miRNA display CGI


Results 1 - 20 of 25 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
20537 5' -62.8 NC_004688.1 + 88731 1.09 0.00043
Target:  5'- gGGCCGCCGCUCUACCCGCAGGGAGCAg -3'
miRNA:   3'- -CCGGCGGCGAGAUGGGCGUCCCUCGU- -5'
20537 5' -62.8 NC_004688.1 + 79525 0.73 0.192904
Target:  5'- cGGCCGCCGcCUUUugC-GCGGGGcGCGg -3'
miRNA:   3'- -CCGGCGGC-GAGAugGgCGUCCCuCGU- -5'
20537 5' -62.8 NC_004688.1 + 26071 0.73 0.2075
Target:  5'- cGCCaGCCGCaCcGCCCGCAgcaccGGGGGCAc -3'
miRNA:   3'- cCGG-CGGCGaGaUGGGCGU-----CCCUCGU- -5'
20537 5' -62.8 NC_004688.1 + 25568 0.72 0.239558
Target:  5'- aGGCCGCCGC---AUUCGCGauGGGGGCGu -3'
miRNA:   3'- -CCGGCGGCGagaUGGGCGU--CCCUCGU- -5'
20537 5' -62.8 NC_004688.1 + 17042 0.71 0.25113
Target:  5'- cGCCGCCGUUUggGCCCGacCAGGGcuuGCGu -3'
miRNA:   3'- cCGGCGGCGAGa-UGGGC--GUCCCu--CGU- -5'
20537 5' -62.8 NC_004688.1 + 103664 0.71 0.269346
Target:  5'- cGGCCgGCgGCUCUGCCgaGCucguGGuGAGCGu -3'
miRNA:   3'- -CCGG-CGgCGAGAUGGg-CGu---CC-CUCGU- -5'
20537 5' -62.8 NC_004688.1 + 67720 0.71 0.284673
Target:  5'- aGGCCGCgucguacucgCGCUCgGCCCGCuuguacuccccgaagAGGGuGCGc -3'
miRNA:   3'- -CCGGCG----------GCGAGaUGGGCG---------------UCCCuCGU- -5'
20537 5' -62.8 NC_004688.1 + 96824 0.69 0.337725
Target:  5'- aGGUCGgCGUUCUGCCCGUGGuucggcgcccGGuGCAg -3'
miRNA:   3'- -CCGGCgGCGAGAUGGGCGUC----------CCuCGU- -5'
20537 5' -62.8 NC_004688.1 + 59297 0.69 0.345219
Target:  5'- uGGCCGCCGCcggCUACggCCGgaaAGaGGAGUAc -3'
miRNA:   3'- -CCGGCGGCGa--GAUG--GGCg--UC-CCUCGU- -5'
20537 5' -62.8 NC_004688.1 + 73496 0.69 0.360561
Target:  5'- uGCaCGCCGCgc--CCUGCGGcGGGGCAg -3'
miRNA:   3'- cCG-GCGGCGagauGGGCGUC-CCUCGU- -5'
20537 5' -62.8 NC_004688.1 + 93422 0.69 0.368409
Target:  5'- uGGCuCGCCGUUCUcgaacggcuGgUCGCAGGuaGAGCAc -3'
miRNA:   3'- -CCG-GCGGCGAGA---------UgGGCGUCC--CUCGU- -5'
20537 5' -62.8 NC_004688.1 + 89372 0.68 0.384451
Target:  5'- cGCCcuuGCUGUUCU-CCCaGcCGGGGAGCAu -3'
miRNA:   3'- cCGG---CGGCGAGAuGGG-C-GUCCCUCGU- -5'
20537 5' -62.8 NC_004688.1 + 43736 0.67 0.426527
Target:  5'- gGGCCuGCCuGCguaGCCCGCGGGccagGGGCGc -3'
miRNA:   3'- -CCGG-CGG-CGagaUGGGCGUCC----CUCGU- -5'
20537 5' -62.8 NC_004688.1 + 882 0.67 0.435265
Target:  5'- cGCUGCCGCgCUgacgguugcACgCCGCGuGGAGCAg -3'
miRNA:   3'- cCGGCGGCGaGA---------UG-GGCGUcCCUCGU- -5'
20537 5' -62.8 NC_004688.1 + 98831 0.67 0.444106
Target:  5'- cGGcCCGCgGCgacaaagaggaCUGCCUagucaGCGGGGGGCGg -3'
miRNA:   3'- -CC-GGCGgCGa----------GAUGGG-----CGUCCCUCGU- -5'
20537 5' -62.8 NC_004688.1 + 84218 0.67 0.453047
Target:  5'- cGGCUGCCGCUUcACUgGaAGGGuGUAu -3'
miRNA:   3'- -CCGGCGGCGAGaUGGgCgUCCCuCGU- -5'
20537 5' -62.8 NC_004688.1 + 92953 0.67 0.462086
Target:  5'- cGGCCGCgGCgauUCUGCUucggaGUcGGGGGCGu -3'
miRNA:   3'- -CCGGCGgCG---AGAUGGg----CGuCCCUCGU- -5'
20537 5' -62.8 NC_004688.1 + 685 0.67 0.462086
Target:  5'- gGGCUGCCGUccacaugagCcGCCCGgAGGGcGCGc -3'
miRNA:   3'- -CCGGCGGCGa--------GaUGGGCgUCCCuCGU- -5'
20537 5' -62.8 NC_004688.1 + 53522 0.67 0.48044
Target:  5'- cGGgCGCCGCU--ACCCG-AGGG-GCu -3'
miRNA:   3'- -CCgGCGGCGAgaUGGGCgUCCCuCGu -5'
20537 5' -62.8 NC_004688.1 + 51958 0.66 0.499144
Target:  5'- uGCCGCCGCUgCUGCgguuguagCCG-AGGGGGa- -3'
miRNA:   3'- cCGGCGGCGA-GAUG--------GGCgUCCCUCgu -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.