miRNA display CGI


Results 1 - 17 of 17 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
20904 5' -56 NC_004689.1 + 25482 0.66 0.769111
Target:  5'- gGGuCCGGUGAGUucaauCAGCauGGUC-CCa -3'
miRNA:   3'- -CC-GGCCACUCAu----GUCGcuUCAGcGGg -5'
20904 5' -56 NC_004689.1 + 49808 0.66 0.769111
Target:  5'- gGGuCCGcuUGAGauUGCAGCGuauUCGCCCu -3'
miRNA:   3'- -CC-GGCc-ACUC--AUGUCGCuucAGCGGG- -5'
20904 5' -56 NC_004689.1 + 39220 0.66 0.769111
Target:  5'- -aCCGGacuUGAGuUGCAGCGcaacGGUUGCCg -3'
miRNA:   3'- ccGGCC---ACUC-AUGUCGCu---UCAGCGGg -5'
20904 5' -56 NC_004689.1 + 58707 0.66 0.739144
Target:  5'- aGCCGaUGAuGUcaACGGUccAGUCGCCCu -3'
miRNA:   3'- cCGGCcACU-CA--UGUCGcuUCAGCGGG- -5'
20904 5' -56 NC_004689.1 + 45522 0.67 0.716574
Target:  5'- gGGCCGGUgcugccgGAG-AUAGgGAagcaacuugucguGGUCGCCa -3'
miRNA:   3'- -CCGGCCA-------CUCaUGUCgCU-------------UCAGCGGg -5'
20904 5' -56 NC_004689.1 + 43052 0.68 0.666164
Target:  5'- uGCCGGUGA--GCAGUGcAAGU-GCCg -3'
miRNA:   3'- cCGGCCACUcaUGUCGC-UUCAgCGGg -5'
20904 5' -56 NC_004689.1 + 39469 0.68 0.644894
Target:  5'- uGGCCGGUGccugucGGUGCuGCc-AGUCGUgCg -3'
miRNA:   3'- -CCGGCCAC------UCAUGuCGcuUCAGCGgG- -5'
20904 5' -56 NC_004689.1 + 8001 0.68 0.62358
Target:  5'- uGGCCGGUGAGUugaaucgcuucACGGCcuugcGAGUgGCg- -3'
miRNA:   3'- -CCGGCCACUCA-----------UGUCGc----UUCAgCGgg -5'
20904 5' -56 NC_004689.1 + 1880 0.7 0.549633
Target:  5'- gGGCCGuUGG--GCAGCuuGGUCGCCUu -3'
miRNA:   3'- -CCGGCcACUcaUGUCGcuUCAGCGGG- -5'
20904 5' -56 NC_004689.1 + 23344 0.7 0.528945
Target:  5'- aGCCGGUcGGUAcCAGaagucGGUCGCCCc -3'
miRNA:   3'- cCGGCCAcUCAU-GUCgcu--UCAGCGGG- -5'
20904 5' -56 NC_004689.1 + 16807 0.7 0.508552
Target:  5'- cGCUGGUGguGGUGaauucaccguCAGCGAAGUUGgCCu -3'
miRNA:   3'- cCGGCCAC--UCAU----------GUCGCUUCAGCgGG- -5'
20904 5' -56 NC_004689.1 + 22140 0.71 0.497478
Target:  5'- uGCCGGUGAacgauucGUucaggccaGCGGCGAAGUCauuGCCg -3'
miRNA:   3'- cCGGCCACU-------CA--------UGUCGCUUCAG---CGGg -5'
20904 5' -56 NC_004689.1 + 13943 0.71 0.44861
Target:  5'- cGUCGGUGAccggcccgucGUucugagccugcaaGCGGCGucGUCGCCCu -3'
miRNA:   3'- cCGGCCACU----------CA-------------UGUCGCuuCAGCGGG- -5'
20904 5' -56 NC_004689.1 + 54181 0.73 0.385804
Target:  5'- aGGCucCGGcGAGUGCGGCGAaaguuggaucgaGGUCGUCg -3'
miRNA:   3'- -CCG--GCCaCUCAUGUCGCU------------UCAGCGGg -5'
20904 5' -56 NC_004689.1 + 53210 0.73 0.368715
Target:  5'- aGCCGGUucGU-CAGCGGAGgcaGCCCc -3'
miRNA:   3'- cCGGCCAcuCAuGUCGCUUCag-CGGG- -5'
20904 5' -56 NC_004689.1 + 47072 0.76 0.238954
Target:  5'- uGGCCGaaucGAGaACGGCGAAaauGUCGCCCu -3'
miRNA:   3'- -CCGGCca--CUCaUGUCGCUU---CAGCGGG- -5'
20904 5' -56 NC_004689.1 + 28639 0.82 0.105259
Target:  5'- uGGCCGGUGAGUcgAGCGAAGcCGUUCc -3'
miRNA:   3'- -CCGGCCACUCAugUCGCUUCaGCGGG- -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.