miRNA display CGI


Results 1 - 20 of 59 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
25753 3' -56.6 NC_005337.1 + 61072 0.66 0.897304
Target:  5'- uGGUGuuGAGcCGGUGcaGCUCGGcgacGAGGCGg -3'
miRNA:   3'- gCCAC--CUU-GCCGC--UGAGCUu---CUCCGC- -5'
25753 3' -56.6 NC_005337.1 + 65532 0.66 0.897304
Target:  5'- uGGUGc-GCGuGCG-CUCGAAaGAGGUGa -3'
miRNA:   3'- gCCACcuUGC-CGCuGAGCUU-CUCCGC- -5'
25753 3' -56.6 NC_005337.1 + 76526 0.66 0.890743
Target:  5'- uGGUGGAACcGCGGgUCGucGuaguugaugaAGGCGc -3'
miRNA:   3'- gCCACCUUGcCGCUgAGCuuC----------UCCGC- -5'
25753 3' -56.6 NC_005337.1 + 36069 0.66 0.890743
Target:  5'- aGG-GGAACuGGCGGuggUCGAAGuGGUGc -3'
miRNA:   3'- gCCaCCUUG-CCGCUg--AGCUUCuCCGC- -5'
25753 3' -56.6 NC_005337.1 + 108722 0.66 0.876956
Target:  5'- aGGUGGGGuCGGCGGacaUCGGAuucucGcGGCGc -3'
miRNA:   3'- gCCACCUU-GCCGCUg--AGCUU-----CuCCGC- -5'
25753 3' -56.6 NC_005337.1 + 84029 0.66 0.87265
Target:  5'- gCGGcGGGAcacacCGGCgGAggcgcgcacgacgccCUCGggGAGGCGc -3'
miRNA:   3'- -GCCaCCUU-----GCCG-CU---------------GAGCuuCUCCGC- -5'
25753 3' -56.6 NC_005337.1 + 83868 0.66 0.869738
Target:  5'- gGGccuUGGcGACGGUGAC-CGAGG-GGCa -3'
miRNA:   3'- gCC---ACC-UUGCCGCUGaGCUUCuCCGc -5'
25753 3' -56.6 NC_005337.1 + 29275 0.67 0.854677
Target:  5'- uCGGgGGcAGCGGgGGCUUGGAGAG-Ca -3'
miRNA:   3'- -GCCaCC-UUGCCgCUGAGCUUCUCcGc -5'
25753 3' -56.6 NC_005337.1 + 93329 0.67 0.854677
Target:  5'- cCGGaaGAuCGGCGGCgggaggUCGAGGAGGuCGa -3'
miRNA:   3'- -GCCacCUuGCCGCUG------AGCUUCUCC-GC- -5'
25753 3' -56.6 NC_005337.1 + 93472 0.67 0.853903
Target:  5'- cCGGcgGGAACGuggugguGCGcCUCGGAGAcGCGg -3'
miRNA:   3'- -GCCa-CCUUGC-------CGCuGAGCUUCUcCGC- -5'
25753 3' -56.6 NC_005337.1 + 119825 0.67 0.830619
Target:  5'- gGGUGGcagcGCGGCG-CUCGGuacccggcgccAGcGGCGg -3'
miRNA:   3'- gCCACCu---UGCCGCuGAGCU-----------UCuCCGC- -5'
25753 3' -56.6 NC_005337.1 + 55044 0.67 0.830619
Target:  5'- -cGUGGAGCGGCuGCUgGAGGAcauGGUc -3'
miRNA:   3'- gcCACCUUGCCGcUGAgCUUCU---CCGc -5'
25753 3' -56.6 NC_005337.1 + 333 0.67 0.829788
Target:  5'- aCGGacgcacGGACGGgcUGACUCGAgaacucgGGAGGCGg -3'
miRNA:   3'- -GCCac----CUUGCC--GCUGAGCU-------UCUCCGC- -5'
25753 3' -56.6 NC_005337.1 + 211 0.67 0.829788
Target:  5'- aCGGacgcacGGACGGgcUGACUCGAgaacucgGGAGGCGg -3'
miRNA:   3'- -GCCac----CUUGCC--GCUGAGCU-------UCUCCGC- -5'
25753 3' -56.6 NC_005337.1 + 36 0.67 0.829788
Target:  5'- aCGGacgcacGGACGGgcUGACUCGAgaacucgGGAGGCGg -3'
miRNA:   3'- -GCCac----CUUGCC--GCUGAGCU-------UCUCCGC- -5'
25753 3' -56.6 NC_005337.1 + 394 0.67 0.829788
Target:  5'- aCGGacgcacGGACGGgcUGACUCGAgaacucgGGAGGCGg -3'
miRNA:   3'- -GCCac----CUUGCC--GCUGAGCU-------UCUCCGC- -5'
25753 3' -56.6 NC_005337.1 + 150 0.67 0.829788
Target:  5'- aCGGacgcacGGACGGgcUGACUCGAgaacucgGGAGGCGg -3'
miRNA:   3'- -GCCac----CUUGCC--GCUGAGCU-------UCUCCGC- -5'
25753 3' -56.6 NC_005337.1 + 36 0.67 0.829788
Target:  5'- aCGGacgcacGGACGGgcUGACUCGAgaacucgGGAGGCGg -3'
miRNA:   3'- -GCCac----CUUGCC--GCUGAGCU-------UCUCCGC- -5'
25753 3' -56.6 NC_005337.1 + 89 0.67 0.829788
Target:  5'- aCGGacgcacGGACGGgcUGACUCGAgaacucgGGAGGCGg -3'
miRNA:   3'- -GCCac----CUUGCC--GCUGAGCU-------UCUCCGC- -5'
25753 3' -56.6 NC_005337.1 + 150 0.67 0.829788
Target:  5'- aCGGacgcacGGACGGgcUGACUCGAgaacucgGGAGGCGg -3'
miRNA:   3'- -GCCac----CUUGCC--GCUGAGCU-------UCUCCGC- -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.