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
1520 3' -57.3 NC_001335.1 + 12644 0.66 0.624897
Target:  5'- uCCuuGGCCcacaacgUCacaacgUCUUCGGCGGUCg -3'
miRNA:   3'- -GGugCCGGaaca---AG------AGGAGCCGCCAG- -5'
1520 3' -57.3 NC_001335.1 + 24512 0.66 0.624897
Target:  5'- cUCGgGGcCCUUGUUCaUCUUCGuaCGGUCc -3'
miRNA:   3'- -GGUgCC-GGAACAAG-AGGAGCc-GCCAG- -5'
1520 3' -57.3 NC_001335.1 + 32135 0.66 0.603257
Target:  5'- aUCugGGCCacgagagcgUGUUCgagcacgCCUCGGCGa-- -3'
miRNA:   3'- -GGugCCGGa--------ACAAGa------GGAGCCGCcag -5'
1520 3' -57.3 NC_001335.1 + 14707 0.66 0.592469
Target:  5'- gCACGGCCU---UCUCgUUGGUcuggccGGUCu -3'
miRNA:   3'- gGUGCCGGAacaAGAGgAGCCG------CCAG- -5'
1520 3' -57.3 NC_001335.1 + 16398 0.66 0.592469
Target:  5'- -aGCGGCCUUGaccgUCUCCagcgUCGGgGcagcGUCg -3'
miRNA:   3'- ggUGCCGGAACa---AGAGG----AGCCgC----CAG- -5'
1520 3' -57.3 NC_001335.1 + 32910 0.66 0.58064
Target:  5'- aCgACGGCCUcggcugcUGUgcgcgaCUCgaUGGCGGUCc -3'
miRNA:   3'- -GgUGCCGGA-------ACAa-----GAGgaGCCGCCAG- -5'
1520 3' -57.3 NC_001335.1 + 38532 0.67 0.539172
Target:  5'- gCACaGGCaCUUGUUC-CaCUCguGGUGGUCa -3'
miRNA:   3'- gGUG-CCG-GAACAAGaG-GAG--CCGCCAG- -5'
1520 3' -57.3 NC_001335.1 + 9884 0.67 0.518291
Target:  5'- uCgAUGGCCggcUGUgg-CUUCGGCGGUg -3'
miRNA:   3'- -GgUGCCGGa--ACAagaGGAGCCGCCAg -5'
1520 3' -57.3 NC_001335.1 + 1970 0.67 0.518291
Target:  5'- aCACcGCCUgcaUGUUCUCUUCGcG-GGUCu -3'
miRNA:   3'- gGUGcCGGA---ACAAGAGGAGC-CgCCAG- -5'
1520 3' -57.3 NC_001335.1 + 44322 0.68 0.507971
Target:  5'- gCCACGaCCagaggaGUUCacCCUCGGCGGUg -3'
miRNA:   3'- -GGUGCcGGaa----CAAGa-GGAGCCGCCAg -5'
1520 3' -57.3 NC_001335.1 + 45583 0.68 0.477561
Target:  5'- uUCACcuccGCUUUGUaguUCaUCUCGGCGGUCu -3'
miRNA:   3'- -GGUGc---CGGAACA---AGaGGAGCCGCCAG- -5'
1520 3' -57.3 NC_001335.1 + 40608 0.68 0.467624
Target:  5'- -aGCGGCCUUgcugacGUUCUCCgaugcgacgUCGGCG-UCg -3'
miRNA:   3'- ggUGCCGGAA------CAAGAGG---------AGCCGCcAG- -5'
1520 3' -57.3 NC_001335.1 + 3666 0.68 0.461713
Target:  5'- uUCGCGGCCUUGUUgaucguguugaccaaCUgCUCGGUGa-- -3'
miRNA:   3'- -GGUGCCGGAACAA---------------GAgGAGCCGCcag -5'
1520 3' -57.3 NC_001335.1 + 428 0.71 0.341246
Target:  5'- gCGCGGCCUUGagaUCC--GGCGGUUg -3'
miRNA:   3'- gGUGCCGGAACaagAGGagCCGCCAG- -5'
1520 3' -57.3 NC_001335.1 + 12602 0.71 0.317579
Target:  5'- gCCACGGguuacuccucguUCUUGggCUCCUCaggaGCGGUCu -3'
miRNA:   3'- -GGUGCC------------GGAACaaGAGGAGc---CGCCAG- -5'
1520 3' -57.3 NC_001335.1 + 9940 0.72 0.295169
Target:  5'- aUCGCGGCUUgagccgccgcGUaCUCCUCuGCGGUCa -3'
miRNA:   3'- -GGUGCCGGAa---------CAaGAGGAGcCGCCAG- -5'
1520 3' -57.3 NC_001335.1 + 44625 0.72 0.267231
Target:  5'- cCCACGGCCa-GUUCUgCUggacgaucugccUGGUGGUCa -3'
miRNA:   3'- -GGUGCCGGaaCAAGAgGA------------GCCGCCAG- -5'
1520 3' -57.3 NC_001335.1 + 37413 0.73 0.229383
Target:  5'- uCCugGGCUcgcUGUccguugaugaUCUCUUCGGCGGUg -3'
miRNA:   3'- -GGugCCGGa--ACA----------AGAGGAGCCGCCAg -5'
1520 3' -57.3 NC_001335.1 + 12076 0.75 0.17642
Target:  5'- -aACGGgC-UGUUCUCCUCGGUguaGGUCg -3'
miRNA:   3'- ggUGCCgGaACAAGAGGAGCCG---CCAG- -5'
1520 3' -57.3 NC_001335.1 + 35977 0.76 0.167225
Target:  5'- cCCACaGCuCUUGgaugaUCUCCUCGGCuGUCa -3'
miRNA:   3'- -GGUGcCG-GAACa----AGAGGAGCCGcCAG- -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.