miRNA display CGI


Results 1 - 20 of 43 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
8961 3' -58.4 NC_002512.2 + 193252 0.66 0.891672
Target:  5'- gGCGGuucUACGCCUgCGCGcccugcCUCGGCg- -3'
miRNA:   3'- aCGCUc--AUGCGGA-GCGCa-----GAGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 207872 0.66 0.891672
Target:  5'- aGCGAGUccggggACGgCUUcugGCGcUCUCGGCg- -3'
miRNA:   3'- aCGCUCA------UGCgGAG---CGC-AGAGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 219363 0.66 0.891672
Target:  5'- cGCGAGguccUGCGCCUCuGCuccCUgGGCUg -3'
miRNA:   3'- aCGCUC----AUGCGGAG-CGca-GAgCCGAa -5'
8961 3' -58.4 NC_002512.2 + 193898 0.66 0.885095
Target:  5'- aGCGGGU-CGCCgcggucggcggaUCGCGUCcCGGaCUc -3'
miRNA:   3'- aCGCUCAuGCGG------------AGCGCAGaGCC-GAa -5'
8961 3' -58.4 NC_002512.2 + 136186 0.66 0.885095
Target:  5'- gGCGGGguCGCCgggaUCGCGUCgacgcCGGCg- -3'
miRNA:   3'- aCGCUCauGCGG----AGCGCAGa----GCCGaa -5'
8961 3' -58.4 NC_002512.2 + 196256 0.66 0.878308
Target:  5'- cGCGc--GCGCCUCuCGcCUCGGCg- -3'
miRNA:   3'- aCGCucaUGCGGAGcGCaGAGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 75570 0.66 0.871317
Target:  5'- gGCGGGgcCGCCgccgUCGCGgUCgacguggCGGCUUu -3'
miRNA:   3'- aCGCUCauGCGG----AGCGC-AGa------GCCGAA- -5'
8961 3' -58.4 NC_002512.2 + 158934 0.66 0.871317
Target:  5'- gGCGGGgGCGCCg-GCGgccUCUCGGUc- -3'
miRNA:   3'- aCGCUCaUGCGGagCGC---AGAGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 128260 0.66 0.871317
Target:  5'- -uCGAGcgGCGaCUCGCGUCcCGGCg- -3'
miRNA:   3'- acGCUCa-UGCgGAGCGCAGaGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 17799 0.66 0.871317
Target:  5'- gGCGAGcACGCgCUCGuCGUacaggCGGCg- -3'
miRNA:   3'- aCGCUCaUGCG-GAGC-GCAga---GCCGaa -5'
8961 3' -58.4 NC_002512.2 + 128297 0.66 0.856739
Target:  5'- gUGCGGGUgcACGCC-CGaGUCgCGGCa- -3'
miRNA:   3'- -ACGCUCA--UGCGGaGCgCAGaGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 126508 0.67 0.849163
Target:  5'- cGCGA--GCGCCUCGgCGgCUcCGGCg- -3'
miRNA:   3'- aCGCUcaUGCGGAGC-GCaGA-GCCGaa -5'
8961 3' -58.4 NC_002512.2 + 221476 0.67 0.849163
Target:  5'- cGCG-GUGCGCguucCUgGCG-CUCGGCg- -3'
miRNA:   3'- aCGCuCAUGCG----GAgCGCaGAGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 96065 0.67 0.833466
Target:  5'- gGCG-GUACGaCUCGgcCGUCUCGGUc- -3'
miRNA:   3'- aCGCuCAUGCgGAGC--GCAGAGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 28257 0.67 0.833466
Target:  5'- cGCGAGUacgacgGCGCCUaC-CG-CUCGGCg- -3'
miRNA:   3'- aCGCUCA------UGCGGA-GcGCaGAGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 173616 0.67 0.833466
Target:  5'- aGCGGGaGCGCCUCcgccGCGg--CGGCg- -3'
miRNA:   3'- aCGCUCaUGCGGAG----CGCagaGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 82120 0.67 0.825358
Target:  5'- cGCGAGUcgggacggccGCGCUggCGCacGUCUCGGUc- -3'
miRNA:   3'- aCGCUCA----------UGCGGa-GCG--CAGAGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 193178 0.67 0.825358
Target:  5'- cGCGAugGU-CGCCUucuucuucgacCGCGUCuUCGGCUc -3'
miRNA:   3'- aCGCU--CAuGCGGA-----------GCGCAG-AGCCGAa -5'
8961 3' -58.4 NC_002512.2 + 186004 0.67 0.822893
Target:  5'- gGUGGGUcguccggcaccuggACGCCugcgUCGCG-CUCGGCa- -3'
miRNA:   3'- aCGCUCA--------------UGCGG----AGCGCaGAGCCGaa -5'
8961 3' -58.4 NC_002512.2 + 170210 0.67 0.817086
Target:  5'- aGCGGGUGCuCCUCGCGgugCgcgaagcagCGGUUg -3'
miRNA:   3'- aCGCUCAUGcGGAGCGCa--Ga--------GCCGAa -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.