miRNA display CGI


Results 1 - 16 of 16 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
22954 3' -50.9 NC_005137.2 + 33930 0.66 0.993571
Target:  5'- gGGUUGCCGGCAuUCGCgc-GCa----- -3'
miRNA:   3'- -CCAACGGCUGU-AGCGaaaCGccaagg -5'
22954 3' -50.9 NC_005137.2 + 3486 0.66 0.99258
Target:  5'- ---gGCCGACAUUGUg--GCGGa--- -3'
miRNA:   3'- ccaaCGGCUGUAGCGaaaCGCCaagg -5'
22954 3' -50.9 NC_005137.2 + 52791 0.66 0.99258
Target:  5'- aGGUUGCUgcgGugGUgGCUgaggcgGCGGUUg- -3'
miRNA:   3'- -CCAACGG---CugUAgCGAaa----CGCCAAgg -5'
22954 3' -50.9 NC_005137.2 + 60760 0.66 0.991471
Target:  5'- ---gGCCGACAUUugGCccgUGCGcGUUUCg -3'
miRNA:   3'- ccaaCGGCUGUAG--CGaa-ACGC-CAAGG- -5'
22954 3' -50.9 NC_005137.2 + 20534 0.66 0.991471
Target:  5'- ---cGCCGACugGUUGUggUGCGaGUUUCa -3'
miRNA:   3'- ccaaCGGCUG--UAGCGaaACGC-CAAGG- -5'
22954 3' -50.9 NC_005137.2 + 103898 0.67 0.983836
Target:  5'- aGGUUGCCGAUaaGUCGCU---CG--UCCa -3'
miRNA:   3'- -CCAACGGCUG--UAGCGAaacGCcaAGG- -5'
22954 3' -50.9 NC_005137.2 + 98205 0.67 0.983836
Target:  5'- aGGUUGCCuGGCG-CGUUUUGCaGcUCa -3'
miRNA:   3'- -CCAACGG-CUGUaGCGAAACGcCaAGg -5'
22954 3' -50.9 NC_005137.2 + 18233 0.67 0.981826
Target:  5'- uGUUGCUGugugcGCGUCGUUcguacUGCGGcgCCg -3'
miRNA:   3'- cCAACGGC-----UGUAGCGAa----ACGCCaaGG- -5'
22954 3' -50.9 NC_005137.2 + 2293 0.67 0.977253
Target:  5'- cGGaUGU--GCAUCGUUUUG-GGUUCCu -3'
miRNA:   3'- -CCaACGgcUGUAGCGAAACgCCAAGG- -5'
22954 3' -50.9 NC_005137.2 + 42260 0.69 0.958524
Target:  5'- cGUUGUCGuCGUCGCUUUcGCuGUcuguuUCCg -3'
miRNA:   3'- cCAACGGCuGUAGCGAAA-CGcCA-----AGG- -5'
22954 3' -50.9 NC_005137.2 + 59650 0.69 0.954599
Target:  5'- ---aGCCGGC-UCGUcugGCGGUUCg -3'
miRNA:   3'- ccaaCGGCUGuAGCGaaaCGCCAAGg -5'
22954 3' -50.9 NC_005137.2 + 10882 0.71 0.901535
Target:  5'- aGUgcugGCCGACGcgugCGCgaUGCGGUgcacgCCa -3'
miRNA:   3'- cCAa---CGGCUGUa---GCGaaACGCCAa----GG- -5'
22954 3' -50.9 NC_005137.2 + 27879 0.71 0.894833
Target:  5'- gGGUUGgCGAUcgCGUg--GCGGcgCCa -3'
miRNA:   3'- -CCAACgGCUGuaGCGaaaCGCCaaGG- -5'
22954 3' -50.9 NC_005137.2 + 48938 0.71 0.880695
Target:  5'- --gUGCCGcACA-CGCUgUGCGGcgCCg -3'
miRNA:   3'- ccaACGGC-UGUaGCGAaACGCCaaGG- -5'
22954 3' -50.9 NC_005137.2 + 106664 0.82 0.352424
Target:  5'- gGGUUGCCGAUAUCGUUuaucaucUUGCGGUg-- -3'
miRNA:   3'- -CCAACGGCUGUAGCGA-------AACGCCAagg -5'
22954 3' -50.9 NC_005137.2 + 89159 1.16 0.002891
Target:  5'- cGGUUGCCGACAUCGCUUUGCGGUUCCa -3'
miRNA:   3'- -CCAACGGCUGUAGCGAAACGCCAAGG- -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.