miRNA display CGI


Results 1 - 20 of 41 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
17034 3' -54.6 NC_004333.2 + 46930 0.7 0.487446
Target:  5'- cGCCG--CGAAGCCUCGCg---CGCAGc -3'
miRNA:   3'- -UGGCuaGUUUCGGAGCGagcaGCGUC- -5'
17034 3' -54.6 NC_004333.2 + 3682 0.66 0.685029
Target:  5'- -aCGGUCuGAGCCgUCGCgUCGUagcUGCGGa -3'
miRNA:   3'- ugGCUAGuUUCGG-AGCG-AGCA---GCGUC- -5'
17034 3' -54.6 NC_004333.2 + 41230 0.67 0.651654
Target:  5'- cGCCGGUCGugucGCCgUCGCUgCGcuuccCGCAGa -3'
miRNA:   3'- -UGGCUAGUuu--CGG-AGCGA-GCa----GCGUC- -5'
17034 3' -54.6 NC_004333.2 + 42303 0.67 0.651654
Target:  5'- uGCCGAcCGAGGCguaUCGCgugcUGUUGCAGc -3'
miRNA:   3'- -UGGCUaGUUUCGg--AGCGa---GCAGCGUC- -5'
17034 3' -54.6 NC_004333.2 + 16817 0.67 0.629294
Target:  5'- cGCCGGgugUCGAAGCguucguaUCGCUCGagcagcgcgUCGCGGc -3'
miRNA:   3'- -UGGCU---AGUUUCGg------AGCGAGC---------AGCGUC- -5'
17034 3' -54.6 NC_004333.2 + 38347 0.67 0.613642
Target:  5'- uGCCGAcCGAAGCCgaacugaucgacgCGCU-GUCGCGu -3'
miRNA:   3'- -UGGCUaGUUUCGGa------------GCGAgCAGCGUc -5'
17034 3' -54.6 NC_004333.2 + 2851 0.66 0.707036
Target:  5'- uUCGAUCAGcguugcGGCgUUCGCgaacgaCGUCGCAGc -3'
miRNA:   3'- uGGCUAGUU------UCG-GAGCGa-----GCAGCGUC- -5'
17034 3' -54.6 NC_004333.2 + 20446 0.66 0.685029
Target:  5'- gGCgGcgCGAAGCCUgCGCcggUCGUgaCGCAGc -3'
miRNA:   3'- -UGgCuaGUUUCGGA-GCG---AGCA--GCGUC- -5'
17034 3' -54.6 NC_004333.2 + 43287 0.67 0.640478
Target:  5'- cGCCGAUCccGGCCggcuaugCGCUCGU-GCc- -3'
miRNA:   3'- -UGGCUAGuuUCGGa------GCGAGCAgCGuc -5'
17034 3' -54.6 NC_004333.2 + 3368 0.68 0.606942
Target:  5'- aAUCGAgcggaacaaugUCGAccGGCgUCGCcgUCGUCGCGGg -3'
miRNA:   3'- -UGGCU-----------AGUU--UCGgAGCG--AGCAGCGUC- -5'
17034 3' -54.6 NC_004333.2 + 22397 0.69 0.540714
Target:  5'- uGCCaGGUCGAGGCUUCGCggcgcaugCG-CGCAc -3'
miRNA:   3'- -UGG-CUAGUUUCGGAGCGa-------GCaGCGUc -5'
17034 3' -54.6 NC_004333.2 + 3091 0.66 0.717932
Target:  5'- -gCGAUCuucGCCUCGUUCGacagCGCGc -3'
miRNA:   3'- ugGCUAGuuuCGGAGCGAGCa---GCGUc -5'
17034 3' -54.6 NC_004333.2 + 11871 0.68 0.58468
Target:  5'- uGCCGGUC--GGCCgaaacgggCGCgagcaccuugUCGUCGCGGc -3'
miRNA:   3'- -UGGCUAGuuUCGGa-------GCG----------AGCAGCGUC- -5'
17034 3' -54.6 NC_004333.2 + 18169 0.67 0.662813
Target:  5'- aGCCGAUUgccggcguGCCgggugaugCGCUCGUCGUg- -3'
miRNA:   3'- -UGGCUAGuuu-----CGGa-------GCGAGCAGCGuc -5'
17034 3' -54.6 NC_004333.2 + 38162 0.66 0.72874
Target:  5'- cGCCGAUCuuGGCa-CGC-CGcUCGCAa -3'
miRNA:   3'- -UGGCUAGuuUCGgaGCGaGC-AGCGUc -5'
17034 3' -54.6 NC_004333.2 + 14169 0.66 0.685029
Target:  5'- gACCGGccCGAuGCCgggUCGCUCGUCGgGa -3'
miRNA:   3'- -UGGCUa-GUUuCGG---AGCGAGCAGCgUc -5'
17034 3' -54.6 NC_004333.2 + 46069 0.67 0.618111
Target:  5'- cGCCGAguUCGAGGCgaUGCUCG-CGUAc -3'
miRNA:   3'- -UGGCU--AGUUUCGgaGCGAGCaGCGUc -5'
17034 3' -54.6 NC_004333.2 + 5187 0.67 0.650537
Target:  5'- cAUCGGUCGAGagcGCCgccCGCUCGUCcgccggcgaggguGCGGg -3'
miRNA:   3'- -UGGCUAGUUU---CGGa--GCGAGCAG-------------CGUC- -5'
17034 3' -54.6 NC_004333.2 + 6399 0.67 0.651654
Target:  5'- gACUGcgCAcuuCCUCGCUCGU-GCAGa -3'
miRNA:   3'- -UGGCuaGUuucGGAGCGAGCAgCGUC- -5'
17034 3' -54.6 NC_004333.2 + 15330 0.67 0.651654
Target:  5'- gACCGAcUCGAgcaGGCCgCGCUCauGUUGCAc -3'
miRNA:   3'- -UGGCU-AGUU---UCGGaGCGAG--CAGCGUc -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.