miRNA display CGI


Results 1 - 20 of 48 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
11852 3' -53.5 NC_003266.2 + 10341 0.66 0.728291
Target:  5'- aCGaCUGCgCGCGCCucacGGGccAGACCguGCCc -3'
miRNA:   3'- -GCaGAUG-GCGCGG----CUU--UUUGGguCGG- -5'
11852 3' -53.5 NC_003266.2 + 16074 0.66 0.717272
Target:  5'- gGUC-AUCGCGCCuGAGAucuacGGCCCcGCg -3'
miRNA:   3'- gCAGaUGGCGCGG-CUUU-----UUGGGuCGg -5'
11852 3' -53.5 NC_003266.2 + 12977 0.66 0.717272
Target:  5'- gCGcUCgacaugACCGCGCgCaacauGGAGCCCAGCa -3'
miRNA:   3'- -GC-AGa-----UGGCGCG-Gcu---UUUUGGGUCGg -5'
11852 3' -53.5 NC_003266.2 + 16947 0.66 0.717272
Target:  5'- cCGUCgucGCCGCacaGCUGAAcu-CCCGcuGCCg -3'
miRNA:   3'- -GCAGa--UGGCG---CGGCUUuuuGGGU--CGG- -5'
11852 3' -53.5 NC_003266.2 + 10053 0.66 0.717271
Target:  5'- gCGcCUAUCGCGCCucaaguaccacGAGcucgcgcGGCCCGGUCa -3'
miRNA:   3'- -GCaGAUGGCGCGG-----------CUUu------UUGGGUCGG- -5'
11852 3' -53.5 NC_003266.2 + 22115 0.66 0.706162
Target:  5'- gGUCUGCCG-GCCcaugguGGGCaCgCAGCCg -3'
miRNA:   3'- gCAGAUGGCgCGGcuu---UUUG-G-GUCGG- -5'
11852 3' -53.5 NC_003266.2 + 5811 0.66 0.706162
Target:  5'- aGUgUAggccaCGUGaCCGggGGuCCCGGCCg -3'
miRNA:   3'- gCAgAUg----GCGC-GGCuuUUuGGGUCGG- -5'
11852 3' -53.5 NC_003266.2 + 28215 0.66 0.706161
Target:  5'- uGUUUACCGUG-CGAagGAAGCCguCAGCa -3'
miRNA:   3'- gCAGAUGGCGCgGCU--UUUUGG--GUCGg -5'
11852 3' -53.5 NC_003266.2 + 22321 0.66 0.706161
Target:  5'- gGUCUucuucACCGagggaGCC--AAGGCCCAGCa -3'
miRNA:   3'- gCAGA-----UGGCg----CGGcuUUUUGGGUCGg -5'
11852 3' -53.5 NC_003266.2 + 13298 0.66 0.694974
Target:  5'- gGUgCUGCCGCaGCgGu---GCCCgaGGCCg -3'
miRNA:   3'- gCA-GAUGGCG-CGgCuuuuUGGG--UCGG- -5'
11852 3' -53.5 NC_003266.2 + 24040 0.66 0.683721
Target:  5'- gCGUUUGCgGC-CCGAGucucgugcuGCCCAGaCCc -3'
miRNA:   3'- -GCAGAUGgCGcGGCUUuu-------UGGGUC-GG- -5'
11852 3' -53.5 NC_003266.2 + 17138 0.66 0.683721
Target:  5'- ----aACCGCGCCGuAGAAGgCUGGCg -3'
miRNA:   3'- gcagaUGGCGCGGC-UUUUUgGGUCGg -5'
11852 3' -53.5 NC_003266.2 + 2150 0.66 0.683721
Target:  5'- aG-CUACUccucCGCCGGAGggUCCAGgCCg -3'
miRNA:   3'- gCaGAUGGc---GCGGCUUUuuGGGUC-GG- -5'
11852 3' -53.5 NC_003266.2 + 6649 0.66 0.682593
Target:  5'- aGUCaUACaacuCGUGCgagggggCGAGGAGCCCGGCUc -3'
miRNA:   3'- gCAG-AUG----GCGCG-------GCUUUUUGGGUCGG- -5'
11852 3' -53.5 NC_003266.2 + 9289 0.67 0.676943
Target:  5'- gGUCUcGCCGCGCCGGcgucgcaugguCUCGGUg -3'
miRNA:   3'- gCAGA-UGGCGCGGCUuuuu-------GGGUCGg -5'
11852 3' -53.5 NC_003266.2 + 26408 0.67 0.672415
Target:  5'- aGUCcuggGCgGCGCCGGc-GGCCaGGCCc -3'
miRNA:   3'- gCAGa---UGgCGCGGCUuuUUGGgUCGG- -5'
11852 3' -53.5 NC_003266.2 + 15450 0.67 0.669015
Target:  5'- gGUCUGCgCGCGCCcagcaagauguacgGAGGcGCUC-GCCa -3'
miRNA:   3'- gCAGAUG-GCGCGG--------------CUUUuUGGGuCGG- -5'
11852 3' -53.5 NC_003266.2 + 8527 0.67 0.661068
Target:  5'- --cCUGCCcgcgcgcgGCGCCGAcguGCCCcuGCCa -3'
miRNA:   3'- gcaGAUGG--------CGCGGCUuuuUGGGu-CGG- -5'
11852 3' -53.5 NC_003266.2 + 5370 0.67 0.649693
Target:  5'- aG-CU-CCGCGCC-AAAGGCCacgCGGCCg -3'
miRNA:   3'- gCaGAuGGCGCGGcUUUUUGG---GUCGG- -5'
11852 3' -53.5 NC_003266.2 + 11259 0.67 0.647416
Target:  5'- gGUCUGCuCGUacGCCGugaccagguuGGCCgCGGCCa -3'
miRNA:   3'- gCAGAUG-GCG--CGGCuuu-------UUGG-GUCGG- -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.