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
12534 3' -57.3 NC_003345.1 + 32198 0.66 0.718057
Target:  5'- aCCAGCUCCUCGucGUUCacgagGCCGGu--- -3'
miRNA:   3'- -GGUCGAGGAGCuaCGAG-----UGGCCcugu -5'
12534 3' -57.3 NC_003345.1 + 46172 0.66 0.707765
Target:  5'- aCCGGCUCgcuCUCGAacgugggGCguucuccUACUGGGACAa -3'
miRNA:   3'- -GGUCGAG---GAGCUa------CGa------GUGGCCCUGU- -5'
12534 3' -57.3 NC_003345.1 + 24040 0.67 0.623788
Target:  5'- aCCAGUUCuaCUCGAuUGUUCACCGGc--- -3'
miRNA:   3'- -GGUCGAG--GAGCU-ACGAGUGGCCcugu -5'
12534 3' -57.3 NC_003345.1 + 60309 0.68 0.602681
Target:  5'- uCCGGUguugcuaCCUCGAUGCUCgcuaugGCCGGuGCu -3'
miRNA:   3'- -GGUCGa------GGAGCUACGAG------UGGCCcUGu -5'
12534 3' -57.3 NC_003345.1 + 4216 0.68 0.602681
Target:  5'- aCAGUccaUCCUCGAUucGgUCuuCCGGGGCGu -3'
miRNA:   3'- gGUCG---AGGAGCUA--CgAGu-GGCCCUGU- -5'
12534 3' -57.3 NC_003345.1 + 63020 0.68 0.596364
Target:  5'- uCCAGCUCCuUCGAUgauucucgcGUUCAggucgucuacccugcUCGGGACu -3'
miRNA:   3'- -GGUCGAGG-AGCUA---------CGAGU---------------GGCCCUGu -5'
12534 3' -57.3 NC_003345.1 + 3282 0.68 0.581667
Target:  5'- uCCGGCUCuCUCGuugGCUCgugAUgGGGAUg -3'
miRNA:   3'- -GGUCGAG-GAGCua-CGAG---UGgCCCUGu -5'
12534 3' -57.3 NC_003345.1 + 53766 0.68 0.571214
Target:  5'- aCCAGCUCaC-CGGaGUUgGCCGGGAg- -3'
miRNA:   3'- -GGUCGAG-GaGCUaCGAgUGGCCCUgu -5'
12534 3' -57.3 NC_003345.1 + 33671 0.68 0.571214
Target:  5'- aCCAGCgggagugCCUCGAaGC-CGCCGacgcaaucacGGACAa -3'
miRNA:   3'- -GGUCGa------GGAGCUaCGaGUGGC----------CCUGU- -5'
12534 3' -57.3 NC_003345.1 + 47425 0.69 0.550453
Target:  5'- aCAGC-CCgacgcUGAUGaaCGCCGGGACGg -3'
miRNA:   3'- gGUCGaGGa----GCUACgaGUGGCCCUGU- -5'
12534 3' -57.3 NC_003345.1 + 21709 0.69 0.540159
Target:  5'- gCGGCUCCa-GcgGCUCGCuCGGuGGCGa -3'
miRNA:   3'- gGUCGAGGagCuaCGAGUG-GCC-CUGU- -5'
12534 3' -57.3 NC_003345.1 + 69143 0.69 0.519772
Target:  5'- cUCAGCUUCUCcca-CUCGCCGGGGuCAg -3'
miRNA:   3'- -GGUCGAGGAGcuacGAGUGGCCCU-GU- -5'
12534 3' -57.3 NC_003345.1 + 21460 0.69 0.499696
Target:  5'- aCAGUUgC-CGAgGCUCACCGGGuCGu -3'
miRNA:   3'- gGUCGAgGaGCUaCGAGUGGCCCuGU- -5'
12534 3' -57.3 NC_003345.1 + 49964 0.72 0.345404
Target:  5'- aCCAGCaaCCUCguaaGAUGCcggaauaUCACCGGGGCu -3'
miRNA:   3'- -GGUCGa-GGAG----CUACG-------AGUGGCCCUGu -5'
12534 3' -57.3 NC_003345.1 + 22222 0.81 0.101493
Target:  5'- uCCAGCUCCUCGAUGaCUUccuCCGGGuCGu -3'
miRNA:   3'- -GGUCGAGGAGCUAC-GAGu--GGCCCuGU- -5'
12534 3' -57.3 NC_003345.1 + 24586 1.1 0.000857
Target:  5'- aCCAGCUCCUCGAUGCUCACCGGGACAc -3'
miRNA:   3'- -GGUCGAGGAGCUACGAGUGGCCCUGU- -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.