miRNA display CGI


Results 1 - 20 of 41 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
28334 3' -62.9 NC_005946.1 + 102300 0.67 0.4673
Target:  5'- gCCGugCAGGGCcCCGCacgCCaGGGCgUCa -3'
miRNA:   3'- -GGCugGUCCUGcGGCG---GGaCCCG-AGg -5'
28334 3' -62.9 NC_005946.1 + 98491 0.66 0.521921
Target:  5'- gCUGACUgggauggAGGugGCauaGUaCCaGGGCUCCa -3'
miRNA:   3'- -GGCUGG-------UCCugCGg--CG-GGaCCCGAGG- -5'
28334 3' -62.9 NC_005946.1 + 97885 0.66 0.532388
Target:  5'- uUGGCCGGGAgGa--CCCUGG-CUCCg -3'
miRNA:   3'- gGCUGGUCCUgCggcGGGACCcGAGG- -5'
28334 3' -62.9 NC_005946.1 + 97573 0.66 0.555473
Target:  5'- cCCGACCuGGGAacgccgaccgaaaacUGCUGCCCgaaagccGGGUUaCCc -3'
miRNA:   3'- -GGCUGG-UCCU---------------GCGGCGGGa------CCCGA-GG- -5'
28334 3' -62.9 NC_005946.1 + 97051 0.69 0.390136
Target:  5'- gCUGAgCAGGGCGuuGCUgcugCUGGGCa-- -3'
miRNA:   3'- -GGCUgGUCCUGCggCGG----GACCCGagg -5'
28334 3' -62.9 NC_005946.1 + 97009 0.69 0.371793
Target:  5'- gCUGAgCAGGGCGuuGCUgcugCUGGGCagggcgucucugagUCCa -3'
miRNA:   3'- -GGCUgGUCCUGCggCGG----GACCCG--------------AGG- -5'
28334 3' -62.9 NC_005946.1 + 95391 0.69 0.351021
Target:  5'- aCCGGCCaagaccgucaggGGGAcCGUCagGCCCagGGGCUUCg -3'
miRNA:   3'- -GGCUGG------------UCCU-GCGG--CGGGa-CCCGAGG- -5'
28334 3' -62.9 NC_005946.1 + 94452 0.71 0.268895
Target:  5'- aCCGGcCCAGaGuaccuCGCCGCCCUggugaGGGC-CCu -3'
miRNA:   3'- -GGCU-GGUC-Cu----GCGGCGGGA-----CCCGaGG- -5'
28334 3' -62.9 NC_005946.1 + 94138 0.67 0.503102
Target:  5'- cCUGACCgccaagAGGACGCCugaacugGCUCUGucCUCCa -3'
miRNA:   3'- -GGCUGG------UCCUGCGG-------CGGGACccGAGG- -5'
28334 3' -62.9 NC_005946.1 + 90460 0.66 0.513417
Target:  5'- aCGACCAacccucucucuGGGCGCagGCUUUGGGCa-- -3'
miRNA:   3'- gGCUGGU-----------CCUGCGg-CGGGACCCGagg -5'
28334 3' -62.9 NC_005946.1 + 79449 0.75 0.155345
Target:  5'- -gGGCCGGGugGaCGCuCCUGGGCUggaCCa -3'
miRNA:   3'- ggCUGGUCCugCgGCG-GGACCCGA---GG- -5'
28334 3' -62.9 NC_005946.1 + 78589 0.66 0.551604
Target:  5'- aCCGACCccGAgGCCGUCuUUGaGGCcauUCCg -3'
miRNA:   3'- -GGCUGGucCUgCGGCGG-GAC-CCG---AGG- -5'
28334 3' -62.9 NC_005946.1 + 75034 0.69 0.364003
Target:  5'- aCGACCGGGugaGCgGCCGCCaggucguaacccgcGGCUCCa -3'
miRNA:   3'- gGCUGGUCC---UG-CGGCGGgac-----------CCGAGG- -5'
28334 3' -62.9 NC_005946.1 + 73436 0.67 0.494729
Target:  5'- uCgGGCCucuguggaagAGGAcCGCaaCGCCaaGGGCUCCa -3'
miRNA:   3'- -GgCUGG----------UCCU-GCG--GCGGgaCCCGAGG- -5'
28334 3' -62.9 NC_005946.1 + 73259 0.69 0.393386
Target:  5'- cCUGGCCAacaagaggguGGACGCCaccgggccccucaucGCCUUccuccuggacGGGCUCCu -3'
miRNA:   3'- -GGCUGGU----------CCUGCGG---------------CGGGA----------CCCGAGG- -5'
28334 3' -62.9 NC_005946.1 + 68600 0.67 0.476358
Target:  5'- aCGACguGGGCGCCuauguaGUCUUcgucGGGCUCg -3'
miRNA:   3'- gGCUGguCCUGCGG------CGGGA----CCCGAGg -5'
28334 3' -62.9 NC_005946.1 + 67891 0.71 0.281427
Target:  5'- cUCGGCCAGGACcuCCGCCUcgGGGUagUCa -3'
miRNA:   3'- -GGCUGGUCCUGc-GGCGGGa-CCCG--AGg -5'
28334 3' -62.9 NC_005946.1 + 67509 0.7 0.336174
Target:  5'- uUGACCAGGACGUCugagGCCUUucGGGCgucgaaCCa -3'
miRNA:   3'- gGCUGGUCCUGCGG----CGGGA--CCCGa-----GG- -5'
28334 3' -62.9 NC_005946.1 + 63194 0.66 0.541967
Target:  5'- gCGucCCGGGGCcauGCUGCCCagGGGUUUg -3'
miRNA:   3'- gGCu-GGUCCUG---CGGCGGGa-CCCGAGg -5'
28334 3' -62.9 NC_005946.1 + 61475 0.86 0.028256
Target:  5'- cCCGAgaGGGACGCCGCCCUGGccgacaggauGCUCCu -3'
miRNA:   3'- -GGCUggUCCUGCGGCGGGACC----------CGAGG- -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.