miRNA display CGI


Results 1 - 20 of 40 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
26817 3' -57.8 NC_005809.1 + 813 0.66 0.488231
Target:  5'- cGCCGCgccCaGCCcuuGCCgaaCGUCGGCCAg -3'
miRNA:   3'- -UGGCGaaaGcUGG---CGGa--GUAGCCGGU- -5'
26817 3' -57.8 NC_005809.1 + 1294 1.08 0.000497
Target:  5'- cACCGCUUUCGACCGCCUCAUCGGCCAu -3'
miRNA:   3'- -UGGCGAAAGCUGGCGGAGUAGCCGGU- -5'
26817 3' -57.8 NC_005809.1 + 1348 0.66 0.477988
Target:  5'- aGCCGUggUCGGCgGCCUugcgCAUcCGGCg- -3'
miRNA:   3'- -UGGCGaaAGCUGgCGGA----GUA-GCCGgu -5'
26817 3' -57.8 NC_005809.1 + 1464 0.67 0.438132
Target:  5'- -gCGCggUCGGCgGCCUCcuggcaGGCCGg -3'
miRNA:   3'- ugGCGaaAGCUGgCGGAGuag---CCGGU- -5'
26817 3' -57.8 NC_005809.1 + 3585 0.7 0.307484
Target:  5'- cACCGauccgCGGCCGCCagUGUUGGCCGu -3'
miRNA:   3'- -UGGCgaaa-GCUGGCGGa-GUAGCCGGU- -5'
26817 3' -57.8 NC_005809.1 + 3764 0.67 0.44792
Target:  5'- cGCCGCUg--GACguaGCCUCGgUCGuGCCGa -3'
miRNA:   3'- -UGGCGAaagCUGg--CGGAGU-AGC-CGGU- -5'
26817 3' -57.8 NC_005809.1 + 4886 0.72 0.220165
Target:  5'- cGCgGCga-CGGCgGCCUCGuuuUCGGCCAc -3'
miRNA:   3'- -UGgCGaaaGCUGgCGGAGU---AGCCGGU- -5'
26817 3' -57.8 NC_005809.1 + 5272 0.66 0.477988
Target:  5'- cACCGUguugaugUUCG-CgGCgUUGUCGGCCAc -3'
miRNA:   3'- -UGGCGa------AAGCuGgCGgAGUAGCCGGU- -5'
26817 3' -57.8 NC_005809.1 + 5587 0.72 0.220165
Target:  5'- gGCCGCcaccgugUCGAuguCCGCCUCGUUGGUa- -3'
miRNA:   3'- -UGGCGaa-----AGCU---GGCGGAGUAGCCGgu -5'
26817 3' -57.8 NC_005809.1 + 8554 0.67 0.409523
Target:  5'- gGCCGCgcUCGACCucauccuggGCgUCGUaGGCCGc -3'
miRNA:   3'- -UGGCGaaAGCUGG---------CGgAGUAgCCGGU- -5'
26817 3' -57.8 NC_005809.1 + 8621 0.66 0.477988
Target:  5'- -gCGCUUcUCGGCCGCUgcgguggcgaggUCGcCGGCCu -3'
miRNA:   3'- ugGCGAA-AGCUGGCGG------------AGUaGCCGGu -5'
26817 3' -57.8 NC_005809.1 + 11151 0.66 0.471893
Target:  5'- uGCUGCUg--GGCCGCCUgcgCAcguugcgugcgcuggUCGGCCGu -3'
miRNA:   3'- -UGGCGAaagCUGGCGGA---GU---------------AGCCGGU- -5'
26817 3' -57.8 NC_005809.1 + 13537 0.68 0.364521
Target:  5'- cGCCGaacugUCGGCCGCCUgAcUCGGUg- -3'
miRNA:   3'- -UGGCgaa--AGCUGGCGGAgU-AGCCGgu -5'
26817 3' -57.8 NC_005809.1 + 14105 0.69 0.33106
Target:  5'- aGuuGCUUcuugagguuaUCG-CCGUaCUCGUCGGCCAg -3'
miRNA:   3'- -UggCGAA----------AGCuGGCG-GAGUAGCCGGU- -5'
26817 3' -57.8 NC_005809.1 + 14659 0.69 0.33106
Target:  5'- cACUGCUgaaaagcggaUCGGCCGCCggCAUCaGCCc -3'
miRNA:   3'- -UGGCGAa---------AGCUGGCGGa-GUAGcCGGu -5'
26817 3' -57.8 NC_005809.1 + 15590 0.67 0.409523
Target:  5'- cGCUGCggaUGcACCGCgC-CAUCGGCCAg -3'
miRNA:   3'- -UGGCGaaaGC-UGGCG-GaGUAGCCGGU- -5'
26817 3' -57.8 NC_005809.1 + 15690 0.67 0.438132
Target:  5'- gGCCGCUaUCGAcgaagaaggcguCCGCCUgggCAUCgaacuggcgcgaGGCCAu -3'
miRNA:   3'- -UGGCGAaAGCU------------GGCGGA---GUAG------------CCGGU- -5'
26817 3' -57.8 NC_005809.1 + 16326 0.66 0.51955
Target:  5'- gGCCGCgcgCGAggccaacgccauCCGCCaUAUCGuGCCGc -3'
miRNA:   3'- -UGGCGaaaGCU------------GGCGGaGUAGC-CGGU- -5'
26817 3' -57.8 NC_005809.1 + 16721 0.69 0.347503
Target:  5'- aACCGag-UCcGCUcCCUCGUCGGCCGg -3'
miRNA:   3'- -UGGCgaaAGcUGGcGGAGUAGCCGGU- -5'
26817 3' -57.8 NC_005809.1 + 19616 0.69 0.33106
Target:  5'- uGCCGUccggggUCaugcgGGCCGCgaCAUCGGCCAg -3'
miRNA:   3'- -UGGCGaa----AG-----CUGGCGgaGUAGCCGGU- -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.