miRNA display CGI


Results 1 - 20 of 66 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
10330 3' -53.2 NC_002687.1 + 61095 0.65 0.998127
Target:  5'- gUGCuGCCGAucugcuaaacgaaaGCUau--CGugGCCAUCGu -3'
miRNA:   3'- -ACG-CGGCU--------------UGAacauGCugCGGUAGC- -5'
10330 3' -53.2 NC_002687.1 + 170936 0.66 0.997895
Target:  5'- gGCGCa-AGCUUGUcucCGGCGCCuUCu -3'
miRNA:   3'- aCGCGgcUUGAACAu--GCUGCGGuAGc -5'
10330 3' -53.2 NC_002687.1 + 249542 0.66 0.997752
Target:  5'- gGCGUCGGACggagaaagaaGCGuccaauCGCCGUCGg -3'
miRNA:   3'- aCGCGGCUUGaaca------UGCu-----GCGGUAGC- -5'
10330 3' -53.2 NC_002687.1 + 3154 0.66 0.997678
Target:  5'- cGaCGCCGGugucauagacACggaugguacggcccUGUGCGAUGCUAUCGa -3'
miRNA:   3'- aC-GCGGCU----------UGa-------------ACAUGCUGCGGUAGC- -5'
10330 3' -53.2 NC_002687.1 + 30463 0.66 0.997522
Target:  5'- cGCGCCacgggucuGAGgUUGUGCGACggGCCGa-- -3'
miRNA:   3'- aCGCGG--------CUUgAACAUGCUG--CGGUagc -5'
10330 3' -53.2 NC_002687.1 + 315798 0.66 0.997522
Target:  5'- aUGUGUCGGACgacgUGUcggaGAUGuCCAUCGu -3'
miRNA:   3'- -ACGCGGCUUGa---ACAug--CUGC-GGUAGC- -5'
10330 3' -53.2 NC_002687.1 + 277502 0.66 0.997522
Target:  5'- cGCGCUGc-CUcGU-CGGCGgCCAUCGg -3'
miRNA:   3'- aCGCGGCuuGAaCAuGCUGC-GGUAGC- -5'
10330 3' -53.2 NC_002687.1 + 227298 0.66 0.997522
Target:  5'- gGCaGCCGAcggagccgACggg-GCGACGCCcgCGa -3'
miRNA:   3'- aCG-CGGCU--------UGaacaUGCUGCGGuaGC- -5'
10330 3' -53.2 NC_002687.1 + 88127 0.66 0.997096
Target:  5'- cUGCcaCCGAGC-UGUuCGGCGCCgAUCa -3'
miRNA:   3'- -ACGc-GGCUUGaACAuGCUGCGG-UAGc -5'
10330 3' -53.2 NC_002687.1 + 127062 0.66 0.997096
Target:  5'- aGUaGCCGGAgUcGUG-GGCGCCAUCa -3'
miRNA:   3'- aCG-CGGCUUgAaCAUgCUGCGGUAGc -5'
10330 3' -53.2 NC_002687.1 + 215879 0.66 0.997096
Target:  5'- ---aUCGAACUUGUcuucACGACGCUcuAUCGg -3'
miRNA:   3'- acgcGGCUUGAACA----UGCUGCGG--UAGC- -5'
10330 3' -53.2 NC_002687.1 + 226509 0.66 0.997096
Target:  5'- gGCGCCGcuggGACUg--AUGGCGCCGcUGg -3'
miRNA:   3'- aCGCGGC----UUGAacaUGCUGCGGUaGC- -5'
10330 3' -53.2 NC_002687.1 + 296887 0.66 0.996611
Target:  5'- gGCGuuGGGCaUGUuaccccgguaaGCGACGCCccgacggccAUCGa -3'
miRNA:   3'- aCGCggCUUGaACA-----------UGCUGCGG---------UAGC- -5'
10330 3' -53.2 NC_002687.1 + 329777 0.66 0.996611
Target:  5'- cUGCGCCGAgGCgugcccgGUgGCGugGCCGg-- -3'
miRNA:   3'- -ACGCGGCU-UGaa-----CA-UGCugCGGUagc -5'
10330 3' -53.2 NC_002687.1 + 94183 0.66 0.996611
Target:  5'- cGUcCCGAGgaUGUACGGCGUCAacuUCa -3'
miRNA:   3'- aCGcGGCUUgaACAUGCUGCGGU---AGc -5'
10330 3' -53.2 NC_002687.1 + 170420 0.66 0.996061
Target:  5'- gGCGUCGGuuGCUguagACGACGaCAUCGc -3'
miRNA:   3'- aCGCGGCU--UGAaca-UGCUGCgGUAGC- -5'
10330 3' -53.2 NC_002687.1 + 21396 0.67 0.995439
Target:  5'- gGUGCCGAGCgcaaGUACGauuauaGCGCUA-CGa -3'
miRNA:   3'- aCGCGGCUUGaa--CAUGC------UGCGGUaGC- -5'
10330 3' -53.2 NC_002687.1 + 138764 0.67 0.995439
Target:  5'- cGCGUCGGgucgacagGCUUGggcAUGGaGCCAUCGa -3'
miRNA:   3'- aCGCGGCU--------UGAACa--UGCUgCGGUAGC- -5'
10330 3' -53.2 NC_002687.1 + 205678 0.67 0.995439
Target:  5'- cUGCGaCUGGGCggcgUGUG-GACGUCAUCc -3'
miRNA:   3'- -ACGC-GGCUUGa---ACAUgCUGCGGUAGc -5'
10330 3' -53.2 NC_002687.1 + 169476 0.67 0.99474
Target:  5'- cGCGUCGA----GUGgGAuCGCCGUCGa -3'
miRNA:   3'- aCGCGGCUugaaCAUgCU-GCGGUAGC- -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.