miRNA display CGI


Results 1 - 20 of 27 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
1843 3' -63.8 NC_001347.2 + 94254 0.66 0.68591
Target:  5'- cCGCgCCCgGUGcCCGGCccacGGcCCCGGa -3'
miRNA:   3'- -GCGgGGGgUAC-GGCCGu---CUuGGGCCa -5'
1843 3' -63.8 NC_001347.2 + 63025 0.66 0.68591
Target:  5'- aCGCCCCacuUGCUGuGCAGGuCCCGa- -3'
miRNA:   3'- -GCGGGGgguACGGC-CGUCUuGGGCca -5'
1843 3' -63.8 NC_001347.2 + 73620 0.66 0.68591
Target:  5'- cCGCCaCCCAUGgCGGCGGGuCgUGGc -3'
miRNA:   3'- -GCGGgGGGUACgGCCGUCUuGgGCCa -5'
1843 3' -63.8 NC_001347.2 + 173418 0.66 0.676524
Target:  5'- aCGagaaCCCCgagaaaAUGuCCuGGCAGAACUCGGUa -3'
miRNA:   3'- -GCg---GGGGg-----UAC-GG-CCGUCUUGGGCCA- -5'
1843 3' -63.8 NC_001347.2 + 94377 0.66 0.676524
Target:  5'- gGuCCCCCCggGCCacGGaCGGGAaccgggacCCCGGUg -3'
miRNA:   3'- gC-GGGGGGuaCGG--CC-GUCUU--------GGGCCA- -5'
1843 3' -63.8 NC_001347.2 + 229385 0.66 0.672761
Target:  5'- gCGCCCCCCGccccuuggucgcgGCC-GCGGGGCCggaGGg -3'
miRNA:   3'- -GCGGGGGGUa------------CGGcCGUCUUGGg--CCa -5'
1843 3' -63.8 NC_001347.2 + 148573 0.66 0.667108
Target:  5'- --aCCUCCAgcuUGCCGGCcGAGCCCa-- -3'
miRNA:   3'- gcgGGGGGU---ACGGCCGuCUUGGGcca -5'
1843 3' -63.8 NC_001347.2 + 117108 0.66 0.667108
Target:  5'- gCGCgCCCCAgccGCCGGCGuGGcgGCCUGa- -3'
miRNA:   3'- -GCGgGGGGUa--CGGCCGU-CU--UGGGCca -5'
1843 3' -63.8 NC_001347.2 + 151589 0.66 0.655776
Target:  5'- gCGCCCuUCCGUccGCUGGCGGuggaagacaaccGCCUGGUg -3'
miRNA:   3'- -GCGGG-GGGUA--CGGCCGUCu-----------UGGGCCA- -5'
1843 3' -63.8 NC_001347.2 + 192172 0.67 0.629264
Target:  5'- uGCCCgUCCA-GCgGGCAGuACCCGa- -3'
miRNA:   3'- gCGGG-GGGUaCGgCCGUCuUGGGCca -5'
1843 3' -63.8 NC_001347.2 + 120627 0.67 0.619792
Target:  5'- gGCCgCCCUGgcagGCCGGCAuccuggcccGcAACCUGGUg -3'
miRNA:   3'- gCGG-GGGGUa---CGGCCGU---------C-UUGGGCCA- -5'
1843 3' -63.8 NC_001347.2 + 61988 0.67 0.610328
Target:  5'- cCGCCCUUCuUGCC-GCGGcGCUCGGUc -3'
miRNA:   3'- -GCGGGGGGuACGGcCGUCuUGGGCCA- -5'
1843 3' -63.8 NC_001347.2 + 94532 0.67 0.590506
Target:  5'- aGCCCCCCGUGggGGgAGGGgaagggcgcggacCCCGGg -3'
miRNA:   3'- gCGGGGGGUACggCCgUCUU-------------GGGCCa -5'
1843 3' -63.8 NC_001347.2 + 22578 0.67 0.588623
Target:  5'- gGCUuuugaCCCCA-GUCGGUaccuacgucagcauGGAGCCCGGUg -3'
miRNA:   3'- gCGG-----GGGGUaCGGCCG--------------UCUUGGGCCA- -5'
1843 3' -63.8 NC_001347.2 + 191980 0.68 0.572669
Target:  5'- gCGCCCCC---GCCGGCGGcGCCguaCGGc -3'
miRNA:   3'- -GCGGGGGguaCGGCCGUCuUGG---GCCa -5'
1843 3' -63.8 NC_001347.2 + 33842 0.68 0.572669
Target:  5'- cCGCCaCCUCAcgGCCGGCGacguGGCCCGcGUc -3'
miRNA:   3'- -GCGG-GGGGUa-CGGCCGUc---UUGGGC-CA- -5'
1843 3' -63.8 NC_001347.2 + 4701 0.68 0.563331
Target:  5'- aGCCgCCCGUgGCCGGgAGAAgaCGGa -3'
miRNA:   3'- gCGGgGGGUA-CGGCCgUCUUggGCCa -5'
1843 3' -63.8 NC_001347.2 + 113394 0.68 0.526438
Target:  5'- gCGCCCCCCGggcaacccgccGCCGGCuacggcauccGAACCCa-- -3'
miRNA:   3'- -GCGGGGGGUa----------CGGCCGu---------CUUGGGcca -5'
1843 3' -63.8 NC_001347.2 + 65469 0.69 0.499373
Target:  5'- aGCggCCCAggGCCGGCAGGGCCCc-- -3'
miRNA:   3'- gCGggGGGUa-CGGCCGUCUUGGGcca -5'
1843 3' -63.8 NC_001347.2 + 151865 0.69 0.499373
Target:  5'- cCGCCgCCaCCcgGcCCGGCGGcGCCCGa- -3'
miRNA:   3'- -GCGG-GG-GGuaC-GGCCGUCuUGGGCca -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.