miRNA display CGI


Results 1 - 20 of 28 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
1390 3' -57.1 NC_001335.1 + 5863 0.66 0.58652
Target:  5'- --aGGAUCUGCgugGCCAgcGGGCCGAGCUg -3'
miRNA:   3'- uggCUUGGAUG---CGGU--CCUGGUUCGGa -5'
1390 3' -57.1 NC_001335.1 + 47015 0.66 0.58543
Target:  5'- cGCCaAGCugCUGCGCCAGG-CCGaagacguGGCCg -3'
miRNA:   3'- -UGGcUUG--GAUGCGGUCCuGGU-------UCGGa -5'
1390 3' -57.1 NC_001335.1 + 39033 0.66 0.564795
Target:  5'- cGCCGGugauGCCguaggugGCCAGGAuCCGGGUCUc -3'
miRNA:   3'- -UGGCU----UGGaug----CGGUCCU-GGUUCGGA- -5'
1390 3' -57.1 NC_001335.1 + 17291 0.66 0.564795
Target:  5'- aACUGAACgaACGCCGGaACCAAcGUCg -3'
miRNA:   3'- -UGGCUUGgaUGCGGUCcUGGUU-CGGa -5'
1390 3' -57.1 NC_001335.1 + 1233 0.66 0.564795
Target:  5'- uCCGAcgccGCCUACGCCgcccgauccgGGGGcuCCAGcGCCUc -3'
miRNA:   3'- uGGCU----UGGAUGCGG----------UCCU--GGUU-CGGA- -5'
1390 3' -57.1 NC_001335.1 + 20540 0.67 0.532631
Target:  5'- gGCCGAgauGCCcucguugAUGCCAGGugCGcucuguccaccAGCCa -3'
miRNA:   3'- -UGGCU---UGGa------UGCGGUCCugGU-----------UCGGa -5'
1390 3' -57.1 NC_001335.1 + 24157 0.67 0.532631
Target:  5'- aGCCccGCCgcCGCCAGGAgCAuuGCCg -3'
miRNA:   3'- -UGGcuUGGauGCGGUCCUgGUu-CGGa -5'
1390 3' -57.1 NC_001335.1 + 46425 0.67 0.511556
Target:  5'- cGCUGGcUCUGCGCCAGGcgcauccucgcACCAagaacgucaAGCCUc -3'
miRNA:   3'- -UGGCUuGGAUGCGGUCC-----------UGGU---------UCGGA- -5'
1390 3' -57.1 NC_001335.1 + 1717 0.68 0.470511
Target:  5'- aACCuuGCCUGCGCCGa-ACCAGGCg- -3'
miRNA:   3'- -UGGcuUGGAUGCGGUccUGGUUCGga -5'
1390 3' -57.1 NC_001335.1 + 45584 0.68 0.470511
Target:  5'- uGCuCGAgACCUACGUCuucgccaccgAGGACgAGGCCa -3'
miRNA:   3'- -UG-GCU-UGGAUGCGG----------UCCUGgUUCGGa -5'
1390 3' -57.1 NC_001335.1 + 41417 0.68 0.470511
Target:  5'- uGCCgGGGCCgGCGCagacCAGGACUAgcuGGCCUc -3'
miRNA:   3'- -UGG-CUUGGaUGCG----GUCCUGGU---UCGGA- -5'
1390 3' -57.1 NC_001335.1 + 36532 0.68 0.460511
Target:  5'- cAUCGGACacacccacCGCCAGGGCauCAAGCCa -3'
miRNA:   3'- -UGGCUUGgau-----GCGGUCCUG--GUUCGGa -5'
1390 3' -57.1 NC_001335.1 + 16337 0.69 0.421686
Target:  5'- uGCCGAGCgcgaCUACGCCAGcGCC-GGCUc -3'
miRNA:   3'- -UGGCUUG----GAUGCGGUCcUGGuUCGGa -5'
1390 3' -57.1 NC_001335.1 + 24725 0.69 0.419797
Target:  5'- uCCGAACCggaggcucguccACGCCAGGAUguAuGCCg -3'
miRNA:   3'- uGGCUUGGa-----------UGCGGUCCUGguU-CGGa -5'
1390 3' -57.1 NC_001335.1 + 49150 0.69 0.403027
Target:  5'- -aCGAGCCaACGCCAauauGGCUGAGCCg -3'
miRNA:   3'- ugGCUUGGaUGCGGUc---CUGGUUCGGa -5'
1390 3' -57.1 NC_001335.1 + 26576 0.69 0.384899
Target:  5'- cACgCGGAUCa--GCCgGGGACCGAGCCg -3'
miRNA:   3'- -UG-GCUUGGaugCGG-UCCUGGUUCGGa -5'
1390 3' -57.1 NC_001335.1 + 2030 0.7 0.358739
Target:  5'- cGCCGugGAUCUGCGCCucGAUgAAGCCg -3'
miRNA:   3'- -UGGC--UUGGAUGCGGucCUGgUUCGGa -5'
1390 3' -57.1 NC_001335.1 + 34567 0.7 0.349464
Target:  5'- gGCCGGuGCCUACGCCaucgAGGACUcacgagaGGGCUg -3'
miRNA:   3'- -UGGCU-UGGAUGCGG----UCCUGG-------UUCGGa -5'
1390 3' -57.1 NC_001335.1 + 49834 0.7 0.349464
Target:  5'- uCCGggUCUgcgcugaaguacaGCGCCAGGuugUCGAGCCUc -3'
miRNA:   3'- uGGCuuGGA-------------UGCGGUCCu--GGUUCGGA- -5'
1390 3' -57.1 NC_001335.1 + 17214 0.71 0.317971
Target:  5'- gGCCGucGCCaGCGCCGGGauguGCgGGGCCa -3'
miRNA:   3'- -UGGCu-UGGaUGCGGUCC----UGgUUCGGa -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.