucucgUUgGCGAGGUGCGcCUCCAu -3'
miRNA:   3'- -GCGC---UCG--------------AGgCGCUCCAUGCaGAGGU- -5'
23812 3' -58.3 NC_005261.1 + 98676 0.69 0.653107
Target:  5'- gGCGGGCUCCGCcggggccgGAGGcGCGg--CCGg -3'
miRNA:   3'- gCGCUCGAGGCG--------CUCCaUGCagaGGU- -5'
23812 3' -58.3 NC_005261.1 + 135747 0.69 0.643045
Target:  5'- gGCGcGCcucagCCGCGcGGUGCG-CUCCGg -3'
miRNA:   3'- gCGCuCGa----GGCGCuCCAUGCaGAGGU- -5'
23812 3' -58.3 NC_005261.1 + 76648 0.69 0.612838
Target:  5'- aCGCGAGCgcCUGCGAGGU-CGgcgCCGu -3'
miRNA:   3'- -GCGCUCGa-GGCGCUCCAuGCagaGGU- -5'
23812 3' -58.3 NC_005261.1 + 44879 0.7 0.572788
Target:  5'- cCGCGAGCgCCGCGGGG-AUGg--CCGg -3'
miRNA:   3'- -GCGCUCGaGGCGCUCCaUGCagaGGU- -5'
23812 3' -58.3 NC_005261.1 + 86198 0.7 0.572788
Target:  5'- aGCGGGCUCCGCGucGGcGCGcCgaaCCGg -3'
miRNA:   3'- gCGCUCGAGGCGCu-CCaUGCaGa--GGU- -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.