miRNA display CGI


Results 1 - 20 of 36 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
9610 3' -49.8 NC_002577.1 + 3136 0.68 0.992817
Target:  5'- ---gCGAAGCGUUCuGCGGg--AUCGCg -3'
miRNA:   3'- caagGCUUUGCGAG-CGUCacaUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 3326 0.66 0.997168
Target:  5'- -aUCCGGAgaGCGCgUCGCAc---GUCGCg -3'
miRNA:   3'- caAGGCUU--UGCG-AGCGUcacaUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 3362 0.67 0.994475
Target:  5'- -aUCCGGAACGC-CGCGGgacgaagcCGCc -3'
miRNA:   3'- caAGGCUUUGCGaGCGUCacaua---GCG- -5'
9610 3' -49.8 NC_002577.1 + 4976 0.7 0.972571
Target:  5'- -cUCCGAGGguaGCaCGCGGUG-GUCGCu -3'
miRNA:   3'- caAGGCUUUg--CGaGCGUCACaUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 9357 0.69 0.98371
Target:  5'- --cCCGGGACGCgUCGUuucuugcgaaacggGGUGgAUCGCu -3'
miRNA:   3'- caaGGCUUUGCG-AGCG--------------UCACaUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 10686 0.69 0.986077
Target:  5'- gGUUCCG-GACGC-CGCgAGg--GUCGCg -3'
miRNA:   3'- -CAAGGCuUUGCGaGCG-UCacaUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 10753 0.7 0.963065
Target:  5'- --gCCGAAcgcCGCUCGCGGaacacgGUCGCg -3'
miRNA:   3'- caaGGCUUu--GCGAGCGUCaca---UAGCG- -5'
9610 3' -49.8 NC_002577.1 + 11847 0.66 0.998616
Target:  5'- -gUCCGGAgggGCGCgcggaucaGCGGUcggGUCGCg -3'
miRNA:   3'- caAGGCUU---UGCGag------CGUCAca-UAGCG- -5'
9610 3' -49.8 NC_002577.1 + 13922 0.66 0.998332
Target:  5'- uUUCCGAAcCGUcuucCGCAGg--GUCGCc -3'
miRNA:   3'- cAAGGCUUuGCGa---GCGUCacaUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 23349 0.71 0.959441
Target:  5'- cGUUCCGGucgucagaagcgAGCGCUCuauGCAG-GcGUCGCg -3'
miRNA:   3'- -CAAGGCU------------UUGCGAG---CGUCaCaUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 26429 0.67 0.996655
Target:  5'- --aCCGcAAGCGaCUCGUAGUGUuucuaaaGCg -3'
miRNA:   3'- caaGGC-UUUGC-GAGCGUCACAuag----CG- -5'
9610 3' -49.8 NC_002577.1 + 38090 0.67 0.996655
Target:  5'- cGggCCGAAuCGCgucuaGCuGUGUugGUCGCa -3'
miRNA:   3'- -CaaGGCUUuGCGag---CGuCACA--UAGCG- -5'
9610 3' -49.8 NC_002577.1 + 41016 0.72 0.918085
Target:  5'- -gUCCGcGGAugccauaggagagugUGCcgCGCAGUGUAUCGCg -3'
miRNA:   3'- caAGGC-UUU---------------GCGa-GCGUCACAUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 41258 1.14 0.006365
Target:  5'- cGUUCCGAAACGCUCGCAGUGUAUCGCg -3'
miRNA:   3'- -CAAGGCUUUGCGAGCGUCACAUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 49540 0.68 0.989193
Target:  5'- -aUCCGuAAACGCggUCGCAcUGggaaAUCGCg -3'
miRNA:   3'- caAGGC-UUUGCG--AGCGUcACa---UAGCG- -5'
9610 3' -49.8 NC_002577.1 + 52276 0.67 0.994639
Target:  5'- aUUCCGAuuACGCggCGuCGGUcguugccucugcGUAUCGCu -3'
miRNA:   3'- cAAGGCUu-UGCGa-GC-GUCA------------CAUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 79705 0.66 0.997168
Target:  5'- -aUCCGAAcuaGCGCUUGCcGaa-GUCGCu -3'
miRNA:   3'- caAGGCUU---UGCGAGCGuCacaUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 91823 0.68 0.992817
Target:  5'- --aCCGGAACGagauuUCGCAGUcGgaacAUCGCu -3'
miRNA:   3'- caaGGCUUUGCg----AGCGUCA-Ca---UAGCG- -5'
9610 3' -49.8 NC_002577.1 + 109234 0.66 0.998616
Target:  5'- -aUCCGcacAUGCauaUCGCuGcUGUAUCGCg -3'
miRNA:   3'- caAGGCuu-UGCG---AGCGuC-ACAUAGCG- -5'
9610 3' -49.8 NC_002577.1 + 109648 0.66 0.998
Target:  5'- -gUCCaGAACGCagCGUGGUGU-UCGUg -3'
miRNA:   3'- caAGGcUUUGCGa-GCGUCACAuAGCG- -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.