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
11454 3' -54.7 NC_003085.1 + 1532 0.79 0.131861
Target:  5'- gGCGUGAcuccagcgucugcUGUCgcgaGGCCGUGCgCGUCGCCu -3'
miRNA:   3'- -CGUACU-------------ACAG----CCGGUACGgGCAGUGG- -5'
11454 3' -54.7 NC_003085.1 + 40619 0.66 0.743088
Target:  5'- -uGUGcUGaCGGCCGcUGCCguccuCGUCGCCc -3'
miRNA:   3'- cgUACuACaGCCGGU-ACGG-----GCAGUGG- -5'
11454 3' -54.7 NC_003085.1 + 4830 0.66 0.732513
Target:  5'- uGCAguggGGUGUCaGUC-UGCCgUGUUACCu -3'
miRNA:   3'- -CGUa---CUACAGcCGGuACGG-GCAGUGG- -5'
11454 3' -54.7 NC_003085.1 + 47075 0.67 0.660699
Target:  5'- -gGUGuccAUGUCGGCCAcgacgUcaaacucguauucgaGCCCGUCGCg -3'
miRNA:   3'- cgUAC---UACAGCCGGU-----A---------------CGGGCAGUGg -5'
11454 3' -54.7 NC_003085.1 + 13855 0.67 0.656276
Target:  5'- uGCcgGAUGUgCGGCaacccgcGCCCGgcaaGCCg -3'
miRNA:   3'- -CGuaCUACA-GCCGgua----CGGGCag--UGG- -5'
11454 3' -54.7 NC_003085.1 + 24795 0.68 0.611964
Target:  5'- aCAUGGUGcCGcUCA-GCCCGUCGCg -3'
miRNA:   3'- cGUACUACaGCcGGUaCGGGCAGUGg -5'
11454 3' -54.7 NC_003085.1 + 5510 0.68 0.611964
Target:  5'- uGC-UGAcgcGUCGGCaCGUGCUCG-CACUg -3'
miRNA:   3'- -CGuACUa--CAGCCG-GUACGGGCaGUGG- -5'
11454 3' -54.7 NC_003085.1 + 8846 0.68 0.597594
Target:  5'- aGCAgGAggggCGGCCAUGacgugcaucggcauCCaCGUCACCg -3'
miRNA:   3'- -CGUaCUaca-GCCGGUAC--------------GG-GCAGUGG- -5'
11454 3' -54.7 NC_003085.1 + 25265 0.69 0.56793
Target:  5'- gGCGUcGUcGUCGGCgc-GCCCGUCuACCu -3'
miRNA:   3'- -CGUAcUA-CAGCCGguaCGGGCAG-UGG- -5'
11454 3' -54.7 NC_003085.1 + 33685 0.72 0.377109
Target:  5'- cGCAUGccgGUCagacucccuuGGCCcuggaGUGCCCGUCaACCg -3'
miRNA:   3'- -CGUACua-CAG----------CCGG-----UACGGGCAG-UGG- -5'
11454 3' -54.7 NC_003085.1 + 1465 0.72 0.386064
Target:  5'- cGCAUGAcaccccaaGUC-GCC--GCCCGUCACCg -3'
miRNA:   3'- -CGUACUa-------CAGcCGGuaCGGGCAGUGG- -5'
11454 3' -54.7 NC_003085.1 + 10326 0.71 0.432884
Target:  5'- ---cGAUG-CGGCCcccGCCaCGUCGCCu -3'
miRNA:   3'- cguaCUACaGCCGGua-CGG-GCAGUGG- -5'
11454 3' -54.7 NC_003085.1 + 2023 0.71 0.441658
Target:  5'- gGCGUGGcgcgaugUGUUccaCCAagUGCCCGUCACCa -3'
miRNA:   3'- -CGUACU-------ACAGcc-GGU--ACGGGCAGUGG- -5'
11454 3' -54.7 NC_003085.1 + 46374 0.69 0.524735
Target:  5'- ---cGccGUCGGCCugcgGCUCGUCACg -3'
miRNA:   3'- cguaCuaCAGCCGGua--CGGGCAGUGg -5'
11454 3' -54.7 NC_003085.1 + 36020 0.69 0.539726
Target:  5'- gGCG-GAUGgCGGCCAUGggcacgccguaugccCCCGUCuuCCg -3'
miRNA:   3'- -CGUaCUACaGCCGGUAC---------------GGGCAGu-GG- -5'
11454 3' -54.7 NC_003085.1 + 27875 1.14 0.000463
Target:  5'- cGCAUGAUGUCGGCCAUGCCCGUCACCu -3'
miRNA:   3'- -CGUACUACAGCCGGUACGGGCAGUGG- -5'
11454 3' -54.7 NC_003085.1 + 41894 0.66 0.743088
Target:  5'- aCGUGAUGaaccccUCGGCCGcGCaaggucgaCGUCACa -3'
miRNA:   3'- cGUACUAC------AGCCGGUaCGg-------GCAGUGg -5'
11454 3' -54.7 NC_003085.1 + 36064 0.66 0.743088
Target:  5'- ------cGUCcaGGUCAUGUCCGUgGCCg -3'
miRNA:   3'- cguacuaCAG--CCGGUACGGGCAgUGG- -5'
11454 3' -54.7 NC_003085.1 + 19953 0.66 0.721835
Target:  5'- cGCGU--UGUCuGGcCCAUGgCCG-CGCCa -3'
miRNA:   3'- -CGUAcuACAG-CC-GGUACgGGCaGUGG- -5'
11454 3' -54.7 NC_003085.1 + 41957 0.66 0.711067
Target:  5'- -gGUGAUGUCcuGCaaccgcucgacgCGgacGCCCGUCACCu -3'
miRNA:   3'- cgUACUACAGc-CG------------GUa--CGGGCAGUGG- -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.