miRNA display CGI


Results 1 - 20 of 24 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
11977 3' -49.4 NC_003278.1 + 1582 0.66 0.921975
Target:  5'- aUCAGCuGCGgauaGACccgcaggccGGCGAGCUggUCGUCGc -3'
miRNA:   3'- -GGUCG-CGUa---CUG---------UUGCUUGA--AGCAGC- -5'
11977 3' -49.4 NC_003278.1 + 28456 0.66 0.921975
Target:  5'- cCCAGCgucgaccuGCAggagGugAAgGAGCUguggaUCGUCGa -3'
miRNA:   3'- -GGUCG--------CGUa---CugUUgCUUGA-----AGCAGC- -5'
11977 3' -49.4 NC_003278.1 + 10462 0.66 0.921341
Target:  5'- gCGGCgucucgaGCAUGACGGCcucgguGGGCUUCGgCGg -3'
miRNA:   3'- gGUCG-------CGUACUGUUG------CUUGAAGCaGC- -5'
11977 3' -49.4 NC_003278.1 + 20064 0.66 0.915494
Target:  5'- gCCGG-GCAUGGCGcCGAggaucuGCUUCG-CGu -3'
miRNA:   3'- -GGUCgCGUACUGUuGCU------UGAAGCaGC- -5'
11977 3' -49.4 NC_003278.1 + 30821 0.66 0.915494
Target:  5'- cCCAGCGC--GACAGCGGccagaGCggCGUg- -3'
miRNA:   3'- -GGUCGCGuaCUGUUGCU-----UGaaGCAgc -5'
11977 3' -49.4 NC_003278.1 + 6572 0.67 0.8942
Target:  5'- gCCAGaGCAUGACggUGGugaccACcUCGUCc -3'
miRNA:   3'- -GGUCgCGUACUGuuGCU-----UGaAGCAGc -5'
11977 3' -49.4 NC_003278.1 + 22926 0.67 0.886497
Target:  5'- gUCAGCaGguUGGCGuCGGAC-UCGUUGg -3'
miRNA:   3'- -GGUCG-CguACUGUuGCUUGaAGCAGC- -5'
11977 3' -49.4 NC_003278.1 + 18401 0.67 0.886497
Target:  5'- aCGGCGCAgucagUGcCAACGGcgucaugcugcGCUUCGcCGg -3'
miRNA:   3'- gGUCGCGU-----ACuGUUGCU-----------UGAAGCaGC- -5'
11977 3' -49.4 NC_003278.1 + 12561 0.67 0.879315
Target:  5'- cCCAGCGCAugagggccauggcggUGGCGgcauagaccugcagGCGggUggugUCGUUGa -3'
miRNA:   3'- -GGUCGCGU---------------ACUGU--------------UGCuuGa---AGCAGC- -5'
11977 3' -49.4 NC_003278.1 + 28560 0.67 0.878502
Target:  5'- gCAGCGCgAUGGCGuCGAAgauacCUUCGaCGa -3'
miRNA:   3'- gGUCGCG-UACUGUuGCUU-----GAAGCaGC- -5'
11977 3' -49.4 NC_003278.1 + 34471 0.67 0.87022
Target:  5'- aCAGUGCuagcggGGCGGCGuACUccaCGUCGg -3'
miRNA:   3'- gGUCGCGua----CUGUUGCuUGAa--GCAGC- -5'
11977 3' -49.4 NC_003278.1 + 12744 0.67 0.865116
Target:  5'- -uGGCgGCAacuggcugaggucgaUGGCGACGAAgUUCGUUGu -3'
miRNA:   3'- ggUCG-CGU---------------ACUGUUGCUUgAAGCAGC- -5'
11977 3' -49.4 NC_003278.1 + 21356 0.68 0.852827
Target:  5'- uCCAGCGCGUcGGCGGCGccg--CGaUCGa -3'
miRNA:   3'- -GGUCGCGUA-CUGUUGCuugaaGC-AGC- -5'
11977 3' -49.4 NC_003278.1 + 21267 0.68 0.852827
Target:  5'- gCCGGCGCGcuuCAGCG-ACUUCGg-- -3'
miRNA:   3'- -GGUCGCGUacuGUUGCuUGAAGCagc -5'
11977 3' -49.4 NC_003278.1 + 22608 0.68 0.843735
Target:  5'- -gGGCuggaGUGACAGCGGACUg-GUCGa -3'
miRNA:   3'- ggUCGcg--UACUGUUGCUUGAagCAGC- -5'
11977 3' -49.4 NC_003278.1 + 26172 0.68 0.834392
Target:  5'- cCCAGCGCGucggagUGGCcaAGCGGACUaUUGcCGg -3'
miRNA:   3'- -GGUCGCGU------ACUG--UUGCUUGA-AGCaGC- -5'
11977 3' -49.4 NC_003278.1 + 28769 0.68 0.833445
Target:  5'- aCCAGCGCuggauguucaucgAUGACGcggcCGAGCg-CGUCGc -3'
miRNA:   3'- -GGUCGCG-------------UACUGUu---GCUUGaaGCAGC- -5'
11977 3' -49.4 NC_003278.1 + 4552 0.69 0.804969
Target:  5'- uUCGGCGCcuAUGGCGACGuGCUggCGUg- -3'
miRNA:   3'- -GGUCGCG--UACUGUUGCuUGAa-GCAgc -5'
11977 3' -49.4 NC_003278.1 + 13016 0.69 0.784312
Target:  5'- aCCAgGCGCuUGACGuuguaguucgcgGCGAGCUg-GUCGa -3'
miRNA:   3'- -GGU-CGCGuACUGU------------UGCUUGAagCAGC- -5'
11977 3' -49.4 NC_003278.1 + 6822 0.7 0.752021
Target:  5'- gCCGGCgGCGaGGUAgagcuucgcGCGGGCUUCGUCGg -3'
miRNA:   3'- -GGUCG-CGUaCUGU---------UGCUUGAAGCAGC- -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.