miRNA display CGI


Results 1 - 20 of 54 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
19238 5' -55.7 NC_004684.1 + 45689 0.67 0.698839
Target:  5'- gGGUaGGCCGAGCcaugaccacgguGUCGCAcaucGGGaAGUcgGCa -3'
miRNA:   3'- aCCA-CCGGCUCG------------CAGCGU----UUC-UCA--CG- -5'
19238 5' -55.7 NC_004684.1 + 46689 0.68 0.601573
Target:  5'- cGGUGGCgGuGCGguggCGCGcccuGUGCg -3'
miRNA:   3'- aCCACCGgCuCGCa---GCGUuucuCACG- -5'
19238 5' -55.7 NC_004684.1 + 7319 0.68 0.601573
Target:  5'- cGGccaUGGCCGAcGCGU-GCucGGuGUGCa -3'
miRNA:   3'- aCC---ACCGGCU-CGCAgCGuuUCuCACG- -5'
19238 5' -55.7 NC_004684.1 + 16514 0.68 0.612402
Target:  5'- aGGU-GCCGuauGCGcCGCAGuccuGGGGUGUg -3'
miRNA:   3'- aCCAcCGGCu--CGCaGCGUU----UCUCACG- -5'
19238 5' -55.7 NC_004684.1 + 35900 0.68 0.612402
Target:  5'- cGGUcgcGGCCaGGUGgacCGCAAAGAGgucGCg -3'
miRNA:   3'- aCCA---CCGGcUCGCa--GCGUUUCUCa--CG- -5'
19238 5' -55.7 NC_004684.1 + 63517 0.68 0.612402
Target:  5'- gGGcGGCCuGGCGUCGCAGcucgcGGGcGUGg -3'
miRNA:   3'- aCCaCCGGcUCGCAGCGUU-----UCU-CACg -5'
19238 5' -55.7 NC_004684.1 + 57007 0.68 0.623248
Target:  5'- cGG-GGaCGAGCG-CGCcaucGGGGUGCg -3'
miRNA:   3'- aCCaCCgGCUCGCaGCGuu--UCUCACG- -5'
19238 5' -55.7 NC_004684.1 + 28076 0.68 0.644953
Target:  5'- gGuGUGGCCGGGcCGcCGCGcgacccgcaccGGGuGGUGCg -3'
miRNA:   3'- aC-CACCGGCUC-GCaGCGU-----------UUC-UCACG- -5'
19238 5' -55.7 NC_004684.1 + 40716 0.67 0.6774
Target:  5'- cGGUGGCCGGGaCGaccagCGCGgcGGGg-- -3'
miRNA:   3'- aCCACCGGCUC-GCa----GCGUuuCUCacg -5'
19238 5' -55.7 NC_004684.1 + 35399 0.69 0.58
Target:  5'- cUGGUGGCCGGaugaGcCGCcGAGGAGcGCg -3'
miRNA:   3'- -ACCACCGGCUcg--CaGCG-UUUCUCaCG- -5'
19238 5' -55.7 NC_004684.1 + 42211 0.69 0.537417
Target:  5'- cUGGUGGCCGAcguggccgccgGUGUCggcaccggcGCGAAGAcGUGg -3'
miRNA:   3'- -ACCACCGGCU-----------CGCAG---------CGUUUCU-CACg -5'
19238 5' -55.7 NC_004684.1 + 57165 0.7 0.526932
Target:  5'- cGGUGGCCGAcGCGcaCGCuc-GGGcGCa -3'
miRNA:   3'- aCCACCGGCU-CGCa-GCGuuuCUCaCG- -5'
19238 5' -55.7 NC_004684.1 + 55573 0.77 0.205433
Target:  5'- cGGUGGCCGGGgGUCcagGCAccAAGgcGGUGCu -3'
miRNA:   3'- aCCACCGGCUCgCAG---CGU--UUC--UCACG- -5'
19238 5' -55.7 NC_004684.1 + 48969 0.75 0.246264
Target:  5'- gGGUGGCCgGGGCGggCGCGucG-GUGCc -3'
miRNA:   3'- aCCACCGG-CUCGCa-GCGUuuCuCACG- -5'
19238 5' -55.7 NC_004684.1 + 40746 0.75 0.259106
Target:  5'- cGGUGGCgGuGGUGUUGaAGGGAGUGCu -3'
miRNA:   3'- aCCACCGgC-UCGCAGCgUUUCUCACG- -5'
19238 5' -55.7 NC_004684.1 + 35640 0.75 0.27249
Target:  5'- gUGGUGGCCGAGUcguuccuggaGUCGaCAAAGGacgGCg -3'
miRNA:   3'- -ACCACCGGCUCG----------CAGC-GUUUCUca-CG- -5'
19238 5' -55.7 NC_004684.1 + 35169 0.73 0.339582
Target:  5'- cGGUGGCCGAGCcggaaccggGUgUGCAGuggaacuGGGUGCc -3'
miRNA:   3'- aCCACCGGCUCG---------CA-GCGUUu------CUCACG- -5'
19238 5' -55.7 NC_004684.1 + 46290 0.73 0.339582
Target:  5'- cGGcGGCCGAGCGcguugcggCGCuuGGcGUGCg -3'
miRNA:   3'- aCCaCCGGCUCGCa-------GCGuuUCuCACG- -5'
19238 5' -55.7 NC_004684.1 + 55803 0.71 0.427227
Target:  5'- gGGUGGUCcgguGAGCGcgUGCGAgcacGGGGUGCc -3'
miRNA:   3'- aCCACCGG----CUCGCa-GCGUU----UCUCACG- -5'
19238 5' -55.7 NC_004684.1 + 16866 0.7 0.485824
Target:  5'- cUGGUGGCC-AGUGUCuGCGccGguguGGUGCa -3'
miRNA:   3'- -ACCACCGGcUCGCAG-CGUuuC----UCACG- -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.