miRNA display CGI


Results 1 - 20 of 36 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
14635 3' -57.1 NC_003521.1 + 2199 0.66 0.947309
Target:  5'- --uCGGGGaACGGa-CGGCCggCCCUACg -3'
miRNA:   3'- cuuGUCCC-UGCCaaGCUGGa-GGGGUG- -5'
14635 3' -57.1 NC_003521.1 + 4121 0.66 0.928961
Target:  5'- gGAAUAGGGugggauacgggaGCGGgccggCGGCuCUCCCCu- -3'
miRNA:   3'- -CUUGUCCC------------UGCCaa---GCUG-GAGGGGug -5'
14635 3' -57.1 NC_003521.1 + 8381 0.67 0.918463
Target:  5'- aAACuGGGugGuccagUCGACCUCCgaCACg -3'
miRNA:   3'- cUUGuCCCugCca---AGCUGGAGGg-GUG- -5'
14635 3' -57.1 NC_003521.1 + 10500 0.74 0.566877
Target:  5'- cGGCGGGGAUGGcgUGGCC-CCCCAg -3'
miRNA:   3'- cUUGUCCCUGCCaaGCUGGaGGGGUg -5'
14635 3' -57.1 NC_003521.1 + 12858 0.67 0.907084
Target:  5'- cGAGCAGacgcaGCGGUaCgGGCCUUCCCGCa -3'
miRNA:   3'- -CUUGUCcc---UGCCAaG-CUGGAGGGGUG- -5'
14635 3' -57.1 NC_003521.1 + 18258 0.7 0.76956
Target:  5'- cGAGCGGuGGugGG---GACCUgCCCGCg -3'
miRNA:   3'- -CUUGUC-CCugCCaagCUGGAgGGGUG- -5'
14635 3' -57.1 NC_003521.1 + 29284 0.69 0.829694
Target:  5'- -uACGGGGGCGcucUUCGACUUCCUaCGCu -3'
miRNA:   3'- cuUGUCCCUGCc--AAGCUGGAGGG-GUG- -5'
14635 3' -57.1 NC_003521.1 + 31309 0.7 0.76956
Target:  5'- cAGCGGcGACGGUcaccgUGACC-CCCCACg -3'
miRNA:   3'- cUUGUCcCUGCCAa----GCUGGaGGGGUG- -5'
14635 3' -57.1 NC_003521.1 + 45320 0.67 0.912883
Target:  5'- cGAGCuGGccGACGGcuaCGACCUCUUCGCc -3'
miRNA:   3'- -CUUGuCC--CUGCCaa-GCUGGAGGGGUG- -5'
14635 3' -57.1 NC_003521.1 + 46452 0.67 0.907084
Target:  5'- -uGCGGGGGCuGG-UCGGCCUCgUCGu -3'
miRNA:   3'- cuUGUCCCUG-CCaAGCUGGAGgGGUg -5'
14635 3' -57.1 NC_003521.1 + 83763 0.68 0.860565
Target:  5'- gGGACAGGGugGcggCG-CC-CCCCGCc -3'
miRNA:   3'- -CUUGUCCCugCcaaGCuGGaGGGGUG- -5'
14635 3' -57.1 NC_003521.1 + 85120 0.67 0.912883
Target:  5'- cAGCGGcGGGCGGcaCGuaGCCUCCCUcgGCg -3'
miRNA:   3'- cUUGUC-CCUGCCaaGC--UGGAGGGG--UG- -5'
14635 3' -57.1 NC_003521.1 + 89775 0.69 0.819068
Target:  5'- -cACAGGGACGGcgcuuucaacgCGACCacgcgguUCCCCGa -3'
miRNA:   3'- cuUGUCCCUGCCaa---------GCUGG-------AGGGGUg -5'
14635 3' -57.1 NC_003521.1 + 105372 0.67 0.918463
Target:  5'- cGACgGGGGGCGGacCGACggUUCCCGCg -3'
miRNA:   3'- cUUG-UCCCUGCCaaGCUGg-AGGGGUG- -5'
14635 3' -57.1 NC_003521.1 + 111149 0.66 0.933878
Target:  5'- gGGGCcacGGGACGGUccgcauagcgCGGCCgCCCCGg -3'
miRNA:   3'- -CUUGu--CCCUGCCAa---------GCUGGaGGGGUg -5'
14635 3' -57.1 NC_003521.1 + 112801 0.7 0.778553
Target:  5'- cGGGCAcgcgcucuGGGACGGccgCGACC-CCCCGg -3'
miRNA:   3'- -CUUGU--------CCCUGCCaa-GCUGGaGGGGUg -5'
14635 3' -57.1 NC_003521.1 + 123458 0.67 0.918463
Target:  5'- uAGCGGGGACcgcgGGUuggCGACUggCCCCGa -3'
miRNA:   3'- cUUGUCCCUG----CCAa--GCUGGa-GGGGUg -5'
14635 3' -57.1 NC_003521.1 + 129184 0.69 0.8353
Target:  5'- -uGCGGcGGuuuggguuucgccgGCGGUUCGACCUCgUCGCc -3'
miRNA:   3'- cuUGUC-CC--------------UGCCAAGCUGGAGgGGUG- -5'
14635 3' -57.1 NC_003521.1 + 133229 0.66 0.943051
Target:  5'- --uCAGGGGCGauggcggucgaGgaCGACCUCCuCUACg -3'
miRNA:   3'- cuuGUCCCUGC-----------CaaGCUGGAGG-GGUG- -5'
14635 3' -57.1 NC_003521.1 + 139509 0.69 0.821544
Target:  5'- -cGCAGGaGACGGUgcagguguucaUCGACCUgCgCACc -3'
miRNA:   3'- cuUGUCC-CUGCCA-----------AGCUGGAgGgGUG- -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.