miRNA display CGI


Results 1 - 20 of 22 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
28559 5' -54.4 NC_005946.1 + 36016 0.66 0.912355
Target:  5'- uCCCUGGccucaUACggaGUgGCCUCCAgggCCUc -3'
miRNA:   3'- -GGGACC-----AUGauaCGgUGGAGGUa--GGG- -5'
28559 5' -54.4 NC_005946.1 + 62155 0.66 0.912355
Target:  5'- gUCCUGGg---AUGCaaacCGCCUCCcgCUCa -3'
miRNA:   3'- -GGGACCaugaUACG----GUGGAGGuaGGG- -5'
28559 5' -54.4 NC_005946.1 + 86239 0.66 0.911129
Target:  5'- cCCCagGGaGCUcaccaucUGCaugacacccagaGCCUCCAUCCCg -3'
miRNA:   3'- -GGGa-CCaUGAu------ACGg-----------UGGAGGUAGGG- -5'
28559 5' -54.4 NC_005946.1 + 98160 0.66 0.906126
Target:  5'- uCCCUG--ACUGUGCUGCucauggccuguCUCuCGUCCCc -3'
miRNA:   3'- -GGGACcaUGAUACGGUG-----------GAG-GUAGGG- -5'
28559 5' -54.4 NC_005946.1 + 102010 0.66 0.899649
Target:  5'- gCUCgGGgGCc-UGCuCGCCUCCGUCCUu -3'
miRNA:   3'- -GGGaCCaUGauACG-GUGGAGGUAGGG- -5'
28559 5' -54.4 NC_005946.1 + 41502 0.67 0.885962
Target:  5'- cCCUUGGacCUGUGCCGCCaCgGggaCCCg -3'
miRNA:   3'- -GGGACCauGAUACGGUGGaGgUa--GGG- -5'
28559 5' -54.4 NC_005946.1 + 44862 0.67 0.871328
Target:  5'- aCCCUGGUcCUGUggacauagGCCG-CUCCAaUCUCu -3'
miRNA:   3'- -GGGACCAuGAUA--------CGGUgGAGGU-AGGG- -5'
28559 5' -54.4 NC_005946.1 + 56338 0.67 0.871328
Target:  5'- gCCUGGaggACgcUGCCcugguccucGCgUCCAUCCUg -3'
miRNA:   3'- gGGACCa--UGauACGG---------UGgAGGUAGGG- -5'
28559 5' -54.4 NC_005946.1 + 28754 0.67 0.871328
Target:  5'- uUCUGGUAg---GCCauggugGCCUCCAUCaCCu -3'
miRNA:   3'- gGGACCAUgauaCGG------UGGAGGUAG-GG- -5'
28559 5' -54.4 NC_005946.1 + 5826 0.67 0.862889
Target:  5'- aCUCUGGgaaggggGgUAUGCCACaacagcuCUCCAgagUCCCc -3'
miRNA:   3'- -GGGACCa------UgAUACGGUG-------GAGGU---AGGG- -5'
28559 5' -54.4 NC_005946.1 + 42188 0.68 0.847691
Target:  5'- aCCCUGGggccACUcggGCCACUcgggCCcacGUCCCc -3'
miRNA:   3'- -GGGACCa---UGAua-CGGUGGa---GG---UAGGG- -5'
28559 5' -54.4 NC_005946.1 + 23721 0.68 0.839389
Target:  5'- aCCCUGuccagGCUAaagucUGCgGCCUCCAUggCCUg -3'
miRNA:   3'- -GGGACca---UGAU-----ACGgUGGAGGUA--GGG- -5'
28559 5' -54.4 NC_005946.1 + 45084 0.68 0.822196
Target:  5'- gCCCUGGcACagGUGCCucuGCCUCUcUgCCg -3'
miRNA:   3'- -GGGACCaUGa-UACGG---UGGAGGuAgGG- -5'
28559 5' -54.4 NC_005946.1 + 4676 0.68 0.804273
Target:  5'- gCCCaugugguaaaUGGUGUUGUccaGCCACCUCCuGUCCa -3'
miRNA:   3'- -GGG----------ACCAUGAUA---CGGUGGAGG-UAGGg -5'
28559 5' -54.4 NC_005946.1 + 69385 0.69 0.78569
Target:  5'- gCCUUGGccACg--GCCACCgCCuuGUCCCa -3'
miRNA:   3'- -GGGACCa-UGauaCGGUGGaGG--UAGGG- -5'
28559 5' -54.4 NC_005946.1 + 81659 0.69 0.766523
Target:  5'- gCCCUGGacgACUAUGCCGCaaagAUCaCCa -3'
miRNA:   3'- -GGGACCa--UGAUACGGUGgaggUAG-GG- -5'
28559 5' -54.4 NC_005946.1 + 13568 0.7 0.736851
Target:  5'- aCCUGGUGagg-GUgGCCUCguCAUCCCc -3'
miRNA:   3'- gGGACCAUgauaCGgUGGAG--GUAGGG- -5'
28559 5' -54.4 NC_005946.1 + 52943 0.71 0.685603
Target:  5'- uCCCUGGgcgcgaUGCUGUccGCUcccgucgugagaGCCUCCGcUCCCg -3'
miRNA:   3'- -GGGACC------AUGAUA--CGG------------UGGAGGU-AGGG- -5'
28559 5' -54.4 NC_005946.1 + 68420 0.71 0.654214
Target:  5'- aCCCUGcacACUuuUGCCAUCUCUgugaGUCCCa -3'
miRNA:   3'- -GGGACca-UGAu-ACGGUGGAGG----UAGGG- -5'
28559 5' -54.4 NC_005946.1 + 94383 0.72 0.61214
Target:  5'- gCCCUGGcguacACUGUgGCCAgagCCGUCCCa -3'
miRNA:   3'- -GGGACCa----UGAUA-CGGUggaGGUAGGG- -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.