miRNA display CGI


Results 1 - 20 of 42 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
19285 5' -57.9 NC_004685.1 + 3435 0.66 0.701053
Target:  5'- -gCGGcUGACCCGcugcgauCGUUGCGGcGcgGCa -3'
miRNA:   3'- gaGCC-ACUGGGCuu-----GCAGCGCC-Ca-CG- -5'
19285 5' -57.9 NC_004685.1 + 31224 0.66 0.69075
Target:  5'- -cCGGUGGCaaGGGCGUCGgcuCGGGccuggucgGCa -3'
miRNA:   3'- gaGCCACUGggCUUGCAGC---GCCCa-------CG- -5'
19285 5' -57.9 NC_004685.1 + 40865 0.66 0.69075
Target:  5'- -gCGGUG-CU--GGCGUCGCGGGccGCg -3'
miRNA:   3'- gaGCCACuGGgcUUGCAGCGCCCa-CG- -5'
19285 5' -57.9 NC_004685.1 + 5689 0.66 0.680395
Target:  5'- gCUCGGccggcaacgcUGGCugaCCGAGa--CGCGGGUGCc -3'
miRNA:   3'- -GAGCC----------ACUG---GGCUUgcaGCGCCCACG- -5'
19285 5' -57.9 NC_004685.1 + 8376 0.66 0.680395
Target:  5'- gUCGGUGAUgugggaucgcaCCGAccUGUCGUGGGacgagGCg -3'
miRNA:   3'- gAGCCACUG-----------GGCUu-GCAGCGCCCa----CG- -5'
19285 5' -57.9 NC_004685.1 + 64739 0.66 0.680395
Target:  5'- gUCGGUGACCCGu-CGcCGaacacCGGGaaucgGCu -3'
miRNA:   3'- gAGCCACUGGGCuuGCaGC-----GCCCa----CG- -5'
19285 5' -57.9 NC_004685.1 + 10059 0.66 0.67104
Target:  5'- -gUGGUG-CCCGAGgaggcgguCGccgagauucgccgggCGCGGGUGCa -3'
miRNA:   3'- gaGCCACuGGGCUU--------GCa--------------GCGCCCACG- -5'
19285 5' -57.9 NC_004685.1 + 33508 0.66 0.669999
Target:  5'- -gUGGUGGCCC-AGCG-CGaCGGGUucGCc -3'
miRNA:   3'- gaGCCACUGGGcUUGCaGC-GCCCA--CG- -5'
19285 5' -57.9 NC_004685.1 + 37565 0.66 0.669999
Target:  5'- gUCGGUGcgccACCCGGugugagcugcgGCGaguUCG-GGGUGCc -3'
miRNA:   3'- gAGCCAC----UGGGCU-----------UGC---AGCgCCCACG- -5'
19285 5' -57.9 NC_004685.1 + 59749 0.66 0.663745
Target:  5'- cCUCGGUGAUCCGuuUGUCacggccCGGGaaccacaugaaccgcUGCg -3'
miRNA:   3'- -GAGCCACUGGGCuuGCAGc-----GCCC---------------ACG- -5'
19285 5' -57.9 NC_004685.1 + 68560 0.66 0.659571
Target:  5'- -gCGGgcgcCCCGAuGCGUCG-GGGUGUu -3'
miRNA:   3'- gaGCCacu-GGGCU-UGCAGCgCCCACG- -5'
19285 5' -57.9 NC_004685.1 + 21365 0.67 0.649119
Target:  5'- gUCGGcGAUCUGGcagGCG--GCGGGUGCc -3'
miRNA:   3'- gAGCCaCUGGGCU---UGCagCGCCCACG- -5'
19285 5' -57.9 NC_004685.1 + 33103 0.67 0.638654
Target:  5'- cCUCGGcgucggccagguUGAUCgGAcccGCGUCGCcGGGcGCg -3'
miRNA:   3'- -GAGCC------------ACUGGgCU---UGCAGCG-CCCaCG- -5'
19285 5' -57.9 NC_004685.1 + 25811 0.67 0.638654
Target:  5'- -gCGGUGGgCCGGucaGCGcCGCGGGcucucGCc -3'
miRNA:   3'- gaGCCACUgGGCU---UGCaGCGCCCa----CG- -5'
19285 5' -57.9 NC_004685.1 + 11222 0.67 0.637607
Target:  5'- -aCGGUGGCcgcgaaaucaccaCCGAggacauccugcACGcCGCGGGUGa -3'
miRNA:   3'- gaGCCACUG-------------GGCU-----------UGCaGCGCCCACg -5'
19285 5' -57.9 NC_004685.1 + 3658 0.67 0.635513
Target:  5'- -gCGGUGACCUguaccgccagGAcuaccgcgacgccgACGgcucggCGCGGGUGUa -3'
miRNA:   3'- gaGCCACUGGG----------CU--------------UGCa-----GCGCCCACG- -5'
19285 5' -57.9 NC_004685.1 + 56533 0.67 0.628183
Target:  5'- --aGGUGAgaccUUCGAGCGUC-UGGGUGUa -3'
miRNA:   3'- gagCCACU----GGGCUUGCAGcGCCCACG- -5'
19285 5' -57.9 NC_004685.1 + 43345 0.67 0.621901
Target:  5'- aCUCGGccaucgccucgucgcUGAgcauCCCGAG-GUCG-GGGUGCg -3'
miRNA:   3'- -GAGCC---------------ACU----GGGCUUgCAGCgCCCACG- -5'
19285 5' -57.9 NC_004685.1 + 7373 0.67 0.617715
Target:  5'- aUCGGUGcCCaCGAugGUCcCGacggcaagcGGUGCg -3'
miRNA:   3'- gAGCCACuGG-GCUugCAGcGC---------CCACG- -5'
19285 5' -57.9 NC_004685.1 + 33170 0.67 0.617715
Target:  5'- -cCGGUGGCaccggCCGGugGUgggCGCcGGUGCg -3'
miRNA:   3'- gaGCCACUG-----GGCUugCA---GCGcCCACG- -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.