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
18440 3' -51.9 NC_004681.1 + 37287 0.66 0.930221
Target:  5'- uCCAGGUUGCgccgGGUcagcUCCAgGAUggGCUUg -3'
miRNA:   3'- -GGUUCGACG----UCA----AGGUgCUGuaCGAG- -5'
18440 3' -51.9 NC_004681.1 + 41192 0.66 0.918432
Target:  5'- gUCAAGCUGCGccugcGUaUCCagucgauuACGuACGUGCUCc -3'
miRNA:   3'- -GGUUCGACGU-----CA-AGG--------UGC-UGUACGAG- -5'
18440 3' -51.9 NC_004681.1 + 18388 0.66 0.918432
Target:  5'- gCCAGGCgGCGG--CCGCGGCG-GCa- -3'
miRNA:   3'- -GGUUCGaCGUCaaGGUGCUGUaCGag -5'
18440 3' -51.9 NC_004681.1 + 17879 0.66 0.912116
Target:  5'- gUggGCUGCGGaaccUCCAUGAgGUuCUCg -3'
miRNA:   3'- gGuuCGACGUCa---AGGUGCUgUAcGAG- -5'
18440 3' -51.9 NC_004681.1 + 28510 0.66 0.912116
Target:  5'- cCCGGGCacccccGCGGUcaucUCCACGGCAaaccaGUUCa -3'
miRNA:   3'- -GGUUCGa-----CGUCA----AGGUGCUGUa----CGAG- -5'
18440 3' -51.9 NC_004681.1 + 30720 0.66 0.90552
Target:  5'- cCCAcauGUgggGCgAGcUCgACGGCAUGCUCa -3'
miRNA:   3'- -GGUu--CGa--CG-UCaAGgUGCUGUACGAG- -5'
18440 3' -51.9 NC_004681.1 + 51556 0.66 0.90552
Target:  5'- cCCAAGCUGgcCAGUUCCucucCGAgGUGg-- -3'
miRNA:   3'- -GGUUCGAC--GUCAAGGu---GCUgUACgag -5'
18440 3' -51.9 NC_004681.1 + 30582 0.67 0.898648
Target:  5'- gCAAGCgccaagGCGGUUCgCugccugACGGCGUGCg- -3'
miRNA:   3'- gGUUCGa-----CGUCAAG-G------UGCUGUACGag -5'
18440 3' -51.9 NC_004681.1 + 55083 0.67 0.891503
Target:  5'- gCCGAGCuUGCGccacaugUCCACGACcUGUUg -3'
miRNA:   3'- -GGUUCG-ACGUca-----AGGUGCUGuACGAg -5'
18440 3' -51.9 NC_004681.1 + 61093 0.67 0.876413
Target:  5'- cCCGAGCUGCGGUUcacCCAaggugGGCAgGCcgUCg -3'
miRNA:   3'- -GGUUCGACGUCAA---GGUg----CUGUaCG--AG- -5'
18440 3' -51.9 NC_004681.1 + 4320 0.67 0.876413
Target:  5'- aCCucGCUGCAcga-CGCGAUuuGUGCUCg -3'
miRNA:   3'- -GGuuCGACGUcaagGUGCUG--UACGAG- -5'
18440 3' -51.9 NC_004681.1 + 46432 0.67 0.868479
Target:  5'- cCCAAccGC-GCAGguucCCGCGGCcUGCUCc -3'
miRNA:   3'- -GGUU--CGaCGUCaa--GGUGCUGuACGAG- -5'
18440 3' -51.9 NC_004681.1 + 61771 0.67 0.868479
Target:  5'- aCCucGGCgGCGGccUCCGCGGCGgcgGCUUc -3'
miRNA:   3'- -GGu-UCGaCGUCa-AGGUGCUGUa--CGAG- -5'
18440 3' -51.9 NC_004681.1 + 51174 0.68 0.860294
Target:  5'- gCCGAGUcaGCAGUccUCgGCGcCAUGCUUc -3'
miRNA:   3'- -GGUUCGa-CGUCA--AGgUGCuGUACGAG- -5'
18440 3' -51.9 NC_004681.1 + 2740 0.68 0.860294
Target:  5'- cCCGGGCUagGguGccgUCCGCGGCGUGaaCg -3'
miRNA:   3'- -GGUUCGA--CguCa--AGGUGCUGUACgaG- -5'
18440 3' -51.9 NC_004681.1 + 46707 0.68 0.843205
Target:  5'- aCGAGCaGCAGcacuucaacUUCCGCGGCAUcgacGCUg -3'
miRNA:   3'- gGUUCGaCGUC---------AAGGUGCUGUA----CGAg -5'
18440 3' -51.9 NC_004681.1 + 8841 0.68 0.843205
Target:  5'- cCCGAGCUGUucaacuucgUCCAgGGCcgccUGCUCg -3'
miRNA:   3'- -GGUUCGACGuca------AGGUgCUGu---ACGAG- -5'
18440 3' -51.9 NC_004681.1 + 45042 0.68 0.834317
Target:  5'- cCCGAGCUcGCGGUggcggcUCCACcgcgugggGGCGaGCUCu -3'
miRNA:   3'- -GGUUCGA-CGUCA------AGGUG--------CUGUaCGAG- -5'
18440 3' -51.9 NC_004681.1 + 29563 0.69 0.806391
Target:  5'- gCCAAGUggGCAGUgaUCUACGAgGUGggCg -3'
miRNA:   3'- -GGUUCGa-CGUCA--AGGUGCUgUACgaG- -5'
18440 3' -51.9 NC_004681.1 + 48544 0.69 0.806391
Target:  5'- -aAGGCUuCGGUUCU--GACAUGCUCa -3'
miRNA:   3'- ggUUCGAcGUCAAGGugCUGUACGAG- -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.