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
26413 3' -56.8 NC_005345.2 + 33905 0.66 0.616997
Target:  5'- gGGGGUG-GGAGCU-CugCCaCGUCc -3'
miRNA:   3'- gCCCCGCaCCUUGAaGugGGcGUAGu -5'
26413 3' -56.8 NC_005345.2 + 35348 0.66 0.606042
Target:  5'- cCGGcGCGUGGAugUggaacagcguccUCaaGCCCGCGUUc -3'
miRNA:   3'- -GCCcCGCACCUugA------------AG--UGGGCGUAGu -5'
26413 3' -56.8 NC_005345.2 + 43860 0.66 0.599479
Target:  5'- aCGGGGCGUcggccGGGACUccgcggcggagcgcgUCcCgCUGCAUCGc -3'
miRNA:   3'- -GCCCCGCA-----CCUUGA---------------AGuG-GGCGUAGU- -5'
26413 3' -56.8 NC_005345.2 + 19601 0.66 0.584207
Target:  5'- aCGGGGCGagcGGGAa--CACCUGCcugAUCAc -3'
miRNA:   3'- -GCCCCGCa--CCUUgaaGUGGGCG---UAGU- -5'
26413 3' -56.8 NC_005345.2 + 47154 0.66 0.573344
Target:  5'- gGGGGCGcUGuGAGCgcCGCCuCGCggCAc -3'
miRNA:   3'- gCCCCGC-AC-CUUGaaGUGG-GCGuaGU- -5'
26413 3' -56.8 NC_005345.2 + 18554 0.67 0.56253
Target:  5'- uCGGGGCGcucgccgGGuGCg-CGCCCaGCGUCGg -3'
miRNA:   3'- -GCCCCGCa------CCuUGaaGUGGG-CGUAGU- -5'
26413 3' -56.8 NC_005345.2 + 41032 0.67 0.551771
Target:  5'- gGGGGCGUGagaugaGAGCUgCGgCCGCAc-- -3'
miRNA:   3'- gCCCCGCAC------CUUGAaGUgGGCGUagu -5'
26413 3' -56.8 NC_005345.2 + 34548 0.67 0.550699
Target:  5'- uCGGGGCGcugcugcUGGAAaaggugcCGCCCGCAc-- -3'
miRNA:   3'- -GCCCCGC-------ACCUUgaa----GUGGGCGUagu -5'
26413 3' -56.8 NC_005345.2 + 35156 0.67 0.54001
Target:  5'- uCGGGGCauggcuGUGGAagucggcGCUcaaGCCCGCGUUc -3'
miRNA:   3'- -GCCCCG------CACCU-------UGAag-UGGGCGUAGu -5'
26413 3' -56.8 NC_005345.2 + 11598 0.67 0.519902
Target:  5'- gCGGuGGCGUGGGGCggcCGCUgGCGg-- -3'
miRNA:   3'- -GCC-CCGCACCUUGaa-GUGGgCGUagu -5'
26413 3' -56.8 NC_005345.2 + 558 0.69 0.419884
Target:  5'- --cGGCGUGGGuCcUCGCCCGCcgCGa -3'
miRNA:   3'- gccCCGCACCUuGaAGUGGGCGuaGU- -5'
26413 3' -56.8 NC_005345.2 + 35935 0.69 0.401299
Target:  5'- cCGGGGCGcgGGGugUgcUCGCCgCGCGg-- -3'
miRNA:   3'- -GCCCCGCa-CCUugA--AGUGG-GCGUagu -5'
26413 3' -56.8 NC_005345.2 + 5730 0.7 0.383246
Target:  5'- aGcGGGCGUcGAACUugggCACUCGCGUCc -3'
miRNA:   3'- gC-CCCGCAcCUUGAa---GUGGGCGUAGu -5'
26413 3' -56.8 NC_005345.2 + 18960 0.73 0.252533
Target:  5'- uGGcGGCGaGGAACgagCGCCaCGCGUCGa -3'
miRNA:   3'- gCC-CCGCaCCUUGaa-GUGG-GCGUAGU- -5'
26413 3' -56.8 NC_005345.2 + 34635 0.74 0.199516
Target:  5'- aCGGGGCGUGGcuGCUgcCGCUCgGCGUCGc -3'
miRNA:   3'- -GCCCCGCACCu-UGAa-GUGGG-CGUAGU- -5'
26413 3' -56.8 NC_005345.2 + 38922 1.08 0.000703
Target:  5'- gCGGGGCGUGGAACUUCACCCGCAUCAu -3'
miRNA:   3'- -GCCCCGCACCUUGAAGUGGGCGUAGU- -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.